Jaspar_motif

Last updated: 2025-08-13

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Knit directory: ATAC_learning/

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Unstaged changes:
    Modified:   ATAC_learning.Rproj
    Modified:   analysis/AC_shared_analysis.Rmd
    Modified:   analysis/AF_HF_SNPs.Rmd
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    Modified:   analysis/DOX_DAR_heatmap.Rmd
    Modified:   analysis/Figure_4.Rmd
    Modified:   analysis/H3K27ac_integration.Rmd
    Modified:   analysis/Jaspar_motif.Rmd
    Modified:   analysis/Jaspar_motif_ff.Rmd
    Modified:   analysis/SNP_TAD_peaks.Rmd
    Modified:   analysis/Supp_Fig_12-19.Rmd
    Modified:   analysis/TE_analysis_ALL_DAR.Rmd
    Modified:   analysis/TE_analysis_norm.Rmd
    Modified:   analysis/final_four_analysis.Rmd

Note that any generated files, e.g. HTML, png, CSS, etc., are not included in this status report because it is ok for generated content to have uncommitted changes.

These are the previous versions of the repository in which changes were made to the R Markdown (analysis/Jaspar_motif_DAR_paper.Rmd) and HTML (docs/Jaspar_motif_DAR_paper.html) files. If you’ve configured a remote Git repository (see ?wflow_git_remote), click on the hyperlinks in the table below to view the files as they were in that past version.

File	Version	Author	Date	Message
Rmd	e9cbf29	reneeisnowhere	2025-08-13	wflow_publish("analysis/Jaspar_motif_DAR_paper.Rmd")

library(tidyverse)
library(cowplot)
library(kableExtra)
library(broom)
library(RColorBrewer)
library(ChIPseeker)
library("TxDb.Hsapiens.UCSC.hg38.knownGene")
library("org.Hs.eg.db")
library(rtracklayer)
library(edgeR)
library(ggfortify)
library(limma)
library(readr)
library(BiocGenerics)
library(gridExtra)
library(VennDiagram)
library(scales)
library(Cormotif)
library(BiocParallel)
library(ggpubr)
library(devtools)
library(JASPAR2022)
# library(TFBSTools)
library(MotifDb)
library(BSgenome.Hsapiens.UCSC.hg38)
library(data.table)
library(universalmotif)
library(ggseqlogo)
# library(motifmatchr)
library(gridExtra)

Loading in dataframes

ER_rat=1.25
toptable_results <- readRDS("data/Final_four_data/re_analysis/Toptable_results.RDS")

all_results  <- toptable_results %>%
  imap(~ .x %>% tibble::rownames_to_column(var = "rowname") %>%
         mutate(source = .y)) %>%
  bind_rows()

toplistall_RNA <- readRDS("data/other_papers/toplistall_RNA.RDS") %>% 
  mutate(logFC = logFC*(-1))

peakAnnoList_DOX_DAR <- readRDS("data/Final_four_data/re_analysis/DOX_DAR_annotated_peaks_chipannno.RDS")

Assigned_genes_toPeak <- peakAnnoList_DOX_DAR$DOX_24 %>% as.data.frame() %>% 
  dplyr::select(mcols.genes,annotation, geneId, distanceToTSS) %>% 
  dplyr::rename("Peakid"=mcols.genes)

RNA_results <-
toplistall_RNA %>% 
  dplyr::select(time:logFC) %>% 
  tidyr::unite("sample",time, id) %>% 
  pivot_wider(., id_cols = c(ENTREZID,SYMBOL),names_from = sample, values_from = logFC) %>% 
  rename_with(~ str_replace(., "hours", "RNA"))

RNA_all_expressed <-toplistall_RNA %>% 
  dplyr::select(time:logFC,adj.P.Val) %>% 
  dplyr::filter(id=="DOX") %>% 
  dplyr::filter(time=="24_hours") %>% 
  tidyr::unite("sample",time, id) %>% 
  dplyr::select(ENTREZID, SYMBOL)  


RNA_24_DOX_DEG <-toplistall_RNA %>% 
  dplyr::select(time:logFC,adj.P.Val) %>% 
  dplyr::filter(id=="DOX") %>% 
  dplyr::filter(time=="24_hours"& adj.P.Val<0.05) %>% 
  tidyr::unite("sample",time, id) %>% 
  dplyr::select(ENTREZID, SYMBOL)

RNA_3_DOX_DEG <-toplistall_RNA %>% 
  dplyr::select(time:logFC,adj.P.Val) %>% 
  dplyr::filter(id=="DOX") %>% 
  dplyr::filter(time=="3_hours"& adj.P.Val<0.05) %>% 
  tidyr::unite("sample",time, id) %>% 
  dplyr::select(ENTREZID, SYMBOL)

RNA_24_EPI_DEG <-toplistall_RNA %>% 
  dplyr::select(time:logFC,adj.P.Val) %>% 
  dplyr::filter(id=="EPI") %>% 
  dplyr::filter(time=="24_hours"& adj.P.Val<0.05) %>% 
  tidyr::unite("sample",time, id) %>% 
  dplyr::select(ENTREZID, SYMBOL)

RNA_3_EPI_DEG <-toplistall_RNA %>% 
  dplyr::select(time:logFC,adj.P.Val) %>% 
  dplyr::filter(id=="EPI") %>% 
  dplyr::filter(time=="3_hours"& adj.P.Val<0.05) %>% 
  tidyr::unite("sample",time, id) %>% 
  dplyr::select(ENTREZID, SYMBOL)

RNA_24_DNR_DEG <-toplistall_RNA %>% 
  dplyr::select(time:logFC,adj.P.Val) %>% 
  dplyr::filter(id=="DNR") %>% 
  dplyr::filter(time=="24_hours"& adj.P.Val<0.05) %>% 
  tidyr::unite("sample",time, id) %>% 
  dplyr::select(ENTREZID, SYMBOL)

RNA_3_DNR_DEG <-toplistall_RNA %>% 
  dplyr::select(time:logFC,adj.P.Val) %>% 
  dplyr::filter(id=="DNR") %>% 
  dplyr::filter(time=="3_hours"& adj.P.Val<0.05) %>% 
  tidyr::unite("sample",time, id) %>% 
  dplyr::select(ENTREZID, SYMBOL)

RNA_24_MTX_DEG <-toplistall_RNA %>% 
  dplyr::select(time:logFC,adj.P.Val) %>% 
  dplyr::filter(id=="MTX") %>% 
  dplyr::filter(time=="24_hours"& adj.P.Val<0.05) %>% 
  tidyr::unite("sample",time, id) %>% 
  dplyr::select(ENTREZID, SYMBOL)

RNA_3_MTX_DEG <-toplistall_RNA %>% 
  dplyr::select(time:logFC,adj.P.Val) %>% 
  dplyr::filter(id=="MTX") %>% 
  dplyr::filter(time=="3_hours"& adj.P.Val<0.05) %>% 
  tidyr::unite("sample",time, id) %>% 
  dplyr::select(ENTREZID, SYMBOL)

Peak_gene_RNA_LFC <- Assigned_genes_toPeak %>% 
  left_join(., RNA_results, by =c("geneId"="ENTREZID"))


entrez_ids <- Assigned_genes_toPeak$geneId  


gene_info <- AnnotationDbi::select(
  org.Hs.eg.db,
  keys = entrez_ids,
  columns = c("SYMBOL"),
  keytype = "ENTREZID"
)
gene_info_collapsed <- gene_info %>%
  group_by(ENTREZID) %>%
  summarise(SYMBOL = paste(unique(SYMBOL), collapse = ","), .groups = "drop")

DOX_24_DAR <- all_results %>% 
  dplyr::filter(source =="DOX_24") %>% 
  dplyr::filter(adj.P.Val<0.05) %>% 
  distinct(genes) %>% 
  dplyr::rename("Peakid"=genes)

DOX_3_DAR <- all_results %>% 
  dplyr::filter(source =="DOX_3") %>% 
  dplyr::filter(adj.P.Val<0.05) %>% 
  distinct(genes) %>% 
  dplyr::rename("Peakid"=genes)


DOX_24_DAR_up <-   all_results %>%
  dplyr::filter(source =="DOX_24") %>% 
  dplyr::filter(adj.P.Val<0.05) %>% 
     dplyr::filter(logFC>0) %>% 
  distinct(genes) %>% 
  dplyr::rename("Peakid"=genes)

DOX_3_DAR_up <- all_results %>% 
  dplyr::filter(source =="DOX_3") %>% 
  dplyr::filter(adj.P.Val<0.05) %>%
   dplyr::filter(logFC>0) %>% 
  distinct(genes) %>% 
  dplyr::rename("Peakid"=genes)

DOX_24_DAR_down <- all_results %>% 
  dplyr::filter(source =="DOX_24") %>% 
  dplyr::filter(adj.P.Val<0.05) %>%
   dplyr::filter(logFC<0) %>% 
  distinct(genes) %>% 
  dplyr::rename("Peakid"=genes)

DOX_3_DAR_down <- all_results %>% 
  dplyr::filter(source =="DOX_3") %>% 
  dplyr::filter(adj.P.Val<0.05) %>% 
   dplyr::filter(logFC<0) %>% 
  distinct(genes) %>% 
  dplyr::rename("Peakid"=genes)
### enrichment ratio default number
ER_rat <- 1.25

sample code for how data sets were produced for 20kb DAR-DEGs and DAR-nonDEGs:

DOX_24_DAR_DEG_20kb <-
  annotated_regions %>% 
  dplyr::filter(Peakid %in%DOX_24_DAR$Peakid ) %>% 
  dplyr::filter(distanceToTSS >-20000 & distanceToTSS<20000) %>% 
  separate(Peakid, into = c("seqnames", "start", "end"), sep = "\\.", convert = TRUE, remove=FALSE) %>% 
  dplyr::filter(RNA_expressed=="exp_RNA")

DOX_24_DAR_nonDEG_20kb <-
  annotated_regions %>% 
  dplyr::filter(Peakid %in%DOX_24_DAR$Peakid ) %>% 
  dplyr::filter(distanceToTSS >-20000 & distanceToTSS<20000) %>% 
  separate(Peakid, into = c("seqnames", "start", "end"), sep = "\\.", convert = TRUE, remove=FALSE) %>% 
  dplyr::filter(RNA_expressed=="not_exp_RNA")

EPI_24_DAR_DEG_20kb <-
  annotated_regions %>% 
  dplyr::filter(Peakid %in%EPI_24_DAR$Peakid ) %>% 
  dplyr::filter(distanceToTSS >-20000 & distanceToTSS<20000) %>% 
  separate(Peakid, into = c("seqnames", "start", "end"), sep = "\\.", convert = TRUE, remove=FALSE) %>% 
  dplyr::filter(RNA_expressed=="exp_RNA")

EPI_24_DAR_nonDEG_20kb <-
  annotated_regions %>% 
  dplyr::filter(Peakid %in%EPI_24_DAR$Peakid ) %>% 
  dplyr::filter(distanceToTSS >-20000 & distanceToTSS<20000) %>% 
  separate(Peakid, into = c("seqnames", "start", "end"), sep = "\\.", convert = TRUE, remove=FALSE) %>% 
  dplyr::filter(RNA_expressed=="not_exp_RNA")

DNR_24_DAR_DEG_20kb <-
  annotated_regions %>% 
  dplyr::filter(Peakid %in%DNR_24_DAR$Peakid ) %>% 
  dplyr::filter(distanceToTSS >-20000 & distanceToTSS<20000) %>% 
  separate(Peakid, into = c("seqnames", "start", "end"), sep = "\\.", convert = TRUE, remove=FALSE) %>% 
  dplyr::filter(RNA_expressed=="exp_RNA")

DNR_24_DAR_nonDEG_20kb <-
  annotated_regions %>% 
  dplyr::filter(Peakid %in%DNR_24_DAR$Peakid ) %>% 
  dplyr::filter(distanceToTSS >-20000 & distanceToTSS<20000) %>% 
  separate(Peakid, into = c("seqnames", "start", "end"), sep = "\\.", convert = TRUE, remove=FALSE) %>% 
  dplyr::filter(RNA_expressed=="not_exp_RNA")

MTX_24_DAR_DEG_20kb <-
  annotated_regions %>% 
  dplyr::filter(Peakid %in%MTX_24_DAR$Peakid ) %>% 
  dplyr::filter(distanceToTSS >-20000 & distanceToTSS<20000) %>% 
  separate(Peakid, into = c("seqnames", "start", "end"), sep = "\\.", convert = TRUE, remove=FALSE) %>% 
  dplyr::filter(RNA_expressed=="exp_RNA")

MTX_24_DAR_nonDEG_20kb <-
  annotated_regions %>% 
  dplyr::filter(Peakid %in%MTX_24_DAR$Peakid ) %>% 
  dplyr::filter(distanceToTSS >-20000 & distanceToTSS<20000) %>% 
  separate(Peakid, into = c("seqnames", "start", "end"), sep = "\\.", convert = TRUE, remove=FALSE) %>% 
  dplyr::filter(RNA_expressed=="not_exp_RNA")

df_names_DAR_DEGS <- ls(pattern = ".*_DAR_DEG_.*kb$")

df_names_DAR_nonDEGS <- ls(pattern = ".*_DAR_nonDEG_.*kb$")


df_list_DAR_DEGS <- mget(df_names_DAR_DEGS)

df_list_DAR_nonDEGS <- mget(df_names_DAR_nonDEGS)


# Step 3: Convert each dataframe to GRanges

gr_list_DAR_DEGS <- lapply(df_list_DAR_DEGS, function(df) {
  GRanges(
    seqnames = df$seqnames,
    ranges = IRanges(start = df$start, end = df$end),
    mcols = df %>% select(-seqnames, -start, -end)
  )
})

gr_list_DAR_nonDEGS <- lapply(df_list_DAR_nonDEGS, function(df) {
  GRanges(
    seqnames = df$seqnames,
    ranges = IRanges(start = df$start, end = df$end),
    mcols = df %>% select(-seqnames, -start, -end)
  )
})

# Optional: Name the GRanges list same as original data frames

names(gr_list_DAR_DEGS) <- df_names_DAR_DEGS
names(gr_list_DAR_nonDEGS) <- df_names_DAR_nonDEGS

# Folder with input BED files

output_dir <- "data/Final_four_data/re_analysis/motif_beds_centered"

# Create output folder if needed
dir.create(output_dir, showWarnings = FALSE)

# Loop through each BED file
for (name in names(gr_list_DAR_DEGS)) {
  gr <- gr_list_DAR_DEGS[[name]]
  
  # Recenter each region to 200 bp around its midpoint
  gr_centered <- resize(gr, width = 200, fix = "center")
  
  # Export to BED (auto converts to 0-based)
  export(gr_centered, con = file.path(output_dir, paste0(name, "DAR_DEG_centered.bed")), format = "BED")
}


### not significant DAR regions for xstreme

for (name in names(gr_list_DAR_nonDEGS)) {
  gr <- gr_list_DAR_nonDEGS[[name]]
  
  # Recenter each region to 200 bp around its midpoint
  gr_centered <- resize(gr, width = 200, fix = "center")
  
  # Export to BED (auto converts to 0-based)
  export(gr_centered, con = file.path(output_dir, paste0(name, "DAR_nonDEG_centered.bed")), format = "BED")
}

sample code for producing data from TACC

### replace MTX with whichever treatments you are running.
echo $(date) "Starting process"

ml tacc-apptainer


apptainer exec --bind `pwd`:/home/meme memesuite_latest.sif xstreme --oc MTX_24_20kb_xstreme/ --time 480 --streme-totallength 8000000 --meme-searchsize 100000 --desc description --dna --evt 0.05 --minw 6 --maxw 15 --align center --meme-mod zoops --m motif_databases/JASPAR/JASPAR2022_CORE_vertebrates_non-redundant_v2.meme  --p fa_files/MTX_24_DEG_20kbDAR_DEG_centered.fa -n fa_files/MTX_24_nonDEG_20kbDAR_nonDEG_centered.fa


echo $(date) "MTX 24 20kb done"

DOX

DOX_DAR 24 20kb DAR DEG data

DOX_24_20kb_sea_disc <- read.delim("C:/Users/renee/ATAC_folder/ATAC_meme_data/new_analysis/DOX_24_20kb_xstreme/sea_disc_out/sea.tsv") %>% mutate(source="disc") %>% slice_head(n = length(.$ID)-3)
DOX_24_20kb_sea_known <- read.delim("C:/Users/renee/ATAC_folder/ATAC_meme_data/new_analysis/DOX_24_20kb_xstreme/sea_out/sea.tsv") %>% mutate(source="known") %>% slice_head(n = length(.$ID)-3)
DOX_24_20kb_xstreme <- read.delim("C:/Users/renee/ATAC_folder/ATAC_meme_data/new_analysis/DOX_24_20kb_xstreme/xstreme.tsv") %>% slice_head(n = length(.$ID)-3)
DOX_24_20kb_sea_all <- rbind(DOX_24_20kb_sea_disc, DOX_24_20kb_sea_known) %>% 
  arrange(ID, desc(source == "known")) %>%  
  distinct(ID, .keep_all = TRUE)

DOX_24_20kb_combo <- DOX_24_20kb_xstreme %>% 
  dplyr::select(SEED_MOTIF:EVALUE_ACC,SIM_MOTIF) %>% 
  left_join(., DOX_24_20kb_sea_all, by=c("ID"="ID","ALT_ID"="ALT_ID")) %>% 
  mutate(motif_name=case_when(
    str_detect(SIM_MOTIF, "\\(") ~ str_extract(SIM_MOTIF, "(?<=\\().+?(?=\\))"),
    str_detect(SIM_MOTIF, "^MA\\d+\\.\\d+") ~ ALT_ID,
    str_detect(SIM_MOTIF, "^\\d+-") ~ str_replace(SIM_MOTIF, "^\\d+-", ""),
  TRUE ~ SIM_MOTIF
)) %>% 
  dplyr::select(RANK,CLUSTER,SIM_MOTIF,ALT_ID, ID,CONSENSUS.x,motif_name,EVALUE.y,QVALUE,TP:ENR_RATIO) %>% 
  arrange(.,EVALUE.y) 

DOX_24_20kb_combo %>% 
  dplyr::mutate_if(is.numeric, funs(as.character(signif(., 3)))) %>%
  kable(., caption = "Enriched motifs 200 bp in DOX24 20kb ") %>%
  kable_paper("striped", full_width = TRUE) %>%
  kable_styling(full_width = FALSE, font_size = 16) %>%
  scroll_box(height = "500px")

Enriched motifs 200 bp in DOX24 20kb
RANK	CLUSTER	SIM_MOTIF	ALT_ID	ID	CONSENSUS.x	motif_name	EVALUE.y	QVALUE	TP	TP.	FP	FP.	ENR_RATIO
1	1	MA1134.1 (FOS::JUNB)	STREME-1	1-RATGASTCATY	RATGASTCATY	FOS::JUNB	0	0	6210	17.4	4170	8.15	2.14
2	1	MA1144.1	FOSL2::JUND	MA1144.1	KATGACTCAT	FOSL2::JUND	0	0	5840	16.4	3860	7.55	2.17
3	1	MA0099.3	FOS::JUN	MA0099.3	ATGAGTCAYM	FOS::JUN	0	0	6400	18	4450	8.7	2.07
4	1	MA1138.1	FOSL2::JUNB	MA1138.1	KRTGASTCAT	FOSL2::JUNB	0	0	5770	16.2	3800	7.44	2.18
5	1	MA1134.1	FOS::JUNB	MA1134.1	KATGASTCATHN	FOS::JUNB	0	0	5270	14.8	3300	6.45	2.29
6	1	MA1130.1	FOSL2::JUN	MA1130.1	NNRTGAGTCAYN	FOSL2::JUN	0	0	4970	14	3040	5.95	2.35
7	1	MA0477.2	FOSL1	MA0477.2	NNATGACTCATNN	FOSL1	0	0	4470	12.6	2560	5	2.51
8	1	MA1633.2	BACH1	MA1633.2	ATGACTCAT	BACH1	0	0	5540	15.6	3620	7.08	2.2
9	1	MA0491.2	JUND	MA0491.2	NNATGACTCATNN	JUND	0	0	5050	14.2	3140	6.14	2.31
10	1	MA1141.1	FOS::JUND	MA1141.1	NKATGAGTCATNN	FOS::JUND	0	0	6780	19.1	4960	9.68	1.97
11	1	MA1128.1	FOSL1::JUN	MA1128.1	NKATGACTCATNN	FOSL1::JUN	0	0	5990	16.8	4140	8.1	2.08
12	1	MA0476.1 (FOS)	MEME-1	ATGASTCA	ATGASTCA	FOS	0	0	6870	19.3	5100	9.97	1.94
13	1	MA0476.1	FOS	MA0476.1	DVTGASTCATB	FOS	0	0	6610	18.6	4820	9.42	1.97
14	1	MA1135.1	FOSB::JUNB	MA1135.1	KRTGASTCAT	FOSB::JUNB	5.48906932529625e-321	5.48906932529625e-321	6930	19.5	5210	10.2	1.91
15	1	MA0490.2	JUNB	MA0490.2	NNATGACTCATNN	JUNB	2.22999987709968e-318	6.65012359302318e-320	5500	15.5	3710	7.24	2.14
16	1	MA0489.2	Jun	MA0489.2	NVTGACTCATNN	Jun	5.96999999997705e-313	1.680000000216e-314	6560	18.4	4860	9.5	1.94
17	1	MA1988.1	Atf3	MA1988.1	NRTGACTCABN	Atf3	2.35e-309	6.19000000000023e-311	5230	14.7	3480	6.8	2.16
18	1	MA0655.1	JDP2	MA0655.1	ATGACTCAT	JDP2	2.78e-308	6.92e-310	6060	17	4350	8.49	2
19	1	MA1137.1	FOSL1::JUNB	MA1137.1	NDRTGACTCATNN	FOSL1::JUNB	3.45e-304	8.14999999999999e-306	5700	16	3990	7.79	2.05
20	1	MA0478.1	FOSL2	MA0478.1	KRRTGASTCAB	FOSL2	3.72e-298	8.34e-300	7320	20.6	5800	11.3	1.82
21	1	MA1142.1	FOSL1::JUND	MA1142.1	NRTGACTCAT	FOSL1::JUND	1.49e-293	3.19e-295	5790	16.3	4150	8.1	2.01
22	1	MA0835.2	BATF3	MA0835.2	DATGACTCATH	BATF3	1.8e-292	3.67e-294	5750	16.2	4110	8.03	2.01
23	1	MA1634.1	BATF	MA1634.1	DATGACTCATH	BATF	1.2e-289	2.35e-291	6360	17.9	4790	9.36	1.91
24	1	MA0841.1	NFE2	MA0841.1	VATGACTCATS	NFE2	3.97e-286	7.43e-288	4590	12.9	2950	5.77	2.24
25	1	MA1132.1	JUN::JUNB	MA1132.1	KATGACKCAT	JUN::JUNB	5.85e-285	1.05e-286	4920	13.8	3290	6.43	2.15
26	1	MA0462.2	BATF::JUN	MA0462.2	DATGACTCATH	BATF::JUN	1.5e-283	2.59e-285	6730	18.9	5240	10.2	1.85
27	1	MA1101.2	BACH2	MA1101.2	DWANCATGASTCATSNTWH	BACH2	1.12e-281	1.86e-283	5990	16.8	4440	8.68	1.94
28	1	MA1928.1	BNC2	MA1928.1	NDRTGAGTCABN	BNC2	9.1e-230	1.46e-231	4010	11.3	2670	5.21	2.16
29	1	MA0496.3	MAFK	MA0496.3	NGMTGACTCAGCMNH	MAFK	5.7e-154	8.81e-156	8820	24.8	8870	17.3	1.43
30	1	MA0089.2	MAFG::NFE2L1	MA0089.2	NVNATGACTCAGCADW	MAFG::NFE2L1	4.46e-151	6.67e-153	4670	13.1	3910	7.64	1.72
31	1	MA0501.1	MAF::NFE2	MA0501.1	ATGACTCAGCANWTY	MAF::NFE2	1.59e-112	2.3e-114	13700	38.5	15900	31	1.24
32	2	MA0018.4 (CREB1)	STREME-2	2-ATGACW	ATGACW	CREB1	3.05e-102	4.27e-104	26900	75.7	35300	69	1.1
33	1	MA0659.3	Mafg	MA0659.3	NWGMTGACTCAGCAN	Mafg	5.9e-78	8.02e-80	13800	38.8	16600	32.5	1.19
34	3	MA0718.1	RAX	MA0718.1	RYYAATTARH	RAX	5.22e-73	6.89e-75	29400	82.7	39700	77.6	1.07
35	4	3-RATAAG	STREME-3	3-RATAAG	RATAAG	RATAAG	1.84e-72	2.36e-74	26800	75.4	35700	69.7	1.08
36	5	MA0808.1 (TEAD3)	STREME-4	4-ATWCMA	ATWCMA	TEAD3	4.13e-71	5.15e-73	29600	83.3	40100	78.4	1.06
37	3	MA0720.1	Shox2	MA0720.1	YYAATTAR	Shox2	3.06e-70	3.72e-72	29100	81.7	39200	76.6	1.07
38	1	MA0150.2	Nfe2l2	MA0150.2	CASNATGACTCAGCA	Nfe2l2	6.91e-70	8.16e-72	20700	58.1	26600	52	1.12
39	3	MA0725.1	VSX1	MA0725.1	YTAATTAN	VSX1	4.64e-69	5.33e-71	31100	87.4	42500	83.1	1.05
40	3	MA0027.2	EN1	MA0027.2	SYAATTAV	EN1	9.31e-69	1.04e-70	29800	83.8	40400	79	1.06
41	1	MA1639.1	MEIS1	MA1639.1	NHCATMAATCAHN	MEIS1	1.61e-66	1.76e-68	20100	56.5	25800	50.4	1.12
42	3	MA0674.1	NKX6-1	MA0674.1	NTMATTAA	NKX6-1	5.16e-66	5.52e-68	31500	88.5	43200	84.3	1.05
43	3	MA0710.1	NOTO	MA0710.1	NYTAATTAVN	NOTO	3.38e-65	3.53e-67	27900	78.5	37500	73.4	1.07
44	3	MA0726.1	VSX2	MA0726.1	CTAATTAN	VSX2	1.79e-64	1.82e-66	29500	82.9	40000	78.1	1.06
45	1	MA1113.2	PBX2	MA1113.2	NHCATAAATCAHN	PBX2	2.17e-64	2.16e-66	27800	78.1	37300	72.9	1.07
46	3	MA0704.1	Lhx4	MA0704.1	YTAATTAR	Lhx4	3.74e-64	3.65e-66	26500	74.6	35400	69.2	1.08
47	6	MA0035.4	GATA1	MA0035.4	NHCTAATCTDH	GATA1	4.93e-64	4.71e-66	30000	84.3	40800	79.7	1.06
48	3	MA0716.1	PRRX1	MA0716.1	YYAATTAR	PRRX1	5.33e-63	4.98e-65	26500	74.5	35400	69.2	1.08
49	3	MA0882.1	DLX6	MA0882.1	VYAATTAN	DLX6	1.89e-62	1.71e-64	28000	78.8	37700	73.7	1.07
50	7	MA0676.1	Nr2e1	MA0676.1	AAAAGTCAA	Nr2e1	1.91e-62	1.71e-64	23700	66.6	31200	60.9	1.09
51	3	MA0902.2	HOXB2	MA0902.2	SYAATTAS	HOXB2	2.9e-62	2.55e-64	21800	61.2	28300	55.4	1.1
52	3	MA0717.1	RAX2	MA0717.1	YYAATTAV	RAX2	3.04e-61	2.63e-63	29100	81.9	39500	77.2	1.06
53	3	MA1476.2	Dlx5	MA1476.2	NDGCAATTAGNN	Dlx5	5.82e-61	4.93e-63	30400	85.5	41500	81.1	1.05
54	1	MA1640.1	MEIS2	MA1640.1	NNATGATTTATGDNH	MEIS2	7.84e-61	6.51e-63	26800	75.4	36000	70.3	1.07
55	3	MA0630.1	SHOX	MA0630.1	HTAATTRR	SHOX	9.06e-61	7.39e-63	27200	76.6	36600	71.5	1.07
56	3	MA1963.1	SATB1	MA1963.1	WWDCTAATAAHWW	SATB1	1.79e-60	1.43e-62	24300	68.2	32100	62.7	1.09
57	3	MA0675.1	NKX6-2	MA0675.1	NYMATTAA	NKX6-2	6.14e-60	4.84e-62	29000	81.4	39200	76.7	1.06
58	3	MA0885.2	Dlx2	MA0885.2	NDGCAATTAGNN	Dlx2	5.07e-58	3.92e-60	29800	83.9	40700	79.5	1.06
59	3	MA0721.1	UNCX	MA0721.1	YYAATTAV	UNCX	2.47e-57	1.88e-59	27100	76	36400	71.1	1.07
60	3	MA0723.2	VAX2	MA0723.2	BYAATTAV	VAX2	2.52e-57	1.89e-59	26600	74.9	35700	69.8	1.07
61	3	MA0125.1	Nobox	MA0125.1	TAATTRSY	Nobox	2.77e-57	2.03e-59	29900	84.1	40800	79.7	1.05
62	3	MA0680.2	Pax7	MA0680.2	DWTAATCAATTAWNH	Pax7	4.43e-57	3.21e-59	23600	66.3	31200	60.9	1.09
63	8	MA0845.1	FOXB1	MA0845.1	WATGTAAATAT	FOXB1	6.42e-56	4.57e-58	28200	79.4	38200	74.7	1.06
64	3	MA0876.1	BSX	MA0876.1	SYVATTAV	BSX	2.83e-55	1.98e-57	29400	82.6	40000	78.2	1.06
65	9	MA1480.1	DPRX	MA1480.1	AGATAATCCN	DPRX	3.06e-55	2.11e-57	29200	82.1	39800	77.7	1.06
66	3	MA0628.1	POU6F1	MA0628.1	AYTAATTART	POU6F1	7.53e-55	5.12e-57	27700	77.9	37400	73.2	1.06
67	10	MA0602.1	Arid5a	MA0602.1	SYAATATTGVDANH	Arid5a	8.17e-55	5.47e-57	27900	78.5	37700	73.7	1.06
68	3	MA0886.1	EMX2	MA0886.1	VBTAATTARB	EMX2	8.59e-55	5.67e-57	19900	55.9	25800	50.4	1.11
69	3	MA0648.1	GSC	MA0648.1	VYTAATCCSY	GSC	1.08e-54	7.04e-57	29700	83.4	40500	79.1	1.05
70	3	MA0713.1	PHOX2A	MA0713.1	TAATYYAATTA	PHOX2A	2.23e-54	1.43e-56	23900	67.1	31600	61.8	1.09
71	11	MA0786.1	POU3F1	MA0786.1	WTATGCWAATKW	POU3F1	3.33e-54	2.11e-56	27300	76.7	36800	71.9	1.07
72	3	MA1495.1	HOXA1	MA1495.1	STAATTAS	HOXA1	4.87e-54	3.03e-56	16900	47.4	21500	41.9	1.13
73	11	MA0142.1	Pou5f1::Sox2	MA0142.1	CWTTGTYATGCAAAT	Pou5f1::Sox2	1.31e-53	8.04e-56	27300	76.7	36800	71.9	1.07
74	3	MA0880.1	Dlx3	MA0880.1	NYAATTAN	Dlx3	1.44e-53	8.72e-56	23500	66	31100	60.8	1.09
75	3	MA0890.1	GBX2	MA0890.1	RSYAATTARN	GBX2	2.17e-53	1.3e-55	25300	71	33800	66	1.08
76	12	MA0790.1	POU4F1	MA0790.1	ATGMATAATTAATG	POU4F1	6.01e-53	3.55e-55	24600	69.1	32700	64	1.08
77	12	MA0791.1	POU4F3	MA0791.1	RTGMATWATTAATGAR	POU4F3	6.95e-53	4.05e-55	21600	60.7	28300	55.3	1.1
78	3	MA0635.1	BARHL2	MA0635.1	VHTAAAYGRT	BARHL2	1.46e-52	8.38e-55	30000	84.2	41000	80.1	1.05
79	6	MA1104.2	GATA6	MA1104.2	HWWTCTTATCTNH	GATA6	2.78e-52	1.58e-54	21000	59	27500	53.7	1.1
80	3	MA0700.2	LHX2	MA0700.2	DDCCAATTADN	LHX2	1.26e-51	7.08e-54	26200	73.8	35300	68.9	1.07
81	8	MA0041.2	FOXD3	MA0041.2	WAWGHAAATAAACARY	FOXD3	1.6e-51	8.85e-54	27400	77	37000	72.3	1.06
82	3	MA0708.2	MSX2	MA0708.2	SCAATTAV	MSX2	3.42e-51	1.87e-53	28200	79.3	38300	74.8	1.06
83	3	MA0881.1	Dlx4	MA0881.1	VYAATTAN	Dlx4	4.9e-51	2.65e-53	22600	63.6	29900	58.4	1.09
84	3	MA0658.1	LHX6	MA0658.1	RCTAATTARY	LHX6	7.43e-51	3.97e-53	24400	68.6	32500	63.5	1.08
85	3	MA0899.1	HOXA10	MA0899.1	DGYMATAAAAH	HOXA10	1.76e-50	9.27e-53	29500	82.8	40200	78.6	1.05
86	3	MA0709.1	Msx3	MA0709.1	SCAATTAN	Msx3	1.99e-50	1.04e-52	21900	61.7	28900	56.5	1.09
87	11	MA0792.1	POU5F1B	MA0792.1	TATGCWAAT	POU5F1B	1.09e-49	5.6e-52	28100	78.8	38100	74.4	1.06
88	13	MA0901.2	HOXB13	MA0901.2	WDCCAATAAAAWWW	HOXB13	1.28e-49	6.55e-52	25100	70.4	33500	65.5	1.07
89	3	MA0650.3	Hoxa13	MA0650.3	NNCCAATAAAAN	Hoxa13	2.4e-49	1.21e-51	29000	81.4	39500	77.2	1.06
90	8	MA0032.2	FOXC1	MA0032.2	WAWGTAAAYAW	FOXC1	3.74e-49	1.87e-51	28400	80	38700	75.6	1.06
91	3	MA1502.1	HOXB8	MA1502.1	GYMATTAM	HOXB8	4.72e-49	2.33e-51	19300	54.3	25100	49.1	1.11
92	3	MA0068.2	PAX4	MA0068.2	CTAATTAG	PAX4	6.52e-49	3.18e-51	30800	86.5	42300	82.7	1.05
93	3	MA0891.1	GSC2	MA0891.1	NYTAATCCBH	GSC2	9.44e-49	4.56e-51	25500	71.8	34300	67	1.07
94	3	MA0122.3	Nkx3-2	MA0122.3	WWAAMCACTTAAN	Nkx3-2	1.69e-48	8.04e-51	28700	80.7	39100	76.4	1.06
95	3	MA0910.2	HOXD8	MA0910.2	GYMATTAM	HOXD8	2.07e-48	9.78e-51	19400	54.4	25200	49.2	1.11
96	3	MA0707.2	MNX1	MA0707.2	VYRATTAK	MNX1	4.94e-48	2.31e-50	18900	53.2	24600	48	1.11
97	3	MA1549.1	POU6F1	MA1549.1	RTAATGAGVN	POU6F1	1.22e-47	5.63e-50	19100	53.6	24800	48.4	1.11
98	11	MA0785.1	POU2F1	MA0785.1	AWTATGCWAATK	POU2F1	1.39e-47	6.36e-50	28100	79.1	38200	74.7	1.06
99	3	MA0661.1	MEOX1	MA0661.1	VSTAATTAHC	MEOX1	3.19e-47	1.45e-49	27300	76.8	37000	72.4	1.06
100	11	MA0788.1	POU3F3	MA0788.1	WWTATGCWAATTW	POU3F3	4.65e-47	2.09e-49	25800	72.5	34700	67.8	1.07
101	3	MA0903.1	HOXB3	MA0903.1	NNYMATTARN	HOXB3	6.64e-47	2.95e-49	27500	77.3	37300	72.9	1.06
102	3	MA1498.2	HOXA7	MA1498.2	SYMATTAV	HOXA7	1.39e-46	6.13e-49	26500	74.6	35800	70	1.07
103	6	MA0036.3	GATA2	MA0036.3	NBCTTATCTNH	GATA2	1.58e-46	6.89e-49	16600	46.8	21400	41.7	1.12
104	11	MA0627.2	POU2F3	MA0627.2	NWTATGCAAATNH	POU2F3	2.44e-46	1.05e-48	26200	73.6	35300	69	1.07
105	14	7-ABTGAG	STREME-7	7-ABTGAG	ABTGAG	ABTGAG	5.21e-46	2.23e-48	33600	94.5	47000	91.9	1.03
106	15	MA1623.1 (Stat2)	STREME-6	6-AACAGA	AACAGA	Stat2	5.66e-46	2.39e-48	32500	91.2	45100	88.1	1.04
107	6	MA0712.2	OTX2	MA0712.2	NDRGGATTARNN	OTX2	6.1e-46	2.56e-48	30800	86.6	42500	83	1.04
108	3	MA0654.1	ISX	MA0654.1	YYAATTAR	ISX	1.78e-45	7.38e-48	19700	55.3	25700	50.3	1.1
109	3	MA0662.1	MIXL1	MA0662.1	NBYAATTAVN	MIXL1	2.1e-45	8.65e-48	25100	70.6	33700	65.9	1.07
110	3	MA0681.2	PHOX2B	MA0681.2	WWTAATCAAATTAWWW	PHOX2B	3.8e-45	1.55e-47	20600	58	27100	53	1.09
111	3	MA0887.1	EVX1	MA0887.1	VVTAATTABS	EVX1	4.08e-45	1.65e-47	25900	72.7	34900	68.1	1.07
112	16	MA1978.1	ZNF354A	MA1978.1	HWAADWATAAATGRAYWAWTT	ZNF354A	5.1e-45	2.04e-47	26500	74.6	35900	70.1	1.06
113	17	MA0143.4	SOX2	MA0143.4	DNACAATGGNN	SOX2	6.51e-45	2.57e-47	30200	85	41600	81.2	1.05
114	18	MA0495.3	MAFF	MA0495.3	DWGTCAGCATTTTWHN	MAFF	6.54e-45	2.57e-47	29100	81.8	39800	77.7	1.05
115	9	MA0714.1	PITX3	MA0714.1	NYTAATCCC	PITX3	1.29e-44	5.03e-47	33100	93	46200	90.3	1.03
116	8	MA0846.1	FOXC2	MA0846.1	WAWGTAAACAWW	FOXC2	2.37e-44	9.15e-47	29800	83.8	40900	79.9	1.05
117	19	5-TCACAA	STREME-5	5-TCACAA	TCACAA	TCACAA	2.59e-44	9.93e-47	31400	88.2	43400	84.8	1.04
118	3	MA0706.1	MEOX2	MA0706.1	DSTAATTAWN	MEOX2	5.09e-44	1.94e-46	19000	53.4	24800	48.5	1.1
119	3	MA0158.2	HOXA5	MA0158.2	GYMATTAS	HOXA5	9.12e-44	3.44e-46	13200	37.1	16600	32.4	1.14
120	3	MA1519.1	LHX5	MA1519.1	STAATTAV	LHX5	1.17e-43	4.37e-46	14400	40.5	18300	35.7	1.13
121	20	MA0084.1	SRY	MA0084.1	NWWAACAAT	SRY	2.08e-43	7.7e-46	25600	71.8	34400	67.3	1.07
122	3	MA0793.1	POU6F2	MA0793.1	ASCTMATTAW	POU6F2	2.48e-43	9.1e-46	16600	46.6	21400	41.8	1.12
123	6	MA1970.1	TRPS1	MA1970.1	NHTCTTATCTNH	TRPS1	3.41e-43	1.24e-45	18800	52.8	24500	47.9	1.1
124	21	MA0052.4	MEF2A	MA0052.4	DDCTAAAAATAGMHH	MEF2A	5.04e-43	1.82e-45	22600	63.6	30100	58.8	1.08
125	3	MA1518.2	Lhx1	MA1518.2	NNNTGCTAATTAGCANNN	Lhx1	6.24e-43	2.24e-45	26700	75.2	36200	70.8	1.06
126	3	MA0699.1	LBX2	MA0699.1	NCYAATTARN	LBX2	6.84e-43	2.43e-45	26100	73.3	35200	68.8	1.06
127	3	MA0722.1	VAX1	MA0722.1	YTAATTAH	VAX1	2.34e-42	8.26e-45	19100	53.6	25000	48.8	1.1
128	9	MA0711.1	OTX1	MA0711.1	HTAATCCS	OTX1	2.99e-42	1.05e-44	27700	77.9	37700	73.7	1.06
129	11	MA0789.1	POU3F4	MA0789.1	TATGCWAAT	POU3F4	4.92e-42	1.71e-44	24000	67.4	32100	62.8	1.07
130	6	MA0766.2	GATA5	MA0766.2	SWGATAASRN	GATA5	1.25e-41	4.32e-44	13900	39	17600	34.4	1.13
131	3	MA1481.1	DRGX	MA1481.1	YYAATTAN	DRGX	1.29e-41	4.4e-44	19600	55	25700	50.2	1.1
132	13	MA0465.2	CDX2	MA0465.2	NDGCAATAAAWN	CDX2	1.69e-41	5.74e-44	25700	72.2	34700	67.8	1.07
133	3	MA0904.2	HOXB5	MA0904.2	STAATTAS	HOXB5	1.94e-41	6.55e-44	12200	34.2	15200	29.7	1.15
134	3	MA0888.1	EVX2	MA0888.1	VVTAATTAVB	EVX2	2.18e-41	7.28e-44	30000	84.3	41300	80.6	1.05
135	3	MA0666.2	MSX1	MA0666.2	SCAATTAR	MSX1	4.13e-41	1.37e-43	23000	64.6	30700	59.9	1.08
136	3	MA1471.1	BARX2	MA1471.1	NWWAAYMATTAN	BARX2	4.18e-41	1.38e-43	26300	73.9	35600	69.6	1.06
137	3	MA0875.1	BARX1	MA0875.1	VCMATTAV	BARX1	5.41e-41	1.77e-43	27300	76.8	37200	72.7	1.06
138	3	MA0634.1	ALX3	MA0634.1	YYYAATTANV	ALX3	1.21e-40	3.95e-43	23200	65.3	31100	60.7	1.08
139	3	MA0892.1	GSX1	MA0892.1	NCYMATTAVN	GSX1	1.78e-40	5.75e-43	27300	76.7	37100	72.5	1.06
140	8	MA0148.4	FOXA1	MA0148.4	WWGTAAACATNN	FOXA1	3.71e-40	1.19e-42	30700	86.2	42400	82.8	1.04
141	8	MA1607.1	Foxl2	MA1607.1	DDWATGTAAACANN	Foxl2	4.63e-40	1.47e-42	30900	86.8	42700	83.4	1.04
142	17	MA1152.1	SOX15	MA1152.1	CYWTTGTTHW	SOX15	1.95e-39	6.17e-42	27300	76.8	37200	72.7	1.06
143	6	MA0037.4	Gata3	MA0037.4	NHTCTTATCTNH	Gata3	2.25e-38	7.06e-41	18700	52.5	24500	47.9	1.1
144	3	MA0879.2	DLX1	MA0879.2	VYAATTAN	DLX1	2.71e-38	8.45e-41	22900	64.5	30700	60	1.07
145	3	MA0705.1	Lhx8	MA0705.1	CTAATTAV	Lhx8	3.98e-38	1.23e-40	17400	49	22700	44.4	1.1
146	3	MA1505.1	HOXC8	MA1505.1	KTAATTAM	HOXC8	5.24e-38	1.61e-40	17600	49.5	23000	44.9	1.1
147	3	MA1530.1	NKX6-3	MA1530.1	VYCATTAWW	NKX6-3	9.39e-38	2.87e-40	21100	59.3	28000	54.7	1.08
148	17	MA0077.1	SOX9	MA0077.1	CYATTGTTY	SOX9	2.63e-37	7.97e-40	32600	91.7	45600	89	1.03
149	8	MA1606.1	Foxf1	MA1606.1	DWRTAAACANN	Foxf1	5.79e-37	1.74e-39	28800	80.9	39500	77.2	1.05
150	22	MA0769.2	TCF7	MA0769.2	NNCTTTGAWVT	TCF7	1.35e-36	4.04e-39	29500	83	40600	79.4	1.04
151	3	MA0701.2	LHX9	MA0701.2	CYAATTAR	LHX9	1.52e-36	4.53e-39	13300	37.4	16900	33.1	1.13
152	22	MA0523.1	TCF7L2	MA0523.1	DRASATCAAAGRVA	TCF7L2	6.39e-36	1.89e-38	20600	58	27400	53.6	1.08
153	3	MA0889.1	GBX1	MA0889.1	VCYAATTASY	GBX1	2.34e-35	6.85e-38	19100	53.8	25200	49.3	1.09
154	3	MA0612.2	EMX1	MA0612.2	BTAATTAS	EMX1	2.44e-35	7.1e-38	14400	40.4	18400	36	1.12
155	11	MA1115.1	POU5F1	MA1115.1	WHATGCAAATN	POU5F1	8.59e-35	2.47e-37	29600	83.3	40900	79.9	1.04
156	23	MA0809.2	TEAD4	MA0809.2	NNACATTCCARN	TEAD4	8.59e-35	2.47e-37	32100	90.2	44800	87.4	1.03
157	8	MA1103.2	FOXK2	MA1103.2	DDGTAAACANN	FOXK2	1.08e-34	3.08e-37	31100	87.6	43200	84.5	1.04
158	3	MA0894.1	HESX1	MA0894.1	GHTAATTRRH	HESX1	1.09e-34	3.1e-37	20000	56.2	26500	51.8	1.08
159	8	MA0848.1	FOXO4	MA0848.1	GTAAACA	FOXO4	1.15e-34	3.26e-37	29100	81.9	40100	78.3	1.04
160	24	MA0108.2	TBP	MA0108.2	STATAAAWRSVVVBN	TBP	1.18e-34	3.31e-37	28900	81.3	39800	77.7	1.05
161	3	MA0644.2	ESX1	MA0644.2	YYAATTAN	ESX1	1.36e-34	3.8e-37	16100	45.3	20900	40.9	1.11
162	3	MA0075.3	PRRX2	MA0075.3	CTAATTAN	PRRX2	1.7e-34	4.7e-37	14800	41.6	19100	37.3	1.12
163	17	MA0868.2	SOX8	MA0868.2	MGAACAATRG	SOX8	2.67e-34	7.34e-37	30100	84.6	41600	81.3	1.04
164	9	MA0682.2	PITX1	MA0682.2	YTAATCCH	PITX1	2.76e-34	7.55e-37	18900	53.1	24900	48.7	1.09
165	17	MA1120.1	SOX13	MA1120.1	DVACAATGGNN	SOX13	3.81e-34	1.03e-36	29600	83.3	40900	79.9	1.04
166	8	MA0042.2	FOXI1	MA0042.2	GTAAACA	FOXI1	3.83e-34	1.04e-36	26200	73.6	35600	69.6	1.06
167	3	MA0642.2	EN2	MA0642.2	VSYAATTA	EN2	5.03e-34	1.35e-36	25400	71.3	34400	67.3	1.06
168	17	MA1563.2	SOX18	MA1563.2	AACAATDV	SOX18	6.49e-34	1.73e-36	26700	75.1	36400	71.2	1.05
169	8	MA1683.1	FOXA3	MA1683.1	DWGTAAACANN	FOXA3	6.74e-34	1.79e-36	32000	89.9	44600	87.1	1.03
170	3	MA1497.1	HOXA6	MA1497.1	BGYMATTANN	HOXA6	1.41e-33	3.73e-36	27100	76.1	37000	72.3	1.05
171	8	MA0047.3	FOXA2	MA0047.3	RWGTAAACANN	FOXA2	3.34e-33	8.77e-36	28800	80.8	39600	77.3	1.05
172	3	MA0912.2	HOXD3	MA0912.2	CTAATTAC	HOXD3	3.92e-33	1.02e-35	10400	29.1	12900	25.3	1.15
173	12	MA0046.2	HNF1A	MA0046.2	DRTTAATNATTAACN	HNF1A	1.61e-32	4.17e-35	15600	44	20300	39.7	1.11
174	8	MA0481.3	FOXP1	MA0481.3	NDGTAAACANH	FOXP1	1.63e-32	4.21e-35	28900	81.2	39800	77.7	1.04
175	3	MA0914.1	ISL2	MA0914.1	GCAMTTAR	ISL2	2.14e-32	5.49e-35	29000	81.4	39900	78	1.04
176	12	MA0153.2	HNF1B	MA0153.2	GTTAATNATTAAY	HNF1B	3.14e-32	8.01e-35	14800	41.6	19200	37.5	1.11
177	25	MA0679.2	ONECUT1	MA0679.2	WAAAAATCAATAAWWN	ONECUT1	6.31e-32	1.6e-34	18800	52.8	24900	48.6	1.09
178	8	MA0033.2	FOXL1	MA0033.2	RTAAACA	FOXL1	1.05e-31	2.64e-34	29900	84	41300	80.8	1.04
179	3	MA0893.2	GSX2	MA0893.2	SYMATTAR	GSX2	1.53e-31	3.84e-34	29200	82.1	40300	78.8	1.04
180	3	MA0900.2	HOXA2	MA0900.2	STAATTAS	HOXA2	2.32e-31	5.79e-34	10600	29.9	13400	26.1	1.14
181	3	MA0896.1	Hmx1	MA0896.1	VSVAGCAATTAAWGVDB	Hmx1	3.92e-31	9.71e-34	18900	53.2	25100	49	1.09
182	25	MA0755.1	CUX2	MA0755.1	TRATCGATAW	CUX2	4.15e-31	1.02e-33	22000	62	29600	57.9	1.07
183	1	MA0591.1	Bach1::Mafk	MA0591.1	RSSATGACTCAGCAB	Bach1::Mafk	6.63e-31	1.63e-33	1310	3.69	1170	2.29	1.61
184	18	MA0117.2	Mafb	MA0117.2	AWWNTGCTGACD	Mafb	7.55e-31	1.84e-33	28100	79	38600	75.4	1.05
185	3	MA0124.2	Nkx3-1	MA0124.2	RCCACTTAA	Nkx3-1	1.73e-30	4.2e-33	29800	83.8	41300	80.7	1.04
186	26	MA0018.4	CREB1	MA0018.4	NNRTGATGTCAYN	CREB1	1.95e-30	4.7e-33	26000	73.2	35500	69.4	1.05
187	6	MA0482.2	GATA4	MA0482.2	NNCCTTATCTNH	GATA4	2.63e-30	6.32e-33	13400	37.7	17300	33.8	1.12
188	17	MA0514.2	Sox3	MA0514.2	DNACAATGGNN	Sox3	9.88e-30	2.36e-32	32600	91.8	45700	89.4	1.03
189	27	MA0836.2	CEBPD	MA0836.2	NRTTGCACAAYHN	CEBPD	2.47e-29	5.86e-32	28000	78.7	38500	75.3	1.05
190	28	MA0905.1	HOXC10	MA0905.1	GTCRTAAAAH	HOXC10	4.84e-29	1.14e-31	22300	62.6	30000	58.6	1.07
191	3	MA0898.1	Hmx3	MA0898.1	ASAAGCAATTAAWRRAT	Hmx3	9.72e-29	2.28e-31	18200	51.2	24100	47.2	1.09
192	26	MA1143.1	FOSL1::JUND	MA1143.1	RTGACGTMAY	FOSL1::JUND	2.67e-28	6.23e-31	23600	66.3	32000	62.4	1.06
193	3	MA1463.1	ARGFX	MA1463.1	DCTAATTARM	ARGFX	5.75e-28	1.34e-30	14500	40.7	18800	36.8	1.11
194	29	MA0502.2 (NFYB)	STREME-9	9-CCAATG	CCAATG	NFYB	9.09e-28	2.1e-30	34300	96.3	48500	94.7	1.02
195	3	MA0895.1	HMBOX1	MA0895.1	MYTAGTTAMS	HMBOX1	1.54e-27	3.55e-30	24700	69.5	33700	65.8	1.06
196	30	MA1489.1	FOXN3	MA1489.1	GTAAACAA	FOXN3	1.81e-27	4.15e-30	24200	68	32900	64.3	1.06
197	8	MA0850.1	FOXP3	MA0850.1	RTAAACA	FOXP3	5.82e-27	1.32e-29	29300	82.4	40600	79.3	1.04
198	17	MA1603.1	Dmrt1	MA1603.1	GHTACAAAGTADC	Dmrt1	5.87e-27	1.33e-29	26000	73	35500	69.4	1.05
199	3	MA1500.1	HOXB6	MA1500.1	BTAATKRC	HOXB6	1.16e-26	2.62e-29	22200	62.3	30000	58.6	1.06
200	31	MA1623.1	Stat2	MA1623.1	RGAAACAGAAASH	Stat2	1.94e-26	4.36e-29	31300	87.9	43700	85.3	1.03
201	17	MA0078.2	Sox17	MA0078.2	NNAGAACAATGGNN	Sox17	2.03e-26	4.52e-29	27300	76.7	37500	73.3	1.05
202	32	MA1657.1	ZNF652	MA1657.1	BAAAGRGTTAAN	ZNF652	2.06e-26	4.57e-29	21500	60.5	29000	56.7	1.07
203	22	MA0768.2	Lef1	MA0768.2	NNBCCTTTGATSTN	Lef1	6.1e-26	1.35e-28	30300	85.1	42100	82.3	1.03
204	3	MA1608.1	Isl1	MA1608.1	NNCCATTAGNN	Isl1	6.58e-26	1.45e-28	22700	63.8	30700	60	1.06
205	33	MA1562.1	SOX14	MA1562.1	CCGAACAATG	SOX14	1.6e-25	3.51e-28	27500	77.4	37900	74.1	1.04
206	31	MA0050.3	Irf1	MA0050.3	ANTGAAACTGAAASH	Irf1	2.95e-25	6.42e-28	30500	85.7	42400	82.9	1.03
207	3	MA0853.1	Alx4	MA0853.1	CGCRYTAATTARYHNNY	Alx4	5.29e-25	1.15e-27	15200	42.7	19900	39	1.09
208	8	MA0852.2	FOXK1	MA0852.2	NRDGTAAACAAGNN	FOXK1	1.02e-24	2.21e-27	32300	90.9	45300	88.6	1.03
209	34	MA0611.2	Dux	MA0611.2	NTGATTBAATCAVWNN	Dux	1.09e-24	2.34e-27	11300	31.8	14500	28.4	1.12
210	3	MA0467.2	Crx	MA0467.2	NDGGATTANN	Crx	2e-24	4.27e-27	22200	62.3	30000	58.7	1.06
211	35	MA0774.1	MEIS2	MA0774.1	TTGACAGS	MEIS2	2.98e-24	6.34e-27	33300	93.6	46900	91.6	1.02
212	36	MA1125.1 (ZNF384)	MEME-2	TTTTTTTTTTTTTTT	TTTTTTTTTTTTTTT	ZNF384	3.09e-24	6.54e-27	22900	64.4	31100	60.8	1.06
213	3	MA0724.1	VENTX	MA0724.1	AMCGATTAR	VENTX	3.46e-24	7.29e-27	14500	40.7	19000	37.1	1.1
214	13	MA0913.2	HOXD9	MA0913.2	GYMATAAAAH	HOXD9	3.91e-24	8.2e-27	19100	53.8	25600	50.1	1.07
215	3	MA1504.1	HOXC4	MA1504.1	VTMATTAN	HOXC4	5.32e-24	1.11e-26	21600	60.6	29100	57	1.06
216	37	MA0606.2	Nfat5	MA0606.2	NNATGGAAAAWN	Nfat5	6.69e-24	1.39e-26	29600	83.2	41100	80.4	1.04
217	3	MA0897.1	Hmx2	MA0897.1	ASAAGCAATTAAHVVRT	Hmx2	7.77e-24	1.61e-26	19200	54.1	25800	50.4	1.07
218	3	MA1496.1	HOXA4	MA1496.1	RTMATTAV	HOXA4	2.98e-23	6.13e-26	24300	68.2	33100	64.8	1.05
219	38	MA0151.1	Arid3a	MA0151.1	ATYAAA	Arid3a	3.59e-23	7.35e-26	15600	43.7	20600	40.2	1.09
220	9	MA0883.1	Dmbx1	MA0883.1	WDRWNMGGATTADKNNW	Dmbx1	4.12e-23	8.4e-26	17300	48.5	23000	44.9	1.08
221	3	MA0909.3	Hoxd13	MA0909.3	NNCAATAAAW	Hoxd13	4.21e-23	8.55e-26	17600	49.6	23500	45.9	1.08
222	26	MA1112.2	NR4A1	MA1112.2	NNAAAGGTCANN	NR4A1	6.52e-23	1.32e-25	29100	81.7	40300	78.8	1.04
223	28	MA0911.1	Hoxa11	MA0911.1	RGTCGTAAAANT	Hoxa11	9.02e-23	1.82e-25	24200	68.1	33100	64.7	1.05
224	3	MA1644.1	NFYC	MA1644.1	RDCCAATCASN	NFYC	1.06e-22	2.11e-25	28700	80.7	39800	77.8	1.04
225	39	MA0877.3	BARHL1	MA0877.3	AMCGTTTA	BARHL1	1.27e-22	2.54e-25	29100	81.9	40500	79.1	1.04
226	28	MA0908.1	HOXD11	MA0908.1	RTCGTAAAAH	HOXD11	2.19e-22	4.35e-25	14100	39.8	18600	36.3	1.1
227	3	MA0132.2	PDX1	MA0132.2	VYAATTAR	PDX1	5.78e-22	1.14e-24	14600	41.1	19300	37.6	1.09
228	11	MA0787.1	POU3F2	MA0787.1	WTATGCWAATKA	POU3F2	1.19e-21	2.35e-24	19000	53.3	25500	49.8	1.07
229	23	MA0808.1	TEAD3	MA0808.1	RCATTCCW	TEAD3	1.44e-21	2.82e-24	13600	38.1	17800	34.8	1.1
230	3	MA1501.1	HOXB7	MA1501.1	GGTAATTAVS	HOXB7	2.61e-21	5.09e-24	18500	51.9	24800	48.4	1.07
231	40	MA0063.2	NKX2-5	MA0063.2	NNCACTCAANN	NKX2-5	2.88e-21	5.59e-24	27300	76.6	37700	73.6	1.04
232	26	MA1636.1	CEBPG	MA1636.1	NDATGATGCAATMHH	CEBPG	2.91e-21	5.62e-24	17300	48.7	23100	45.2	1.08
233	41	MA0092.1	Hand1::Tcf3	MA0092.1	BRTCTGGMWT	Hand1::Tcf3	4.52e-21	8.7e-24	32600	91.7	45900	89.7	1.02
234	3	MA1499.1	HOXB4	MA1499.1	RTMATTAR	HOXB4	8.96e-21	1.72e-23	13700	38.5	18000	35.2	1.09
235	42	MA1479.1	DMRTC2	MA1479.1	AATTGMTACATT	DMRTC2	1.94e-20	3.7e-23	26800	75.3	37000	72.3	1.04
236	8	MA0157.3	Foxo3	MA0157.3	NDGTAAACARNN	Foxo3	3.49e-20	6.64e-23	33800	95	47800	93.4	1.02
237	9	MA0719.1	RHOXF1	MA0719.1	NTRATCCN	RHOXF1	4.59e-20	8.7e-23	22600	63.7	30900	60.4	1.05
238	13	MA0878.3	CDX1	MA0878.3	GGYMATAAAA	CDX1	5.95e-20	1.12e-22	13300	37.4	17500	34.2	1.09
239	3	MA1960.1	MGA::EVX1	MA1960.1	RGGTGWTAATKD	MGA::EVX1	8.66e-20	1.63e-22	19300	54.4	26100	51	1.07
240	23	MA0090.3	TEAD1	MA0090.3	NNACATTCCAGSN	TEAD1	1.24e-19	2.32e-22	24400	68.6	33500	65.4	1.05
241	43	MA1624.1	Stat5a	MA1624.1	NTTCCAAGAANH	Stat5a	1.61e-19	3e-22	29700	83.6	41500	81	1.03
242	3	MA0601.1	Arid3b	MA0601.1	ATATTAATWAN	Arid3b	2.57e-19	4.77e-22	14800	41.6	19600	38.3	1.08
243	44	MA0626.1	Npas2	MA0626.1	NSCACGTGTN	Npas2	2.82e-19	5.22e-22	16900	47.6	22700	44.3	1.07
244	18	MA0842.2	NRL	MA0842.2	AAWWNTGCTGACG	NRL	2.84e-19	5.22e-22	9290	26.1	11900	23.3	1.12
245	3	MA0715.1	PROP1	MA0715.1	TAATYWAATTA	PROP1	4.39e-19	8.04e-22	13400	37.6	17600	34.4	1.09
246	21	MA0497.1	MEF2C	MA0497.1	DDDCYAAAAATAGMW	MEF2C	7.19e-19	1.31e-21	13500	38	17800	34.8	1.09
247	35	MA0782.2	PKNOX1	MA0782.2	NNTGAGTGACAGVNN	PKNOX1	1.28e-18	2.32e-21	12500	35.1	16400	32	1.1
248	43	MA1625.1	Stat5b	MA1625.1	NNNTTCCCAGAANNN	Stat5b	5.15e-18	9.31e-21	29800	83.8	41700	81.4	1.03
249	8	MA0480.2	Foxo1	MA0480.2	NDGTAAACANN	Foxo1	6.54e-18	1.18e-20	33800	94.9	47800	93.4	1.02
250	45	MA0483.1	Gfi1B	MA0483.1	AAATCWCWGCH	Gfi1B	7.59e-18	1.36e-20	13100	36.9	17300	33.8	1.09
251	26	MA1131.1	FOSL2::JUN	MA1131.1	GRTGACGTMAT	FOSL2::JUN	9.85e-18	1.76e-20	25200	70.9	34800	67.9	1.04
252	26	MA0025.2	NFIL3	MA0025.2	NRTTATGYAATNN	NFIL3	1.47e-17	2.63e-20	13800	38.8	18300	35.8	1.09
253	46	MA1588.1	ZNF136	MA1588.1	RWATTCTTGGTTGRC	ZNF136	1.76e-17	3.12e-20	16600	46.7	22300	43.5	1.07
254	3	MA0618.1	LBX1	MA0618.1	TTAATTAG	LBX1	2.73e-17	4.83e-20	16900	47.6	22700	44.4	1.07
255	37	MA0152.2	Nfatc2	MA0152.2	NNRNAATGGAAANWNH	Nfatc2	7.32e-17	1.29e-19	33100	92.9	46700	91.2	1.02
256	47	MA1975.1	ZNF214	MA1975.1	VWTCATCAABGTCCT	ZNF214	1.11e-16	1.95e-19	28400	80	39600	77.4	1.03
257	25	MA0754.2	CUX1	MA0754.2	TAATCGATAM	CUX1	1.19e-16	2.08e-19	17900	50.4	24200	47.3	1.07
258	9	MA1547.2	PITX2	MA1547.2	YTAATCCY	PITX2	1.32e-16	2.29e-19	12000	33.8	15800	30.9	1.09
259	8	MA0031.1	FOXD1	MA0031.1	GTAAACAW	FOXD1	1.49e-16	2.58e-19	15900	44.8	21300	41.7	1.07
260	8	MA0851.1	Foxj3	MA0851.1	NDAADGTAAACAAANNM	Foxj3	2.15e-16	3.71e-19	18200	51.2	24600	48.1	1.06
261	48	MA1118.1	SIX1	MA1118.1	GWAACCTGAKM	SIX1	2.27e-16	3.91e-19	29500	83	41300	80.6	1.03
262	31	MA1709.1	ZIM3	MA1709.1	RVMAACAGAAACCYM	ZIM3	6.37e-16	1.09e-18	23800	67	32800	64.1	1.05
263	26	MA1127.1	FOSB::JUN	MA1127.1	GATGACGTCAT	FOSB::JUN	9.29e-16	1.59e-18	27300	76.6	37900	74	1.04
264	17	MA0095.3	Yy1	MA0095.3	NNCAAAATGGCN	Yy1	1.55e-15	2.63e-18	33400	93.8	47200	92.2	1.02
265	49	MA1729.1	ZNF680	MA1729.1	GNCCAAGAAGAATDA	ZNF680	1.61e-15	2.72e-18	22500	63.4	30900	60.5	1.05
266	50	MA1974.1	ZNF211	MA1974.1	HWYATATACCAYRYW	ZNF211	1.62e-15	2.73e-18	15100	42.5	20200	39.6	1.07
267	40	MA1523.1	MSANTD3	MA1523.1	STVCACTCAC	MSANTD3	1.71e-15	2.87e-18	30300	85.1	42400	82.9	1.03
268	43	MA0144.2	STAT3	MA0144.2	YTTCYKGGAAD	STAT3	1.99e-15	3.34e-18	20000	56.1	27200	53.2	1.06
269	26	MA0833.2	ATF4	MA0833.2	DDATGATGCAATMN	ATF4	2.49e-15	4.15e-18	16400	46.2	22100	43.3	1.07
270	51	MA1150.1	RORB	MA1150.1	AWWTRGGTCAH	RORB	3.31e-15	5.5e-18	32400	91	45700	89.2	1.02
271	27	MA0102.4	CEBPA	MA0102.4	NDATTGCACAATHN	CEBPA	3.39e-15	5.61e-18	16800	47.2	22600	44.2	1.07
272	42	MA1707.1	DMRTA1	MA1707.1	AWTTGWTACAWT	DMRTA1	4.1e-15	6.77e-18	25500	71.7	35300	69	1.04
273	40	MA1645.1	NKX2-2	MA1645.1	NNNCCACTCAANNN	NKX2-2	5.53e-15	9.08e-18	25900	72.8	35900	70.1	1.04
274	52	MA1593.1	ZNF317	MA1593.1	WVACAGCAGAYW	ZNF317	7.38e-15	1.21e-17	33600	94.5	47600	93.1	1.02
275	53	MA1124.1	ZNF24	MA1124.1	CATTCATTCATTC	ZNF24	7.94e-15	1.3e-17	8450	23.7	10900	21.3	1.12
276	3	MA0874.1	Arx	MA0874.1	VTBCRYTAATTARTKSW	Arx	1.37e-14	2.23e-17	12200	34.2	16100	31.4	1.09
277	40	MA1994.1	Nkx2-1	MA1994.1	NVCACTTGARHNN	Nkx2-1	1.94e-14	3.14e-17	26000	73.1	36000	70.4	1.04
278	17	MA0442.2	SOX10	MA0442.2	NDAACAAAGVN	SOX10	2.08e-14	3.36e-17	26000	73	36000	70.4	1.04
279	23	MA1121.1	TEAD2	MA1121.1	NYACATTCCWNNS	TEAD2	5.71e-14	9.18e-17	24600	69.2	34000	66.5	1.04
280	35	MA0775.1	MEIS3	MA0775.1	DTGACAGS	MEIS3	6.18e-14	9.9e-17	6820	19.2	8690	17	1.13
281	22	MA1991.1	Hnf1A	MA1991.1	NBCCTTTGATSTBN	Hnf1A	8.18e-14	1.31e-16	17400	49	23600	46.2	1.06
282	54	MA0140.2	GATA1::TAL1	MA0140.2	MTTATCWSNNNNNHVCAG	GATA1::TAL1	1.27e-13	2.01e-16	6640	18.6	8450	16.5	1.13
283	26	MA1632.1	ATF2	MA1632.1	NNATGABGTCATN	ATF2	1.52e-13	2.41e-16	15300	42.9	20500	40.1	1.07
284	13	MA1125.1	ZNF384	MA1125.1	DNWMAAAAAAAA	ZNF384	1.79e-13	2.83e-16	16800	47.2	22700	44.4	1.06
285	26	MA0093.3	USF1	MA0093.3	NDGTCATGTGACHN	USF1	1.85e-13	2.91e-16	21500	60.3	29400	57.5	1.05
286	37	MA0624.2	Nfatc1	MA0624.2	NVATGGAAAAWN	Nfatc1	2.32e-13	3.64e-16	32000	90	45100	88.2	1.02
287	26	MA0498.2	MEIS1	MA0498.2	HTGACAD	MEIS1	5.55e-13	8.68e-16	20800	58.4	28500	55.6	1.05
288	48	MA1119.1	SIX2	MA1119.1	NNCTGAAACCTGATMY	SIX2	9.24e-13	1.44e-15	25000	70.3	34700	67.8	1.04
289	3	MA1577.1	TLX2	MA1577.1	BYAATTAR	TLX2	1.29e-12	2e-15	9040	25.4	11800	23.1	1.1
290	28	MA0906.1	HOXC12	MA0906.1	RGTCGTAAAAH	HOXC12	1.71e-12	2.65e-15	12800	36	17100	33.4	1.08
291	31	MA1508.1	IKZF1	MA1508.1	VVAACAGGAARN	IKZF1	2.23e-12	3.43e-15	35300	99.2	50500	98.7	1.01
292	55	MA0847.3	FOXD2	MA0847.3	SYTAARYAAACA	FOXD2	3.4e-12	5.22e-15	19300	54.4	26400	51.7	1.05
293	3	MA1507.1	HOXD4	MA1507.1	VTMATTAD	HOXD4	3.7e-12	5.66e-15	7900	22.2	10300	20	1.11
294	28	MA0907.1	HOXC13	MA0907.1	BCTCGTAAAAH	HOXC13	4.88e-12	7.45e-15	15600	43.8	21100	41.2	1.06
295	26	MA0829.2	SREBF1	MA0829.2	DNATCACSTGATNH	SREBF1	6.15e-12	9.35e-15	25600	72.1	35600	69.7	1.03
296	31	MA1953.1	FOXO1::ELF1	MA1953.1	RTMAACAGGAAGTN	FOXO1::ELF1	1.78e-11	2.7e-14	26000	73.1	36200	70.8	1.03
297	8	MA0613.1	FOXG1	MA0613.1	RTAAACAW	FOXG1	1.82e-11	2.75e-14	15400	43.4	20900	40.8	1.06
298	3	MA0060.3	NFYA	MA0060.3	RRCCAATCAGM	NFYA	1.94e-11	2.92e-14	13000	36.4	17400	33.9	1.07
299	56	MA0101.1	REL	MA0101.1	BGGRNWTTCC	REL	2.87e-11	4.31e-14	32400	91.1	45800	89.5	1.02
300	30	MA1487.2	FOXE1	MA1487.2	VYTAAAYAAACAAH	FOXE1	3.26e-11	4.88e-14	16800	47.2	22800	44.6	1.06
301	26	MA1139.1	FOSL2::JUNB	MA1139.1	DATGACGTCATH	FOSL2::JUNB	3.8e-11	5.67e-14	19200	54	26300	51.4	1.05
302	45	MA0038.2	GFI1	MA0038.2	BMAATCACDGCA	GFI1	3.88e-11	5.76e-14	7930	22.3	10300	20.2	1.1
303	34	MA0884.2	DUXA	MA0884.2	YTRATTWAATYAR	DUXA	5.97e-11	8.84e-14	5480	15.4	6960	13.6	1.13
304	22	MA0869.2	Sox11	MA0869.2	NRGAACAAAGVV	Sox11	6.61e-11	9.76e-14	33900	95.4	48200	94.3	1.01
305	57	MA1524.2	Msgn1	MA1524.2	VRRRACAAATGGTNNN	Msgn1	8.55e-11	1.26e-13	21800	61.3	30100	58.8	1.04
306	57	MA0461.2	Atoh1	MA0461.2	RMCATATGBY	Atoh1	1.15e-10	1.69e-13	23300	65.4	32200	63	1.04
307	3	MA0702.2	LMX1A	MA0702.2	TTAATTAM	LMX1A	2.54e-10	3.71e-13	9310	26.2	12300	24	1.09
308	26	MA0043.3	HLF	MA0043.3	NNRTTATGCAACHN	HLF	3.39e-10	4.94e-13	10600	29.8	14100	27.5	1.08
309	26	MA0693.3	Vdr	MA0693.3	NNGAGTTCANN	Vdr	3.48e-10	5.05e-13	29300	82.3	41200	80.4	1.02
310	37	MA0625.2	NFATC3	MA0625.2	RYGGAAAMH	NFATC3	3.83e-10	5.54e-13	35300	99.3	50600	98.9	1
311	26	MA1126.1	FOS::JUN	MA1126.1	DRTGACGTCATHNDTN	FOS::JUN	1.04e-09	1.51e-12	28500	80.2	40100	78.3	1.03
312	28	MA1503.1	HOXB9	MA1503.1	GTCGTAAAAH	HOXB9	1.09e-09	1.57e-12	6180	17.4	7980	15.6	1.12
313	58	MA1105.2	GRHL2	MA1105.2	NRAACAGGTTYN	GRHL2	1.45e-09	2.08e-12	23600	66.2	32700	63.9	1.04
314	59	MA0479.1	FOXH1	MA0479.1	BNSAATCCACA	FOXH1	2.12e-09	3.03e-12	6870	19.3	8940	17.5	1.11
315	35	MA1114.1	PBX3	MA1114.1	NNNTGAGTGACAGGBNN	PBX3	2.49e-09	3.55e-12	13500	38.1	18300	35.8	1.06
316	21	MA0773.1	MEF2D	MA0773.1	DCTAWAAATAGM	MEF2D	3.97e-09	5.63e-12	4680	13.2	5940	11.6	1.13
317	26	MA0843.1	TEF	MA0843.1	BRTTACRTAAYM	TEF	5.46e-09	7.72e-12	9860	27.7	13100	25.6	1.08
318	35	MA0797.1	TGIF2	MA0797.1	TGACAGSTGTCA	TGIF2	6.08e-09	8.58e-12	3900	11	4890	9.56	1.15
319	42	MA1478.1	DMRTA2	MA1478.1	AATTGHTACAWT	DMRTA2	6.1e-09	8.58e-12	25200	70.7	35100	68.6	1.03
320	51	MA1151.1	RORC	MA1151.1	NWAWNTRGGTCA	RORC	6.89e-09	9.67e-12	34600	97.2	49300	96.3	1.01
321	40	MA0672.1	NKX2-3	MA0672.1	VCCACTTRAV	NKX2-3	8.28e-09	1.16e-11	22400	63	31100	60.7	1.04
322	43	MA0519.1	Stat5a::Stat5b	MA0519.1	DTTTCCMAGAA	Stat5a::Stat5b	8.83e-09	1.23e-11	18000	50.5	24700	48.2	1.05
323	26	MA0488.1	JUN	MA0488.1	DDRATGATGTCAT	JUN	1.17e-08	1.63e-11	5350	15	6870	13.4	1.12
324	35	MA1572.1	TGIF2LY	MA1572.1	TGACAGCTGTCA	TGIF2LY	1.42e-08	1.96e-11	21100	59.3	29200	57.1	1.04
325	44	MA0620.3	MITF	MA0620.3	NNNDRTCACGTGAYHNNN	MITF	2.18e-08	3.01e-11	22100	62	30600	59.8	1.04
326	43	MA0518.1	Stat4	MA0518.1	YTTCYRGGAARNVR	Stat4	2.54e-08	3.49e-11	18400	51.7	25300	49.4	1.05
327	3	MA0621.1	mix-a	MA0621.1	NDTTAATTAGN	mix-a	2.98e-08	4.08e-11	7100	20	9310	18.2	1.1
328	21	MA0660.1	MEF2B	MA0660.1	RCTAWAAATAGC	MEF2B	4.11e-08	5.62e-11	4730	13.3	6050	11.8	1.13
329	51	MA1111.1	NR2F2	MA1111.1	NAAAGGTCANR	NR2F2	6.53e-08	8.9e-11	24300	68.3	33900	66.2	1.03
330	60	MA0595.1	SREBF1	MA0595.1	VTCACCCCAY	SREBF1	1.03e-07	1.4e-10	7590	21.3	10000	19.6	1.09
331	26	MA1136.1	FOSB::JUNB	MA1136.1	RTGACGTCAT	FOSB::JUNB	1.11e-07	1.51e-10	28200	79.1	39600	77.3	1.02
332	26	MA0631.1	Six3	MA0631.1	DATRGGGTATCAYNWNT	Six3	3.49e-07	4.71e-10	14300	40.1	19500	38.1	1.05
333	61	MA1116.1	RBPJ	MA1116.1	BVTGGGAANN	RBPJ	3.91e-07	5.26e-10	30500	85.8	43100	84.3	1.02
334	30	MA0040.1	Foxq1	MA0040.1	HATTGTTTATW	Foxq1	5.43e-07	7.29e-10	10900	30.6	14700	28.7	1.07
335	8	MA0849.1	FOXO6	MA0849.1	GTAAACA	FOXO6	8.96e-07	1.2e-09	20100	56.4	27800	54.4	1.04
336	11	MA1962.1	POU2F1::SOX2	MA1962.1	MATTTRCATMACAATRG	POU2F1::SOX2	9.1e-07	1.22e-09	7300	20.5	9650	18.9	1.09
337	62	MA0525.2	TP63	MA0525.2	RACATGTYGKGACATGTC	TP63	9.89e-07	1.32e-09	285	0.8	243	0.47	1.69
338	3	MA0854.1	Alx1	MA0854.1	CGMRYTAATTARTNMNY	Alx1	1.05e-06	1.39e-09	8210	23.1	10900	21.4	1.08
339	34	MA1720.1	ZNF85	MA1720.1	DHDGAGATTACWKCAK	ZNF85	1.32e-06	1.75e-09	17500	49.2	24100	47.1	1.04
340	28	MA0873.1	HOXD12	MA0873.1	RGTCGTAAAAH	HOXD12	1.41e-06	1.86e-09	9680	27.2	13000	25.4	1.07
341	60	MA0596.1	SREBF2	MA0596.1	RTGGGGTGAY	SREBF2	1.45e-06	1.9e-09	2060	5.8	2500	4.89	1.19
342	18	MA1520.1	MAF	MA1520.1	NTGCTGASTCAGCAH	MAF	1.54e-06	2.02e-09	1620	4.55	1920	3.74	1.22
343	63	MA0689.1	TBX20	MA0689.1	WAGGTGTGAAR	TBX20	2.9e-06	3.79e-09	16100	45.2	22100	43.2	1.05
344	63	MA0800.1	EOMES	MA0800.1	RAGGTGTGAAAWN	EOMES	3.37e-06	4.39e-09	29900	83.9	42200	82.4	1.02
345	64	MA0682.2 (PITX1)	MEME-3	CTGGGATTACAGGCR	CTGGGATTACAGGCR	PITX1	4.4e-06	5.73e-09	1100	3.1	1260	2.45	1.26
346	51	MA0494.1	Nr1h3::Rxra	MA0494.1	TGACCTNNAGTRACCYYDN	Nr1h3::Rxra	5.41e-06	7e-09	24400	68.6	34200	66.8	1.03
347	40	MA0673.1	NKX2-8	MA0673.1	VCACTTSAV	NKX2-8	5.42e-06	7e-09	30700	86.4	43500	85	1.02
348	65	MA0062.3	GABPA	MA0062.3	NNCACTTCCTGTNN	GABPA	6.06e-06	7.82e-09	35300	99.1	50500	98.7	1
349	26	MA0492.1	JUND	MA0492.1	DDDRATGABGTCATN	JUND	7.53e-06	9.68e-09	5870	16.5	7720	15.1	1.09
350	17	MA0867.2	SOX4	MA0867.2	RAACAAAGRV	SOX4	1.31e-05	1.67e-08	11700	32.9	15900	31.1	1.06
351	23	MA0484.2	HNF4G	MA0484.2	DNCAAAGTCCANN	HNF4G	1.31e-05	1.67e-08	11200	31.6	15300	29.8	1.06
352	26	MA1129.1	FOSL1::JUN	MA1129.1	ATGACGTCAT	FOSL1::JUN	1.78e-05	2.27e-08	31300	88	44400	86.7	1.01
353	62	MA0106.3	TP53	MA0106.3	RACATGYCCGGRCATGTY	TP53	1.89e-05	2.41e-08	127	0.36	85	0.17	2.14
354	17	MA0087.2	Sox5	MA0087.2	VRVAACAATGGNN	Sox5	1.93e-05	2.45e-08	15900	44.8	22000	42.9	1.04
355	44	MA1997.1	Olig2	MA1997.1	NVCAGCTGBN	Olig2	2.85e-05	3.6e-08	5090	14.3	6670	13	1.1
356	44	MA0743.2	SCRT1	MA0743.2	NDWKCAACAGGTGKNN	SCRT1	2.87e-05	3.61e-08	29100	81.7	41000	80.2	1.02
357	57	MA0827.1	OLIG3	MA0827.1	AMCATATGBY	OLIG3	3.12e-05	3.92e-08	27100	76.1	38100	74.5	1.02
358	26	MA0639.1	DBP	MA0639.1	NRTTACGTAAYV	DBP	3.13e-05	3.92e-08	7090	19.9	9450	18.5	1.08
359	29	MA0502.2	NFYB	MA0502.2	CYCATTGGCCVV	NFYB	3.24e-05	4.04e-08	8530	24	11500	22.4	1.07
360	63	MA0802.1	TBR1	MA0802.1	AGGTGTGAAA	TBR1	3.43e-05	4.28e-08	28100	78.9	39600	77.3	1.02
361	41	MA1643.1	NFIB	MA1643.1	NNCCTGGCAYNGTGCCAAGNN	NFIB	3.59e-05	4.46e-08	2290	6.44	2850	5.56	1.16
362	27	MA0838.1	CEBPG	MA0838.1	ATTRCGCAAY	CEBPG	3.64e-05	4.51e-08	2060	5.79	2540	4.96	1.17
363	44	MA1635.1	BHLHE22	MA1635.1	NVCAGCTGBN	BHLHE22	4.38e-05	5.41e-08	5180	14.6	6800	13.3	1.1
364	66	MA0069.1	PAX6	MA0069.1	TTCACGCWTSANTK	PAX6	5.96e-05	7.34e-08	17300	48.7	24000	46.9	1.04
365	67	MA0080.6 (Spi1)	MEME-5	CWBYCTYCCTCTSTC	CWBYCTYCCTCTSTC	Spi1	8.45e-05	1.04e-07	14800	41.5	20300	39.7	1.04
366	57	MA1618.1	Ptf1a	MA1618.1	NNACAGATGTTNN	Ptf1a	9.55e-05	1.17e-07	26600	74.6	37400	73.1	1.02
367	23	MA0114.4	HNF4A	MA0114.4	DNCAAAGTCCANN	HNF4A	9.89e-05	1.21e-07	15800	44.5	21900	42.7	1.04
368	26	MA0592.3	ESRRA	MA0592.3	NBTCAAGGTCAHN	ESRRA	0.000128	1.55e-07	32300	90.7	45900	89.6	1.01
369	26	MA1133.1	JUN::JUNB	MA1133.1	KRTGACGTCATN	JUN::JUNB	0.000137	1.67e-07	24900	69.9	34900	68.2	1.02
370	34	MA0468.1	DUX4	MA0468.1	TAAYYYAATCA	DUX4	0.000208	2.52e-07	3530	9.93	4560	8.92	1.11
371	44	MA0633.2	Twist2	MA0633.2	NVCAGCTGBN	Twist2	0.000213	2.58e-07	4890	13.8	6440	12.6	1.09
372	12	MA0683.1	POU4F2	MA0683.1	RTGCATAATTAATGAG	POU4F2	0.00051	6.16e-07	1980	5.57	2470	4.83	1.15
373	26	MA0629.1	Rhox11	MA0629.1	ANKNCGCTGTWAWDVRW	Rhox11	0.000564	6.78e-07	18100	50.8	25100	49.1	1.03
374	26	MA1996.1	Nr1H2	MA1996.1	NNRAGGTCANN	Nr1H2	0.000566	6.79e-07	33200	93.4	47400	92.6	1.01
375	35	MA1571.1	TGIF2LX	MA1571.1	TGACAGCTGTCA	TGIF2LX	0.00057	6.82e-07	14600	41	20100	39.4	1.04
376	52	MA0691.1	TFAP4	MA0691.1	AWCAGCTGWT	TFAP4	0.000599	7.15e-07	1240	3.48	1480	2.89	1.2
377	26	MA1145.1	FOSL2::JUND	MA1145.1	NNRTGACGTCAYHSN	FOSL2::JUND	0.000748	8.9e-07	21700	61.1	30400	59.5	1.03
378	68	MA0029.1	Mecom	MA0029.1	AAGAYAAGATAANA	Mecom	0.000752	8.93e-07	3100	8.72	4000	7.81	1.12
379	69	MA0687.1	SPIC	MA0687.1	HAAAAGVGGAAGTA	SPIC	0.000899	1.06e-06	27400	76.9	38600	75.5	1.02
380	41	MA0698.1	ZBTB18	MA0698.1	NATCCAGATGTKB	ZBTB18	0.00129	1.53e-06	11800	33.2	16200	31.7	1.05
381	41	MA1123.2	TWIST1	MA1123.2	NNDCCAGATGTBN	TWIST1	0.00195	2.3e-06	20500	57.6	28700	56	1.03
382	70	MA1989.1	Bcl11B	MA1989.1	NNAAACCACAARNN	Bcl11B	0.00254	2.99e-06	30800	86.4	43700	85.4	1.01
383	71	MA0160.2	NR4A2	MA0160.2	BWAAAGGTCA	NR4A2	0.00327	3.83e-06	27100	76.2	38300	74.8	1.02
384	72	MA0161.2	NFIC	MA0161.2	NNCTTGGCANN	NFIC	0.00395	4.61e-06	33100	93	47200	92.2	1.01
385	8	MA0614.1	Foxj2	MA0614.1	RTAAACAA	Foxj2	0.00492	5.74e-06	3820	10.7	5020	9.82	1.09
386	18	MA1521.1	MAFA	MA1521.1	NTGCTGASTCAGCAN	MAFA	0.00615	7.14e-06	915	2.57	1080	2.12	1.21
387	73	MA0119.1	NFIC::TLX1	MA0119.1	TGGCASSRWGCCAA	NFIC::TLX1	0.00662	7.68e-06	1710	4.8	2140	4.18	1.15
388	74	MA1977.1	ZNF324	MA1977.1	NNNWRGMAGHYAAGGATGGTT	ZNF324	0.00668	7.72e-06	13800	38.8	19100	37.4	1.04
389	51	MA0071.1	RORA	MA0071.1	AWMWAGGTCA	RORA	0.0119	1.37e-05	9730	27.4	13300	26.1	1.05
390	33	MA1561.1	SOX12	MA1561.1	ACCGAACAATV	SOX12	0.0122	1.41e-05	19500	54.7	27300	53.3	1.03
391	17	MA0515.1	Sox6	MA0515.1	CCWTTGTYYY	Sox6	0.0124	1.42e-05	3140	8.83	4110	8.02	1.1
392	63	MA0688.1	TBX2	MA0688.1	DAGGTGTGAAA	TBX2	0.013	1.49e-05	30900	86.8	43900	85.8	1.01
393	75	MA0508.3	PRDM1	MA0508.3	YNCTTTCTCTH	PRDM1	0.015	1.71e-05	13500	38	18800	36.6	1.04
394	76	MA0520.1	Stat6	MA0520.1	BDBTTCCWSAGAAVY	Stat6	0.0187	2.13e-05	10100	28.4	13900	27.1	1.05
395	77	MA0780.1	PAX3	MA0780.1	TAATYRATTA	PAX3	0.0208	2.36e-05	5620	15.8	7560	14.8	1.07
396	65	MA0640.2	ELF3	MA0640.2	NNCCACTTCCTGNT	ELF3	0.0217	2.46e-05	34100	95.9	48800	95.4	1.01
397	51	MA1148.1	PPARA::RXRA	MA1148.1	AWNTRGGTYAAAGGTCAN	PPARA::RXRA	0.0224	2.53e-05	24200	68	34100	66.7	1.02
398	73	MA1528.1	NFIX	MA1528.1	STTGGCRNNGTGCCARB	NFIX	0.0252	2.84e-05	2050	5.76	2620	5.13	1.12
399	28	MA1506.1	HOXD10	MA1506.1	RGTCGTAAAAH	HOXD10	0.031	3.49e-05	2970	8.35	3890	7.61	1.1
400	35	MA0796.1	TGIF1	MA0796.1	TGACAGCTGTCA	TGIF1	0.0346	3.88e-05	1070	3	1310	2.55	1.18
401	3	MA0135.1	Lhx3	MA0135.1	WAATTAATTAWYY	Lhx3	0.0355	3.97e-05	5570	15.7	7510	14.7	1.07
402	78	MA0083.3	SRF	MA0083.3	TGMCCATATATGGKCA	SRF	0.0361	4.03e-05	455	1.28	507	0.99	1.29
403	71	MA1541.1	NR6A1	MA1541.1	NYCAAGKTCAAGKTCAN	NR6A1	0.0365	4.06e-05	23300	65.4	32800	64.1	1.02
13	79	MA0528.2 (ZNF263)	STREME-10	10-CCTCCTCCCACCCC	10-CCTCCTCCCACCCC	ZNF263	0.0368	0.00283	73	0.21	64	0.13	1.64
14	80	8-TGCCTGCCAS	STREME-8	8-TGCCTGCCAS	TGCCTGCCAS	TGCCTGCCAS	0.0485	0.00346	5690	16	7840	15.3	1.04
15	79	MA1596.1 (ZNF460)	MEME-4	GGRGGCKGRGGCDGG	GGRGGCKGRGGCDGG	ZNF460	5.57	0.371	96	0.27	131	0.26	1.06

DOX_24_20kb_combo %>% 
   dplyr::filter(ENR_RATIO>ER_rat) %>%
  dplyr::select(RANK,CLUSTER,motif_name,SIM_MOTIF,ALT_ID, ID,EVALUE.y,TP.)%>%
  arrange(.,EVALUE.y) %>%
  slice_head(n=80)%>% 
  mutate(log10Evalue= log(EVALUE.y, base = 10)*(-1)) %>% 
  mutate(motif_name=if_else(str_starts(motif_name,"^Z*"),paste(motif_name, RANK, sep="_"), if_else(motif_name=="KLF9",paste(motif_name, RANK,sep="_"),motif_name)))%>%
  ggplot(., aes (y= reorder(motif_name,log10Evalue))) +
  geom_col(aes(x=log10Evalue)) +
  geom_point(aes(x=`TP.`*1.25), size =4)+
  scale_x_continuous(expand=c (0,.125),sec.axis = sec_axis(transform= ~./1.25,name="Percent of peaks with motif"))+
  theme_classic()+
  ylab("Enriched TF motif")+
  ggtitle(paste("DOX_24_20kb_combo response peaks(200bp)Enrichment ratio:",ER_rat))

DOX_24_20kb_combo %>% 
   dplyr::filter(ENR_RATIO>ER_rat) %>%
  dplyr::select(RANK,CLUSTER,motif_name,SIM_MOTIF,ALT_ID, ID,EVALUE.y,TP.)%>%
  arrange(.,EVALUE.y) %>%
  dplyr::filter(EVALUE.y < 0.05) %>% 
    mutate(log10Evalue = -log10(if_else(EVALUE.y == 0, 1e-300, EVALUE.y))) %>% 
  distinct(CLUSTER,.keep_all = TRUE) %>% 
  # slice_head(n=5) %>% 
  mutate(motif_name=if_else(str_starts(motif_name,"^Z*"),paste(motif_name, RANK, sep="_"), if_else(motif_name=="KLF9",paste(motif_name, RANK,sep="_"),motif_name)))%>%
  ggplot(., aes (y= reorder(motif_name,log10Evalue))) +
  geom_col(aes(x=log10Evalue)) +
  geom_point(aes(x=`TP.`*15.2), size =4)+
  scale_x_continuous(expand=c (0,.125),sec.axis = sec_axis(transform= ~./15.2,name="Percent of peaks with motif"))+
  theme_classic()+
  ylab("Enriched TF motif")+
  ggtitle(paste("DOX_24_20kb_combo response peaks(200bp)Enrichment ratio:",ER_rat))

DOX_24_20kb_combo %>% 
  # dplyr::filter(ALT_ID=="MEME-5")
  # dplyr::filter(CLUSTER=="64")
  dplyr::filter(CONSENSUS.x=="CTGGGATTACAGGCR")

Other treaments

EPI

EPI_DAR 24 20kb DAR DEG data

EPI_24_20kb_sea_disc <- read.delim("C:/Users/renee/ATAC_folder/ATAC_meme_data/new_analysis/EPI_24_20kb_xstreme/sea_disc_out/sea.tsv") %>% mutate(source="disc") %>% slice_head(n = length(.$ID)-3)
EPI_24_20kb_sea_known <- read.delim("C:/Users/renee/ATAC_folder/ATAC_meme_data/new_analysis/EPI_24_20kb_xstreme/sea_out/sea.tsv") %>% mutate(source="known") %>% slice_head(n = length(.$ID)-3)
EPI_24_20kb_xstreme <- read.delim("C:/Users/renee/ATAC_folder/ATAC_meme_data/new_analysis/EPI_24_20kb_xstreme/xstreme.tsv") %>% slice_head(n = length(.$ID)-3)
EPI_24_20kb_sea_all <- rbind(EPI_24_20kb_sea_disc, EPI_24_20kb_sea_known) %>% 
  arrange(ID, desc(source == "known")) %>%  
  distinct(ID, .keep_all = TRUE)

EPI_24_20kb_combo <- EPI_24_20kb_xstreme %>% 
  dplyr::select(SEED_MOTIF:EVALUE_ACC,SIM_MOTIF) %>% 
  left_join(., EPI_24_20kb_sea_all, by=c("ID"="ID","ALT_ID"="ALT_ID")) %>% 
  mutate(motif_name=case_when(
    str_detect(SIM_MOTIF, "\\(") ~ str_extract(SIM_MOTIF, "(?<=\\().+?(?=\\))"),
    str_detect(SIM_MOTIF, "^MA\\d+\\.\\d+") ~ ALT_ID,
    str_detect(SIM_MOTIF, "^\\d+-") ~ str_replace(SIM_MOTIF, "^\\d+-", ""),
  TRUE ~ SIM_MOTIF
)) %>% 
  dplyr::select(RANK,CLUSTER,SIM_MOTIF,ALT_ID, ID,CONSENSUS.x,motif_name,EVALUE.y,QVALUE,TP:ENR_RATIO) %>% 
  arrange(.,EVALUE.y) 

EPI_24_20kb_combo %>% 
  dplyr::mutate_if(is.numeric, funs(as.character(signif(., 3)))) %>%
  kable(., caption = "Enriched motifs 200 bp in EPI_24h 20kb") %>%
  kable_paper("striped", full_width = TRUE) %>%
  kable_styling(full_width = FALSE, font_size = 16) %>%
  scroll_box(height = "500px")

Enriched motifs 200 bp in EPI_24h 20kb
RANK	CLUSTER	SIM_MOTIF	ALT_ID	ID	CONSENSUS.x	motif_name	EVALUE.y	QVALUE	TP	TP.	FP	FP.	ENR_RATIO
1	1	MA1134.1 (FOS::JUNB)	STREME-1	1-RATGASTCATY	RATGASTCATY	FOS::JUNB	0	0	5480	15	3320	6.6	2.28
2	1	MA1138.1	FOSL2::JUNB	MA1138.1	KRTGASTCAT	FOSL2::JUNB	0	0	6050	16.6	4020	7.98	2.08
3	1	MA1144.1	FOSL2::JUND	MA1144.1	KATGACTCAT	FOSL2::JUND	0	0	5460	15	3450	6.85	2.19
4	1	MA1134.1	FOS::JUNB	MA1134.1	KATGASTCATHN	FOS::JUNB	1.24998608397835e-320	1.06224113855868e-321	4810	13.2	2850	5.66	2.34
5	1	MA1135.1	FOSB::JUNB	MA1135.1	KRTGASTCAT	FOSB::JUNB	2.38001302914645e-319	2.20007432093107e-320	5540	15.2	3560	7.08	2.15
6	1	MA0477.2	FOSL1	MA0477.2	NNATGACTCATNN	FOSL1	9.10000244514804e-318	7.1199800222182e-319	4910	13.5	2950	5.87	2.3
7	1	MA0491.2	JUND	MA0491.2	NNATGACTCATNN	JUND	5.82000000000717e-313	3.90000000000735e-314	5580	15.3	3640	7.23	2.12
8	1	MA1128.1	FOSL1::JUN	MA1128.1	NKATGACTCATNN	FOSL1::JUN	4.80000000000004e-311	2.8200000000019e-312	4400	12.1	2510	4.98	2.43
9	1	MA1130.1	FOSL2::JUN	MA1130.1	NNRTGAGTCAYN	FOSL2::JUN	1.03e-309	5.36000000000007e-311	4430	12.2	2540	5.05	2.41
10	1	MA0099.3	FOS::JUN	MA0099.3	ATGAGTCAYM	FOS::JUN	2.61e-309	1.22000000000001e-310	4500	12.4	2610	5.18	2.38
11	1	MA1141.1	FOS::JUND	MA1141.1	NKATGAGTCATNN	FOS::JUND	1.05e-304	4.35e-306	4940	13.6	3040	6.05	2.24
12	1	MA0489.2	Jun	MA0489.2	NVTGACTCATNN	Jun	1.11e-304	4.35e-306	5450	15	3550	7.05	2.12
13	1	MA0476.1	FOS	MA0476.1	DVTGASTCATB	FOS	4.73e-304	1.71e-305	4350	12	2490	4.95	2.41
14	1	MA1633.2	BACH1	MA1633.2	ATGACTCAT	BACH1	3.87e-303	1.3e-304	4780	13.1	2910	5.77	2.28
15	1	MA0490.2	JUNB	MA0490.2	NNATGACTCATNN	JUNB	1.34e-301	4.18e-303	5420	14.9	3540	7.02	2.12
16	1	MA0476.1 (FOS)	MEME-2	ATGASTCASH	ATGASTCASH	FOS	2.27e-295	6.66e-297	4640	12.8	2810	5.59	2.28
17	1	MA1634.1	BATF	MA1634.1	DATGACTCATH	BATF	1.68e-293	4.62e-295	5150	14.1	3310	6.57	2.15
18	1	MA1137.1	FOSL1::JUNB	MA1137.1	NDRTGACTCATNN	FOSL1::JUNB	1.48e-290	3.85e-292	5220	14.3	3400	6.75	2.12
19	1	MA0462.2	BATF::JUN	MA0462.2	DATGACTCATH	BATF::JUN	4.54e-289	1.12e-290	4890	13.4	3080	6.13	2.19
20	1	MA1988.1	Atf3	MA1988.1	NRTGACTCABN	Atf3	8.72999999999999e-288	2.05e-289	4530	12.4	2740	5.45	2.28
21	1	MA0655.1	JDP2	MA0655.1	ATGACTCAT	JDP2	2.06e-284	4.6e-286	6460	17.8	4710	9.35	1.9
22	1	MA0478.1	FOSL2	MA0478.1	KRRTGASTCAB	FOSL2	6.12e-280	1.31e-281	5160	14.2	3400	6.75	2.1
23	1	MA1142.1	FOSL1::JUND	MA1142.1	NRTGACTCAT	FOSL1::JUND	2.84e-273	5.79e-275	5480	15.1	3760	7.46	2.02
24	1	MA1928.1	BNC2	MA1928.1	NDRTGAGTCABN	BNC2	6.07e-270	1.19e-271	6050	16.6	4370	8.67	1.92
25	1	MA0835.2	BATF3	MA0835.2	DATGACTCATH	BATF3	2.35e-264	4.41e-266	4060	11.2	2420	4.8	2.33
26	1	MA1132.1	JUN::JUNB	MA1132.1	KATGACKCAT	JUN::JUNB	5.41e-262	9.76e-264	4870	13.4	3210	6.37	2.1
27	1	MA1101.2	BACH2	MA1101.2	DWANCATGASTCATSNTWH	BACH2	1.61e-260	2.8e-262	6040	16.6	4420	8.77	1.89
28	1	MA0841.1	NFE2	MA0841.1	VATGACTCATS	NFE2	1.87e-245	3.13e-247	5130	14.1	3560	7.08	1.99
29	1	MA0089.2	MAFG::NFE2L1	MA0089.2	NVNATGACTCAGCADW	MAFG::NFE2L1	5.17e-154	8.36e-156	6800	18.7	6090	12.1	1.54
30	1	MA0496.3	MAFK	MA0496.3	NGMTGACTCAGCMNH	MAFK	1.57e-137	2.45e-139	5360	14.7	4610	9.15	1.61
31	1	MA0501.1	MAF::NFE2	MA0501.1	ATGACTCAGCANWTY	MAF::NFE2	1.43e-126	2.17e-128	8160	22.4	8000	15.9	1.41
32	1	MA0150.2	Nfe2l2	MA0150.2	CASNATGACTCAGCA	Nfe2l2	9.41e-90	1.38e-91	8360	23	8740	17.4	1.32
33	2	MA1991.1 (Hnf1A)	STREME-8	8-TCAAAG	TCAAAG	Hnf1A	7.75e-78	1.1e-79	32700	89.7	43000	85.4	1.05
34	1	MA1137.1 (FOSL1::JUNB)	STREME-2	2-ABTCAKM	ABTCAKM	FOSL1::JUNB	7.34e-76	1.01e-77	24600	67.5	30900	61.4	1.1
35	1	MA0659.3	Mafg	MA0659.3	NWGMTGACTCAGCAN	Mafg	7.98e-76	1.07e-77	4670	12.8	4450	8.84	1.45
36	3	MA0720.1	Shox2	MA0720.1	YYAATTAR	Shox2	2.16e-74	2.82e-76	31100	85.5	40600	80.7	1.06
37	3	MA0723.2	VAX2	MA0723.2	BYAATTAV	VAX2	3.3e-73	4.18e-75	30900	85	40400	80.2	1.06
38	4	MA0084.1	SRY	MA0084.1	NWWAACAAT	SRY	2.58e-71	3.18e-73	32800	90	43200	85.9	1.05
39	3	MA0027.2	EN1	MA0027.2	SYAATTAV	EN1	4.92e-71	5.92e-73	31100	85.5	40700	80.8	1.06
40	5	9-ATNAGG	STREME-9	9-ATNAGG	ATNAGG	ATNAGG	6.67e-71	7.82e-73	32100	88.1	42100	83.7	1.05
41	3	MA0718.1	RAX	MA0718.1	RYYAATTARH	RAX	2.42e-70	2.77e-72	29300	80.4	37900	75.3	1.07
42	3	MA0725.1	VSX1	MA0725.1	YTAATTAN	VSX1	2.84e-68	3.18e-70	32700	89.9	43200	85.9	1.05
43	1	MA1639.1	MEIS1	MA1639.1	NHCATMAATCAHN	MEIS1	3.66e-68	3.99e-70	25200	69.1	31900	63.3	1.09
44	6	MA0676.1	Nr2e1	MA0676.1	AAAAGTCAA	Nr2e1	4.08e-67	4.35e-69	24300	66.7	30700	60.9	1.1
45	7	MA1963.1	SATB1	MA1963.1	WWDCTAATAAHWW	SATB1	4.74e-67	4.94e-69	24300	66.7	30700	60.9	1.1
46	3	MA0886.1	EMX2	MA0886.1	VBTAATTARB	EMX2	8.66e-67	8.83e-69	23100	63.5	29000	57.5	1.1
47	3	MA0902.2	HOXB2	MA0902.2	SYAATTAS	HOXB2	2.65e-66	2.64e-68	22300	61.4	27900	55.4	1.11
48	3	MA0726.1	VSX2	MA0726.1	CTAATTAN	VSX2	2.13e-64	2.08e-66	32600	89.4	43000	85.5	1.05
49	3	MA0704.1	Lhx4	MA0704.1	YTAATTAR	Lhx4	4.31e-64	4.12e-66	31500	86.6	41400	82.3	1.05
50	1	MA1113.2	PBX2	MA1113.2	NHCATAAATCAHN	PBX2	6.29e-63	5.91e-65	28300	77.8	36600	72.8	1.07
51	3	MA0710.1	NOTO	MA0710.1	NYTAATTAVN	NOTO	4.18e-62	3.85e-64	25700	70.5	32700	65	1.08
52	3	MA0644.2	ESX1	MA0644.2	YYAATTAN	ESX1	1.11e-61	1e-63	24900	68.3	31600	62.8	1.09
53	8	MA0142.1	Pou5f1::Sox2	MA0142.1	CWTTGTYATGCAAAT	Pou5f1::Sox2	2.24e-61	1.98e-63	27700	76.1	35700	70.9	1.07
54	3	MA0674.1	NKX6-1	MA0674.1	NTMATTAA	NKX6-1	1.04e-60	8.99e-63	33000	90.5	43700	86.9	1.04
55	1	MA1640.1	MEIS2	MA1640.1	NNATGATTTATGDNH	MEIS2	2.65e-59	2.26e-61	29600	81.3	38600	76.6	1.06
56	3	MA0634.1	ALX3	MA0634.1	YYYAATTANV	ALX3	4.88e-59	4.09e-61	31600	86.9	41700	82.8	1.05
57	8	MA0786.1	POU3F1	MA0786.1	WTATGCWAATKW	POU3F1	5.71e-59	4.7e-61	28900	79.5	37600	74.7	1.06
58	3	MA0680.2	Pax7	MA0680.2	DWTAATCAATTAWNH	Pax7	1.68e-58	1.36e-60	24300	66.7	30800	61.3	1.09
59	9	MA0650.3	Hoxa13	MA0650.3	NNCCAATAAAAN	Hoxa13	1.82e-58	1.45e-60	29900	82.1	39000	77.5	1.06
60	10	MA1104.2	GATA6	MA1104.2	HWWTCTTATCTNH	GATA6	1.96e-58	1.53e-60	27800	76.4	36000	71.4	1.07
61	8	MA0788.1	POU3F3	MA0788.1	WWTATGCWAATTW	POU3F3	2.74e-58	2.11e-60	26600	73	34200	67.9	1.08
62	10	MA0035.4	GATA1	MA0035.4	NHCTAATCTDH	GATA1	4.3e-58	3.25e-60	28600	78.5	37100	73.7	1.07
63	8	MA0785.1	POU2F1	MA0785.1	AWTATGCWAATK	POU2F1	5.47e-58	4.08e-60	28600	78.7	37200	73.9	1.07
64	3	MA0713.1	PHOX2A	MA0713.1	TAATYYAATTA	PHOX2A	1.96e-57	1.43e-59	25400	69.7	32400	64.4	1.08
65	3	MA0628.1	POU6F1	MA0628.1	AYTAATTART	POU6F1	2.21e-57	1.59e-59	28900	79.3	37500	74.5	1.06
66	3	MA0879.2	DLX1	MA0879.2	VYAATTAN	DLX1	4.58e-57	3.25e-59	33600	92.4	44900	89.2	1.04
67	3	MA0890.1	GBX2	MA0890.1	RSYAATTARN	GBX2	4.65e-57	3.25e-59	27500	75.6	35600	70.6	1.07
68	3	MA1476.2	Dlx5	MA1476.2	NDGCAATTAGNN	Dlx5	7.13e-57	4.92e-59	31500	86.4	41500	82.4	1.05
69	3	MA0904.2	HOXB5	MA0904.2	STAATTAS	HOXB5	9.09e-57	6.18e-59	20800	57.1	26000	51.6	1.11
70	11	MA0041.2	FOXD3	MA0041.2	WAWGHAAATAAACARY	FOXD3	1.58e-56	1.06e-58	29200	80.1	38000	75.4	1.06
71	11	MA0845.1	FOXB1	MA0845.1	WATGTAAATAT	FOXB1	2.47e-56	1.63e-58	28000	76.8	36200	71.9	1.07
72	3	MA0654.1	ISX	MA0654.1	YYAATTAR	ISX	4.62e-56	3.01e-58	21500	59	26900	53.5	1.1
73	3	MA0889.1	GBX1	MA0889.1	VCYAATTASY	GBX1	1.19e-55	7.64e-58	26200	71.8	33600	66.7	1.08
74	3	MA1481.1	DRGX	MA1481.1	YYAATTAN	DRGX	1.44e-55	9.12e-58	29100	80	37900	75.3	1.06
75	3	MA0675.1	NKX6-2	MA0675.1	NYMATTAA	NKX6-2	2.2e-55	1.37e-57	33200	91.1	44100	87.7	1.04
76	3	MA0882.1	DLX6	MA0882.1	VYAATTAN	DLX6	2.21e-55	1.37e-57	33900	93	45300	89.9	1.03
77	3	MA1502.1	HOXB8	MA1502.1	GYMATTAM	HOXB8	8.27e-55	5.04e-57	19400	53.2	24000	47.7	1.12
78	12	MA0052.4	MEF2A	MA0052.4	DDCTAAAAATAGMHH	MEF2A	1.19e-54	7.17e-57	26100	71.6	33500	66.5	1.08
79	8	MA0789.1	POU3F4	MA0789.1	TATGCWAAT	POU3F4	2.47e-54	1.47e-56	24700	68	31600	62.8	1.08
80	3	MA0125.1	Nobox	MA0125.1	TAATTRSY	Nobox	3.65e-54	2.14e-56	30300	83.1	39700	78.8	1.05
81	13	MA1480.1	DPRX	MA1480.1	AGATAATCCN	DPRX	4.12e-54	2.39e-56	29300	80.4	38200	75.9	1.06
82	9	MA0465.2	CDX2	MA0465.2	NDGCAATAAAWN	CDX2	4.97e-54	2.85e-56	29300	80.4	38200	75.9	1.06
83	3	MA0722.1	VAX1	MA0722.1	YTAATTAH	VAX1	6.26e-54	3.54e-56	33100	91	44100	87.6	1.04
84	14	MA0635.1	BARHL2	MA0635.1	VHTAAAYGRT	BARHL2	8.09e-54	4.52e-56	31300	86	41300	82	1.05
85	9	MA0901.2	HOXB13	MA0901.2	WDCCAATAAAAWWW	HOXB13	8.43e-54	4.66e-56	25400	69.8	32500	64.6	1.08
86	9	MA0899.1	HOXA10	MA0899.1	DGYMATAAAAH	HOXA10	1.71e-53	9.32e-56	25300	69.4	32400	64.3	1.08
87	3	MA0793.1	POU6F2	MA0793.1	ASCTMATTAW	POU6F2	2.02e-53	1.08e-55	28000	76.8	36300	72.1	1.07
88	3	MA0158.2	HOXA5	MA0158.2	GYMATTAS	HOXA5	2.03e-53	1.08e-55	17200	47.1	21000	41.7	1.13
89	8	MA0787.1	POU3F2	MA0787.1	WTATGCWAATKA	POU3F2	2.61e-53	1.38e-55	25100	69	32200	63.9	1.08
90	3	MA0721.1	UNCX	MA0721.1	YYAATTAV	UNCX	5.57e-53	2.9e-55	32500	89.4	43200	85.8	1.04
91	3	MA0876.1	BSX	MA0876.1	SYVATTAV	BSX	1.57e-52	8.1e-55	30000	82.4	39300	78.2	1.05
92	3	MA1495.1	HOXA1	MA1495.1	STAATTAS	HOXA1	2.96e-52	1.51e-54	16400	45.2	20100	39.9	1.13
93	3	MA1505.1	HOXC8	MA1505.1	KTAATTAM	HOXC8	3.44e-52	1.74e-54	32300	88.8	42900	85.1	1.04
94	3	MA0707.2	MNX1	MA0707.2	VYRATTAK	MNX1	5.13e-52	2.56e-54	19100	52.5	23800	47.2	1.11
95	3	MA0709.1	Msx3	MA0709.1	SCAATTAN	Msx3	6.43e-52	3.18e-54	28800	79.1	37600	74.6	1.06
96	3	MA0885.2	Dlx2	MA0885.2	NDGCAATTAGNN	Dlx2	1.54e-51	7.53e-54	32400	89.1	43100	85.6	1.04
97	3	MA0708.2	MSX2	MA0708.2	SCAATTAV	MSX2	1.91e-51	9.23e-54	27900	76.6	36200	71.9	1.06
98	3	MA0601.1	Arid3b	MA0601.1	ATATTAATWAN	Arid3b	4.98e-51	2.38e-53	21600	59.2	27200	54	1.1
99	3	MA0658.1	LHX6	MA0658.1	RCTAATTARY	LHX6	7.17e-51	3.4e-53	22500	61.8	28500	56.6	1.09
100	10	MA0036.3	GATA2	MA0036.3	NBCTTATCTNH	GATA2	1.37e-50	6.42e-53	30400	83.6	40000	79.5	1.05
101	15	MA0791.1	POU4F3	MA0791.1	RTGMATWATTAATGAR	POU4F3	1.76e-50	8.16e-53	21800	60	27600	54.8	1.1
102	3	MA0716.1	PRRX1	MA0716.1	YYAATTAR	PRRX1	2.63e-50	1.21e-52	33900	93.2	45500	90.3	1.03
103	3	MA0701.2	LHX9	MA0701.2	CYAATTAR	LHX9	3.9e-50	1.78e-52	15200	41.7	18400	36.6	1.14
104	3	MA0700.2	LHX2	MA0700.2	DDCCAATTADN	LHX2	5.47e-50	2.47e-52	28400	78	37000	73.5	1.06
105	8	MA0792.1	POU5F1B	MA0792.1	TATGCWAAT	POU5F1B	5.64e-50	2.52e-52	31900	87.8	42300	84.1	1.04
106	16	MA0018.4 (CREB1)	STREME-3	3-ATGWCAT	ATGWCAT	CREB1	8.62e-50	3.82e-52	34600	94.9	46500	92.4	1.03
107	11	MA1606.1	Foxf1	MA1606.1	DWRTAAACANN	Foxf1	8.8e-50	3.86e-52	32600	89.6	43400	86.2	1.04
108	3	MA0648.1	GSC	MA0648.1	VYTAATCCSY	GSC	1.33e-49	5.77e-52	28900	79.3	37700	74.9	1.06
109	3	MA0666.2	MSX1	MA0666.2	SCAATTAR	MSX1	2.24e-49	9.64e-52	24100	66.3	30800	61.2	1.08
110	17	MA0495.3	MAFF	MA0495.3	DWGTCAGCATTTTWHN	MAFF	2.78e-49	1.18e-51	31100	85.5	41100	81.6	1.05
111	3	MA0910.2	HOXD8	MA0910.2	GYMATTAM	HOXD8	6.8e-49	2.87e-51	17200	47.4	21300	42.2	1.12
112	15	MA0790.1	POU4F1	MA0790.1	ATGMATAATTAATG	POU4F1	1.33e-48	5.57e-51	22100	60.7	28000	55.6	1.09
113	11	MA0032.2	FOXC1	MA0032.2	WAWGTAAAYAW	FOXC1	1.68e-47	6.96e-50	29200	80.3	38300	76.1	1.06
114	3	MA1497.1	HOXA6	MA1497.1	BGYMATTANN	HOXA6	1.7e-47	6.98e-50	31100	85.4	41100	81.6	1.05
115	8	MA0627.2	POU2F3	MA0627.2	NWTATGCAAATNH	POU2F3	1.92e-47	7.85e-50	26700	73.2	34500	68.6	1.07
116	3	MA0681.2	PHOX2B	MA0681.2	WWTAATCAAATTAWWW	PHOX2B	2.46e-47	9.95e-50	21000	57.6	26400	52.5	1.1
117	3	MA0630.1	SHOX	MA0630.1	HTAATTRR	SHOX	3.63e-47	1.45e-49	34300	94.3	46100	91.6	1.03
118	18	MA0769.2	TCF7	MA0769.2	NNCTTTGAWVT	TCF7	3.64e-47	1.45e-49	34000	93.5	45700	90.8	1.03
119	3	MA1549.1	POU6F1	MA1549.1	RTAATGAGVN	POU6F1	4.91e-47	1.93e-49	30100	82.6	39600	78.6	1.05
120	3	MA0661.1	MEOX1	MA0661.1	VSTAATTAHC	MEOX1	5.54e-47	2.17e-49	31100	85.4	41100	81.6	1.05
121	10	MA1970.1	TRPS1	MA1970.1	NHTCTTATCTNH	TRPS1	5.83e-47	2.26e-49	30000	82.4	39500	78.4	1.05
122	3	MA1518.2	Lhx1	MA1518.2	NNNTGCTAATTAGCANNN	Lhx1	5.87e-47	2.26e-49	27300	74.9	35400	70.3	1.06
123	3	MA0068.2	PAX4	MA0068.2	CTAATTAG	PAX4	7.26e-47	2.77e-49	30900	84.9	40800	81.1	1.05
124	3	MA1471.1	BARX2	MA1471.1	NWWAAYMATTAN	BARX2	8.49e-47	3.21e-49	28000	77	36500	72.5	1.06
125	3	MA0912.2	HOXD3	MA0912.2	CTAATTAC	HOXD3	3.33e-46	1.25e-48	13700	37.5	16500	32.7	1.15
126	19	MA0905.1	HOXC10	MA0905.1	GTCRTAAAAH	HOXC10	4.32e-46	1.61e-48	24500	67.3	31400	62.5	1.08
127	3	MA0894.1	HESX1	MA0894.1	GHTAATTRRH	HESX1	1.53e-45	5.65e-48	22600	62.2	28800	57.3	1.09
128	3	MA0706.1	MEOX2	MA0706.1	DSTAATTAWN	MEOX2	6.1e-45	2.24e-47	31800	87.4	42200	83.9	1.04
129	4	MA0143.4	SOX2	MA0143.4	DNACAATGGNN	SOX2	1.26e-44	4.59e-47	30600	84	40400	80.2	1.05
130	3	MA0642.2	EN2	MA0642.2	VSYAATTA	EN2	3.87e-44	1.4e-46	28800	79.1	37700	74.9	1.06
131	3	MA1519.1	LHX5	MA1519.1	STAATTAV	LHX5	7.61e-44	2.73e-46	14500	39.8	17600	35	1.14
132	20	MA1657.1	ZNF652	MA1657.1	BAAAGRGTTAAN	ZNF652	8.5e-44	3.02e-46	30300	83.3	40000	79.4	1.05
133	21	MA0122.3	Nkx3-2	MA0122.3	WWAAMCACTTAAN	Nkx3-2	9.85e-44	3.47e-46	27400	75.2	35600	70.8	1.06
134	11	MA0846.1	FOXC2	MA0846.1	WAWGTAAACAWW	FOXC2	1.12e-43	3.93e-46	30200	82.8	39700	79	1.05
135	11	MA1978.1	ZNF354A	MA1978.1	HWAADWATAAATGRAYWAWTT	ZNF354A	1.51e-43	5.25e-46	25100	69	32400	64.3	1.07
136	3	MA0711.1	OTX1	MA0711.1	HTAATCCS	OTX1	2.14e-43	7.38e-46	31400	86.3	41600	82.7	1.04
137	8	MA1115.1	POU5F1	MA1115.1	WHATGCAAATN	POU5F1	7.01e-43	2.4e-45	31400	86.2	41600	82.6	1.04
138	3	MA0903.1	HOXB3	MA0903.1	NNYMATTARN	HOXB3	7.34e-43	2.5e-45	31900	87.6	42400	84.2	1.04
139	22	MA0047.3	FOXA2	MA0047.3	RWGTAAACANN	FOXA2	3e-42	1.01e-44	32000	87.8	42500	84.4	1.04
140	23	MA0499.2 (MYOD1)	STREME-5	5-AGACAGG	AGACAGG	MYOD1	6.66e-42	2.23e-44	27900	76.6	36500	72.4	1.06
141	3	MA0892.1	GSX1	MA0892.1	NCYMATTAVN	GSX1	8.32e-42	2.77e-44	30600	84	40400	80.3	1.05
142	3	MA0705.1	Lhx8	MA0705.1	CTAATTAV	Lhx8	1.06e-41	3.52e-44	19700	54.2	24900	49.4	1.1
143	22	MA0148.4	FOXA1	MA0148.4	WWGTAAACATNN	FOXA1	1.32e-41	4.33e-44	31500	86.5	41800	83.1	1.04
144	4	MA1152.1	SOX15	MA1152.1	CYWTTGTTHW	SOX15	5e-41	1.63e-43	33500	91.9	44900	89.1	1.03
145	22	MA0031.1	FOXD1	MA0031.1	GTAAACAW	FOXD1	6.59e-41	2.13e-43	21900	60	27900	55.4	1.09
146	11	MA1607.1	Foxl2	MA1607.1	DDWATGTAAACANN	Foxl2	7.51e-41	2.41e-43	31500	86.5	41800	83.1	1.04
147	22	MA1683.1	FOXA3	MA1683.1	DWGTAAACANN	FOXA3	2.5e-40	7.99e-43	30300	83.2	40000	79.4	1.05
148	3	MA1530.1	NKX6-3	MA1530.1	VYCATTAWW	NKX6-3	4.47e-40	1.42e-42	19800	54.5	25100	49.8	1.09
149	10	MA0037.4	Gata3	MA0037.4	NHTCTTATCTNH	Gata3	7.08e-40	2.23e-42	31700	87.2	42200	83.8	1.04
150	4	MA0077.1	SOX9	MA0077.1	CYATTGTTY	SOX9	3.74e-39	1.17e-41	34900	95.8	47200	93.8	1.02
151	3	MA0875.1	BARX1	MA0875.1	VCMATTAV	BARX1	8.22e-39	2.55e-41	27900	76.7	36600	72.6	1.06
152	3	MA0075.3	PRRX2	MA0075.3	CTAATTAN	PRRX2	3.82e-38	1.18e-40	14900	40.9	18300	36.4	1.12
153	24	MA0108.2	TBP	MA0108.2	STATAAAWRSVVVBN	TBP	6.16e-38	1.89e-40	29100	79.9	38300	76.1	1.05
154	15	MA0153.2	HNF1B	MA0153.2	GTTAATNATTAAY	HNF1B	9.18e-38	2.8e-40	15200	41.7	18700	37.2	1.12
155	3	MA0612.2	EMX1	MA0612.2	BTAATTAS	EMX1	1.17e-37	3.55e-40	11600	31.9	14000	27.7	1.15
156	25	MA0895.1	HMBOX1	MA0895.1	MYTAGTTAMS	HMBOX1	1.76e-37	5.31e-40	32400	88.9	43200	85.8	1.04
157	3	MA0900.2	HOXA2	MA0900.2	STAATTAS	HOXA2	2.58e-37	7.71e-40	14000	38.6	17200	34.2	1.13
158	26	MA0025.2	NFIL3	MA0025.2	NRTTATGYAATNN	NFIL3	3.07e-37	9.11e-40	28900	79.2	38000	75.4	1.05
159	10	MA0766.2	GATA5	MA0766.2	SWGATAASRN	GATA5	4.31e-37	1.27e-39	17200	47.3	21500	42.8	1.11
160	3	MA0717.1	RAX2	MA0717.1	YYAATTAV	RAX2	6.66e-37	1.95e-39	34800	95.5	47000	93.4	1.02
161	3	MA0891.1	GSC2	MA0891.1	NYTAATCCBH	GSC2	9.95e-37	2.9e-39	33200	91.2	44500	88.5	1.03
162	22	MA0481.3	FOXP1	MA0481.3	NDGTAAACANH	FOXP1	1.22e-36	3.52e-39	28600	78.5	37600	74.7	1.05
163	3	MA1463.1	ARGFX	MA1463.1	DCTAATTARM	ARGFX	1.29e-36	3.71e-39	15900	43.6	19700	39.2	1.11
164	11	MA0157.3	Foxo3	MA0157.3	NDGTAAACARNN	Foxo3	1.68e-36	4.81e-39	31800	87.3	42400	84.2	1.04
165	13	MA0682.2	PITX1	MA0682.2	YTAATCCH	PITX1	2.44e-36	6.93e-39	19000	52	23900	47.6	1.09
166	15	MA0046.2	HNF1A	MA0046.2	DRTTAATNATTAACN	HNF1A	2.45e-36	6.93e-39	15500	42.5	19200	38.1	1.12
167	4	MA1563.2	SOX18	MA1563.2	AACAATDV	SOX18	3.7e-36	1.04e-38	27600	75.9	36200	72	1.05
168	27	MA0602.1	Arid5a	MA0602.1	SYAATATTGVDANH	Arid5a	4.41e-36	1.23e-38	22800	62.6	29300	58.2	1.08
169	3	MA1608.1	Isl1	MA1608.1	NNCCATTAGNN	Isl1	5.1e-36	1.42e-38	33700	92.7	45400	90.2	1.03
170	3	MA0898.1	Hmx3	MA0898.1	ASAAGCAATTAAWRRAT	Hmx3	6.69e-36	1.85e-38	21600	59.4	27700	55	1.08
171	12	MA0497.1	MEF2C	MA0497.1	DDDCYAAAAATAGMW	MEF2C	7.79e-36	2.14e-38	22900	62.9	29400	58.5	1.07
172	28	MA0809.2	TEAD4	MA0809.2	NNACATTCCARN	TEAD4	9.33e-36	2.55e-38	27600	75.9	36200	72	1.05
173	22	MA0033.2	FOXL1	MA0033.2	RTAAACA	FOXL1	1.15e-35	3.12e-38	29600	81.4	39200	77.8	1.05
174	4	MA0868.2	SOX8	MA0868.2	MGAACAATRG	SOX8	1.22e-35	3.3e-38	33200	91.2	44500	88.4	1.03
175	13	MA0712.2	OTX2	MA0712.2	NDRGGATTARNN	OTX2	1.48e-35	3.97e-38	26500	72.8	34600	68.7	1.06
176	3	MA0662.1	MIXL1	MA0662.1	NBYAATTAVN	MIXL1	3.59e-35	9.58e-38	34600	95.1	46800	93	1.02
177	4	MA1120.1	SOX13	MA1120.1	DVACAATGGNN	SOX13	1.29e-34	3.43e-37	30600	84.1	40700	80.8	1.04
178	9	MA0909.3	Hoxd13	MA0909.3	NNCAATAAAW	Hoxd13	2.39e-34	6.31e-37	22100	60.7	28400	56.4	1.08
179	29	7-AGAATA	STREME-7	7-AGAATA	AGAATA	AGAATA	5e-34	1.31e-36	32800	90.1	44000	87.4	1.03
180	22	MA0042.2	FOXI1	MA0042.2	GTAAACA	FOXI1	5.6e-34	1.46e-36	26200	72	34300	68	1.06
181	30	MA0018.4	CREB1	MA0018.4	NNRTGATGTCAYN	CREB1	1.09e-33	2.83e-36	28100	77.1	36900	73.3	1.05
182	22	MA1103.2	FOXK2	MA1103.2	DDGTAAACANN	FOXK2	1.84e-33	4.75e-36	34000	93.4	45900	91.1	1.03
183	3	MA0888.1	EVX2	MA0888.1	VVTAATTAVB	EVX2	2.16e-33	5.53e-36	33000	90.5	44200	87.8	1.03
184	31	MA1125.1 (ZNF384)	MEME-1	THTTTTTKTWTTTTT	THTTTTTKTWTTTTT	ZNF384	3.33e-33	8.48e-36	22600	62	29100	57.8	1.07
185	4	MA0514.2	Sox3	MA0514.2	DNACAATGGNN	Sox3	4.04e-33	1.02e-35	32100	88.2	43000	85.3	1.03
186	22	MA0848.1	FOXO4	MA0848.1	GTAAACA	FOXO4	4.17e-33	1.05e-35	31300	86	41700	82.8	1.04
187	4	MA0078.2	Sox17	MA0078.2	NNAGAACAATGGNN	Sox17	8.89e-33	2.23e-35	30900	84.9	41100	81.7	1.04
188	26	MA0102.4	CEBPA	MA0102.4	NDATTGCACAATHN	CEBPA	1.04e-32	2.59e-35	30000	82.3	39700	79	1.04
189	3	MA0881.1	Dlx4	MA0881.1	VYAATTAN	Dlx4	1.06e-32	2.64e-35	35200	96.6	47800	94.9	1.02
190	3	MA0914.1	ISL2	MA0914.1	GCAMTTAR	ISL2	1.28e-32	3.15e-35	30500	83.7	40500	80.4	1.04
191	4	MA1562.1	SOX14	MA1562.1	CCGAACAATG	SOX14	1.66e-32	4.09e-35	27200	74.7	35700	70.9	1.05
192	3	MA1498.2	HOXA7	MA1498.2	SYMATTAV	HOXA7	1.84e-32	4.48e-35	34300	94.3	46400	92.1	1.02
193	18	MA0523.1	TCF7L2	MA0523.1	DRASATCAAAGRVA	TCF7L2	2.31e-32	5.62e-35	22800	62.6	29400	58.5	1.07
194	3	MA0893.2	GSX2	MA0893.2	SYMATTAR	GSX2	3.24e-32	7.83e-35	30700	84.4	40800	81.1	1.04
195	3	MA0132.2	PDX1	MA0132.2	VYAATTAR	PDX1	1.26e-31	3.03e-34	20100	55.2	25700	51.1	1.08
196	17	MA0842.2	NRL	MA0842.2	AAWWNTGCTGACG	NRL	3.06e-31	7.32e-34	14900	41	18600	36.9	1.11
197	13	MA0467.2	Crx	MA0467.2	NDGGATTANN	Crx	1.31e-30	3.12e-33	26500	72.7	34700	68.9	1.05
198	3	MA0854.1	Alx1	MA0854.1	CGMRYTAATTARTNMNY	Alx1	1.33e-30	3.15e-33	15000	41.3	18800	37.3	1.11
199	32	MA0755.1	CUX2	MA0755.1	TRATCGATAW	CUX2	1.55e-30	3.65e-33	17100	46.9	21500	42.8	1.1
200	32	MA0679.2	ONECUT1	MA0679.2	WAAAAATCAATAAWWN	ONECUT1	1.64e-30	3.84e-33	14800	40.6	18400	36.6	1.11
201	33	MA0070.1	PBX1	MA0070.1	HCATCAATCAAW	PBX1	5.35e-30	1.25e-32	15500	42.6	19400	38.6	1.1
202	3	MA0618.1	LBX1	MA0618.1	TTAATTAG	LBX1	5.94e-30	1.38e-32	19800	54.3	25300	50.2	1.08
203	28	MA0090.3	TEAD1	MA0090.3	NNACATTCCAGSN	TEAD1	1.36e-29	3.15e-32	29300	80.6	38900	77.2	1.04
204	26	MA1636.1	CEBPG	MA1636.1	NDATGATGCAATMHH	CEBPG	4.52e-28	1.04e-30	23100	63.6	30100	59.7	1.06
205	34	MA0151.1	Arid3a	MA0151.1	ATYAAA	Arid3a	4.71e-28	1.08e-30	15000	41.1	18700	37.2	1.1
206	1	MA0591.1	Bach1::Mafk	MA0591.1	RSSATGACTCAGCAB	Bach1::Mafk	6.68e-28	1.52e-30	2740	7.54	2820	5.59	1.35
207	35	MA0483.1	Gfi1B	MA0483.1	AAATCWCWGCH	Gfi1B	1.56e-27	3.54e-30	20100	55.3	25900	51.4	1.08
208	11	MA0852.2	FOXK1	MA0852.2	NRDGTAAACAAGNN	FOXK1	2.71e-27	6.11e-30	32300	88.8	43400	86.2	1.03
209	9	MA0878.3	CDX1	MA0878.3	GGYMATAAAA	CDX1	3.01e-27	6.77e-30	14300	39.4	17900	35.6	1.11
210	3	MA1499.1	HOXB4	MA1499.1	RTMATTAR	HOXB4	4.48e-27	1e-29	15800	43.4	19900	39.6	1.1
211	21	MA0124.2	Nkx3-1	MA0124.2	RCCACTTAA	Nkx3-1	5.92e-27	1.32e-29	27700	76.2	36600	72.8	1.05
212	26	MA0836.2	CEBPD	MA0836.2	NRTTGCACAAYHN	CEBPD	9.6e-27	2.13e-29	28300	77.6	37400	74.3	1.04
213	3	MA0880.1	Dlx3	MA0880.1	NYAATTAN	Dlx3	1.61e-26	3.55e-29	35200	96.8	48000	95.3	1.02
214	3	MA0724.1	VENTX	MA0724.1	AMCGATTAR	VENTX	3.14e-26	6.89e-29	12500	34.3	15400	30.7	1.12
215	17	MA0117.2	Mafb	MA0117.2	AWWNTGCTGACD	Mafb	4.65e-26	1.01e-28	32300	88.8	43400	86.2	1.03
216	3	MA1500.1	HOXB6	MA1500.1	BTAATKRC	HOXB6	5.6e-26	1.22e-28	35300	97	48100	95.5	1.02
217	13	MA0714.1	PITX3	MA0714.1	NYTAATCCC	PITX3	5.89e-26	1.27e-28	35300	96.9	48100	95.5	1.02
218	3	MA0853.1	Alx4	MA0853.1	CGCRYTAATTARYHNNY	Alx4	1.18e-24	2.54e-27	13900	38.1	17400	34.5	1.1
219	22	MA1489.1	FOXN3	MA1489.1	GTAAACAA	FOXN3	1.57e-24	3.36e-27	23100	63.4	30100	59.8	1.06
220	36	MA1623.1	Stat2	MA1623.1	RGAAACAGAAASH	Stat2	2.28e-24	4.86e-27	32000	88	43000	85.5	1.03
221	3	MA1577.1	TLX2	MA1577.1	BYAATTAR	TLX2	2.41e-24	5.11e-27	12100	33.2	15000	29.8	1.12
222	37	MA0611.2	Dux	MA0611.2	NTGATTBAATCAVWNN	Dux	6.11e-24	1.29e-26	11700	32.2	14500	28.8	1.12
223	18	MA1991.1	Hnf1A	MA1991.1	NBCCTTTGATSTBN	Hnf1A	2.26e-23	4.76e-26	35100	96.4	47800	94.9	1.02
224	22	MA0480.2	Foxo1	MA0480.2	NDGTAAACANN	Foxo1	2.66e-23	5.58e-26	34600	95	47000	93.3	1.02
225	38	MA0606.2	Nfat5	MA0606.2	NNATGGAAAAWN	Nfat5	4.78e-23	9.97e-26	31300	85.9	42000	83.3	1.03
226	22	MA0850.1	FOXP3	MA0850.1	RTAAACA	FOXP3	7.55e-23	1.57e-25	33900	93.2	45900	91.2	1.02
227	39	MA1603.1	Dmrt1	MA1603.1	GHTACAAAGTADC	Dmrt1	9.66e-23	2e-25	22800	62.7	29800	59.2	1.06
228	40	MA0782.2	PKNOX1	MA0782.2	NNTGAGTGACAGVNN	PKNOX1	1.17e-22	2.41e-25	16400	45.2	21000	41.6	1.09
229	13	MA0719.1	RHOXF1	MA0719.1	NTRATCCN	RHOXF1	1.41e-22	2.89e-25	30800	84.5	41200	81.8	1.03
230	28	MA0808.1	TEAD3	MA0808.1	RCATTCCW	TEAD3	4.39e-22	8.95e-25	15400	42.2	19500	38.8	1.09
231	32	MA0754.2	CUX1	MA0754.2	TAATCGATAM	CUX1	5.44e-22	1.1e-24	16700	45.8	21300	42.3	1.08
232	30	MA1632.1	ATF2	MA1632.1	NNATGABGTCATN	ATF2	1.65e-21	3.33e-24	24700	67.9	32500	64.6	1.05
233	41	MA0095.3	Yy1	MA0095.3	NNCAAAATGGCN	Yy1	1.74e-21	3.5e-24	33700	92.7	45700	90.8	1.02
234	3	MA1504.1	HOXC4	MA1504.1	VTMATTAN	HOXC4	3.73e-21	7.48e-24	17200	47.3	22100	43.9	1.08
235	3	MA1507.1	HOXD4	MA1507.1	VTMATTAD	HOXD4	4.37e-21	8.72e-24	11500	31.6	14300	28.4	1.11
236	13	MA0883.1	Dmbx1	MA0883.1	WDRWNMGGATTADKNNW	Dmbx1	6.37e-21	1.27e-23	18500	50.8	23900	47.4	1.07
237	42	MA1974.1	ZNF211	MA1974.1	HWYATATACCAYRYW	ZNF211	7.63e-21	1.51e-23	16900	46.3	21600	42.9	1.08
238	3	MA0715.1	PROP1	MA0715.1	TAATYWAATTA	PROP1	7.68e-21	1.51e-23	14200	39	18000	35.7	1.09
239	26	MA0043.3	HLF	MA0043.3	NNRTTATGCAACHN	HLF	1.18e-20	2.32e-23	22400	61.5	29300	58.2	1.06
240	3	MA1496.1	HOXA4	MA1496.1	RTMATTAV	HOXA4	1.48e-20	2.89e-23	15100	41.4	19200	38.1	1.09
241	36	MA0050.3	Irf1	MA0050.3	ANTGAAACTGAAASH	Irf1	2.62e-20	5.1e-23	26900	73.9	35700	70.8	1.04
242	3	MA1501.1	HOXB7	MA1501.1	GGTAATTAVS	HOXB7	6.07e-20	1.18e-22	28900	79.3	38500	76.5	1.04
243	26	MA0833.2	ATF4	MA0833.2	DDATGATGCAATMN	ATF4	8.63e-20	1.67e-22	19400	53.3	25100	49.9	1.07
244	43	MA1118.1	SIX1	MA1118.1	GWAACCTGAKM	SIX1	1.42e-19	2.73e-22	29900	82.2	40100	79.6	1.03
245	44	MA0626.1	Npas2	MA0626.1	NSCACGTGTN	Npas2	2.71e-19	5.2e-22	17300	47.4	22200	44.1	1.07
246	40	MA0774.1	MEIS2	MA0774.1	TTGACAGS	MEIS2	7.32e-19	1.4e-21	5800	15.9	6850	13.6	1.17
247	3	MA0699.1	LBX2	MA0699.1	NCYAATTARN	LBX2	1.03e-18	1.96e-21	35100	96.4	47800	95	1.01
248	3	MA1960.1	MGA::EVX1	MA1960.1	RGGTGWTAATKD	MGA::EVX1	1.23e-18	2.33e-21	21200	58.2	27700	54.9	1.06
249	22	MA0614.1	Foxj2	MA0614.1	RTAAACAA	Foxj2	2.09e-18	3.95e-21	18800	51.6	24400	48.4	1.07
250	30	MA0498.2	MEIS1	MA0498.2	HTGACAD	MEIS1	2.51e-18	4.7e-21	14800	40.7	18900	37.6	1.08
251	4	MA0867.2	SOX4	MA0867.2	RAACAAAGRV	SOX4	3.7e-18	6.91e-21	27800	76.4	37100	73.7	1.04
252	19	MA0911.1	Hoxa11	MA0911.1	RGTCGTAAAANT	Hoxa11	4.07e-18	7.58e-21	17100	46.8	22000	43.6	1.07
253	10	MA0482.2	GATA4	MA0482.2	NNCCTTATCTNH	GATA4	5.32e-18	9.86e-21	10900	30.1	13700	27.2	1.11
254	45	MA0144.2	STAT3	MA0144.2	YTTCYKGGAAD	STAT3	7.51e-18	1.39e-20	22700	62.5	29900	59.4	1.05
255	30	MA1131.1	FOSL2::JUN	MA1131.1	GRTGACGTMAT	FOSL2::JUN	1.43e-17	2.62e-20	24900	68.5	33000	65.5	1.05
256	46	MA1479.1	DMRTC2	MA1479.1	AATTGMTACATT	DMRTC2	1.7e-17	3.12e-20	26900	73.9	35800	71.1	1.04
257	11	MA1125.1	ZNF384	MA1125.1	DNWMAAAAAAAA	ZNF384	3.65e-17	6.66e-20	17200	47.2	22200	44	1.07
258	4	MA0087.2	Sox5	MA0087.2	VRVAACAATGGNN	Sox5	4.41e-17	8.02e-20	26400	72.5	35100	69.7	1.04
259	3	MA0874.1	Arx	MA0874.1	VTBCRYTAATTARTKSW	Arx	4.91e-17	8.9e-20	12400	34	15700	31.1	1.09
260	47	MA1150.1	RORB	MA1150.1	AWWTRGGTCAH	RORB	2.2e-16	3.98e-19	34900	95.8	47500	94.4	1.01
261	11	MA0851.1	Foxj3	MA0851.1	NDAADGTAAACAAANNM	Foxj3	2.27e-16	4.07e-19	17500	48	22600	44.9	1.07
262	3	MA0887.1	EVX1	MA0887.1	VVTAATTABS	EVX1	3.44e-16	6.16e-19	34800	95.6	47400	94.2	1.01
263	8	MA1962.1	POU2F1::SOX2	MA1962.1	MATTTRCATMACAATRG	POU2F1::SOX2	3.63e-16	6.47e-19	10400	28.7	13100	26	1.1
264	11	MA0847.3	FOXD2	MA0847.3	SYTAARYAAACA	FOXD2	3.82e-16	6.78e-19	20800	57.2	27300	54.2	1.06
265	48	MA1593.1	ZNF317	MA1593.1	WVACAGCAGAYW	ZNF317	1.04e-15	1.84e-18	32400	88.9	43800	86.9	1.02
266	49	MA1523.1	MSANTD3	MA1523.1	STVCACTCAC	MSANTD3	1.05e-15	1.85e-18	31000	85.1	41700	82.8	1.03
267	46	MA1707.1	DMRTA1	MA1707.1	AWTTGWTACAWT	DMRTA1	2.03e-15	3.56e-18	27700	76	37000	73.4	1.04
268	40	MA1114.1	PBX3	MA1114.1	NNNTGAGTGACAGGBNN	PBX3	6.06e-15	1.06e-17	21000	57.7	27600	54.8	1.05
269	43	MA1119.1	SIX2	MA1119.1	NNCTGAAACCTGATMY	SIX2	7.31e-15	1.27e-17	31800	87.4	43000	85.4	1.02
270	19	MA0907.1	HOXC13	MA0907.1	BCTCGTAAAAH	HOXC13	7.6e-15	1.32e-17	16900	46.5	21900	43.6	1.07
271	19	MA0906.1	HOXC12	MA0906.1	RGTCGTAAAAH	HOXC12	2.69e-14	4.64e-17	12800	35	16300	32.3	1.08
272	10	MA0140.2	GATA1::TAL1	MA0140.2	MTTATCWSNNNNNHVCAG	GATA1::TAL1	2.69e-14	4.64e-17	10700	29.4	13500	26.8	1.1
273	36	MA0152.2	Nfatc2	MA0152.2	NNRNAATGGAAANWNH	Nfatc2	6.76e-14	1.16e-16	33800	93	46000	91.4	1.02
274	50	MA0092.1	Hand1::Tcf3	MA0092.1	BRTCTGGMWT	Hand1::Tcf3	7.85e-14	1.34e-16	18400	50.5	24000	47.6	1.06
275	30	MA1127.1	FOSB::JUN	MA1127.1	GATGACGTCAT	FOSB::JUN	1.23e-13	2.09e-16	27000	74.2	36100	71.7	1.03
276	30	MA0093.3	USF1	MA0093.3	NDGTCATGTGACHN	USF1	3.22e-13	5.48e-16	21200	58.2	27900	55.4	1.05
277	38	MA0624.2	Nfatc1	MA0624.2	NVATGGAAAAWN	Nfatc1	3.29e-13	5.58e-16	33000	90.7	44800	89	1.02
278	28	MA1121.1	TEAD2	MA1121.1	NYACATTCCWNNS	TEAD2	4.64e-13	7.84e-16	24300	66.8	32300	64.2	1.04
279	51	MA1524.2	Msgn1	MA1524.2	VRRRACAAATGGTNNN	Msgn1	5.09e-13	8.56e-16	21200	58.3	28000	55.5	1.05
280	18	MA0768.2	Lef1	MA0768.2	NNBCCTTTGATSTN	Lef1	6.13e-13	1.03e-15	15800	43.4	20500	40.7	1.07
281	3	MA0896.1	Hmx1	MA0896.1	VSVAGCAATTAAWGVDB	Hmx1	2.4e-12	4.01e-15	9450	26	11900	23.6	1.1
282	30	MA1112.2	NR4A1	MA1112.2	NNAAAGGTCANN	NR4A1	2.55e-12	4.24e-15	23700	65	31400	62.4	1.04
283	9	MA1645.1	NKX2-2	MA1645.1	NNNCCACTCAANNN	NKX2-2	2.57e-12	4.26e-15	33100	90.9	45000	89.3	1.02
284	52	MA1588.1	ZNF136	MA1588.1	RWATTCTTGGTTGRC	ZNF136	8.44e-12	1.39e-14	11400	31.4	14600	29	1.08
285	4	MA0442.2	SOX10	MA0442.2	NDAACAAAGVN	SOX10	1.88e-11	3.09e-14	18300	50.1	23900	47.6	1.05
286	30	MA1139.1	FOSL2::JUNB	MA1139.1	DATGACGTCATH	FOSL2::JUNB	4.63e-11	7.6e-14	19700	54.2	26000	51.7	1.05
287	36	MA1953.1	FOXO1::ELF1	MA1953.1	RTMAACAGGAAGTN	FOXO1::ELF1	5.4e-11	8.82e-14	31900	87.6	43300	85.9	1.02
288	22	MA0849.1	FOXO6	MA0849.1	GTAAACA	FOXO6	6.09e-11	9.93e-14	2880	7.9	3310	6.58	1.2
289	21	MA0063.2	NKX2-5	MA0063.2	NNCACTCAANN	NKX2-5	8.29e-11	1.35e-13	35500	97.4	48600	96.5	1.01
290	37	MA0884.2	DUXA	MA0884.2	YTRATTWAATYAR	DUXA	8.61e-11	1.39e-13	5960	16.4	7320	14.6	1.13
291	53	MA0596.1	SREBF2	MA0596.1	RTGGGGTGAY	SREBF2	8.75e-11	1.41e-13	7110	19.5	8840	17.6	1.11
292	12	MA0773.1	MEF2D	MA0773.1	DCTAWAAATAGM	MEF2D	1.07e-10	1.71e-13	4610	12.7	5560	11	1.15
293	54	MA1975.1	ZNF214	MA1975.1	VWTCATCAABGTCCT	ZNF214	1.08e-10	1.74e-13	22500	61.7	29800	59.2	1.04
294	45	MA1624.1	Stat5a	MA1624.1	NTTCCAAGAANH	Stat5a	1.26e-10	2.01e-13	28900	79.4	39000	77.4	1.03
295	30	MA1111.1	NR2F2	MA1111.1	NAAAGGTCANR	NR2F2	1.56e-10	2.47e-13	31200	85.8	42300	84	1.02
296	35	MA0038.2	GFI1	MA0038.2	BMAATCACDGCA	GFI1	2.1e-10	3.33e-13	6610	18.2	8200	16.3	1.12
297	15	MA0683.1	POU4F2	MA0683.1	RTGCATAATTAATGAG	POU4F2	4.32e-10	6.83e-13	6170	17	7630	15.2	1.12
298	51	MA0620.3	MITF	MA0620.3	NNNDRTCACGTGAYHNNN	MITF	9.29e-10	1.46e-12	18500	50.9	24400	48.5	1.05
299	55	MA0508.3	PRDM1	MA0508.3	YNCTTTCTCTH	PRDM1	1.72e-09	2.69e-12	28400	77.9	38200	75.9	1.03
300	9	MA1644.1	NFYC	MA1644.1	RDCCAATCASN	NFYC	2.14e-09	3.35e-12	7840	21.5	9870	19.6	1.1
301	19	MA0908.1	HOXD11	MA0908.1	RTCGTAAAAH	HOXD11	2.17e-09	3.39e-12	4940	13.6	6030	12	1.13
302	36	MA1709.1	ZIM3	MA1709.1	RVMAACAGAAACCYM	ZIM3	2.48e-09	3.85e-12	19900	54.6	26300	52.3	1.05
303	30	MA0488.1	JUN	MA0488.1	DDRATGATGTCAT	JUN	2.75e-09	4.26e-12	6060	16.6	7510	14.9	1.12
304	37	MA1720.1	ZNF85	MA1720.1	DHDGAGATTACWKCAK	ZNF85	2.84e-09	4.38e-12	22100	60.8	29400	58.4	1.04
305	46	MA1478.1	DMRTA2	MA1478.1	AATTGHTACAWT	DMRTA2	3.47e-09	5.34e-12	32300	88.6	43800	87.1	1.02
306	51	MA0698.1	ZBTB18	MA0698.1	NATCCAGATGTKB	ZBTB18	4.5e-09	6.9e-12	12300	33.9	16000	31.7	1.07
307	4	MA0515.1	Sox6	MA0515.1	CCWTTGTYYY	Sox6	6.64e-09	1.01e-11	4270	11.7	5180	10.3	1.14
308	56	MA0479.1	FOXH1	MA0479.1	BNSAATCCACA	FOXH1	9.19e-09	1.4e-11	3880	10.6	4670	9.27	1.15
309	30	MA1143.1	FOSL1::JUND	MA1143.1	RTGACGTMAY	FOSL1::JUND	1.46e-08	2.22e-11	33100	91	45200	89.7	1.02
310	47	MA1151.1	RORC	MA1151.1	NWAWNTRGGTCA	RORC	1.61e-08	2.43e-11	33100	91	45100	89.6	1.02
311	32	MA0757.1	ONECUT3	MA0757.1	AAAAAATCRATAAH	ONECUT3	1.63e-08	2.46e-11	10200	28	13100	26	1.08
312	21	MA1994.1	Nkx2-1	MA1994.1	NVCACTTGARHNN	Nkx2-1	2.68e-08	4.02e-11	34500	94.8	47200	93.8	1.01
313	57	MA0161.2 (NFIC)	STREME-4	4-TGCCTGGCACA	TGCCTGGCACA	NFIC	2.84e-08	4.26e-11	267	0.73	201	0.4	1.83
314	43	MA2001.1	Six4	MA2001.1	GDAACCTGANH	Six4	3.97e-08	5.94e-11	35400	97.3	48600	96.5	1.01
315	30	MA0631.1	Six3	MA0631.1	DATRGGGTATCAYNWNT	Six3	5.63e-08	8.39e-11	14700	40.4	19200	38.2	1.06
316	58	MA0691.1	TFAP4	MA0691.1	AWCAGCTGWT	TFAP4	1.14e-07	1.7e-10	6440	17.7	8090	16.1	1.1
317	59	MA1643.1	NFIB	MA1643.1	NNCCTGGCAYNGTGCCAAGNN	NFIB	1.6e-07	2.36e-10	1700	4.66	1910	3.79	1.23
318	60	MA1561.1	SOX12	MA1561.1	ACCGAACAATV	SOX12	2.12e-07	3.12e-10	25900	71.2	34800	69.2	1.03
319	19	MA1503.1	HOXB9	MA1503.1	GTCGTAAAAH	HOXB9	2.19e-07	3.22e-10	2290	6.29	2660	5.29	1.19
320	22	MA0040.1	Foxq1	MA0040.1	HATTGTTTATW	Foxq1	2.29e-07	3.36e-10	6320	17.4	7940	15.8	1.1
321	61	MA0060.3	NFYA	MA0060.3	RRCCAATCAGM	NFYA	2.62e-07	3.83e-10	6040	16.6	7570	15	1.1
322	3	MA0468.1	DUX4	MA0468.1	TAAYYYAATCA	DUX4	3.67e-07	5.35e-10	6020	16.5	7550	15	1.1
323	61	MA0502.2	NFYB	MA0502.2	CYCATTGGCCVV	NFYB	4.22e-07	6.13e-10	1390	3.83	1540	3.06	1.25
324	51	MA0678.1	OLIG2	MA0678.1	AMCATATGKT	OLIG2	5.4e-07	7.83e-10	20700	56.8	27500	54.7	1.04
325	40	MA0775.1	MEIS3	MA0775.1	DTGACAGS	MEIS3	5.54e-07	8e-10	1800	4.94	2050	4.08	1.21
326	62	MA1980.1	ZNF418	MA1980.1	MDGAGGCTAAAAGCA	ZNF418	6.14e-07	8.84e-10	20000	54.9	26600	52.8	1.04
327	51	MA0669.1	NEUROG2	MA0669.1	RACATATGTC	NEUROG2	7.73e-07	1.11e-09	13200	36.2	17200	34.2	1.06
328	3	MA0897.1	Hmx2	MA0897.1	ASAAGCAATTAAHVVRT	Hmx2	7.85e-07	1.12e-09	7270	20	9240	18.4	1.09
329	9	MA1473.1	CDX4	MA1473.1	GGYMATAAAAC	CDX4	9.45e-07	1.35e-09	2960	8.12	3540	7.03	1.15
330	22	MA0593.1	FOXP2	MA0593.1	RWGTAAACAVR	FOXP2	1.48e-06	2.11e-09	8660	23.8	11100	22.1	1.08
331	19	MA1506.1	HOXD10	MA1506.1	RGTCGTAAAAH	HOXD10	1.69e-06	2.39e-09	5450	15	6820	13.6	1.1
332	30	MA0693.3	Vdr	MA0693.3	NNGAGTTCANN	Vdr	2.23e-06	3.16e-09	35500	97.6	48800	97	1.01
333	51	MA0461.2	Atoh1	MA0461.2	RMCATATGBY	Atoh1	2.56e-06	3.6e-09	12600	34.7	16500	32.8	1.06
334	28	MA0114.4	HNF4A	MA0114.4	DNCAAAGTCCANN	HNF4A	2.77e-06	3.89e-09	35100	96.5	48200	95.7	1.01
335	53	MA0595.1	SREBF1	MA0595.1	VTCACCCCAY	SREBF1	2.9e-06	4.07e-09	7500	20.6	9570	19	1.08
336	59	MA0119.1	NFIC::TLX1	MA0119.1	TGGCASSRWGCCAA	NFIC::TLX1	4.52e-06	6.32e-09	1570	4.32	1790	3.56	1.22
337	63	MA1124.1	ZNF24	MA1124.1	CATTCATTCATTC	ZNF24	7.2e-06	1e-08	3650	10	4470	8.88	1.13
338	28	MA0484.2	HNF4G	MA0484.2	DNCAAAGTCCANN	HNF4G	9.22e-06	1.28e-08	35100	96.4	48200	95.6	1.01
339	3	MA0135.1	Lhx3	MA0135.1	WAATTAATTAWYY	Lhx3	1.17e-05	1.62e-08	6460	17.7	8200	16.3	1.09
340	10	MA0029.1	Mecom	MA0029.1	AAGAYAAGATAANA	Mecom	1.38e-05	1.9e-08	4860	13.3	6080	12.1	1.11
341	18	MA0869.2	Sox11	MA0869.2	NRGAACAAAGVV	Sox11	1.4e-05	1.93e-08	16700	45.8	22100	43.9	1.04
342	30	MA1145.1	FOSL2::JUND	MA1145.1	NNRTGACGTCAYHSN	FOSL2::JUND	1.82e-05	2.5e-08	25200	69.2	33900	67.4	1.03
343	30	MA0492.1	JUND	MA0492.1	DDDRATGABGTCATN	JUND	2.65e-05	3.62e-08	6370	17.5	8100	16.1	1.09
344	45	MA0518.1	Stat4	MA0518.1	YTTCYRGGAARNVR	Stat4	3.16e-05	4.31e-08	19000	52.2	25300	50.3	1.04
345	64	MA0797.1	TGIF2	MA0797.1	TGACAGSTGTCA	TGIF2	5.35e-05	7.27e-08	3690	10.1	4560	9.05	1.12
346	30	MA0829.2	SREBF1	MA0829.2	DNATCACSTGATNH	SREBF1	6.05e-05	8.21e-08	17000	46.8	22600	45	1.04
347	30	MA1133.1	JUN::JUNB	MA1133.1	KRTGACGTCATN	JUN::JUNB	8.03e-05	1.09e-07	22300	61.2	29900	59.5	1.03
348	59	MA1527.1	NFIC	MA1527.1	NTTGGCDNNRTGCCARN	NFIC	9.65e-05	1.3e-07	1700	4.67	1990	3.95	1.18
349	30	MA1136.1	FOSB::JUNB	MA1136.1	RTGACGTCAT	FOSB::JUNB	0.000105	1.41e-07	23400	64.2	31400	62.5	1.03
350	47	MA0494.1	Nr1h3::Rxra	MA0494.1	TGACCTNNAGTRACCYYDN	Nr1h3::Rxra	0.000113	1.52e-07	25100	68.9	33800	67.2	1.02
351	65	MA1989.1	Bcl11B	MA1989.1	NNAAACCACAARNN	Bcl11B	0.000116	1.56e-07	27100	74.5	36700	72.9	1.02
352	36	MA1508.1	IKZF1	MA1508.1	VVAACAGGAARN	IKZF1	0.000132	1.76e-07	31300	86	42700	84.7	1.01
353	9	MA0913.2	HOXD9	MA0913.2	GYMATAAAAH	HOXD9	0.00014	1.87e-07	3060	8.42	3760	7.47	1.13
354	30	MA1126.1	FOS::JUN	MA1126.1	DRTGACGTCATHNDTN	FOS::JUN	0.000164	2.17e-07	33200	91.3	45400	90.3	1.01
355	66	MA0106.3	TP53	MA0106.3	RACATGYCCGGRCATGTY	TP53	0.000165	2.18e-07	278	0.76	246	0.49	1.56
356	67	MA0101.1	REL	MA0101.1	BGGRNWTTCC	REL	0.000174	2.29e-07	32000	87.9	43700	86.7	1.01
357	68	MA0136.3	Elf5	MA0136.3	RVAAGGAAGTNN	Elf5	0.000217	2.85e-07	35800	98.4	49300	97.9	1
358	30	MA1129.1	FOSL1::JUN	MA1129.1	ATGACGTCAT	FOSL1::JUN	0.000362	4.75e-07	23700	65.1	31900	63.4	1.03
359	3	MA0784.2	POU1F1	MA0784.2	ANCTMATTWGCATAWT	POU1F1	0.000631	8.24e-07	4870	13.4	6170	12.3	1.09
360	36	MA1952.1	FOXJ2::ELF1	MA1952.1	RTAAACMGGAAGTR	FOXJ2::ELF1	0.000663	8.63e-07	32400	88.9	44200	87.8	1.01
361	51	MA1618.1	Ptf1a	MA1618.1	NNACAGATGTTNN	Ptf1a	0.00077	1e-06	34500	94.8	47400	94.1	1.01
362	51	MA0744.2	SCRT2	MA0744.2	NNWGCAACAGGTGDNN	SCRT2	0.000789	1.02e-06	31800	87.4	43400	86.3	1.01
363	51	MA0827.1	OLIG3	MA0827.1	AMCATATGBY	OLIG3	0.000845	1.09e-06	24700	67.8	33300	66.2	1.02
364	32	MA0780.1	PAX3	MA0780.1	TAATYRATTA	PAX3	0.000922	1.19e-06	4810	13.2	6110	12.1	1.09
13	74	TTGAGSYCAGGAGTT	MEME-6	TTGAGSYCAGGAGTT	TTGAGSYCAGGAGTT	TTGAGSYCAGGAGTT	0.0011	8.47e-05	683	1.88	773	1.54	1.22
365	22	MA0030.1	FOXF2	MA0030.1	BNAASGTAAACAAD	FOXF2	0.00119	1.53e-06	4580	12.6	5800	11.5	1.09
366	59	MA1528.1	NFIX	MA1528.1	STTGGCRNNGTGCCARB	NFIX	0.00142	1.81e-06	2880	7.91	3560	7.07	1.12
367	69	MA1592.1	ZNF274	MA1592.1	NRTRTGAGTTCTCGYN	ZNF274	0.00311	3.98e-06	7670	21.1	9980	19.8	1.06
368	70	MA0520.1	Stat6	MA0520.1	BDBTTCCWSAGAAVY	Stat6	0.00419	5.34e-06	10100	27.8	13300	26.5	1.05
369	51	MA0826.1	OLIG1	MA0826.1	AMCATATGKT	OLIG1	0.00524	6.67e-06	8720	24	11400	22.7	1.06
370	26	MA0639.1	DBP	MA0639.1	NRTTACGTAAYV	DBP	0.00547	6.93e-06	6230	17.1	8050	16	1.07
371	22	MA0613.1	FOXG1	MA0613.1	RTAAACAW	FOXG1	0.00572	7.23e-06	5560	15.3	7160	14.2	1.07
372	30	MA0592.3	ESRRA	MA0592.3	NBTCAAGGTCAHN	ESRRA	0.00604	7.62e-06	33000	90.6	45200	89.7	1.01
373	58	MA0633.2	Twist2	MA0633.2	NVCAGCTGBN	Twist2	0.00714	8.98e-06	5010	13.8	6420	12.8	1.08
374	18	MA1421.1	TCF7L1	MA1421.1	AAAGATCAAAGG	TCF7L1	0.00734	9.21e-06	3390	9.31	4260	8.47	1.1
375	14	MA0877.3	BARHL1	MA0877.3	AMCGTTTA	BARHL1	0.0129	1.61e-05	8070	22.2	10600	21	1.06
376	36	MA0517.1	STAT1::STAT2	MA0517.1	THAGTTTCRKTTTCY	STAT1::STAT2	0.0136	1.7e-05	17200	47.1	23000	45.7	1.03
377	57	MA0161.2	NFIC	MA0161.2	NNCTTGGCANN	NFIC	0.0164	2.04e-05	35200	96.6	48400	96.1	1.01
378	11	MA1487.2	FOXE1	MA1487.2	VYTAAAYAAACAAH	FOXE1	0.0174	2.17e-05	553	1.52	600	1.19	1.27
379	71	MA0484.2 (HNF4G)	STREME-6	6-CAAAGTGCTGGG	CAAAGTGCTGGG	HNF4G	0.0182	2.25e-05	301	0.83	297	0.59	1.4
380	30	MA1996.1	Nr1H2	MA1996.1	NNRAGGTCANN	Nr1H2	0.0195	2.41e-05	34900	96	48000	95.4	1.01
381	30	MA0629.1	Rhox11	MA0629.1	ANKNCGCTGTWAWDVRW	Rhox11	0.0204	2.51e-05	14800	40.7	19800	39.4	1.03
382	72	MA0682.2 (PITX1)	MEME-4	WGCTGGGATTACAGG	WGCTGGGATTACAGG	PITX1	0.023	2.83e-05	900	2.47	1040	2.06	1.2
383	58	MA0667.1	MYF6	MA0667.1	AACARCTGTT	MYF6	0.0357	4.37e-05	5340	14.7	6910	13.7	1.07
384	19	MA0485.2	HOXC9	MA0485.2	GTCGTAAAAH	HOXC9	0.0361	4.41e-05	3250	8.94	4120	8.18	1.09
385	45	MA1625.1	Stat5b	MA1625.1	NNNTTCCCAGAANNN	Stat5b	0.0364	4.44e-05	20200	55.6	27300	54.3	1.02
386	66	MA0525.2	TP63	MA0525.2	RACATGTYGKGACATGTC	TP63	0.0376	4.57e-05	275	0.76	271	0.54	1.4
387	73	MA0069.1	PAX6	MA0069.1	TTCACGCWTSANTK	PAX6	0.0385	4.66e-05	27900	76.6	38000	75.4	1.02
14	75	MA0090.3 (TEAD1)	MEME-5	CTGCACTCCAGCCTG	CTGCACTCCAGCCTG	TEAD1	0.105	0.00752	3540	9.72	4640	9.21	1.05
15	76	MA1596.1 (ZNF460)	MEME-7	RGAGGCWGAGGSAGG	RGAGGCWGAGGSAGG	ZNF460	0.329	0.0219	74	0.2	72	0.14	1.42
16	76	MA1653.1 (ZNF148)	MEME-3	CCCDSCCCCKCCYCC	CCCDSCCCCKCCYCC	ZNF148	5.87	0.367	142	0.39	188	0.37	1.05

EPI_24_20kb_combo %>% 
   dplyr::filter(ENR_RATIO>ER_rat) %>%
  dplyr::select(RANK,CLUSTER,motif_name,SIM_MOTIF,ALT_ID, ID,EVALUE.y,TP.)%>%
  arrange(.,EVALUE.y) %>%
  slice_head(n=80)%>% 
  mutate(log10Evalue= log(EVALUE.y, base = 10)*(-1)) %>% 
  mutate(motif_name=if_else(str_starts(motif_name,"^Z*"),paste(motif_name, RANK, sep="_"), if_else(motif_name=="KLF9",paste(motif_name, RANK,sep="_"),motif_name)))%>%
  ggplot(., aes (y= reorder(motif_name,log10Evalue))) +
  geom_col(aes(x=log10Evalue)) +
  geom_point(aes(x=`TP.`*1.25), size =4)+
  scale_x_continuous(expand=c (0,.125),sec.axis = sec_axis(transform= ~./1.25,name="Percent of peaks with motif"))+
  theme_classic()+
  ylab("Enriched TF motif")+
  ggtitle(paste("EPI_24_20kb_combo response peaks(200bp)Enrichment ratio:",ER_rat))

EPI_24_20kb_combo %>% 
   dplyr::filter(ENR_RATIO>ER_rat) %>%
  dplyr::select(RANK,CLUSTER,motif_name,SIM_MOTIF,ALT_ID, ID,EVALUE.y,TP.)%>%
  arrange(.,EVALUE.y) %>%
  dplyr::filter(EVALUE.y<0.05) %>% 
    mutate(log10Evalue = -log10(if_else(EVALUE.y == 0, 1e-300, EVALUE.y))) %>% 
  distinct(CLUSTER,.keep_all = TRUE) %>% 
  # slice_head(n=5) %>% 
  mutate(motif_name=if_else(str_starts(motif_name,"^Z*"),paste(motif_name, RANK, sep="_"), if_else(motif_name=="KLF9",paste(motif_name, RANK,sep="_"),motif_name)))%>%
  ggplot(., aes (y= reorder(motif_name,log10Evalue))) +
  geom_col(aes(x=log10Evalue)) +
  geom_point(aes(x=`TP.`*15), size =4)+
  scale_x_continuous(expand=c (0,.125),sec.axis = sec_axis(transform= ~./15,name="Percent of peaks with motif"))+
  theme_classic()+
  ylab("Enriched TF motif")+
  ggtitle(paste("EPI_24_20kb_combo response peaks(200bp)Enrichment ratio:",ER_rat))

DNR

DNR_DAR 24 20kb DAR DEG data

DNR_24_20kb_sea_disc <- read.delim("C:/Users/renee/ATAC_folder/ATAC_meme_data/new_analysis/DNR_24_20kb_xstreme/sea_disc_out/sea.tsv") %>% mutate(source="disc") %>% slice_head(n = length(.$ID)-3)
DNR_24_20kb_sea_known <- read.delim("C:/Users/renee/ATAC_folder/ATAC_meme_data/new_analysis/DNR_24_20kb_xstreme/sea_out/sea.tsv") %>% mutate(source="known") %>% slice_head(n = length(.$ID)-3)
DNR_24_20kb_xstreme <- read.delim("C:/Users/renee/ATAC_folder/ATAC_meme_data/new_analysis/DNR_24_20kb_xstreme/xstreme.tsv") %>% slice_head(n = length(.$ID)-3)
DNR_24_20kb_sea_all <- rbind(DNR_24_20kb_sea_disc, DNR_24_20kb_sea_known) %>% 
  arrange(ID, desc(source == "known")) %>%  
  distinct(ID, .keep_all = TRUE)

DNR_24_20kb_combo <- DNR_24_20kb_xstreme %>% 
  dplyr::select(SEED_MOTIF:EVALUE_ACC,SIM_MOTIF) %>% 
  left_join(., DNR_24_20kb_sea_all, by=c("ID"="ID","ALT_ID"="ALT_ID")) %>% 
  mutate(motif_name=case_when(
    str_detect(SIM_MOTIF, "\\(") ~ str_extract(SIM_MOTIF, "(?<=\\().+?(?=\\))"),
    str_detect(SIM_MOTIF, "^MA\\d+\\.\\d+") ~ ALT_ID,
    str_detect(SIM_MOTIF, "^\\d+-") ~ str_replace(SIM_MOTIF, "^\\d+-", ""),
  TRUE ~ SIM_MOTIF
)) %>% 
  dplyr::select(RANK,CLUSTER,SIM_MOTIF,ALT_ID, ID,CONSENSUS.x,motif_name,EVALUE.y,QVALUE,TP:ENR_RATIO) %>% 
  arrange(.,EVALUE.y) 

DNR_24_20kb_combo %>% 
  dplyr::mutate_if(is.numeric, funs(as.character(signif(., 3)))) %>%
  kable(., caption = "Enriched motifs 200 bp in DNR 24h 20kb") %>%
  kable_paper("striped", full_width = TRUE) %>%
  kable_styling(full_width = FALSE, font_size = 16) %>%
  scroll_box(height = "500px")

Enriched motifs 200 bp in DNR 24h 20kb
RANK	CLUSTER	SIM_MOTIF	ALT_ID	ID	CONSENSUS.x	motif_name	EVALUE.y	QVALUE	TP	TP.	FP	FP.	ENR_RATIO
1	1	MA1134.1 (FOS::JUNB)	STREME-1	1-RATGASTCATY	RATGASTCATY	FOS::JUNB	1.07e-255	6.3e-256	4120	9.28	1530	3.63	2.56
2	1	MA1134.1	FOS::JUNB	MA1134.1	KATGASTCATHN	FOS::JUNB	7.89e-246	2.32e-246	5300	11.9	2340	5.53	2.16
3	1	MA1135.1	FOSB::JUNB	MA1135.1	KRTGASTCAT	FOSB::JUNB	7.37e-244	1.44e-244	5710	12.8	2630	6.21	2.07
4	1	MA0099.3	FOS::JUN	MA0099.3	ATGAGTCAYM	FOS::JUN	5.01e-243	7.36e-244	4760	10.7	2000	4.72	2.27
5	1	MA1144.1	FOSL2::JUND	MA1144.1	KATGACTCAT	FOSL2::JUND	5.84e-242	6.87e-243	5800	13.1	2700	6.39	2.04
6	1	MA1138.1	FOSL2::JUNB	MA1138.1	KRTGASTCAT	FOSL2::JUNB	2.96e-239	2.9e-240	5660	12.7	2620	6.19	2.06
7	1	MA0655.1 (JDP2)	MEME-2	ATGASTCA	ATGASTCA	JDP2	7.98e-237	6.71e-238	5960	13.4	2840	6.7	2
8	1	MA1130.1	FOSL2::JUN	MA1130.1	NNRTGAGTCAYN	FOSL2::JUN	3.8e-229	2.8e-230	4600	10.3	1940	4.59	2.25
9	1	MA1633.2	BACH1	MA1633.2	ATGACTCAT	BACH1	3.38e-226	2.21e-227	5920	13.3	2870	6.78	1.97
10	1	MA1141.1	FOS::JUND	MA1141.1	NKATGAGTCATNN	FOS::JUND	5.53e-226	3.25e-227	4650	10.5	1990	4.71	2.22
11	1	MA0491.2	JUND	MA0491.2	NNATGACTCATNN	JUND	2.3e-224	1.23e-225	3810	8.58	1460	3.45	2.48
12	1	MA0489.2	Jun	MA0489.2	NVTGACTCATNN	Jun	3.64e-220	1.79e-221	6120	13.8	3040	7.18	1.92
13	1	MA0490.2	JUNB	MA0490.2	NNATGACTCATNN	JUNB	1.06e-217	4.79e-219	3700	8.33	1420	3.35	2.49
14	1	MA0476.1	FOS	MA0476.1	DVTGASTCATB	FOS	9.53999999999999e-213	4.01e-214	6530	14.7	3380	7.98	1.84
15	1	MA1988.1	Atf3	MA1988.1	NRTGACTCABN	Atf3	1.6e-211	6.27e-213	4130	9.29	1720	4.05	2.29
16	1	MA1137.1	FOSL1::JUNB	MA1137.1	NDRTGACTCATNN	FOSL1::JUNB	4.27e-211	1.57e-212	4420	9.96	1910	4.52	2.2
17	1	MA0462.2	BATF::JUN	MA0462.2	DATGACTCATH	BATF::JUN	1.43e-209	4.97e-211	4220	9.5	1780	4.21	2.25
18	1	MA1634.1	BATF	MA1634.1	DATGACTCATH	BATF	1.19e-206	3.88e-208	3590	8.08	1390	3.29	2.46
19	1	MA0478.1	FOSL2	MA0478.1	KRRTGASTCAB	FOSL2	4.85e-205	1.5e-206	5900	13.3	2960	7.01	1.89
20	1	MA1128.1	FOSL1::JUN	MA1128.1	NKATGACTCATNN	FOSL1::JUN	7.93e-204	2.33e-205	3290	7.41	1220	2.88	2.58
21	1	MA0835.2	BATF3	MA0835.2	DATGACTCATH	BATF3	7.52e-202	2.11e-203	4050	9.11	1700	4.03	2.26
22	1	MA0477.2	FOSL1	MA0477.2	NNATGACTCATNN	FOSL1	3.97e-198	1.06e-199	3040	6.83	1080	2.55	2.67
23	1	MA0655.1	JDP2	MA0655.1	ATGACTCAT	JDP2	5.7e-197	1.46e-198	5380	12.1	2640	6.24	1.94
24	1	MA1142.1	FOSL1::JUND	MA1142.1	NRTGACTCAT	FOSL1::JUND	7.18e-186	1.76e-187	3610	8.13	1490	3.52	2.31
25	1	MA1101.2	BACH2	MA1101.2	DWANCATGASTCATSNTWH	BACH2	1.05e-178	2.47e-180	5340	12	2710	6.4	1.88
26	1	MA1928.1	BNC2	MA1928.1	NDRTGAGTCABN	BNC2	3.7e-169	8.37e-171	6080	13.7	3310	7.82	1.75
27	1	MA0841.1	NFE2	MA0841.1	VATGACTCATS	NFE2	8.74e-169	1.9e-170	7040	15.8	4040	9.55	1.66
28	1	MA1132.1	JUN::JUNB	MA1132.1	KATGACKCAT	JUN::JUNB	1.41e-128	2.97e-130	1910	4.3	659	1.56	2.76
29	1	MA0496.3	MAFK	MA0496.3	NGMTGACTCAGCMNH	MAFK	2.98e-80	6.05e-82	10100	22.8	7430	17.6	1.3
30	1	MA0501.1	MAF::NFE2	MA0501.1	ATGACTCAGCANWTY	MAF::NFE2	2.4e-71	4.7e-73	9320	21	6840	16.2	1.3
31	1	MA0089.2	MAFG::NFE2L1	MA0089.2	NVNATGACTCAGCADW	MAFG::NFE2L1	1.57e-64	2.99e-66	3060	6.88	1780	4.2	1.64
32	1	MA0659.3	Mafg	MA0659.3	NWGMTGACTCAGCAN	Mafg	3.63e-44	6.67e-46	3610	8.13	2390	5.66	1.44
33	2	6-ACATACACACAM	STREME-6	6-ACATACACACAM	ACATACACACAM	ACATACACACAM	1.55e-41	2.76e-43	1020	2.29	458	1.08	2.12
34	1	MA0150.2	Nfe2l2	MA0150.2	CASNATGACTCAGCA	Nfe2l2	7.34e-41	1.27e-42	14700	33	12100	28.6	1.15
35	2	4-ACACACATACA	STREME-4	4-ACACACATACA	ACACACATACA	ACACACATACA	2.47e-34	4.15e-36	1070	2.41	533	1.26	1.91
36	2	TGTGTGTGTGT	MEME-4	TGTGTGTGTGT	TGTGTGTGTGT	TGTGTGTGTGT	1.55e-31	2.53e-33	1900	4.28	1170	2.76	1.55
37	2	MA1107.2 (KLF9)	STREME-2	2-CACACACACAC	CACACACACAC	KLF9	5.05e-29	8.03e-31	1670	3.76	1010	2.39	1.57
38	3	MA1990.1 (Gli1)	STREME-8	8-CACACACCACACAYA	CACACACCACACAYA	Gli1	1.71e-28	2.65e-30	169	0.38	17	0.04	8.99
39	2	MA1155.1 (ZSCAN4)	STREME-5	5-TGCACACACACA	TGCACACACACA	ZSCAN4	1.25e-25	1.89e-27	1360	3.06	803	1.9	1.61
40	4	3-ATGTGTG	STREME-3	3-ATGTGTG	ATGTGTG	ATGTGTG	5.08e-24	7.48e-26	29600	66.6	26700	63.1	1.05
41	5	MA0707.2	MNX1	MA0707.2	VYRATTAK	MNX1	1.62e-22	2.33e-24	24100	54.2	21400	50.7	1.07
42	5	MA0904.2	HOXB5	MA0904.2	STAATTAS	HOXB5	4.47e-22	6.27e-24	24400	55	21800	51.5	1.07
43	5	MA1495.1	HOXA1	MA1495.1	STAATTAS	HOXA1	1.24e-20	1.7e-22	24100	54.2	21500	50.8	1.07
44	5	MA1519.1	LHX5	MA1519.1	STAATTAV	LHX5	3.89e-20	5.2e-22	18400	41.4	16100	38.1	1.09
45	5	MA0158.2	HOXA5	MA0158.2	GYMATTAS	HOXA5	6e-20	7.85e-22	20300	45.7	17900	42.4	1.08
46	6	MA0626.1	Npas2	MA0626.1	NSCACGTGTN	Npas2	2.66e-18	3.4e-20	18500	41.6	16300	38.5	1.08
47	1	MA0591.1	Bach1::Mafk	MA0591.1	RSSATGACTCAGCAB	Bach1::Mafk	6.06e-18	7.59e-20	6670	15	5420	12.8	1.17
48	5	MA0886.1	EMX2	MA0886.1	VBTAATTARB	EMX2	1.47e-17	1.81e-19	28500	64.2	25900	61.2	1.05
49	5	MA0705.1	Lhx8	MA0705.1	CTAATTAV	Lhx8	6.22e-16	7.47e-18	24700	55.5	22200	52.6	1.06
50	5	MA0661.1	MEOX1	MA0661.1	VSTAATTAHC	MEOX1	4.86e-15	5.72e-17	19000	42.7	16800	39.8	1.07
51	7	MA1155.1	ZSCAN4	MA1155.1	TGCACACACTGAAAA	ZSCAN4	2.91e-14	3.36e-16	1040	2.33	656	1.55	1.5
52	5	MA0912.2	HOXD3	MA0912.2	CTAATTAC	HOXD3	7.43e-14	8.41e-16	15000	33.9	13200	31.2	1.08
53	8	MA0041.2	FOXD3	MA0041.2	WAWGHAAATAAACARY	FOXD3	1.09e-13	1.21e-15	33100	74.6	30500	72.1	1.03
54	8	MA1606.1	Foxf1	MA1606.1	DWRTAAACANN	Foxf1	2.55e-13	2.75e-15	39500	88.8	36800	87.1	1.02
55	5	MA0902.2	HOXB2	MA0902.2	SYAATTAS	HOXB2	2.57e-13	2.75e-15	16000	36.1	14200	33.5	1.08
56	9	MA1115.1	POU5F1	MA1115.1	WHATGCAAATN	POU5F1	6.76e-13	7.1e-15	34200	77	31600	74.7	1.03
57	5	MA0612.2	EMX1	MA0612.2	BTAATTAS	EMX1	1.74e-12	1.79e-14	14500	32.7	12800	30.2	1.08
58	8	MA0846.1	FOXC2	MA0846.1	WAWGTAAACAWW	FOXC2	2.02e-12	2.05e-14	36600	82.4	34000	80.4	1.03
59	5	MA0910.2	HOXD8	MA0910.2	GYMATTAM	HOXD8	2.27e-12	2.27e-14	23000	51.9	20800	49.2	1.05
60	10	MA1143.1	FOSL1::JUND	MA1143.1	RTGACGTMAY	FOSL1::JUND	2.4e-12	2.35e-14	16000	36	14200	33.5	1.08
61	1	MA1639.1	MEIS1	MA1639.1	NHCATMAATCAHN	MEIS1	3.26e-12	3.14e-14	33900	76.3	31300	74	1.03
62	9	MA0792.1	POU5F1B	MA0792.1	TATGCWAAT	POU5F1B	3.4e-12	3.23e-14	35600	80.1	33000	77.9	1.03
63	5	MA0706.1	MEOX2	MA0706.1	DSTAATTAWN	MEOX2	5.85e-12	5.46e-14	25400	57.2	23100	54.6	1.05
64	5	MA0027.2	EN1	MA0027.2	SYAATTAV	EN1	6.26e-12	5.75e-14	32400	72.8	29800	70.5	1.03
65	11	MA0502.2 (NFYB)	STREME-9	9-CRGCCAATGG	CRGCCAATGG	NFYB	8.75e-12	7.91e-14	286	0.64	123	0.29	2.2
66	13	MA0766.2	GATA5	MA0766.2	SWGATAASRN	GATA5	8.88e-12	7.91e-14	7680	17.3	6500	15.4	1.13
67	5	MA1502.1	HOXB8	MA1502.1	GYMATTAM	HOXB8	9.3e-12	8.16e-14	22800	51.4	20700	48.8	1.05
68	8	MA0845.1	FOXB1	MA0845.1	WATGTAAATAT	FOXB1	1.31e-11	1.14e-13	34200	77	31600	74.8	1.03
69	6	MA0093.3	USF1	MA0093.3	NDGTCATGTGACHN	USF1	1.33e-11	1.14e-13	35700	80.4	33100	78.3	1.03
70	12	MA0676.1	Nr2e1	MA0676.1	AAAAGTCAA	Nr2e1	1.66e-11	1.39e-13	12600	28.3	11000	26	1.09
71	13	MA0036.3 (GATA2)	STREME-10	10-WGATAAG	10-WGATAAG	GATA2	2.08e-11	1.73e-13	28900	65	26500	62.5	1.04
72	11	MA0502.2	NFYB	MA0502.2	CYCATTGGCCVV	NFYB	2.59e-11	2.12e-13	2650	5.97	2040	4.81	1.24
73	14	MA0106.3	TP53	MA0106.3	RACATGYCCGGRCATGTY	TP53	2.7e-11	2.18e-13	5100	11.5	4190	9.9	1.16
74	5	MA1530.1	NKX6-3	MA1530.1	VYCATTAWW	NKX6-3	5.68e-11	4.52e-13	23700	53.2	21500	50.7	1.05
75	9	MA0142.1	Pou5f1::Sox2	MA0142.1	CWTTGTYATGCAAAT	Pou5f1::Sox2	6.16e-11	4.83e-13	31500	70.9	29000	68.6	1.03
76	15	MA0148.4	FOXA1	MA0148.4	WWGTAAACATNN	FOXA1	6.52e-11	5.05e-13	36800	82.8	34200	80.8	1.02
77	1	MA1640.1	MEIS2	MA1640.1	NNATGATTTATGDNH	MEIS2	7.83e-11	5.98e-13	35500	79.8	32900	77.8	1.03
78	9	MA0786.1	POU3F1	MA0786.1	WTATGCWAATKW	POU3F1	1.16e-10	8.72e-13	34200	77	31700	74.8	1.03
79	1	MA1113.2	PBX2	MA1113.2	NHCATAAATCAHN	PBX2	1.64e-10	1.22e-12	30300	68.2	27900	65.9	1.04
80	9	MA0785.1	POU2F1	MA0785.1	AWTATGCWAATK	POU2F1	2.42e-10	1.78e-12	32100	72.3	29700	70.1	1.03
81	15	MA0848.1	FOXO4	MA0848.1	GTAAACA	FOXO4	2.62e-10	1.9e-12	36200	81.5	33600	79.5	1.02
82	9	MA0789.1	POU3F4	MA0789.1	TATGCWAAT	POU3F4	2.89e-10	2.07e-12	29200	65.7	26800	63.4	1.04
83	8	MA1683.1	FOXA3	MA1683.1	DWGTAAACANN	FOXA3	3.57e-10	2.53e-12	34400	77.3	31800	75.3	1.03
84	5	MA0879.2	DLX1	MA0879.2	VYAATTAN	DLX1	3.78e-10	2.65e-12	34000	76.4	31400	74.3	1.03
85	5	MA1505.1	HOXC8	MA1505.1	KTAATTAM	HOXC8	6.16e-10	4.26e-12	33700	75.9	31200	73.8	1.03
86	15	MA0033.2	FOXL1	MA0033.2	RTAAACA	FOXL1	9.73e-10	6.66e-12	35800	80.4	33200	78.5	1.02
87	9	MA0787.1	POU3F2	MA0787.1	WTATGCWAATKA	POU3F2	9.93e-10	6.72e-12	29500	66.5	27200	64.2	1.04
88	5	MA0900.2	HOXA2	MA0900.2	STAATTAS	HOXA2	1.14e-09	7.6e-12	16400	36.8	14600	34.6	1.07
89	5	MA0675.1	NKX6-2	MA0675.1	NYMATTAA	NKX6-2	1.5e-09	9.93e-12	32300	72.7	29900	70.6	1.03
90	6	MA1108.2	MXI1	MA1108.2	NNCACATGBN	MXI1	1.55e-09	1.01e-11	19300	43.4	17400	41.1	1.06
91	8	MA0481.3	FOXP1	MA0481.3	NDGTAAACANH	FOXP1	1.63e-09	1.06e-11	38100	85.8	35600	84.1	1.02
92	8	MA0047.3	FOXA2	MA0047.3	RWGTAAACANN	FOXA2	2.26e-09	1.45e-11	39400	88.6	36900	87.1	1.02
93	23	MA0498.2	MEIS1	MA0498.2	HTGACAD	MEIS1	4.81e-09	3.04e-11	35500	79.8	33000	78	1.02
94	5	MA0701.2	LHX9	MA0701.2	CYAATTAR	LHX9	5.96e-09	3.73e-11	13200	29.8	11700	27.7	1.08
95	8	MA1103.2	FOXK2	MA1103.2	DDGTAAACANN	FOXK2	6.94e-09	4.3e-11	41000	92.3	38500	91	1.01
96	5	MA0644.2	ESX1	MA0644.2	YYAATTAN	ESX1	7.47e-09	4.58e-11	26900	60.6	24700	58.3	1.04
97	9	MA0627.2	POU2F3	MA0627.2	NWTATGCAAATNH	POU2F3	1.62e-08	9.8e-11	31900	71.7	29500	69.7	1.03
98	16	MA1479.1	DMRTC2	MA1479.1	AATTGMTACATT	DMRTC2	2e-08	1.2e-10	34600	77.9	32200	76	1.02
99	5	MA0708.2	MSX2	MA0708.2	SCAATTAV	MSX2	2.37e-08	1.41e-10	30900	69.6	28600	67.6	1.03
100	9	MA0788.1	POU3F3	MA0788.1	WWTATGCWAATTW	POU3F3	2.56e-08	1.5e-10	31300	70.4	28900	68.4	1.03
101	8	MA1978.1	ZNF354A	MA1978.1	HWAADWATAAATGRAYWAWTT	ZNF354A	2.63e-08	1.53e-10	32700	73.5	30300	71.5	1.03
102	5	MA1549.1	POU6F1	MA1549.1	RTAATGAGVN	POU6F1	4.01e-08	2.31e-10	25800	58.2	23700	56	1.04
103	5	MA0666.2	MSX1	MA0666.2	SCAATTAR	MSX1	4.56e-08	2.61e-10	28700	64.5	26400	62.4	1.03
104	17	MA1120.1	SOX13	MA1120.1	DVACAATGGNN	SOX13	4.92e-08	2.78e-10	38400	86.3	35900	84.8	1.02
105	5	MA0882.1	DLX6	MA0882.1	VYAATTAN	DLX6	5.95e-08	3.34e-10	38400	86.3	35900	84.8	1.02
106	18	MA0791.1	POU4F3	MA0791.1	RTGMATWATTAATGAR	POU4F3	6.01e-08	3.34e-10	26400	59.4	24200	57.3	1.04
107	5	MA0718.1	RAX	MA0718.1	RYYAATTARH	RAX	6.68e-08	3.67e-10	36200	81.4	33700	79.7	1.02
108	23	MA0117.2	Mafb	MA0117.2	AWWNTGCTGACD	Mafb	9.29e-08	5.06e-10	34500	77.5	32000	75.7	1.02
109	23	MA0842.2	NRL	MA0842.2	AAWWNTGCTGACG	NRL	9.86e-08	5.32e-10	6930	15.6	5950	14	1.11
110	10	MA0018.4	CREB1	MA0018.4	NNRTGATGTCAYN	CREB1	1.04e-07	5.59e-10	19200	43.3	17400	41.2	1.05
111	5	MA0887.1	EVX1	MA0887.1	VVTAATTABS	EVX1	1.48e-07	7.85e-10	30000	67.6	27700	65.6	1.03
112	5	MA0709.1	Msx3	MA0709.1	SCAATTAN	Msx3	1.82e-07	9.58e-10	23600	53	21500	50.9	1.04
113	5	MA0722.1	VAX1	MA0722.1	YTAATTAH	VAX1	2.48e-07	1.29e-09	25100	56.6	23100	54.5	1.04
114	5	MA0654.1	ISX	MA0654.1	YYAATTAR	ISX	3.63e-07	1.87e-09	23900	53.9	21900	51.8	1.04
115	5	MA0880.1	Dlx3	MA0880.1	NYAATTAN	Dlx3	4.06e-07	2.08e-09	24900	56.1	22900	54	1.04
116	5	MA0710.1	NOTO	MA0710.1	NYTAATTAVN	NOTO	6.04e-07	3.06e-09	24900	56.1	22900	54.1	1.04
117	19	MA0611.2	Dux	MA0611.2	NTGATTBAATCAVWNN	Dux	7.78e-07	3.91e-09	13600	30.6	12200	28.7	1.06
118	5	MA1476.2	Dlx5	MA1476.2	NDGCAATTAGNN	Dlx5	8.72e-07	4.35e-09	37600	84.6	35200	83.1	1.02
119	20	MA0797.1	TGIF2	MA0797.1	TGACAGSTGTCA	TGIF2	8.86e-07	4.38e-09	13600	30.7	12200	28.8	1.06
120	21	MA0090.3	TEAD1	MA0090.3	NNACATTCCAGSN	TEAD1	1.05e-06	5.15e-09	33000	74.2	30600	72.4	1.02
121	5	MA0704.1	Lhx4	MA0704.1	YTAATTAR	Lhx4	1.21e-06	5.87e-09	37200	83.6	34700	82.1	1.02
122	5	MA0700.2	LHX2	MA0700.2	DDCCAATTADN	LHX2	1.38e-06	6.62e-09	33900	76.2	31500	74.5	1.02
123	15	MA0042.2	FOXI1	MA0042.2	GTAAACA	FOXI1	1.38e-06	6.62e-09	35200	79.2	32800	77.6	1.02
124	22	MA1124.1	ZNF24	MA1124.1	CATTCATTCATTC	ZNF24	2.21e-06	1.05e-08	22700	51.2	20800	49.2	1.04
125	5	MA0885.2	Dlx2	MA0885.2	NDGCAATTAGNN	Dlx2	3.34e-06	1.57e-08	36800	82.9	34400	81.4	1.02
126	5	MA0658.1	LHX6	MA0658.1	RCTAATTARY	LHX6	3.35e-06	1.57e-08	18700	42.2	17000	40.2	1.05
127	5	MA0889.1	GBX1	MA0889.1	VCYAATTASY	GBX1	4.57e-06	2.12e-08	18400	41.3	16700	39.4	1.05
128	23	MA0495.3 (MAFF)	STREME-7	7-CTGTCAGCACT	CTGTCAGCACT	MAFF	4.65e-06	2.14e-08	1140	2.57	843	1.99	1.29
129	24	MA1114.1	PBX3	MA1114.1	NNNTGAGTGACAGGBNN	PBX3	4.69e-06	2.14e-08	14500	32.6	13000	30.8	1.06
130	5	MA0793.1	POU6F2	MA0793.1	ASCTMATTAW	POU6F2	4.88e-06	2.21e-08	23800	53.6	21900	51.7	1.04
131	5	MA1960.1	MGA::EVX1	MA1960.1	RGGTGWTAATKD	MGA::EVX1	4.95e-06	2.22e-08	30100	67.6	27800	65.8	1.03
132	8	MA0032.2	FOXC1	MA0032.2	WAWGTAAAYAW	FOXC1	6.47e-06	2.88e-08	27300	61.5	25200	59.6	1.03
133	18	MA0790.1	POU4F1	MA0790.1	ATGMATAATTAATG	POU4F1	6.66e-06	2.95e-08	27800	62.5	25700	60.6	1.03
134	8	MA0480.2	Foxo1	MA0480.2	NDGTAAACANN	Foxo1	7e-06	3.07e-08	40300	90.7	37900	89.5	1.01
135	25	MA0755.1	CUX2	MA0755.1	TRATCGATAW	CUX2	7.1e-06	3.09e-08	24000	53.9	22000	52	1.04
136	5	MA0890.1	GBX2	MA0890.1	RSYAATTARN	GBX2	7.27e-06	3.15e-08	23800	53.5	21800	51.6	1.04
137	14	MA0861.1	TP73	MA0861.1	DRCATGTCNNRACAYGYM	TP73	7.8e-06	3.35e-08	7720	17.4	6740	15.9	1.09
138	20	MA0774.1	MEIS2	MA0774.1	TTGACAGS	MEIS2	7.9e-06	3.37e-08	4620	10.4	3920	9.27	1.12
139	6	MA1618.1	Ptf1a	MA1618.1	NNACAGATGTTNN	Ptf1a	9.02e-06	3.82e-08	36900	83.1	34600	81.7	1.02
140	6	MA1570.1	TFAP4	MA1570.1	AHCATRTGDT	TFAP4	9.34e-06	3.92e-08	15400	34.6	13900	32.8	1.05
141	5	MA0488.1	JUN	MA0488.1	DDRATGATGTCAT	JUN	1.01e-05	4.21e-08	7520	16.9	6570	15.5	1.09
142	8	MA1607.1	Foxl2	MA1607.1	DDWATGTAAACANN	Foxl2	1.06e-05	4.4e-08	37700	84.8	35300	83.4	1.02
143	38	MA1107.2	KLF9	MA1107.2	MNGCCACACCCACHYV	KLF9	1.1e-05	4.52e-08	1990	4.48	1580	3.73	1.2
144	26	MA0805.1	TBX1	MA0805.1	AGGTGTGA	TBX1	1.15e-05	4.7e-08	2260	5.09	1810	4.29	1.19
145	5	MA0723.2	VAX2	MA0723.2	BYAATTAV	VAX2	1.25e-05	5.08e-08	38500	86.7	36100	85.4	1.02
146	6	MA0871.2	TFEC	MA0871.2	NVCACGTGACN	TFEC	1.61e-05	6.5e-08	10600	23.9	9430	22.3	1.07
147	5	MA0075.3	PRRX2	MA0075.3	CTAATTAN	PRRX2	2.05e-05	8.2e-08	17600	39.7	16000	37.9	1.05
148	24	MA0063.2	NKX2-5	MA0063.2	NNCACTCAANN	NKX2-5	2.18e-05	8.68e-08	41000	92.2	38600	91.2	1.01
149	6	MA0461.2	Atoh1	MA0461.2	RMCATATGBY	Atoh1	4.03e-05	1.59e-07	30900	69.5	28700	67.8	1.02
150	17	MA0514.2	Sox3	MA0514.2	DNACAATGGNN	Sox3	4.17e-05	1.64e-07	40100	90.2	37700	89	1.01
151	5	MA0699.1	LBX2	MA0699.1	NCYAATTARN	LBX2	4.48e-05	1.74e-07	21300	48	19500	46.2	1.04
152	14	MA0525.2	TP63	MA0525.2	RACATGTYGKGACATGTC	TP63	4.56e-05	1.76e-07	404	0.91	252	0.6	1.52
153	27	MA0060.3	NFYA	MA0060.3	RRCCAATCAGM	NFYA	4.8e-05	1.85e-07	39400	88.8	37100	87.6	1.01
154	5	MA1480.1	DPRX	MA1480.1	AGATAATCCN	DPRX	5.72e-05	2.18e-07	35500	79.8	33200	78.4	1.02
155	8	MA0851.1	Foxj3	MA0851.1	NDAADGTAAACAAANNM	Foxj3	6.97e-05	2.65e-07	24900	56	22900	54.2	1.03
156	5	MA0881.1	Dlx4	MA0881.1	VYAATTAN	Dlx4	8.13e-05	3.07e-07	38400	86.4	36000	85.1	1.01
157	5	MA1499.1	HOXB4	MA1499.1	RTMATTAR	HOXB4	8.71e-05	3.26e-07	17100	38.5	15600	36.8	1.05
158	24	MA0782.2	PKNOX1	MA0782.2	NNTGAGTGACAGVNN	PKNOX1	9.04e-05	3.36e-07	9480	21.3	8420	19.9	1.07
159	5	MA1481.1	DRGX	MA1481.1	YYAATTAN	DRGX	0.000114	4.22e-07	34600	78	32400	76.5	1.02
160	5	MA0720.1	Shox2	MA0720.1	YYAATTAR	Shox2	0.000129	4.73e-07	16600	37.3	15100	35.6	1.05
161	5	MA1496.1	HOXA4	MA1496.1	RTMATTAV	HOXA4	0.000157	5.74e-07	27400	61.7	25400	60	1.03
162	13	MA0036.3	GATA2	MA0036.3	NBCTTATCTNH	GATA2	0.000198	7.19e-07	24100	54.2	22200	52.5	1.03
163	5	MA1500.1	HOXB6	MA1500.1	BTAATKRC	HOXB6	0.000202	7.3e-07	29400	66.2	27300	64.6	1.03
164	28	MA0596.1	SREBF2	MA0596.1	RTGGGGTGAY	SREBF2	0.00033	1.18e-06	5520	12.4	4800	11.3	1.1
165	15	MA0613.1	FOXG1	MA0613.1	RTAAACAW	FOXG1	0.000345	1.23e-06	18400	41.5	16900	39.9	1.04
166	17	MA0143.4	SOX2	MA0143.4	DNACAATGGNN	SOX2	0.000355	1.26e-06	41600	93.5	39200	92.7	1.01
167	17	MA1563.2	SOX18	MA1563.2	AACAATDV	SOX18	0.00038	1.34e-06	31900	71.8	29800	70.3	1.02
168	5	MA0680.2	Pax7	MA0680.2	DWTAATCAATTAWNH	Pax7	0.000392	1.37e-06	26500	59.6	24500	57.9	1.03
169	5	MA0888.1	EVX2	MA0888.1	VVTAATTAVB	EVX2	0.000392	1.37e-06	29800	67.1	27700	65.5	1.02
170	23	MA0495.3	MAFF	MA0495.3	DWGTCAGCATTTTWHN	MAFF	0.000413	1.43e-06	37000	83.4	34700	82.1	1.02
171	5	MA0892.1	GSX1	MA0892.1	NCYMATTAVN	GSX1	0.000427	1.47e-06	43200	97.2	40900	96.6	1.01
172	27	MA0035.4	GATA1	MA0035.4	NHCTAATCTDH	GATA1	0.000514	1.76e-06	19800	44.6	18200	42.9	1.04
173	5	MA0716.1	PRRX1	MA0716.1	YYAATTAR	PRRX1	0.000542	1.84e-06	37900	85.3	35600	84.1	1.01
174	17	MA0077.1	SOX9	MA0077.1	CYATTGTTY	SOX9	0.00069	2.33e-06	41100	92.5	38800	91.6	1.01
175	17	MA1562.1	SOX14	MA1562.1	CCGAACAATG	SOX14	0.000693	2.33e-06	25200	56.8	23300	55.2	1.03
176	26	MA0803.1	TBX15	MA0803.1	AGGTGTGA	TBX15	0.000781	2.61e-06	29600	66.6	27500	65.1	1.02
177	5	MA0628.1	POU6F1	MA0628.1	AYTAATTART	POU6F1	0.000872	2.9e-06	27700	62.4	25700	60.8	1.03
178	20	MA0691.1	TFAP4	MA0691.1	AWCAGCTGWT	TFAP4	0.00109	3.61e-06	4140	9.3	3550	8.39	1.11
179	5	MA0630.1	SHOX	MA0630.1	HTAATTRR	SHOX	0.00119	3.9e-06	40800	91.8	38500	90.9	1.01
180	29	MA0073.1	RREB1	MA0073.1	CCCCMAAMCAMCCMCMMMCV	RREB1	0.00135	4.41e-06	856	1.93	640	1.51	1.27
181	1	MA0070.1	PBX1	MA0070.1	HCATCAATCAAW	PBX1	0.00162	5.27e-06	15700	35.2	14300	33.7	1.04
182	8	MA0897.1	Hmx2	MA0897.1	ASAAGCAATTAAHVVRT	Hmx2	0.0019	6.14e-06	24100	54.2	22300	52.6	1.03
183	30	MA1573.2	Thap11	MA1573.2	ACTACAABTCCCAG	Thap11	0.0024	7.72e-06	140	0.32	69	0.16	1.92
184	8	MA0157.3	Foxo3	MA0157.3	NDGTAAACARNN	Foxo3	0.00291	9.32e-06	42200	95.1	39900	94.4	1.01
185	31	MA0698.1	ZBTB18	MA0698.1	NATCCAGATGTKB	ZBTB18	0.00339	1.08e-05	10500	23.6	9430	22.3	1.06
186	18	MA0153.2	HNF1B	MA0153.2	GTTAATNATTAAY	HNF1B	0.00369	1.17e-05	17400	39.2	15900	37.7	1.04
187	15	MA0031.1	FOXD1	MA0031.1	GTAAACAW	FOXD1	0.00389	1.22e-05	28800	64.9	26800	63.4	1.02
188	17	MA1152.1	SOX15	MA1152.1	CYWTTGTTHW	SOX15	0.00393	1.23e-05	36400	81.8	34100	80.7	1.01
189	24	MA1645.1	NKX2-2	MA1645.1	NNNCCACTCAANNN	NKX2-2	0.00434	1.35e-05	7120	16	6320	14.9	1.07
190	31	MA0818.2	BHLHE22	MA0818.2	AMCATATGKY	BHLHE22	0.00443	1.37e-05	9680	21.8	8690	20.6	1.06
13	34	MA0682.2 (PITX1)	MEME-3	GCCTGTAATCCCAGC	GCCTGTAATCCCAGC	PITX1	0.00449	0.000345	1360	3.06	1130	2.66	1.15
191	18	MA0046.2	HNF1A	MA0046.2	DRTTAATNATTAACN	HNF1A	0.00527	1.62e-05	18400	41.4	16900	40	1.04
192	5	MA1608.1	Isl1	MA1608.1	NNCCATTAGNN	Isl1	0.00606	1.86e-05	40700	91.6	38400	90.8	1.01
193	32	MA1974.1	ZNF211	MA1974.1	HWYATATACCAYRYW	ZNF211	0.00653	1.99e-05	11200	25.2	10100	24	1.05
194	13	MA1104.2	GATA6	MA1104.2	HWWTCTTATCTNH	GATA6	0.00671	2.04e-05	21900	49.2	20200	47.7	1.03
195	15	MA0849.1	FOXO6	MA0849.1	GTAAACA	FOXO6	0.00813	2.45e-05	24400	54.9	22600	53.4	1.03
196	28	MA0595.1	SREBF1	MA0595.1	VTCACCCCAY	SREBF1	0.00886	2.66e-05	2580	5.81	2180	5.15	1.13
197	6	MA0004.1	Arnt	MA0004.1	CACGTG	Arnt	0.00929	2.78e-05	752	1.69	566	1.34	1.26
198	33	MA0052.4	MEF2A	MA0052.4	DDCTAAAAATAGMHH	MEF2A	0.0142	4.2e-05	33800	76	31600	74.8	1.02
199	26	MA0689.1	TBX20	MA0689.1	WAGGTGTGAAR	TBX20	0.0142	4.21e-05	6840	15.4	6080	14.4	1.07
200	20	MA1572.1	TGIF2LY	MA1572.1	TGACAGCTGTCA	TGIF2LY	0.0145	4.27e-05	36200	81.6	34000	80.5	1.01
201	5	MA0713.1	PHOX2A	MA0713.1	TAATYYAATTA	PHOX2A	0.0174	5.09e-05	28200	63.4	26200	62	1.02
202	5	MA0914.1	ISL2	MA0914.1	GCAMTTAR	ISL2	0.0199	5.81e-05	30700	69.1	28700	67.8	1.02
203	26	MA1567.2	Tbx6	MA1567.2	NRGGTGTGAANN	Tbx6	0.0203	5.89e-05	5620	12.7	4970	11.8	1.08
204	5	MA0674.1	NKX6-1	MA0674.1	NTMATTAA	NKX6-1	0.0224	6.45e-05	29000	65.3	27100	64	1.02
205	15	MA0850.1	FOXP3	MA0850.1	RTAAACA	FOXP3	0.0245	7.03e-05	30100	67.8	28100	66.5	1.02
206	27	MA1644.1	NFYC	MA1644.1	RDCCAATCASN	NFYC	0.0248	7.07e-05	39800	89.5	37500	88.6	1.01
207	9	MA0025.2	NFIL3	MA0025.2	NRTTATGYAATNN	NFIL3	0.0252	7.16e-05	18100	40.8	16700	39.5	1.03
208	26	MA0800.1	EOMES	MA0800.1	RAGGTGTGAAAWN	EOMES	0.0298	8.43e-05	37500	84.3	35200	83.3	1.01
209	26	MA0802.1	TBR1	MA0802.1	AGGTGTGAAA	TBR1	0.0323	9.1e-05	38000	85.5	35800	84.5	1.01
210	5	MA0642.2	EN2	MA0642.2	VSYAATTA	EN2	0.0422	0.000118	29400	66.2	27500	65	1.02
14	35	MA1973.1 (ZKSCAN3)	MEME-6	TGCCCAGGCTG	TGCCCAGGCTG	ZKSCAN3	2.1	0.15	532	1.2	470	1.11	1.08
15	36	MA0471.2 (E2F6)	MEME-7	DGAGGARGGAR	DGAGGARGGAR	E2F6	3.33	0.222	14000	31.4	13200	31.2	1.01
16	37	MA1125.1 (ZNF384)	MEME-1	AAAAAAAAAAAADWA	AAAAAAAAAAAADWA	ZNF384	3.75	0.235	1610	3.62	1490	3.52	1.03
17	38	MA1961.1 (PATZ1)	MEME-5	GGGRGGCGGRGGCGG	GGGRGGCGGRGGCGG	PATZ1	17	1	9820	22.1	10400	24.5	0.902

DNR_24_20kb_combo %>% 
   dplyr::filter(ENR_RATIO>ER_rat) %>%
  dplyr::select(RANK,CLUSTER,motif_name,SIM_MOTIF,ALT_ID, ID,EVALUE.y,TP.)%>%
  arrange(.,EVALUE.y) %>%
  slice_head(n=80)%>% 
  mutate(log10Evalue= log(EVALUE.y, base = 10)*(-1)) %>% 
  mutate(motif_name=if_else(str_starts(motif_name,"^Z*"),paste(motif_name, RANK, sep="_"), if_else(motif_name=="KLF9",paste(motif_name, RANK,sep="_"),motif_name)))%>%
  ggplot(., aes (y= reorder(motif_name,log10Evalue))) +
  geom_col(aes(x=log10Evalue)) +
  geom_point(aes(x=`TP.`*1.25), size =4)+
  scale_x_continuous(expand=c (0,.125),sec.axis = sec_axis(transform= ~./1.25,name="Percent of peaks with motif"))+
  theme_classic()+
  ylab("Enriched TF motif")+
  ggtitle(paste("DNR_24_20kb_combo response peaks(200bp)Enrichment ratio:",ER_rat))

DNR_24_20kb_combo %>% 
   dplyr::filter(ENR_RATIO>ER_rat) %>%
  dplyr::select(RANK,CLUSTER,motif_name,SIM_MOTIF,ALT_ID, ID,EVALUE.y,TP.)%>%
  arrange(.,EVALUE.y) %>%
  dplyr::filter(EVALUE.y < 0.05) %>% 
    mutate(log10Evalue = -log10(if_else(EVALUE.y == 0, 1e-300, EVALUE.y))) %>% 
  distinct(CLUSTER,.keep_all = TRUE) %>% 
  # slice_head(n=7) %>% 
  mutate(motif_name=if_else(str_starts(motif_name,"^Z*"),paste(motif_name, RANK, sep="_"), if_else(motif_name=="KLF9",paste(motif_name, RANK,sep="_"),motif_name)))%>%
  ggplot(., aes (y= reorder(motif_name,log10Evalue))) +
  geom_col(aes(x=log10Evalue)) +
  geom_point(aes(x=`TP.`*25), size =4)+
  scale_x_continuous(expand=c (0,.125),sec.axis = sec_axis(transform= ~./25,name="Percent of peaks with motif"))+
  theme_classic()+
  ylab("Enriched TF motif")+
  ggtitle(paste("DNR_24_20kb_combo response peaks(200bp)Enrichment ratio:",ER_rat))

MTX

MTX_DAR 24 20kb DAR DEG data

MTX_24_20kb_sea_disc <- read.delim("C:/Users/renee/ATAC_folder/ATAC_meme_data/new_analysis/MTX_24_20kb_xstreme/sea_disc_out/sea.tsv") %>% mutate(source="disc") %>% slice_head(n = length(.$ID)-3)
MTX_24_20kb_sea_known <- read.delim("C:/Users/renee/ATAC_folder/ATAC_meme_data/new_analysis/MTX_24_20kb_xstreme/sea_out/sea.tsv") %>% mutate(source="known") %>% slice_head(n = length(.$ID)-3)
MTX_24_20kb_xstreme <- read.delim("C:/Users/renee/ATAC_folder/ATAC_meme_data/new_analysis/MTX_24_20kb_xstreme/xstreme.tsv") %>% slice_head(n = length(.$ID)-3)
MTX_24_20kb_sea_all <- rbind(MTX_24_20kb_sea_disc, MTX_24_20kb_sea_known) %>% 
  arrange(ID, desc(source == "known")) %>%  
  distinct(ID, .keep_all = TRUE)

MTX_24_20kb_combo <- MTX_24_20kb_xstreme %>% 
  dplyr::select(SEED_MOTIF:EVALUE_ACC,SIM_MOTIF) %>% 
  left_join(., MTX_24_20kb_sea_all, by=c("ID"="ID","ALT_ID"="ALT_ID")) %>% 
  mutate(motif_name=case_when(
    str_detect(SIM_MOTIF, "\\(") ~ str_extract(SIM_MOTIF, "(?<=\\().+?(?=\\))"),
    str_detect(SIM_MOTIF, "^MA\\d+\\.\\d+") ~ ALT_ID,
    str_detect(SIM_MOTIF, "^\\d+-") ~ str_replace(SIM_MOTIF, "^\\d+-", ""),
  TRUE ~ SIM_MOTIF
)) %>% 
  dplyr::select(RANK,CLUSTER,SIM_MOTIF,ALT_ID, ID,CONSENSUS.x,motif_name,EVALUE.y,QVALUE,TP:ENR_RATIO) %>% 
  arrange(.,EVALUE.y) 

MTX_24_20kb_combo %>% 
  dplyr::mutate_if(is.numeric, funs(as.character(signif(., 3)))) %>%
  kable(., caption = "Enriched motifs 200 bp in MTX  v VEH") %>%
  kable_paper("striped", full_width = TRUE) %>%
  kable_styling(full_width = FALSE, font_size = 16) %>%
  scroll_box(height = "500px")

Enriched motifs 200 bp in MTX v VEH
RANK	CLUSTER	SIM_MOTIF	ALT_ID	ID	CONSENSUS.x	motif_name	EVALUE.y	QVALUE	TP	TP.	FP	FP.	ENR_RATIO
1	1	MA1513.1 (KLF15)	STREME-1	1-GCCCCGCCC	GCCCCGCCC	KLF15	8.57e-69	5.97e-69	1450	10.4	4390	6.02	1.73
2	2	MA0060.3 (NFYA)	STREME-3	3-CYGATTGGYYRSN	CYGATTGGYYRSN	NFYA	2.14e-56	7.46e-57	1030	7.45	2980	4.09	1.82
3	1	MA0516.3	SP2	MA0516.3	GGGGCGGGG	SP2	6.53e-55	1.52e-55	2080	15	7400	10.2	1.47
4	3	9-CCGVSBCGG	STREME-9	9-CCGVSBCGG	CCGVSBCGG	CCGVSBCGG	1.53e-52	2.67e-53	2950	21.2	11400	15.7	1.35
5	4	MA0079.5 (SP1)	MEME-3	CSCCGCCSCSSCCSC	CSCCGCCSCSSCCSC	SP1	6.19e-52	8.63e-53	2720	19.6	10400	14.2	1.37
6	1	MA1513.1	KLF15	MA1513.1	SCCCCGCCCCS	KLF15	8.57e-51	9.96e-52	1630	11.7	5550	7.61	1.54
7	2	MA0502.2	NFYB	MA0502.2	CYCATTGGCCVV	NFYB	1.05e-49	1.04e-50	943	6.79	2740	3.76	1.81
8	1	MA1564.1	SP9	MA1564.1	RCCACGCCCMCY	SP9	1.39e-46	1.21e-47	3150	22.7	12600	17.3	1.31
9	1	MA0685.2	SP4	MA0685.2	GGGGCGGGG	SP4	1.83e-46	1.42e-47	1110	7.98	3470	4.76	1.68
10	1	MA0746.2	SP3	MA0746.2	NGCCACGCCCMCH	SP3	2.38e-46	1.66e-47	1860	13.4	6710	9.21	1.46
11	5	MA0733.1 (EGR4)	STREME-4	4-CCGCCCGCG	CCGCCCGCG	EGR4	1.11e-45	7.01e-47	3160	22.8	12700	17.4	1.31
12	6	MA0476.1 (FOS)	STREME-2	2-GATGASTCA	GATGASTCA	FOS	8.95e-45	5.2e-46	1570	11.3	5480	7.52	1.51
13	6	MA1128.1	FOSL1::JUN	MA1128.1	NKATGACTCATNN	FOSL1::JUN	1.46e-44	7.83e-46	1820	13.1	6580	9.03	1.46
14	6	MA0477.2	FOSL1	MA0477.2	NNATGACTCATNN	FOSL1	4.16e-44	2.07e-45	1810	13	6530	8.96	1.46
15	6	MA1928.1	BNC2	MA1928.1	NDRTGAGTCABN	BNC2	1.52e-43	7.06e-45	2060	14.9	7680	10.6	1.41
16	1	MA1961.1	PATZ1	MA1961.1	SSGGGGMGGGGS	PATZ1	3.3e-43	1.44e-44	2020	14.6	7520	10.3	1.41
17	6	MA0099.3	FOS::JUN	MA0099.3	ATGAGTCAYM	FOS::JUN	5e-43	2.05e-44	1680	12.1	5990	8.22	1.47
18	6	MA1633.2	BACH1	MA1633.2	ATGACTCAT	BACH1	6.87e-42	2.66e-43	2650	19.1	10500	14.3	1.33
19	6	MA1141.1	FOS::JUND	MA1141.1	NKATGAGTCATNN	FOS::JUND	9.53e-42	3.5e-43	1710	12.3	6140	8.43	1.46
20	6	MA1137.1	FOSL1::JUNB	MA1137.1	NDRTGACTCATNN	FOSL1::JUNB	6.5e-41	2.27e-42	2740	19.7	10900	14.9	1.32
21	6	MA1135.1	FOSB::JUNB	MA1135.1	KRTGASTCAT	FOSB::JUNB	7.56e-41	2.51e-42	1760	12.7	6400	8.79	1.44
22	1	MA0740.2	KLF14	MA0740.2	KGGGCGGGG	KLF14	9.17e-40	2.91e-41	1180	8.52	3930	5.39	1.58
23	1	MA1653.1	ZNF148	MA1653.1	YBCCCCTCCCCC	ZNF148	1.22e-39	3.69e-41	3330	24	13700	18.8	1.27
24	1	MA1959.1	KLF7	MA1959.1	DGGGCGGGG	KLF7	1.78e-39	5.16e-41	1470	10.6	5150	7.07	1.49
25	1	MA0742.2	KLF12	MA0742.2	GGGGCGGGG	KLF12	3.3e-39	9.2e-41	986	7.1	3120	4.28	1.66
26	6	MA0491.2	JUND	MA0491.2	NNATGACTCATNN	JUND	3.59e-39	9.64e-41	2700	19.4	10800	14.8	1.32
27	6	MA0462.2	BATF::JUN	MA0462.2	DATGACTCATH	BATF::JUN	9.37e-39	2.42e-40	2170	15.6	8310	11.4	1.37
28	6	MA1634.1	BATF	MA1634.1	DATGACTCATH	BATF	3.32e-37	8.06e-39	2100	15.2	8080	11.1	1.37
29	6	MA0478.1	FOSL2	MA0478.1	KRRTGASTCAB	FOSL2	3.35e-37	8.06e-39	1610	11.6	5830	8.01	1.45
30	6	MA1130.1	FOSL2::JUN	MA1130.1	NNRTGAGTCAYN	FOSL2::JUN	5.03e-37	1.17e-38	1490	10.7	5340	7.32	1.47
31	6	MA0835.2	BATF3	MA0835.2	DATGACTCATH	BATF3	8.8e-37	1.98e-38	2070	14.9	7950	10.9	1.37
32	1	MA0741.1	KLF16	MA0741.1	GMCACGCCCCC	KLF16	2.5e-36	5.45e-38	2900	20.9	11800	16.2	1.29
33	1	MA1511.2	KLF10	MA1511.2	GGGGCGGGG	KLF10	3.84e-36	8.11e-38	1110	8	3720	5.1	1.57
34	7	MA1522.1	MAZ	MA1522.1	BBCCCCTCCCY	MAZ	2.06e-35	4.23e-37	3090	22.3	12800	17.6	1.27
35	6	MA1132.1	JUN::JUNB	MA1132.1	KATGACKCAT	JUN::JUNB	8.32e-35	1.66e-36	2560	18.4	10300	14.1	1.31
36	8	MA1982.1 (ZNF574)	STREME-5	5-SGGCCS	SGGCCS	ZNF574	1.16e-34	2.24e-36	3100	22.3	12800	17.6	1.27
37	2	MA0060.3	NFYA	MA0060.3	RRCCAATCAGM	NFYA	4.31e-34	8.12e-36	490	3.53	1270	1.74	2.03
38	6	MA0490.2	JUNB	MA0490.2	NNATGACTCATNN	JUNB	4.4e-33	8.06e-35	2830	20.4	11600	16	1.28
39	1	MA1512.1	KLF11	MA1512.1	SCCACGCCCMC	KLF11	6.74e-33	1.21e-34	5160	37.1	23100	31.7	1.17
40	9	MA1122.1	TFDP1	MA1122.1	VSGCGGGAAVN	TFDP1	1.2e-32	2.09e-34	3400	24.5	14400	19.7	1.24
41	7	MA1713.1	ZNF610	MA1713.1	SSCGCCGCTCCSSS	ZNF610	1.81e-32	3.07e-34	2330	16.8	9300	12.8	1.31
42	6	MA1101.2	BACH2	MA1101.2	DWANCATGASTCATSNTWH	BACH2	3.56e-32	5.91e-34	2580	18.6	10500	14.4	1.29
43	1	MA0079.5	SP1	MA0079.5	GGGGCGGGG	SP1	5.09e-32	8.25e-34	692	4.98	2080	2.86	1.75
44	10	MA0162.4	EGR1	MA0162.4	VCMCGCCCACGCVS	EGR1	1.14e-31	1.8e-33	4140	29.8	18100	24.8	1.2
45	11	14-MGGSCCK	STREME-14	14-MGGSCCK	14-MGGSCCK	MGGSCCK	2.45e-31	3.8e-33	8030	57.8	38000	52.2	1.11
46	6	MA0476.1	FOS	MA0476.1	DVTGASTCATB	FOS	3.57e-31	5.41e-33	1110	7.99	3840	5.27	1.52
47	2	MA1644.1	NFYC	MA1644.1	RDCCAATCASN	NFYC	1.84e-30	2.73e-32	566	4.08	1620	2.22	1.84
48	1	MA0493.2	KLF1	MA0493.2	DGGGYGGGG	KLF1	3.49e-30	5.07e-32	1960	14.1	7700	10.6	1.34
49	12	MA1712.1	ZNF454	MA1712.1	DGGCTCSSGGCCCYGVKG	ZNF454	1.76e-29	2.5e-31	5370	38.7	24400	33.4	1.16
50	13	MA0146.2	Zfx	MA0146.2	SSSGCCBVGGCCTS	Zfx	1.84e-29	2.56e-31	6220	44.8	28700	39.4	1.14
51	10	MA1107.2	KLF9	MA1107.2	MNGCCACACCCACHYV	KLF9	1.01e-28	1.39e-30	5580	40.2	25500	34.9	1.15
52	14	MA0506.2	Nrf1	MA0506.2	SNCTGCGCMTGCGCV	Nrf1	1.28e-28	1.72e-30	4810	34.6	21600	29.6	1.17
53	1	MA0039.4	KLF4	MA0039.4	NNCCCCACCCHN	KLF4	1.09e-27	1.43e-29	2320	16.7	9450	13	1.29
54	2	MA0502.2 (NFYB)	STREME-8	8-CCATTGGC	CCATTGGC	NFYB	1.32e-27	1.71e-29	371	2.67	929	1.27	2.1
55	15	MA0814.2	TFAP2C	MA0814.2	NNGCCTGAGGCGNN	TFAP2C	6.84e-27	8.67e-29	5850	42.1	27000	37	1.14
56	1	MA0599.1	KLF5	MA0599.1	GCCCCDCCCH	KLF5	1.16e-26	1.44e-28	528	3.8	1540	2.11	1.81
57	6	MA0489.2	Jun	MA0489.2	NVTGACTCATNN	Jun	3.53e-26	4.31e-28	1020	7.35	3590	4.93	1.49
58	16	MA1986.1	ZNF692	MA1986.1	BGGGCCCASN	ZNF692	1.51e-24	1.81e-26	4380	31.6	19700	27	1.17
59	4	MA1721.1	ZNF93	MA1721.1	GGYAGCRGCAGCGGYG	ZNF93	2.01e-24	2.38e-26	2520	18.1	10500	14.5	1.25
60	10	MA0733.1	EGR4	MA0733.1	NHMCGCCCACGCAHWT	EGR4	2.4e-24	2.79e-26	3440	24.7	15000	20.6	1.2
61	1	MA1517.1	KLF6	MA1517.1	NRCCACGCCCH	KLF6	4.95e-24	5.66e-26	6640	47.8	31300	42.9	1.11
62	10	MA0732.1	EGR3	MA0732.1	HHMCGCCCACGCAHH	EGR3	9.87e-24	1.11e-25	2620	18.9	11100	15.2	1.24
63	17	MA1599.1	ZNF682	MA1599.1	BVGGCYAAGCCCCWNY	ZNF682	2.57e-23	2.85e-25	2580	18.6	10900	15	1.24
64	10	MA0472.2	EGR2	MA0472.2	MCGCCCACGCA	EGR2	2.67e-23	2.91e-25	2730	19.7	11700	16	1.23
65	6	MA1142.1	FOSL1::JUND	MA1142.1	NRTGACTCAT	FOSL1::JUND	7.05e-23	7.56e-25	1160	8.32	4290	5.88	1.41
66	18	13-CACCSCG	STREME-13	13-CACCSCG	13-CACCSCG	CACCSCG	1.27e-22	1.34e-24	1780	12.8	7130	9.78	1.31
67	19	MA1548.1	PLAGL2	MA1548.1	NGGGCCCCCN	PLAGL2	2.85e-22	2.96e-24	6880	49.5	32600	44.8	1.11
68	1	MA1515.1	KLF2	MA1515.1	NRCCACRCCCH	KLF2	6.95e-22	7.12e-24	1580	11.4	6270	8.61	1.33
69	10	MA1650.1	ZBTB14	MA1650.1	SSCCGCGCACVS	ZBTB14	1.59e-21	1.6e-23	2010	14.5	8290	11.4	1.27
70	20	MA0748.2	YY2	MA0748.2	NVATGGCGGCS	YY2	2.04e-20	2.03e-22	1200	8.67	4590	6.3	1.38
71	1	MA0747.1	SP8	MA0747.1	RCCACGCCCMCY	SP8	3.93e-20	3.86e-22	1500	10.8	5940	8.15	1.32
72	9	MA0865.2	E2F8	MA0865.2	TTCCCGCCAHWA	E2F8	1.67e-19	1.62e-21	4420	31.9	20200	27.8	1.15
73	21	MA1976.1	ZNF320	MA1976.1	DGKGGGRCCMRGGGGCCWGTGHVNNNN	ZNF320	1.92e-19	1.84e-21	3690	26.6	16600	22.7	1.17
74	1	MA0753.2	ZNF740	MA0753.2	CYRCCCCCCCCAC	ZNF740	6.54e-19	6.16e-21	5250	37.8	24500	33.6	1.13
75	22	MA0774.1 (MEIS2)	STREME-12	12-CCTGTCAGC	12-CCTGTCAGC	MEIS2	1.01e-18	9.42e-21	1340	9.62	5260	7.22	1.33
76	23	MA0632.2	TCFL5	MA0632.2	KCACGCGCMC	TCFL5	1.04e-18	9.5e-21	973	7.01	3620	4.96	1.41
77	6	MA1144.1	FOSL2::JUND	MA1144.1	KATGACTCAT	FOSL2::JUND	5.78e-18	5.23e-20	743	5.35	2630	3.61	1.48
78	6	MA0841.1	NFE2	MA0841.1	VATGACTCATS	NFE2	9.31e-18	8.32e-20	763	5.49	2720	3.74	1.47
79	24	MA0014.3	PAX5	MA0014.3	RRGCGTGACCNN	PAX5	8.3e-17	7.32e-19	2650	19.1	11600	15.9	1.2
80	9	MA0471.2	E2F6	MA0471.2	VVDGGCGGGAAVV	E2F6	8.52e-17	7.42e-19	3190	23	14300	19.6	1.17
81	25	MA1573.2 (Thap11)	STREME-6	6-ACTACAACTCCC	ACTACAACTCCC	Thap11	9.98e-17	8.59e-19	53	0.38	39	0.05	7.08
82	6	MA1138.1	FOSL2::JUNB	MA1138.1	KRTGASTCAT	FOSL2::JUNB	3.59e-16	3.05e-18	700	5.04	2500	3.43	1.47
83	6	MA0496.3	MAFK	MA0496.3	NGMTGACTCAGCMNH	MAFK	4.56e-16	3.83e-18	2250	16.2	9710	13.3	1.22
84	6	MA0655.1	JDP2	MA0655.1	ATGACTCAT	JDP2	4.81e-16	3.99e-18	720	5.19	2590	3.55	1.46
85	6	MA0089.2	MAFG::NFE2L1	MA0089.2	NVNATGACTCAGCADW	MAFG::NFE2L1	5.45e-16	4.47e-18	2100	15.2	9020	12.4	1.23
86	26	MA1985.1	ZNF669	MA1985.1	GGGGYGAYGACCRCT	ZNF669	5.6e-16	4.54e-18	5410	39	25500	35	1.11
87	27	MA1615.1	Plagl1	MA1615.1	NNCTGGGGCCABN	Plagl1	1.14e-15	9.15e-18	7150	51.5	34600	47.5	1.09
88	28	MA0131.2	HINFP	MA0131.2	CARCGTCCGCKN	HINFP	7.64e-15	6.05e-17	2000	14.4	8570	11.8	1.22
89	29	MA0810.1	TFAP2A	MA0810.1	YGCCCBVRGGCR	TFAP2A	1.48e-14	1.16e-16	6540	47.1	31500	43.2	1.09
90	29	MA0811.1	TFAP2B	MA0811.1	YGCCCBVRGGCA	TFAP2B	2.83e-14	2.19e-16	6440	46.3	31000	42.5	1.09
91	23	MA1099.2	HES1	MA1099.2	GGCRCGTGBC	HES1	8.93e-14	6.84e-16	1050	7.56	4150	5.7	1.33
92	29	MA0872.1	TFAP2A	MA0872.1	TGCCCYSRGGGCA	TFAP2A	2.79e-13	2.11e-15	3770	27.2	17400	23.9	1.14
93	1	MA1630.2	ZNF281	MA1630.2	GGGGGAGGGGVV	ZNF281	2.81e-13	2.11e-15	713	5.13	2650	3.63	1.41
94	29	MA0524.2	TFAP2C	MA0524.2	YGCCYBVRGGCA	TFAP2C	3.31e-13	2.45e-15	6060	43.7	29100	40	1.09
95	30	MA0464.2	BHLHE40	MA0464.2	VKCACGTGMC	BHLHE40	8.66e-13	6.36e-15	5240	37.7	24900	34.2	1.1
96	25	MA1573.2	Thap11	MA1573.2	ACTACAABTCCCAG	Thap11	3.46e-12	2.52e-14	196	1.41	516	0.71	2
97	6	MA0501.1	MAF::NFE2	MA0501.1	ATGACTCAGCANWTY	MAF::NFE2	4.34e-12	3.12e-14	1750	12.6	7520	10.3	1.22
98	31	10-ACATGCACACACGT	STREME-10	10-ACATGCACACACGT	10-ACATGCACACACGT	ACATGCACACACGT	4.92e-12	3.5e-14	102	0.73	194	0.27	2.77
99	32	MA1596.1	ZNF460	MA1596.1	GCCTCMGCCTCCCRAG	ZNF460	7.58e-12	5.34e-14	3450	24.9	15900	21.9	1.14
100	6	MA1134.1	FOS::JUNB	MA1134.1	KATGASTCATHN	FOS::JUNB	8.03e-12	5.6e-14	483	3.48	1690	2.32	1.5
101	29	MA0813.1	TFAP2B	MA0813.1	TGCCCYBRGGGCA	TFAP2B	8.33e-12	5.75e-14	3280	23.6	15100	20.7	1.14
102	33	MA0527.1	ZBTB33	MA0527.1	BTCTCGCGAGABYTS	ZBTB33	1e-11	6.84e-14	832	5.99	3240	4.45	1.35
103	34	MA1108.2 (MXI1)	STREME-11	11-ACACACATGTGCA	11-ACACACATGTGCA	MXI1	1.48e-11	1e-13	80	0.58	132	0.18	3.2
104	35	MA1643.1	NFIB	MA1643.1	NNCCTGGCAYNGTGCCAAGNN	NFIB	2.69e-11	1.81e-13	4960	35.7	23600	32.4	1.1
105	6	MA1988.1	Atf3	MA1988.1	NRTGACTCABN	Atf3	4.23e-11	2.81e-13	495	3.56	1760	2.42	1.48
106	10	MA1627.1	Wt1	MA1627.1	YBCCTCCCCCACVB	Wt1	5.31e-11	3.49e-13	12100	87.2	61800	84.8	1.03
107	6	MA0659.3	Mafg	MA0659.3	NWGMTGACTCAGCAN	Mafg	1.66e-10	1.08e-12	4810	34.6	22900	31.5	1.1
108	29	MA0815.1	TFAP2C	MA0815.1	TGCCCYSRGGGCA	TFAP2C	9.26e-10	5.98e-12	1510	10.9	6520	8.95	1.22
109	15	MA0812.1	TFAP2B	MA0812.1	HGCCTSAGGCD	TFAP2B	1.25e-09	8.02e-12	8700	62.7	43400	59.5	1.05
110	36	MA1514.1	KLF17	MA1514.1	MMCCACGCACCCMTY	KLF17	1.61e-09	1.02e-11	4900	35.3	23500	32.2	1.09
111	30	MA0616.2	HES2	MA0616.2	GGCACGTGYC	HES2	2.27e-09	1.42e-11	1170	8.43	4920	6.75	1.25
112	15	MA0003.4	TFAP2A	MA0003.4	NNKGCCTCAGGCNN	TFAP2A	2.68e-09	1.67e-11	11800	85.2	60400	82.9	1.03
113	6	MA1114.1	PBX3	MA1114.1	NNNTGAGTGACAGGBNN	PBX3	2.71e-09	1.67e-11	9400	67.7	47100	64.7	1.05
114	30	MA0608.1	Creb3l2	MA0608.1	GCCACGTGD	Creb3l2	2.99e-09	1.83e-11	4460	32.2	21300	29.2	1.1
115	30	MA1631.1	ASCL1	MA1631.1	NNGCACCTGCYNB	ASCL1	3.33e-09	2.02e-11	11400	82.3	58200	79.8	1.03
116	31	MA1155.1 (ZSCAN4)	STREME-7	7-GTGTGTGCATGYGTG	GTGTGTGCATGYGTG	ZSCAN4	3.5e-09	2.1e-11	96	0.69	203	0.28	2.49
117	37	MA0734.3	Gli2	MA0734.3	NRGACCACCCASV	Gli2	8.06e-09	4.8e-11	9050	65.2	45300	62.2	1.05
118	10	MA1656.1	ZNF449	MA1656.1	NNAAGCCCAACCNN	ZNF449	1.7e-08	1e-10	7680	55.3	38100	52.3	1.06
119	27	MA1719.1	ZNF816	MA1719.1	DRRKGGGGACATGCHGGG	ZNF816	3.43e-08	2.01e-10	8540	61.5	42700	58.6	1.05
120	15	MA1569.1	TFAP2E	MA1569.1	YGCCYSRGGCD	TFAP2E	3.83e-08	2.22e-10	1020	7.37	4300	5.9	1.25
121	30	MA0830.2	TCF4	MA0830.2	NNGCACCTGCCNN	TCF4	4.89e-08	2.82e-10	10700	76.8	54100	74.2	1.03
122	38	MA1557.1	SMAD5	MA1557.1	YGTCTAGACA	SMAD5	5.21e-08	2.98e-10	4150	29.9	19800	27.2	1.1
123	22	MA0774.1	MEIS2	MA0774.1	TTGACAGS	MEIS2	7.56e-08	4.29e-10	2670	19.2	12400	17	1.13
124	39	MA0864.2	E2F2	MA0864.2	RWTTTGGCGCCAWWWY	E2F2	8.03e-08	4.51e-10	4360	31.4	20900	28.7	1.09
125	40	MA1966.1	TFAP4::ETV1	MA1966.1	RSCGGAAGCAGSTGKN	TFAP4::ETV1	9.07e-08	5.06e-10	6280	45.2	30800	42.3	1.07
126	40	MA0076.2	ELK4	MA0076.2	BCRCTTCCGGB	ELK4	9.93e-08	5.49e-10	367	2.64	1310	1.8	1.47
127	7	MA0528.2	ZNF263	MA0528.2	VNGGGGAGGASG	ZNF263	5.17e-07	2.84e-09	7320	52.8	36400	49.9	1.06
128	30	MA0649.1	HEY2	MA0649.1	GRCACGTGYC	HEY2	5.95e-07	3.24e-09	3550	25.6	16900	23.2	1.1
129	30	MA0147.3	MYC	MA0147.3	NNCCACGTGCNB	MYC	6.28e-07	3.4e-09	11100	80.1	56700	77.8	1.03
130	24	MA0067.2	PAX2	MA0067.2	BCAVTSRAGCGTGACGR	PAX2	7.94e-07	4.26e-09	4330	31.2	20900	28.7	1.09
131	41	MA0767.1	GCM2	MA0767.1	BATGCGGGTR	GCM2	8.71e-07	4.6e-09	5700	41	27900	38.3	1.07
132	39	MA1727.1	ZNF417	MA1727.1	VRBVNTGGGCGCCAM	ZNF417	8.71e-07	4.6e-09	3370	24.3	16000	21.9	1.11
133	30	MA0821.2	HES5	MA0821.2	GRCACGTGYC	HES5	9.4e-07	4.93e-09	722	5.2	2950	4.05	1.29
134	40	MA0764.3	ETV4	MA0764.3	ACCGGAAGTR	ETV4	1.06e-06	5.53e-09	246	1.77	822	1.13	1.57
135	30	MA0823.1	HEY1	MA0823.1	GRCACGTGCC	HEY1	1.37e-06	7.08e-09	1290	9.28	5650	7.76	1.2
136	30	MA0603.1	Arntl	MA0603.1	NGTCACGTGH	Arntl	1.53e-06	7.85e-09	10500	75.8	53500	73.4	1.03
137	42	MA1964.1	SMAD2	MA1964.1	NBCCAGACDN	SMAD2	1.57e-06	8e-09	9780	70.4	49500	67.9	1.04
138	30	MA1106.1	HIF1A	MA1106.1	SBACGTGCNN	HIF1A	4.05e-06	2.05e-08	3140	22.6	14900	20.4	1.11
139	30	MA1464.1	ARNT2	MA1464.1	GTCACGTGMN	ARNT2	5.25e-06	2.63e-08	3400	24.5	16200	22.3	1.1
140	43	MA1684.1	Foxn1	MA1684.1	RGAMGC	Foxn1	5.72e-06	2.85e-08	2230	16	10300	14.2	1.13
141	30	MA1474.1	CREB3L4	MA1474.1	YGCCACGTCAYC	CREB3L4	5.99e-06	2.96e-08	9250	66.6	46700	64.1	1.04
142	7	MA1578.1	VEZF1	MA1578.1	CCCCCCMYDH	VEZF1	8.96e-06	4.4e-08	1960	14.2	9030	12.4	1.14
143	44	MA0028.2	ELK1	MA0028.2	ACCGGAAGTR	ELK1	1.13e-05	5.51e-08	182	1.31	582	0.8	1.65
144	39	MA0024.3	E2F1	MA0024.3	TTTGGCGCCAAA	E2F1	1.15e-05	5.57e-08	3240	23.3	15400	21.2	1.1
145	6	MA1521.1	MAFA	MA1521.1	NTGCTGASTCAGCAN	MAFA	1.17e-05	5.6e-08	4410	31.7	21400	29.4	1.08
146	24	MA1995.1	Npas4	MA1995.1	NNTCGTGACHN	Npas4	2.58e-05	1.23e-07	4500	32.4	21900	30	1.08
147	44	MA0765.3	ETV5	MA0765.3	ACCGGAAGTR	ETV5	2.96e-05	1.4e-07	184	1.33	600	0.82	1.62
148	45	MA1710.1	ZNF257	MA1710.1	VDGAGGCRAGRG	ZNF257	4.4e-05	2.07e-07	4500	32.4	21900	30.1	1.08
149	46	MA0597.2	THAP1	MA0597.2	VSGCAGGGCASV	THAP1	5.45e-05	2.55e-07	10100	72.9	51500	70.7	1.03
150	39	MA0470.2	E2F4	MA0470.2	TTTTGGCGCCAWWW	E2F4	9.12e-05	4.24e-07	1950	14	9050	12.4	1.13
151	1	MA1516.1	KLF3	MA1516.1	GRCCRCGCCCH	KLF3	9.28e-05	4.29e-07	144	1.04	448	0.61	1.69
152	30	MA0822.1	HES7	MA0822.1	YGGCACGTGCCR	HES7	0.000115	5.28e-07	793	5.71	3400	4.66	1.23
153	40	MA0633.2	Twist2	MA0633.2	NVCAGCTGBN	Twist2	0.000141	6.41e-07	4020	28.9	19500	26.8	1.08
154	44	MA0759.2	ELK3	MA0759.2	ACCGGAAGTRV	ELK3	0.000166	7.51e-07	186	1.34	627	0.86	1.56
155	40	MA1997.1	Olig2	MA1997.1	NVCAGCTGBN	Olig2	0.00023	1.03e-06	7730	55.7	38900	53.4	1.04
156	30	MA0844.1	XBP1	MA0844.1	WDKGMCACGTCATC	XBP1	0.000261	1.17e-06	4620	33.2	22700	31.1	1.07
157	30	MA1934.1	ERF::FIGLA	MA1934.1	RCCGGAARCASCTGBN	ERF::FIGLA	0.000309	1.37e-06	2770	20	13200	18.2	1.1
158	37	MA1990.1	Gli1	MA1990.1	NNRGACCACCCASV	Gli1	0.000352	1.55e-06	5140	37	25400	34.8	1.06
159	47	MA1982.1	ZNF574	MA1982.1	VGSCTAGAGMGGCCS	ZNF574	0.000374	1.64e-06	7150	51.5	35800	49.2	1.05
160	40	MA1941.1	ETV2::FIGLA	MA1941.1	RSCGGAARCAGSTGBN	ETV2::FIGLA	0.000419	1.82e-06	5860	42.2	29100	40	1.06
161	48	MA1730.1	ZNF708	MA1730.1	NNRGCTGTRCCTCCY	ZNF708	0.000426	1.85e-06	7290	52.5	36600	50.2	1.05
162	22	MA0775.1	MEIS3	MA0775.1	DTGACAGS	MEIS3	0.000489	2.1e-06	6010	43.3	29900	41.1	1.05
163	30	MA0692.1	TFEB	MA0692.1	RYCACGTGAC	TFEB	0.000506	2.16e-06	11700	84.2	60100	82.5	1.02
164	6	MA0782.2	PKNOX1	MA0782.2	NNTGAGTGACAGVNN	PKNOX1	0.000525	2.23e-06	9390	67.6	47700	65.5	1.03
165	39	MA0615.1	Gmeb1	MA0615.1	BHBBKKACGTMMNWNNN	Gmeb1	0.000681	2.88e-06	635	4.57	2690	3.7	1.24
166	22	MA0498.2	MEIS1	MA0498.2	HTGACAD	MEIS1	0.000717	3.01e-06	7520	54.1	37800	51.9	1.04
167	30	MA1493.1	HES6	MA1493.1	GGCACGTGTY	HES6	0.000745	3.11e-06	3580	25.8	17400	23.9	1.08
168	30	MA1560.1	SOHLH2	MA1560.1	YGCACGTGCN	SOHLH2	0.000797	3.31e-06	269	1.94	1010	1.38	1.41
169	30	MA0004.1	Arnt	MA0004.1	CACGTG	Arnt	0.000897	3.7e-06	2180	15.7	10300	14.2	1.11
170	27	MA1102.2	CTCFL	MA1102.2	NSCAGGGGGCGS	CTCFL	0.00121	4.98e-06	6740	48.5	33800	46.4	1.05
171	30	MA0499.2	MYOD1	MA0499.2	NNGCACCTGTCNB	MYOD1	0.00126	5.15e-06	11300	81.6	58200	79.9	1.02
172	37	MA0695.1	ZBTB7C	MA0695.1	RCGACCACCGAN	ZBTB7C	0.00181	7.32e-06	1550	11.2	7180	9.85	1.13
173	44	MA1933.1	ELK1::SREBF2	MA1933.1	DCCGGAAGTSRCGTGA	ELK1::SREBF2	0.00246	9.92e-06	2010	14.5	9510	13	1.11
174	40	MA0763.1	ETV3	MA0763.1	ACCGGAAGTR	ETV3	0.00277	1.11e-05	239	1.72	893	1.23	1.41
175	44	MA0156.3	FEV	MA0156.3	VACCGGAAGTVV	FEV	0.00285	1.13e-05	238	1.71	889	1.22	1.41
176	49	MA0155.1	INSM1	MA0155.1	TGYCWGGGGGCR	INSM1	0.00321	1.27e-05	2430	17.5	11600	15.9	1.1
177	37	MA0694.1	ZBTB7B	MA0694.1	RCGACCACCGAA	ZBTB7B	0.00518	2.04e-05	3320	23.9	16200	22.2	1.08
178	21	MA1723.1	PRDM9	MA1723.1	RGDGGGVAGGGRGGVRRMARVARR	PRDM9	0.00551	2.16e-05	3830	27.6	18800	25.8	1.07
179	50	MA1981.1	ZNF530	MA1981.1	GMARGGMRAGGGGCRGSV	ZNF530	0.00557	2.17e-05	393	2.83	1610	2.2	1.29
180	21	MA0163.1	PLAG1	MA0163.1	GGGGCCCWAGGGGG	PLAG1	0.00771	2.99e-05	1360	9.82	6320	8.68	1.13
181	51	MA1584.1	ZIC5	MA1584.1	VGACCCCCCGCTGHGM	ZIC5	0.00788	3.03e-05	1420	10.2	6600	9.05	1.13
182	40	MA0645.1	ETV6	MA0645.1	MSCGGAAGTR	ETV6	0.0118	4.54e-05	151	1.09	529	0.73	1.5
183	15	MA1581.1	ZBTB6	MA1581.1	DNSCTTGAGCCNV	ZBTB6	0.0122	4.64e-05	4470	32.2	22100	30.4	1.06
184	40	MA1484.1	ETS2	MA1484.1	DACCGGAAGY	ETS2	0.0137	5.18e-05	215	1.55	811	1.11	1.4
185	30	MA0058.3	MAX	MA0058.3	AVCACGTGNY	MAX	0.0193	7.29e-05	8610	62	43800	60.1	1.03
186	52	MA0863.1	MTF1	MA0863.1	TTTGCACACGGCAC	MTF1	0.024	9.01e-05	1540	11	7220	9.91	1.12
187	15	MA1629.1	Zic2	MA1629.1	NDCACAGCAGGDRG	Zic2	0.0279	0.000104	12300	88.5	63600	87.3	1.01
188	30	MA0103.3	ZEB1	MA0103.3	SNCACCTGSVN	ZEB1	0.0279	0.000104	12500	90.3	65000	89.2	1.01
16	6	MA1633.2 (BACH1)	MEME-2	TGRCTCAYGCCTGTA	TGRCTCAYGCCTGTA	BACH1	15.4	0.961	168	1.21	959	1.32	0.924
17	53	MA1125.1 (ZNF384)	MEME-1	WAAAAAAAAAAAAAA	WAAAAAAAAAAAAAA	ZNF384	16.9	0.995	22	0.16	159	0.22	0.754
18	54	MA0114.4 (HNF4A)	MEME-4	CCAAAGTGCTGGGAT	CCAAAGTGCTGGGAT	HNF4A	18	1	542	3.9	3360	4.62	0.846

MTX_24_20kb_combo %>% 
   dplyr::filter(ENR_RATIO>ER_rat) %>%
  dplyr::select(RANK,CLUSTER,motif_name,SIM_MOTIF,ALT_ID, ID,EVALUE.y,TP.)%>%
  arrange(.,EVALUE.y) %>%
  slice_head(n=80)%>% 
  mutate(log10Evalue= log(EVALUE.y, base = 10)*(-1)) %>% 
  mutate(motif_name=if_else(str_starts(motif_name,"^Z*"),paste(motif_name, RANK, sep="_"), if_else(motif_name=="KLF9",paste(motif_name, RANK,sep="_"),motif_name)))%>%
  ggplot(., aes (y= reorder(motif_name,log10Evalue))) +
  geom_col(aes(x=log10Evalue)) +
  geom_point(aes(x=`TP.`*1.25), size =4)+
  scale_x_continuous(expand=c (0,.125),sec.axis = sec_axis(transform= ~./1.25,name="Percent of peaks with motif"))+
  theme_classic()+
  ylab("Enriched TF motif")+
  ggtitle(paste("MTX_24_20kb_combo response peaks(200bp)Enrichment ratio:",ER_rat))

MTX_24_20kb_combo %>% 
   dplyr::filter(ENR_RATIO>ER_rat) %>%
  dplyr::select(RANK,CLUSTER,motif_name,SIM_MOTIF,ALT_ID, ID,EVALUE.y,TP.)%>%
  arrange(.,EVALUE.y) %>%
    mutate(log10Evalue = -log10(if_else(EVALUE.y == 0, 1e-300, EVALUE.y))) %>% 
  distinct(CLUSTER,.keep_all = TRUE) %>% 
  # slice_head(n=5) %>% 
  mutate(motif_name=if_else(str_starts(motif_name,"^Z*"),paste(motif_name, RANK, sep="_"), if_else(motif_name=="KLF9",paste(motif_name, RANK,sep="_"),motif_name)))%>%
  ggplot(., aes (y= reorder(motif_name,log10Evalue))) +
  geom_col(aes(x=log10Evalue)) +
  geom_point(aes(x=`TP.`*3), size =4)+
  scale_x_continuous(expand=c (0,.125),sec.axis = sec_axis(transform= ~./3,name="Percent of peaks with motif"))+
  theme_classic()+
  ylab("Enriched TF motif")+
  ggtitle(paste("MTX_24_20kb_combo response peaks(200bp)Enrichment ratio:",ER_rat))

DAR_DEG data ALL distances

DOX 3 hour

DOX_3_DAR_DEG_sea_disc <- read.delim("C:/Users/renee/ATAC_folder/ATAC_meme_data/new_analysis/DOX_3_DEG_xstreme/sea_disc_out/sea.tsv") %>% mutate(source="disc") %>% slice_head(n = length(.$ID)-3)
DOX_3_DAR_DEG_sea_known <- read.delim("C:/Users/renee/ATAC_folder/ATAC_meme_data/new_analysis/DOX_3_DEG_xstreme/sea_out/sea.tsv") %>% mutate(source="known") %>% slice_head(n = length(.$ID)-3)
DOX_3_DAR_DEG_xstreme <- read.delim("C:/Users/renee/ATAC_folder/ATAC_meme_data/new_analysis/DOX_3_DEG_xstreme/xstreme.tsv") %>% slice_head(n = length(.$ID)-3)
DOX_3_DAR_DEG_sea_all <- rbind(DOX_3_DAR_DEG_sea_disc, DOX_3_DAR_DEG_sea_known) %>% 
  arrange(ID, desc(source == "known")) %>%  
  distinct(ID, .keep_all = TRUE)

DOX_3_DAR_DEG_combo <- DOX_3_DAR_DEG_xstreme %>% 
  dplyr::select(SEED_MOTIF:EVALUE_ACC,SIM_MOTIF) %>% 
  left_join(., DOX_3_DAR_DEG_sea_all, by=c("ID"="ID","ALT_ID"="ALT_ID")) %>% 
  mutate(motif_name=case_when(
    str_detect(SIM_MOTIF, "\\(") ~ str_extract(SIM_MOTIF, "(?<=\\().+?(?=\\))"),
    str_detect(SIM_MOTIF, "^MA\\d+\\.\\d+") ~ ALT_ID,
    str_detect(SIM_MOTIF, "^\\d+-") ~ str_replace(SIM_MOTIF, "^\\d+-", ""),
  TRUE ~ SIM_MOTIF
)) %>% 
  dplyr::select(RANK,CLUSTER,SIM_MOTIF,ALT_ID, ID,CONSENSUS.x,motif_name,EVALUE.y,QVALUE,TP:ENR_RATIO) %>% 
  arrange(.,EVALUE.y) 

DOX_3_DAR_DEG_combo %>% 
  dplyr::mutate_if(is.numeric, funs(as.character(signif(., 3)))) %>%
  kable(., caption = "Enriched motifs 200 bp in MTX  v VEH") %>%
  kable_paper("striped", full_width = TRUE) %>%
  kable_styling(full_width = FALSE, font_size = 16) %>%
  scroll_box(height = "500px")

Enriched motifs 200 bp in MTX v VEH
RANK	CLUSTER	SIM_MOTIF	ALT_ID	ID	CONSENSUS.x	motif_name	EVALUE.y	QVALUE	TP	TP.	FP	FP.	ENR_RATIO
1	1	MA0528.2 (ZNF263)	STREME-1	1-GAGCTGGGAGGAV	GAGCTGGGAGGAV	ZNF263	1.63e-08	1.23e-08	6	100	40	1.15	84.6
2	2	MA0697.2 (Zic3)	STREME-2	2-CAGCAGGBGCGB	CAGCAGGBGCGB	Zic3	2.63e-08	1.23e-08	5	83.3	11	0.32	248
3	3	MA0154.4 (EBF1)	STREME-3	3-CCCYCYAGGVGRRG	CCCYCYAGGVGRRG	EBF1	1.94e-05	6.02e-06	3	50	1	0.03	991
4	4	MA1629.1 (Zic2)	STREME-4	4-CCGGCYGGGAHT	CCGGCYGGGAHT	Zic2	7.27e-05	1.69e-05	3	50	2	0.06	661
5	5	MA1615.1 (Plagl1)	STREME-5	5-CTGGCCGCCG	CTGGCCGCCG	Plagl1	0.000124	2.31e-05	4	66.7	22	0.63	108

DOX_3_DAR_DEG_combo %>% 
   dplyr::filter(ENR_RATIO>ER_rat) %>%
  dplyr::select(RANK,CLUSTER,motif_name,SIM_MOTIF,ALT_ID, ID,EVALUE.y,TP.)%>%
  arrange(.,EVALUE.y) %>%
  slice_head(n=80)%>% 
  mutate(log10Evalue= log(EVALUE.y, base = 10)*(-1)) %>% 
  mutate(motif_name=if_else(str_starts(motif_name,"^Z*"),paste(motif_name, RANK, sep="_"), if_else(motif_name=="KLF9",paste(motif_name, RANK,sep="_"),motif_name)))%>%
  ggplot(., aes (y= reorder(motif_name,log10Evalue))) +
  geom_col(aes(x=log10Evalue)) +
  geom_point(aes(x=`TP.`*1.25), size =4)+
  scale_x_continuous(expand=c (0,.125),sec.axis = sec_axis(transform= ~./1.25,name="Percent of peaks with motif"))+
  theme_classic()+
  ylab("Enriched TF motif")+
  ggtitle(paste("DOX_3_DAR_DEG_combo response peaks(200bp)Enrichment ratio:",ER_rat))

DOX_3_DAR_DEG_combo %>% 
   dplyr::filter(ENR_RATIO>ER_rat) %>%
  dplyr::select(RANK,CLUSTER,motif_name,SIM_MOTIF,ALT_ID, ID,EVALUE.y,TP.)%>%
  arrange(.,EVALUE.y) %>%
    mutate(log10Evalue = -log10(if_else(EVALUE.y == 0, 1e-300, EVALUE.y))) %>% 
  distinct(CLUSTER,.keep_all = TRUE) %>% 
  slice_head(n=5) %>% 
  mutate(motif_name=if_else(str_starts(motif_name,"^Z*"),paste(motif_name, RANK, sep="_"), if_else(motif_name=="KLF9",paste(motif_name, RANK,sep="_"),motif_name)))%>%
  ggplot(., aes (y= reorder(motif_name,log10Evalue))) +
  geom_col(aes(x=log10Evalue)) +
  geom_point(aes(x=`TP.`*.05), size =4)+
  scale_x_continuous(expand=c (0,.125),sec.axis = sec_axis(transform= ~./.05,name="Percent of peaks with motif"))+
  theme_classic()+
  ylab("Enriched TF motif")+
  ggtitle(paste("DOX_3_DAR_DEG_combo response peaks(200bp)Enrichment ratio:",ER_rat))

DOX 24 hour

DOX_24_DAR_DEG_sea_disc <- read.delim("C:/Users/renee/ATAC_folder/ATAC_meme_data/new_analysis/DOX_24_DEG_xstreme/sea_disc_out/sea.tsv") %>% mutate(source="disc") %>% slice_head(n = length(.$ID)-3)
DOX_24_DAR_DEG_sea_known <- read.delim("C:/Users/renee/ATAC_folder/ATAC_meme_data/new_analysis/DOX_24_DEG_xstreme/sea_out/sea.tsv") %>% mutate(source="known") %>% slice_head(n = length(.$ID)-3)
DOX_24_DAR_DEG_xstreme <- read.delim("C:/Users/renee/ATAC_folder/ATAC_meme_data/new_analysis/DOX_24_DEG_xstreme/xstreme.tsv") %>% slice_head(n = length(.$ID)-3)
DOX_24_DAR_DEG_sea_all <- rbind(DOX_24_DAR_DEG_sea_disc, DOX_24_DAR_DEG_sea_known) %>% 
  arrange(ID, desc(source == "known")) %>%  
  distinct(ID, .keep_all = TRUE)

DOX_24_DAR_DEG_combo <- DOX_24_DAR_DEG_xstreme %>% 
  dplyr::select(SEED_MOTIF:EVALUE_ACC,SIM_MOTIF) %>% 
  left_join(., DOX_24_DAR_DEG_sea_all, by=c("ID"="ID","ALT_ID"="ALT_ID")) %>% 
  mutate(motif_name=case_when(
    str_detect(SIM_MOTIF, "\\(") ~ str_extract(SIM_MOTIF, "(?<=\\().+?(?=\\))"),
    str_detect(SIM_MOTIF, "^MA\\d+\\.\\d+") ~ ALT_ID,
    str_detect(SIM_MOTIF, "^\\d+-") ~ str_replace(SIM_MOTIF, "^\\d+-", ""),
  TRUE ~ SIM_MOTIF
)) %>% 
  dplyr::select(RANK,CLUSTER,SIM_MOTIF,ALT_ID, ID,CONSENSUS.x,motif_name,EVALUE.y,QVALUE,TP:ENR_RATIO) %>% 
  arrange(.,EVALUE.y) 

DOX_24_DAR_DEG_combo %>% 
  dplyr::mutate_if(is.numeric, funs(as.character(signif(., 3)))) %>%
  kable(., caption = "Enriched motifs 200 bp in MTX  v VEH") %>%
  kable_paper("striped", full_width = TRUE) %>%
  kable_styling(full_width = FALSE, font_size = 16) %>%
  scroll_box(height = "500px")

Enriched motifs 200 bp in MTX v VEH
RANK	CLUSTER	SIM_MOTIF	ALT_ID	ID	CONSENSUS.x	motif_name	EVALUE.y	QVALUE	TP	TP.	FP	FP.	ENR_RATIO
1	1	MA0742.2 (KLF12)	STREME-2	2-CCCGYCCS	CCCGYCCS	KLF12	3.39e-32	2.56e-32	1890	11.4	3360	8.06	1.41
2	2	MA1596.1	ZNF460	MA1596.1	GCCTCMGCCTCCCRAG	ZNF460	5.12e-30	1.93e-30	5110	30.8	10800	25.9	1.19
3	3	MA1973.1 (ZKSCAN3)	STREME-8	8-SCCCAGGCTGSSS	SCCCAGGCTGSSS	ZKSCAN3	2.86e-29	7.21e-30	6100	36.8	13200	31.7	1.16
4	4	MA1713.1	ZNF610	MA1713.1	SSCGCCGCTCCSSS	ZNF610	3.44e-26	6.49e-27	2450	14.8	4740	11.4	1.3
5	5	MA1713.1 (ZNF610)	STREME-3	3-CCGCTCC	CCGCTCC	ZNF610	4.41e-26	6.66e-27	6030	36.3	13100	31.5	1.15
6	6	MA1513.1	KLF15	MA1513.1	SCCCCGCCCCS	KLF15	1.22e-24	1.54e-25	2510	15.1	4900	11.8	1.29
7	7	MA0732.1 (EGR3)	STREME-6	6-GGCGSW	GGCGSW	EGR3	1.11e-23	1.19e-24	3540	21.3	7300	17.5	1.22
8	6	MA1961.1	PATZ1	MA1961.1	SSGGGGMGGGGS	PATZ1	1.11e-22	1.05e-23	2780	16.8	5580	13.4	1.25
9	8	MA1712.1 (ZNF454)	STREME-4	4-SGGSCCS	SGGSCCS	ZNF454	3.48e-22	2.92e-23	2880	17.4	5820	14	1.24
10	4	MA1522.1	MAZ	MA1522.1	BBCCCCTCCCY	MAZ	6.74e-22	5.09e-23	5070	30.5	11000	26.3	1.16
11	9	MA1650.1	ZBTB14	MA1650.1	SSCCGCGCACVS	ZBTB14	4.96e-21	3.4e-22	3700	22.3	7760	18.6	1.2
12	6	MA1564.1	SP9	MA1564.1	RCCACGCCCMCY	SP9	1.23e-20	7.77e-22	5610	33.8	12300	29.6	1.14
13	6	MA1630.2	ZNF281	MA1630.2	GGGGGAGGGGVV	ZNF281	6.53e-20	3.79e-21	6330	38.1	14100	33.8	1.13
14	6	MA0039.4	KLF4	MA0039.4	NNCCCCACCCHN	KLF4	1.15e-19	6.22e-21	5050	30.4	11000	26.4	1.15
15	10	1-CCGGGCC	STREME-1	1-CCGGGCC	CCGGGCC	CCGGGCC	2.24e-19	1.13e-20	2480	14.9	4970	11.9	1.25
16	11	MA0810.1	TFAP2A	MA0810.1	YGCCCBVRGGCR	TFAP2A	2.46e-19	1.16e-20	6530	39.4	14600	35.1	1.12
17	6	MA1511.2	KLF10	MA1511.2	GGGGCGGGG	KLF10	2.94e-19	1.3e-20	3100	18.6	6410	15.4	1.21
18	6	MA1515.1	KLF2	MA1515.1	NRCCACRCCCH	KLF2	3.14e-19	1.3e-20	5420	32.6	11900	28.6	1.14
19	12	MA0162.4	EGR1	MA0162.4	VCMCGCCCACGCVS	EGR1	3.27e-19	1.3e-20	4120	24.8	8820	21.1	1.17
20	6	MA0742.2	KLF12	MA0742.2	GGGGCGGGG	KLF12	1.13e-18	4.28e-20	1810	10.9	3490	8.35	1.3
21	6	MA1517.1	KLF6	MA1517.1	NRCCACGCCCH	KLF6	1.29e-18	4.65e-20	4430	26.7	9570	22.9	1.16
22	13	MA1102.2	CTCFL	MA1102.2	NSCAGGGGGCGS	CTCFL	1.38e-18	4.73e-20	2430	14.6	4900	11.7	1.25
23	14	MA0814.2	TFAP2C	MA0814.2	NNGCCTGAGGCGNN	TFAP2C	1.84e-18	5.73e-20	4270	25.7	9200	22	1.17
24	6	MA0746.2	SP3	MA0746.2	NGCCACGCCCMCH	SP3	1.87e-18	5.73e-20	5010	30.2	11000	26.3	1.15
25	6	MA1516.1	KLF3	MA1516.1	GRCCRCGCCCH	KLF3	1.9e-18	5.73e-20	4130	24.9	8860	21.2	1.17
26	2	MA1965.1	SP5	MA1965.1	CBCCTCCCHS	SP5	2.95e-18	8.28e-20	5610	33.8	12400	29.8	1.13
27	6	MA0753.2	ZNF740	MA0753.2	CYRCCCCCCCCAC	ZNF740	2.96e-18	8.28e-20	7490	45.1	17000	40.8	1.1
28	15	MA1122.1	TFDP1	MA1122.1	VSGCGGGAAVN	TFDP1	3.19e-18	8.62e-20	2590	15.6	5280	12.6	1.24
29	16	MA0506.2	Nrf1	MA0506.2	SNCTGCGCMTGCGCV	Nrf1	4.23e-17	1.07e-18	3850	23.2	8260	19.8	1.17
30	17	MA1976.1	ZNF320	MA1976.1	DGKGGGRCCMRGGGGCCWGTGHVNNNN	ZNF320	4.25e-17	1.07e-18	4660	28.1	10200	24.4	1.15
31	18	MA1986.1	ZNF692	MA1986.1	BGGGCCCASN	ZNF692	4.55e-17	1.11e-18	5850	35.2	13100	31.3	1.13
32	6	MA1959.1	KLF7	MA1959.1	DGGGCGGGG	KLF7	5.14e-17	1.21e-18	7360	44.3	16800	40.2	1.1
33	19	MA1596.1 (ZNF460)	STREME-5	5-GCSTCC	GCSTCC	ZNF460	7.3e-17	1.67e-18	5240	31.6	11600	27.8	1.14
34	20	MA1712.1	ZNF454	MA1712.1	DGGCTCSSGGCCCYGVKG	ZNF454	3.69e-16	8.2e-18	3880	23.4	8360	20	1.17
35	12	MA0732.1	EGR3	MA0732.1	HHMCGCCCACGCAHH	EGR3	1.1e-15	2.37e-17	3010	18.1	6330	15.2	1.2
36	14	MA0003.4	TFAP2A	MA0003.4	NNKGCCTCAGGCNN	TFAP2A	1.47e-15	3.08e-17	5430	32.7	12100	29	1.13
37	21	MA0024.3	E2F1	MA0024.3	TTTGGCGCCAAA	E2F1	2.8e-15	5.72e-17	3270	19.7	6940	16.6	1.18
38	22	MA0131.2	HINFP	MA0131.2	CARCGTCCGCKN	HINFP	3.79e-15	7.53e-17	1880	11.4	3750	8.99	1.26
39	11	MA0524.2	TFAP2C	MA0524.2	YGCCYBVRGGCA	TFAP2C	5.42e-15	1.05e-16	7300	44	16700	40.1	1.1
40	6	MA0079.5	SP1	MA0079.5	GGGGCGGGG	SP1	6.16e-15	1.16e-16	1120	6.77	2070	4.95	1.37
41	15	MA0865.2	E2F8	MA0865.2	TTCCCGCCAHWA	E2F8	6.49e-15	1.18e-16	3880	23.4	8410	20.2	1.16
42	6	MA0493.2	KLF1	MA0493.2	DGGGYGGGG	KLF1	6.58e-15	1.18e-16	2660	16	5540	13.3	1.21
43	23	MA0736.1	GLIS2	MA0736.1	GACCCCCCGCRAMG	GLIS2	6.73e-15	1.18e-16	5260	31.7	11700	28.1	1.13
44	11	MA0811.1	TFAP2B	MA0811.1	YGCCCBVRGGCA	TFAP2B	1.04e-14	1.78e-16	5480	33	12300	29.4	1.12
45	6	MA0741.1	KLF16	MA0741.1	GMCACGCCCCC	KLF16	1.59e-14	2.67e-16	2560	15.4	5310	12.7	1.21
46	15	MA1583.1	ZFP57	MA1583.1	NNVTTGCCGCANN	ZFP57	1.83e-14	2.99e-16	1750	10.6	3470	8.32	1.27
47	6	MA1512.1	KLF11	MA1512.1	SCCACGCCCMC	KLF11	1.86e-14	2.99e-16	7410	44.6	17000	40.8	1.09
48	6	MA0516.3	SP2	MA0516.3	GGGGCGGGG	SP2	3.36e-14	5.28e-16	1150	6.93	2140	5.13	1.35
49	6	MA0747.1	SP8	MA0747.1	RCCACGCCCMCY	SP8	5.18e-14	7.99e-16	4910	29.6	10900	26.2	1.13
50	11	MA0812.1	TFAP2B	MA0812.1	HGCCTSAGGCD	TFAP2B	9.27e-14	1.4e-15	7960	48	18500	44.2	1.09
51	6	MA0685.2	SP4	MA0685.2	GGGGCGGGG	SP4	3.96e-13	5.87e-15	1140	6.88	2150	5.14	1.34
52	23	MA0751.1	ZIC4	MA0751.1	GRCCCCCCGCKGYGH	ZIC4	5.64e-13	8.2e-15	5790	34.9	13100	31.4	1.11
53	24	MA0146.2	Zfx	MA0146.2	SSSGCCBVGGCCTS	Zfx	1.4e-12	1.99e-14	2380	14.4	4970	11.9	1.2
54	6	MA0740.2	KLF14	MA0740.2	KGGGCGGGG	KLF14	1.49e-12	2.09e-14	2280	13.7	4730	11.3	1.21
55	25	MA1985.1	ZNF669	MA1985.1	GGGGYGAYGACCRCT	ZNF669	2.41e-12	3.3e-14	4390	26.4	9750	23.4	1.13
56	6	MA0471.2	E2F6	MA0471.2	VVDGGCGGGAAVV	E2F6	2.56e-12	3.46e-14	1780	10.7	3600	8.63	1.24
57	17	MA1723.1	PRDM9	MA1723.1	RGDGGGVAGGGRGGVRRMARVARR	PRDM9	2.9e-12	3.85e-14	7060	42.5	16300	39	1.09
58	6	MA0599.1	KLF5	MA0599.1	GCCCCDCCCH	KLF5	4.81e-12	6.27e-14	2180	13.2	4530	10.9	1.21
59	23	MA1578.1	VEZF1	MA1578.1	CCCCCCMYDH	VEZF1	5.09e-12	6.52e-14	8190	49.3	19100	45.8	1.08
60	26	MA1721.1	ZNF93	MA1721.1	GGYAGCRGCAGCGGYG	ZNF93	7.75e-12	9.76e-14	2830	17.1	6060	14.5	1.18
61	12	MA1107.2	KLF9	MA1107.2	MNGCCACACCCACHYV	KLF9	8.27e-12	1.02e-13	7160	43.1	16600	39.7	1.09
62	27	MA1728.1	ZNF549	MA1728.1	NNTGCTGCCCWR	ZNF549	9.99e-12	1.22e-13	6990	42.1	16100	38.6	1.09
63	28	MA0694.1	ZBTB7B	MA0694.1	RCGACCACCGAA	ZBTB7B	1.49e-11	1.79e-13	6780	40.8	15600	37.5	1.09
64	12	MA0472.2	EGR2	MA0472.2	MCGCCCACGCA	EGR2	1.8e-11	2.12e-13	3350	20.2	7300	17.5	1.15
65	29	MA1514.1	KLF17	MA1514.1	MMCCACGCACCCMTY	KLF17	2.38e-11	2.76e-13	8010	48.3	18700	44.8	1.08
66	30	MA0014.3	PAX5	MA0014.3	RRGCGTGACCNN	PAX5	2.71e-11	3.1e-13	4620	27.8	10300	24.8	1.12
67	31	MA0748.2	YY2	MA0748.2	NVATGGCGGCS	YY2	3.32e-11	3.74e-13	3730	22.5	8220	19.7	1.14
68	12	MA1627.1	Wt1	MA1627.1	YBCCTCCCCCACVB	Wt1	4.3e-11	4.78e-13	12500	75	30000	72	1.04
69	32	MA1719.1	ZNF816	MA1719.1	DRRKGGGGACATGCHGGG	ZNF816	6.74e-11	7.38e-13	5070	30.5	11500	27.4	1.11
70	33	MA1981.1	ZNF530	MA1981.1	GMARGGMRAGGGGCRGSV	ZNF530	7.67e-11	8.27e-13	7510	45.2	17500	41.9	1.08
71	14	MA1581.1	ZBTB6	MA1581.1	DNSCTTGAGCCNV	ZBTB6	7.94e-10	8.44e-12	7930	47.7	18600	44.5	1.07
72	34	MA0527.1	ZBTB33	MA0527.1	BTCTCGCGAGABYTS	ZBTB33	1.03e-09	1.08e-11	2600	15.6	5580	13.4	1.17
73	28	MA1990.1	Gli1	MA1990.1	NNRGACCACCCASV	Gli1	1.35e-09	1.4e-11	7540	45.4	17600	42.2	1.08
74	21	MA1615.1	Plagl1	MA1615.1	NNCTGGGGCCABN	Plagl1	1.62e-09	1.66e-11	2440	14.7	5230	12.5	1.17
75	12	MA0733.1	EGR4	MA0733.1	NHMCGCCCACGCAHWT	EGR4	2.12e-09	2.14e-11	2100	12.6	4430	10.6	1.19
76	28	MA0734.3	Gli2	MA0734.3	NRGACCACCCASV	Gli2	2.18e-09	2.17e-11	5010	30.2	11400	27.3	1.11
77	2	MA1587.1	ZNF135	MA1587.1	CCTCGACCTCCYRR	ZNF135	2.46e-09	2.41e-11	4000	24.1	8950	21.4	1.12
78	28	MA0695.1	ZBTB7C	MA0695.1	RCGACCACCGAN	ZBTB7C	1.02e-08	9.88e-11	11300	68.3	27300	65.4	1.04
79	35	MA0830.2	TCF4	MA0830.2	NNGCACCTGCCNN	TCF4	2.26e-08	2.16e-10	7660	46.2	18000	43.2	1.07
80	35	MA0823.1	HEY1	MA0823.1	GRCACGTGCC	HEY1	3.19e-08	3.01e-10	3330	20.1	7400	17.7	1.13
81	21	MA0470.2	E2F4	MA0470.2	TTTTGGCGCCAWWW	E2F4	3.56e-08	3.32e-10	1660	10	3460	8.29	1.21
82	6	MA0528.2	ZNF263	MA0528.2	VNGGGGAGGASG	ZNF263	4.35e-08	4.01e-10	2730	16.4	5960	14.3	1.15
83	36	MA0632.2	TCFL5	MA0632.2	KCACGCGCMC	TCFL5	1.19e-07	1.08e-09	661	3.98	1220	2.93	1.36
84	35	MA0259.1	ARNT::HIF1A	MA0259.1	VBACGTGC	ARNT::HIF1A	1.21e-07	1.09e-09	3960	23.9	8950	21.4	1.11
85	11	MA1569.1	TFAP2E	MA1569.1	YGCCYSRGGCD	TFAP2E	1.53e-07	1.36e-09	1160	6.99	2340	5.6	1.25
86	35	MA1966.1	TFAP4::ETV1	MA1966.1	RSCGGAAGCAGSTGKN	TFAP4::ETV1	1.89e-07	1.66e-09	4960	29.9	11400	27.3	1.09
87	12	MA1656.1	ZNF449	MA1656.1	NNAAGCCCAACCNN	ZNF449	2.12e-07	1.84e-09	7400	44.6	17400	41.8	1.07
88	35	MA1106.1	HIF1A	MA1106.1	SBACGTGCNN	HIF1A	2.32e-07	2e-09	6620	39.9	15500	37.1	1.07
89	37	MA1548.1	PLAGL2	MA1548.1	NGGGCCCCCN	PLAGL2	3.48e-07	2.95e-09	993	5.98	1970	4.72	1.27
90	21	MA0864.2	E2F2	MA0864.2	RWTTTGGCGCCAWWWY	E2F2	4.28e-07	3.59e-09	1280	7.74	2640	6.31	1.23
91	19	MA1684.1	Foxn1	MA1684.1	RGAMGC	Foxn1	4.35e-07	3.61e-09	715	4.31	1360	3.25	1.33
92	29	MA0006.1	Ahr::Arnt	MA0006.1	YGCGTG	Ahr::Arnt	4.78e-07	3.93e-09	2370	14.3	5180	12.4	1.15
93	38	MA1973.1	ZKSCAN3	MA1973.1	KDKCCCAGGCTAGCCCABNN	ZKSCAN3	5.07e-07	4.12e-09	3910	23.6	8870	21.2	1.11
94	35	MA0597.2	THAP1	MA0597.2	VSGCAGGGCASV	THAP1	6.89e-07	5.54e-09	3570	21.5	8040	19.3	1.12
95	39	MA0511.2	RUNX2	MA0511.2	WAACCGCAA	RUNX2	9.25e-07	7.36e-09	11600	70.1	28200	67.5	1.04
96	35	MA1945.1	ETV5::FIGLA	MA1945.1	RGCGGAARCAGGTGG	ETV5::FIGLA	1.05e-06	8.22e-09	6730	40.5	15800	37.9	1.07
97	35	MA1941.1	ETV2::FIGLA	MA1941.1	RSCGGAARCAGSTGBN	ETV2::FIGLA	1.06e-06	8.22e-09	9000	54.2	21500	51.5	1.05
98	30	MA0067.2	PAX2	MA0067.2	BCAVTSRAGCGTGACGR	PAX2	1.22e-06	9.4e-09	1190	7.16	2430	5.82	1.23
99	13	MA1930.1	CTCF	MA1930.1	CTGCAGTKCCNVCHNNYRGCCASYAGRKGGCRAKC	CTCF	1.44e-06	1.1e-08	3860	23.2	8770	21	1.11
100	23	MA1584.1	ZIC5	MA1584.1	VGACCCCCCGCTGHGM	ZIC5	2.53e-06	1.91e-08	2750	16.6	6120	14.6	1.13
101	40	MA0615.1	Gmeb1	MA0615.1	BHBBKKACGTMMNWNNN	Gmeb1	2.62e-06	1.96e-08	4180	25.1	9540	22.9	1.1
102	35	MA1631.1	ASCL1	MA1631.1	NNGCACCTGCYNB	ASCL1	2.84e-06	2.1e-08	1990	12	4300	10.3	1.16
103	35	MA0821.2	HES5	MA0821.2	GRCACGTGYC	HES5	2.89e-06	2.12e-08	10400	62.9	25200	60.3	1.04
104	21	MA1727.1	ZNF417	MA1727.1	VRBVNTGGGCGCCAM	ZNF417	4.81e-06	3.49e-08	2470	14.9	5450	13.1	1.14
105	41	MA1964.1	SMAD2	MA1964.1	NBCCAGACDN	SMAD2	5.09e-06	3.66e-08	7550	45.4	17900	42.8	1.06
106	42	MA1716.1	ZNF76	MA1716.1	NNTWCCCAYAATGCAHYGCGC	ZNF76	9.85e-06	7.02e-08	4730	28.5	10900	26.2	1.09
107	23	MA0696.1	ZIC1	MA0696.1	GACCCCCYGCTGTG	ZIC1	1.13e-05	7.98e-08	2620	15.8	5840	14	1.13
108	4	MA1653.1	ZNF148	MA1653.1	YBCCCCTCCCCC	ZNF148	1.29e-05	9.06e-08	385	2.32	676	1.62	1.43
109	43	MA1982.1	ZNF574	MA1982.1	VGSCTAGAGMGGCCS	ZNF574	1.42e-05	9.87e-08	3120	18.8	7050	16.9	1.11
110	44	MA1710.1	ZNF257	MA1710.1	VDGAGGCRAGRG	ZNF257	1.49e-05	1.02e-07	10800	65.2	26200	62.8	1.04
111	45	MA0145.2	Tfcp2l1	MA0145.2	CCAGYYYVADCCRG	Tfcp2l1	1.66e-05	1.13e-07	5190	31.2	12100	28.9	1.08
112	46	MA0750.2	ZBTB7A	MA0750.2	NVCCGGAAGTGSV	ZBTB7A	1.84e-05	1.24e-07	1830	11	3960	9.5	1.16
113	47	MA1599.1	ZNF682	MA1599.1	BVGGCYAAGCCCCWNY	ZNF682	3.07e-05	2.05e-07	11200	67.6	27300	65.3	1.04
114	11	MA0815.1	TFAP2C	MA0815.1	TGCCCYSRGGGCA	TFAP2C	3.46e-05	2.29e-07	2410	14.5	5350	12.8	1.13
115	11	MA0872.1	TFAP2A	MA0872.1	TGCCCYSRGGGCA	TFAP2A	4.15e-05	2.73e-07	2280	13.7	5040	12.1	1.14
116	48	MA1972.1	ZFP14	MA1972.1	GGAGGCHCHGGARBG	ZFP14	4.7e-05	3.06e-07	8510	51.2	20400	48.8	1.05
117	49	MA1542.1	OSR1	MA1542.1	HGCTACYGTD	OSR1	7.2e-05	4.65e-07	12300	73.8	29900	71.7	1.03
118	13	MA0155.1	INSM1	MA0155.1	TGYCWGGGGGCR	INSM1	8.36e-05	5.35e-07	3800	22.9	8720	20.9	1.09
119	13	MA1929.1	CTCF	MA1929.1	CTGCAGTKCCNNNNNYNRCCASYAGRKGGCRSWG	CTCF	1e-04	6.35e-07	2310	13.9	5130	12.3	1.13
120	50	MA1628.1	Zic1::Zic2	MA1628.1	CVCAGCAGGNV	Zic1::Zic2	0.000111	6.98e-07	3940	23.7	9080	21.8	1.09
121	35	MA0104.4	MYCN	MA0104.4	VVCCACGTGGBB	MYCN	0.000123	7.7e-07	10900	65.8	26500	63.5	1.04
122	11	MA0813.1	TFAP2B	MA0813.1	TGCCCYBRGGGCA	TFAP2B	0.000125	7.73e-07	2560	15.4	5740	13.8	1.12
123	51	MA0767.1	GCM2	MA0767.1	BATGCGGGTR	GCM2	0.000175	1.07e-06	3630	21.8	8330	20	1.09
124	35	MA1464.1	ARNT2	MA1464.1	GTCACGTGMN	ARNT2	0.000203	1.24e-06	6530	39.3	15500	37.1	1.06
125	52	MA1979.1	ZNF416	MA1979.1	TATCTGGGCAH	ZNF416	0.000223	1.35e-06	8950	53.9	21500	51.6	1.04
126	35	MA0147.3	MYC	MA0147.3	NNCCACGTGCNB	MYC	0.000242	1.45e-06	8490	51.1	20400	48.8	1.05
127	35	MA0697.2	Zic3	MA0697.2	CNCAGCAGGAGNN	Zic3	0.000263	1.56e-06	6140	37	14500	34.8	1.06
128	35	MA1099.2	HES1	MA1099.2	GGCRCGTGBC	HES1	0.000328	1.94e-06	1110	6.69	2340	5.6	1.19
129	50	MA1629.1	Zic2	MA1629.1	NDCACAGCAGGDRG	Zic2	0.000373	2.19e-06	10800	64.9	26200	62.7	1.03
130	51	MA0646.1	GCM1	MA0646.1	BATGCGGGTAC	GCM1	0.000406	2.36e-06	5950	35.8	14100	33.7	1.06
131	35	MA0649.1	HEY2	MA0649.1	GRCACGTGYC	HEY2	0.000978	5.64e-06	4350	26.2	10100	24.3	1.08
132	35	MA0616.2	HES2	MA0616.2	GGCACGTGYC	HES2	0.00107	6.12e-06	5770	34.8	13700	32.7	1.06
133	53	MA1971.1	ZBED2	MA1971.1	NNMMCGAAACCNNV	ZBED2	0.00115	6.52e-06	7600	45.8	18200	43.6	1.05
134	54	MA1555.1	RXRB	MA1555.1	RRGGTCATGACCYY	RXRB	0.00134	7.55e-06	4650	28	10900	26.1	1.07
135	55	MA1474.1	CREB3L4	MA1474.1	YGCCACGTCAYC	CREB3L4	0.00305	1.71e-05	7440	44.8	17800	42.7	1.05
136	56	MA1557.1	SMAD5	MA1557.1	YGTCTAGACA	SMAD5	0.00326	1.81e-05	4190	25.2	9790	23.5	1.08
10	61	10-AGGATTGCTTG	STREME-10	10-AGGATTGCTTG	10-AGGATTGCTTG	AGGATTGCTTG	0.00337	0.000337	543	3.27	1140	2.72	1.2
137	46	MA0759.2	ELK3	MA0759.2	ACCGGAAGTRV	ELK3	0.00353	1.95e-05	1570	9.43	3450	8.27	1.14
138	56	MA0861.1	TP73	MA0861.1	DRCATGTCNNRACAYGYM	TP73	0.0036	1.97e-05	3640	21.9	8450	20.2	1.08
139	46	MA0764.3	ETV4	MA0764.3	ACCGGAAGTR	ETV4	0.00425	2.31e-05	5820	35	13800	33.1	1.06
140	35	MA0603.1	Arntl	MA0603.1	NGTCACGTGH	Arntl	0.00504	2.72e-05	8870	53.4	21500	51.4	1.04
141	35	MA1997.1	Olig2	MA1997.1	NVCAGCTGBN	Olig2	0.00585	3.14e-05	5660	34.1	13400	32.2	1.06
142	46	MA0765.3	ETV5	MA0765.3	ACCGGAAGTR	ETV5	0.00642	3.42e-05	3460	20.9	8040	19.3	1.08
143	57	MA1528.1	NFIX	MA1528.1	STTGGCRNNGTGCCARB	NFIX	0.00654	3.45e-05	3670	22.1	8550	20.5	1.08
144	57	MA0671.1	NFIX	MA0671.1	NNTGCCAAN	NFIX	0.00838	4.4e-05	16300	98.1	40700	97.5	1.01
145	35	MA1652.1	ZKSCAN5	MA1652.1	NNRGGARGTGAGRR	ZKSCAN5	0.00999	5.2e-05	8250	49.7	19900	47.8	1.04
146	58	MA1730.1	ZNF708	MA1730.1	NNRGCTGTRCCTCCY	ZNF708	0.0117	6.03e-05	7550	45.5	18200	43.6	1.04
147	35	MA1993.1	Neurod2	MA1993.1	VVCAGCTGBB	Neurod2	0.0129	6.61e-05	5540	33.4	13200	31.6	1.06
148	35	MA0633.2	Twist2	MA0633.2	NVCAGCTGBN	Twist2	0.0132	6.74e-05	5130	30.9	12200	29.1	1.06
149	35	MA0103.3	ZEB1	MA0103.3	SNCACCTGSVN	ZEB1	0.0162	8.21e-05	14100	84.8	34800	83.4	1.02
150	59	MA1715.1	ZNF707	MA1715.1	CCCCACTCCTGGTAC	ZNF707	0.0195	9.83e-05	3310	19.9	7700	18.4	1.08
151	60	GCCTGTAATCCCAGC	MEME-1	GCCTGTAATCCCAGC	GCCTGTAATCCCAGC	GCCTGTAATCCCAGC	0.021	0.000105	280	1.69	518	1.24	1.36
152	35	MA0822.1	HES7	MA0822.1	YGGCACGTGCCR	HES7	0.0212	0.000105	750	4.52	1580	3.78	1.2
153	60	MA0712.2 (OTX2)	STREME-7	7-CCTGTAATCCCAGC	CCTGTAATCCCAGC	OTX2	0.0394	0.000195	290	1.75	546	1.31	1.34
11	62	MA1616.1 (Prdm15)	STREME-9	9-GAACTCCTGGRCT	GAACTCCTGGRCT	Prdm15	0.246	0.0224	40	0.24	64	0.15	1.59
12	63	MA1125.1 (ZNF384)	MEME-2	HWAAAAAAAAAAAAA	HWAAAAAAAAAAAAA	ZNF384	0.636	0.0516	452	2.72	1030	2.47	1.1
13	64	11-AGGTTGCAGTGA	STREME-11	11-AGGTTGCAGTGA	11-AGGTTGCAGTGA	AGGTTGCAGTGA	0.67	0.0516	34	0.2	58	0.14	1.49
14	65	MA0478.1 (FOSL2)	MEME-3	TGASTCAT	TGASTCAT	FOSL2	4.32	0.309	35	0.21	78	0.19	1.15

DOX_24_DAR_DEG_combo %>% 
   dplyr::filter(ENR_RATIO>ER_rat) %>%
  dplyr::select(RANK,CLUSTER,motif_name,SIM_MOTIF,ALT_ID, ID,EVALUE.y,TP.)%>%
  arrange(.,EVALUE.y) %>%
  slice_head(n=80)%>% 
  mutate(log10Evalue= log(EVALUE.y, base = 10)*(-1)) %>% 
  mutate(motif_name=if_else(str_starts(motif_name,"^Z*"),paste(motif_name, RANK, sep="_"), if_else(motif_name=="KLF9",paste(motif_name, RANK,sep="_"),motif_name)))%>%
  ggplot(., aes (y= reorder(motif_name,log10Evalue))) +
  geom_col(aes(x=log10Evalue)) +
  geom_point(aes(x=`TP.`*1.25), size =4)+
  scale_x_continuous(expand=c (0,.125),sec.axis = sec_axis(transform= ~./1.25,name="Percent of peaks with motif"))+
  theme_classic()+
  ylab("Enriched TF motif")+
  ggtitle(paste("DOX_24_DAR_DEG_combo response peaks(200bp)Enrichment ratio:",ER_rat))

DOX_24_DAR_DEG_combo %>% 
   dplyr::filter(ENR_RATIO>ER_rat) %>%
  dplyr::select(RANK,CLUSTER,motif_name,SIM_MOTIF,ALT_ID, ID,EVALUE.y,TP.)%>%
  arrange(.,EVALUE.y) %>%
    mutate(log10Evalue = -log10(if_else(EVALUE.y == 0, 1e-300, EVALUE.y))) %>% 
  distinct(CLUSTER,.keep_all = TRUE) %>% 
  slice_head(n=5) %>% 
  mutate(motif_name=if_else(str_starts(motif_name,"^Z*"),paste(motif_name, RANK, sep="_"), if_else(motif_name=="KLF9",paste(motif_name, RANK,sep="_"),motif_name)))%>%
  ggplot(., aes (y= reorder(motif_name,log10Evalue))) +
  geom_col(aes(x=log10Evalue)) +
  geom_point(aes(x=`TP.`*2), size =4)+
  scale_x_continuous(expand=c (0,.125),sec.axis = sec_axis(transform= ~./2,name="Percent of peaks with motif"))+
  theme_classic()+
  ylab("Enriched TF motif")+
  ggtitle(paste("DOX_24_DAR_DEG_combo response peaks(200bp)Enrichment ratio:",ER_rat))

EPI 3 hour

EPI_3_DAR_DEG_sea_disc <- read.delim("C:/Users/renee/ATAC_folder/ATAC_meme_data/new_analysis/EPI_3_DEG_xstreme/sea_disc_out/sea.tsv") %>% mutate(source="disc") %>% slice_head(n = length(.$ID)-3)
EPI_3_DAR_DEG_sea_known <- read.delim("C:/Users/renee/ATAC_folder/ATAC_meme_data/new_analysis/EPI_3_DEG_xstreme/sea_out/sea.tsv") %>% mutate(source="known") %>% slice_head(n = length(.$ID)-3)
EPI_3_DAR_DEG_xstreme <- read.delim("C:/Users/renee/ATAC_folder/ATAC_meme_data/new_analysis/EPI_3_DEG_xstreme/xstreme.tsv") %>% slice_head(n = length(.$ID)-3)
EPI_3_DAR_DEG_sea_all <- rbind(EPI_3_DAR_DEG_sea_disc, EPI_3_DAR_DEG_sea_known) %>% 
  arrange(ID, desc(source == "known")) %>%  
  distinct(ID, .keep_all = TRUE)

EPI_3_DAR_DEG_combo <- EPI_3_DAR_DEG_xstreme %>% 
  dplyr::select(SEED_MOTIF:EVALUE_ACC,SIM_MOTIF) %>% 
  left_join(., EPI_3_DAR_DEG_sea_all, by=c("ID"="ID","ALT_ID"="ALT_ID")) %>% 
  mutate(motif_name=case_when(
    str_detect(SIM_MOTIF, "\\(") ~ str_extract(SIM_MOTIF, "(?<=\\().+?(?=\\))"),
    str_detect(SIM_MOTIF, "^MA\\d+\\.\\d+") ~ ALT_ID,
    str_detect(SIM_MOTIF, "^\\d+-") ~ str_replace(SIM_MOTIF, "^\\d+-", ""),
  TRUE ~ SIM_MOTIF
)) %>% 
  dplyr::select(RANK,CLUSTER,SIM_MOTIF,ALT_ID, ID,CONSENSUS.x,motif_name,EVALUE.y,QVALUE,TP:ENR_RATIO) %>% 
  arrange(.,EVALUE.y) 

EPI_3_DAR_DEG_combo %>% 
  dplyr::mutate_if(is.numeric, funs(as.character(signif(., 3)))) %>%
  kable(., caption = "Enriched motifs 200 bp in MTX  v VEH") %>%
  kable_paper("striped", full_width = TRUE) %>%
  kable_styling(full_width = FALSE, font_size = 16) %>%
  scroll_box(height = "500px")

Enriched motifs 200 bp in MTX v VEH
RANK	CLUSTER	SIM_MOTIF	ALT_ID	ID	CONSENSUS.x	motif_name	EVALUE.y	QVALUE	TP	TP.	FP	FP.	ENR_RATIO
1	1	MA0117.2 (Mafb)	STREME-1	1-MATGTACTGACTDCA	MATGTACTGACTDCA	Mafb	1.45e-08	1.45e-08	11	8.46	49	0.39	23.2
2	2	2-AATACAGTTCSA	STREME-2	2-AATACAGTTCSA	AATACAGTTCSA	AATACAGTTCSA	0.0117	0.00583	9	6.92	283	2.23	3.41
3	3	3-CRGGGTTTKAGW	STREME-3	3-CRGGGTTTKAGW	CRGGGTTTKAGW	CRGGGTTTKAGW	0.0977	0.0326	12	9.23	611	4.82	2.06
4	4	MA1125.1 (ZNF384)	MEME-1	WBTTTTTKTTTKTTT	WBTTTTTKTTTKTTT	ZNF384	0.142	0.0354	3	2.31	68	0.54	5.61

EPI_3_DAR_DEG_combo %>% 
   dplyr::filter(ENR_RATIO>ER_rat) %>%
  dplyr::select(RANK,CLUSTER,motif_name,SIM_MOTIF,ALT_ID, ID,EVALUE.y,TP.)%>%
  arrange(.,EVALUE.y) %>%
  slice_head(n=80)%>% 
  mutate(log10Evalue= log(EVALUE.y, base = 10)*(-1)) %>% 
  mutate(motif_name=if_else(str_starts(motif_name,"^Z*"),paste(motif_name, RANK, sep="_"), if_else(motif_name=="KLF9",paste(motif_name, RANK,sep="_"),motif_name)))%>%
  ggplot(., aes (y= reorder(motif_name,log10Evalue))) +
  geom_col(aes(x=log10Evalue)) +
  geom_point(aes(x=`TP.`*1.25), size =4)+
  scale_x_continuous(expand=c (0,.125),sec.axis = sec_axis(transform= ~./1.25,name="Percent of peaks with motif"))+
  theme_classic()+
  ylab("Enriched TF motif")+
  ggtitle(paste("EPI_3_DAR_DEG_combo response peaks(200bp)Enrichment ratio:",ER_rat))

EPI_3_DAR_DEG_combo %>% 
   dplyr::filter(ENR_RATIO>ER_rat) %>%
  dplyr::select(RANK,CLUSTER,motif_name,SIM_MOTIF,ALT_ID, ID,EVALUE.y,TP.)%>%
  arrange(.,EVALUE.y) %>%
    mutate(log10Evalue = -log10(if_else(EVALUE.y == 0, 1e-300, EVALUE.y))) %>% 
  distinct(CLUSTER,.keep_all = TRUE) %>% 
  slice_head(n=5) %>% 
  mutate(motif_name=if_else(str_starts(motif_name,"^Z*"),paste(motif_name, RANK, sep="_"), if_else(motif_name=="KLF9",paste(motif_name, RANK,sep="_"),motif_name)))%>%
  ggplot(., aes (y= reorder(motif_name,log10Evalue))) +
  geom_col(aes(x=log10Evalue)) +
  geom_point(aes(x=`TP.`*.5), size =4)+
  scale_x_continuous(expand=c (0,.125),sec.axis = sec_axis(transform= ~./.5,name="Percent of peaks with motif"))+
  theme_classic()+
  ylab("Enriched TF motif")+
  ggtitle(paste("EPI_3_DAR_DEG_combo response peaks(200bp)Enrichment ratio:",ER_rat))

EPI 24 hour

EPI_24_DAR_DEG_sea_disc <- read.delim("C:/Users/renee/ATAC_folder/ATAC_meme_data/new_analysis/EPI_24_DEG_xstreme/sea_disc_out/sea.tsv") %>% mutate(source="disc") %>% slice_head(n = length(.$ID)-3)
EPI_24_DAR_DEG_sea_known <- read.delim("C:/Users/renee/ATAC_folder/ATAC_meme_data/new_analysis/EPI_24_DEG_xstreme/sea_out/sea.tsv") %>% mutate(source="known") %>% slice_head(n = length(.$ID)-3)
EPI_24_DAR_DEG_xstreme <- read.delim("C:/Users/renee/ATAC_folder/ATAC_meme_data/new_analysis/EPI_24_DEG_xstreme/xstreme.tsv") %>% slice_head(n = length(.$ID)-3)
EPI_24_DAR_DEG_sea_all <- rbind(EPI_24_DAR_DEG_sea_disc, EPI_24_DAR_DEG_sea_known) %>% 
  arrange(ID, desc(source == "known")) %>%  
  distinct(ID, .keep_all = TRUE)

EPI_24_DAR_DEG_combo <- EPI_24_DAR_DEG_xstreme %>% 
  dplyr::select(SEED_MOTIF:EVALUE_ACC,SIM_MOTIF) %>% 
  left_join(., EPI_24_DAR_DEG_sea_all, by=c("ID"="ID","ALT_ID"="ALT_ID")) %>% 
  mutate(motif_name=case_when(
    str_detect(SIM_MOTIF, "\\(") ~ str_extract(SIM_MOTIF, "(?<=\\().+?(?=\\))"),
    str_detect(SIM_MOTIF, "^MA\\d+\\.\\d+") ~ ALT_ID,
    str_detect(SIM_MOTIF, "^\\d+-") ~ str_replace(SIM_MOTIF, "^\\d+-", ""),
  TRUE ~ SIM_MOTIF
)) %>% 
  dplyr::select(RANK,CLUSTER,SIM_MOTIF,ALT_ID, ID,CONSENSUS.x,motif_name,EVALUE.y,QVALUE,TP:ENR_RATIO) %>% 
  arrange(.,EVALUE.y) 

EPI_24_DAR_DEG_combo %>% 
  dplyr::mutate_if(is.numeric, funs(as.character(signif(., 3)))) %>%
  kable(., caption = "Enriched motifs 200 bp in MTX  v VEH") %>%
  kable_paper("striped", full_width = TRUE) %>%
  kable_styling(full_width = FALSE, font_size = 16) %>%
  scroll_box(height = "500px")

Enriched motifs 200 bp in MTX v VEH
RANK	CLUSTER	SIM_MOTIF	ALT_ID	ID	CONSENSUS.x	motif_name	EVALUE.y	QVALUE	TP	TP.	FP	FP.	ENR_RATIO
1	1	MA1596.1 (ZNF460)	STREME-3	3-CGCCTCCC	CGCCTCCC	ZNF460	6.47e-22	4.98e-22	2400	15.2	5310	12	1.27
2	2	MA1564.1	SP9	MA1564.1	RCCACGCCCMCY	SP9	6.19e-20	2.38e-20	3170	20.2	7360	16.7	1.21
3	2	MA1513.1	KLF15	MA1513.1	SCCCCGCCCCS	KLF15	1.3e-19	3.34e-20	2010	12.8	4410	9.99	1.28
4	2	MA0746.2	SP3	MA0746.2	NGCCACGCCCMCH	SP3	4.4e-18	8.46e-19	3530	22.5	8380	19	1.18
5	3	MA1713.1	ZNF610	MA1713.1	SSCGCCGCTCCSSS	ZNF610	1.06e-17	1.45e-18	2020	12.9	4480	10.2	1.27
6	20	MA1653.1	ZNF148	MA1653.1	YBCCCCTCCCCC	ZNF148	1.13e-17	1.45e-18	1870	11.9	4100	9.29	1.28
7	4	5-BCSSGV	STREME-5	5-BCSSGV	BCSSGV	BCSSGV	4.6e-17	5.05e-18	2190	13.9	4930	11.2	1.25
8	5	MA1596.1	ZNF460	MA1596.1	GCCTCMGCCTCCCRAG	ZNF460	5.48e-17	5.27e-18	2130	13.6	4780	10.8	1.25
9	6	1-CCCGGCG	STREME-1	1-CCCGGCG	CCCGGCG	CCCGGCG	1.61e-16	1.37e-17	2280	14.6	5190	11.8	1.24
10	7	MA1650.1	ZBTB14	MA1650.1	SSCCGCGCACVS	ZBTB14	3.11e-16	2.39e-17	2430	15.5	5580	12.6	1.23
11	8	2-CGCGCG	STREME-2	2-CGCGCG	CGCGCG	CGCGCG	5.66e-16	3.95e-17	3200	20.4	7590	17.2	1.19
12	2	MA1511.2	KLF10	MA1511.2	GGGGCGGGG	KLF10	8.45e-16	5.41e-17	2880	18.4	6770	15.3	1.2
13	9	MA0146.2	Zfx	MA0146.2	SSSGCCBVGGCCTS	Zfx	9.26e-16	5.48e-17	4720	30	11600	26.4	1.14
14	10	MA0506.2	Nrf1	MA0506.2	SNCTGCGCMTGCGCV	Nrf1	2.91e-15	1.6e-16	2810	17.9	6600	14.9	1.2
15	2	MA1961.1	PATZ1	MA1961.1	SSGGGGMGGGGS	PATZ1	8.51e-15	4.36e-16	6730	42.9	17200	39	1.1
16	11	MA1102.2	CTCFL	MA1102.2	NSCAGGGGGCGS	CTCFL	1.53e-14	7.35e-16	2430	15.5	5640	12.8	1.21
17	2	MA0742.2	KLF12	MA0742.2	GGGGCGGGG	KLF12	6.3e-14	2.85e-15	2990	19	7120	16.1	1.18
18	2	MA0740.2	KLF14	MA0740.2	KGGGCGGGG	KLF14	8.44e-14	3.6e-15	2250	14.3	5200	11.8	1.22
19	12	MA1976.1	ZNF320	MA1976.1	DGKGGGRCCMRGGGGCCWGTGHVNNNN	ZNF320	3e-13	1.22e-14	4360	27.8	10800	24.5	1.13
20	2	MA0079.5	SP1	MA0079.5	GGGGCGGGG	SP1	7.85e-13	3.02e-14	3410	21.7	8280	18.8	1.16
21	2	MA1515.1	KLF2	MA1515.1	NRCCACRCCCH	KLF2	1.46e-12	5.27e-14	2400	15.3	5640	12.8	1.2
22	2	MA1512.1	KLF11	MA1512.1	SCCACGCCCMC	KLF11	1.51e-12	5.27e-14	3300	21	8000	18.1	1.16
23	13	MA1583.1	ZFP57	MA1583.1	NNVTTGCCGCANN	ZFP57	1.58e-12	5.28e-14	3540	22.5	8630	19.5	1.15
24	14	MA1712.1	ZNF454	MA1712.1	DGGCTCSSGGCCCYGVKG	ZNF454	1.69e-12	5.43e-14	2740	17.4	6520	14.8	1.18
25	15	MA0810.1	TFAP2A	MA0810.1	YGCCCBVRGGCR	TFAP2A	2.14e-12	6.59e-14	2890	18.4	6930	15.7	1.17
26	2	MA0162.4	EGR1	MA0162.4	VCMCGCCCACGCVS	EGR1	2.32e-12	6.87e-14	2160	13.8	5020	11.4	1.21
27	13	MA1122.1	TFDP1	MA1122.1	VSGCGGGAAVN	TFDP1	2.79e-12	7.95e-14	4280	27.2	10600	24.1	1.13
28	16	MA0823.1	HEY1	MA0823.1	GRCACGTGCC	HEY1	4.86e-12	1.33e-13	5790	36.9	14800	33.5	1.1
29	17	MA1986.1	ZNF692	MA1986.1	BGGGCCCASN	ZNF692	6.4e-12	1.7e-13	5380	34.2	13600	30.9	1.11
30	13	MA0471.2	E2F6	MA0471.2	VVDGGCGGGAAVV	E2F6	1.29e-11	3.31e-13	1480	9.41	3300	7.47	1.26
31	2	MA0747.1	SP8	MA0747.1	RCCACGCCCMCY	SP8	3.59e-11	8.73e-13	3410	21.7	8360	18.9	1.15
32	2	MA1959.1	KLF7	MA1959.1	DGGGCGGGG	KLF7	3.63e-11	8.73e-13	6670	42.5	17200	39.1	1.09
33	2	MA1516.1	KLF3	MA1516.1	GRCCRCGCCCH	KLF3	4.91e-11	1.14e-12	5790	36.9	14800	33.6	1.1
34	2	MA0039.4	KLF4	MA0039.4	NNCCCCACCCHN	KLF4	5.03e-11	1.14e-12	5350	34	13600	30.8	1.1
35	20	MA1630.2	ZNF281	MA1630.2	GGGGGAGGGGVV	ZNF281	6.56e-11	1.44e-12	2170	13.8	5110	11.6	1.2
36	2	MA0741.1	KLF16	MA0741.1	GMCACGCCCCC	KLF16	7.44e-11	1.59e-12	6970	44.4	18100	41	1.08
37	2	MA0753.2	ZNF740	MA0753.2	CYRCCCCCCCCAC	ZNF740	8.44e-11	1.73e-12	3110	19.8	7580	17.2	1.15
38	12	MA1723.1	PRDM9	MA1723.1	RGDGGGVAGGGRGGVRRMARVARR	PRDM9	8.55e-11	1.73e-12	6750	43	17500	39.6	1.08
39	20	MA1522.1	MAZ	MA1522.1	BBCCCCTCCCY	MAZ	9.72e-11	1.92e-12	7070	45	18400	41.6	1.08
40	2	MA0685.2	SP4	MA0685.2	GGGGCGGGG	SP4	1.11e-10	2.14e-12	4730	30.1	11900	27.1	1.11
41	18	MA0131.2	HINFP	MA0131.2	CARCGTCCGCKN	HINFP	1.75e-10	3.28e-12	2230	14.2	5280	12	1.19
42	15	MA0524.2	TFAP2C	MA0524.2	YGCCYBVRGGCA	TFAP2C	2.82e-10	5.16e-12	6920	44.1	18000	40.8	1.08
43	19	MA0814.2	TFAP2C	MA0814.2	NNGCCTGAGGCGNN	TFAP2C	3.36e-10	6.01e-12	7760	49.4	20300	46.1	1.07
44	20	MA1653.1 (ZNF148)	STREME-6	6-CCTCCCC	CCTCCCC	ZNF148	5.46e-10	9.5e-12	9600	61.2	25600	57.9	1.06
45	2	MA0733.1	EGR4	MA0733.1	NHMCGCCCACGCAHWT	EGR4	5.56e-10	9.5e-12	5960	37.9	15400	34.8	1.09
46	21	MA1548.1	PLAGL2	MA1548.1	NGGGCCCCCN	PLAGL2	5.82e-10	9.74e-12	3710	23.6	9230	20.9	1.13
47	2	MA0599.1	KLF5	MA0599.1	GCCCCDCCCH	KLF5	7.54e-10	1.23e-11	2860	18.2	6960	15.8	1.16
48	22	MA1721.1	ZNF93	MA1721.1	GGYAGCRGCAGCGGYG	ZNF93	7.78e-10	1.25e-11	977	6.22	2100	4.75	1.31
49	2	MA0516.3	SP2	MA0516.3	GGGGCGGGG	SP2	1.16e-09	1.82e-11	8880	56.6	23500	53.3	1.06
50	2	MA1514.1	KLF17	MA1514.1	MMCCACGCACCCMTY	KLF17	1.51e-09	2.32e-11	6340	40.4	16400	37.2	1.08
51	15	MA0811.1	TFAP2B	MA0811.1	YGCCCBVRGGCA	TFAP2B	1.84e-09	2.77e-11	7260	46.3	19000	43.1	1.07
52	5	MA1587.1	ZNF135	MA1587.1	CCTCGACCTCCYRR	ZNF135	3.88e-09	5.74e-11	5990	38.1	15500	35.1	1.09
53	15	MA0812.1	TFAP2B	MA0812.1	HGCCTSAGGCD	TFAP2B	4.44e-09	6.44e-11	6550	41.7	17000	38.6	1.08
54	23	MA0865.2	E2F8	MA0865.2	TTCCCGCCAHWA	E2F8	9.94e-09	1.42e-10	4500	28.7	11400	25.9	1.11
55	13	MA1615.1	Plagl1	MA1615.1	NNCTGGGGCCABN	Plagl1	2.27e-08	3.18e-10	12200	77.5	33100	74.9	1.03
56	2	MA0493.2	KLF1	MA0493.2	DGGGYGGGG	KLF1	3.41e-08	4.68e-10	1130	7.22	2530	5.74	1.26
57	24	MA0751.1	ZIC4	MA0751.1	GRCCCCCCGCKGYGH	ZIC4	4.38e-08	5.8e-10	1060	6.76	2360	5.34	1.27
58	23	MA0527.1	ZBTB33	MA0527.1	BTCTCGCGAGABYTS	ZBTB33	4.4e-08	5.8e-10	2720	17.3	6680	15.1	1.15
59	25	MA1542.1	OSR1	MA1542.1	HGCTACYGTD	OSR1	4.45e-08	5.8e-10	10500	66.6	28200	63.8	1.04
60	23	MA0024.3	E2F1	MA0024.3	TTTGGCGCCAAA	E2F1	5.81e-08	7.45e-10	1970	12.6	4710	10.7	1.18
61	26	MA1981.1	ZNF530	MA1981.1	GMARGGMRAGGGGCRGSV	ZNF530	6.15e-08	7.75e-10	7640	48.6	20200	45.7	1.07
62	27	MA0694.1	ZBTB7B	MA0694.1	RCGACCACCGAA	ZBTB7B	7.21e-08	8.95e-10	6660	42.4	17400	39.5	1.07
63	23	MA0470.2	E2F4	MA0470.2	TTTTGGCGCCAWWW	E2F4	7.34e-08	8.97e-10	1770	11.3	4180	9.47	1.19
64	28	MA1985.1	ZNF669	MA1985.1	GGGGYGAYGACCRCT	ZNF669	1.91e-07	2.3e-09	5500	35	14200	32.3	1.08
65	23	MA0748.2	YY2	MA0748.2	NVATGGCGGCS	YY2	2.75e-07	3.26e-09	4840	30.8	12500	28.2	1.09
66	29	MA0759.2	ELK3	MA0759.2	ACCGGAAGTRV	ELK3	5.47e-07	6.37e-09	2870	18.3	7130	16.2	1.13
67	2	MA1517.1	KLF6	MA1517.1	NRCCACGCCCH	KLF6	5.61e-07	6.44e-09	7610	48.5	20200	45.6	1.06
68	16	MA0616.2	HES2	MA0616.2	GGCACGTGYC	HES2	7.01e-07	7.92e-09	3070	19.6	7680	17.4	1.12
69	2	MA1107.2	KLF9	MA1107.2	MNGCCACACCCACHYV	KLF9	8.19e-07	9.13e-09	6070	38.6	15900	36	1.08
70	16	MA0821.2	HES5	MA0821.2	GRCACGTGYC	HES5	8.75e-07	9.61e-09	3750	23.9	9520	21.6	1.11
71	29	MA0750.2	ZBTB7A	MA0750.2	NVCCGGAAGTGSV	ZBTB7A	1.11e-06	1.21e-08	5900	37.6	15400	34.9	1.08
72	2	MA0472.2	EGR2	MA0472.2	MCGCCCACGCA	EGR2	1.21e-06	1.29e-08	4050	25.8	10400	23.4	1.1
73	30	MA0597.2	THAP1	MA0597.2	VSGCAGGGCASV	THAP1	1.44e-06	1.52e-08	5760	36.7	15000	34	1.08
74	31	MA1599.1	ZNF682	MA1599.1	BVGGCYAAGCCCCWNY	ZNF682	1.79e-06	1.86e-08	2150	13.7	5240	11.9	1.15
75	32	MA1727.1	ZNF417	MA1727.1	VRBVNTGGGCGCCAM	ZNF417	2.28e-06	2.34e-08	3030	19.3	7590	17.2	1.12
76	33	MA1715.1	ZNF707	MA1715.1	CCCCACTCCTGGTAC	ZNF707	2.77e-06	2.81e-08	6070	38.6	15900	36	1.07
77	34	MA1941.1	ETV2::FIGLA	MA1941.1	RSCGGAARCAGSTGBN	ETV2::FIGLA	3.58e-06	3.58e-08	5220	33.3	13600	30.8	1.08
78	27	MA1990.1	Gli1	MA1990.1	NNRGACCACCCASV	Gli1	4.58e-06	4.52e-08	7840	49.9	20900	47.3	1.06
79	16	MA1099.2	HES1	MA1099.2	GGCRCGTGBC	HES1	5.04e-06	4.91e-08	2410	15.4	5960	13.5	1.14
80	24	MA1584.1	ZIC5	MA1584.1	VGACCCCCCGCTGHGM	ZIC5	5.79e-06	5.56e-08	1320	8.39	3090	6.99	1.2
81	2	MA1578.1	VEZF1	MA1578.1	CCCCCCMYDH	VEZF1	7.7e-06	7.31e-08	4690	29.8	12100	27.5	1.09
82	35	MA0067.2	PAX2	MA0067.2	BCAVTSRAGCGTGACGR	PAX2	7.83e-06	7.34e-08	4530	28.8	11700	26.5	1.09
83	16	MA1464.1	ARNT2	MA1464.1	GTCACGTGMN	ARNT2	1.2e-05	1.11e-07	3750	23.9	9590	21.7	1.1
84	2	MA0732.1	EGR3	MA0732.1	HHMCGCCCACGCAHH	EGR3	1.57e-05	1.44e-07	1400	8.93	3320	7.53	1.19
85	20	MA1965.1	SP5	MA1965.1	CBCCTCCCHS	SP5	1.62e-05	1.46e-07	1740	11.1	4210	9.54	1.16
86	35	MA0014.3	PAX5	MA0014.3	RRGCGTGACCNN	PAX5	2.3e-05	2.06e-07	3270	20.8	8300	18.8	1.11
87	16	MA0522.3	TCF3	MA0522.3	NVCACCTGCNN	TCF3	2.65e-05	2.34e-07	12000	76.7	32900	74.5	1.03
88	36	MA1719.1	ZNF816	MA1719.1	DRRKGGGGACATGCHGGG	ZNF816	2.73e-05	2.39e-07	2550	16.3	6380	14.5	1.13
89	27	MA0734.3	Gli2	MA0734.3	NRGACCACCCASV	Gli2	2.84e-05	2.45e-07	6540	41.6	17300	39.2	1.06
90	37	MA1982.1	ZNF574	MA1982.1	VGSCTAGAGMGGCCS	ZNF574	4.64e-05	3.97e-07	5320	33.9	13900	31.6	1.07
91	11	MA0155.1	INSM1	MA0155.1	TGYCWGGGGGCR	INSM1	5.27e-05	4.45e-07	3900	24.8	10000	22.7	1.09
92	24	MA0696.1	ZIC1	MA0696.1	GACCCCCYGCTGTG	ZIC1	7.19e-05	6.01e-07	2190	13.9	5420	12.3	1.13
93	34	MA1966.1	TFAP4::ETV1	MA1966.1	RSCGGAAGCAGSTGKN	TFAP4::ETV1	7.5e-05	6.2e-07	2360	15	5890	13.3	1.13
94	20	MA0528.2	ZNF263	MA0528.2	VNGGGGAGGASG	ZNF263	8.3e-05	6.79e-07	2400	15.3	6000	13.6	1.13
95	19	MA0003.4	TFAP2A	MA0003.4	NNKGCCTCAGGCNN	TFAP2A	8.4e-05	6.8e-07	9460	60.2	25600	57.9	1.04
96	34	MA1945.1	ETV5::FIGLA	MA1945.1	RGCGGAARCAGGTGG	ETV5::FIGLA	8.77e-05	7.02e-07	6470	41.2	17100	38.8	1.06
97	15	MA0813.1	TFAP2B	MA0813.1	TGCCCYBRGGGCA	TFAP2B	9.11e-05	7.22e-07	2910	18.5	7370	16.7	1.11
98	16	MA1106.1	HIF1A	MA1106.1	SBACGTGCNN	HIF1A	9.59e-05	7.52e-07	7530	48	20100	45.6	1.05
99	16	MA0464.2	BHLHE40	MA0464.2	VKCACGTGMC	BHLHE40	0.000107	8.31e-07	6800	43.3	18100	40.9	1.06
100	15	MA0872.1	TFAP2A	MA0872.1	TGCCCYSRGGGCA	TFAP2A	0.000123	9.48e-07	2250	14.3	5600	12.7	1.13
101	27	MA0695.1	ZBTB7C	MA0695.1	RCGACCACCGAN	ZBTB7C	0.000132	1e-06	5280	33.6	13900	31.4	1.07
102	38	MA1656.1	ZNF449	MA1656.1	NNAAGCCCAACCNN	ZNF449	0.000149	1.12e-06	12400	79.1	34100	77.2	1.03
103	39	MA0052.4 (MEF2A)	STREME-7	7-TACTAAAAATACA	TACTAAAAATACA	MEF2A	0.000218	1.63e-06	130	0.83	204	0.46	1.8
104	16	MA0830.2	TCF4	MA0830.2	NNGCACCTGCCNN	TCF4	0.000268	1.98e-06	7020	44.7	18700	42.4	1.05
105	15	MA0815.1	TFAP2C	MA0815.1	TGCCCYSRGGGCA	TFAP2C	0.000284	2.08e-06	2650	16.9	6700	15.2	1.11
106	19	MA1581.1	ZBTB6	MA1581.1	DNSCTTGAGCCNV	ZBTB6	0.000444	3.22e-06	10900	69.3	29700	67.2	1.03
107	16	MA0632.2	TCFL5	MA0632.2	KCACGCGCMC	TCFL5	0.000519	3.73e-06	4160	26.5	10800	24.5	1.08
108	11	MA1930.1	CTCF	MA1930.1	CTGCAGTKCCNVCHNNYRGCCASYAGRKGGCRAKC	CTCF	0.00055	3.92e-06	3960	25.2	10300	23.3	1.08
109	16	MA1648.1	TCF12	MA1648.1	NNCACCTGCNN	TCF12	0.000573	4.04e-06	5300	33.8	14000	31.7	1.07
110	16	MA0649.1	HEY2	MA0649.1	GRCACGTGYC	HEY2	0.000632	4.42e-06	5100	32.5	13400	30.4	1.07
111	16	MA0259.1	ARNT::HIF1A	MA0259.1	VBACGTGC	ARNT::HIF1A	0.000669	4.64e-06	4060	25.9	10600	24	1.08
112	29	MA0765.3	ETV5	MA0765.3	ACCGGAAGTR	ETV5	0.000937	6.43e-06	3500	22.3	9060	20.5	1.09
113	20	MA1627.1	Wt1	MA1627.1	YBCCTCCCCCACVB	Wt1	0.00122	8.31e-06	1170	7.48	2820	6.38	1.17
114	40	MA1979.1	ZNF416	MA1979.1	TATCTGGGCAH	ZNF416	0.00151	1.02e-05	10700	68.1	29200	66	1.03
115	41	MA1149.1	RARA::RXRG	MA1149.1	RRGGTCAHNNNRRGGTCA	RARA::RXRG	0.00175	1.17e-05	8400	53.5	22700	51.3	1.04
116	16	MA1631.1	ASCL1	MA1631.1	NNGCACCTGCYNB	ASCL1	0.00204	1.35e-05	7620	48.6	20500	46.4	1.05
117	29	MA0764.3	ETV4	MA0764.3	ACCGGAAGTR	ETV4	0.00222	1.46e-05	5820	37.1	15500	35.1	1.06
118	12	MA0163.1	PLAG1	MA0163.1	GGGGCCCWAGGGGG	PLAG1	0.00228	1.49e-05	1220	7.78	2950	6.68	1.16
119	42	MA1684.1	Foxn1	MA1684.1	RGAMGC	Foxn1	0.00287	1.86e-05	1330	8.5	3250	7.37	1.15
120	43	MA2002.1	Zfp335	MA2002.1	VNTCAGGCANH	Zfp335	0.00296	1.89e-05	6670	42.5	17800	40.4	1.05
121	44	MA0511.2	RUNX2	MA0511.2	WAACCGCAA	RUNX2	0.00299	1.9e-05	10300	65.9	28200	63.9	1.03
122	11	MA1929.1	CTCF	MA1929.1	CTGCAGTKCCNNNNNYNRCCASYAGRKGGCRSWG	CTCF	0.0038	2.4e-05	1450	9.25	3570	8.09	1.14
123	34	MA0633.2	Twist2	MA0633.2	NVCAGCTGBN	Twist2	0.0045	2.81e-05	4470	28.5	11800	26.7	1.07
124	34	MA1997.1	Olig2	MA1997.1	NVCAGCTGBN	Olig2	0.00502	3.11e-05	4750	30.2	12500	28.4	1.07
125	45	MA0145.2	Tfcp2l1	MA0145.2	CCAGYYYVADCCRG	Tfcp2l1	0.00687	4.22e-05	14000	89.4	38900	88.2	1.01
126	46	MA0767.1	GCM2	MA0767.1	BATGCGGGTR	GCM2	0.00736	4.49e-05	4720	30.1	12500	28.3	1.06
127	47	MA1972.1	ZFP14	MA1972.1	GGAGGCHCHGGARBG	ZFP14	0.00763	4.62e-05	10300	65.5	28100	63.6	1.03
128	34	MA1993.1	Neurod2	MA1993.1	VVCAGCTGBB	Neurod2	0.00793	4.76e-05	4960	31.6	13100	29.7	1.06
129	48	MA1475.1	CREB3L4	MA1475.1	GRTGACGTCAYC	CREB3L4	0.0124	7.39e-05	3470	22.1	9050	20.5	1.08
7	52	MA0509.3 (RFX1)	STREME-4	4-MTGTTGCCCAGGC	MTGTTGCCCAGGC	RFX1	0.0152	0.00217	7420	47.3	20300	45.9	1.03
130	41	MA0159.1	RARA::RXRA	MA0159.1	RGKTCANVGRSAGGTCA	RARA::RXRA	0.0159	9.39e-05	5390	34.3	14400	32.5	1.06
131	49	MA1555.1	RXRB	MA1555.1	RRGGTCATGACCYY	RXRB	0.0172	0.000101	4600	29.3	12200	27.6	1.06
132	50	MA1710.1	ZNF257	MA1710.1	VDGAGGCRAGRG	ZNF257	0.0245	0.000143	3290	20.9	8580	19.4	1.08
133	29	MA0028.2	ELK1	MA0028.2	ACCGGAAGTR	ELK1	0.0255	0.000148	3380	21.5	8820	20	1.08
134	16	MA1560.1	SOHLH2	MA1560.1	YGCACGTGCN	SOHLH2	0.0259	0.000149	11000	70	30200	68.3	1.03
135	51	MA1964.1	SMAD2	MA1964.1	NBCCAGACDN	SMAD2	0.0328	0.000187	4030	25.7	10600	24.1	1.07
136	16	MA1934.1	ERF::FIGLA	MA1934.1	RCCGGAARCASCTGBN	ERF::FIGLA	0.0334	0.000189	2880	18.3	7470	16.9	1.08
137	48	MA0615.1	Gmeb1	MA0615.1	BHBBKKACGTMMNWNNN	Gmeb1	0.0371	0.000208	6950	44.3	18700	42.5	1.04
8	53	8-CAGTGAGCTGWG	STREME-8	8-CAGTGAGCTGWG	CAGTGAGCTGWG	CAGTGAGCTGWG	1.58	0.197	2060	13.1	5660	12.8	1.03
9	54	MA0476.1 (FOS)	MEME-2	TGASTCAT	TGASTCAT	FOS	7.26	0.806	154	0.98	456	1.03	0.954
10	39	MA1125.1 (ZNF384)	MEME-1	AAAAAAAAAAAAAAA	AAAAAAAAAAAAAAA	ZNF384	8.44	0.844	1850	11.8	5330	12.1	0.975

EPI_24_DAR_DEG_combo %>% 
   dplyr::filter(ENR_RATIO>ER_rat) %>%
  dplyr::select(RANK,CLUSTER,motif_name,SIM_MOTIF,ALT_ID, ID,EVALUE.y,TP.)%>%
  arrange(.,EVALUE.y) %>%
  slice_head(n=80)%>% 
  mutate(log10Evalue= log(EVALUE.y, base = 10)*(-1)) %>% 
  mutate(motif_name=if_else(str_starts(motif_name,"^Z*"),paste(motif_name, RANK, sep="_"), if_else(motif_name=="KLF9",paste(motif_name, RANK,sep="_"),motif_name)))%>%
  ggplot(., aes (y= reorder(motif_name,log10Evalue))) +
  geom_col(aes(x=log10Evalue)) +
  geom_point(aes(x=`TP.`*1.25), size =4)+
  scale_x_continuous(expand=c (0,.125),sec.axis = sec_axis(transform= ~./1.25,name="Percent of peaks with motif"))+
  theme_classic()+
  ylab("Enriched TF motif")+
  ggtitle(paste("EPI_24_DAR_DEG_combo response peaks(200bp)Enrichment ratio:",ER_rat))

EPI_24_DAR_DEG_combo %>% 
   dplyr::filter(ENR_RATIO>ER_rat) %>%
  dplyr::select(RANK,CLUSTER,motif_name,SIM_MOTIF,ALT_ID, ID,EVALUE.y,TP.)%>%
  arrange(.,EVALUE.y) %>%
    mutate(log10Evalue = -log10(if_else(EVALUE.y == 0, 1e-300, EVALUE.y))) %>% 
  distinct(CLUSTER,.keep_all = TRUE) %>% 
  slice_head(n=5) %>% 
  mutate(motif_name=if_else(str_starts(motif_name,"^Z*"),paste(motif_name, RANK, sep="_"), if_else(motif_name=="KLF9",paste(motif_name, RANK,sep="_"),motif_name)))%>%
  ggplot(., aes (y= reorder(motif_name,log10Evalue))) +
  geom_col(aes(x=log10Evalue)) +
  geom_point(aes(x=`TP.`*1), size =4)+
  scale_x_continuous(expand=c (0,.125),sec.axis = sec_axis(transform= ~./1,name="Percent of peaks with motif"))+
  theme_classic()+
  ylab("Enriched TF motif")+
  ggtitle(paste("EPI_24_DAR_DEG_combo response peaks(200bp)Enrichment ratio:",ER_rat))

DNR 3 hour

DNR_3_DAR_DEG_sea_disc <- read.delim("C:/Users/renee/ATAC_folder/ATAC_meme_data/new_analysis/DNR_3_DEG_xstreme/sea_disc_out/sea.tsv") %>% mutate(source="disc") %>% slice_head(n = length(.$ID)-3)
DNR_3_DAR_DEG_sea_known <- read.delim("C:/Users/renee/ATAC_folder/ATAC_meme_data/new_analysis/DNR_3_DEG_xstreme/sea_out/sea.tsv") %>% mutate(source="known") %>% slice_head(n = length(.$ID)-3)
DNR_3_DAR_DEG_xstreme <- read.delim("C:/Users/renee/ATAC_folder/ATAC_meme_data/new_analysis/DNR_3_DEG_xstreme/xstreme.tsv") %>% slice_head(n = length(.$ID)-3)
DNR_3_DAR_DEG_sea_all <- rbind(DNR_3_DAR_DEG_sea_disc, DNR_3_DAR_DEG_sea_known) %>% 
  arrange(ID, desc(source == "known")) %>%  
  distinct(ID, .keep_all = TRUE)

DNR_3_DAR_DEG_combo <- DNR_3_DAR_DEG_xstreme %>% 
  dplyr::select(SEED_MOTIF:EVALUE_ACC,SIM_MOTIF) %>% 
  left_join(., DNR_3_DAR_DEG_sea_all, by=c("ID"="ID","ALT_ID"="ALT_ID")) %>% 
  mutate(motif_name=case_when(
    str_detect(SIM_MOTIF, "\\(") ~ str_extract(SIM_MOTIF, "(?<=\\().+?(?=\\))"),
    str_detect(SIM_MOTIF, "^MA\\d+\\.\\d+") ~ ALT_ID,
    str_detect(SIM_MOTIF, "^\\d+-") ~ str_replace(SIM_MOTIF, "^\\d+-", ""),
  TRUE ~ SIM_MOTIF
)) %>% 
  dplyr::select(RANK,CLUSTER,SIM_MOTIF,ALT_ID, ID,CONSENSUS.x,motif_name,EVALUE.y,QVALUE,TP:ENR_RATIO) %>% 
  arrange(.,EVALUE.y) 

DNR_3_DAR_DEG_combo %>% 
  dplyr::mutate_if(is.numeric, funs(as.character(signif(., 3)))) %>%
  kable(., caption = "Enriched motifs 200 bp in MTX  v VEH") %>%
  kable_paper("striped", full_width = TRUE) %>%
  kable_styling(full_width = FALSE, font_size = 16) %>%
  scroll_box(height = "500px")

Enriched motifs 200 bp in MTX v VEH
RANK	CLUSTER	SIM_MOTIF	ALT_ID	ID	CONSENSUS.x	motif_name	EVALUE.y	QVALUE	TP	TP.	FP	FP.	ENR_RATIO
1	1	MA1721.1 (ZNF93)	STREME-4	4-GCCGGGGCCGC	GCCGGGGCCGC	ZNF93	3.14e-12	2.85e-12	113	19.8	1770	8.92	2.23
2	2	6-CCGRAGC	STREME-6	6-CCGRAGC	CCGRAGC	CCGRAGC	9.07e-09	4.12e-09	308	53.8	7890	39.7	1.36
3	3	MA1653.1 (ZNF148)	STREME-7	7-GCCCCCTCC	GCCCCCTCC	ZNF148	2.73e-08	8.26e-09	266	46.5	6570	33	1.41
4	4	5-CGDGACGHGV	STREME-5	5-CGDGACGHGV	CGDGACGHGV	CGDGACGHGV	2.52e-06	5.72e-07	259	45.3	6620	33.3	1.36
5	5	MA1721.1 (ZNF93)	MEME-2	SSCGCCGCCGCCGCC	SSCGCCGCCGCCGCC	ZNF93	6.23e-06	1.13e-06	297	51.9	7940	39.9	1.3
6	6	MA0742.2 (KLF12)	STREME-2	2-CCGCCC	CCGCCC	KLF12	8.52e-06	1.29e-06	223	39	5540	27.9	1.4
7	20	MA0162.4	EGR1	MA0162.4	VCMCGCCCACGCVS	EGR1	3.18e-05	4.13e-06	394	68.9	11500	57.7	1.19
8	7	MA0685.2	SP4	MA0685.2	GGGGCGGGG	SP4	0.000297	3.37e-05	400	69.9	11900	59.7	1.17
9	8	MA1713.1	ZNF610	MA1713.1	SSCGCCGCTCCSSS	ZNF610	0.000413	4.17e-05	393	68.7	11600	58.5	1.17
10	7	MA1965.1	SP5	MA1965.1	CBCCTCCCHS	SP5	0.000692	6.29e-05	389	68	11500	58	1.17
11	9	MA1583.1	ZFP57	MA1583.1	NNVTTGCCGCANN	ZFP57	0.000948	7.83e-05	213	37.2	5550	27.9	1.34
7	16	1-CCATCCCG	STREME-1	1-CCATCCCG	CCATCCCG	CCATCCCG	0.00111	0.000159	178	31.1	4790	24.1	1.3
12	6	MA1513.1	KLF15	MA1513.1	SCCCCGCCCCS	KLF15	0.00132	9.97e-05	241	42.1	6480	32.6	1.3
13	7	MA1959.1	KLF7	MA1959.1	DGGGCGGGG	KLF7	0.00158	0.000111	328	57.3	9440	47.4	1.21
8	17	MA1125.1 (ZNF384)	MEME-1	TTTTTTTTTTTTTWT	TTTTTTTTTTTTTWT	ZNF384	0.00232	0.000289	23	4.02	336	1.69	2.47
14	7	MA0079.5	SP1	MA0079.5	GGGGCGGGG	SP1	0.00248	0.000161	340	59.4	9900	49.8	1.2
15	10	MA0024.3	E2F1	MA0024.3	TTTGGCGCCAAA	E2F1	0.00794	0.000481	223	39	6040	30.4	1.29
16	6	MA0742.2	KLF12	MA0742.2	GGGGCGGGG	KLF12	0.00986	0.00056	315	55.1	9150	46	1.2
17	11	MA0131.2	HINFP	MA0131.2	CARCGTCCGCKN	HINFP	0.0115	0.000613	269	47	7600	38.2	1.23
18	9	MA1122.1	TFDP1	MA1122.1	VSGCGGGAAVN	TFDP1	0.0128	0.000614	267	46.7	7540	37.9	1.23
19	12	MA0506.2	Nrf1	MA0506.2	SNCTGCGCMTGCGCV	Nrf1	0.0129	0.000614	351	61.4	10400	52.5	1.17
20	7	MA1961.1	PATZ1	MA1961.1	SSGGGGMGGGGS	PATZ1	0.0231	0.001	361	63.1	10900	54.6	1.16
21	3	MA1522.1	MAZ	MA1522.1	BBCCCCTCCCY	MAZ	0.0231	0.001	352	61.5	10500	53	1.16
22	13	MA0527.1	ZBTB33	MA0527.1	BTCTCGCGAGABYTS	ZBTB33	0.0258	0.00107	121	21.2	2930	14.7	1.45
23	14	MA0116.1	Znf423	MA0116.1	GSMMCCYARGGKKBM	Znf423	0.0294	0.00114	18	3.15	196	0.99	3.35
24	15	MA1656.1	ZNF449	MA1656.1	NNAAGCCCAACCNN	ZNF449	0.0301	0.00114	521	91.1	17000	85.4	1.07
9	18	3-AGAAGGCG	STREME-3	3-AGAAGGCG	AGAAGGCG	AGAAGGCG	0.0399	0.00444	449	78.5	14600	73.5	1.07
25	3	MA1653.1	ZNF148	MA1653.1	YBCCCCTCCCCC	ZNF148	0.0427	0.00155	281	49.1	8130	40.9	1.2
10	19	MA0814.2 (TFAP2C)	STREME-8	8-ACCTGAGCCGGGC	ACCTGAGCCGGGC	TFAP2C	0.108	0.0108	136	23.8	3910	19.7	1.22
11	20	MA1107.2 (KLF9)	MEME-3	ACACACACRCACACA	ACACACACRCACACA	KLF9	11	1	0	0	0	0	34.7

DNR_3_DAR_DEG_combo %>% 
   dplyr::filter(ENR_RATIO>ER_rat) %>%
  dplyr::select(RANK,CLUSTER,motif_name,SIM_MOTIF,ALT_ID, ID,EVALUE.y,TP.)%>%
  arrange(.,EVALUE.y) %>%
  slice_head(n=80)%>% 
  mutate(log10Evalue= log(EVALUE.y, base = 10)*(-1)) %>% 
  mutate(motif_name=if_else(str_starts(motif_name,"^Z*"),paste(motif_name, RANK, sep="_"), if_else(motif_name=="KLF9",paste(motif_name, RANK,sep="_"),motif_name)))%>%
  ggplot(., aes (y= reorder(motif_name,log10Evalue))) +
  geom_col(aes(x=log10Evalue)) +
  geom_point(aes(x=`TP.`*1.25), size =4)+
  scale_x_continuous(expand=c (0,.125),sec.axis = sec_axis(transform= ~./1.25,name="Percent of peaks with motif"))+
  theme_classic()+
  ylab("Enriched TF motif")+
  ggtitle(paste("DNR_3_DAR_DEG_combo response peaks(200bp)Enrichment ratio:",ER_rat))

DNR_3_DAR_DEG_combo %>% 
   dplyr::filter(ENR_RATIO>ER_rat) %>%
  dplyr::select(RANK,CLUSTER,motif_name,SIM_MOTIF,ALT_ID, ID,EVALUE.y,TP.)%>%
  arrange(.,EVALUE.y) %>%
    mutate(log10Evalue = -log10(if_else(EVALUE.y == 0, 1e-300, EVALUE.y))) %>% 
  distinct(CLUSTER,.keep_all = TRUE) %>% 
  slice_head(n=5) %>% 
  mutate(motif_name=if_else(str_starts(motif_name,"^Z*"),paste(motif_name, RANK, sep="_"), if_else(motif_name=="KLF9",paste(motif_name, RANK,sep="_"),motif_name)))%>%
  ggplot(., aes (y= reorder(motif_name,log10Evalue))) +
  geom_col(aes(x=log10Evalue)) +
  geom_point(aes(x=`TP.`*.25), size =4)+
  scale_x_continuous(expand=c (0,.125),sec.axis = sec_axis(transform= ~./.25,name="Percent of peaks with motif"))+
  theme_classic()+
  ylab("Enriched TF motif")+
  ggtitle(paste("DNR_3_DAR_DEG_combo response peaks(200bp)Enrichment ratio:",ER_rat))

DNR 24 hour

DNR_24_DAR_DEG_sea_disc <- read.delim("C:/Users/renee/ATAC_folder/ATAC_meme_data/new_analysis/DNR_24_DEG_xstreme/sea_disc_out/sea.tsv") %>% mutate(source="disc") %>% slice_head(n = length(.$ID)-3)
DNR_24_DAR_DEG_sea_known <- read.delim("C:/Users/renee/ATAC_folder/ATAC_meme_data/new_analysis/DNR_24_DEG_xstreme/sea_out/sea.tsv") %>% mutate(source="known") %>% slice_head(n = length(.$ID)-3)
DNR_24_DAR_DEG_xstreme <- read.delim("C:/Users/renee/ATAC_folder/ATAC_meme_data/new_analysis/DNR_24_DEG_xstreme/xstreme.tsv") %>% slice_head(n = length(.$ID)-3)
DNR_24_DAR_DEG_sea_all <- rbind(DNR_24_DAR_DEG_sea_disc, DNR_24_DAR_DEG_sea_known) %>% 
  arrange(ID, desc(source == "known")) %>%  
  distinct(ID, .keep_all = TRUE)

DNR_24_DAR_DEG_combo <- DNR_24_DAR_DEG_xstreme %>% 
  dplyr::select(SEED_MOTIF:EVALUE_ACC,SIM_MOTIF) %>% 
  left_join(., DNR_24_DAR_DEG_sea_all, by=c("ID"="ID","ALT_ID"="ALT_ID")) %>% 
  mutate(motif_name=case_when(
    str_detect(SIM_MOTIF, "\\(") ~ str_extract(SIM_MOTIF, "(?<=\\().+?(?=\\))"),
    str_detect(SIM_MOTIF, "^MA\\d+\\.\\d+") ~ ALT_ID,
    str_detect(SIM_MOTIF, "^\\d+-") ~ str_replace(SIM_MOTIF, "^\\d+-", ""),
  TRUE ~ SIM_MOTIF
)) %>% 
  dplyr::select(RANK,CLUSTER,SIM_MOTIF,ALT_ID, ID,CONSENSUS.x,motif_name,EVALUE.y,QVALUE,TP:ENR_RATIO) %>% 
  arrange(.,EVALUE.y) 

DNR_24_DAR_DEG_combo %>% 
  dplyr::mutate_if(is.numeric, funs(as.character(signif(., 3)))) %>%
  kable(., caption = "Enriched motifs 200 bp in MTX  v VEH") %>%
  kable_paper("striped", full_width = TRUE) %>%
  kable_styling(full_width = FALSE, font_size = 16) %>%
  scroll_box(height = "500px")

Enriched motifs 200 bp in MTX v VEH
RANK	CLUSTER	SIM_MOTIF	ALT_ID	ID	CONSENSUS.x	motif_name	EVALUE.y	QVALUE	TP	TP.	FP	FP.	ENR_RATIO
1	1	2-SGCSNSGCS	STREME-2	2-SGCSNSGCS	SGCSNSGCS	SGCSNSGCS	2.46e-45	1.79e-45	6880	31.9	13400	26.6	1.2
2	2	7-CCGGCC	STREME-7	7-CCGGCC	CCGGCC	CCGGCC	1.43e-42	5.2e-43	4730	22	8800	17.4	1.26
3	3	MA1529.1 (NHLH2)	STREME-9	9-CGCCCC	CGCCCC	NHLH2	1.65e-37	4e-38	7510	34.9	15100	29.8	1.17
4	3	MA0742.2 (KLF12)	STREME-3	3-CCCGCCCCCA	CCCGCCCCCA	KLF12	4.26e-37	7.75e-38	3430	16	6180	12.2	1.3
5	4	MA1513.1	KLF15	MA1513.1	SCCCCGCCCCS	KLF15	6.03e-35	8.77e-36	3380	15.7	6120	12.1	1.3
6	30	MA1596.1	ZNF460	MA1596.1	GCCTCMGCCTCCCRAG	ZNF460	1.3e-34	1.58e-35	7740	35.9	15700	31	1.16
7	4	MA1713.1	ZNF610	MA1713.1	SSCGCCGCTCCSSS	ZNF610	4.91e-32	5.1e-33	3910	18.2	7320	14.5	1.25
8	4	MA1522.1	MAZ	MA1522.1	BBCCCCTCCCY	MAZ	9.28e-31	8.44e-32	5490	25.5	10800	21.4	1.19
9	4	MA1961.1	PATZ1	MA1961.1	SSGGGGMGGGGS	PATZ1	9.5e-30	7.67e-31	4750	22.1	9190	18.2	1.21
10	5	MA1650.1	ZBTB14	MA1650.1	SSCCGCGCACVS	ZBTB14	1.67e-29	1.21e-30	4140	19.2	7880	15.6	1.23
11	6	MA0146.2	Zfx	MA0146.2	SSSGCCBVGGCCTS	Zfx	2.91e-28	1.92e-29	7970	37	16400	32.6	1.14
12	7	MA1122.1	TFDP1	MA1122.1	VSGCGGGAAVN	TFDP1	2.34e-26	1.42e-27	5090	23.6	10000	19.9	1.19
13	4	MA0471.2	E2F6	MA0471.2	VVDGGCGGGAAVV	E2F6	2.82e-26	1.58e-27	9240	42.9	19400	38.5	1.12
14	4	MA0079.5	SP1	MA0079.5	GGGGCGGGG	SP1	3.93e-26	2.04e-27	4600	21.4	8980	17.8	1.2
15	8	1-MCGSASS	STREME-1	1-MCGSASS	MCGSASS	MCGSASS	1.09e-25	5.31e-27	5260	24.4	10400	20.7	1.18
16	9	MA0506.2	Nrf1	MA0506.2	SNCTGCGCMTGCGCV	Nrf1	3.22e-25	1.46e-26	4410	20.5	8580	17	1.2
17	4	MA1653.1	ZNF148	MA1653.1	YBCCCCTCCCCC	ZNF148	4.54e-25	1.94e-26	6350	29.5	12900	25.6	1.15
18	4	MA1965.1	SP5	MA1965.1	CBCCTCCCHS	SP5	6.07e-25	2.45e-26	9790	45.5	20700	41.1	1.11
19	4	MA1564.1	SP9	MA1564.1	RCCACGCCCMCY	SP9	1.19e-24	4.54e-26	10300	48	22000	43.6	1.1
20	10	MA0811.1	TFAP2B	MA0811.1	YGCCCBVRGGCA	TFAP2B	1.9e-24	6.89e-26	8270	38.4	17300	34.2	1.12
21	11	MA0162.4	EGR1	MA0162.4	VCMCGCCCACGCVS	EGR1	2.14e-24	7.41e-26	4390	20.4	8570	17	1.2
22	12	MA1986.1	ZNF692	MA1986.1	BGGGCCCASN	ZNF692	6.1e-24	2.02e-25	8440	39.2	17700	35	1.12
23	10	MA0524.2	TFAP2C	MA0524.2	YGCCYBVRGGCA	TFAP2C	8.82e-24	2.79e-25	8890	41.3	18700	37.1	1.11
24	10	MA0810.1	TFAP2A	MA0810.1	YGCCCBVRGGCR	TFAP2A	1.1e-23	3.33e-25	7950	36.9	16600	32.8	1.13
25	4	MA0746.2	SP3	MA0746.2	NGCCACGCCCMCH	SP3	1.41e-23	4.1e-25	4420	20.5	8660	17.2	1.2
26	13	MA1976.1	ZNF320	MA1976.1	DGKGGGRCCMRGGGGCCWGTGHVNNNN	ZNF320	2.39e-23	6.68e-25	6680	31	13700	27.1	1.14
27	4	MA1515.1	KLF2	MA1515.1	NRCCACRCCCH	KLF2	7.79e-23	2.1e-24	6730	31.2	13800	27.4	1.14
28	4	MA0516.3	SP2	MA0516.3	GGGGCGGGG	SP2	4.25e-22	1.1e-23	2190	10.2	3930	7.79	1.3
29	4	MA0753.2	ZNF740	MA0753.2	CYRCCCCCCCCAC	ZNF740	1.5e-21	3.77e-23	7310	34	15200	30.1	1.13
30	14	MA1102.2	CTCFL	MA1102.2	NSCAGGGGGCGS	CTCFL	4.87e-21	1.18e-22	3520	16.3	6780	13.4	1.22
31	15	MA0024.3	E2F1	MA0024.3	TTTGGCGCCAAA	E2F1	6.38e-21	1.5e-22	5160	24	10400	20.6	1.16
32	15	MA1615.1	Plagl1	MA1615.1	NNCTGGGGCCABN	Plagl1	2.3e-20	5.22e-22	7270	33.8	15100	30	1.12
33	4	MA1516.1	KLF3	MA1516.1	GRCCRCGCCCH	KLF3	2.81e-20	6.19e-22	5690	26.4	11600	23	1.15
34	4	MA0599.1	KLF5	MA0599.1	GCCCCDCCCH	KLF5	5.09e-20	1.09e-21	5510	25.6	11200	22.2	1.15
35	16	MA0812.1	TFAP2B	MA0812.1	HGCCTSAGGCD	TFAP2B	1.27e-19	2.64e-21	8590	39.9	18200	36.1	1.11
36	16	MA0003.4	TFAP2A	MA0003.4	NNKGCCTCAGGCNN	TFAP2A	2.78e-19	5.62e-21	6570	30.5	13600	27	1.13
37	4	MA1517.1	KLF6	MA1517.1	NRCCACGCCCH	KLF6	3.68e-19	7.24e-21	6830	31.7	14200	28.2	1.13
38	17	MA0823.1	HEY1	MA0823.1	GRCACGTGCC	HEY1	4.89e-19	9.35e-21	6860	31.8	14300	28.3	1.13
39	4	MA0685.2	SP4	MA0685.2	GGGGCGGGG	SP4	9.53e-19	1.78e-20	4580	21.2	9180	18.2	1.17
40	4	MA0742.2	KLF12	MA0742.2	GGGGCGGGG	KLF12	1.91e-18	3.47e-20	2240	10.4	4140	8.2	1.27
41	18	MA0131.2	HINFP	MA0131.2	CARCGTCCGCKN	HINFP	2.68e-18	4.75e-20	4610	21.4	9270	18.4	1.17
42	7	MA1583.1	ZFP57	MA1583.1	NNVTTGCCGCANN	ZFP57	3.41e-18	5.91e-20	4730	22	9550	18.9	1.16
43	19	MA1712.1	ZNF454	MA1712.1	DGGCTCSSGGCCCYGVKG	ZNF454	4.96e-18	8.39e-20	3710	17.2	7310	14.5	1.19
44	20	MA1721.1	ZNF93	MA1721.1	GGYAGCRGCAGCGGYG	ZNF93	2.14e-17	3.54e-19	9140	42.4	19600	38.8	1.09
45	4	MA0039.4	KLF4	MA0039.4	NNCCCCACCCHN	KLF4	2.42e-17	3.91e-19	11600	53.9	25300	50.2	1.07
46	11	MA0733.1	EGR4	MA0733.1	NHMCGCCCACGCAHWT	EGR4	2.57e-17	4.06e-19	9150	42.5	19600	38.8	1.09
47	4	MA0493.2	KLF1	MA0493.2	DGGGYGGGG	KLF1	3.22e-17	4.98e-19	3550	16.5	6980	13.8	1.19
48	21	MA0527.1	ZBTB33	MA0527.1	BTCTCGCGAGABYTS	ZBTB33	4.17e-17	6.31e-19	5000	23.2	10200	20.2	1.15
49	22	MA0751.1	ZIC4	MA0751.1	GRCCCCCCGCKGYGH	ZIC4	6.92e-17	1.02e-18	7670	35.6	16200	32.2	1.11
50	7	MA0865.2	E2F8	MA0865.2	TTCCCGCCAHWA	E2F8	7.03e-17	1.02e-18	3930	18.2	7820	15.5	1.18
51	11	MA1627.1	Wt1	MA1627.1	YBCCTCCCCCACVB	Wt1	8.02e-17	1.14e-18	4140	19.2	8300	16.4	1.17
52	13	MA1723.1	PRDM9	MA1723.1	RGDGGGVAGGGRGGVRRMARVARR	PRDM9	1.07e-16	1.5e-18	6920	32.1	14500	28.8	1.12
53	11	MA0732.1	EGR3	MA0732.1	HHMCGCCCACGCAHH	EGR3	4.59e-16	6.29e-18	3570	16.6	7070	14	1.18
54	23	MA0067.2	PAX2	MA0067.2	BCAVTSRAGCGTGACGR	PAX2	4.9e-16	6.59e-18	5520	25.6	11400	22.6	1.14
55	24	MA1548.1	PLAGL2	MA1548.1	NGGGCCCCCN	PLAGL2	5.28e-16	6.98e-18	5390	25	11100	22	1.14
56	25	MA1973.1	ZKSCAN3	MA1973.1	KDKCCCAGGCTAGCCCABNN	ZKSCAN3	6.11e-16	7.94e-18	7770	36.1	16500	32.7	1.1
57	15	MA0864.2	E2F2	MA0864.2	RWTTTGGCGCCAWWWY	E2F2	7.08e-16	9.03e-18	4150	19.3	8350	16.6	1.17
58	23	MA0014.3	PAX5	MA0014.3	RRGCGTGACCNN	PAX5	1.1e-15	1.38e-17	6930	32.2	14600	28.9	1.11
59	4	MA0740.2	KLF14	MA0740.2	KGGGCGGGG	KLF14	1.5e-15	1.85e-17	5600	26	11600	23	1.13
60	22	MA1578.1	VEZF1	MA1578.1	CCCCCCMYDH	VEZF1	2.25e-15	2.72e-17	9400	43.6	20300	40.2	1.09
61	4	MA0741.1	KLF16	MA0741.1	GMCACGCCCCC	KLF16	2.55e-15	3.04e-17	2640	12.2	5070	10	1.22
62	26	MA0759.2	ELK3	MA0759.2	ACCGGAAGTRV	ELK3	4.15e-15	4.86e-17	4330	20.1	8770	17.4	1.16
63	16	MA0814.2	TFAP2C	MA0814.2	NNGCCTGAGGCGNN	TFAP2C	7.01e-15	8.09e-17	3000	13.9	5860	11.6	1.2
64	27	MA1599.1	ZNF682	MA1599.1	BVGGCYAAGCCCCWNY	ZNF682	8.56e-15	9.72e-17	10700	49.7	23300	46.2	1.07
65	4	MA1630.2	ZNF281	MA1630.2	GGGGGAGGGGVV	ZNF281	9.06e-15	1.01e-16	3150	14.6	6210	12.3	1.19
66	4	MA1511.2	KLF10	MA1511.2	GGGGCGGGG	KLF10	3.2e-14	3.53e-16	851	3.95	1390	2.75	1.44
67	28	MA1981.1	ZNF530	MA1981.1	GMARGGMRAGGGGCRGSV	ZNF530	5.68e-14	6.16e-16	7330	34	15600	30.9	1.1
68	15	MA0470.2	E2F4	MA0470.2	TTTTGGCGCCAWWW	E2F4	6.05e-14	6.47e-16	2320	10.8	4440	8.81	1.23
69	29	MA1985.1	ZNF669	MA1985.1	GGGGYGAYGACCRCT	ZNF669	6.68e-14	7.03e-16	4960	23.1	10200	20.3	1.14
70	30	MA1596.1 (ZNF460)	STREME-5	5-CCGCCTCC	CCGCCTCC	ZNF460	1.76e-13	1.83e-15	16900	78.5	38200	75.7	1.04
71	17	MA0632.2	TCFL5	MA0632.2	KCACGCGCMC	TCFL5	4.43e-13	4.54e-15	4520	21	9290	18.4	1.14
72	4	MA1959.1	KLF7	MA1959.1	DGGGCGGGG	KLF7	1.61e-12	1.63e-14	1190	5.54	2110	4.17	1.33
73	31	MA0748.2	YY2	MA0748.2	NVATGGCGGCS	YY2	2.15e-12	2.14e-14	2270	10.5	4370	8.66	1.22
74	13	MA0163.1	PLAG1	MA0163.1	GGGGCCCWAGGGGG	PLAG1	2.26e-12	2.22e-14	2620	12.2	5130	10.2	1.2
75	32	MA1728.1	ZNF549	MA1728.1	NNTGCTGCCCWR	ZNF549	3.31e-12	3.21e-14	8280	38.5	17900	35.4	1.09
76	13	MA1930.1	CTCF	MA1930.1	CTGCAGTKCCNVCHNNYRGCCASYAGRKGGCRAKC	CTCF	4.3e-12	4.11e-14	5350	24.9	11200	22.2	1.12
77	11	MA0472.2	EGR2	MA0472.2	MCGCCCACGCA	EGR2	4.81e-12	4.54e-14	8680	40.3	18800	37.3	1.08
78	17	MA0821.2	HES5	MA0821.2	GRCACGTGYC	HES5	6.91e-12	6.44e-14	12100	56.1	26700	53	1.06
79	17	MA1648.1	TCF12	MA1648.1	NNCACCTGCNN	TCF12	8.92e-12	8.21e-14	4430	20.6	9140	18.1	1.14
80	33	MA0695.1	ZBTB7C	MA0695.1	RCGACCACCGAN	ZBTB7C	1.44e-11	1.31e-13	13400	62.2	29900	59.2	1.05
81	34	MA0145.2	Tfcp2l1	MA0145.2	CCAGYYYVADCCRG	Tfcp2l1	2.86e-11	2.57e-13	15000	69.5	33700	66.7	1.04
82	33	MA1990.1	Gli1	MA1990.1	NNRGACCACCCASV	Gli1	4.45e-11	3.94e-13	10500	48.8	23100	45.8	1.07
83	17	MA1106.1	HIF1A	MA1106.1	SBACGTGCNN	HIF1A	5.36e-11	4.7e-13	11300	52.5	25000	49.5	1.06
84	17	MA0830.2	TCF4	MA0830.2	NNGCACCTGCCNN	TCF4	1.5e-10	1.3e-12	3740	17.4	7670	15.2	1.14
85	11	MA1107.2	KLF9	MA1107.2	MNGCCACACCCACHYV	KLF9	2.31e-10	1.98e-12	14600	67.8	32800	65	1.04
86	26	MA0750.2	ZBTB7A	MA0750.2	NVCCGGAAGTGSV	ZBTB7A	2.54e-10	2.15e-12	16100	74.6	36300	72	1.04
87	4	MA1512.1	KLF11	MA1512.1	SCCACGCCCMC	KLF11	3.94e-10	3.29e-12	1580	7.32	2970	5.89	1.24
88	4	MA0747.1	SP8	MA0747.1	RCCACGCCCMCY	SP8	4.73e-10	3.91e-12	2380	11.1	4700	9.32	1.19
89	35	MA1581.1	ZBTB6	MA1581.1	DNSCTTGAGCCNV	ZBTB6	8.73e-10	7.13e-12	14000	65.1	31500	62.4	1.04
90	36	6-CCGAGA	STREME-6	6-CCGAGA	CCGAGA	CCGAGA	1.66e-09	1.34e-11	10500	49	23300	46.1	1.06
91	26	MA0764.3	ETV4	MA0764.3	ACCGGAAGTR	ETV4	1.86e-09	1.49e-11	15300	71.2	34600	68.6	1.04
92	10	MA1569.1	TFAP2E	MA1569.1	YGCCYSRGGCD	TFAP2E	3.26e-09	2.58e-11	1180	5.48	2160	4.29	1.28
93	26	MA0765.3	ETV5	MA0765.3	ACCGGAAGTR	ETV5	5.98e-09	4.68e-11	6100	28.3	13100	25.9	1.09
94	17	MA1099.2	HES1	MA1099.2	GGCRCGTGBC	HES1	6.68e-09	5.16e-11	472	2.19	740	1.47	1.5
95	37	MA1710.1	ZNF257	MA1710.1	VDGAGGCRAGRG	ZNF257	8.39e-09	6.41e-11	10900	50.5	24100	47.8	1.06
96	26	MA0156.3	FEV	MA0156.3	VACCGGAAGTVV	FEV	8.47e-09	6.41e-11	8140	37.8	17800	35.2	1.07
97	17	MA0616.2	HES2	MA0616.2	GGCACGTGYC	HES2	1.38e-08	1.04e-10	7710	35.8	16800	33.2	1.08
98	22	MA0736.1	GLIS2	MA0736.1	GACCCCCCGCRAMG	GLIS2	1.51e-08	1.12e-10	4020	18.7	8400	16.6	1.12
99	17	MA0649.1	HEY2	MA0649.1	GRCACGTGYC	HEY2	3.32e-08	2.44e-10	5500	25.6	11800	23.3	1.1
100	38	MA1972.1	ZFP14	MA1972.1	GGAGGCHCHGGARBG	ZFP14	3.69e-08	2.68e-10	9430	43.8	20800	41.2	1.06
101	39	MA1982.1	ZNF574	MA1982.1	VGSCTAGAGMGGCCS	ZNF574	4.75e-08	3.42e-10	8030	37.3	17500	34.8	1.07
102	11	MA1656.1	ZNF449	MA1656.1	NNAAGCCCAACCNN	ZNF449	7.16e-08	5.1e-10	17300	80.6	39600	78.5	1.03
103	15	MA1727.1	ZNF417	MA1727.1	VRBVNTGGGCGCCAM	ZNF417	1.17e-07	8.23e-10	3300	15.3	6830	13.5	1.13
104	33	MA0694.1	ZBTB7B	MA0694.1	RCGACCACCGAA	ZBTB7B	1.77e-07	1.24e-09	4830	22.4	10300	20.4	1.1
105	17	MA0006.1	Ahr::Arnt	MA0006.1	YGCGTG	Ahr::Arnt	1.98e-07	1.37e-09	5700	26.5	12300	24.3	1.09
106	17	MA1941.1	ETV2::FIGLA	MA1941.1	RSCGGAARCAGSTGBN	ETV2::FIGLA	2.36e-07	1.61e-09	13900	64.6	31400	62.2	1.04
107	14	MA0155.1	INSM1	MA0155.1	TGYCWGGGGGCR	INSM1	2.37e-07	1.61e-09	5870	27.3	12600	25.1	1.09
108	22	MA0696.1	ZIC1	MA0696.1	GACCCCCYGCTGTG	ZIC1	2.63e-07	1.77e-09	4750	22.1	10100	20	1.1
109	17	MA0259.1	ARNT::HIF1A	MA0259.1	VBACGTGC	ARNT::HIF1A	2.65e-07	1.77e-09	3990	18.5	8390	16.6	1.12
110	17	MA0522.3	TCF3	MA0522.3	NVCACCTGCNN	TCF3	5.45e-07	3.6e-09	3760	17.4	7880	15.6	1.12
111	40	MA1587.1	ZNF135	MA1587.1	CCTCGACCTCCYRR	ZNF135	7.18e-07	4.7e-09	5590	26	12000	23.8	1.09
112	22	MA1584.1	ZIC5	MA1584.1	VGACCCCCCGCTGHGM	ZIC5	9.7e-07	6.3e-09	1900	8.8	3770	7.48	1.18
113	41	MA1730.1	ZNF708	MA1730.1	NNRGCTGTRCCTCCY	ZNF708	1.17e-06	7.55e-09	13000	60.2	29200	57.8	1.04
114	42	MA0511.2	RUNX2	MA0511.2	WAACCGCAA	RUNX2	2.66e-06	1.7e-08	14900	69.3	33800	67.1	1.03
115	17	MA1997.1	Olig2	MA1997.1	NVCAGCTGBN	Olig2	3.17e-06	2e-08	9500	44.1	21100	41.8	1.06
116	43	MA1555.1	RXRB	MA1555.1	RRGGTCATGACCYY	RXRB	3.46e-06	2.17e-08	7480	34.8	16400	32.5	1.07
117	17	MA1631.1	ASCL1	MA1631.1	NNGCACCTGCYNB	ASCL1	5.98e-06	3.71e-08	3520	16.3	7400	14.7	1.11
118	44	MA0597.2	THAP1	MA0597.2	VSGCAGGGCASV	THAP1	9.02e-06	5.56e-08	4070	18.9	8650	17.1	1.1
119	17	MA0464.2	BHLHE40	MA0464.2	VKCACGTGMC	BHLHE40	1.03e-05	6.27e-08	9930	46.1	22100	43.9	1.05
120	45	MA0615.1	Gmeb1	MA0615.1	BHBBKKACGTMMNWNNN	Gmeb1	1.18e-05	7.12e-08	13600	63.2	30800	61	1.04
121	43	MA1149.1	RARA::RXRG	MA1149.1	RRGGTCAHNNNRRGGTCA	RARA::RXRG	1.76e-05	1.06e-07	17900	82.9	41000	81.2	1.02
122	46	MA1971.1	ZBED2	MA1971.1	NNMMCGAAACCNNV	ZBED2	1.88e-05	1.12e-07	5290	24.6	11400	22.7	1.08
123	17	MA0147.3	MYC	MA0147.3	NNCCACGTGCNB	MYC	3.55e-05	2.1e-07	7670	35.6	16900	33.6	1.06
124	17	MA1560.1	SOHLH2	MA1560.1	YGCACGTGCN	SOHLH2	3.63e-05	2.13e-07	3090	14.4	6500	12.9	1.12
125	47	MA0682.2 (PITX1)	STREME-4	4-TGGGATTACAGGM	TGGGATTACAGGM	PITX1	4.43e-05	2.58e-07	509	2.36	885	1.75	1.35
126	48	MA1542.1	OSR1	MA1542.1	HGCTACYGTD	OSR1	6.61e-05	3.81e-07	16300	75.6	37200	73.7	1.03
127	17	MA1464.1	ARNT2	MA1464.1	GTCACGTGMN	ARNT2	7.92e-05	4.53e-07	5310	24.7	11500	22.9	1.08
128	14	MA0139.1	CTCF	MA0139.1	YGRCCASYAGRKGGCRSYR	CTCF	0.000135	7.66e-07	5300	24.6	11500	22.8	1.08
129	17	MA1993.1	Neurod2	MA1993.1	VVCAGCTGBB	Neurod2	0.000178	1e-06	9540	44.3	21300	42.3	1.05
130	49	MA1575.1	THRB	MA1575.1	DTGACCTBRNYVAGGTCAH	THRB	0.000204	1.14e-06	3090	14.3	6520	12.9	1.11
131	17	MA0633.2	Twist2	MA0633.2	NVCAGCTGBN	Twist2	0.000218	1.21e-06	9510	44.2	21300	42.1	1.05
132	17	MA1966.1	TFAP4::ETV1	MA1966.1	RSCGGAAGCAGSTGKN	TFAP4::ETV1	0.000228	1.26e-06	15900	74	36500	72.2	1.03
133	35	MA1649.1	ZBTB12	MA1649.1	NYCTRGAACHN	ZBTB12	0.000253	1.38e-06	16700	77.8	38400	76	1.02
134	33	MA0734.3	Gli2	MA0734.3	NRGACCACCCASV	Gli2	0.000256	1.39e-06	3290	15.3	6990	13.9	1.1
135	50	MA1652.1	ZKSCAN5	MA1652.1	NNRGGARGTGAGRR	ZKSCAN5	3e-04	1.61e-06	16200	75.2	37100	73.5	1.02
136	51	MA1684.1	Foxn1	MA1684.1	RGAMGC	Foxn1	0.00044	2.35e-06	639	2.97	1180	2.33	1.27
137	4	MA0528.2	ZNF263	MA0528.2	VNGGGGAGGASG	ZNF263	0.000537	2.85e-06	18100	84	41600	82.5	1.02
138	17	MA0603.1	Arntl	MA0603.1	NGTCACGTGH	Arntl	0.000551	2.9e-06	6200	28.8	13600	27	1.07
139	17	MA0104.4	MYCN	MA0104.4	VVCCACGTGGBB	MYCN	0.000576	3.01e-06	9260	43	20700	41.1	1.05
140	47	MA0682.2 (PITX1)	MEME-2	WGCTGGGATTACAGG	WGCTGGGATTACAGG	PITX1	0.00112	5.82e-06	862	4	1660	3.29	1.22
141	52	MA1628.1	Zic1::Zic2	MA1628.1	CVCAGCAGGNV	Zic1::Zic2	0.00127	6.56e-06	4030	18.7	8700	17.2	1.08
142	53	MA1557.1	SMAD5	MA1557.1	YGTCTAGACA	SMAD5	0.00156	8.01e-06	11200	52.1	25400	50.3	1.04
143	43	MA1147.1	NR4A2::RXRA	MA1147.1	VRGGTCRTTGACCYY	NR4A2::RXRA	0.00158	8.03e-06	8220	38.2	18400	36.4	1.05
144	54	MA1711.1	ZNF343	MA1711.1	CCGCTTCMCCDCGGCMV	ZNF343	0.00232	1.17e-05	4140	19.2	8990	17.8	1.08
145	55	MA0646.1	GCM1	MA0646.1	BATGCGGGTAC	GCM1	0.00242	1.2e-05	13600	63.4	31100	61.6	1.03
146	56	MA1514.1	KLF17	MA1514.1	MMCCACGCACCCMTY	KLF17	0.00242	1.2e-05	1880	8.75	3900	7.73	1.13
147	3	MA1529.1	NHLH2	MA1529.1	GGGNCGCAGCTGCGYCCC	NHLH2	0.00256	1.26e-05	4780	22.2	10400	20.7	1.07
148	47	MA0142.1 (Pou5f1::Sox2)	STREME-8	8-ATCTGCACTCCCAWG	ATCTGCACTCCCAWG	Pou5f1::Sox2	0.00259	1.27e-05	43	0.2	35	0.07	2.86
149	17	MA0103.3	ZEB1	MA0103.3	SNCACCTGSVN	ZEB1	0.00275	1.34e-05	5670	26.4	12500	24.8	1.06
150	17	MA0636.1	BHLHE41	MA0636.1	RTCACGTGAC	BHLHE41	0.00339	1.64e-05	835	3.88	1620	3.21	1.21
151	17	MA0608.1	Creb3l2	MA0608.1	GCCACGTGD	Creb3l2	0.00382	1.84e-05	2650	12.3	5630	11.2	1.1
152	57	MA1604.1	Ebf2	MA1604.1	NYCCCAAGGGANN	Ebf2	0.00394	1.88e-05	6070	28.2	13400	26.6	1.06
153	26	MA0641.1	ELF4	MA0641.1	AACCCGGAAGTR	ELF4	0.00429	2.03e-05	3980	18.5	8640	17.1	1.08
154	17	MA1945.1	ETV5::FIGLA	MA1945.1	RGCGGAARCAGGTGG	ETV5::FIGLA	0.00431	2.03e-05	4650	21.6	10200	20.1	1.07
155	22	MA0697.2	Zic3	MA0697.2	CNCAGCAGGAGNN	Zic3	0.00489	2.29e-05	4490	20.8	9790	19.4	1.07
156	26	MA1992.1	Ikzf3	MA1992.1	NNRCAGGAAGTGGVN	Ikzf3	0.00549	2.56e-05	12700	59.1	28900	57.4	1.03
157	58	MA2002.1	Zfp335	MA2002.1	VNTCAGGCANH	Zfp335	0.00854	3.95e-05	4860	22.6	10700	21.2	1.07
158	55	MA0767.1	GCM2	MA0767.1	BATGCGGGTR	GCM2	0.00949	4.37e-05	7600	35.3	17000	33.7	1.05
159	59	MA0504.1	NR2C2	MA0504.1	VGRGGTCARAGGTCA	NR2C2	0.0105	4.79e-05	9210	42.8	20700	41.1	1.04
160	57	MA0154.4	EBF1	MA0154.4	NNTCCCCAGGGGANN	EBF1	0.0112	5.09e-05	4430	20.6	9700	19.2	1.07
161	17	MA0822.1	HES7	MA0822.1	YGGCACGTGCCR	HES7	0.0128	5.76e-05	373	1.73	665	1.32	1.32
162	60	MA1715.1	ZNF707	MA1715.1	CCCCACTCCTGGTAC	ZNF707	0.0141	6.28e-05	6650	30.9	14800	29.3	1.05
163	61	MA0738.1	HIC2	MA0738.1	RTGCCCRSB	HIC2	0.0141	6.28e-05	1310	6.08	2680	5.3	1.15
164	62	MA1964.1	SMAD2	MA1964.1	NBCCAGACDN	SMAD2	0.0145	6.44e-05	16500	76.6	37900	75.2	1.02
165	43	MA1535.1	NR2C1	MA1535.1	NRRGGTCAN	NR2C1	0.0149	6.57e-05	15900	73.6	36400	72.1	1.02
166	63	MA1554.1	RFX7	MA1554.1	CGTTGCYAY	RFX7	0.0155	6.8e-05	17800	82.5	41000	81.2	1.02
167	17	MA1493.1	HES6	MA1493.1	GGCACGTGTY	HES6	0.0321	0.00014	9020	41.9	20400	40.3	1.04
168	45	MA1475.1	CREB3L4	MA1475.1	GRTGACGTCAYC	CREB3L4	0.033	0.000143	14400	67	33100	65.5	1.02
11	65	MA1125.1 (ZNF384)	MEME-1	TTTTTTTTTWTTTTT	TTTTTTTTTWTTTTT	ZNF384	0.036	0.00328	734	3.41	1520	3.01	1.13
169	26	MA0098.3	ETS1	MA0098.3	ACCGGAARTR	ETS1	0.0396	0.000171	12700	58.8	28900	57.3	1.03
170	17	MA0499.2	MYOD1	MA0499.2	NNGCACCTGTCNB	MYOD1	0.0424	0.000181	16900	78.5	38900	77.1	1.02
171	64	MA1616.1	Prdm15	MA1616.1	NRGAAAACCTGGAVN	Prdm15	0.0431	0.000183	19100	88.7	44200	87.6	1.01
12	66	MA1135.1 (FOSB::JUNB)	MEME-3	ATGACTCA	ATGACTCA	FOSB::JUNB	12	1	641	2.98	1820	3.61	0.826

DNR_24_DAR_DEG_combo %>% 
   dplyr::filter(ENR_RATIO>ER_rat) %>%
  dplyr::select(RANK,CLUSTER,motif_name,SIM_MOTIF,ALT_ID, ID,EVALUE.y,TP.)%>%
  arrange(.,EVALUE.y) %>%
  slice_head(n=80)%>% 
  mutate(log10Evalue= log(EVALUE.y, base = 10)*(-1)) %>% 
  mutate(motif_name=if_else(str_starts(motif_name,"^Z*"),paste(motif_name, RANK, sep="_"), if_else(motif_name=="KLF9",paste(motif_name, RANK,sep="_"),motif_name)))%>%
  ggplot(., aes (y= reorder(motif_name,log10Evalue))) +
  geom_col(aes(x=log10Evalue)) +
  geom_point(aes(x=`TP.`*1.25), size =4)+
  scale_x_continuous(expand=c (0,.125),sec.axis = sec_axis(transform= ~./1.25,name="Percent of peaks with motif"))+
  theme_classic()+
  ylab("Enriched TF motif")+
  ggtitle(paste("DNR_24_DAR_DEG_combo response peaks(200bp)Enrichment ratio:",ER_rat))

DNR_24_DAR_DEG_combo %>% 
   dplyr::filter(ENR_RATIO>ER_rat) %>%
  dplyr::select(RANK,CLUSTER,motif_name,SIM_MOTIF,ALT_ID, ID,EVALUE.y,TP.)%>%
  arrange(.,EVALUE.y) %>%
    mutate(log10Evalue = -log10(if_else(EVALUE.y == 0, 1e-300, EVALUE.y))) %>% 
  distinct(CLUSTER,.keep_all = TRUE) %>% 
  slice_head(n=5) %>% 
  mutate(motif_name=if_else(str_starts(motif_name,"^Z*"),paste(motif_name, RANK, sep="_"), if_else(motif_name=="KLF9",paste(motif_name, RANK,sep="_"),motif_name)))%>%
  ggplot(., aes (y= reorder(motif_name,log10Evalue))) +
  geom_col(aes(x=log10Evalue)) +
  geom_point(aes(x=`TP.`*2), size =4)+
  scale_x_continuous(expand=c (0,.125),sec.axis = sec_axis(transform= ~./2,name="Percent of peaks with motif"))+
  theme_classic()+
  ylab("Enriched TF motif")+
  ggtitle(paste("DNR_24_DAR_DEG_combo response peaks(200bp)Enrichment ratio:",ER_rat))

MTX 3 hour

MTX_3_DAR_DEG_sea_disc <- read.delim("C:/Users/renee/ATAC_folder/ATAC_meme_data/new_analysis/MTX_3_DEG_xstreme/sea_disc_out/sea.tsv") %>% mutate(source="disc") %>% slice_head(n = length(.$ID)-3)
MTX_3_DAR_DEG_sea_known <- read.delim("C:/Users/renee/ATAC_folder/ATAC_meme_data/new_analysis/MTX_3_DEG_xstreme/sea_out/sea.tsv") %>% mutate(source="known") %>% slice_head(n = length(.$ID)-3)
MTX_3_DAR_DEG_xstreme <- read.delim("C:/Users/renee/ATAC_folder/ATAC_meme_data/new_analysis/MTX_3_DEG_xstreme/xstreme.tsv") %>% slice_head(n = length(.$ID)-3)
MTX_3_DAR_DEG_sea_all <- rbind(MTX_3_DAR_DEG_sea_disc, MTX_3_DAR_DEG_sea_known) %>% 
  arrange(ID, desc(source == "known")) %>%  
  distinct(ID, .keep_all = TRUE)

MTX_3_DAR_DEG_combo <- MTX_3_DAR_DEG_xstreme %>% 
  dplyr::select(SEED_MOTIF:EVALUE_ACC,SIM_MOTIF) %>% 
  left_join(., MTX_3_DAR_DEG_sea_all, by=c("ID"="ID","ALT_ID"="ALT_ID")) %>% 
  mutate(motif_name=case_when(
    str_detect(SIM_MOTIF, "\\(") ~ str_extract(SIM_MOTIF, "(?<=\\().+?(?=\\))"),
    str_detect(SIM_MOTIF, "^MA\\d+\\.\\d+") ~ ALT_ID,
    str_detect(SIM_MOTIF, "^\\d+-") ~ str_replace(SIM_MOTIF, "^\\d+-", ""),
  TRUE ~ SIM_MOTIF
)) %>% 
  dplyr::select(RANK,CLUSTER,SIM_MOTIF,ALT_ID, ID,CONSENSUS.x,motif_name,EVALUE.y,QVALUE,TP:ENR_RATIO) %>% 
  arrange(.,EVALUE.y) 

MTX_3_DAR_DEG_combo %>% 
  dplyr::mutate_if(is.numeric, funs(as.character(signif(., 3)))) %>%
  kable(., caption = "Enriched motifs 200 bp in MTX  v VEH") %>%
  kable_paper("striped", full_width = TRUE) %>%
  kable_styling(full_width = FALSE, font_size = 16) %>%
  scroll_box(height = "500px")

Enriched motifs 200 bp in MTX v VEH
RANK	CLUSTER	SIM_MOTIF	ALT_ID	ID	CONSENSUS.x	motif_name	EVALUE.y	QVALUE	TP	TP.	FP	FP.	ENR_RATIO
5	5	5-AGAGGARGGAGATRA	STREME-5	5-AGAGGARGGAGATRA	AGAGGARGGAGATRA	AGAGGARGGAGATRA	0.000325	6.51e-05	2	28.6	0	0	299
1	1	MA1629.1 (Zic2)	STREME-1	1-TCCCAGCASA	TCCCAGCASA	Zic2	0.00162	0.00148	5	71.4	21	2.63	27.2
2	2	3-TAGGCCAS	STREME-3	3-TAGGCCAS	TAGGCCAS	TAGGCCAS	0.0254	0.0101	4	57.1	15	1.88	31.2
3	3	MA1557.1 (SMAD5)	STREME-2	2-CTAGCCA	CTAGCCA	SMAD5	0.0477	0.0101	6	85.7	82	10.3	8.41
4	4	MA0686.1 (SPDEF)	STREME-4	4-AGATCC	AGATCC	SPDEF	0.0493	0.0101	7	100	150	18.8	5.28

MTX_3_DAR_DEG_combo %>% 
   dplyr::filter(ENR_RATIO>ER_rat) %>%
  dplyr::select(RANK,CLUSTER,motif_name,SIM_MOTIF,ALT_ID, ID,EVALUE.y,TP.)%>%
  arrange(.,EVALUE.y) %>%
  slice_head(n=80)%>% 
  mutate(log10Evalue= log(EVALUE.y, base = 10)*(-1)) %>% 
  mutate(motif_name=if_else(str_starts(motif_name,"^Z*"),paste(motif_name, RANK, sep="_"), if_else(motif_name=="KLF9",paste(motif_name, RANK,sep="_"),motif_name)))%>%
  ggplot(., aes (y= reorder(motif_name,log10Evalue))) +
  geom_col(aes(x=log10Evalue)) +
  geom_point(aes(x=`TP.`*1.25), size =4)+
  scale_x_continuous(expand=c (0,.125),sec.axis = sec_axis(transform= ~./1.25,name="Percent of peaks with motif"))+
  theme_classic()+
  ylab("Enriched TF motif")+
  ggtitle(paste("MTX_3_DAR_DEG_combo response peaks(200bp)Enrichment ratio:",ER_rat))

MTX_3_DAR_DEG_combo %>% 
   dplyr::filter(ENR_RATIO>ER_rat) %>%
  dplyr::select(RANK,CLUSTER,motif_name,SIM_MOTIF,ALT_ID, ID,EVALUE.y,TP.)%>%
  arrange(.,EVALUE.y) %>%
    mutate(log10Evalue = -log10(if_else(EVALUE.y == 0, 1e-300, EVALUE.y))) %>% 
  distinct(CLUSTER,.keep_all = TRUE) %>% 
  slice_head(n=5) %>% 
  mutate(motif_name=if_else(str_starts(motif_name,"^Z*"),paste(motif_name, RANK, sep="_"), if_else(motif_name=="KLF9",paste(motif_name, RANK,sep="_"),motif_name)))%>%
  ggplot(., aes (y= reorder(motif_name,log10Evalue))) +
  geom_col(aes(x=log10Evalue)) +
  geom_point(aes(x=`TP.`*.05), size =4)+
  scale_x_continuous(expand=c (0,.125),sec.axis = sec_axis(transform= ~./.05,name="Percent of peaks with motif"))+
  theme_classic()+
  ylab("Enriched TF motif")+
  ggtitle(paste("MTX_3_DAR_DEG_combo response peaks(200bp)Enrichment ratio:",ER_rat))

MTX 24 hour

MTX_24_DAR_DEG_sea_disc <- read.delim("C:/Users/renee/ATAC_folder/ATAC_meme_data/new_analysis/MTX_24_DEG_xstreme/sea_disc_out/sea.tsv") %>% mutate(source="disc") %>% slice_head(n = length(.$ID)-3)
MTX_24_DAR_DEG_sea_known <- read.delim("C:/Users/renee/ATAC_folder/ATAC_meme_data/new_analysis/MTX_24_DEG_xstreme/sea_out/sea.tsv") %>% mutate(source="known") %>% slice_head(n = length(.$ID)-3)
MTX_24_DAR_DEG_xstreme <- read.delim("C:/Users/renee/ATAC_folder/ATAC_meme_data/new_analysis/MTX_24_DEG_xstreme/xstreme.tsv") %>% slice_head(n = length(.$ID)-3)
MTX_24_DAR_DEG_sea_all <- rbind(MTX_24_DAR_DEG_sea_disc, MTX_24_DAR_DEG_sea_known) %>% 
  arrange(ID, desc(source == "known")) %>%  
  distinct(ID, .keep_all = TRUE)

MTX_24_DAR_DEG_combo <- MTX_24_DAR_DEG_xstreme %>% 
  dplyr::select(SEED_MOTIF:EVALUE_ACC,SIM_MOTIF) %>% 
  left_join(., MTX_24_DAR_DEG_sea_all, by=c("ID"="ID","ALT_ID"="ALT_ID")) %>% 
  mutate(motif_name=case_when(
    str_detect(SIM_MOTIF, "\\(") ~ str_extract(SIM_MOTIF, "(?<=\\().+?(?=\\))"),
    str_detect(SIM_MOTIF, "^MA\\d+\\.\\d+") ~ ALT_ID,
    str_detect(SIM_MOTIF, "^\\d+-") ~ str_replace(SIM_MOTIF, "^\\d+-", ""),
  TRUE ~ SIM_MOTIF
)) %>% 
  dplyr::select(RANK,CLUSTER,SIM_MOTIF,ALT_ID, ID,CONSENSUS.x,motif_name,EVALUE.y,QVALUE,TP:ENR_RATIO) %>% 
  arrange(.,EVALUE.y) 

MTX_24_DAR_DEG_combo %>% 
  dplyr::mutate_if(is.numeric, funs(as.character(signif(., 3)))) %>%
  kable(., caption = "Enriched motifs 200 bp in MTX  v VEH") %>%
  kable_paper("striped", full_width = TRUE) %>%
  kable_styling(full_width = FALSE, font_size = 16) %>%
  scroll_box(height = "500px")

Enriched motifs 200 bp in MTX v VEH
RANK	CLUSTER	SIM_MOTIF	ALT_ID	ID	CONSENSUS.x	motif_name	EVALUE.y	QVALUE	TP	TP.	FP	FP.	ENR_RATIO
1	1	MA1995.1 (Npas4)	STREME-1	1-GTCTCGATG	GTCTCGATG	Npas4	0.000272	0.00026	97	7.32	853	4.16	1.77
2	2	MA1489.1 (FOXN3)	STREME-2	2-AGGAAACAAAACTK	AGGAAACAAAACTK	FOXN3	0.00525	0.00263	15	1.13	81	0.4	3.01
2	8	MA0907.1	HOXC13	MA0907.1	BCTCGTAAAAH	HOXC13	0.0208	0.00996	52	3.92	420	2.05	1.94
3	3	MA1511.2 (KLF10)	MEME-4	GSGCGGGGSSSGGGG	GSGCGGGGSSSGGGG	KLF10	0.0622	0.0207	120	9.05	1470	7.18	1.27
4	4	MA1547.2 (PITX2)	MEME-5	TAATCCCARCACTTT	TAATCCCARCACTTT	PITX2	0.339	0.0848	38	2.87	430	2.1	1.4
5	5	MA1107.2 (KLF9)	MEME-1	ACACACACACACACA	ACACACACACACACA	KLF9	1.03	0.207	32	2.41	395	1.93	1.29
6	6	MA0476.1 (FOS)	MEME-2	TGASTCAT	TGASTCAT	FOS	3.51	0.569	22	1.66	323	1.58	1.1
7	7	MA1125.1 (ZNF384)	MEME-3	TTKTTTTTWTTTTTW	TTKTTTTTWTTTTTW	ZNF384	3.99	0.569	1	0.08	10	0.05	2.81
8	8	MA0907.1 (HOXC13)	STREME-3	3-CTCGTAAAGTYS	CTCGTAAAGTYS	HOXC13	6.01	0.752	421	31.8	6690	32.6	0.975

MTX_24_DAR_DEG_combo %>% 
   dplyr::filter(ENR_RATIO>ER_rat) %>%
  dplyr::select(RANK,CLUSTER,motif_name,SIM_MOTIF,ALT_ID, ID,EVALUE.y,TP.)%>%
  arrange(.,EVALUE.y) %>%
  slice_head(n=80)%>% 
  mutate(log10Evalue= log(EVALUE.y, base = 10)*(-1)) %>% 
  mutate(motif_name=if_else(str_starts(motif_name,"^Z*"),paste(motif_name, RANK, sep="_"), if_else(motif_name=="KLF9",paste(motif_name, RANK,sep="_"),motif_name)))%>%
  ggplot(., aes (y= reorder(motif_name,log10Evalue))) +
  geom_col(aes(x=log10Evalue)) +
  geom_point(aes(x=`TP.`*1.25), size =4)+
  scale_x_continuous(expand=c (0,.125),sec.axis = sec_axis(transform= ~./1.25,name="Percent of peaks with motif"))+
  theme_classic()+
  ylab("Enriched TF motif")+
  ggtitle(paste("MTX_24_DAR_DEG_combo response peaks(200bp)Enrichment ratio:",ER_rat))

MTX_24_DAR_DEG_combo %>% 
   dplyr::filter(ENR_RATIO>ER_rat) %>%
  dplyr::select(RANK,CLUSTER,motif_name,SIM_MOTIF,ALT_ID, ID,EVALUE.y,TP.)%>%
  arrange(.,EVALUE.y) %>%
    mutate(log10Evalue = -log10(if_else(EVALUE.y == 0, 1e-300, EVALUE.y))) %>% 
  distinct(CLUSTER,.keep_all = TRUE) %>% 
  slice_head(n=5) %>% 
  mutate(motif_name=if_else(str_starts(motif_name,"^Z*"),paste(motif_name, RANK, sep="_"), if_else(motif_name=="KLF9",paste(motif_name, RANK,sep="_"),motif_name)))%>%
  ggplot(., aes (y= reorder(motif_name,log10Evalue))) +
  geom_col(aes(x=log10Evalue)) +
  geom_point(aes(x=`TP.`*.1), size =4)+
  scale_x_continuous(expand=c (0,.125),sec.axis = sec_axis(transform= ~./.1,name="Percent of peaks with motif"))+
  theme_classic()+
  ylab("Enriched TF motif")+
  ggtitle(paste("MTX_24_DAR_DEG_combo response peaks(200bp)Enrichment ratio:",ER_rat))

sessionInfo()

R version 4.4.2 (2024-10-31 ucrt)
Platform: x86_64-w64-mingw32/x64
Running under: Windows 11 x64 (build 26100)

Matrix products: default


locale:
[1] LC_COLLATE=English_United States.utf8 
[2] LC_CTYPE=English_United States.utf8   
[3] LC_MONETARY=English_United States.utf8
[4] LC_NUMERIC=C                          
[5] LC_TIME=English_United States.utf8    

time zone: America/Chicago
tzcode source: internal

attached base packages:
[1] grid      stats4    stats     graphics  grDevices utils     datasets 
[8] methods   base     

other attached packages:
 [1] ggseqlogo_0.2                           
 [2] universalmotif_1.24.2                   
 [3] data.table_1.17.8                       
 [4] BSgenome.Hsapiens.UCSC.hg38_1.4.5       
 [5] BSgenome_1.74.0                         
 [6] BiocIO_1.16.0                           
 [7] MotifDb_1.48.0                          
 [8] Biostrings_2.74.1                       
 [9] XVector_0.46.0                          
[10] JASPAR2022_0.99.8                       
[11] BiocFileCache_2.14.0                    
[12] dbplyr_2.5.0                            
[13] devtools_2.4.5                          
[14] usethis_3.1.0                           
[15] ggpubr_0.6.1                            
[16] BiocParallel_1.40.2                     
[17] Cormotif_1.52.0                         
[18] affy_1.84.0                             
[19] scales_1.4.0                            
[20] VennDiagram_1.7.3                       
[21] futile.logger_1.4.3                     
[22] gridExtra_2.3                           
[23] ggfortify_0.4.19                        
[24] edgeR_4.4.2                             
[25] limma_3.62.2                            
[26] rtracklayer_1.66.0                      
[27] org.Hs.eg.db_3.20.0                     
[28] TxDb.Hsapiens.UCSC.hg38.knownGene_3.20.0
[29] GenomicFeatures_1.58.0                  
[30] AnnotationDbi_1.68.0                    
[31] Biobase_2.66.0                          
[32] GenomicRanges_1.58.0                    
[33] GenomeInfoDb_1.42.3                     
[34] IRanges_2.40.1                          
[35] S4Vectors_0.44.0                        
[36] BiocGenerics_0.52.0                     
[37] ChIPseeker_1.42.1                       
[38] RColorBrewer_1.1-3                      
[39] broom_1.0.9                             
[40] kableExtra_1.4.0                        
[41] cowplot_1.2.0                           
[42] lubridate_1.9.4                         
[43] forcats_1.0.0                           
[44] stringr_1.5.1                           
[45] dplyr_1.1.4                             
[46] purrr_1.1.0                             
[47] readr_2.1.5                             
[48] tidyr_1.3.1                             
[49] tibble_3.3.0                            
[50] ggplot2_3.5.2                           
[51] tidyverse_2.0.0                         
[52] workflowr_1.7.1                         

loaded via a namespace (and not attached):
  [1] fs_1.6.6                               
  [2] matrixStats_1.5.0                      
  [3] bitops_1.0-9                           
  [4] enrichplot_1.26.6                      
  [5] httr_1.4.7                             
  [6] profvis_0.4.0                          
  [7] tools_4.4.2                            
  [8] backports_1.5.0                        
  [9] R6_2.6.1                               
 [10] lazyeval_0.2.2                         
 [11] urlchecker_1.0.1                       
 [12] withr_3.0.2                            
 [13] preprocessCore_1.68.0                  
 [14] cli_3.6.5                              
 [15] textshaping_1.0.1                      
 [16] formatR_1.14                           
 [17] labeling_0.4.3                         
 [18] sass_0.4.10                            
 [19] Rsamtools_2.22.0                       
 [20] systemfonts_1.2.3                      
 [21] yulab.utils_0.2.0                      
 [22] DOSE_4.0.1                             
 [23] svglite_2.2.1                          
 [24] R.utils_2.13.0                         
 [25] dichromat_2.0-0.1                      
 [26] sessioninfo_1.2.3                      
 [27] plotrix_3.8-4                          
 [28] rstudioapi_0.17.1                      
 [29] RSQLite_2.4.2                          
 [30] generics_0.1.4                         
 [31] gridGraphics_0.5-1                     
 [32] TxDb.Hsapiens.UCSC.hg19.knownGene_3.2.2
 [33] gtools_3.9.5                           
 [34] car_3.1-3                              
 [35] GO.db_3.20.0                           
 [36] Matrix_1.7-3                           
 [37] abind_1.4-8                            
 [38] R.methodsS3_1.8.2                      
 [39] lifecycle_1.0.4                        
 [40] whisker_0.4.1                          
 [41] yaml_2.3.10                            
 [42] carData_3.0-5                          
 [43] SummarizedExperiment_1.36.0            
 [44] gplots_3.2.0                           
 [45] qvalue_2.38.0                          
 [46] SparseArray_1.6.2                      
 [47] blob_1.2.4                             
 [48] promises_1.3.3                         
 [49] crayon_1.5.3                           
 [50] miniUI_0.1.2                           
 [51] ggtangle_0.0.7                         
 [52] lattice_0.22-7                         
 [53] KEGGREST_1.46.0                        
 [54] pillar_1.11.0                          
 [55] knitr_1.50                             
 [56] fgsea_1.32.4                           
 [57] rjson_0.2.23                           
 [58] boot_1.3-31                            
 [59] codetools_0.2-20                       
 [60] fastmatch_1.1-6                        
 [61] glue_1.8.0                             
 [62] getPass_0.2-4                          
 [63] ggfun_0.2.0                            
 [64] remotes_2.5.0                          
 [65] vctrs_0.6.5                            
 [66] png_0.1-8                              
 [67] treeio_1.30.0                          
 [68] gtable_0.3.6                           
 [69] cachem_1.1.0                           
 [70] xfun_0.52                              
 [71] S4Arrays_1.6.0                         
 [72] mime_0.13                              
 [73] statmod_1.5.0                          
 [74] ellipsis_0.3.2                         
 [75] nlme_3.1-168                           
 [76] ggtree_3.14.0                          
 [77] bit64_4.6.0-1                          
 [78] filelock_1.0.3                         
 [79] rprojroot_2.1.0                        
 [80] bslib_0.9.0                            
 [81] affyio_1.76.0                          
 [82] KernSmooth_2.23-26                     
 [83] splitstackshape_1.4.8                  
 [84] colorspace_2.1-1                       
 [85] DBI_1.2.3                              
 [86] tidyselect_1.2.1                       
 [87] processx_3.8.6                         
 [88] bit_4.6.0                              
 [89] compiler_4.4.2                         
 [90] curl_6.4.0                             
 [91] git2r_0.36.2                           
 [92] xml2_1.3.8                             
 [93] DelayedArray_0.32.0                    
 [94] caTools_1.18.3                         
 [95] callr_3.7.6                            
 [96] digest_0.6.37                          
 [97] rmarkdown_2.29                         
 [98] htmltools_0.5.8.1                      
 [99] pkgconfig_2.0.3                        
[100] MatrixGenerics_1.18.1                  
[101] fastmap_1.2.0                          
[102] rlang_1.1.6                            
[103] htmlwidgets_1.6.4                      
[104] UCSC.utils_1.2.0                       
[105] shiny_1.11.1                           
[106] farver_2.1.2                           
[107] jquerylib_0.1.4                        
[108] jsonlite_2.0.0                         
[109] GOSemSim_2.32.0                        
[110] R.oo_1.27.1                            
[111] RCurl_1.98-1.17                        
[112] magrittr_2.0.3                         
[113] Formula_1.2-5                          
[114] GenomeInfoDbData_1.2.13                
[115] ggplotify_0.1.2                        
[116] patchwork_1.3.1                        
[117] Rcpp_1.1.0                             
[118] ape_5.8-1                              
[119] stringi_1.8.7                          
[120] MASS_7.3-65                            
[121] zlibbioc_1.52.0                        
[122] plyr_1.8.9                             
[123] pkgbuild_1.4.8                         
[124] parallel_4.4.2                         
[125] ggrepel_0.9.6                          
[126] splines_4.4.2                          
[127] hms_1.1.3                              
[128] locfit_1.5-9.12                        
[129] ps_1.9.1                               
[130] igraph_2.1.4                           
[131] ggsignif_0.6.4                         
[132] reshape2_1.4.4                         
[133] pkgload_1.4.0                          
[134] futile.options_1.0.1                   
[135] XML_3.99-0.18                          
[136] evaluate_1.0.4                         
[137] lambda.r_1.2.4                         
[138] BiocManager_1.30.26                    
[139] tzdb_0.5.0                             
[140] httpuv_1.6.16                          
[141] xtable_1.8-4                           
[142] restfulr_0.0.16                        
[143] tidytree_0.4.6                         
[144] rstatix_0.7.2                          
[145] later_1.4.2                            
[146] viridisLite_0.4.2                      
[147] aplot_0.2.8                            
[148] memoise_2.0.1                          
[149] GenomicAlignments_1.42.0               
[150] timechange_0.3.0

Jaspar_motif_DAR

Renee Matthews

2025-06-16