One-to-n alignments
Command: compare-matrices -v 1 -mode matches -format1 transfac -file1 Myogenin_Rep1_motifs50/results/discovered_motifs/oligos_8nt_mkv6_m19/peak-motifs_oligos_8nt_mkv6_m19.tf -format2 tf -file2 $RSAT/public_html/motif_databases/JASPAR/Jaspar_2020/nonredundant/JASPAR2020_CORE_vertebrates_non-redundant_pfms.tf -mode matches -strand DR -uth offset_rank 1 -lth w 5 -lth Wr 0.3 -lth cor 0.7 -lth Ncor 0.4 -return matrix_name,matrix_id,cor,Ncor,width,strand,offset,alignments_1ton -sort Ncor -quick -o Myogenin_Rep1_motifs50/results/discovered_motifs/oligos_8nt_mkv6_m19/peak-motifs_oligos_8nt_mkv6_m19_vs_db_jaspar_core_nonredundant_vertebrates
One-to-n matrix alignment; reference matrix: oligos_8nt_mkv6_m19_shift0 ; 3 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_8nt_mkv6_m19_shift0 (oligos_8nt_mkv6_m19oligos_8nt_mkv6_m19) |
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; oligos_8nt_mkv6_m19 (oligos_8nt_mkv6_m19oligos_8nt_mkv6_m19); m=0 (reference); ncol1=12; shift=0; ncol=15; ssCGGCCCCGss---
; Alignment reference
a 569 530 15 13 161 178 80 144 5 7 639 694 0 0 0
c 2456 1935 5248 567 377 4711 4436 4288 5023 65 2444 2051 0 0 0
g 1553 2254 106 4799 4589 260 644 828 348 5307 1751 2011 0 0 0
t 809 668 18 8 260 238 227 127 11 8 553 631 0 0 0
|
| MA1513.1_shift4 (KLF15) |
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|
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; oligos_8nt_mkv6_m19 versus MA1513.1 (KLF15); m=1/2; ncol2=11; w=8; offset=4; strand=D; shift=4; score=0.449891; ----scCCCGCCCcs
; cor=; Ncor=
a 0 0 0 0 1184.0 937.0 40.0 93.0 0.0 0.0 11.0 55.0 12.0 1566.0 1067.0
c 0 0 0 0 2903.0 6506.0 11234.0 10940.0 11368.0 0.0 11345.0 10954.0 11254.0 6267.0 5013.0
g 0 0 0 0 5538.0 2117.0 86.0 333.0 1.0 11369.0 2.0 359.0 100.0 1934.0 3124.0
t 0 0 0 0 1744.0 1809.0 9.0 3.0 0.0 0.0 11.0 1.0 3.0 1602.0 2165.0
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| MA0599.1_shift4 (KLF5) |
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; oligos_8nt_mkv6_m19 versus MA0599.1 (KLF5); m=2/2; ncol2=10; w=8; offset=4; strand=D; shift=4; score=0.430456; ----gCCMCrCCCh-
; cor=; Ncor=
a 0 0 0 0 1429.0 0.0 0.0 3477.0 0.0 5051.0 0.0 0.0 0.0 3915.0 0
c 0 0 0 0 2023.0 11900.0 12008.0 9569.0 13611.0 0.0 13611.0 13611.0 13135.0 5595.0 0
g 0 0 0 0 7572.0 0.0 0.0 0.0 0.0 5182.0 0.0 0.0 0.0 0.0 0
t 0 0 0 0 2587.0 1711.0 1603.0 565.0 0.0 3378.0 0.0 0.0 476.0 4101.0 0
|