One-to-n alignments
Command: compare-matrices -v 1 -mode matches -format1 transfac -file1 Myogenin_Rep1_motifs50/results/discovered_motifs/oligos_8nt_mkv6_m27/peak-motifs_oligos_8nt_mkv6_m27.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_m27/peak-motifs_oligos_8nt_mkv6_m27_vs_db_jaspar_core_nonredundant_vertebrates
One-to-n matrix alignment; reference matrix: oligos_8nt_mkv6_m27_shift3 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_8nt_mkv6_m27_shift3 (oligos_8nt_mkv6_m27oligos_8nt_mkv6_m27) |
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; oligos_8nt_mkv6_m27 (oligos_8nt_mkv6_m27oligos_8nt_mkv6_m27); m=0 (reference); ncol1=12; shift=3; ncol=15; ---ssCGGGACCGss
; Alignment reference
a 0 0 0 436 406 50 26 95 121 2642 120 44 30 448 650
c 0 0 0 1240 1306 3174 200 162 177 260 2846 3114 168 1320 963
g 0 0 0 1196 1265 161 3171 3024 3079 341 380 224 3180 1253 1463
t 0 0 0 549 444 36 24 140 44 178 75 39 43 400 345
|
| MA1513.1_rc_shift0 (KLF15_rc) |
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; oligos_8nt_mkv6_m27 versus MA1513.1_rc (KLF15_rc); m=1/1; ncol2=11; w=8; offset=-3; strand=R; shift=0; score=0.408988; sgGGGCGGGgs----
; cor=; Ncor=
a 2165.0 1602.0 3.0 1.0 11.0 0.0 0.0 3.0 9.0 1809.0 1744.0 0 0 0 0
c 3124.0 1934.0 100.0 359.0 2.0 11369.0 1.0 333.0 86.0 2117.0 5538.0 0 0 0 0
g 5013.0 6267.0 11254.0 10954.0 11345.0 0.0 11368.0 10940.0 11234.0 6506.0 2903.0 0 0 0 0
t 1067.0 1566.0 12.0 55.0 11.0 0.0 0.0 93.0 40.0 937.0 1184.0 0 0 0 0
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