One-to-n alignments
Command: compare-matrices -v 1 -mode matches -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2026/01/05/peak-motifs.2026-01-05.145905_2026-01-05.145905_RyN7XF/results/discovered_motifs/oligos_7nt_test_vs_ctrl_m5/peak-motifs_oligos_7nt_test_vs_ctrl_m5.tf -format2 tf -file2 $RSAT/public_html/motif_databases/JASPAR/Jaspar_2024/JASPAR2024_CORE_vertebrates_non-redundant_pfms_transfac.txt -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 $RSAT/public_html/tmp/www-data/2026/01/05/peak-motifs.2026-01-05.145905_2026-01-05.145905_RyN7XF/results/discovered_motifs/oligos_7nt_test_vs_ctrl_m5/peak-motifs_oligos_7nt_test_vs_ctrl_m5_vs_db_JASPAR2024_CORE_vertebrates_non-redundant
One-to-n matrix alignment; reference matrix: oligos_7nt_test_vs_ctrl_m5_shift0 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_7nt_test_vs_ctrl_m5_shift0 (oligos_7nt_test_vs_ctrl_m5) |
 |
|
|
; oligos_7nt_test_vs_ctrl_m5; m=0 (reference); ncol1=20; shift=0; ncol=20; wwAAAAAgAAAtGAAATgww
; Alignment reference
a 580 560 1051 1053 1120 1101 1083 245 1136 1134 1142 297 251 1135 1110 1139 251 241 573 524
c 165 173 57 74 48 55 32 73 37 60 62 42 48 44 66 46 62 90 208 221
g 240 216 91 94 52 70 69 848 69 50 58 124 907 43 62 66 82 823 189 229
t 337 373 123 101 102 96 138 156 80 78 60 859 116 100 84 71 927 168 352 348
|
| MA1623.2_shift1 (Stat2) |
 |
|
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; oligos_7nt_test_vs_ctrl_m5 versus MA1623.2 (Stat2); m=1/1; ncol2=10; w=0; offset=1; strand=D; shift=1; score=0.42106; -gAAACAGAAA---------
; cor=; Ncor=
a 0 969.0 3554.0 3736.0 3738.0 286.0 3146.0 152.0 3700.0 3747.0 3514.0 0 0 0 0 0 0 0 0 0
c 0 306.0 76.0 75.0 72.0 2907.0 151.0 45.0 49.0 45.0 147.0 0 0 0 0 0 0 0 0 0
g 0 2287.0 168.0 71.0 87.0 524.0 74.0 3707.0 163.0 98.0 157.0 0 0 0 0 0 0 0 0 0
t 0 397.0 161.0 77.0 62.0 242.0 588.0 55.0 47.0 69.0 141.0 0 0 0 0 0 0 0 0 0
|