One-to-n alignments
Command: compare-matrices -v 1 -mode matches -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2026/01/25/peak-motifs.2026-01-25.180830_2026-01-25.180830_qbHDLg/results/discovered_motifs/positions_6-8nt_m10/peak-motifs_positions_6-8nt_m10.tf -format2 tf -file2 $RSAT/public_html/motif_databases/DMMPMM_drosophila/dmmpmm_PCM.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 $RSAT/public_html/tmp/www-data/2026/01/25/peak-motifs.2026-01-25.180830_2026-01-25.180830_qbHDLg/results/discovered_motifs/positions_6-8nt_m10/peak-motifs_positions_6-8nt_m10_vs_db_DMMPMM_drosophila
One-to-n matrix alignment; reference matrix: positions_6-8nt_m10_shift0 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| positions_6-8nt_m10_shift0 (positions_6-8nt_m10) |
 |
|
|
; positions_6-8nt_m10; m=0 (reference); ncol1=15; shift=0; ncol=15; waaAAATAAAAcmaa
; Alignment reference
a 1966 2098 3639 5182 5164 5108 553 5165 5002 5022 4826 1350 1570 2199 2346
c 1099 1015 593 145 159 187 395 152 196 188 258 2773 2264 1095 982
g 1069 1166 563 109 104 150 247 162 185 124 201 591 748 1114 1037
t 1550 1405 889 248 257 239 4489 205 301 350 399 970 1102 1276 1319
|
| hb_shift4 (hb) |
 |
|
|
; positions_6-8nt_m10 versus hb; m=1/1; ncol2=9; w=0; offset=4; strand=D; shift=4; score=0.438683; ----mayAAAAAa--
; cor=; Ncor=
a 0 0 0 0 30.2913 47.4563 1.00971 96.932 101.981 104 97.9417 102.99 68.6602 0 0
c 0 0 0 0 49.4757 16.1553 29.2816 1.00971 1.00971 0 1.00971 1.00971 8.07767 0 0
g 0 0 0 0 21.2039 17.165 11.1068 4.03883 0 0 4.03883 0 12.1165 0 0
t 0 0 0 0 3.02913 23.2233 62.6019 2.01942 1.00971 0 1.00971 0 15.1456 0 0
|