One-to-n alignments
Command: compare-matrices -v 1 -mode matches -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2025/11/25/peak-motifs.2025-11-25.143236_2025-11-25.143236_C5OFib/results/discovered_motifs/positions_7nt_m1/peak-motifs_positions_7nt_m1.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/2025/11/25/peak-motifs.2025-11-25.143236_2025-11-25.143236_C5OFib/results/discovered_motifs/positions_7nt_m1/peak-motifs_positions_7nt_m1_vs_db_JASPAR2024_CORE_vertebrates_non-redundant
One-to-n matrix alignment; reference matrix: positions_7nt_m1_shift0 ; 3 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| positions_7nt_m1_shift0 (positions_7nt_m1) |
 |
|
|
; positions_7nt_m1; m=0 (reference); ncol1=12; shift=0; ncol=12; ACACACACACAc
; Alignment reference
a 18178 2471 22621 438 23588 401 23613 537 23428 629 18676 2604
c 1818 17097 413 22221 229 22540 233 22527 281 21839 1962 16031
g 2334 1782 915 539 367 547 301 514 324 740 1382 2134
t 2130 3110 511 1262 276 972 313 882 427 1252 2440 3691
|
| MA1107.3_shift1 (KLF9) |
 |
|
|
; positions_7nt_m1 versus MA1107.3 (KLF9); m=1/2; ncol2=11; w=0; offset=1; strand=D; shift=1; score=0.64784; -gCCACACCCAC
; cor=; Ncor=
a 0 2862.0 4664.0 287.0 21899.0 221.0 19187.0 224.0 2428.0 146.0 18837.0 792.0
c 0 4342.0 17839.0 24709.0 2559.0 24863.0 1070.0 24365.0 22117.0 24682.0 4339.0 20644.0
g 0 16852.0 1660.0 291.0 708.0 353.0 4340.0 735.0 605.0 205.0 852.0 1778.0
t 0 1523.0 1416.0 292.0 413.0 142.0 982.0 255.0 429.0 546.0 1551.0 2365.0
|
| MA1523.2_shift3 (MSANTD3) |
 |
|
|
; positions_7nt_m1 versus MA1523.2 (MSANTD3); m=2/2; ncol2=7; w=0; offset=3; strand=D; shift=3; score=0.432907; ---CACTCAm--
; cor=; Ncor=
a 0 0 0 64.0 980.0 31.0 37.0 47.0 775.0 271.0 0 0
c 0 0 0 723.0 0.0 896.0 7.0 862.0 140.0 568.0 0 0
g 0 0 0 31.0 2.0 27.0 0.0 29.0 24.0 63.0 0 0
t 0 0 0 180.0 16.0 45.0 954.0 60.0 59.0 96.0 0 0
|