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_m3/peak-motifs_positions_7nt_m3.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_m3/peak-motifs_positions_7nt_m3_vs_db_JASPAR2024_CORE_vertebrates_non-redundant
One-to-n matrix alignment; reference matrix: positions_7nt_m3_shift1 ; 3 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| positions_7nt_m3_shift1 (positions_7nt_m3) |
 |
|
|
; positions_7nt_m3; m=0 (reference); ncol1=12; shift=1; ncol=13; -tcTCTCTCTCtc
; Alignment reference
a 0 1581 1483 308 226 206 281 174 217 269 331 1718 1781
c 0 2749 10660 571 15644 646 15324 804 15507 643 15449 3521 10306
g 0 1441 1890 379 505 150 810 138 731 116 719 632 2073
t 0 11406 3144 15919 802 16175 762 16061 722 16149 678 11306 3017
|
| MA0508.4_shift4 (PRDM1) |
 |
|
|
; positions_7nt_m3 versus MA0508.4 (PRDM1); m=1/2; ncol2=7; w=0; offset=3; strand=D; shift=4; score=0.479206; ----CTTTCTC--
; cor=; Ncor=
a 0 0 0 0 1199.0 1283.0 2181.0 1813.0 1377.0 3549.0 1710.0 0 0
c 0 0 0 0 52752.0 467.0 1346.0 488.0 53465.0 1076.0 52821.0 0 0
g 0 0 0 0 701.0 826.0 1011.0 561.0 207.0 1390.0 290.0 0 0
t 0 0 0 0 829.0 52905.0 50943.0 52619.0 432.0 49466.0 660.0 0 0
|
| MA1731.2_shift0 (ZNF768) |
 |
|
|
; positions_7nt_m3 versus MA1731.2 (ZNF768); m=2/2; ncol2=9; w=-1; offset=-1; strand=D; shift=0; score=0.451133; sCcTCTCTG----
; cor=; Ncor=
a 211.0 29.0 43.0 34.0 1.0 6.0 1.0 1.0 1.0 0 0 0 0
c 478.0 768.0 655.0 39.0 950.0 6.0 987.0 1.0 25.0 0 0 0 0
g 268.0 62.0 179.0 11.0 29.0 43.0 11.0 11.0 973.0 0 0 0 0
t 43.0 141.0 123.0 917.0 20.0 945.0 1.0 987.0 1.0 0 0 0 0
|