One-to-n alignments
Command: compare-matrices -v 1 -mode matches -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2025/05/16/peak-motifs.2025-05-16.175219_2025-05-16.175219_UyZibC/results/discovered_motifs/oligos_6nt_mkv2_m3/peak-motifs_oligos_6nt_mkv2_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/2025/05/16/peak-motifs.2025-05-16.175219_2025-05-16.175219_UyZibC/results/discovered_motifs/oligos_6nt_mkv2_m3/peak-motifs_oligos_6nt_mkv2_m3_vs_db_JASPAR2024_CORE_vertebrates_non-redundant
One-to-n matrix alignment; reference matrix: oligos_6nt_mkv2_m3_shift0 ; 3 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_6nt_mkv2_m3_shift0 (oligos_6nt_mkv2_m3) |
 |
|
|
; oligos_6nt_mkv2_m3; m=0 (reference); ncol1=13; shift=0; ncol=13; wwwATATATAwww
; Alignment reference
a 52 39 58 74 3 86 10 83 5 84 42 31 49
c 7 9 6 3 1 0 5 3 2 1 7 10 7
g 8 5 4 2 1 3 0 4 0 1 3 13 6
t 24 38 23 12 86 2 76 1 84 5 39 37 29
|
| MA0108.3_shift6 (TBP) |
 |
|
|
; oligos_6nt_mkv2_m3 versus MA0108.3 (TBP); m=1/2; ncol2=7; w=0; offset=6; strand=D; shift=6; score=0.486128; ------TATAWAw
; cor=; Ncor=
a 0 0 0 0 0 0 16.0 352.0 3.0 354.0 268.0 360.0 222.0
c 0 0 0 0 0 0 46.0 0.0 10.0 0.0 0.0 3.0 2.0
g 0 0 0 0 0 0 18.0 2.0 2.0 5.0 0.0 20.0 44.0
t 0 0 0 0 0 0 309.0 35.0 374.0 30.0 121.0 6.0 121.0
|
| MA1974.2_shift4 (ZNF211) |
 |
|
|
; oligos_6nt_mkv2_m3 versus MA1974.2 (ZNF211); m=2/2; ncol2=10; w=0; offset=4; strand=D; shift=4; score=0.464403; ----yATATACCA
; cor=; Ncor=
a 0 0 0 0 43.0 757.0 3.0 781.0 4.0 774.0 3.0 10.0 712.0
c 0 0 0 0 275.0 21.0 17.0 4.0 11.0 7.0 776.0 741.0 21.0
g 0 0 0 0 83.0 13.0 5.0 7.0 3.0 6.0 7.0 5.0 20.0
t 0 0 0 0 393.0 3.0 769.0 2.0 776.0 7.0 8.0 38.0 41.0
|