One-to-n alignments
Command: compare-matrices -v 1 -mode matches -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2021/02/16/peak-motifs.2021-02-16.144431_2021-02-16.144431_tXA9Xd/results/discovered_motifs/positions_7nt_m3/peak-motifs_positions_7nt_m3.tf -format2 tf -file2 $RSAT/public_html/motif_databases/JASPAR/Jaspar_2020/nonredundant/JASPAR2020_CORE_vertebrates_non-redundant_pfms.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/2021/02/16/peak-motifs.2021-02-16.144431_2021-02-16.144431_tXA9Xd/results/discovered_motifs/positions_7nt_m3/peak-motifs_positions_7nt_m3_vs_db_jaspar_core_nonredundant_vertebrates
One-to-n matrix alignment; reference matrix: positions_7nt_m3_shift0 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| positions_7nt_m3_shift0 (positions_7nt_m3) |
 |
|
|
; positions_7nt_m3; m=0 (reference); ncol1=24; shift=0; ncol=24; kbywTTgTTaTGCAtAAcAAwrvm
; Alignment reference
a 35 26 26 51 11 9 21 32 11 111 5 13 4 155 34 138 114 17 131 128 74 42 44 54
c 35 46 72 30 9 13 27 10 13 14 3 3 147 4 8 5 10 101 14 18 12 26 52 43
g 43 51 26 13 18 14 102 10 5 8 4 147 3 3 14 13 10 27 13 9 30 73 46 35
t 54 44 43 73 129 131 17 115 138 34 155 4 13 5 111 11 33 22 9 12 51 26 25 35
|
| MA0142.1_shift2 (Pou5f1::Sox2) |
 |
|
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; positions_7nt_m3 versus MA0142.1 (Pou5f1::Sox2); m=1/1; ncol2=15; w=15; offset=2; strand=D; shift=2; score=0.532673; --ywTTswyATGCAaAt-------
; cor=; Ncor=
a 0 0 63.0 579.0 11.0 47.0 118.0 415.0 206.0 1235.0 17.0 10.0 14.0 1050.0 887.0 1200.0 198.0 0 0 0 0 0 0 0
c 0 0 846.0 58.0 50.0 12.0 363.0 18.0 365.0 30.0 5.0 16.0 1029.0 16.0 68.0 33.0 119.0 0 0 0 0 0 0 0
g 0 0 66.0 28.0 36.0 79.0 825.0 29.0 186.0 24.0 15.0 1239.0 129.0 30.0 315.0 75.0 207.0 0 0 0 0 0 0 0
t 0 0 389.0 701.0 1270.0 1231.0 63.0 907.0 612.0 80.0 1332.0 104.0 196.0 269.0 92.0 53.0 837.0 0 0 0 0 0 0 0
|