One-to-n alignments
Command: compare-matrices -v 1 -mode matches -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2015/11/03/peak-motifs.2015-11-03.065540_2015-11-03.065540_cr9ytx/results/discovered_motifs/positions_6nt_m4/peak-motifs_positions_6nt_m4.tf -format2 tf -file2 $RSAT/public_html/motif_databases/JASPAR/jaspar_core_vertebrates_2015_03.tf -mode matches -DR -uth offset_rank 1 -lth w 5 -lth Wr 0.3 -lth cor 0.75 -lth Ncor 0.4 -return matrix_name,matrix_id,cor,Ncor,logoDP,NIcor,NsEucl,SSD,NSW,match_rank,width,strand,offset,consensus,alignments_1ton -sort Ncor -o $RSAT/public_html/tmp/www-data/2015/11/03/peak-motifs.2015-11-03.065540_2015-11-03.065540_cr9ytx/results/discovered_motifs/positions_6nt_m4/peak-motifs_positions_6nt_m4_vs_db_jaspar_core_vertebrates
One-to-n matrix alignment; reference matrix: positions_6nt_m4_shift0 ; 3 matrices ; sort_field=rank_mean
| Matrix name | Aligned logos | cor |
Ncor |
logoDP |
NIcor |
NsEucl |
SSD |
NSW |
rcor |
rNcor |
rlogoDP |
rNIcor |
rNsEucl |
rSSD |
rNSW |
rank_mean |
match_rank |
Aligned matrices |
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| positions_6nt_m4_shift0 (positions_6nt_m4) |
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; positions_6nt_m4; m=0 (reference); ncol1=18; shift=0; ncol=18; mbtgATTGCGCAATcavk
; Alignment reference
a 14 9 6 4 40 0 0 0 3 6 3 46 46 1 5 24 12 9
c 13 13 7 6 3 0 0 0 35 2 43 0 0 2 31 9 12 10
g 10 12 9 31 2 0 0 43 2 35 0 0 0 3 6 7 13 13
t 9 12 24 5 1 46 46 3 6 3 0 0 0 40 4 6 9 14
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| MA0102.3_shift4 (CEBPA) |
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0.828 |
0.506 |
8.679 |
0.490 |
0.910 |
1.975 |
0.910 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1.000 |
1 |
; positions_6nt_m4 versus MA0102.3 (CEBPA); m=1/2; ncol2=11; w=11; offset=4; strand=D; shift=4; score= 1; ----aTTGCAyAAym---
; cor=0.828; Ncor=0.506; logoDP=8.679; NIcor=0.490; NsEucl=0.910; SSD=1.975; NSW=0.910; rcor=1; rNcor=1; rlogoDP=1; rNIcor=1; rNsEucl=1; rSSD=1; rNSW=1; rank_mean=1.000; match_rank=1
a 0 0 0 0 10351 0 0 705 0 11956 2660 12226 15318 0 5804 0 0 0
c 0 0 0 0 1332 0 0 0 15318 1274 7654 3092 0 5688 4963 0 0 0
g 0 0 0 0 3635 0 0 11304 0 1066 0 0 0 1804 890 0 0 0
t 0 0 0 0 0 15318 15318 3309 0 1022 5004 0 0 7826 3661 0 0 0
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| MA0466.1_rc_shift4 (CEBPB_rc) |
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0.825 |
0.504 |
2.931 |
-0.028 |
0.909 |
2.009 |
0.909 |
2 |
2 |
2 |
2 |
2 |
2 |
2 |
2.000 |
2 |
; positions_6nt_m4 versus MA0466.1_rc (CEBPB_rc); m=2/2; ncol2=11; w=11; offset=4; strand=R; shift=4; score= 2; ----rTkrTGCAATm---
; cor=0.825; Ncor=0.504; logoDP=2.931; NIcor=-0.028; NsEucl=0.909; SSD=2.009; NSW=0.909; rcor=2; rNcor=2; rlogoDP=2; rNIcor=2; rNsEucl=2; rSSD=2; rNSW=2; rank_mean=2.000; match_rank=2
a 0 0 0 0 61413 0 0 38886 9286 0 19407 99494 99494 0 42845 0 0 0
c 0 0 0 0 2043 0 0 0 10015 0 75531 0 0 18428 33617 0 0 0
g 0 0 0 0 36038 0 39343 51954 5478 99494 0 0 0 5868 10026 0 0 0
t 0 0 0 0 0 99494 60151 8654 74715 0 4556 0 0 75198 13006 0 0 0
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