One-to-n alignments
Command: compare-matrices -v 1 -mode matches -format1 transfac -file1 /home/rsat/rsa-tools/public_html/tmp/peak-motifs.2012_03_11.082424/results/discovered_motifs/oligos_7nt_mkv5_m1/peak-motifs_oligos_7nt_mkv5_m1.tf -format2 tf -file2 /home/rsat/rsa-tools/public_html/data/motif_databases/JASPAR/jaspar_core_insects_2009_10.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 /home/rsat/rsa-tools/public_html/tmp/peak-motifs.2012_03_11.082424/results/discovered_motifs/oligos_7nt_mkv5_m1/peak-motifs_oligos_7nt_mkv5_m1_vs_db_jaspar_core_insects
One-to-n matrix alignment; reference matrix: oligos_7nt_mkv5_m1_shift1 ; 2 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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| oligos_7nt_mkv5_m1_shift1 (oligos_7nt_mkv5_m1) |
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; oligos_7nt_mkv5_m1; m=0 (reference); ncol1=12; shift=1; ncol=13; -wwTATYTkKAww
; Alignment reference
a | 0 1274 1387 0 4484 0 0 0 0 0 4484 1227 1330
c | 0 685 584 0 0 0 1204 0 0 0 0 707 1019
g | 0 685 1071 0 0 0 0 0 1682 1241 0 715 758
t | 0 1840 1442 4484 0 4484 3280 4484 2802 3243 0 1835 1377
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| MA0011.1_shift0 (br_Z2) |
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0.822 |
0.443 |
4.369 |
0.437 |
0.893 |
1.126 |
0.920 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1.000 |
1 |
; oligos_7nt_mkv5_m1 versus MA0011.1 (br_Z2); m=1/1; ncol2=8; w=7; offset=-1; strand=D; shift=0; score= 1; wwCTAtTt-----
; cor=0.822; Ncor=0.443; logoDP=4.369; NIcor=0.437; NsEucl=0.893; SSD=1.126; NSW=0.920; rcor=1; rNcor=1; rlogoDP=1; rNIcor=1; rNsEucl=1; rSSD=1; rNSW=1; rank_mean=1.000; match_rank=1
a | 3 5 0 0 12 1 2 1 0 0 0 0 0
c | 1 2 10 1 0 1 0 2 0 0 0 0 0
g | 1 1 0 0 0 2 1 1 0 0 0 0 0
t | 7 4 2 11 0 8 9 8 0 0 0 0 0
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