One-to-n alignments
Command: compare-matrices -v 1 -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2019/07/07/compare-matrices_2019-07-07.145144_tgTZKG/compare-matrices_query_matrices.transfac -file2 $RSAT/public_html/motif_databases/footprintDB/footprintDB.plants.motif.tf -format2 tf -strand DR -lth cor 0.7 -lth Ncor 0.4 -uth match_rank 50 -return cor,Ncor,logoDP,NsEucl,NSW,match_rank,matrix_id,matrix_name,width,strand,offset,consensus,alignments_1ton -o $RSAT/public_html/tmp/www-data/2019/07/07/compare-matrices_2019-07-07.145144_tgTZKG/compare-matrices.tab
One-to-n matrix alignment; reference matrix: dyads_test_vs_ctrl_m1_shift10 ; 16 matrices ; sort_field=rank_mean
| Matrix name | Aligned logos | cor |
Ncor |
logoDP |
NsEucl |
NSW |
rcor |
rNcor |
rlogoDP |
rNsEucl |
rNSW |
rank_mean |
match_rank |
Aligned matrices |
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| dyads_test_vs_ctrl_m1_shift10 (dyads_test_vs_ctrl_m1) |
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; dyads_test_vs_ctrl_m1; m=0 (reference); ncol1=11; shift=10; ncol=21; ----------kgGCGGGAAat
; Alignment reference
a 0 0 0 0 0 0 0 0 0 0 6 9 0 5 2 2 2 36 31 21 9
c 0 0 0 0 0 0 0 0 0 0 1 5 0 27 0 1 1 0 0 2 6
g 0 0 0 0 0 0 0 0 0 0 13 19 37 0 33 31 34 1 5 6 9
t 0 0 0 0 0 0 0 0 0 0 17 4 0 5 2 3 0 0 1 8 13
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| E2Fa_E2Fa_Athamap_rc_shift12 (E2Fa:E2Fa:Athamap_rc) |
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0.985 |
0.716 |
0.441 |
0.954 |
0.983 |
2 |
2 |
13 |
1 |
1 |
3.800 |
1 |
; dyads_test_vs_ctrl_m1 versus E2Fa_E2Fa_Athamap_rc (E2Fa:E2Fa:Athamap_rc); m=1/15; ncol2=8; w=8; offset=2; strand=R; shift=12; score= 3.8; ------------GCGGGAAw-
; cor=0.985; Ncor=0.716; logoDP=0.441; NsEucl=0.954; NSW=0.983; rcor=2; rNcor=2; rlogoDP=13; rNsEucl=1; rNSW=1; rank_mean=3.800; match_rank=1
a 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 3 3 2 0
c 0 0 0 0 0 0 0 0 0 0 0 0 0 3 0 0 0 0 0 0 0
g 0 0 0 0 0 0 0 0 0 0 0 0 3 0 3 3 3 0 0 0 0
t 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1 0
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| E2Fb_E2Fb_Athamap_rc_shift12 (E2Fb:E2Fb:Athamap_rc) |
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0.985 |
0.716 |
0.441 |
0.953 |
0.982 |
1 |
1 |
13 |
2 |
2 |
3.800 |
2 |
; dyads_test_vs_ctrl_m1 versus E2Fb_E2Fb_Athamap_rc (E2Fb:E2Fb:Athamap_rc); m=2/15; ncol2=8; w=8; offset=2; strand=R; shift=12; score= 3.8; ------------GCGGGAAW-
; cor=0.985; Ncor=0.716; logoDP=0.441; NsEucl=0.953; NSW=0.982; rcor=1; rNcor=1; rlogoDP=13; rNsEucl=2; rNSW=2; rank_mean=3.800; match_rank=2
a 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 4 4 3 0
c 0 0 0 0 0 0 0 0 0 0 0 0 0 4 0 0 0 0 0 0 0
g 0 0 0 0 0 0 0 0 0 0 0 0 4 0 4 4 4 0 0 0 0
t 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1 0
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| DEL1.ampDAP_M0365_AthalianaCistrome_shift6 (DEL1.ampDAP:M0365:AthalianaCistrome) |
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0.916 |
0.672 |
8.783 |
0.924 |
0.936 |
6 |
3 |
2 |
6 |
6 |
4.600 |
3 |
; dyads_test_vs_ctrl_m1 versus DEL1.ampDAP_M0365_AthalianaCistrome (DEL1.ampDAP:M0365:AthalianaCistrome); m=3/15; ncol2=15; w=11; offset=-4; strand=D; shift=6; score= 4.6; ------tTTTTGGCGGGAAAA
; cor=0.916; Ncor=0.672; logoDP=8.783; NsEucl=0.924; NSW=0.936; rcor=6; rNcor=3; rlogoDP=2; rNsEucl=6; rNSW=6; rank_mean=4.600; match_rank=3
a 0 0 0 0 0 0 136 64 16 9 10 5 2 1 0 0 10 581 584 541 419
c 0 0 0 0 0 0 6 2 0 0 1 4 0 583 0 11 3 0 0 5 33
g 0 0 0 0 0 0 125 12 0 1 3 571 582 0 583 572 569 3 0 9 16
t 0 0 0 0 0 0 317 506 568 574 570 4 0 0 1 1 2 0 0 29 116
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