One-to-n alignments
Command: compare-matrices -v 1 -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2019/07/04/compare-matrices_2019-07-04.170509_YymWTg/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/2019/07/04/compare-matrices_2019-07-04.170509_YymWTg/compare-matrices.tab
One-to-n matrix alignment; reference matrix: dyads_test_vs_ctrl_m1_shift8 ; 105 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_shift8 (dyads_test_vs_ctrl_m1) |
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; dyads_test_vs_ctrl_m1; m=0 (reference); ncol1=16; shift=8; ncol=24; --------rttGCCACGTGGCaab
; Alignment reference
a 0 0 0 0 0 0 0 0 28 20 18 5 25 3 98 6 8 0 4 2 15 56 38 19
c 0 0 0 0 0 0 0 0 25 21 17 7 72 89 2 84 4 2 6 3 76 11 22 29
g 0 0 0 0 0 0 0 0 29 23 12 75 3 6 2 4 85 1 90 73 6 17 21 26
t 0 0 0 0 0 0 0 0 20 38 55 15 2 4 0 8 5 99 2 24 5 18 21 28
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| HY5_MA0551.1_JASPAR_shift8 (HY5:MA0551.1:JASPAR) |
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0.968 |
0.968 |
7.399 |
0.971 |
0.987 |
3 |
1 |
11 |
1 |
2 |
3.600 |
1 |
; dyads_test_vs_ctrl_m1 versus HY5_MA0551.1_JASPAR (HY5:MA0551.1:JASPAR); m=1/104; ncol2=16; w=16; offset=0; strand=D; shift=8; score= 3.6; --------wwtGmCACGTGkCaww
; cor=0.968; Ncor=0.968; logoDP=7.399; NsEucl=0.971; NSW=0.987; rcor=3; rNcor=1; rlogoDP=11; rNsEucl=1; rNSW=2; rank_mean=3.600; match_rank=1
a 0 0 0 0 0 0 0 0 103 108 52 9 150 0 310 3 1 0 2 4 24 183 94 89
c 0 0 0 0 0 0 0 0 60 56 55 8 165 317 1 311 5 9 1 1 279 30 62 68
g 0 0 0 0 0 0 0 0 68 62 30 279 1 1 9 5 311 1 317 165 8 55 56 60
t 0 0 0 0 0 0 0 0 89 94 183 24 4 2 0 1 3 310 0 150 9 52 108 103
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| PIF3_PIF3_2_Athamap_shift8 (PIF3:PIF3_2:Athamap) |
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0.877 |
0.825 |
8.164 |
0.947 |
0.954 |
30 |
2 |
3 |
8 |
19 |
12.400 |
3 |
; dyads_test_vs_ctrl_m1 versus PIF3_PIF3_2_Athamap (PIF3:PIF3_2:Athamap); m=3/104; ncol2=17; w=16; offset=0; strand=D; shift=8; score= 12.4; --------rdrvCCACGTGGvmvs
; cor=0.877; Ncor=0.825; logoDP=8.164; NsEucl=0.947; NSW=0.954; rcor=30; rNcor=2; rlogoDP=3; rNsEucl=8; rNSW=19; rank_mean=12.400; match_rank=3
a 0 0 0 0 0 0 0 0 15 9 10 8 1 0 32 0 0 0 0 0 9 15 11 7
c 0 0 0 0 0 0 0 0 2 4 2 11 26 32 0 32 0 0 0 0 10 15 13 8
g 0 0 0 0 0 0 0 0 9 10 13 13 5 0 0 0 32 0 32 32 11 0 8 11
t 0 0 0 0 0 0 0 0 6 9 7 0 0 0 0 0 0 32 0 0 2 2 0 6
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| ABI5.DAP_M0201_AthalianaCistrome_shift6 (ABI5.DAP:M0201:AthalianaCistrome) |
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0.838 |
0.745 |
7.274 |
0.941 |
0.944 |
54 |
3 |
15 |
12 |
33 |
23.400 |
13 |
; dyads_test_vs_ctrl_m1 versus ABI5.DAP_M0201_AthalianaCistrome (ABI5.DAP:M0201:AthalianaCistrome); m=13/104; ncol2=18; w=16; offset=-2; strand=D; shift=6; score= 23.4; ------wdrwgrwsACGTGKCarw
; cor=0.838; Ncor=0.745; logoDP=7.274; NsEucl=0.941; NSW=0.944; rcor=54; rNcor=3; rlogoDP=15; rNsEucl=12; rNSW=33; rank_mean=23.400; match_rank=13
a 0 0 0 0 0 0 241 217 224 161 44 157 198 0 595 0 0 0 0 0 27 394 151 190
c 0 0 0 0 0 0 71 59 80 39 19 119 92 289 0 595 0 0 0 0 568 50 124 117
g 0 0 0 0 0 0 131 167 158 98 400 296 0 294 0 0 595 0 595 446 0 123 174 87
t 0 0 0 0 0 0 152 152 133 297 132 23 305 12 0 0 0 595 0 149 0 28 146 201
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