One-to-n alignments
Command: compare-matrices -v 1 -format transfac -file $RSAT/public_html/tmp/www-data/2025/09/18/peak-motifs.2025-09-18.101200_2025-09-18.101200_0x9V1g/results/discovered_motifs/peak-motifs_motifs_discovered.tf -distinct -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/2025/09/18/peak-motifs.2025-09-18.101200_2025-09-18.101200_0x9V1g/results/discovered_motifs/peak-motifs_motifs_disco_compa.tab
One-to-n matrix alignment; reference matrix: oligos_7nt_test_vs_ctrl_m1_shift0 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_7nt_test_vs_ctrl_m1_shift0 (oligos_7nt_test_vs_ctrl_m1) |
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; oligos_7nt_test_vs_ctrl_m1; m=0 (reference); ncol1=11; shift=0; ncol=11; rwGGTCAGAww
; Alignment reference
a 196 192 31 31 33 57 603 24 547 188 186
c 118 112 14 12 15 577 13 46 35 161 164
g 190 155 586 601 13 15 22 567 51 149 131
t 164 209 37 24 607 19 30 31 35 170 187
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| oligos_7nt_test_vs_ctrl_m1_shift0 (oligos_7nt_test_vs_ctrl_m1) |
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; oligos_7nt_test_vs_ctrl_m1 versus oligos_7nt_test_vs_ctrl_m1; m=1/1; ncol2=11; w=0; offset=0; strand=D; shift=0; score= 1; rwGGTCAGAww
; cor=; Ncor=
a 196 192 31 31 33 57 603 24 547 188 186
c 118 112 14 12 15 577 13 46 35 161 164
g 190 155 586 601 13 15 22 567 51 149 131
t 164 209 37 24 607 19 30 31 35 170 187
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One-to-n matrix alignment; reference matrix: dyads_test_vs_ctrl_m1_shift0 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| dyads_test_vs_ctrl_m1_shift0 (dyads_test_vs_ctrl_m1) |
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; dyads_test_vs_ctrl_m1; m=0 (reference); ncol1=27; shift=0; ncol=27; yvCAGhygtbyckkrcwmCrwgTCAbm
; Alignment reference
a 52 77 10 204 16 69 63 37 35 22 58 18 19 18 77 52 78 74 26 90 69 28 20 11 212 42 72
c 78 70 237 25 18 75 74 64 47 76 72 175 19 16 27 166 63 76 185 62 33 50 18 221 18 67 86
g 64 69 11 26 221 55 39 121 61 78 20 32 89 132 130 25 49 57 25 88 32 137 22 17 17 78 62
t 72 50 8 11 11 67 90 44 123 90 116 41 139 100 32 23 76 59 30 26 132 51 206 17 19 79 46
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| dyads_test_vs_ctrl_m1_shift0 (dyads_test_vs_ctrl_m1) |
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; dyads_test_vs_ctrl_m1 versus dyads_test_vs_ctrl_m1; m=1/1; ncol2=27; w=0; offset=0; strand=D; shift=0; score= 1; yvCAGhygtbyckkrcwmCrwgTCAbm
; cor=; Ncor=
a 52 77 10 204 16 69 63 37 35 22 58 18 19 18 77 52 78 74 26 90 69 28 20 11 212 42 72
c 78 70 237 25 18 75 74 64 47 76 72 175 19 16 27 166 63 76 185 62 33 50 18 221 18 67 86
g 64 69 11 26 221 55 39 121 61 78 20 32 89 132 130 25 49 57 25 88 32 137 22 17 17 78 62
t 72 50 8 11 11 67 90 44 123 90 116 41 139 100 32 23 76 59 30 26 132 51 206 17 19 79 46
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One-to-n matrix alignment; reference matrix: oligos_6nt_test_vs_ctrl_m1_shift0 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_6nt_test_vs_ctrl_m1_shift0 (oligos_6nt_test_vs_ctrl_m1) |
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; oligos_6nt_test_vs_ctrl_m1; m=0 (reference); ncol1=10; shift=0; ncol=10; ssCCCCCCss
; Alignment reference
a 101 99 7 3 9 7 5 0 96 102
c 256 167 579 568 523 528 549 578 165 211
g 154 234 27 41 76 78 55 35 231 210
t 104 115 2 3 7 2 6 2 123 92
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| oligos_6nt_test_vs_ctrl_m1_shift0 (oligos_6nt_test_vs_ctrl_m1) |
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; oligos_6nt_test_vs_ctrl_m1 versus oligos_6nt_test_vs_ctrl_m1; m=1/1; ncol2=10; w=0; offset=0; strand=D; shift=0; score= 1; ssCCCCCCss
; cor=; Ncor=
a 101 99 7 3 9 7 5 0 96 102
c 256 167 579 568 523 528 549 578 165 211
g 154 234 27 41 76 78 55 35 231 210
t 104 115 2 3 7 2 6 2 123 92
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