One-to-n alignments
Command: compare-matrices -v 1 -mode matches -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2025/11/26/peak-motifs.2025-11-26.204716_2025-11-26.204716_g9CRAo/results/discovered_motifs/peak-motifs_motifs_discovered.tf -format2 tf -file2 $RSAT/public_html/motif_databases/DMMPMM_drosophila/idmmpmm_PCM.tf -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/2025/11/26/peak-motifs.2025-11-26.204716_2025-11-26.204716_g9CRAo/results/discovered_vs_db/peak-motifs_motifs_vs_db_IDMMPMM_drosophila.tab
One-to-n matrix alignment; reference matrix: oligos_6nt_mkv4_m6_shift0 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_6nt_mkv4_m6_shift0 (oligos_6nt_mkv4_m6) |
 |
|
|
; oligos_6nt_mkv4_m6; m=0 (reference); ncol1=12; shift=0; ncol=12; yyCTTATCagym
; Alignment reference
a 258 185 81 30 34 1157 9 27 667 140 266 331
c 411 359 1020 64 33 44 19 1173 127 207 383 328
g 231 277 65 39 16 8 37 9 266 679 226 283
t 339 418 73 1106 1156 30 1174 30 179 213 364 297
|
| srp_rc_shift1 (srp_rc) |
 |
|
|
; oligos_6nt_mkv4_m6 versus srp_rc; m=1/1; ncol2=9; w=0; offset=1; strand=R; shift=1; score=0.634094; -yvYTATCgm--
; cor=; Ncor=
a 0 0.5625 10.6875 0 0 31.5 0 0 6.75 14.0625 0 0
c 0 11.8125 14.625 9.5625 0 0 0 36 0 18 0 0
g 0 6.1875 10.6875 0 0 0 0 0 21.375 2.25 0 0
t 0 17.4375 0 26.4375 36 4.5 36 0 7.875 1.6875 0 0
|
One-to-n matrix alignment; reference matrix: oligos_7nt_mkv5_m1_shift3 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_7nt_mkv5_m1_shift3 (oligos_7nt_mkv5_m1) |
 |
|
|
; oligos_7nt_mkv5_m1; m=0 (reference); ncol1=11; shift=3; ncol=14; ---maAACACAAmm
; Alignment reference
a 0 0 0 623 573 1802 1747 96 1720 81 1680 1767 555 640
c 0 0 0 544 437 1 22 1609 67 1586 57 20 518 599
g 0 0 0 384 449 28 54 61 58 114 51 39 350 326
t 0 0 0 329 421 49 57 114 35 99 92 54 457 315
|
| slp1_rc_shift0 (slp1_rc) |
 |
|
|
; oligos_7nt_mkv5_m1 versus slp1_rc; m=1/1; ncol2=13; w=-3; offset=-3; strand=R; shift=0; score=0.539029; ATGTmAACAmacc-
; cor=; Ncor=
a 98.0004 3.80198 21.3479 26.4096 79.3423 138.449 138.733 6.4804 140.242 44.364 96.3207 23.9241 26.6933 0
c 5.11849 21.8926 7.865 8.63675 62.6136 3.5069 2.65571 126.827 0.28373 79.7509 8.81833 84.8921 76.8114 0
g 23.141 13.4715 110.938 0.28373 0.760397 0.760397 1.04413 0.760397 1.23706 4.64183 17.1033 21.8359 28.4865 0
t 16.7401 103.834 2.84865 107.67 0.28373 0.28373 0.56746 8.93183 1.23706 14.2433 20.7577 12.3479 11.0087 0
|
One-to-n matrix alignment; reference matrix: dyads_m4_shift3 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| dyads_m4_shift3 (dyads_m4) |
 |
|
|
; dyads_m4; m=0 (reference); ncol1=13; shift=3; ncol=16; ---camACACACrCaC
; Alignment reference
a 0 0 0 692 1932 1963 3124 46 3190 60 3155 31 986 38 2067 370
c 0 0 0 1862 667 1096 52 3156 14 3160 33 3190 50 3147 251 2240
g 0 0 0 346 403 68 60 25 53 18 45 21 2134 51 608 304
t 0 0 0 369 267 142 33 42 12 31 36 27 99 33 343 355
|
| slp1_rc_shift0 (slp1_rc) |
|
|
|
; dyads_m4 versus slp1_rc; m=1/1; ncol2=13; w=-3; offset=-3; strand=R; shift=0; score=0.481742; ATGTmAACAmacc---
; cor=; Ncor=
a 98.0004 3.80198 21.3479 26.4096 79.3423 138.449 138.733 6.4804 140.242 44.364 96.3207 23.9241 26.6933 0 0 0
c 5.11849 21.8926 7.865 8.63675 62.6136 3.5069 2.65571 126.827 0.28373 79.7509 8.81833 84.8921 76.8114 0 0 0
g 23.141 13.4715 110.938 0.28373 0.760397 0.760397 1.04413 0.760397 1.23706 4.64183 17.1033 21.8359 28.4865 0 0 0
t 16.7401 103.834 2.84865 107.67 0.28373 0.28373 0.56746 8.93183 1.23706 14.2433 20.7577 12.3479 11.0087 0 0 0
|
One-to-n matrix alignment; reference matrix: dyads_m6_shift3 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| dyads_m6_shift3 (dyads_m6) |
 |
|
|
; dyads_m6; m=0 (reference); ncol1=13; shift=3; ncol=16; ---camACACACAyac
; Alignment reference
a 0 0 0 641 1787 1910 2920 40 2982 31 2973 30 2915 148 1847 393
c 0 0 0 1706 619 936 41 2945 17 2942 28 2937 41 987 432 1939
g 0 0 0 346 362 48 33 15 30 21 19 24 30 98 415 351
t 0 0 0 345 270 144 44 38 9 44 18 47 52 1805 344 355
|
| slp1_rc_shift0 (slp1_rc) |
|
|
|
; dyads_m6 versus slp1_rc; m=1/1; ncol2=13; w=-3; offset=-3; strand=R; shift=0; score=0.465681; ATGTmAACAmacc---
; cor=; Ncor=
a 98.0004 3.80198 21.3479 26.4096 79.3423 138.449 138.733 6.4804 140.242 44.364 96.3207 23.9241 26.6933 0 0 0
c 5.11849 21.8926 7.865 8.63675 62.6136 3.5069 2.65571 126.827 0.28373 79.7509 8.81833 84.8921 76.8114 0 0 0
g 23.141 13.4715 110.938 0.28373 0.760397 0.760397 1.04413 0.760397 1.23706 4.64183 17.1033 21.8359 28.4865 0 0 0
t 16.7401 103.834 2.84865 107.67 0.28373 0.28373 0.56746 8.93183 1.23706 14.2433 20.7577 12.3479 11.0087 0 0 0
|
One-to-n matrix alignment; reference matrix: dyads_m9_shift3 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| dyads_m9_shift3 (dyads_m9) |
 |
|
|
; dyads_m9; m=0 (reference); ncol1=14; shift=3; ncol=17; ---caAACACACACmca
; Alignment reference
a 0 0 0 665 1337 1976 2446 92 2530 67 2498 59 2477 62 891 527 1266
c 0 0 0 1305 637 478 94 2450 56 2487 87 2538 99 2482 1505 1329 555
g 0 0 0 367 345 63 67 43 57 48 47 32 30 70 152 464 441
t 0 0 0 356 374 176 86 108 50 91 61 64 87 79 145 373 431
|
| slp1_rc_shift0 (slp1_rc) |
|
|
|
; dyads_m9 versus slp1_rc; m=1/1; ncol2=13; w=-3; offset=-3; strand=R; shift=0; score=0.450568; ATGTmAACAmacc----
; cor=; Ncor=
a 98.0004 3.80198 21.3479 26.4096 79.3423 138.449 138.733 6.4804 140.242 44.364 96.3207 23.9241 26.6933 0 0 0 0
c 5.11849 21.8926 7.865 8.63675 62.6136 3.5069 2.65571 126.827 0.28373 79.7509 8.81833 84.8921 76.8114 0 0 0 0
g 23.141 13.4715 110.938 0.28373 0.760397 0.760397 1.04413 0.760397 1.23706 4.64183 17.1033 21.8359 28.4865 0 0 0 0
t 16.7401 103.834 2.84865 107.67 0.28373 0.28373 0.56746 8.93183 1.23706 14.2433 20.7577 12.3479 11.0087 0 0 0 0
|
One-to-n matrix alignment; reference matrix: dyads_m7_shift3 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| dyads_m7_shift3 (dyads_m7) |
 |
|
|
; dyads_m7; m=0 (reference); ncol1=15; shift=3; ncol=18; ---camACACACACrCac
; Alignment reference
a 0 0 0 746 2162 2054 3563 103 3664 76 3641 88 3518 93 1154 127 2089 496
c 0 0 0 2128 728 1297 97 3543 51 3629 30 3616 79 3585 176 3437 446 2402
g 0 0 0 453 495 139 100 64 94 52 113 38 139 81 2268 151 757 435
t 0 0 0 523 465 360 90 140 41 93 66 108 114 91 252 135 558 517
|
| slp1_rc_shift0 (slp1_rc) |
|
|
|
; dyads_m7 versus slp1_rc; m=1/1; ncol2=13; w=-3; offset=-3; strand=R; shift=0; score=0.407191; ATGTmAACAmacc-----
; cor=; Ncor=
a 98.0004 3.80198 21.3479 26.4096 79.3423 138.449 138.733 6.4804 140.242 44.364 96.3207 23.9241 26.6933 0 0 0 0 0
c 5.11849 21.8926 7.865 8.63675 62.6136 3.5069 2.65571 126.827 0.28373 79.7509 8.81833 84.8921 76.8114 0 0 0 0 0
g 23.141 13.4715 110.938 0.28373 0.760397 0.760397 1.04413 0.760397 1.23706 4.64183 17.1033 21.8359 28.4865 0 0 0 0 0
t 16.7401 103.834 2.84865 107.67 0.28373 0.28373 0.56746 8.93183 1.23706 14.2433 20.7577 12.3479 11.0087 0 0 0 0 0
|