One-to-n alignments
Command: compare-matrices -v 1 -mode matches -format1 transfac -file1 Myogenin_Rep1_motifs50/results/discovered_motifs/oligos_6nt_mkv4_m17/peak-motifs_oligos_6nt_mkv4_m17.tf -format2 tf -file2 $RSAT/public_html/motif_databases/JASPAR/Jaspar_2020/nonredundant/JASPAR2020_CORE_vertebrates_non-redundant_pfms.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 Myogenin_Rep1_motifs50/results/discovered_motifs/oligos_6nt_mkv4_m17/peak-motifs_oligos_6nt_mkv4_m17_vs_db_jaspar_core_nonredundant_vertebrates
One-to-n matrix alignment; reference matrix: oligos_6nt_mkv4_m17_shift4 ; 3 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_6nt_mkv4_m17_shift4 (oligos_6nt_mkv4_m17oligos_6nt_mkv4_m17) |
 |
|
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; oligos_6nt_mkv4_m17 (oligos_6nt_mkv4_m17oligos_6nt_mkv4_m17); m=0 (reference); ncol1=11; shift=4; ncol=15; ----ssCGCCTCSss
; Alignment reference
a 0 0 0 0 275 317 0 0 22 14 8 0 67 212 336
c 0 0 0 0 1371 1180 2905 0 2836 2484 57 2905 763 1290 994
g 0 0 0 0 879 1067 0 2905 25 394 508 0 1993 1119 1254
t 0 0 0 0 380 341 0 0 22 13 2332 0 82 284 321
|
| MA0814.2_rc_shift4 (TFAP2C(var.2)_rc) |
 |
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; oligos_6nt_mkv4_m17 versus MA0814.2_rc (TFAP2C(var.2)_rc); m=1/2; ncol2=14; w=11; offset=0; strand=R; shift=4; score=0.560929; ----sbcGCCTCAGG
; cor=; Ncor=
a 0 0 0 0 14898.0 10705.0 10707.0 3881.0 614.0 464.0 1084.0 1238.0 49003.0 660.0 702.0
c 0 0 0 0 17367.0 18680.0 27373.0 9867.0 57916.0 57995.0 3944.0 55222.0 4910.0 2060.0 2273.0
g 0 0 0 0 16468.0 15252.0 12553.0 42758.0 1575.0 1486.0 4733.0 3036.0 5539.0 57617.0 57108.0
t 0 0 0 0 12086.0 16182.0 10186.0 4313.0 714.0 874.0 51058.0 1323.0 1367.0 482.0 736.0
|
| MA0471.2_rc_shift0 (E2F6_rc) |
 |
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; oligos_6nt_mkv4_m17 versus MA0471.2_rc (E2F6_rc); m=2/2; ncol2=13; w=9; offset=-4; strand=R; shift=0; score=0.44231; syTTCCCGCCyyc--
; cor=; Ncor=
a 5600.0 4163.0 757.0 268.0 296.0 353.0 813.0 2125.0 205.0 453.0 6897.0 5665.0 5369.0 0 0
c 11405.0 12530.0 5021.0 2322.0 31614.0 31973.0 30573.0 693.0 31790.0 29387.0 11562.0 11649.0 12358.0 0 0
g 8477.0 7410.0 1595.0 1171.0 834.0 434.0 539.0 26424.0 837.0 1148.0 5102.0 7405.0 8075.0 0 0
t 7616.0 8995.0 25725.0 29337.0 354.0 338.0 1173.0 3856.0 266.0 2110.0 9537.0 8379.0 7296.0 0 0
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