One-to-n alignments
Command: compare-matrices -v 1 -mode matches -format1 transfac -file1 Myogenin_Rep1_motifs50/results/discovered_motifs/positions_6nt_m16/peak-motifs_positions_6nt_m16.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/positions_6nt_m16/peak-motifs_positions_6nt_m16_vs_db_jaspar_core_nonredundant_vertebrates
One-to-n matrix alignment; reference matrix: positions_6nt_m16_shift0 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| positions_6nt_m16_shift0 (positions_6nt_m16positions_6nt_m16) |
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|
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; positions_6nt_m16 (positions_6nt_m16positions_6nt_m16); m=0 (reference); ncol1=24; shift=0; ncol=24; tsAGCTGCCACAGCTGgCAGCTgc
; Alignment reference
a 7 4 24 0 0 5 1 1 2 26 0 28 1 0 2 0 2 2 27 1 3 0 6 6
c 7 14 1 1 27 1 2 23 23 1 28 1 3 28 1 0 6 27 0 1 24 3 4 11
g 7 8 4 28 1 1 26 2 1 1 1 0 26 2 0 29 17 1 0 26 2 0 16 7
t 9 4 1 1 2 23 1 4 4 2 1 1 0 0 27 1 5 0 3 2 1 27 4 6
|
| MA1485.1_shift6 (FERD3L) |
 |
|
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; positions_6nt_m16 versus MA1485.1 (FERD3L); m=1/1; ncol2=14; w=14; offset=6; strand=D; shift=6; score=0.410679; ------GyrmCAGCTGTyAC----
; cor=; Ncor=
a 0 0 0 0 0 0 2158.0 450.0 14384.0 15390.0 36.0 29605.0 0.0 3649.0 81.0 0.0 1268.0 103.0 29605.0 0.0 0 0 0 0
c 0 0 0 0 0 0 68.0 20049.0 2443.0 9363.0 29605.0 126.0 841.0 29605.0 129.0 0.0 3878.0 8664.0 809.0 29605.0 0 0 0 0
g 0 0 0 0 0 0 29605.0 348.0 12703.0 3142.0 0.0 118.0 29605.0 471.0 210.0 29605.0 3395.0 5920.0 9815.0 0.0 0 0 0 0
t 0 0 0 0 0 0 225.0 9557.0 74.0 1710.0 0.0 144.0 4691.0 0.0 29605.0 0.0 21065.0 14919.0 958.0 48.0 0 0 0 0
|