One-to-n alignments
Command: compare-matrices -v 1 -mode matches -format1 transfac -file1 Myogenin_Rep2_motifs50/results/discovered_motifs/oligos_7nt_mkv4_m37/peak-motifs_oligos_7nt_mkv4_m37.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_Rep2_motifs50/results/discovered_motifs/oligos_7nt_mkv4_m37/peak-motifs_oligos_7nt_mkv4_m37_vs_db_jaspar_core_nonredundant_vertebrates
One-to-n matrix alignment; reference matrix: oligos_7nt_mkv4_m37_shift4 ; 3 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_7nt_mkv4_m37_shift4 (oligos_7nt_mkv4_m37oligos_7nt_mkv4_m37) |
 |
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; oligos_7nt_mkv4_m37 (oligos_7nt_mkv4_m37oligos_7nt_mkv4_m37); m=0 (reference); ncol1=12; shift=4; ncol=16; ----sgAGGCTGAGss
; Alignment reference
a 0 0 0 0 20 29 157 0 2 2 0 5 161 1 32 36
c 0 0 0 0 46 40 5 4 0 154 7 0 0 8 45 56
g 0 0 0 0 70 75 1 158 160 6 12 157 1 152 63 41
t 0 0 0 0 27 19 0 1 1 1 144 1 1 2 23 30
|
| MA1596.1_rc_shift0 (ZNF460_rc) |
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; oligos_7nt_mkv4_m37 versus MA1596.1_rc (ZNF460_rc); m=1/2; ncol2=16; w=12; offset=-4; strand=R; shift=0; score=0.66473; CyyGGGAGGCkGAGGy
; cor=; Ncor=
a 64.0 29.0 56.0 40.0 9.0 10.0 1570.0 6.0 11.0 35.0 85.0 29.0 1284.0 66.0 114.0 46.0
c 1147.0 421.0 930.0 27.0 15.0 15.0 17.0 9.0 7.0 1493.0 181.0 47.0 83.0 67.0 185.0 1023.0
g 158.0 175.0 110.0 1533.0 1583.0 1584.0 12.0 1596.0 1588.0 23.0 495.0 1519.0 218.0 1460.0 1264.0 131.0
t 243.0 987.0 516.0 12.0 5.0 3.0 13.0 1.0 6.0 61.0 851.0 17.0 27.0 19.0 49.0 412.0
|
| MA0496.3_rc_shift5 (MAFK_rc) |
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; oligos_7nt_mkv4_m37 versus MA0496.3_rc (MAFK_rc); m=2/2; ncol2=15; w=11; offset=1; strand=R; shift=5; score=0.489382; -----wwkGCTGAGTC
; cor=; Ncor=
a 0 0 0 0 0 18619.0 14552.0 8204.0 2285.0 4361.0 1910.0 1087.0 46798.0 2544.0 1274.0 2565.0
c 0 0 0 0 0 8541.0 10512.0 4590.0 3327.0 44013.0 1267.0 957.0 1081.0 7573.0 1306.0 46695.0
g 0 0 0 0 0 9756.0 10737.0 14138.0 43458.0 1921.0 882.0 47872.0 1133.0 39125.0 1670.0 1366.0
t 0 0 0 0 0 14818.0 15933.0 24802.0 2664.0 1439.0 47675.0 1818.0 2722.0 2492.0 47484.0 1108.0
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