One-to-n alignments
Command: compare-matrices -v 1 -mode matches -format1 transfac -file1 Myogenin_Rep1_motifs50/results/discovered_motifs/local_words_6nt_m29/peak-motifs_local_words_6nt_m29.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/local_words_6nt_m29/peak-motifs_local_words_6nt_m29_vs_db_jaspar_core_nonredundant_vertebrates
One-to-n matrix alignment; reference matrix: local_words_6nt_m29_shift0 ; 4 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| local_words_6nt_m29_shift0 (local_words_6nt_m29local_words_6nt_m29) |
 |
|
|
; local_words_6nt_m29 (local_words_6nt_m29local_words_6nt_m29); m=0 (reference); ncol1=24; shift=0; ncol=24; ccrcaGCTGCCACAsCTGyCAcmg
; Alignment reference
a 22 22 31 9 57 5 1 6 4 3 4 75 1 86 1 2 1 0 1 0 81 7 34 14
c 48 41 14 61 9 2 92 4 5 82 87 9 94 2 51 88 0 1 35 86 5 62 26 18
g 20 15 38 15 14 84 1 4 84 6 2 9 0 3 38 1 1 93 4 4 6 15 17 46
t 5 17 12 10 15 4 1 81 2 4 2 2 0 4 5 4 93 1 55 5 3 11 18 17
|
| MA1485.1_shift8 (FERD3L) |
 |
|
|
; local_words_6nt_m29 versus MA1485.1 (FERD3L); m=1/3; ncol2=14; w=14; offset=8; strand=D; shift=8; score=0.469046; --------GyrmCAGCTGTyAC--
; cor=; Ncor=
a 0 0 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
c 0 0 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
g 0 0 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
t 0 0 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
|
| MA1621.1_shift8 (Rbpjl) |
 |
|
|
; local_words_6nt_m29 versus MA1621.1 (Rbpjl); m=2/3; ncol2=14; w=14; offset=8; strand=D; shift=8; score=0.444868; --------svmaCACCTGtsyc--
; cor=; Ncor=
a 0 0 0 0 0 0 0 0 2006.0 2466.0 3369.0 6005.0 139.0 9386.0 84.0 234.0 63.0 102.0 569.0 1539.0 2273.0 2082.0 0 0
c 0 0 0 0 0 0 0 0 2881.0 2427.0 3117.0 1373.0 9273.0 70.0 8533.0 9005.0 144.0 131.0 1718.0 3247.0 2884.0 3003.0 0 0
g 0 0 0 0 0 0 0 0 2476.0 2549.0 1802.0 1492.0 103.0 110.0 672.0 317.0 132.0 9295.0 1581.0 2687.0 1958.0 2281.0 0 0
t 0 0 0 0 0 0 0 0 2289.0 2210.0 1364.0 782.0 137.0 86.0 363.0 96.0 9313.0 124.0 5784.0 2179.0 2537.0 2286.0 0 0
|
| MA0499.2_shift9 (MYOD1) |
 |
|
|
; local_words_6nt_m29 versus MA0499.2 (MYOD1); m=3/3; ncol2=13; w=13; offset=9; strand=D; shift=9; score=0.411687; ---------cwgCACCTGTymy--
; cor=; Ncor=
a 0 0 0 0 0 0 0 0 0 7175.0 9462.0 4549.0 349.0 32281.0 463.0 534.0 241.0 208.0 402.0 1808.0 9462.0 5687.0 0 0
c 0 0 0 0 0 0 0 0 0 11279.0 7103.0 5622.0 33328.0 583.0 25275.0 32504.0 563.0 386.0 2555.0 19052.0 10485.0 11760.0 0 0
g 0 0 0 0 0 0 0 0 0 8118.0 8444.0 21884.0 354.0 849.0 7336.0 932.0 366.0 33468.0 1699.0 4440.0 6202.0 7495.0 0 0
t 0 0 0 0 0 0 0 0 0 7728.0 9291.0 2245.0 269.0 587.0 1226.0 330.0 33130.0 238.0 29644.0 9000.0 8151.0 9358.0 0 0
|