One-to-n alignments

Command: compare-matrices  -v 1 -mode matches -format1 transfac -file1 Myogenin_Rep1_motifs50/results/discovered_motifs/oligos_8nt_mkv6_m45/peak-motifs_oligos_8nt_mkv6_m45.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_8nt_mkv6_m45/peak-motifs_oligos_8nt_mkv6_m45_vs_db_jaspar_core_nonredundant_vertebrates

One-to-n matrix alignment; reference matrix: oligos_8nt_mkv6_m45_shift0 ; 4 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_8nt_mkv6_m45_shift0 (oligos_8nt_mkv6_m45oligos_8nt_mkv6_m45)
; oligos_8nt_mkv6_m45 (oligos_8nt_mkv6_m45oligos_8nt_mkv6_m45); m=0 (reference); ncol1=12; shift=0; ncol=12; ssCGCAGGTCss ; Alignment reference a 196 207 8 4 26 921 21 40 43 38 186 144 c 543 426 1263 25 1150 150 108 64 35 1197 451 474 g 387 483 19 1261 80 198 1150 1153 78 33 496 479 t 167 177 3 3 37 24 14 36 1137 25 160 196

MA0522.3_rc_shift1 (TCF3_rc)
; oligos_8nt_mkv6_m45 versus MA0522.3_rc (TCF3_rc); m=1/3; ncol2=11; w=11; offset=1; strand=R; shift=1; score=0.660748; -ssGCAGGTGbs ; cor=; Ncor= a 0 6432.0 7233.0 1237.0 492.0 27539.0 283.0 950.0 375.0 705.0 4528.0 6240.0 c 0 9222.0 8025.0 987.0 28642.0 1339.0 2652.0 1362.0 1574.0 708.0 9432.0 8539.0 g 0 10122.0 8727.0 28742.0 1038.0 2003.0 27199.0 28640.0 396.0 29379.0 9269.0 10212.0 t 0 5485.0 7276.0 295.0 1089.0 380.0 1127.0 309.0 28916.0 469.0 8032.0 6270.0

MA1648.1_rc_shift1 (TCF12(var.2)_rc)
; oligos_8nt_mkv6_m45 versus MA1648.1_rc (TCF12(var.2)_rc); m=2/3; ncol2=11; w=11; offset=1; strand=R; shift=1; score=0.649596; -srGCAGGTGss ; cor=; Ncor= a 0 12248.0 16113.0 3412.0 1047.0 53985.0 662.0 1754.0 1733.0 1887.0 10887.0 12473.0 c 0 20060.0 14293.0 2314.0 55922.0 2625.0 3536.0 3780.0 5607.0 1186.0 18560.0 16996.0 g 0 18154.0 17603.0 55061.0 2088.0 3886.0 55765.0 55598.0 2007.0 57848.0 17594.0 19393.0 t 0 11414.0 13867.0 1089.0 2819.0 1380.0 1913.0 744.0 52529.0 955.0 14835.0 13014.0

MA1536.1_shift4 (NR2C2(var.2))
; oligos_8nt_mkv6_m45 versus MA1536.1 (NR2C2(var.2)); m=3/3; ncol2=8; w=8; offset=4; strand=D; shift=4; score=0.492375; ----rrGGTCRh ; cor=; Ncor= a 0 0 0 0 6236.0 10232.0 0.0 0.0 0.0 0.0 18628.0 5065.0 c 0 0 0 0 3111.0 719.0 236.0 0.0 0.0 18628.0 0.0 4757.0 g 0 0 0 0 6420.0 8395.0 18628.0 18628.0 1588.0 1643.0 6639.0 3684.0 t 0 0 0 0 2861.0 0.0 1341.0 4790.0 18628.0 4406.0 0.0 5122.0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_8nt_mkv6_m45_shift0 (oligos_8nt_mkv6_m45oligos_8nt_mkv6_m45)				; oligos_8nt_mkv6_m45 (oligos_8nt_mkv6_m45oligos_8nt_mkv6_m45); m=0 (reference); ncol1=12; shift=0; ncol=12; ssCGCAGGTCss ; Alignment reference a 196 207 8 4 26 921 21 40 43 38 186 144 c 543 426 1263 25 1150 150 108 64 35 1197 451 474 g 387 483 19 1261 80 198 1150 1153 78 33 496 479 t 167 177 3 3 37 24 14 36 1137 25 160 196
MA0522.3_rc_shift1 (TCF3_rc)				; oligos_8nt_mkv6_m45 versus MA0522.3_rc (TCF3_rc); m=1/3; ncol2=11; w=11; offset=1; strand=R; shift=1; score=0.660748; -ssGCAGGTGbs ; cor=; Ncor= a 0 6432.0 7233.0 1237.0 492.0 27539.0 283.0 950.0 375.0 705.0 4528.0 6240.0 c 0 9222.0 8025.0 987.0 28642.0 1339.0 2652.0 1362.0 1574.0 708.0 9432.0 8539.0 g 0 10122.0 8727.0 28742.0 1038.0 2003.0 27199.0 28640.0 396.0 29379.0 9269.0 10212.0 t 0 5485.0 7276.0 295.0 1089.0 380.0 1127.0 309.0 28916.0 469.0 8032.0 6270.0
MA1648.1_rc_shift1 (TCF12(var.2)_rc)				; oligos_8nt_mkv6_m45 versus MA1648.1_rc (TCF12(var.2)_rc); m=2/3; ncol2=11; w=11; offset=1; strand=R; shift=1; score=0.649596; -srGCAGGTGss ; cor=; Ncor= a 0 12248.0 16113.0 3412.0 1047.0 53985.0 662.0 1754.0 1733.0 1887.0 10887.0 12473.0 c 0 20060.0 14293.0 2314.0 55922.0 2625.0 3536.0 3780.0 5607.0 1186.0 18560.0 16996.0 g 0 18154.0 17603.0 55061.0 2088.0 3886.0 55765.0 55598.0 2007.0 57848.0 17594.0 19393.0 t 0 11414.0 13867.0 1089.0 2819.0 1380.0 1913.0 744.0 52529.0 955.0 14835.0 13014.0
MA1536.1_shift4 (NR2C2(var.2))				; oligos_8nt_mkv6_m45 versus MA1536.1 (NR2C2(var.2)); m=3/3; ncol2=8; w=8; offset=4; strand=D; shift=4; score=0.492375; ----rrGGTCRh ; cor=; Ncor= a 0 0 0 0 6236.0 10232.0 0.0 0.0 0.0 0.0 18628.0 5065.0 c 0 0 0 0 3111.0 719.0 236.0 0.0 0.0 18628.0 0.0 4757.0 g 0 0 0 0 6420.0 8395.0 18628.0 18628.0 1588.0 1643.0 6639.0 3684.0 t 0 0 0 0 2861.0 0.0 1341.0 4790.0 18628.0 4406.0 0.0 5122.0