One-to-n alignments

Command: compare-matrices  -v 1 -mode matches -format1 transfac -file1 Myogenin_Rep1_motifs50/results/discovered_motifs/oligos_6nt_mkv4_m37/peak-motifs_oligos_6nt_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_Rep1_motifs50/results/discovered_motifs/oligos_6nt_mkv4_m37/peak-motifs_oligos_6nt_mkv4_m37_vs_db_jaspar_core_nonredundant_vertebrates

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv4_m37_shift1 ; 5 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_mkv4_m37_shift1 (oligos_6nt_mkv4_m37oligos_6nt_mkv4_m37)
; oligos_6nt_mkv4_m37 (oligos_6nt_mkv4_m37oligos_6nt_mkv4_m37); m=0 (reference); ncol1=11; shift=1; ncol=14; -gsAGAGCAGst-- ; Alignment reference a 0 1070 821 4415 0 4415 0 0 4413 8 852 827 0 0 c 0 1078 1922 0 0 0 0 4412 2 45 1821 819 0 0 g 0 1428 1256 0 4410 0 4415 0 0 4335 1297 1078 0 0 t 0 839 416 0 5 0 0 3 0 27 445 1691 0 0

MA1629.1_shift0 (Zic2)
; oligos_6nt_mkv4_m37 versus MA1629.1 (Zic2); m=1/4; ncol2=14; w=11; offset=-1; strand=D; shift=0; score=0.551026; mkCaCAGCAGGrrg ; cor=; Ncor= a 3145.0 2450.0 1161.0 6888.0 135.0 11074.0 140.0 80.0 10625.0 192.0 96.0 3060.0 3638.0 2333.0 c 3507.0 1755.0 9933.0 1765.0 11476.0 391.0 228.0 11272.0 118.0 133.0 204.0 1476.0 1661.0 2168.0 g 2761.0 3821.0 585.0 829.0 188.0 186.0 11484.0 269.0 735.0 11184.0 11465.0 4911.0 4979.0 5314.0 t 2506.0 3893.0 240.0 2437.0 120.0 268.0 67.0 298.0 441.0 410.0 154.0 2472.0 1641.0 2104.0

MA0816.1_rc_shift5 (Ascl2_rc)
; oligos_6nt_mkv4_m37 versus MA0816.1_rc (Ascl2_rc); m=2/4; ncol2=10; w=7; offset=4; strand=R; shift=5; score=0.418104; -----rrCAGCTGy ; cor=; Ncor= a 0 0 0 0 0 199.0 94.0 2.0 300.0 1.0 18.0 15.0 1.0 1.0 c 0 0 0 0 0 28.0 15.0 300.0 0.0 2.0 300.0 0.0 0.0 172.0 g 0 0 0 0 0 101.0 206.0 1.0 0.0 300.0 23.0 0.0 300.0 41.0 t 0 0 0 0 0 34.0 6.0 0.0 4.0 3.0 7.0 300.0 3.0 128.0

MA1648.1_rc_shift4 (TCF12(var.2)_rc)
; oligos_6nt_mkv4_m37 versus MA1648.1_rc (TCF12(var.2)_rc); m=3/4; ncol2=11; w=8; offset=3; strand=R; shift=4; score=0.409286; ----srGCAGGTGs ; cor=; Ncor= a 0 0 0 0 12248.0 16113.0 3412.0 1047.0 53985.0 662.0 1754.0 1733.0 1887.0 10887.0 c 0 0 0 0 20060.0 14293.0 2314.0 55922.0 2625.0 3536.0 3780.0 5607.0 1186.0 18560.0 g 0 0 0 0 18154.0 17603.0 55061.0 2088.0 3886.0 55765.0 55598.0 2007.0 57848.0 17594.0 t 0 0 0 0 11414.0 13867.0 1089.0 2819.0 1380.0 1913.0 744.0 52529.0 955.0 14835.0

MA0522.3_rc_shift4 (TCF3_rc)
; oligos_6nt_mkv4_m37 versus MA0522.3_rc (TCF3_rc); m=4/4; ncol2=11; w=8; offset=3; strand=R; shift=4; score=0.402421; ----ssGCAGGTGb ; cor=; Ncor= a 0 0 0 0 6432.0 7233.0 1237.0 492.0 27539.0 283.0 950.0 375.0 705.0 4528.0 c 0 0 0 0 9222.0 8025.0 987.0 28642.0 1339.0 2652.0 1362.0 1574.0 708.0 9432.0 g 0 0 0 0 10122.0 8727.0 28742.0 1038.0 2003.0 27199.0 28640.0 396.0 29379.0 9269.0 t 0 0 0 0 5485.0 7276.0 295.0 1089.0 380.0 1127.0 309.0 28916.0 469.0 8032.0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_6nt_mkv4_m37_shift1 (oligos_6nt_mkv4_m37oligos_6nt_mkv4_m37)				; oligos_6nt_mkv4_m37 (oligos_6nt_mkv4_m37oligos_6nt_mkv4_m37); m=0 (reference); ncol1=11; shift=1; ncol=14; -gsAGAGCAGst-- ; Alignment reference a 0 1070 821 4415 0 4415 0 0 4413 8 852 827 0 0 c 0 1078 1922 0 0 0 0 4412 2 45 1821 819 0 0 g 0 1428 1256 0 4410 0 4415 0 0 4335 1297 1078 0 0 t 0 839 416 0 5 0 0 3 0 27 445 1691 0 0
MA1629.1_shift0 (Zic2)				; oligos_6nt_mkv4_m37 versus MA1629.1 (Zic2); m=1/4; ncol2=14; w=11; offset=-1; strand=D; shift=0; score=0.551026; mkCaCAGCAGGrrg ; cor=; Ncor= a 3145.0 2450.0 1161.0 6888.0 135.0 11074.0 140.0 80.0 10625.0 192.0 96.0 3060.0 3638.0 2333.0 c 3507.0 1755.0 9933.0 1765.0 11476.0 391.0 228.0 11272.0 118.0 133.0 204.0 1476.0 1661.0 2168.0 g 2761.0 3821.0 585.0 829.0 188.0 186.0 11484.0 269.0 735.0 11184.0 11465.0 4911.0 4979.0 5314.0 t 2506.0 3893.0 240.0 2437.0 120.0 268.0 67.0 298.0 441.0 410.0 154.0 2472.0 1641.0 2104.0
MA0816.1_rc_shift5 (Ascl2_rc)				; oligos_6nt_mkv4_m37 versus MA0816.1_rc (Ascl2_rc); m=2/4; ncol2=10; w=7; offset=4; strand=R; shift=5; score=0.418104; -----rrCAGCTGy ; cor=; Ncor= a 0 0 0 0 0 199.0 94.0 2.0 300.0 1.0 18.0 15.0 1.0 1.0 c 0 0 0 0 0 28.0 15.0 300.0 0.0 2.0 300.0 0.0 0.0 172.0 g 0 0 0 0 0 101.0 206.0 1.0 0.0 300.0 23.0 0.0 300.0 41.0 t 0 0 0 0 0 34.0 6.0 0.0 4.0 3.0 7.0 300.0 3.0 128.0
MA1648.1_rc_shift4 (TCF12(var.2)_rc)				; oligos_6nt_mkv4_m37 versus MA1648.1_rc (TCF12(var.2)_rc); m=3/4; ncol2=11; w=8; offset=3; strand=R; shift=4; score=0.409286; ----srGCAGGTGs ; cor=; Ncor= a 0 0 0 0 12248.0 16113.0 3412.0 1047.0 53985.0 662.0 1754.0 1733.0 1887.0 10887.0 c 0 0 0 0 20060.0 14293.0 2314.0 55922.0 2625.0 3536.0 3780.0 5607.0 1186.0 18560.0 g 0 0 0 0 18154.0 17603.0 55061.0 2088.0 3886.0 55765.0 55598.0 2007.0 57848.0 17594.0 t 0 0 0 0 11414.0 13867.0 1089.0 2819.0 1380.0 1913.0 744.0 52529.0 955.0 14835.0
MA0522.3_rc_shift4 (TCF3_rc)				; oligos_6nt_mkv4_m37 versus MA0522.3_rc (TCF3_rc); m=4/4; ncol2=11; w=8; offset=3; strand=R; shift=4; score=0.402421; ----ssGCAGGTGb ; cor=; Ncor= a 0 0 0 0 6432.0 7233.0 1237.0 492.0 27539.0 283.0 950.0 375.0 705.0 4528.0 c 0 0 0 0 9222.0 8025.0 987.0 28642.0 1339.0 2652.0 1362.0 1574.0 708.0 9432.0 g 0 0 0 0 10122.0 8727.0 28742.0 1038.0 2003.0 27199.0 28640.0 396.0 29379.0 9269.0 t 0 0 0 0 5485.0 7276.0 295.0 1089.0 380.0 1127.0 309.0 28916.0 469.0 8032.0