One-to-n alignments

Command: compare-matrices  -v 1 -mode matches -format1 transfac -file1 Myogenin_Rep1_motifs50/results/discovered_motifs/oligos_8nt_mkv6_m28/peak-motifs_oligos_8nt_mkv6_m28.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_m28/peak-motifs_oligos_8nt_mkv6_m28_vs_db_jaspar_core_nonredundant_vertebrates

One-to-n matrix alignment; reference matrix: oligos_8nt_mkv6_m28_shift4 ; 4 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_8nt_mkv6_m28_shift4 (oligos_8nt_mkv6_m28oligos_8nt_mkv6_m28)
; oligos_8nt_mkv6_m28 (oligos_8nt_mkv6_m28oligos_8nt_mkv6_m28); m=0 (reference); ncol1=12; shift=4; ncol=16; ----ssCGGGTGGCss ; Alignment reference a 0 0 0 0 293 236 20 0 58 41 73 55 72 43 219 277 c 0 0 0 0 943 709 2258 114 186 32 535 192 74 2177 627 621 g 0 0 0 0 745 1112 57 2232 2044 2234 77 2049 2152 96 1270 1155 t 0 0 0 0 365 289 11 0 58 39 1661 50 48 30 230 293

MA1596.1_rc_shift4 (ZNF460_rc)
; oligos_8nt_mkv6_m28 versus MA1596.1_rc (ZNF460_rc); m=1/3; ncol2=16; w=12; offset=0; strand=R; shift=4; score=0.566893; ----CyyGGGAGGCkG ; cor=; Ncor= a 0 0 0 0 64.0 29.0 56.0 40.0 9.0 10.0 1570.0 6.0 11.0 35.0 85.0 29.0 c 0 0 0 0 1147.0 421.0 930.0 27.0 15.0 15.0 17.0 9.0 7.0 1493.0 181.0 47.0 g 0 0 0 0 158.0 175.0 110.0 1533.0 1583.0 1584.0 12.0 1596.0 1588.0 23.0 495.0 1519.0 t 0 0 0 0 243.0 987.0 516.0 12.0 5.0 3.0 13.0 1.0 6.0 61.0 851.0 17.0

MA0751.1_rc_shift0 (ZIC4_rc)
; oligos_8nt_mkv6_m28 versus MA0751.1_rc (ZIC4_rc); m=2/3; ncol2=15; w=11; offset=-4; strand=R; shift=0; score=0.504654; dCrCmrCrGGGGGym- ; cor=; Ncor= a 916.0 1156.0 1454.0 67.0 3488.0 1017.0 69.0 1078.0 11.0 1.0 275.0 147.0 98.0 21.0 1887.0 0 c 363.0 4522.0 599.0 5086.0 1903.0 252.0 4795.0 6.0 0.0 0.0 225.0 121.0 52.0 1553.0 4126.0 0 g 1224.0 452.0 1044.0 18.0 865.0 2279.0 68.0 2222.0 2985.0 2999.0 2757.0 2890.0 2870.0 812.0 934.0 0 t 1083.0 74.0 704.0 258.0 1052.0 24.0 1095.0 24.0 114.0 8.0 614.0 209.0 315.0 3013.0 578.0 0

MA0767.1_shift2 (GCM2)
; oligos_8nt_mkv6_m28 versus MA0767.1 (GCM2); m=3/3; ncol2=10; w=8; offset=-2; strand=D; shift=2; score=0.436739; --bATGCGGGyr---- ; cor=; Ncor= a 0 0 179.0 1320.0 23.0 263.0 84.0 51.0 0.0 1.0 92.0 599.0 0 0 0 0 c 0 0 340.0 77.0 41.0 32.0 1320.0 1.0 0.0 0.0 533.0 140.0 0 0 0 0 g 0 0 375.0 299.0 24.0 1320.0 138.0 1320.0 1320.0 1320.0 91.0 341.0 0 0 0 0 t 0 0 427.0 45.0 1320.0 0.0 127.0 66.0 13.0 0.0 1320.0 240.0 0 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_8nt_mkv6_m28_shift4 (oligos_8nt_mkv6_m28oligos_8nt_mkv6_m28)				; oligos_8nt_mkv6_m28 (oligos_8nt_mkv6_m28oligos_8nt_mkv6_m28); m=0 (reference); ncol1=12; shift=4; ncol=16; ----ssCGGGTGGCss ; Alignment reference a 0 0 0 0 293 236 20 0 58 41 73 55 72 43 219 277 c 0 0 0 0 943 709 2258 114 186 32 535 192 74 2177 627 621 g 0 0 0 0 745 1112 57 2232 2044 2234 77 2049 2152 96 1270 1155 t 0 0 0 0 365 289 11 0 58 39 1661 50 48 30 230 293
MA1596.1_rc_shift4 (ZNF460_rc)				; oligos_8nt_mkv6_m28 versus MA1596.1_rc (ZNF460_rc); m=1/3; ncol2=16; w=12; offset=0; strand=R; shift=4; score=0.566893; ----CyyGGGAGGCkG ; cor=; Ncor= a 0 0 0 0 64.0 29.0 56.0 40.0 9.0 10.0 1570.0 6.0 11.0 35.0 85.0 29.0 c 0 0 0 0 1147.0 421.0 930.0 27.0 15.0 15.0 17.0 9.0 7.0 1493.0 181.0 47.0 g 0 0 0 0 158.0 175.0 110.0 1533.0 1583.0 1584.0 12.0 1596.0 1588.0 23.0 495.0 1519.0 t 0 0 0 0 243.0 987.0 516.0 12.0 5.0 3.0 13.0 1.0 6.0 61.0 851.0 17.0
MA0751.1_rc_shift0 (ZIC4_rc)				; oligos_8nt_mkv6_m28 versus MA0751.1_rc (ZIC4_rc); m=2/3; ncol2=15; w=11; offset=-4; strand=R; shift=0; score=0.504654; dCrCmrCrGGGGGym- ; cor=; Ncor= a 916.0 1156.0 1454.0 67.0 3488.0 1017.0 69.0 1078.0 11.0 1.0 275.0 147.0 98.0 21.0 1887.0 0 c 363.0 4522.0 599.0 5086.0 1903.0 252.0 4795.0 6.0 0.0 0.0 225.0 121.0 52.0 1553.0 4126.0 0 g 1224.0 452.0 1044.0 18.0 865.0 2279.0 68.0 2222.0 2985.0 2999.0 2757.0 2890.0 2870.0 812.0 934.0 0 t 1083.0 74.0 704.0 258.0 1052.0 24.0 1095.0 24.0 114.0 8.0 614.0 209.0 315.0 3013.0 578.0 0
MA0767.1_shift2 (GCM2)				; oligos_8nt_mkv6_m28 versus MA0767.1 (GCM2); m=3/3; ncol2=10; w=8; offset=-2; strand=D; shift=2; score=0.436739; --bATGCGGGyr---- ; cor=; Ncor= a 0 0 179.0 1320.0 23.0 263.0 84.0 51.0 0.0 1.0 92.0 599.0 0 0 0 0 c 0 0 340.0 77.0 41.0 32.0 1320.0 1.0 0.0 0.0 533.0 140.0 0 0 0 0 g 0 0 375.0 299.0 24.0 1320.0 138.0 1320.0 1320.0 1320.0 91.0 341.0 0 0 0 0 t 0 0 427.0 45.0 1320.0 0.0 127.0 66.0 13.0 0.0 1320.0 240.0 0 0 0 0