One-to-n alignments

Command: compare-matrices  -v 1 -mode matches -format1 transfac -file1 Myogenin_Rep3_motifs50/results/discovered_motifs/oligos_6nt_mkv2_m8/peak-motifs_oligos_6nt_mkv2_m8.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_Rep3_motifs50/results/discovered_motifs/oligos_6nt_mkv2_m8/peak-motifs_oligos_6nt_mkv2_m8_vs_db_jaspar_core_nonredundant_vertebrates

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv2_m8_shift6 ; 4 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_mkv2_m8_shift6 (oligos_6nt_mkv2_m8oligos_6nt_mkv2_m8)
; oligos_6nt_mkv2_m8 (oligos_6nt_mkv2_m8oligos_6nt_mkv2_m8); m=0 (reference); ncol1=10; shift=6; ncol=16; ------rtGAGAAAha ; Alignment reference a 0 0 0 0 0 0 101 13 0 154 0 154 154 154 43 85 c 0 0 0 0 0 0 3 32 0 0 0 0 0 0 52 30 g 0 0 0 0 0 0 44 11 154 0 154 0 0 0 5 34 t 0 0 0 0 0 0 6 98 0 0 0 0 0 0 54 5

MA0508.3_rc_shift6 (PRDM1_rc)
; oligos_6nt_mkv2_m8 versus MA0508.3_rc (PRDM1_rc); m=1/3; ncol2=11; w=10; offset=0; strand=R; shift=6; score=0.739412; ------raGAGAAAGw ; cor=; Ncor= a 0 0 0 0 0 0 19978.0 27294.0 660.0 49466.0 432.0 52619.0 50943.0 52905.0 829.0 17272.0 c 0 0 0 0 0 0 7861.0 4098.0 290.0 1390.0 207.0 561.0 1011.0 826.0 701.0 8768.0 g 0 0 0 0 0 0 17518.0 13567.0 52821.0 1076.0 53465.0 488.0 1346.0 467.0 52752.0 12288.0 t 0 0 0 0 0 0 10124.0 10522.0 1710.0 3549.0 1377.0 1813.0 2181.0 1283.0 1199.0 17153.0

MA1647.1_rc_shift8 (PRDM4_rc)
; oligos_6nt_mkv2_m8 versus MA1647.1_rc (PRDM4_rc); m=2/3; ncol2=11; w=8; offset=2; strand=R; shift=8; score=0.468279; --------twGAAACA ; cor=; Ncor= a 0 0 0 0 0 0 0 0 1799.0 2962.0 292.0 6811.0 6288.0 6889.0 39.0 5543.0 c 0 0 0 0 0 0 0 0 1344.0 726.0 129.0 111.0 393.0 82.0 6813.0 566.0 g 0 0 0 0 0 0 0 0 1532.0 1456.0 6353.0 138.0 405.0 137.0 110.0 286.0 t 0 0 0 0 0 0 0 0 2580.0 2111.0 481.0 195.0 169.0 147.0 293.0 860.0

MA0520.1_shift0 (Stat6)
; oligos_6nt_mkv2_m8 versus MA0520.1 (Stat6); m=3/3; ncol2=15; w=9; offset=-6; strand=D; shift=0; score=0.415673; swyTTCywsaGAAmy- ; cor=; Ncor= a 257.0 665.0 152.0 0.0 13.0 122.0 70.0 664.0 328.0 1153.0 26.0 1852.0 1849.0 621.0 345.0 0 c 663.0 328.0 566.0 0.0 0.0 1680.0 1204.0 21.0 534.0 3.0 0.0 0.0 0.0 540.0 490.0 0 g 482.0 372.0 436.0 0.0 0.0 0.0 0.0 219.0 898.0 416.0 1796.0 0.0 3.0 398.0 235.0 0 t 450.0 487.0 698.0 1852.0 1839.0 50.0 578.0 948.0 92.0 280.0 30.0 0.0 0.0 293.0 782.0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_6nt_mkv2_m8_shift6 (oligos_6nt_mkv2_m8oligos_6nt_mkv2_m8)				; oligos_6nt_mkv2_m8 (oligos_6nt_mkv2_m8oligos_6nt_mkv2_m8); m=0 (reference); ncol1=10; shift=6; ncol=16; ------rtGAGAAAha ; Alignment reference a 0 0 0 0 0 0 101 13 0 154 0 154 154 154 43 85 c 0 0 0 0 0 0 3 32 0 0 0 0 0 0 52 30 g 0 0 0 0 0 0 44 11 154 0 154 0 0 0 5 34 t 0 0 0 0 0 0 6 98 0 0 0 0 0 0 54 5
MA0508.3_rc_shift6 (PRDM1_rc)				; oligos_6nt_mkv2_m8 versus MA0508.3_rc (PRDM1_rc); m=1/3; ncol2=11; w=10; offset=0; strand=R; shift=6; score=0.739412; ------raGAGAAAGw ; cor=; Ncor= a 0 0 0 0 0 0 19978.0 27294.0 660.0 49466.0 432.0 52619.0 50943.0 52905.0 829.0 17272.0 c 0 0 0 0 0 0 7861.0 4098.0 290.0 1390.0 207.0 561.0 1011.0 826.0 701.0 8768.0 g 0 0 0 0 0 0 17518.0 13567.0 52821.0 1076.0 53465.0 488.0 1346.0 467.0 52752.0 12288.0 t 0 0 0 0 0 0 10124.0 10522.0 1710.0 3549.0 1377.0 1813.0 2181.0 1283.0 1199.0 17153.0
MA1647.1_rc_shift8 (PRDM4_rc)				; oligos_6nt_mkv2_m8 versus MA1647.1_rc (PRDM4_rc); m=2/3; ncol2=11; w=8; offset=2; strand=R; shift=8; score=0.468279; --------twGAAACA ; cor=; Ncor= a 0 0 0 0 0 0 0 0 1799.0 2962.0 292.0 6811.0 6288.0 6889.0 39.0 5543.0 c 0 0 0 0 0 0 0 0 1344.0 726.0 129.0 111.0 393.0 82.0 6813.0 566.0 g 0 0 0 0 0 0 0 0 1532.0 1456.0 6353.0 138.0 405.0 137.0 110.0 286.0 t 0 0 0 0 0 0 0 0 2580.0 2111.0 481.0 195.0 169.0 147.0 293.0 860.0
MA0520.1_shift0 (Stat6)				; oligos_6nt_mkv2_m8 versus MA0520.1 (Stat6); m=3/3; ncol2=15; w=9; offset=-6; strand=D; shift=0; score=0.415673; swyTTCywsaGAAmy- ; cor=; Ncor= a 257.0 665.0 152.0 0.0 13.0 122.0 70.0 664.0 328.0 1153.0 26.0 1852.0 1849.0 621.0 345.0 0 c 663.0 328.0 566.0 0.0 0.0 1680.0 1204.0 21.0 534.0 3.0 0.0 0.0 0.0 540.0 490.0 0 g 482.0 372.0 436.0 0.0 0.0 0.0 0.0 219.0 898.0 416.0 1796.0 0.0 3.0 398.0 235.0 0 t 450.0 487.0 698.0 1852.0 1839.0 50.0 578.0 948.0 92.0 280.0 30.0 0.0 0.0 293.0 782.0 0