One-to-n alignments

Command: compare-matrices  -v 1 -mode matches -format1 transfac -file1 Myogenin_Rep3_motifs50/results/discovered_motifs/oligos_8nt_mkv2_m14/peak-motifs_oligos_8nt_mkv2_m14.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_8nt_mkv2_m14/peak-motifs_oligos_8nt_mkv2_m14_vs_db_jaspar_core_nonredundant_vertebrates

One-to-n matrix alignment; reference matrix: oligos_8nt_mkv2_m14_shift5 ; 7 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_8nt_mkv2_m14_shift5 (oligos_8nt_mkv2_m14oligos_8nt_mkv2_m14)
; oligos_8nt_mkv2_m14 (oligos_8nt_mkv2_m14oligos_8nt_mkv2_m14); m=0 (reference); ncol1=12; shift=5; ncol=17; -----AwCATGGAAAAT ; Alignment reference a 0 0 0 0 0 68 46 1 74 0 1 0 81 83 73 78 3 c 0 0 0 0 0 1 3 79 0 11 2 0 0 0 0 3 0 g 0 0 0 0 0 14 0 0 9 0 80 83 1 0 0 0 1 t 0 0 0 0 0 0 34 3 0 72 0 0 1 0 10 2 79

MA0606.1_rc_shift7 (NFAT5_rc)
; oligos_8nt_mkv2_m14 versus MA0606.1_rc (NFAT5_rc); m=1/6; ncol2=10; w=10; offset=2; strand=R; shift=7; score=0.731885; -------wrTGGAAAat ; cor=; Ncor= a 0 0 0 0 0 0 0 322.0 548.0 85.0 89.0 85.0 827.0 1000.0 1000.0 649.0 210.0 c 0 0 0 0 0 0 0 248.0 41.0 0.0 85.0 0.0 0.0 0.0 0.0 88.0 210.0 g 0 0 0 0 0 0 0 163.0 287.0 84.0 826.0 915.0 84.0 0.0 0.0 88.0 210.0 t 0 0 0 0 0 0 0 268.0 124.0 831.0 0.0 0.0 89.0 0.0 0.0 176.0 371.0

MA1525.1_shift7 (NFATC4)
; oligos_8nt_mkv2_m14 versus MA1525.1 (NFATC4); m=2/6; ncol2=10; w=10; offset=2; strand=D; shift=7; score=0.714388; -------aryGGAAAmw ; cor=; Ncor= a 0 0 0 0 0 0 0 1652.0 4349.0 95.0 0.0 0.0 4349.0 4349.0 4349.0 4349.0 1132.0 c 0 0 0 0 0 0 0 916.0 329.0 1534.0 0.0 0.0 39.0 0.0 1084.0 3276.0 632.0 g 0 0 0 0 0 0 0 963.0 2369.0 0.0 4349.0 4349.0 0.0 0.0 127.0 1789.0 348.0 t 0 0 0 0 0 0 0 819.0 843.0 2816.0 0.0 0.0 0.0 0.0 259.0 1292.0 2239.0

MA0625.1_rc_shift7 (NFATC3_rc)
; oligos_8nt_mkv2_m14 versus MA0625.1_rc (NFATC3_rc); m=3/6; ncol2=10; w=10; offset=2; strand=R; shift=7; score=0.699815; -------aryGGAAAaw ; cor=; Ncor= a 0 0 0 0 0 0 0 400.0 443.0 67.0 10.0 30.0 966.0 971.0 770.0 472.0 348.0 c 0 0 0 0 0 0 0 173.0 133.0 342.0 23.0 1.0 9.0 5.0 73.0 168.0 139.0 g 0 0 0 0 0 0 0 211.0 251.0 39.0 959.0 933.0 23.0 10.0 40.0 181.0 93.0 t 0 0 0 0 0 0 0 215.0 173.0 552.0 8.0 36.0 3.0 14.0 117.0 179.0 421.0

MA0624.1_rc_shift7 (NFATC1_rc)
; oligos_8nt_mkv2_m14 versus MA0624.1_rc (NFATC1_rc); m=4/6; ncol2=10; w=10; offset=2; strand=R; shift=7; score=0.680928; -------aryGGAAaaw ; cor=; Ncor= a 0 0 0 0 0 0 0 349.0 383.0 83.0 18.0 7.0 935.0 939.0 660.0 392.0 316.0 c 0 0 0 0 0 0 0 194.0 126.0 357.0 5.0 8.0 15.0 7.0 122.0 189.0 167.0 g 0 0 0 0 0 0 0 227.0 262.0 45.0 967.0 971.0 29.0 35.0 60.0 193.0 134.0 t 0 0 0 0 0 0 0 230.0 230.0 516.0 9.0 14.0 21.0 19.0 158.0 226.0 383.0

MA0152.1_rc_shift9 (NFATC2_rc)
; oligos_8nt_mkv2_m14 versus MA0152.1_rc (NFATC2_rc); m=5/6; ncol2=7; w=7; offset=4; strand=R; shift=9; score=0.574822; ---------TGGAAAA- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 4.0 0.0 0.0 26.0 24.0 21.0 20.0 0 c 0 0 0 0 0 0 0 0 0 1.0 0.0 0.0 0.0 0.0 2.0 2.0 0 g 0 0 0 0 0 0 0 0 0 3.0 26.0 25.0 0.0 1.0 2.0 1.0 0 t 0 0 0 0 0 0 0 0 0 18.0 0.0 1.0 0.0 1.0 1.0 3.0 0

MA1616.1_shift0 (Prdm15)
; oligos_8nt_mkv2_m14 versus MA1616.1 (Prdm15); m=6/6; ncol2=15; w=10; offset=-5; strand=D; shift=0; score=0.420579; rrgAAAACCTGGAry-- ; cor=; Ncor= a 638.0 624.0 252.0 2011.0 2121.0 1942.0 1801.0 67.0 222.0 220.0 19.0 64.0 1531.0 687.0 540.0 0 0 c 486.0 329.0 325.0 60.0 34.0 47.0 138.0 1941.0 1886.0 361.0 7.0 23.0 314.0 438.0 635.0 0 0 g 560.0 920.0 1333.0 135.0 58.0 200.0 152.0 101.0 107.0 28.0 2199.0 2126.0 220.0 748.0 460.0 0 0 t 553.0 364.0 327.0 31.0 24.0 48.0 146.0 128.0 22.0 1628.0 12.0 24.0 172.0 364.0 602.0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_8nt_mkv2_m14_shift5 (oligos_8nt_mkv2_m14oligos_8nt_mkv2_m14)				; oligos_8nt_mkv2_m14 (oligos_8nt_mkv2_m14oligos_8nt_mkv2_m14); m=0 (reference); ncol1=12; shift=5; ncol=17; -----AwCATGGAAAAT ; Alignment reference a 0 0 0 0 0 68 46 1 74 0 1 0 81 83 73 78 3 c 0 0 0 0 0 1 3 79 0 11 2 0 0 0 0 3 0 g 0 0 0 0 0 14 0 0 9 0 80 83 1 0 0 0 1 t 0 0 0 0 0 0 34 3 0 72 0 0 1 0 10 2 79
MA0606.1_rc_shift7 (NFAT5_rc)				; oligos_8nt_mkv2_m14 versus MA0606.1_rc (NFAT5_rc); m=1/6; ncol2=10; w=10; offset=2; strand=R; shift=7; score=0.731885; -------wrTGGAAAat ; cor=; Ncor= a 0 0 0 0 0 0 0 322.0 548.0 85.0 89.0 85.0 827.0 1000.0 1000.0 649.0 210.0 c 0 0 0 0 0 0 0 248.0 41.0 0.0 85.0 0.0 0.0 0.0 0.0 88.0 210.0 g 0 0 0 0 0 0 0 163.0 287.0 84.0 826.0 915.0 84.0 0.0 0.0 88.0 210.0 t 0 0 0 0 0 0 0 268.0 124.0 831.0 0.0 0.0 89.0 0.0 0.0 176.0 371.0
MA1525.1_shift7 (NFATC4)				; oligos_8nt_mkv2_m14 versus MA1525.1 (NFATC4); m=2/6; ncol2=10; w=10; offset=2; strand=D; shift=7; score=0.714388; -------aryGGAAAmw ; cor=; Ncor= a 0 0 0 0 0 0 0 1652.0 4349.0 95.0 0.0 0.0 4349.0 4349.0 4349.0 4349.0 1132.0 c 0 0 0 0 0 0 0 916.0 329.0 1534.0 0.0 0.0 39.0 0.0 1084.0 3276.0 632.0 g 0 0 0 0 0 0 0 963.0 2369.0 0.0 4349.0 4349.0 0.0 0.0 127.0 1789.0 348.0 t 0 0 0 0 0 0 0 819.0 843.0 2816.0 0.0 0.0 0.0 0.0 259.0 1292.0 2239.0
MA0625.1_rc_shift7 (NFATC3_rc)				; oligos_8nt_mkv2_m14 versus MA0625.1_rc (NFATC3_rc); m=3/6; ncol2=10; w=10; offset=2; strand=R; shift=7; score=0.699815; -------aryGGAAAaw ; cor=; Ncor= a 0 0 0 0 0 0 0 400.0 443.0 67.0 10.0 30.0 966.0 971.0 770.0 472.0 348.0 c 0 0 0 0 0 0 0 173.0 133.0 342.0 23.0 1.0 9.0 5.0 73.0 168.0 139.0 g 0 0 0 0 0 0 0 211.0 251.0 39.0 959.0 933.0 23.0 10.0 40.0 181.0 93.0 t 0 0 0 0 0 0 0 215.0 173.0 552.0 8.0 36.0 3.0 14.0 117.0 179.0 421.0
MA0624.1_rc_shift7 (NFATC1_rc)				; oligos_8nt_mkv2_m14 versus MA0624.1_rc (NFATC1_rc); m=4/6; ncol2=10; w=10; offset=2; strand=R; shift=7; score=0.680928; -------aryGGAAaaw ; cor=; Ncor= a 0 0 0 0 0 0 0 349.0 383.0 83.0 18.0 7.0 935.0 939.0 660.0 392.0 316.0 c 0 0 0 0 0 0 0 194.0 126.0 357.0 5.0 8.0 15.0 7.0 122.0 189.0 167.0 g 0 0 0 0 0 0 0 227.0 262.0 45.0 967.0 971.0 29.0 35.0 60.0 193.0 134.0 t 0 0 0 0 0 0 0 230.0 230.0 516.0 9.0 14.0 21.0 19.0 158.0 226.0 383.0
MA0152.1_rc_shift9 (NFATC2_rc)				; oligos_8nt_mkv2_m14 versus MA0152.1_rc (NFATC2_rc); m=5/6; ncol2=7; w=7; offset=4; strand=R; shift=9; score=0.574822; ---------TGGAAAA- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 4.0 0.0 0.0 26.0 24.0 21.0 20.0 0 c 0 0 0 0 0 0 0 0 0 1.0 0.0 0.0 0.0 0.0 2.0 2.0 0 g 0 0 0 0 0 0 0 0 0 3.0 26.0 25.0 0.0 1.0 2.0 1.0 0 t 0 0 0 0 0 0 0 0 0 18.0 0.0 1.0 0.0 1.0 1.0 3.0 0
MA1616.1_shift0 (Prdm15)				; oligos_8nt_mkv2_m14 versus MA1616.1 (Prdm15); m=6/6; ncol2=15; w=10; offset=-5; strand=D; shift=0; score=0.420579; rrgAAAACCTGGAry-- ; cor=; Ncor= a 638.0 624.0 252.0 2011.0 2121.0 1942.0 1801.0 67.0 222.0 220.0 19.0 64.0 1531.0 687.0 540.0 0 0 c 486.0 329.0 325.0 60.0 34.0 47.0 138.0 1941.0 1886.0 361.0 7.0 23.0 314.0 438.0 635.0 0 0 g 560.0 920.0 1333.0 135.0 58.0 200.0 152.0 101.0 107.0 28.0 2199.0 2126.0 220.0 748.0 460.0 0 0 t 553.0 364.0 327.0 31.0 24.0 48.0 146.0 128.0 22.0 1628.0 12.0 24.0 172.0 364.0 602.0 0 0