One-to-n alignments

Command: compare-matrices  -v 1 -mode matches -format1 transfac -file1 Myogenin_Rep2_motifs50/results/discovered_motifs/oligos_6nt_mkv3_m30/peak-motifs_oligos_6nt_mkv3_m30.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_Rep2_motifs50/results/discovered_motifs/oligos_6nt_mkv3_m30/peak-motifs_oligos_6nt_mkv3_m30_vs_db_jaspar_core_nonredundant_vertebrates

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv3_m30_shift4 ; 8 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_mkv3_m30_shift4 (oligos_6nt_mkv3_m30oligos_6nt_mkv3_m30)
; oligos_6nt_mkv3_m30 (oligos_6nt_mkv3_m30oligos_6nt_mkv3_m30); m=0 (reference); ncol1=11; shift=4; ncol=17; ----ssCAGGGCAgv-- ; Alignment reference a 0 0 0 0 64 93 4 446 0 0 0 0 446 52 112 0 0 c 0 0 0 0 120 128 433 0 1 1 0 446 0 95 140 0 0 g 0 0 0 0 168 164 6 0 445 445 446 0 0 252 149 0 0 t 0 0 0 0 94 61 3 0 0 0 0 0 0 47 45 0 0

MA0597.1_rc_shift5 (THAP1_rc)
; oligos_6nt_mkv3_m30 versus MA0597.1_rc (THAP1_rc); m=1/7; ncol2=9; w=9; offset=1; strand=R; shift=5; score=0.611034; -----trmKGGCar--- ; cor=; Ncor= a 0 0 0 0 0 32.0 57.0 58.0 4.0 1.0 10.0 42.0 125.0 61.0 0 0 0 c 0 0 0 0 0 17.0 41.0 77.0 1.0 0.0 0.0 137.0 12.0 27.0 0 0 0 g 0 0 0 0 0 34.0 71.0 17.0 136.0 195.0 182.0 0.0 47.0 93.0 0 0 0 t 0 0 0 0 0 116.0 30.0 47.0 58.0 3.0 7.0 20.0 15.0 18.0 0 0 0

MA0738.1_rc_shift5 (HIC2_rc)
; oligos_6nt_mkv3_m30 versus MA0738.1_rc (HIC2_rc); m=2/7; ncol2=9; w=9; offset=1; strand=R; shift=5; score=0.588131; -----rsyKGGCAy--- ; cor=; Ncor= a 0 0 0 0 0 1398.0 684.0 399.0 0.0 59.0 0.0 151.0 4891.0 367.0 0 0 0 c 0 0 0 0 0 1001.0 1237.0 1290.0 0.0 0.0 14.0 4891.0 0.0 2285.0 0 0 0 g 0 0 0 0 0 1732.0 2200.0 710.0 3425.0 4891.0 4891.0 354.0 117.0 394.0 0 0 0 t 0 0 0 0 0 760.0 770.0 2493.0 1466.0 435.0 23.0 494.0 0.0 2606.0 0 0 0

MA0872.1_rc_shift0 (TFAP2A(var.3)_rc)
; oligos_6nt_mkv3_m30 versus MA0872.1_rc (TFAP2A(var.3)_rc); m=3/7; ncol2=13; w=9; offset=-4; strand=R; shift=0; score=0.478635; tGCCCysrGGGCa---- ; cor=; Ncor= a 260.0 0.0 0.0 0.0 53.0 75.0 251.0 650.0 131.0 0.0 0.0 0.0 837.0 0 0 0 0 c 198.0 366.0 1903.0 1911.0 1420.0 538.0 546.0 212.0 95.0 0.0 0.0 1359.0 134.0 0 0 0 0 g 102.0 1099.0 0.0 0.0 66.0 224.0 506.0 524.0 1115.0 1373.0 1368.0 357.0 154.0 0 0 0 0 t 721.0 0.0 0.0 0.0 192.0 556.0 188.0 55.0 48.0 0.0 0.0 0.0 262.0 0 0 0 0

MA0813.1_rc_shift0 (TFAP2B(var.3)_rc)
; oligos_6nt_mkv3_m30 versus MA0813.1_rc (TFAP2B(var.3)_rc); m=4/7; ncol2=13; w=9; offset=-4; strand=R; shift=0; score=0.474079; tGCCCyvrGGGCa---- ; cor=; Ncor= a 226.0 0.0 0.0 0.0 11.0 41.0 384.0 571.0 136.0 0.0 0.0 0.0 751.0 0 0 0 0 c 179.0 163.0 1346.0 1236.0 837.0 367.0 392.0 132.0 22.0 0.0 0.0 1063.0 95.0 0 0 0 0 g 106.0 897.0 0.0 0.0 53.0 200.0 345.0 469.0 774.0 871.0 924.0 329.0 153.0 0 0 0 0 t 650.0 0.0 0.0 0.0 292.0 583.0 147.0 32.0 5.0 0.0 0.0 0.0 306.0 0 0 0 0

MA0815.1_rc_shift0 (TFAP2C(var.3)_rc)
; oligos_6nt_mkv3_m30 versus MA0815.1_rc (TFAP2C(var.3)_rc); m=5/7; ncol2=13; w=9; offset=-4; strand=R; shift=0; score=0.471091; tGCCCysrGGGCa---- ; cor=; Ncor= a 435.0 0.0 0.0 0.0 20.0 73.0 425.0 1217.0 330.0 0.0 0.0 0.0 1466.0 0 0 0 0 c 343.0 519.0 3137.0 3082.0 2359.0 984.0 924.0 404.0 95.0 0.0 0.0 2379.0 215.0 0 0 0 0 g 174.0 2128.0 0.0 0.0 110.0 362.0 913.0 1001.0 2073.0 2408.0 2496.0 659.0 350.0 0 0 0 0 t 1282.0 0.0 0.0 0.0 380.0 1013.0 365.0 89.0 17.0 0.0 0.0 0.0 532.0 0 0 0 0

MA1597.1_shift4 (ZNF528)
; oligos_6nt_mkv3_m30 versus MA1597.1 (ZNF528); m=6/7; ncol2=17; w=11; offset=0; strand=D; shift=4; score=0.467824; ----cccAGGGAAGcCA ; cor=; Ncor= a 0 0 0 0 84.0 69.0 100.0 524.0 32.0 7.0 22.0 608.0 579.0 5.0 35.0 15.0 606.0 c 0 0 0 0 380.0 367.0 404.0 12.0 3.0 5.0 2.0 3.0 4.0 1.0 414.0 590.0 2.0 g 0 0 0 0 66.0 87.0 64.0 61.0 573.0 598.0 590.0 3.0 26.0 608.0 54.0 3.0 7.0 t 0 0 0 0 86.0 93.0 48.0 19.0 8.0 6.0 2.0 2.0 7.0 2.0 113.0 8.0 1.0

MA0524.2_shift1 (TFAP2C)
; oligos_6nt_mkv3_m30 versus MA0524.2 (TFAP2C); m=7/7; ncol2=12; w=9; offset=-3; strand=D; shift=1; score=0.451581; -tGCCyyrrGGCa---- ; cor=; Ncor= a 0 1289.0 878.0 70.0 24.0 37.0 516.0 2405.0 2216.0 163.0 111.0 254.0 3485.0 0 0 0 0 c 0 1427.0 1693.0 5834.0 5834.0 3594.0 2124.0 1450.0 341.0 12.0 742.0 5834.0 389.0 0 0 0 0 g 0 308.0 5834.0 621.0 9.0 384.0 1327.0 1702.0 3261.0 5834.0 5834.0 1172.0 1035.0 0 0 0 0 t 0 2810.0 139.0 51.0 121.0 1820.0 1867.0 277.0 17.0 16.0 37.0 599.0 925.0 0 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_6nt_mkv3_m30_shift4 (oligos_6nt_mkv3_m30oligos_6nt_mkv3_m30)				; oligos_6nt_mkv3_m30 (oligos_6nt_mkv3_m30oligos_6nt_mkv3_m30); m=0 (reference); ncol1=11; shift=4; ncol=17; ----ssCAGGGCAgv-- ; Alignment reference a 0 0 0 0 64 93 4 446 0 0 0 0 446 52 112 0 0 c 0 0 0 0 120 128 433 0 1 1 0 446 0 95 140 0 0 g 0 0 0 0 168 164 6 0 445 445 446 0 0 252 149 0 0 t 0 0 0 0 94 61 3 0 0 0 0 0 0 47 45 0 0
MA0597.1_rc_shift5 (THAP1_rc)				; oligos_6nt_mkv3_m30 versus MA0597.1_rc (THAP1_rc); m=1/7; ncol2=9; w=9; offset=1; strand=R; shift=5; score=0.611034; -----trmKGGCar--- ; cor=; Ncor= a 0 0 0 0 0 32.0 57.0 58.0 4.0 1.0 10.0 42.0 125.0 61.0 0 0 0 c 0 0 0 0 0 17.0 41.0 77.0 1.0 0.0 0.0 137.0 12.0 27.0 0 0 0 g 0 0 0 0 0 34.0 71.0 17.0 136.0 195.0 182.0 0.0 47.0 93.0 0 0 0 t 0 0 0 0 0 116.0 30.0 47.0 58.0 3.0 7.0 20.0 15.0 18.0 0 0 0
MA0738.1_rc_shift5 (HIC2_rc)				; oligos_6nt_mkv3_m30 versus MA0738.1_rc (HIC2_rc); m=2/7; ncol2=9; w=9; offset=1; strand=R; shift=5; score=0.588131; -----rsyKGGCAy--- ; cor=; Ncor= a 0 0 0 0 0 1398.0 684.0 399.0 0.0 59.0 0.0 151.0 4891.0 367.0 0 0 0 c 0 0 0 0 0 1001.0 1237.0 1290.0 0.0 0.0 14.0 4891.0 0.0 2285.0 0 0 0 g 0 0 0 0 0 1732.0 2200.0 710.0 3425.0 4891.0 4891.0 354.0 117.0 394.0 0 0 0 t 0 0 0 0 0 760.0 770.0 2493.0 1466.0 435.0 23.0 494.0 0.0 2606.0 0 0 0
MA0872.1_rc_shift0 (TFAP2A(var.3)_rc)				; oligos_6nt_mkv3_m30 versus MA0872.1_rc (TFAP2A(var.3)_rc); m=3/7; ncol2=13; w=9; offset=-4; strand=R; shift=0; score=0.478635; tGCCCysrGGGCa---- ; cor=; Ncor= a 260.0 0.0 0.0 0.0 53.0 75.0 251.0 650.0 131.0 0.0 0.0 0.0 837.0 0 0 0 0 c 198.0 366.0 1903.0 1911.0 1420.0 538.0 546.0 212.0 95.0 0.0 0.0 1359.0 134.0 0 0 0 0 g 102.0 1099.0 0.0 0.0 66.0 224.0 506.0 524.0 1115.0 1373.0 1368.0 357.0 154.0 0 0 0 0 t 721.0 0.0 0.0 0.0 192.0 556.0 188.0 55.0 48.0 0.0 0.0 0.0 262.0 0 0 0 0
MA0813.1_rc_shift0 (TFAP2B(var.3)_rc)				; oligos_6nt_mkv3_m30 versus MA0813.1_rc (TFAP2B(var.3)_rc); m=4/7; ncol2=13; w=9; offset=-4; strand=R; shift=0; score=0.474079; tGCCCyvrGGGCa---- ; cor=; Ncor= a 226.0 0.0 0.0 0.0 11.0 41.0 384.0 571.0 136.0 0.0 0.0 0.0 751.0 0 0 0 0 c 179.0 163.0 1346.0 1236.0 837.0 367.0 392.0 132.0 22.0 0.0 0.0 1063.0 95.0 0 0 0 0 g 106.0 897.0 0.0 0.0 53.0 200.0 345.0 469.0 774.0 871.0 924.0 329.0 153.0 0 0 0 0 t 650.0 0.0 0.0 0.0 292.0 583.0 147.0 32.0 5.0 0.0 0.0 0.0 306.0 0 0 0 0
MA0815.1_rc_shift0 (TFAP2C(var.3)_rc)				; oligos_6nt_mkv3_m30 versus MA0815.1_rc (TFAP2C(var.3)_rc); m=5/7; ncol2=13; w=9; offset=-4; strand=R; shift=0; score=0.471091; tGCCCysrGGGCa---- ; cor=; Ncor= a 435.0 0.0 0.0 0.0 20.0 73.0 425.0 1217.0 330.0 0.0 0.0 0.0 1466.0 0 0 0 0 c 343.0 519.0 3137.0 3082.0 2359.0 984.0 924.0 404.0 95.0 0.0 0.0 2379.0 215.0 0 0 0 0 g 174.0 2128.0 0.0 0.0 110.0 362.0 913.0 1001.0 2073.0 2408.0 2496.0 659.0 350.0 0 0 0 0 t 1282.0 0.0 0.0 0.0 380.0 1013.0 365.0 89.0 17.0 0.0 0.0 0.0 532.0 0 0 0 0
MA1597.1_shift4 (ZNF528)				; oligos_6nt_mkv3_m30 versus MA1597.1 (ZNF528); m=6/7; ncol2=17; w=11; offset=0; strand=D; shift=4; score=0.467824; ----cccAGGGAAGcCA ; cor=; Ncor= a 0 0 0 0 84.0 69.0 100.0 524.0 32.0 7.0 22.0 608.0 579.0 5.0 35.0 15.0 606.0 c 0 0 0 0 380.0 367.0 404.0 12.0 3.0 5.0 2.0 3.0 4.0 1.0 414.0 590.0 2.0 g 0 0 0 0 66.0 87.0 64.0 61.0 573.0 598.0 590.0 3.0 26.0 608.0 54.0 3.0 7.0 t 0 0 0 0 86.0 93.0 48.0 19.0 8.0 6.0 2.0 2.0 7.0 2.0 113.0 8.0 1.0
MA0524.2_shift1 (TFAP2C)				; oligos_6nt_mkv3_m30 versus MA0524.2 (TFAP2C); m=7/7; ncol2=12; w=9; offset=-3; strand=D; shift=1; score=0.451581; -tGCCyyrrGGCa---- ; cor=; Ncor= a 0 1289.0 878.0 70.0 24.0 37.0 516.0 2405.0 2216.0 163.0 111.0 254.0 3485.0 0 0 0 0 c 0 1427.0 1693.0 5834.0 5834.0 3594.0 2124.0 1450.0 341.0 12.0 742.0 5834.0 389.0 0 0 0 0 g 0 308.0 5834.0 621.0 9.0 384.0 1327.0 1702.0 3261.0 5834.0 5834.0 1172.0 1035.0 0 0 0 0 t 0 2810.0 139.0 51.0 121.0 1820.0 1867.0 277.0 17.0 16.0 37.0 599.0 925.0 0 0 0 0