One-to-n alignments

Command: compare-matrices  -v 1 -mode matches -format1 transfac -file1 Myogenin_Rep1_motifs50/results/discovered_motifs/positions_6nt_m20/peak-motifs_positions_6nt_m20.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/positions_6nt_m20/peak-motifs_positions_6nt_m20_vs_db_jaspar_core_nonredundant_vertebrates

One-to-n matrix alignment; reference matrix: positions_6nt_m20_shift7 ; 9 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
positions_6nt_m20_shift7 (positions_6nt_m20positions_6nt_m20)
; positions_6nt_m20 (positions_6nt_m20positions_6nt_m20); m=0 (reference); ncol1=10; shift=7; ncol=17; -------rsAGAAAGsv ; Alignment reference a 0 0 0 0 0 0 0 1090 800 3996 0 3996 3996 3996 0 952 1182 c 0 0 0 0 0 0 0 850 1501 0 0 0 0 0 0 1245 1176 g 0 0 0 0 0 0 0 1273 1271 0 3992 0 0 0 3996 1259 1011 t 0 0 0 0 0 0 0 783 424 0 4 0 0 0 0 540 627

MA0508.3_rc_shift6 (PRDM1_rc)
; positions_6nt_m20 versus MA0508.3_rc (PRDM1_rc); m=1/8; ncol2=11; w=10; offset=-1; strand=R; shift=6; score=0.829478; ------raGAGAAAGwr ; 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 22293.0 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 6638.0 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 17788.0 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 8762.0

MA0764.2_shift7 (ETV4)
; positions_6nt_m20 versus MA0764.2 (ETV4); m=2/8; ncol2=10; w=10; offset=0; strand=D; shift=7; score=0.768573; -------rcAGGAAGyr ; cor=; Ncor= a 0 0 0 0 0 0 0 3119.0 1206.0 8353.0 0.0 1.0 8374.0 8333.0 11.0 1296.0 2336.0 c 0 0 0 0 0 0 0 1494.0 4608.0 61.0 92.0 1.0 0.0 73.0 28.0 2194.0 1597.0 g 0 0 0 0 0 0 0 2721.0 1936.0 0.0 8308.0 8345.0 0.0 0.0 8344.0 1949.0 3055.0 t 0 0 0 0 0 0 0 1080.0 664.0 0.0 14.0 67.0 40.0 8.0 31.0 2975.0 1426.0

MA0867.2_shift7 (SOX4)
; positions_6nt_m20 versus MA0867.2 (SOX4); m=3/8; ncol2=10; w=10; offset=0; strand=D; shift=7; score=0.703799; -------gaACAAwGrv ; cor=; Ncor= a 0 0 0 0 0 0 0 3190.0 5582.0 5582.0 0.0 5582.0 5582.0 5582.0 1018.0 2093.0 1775.0 c 0 0 0 0 0 0 0 1771.0 951.0 0.0 5582.0 1.0 6.0 120.0 64.0 1422.0 1438.0 g 0 0 0 0 0 0 0 5582.0 2047.0 0.0 37.0 6.0 11.0 50.0 5582.0 3489.0 1889.0 t 0 0 0 0 0 0 0 2286.0 431.0 9.0 33.0 0.0 0.0 2719.0 83.0 174.0 480.0

MA0442.2_shift6 (SOX10)
; positions_6nt_m20 versus MA0442.2 (SOX10); m=4/8; ncol2=11; w=10; offset=-1; strand=D; shift=6; score=0.69146; ------rraACAAAGvm ; cor=; Ncor= a 0 0 0 0 0 0 683.0 723.0 1118.0 2023.0 3.0 2029.0 1968.0 1959.0 10.0 666.0 638.0 c 0 0 0 0 0 0 397.0 283.0 372.0 4.0 1989.0 7.0 28.0 23.0 13.0 552.0 555.0 g 0 0 0 0 0 0 527.0 571.0 317.0 3.0 11.0 7.0 20.0 12.0 2012.0 619.0 505.0 t 0 0 0 0 0 0 448.0 478.0 248.0 25.0 52.0 12.0 39.0 61.0 20.0 218.0 357.0

MA0514.1_rc_shift6 (Sox3_rc)
; positions_6nt_m20 versus MA0514.1_rc (Sox3_rc); m=5/8; ncol2=10; w=9; offset=-1; strand=R; shift=6; score=0.595688; ------rrrACAAAGG- ; cor=; Ncor= a 0 0 0 0 0 0 989.0 1173.0 1115.0 2067.0 0.0 2067.0 2067.0 1805.0 515.0 250.0 0 c 0 0 0 0 0 0 382.0 22.0 254.0 0.0 1923.0 0.0 0.0 0.0 0.0 330.0 0 g 0 0 0 0 0 0 654.0 853.0 698.0 0.0 144.0 0.0 0.0 0.0 1552.0 1487.0 0 t 0 0 0 0 0 0 42.0 19.0 0.0 0.0 0.0 0.0 0.0 262.0 0.0 0.0 0

MA1623.1_shift3 (Stat2)
; positions_6nt_m20 versus MA1623.1 (Stat2); m=6/8; ncol2=13; w=9; offset=-4; strand=D; shift=3; score=0.517483; ---rgAAACAGAAAsw- ; cor=; Ncor= a 0 0 0 1605.0 969.0 3554.0 3736.0 3738.0 286.0 3146.0 152.0 3700.0 3747.0 3514.0 740.0 1262.0 0 c 0 0 0 538.0 306.0 76.0 75.0 72.0 2907.0 151.0 45.0 49.0 45.0 147.0 1502.0 758.0 0 g 0 0 0 1125.0 2287.0 168.0 71.0 87.0 524.0 74.0 3707.0 163.0 98.0 157.0 1180.0 591.0 0 t 0 0 0 691.0 397.0 161.0 77.0 62.0 242.0 588.0 55.0 47.0 69.0 141.0 537.0 1348.0 0

MA0731.1_rc_shift0 (BCL6B_rc)
; positions_6nt_m20 versus MA0731.1_rc (BCL6B_rc); m=7/8; ncol2=17; w=10; offset=-7; strand=R; shift=0; score=0.439739; kkAATTCCTAGAAAGCA ; cor=; Ncor= a 0.0 0.0 211.0 215.0 0.0 0.0 0.0 0.0 0.0 214.0 0.0 212.0 213.0 212.0 2.0 1.0 207.0 c 7.0 9.0 0.0 0.0 0.0 2.0 171.0 173.0 0.0 34.0 0.0 2.0 0.0 0.0 0.0 186.0 0.0 g 146.0 243.0 16.0 2.0 0.0 0.0 0.0 0.0 0.0 12.0 384.0 0.0 0.0 0.0 367.0 0.0 19.0 t 183.0 113.0 0.0 0.0 290.0 289.0 0.0 0.0 280.0 0.0 0.0 0.0 0.0 0.0 0.0 3.0 0.0

MA1625.1_shift1 (Stat5b)
; positions_6nt_m20 versus MA1625.1 (Stat5b); m=8/8; ncol2=15; w=9; offset=-6; strand=D; shift=1; score=0.414539; -yawTTCCcAGAArts- ; cor=; Ncor= a 0 614.0 908.0 700.0 51.0 92.0 32.0 74.0 462.0 2474.0 10.0 2554.0 2664.0 901.0 686.0 663.0 0 c 0 762.0 576.0 607.0 54.0 34.0 2666.0 2176.0 1746.0 60.0 16.0 35.0 25.0 615.0 680.0 768.0 0 g 0 682.0 647.0 537.0 51.0 34.0 23.0 43.0 127.0 150.0 2717.0 86.0 50.0 711.0 542.0 729.0 0 t 0 702.0 629.0 916.0 2604.0 2600.0 39.0 467.0 425.0 76.0 17.0 85.0 21.0 533.0 852.0 600.0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
positions_6nt_m20_shift7 (positions_6nt_m20positions_6nt_m20)				; positions_6nt_m20 (positions_6nt_m20positions_6nt_m20); m=0 (reference); ncol1=10; shift=7; ncol=17; -------rsAGAAAGsv ; Alignment reference a 0 0 0 0 0 0 0 1090 800 3996 0 3996 3996 3996 0 952 1182 c 0 0 0 0 0 0 0 850 1501 0 0 0 0 0 0 1245 1176 g 0 0 0 0 0 0 0 1273 1271 0 3992 0 0 0 3996 1259 1011 t 0 0 0 0 0 0 0 783 424 0 4 0 0 0 0 540 627
MA0508.3_rc_shift6 (PRDM1_rc)				; positions_6nt_m20 versus MA0508.3_rc (PRDM1_rc); m=1/8; ncol2=11; w=10; offset=-1; strand=R; shift=6; score=0.829478; ------raGAGAAAGwr ; 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 22293.0 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 6638.0 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 17788.0 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 8762.0
MA0764.2_shift7 (ETV4)				; positions_6nt_m20 versus MA0764.2 (ETV4); m=2/8; ncol2=10; w=10; offset=0; strand=D; shift=7; score=0.768573; -------rcAGGAAGyr ; cor=; Ncor= a 0 0 0 0 0 0 0 3119.0 1206.0 8353.0 0.0 1.0 8374.0 8333.0 11.0 1296.0 2336.0 c 0 0 0 0 0 0 0 1494.0 4608.0 61.0 92.0 1.0 0.0 73.0 28.0 2194.0 1597.0 g 0 0 0 0 0 0 0 2721.0 1936.0 0.0 8308.0 8345.0 0.0 0.0 8344.0 1949.0 3055.0 t 0 0 0 0 0 0 0 1080.0 664.0 0.0 14.0 67.0 40.0 8.0 31.0 2975.0 1426.0
MA0867.2_shift7 (SOX4)				; positions_6nt_m20 versus MA0867.2 (SOX4); m=3/8; ncol2=10; w=10; offset=0; strand=D; shift=7; score=0.703799; -------gaACAAwGrv ; cor=; Ncor= a 0 0 0 0 0 0 0 3190.0 5582.0 5582.0 0.0 5582.0 5582.0 5582.0 1018.0 2093.0 1775.0 c 0 0 0 0 0 0 0 1771.0 951.0 0.0 5582.0 1.0 6.0 120.0 64.0 1422.0 1438.0 g 0 0 0 0 0 0 0 5582.0 2047.0 0.0 37.0 6.0 11.0 50.0 5582.0 3489.0 1889.0 t 0 0 0 0 0 0 0 2286.0 431.0 9.0 33.0 0.0 0.0 2719.0 83.0 174.0 480.0
MA0442.2_shift6 (SOX10)				; positions_6nt_m20 versus MA0442.2 (SOX10); m=4/8; ncol2=11; w=10; offset=-1; strand=D; shift=6; score=0.69146; ------rraACAAAGvm ; cor=; Ncor= a 0 0 0 0 0 0 683.0 723.0 1118.0 2023.0 3.0 2029.0 1968.0 1959.0 10.0 666.0 638.0 c 0 0 0 0 0 0 397.0 283.0 372.0 4.0 1989.0 7.0 28.0 23.0 13.0 552.0 555.0 g 0 0 0 0 0 0 527.0 571.0 317.0 3.0 11.0 7.0 20.0 12.0 2012.0 619.0 505.0 t 0 0 0 0 0 0 448.0 478.0 248.0 25.0 52.0 12.0 39.0 61.0 20.0 218.0 357.0
MA0514.1_rc_shift6 (Sox3_rc)				; positions_6nt_m20 versus MA0514.1_rc (Sox3_rc); m=5/8; ncol2=10; w=9; offset=-1; strand=R; shift=6; score=0.595688; ------rrrACAAAGG- ; cor=; Ncor= a 0 0 0 0 0 0 989.0 1173.0 1115.0 2067.0 0.0 2067.0 2067.0 1805.0 515.0 250.0 0 c 0 0 0 0 0 0 382.0 22.0 254.0 0.0 1923.0 0.0 0.0 0.0 0.0 330.0 0 g 0 0 0 0 0 0 654.0 853.0 698.0 0.0 144.0 0.0 0.0 0.0 1552.0 1487.0 0 t 0 0 0 0 0 0 42.0 19.0 0.0 0.0 0.0 0.0 0.0 262.0 0.0 0.0 0
MA1623.1_shift3 (Stat2)				; positions_6nt_m20 versus MA1623.1 (Stat2); m=6/8; ncol2=13; w=9; offset=-4; strand=D; shift=3; score=0.517483; ---rgAAACAGAAAsw- ; cor=; Ncor= a 0 0 0 1605.0 969.0 3554.0 3736.0 3738.0 286.0 3146.0 152.0 3700.0 3747.0 3514.0 740.0 1262.0 0 c 0 0 0 538.0 306.0 76.0 75.0 72.0 2907.0 151.0 45.0 49.0 45.0 147.0 1502.0 758.0 0 g 0 0 0 1125.0 2287.0 168.0 71.0 87.0 524.0 74.0 3707.0 163.0 98.0 157.0 1180.0 591.0 0 t 0 0 0 691.0 397.0 161.0 77.0 62.0 242.0 588.0 55.0 47.0 69.0 141.0 537.0 1348.0 0
MA0731.1_rc_shift0 (BCL6B_rc)				; positions_6nt_m20 versus MA0731.1_rc (BCL6B_rc); m=7/8; ncol2=17; w=10; offset=-7; strand=R; shift=0; score=0.439739; kkAATTCCTAGAAAGCA ; cor=; Ncor= a 0.0 0.0 211.0 215.0 0.0 0.0 0.0 0.0 0.0 214.0 0.0 212.0 213.0 212.0 2.0 1.0 207.0 c 7.0 9.0 0.0 0.0 0.0 2.0 171.0 173.0 0.0 34.0 0.0 2.0 0.0 0.0 0.0 186.0 0.0 g 146.0 243.0 16.0 2.0 0.0 0.0 0.0 0.0 0.0 12.0 384.0 0.0 0.0 0.0 367.0 0.0 19.0 t 183.0 113.0 0.0 0.0 290.0 289.0 0.0 0.0 280.0 0.0 0.0 0.0 0.0 0.0 0.0 3.0 0.0
MA1625.1_shift1 (Stat5b)				; positions_6nt_m20 versus MA1625.1 (Stat5b); m=8/8; ncol2=15; w=9; offset=-6; strand=D; shift=1; score=0.414539; -yawTTCCcAGAArts- ; cor=; Ncor= a 0 614.0 908.0 700.0 51.0 92.0 32.0 74.0 462.0 2474.0 10.0 2554.0 2664.0 901.0 686.0 663.0 0 c 0 762.0 576.0 607.0 54.0 34.0 2666.0 2176.0 1746.0 60.0 16.0 35.0 25.0 615.0 680.0 768.0 0 g 0 682.0 647.0 537.0 51.0 34.0 23.0 43.0 127.0 150.0 2717.0 86.0 50.0 711.0 542.0 729.0 0 t 0 702.0 629.0 916.0 2604.0 2600.0 39.0 467.0 425.0 76.0 17.0 85.0 21.0 533.0 852.0 600.0 0