One-to-n alignments

Command: compare-matrices  -v 1 -mode matches -format1 transfac -file1 Myogenin_Rep1_motifs50/results/discovered_motifs/dyads_m40/peak-motifs_dyads_m40.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/dyads_m40/peak-motifs_dyads_m40_vs_db_jaspar_core_nonredundant_vertebrates

One-to-n matrix alignment; reference matrix: dyads_m40_shift6 ; 12 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
dyads_m40_shift6 (dyads_m40dyads_m40)
; dyads_m40 (dyads_m40dyads_m40); m=0 (reference); ncol1=10; shift=6; ncol=17; ------sdGACAGAgr- ; Alignment reference a 0 0 0 0 0 0 1411 1984 0 5969 0 5969 0 5969 1102 1770 0 c 0 0 0 0 0 0 1560 310 0 0 5969 0 0 0 1449 1254 0 g 0 0 0 0 0 0 2105 2085 5969 0 0 0 5968 0 2036 2126 0 t 0 0 0 0 0 0 893 1590 0 0 0 0 1 0 1382 819 0

MA0774.1_shift6 (MEIS2)
; dyads_m40 versus MA0774.1 (MEIS2); m=1/11; ncol2=8; w=8; offset=0; strand=D; shift=6; score= 0.6064; ------tTGACAGs--- ; cor=; Ncor= a 0 0 0 0 0 0 408.0 31.0 0.0 1351.0 9.0 1351.0 83.0 157.0 0 0 0 c 0 0 0 0 0 0 264.0 3.0 0.0 3.0 1351.0 7.0 98.0 701.0 0 0 0 g 0 0 0 0 0 0 314.0 40.0 1351.0 25.0 0.0 4.0 1351.0 650.0 0 0 0 t 0 0 0 0 0 0 1351.0 1351.0 0.0 62.0 5.0 0.0 67.0 88.0 0 0 0

MA0775.1_shift6 (MEIS3)
; dyads_m40 versus MA0775.1 (MEIS3); m=2/11; ncol2=8; w=8; offset=0; strand=D; shift=6; score=0.602731; ------wTGACAgs--- ; cor=; Ncor= a 0 0 0 0 0 0 1866.0 465.0 0.0 7165.0 53.0 7165.0 1690.0 960.0 0 0 0 c 0 0 0 0 0 0 60.0 383.0 6.0 20.0 7165.0 8.0 1889.0 2342.0 0 0 0 g 0 0 0 0 0 0 1788.0 260.0 7165.0 455.0 8.0 468.0 7165.0 2888.0 0 0 0 t 0 0 0 0 0 0 3451.0 7165.0 0.0 53.0 160.0 145.0 2094.0 975.0 0 0 0

MA0498.2_shift6 (MEIS1)
; dyads_m40 versus MA0498.2 (MEIS1); m=3/11; ncol2=7; w=7; offset=0; strand=D; shift=6; score=0.593692; ------wTGACAg---- ; cor=; Ncor= a 0 0 0 0 0 0 23727.0 8690.0 0.0 77159.0 0.0 77159.0 17224.0 0 0 0 0 c 0 0 0 0 0 0 18797.0 5575.0 1249.0 2903.0 77159.0 0.0 14864.0 0 0 0 0 g 0 0 0 0 0 0 9714.0 3174.0 77159.0 672.0 0.0 9263.0 29965.0 0 0 0 0 t 0 0 0 0 0 0 24921.0 77159.0 0.0 0.0 1155.0 3861.0 15106.0 0 0 0 0

MA1642.1_shift6 (NEUROG2(var.2))
; dyads_m40 versus MA1642.1 (NEUROG2(var.2)); m=4/11; ncol2=13; w=10; offset=0; strand=D; shift=6; score=0.567107; ------rrraCAGATGG ; cor=; Ncor= a 0 0 0 0 0 0 8690.0 9047.0 12089.0 16448.0 278.0 33720.0 400.0 32746.0 649.0 280.0 1523.0 c 0 0 0 0 0 0 7353.0 6843.0 6467.0 8154.0 33559.0 211.0 793.0 952.0 904.0 205.0 2966.0 g 0 0 0 0 0 0 10813.0 10123.0 11114.0 8039.0 317.0 301.0 30392.0 418.0 323.0 33422.0 24998.0 t 0 0 0 0 0 0 7535.0 8378.0 4721.0 1750.0 237.0 159.0 2806.0 275.0 32515.0 484.0 4904.0

MA0513.1_rc_shift4 (SMAD2::SMAD3::SMAD4_rc)
; dyads_m40 versus MA0513.1_rc (SMAD2::SMAD3::SMAD4_rc); m=5/11; ncol2=13; w=10; offset=-2; strand=R; shift=4; score=0.546254; ----agGTGmsAGACag ; cor=; Ncor= a 0 0 0 0 540.0 152.0 0.0 97.0 0.0 283.0 23.0 899.0 0.0 718.0 0.0 594.0 133.0 c 0 0 0 0 35.0 47.0 133.0 18.0 3.0 280.0 539.0 0.0 0.0 103.0 877.0 34.0 168.0 g 0 0 0 0 214.0 583.0 736.0 19.0 896.0 125.0 231.0 0.0 899.0 45.0 8.0 75.0 432.0 t 0 0 0 0 110.0 117.0 30.0 765.0 0.0 211.0 106.0 0.0 0.0 33.0 14.0 196.0 166.0

MA0782.2_shift1 (PKNOX1)
; dyads_m40 versus MA0782.2 (PKNOX1); m=6/11; ncol2=15; w=10; offset=-5; strand=D; shift=1; score=0.517473; -twTGAgTGACAGctr- ; cor=; Ncor= a 0 9811.0 10245.0 5222.0 1654.0 36759.0 2325.0 1140.0 555.0 36374.0 651.0 33982.0 2745.0 8452.0 8617.0 10522.0 0 c 0 9503.0 9828.0 1625.0 1160.0 678.0 4123.0 878.0 1004.0 410.0 37846.0 944.0 4759.0 16341.0 9386.0 9268.0 0 g 0 9599.0 9535.0 3322.0 36106.0 1330.0 26182.0 1027.0 37713.0 2459.0 580.0 2408.0 27367.0 9128.0 9060.0 10296.0 0 t 0 11050.0 10355.0 29794.0 1043.0 1196.0 7333.0 36918.0 691.0 720.0 886.0 2629.0 5092.0 6042.0 12900.0 9877.0 0

MA1109.1_shift7 (NEUROD1)
; dyads_m40 versus MA1109.1 (NEUROD1); m=7/11; ncol2=13; w=9; offset=1; strand=D; shift=7; score=0.492647; -------graCAGATGG ; cor=; Ncor= a 0 0 0 0 0 0 0 561.0 755.0 1289.0 17.0 2241.0 16.0 2034.0 55.0 13.0 59.0 c 0 0 0 0 0 0 0 429.0 323.0 452.0 2240.0 7.0 24.0 150.0 51.0 7.0 93.0 g 0 0 0 0 0 0 0 726.0 906.0 494.0 13.0 16.0 2152.0 77.0 19.0 2231.0 1962.0 t 0 0 0 0 0 0 0 566.0 298.0 47.0 12.0 18.0 90.0 21.0 2157.0 31.0 168.0

MA1646.1_shift7 (OSR2)
; dyads_m40 versus MA1646.1 (OSR2); m=8/11; ncol2=12; w=9; offset=1; strand=D; shift=7; score=0.491858; -------amaCAGAAGC ; cor=; Ncor= a 0 0 0 0 0 0 0 4437.0 4244.0 8520.0 254.0 13599.0 216.0 11678.0 13725.0 416.0 666.0 c 0 0 0 0 0 0 0 3641.0 4206.0 2221.0 13937.0 197.0 229.0 703.0 288.0 170.0 12109.0 g 0 0 0 0 0 0 0 3246.0 3006.0 2117.0 406.0 737.0 14206.0 901.0 516.0 13982.0 841.0 t 0 0 0 0 0 0 0 3484.0 3352.0 1950.0 211.0 275.0 157.0 1526.0 279.0 240.0 1192.0

MA1618.1_shift7 (Ptf1a)
; dyads_m40 versus MA1618.1 (Ptf1a); m=9/11; ncol2=13; w=9; offset=1; strand=D; shift=7; score=0.469937; -------dmaCAGATGt ; cor=; Ncor= a 0 0 0 0 0 0 0 4092.0 4476.0 8554.0 133.0 14064.0 250.0 12132.0 126.0 241.0 965.0 c 0 0 0 0 0 0 0 2989.0 3662.0 2747.0 14006.0 118.0 466.0 1724.0 224.0 122.0 2058.0 g 0 0 0 0 0 0 0 3661.0 3568.0 2414.0 130.0 153.0 13072.0 437.0 118.0 13868.0 2854.0 t 0 0 0 0 0 0 0 3699.0 2735.0 726.0 172.0 106.0 653.0 148.0 13973.0 210.0 8564.0

MA1114.1_shift0 (PBX3)
; dyads_m40 versus MA1114.1 (PBX3); m=10/11; ncol2=17; w=10; offset=-6; strand=D; shift=0; score=0.445331; gkbTGAGTGACAGgcrs ; cor=; Ncor= a 1595.0 1510.0 1320.0 596.0 228.0 6426.0 335.0 247.0 146.0 6164.0 150.0 6091.0 369.0 884.0 1251.0 1869.0 1495.0 c 1711.0 1724.0 1849.0 225.0 227.0 125.0 788.0 199.0 242.0 108.0 6524.0 129.0 412.0 1377.0 2654.0 1619.0 1801.0 g 2192.0 1934.0 1928.0 503.0 6406.0 214.0 4929.0 285.0 6550.0 604.0 209.0 425.0 5691.0 4077.0 1591.0 2068.0 2217.0 t 1523.0 1853.0 1924.0 5697.0 160.0 256.0 969.0 6290.0 83.0 145.0 138.0 376.0 549.0 683.0 1525.0 1465.0 1508.0

MA1153.1_rc_shift4 (Smad4_rc)
; dyads_m40 versus MA1153.1_rc (Smad4_rc); m=11/11; ncol2=8; w=6; offset=-2; strand=R; shift=4; score=0.401247; ----kCyAGACr----- ; cor=; Ncor= a 0 0 0 0 110.294 0.0 0.0 1000.0 0.0 1000.0 0.0 580.882 0 0 0 0 0 c 0 0 0 0 125.0 1000.0 404.412 0.0 0.0 0.0 1000.0 80.882 0 0 0 0 0 g 0 0 0 0 272.059 0.0 0.0 0.0 1000.0 0.0 0.0 250.0 0 0 0 0 0 t 0 0 0 0 492.647 0.0 595.588 0.0 0.0 0.0 0.0 88.235 0 0 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
dyads_m40_shift6 (dyads_m40dyads_m40)				; dyads_m40 (dyads_m40dyads_m40); m=0 (reference); ncol1=10; shift=6; ncol=17; ------sdGACAGAgr- ; Alignment reference a 0 0 0 0 0 0 1411 1984 0 5969 0 5969 0 5969 1102 1770 0 c 0 0 0 0 0 0 1560 310 0 0 5969 0 0 0 1449 1254 0 g 0 0 0 0 0 0 2105 2085 5969 0 0 0 5968 0 2036 2126 0 t 0 0 0 0 0 0 893 1590 0 0 0 0 1 0 1382 819 0
MA0774.1_shift6 (MEIS2)				; dyads_m40 versus MA0774.1 (MEIS2); m=1/11; ncol2=8; w=8; offset=0; strand=D; shift=6; score= 0.6064; ------tTGACAGs--- ; cor=; Ncor= a 0 0 0 0 0 0 408.0 31.0 0.0 1351.0 9.0 1351.0 83.0 157.0 0 0 0 c 0 0 0 0 0 0 264.0 3.0 0.0 3.0 1351.0 7.0 98.0 701.0 0 0 0 g 0 0 0 0 0 0 314.0 40.0 1351.0 25.0 0.0 4.0 1351.0 650.0 0 0 0 t 0 0 0 0 0 0 1351.0 1351.0 0.0 62.0 5.0 0.0 67.0 88.0 0 0 0
MA0775.1_shift6 (MEIS3)				; dyads_m40 versus MA0775.1 (MEIS3); m=2/11; ncol2=8; w=8; offset=0; strand=D; shift=6; score=0.602731; ------wTGACAgs--- ; cor=; Ncor= a 0 0 0 0 0 0 1866.0 465.0 0.0 7165.0 53.0 7165.0 1690.0 960.0 0 0 0 c 0 0 0 0 0 0 60.0 383.0 6.0 20.0 7165.0 8.0 1889.0 2342.0 0 0 0 g 0 0 0 0 0 0 1788.0 260.0 7165.0 455.0 8.0 468.0 7165.0 2888.0 0 0 0 t 0 0 0 0 0 0 3451.0 7165.0 0.0 53.0 160.0 145.0 2094.0 975.0 0 0 0
MA0498.2_shift6 (MEIS1)				; dyads_m40 versus MA0498.2 (MEIS1); m=3/11; ncol2=7; w=7; offset=0; strand=D; shift=6; score=0.593692; ------wTGACAg---- ; cor=; Ncor= a 0 0 0 0 0 0 23727.0 8690.0 0.0 77159.0 0.0 77159.0 17224.0 0 0 0 0 c 0 0 0 0 0 0 18797.0 5575.0 1249.0 2903.0 77159.0 0.0 14864.0 0 0 0 0 g 0 0 0 0 0 0 9714.0 3174.0 77159.0 672.0 0.0 9263.0 29965.0 0 0 0 0 t 0 0 0 0 0 0 24921.0 77159.0 0.0 0.0 1155.0 3861.0 15106.0 0 0 0 0
MA1642.1_shift6 (NEUROG2(var.2))				; dyads_m40 versus MA1642.1 (NEUROG2(var.2)); m=4/11; ncol2=13; w=10; offset=0; strand=D; shift=6; score=0.567107; ------rrraCAGATGG ; cor=; Ncor= a 0 0 0 0 0 0 8690.0 9047.0 12089.0 16448.0 278.0 33720.0 400.0 32746.0 649.0 280.0 1523.0 c 0 0 0 0 0 0 7353.0 6843.0 6467.0 8154.0 33559.0 211.0 793.0 952.0 904.0 205.0 2966.0 g 0 0 0 0 0 0 10813.0 10123.0 11114.0 8039.0 317.0 301.0 30392.0 418.0 323.0 33422.0 24998.0 t 0 0 0 0 0 0 7535.0 8378.0 4721.0 1750.0 237.0 159.0 2806.0 275.0 32515.0 484.0 4904.0
MA0513.1_rc_shift4 (SMAD2::SMAD3::SMAD4_rc)				; dyads_m40 versus MA0513.1_rc (SMAD2::SMAD3::SMAD4_rc); m=5/11; ncol2=13; w=10; offset=-2; strand=R; shift=4; score=0.546254; ----agGTGmsAGACag ; cor=; Ncor= a 0 0 0 0 540.0 152.0 0.0 97.0 0.0 283.0 23.0 899.0 0.0 718.0 0.0 594.0 133.0 c 0 0 0 0 35.0 47.0 133.0 18.0 3.0 280.0 539.0 0.0 0.0 103.0 877.0 34.0 168.0 g 0 0 0 0 214.0 583.0 736.0 19.0 896.0 125.0 231.0 0.0 899.0 45.0 8.0 75.0 432.0 t 0 0 0 0 110.0 117.0 30.0 765.0 0.0 211.0 106.0 0.0 0.0 33.0 14.0 196.0 166.0
MA0782.2_shift1 (PKNOX1)				; dyads_m40 versus MA0782.2 (PKNOX1); m=6/11; ncol2=15; w=10; offset=-5; strand=D; shift=1; score=0.517473; -twTGAgTGACAGctr- ; cor=; Ncor= a 0 9811.0 10245.0 5222.0 1654.0 36759.0 2325.0 1140.0 555.0 36374.0 651.0 33982.0 2745.0 8452.0 8617.0 10522.0 0 c 0 9503.0 9828.0 1625.0 1160.0 678.0 4123.0 878.0 1004.0 410.0 37846.0 944.0 4759.0 16341.0 9386.0 9268.0 0 g 0 9599.0 9535.0 3322.0 36106.0 1330.0 26182.0 1027.0 37713.0 2459.0 580.0 2408.0 27367.0 9128.0 9060.0 10296.0 0 t 0 11050.0 10355.0 29794.0 1043.0 1196.0 7333.0 36918.0 691.0 720.0 886.0 2629.0 5092.0 6042.0 12900.0 9877.0 0
MA1109.1_shift7 (NEUROD1)				; dyads_m40 versus MA1109.1 (NEUROD1); m=7/11; ncol2=13; w=9; offset=1; strand=D; shift=7; score=0.492647; -------graCAGATGG ; cor=; Ncor= a 0 0 0 0 0 0 0 561.0 755.0 1289.0 17.0 2241.0 16.0 2034.0 55.0 13.0 59.0 c 0 0 0 0 0 0 0 429.0 323.0 452.0 2240.0 7.0 24.0 150.0 51.0 7.0 93.0 g 0 0 0 0 0 0 0 726.0 906.0 494.0 13.0 16.0 2152.0 77.0 19.0 2231.0 1962.0 t 0 0 0 0 0 0 0 566.0 298.0 47.0 12.0 18.0 90.0 21.0 2157.0 31.0 168.0
MA1646.1_shift7 (OSR2)				; dyads_m40 versus MA1646.1 (OSR2); m=8/11; ncol2=12; w=9; offset=1; strand=D; shift=7; score=0.491858; -------amaCAGAAGC ; cor=; Ncor= a 0 0 0 0 0 0 0 4437.0 4244.0 8520.0 254.0 13599.0 216.0 11678.0 13725.0 416.0 666.0 c 0 0 0 0 0 0 0 3641.0 4206.0 2221.0 13937.0 197.0 229.0 703.0 288.0 170.0 12109.0 g 0 0 0 0 0 0 0 3246.0 3006.0 2117.0 406.0 737.0 14206.0 901.0 516.0 13982.0 841.0 t 0 0 0 0 0 0 0 3484.0 3352.0 1950.0 211.0 275.0 157.0 1526.0 279.0 240.0 1192.0
MA1618.1_shift7 (Ptf1a)				; dyads_m40 versus MA1618.1 (Ptf1a); m=9/11; ncol2=13; w=9; offset=1; strand=D; shift=7; score=0.469937; -------dmaCAGATGt ; cor=; Ncor= a 0 0 0 0 0 0 0 4092.0 4476.0 8554.0 133.0 14064.0 250.0 12132.0 126.0 241.0 965.0 c 0 0 0 0 0 0 0 2989.0 3662.0 2747.0 14006.0 118.0 466.0 1724.0 224.0 122.0 2058.0 g 0 0 0 0 0 0 0 3661.0 3568.0 2414.0 130.0 153.0 13072.0 437.0 118.0 13868.0 2854.0 t 0 0 0 0 0 0 0 3699.0 2735.0 726.0 172.0 106.0 653.0 148.0 13973.0 210.0 8564.0
MA1114.1_shift0 (PBX3)				; dyads_m40 versus MA1114.1 (PBX3); m=10/11; ncol2=17; w=10; offset=-6; strand=D; shift=0; score=0.445331; gkbTGAGTGACAGgcrs ; cor=; Ncor= a 1595.0 1510.0 1320.0 596.0 228.0 6426.0 335.0 247.0 146.0 6164.0 150.0 6091.0 369.0 884.0 1251.0 1869.0 1495.0 c 1711.0 1724.0 1849.0 225.0 227.0 125.0 788.0 199.0 242.0 108.0 6524.0 129.0 412.0 1377.0 2654.0 1619.0 1801.0 g 2192.0 1934.0 1928.0 503.0 6406.0 214.0 4929.0 285.0 6550.0 604.0 209.0 425.0 5691.0 4077.0 1591.0 2068.0 2217.0 t 1523.0 1853.0 1924.0 5697.0 160.0 256.0 969.0 6290.0 83.0 145.0 138.0 376.0 549.0 683.0 1525.0 1465.0 1508.0
MA1153.1_rc_shift4 (Smad4_rc)				; dyads_m40 versus MA1153.1_rc (Smad4_rc); m=11/11; ncol2=8; w=6; offset=-2; strand=R; shift=4; score=0.401247; ----kCyAGACr----- ; cor=; Ncor= a 0 0 0 0 110.294 0.0 0.0 1000.0 0.0 1000.0 0.0 580.882 0 0 0 0 0 c 0 0 0 0 125.0 1000.0 404.412 0.0 0.0 0.0 1000.0 80.882 0 0 0 0 0 g 0 0 0 0 272.059 0.0 0.0 0.0 1000.0 0.0 0.0 250.0 0 0 0 0 0 t 0 0 0 0 492.647 0.0 595.588 0.0 0.0 0.0 0.0 88.235 0 0 0 0 0