One-to-n alignments

Command: compare-matrices  -v 1 -mode matches -format1 transfac -file1 Myogenin_Rep1_motifs50/results/discovered_motifs/dyads_m11/peak-motifs_dyads_m11.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_m11/peak-motifs_dyads_m11_vs_db_jaspar_core_nonredundant_vertebrates

One-to-n matrix alignment; reference matrix: dyads_m11_shift4 ; 8 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
dyads_m11_shift4 (dyads_m11dyads_m11)
; dyads_m11 (dyads_m11dyads_m11); m=0 (reference); ncol1=10; shift=4; ncol=15; ----sbCCCAGGsc- ; Alignment reference a 0 0 0 0 2705 2071 0 0 0 12019 0 0 2719 2901 0 c 0 0 0 0 3063 3023 12019 12019 12019 0 0 0 4427 3902 0 g 0 0 0 0 3389 3910 0 0 0 0 12019 12019 3581 2684 0 t 0 0 0 0 2862 3015 0 0 0 0 0 0 1292 2532 0

MA0154.4_shift2 (EBF1)
; dyads_m11 versus MA0154.4 (EBF1); m=1/7; ncol2=15; w=10; offset=-2; strand=D; shift=2; score=0.540341; --wrTCCCCAGGGGA ; cor=; Ncor= a 0 0 14160.0 11403.0 2352.0 1321.0 568.0 648.0 2539.0 34745.0 3502.0 2617.0 1515.0 8856.0 31636.0 c 0 0 8868.0 9554.0 4506.0 34665.0 43256.0 42562.0 39675.0 1707.0 814.0 495.0 455.0 2462.0 6355.0 g 0 0 10891.0 13481.0 5497.0 1920.0 371.0 443.0 862.0 1723.0 38728.0 41651.0 42789.0 32761.0 4957.0 t 0 0 11506.0 10987.0 33070.0 7519.0 1230.0 1772.0 2349.0 7250.0 2381.0 662.0 666.0 1346.0 2477.0

MA1604.1_shift4 (Ebf2)
; dyads_m11 versus MA1604.1 (Ebf2); m=2/7; ncol2=13; w=10; offset=0; strand=D; shift=4; score=0.539592; ----kyCCCAAGGGA ; cor=; Ncor= a 0 0 0 0 4671.0 3211.0 196.0 513.0 435.0 19235.0 19155.0 737.0 1276.0 971.0 21802.0 c 0 0 0 0 5870.0 7196.0 25497.0 24252.0 25137.0 3744.0 1347.0 239.0 220.0 580.0 1437.0 g 0 0 0 0 7678.0 3219.0 376.0 259.0 242.0 1427.0 3635.0 25103.0 24386.0 24124.0 1701.0 t 0 0 0 0 8042.0 12635.0 192.0 1237.0 447.0 1855.0 2124.0 182.0 379.0 586.0 1321.0

MA0003.4_shift1 (TFAP2A)
; dyads_m11 versus MA0003.4 (TFAP2A); m=3/7; ncol2=14; w=10; offset=-3; strand=D; shift=1; score=0.510604; -vytgCCTCAGGsma ; cor=; Ncor= a 0 4335.0 2763.0 2842.0 1088.0 280.0 116.0 278.0 530.0 13567.0 186.0 154.0 1221.0 4220.0 5204.0 c 0 4092.0 4620.0 2634.0 3615.0 15321.0 15351.0 1173.0 13536.0 739.0 217.0 234.0 9445.0 4783.0 3915.0 g 0 4072.0 3374.0 3791.0 9961.0 187.0 212.0 750.0 1406.0 1229.0 15432.0 15422.0 4098.0 3051.0 3841.0 t 0 3469.0 5211.0 6701.0 1304.0 180.0 289.0 13767.0 496.0 433.0 133.0 158.0 1204.0 3914.0 3008.0

MA0814.2_rc_shift1 (TFAP2C(var.2)_rc)
; dyads_m11 versus MA0814.2_rc (TFAP2C(var.2)_rc); m=4/7; ncol2=14; w=10; offset=-3; strand=R; shift=1; score=0.505761; -sbcGCCTCAGGccv ; cor=; Ncor= a 0 14898.0 10705.0 10707.0 3881.0 614.0 464.0 1084.0 1238.0 49003.0 660.0 702.0 4622.0 14497.0 16609.0 c 0 17367.0 18680.0 27373.0 9867.0 57916.0 57995.0 3944.0 55222.0 4910.0 2060.0 2273.0 37729.0 20129.0 17038.0 g 0 16468.0 15252.0 12553.0 42758.0 1575.0 1486.0 4733.0 3036.0 5539.0 57617.0 57108.0 14686.0 12565.0 15858.0 t 0 12086.0 16182.0 10186.0 4313.0 714.0 874.0 51058.0 1323.0 1367.0 482.0 736.0 3782.0 13628.0 11314.0

MA0116.1_shift2 (Znf423)
; dyads_m11 versus MA0116.1 (Znf423); m=5/7; ncol2=15; w=10; offset=-2; strand=D; shift=2; score=0.470977; --gsmmCCyWrGGkk ; cor=; Ncor= a 0 0 7.0 0.0 16.0 17.0 0.0 0.0 1.0 24.0 13.0 0.0 0.0 0.0 0.0 c 0 0 4.0 16.0 17.0 16.0 33.0 33.0 17.0 0.0 0.0 0.0 0.0 0.0 0.0 g 0 0 22.0 17.0 0.0 0.0 0.0 0.0 0.0 0.0 16.0 33.0 33.0 17.0 16.0 t 0 0 0.0 0.0 0.0 0.0 0.0 0.0 15.0 9.0 4.0 0.0 0.0 16.0 17.0

MA1116.1_rc_shift2 (RBPJ_rc)
; dyads_m11 versus MA1116.1_rc (RBPJ_rc); m=6/7; ncol2=10; w=8; offset=-2; strand=R; shift=2; score=0.467691; --ckTTCCCAsv--- ; cor=; Ncor= a 0 0 547.0 413.0 4.0 29.0 78.0 60.0 1.0 2386.0 254.0 611.0 0 0 0 c 0 0 711.0 592.0 1.0 4.0 2309.0 2313.0 2341.0 2.0 787.0 604.0 0 0 0 g 0 0 579.0 655.0 15.0 0.0 8.0 20.0 25.0 12.0 872.0 842.0 0 0 0 t 0 0 565.0 742.0 2382.0 2369.0 7.0 9.0 35.0 2.0 489.0 345.0 0 0 0

MA1615.1_rc_shift0 (Plagl1_rc)
; dyads_m11 versus MA1615.1_rc (Plagl1_rc); m=7/7; ncol2=13; w=9; offset=-4; strand=R; shift=0; score=0.459894; ssTGGCCCCagss-- ; cor=; Ncor= a 2558.0 2590.0 371.0 398.0 321.0 142.0 183.0 323.0 118.0 9425.0 1680.0 2834.0 2598.0 0 0 c 4567.0 4852.0 1032.0 422.0 313.0 13495.0 13517.0 12261.0 13595.0 1338.0 3026.0 4030.0 4260.0 0 0 g 3614.0 4618.0 686.0 13152.0 12737.0 336.0 266.0 356.0 243.0 1471.0 7309.0 4401.0 4515.0 0 0 t 3414.0 2093.0 12064.0 181.0 782.0 180.0 187.0 1213.0 197.0 1919.0 2138.0 2888.0 2780.0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
dyads_m11_shift4 (dyads_m11dyads_m11)				; dyads_m11 (dyads_m11dyads_m11); m=0 (reference); ncol1=10; shift=4; ncol=15; ----sbCCCAGGsc- ; Alignment reference a 0 0 0 0 2705 2071 0 0 0 12019 0 0 2719 2901 0 c 0 0 0 0 3063 3023 12019 12019 12019 0 0 0 4427 3902 0 g 0 0 0 0 3389 3910 0 0 0 0 12019 12019 3581 2684 0 t 0 0 0 0 2862 3015 0 0 0 0 0 0 1292 2532 0
MA0154.4_shift2 (EBF1)				; dyads_m11 versus MA0154.4 (EBF1); m=1/7; ncol2=15; w=10; offset=-2; strand=D; shift=2; score=0.540341; --wrTCCCCAGGGGA ; cor=; Ncor= a 0 0 14160.0 11403.0 2352.0 1321.0 568.0 648.0 2539.0 34745.0 3502.0 2617.0 1515.0 8856.0 31636.0 c 0 0 8868.0 9554.0 4506.0 34665.0 43256.0 42562.0 39675.0 1707.0 814.0 495.0 455.0 2462.0 6355.0 g 0 0 10891.0 13481.0 5497.0 1920.0 371.0 443.0 862.0 1723.0 38728.0 41651.0 42789.0 32761.0 4957.0 t 0 0 11506.0 10987.0 33070.0 7519.0 1230.0 1772.0 2349.0 7250.0 2381.0 662.0 666.0 1346.0 2477.0
MA1604.1_shift4 (Ebf2)				; dyads_m11 versus MA1604.1 (Ebf2); m=2/7; ncol2=13; w=10; offset=0; strand=D; shift=4; score=0.539592; ----kyCCCAAGGGA ; cor=; Ncor= a 0 0 0 0 4671.0 3211.0 196.0 513.0 435.0 19235.0 19155.0 737.0 1276.0 971.0 21802.0 c 0 0 0 0 5870.0 7196.0 25497.0 24252.0 25137.0 3744.0 1347.0 239.0 220.0 580.0 1437.0 g 0 0 0 0 7678.0 3219.0 376.0 259.0 242.0 1427.0 3635.0 25103.0 24386.0 24124.0 1701.0 t 0 0 0 0 8042.0 12635.0 192.0 1237.0 447.0 1855.0 2124.0 182.0 379.0 586.0 1321.0
MA0003.4_shift1 (TFAP2A)				; dyads_m11 versus MA0003.4 (TFAP2A); m=3/7; ncol2=14; w=10; offset=-3; strand=D; shift=1; score=0.510604; -vytgCCTCAGGsma ; cor=; Ncor= a 0 4335.0 2763.0 2842.0 1088.0 280.0 116.0 278.0 530.0 13567.0 186.0 154.0 1221.0 4220.0 5204.0 c 0 4092.0 4620.0 2634.0 3615.0 15321.0 15351.0 1173.0 13536.0 739.0 217.0 234.0 9445.0 4783.0 3915.0 g 0 4072.0 3374.0 3791.0 9961.0 187.0 212.0 750.0 1406.0 1229.0 15432.0 15422.0 4098.0 3051.0 3841.0 t 0 3469.0 5211.0 6701.0 1304.0 180.0 289.0 13767.0 496.0 433.0 133.0 158.0 1204.0 3914.0 3008.0
MA0814.2_rc_shift1 (TFAP2C(var.2)_rc)				; dyads_m11 versus MA0814.2_rc (TFAP2C(var.2)_rc); m=4/7; ncol2=14; w=10; offset=-3; strand=R; shift=1; score=0.505761; -sbcGCCTCAGGccv ; cor=; Ncor= a 0 14898.0 10705.0 10707.0 3881.0 614.0 464.0 1084.0 1238.0 49003.0 660.0 702.0 4622.0 14497.0 16609.0 c 0 17367.0 18680.0 27373.0 9867.0 57916.0 57995.0 3944.0 55222.0 4910.0 2060.0 2273.0 37729.0 20129.0 17038.0 g 0 16468.0 15252.0 12553.0 42758.0 1575.0 1486.0 4733.0 3036.0 5539.0 57617.0 57108.0 14686.0 12565.0 15858.0 t 0 12086.0 16182.0 10186.0 4313.0 714.0 874.0 51058.0 1323.0 1367.0 482.0 736.0 3782.0 13628.0 11314.0
MA0116.1_shift2 (Znf423)				; dyads_m11 versus MA0116.1 (Znf423); m=5/7; ncol2=15; w=10; offset=-2; strand=D; shift=2; score=0.470977; --gsmmCCyWrGGkk ; cor=; Ncor= a 0 0 7.0 0.0 16.0 17.0 0.0 0.0 1.0 24.0 13.0 0.0 0.0 0.0 0.0 c 0 0 4.0 16.0 17.0 16.0 33.0 33.0 17.0 0.0 0.0 0.0 0.0 0.0 0.0 g 0 0 22.0 17.0 0.0 0.0 0.0 0.0 0.0 0.0 16.0 33.0 33.0 17.0 16.0 t 0 0 0.0 0.0 0.0 0.0 0.0 0.0 15.0 9.0 4.0 0.0 0.0 16.0 17.0
MA1116.1_rc_shift2 (RBPJ_rc)				; dyads_m11 versus MA1116.1_rc (RBPJ_rc); m=6/7; ncol2=10; w=8; offset=-2; strand=R; shift=2; score=0.467691; --ckTTCCCAsv--- ; cor=; Ncor= a 0 0 547.0 413.0 4.0 29.0 78.0 60.0 1.0 2386.0 254.0 611.0 0 0 0 c 0 0 711.0 592.0 1.0 4.0 2309.0 2313.0 2341.0 2.0 787.0 604.0 0 0 0 g 0 0 579.0 655.0 15.0 0.0 8.0 20.0 25.0 12.0 872.0 842.0 0 0 0 t 0 0 565.0 742.0 2382.0 2369.0 7.0 9.0 35.0 2.0 489.0 345.0 0 0 0
MA1615.1_rc_shift0 (Plagl1_rc)				; dyads_m11 versus MA1615.1_rc (Plagl1_rc); m=7/7; ncol2=13; w=9; offset=-4; strand=R; shift=0; score=0.459894; ssTGGCCCCagss-- ; cor=; Ncor= a 2558.0 2590.0 371.0 398.0 321.0 142.0 183.0 323.0 118.0 9425.0 1680.0 2834.0 2598.0 0 0 c 4567.0 4852.0 1032.0 422.0 313.0 13495.0 13517.0 12261.0 13595.0 1338.0 3026.0 4030.0 4260.0 0 0 g 3614.0 4618.0 686.0 13152.0 12737.0 336.0 266.0 356.0 243.0 1471.0 7309.0 4401.0 4515.0 0 0 t 3414.0 2093.0 12064.0 181.0 782.0 180.0 187.0 1213.0 197.0 1919.0 2138.0 2888.0 2780.0 0 0