One-to-n alignments

Command: compare-matrices  -v 1 -mode matches -format1 transfac -file1 Myogenin_Rep3_motifs50/results/discovered_motifs/dyads_m10/peak-motifs_dyads_m10.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/dyads_m10/peak-motifs_dyads_m10_vs_db_jaspar_core_nonredundant_vertebrates

One-to-n matrix alignment; reference matrix: dyads_m10_shift0 ; 8 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
dyads_m10_shift0 (dyads_m10dyads_m10)
; dyads_m10 (dyads_m10dyads_m10); m=0 (reference); ncol1=15; shift=0; ncol=17; TTCTCATTTTCCaTG-- ; Alignment reference a 5 4 0 0 0 66 2 3 5 0 0 0 44 5 12 0 0 c 2 9 71 1 72 2 4 9 10 0 72 71 14 9 7 0 0 g 9 4 1 0 0 1 10 4 2 0 0 0 12 8 51 0 0 t 56 55 0 71 0 3 56 56 55 72 0 1 2 50 2 0 0

MA1525.1_rc_shift5 (NFATC4_rc)
; dyads_m10 versus MA1525.1_rc (NFATC4_rc); m=1/7; ncol2=10; w=10; offset=5; strand=R; shift=5; score=0.588175; -----wkTTTCCryt-- ; cor=; Ncor= a 0 0 0 0 0 2239.0 1292.0 259.0 0.0 0.0 0.0 0.0 2816.0 843.0 819.0 0 0 c 0 0 0 0 0 348.0 1789.0 127.0 0.0 0.0 4349.0 4349.0 0.0 2369.0 963.0 0 0 g 0 0 0 0 0 632.0 3276.0 1084.0 0.0 39.0 0.0 0.0 1534.0 329.0 916.0 0 0 t 0 0 0 0 0 1132.0 4349.0 4349.0 4349.0 4349.0 0.0 0.0 95.0 4349.0 1652.0 0 0

MA0606.1_shift5 (NFAT5)
; dyads_m10 versus MA0606.1 (NFAT5); m=2/7; ncol2=10; w=10; offset=5; strand=D; shift=5; score=0.579484; -----atTTTCCAyw-- ; cor=; Ncor= a 0 0 0 0 0 371.0 176.0 0.0 0.0 89.0 0.0 0.0 831.0 124.0 268.0 0 0 c 0 0 0 0 0 210.0 88.0 0.0 0.0 84.0 915.0 826.0 84.0 287.0 163.0 0 0 g 0 0 0 0 0 210.0 88.0 0.0 0.0 0.0 0.0 85.0 0.0 41.0 248.0 0 0 t 0 0 0 0 0 210.0 649.0 1000.0 1000.0 827.0 85.0 89.0 85.0 548.0 322.0 0 0

MA0625.1_shift5 (NFATC3)
; dyads_m10 versus MA0625.1 (NFATC3); m=3/7; ncol2=10; w=10; offset=5; strand=D; shift=5; score=0.577243; -----wtTTTCCryt-- ; cor=; Ncor= a 0 0 0 0 0 421.0 179.0 117.0 14.0 3.0 36.0 8.0 552.0 173.0 215.0 0 0 c 0 0 0 0 0 93.0 181.0 40.0 10.0 23.0 933.0 959.0 39.0 251.0 211.0 0 0 g 0 0 0 0 0 139.0 168.0 73.0 5.0 9.0 1.0 23.0 342.0 133.0 173.0 0 0 t 0 0 0 0 0 348.0 472.0 770.0 971.0 966.0 30.0 10.0 67.0 443.0 400.0 0 0

MA0624.1_shift5 (NFATC1)
; dyads_m10 versus MA0624.1 (NFATC1); m=4/7; ncol2=10; w=10; offset=5; strand=D; shift=5; score=0.567334; -----wttTTCCryt-- ; cor=; Ncor= a 0 0 0 0 0 383.0 226.0 158.0 19.0 21.0 14.0 9.0 516.0 230.0 230.0 0 0 c 0 0 0 0 0 134.0 193.0 60.0 35.0 29.0 971.0 967.0 45.0 262.0 227.0 0 0 g 0 0 0 0 0 167.0 189.0 122.0 7.0 15.0 8.0 5.0 357.0 126.0 194.0 0 0 t 0 0 0 0 0 316.0 392.0 660.0 939.0 935.0 7.0 18.0 83.0 383.0 349.0 0 0

MA1549.1_rc_shift0 (POU6F1(var.2)_rc)
; dyads_m10 versus MA1549.1_rc (POU6F1(var.2)_rc); m=5/7; ncol2=10; w=10; offset=0; strand=R; shift=0; score=0.468096; asCTCATTAy------- ; cor=; Ncor= a 2064.0 1462.0 1855.0 411.0 615.0 6413.0 0.0 0.0 6413.0 1312.0 0 0 0 0 0 0 0 c 1534.0 3348.0 6413.0 0.0 5799.0 298.0 0.0 255.0 10.0 1930.0 0 0 0 0 0 0 0 g 1238.0 3065.0 851.0 96.0 206.0 0.0 0.0 179.0 273.0 416.0 0 0 0 0 0 0 0 t 1577.0 1972.0 314.0 6413.0 67.0 0.0 6413.0 6413.0 164.0 2756.0 0 0 0 0 0 0 0

MA0152.1_shift6 (NFATC2)
; dyads_m10 versus MA0152.1 (NFATC2); m=6/7; ncol2=7; w=7; offset=6; strand=D; shift=6; score=0.460631; ------TTTTCCA---- ; cor=; Ncor= a 0 0 0 0 0 0 3.0 1.0 1.0 0.0 1.0 0.0 18.0 0 0 0 0 c 0 0 0 0 0 0 1.0 2.0 1.0 0.0 25.0 26.0 3.0 0 0 0 0 g 0 0 0 0 0 0 2.0 2.0 0.0 0.0 0.0 0.0 1.0 0 0 0 0 t 0 0 0 0 0 0 20.0 21.0 24.0 26.0 0.0 0.0 4.0 0 0 0 0

MA0519.1_shift6 (Stat5a::Stat5b)
; dyads_m10 versus MA0519.1 (Stat5a::Stat5b); m=7/7; ncol2=11; w=9; offset=6; strand=D; shift=6; score=0.404073; ------rtTTCCmRGAA ; cor=; Ncor= a 0 0 0 0 0 0 6172.0 2073.0 0.0 0.0 0.0 263.0 7044.0 11543.0 0.0 14888.0 14886.0 c 0 0 0 0 0 0 2326.0 3596.0 0.0 1600.0 16341.0 12795.0 6137.0 0.0 0.0 93.0 0.0 g 0 0 0 0 0 0 4425.0 2901.0 0.0 0.0 0.0 0.0 0.0 4140.0 16507.0 0.0 1621.0 t 0 0 0 0 0 0 3584.0 7937.0 16507.0 14907.0 166.0 3449.0 3326.0 824.0 0.0 1526.0 0.0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
dyads_m10_shift0 (dyads_m10dyads_m10)				; dyads_m10 (dyads_m10dyads_m10); m=0 (reference); ncol1=15; shift=0; ncol=17; TTCTCATTTTCCaTG-- ; Alignment reference a 5 4 0 0 0 66 2 3 5 0 0 0 44 5 12 0 0 c 2 9 71 1 72 2 4 9 10 0 72 71 14 9 7 0 0 g 9 4 1 0 0 1 10 4 2 0 0 0 12 8 51 0 0 t 56 55 0 71 0 3 56 56 55 72 0 1 2 50 2 0 0
MA1525.1_rc_shift5 (NFATC4_rc)				; dyads_m10 versus MA1525.1_rc (NFATC4_rc); m=1/7; ncol2=10; w=10; offset=5; strand=R; shift=5; score=0.588175; -----wkTTTCCryt-- ; cor=; Ncor= a 0 0 0 0 0 2239.0 1292.0 259.0 0.0 0.0 0.0 0.0 2816.0 843.0 819.0 0 0 c 0 0 0 0 0 348.0 1789.0 127.0 0.0 0.0 4349.0 4349.0 0.0 2369.0 963.0 0 0 g 0 0 0 0 0 632.0 3276.0 1084.0 0.0 39.0 0.0 0.0 1534.0 329.0 916.0 0 0 t 0 0 0 0 0 1132.0 4349.0 4349.0 4349.0 4349.0 0.0 0.0 95.0 4349.0 1652.0 0 0
MA0606.1_shift5 (NFAT5)				; dyads_m10 versus MA0606.1 (NFAT5); m=2/7; ncol2=10; w=10; offset=5; strand=D; shift=5; score=0.579484; -----atTTTCCAyw-- ; cor=; Ncor= a 0 0 0 0 0 371.0 176.0 0.0 0.0 89.0 0.0 0.0 831.0 124.0 268.0 0 0 c 0 0 0 0 0 210.0 88.0 0.0 0.0 84.0 915.0 826.0 84.0 287.0 163.0 0 0 g 0 0 0 0 0 210.0 88.0 0.0 0.0 0.0 0.0 85.0 0.0 41.0 248.0 0 0 t 0 0 0 0 0 210.0 649.0 1000.0 1000.0 827.0 85.0 89.0 85.0 548.0 322.0 0 0
MA0625.1_shift5 (NFATC3)				; dyads_m10 versus MA0625.1 (NFATC3); m=3/7; ncol2=10; w=10; offset=5; strand=D; shift=5; score=0.577243; -----wtTTTCCryt-- ; cor=; Ncor= a 0 0 0 0 0 421.0 179.0 117.0 14.0 3.0 36.0 8.0 552.0 173.0 215.0 0 0 c 0 0 0 0 0 93.0 181.0 40.0 10.0 23.0 933.0 959.0 39.0 251.0 211.0 0 0 g 0 0 0 0 0 139.0 168.0 73.0 5.0 9.0 1.0 23.0 342.0 133.0 173.0 0 0 t 0 0 0 0 0 348.0 472.0 770.0 971.0 966.0 30.0 10.0 67.0 443.0 400.0 0 0
MA0624.1_shift5 (NFATC1)				; dyads_m10 versus MA0624.1 (NFATC1); m=4/7; ncol2=10; w=10; offset=5; strand=D; shift=5; score=0.567334; -----wttTTCCryt-- ; cor=; Ncor= a 0 0 0 0 0 383.0 226.0 158.0 19.0 21.0 14.0 9.0 516.0 230.0 230.0 0 0 c 0 0 0 0 0 134.0 193.0 60.0 35.0 29.0 971.0 967.0 45.0 262.0 227.0 0 0 g 0 0 0 0 0 167.0 189.0 122.0 7.0 15.0 8.0 5.0 357.0 126.0 194.0 0 0 t 0 0 0 0 0 316.0 392.0 660.0 939.0 935.0 7.0 18.0 83.0 383.0 349.0 0 0
MA1549.1_rc_shift0 (POU6F1(var.2)_rc)				; dyads_m10 versus MA1549.1_rc (POU6F1(var.2)_rc); m=5/7; ncol2=10; w=10; offset=0; strand=R; shift=0; score=0.468096; asCTCATTAy------- ; cor=; Ncor= a 2064.0 1462.0 1855.0 411.0 615.0 6413.0 0.0 0.0 6413.0 1312.0 0 0 0 0 0 0 0 c 1534.0 3348.0 6413.0 0.0 5799.0 298.0 0.0 255.0 10.0 1930.0 0 0 0 0 0 0 0 g 1238.0 3065.0 851.0 96.0 206.0 0.0 0.0 179.0 273.0 416.0 0 0 0 0 0 0 0 t 1577.0 1972.0 314.0 6413.0 67.0 0.0 6413.0 6413.0 164.0 2756.0 0 0 0 0 0 0 0
MA0152.1_shift6 (NFATC2)				; dyads_m10 versus MA0152.1 (NFATC2); m=6/7; ncol2=7; w=7; offset=6; strand=D; shift=6; score=0.460631; ------TTTTCCA---- ; cor=; Ncor= a 0 0 0 0 0 0 3.0 1.0 1.0 0.0 1.0 0.0 18.0 0 0 0 0 c 0 0 0 0 0 0 1.0 2.0 1.0 0.0 25.0 26.0 3.0 0 0 0 0 g 0 0 0 0 0 0 2.0 2.0 0.0 0.0 0.0 0.0 1.0 0 0 0 0 t 0 0 0 0 0 0 20.0 21.0 24.0 26.0 0.0 0.0 4.0 0 0 0 0
MA0519.1_shift6 (Stat5a::Stat5b)				; dyads_m10 versus MA0519.1 (Stat5a::Stat5b); m=7/7; ncol2=11; w=9; offset=6; strand=D; shift=6; score=0.404073; ------rtTTCCmRGAA ; cor=; Ncor= a 0 0 0 0 0 0 6172.0 2073.0 0.0 0.0 0.0 263.0 7044.0 11543.0 0.0 14888.0 14886.0 c 0 0 0 0 0 0 2326.0 3596.0 0.0 1600.0 16341.0 12795.0 6137.0 0.0 0.0 93.0 0.0 g 0 0 0 0 0 0 4425.0 2901.0 0.0 0.0 0.0 0.0 0.0 4140.0 16507.0 0.0 1621.0 t 0 0 0 0 0 0 3584.0 7937.0 16507.0 14907.0 166.0 3449.0 3326.0 824.0 0.0 1526.0 0.0