One-to-n alignments

Command: compare-matrices  -v 1 -mode matches -format1 transfac -file1 Myogenin_Rep1_motifs50/results/discovered_motifs/dyads_m46/peak-motifs_dyads_m46.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_m46/peak-motifs_dyads_m46_vs_db_jaspar_core_nonredundant_vertebrates

One-to-n matrix alignment; reference matrix: dyads_m46_shift3 ; 8 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
dyads_m46_shift3 (dyads_m46dyads_m46)
; dyads_m46 (dyads_m46dyads_m46); m=0 (reference); ncol1=12; shift=3; ncol=15; ---ssCTCykCCChs ; Alignment reference a 0 0 0 1752 1433 0 0 0 2280 1717 0 0 0 3089 1727 c 0 0 0 3607 4211 11098 0 11098 4625 2352 11098 11098 11098 3361 4048 g 0 0 0 3333 3375 0 0 0 1147 3952 0 0 0 1597 3446 t 0 0 0 2406 2079 0 11098 0 3046 3077 0 0 0 3051 1877

MA0039.4_shift3 (KLF4)
; dyads_m46 versus MA0039.4 (KLF4); m=1/7; ncol2=12; w=12; offset=0; strand=D; shift=3; score=0.70458; ---ssCCCCACCChs ; cor=; Ncor= a 0 0 0 12570.0 11487.0 2465.0 2105.0 7021.0 1173.0 45602.0 852.0 1617.0 1202.0 16264.0 9959.0 c 0 0 0 17520.0 14038.0 49209.0 47865.0 45405.0 52875.0 161.0 52366.0 51112.0 51045.0 18249.0 19217.0 g 0 0 0 14243.0 18473.0 1583.0 1214.0 1422.0 793.0 6598.0 1470.0 1870.0 1005.0 6292.0 14422.0 t 0 0 0 11484.0 11819.0 2560.0 4633.0 1969.0 976.0 3456.0 1129.0 1218.0 2565.0 15012.0 12219.0

MA0528.2_rc_shift4 (ZNF263_rc)
; dyads_m46 versus MA0528.2_rc (ZNF263_rc); m=2/7; ncol2=12; w=11; offset=1; strand=R; shift=4; score=0.703925; ----csTCCTCCCcs ; cor=; Ncor= a 0 0 0 0 11103.0 6566.0 638.0 717.0 1672.0 620.0 986.0 1192.0 1270.0 8247.0 12535.0 c 0 0 0 0 25115.0 24825.0 1448.0 52741.0 52875.0 163.0 53435.0 52818.0 51804.0 28912.0 17883.0 g 0 0 0 0 11689.0 15413.0 1758.0 2190.0 966.0 1660.0 972.0 1544.0 1659.0 6183.0 14909.0 t 0 0 0 0 8436.0 9539.0 52499.0 695.0 830.0 53900.0 950.0 789.0 1610.0 13001.0 11016.0

MA0599.1_shift4 (KLF5)
; dyads_m46 versus MA0599.1 (KLF5); m=3/7; ncol2=10; w=10; offset=1; strand=D; shift=4; score=0.612112; ----gCCMCrCCCh- ; cor=; Ncor= a 0 0 0 0 1429.0 0.0 0.0 3477.0 0.0 5051.0 0.0 0.0 0.0 3915.0 0 c 0 0 0 0 2023.0 11900.0 12008.0 9569.0 13611.0 0.0 13611.0 13611.0 13135.0 5595.0 0 g 0 0 0 0 7572.0 0.0 0.0 0.0 0.0 5182.0 0.0 0.0 0.0 0.0 0 t 0 0 0 0 2587.0 1711.0 1603.0 565.0 0.0 3378.0 0.0 0.0 476.0 4101.0 0

MA0597.1_shift7 (THAP1)
; dyads_m46 versus MA0597.1 (THAP1); m=4/7; ncol2=9; w=8; offset=4; strand=D; shift=7; score=0.499003; -------ytGCCMky ; cor=; Ncor= a 0 0 0 0 0 0 0 18.0 15.0 20.0 7.0 3.0 58.0 47.0 30.0 c 0 0 0 0 0 0 0 93.0 47.0 0.0 182.0 195.0 136.0 17.0 71.0 g 0 0 0 0 0 0 0 27.0 12.0 137.0 0.0 0.0 1.0 77.0 41.0 t 0 0 0 0 0 0 0 61.0 125.0 42.0 10.0 1.0 4.0 58.0 57.0

MA1578.1_shift7 (VEZF1)
; dyads_m46 versus MA1578.1 (VEZF1); m=5/7; ncol2=10; w=8; offset=4; strand=D; shift=7; score=0.458253; -------CCCCCCmy ; cor=; Ncor= a 0 0 0 0 0 0 0 71.0 1.0 4.0 2.0 6.0 10.0 406.0 44.0 c 0 0 0 0 0 0 0 790.0 997.0 995.0 997.0 989.0 977.0 357.0 550.0 g 0 0 0 0 0 0 0 137.0 0.0 0.0 0.0 0.0 3.0 110.0 70.0 t 0 0 0 0 0 0 0 0.0 0.0 0.0 0.0 4.0 8.0 125.0 334.0

MA1653.1_shift0 (ZNF148)
; dyads_m46 versus MA1653.1 (ZNF148); m=6/7; ncol2=12; w=9; offset=-3; strand=D; shift=0; score=0.450687; ysCCCCTCCCcc--- ; cor=; Ncor= a 1399.0 1263.0 82.0 132.0 136.0 89.0 133.0 66.0 352.0 442.0 846.0 841.0 0 0 0 c 4593.0 4057.0 10799.0 10396.0 10526.0 10833.0 14.0 10954.0 9922.0 9283.0 7239.0 7114.0 0 0 0 g 2241.0 3215.0 205.0 471.0 401.0 211.0 1012.0 112.0 460.0 392.0 1924.0 2064.0 0 0 0 t 2966.0 2664.0 113.0 200.0 136.0 66.0 10040.0 67.0 465.0 1082.0 1190.0 1180.0 0 0 0

MA1630.1_rc_shift7 (Znf281_rc)
; dyads_m46 versus MA1630.1_rc (Znf281_rc); m=7/7; ncol2=11; w=8; offset=4; strand=R; shift=7; score=0.415062; -------CcTCCCCC ; cor=; Ncor= a 0 0 0 0 0 0 0 315.0 1103.0 11.0 52.0 29.0 23.0 24.0 12.0 c 0 0 0 0 0 0 0 5523.0 4312.0 8.0 6457.0 6402.0 6378.0 6356.0 6449.0 g 0 0 0 0 0 0 0 356.0 418.0 45.0 41.0 115.0 131.0 163.0 88.0 t 0 0 0 0 0 0 0 374.0 735.0 6504.0 18.0 22.0 36.0 25.0 19.0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
dyads_m46_shift3 (dyads_m46dyads_m46)				; dyads_m46 (dyads_m46dyads_m46); m=0 (reference); ncol1=12; shift=3; ncol=15; ---ssCTCykCCChs ; Alignment reference a 0 0 0 1752 1433 0 0 0 2280 1717 0 0 0 3089 1727 c 0 0 0 3607 4211 11098 0 11098 4625 2352 11098 11098 11098 3361 4048 g 0 0 0 3333 3375 0 0 0 1147 3952 0 0 0 1597 3446 t 0 0 0 2406 2079 0 11098 0 3046 3077 0 0 0 3051 1877
MA0039.4_shift3 (KLF4)				; dyads_m46 versus MA0039.4 (KLF4); m=1/7; ncol2=12; w=12; offset=0; strand=D; shift=3; score=0.70458; ---ssCCCCACCChs ; cor=; Ncor= a 0 0 0 12570.0 11487.0 2465.0 2105.0 7021.0 1173.0 45602.0 852.0 1617.0 1202.0 16264.0 9959.0 c 0 0 0 17520.0 14038.0 49209.0 47865.0 45405.0 52875.0 161.0 52366.0 51112.0 51045.0 18249.0 19217.0 g 0 0 0 14243.0 18473.0 1583.0 1214.0 1422.0 793.0 6598.0 1470.0 1870.0 1005.0 6292.0 14422.0 t 0 0 0 11484.0 11819.0 2560.0 4633.0 1969.0 976.0 3456.0 1129.0 1218.0 2565.0 15012.0 12219.0
MA0528.2_rc_shift4 (ZNF263_rc)				; dyads_m46 versus MA0528.2_rc (ZNF263_rc); m=2/7; ncol2=12; w=11; offset=1; strand=R; shift=4; score=0.703925; ----csTCCTCCCcs ; cor=; Ncor= a 0 0 0 0 11103.0 6566.0 638.0 717.0 1672.0 620.0 986.0 1192.0 1270.0 8247.0 12535.0 c 0 0 0 0 25115.0 24825.0 1448.0 52741.0 52875.0 163.0 53435.0 52818.0 51804.0 28912.0 17883.0 g 0 0 0 0 11689.0 15413.0 1758.0 2190.0 966.0 1660.0 972.0 1544.0 1659.0 6183.0 14909.0 t 0 0 0 0 8436.0 9539.0 52499.0 695.0 830.0 53900.0 950.0 789.0 1610.0 13001.0 11016.0
MA0599.1_shift4 (KLF5)				; dyads_m46 versus MA0599.1 (KLF5); m=3/7; ncol2=10; w=10; offset=1; strand=D; shift=4; score=0.612112; ----gCCMCrCCCh- ; cor=; Ncor= a 0 0 0 0 1429.0 0.0 0.0 3477.0 0.0 5051.0 0.0 0.0 0.0 3915.0 0 c 0 0 0 0 2023.0 11900.0 12008.0 9569.0 13611.0 0.0 13611.0 13611.0 13135.0 5595.0 0 g 0 0 0 0 7572.0 0.0 0.0 0.0 0.0 5182.0 0.0 0.0 0.0 0.0 0 t 0 0 0 0 2587.0 1711.0 1603.0 565.0 0.0 3378.0 0.0 0.0 476.0 4101.0 0
MA0597.1_shift7 (THAP1)				; dyads_m46 versus MA0597.1 (THAP1); m=4/7; ncol2=9; w=8; offset=4; strand=D; shift=7; score=0.499003; -------ytGCCMky ; cor=; Ncor= a 0 0 0 0 0 0 0 18.0 15.0 20.0 7.0 3.0 58.0 47.0 30.0 c 0 0 0 0 0 0 0 93.0 47.0 0.0 182.0 195.0 136.0 17.0 71.0 g 0 0 0 0 0 0 0 27.0 12.0 137.0 0.0 0.0 1.0 77.0 41.0 t 0 0 0 0 0 0 0 61.0 125.0 42.0 10.0 1.0 4.0 58.0 57.0
MA1578.1_shift7 (VEZF1)				; dyads_m46 versus MA1578.1 (VEZF1); m=5/7; ncol2=10; w=8; offset=4; strand=D; shift=7; score=0.458253; -------CCCCCCmy ; cor=; Ncor= a 0 0 0 0 0 0 0 71.0 1.0 4.0 2.0 6.0 10.0 406.0 44.0 c 0 0 0 0 0 0 0 790.0 997.0 995.0 997.0 989.0 977.0 357.0 550.0 g 0 0 0 0 0 0 0 137.0 0.0 0.0 0.0 0.0 3.0 110.0 70.0 t 0 0 0 0 0 0 0 0.0 0.0 0.0 0.0 4.0 8.0 125.0 334.0
MA1653.1_shift0 (ZNF148)				; dyads_m46 versus MA1653.1 (ZNF148); m=6/7; ncol2=12; w=9; offset=-3; strand=D; shift=0; score=0.450687; ysCCCCTCCCcc--- ; cor=; Ncor= a 1399.0 1263.0 82.0 132.0 136.0 89.0 133.0 66.0 352.0 442.0 846.0 841.0 0 0 0 c 4593.0 4057.0 10799.0 10396.0 10526.0 10833.0 14.0 10954.0 9922.0 9283.0 7239.0 7114.0 0 0 0 g 2241.0 3215.0 205.0 471.0 401.0 211.0 1012.0 112.0 460.0 392.0 1924.0 2064.0 0 0 0 t 2966.0 2664.0 113.0 200.0 136.0 66.0 10040.0 67.0 465.0 1082.0 1190.0 1180.0 0 0 0
MA1630.1_rc_shift7 (Znf281_rc)				; dyads_m46 versus MA1630.1_rc (Znf281_rc); m=7/7; ncol2=11; w=8; offset=4; strand=R; shift=7; score=0.415062; -------CcTCCCCC ; cor=; Ncor= a 0 0 0 0 0 0 0 315.0 1103.0 11.0 52.0 29.0 23.0 24.0 12.0 c 0 0 0 0 0 0 0 5523.0 4312.0 8.0 6457.0 6402.0 6378.0 6356.0 6449.0 g 0 0 0 0 0 0 0 356.0 418.0 45.0 41.0 115.0 131.0 163.0 88.0 t 0 0 0 0 0 0 0 374.0 735.0 6504.0 18.0 22.0 36.0 25.0 19.0