One-to-n alignments

Command: compare-matrices  -v 1 -mode matches -format1 transfac -file1 Myogenin_Rep1_motifs50/results/discovered_motifs/local_words_7nt_m10/peak-motifs_local_words_7nt_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_Rep1_motifs50/results/discovered_motifs/local_words_7nt_m10/peak-motifs_local_words_7nt_m10_vs_db_jaspar_core_nonredundant_vertebrates

One-to-n matrix alignment; reference matrix: local_words_7nt_m10_shift0 ; 7 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
local_words_7nt_m10_shift0 (local_words_7nt_m10local_words_7nt_m10)
; local_words_7nt_m10 (local_words_7nt_m10local_words_7nt_m10); m=0 (reference); ncol1=24; shift=0; ncol=24; bgGTGACAGCTGCAsCTGCTGCsg ; Alignment reference a 17 21 12 9 2 86 0 95 1 5 5 5 0 76 4 5 11 2 3 9 6 12 23 19 c 28 12 15 9 6 3 98 2 1 94 2 1 95 8 55 82 3 9 85 9 9 69 25 22 g 27 43 68 12 90 9 1 0 97 1 4 91 1 4 36 7 8 83 9 6 75 6 28 36 t 28 24 5 70 2 2 1 3 1 0 89 3 4 12 5 6 78 6 3 76 10 13 24 23

MA1485.1_rc_shift2 (FERD3L_rc)
; local_words_7nt_m10 versus MA1485.1_rc (FERD3L_rc); m=1/6; ncol2=14; w=14; offset=2; strand=R; shift=2; score=0.445409; --GTrACAGCTGkyrC-------- ; cor=; Ncor= a 0 0 48.0 958.0 14919.0 21065.0 0.0 29605.0 0.0 4691.0 144.0 0.0 1710.0 74.0 9557.0 225.0 0 0 0 0 0 0 0 0 c 0 0 0.0 9815.0 5920.0 3395.0 29605.0 210.0 471.0 29605.0 118.0 0.0 3142.0 12703.0 348.0 29605.0 0 0 0 0 0 0 0 0 g 0 0 29605.0 809.0 8664.0 3878.0 0.0 129.0 29605.0 841.0 126.0 29605.0 9363.0 2443.0 20049.0 68.0 0 0 0 0 0 0 0 0 t 0 0 0.0 29605.0 103.0 1268.0 0.0 81.0 3649.0 0.0 29605.0 36.0 15390.0 14384.0 450.0 2158.0 0 0 0 0 0 0 0 0

MA0499.2_rc_shift2 (MYOD1_rc)
; local_words_7nt_m10 versus MA0499.2_rc (MYOD1_rc); m=2/6; ncol2=13; w=13; offset=2; strand=R; shift=2; score=0.439192; --rkrACAGGTGcwg--------- ; cor=; Ncor= a 0 0 9358.0 8151.0 9000.0 29644.0 238.0 33130.0 330.0 1226.0 587.0 269.0 2245.0 9291.0 7728.0 0 0 0 0 0 0 0 0 0 c 0 0 7495.0 6202.0 4440.0 1699.0 33468.0 366.0 932.0 7336.0 849.0 354.0 21884.0 8444.0 8118.0 0 0 0 0 0 0 0 0 0 g 0 0 11760.0 10485.0 19052.0 2555.0 386.0 563.0 32504.0 25275.0 583.0 33328.0 5622.0 7103.0 11279.0 0 0 0 0 0 0 0 0 0 t 0 0 5687.0 9462.0 1808.0 402.0 208.0 241.0 534.0 463.0 32281.0 349.0 4549.0 9462.0 7175.0 0 0 0 0 0 0 0 0 0

MA1631.1_shift9 (ASCL1(var.2))
; local_words_7nt_m10 versus MA1631.1 (ASCL1(var.2)); m=3/6; ncol2=13; w=13; offset=9; strand=D; shift=9; score=0.414073; ---------cdgCACCTGCysc-- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 6833.0 8952.0 5836.0 184.0 32315.0 163.0 196.0 368.0 251.0 399.0 4490.0 7083.0 5972.0 0 0 c 0 0 0 0 0 0 0 0 0 11805.0 7998.0 6654.0 33562.0 563.0 30169.0 33402.0 740.0 445.0 28844.0 17883.0 10555.0 11996.0 0 0 g 0 0 0 0 0 0 0 0 0 8371.0 8601.0 18576.0 321.0 860.0 3209.0 607.0 492.0 33411.0 2719.0 2966.0 8939.0 8356.0 0 0 t 0 0 0 0 0 0 0 0 0 7347.0 8805.0 3290.0 289.0 618.0 815.0 151.0 32756.0 249.0 2394.0 9017.0 7779.0 8032.0 0 0

MA0830.2_shift9 (TCF4)
; local_words_7nt_m10 versus MA0830.2 (TCF4); m=4/6; ncol2=13; w=13; offset=9; strand=D; shift=9; score=0.409091; ---------cggCACCTGccss-- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 6048.0 7034.0 4168.0 243.0 27023.0 216.0 356.0 372.0 251.0 1694.0 5534.0 6413.0 5133.0 0 0 c 0 0 0 0 0 0 0 0 0 10052.0 6754.0 5062.0 28686.0 635.0 26765.0 27724.0 1016.0 540.0 18935.0 12872.0 8658.0 9843.0 0 0 g 0 0 0 0 0 0 0 0 0 7140.0 8618.0 18498.0 321.0 1295.0 1733.0 1197.0 679.0 28432.0 5281.0 4933.0 7964.0 7662.0 0 0 t 0 0 0 0 0 0 0 0 0 6225.0 7059.0 1737.0 215.0 512.0 751.0 188.0 27398.0 242.0 3555.0 6126.0 6430.0 6827.0 0 0

MA0521.1_shift4 (Tcf12)
; local_words_7nt_m10 versus MA0521.1 (Tcf12); m=5/6; ncol2=11; w=11; offset=4; strand=D; shift=4; score=0.401149; ----rRCAGCTGswg--------- ; cor=; Ncor= a 0 0 0 0 6170.0 8820.0 0.0 12895.0 8.0 184.0 0.0 0.0 1875.0 3912.0 2863.0 0 0 0 0 0 0 0 0 0 c 0 0 0 0 1585.0 124.0 12895.0 0.0 0.0 10822.0 0.0 0.0 5527.0 2416.0 3005.0 0 0 0 0 0 0 0 0 0 g 0 0 0 0 5123.0 3951.0 0.0 0.0 12887.0 1889.0 0.0 12895.0 3811.0 2925.0 4836.0 0 0 0 0 0 0 0 0 0 t 0 0 0 0 17.0 0.0 0.0 0.0 0.0 0.0 12895.0 0.0 1682.0 3642.0 2191.0 0 0 0 0 0 0 0 0 0

MA0500.2_shift3 (MYOG)
; local_words_7nt_m10 versus MA0500.2 (MYOG); m=6/6; ncol2=12; w=12; offset=3; strand=D; shift=3; score=0.400885; ---sarCAGCTGyts--------- ; cor=; Ncor= a 0 0 0 5310.0 8428.0 7159.0 86.0 21782.0 95.0 167.0 163.0 182.0 1667.0 4667.0 5018.0 0 0 0 0 0 0 0 0 0 c 0 0 0 6381.0 3754.0 2730.0 21988.0 176.0 130.0 21964.0 238.0 102.0 10792.0 5497.0 5660.0 0 0 0 0 0 0 0 0 0 g 0 0 0 5596.0 5483.0 10790.0 101.0 236.0 21963.0 131.0 179.0 21985.0 2706.0 3718.0 6369.0 0 0 0 0 0 0 0 0 0 t 0 0 0 5070.0 4692.0 1678.0 182.0 163.0 169.0 95.0 21777.0 88.0 7192.0 8475.0 5310.0 0 0 0 0 0 0 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
local_words_7nt_m10_shift0 (local_words_7nt_m10local_words_7nt_m10)				; local_words_7nt_m10 (local_words_7nt_m10local_words_7nt_m10); m=0 (reference); ncol1=24; shift=0; ncol=24; bgGTGACAGCTGCAsCTGCTGCsg ; Alignment reference a 17 21 12 9 2 86 0 95 1 5 5 5 0 76 4 5 11 2 3 9 6 12 23 19 c 28 12 15 9 6 3 98 2 1 94 2 1 95 8 55 82 3 9 85 9 9 69 25 22 g 27 43 68 12 90 9 1 0 97 1 4 91 1 4 36 7 8 83 9 6 75 6 28 36 t 28 24 5 70 2 2 1 3 1 0 89 3 4 12 5 6 78 6 3 76 10 13 24 23
MA1485.1_rc_shift2 (FERD3L_rc)				; local_words_7nt_m10 versus MA1485.1_rc (FERD3L_rc); m=1/6; ncol2=14; w=14; offset=2; strand=R; shift=2; score=0.445409; --GTrACAGCTGkyrC-------- ; cor=; Ncor= a 0 0 48.0 958.0 14919.0 21065.0 0.0 29605.0 0.0 4691.0 144.0 0.0 1710.0 74.0 9557.0 225.0 0 0 0 0 0 0 0 0 c 0 0 0.0 9815.0 5920.0 3395.0 29605.0 210.0 471.0 29605.0 118.0 0.0 3142.0 12703.0 348.0 29605.0 0 0 0 0 0 0 0 0 g 0 0 29605.0 809.0 8664.0 3878.0 0.0 129.0 29605.0 841.0 126.0 29605.0 9363.0 2443.0 20049.0 68.0 0 0 0 0 0 0 0 0 t 0 0 0.0 29605.0 103.0 1268.0 0.0 81.0 3649.0 0.0 29605.0 36.0 15390.0 14384.0 450.0 2158.0 0 0 0 0 0 0 0 0
MA0499.2_rc_shift2 (MYOD1_rc)				; local_words_7nt_m10 versus MA0499.2_rc (MYOD1_rc); m=2/6; ncol2=13; w=13; offset=2; strand=R; shift=2; score=0.439192; --rkrACAGGTGcwg--------- ; cor=; Ncor= a 0 0 9358.0 8151.0 9000.0 29644.0 238.0 33130.0 330.0 1226.0 587.0 269.0 2245.0 9291.0 7728.0 0 0 0 0 0 0 0 0 0 c 0 0 7495.0 6202.0 4440.0 1699.0 33468.0 366.0 932.0 7336.0 849.0 354.0 21884.0 8444.0 8118.0 0 0 0 0 0 0 0 0 0 g 0 0 11760.0 10485.0 19052.0 2555.0 386.0 563.0 32504.0 25275.0 583.0 33328.0 5622.0 7103.0 11279.0 0 0 0 0 0 0 0 0 0 t 0 0 5687.0 9462.0 1808.0 402.0 208.0 241.0 534.0 463.0 32281.0 349.0 4549.0 9462.0 7175.0 0 0 0 0 0 0 0 0 0
MA1631.1_shift9 (ASCL1(var.2))				; local_words_7nt_m10 versus MA1631.1 (ASCL1(var.2)); m=3/6; ncol2=13; w=13; offset=9; strand=D; shift=9; score=0.414073; ---------cdgCACCTGCysc-- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 6833.0 8952.0 5836.0 184.0 32315.0 163.0 196.0 368.0 251.0 399.0 4490.0 7083.0 5972.0 0 0 c 0 0 0 0 0 0 0 0 0 11805.0 7998.0 6654.0 33562.0 563.0 30169.0 33402.0 740.0 445.0 28844.0 17883.0 10555.0 11996.0 0 0 g 0 0 0 0 0 0 0 0 0 8371.0 8601.0 18576.0 321.0 860.0 3209.0 607.0 492.0 33411.0 2719.0 2966.0 8939.0 8356.0 0 0 t 0 0 0 0 0 0 0 0 0 7347.0 8805.0 3290.0 289.0 618.0 815.0 151.0 32756.0 249.0 2394.0 9017.0 7779.0 8032.0 0 0
MA0830.2_shift9 (TCF4)				; local_words_7nt_m10 versus MA0830.2 (TCF4); m=4/6; ncol2=13; w=13; offset=9; strand=D; shift=9; score=0.409091; ---------cggCACCTGccss-- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 6048.0 7034.0 4168.0 243.0 27023.0 216.0 356.0 372.0 251.0 1694.0 5534.0 6413.0 5133.0 0 0 c 0 0 0 0 0 0 0 0 0 10052.0 6754.0 5062.0 28686.0 635.0 26765.0 27724.0 1016.0 540.0 18935.0 12872.0 8658.0 9843.0 0 0 g 0 0 0 0 0 0 0 0 0 7140.0 8618.0 18498.0 321.0 1295.0 1733.0 1197.0 679.0 28432.0 5281.0 4933.0 7964.0 7662.0 0 0 t 0 0 0 0 0 0 0 0 0 6225.0 7059.0 1737.0 215.0 512.0 751.0 188.0 27398.0 242.0 3555.0 6126.0 6430.0 6827.0 0 0
MA0521.1_shift4 (Tcf12)				; local_words_7nt_m10 versus MA0521.1 (Tcf12); m=5/6; ncol2=11; w=11; offset=4; strand=D; shift=4; score=0.401149; ----rRCAGCTGswg--------- ; cor=; Ncor= a 0 0 0 0 6170.0 8820.0 0.0 12895.0 8.0 184.0 0.0 0.0 1875.0 3912.0 2863.0 0 0 0 0 0 0 0 0 0 c 0 0 0 0 1585.0 124.0 12895.0 0.0 0.0 10822.0 0.0 0.0 5527.0 2416.0 3005.0 0 0 0 0 0 0 0 0 0 g 0 0 0 0 5123.0 3951.0 0.0 0.0 12887.0 1889.0 0.0 12895.0 3811.0 2925.0 4836.0 0 0 0 0 0 0 0 0 0 t 0 0 0 0 17.0 0.0 0.0 0.0 0.0 0.0 12895.0 0.0 1682.0 3642.0 2191.0 0 0 0 0 0 0 0 0 0
MA0500.2_shift3 (MYOG)				; local_words_7nt_m10 versus MA0500.2 (MYOG); m=6/6; ncol2=12; w=12; offset=3; strand=D; shift=3; score=0.400885; ---sarCAGCTGyts--------- ; cor=; Ncor= a 0 0 0 5310.0 8428.0 7159.0 86.0 21782.0 95.0 167.0 163.0 182.0 1667.0 4667.0 5018.0 0 0 0 0 0 0 0 0 0 c 0 0 0 6381.0 3754.0 2730.0 21988.0 176.0 130.0 21964.0 238.0 102.0 10792.0 5497.0 5660.0 0 0 0 0 0 0 0 0 0 g 0 0 0 5596.0 5483.0 10790.0 101.0 236.0 21963.0 131.0 179.0 21985.0 2706.0 3718.0 6369.0 0 0 0 0 0 0 0 0 0 t 0 0 0 5070.0 4692.0 1678.0 182.0 163.0 169.0 95.0 21777.0 88.0 7192.0 8475.0 5310.0 0 0 0 0 0 0 0 0 0