One-to-n alignments

Command: compare-matrices  -v 1 -mode matches -format1 transfac -file1 Myogenin_Rep1_motifs50/results/discovered_motifs/positions_8nt_m5/peak-motifs_positions_8nt_m5.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/positions_8nt_m5/peak-motifs_positions_8nt_m5_vs_db_jaspar_core_nonredundant_vertebrates

One-to-n matrix alignment; reference matrix: positions_8nt_m5_shift0 ; 4 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
positions_8nt_m5_shift0 (positions_8nt_m5positions_8nt_m5)
; positions_8nt_m5 (positions_8nt_m5positions_8nt_m5); m=0 (reference); ncol1=23; shift=0; ncol=23; cgcGCCAGCTGCAGCTGTCCmts ; Alignment reference a 18 22 25 8 10 3 102 5 3 7 1 0 109 0 3 3 4 3 2 9 33 21 26 c 56 28 43 10 93 111 7 24 111 5 4 120 1 3 116 0 4 5 103 103 51 30 44 g 29 49 23 94 13 4 2 89 5 0 116 1 1 114 1 0 113 25 7 3 14 22 36 t 18 22 30 9 5 3 10 3 2 109 0 0 10 4 1 118 0 88 9 6 23 48 15

MA0499.2_shift8 (MYOD1)
; positions_8nt_m5 versus MA0499.2 (MYOD1); m=1/3; ncol2=13; w=13; offset=8; strand=D; shift=8; score=0.440806; --------cwgCACCTGTymy-- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 7175.0 9462.0 4549.0 349.0 32281.0 463.0 534.0 241.0 208.0 402.0 1808.0 9462.0 5687.0 0 0 c 0 0 0 0 0 0 0 0 11279.0 7103.0 5622.0 33328.0 583.0 25275.0 32504.0 563.0 386.0 2555.0 19052.0 10485.0 11760.0 0 0 g 0 0 0 0 0 0 0 0 8118.0 8444.0 21884.0 354.0 849.0 7336.0 932.0 366.0 33468.0 1699.0 4440.0 6202.0 7495.0 0 0 t 0 0 0 0 0 0 0 0 7728.0 9291.0 2245.0 269.0 587.0 1226.0 330.0 33130.0 238.0 29644.0 9000.0 8151.0 9358.0 0 0

MA0521.1_rc_shift8 (Tcf12_rc)
; positions_8nt_m5 versus MA0521.1_rc (Tcf12_rc); m=2/3; ncol2=11; w=11; offset=8; strand=R; shift=8; score=0.407782; --------cwsCAGCTGYy---- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 2191.0 3642.0 1682.0 0.0 12895.0 0.0 0.0 0.0 0.0 0.0 17.0 0 0 0 0 c 0 0 0 0 0 0 0 0 4836.0 2925.0 3811.0 12895.0 0.0 1889.0 12887.0 0.0 0.0 3951.0 5123.0 0 0 0 0 g 0 0 0 0 0 0 0 0 3005.0 2416.0 5527.0 0.0 0.0 10822.0 0.0 0.0 12895.0 124.0 1585.0 0 0 0 0 t 0 0 0 0 0 0 0 0 2863.0 3912.0 1875.0 0.0 0.0 184.0 8.0 12895.0 0.0 8820.0 6170.0 0 0 0 0

MA0500.2_shift8 (MYOG)
; positions_8nt_m5 versus MA0500.2 (MYOG); m=3/3; ncol2=12; w=12; offset=8; strand=D; shift=8; score=0.400616; --------sarCAGCTGyts--- ; cor=; Ncor= a 0 0 0 0 0 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 c 0 0 0 0 0 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 g 0 0 0 0 0 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 t 0 0 0 0 0 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

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
positions_8nt_m5_shift0 (positions_8nt_m5positions_8nt_m5)				; positions_8nt_m5 (positions_8nt_m5positions_8nt_m5); m=0 (reference); ncol1=23; shift=0; ncol=23; cgcGCCAGCTGCAGCTGTCCmts ; Alignment reference a 18 22 25 8 10 3 102 5 3 7 1 0 109 0 3 3 4 3 2 9 33 21 26 c 56 28 43 10 93 111 7 24 111 5 4 120 1 3 116 0 4 5 103 103 51 30 44 g 29 49 23 94 13 4 2 89 5 0 116 1 1 114 1 0 113 25 7 3 14 22 36 t 18 22 30 9 5 3 10 3 2 109 0 0 10 4 1 118 0 88 9 6 23 48 15
MA0499.2_shift8 (MYOD1)				; positions_8nt_m5 versus MA0499.2 (MYOD1); m=1/3; ncol2=13; w=13; offset=8; strand=D; shift=8; score=0.440806; --------cwgCACCTGTymy-- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 7175.0 9462.0 4549.0 349.0 32281.0 463.0 534.0 241.0 208.0 402.0 1808.0 9462.0 5687.0 0 0 c 0 0 0 0 0 0 0 0 11279.0 7103.0 5622.0 33328.0 583.0 25275.0 32504.0 563.0 386.0 2555.0 19052.0 10485.0 11760.0 0 0 g 0 0 0 0 0 0 0 0 8118.0 8444.0 21884.0 354.0 849.0 7336.0 932.0 366.0 33468.0 1699.0 4440.0 6202.0 7495.0 0 0 t 0 0 0 0 0 0 0 0 7728.0 9291.0 2245.0 269.0 587.0 1226.0 330.0 33130.0 238.0 29644.0 9000.0 8151.0 9358.0 0 0
MA0521.1_rc_shift8 (Tcf12_rc)				; positions_8nt_m5 versus MA0521.1_rc (Tcf12_rc); m=2/3; ncol2=11; w=11; offset=8; strand=R; shift=8; score=0.407782; --------cwsCAGCTGYy---- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 2191.0 3642.0 1682.0 0.0 12895.0 0.0 0.0 0.0 0.0 0.0 17.0 0 0 0 0 c 0 0 0 0 0 0 0 0 4836.0 2925.0 3811.0 12895.0 0.0 1889.0 12887.0 0.0 0.0 3951.0 5123.0 0 0 0 0 g 0 0 0 0 0 0 0 0 3005.0 2416.0 5527.0 0.0 0.0 10822.0 0.0 0.0 12895.0 124.0 1585.0 0 0 0 0 t 0 0 0 0 0 0 0 0 2863.0 3912.0 1875.0 0.0 0.0 184.0 8.0 12895.0 0.0 8820.0 6170.0 0 0 0 0
MA0500.2_shift8 (MYOG)				; positions_8nt_m5 versus MA0500.2 (MYOG); m=3/3; ncol2=12; w=12; offset=8; strand=D; shift=8; score=0.400616; --------sarCAGCTGyts--- ; cor=; Ncor= a 0 0 0 0 0 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 c 0 0 0 0 0 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 g 0 0 0 0 0 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 t 0 0 0 0 0 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