One-to-n alignments

Command: compare-matrices  -v 1 -mode matches -format1 transfac -file1 Myogenin_Rep1_motifs50/results/discovered_motifs/local_words_6nt_m10/peak-motifs_local_words_6nt_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_6nt_m10/peak-motifs_local_words_6nt_m10_vs_db_jaspar_core_nonredundant_vertebrates

One-to-n matrix alignment; reference matrix: local_words_6nt_m10_shift0 ; 7 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
local_words_6nt_m10_shift0 (local_words_6nt_m10local_words_6nt_m10)
; local_words_6nt_m10 (local_words_6nt_m10local_words_6nt_m10); m=0 (reference); ncol1=23; shift=0; ncol=23; ksAGCTGGCAGCAGCTGCTccbs ; Alignment reference a 25 15 75 2 4 8 3 6 4 94 5 0 87 1 0 4 0 2 5 5 9 17 18 c 24 38 5 4 80 6 5 14 87 1 7 101 4 2 97 1 4 85 3 68 67 27 26 g 26 28 17 94 10 7 89 72 7 0 86 0 2 96 1 2 97 9 2 19 7 28 40 t 26 20 4 1 7 80 4 9 3 6 3 0 8 2 3 94 0 5 91 9 18 29 17

MA1529.1_shift5 (NHLH2)
; local_words_6nt_m10 versus MA1529.1 (NHLH2); m=1/6; ncol2=18; w=18; offset=5; strand=D; shift=5; score=0.55241; -----ggGyMGCAGCTGCGyCmc ; cor=; Ncor= a 0 0 0 0 0 4834.0 4312.0 3741.0 4921.0 5603.0 2378.0 2.0 21364.0 6.0 525.0 0.0 0.0 693.0 210.0 1184.0 3766.0 6392.0 3601.0 c 0 0 0 0 0 2655.0 2219.0 1065.0 6141.0 15451.0 2324.0 21359.0 0.0 2459.0 20268.0 14.0 2.0 20611.0 204.0 7207.0 18351.0 13462.0 11271.0 g 0 0 0 0 0 9732.0 13903.0 18450.0 4908.0 671.0 18930.0 2.0 26.0 20096.0 2266.0 3.0 21363.0 275.0 20977.0 1520.0 1183.0 1579.0 2264.0 t 0 0 0 0 0 4143.0 5198.0 2763.0 5394.0 151.0 2634.0 5.0 1.0 1054.0 0.0 21358.0 0.0 1230.0 740.0 13503.0 2533.0 3330.0 4228.0

MA1485.1_shift7 (FERD3L)
; local_words_6nt_m10 versus MA1485.1 (FERD3L); m=2/6; ncol2=14; w=14; offset=7; strand=D; shift=7; score=0.445548; -------GyrmCAGCTGTyAC-- ; cor=; Ncor= a 0 0 0 0 0 0 0 2158.0 450.0 14384.0 15390.0 36.0 29605.0 0.0 3649.0 81.0 0.0 1268.0 103.0 29605.0 0.0 0 0 c 0 0 0 0 0 0 0 68.0 20049.0 2443.0 9363.0 29605.0 126.0 841.0 29605.0 129.0 0.0 3878.0 8664.0 809.0 29605.0 0 0 g 0 0 0 0 0 0 0 29605.0 348.0 12703.0 3142.0 0.0 118.0 29605.0 471.0 210.0 29605.0 3395.0 5920.0 9815.0 0.0 0 0 t 0 0 0 0 0 0 0 225.0 9557.0 74.0 1710.0 0.0 144.0 4691.0 0.0 29605.0 0.0 21065.0 14919.0 958.0 48.0 0 0

MA0500.2_shift8 (MYOG)
; local_words_6nt_m10 versus MA0500.2 (MYOG); m=3/6; ncol2=12; w=12; offset=8; strand=D; shift=8; score=0.442161; --------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

MA0832.1_rc_shift7 (Tcf21_rc)
; local_words_6nt_m10 versus MA0832.1_rc (Tcf21_rc); m=4/6; ncol2=14; w=14; offset=7; strand=R; shift=7; score=0.43747; -------ryAACAGCTGTTry-- ; cor=; Ncor= a 0 0 0 0 0 0 0 60.0 19.0 171.0 171.0 0.0 171.0 1.0 2.0 0.0 0.0 0.0 3.0 46.0 17.0 0 0 c 0 0 0 0 0 0 0 32.0 80.0 0.0 20.0 171.0 0.0 1.0 171.0 0.0 0.0 0.0 23.0 22.0 70.0 0 0 g 0 0 0 0 0 0 0 49.0 23.0 23.0 4.0 0.0 0.0 171.0 0.0 1.0 171.0 10.0 1.0 76.0 29.0 0 0 t 0 0 0 0 0 0 0 30.0 50.0 5.0 0.0 0.0 0.0 0.0 0.0 171.0 0.0 171.0 171.0 28.0 55.0 0 0

MA0816.1_shift9 (Ascl2)
; local_words_6nt_m10 versus MA0816.1 (Ascl2); m=5/6; ncol2=10; w=10; offset=9; strand=D; shift=9; score=0.410718; ---------arCAGCTGyy---- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 237.0 128.0 3.0 300.0 7.0 3.0 4.0 0.0 6.0 34.0 0 0 0 0 c 0 0 0 0 0 0 0 0 0 36.0 41.0 300.0 0.0 23.0 300.0 0.0 1.0 206.0 101.0 0 0 0 0 g 0 0 0 0 0 0 0 0 0 63.0 172.0 0.0 0.0 300.0 2.0 0.0 300.0 15.0 28.0 0 0 0 0 t 0 0 0 0 0 0 0 0 0 16.0 1.0 1.0 15.0 18.0 1.0 300.0 2.0 94.0 199.0 0 0 0 0

MA1631.1_shift8 (ASCL1(var.2))
; local_words_6nt_m10 versus MA1631.1 (ASCL1(var.2)); m=6/6; ncol2=13; w=13; offset=8; strand=D; shift=8; score=0.400725; --------cdgCACCTGCysc-- ; cor=; Ncor= a 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 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 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 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

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
local_words_6nt_m10_shift0 (local_words_6nt_m10local_words_6nt_m10)				; local_words_6nt_m10 (local_words_6nt_m10local_words_6nt_m10); m=0 (reference); ncol1=23; shift=0; ncol=23; ksAGCTGGCAGCAGCTGCTccbs ; Alignment reference a 25 15 75 2 4 8 3 6 4 94 5 0 87 1 0 4 0 2 5 5 9 17 18 c 24 38 5 4 80 6 5 14 87 1 7 101 4 2 97 1 4 85 3 68 67 27 26 g 26 28 17 94 10 7 89 72 7 0 86 0 2 96 1 2 97 9 2 19 7 28 40 t 26 20 4 1 7 80 4 9 3 6 3 0 8 2 3 94 0 5 91 9 18 29 17
MA1529.1_shift5 (NHLH2)				; local_words_6nt_m10 versus MA1529.1 (NHLH2); m=1/6; ncol2=18; w=18; offset=5; strand=D; shift=5; score=0.55241; -----ggGyMGCAGCTGCGyCmc ; cor=; Ncor= a 0 0 0 0 0 4834.0 4312.0 3741.0 4921.0 5603.0 2378.0 2.0 21364.0 6.0 525.0 0.0 0.0 693.0 210.0 1184.0 3766.0 6392.0 3601.0 c 0 0 0 0 0 2655.0 2219.0 1065.0 6141.0 15451.0 2324.0 21359.0 0.0 2459.0 20268.0 14.0 2.0 20611.0 204.0 7207.0 18351.0 13462.0 11271.0 g 0 0 0 0 0 9732.0 13903.0 18450.0 4908.0 671.0 18930.0 2.0 26.0 20096.0 2266.0 3.0 21363.0 275.0 20977.0 1520.0 1183.0 1579.0 2264.0 t 0 0 0 0 0 4143.0 5198.0 2763.0 5394.0 151.0 2634.0 5.0 1.0 1054.0 0.0 21358.0 0.0 1230.0 740.0 13503.0 2533.0 3330.0 4228.0
MA1485.1_shift7 (FERD3L)				; local_words_6nt_m10 versus MA1485.1 (FERD3L); m=2/6; ncol2=14; w=14; offset=7; strand=D; shift=7; score=0.445548; -------GyrmCAGCTGTyAC-- ; cor=; Ncor= a 0 0 0 0 0 0 0 2158.0 450.0 14384.0 15390.0 36.0 29605.0 0.0 3649.0 81.0 0.0 1268.0 103.0 29605.0 0.0 0 0 c 0 0 0 0 0 0 0 68.0 20049.0 2443.0 9363.0 29605.0 126.0 841.0 29605.0 129.0 0.0 3878.0 8664.0 809.0 29605.0 0 0 g 0 0 0 0 0 0 0 29605.0 348.0 12703.0 3142.0 0.0 118.0 29605.0 471.0 210.0 29605.0 3395.0 5920.0 9815.0 0.0 0 0 t 0 0 0 0 0 0 0 225.0 9557.0 74.0 1710.0 0.0 144.0 4691.0 0.0 29605.0 0.0 21065.0 14919.0 958.0 48.0 0 0
MA0500.2_shift8 (MYOG)				; local_words_6nt_m10 versus MA0500.2 (MYOG); m=3/6; ncol2=12; w=12; offset=8; strand=D; shift=8; score=0.442161; --------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
MA0832.1_rc_shift7 (Tcf21_rc)				; local_words_6nt_m10 versus MA0832.1_rc (Tcf21_rc); m=4/6; ncol2=14; w=14; offset=7; strand=R; shift=7; score=0.43747; -------ryAACAGCTGTTry-- ; cor=; Ncor= a 0 0 0 0 0 0 0 60.0 19.0 171.0 171.0 0.0 171.0 1.0 2.0 0.0 0.0 0.0 3.0 46.0 17.0 0 0 c 0 0 0 0 0 0 0 32.0 80.0 0.0 20.0 171.0 0.0 1.0 171.0 0.0 0.0 0.0 23.0 22.0 70.0 0 0 g 0 0 0 0 0 0 0 49.0 23.0 23.0 4.0 0.0 0.0 171.0 0.0 1.0 171.0 10.0 1.0 76.0 29.0 0 0 t 0 0 0 0 0 0 0 30.0 50.0 5.0 0.0 0.0 0.0 0.0 0.0 171.0 0.0 171.0 171.0 28.0 55.0 0 0
MA0816.1_shift9 (Ascl2)				; local_words_6nt_m10 versus MA0816.1 (Ascl2); m=5/6; ncol2=10; w=10; offset=9; strand=D; shift=9; score=0.410718; ---------arCAGCTGyy---- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 237.0 128.0 3.0 300.0 7.0 3.0 4.0 0.0 6.0 34.0 0 0 0 0 c 0 0 0 0 0 0 0 0 0 36.0 41.0 300.0 0.0 23.0 300.0 0.0 1.0 206.0 101.0 0 0 0 0 g 0 0 0 0 0 0 0 0 0 63.0 172.0 0.0 0.0 300.0 2.0 0.0 300.0 15.0 28.0 0 0 0 0 t 0 0 0 0 0 0 0 0 0 16.0 1.0 1.0 15.0 18.0 1.0 300.0 2.0 94.0 199.0 0 0 0 0
MA1631.1_shift8 (ASCL1(var.2))				; local_words_6nt_m10 versus MA1631.1 (ASCL1(var.2)); m=6/6; ncol2=13; w=13; offset=8; strand=D; shift=8; score=0.400725; --------cdgCACCTGCysc-- ; cor=; Ncor= a 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 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 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 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