One-to-n alignments

Command: compare-matrices  -v 1 -mode matches -format1 transfac -file1 Myogenin_Rep1_motifs50/results/discovered_motifs/local_words_7nt_m24/peak-motifs_local_words_7nt_m24.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_m24/peak-motifs_local_words_7nt_m24_vs_db_jaspar_core_nonredundant_vertebrates

One-to-n matrix alignment; reference matrix: local_words_7nt_m24_shift0 ; 7 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
local_words_7nt_m24_shift0 (local_words_7nt_m24local_words_7nt_m24)
; local_words_7nt_m24 (local_words_7nt_m24local_words_7nt_m24); m=0 (reference); ncol1=24; shift=0; ncol=24; cwGCtGcCaCAGCAGCTGTCaCys ; Alignment reference a 29 44 7 12 26 6 11 16 89 7 116 7 0 126 0 1 0 0 5 1 85 7 24 25 c 74 24 16 114 11 29 92 105 15 113 4 8 135 2 7 131 0 0 14 123 26 97 50 42 g 20 29 105 7 10 96 7 8 23 8 9 120 3 0 131 4 3 138 3 5 13 23 20 38 t 15 41 10 5 91 7 28 9 11 10 9 3 0 10 0 2 135 0 116 9 14 11 44 33

MA1485.1_shift8 (FERD3L)
; local_words_7nt_m24 versus MA1485.1 (FERD3L); m=1/6; ncol2=14; w=14; offset=8; strand=D; shift=8; score=0.457087; --------GyrmCAGCTGTyAC-- ; cor=; Ncor= a 0 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 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 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 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

MA1521.1_rc_shift0 (MAFA_rc)
; local_words_7nt_m24 versus MA1521.1_rc (MAFA_rc); m=2/6; ncol2=15; w=15; offset=0; strand=R; shift=0; score=0.447985; dtGCTGAsTCAGCAh--------- ; cor=; Ncor= a 2340.0 802.0 258.0 973.0 1123.0 715.0 7524.0 657.0 1231.0 1291.0 8138.0 540.0 119.0 6277.0 2475.0 0 0 0 0 0 0 0 0 0 c 1532.0 1956.0 221.0 7957.0 889.0 422.0 1781.0 4024.0 317.0 8028.0 451.0 185.0 8343.0 316.0 2152.0 0 0 0 0 0 0 0 0 0 g 2126.0 223.0 8371.0 104.0 453.0 7985.0 240.0 3985.0 1615.0 475.0 986.0 7939.0 206.0 1857.0 1563.0 0 0 0 0 0 0 0 0 0 t 2465.0 6132.0 26.0 473.0 8128.0 1204.0 1281.0 602.0 7498.0 668.0 973.0 970.0 304.0 673.0 2273.0 0 0 0 0 0 0 0 0 0

MA0832.1_rc_shift8 (Tcf21_rc)
; local_words_7nt_m24 versus MA0832.1_rc (Tcf21_rc); m=3/6; ncol2=14; w=14; offset=8; strand=R; shift=8; score=0.442369; --------ryAACAGCTGTTry-- ; cor=; Ncor= a 0 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 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 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 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

MA0499.2_shift9 (MYOD1)
; local_words_7nt_m24 versus MA0499.2 (MYOD1); m=4/6; ncol2=13; w=13; offset=9; strand=D; shift=9; score=0.441097; ---------cwgCACCTGTymy-- ; cor=; Ncor= a 0 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 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 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 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

MA0500.2_rc_shift9 (MYOG_rc)
; local_words_7nt_m24 versus MA0500.2_rc (MYOG_rc); m=5/6; ncol2=12; w=12; offset=9; strand=R; shift=9; score=0.412947; ---------sarCAGCTGyts--- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 5310.0 8475.0 7192.0 88.0 21777.0 95.0 169.0 163.0 182.0 1678.0 4692.0 5070.0 0 0 0 c 0 0 0 0 0 0 0 0 0 6369.0 3718.0 2706.0 21985.0 179.0 131.0 21963.0 236.0 101.0 10790.0 5483.0 5596.0 0 0 0 g 0 0 0 0 0 0 0 0 0 5660.0 5497.0 10792.0 102.0 238.0 21964.0 130.0 176.0 21988.0 2730.0 3754.0 6381.0 0 0 0 t 0 0 0 0 0 0 0 0 0 5018.0 4667.0 1667.0 182.0 163.0 167.0 95.0 21782.0 86.0 7159.0 8428.0 5310.0 0 0 0

MA0521.1_rc_shift9 (Tcf12_rc)
; local_words_7nt_m24 versus MA0521.1_rc (Tcf12_rc); m=6/6; ncol2=11; w=11; offset=9; strand=R; shift=9; score=0.40241; ---------cwsCAGCTGYy---- ; cor=; Ncor= a 0 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 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 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 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

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
local_words_7nt_m24_shift0 (local_words_7nt_m24local_words_7nt_m24)				; local_words_7nt_m24 (local_words_7nt_m24local_words_7nt_m24); m=0 (reference); ncol1=24; shift=0; ncol=24; cwGCtGcCaCAGCAGCTGTCaCys ; Alignment reference a 29 44 7 12 26 6 11 16 89 7 116 7 0 126 0 1 0 0 5 1 85 7 24 25 c 74 24 16 114 11 29 92 105 15 113 4 8 135 2 7 131 0 0 14 123 26 97 50 42 g 20 29 105 7 10 96 7 8 23 8 9 120 3 0 131 4 3 138 3 5 13 23 20 38 t 15 41 10 5 91 7 28 9 11 10 9 3 0 10 0 2 135 0 116 9 14 11 44 33
MA1485.1_shift8 (FERD3L)				; local_words_7nt_m24 versus MA1485.1 (FERD3L); m=1/6; ncol2=14; w=14; offset=8; strand=D; shift=8; score=0.457087; --------GyrmCAGCTGTyAC-- ; cor=; Ncor= a 0 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 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 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 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
MA1521.1_rc_shift0 (MAFA_rc)				; local_words_7nt_m24 versus MA1521.1_rc (MAFA_rc); m=2/6; ncol2=15; w=15; offset=0; strand=R; shift=0; score=0.447985; dtGCTGAsTCAGCAh--------- ; cor=; Ncor= a 2340.0 802.0 258.0 973.0 1123.0 715.0 7524.0 657.0 1231.0 1291.0 8138.0 540.0 119.0 6277.0 2475.0 0 0 0 0 0 0 0 0 0 c 1532.0 1956.0 221.0 7957.0 889.0 422.0 1781.0 4024.0 317.0 8028.0 451.0 185.0 8343.0 316.0 2152.0 0 0 0 0 0 0 0 0 0 g 2126.0 223.0 8371.0 104.0 453.0 7985.0 240.0 3985.0 1615.0 475.0 986.0 7939.0 206.0 1857.0 1563.0 0 0 0 0 0 0 0 0 0 t 2465.0 6132.0 26.0 473.0 8128.0 1204.0 1281.0 602.0 7498.0 668.0 973.0 970.0 304.0 673.0 2273.0 0 0 0 0 0 0 0 0 0
MA0832.1_rc_shift8 (Tcf21_rc)				; local_words_7nt_m24 versus MA0832.1_rc (Tcf21_rc); m=3/6; ncol2=14; w=14; offset=8; strand=R; shift=8; score=0.442369; --------ryAACAGCTGTTry-- ; cor=; Ncor= a 0 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 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 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 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
MA0499.2_shift9 (MYOD1)				; local_words_7nt_m24 versus MA0499.2 (MYOD1); m=4/6; ncol2=13; w=13; offset=9; strand=D; shift=9; score=0.441097; ---------cwgCACCTGTymy-- ; cor=; Ncor= a 0 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 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 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 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
MA0500.2_rc_shift9 (MYOG_rc)				; local_words_7nt_m24 versus MA0500.2_rc (MYOG_rc); m=5/6; ncol2=12; w=12; offset=9; strand=R; shift=9; score=0.412947; ---------sarCAGCTGyts--- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 5310.0 8475.0 7192.0 88.0 21777.0 95.0 169.0 163.0 182.0 1678.0 4692.0 5070.0 0 0 0 c 0 0 0 0 0 0 0 0 0 6369.0 3718.0 2706.0 21985.0 179.0 131.0 21963.0 236.0 101.0 10790.0 5483.0 5596.0 0 0 0 g 0 0 0 0 0 0 0 0 0 5660.0 5497.0 10792.0 102.0 238.0 21964.0 130.0 176.0 21988.0 2730.0 3754.0 6381.0 0 0 0 t 0 0 0 0 0 0 0 0 0 5018.0 4667.0 1667.0 182.0 163.0 167.0 95.0 21782.0 86.0 7159.0 8428.0 5310.0 0 0 0
MA0521.1_rc_shift9 (Tcf12_rc)				; local_words_7nt_m24 versus MA0521.1_rc (Tcf12_rc); m=6/6; ncol2=11; w=11; offset=9; strand=R; shift=9; score=0.40241; ---------cwsCAGCTGYy---- ; cor=; Ncor= a 0 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 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 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 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