One-to-n alignments

Command: compare-matrices  -v 1 -mode matches -format1 transfac -file1 Myogenin_Rep1_motifs50/results/discovered_motifs/oligos_7nt_mkv5_m11/peak-motifs_oligos_7nt_mkv5_m11.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/oligos_7nt_mkv5_m11/peak-motifs_oligos_7nt_mkv5_m11_vs_db_jaspar_core_nonredundant_vertebrates

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv5_m11_shift4 ; 5 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_mkv5_m11_shift4 (oligos_7nt_mkv5_m11oligos_7nt_mkv5_m11)
; oligos_7nt_mkv5_m11 (oligos_7nt_mkv5_m11oligos_7nt_mkv5_m11); m=0 (reference); ncol1=11; shift=4; ncol=16; ----gdAACCTGAsm- ; Alignment reference a 0 0 0 0 240 335 1080 1081 5 25 2 41 1079 215 334 0 c 0 0 0 0 192 159 0 0 1063 970 70 5 1 299 351 0 g 0 0 0 0 482 309 0 0 2 83 68 991 0 341 234 0 t 0 0 0 0 169 280 3 2 13 5 943 46 3 228 164 0

MA1118.1_shift4 (SIX1)
; oligos_7nt_mkv5_m11 versus MA1118.1 (SIX1); m=1/4; ncol2=11; w=11; offset=0; strand=D; shift=4; score=0.953059; ----GwAACCTGAkm- ; cor=; Ncor= a 0 0 0 0 96.0 400.0 1049.0 1076.0 43.0 112.0 51.0 48.0 1070.0 146.0 546.0 0 c 0 0 0 0 43.0 77.0 18.0 8.0 959.0 871.0 46.0 9.0 7.0 179.0 360.0 0 g 0 0 0 0 859.0 90.0 6.0 10.0 12.0 31.0 30.0 1025.0 11.0 289.0 73.0 0 t 0 0 0 0 110.0 541.0 35.0 14.0 94.0 94.0 981.0 26.0 20.0 494.0 129.0 0

MA0684.2_shift4 (RUNX3)
; oligos_7nt_mkv5_m11 versus MA0684.2 (RUNX3); m=2/4; ncol2=12; w=11; offset=0; strand=D; shift=4; score=0.683783; ----awAACCTCAawh ; cor=; Ncor= a 0 0 0 0 7768.0 9558.0 19136.0 26243.0 427.0 495.0 6357.0 611.0 26121.0 16137.0 8778.0 6879.0 c 0 0 0 0 6083.0 5007.0 2662.0 315.0 26293.0 26208.0 419.0 26015.0 414.0 3077.0 5994.0 6900.0 g 0 0 0 0 6685.0 3547.0 3500.0 431.0 198.0 385.0 1911.0 390.0 338.0 4696.0 5642.0 6372.0 t 0 0 0 0 6841.0 9265.0 2079.0 388.0 459.0 289.0 18690.0 361.0 504.0 3467.0 6963.0 7226.0

MA1105.2_rc_shift4 (GRHL2_rc)
; oligos_7nt_mkv5_m11 versus MA1105.2_rc (GRHL2_rc); m=3/4; ncol2=12; w=11; offset=0; strand=R; shift=4; score=0.65905; ----maAACCTGTTyt ; cor=; Ncor= a 0 0 0 0 13946.0 17515.0 36906.0 36921.0 625.0 1247.0 5826.0 320.0 1260.0 1618.0 6264.0 8493.0 c 0 0 0 0 10536.0 7961.0 1220.0 748.0 39624.0 37226.0 485.0 609.0 2841.0 2646.0 10776.0 9161.0 g 0 0 0 0 8528.0 9341.0 2000.0 2331.0 987.0 581.0 1543.0 40446.0 712.0 1147.0 6996.0 9741.0 t 0 0 0 0 8868.0 7061.0 1752.0 1878.0 642.0 2824.0 34024.0 503.0 37065.0 36467.0 17842.0 14483.0

MA1119.1_shift0 (SIX2)
; oligos_7nt_mkv5_m11 versus MA1119.1 (SIX2); m=4/4; ncol2=16; w=11; offset=-4; strand=D; shift=0; score=0.628858; wwcTGaAACCTGAtmy ; cor=; Ncor= a 1673.0 1607.0 963.0 840.0 165.0 3578.0 4885.0 5275.0 190.0 586.0 325.0 321.0 5202.0 553.0 2415.0 858.0 c 1234.0 1242.0 2910.0 215.0 56.0 319.0 264.0 39.0 4367.0 4169.0 295.0 114.0 75.0 615.0 1812.0 2523.0 g 1145.0 1226.0 828.0 561.0 5065.0 273.0 66.0 74.0 170.0 196.0 175.0 4830.0 85.0 1193.0 563.0 511.0 t 1401.0 1378.0 752.0 3837.0 167.0 1283.0 238.0 65.0 726.0 502.0 4658.0 188.0 91.0 3092.0 663.0 1561.0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_mkv5_m11_shift4 (oligos_7nt_mkv5_m11oligos_7nt_mkv5_m11)				; oligos_7nt_mkv5_m11 (oligos_7nt_mkv5_m11oligos_7nt_mkv5_m11); m=0 (reference); ncol1=11; shift=4; ncol=16; ----gdAACCTGAsm- ; Alignment reference a 0 0 0 0 240 335 1080 1081 5 25 2 41 1079 215 334 0 c 0 0 0 0 192 159 0 0 1063 970 70 5 1 299 351 0 g 0 0 0 0 482 309 0 0 2 83 68 991 0 341 234 0 t 0 0 0 0 169 280 3 2 13 5 943 46 3 228 164 0
MA1118.1_shift4 (SIX1)				; oligos_7nt_mkv5_m11 versus MA1118.1 (SIX1); m=1/4; ncol2=11; w=11; offset=0; strand=D; shift=4; score=0.953059; ----GwAACCTGAkm- ; cor=; Ncor= a 0 0 0 0 96.0 400.0 1049.0 1076.0 43.0 112.0 51.0 48.0 1070.0 146.0 546.0 0 c 0 0 0 0 43.0 77.0 18.0 8.0 959.0 871.0 46.0 9.0 7.0 179.0 360.0 0 g 0 0 0 0 859.0 90.0 6.0 10.0 12.0 31.0 30.0 1025.0 11.0 289.0 73.0 0 t 0 0 0 0 110.0 541.0 35.0 14.0 94.0 94.0 981.0 26.0 20.0 494.0 129.0 0
MA0684.2_shift4 (RUNX3)				; oligos_7nt_mkv5_m11 versus MA0684.2 (RUNX3); m=2/4; ncol2=12; w=11; offset=0; strand=D; shift=4; score=0.683783; ----awAACCTCAawh ; cor=; Ncor= a 0 0 0 0 7768.0 9558.0 19136.0 26243.0 427.0 495.0 6357.0 611.0 26121.0 16137.0 8778.0 6879.0 c 0 0 0 0 6083.0 5007.0 2662.0 315.0 26293.0 26208.0 419.0 26015.0 414.0 3077.0 5994.0 6900.0 g 0 0 0 0 6685.0 3547.0 3500.0 431.0 198.0 385.0 1911.0 390.0 338.0 4696.0 5642.0 6372.0 t 0 0 0 0 6841.0 9265.0 2079.0 388.0 459.0 289.0 18690.0 361.0 504.0 3467.0 6963.0 7226.0
MA1105.2_rc_shift4 (GRHL2_rc)				; oligos_7nt_mkv5_m11 versus MA1105.2_rc (GRHL2_rc); m=3/4; ncol2=12; w=11; offset=0; strand=R; shift=4; score=0.65905; ----maAACCTGTTyt ; cor=; Ncor= a 0 0 0 0 13946.0 17515.0 36906.0 36921.0 625.0 1247.0 5826.0 320.0 1260.0 1618.0 6264.0 8493.0 c 0 0 0 0 10536.0 7961.0 1220.0 748.0 39624.0 37226.0 485.0 609.0 2841.0 2646.0 10776.0 9161.0 g 0 0 0 0 8528.0 9341.0 2000.0 2331.0 987.0 581.0 1543.0 40446.0 712.0 1147.0 6996.0 9741.0 t 0 0 0 0 8868.0 7061.0 1752.0 1878.0 642.0 2824.0 34024.0 503.0 37065.0 36467.0 17842.0 14483.0
MA1119.1_shift0 (SIX2)				; oligos_7nt_mkv5_m11 versus MA1119.1 (SIX2); m=4/4; ncol2=16; w=11; offset=-4; strand=D; shift=0; score=0.628858; wwcTGaAACCTGAtmy ; cor=; Ncor= a 1673.0 1607.0 963.0 840.0 165.0 3578.0 4885.0 5275.0 190.0 586.0 325.0 321.0 5202.0 553.0 2415.0 858.0 c 1234.0 1242.0 2910.0 215.0 56.0 319.0 264.0 39.0 4367.0 4169.0 295.0 114.0 75.0 615.0 1812.0 2523.0 g 1145.0 1226.0 828.0 561.0 5065.0 273.0 66.0 74.0 170.0 196.0 175.0 4830.0 85.0 1193.0 563.0 511.0 t 1401.0 1378.0 752.0 3837.0 167.0 1283.0 238.0 65.0 726.0 502.0 4658.0 188.0 91.0 3092.0 663.0 1561.0