One-to-n alignments

Command: compare-matrices  -v 1 -mode matches -format1 transfac -file1 Myogenin_Rep2_motifs50/results/discovered_motifs/oligos_7nt_mkv4_m28/peak-motifs_oligos_7nt_mkv4_m28.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_Rep2_motifs50/results/discovered_motifs/oligos_7nt_mkv4_m28/peak-motifs_oligos_7nt_mkv4_m28_vs_db_jaspar_core_nonredundant_vertebrates

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv4_m28_shift2 ; 5 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_mkv4_m28_shift2 (oligos_7nt_mkv4_m28oligos_7nt_mkv4_m28)
; oligos_7nt_mkv4_m28 (oligos_7nt_mkv4_m28oligos_7nt_mkv4_m28); m=0 (reference); ncol1=12; shift=2; ncol=17; --ssGGGCTGGAss--- ; Alignment reference a 0 0 27 41 0 0 2 7 0 2 0 153 42 38 0 0 0 c 0 0 88 74 6 7 0 198 13 1 0 22 71 61 0 0 0 g 0 0 63 67 209 206 208 7 25 211 214 33 70 74 0 0 0 t 0 0 37 33 0 2 5 3 177 1 1 7 32 42 0 0 0

MA1513.1_rc_shift2 (KLF15_rc)
; oligos_7nt_mkv4_m28 versus MA1513.1_rc (KLF15_rc); m=1/4; ncol2=11; w=11; offset=0; strand=R; shift=2; score=0.729473; --sgGGGCGGGgs---- ; cor=; Ncor= a 0 0 2165.0 1602.0 3.0 1.0 11.0 0.0 0.0 3.0 9.0 1809.0 1744.0 0 0 0 0 c 0 0 3124.0 1934.0 100.0 359.0 2.0 11369.0 1.0 333.0 86.0 2117.0 5538.0 0 0 0 0 g 0 0 5013.0 6267.0 11254.0 10954.0 11345.0 0.0 11368.0 10940.0 11234.0 6506.0 2903.0 0 0 0 0 t 0 0 1067.0 1566.0 12.0 55.0 11.0 0.0 0.0 93.0 40.0 937.0 1184.0 0 0 0 0

MA0471.2_shift2 (E2F6)
; oligos_7nt_mkv4_m28 versus MA0471.2 (E2F6); m=2/4; ncol2=13; w=12; offset=0; strand=D; shift=2; score=0.686914; --grrGGCGGGAArs-- ; cor=; Ncor= a 0 0 7296.0 8379.0 9537.0 2110.0 266.0 3856.0 1173.0 338.0 354.0 29337.0 25725.0 8995.0 7616.0 0 0 c 0 0 8075.0 7405.0 5102.0 1148.0 837.0 26424.0 539.0 434.0 834.0 1171.0 1595.0 7410.0 8477.0 0 0 g 0 0 12358.0 11649.0 11562.0 29387.0 31790.0 693.0 30573.0 31973.0 31614.0 2322.0 5021.0 12530.0 11405.0 0 0 t 0 0 5369.0 5665.0 6897.0 453.0 205.0 2125.0 813.0 353.0 296.0 268.0 757.0 4163.0 5600.0 0 0

MA0516.2_rc_shift0 (SP2_rc)
; oligos_7nt_mkv4_m28 versus MA0516.2_rc (SP2_rc); m=3/4; ncol2=17; w=12; offset=-2; strand=R; shift=0; score=0.505378; rrGkGGGCGGGrCTTAk ; cor=; Ncor= a 352.0 503.0 101.0 17.0 27.0 7.0 18.0 45.0 12.0 8.0 0.0 327.0 43.0 67.0 180.0 608.0 106.0 c 88.0 0.0 1.0 22.0 0.0 26.0 0.0 780.0 22.0 13.0 1.0 8.0 791.0 33.0 0.0 57.0 123.0 g 203.0 221.0 679.0 390.0 774.0 793.0 795.0 52.0 788.0 786.0 774.0 456.0 127.0 84.0 76.0 171.0 308.0 t 150.0 109.0 22.0 402.0 23.0 5.0 0.0 82.0 4.0 16.0 14.0 34.0 54.0 753.0 613.0 53.0 256.0

MA0597.1_rc_shift1 (THAP1_rc)
; oligos_7nt_mkv4_m28 versus MA0597.1_rc (THAP1_rc); m=4/4; ncol2=9; w=8; offset=-1; strand=R; shift=1; score=0.455606; -trmKGGCar------- ; cor=; Ncor= a 0 32.0 57.0 58.0 4.0 1.0 10.0 42.0 125.0 61.0 0 0 0 0 0 0 0 c 0 17.0 41.0 77.0 1.0 0.0 0.0 137.0 12.0 27.0 0 0 0 0 0 0 0 g 0 34.0 71.0 17.0 136.0 195.0 182.0 0.0 47.0 93.0 0 0 0 0 0 0 0 t 0 116.0 30.0 47.0 58.0 3.0 7.0 20.0 15.0 18.0 0 0 0 0 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_mkv4_m28_shift2 (oligos_7nt_mkv4_m28oligos_7nt_mkv4_m28)				; oligos_7nt_mkv4_m28 (oligos_7nt_mkv4_m28oligos_7nt_mkv4_m28); m=0 (reference); ncol1=12; shift=2; ncol=17; --ssGGGCTGGAss--- ; Alignment reference a 0 0 27 41 0 0 2 7 0 2 0 153 42 38 0 0 0 c 0 0 88 74 6 7 0 198 13 1 0 22 71 61 0 0 0 g 0 0 63 67 209 206 208 7 25 211 214 33 70 74 0 0 0 t 0 0 37 33 0 2 5 3 177 1 1 7 32 42 0 0 0
MA1513.1_rc_shift2 (KLF15_rc)				; oligos_7nt_mkv4_m28 versus MA1513.1_rc (KLF15_rc); m=1/4; ncol2=11; w=11; offset=0; strand=R; shift=2; score=0.729473; --sgGGGCGGGgs---- ; cor=; Ncor= a 0 0 2165.0 1602.0 3.0 1.0 11.0 0.0 0.0 3.0 9.0 1809.0 1744.0 0 0 0 0 c 0 0 3124.0 1934.0 100.0 359.0 2.0 11369.0 1.0 333.0 86.0 2117.0 5538.0 0 0 0 0 g 0 0 5013.0 6267.0 11254.0 10954.0 11345.0 0.0 11368.0 10940.0 11234.0 6506.0 2903.0 0 0 0 0 t 0 0 1067.0 1566.0 12.0 55.0 11.0 0.0 0.0 93.0 40.0 937.0 1184.0 0 0 0 0
MA0471.2_shift2 (E2F6)				; oligos_7nt_mkv4_m28 versus MA0471.2 (E2F6); m=2/4; ncol2=13; w=12; offset=0; strand=D; shift=2; score=0.686914; --grrGGCGGGAArs-- ; cor=; Ncor= a 0 0 7296.0 8379.0 9537.0 2110.0 266.0 3856.0 1173.0 338.0 354.0 29337.0 25725.0 8995.0 7616.0 0 0 c 0 0 8075.0 7405.0 5102.0 1148.0 837.0 26424.0 539.0 434.0 834.0 1171.0 1595.0 7410.0 8477.0 0 0 g 0 0 12358.0 11649.0 11562.0 29387.0 31790.0 693.0 30573.0 31973.0 31614.0 2322.0 5021.0 12530.0 11405.0 0 0 t 0 0 5369.0 5665.0 6897.0 453.0 205.0 2125.0 813.0 353.0 296.0 268.0 757.0 4163.0 5600.0 0 0
MA0516.2_rc_shift0 (SP2_rc)				; oligos_7nt_mkv4_m28 versus MA0516.2_rc (SP2_rc); m=3/4; ncol2=17; w=12; offset=-2; strand=R; shift=0; score=0.505378; rrGkGGGCGGGrCTTAk ; cor=; Ncor= a 352.0 503.0 101.0 17.0 27.0 7.0 18.0 45.0 12.0 8.0 0.0 327.0 43.0 67.0 180.0 608.0 106.0 c 88.0 0.0 1.0 22.0 0.0 26.0 0.0 780.0 22.0 13.0 1.0 8.0 791.0 33.0 0.0 57.0 123.0 g 203.0 221.0 679.0 390.0 774.0 793.0 795.0 52.0 788.0 786.0 774.0 456.0 127.0 84.0 76.0 171.0 308.0 t 150.0 109.0 22.0 402.0 23.0 5.0 0.0 82.0 4.0 16.0 14.0 34.0 54.0 753.0 613.0 53.0 256.0
MA0597.1_rc_shift1 (THAP1_rc)				; oligos_7nt_mkv4_m28 versus MA0597.1_rc (THAP1_rc); m=4/4; ncol2=9; w=8; offset=-1; strand=R; shift=1; score=0.455606; -trmKGGCar------- ; cor=; Ncor= a 0 32.0 57.0 58.0 4.0 1.0 10.0 42.0 125.0 61.0 0 0 0 0 0 0 0 c 0 17.0 41.0 77.0 1.0 0.0 0.0 137.0 12.0 27.0 0 0 0 0 0 0 0 g 0 34.0 71.0 17.0 136.0 195.0 182.0 0.0 47.0 93.0 0 0 0 0 0 0 0 t 0 116.0 30.0 47.0 58.0 3.0 7.0 20.0 15.0 18.0 0 0 0 0 0 0 0