One-to-n alignments

Command: compare-matrices  -v 1 -mode matches -format1 transfac -file1 Myogenin_Rep1_motifs50/results/discovered_motifs/oligos_7nt_mkv5_m29/peak-motifs_oligos_7nt_mkv5_m29.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_m29/peak-motifs_oligos_7nt_mkv5_m29_vs_db_jaspar_core_nonredundant_vertebrates

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv5_m29_shift4 ; 5 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_mkv5_m29_shift4 (oligos_7nt_mkv5_m29oligos_7nt_mkv5_m29)
; oligos_7nt_mkv5_m29 (oligos_7nt_mkv5_m29oligos_7nt_mkv5_m29); m=0 (reference); ncol1=12; shift=4; ncol=16; ----ssCGCCkCCGss ; Alignment reference a 0 0 0 0 700 576 16 39 123 83 192 80 2 115 570 738 c 0 0 0 0 2166 2687 5574 77 5106 5191 377 5305 5504 401 2947 2410 g 0 0 0 0 2019 1860 186 5636 432 224 1570 300 271 5105 1606 1942 t 0 0 0 0 903 665 12 36 127 290 3649 103 11 167 665 698

MA0814.2_rc_shift4 (TFAP2C(var.2)_rc)
; oligos_7nt_mkv5_m29 versus MA0814.2_rc (TFAP2C(var.2)_rc); m=1/4; ncol2=14; w=12; offset=0; strand=R; shift=4; score=0.603381; ----sbcGCCTCAGGc ; cor=; Ncor= a 0 0 0 0 14898.0 10705.0 10707.0 3881.0 614.0 464.0 1084.0 1238.0 49003.0 660.0 702.0 4622.0 c 0 0 0 0 17367.0 18680.0 27373.0 9867.0 57916.0 57995.0 3944.0 55222.0 4910.0 2060.0 2273.0 37729.0 g 0 0 0 0 16468.0 15252.0 12553.0 42758.0 1575.0 1486.0 4733.0 3036.0 5539.0 57617.0 57108.0 14686.0 t 0 0 0 0 12086.0 16182.0 10186.0 4313.0 714.0 874.0 51058.0 1323.0 1367.0 482.0 736.0 3782.0

MA0741.1_shift2 (KLF16)
; oligos_7nt_mkv5_m29 versus MA0741.1 (KLF16); m=2/4; ncol2=11; w=9; offset=-2; strand=D; shift=2; score=0.457457; --gmCMCgCCCMC--- ; cor=; Ncor= a 0 0 666.0 901.0 62.0 1150.0 66.0 497.0 8.0 2.0 16.0 437.0 32.0 0 0 0 c 0 0 535.0 1612.0 1612.0 461.0 1612.0 173.0 1612.0 1612.0 1612.0 1175.0 1612.0 0 0 0 g 0 0 1612.0 77.0 6.0 32.0 17.0 1612.0 0.0 8.0 3.0 19.0 23.0 0 0 0 t 0 0 240.0 116.0 45.0 0.0 19.0 403.0 0.0 0.0 97.0 40.0 370.0 0 0 0

MA1513.1_shift2 (KLF15)
; oligos_7nt_mkv5_m29 versus MA1513.1 (KLF15); m=3/4; ncol2=11; w=9; offset=-2; strand=D; shift=2; score=0.455391; --scCCCGCCCcs--- ; cor=; Ncor= a 0 0 1184.0 937.0 40.0 93.0 0.0 0.0 11.0 55.0 12.0 1566.0 1067.0 0 0 0 c 0 0 2903.0 6506.0 11234.0 10940.0 11368.0 0.0 11345.0 10954.0 11254.0 6267.0 5013.0 0 0 0 g 0 0 5538.0 2117.0 86.0 333.0 1.0 11369.0 2.0 359.0 100.0 1934.0 3124.0 0 0 0 t 0 0 1744.0 1809.0 9.0 3.0 0.0 0.0 11.0 1.0 3.0 1602.0 2165.0 0 0 0

MA0471.2_rc_shift0 (E2F6_rc)
; oligos_7nt_mkv5_m29 versus MA0471.2_rc (E2F6_rc); m=4/4; ncol2=13; w=9; offset=-4; strand=R; shift=0; score=0.416327; syTTCCCGCCyyc--- ; cor=; Ncor= a 5600.0 4163.0 757.0 268.0 296.0 353.0 813.0 2125.0 205.0 453.0 6897.0 5665.0 5369.0 0 0 0 c 11405.0 12530.0 5021.0 2322.0 31614.0 31973.0 30573.0 693.0 31790.0 29387.0 11562.0 11649.0 12358.0 0 0 0 g 8477.0 7410.0 1595.0 1171.0 834.0 434.0 539.0 26424.0 837.0 1148.0 5102.0 7405.0 8075.0 0 0 0 t 7616.0 8995.0 25725.0 29337.0 354.0 338.0 1173.0 3856.0 266.0 2110.0 9537.0 8379.0 7296.0 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_mkv5_m29_shift4 (oligos_7nt_mkv5_m29oligos_7nt_mkv5_m29)				; oligos_7nt_mkv5_m29 (oligos_7nt_mkv5_m29oligos_7nt_mkv5_m29); m=0 (reference); ncol1=12; shift=4; ncol=16; ----ssCGCCkCCGss ; Alignment reference a 0 0 0 0 700 576 16 39 123 83 192 80 2 115 570 738 c 0 0 0 0 2166 2687 5574 77 5106 5191 377 5305 5504 401 2947 2410 g 0 0 0 0 2019 1860 186 5636 432 224 1570 300 271 5105 1606 1942 t 0 0 0 0 903 665 12 36 127 290 3649 103 11 167 665 698
MA0814.2_rc_shift4 (TFAP2C(var.2)_rc)				; oligos_7nt_mkv5_m29 versus MA0814.2_rc (TFAP2C(var.2)_rc); m=1/4; ncol2=14; w=12; offset=0; strand=R; shift=4; score=0.603381; ----sbcGCCTCAGGc ; cor=; Ncor= a 0 0 0 0 14898.0 10705.0 10707.0 3881.0 614.0 464.0 1084.0 1238.0 49003.0 660.0 702.0 4622.0 c 0 0 0 0 17367.0 18680.0 27373.0 9867.0 57916.0 57995.0 3944.0 55222.0 4910.0 2060.0 2273.0 37729.0 g 0 0 0 0 16468.0 15252.0 12553.0 42758.0 1575.0 1486.0 4733.0 3036.0 5539.0 57617.0 57108.0 14686.0 t 0 0 0 0 12086.0 16182.0 10186.0 4313.0 714.0 874.0 51058.0 1323.0 1367.0 482.0 736.0 3782.0
MA0741.1_shift2 (KLF16)				; oligos_7nt_mkv5_m29 versus MA0741.1 (KLF16); m=2/4; ncol2=11; w=9; offset=-2; strand=D; shift=2; score=0.457457; --gmCMCgCCCMC--- ; cor=; Ncor= a 0 0 666.0 901.0 62.0 1150.0 66.0 497.0 8.0 2.0 16.0 437.0 32.0 0 0 0 c 0 0 535.0 1612.0 1612.0 461.0 1612.0 173.0 1612.0 1612.0 1612.0 1175.0 1612.0 0 0 0 g 0 0 1612.0 77.0 6.0 32.0 17.0 1612.0 0.0 8.0 3.0 19.0 23.0 0 0 0 t 0 0 240.0 116.0 45.0 0.0 19.0 403.0 0.0 0.0 97.0 40.0 370.0 0 0 0
MA1513.1_shift2 (KLF15)				; oligos_7nt_mkv5_m29 versus MA1513.1 (KLF15); m=3/4; ncol2=11; w=9; offset=-2; strand=D; shift=2; score=0.455391; --scCCCGCCCcs--- ; cor=; Ncor= a 0 0 1184.0 937.0 40.0 93.0 0.0 0.0 11.0 55.0 12.0 1566.0 1067.0 0 0 0 c 0 0 2903.0 6506.0 11234.0 10940.0 11368.0 0.0 11345.0 10954.0 11254.0 6267.0 5013.0 0 0 0 g 0 0 5538.0 2117.0 86.0 333.0 1.0 11369.0 2.0 359.0 100.0 1934.0 3124.0 0 0 0 t 0 0 1744.0 1809.0 9.0 3.0 0.0 0.0 11.0 1.0 3.0 1602.0 2165.0 0 0 0
MA0471.2_rc_shift0 (E2F6_rc)				; oligos_7nt_mkv5_m29 versus MA0471.2_rc (E2F6_rc); m=4/4; ncol2=13; w=9; offset=-4; strand=R; shift=0; score=0.416327; syTTCCCGCCyyc--- ; cor=; Ncor= a 5600.0 4163.0 757.0 268.0 296.0 353.0 813.0 2125.0 205.0 453.0 6897.0 5665.0 5369.0 0 0 0 c 11405.0 12530.0 5021.0 2322.0 31614.0 31973.0 30573.0 693.0 31790.0 29387.0 11562.0 11649.0 12358.0 0 0 0 g 8477.0 7410.0 1595.0 1171.0 834.0 434.0 539.0 26424.0 837.0 1148.0 5102.0 7405.0 8075.0 0 0 0 t 7616.0 8995.0 25725.0 29337.0 354.0 338.0 1173.0 3856.0 266.0 2110.0 9537.0 8379.0 7296.0 0 0 0