One-to-n alignments

Command: compare-matrices  -v 1 -format transfac -file $RSAT/public_html/tmp/www-data/2026/05/18/peak-motifs.2026-05-18.150546_2026-05-18.150546_evrgaa/results/discovered_motifs/peak-motifs_motifs_discovered.tf -distinct -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 $RSAT/public_html/tmp/www-data/2026/05/18/peak-motifs.2026-05-18.150546_2026-05-18.150546_evrgaa/results/discovered_motifs/peak-motifs_motifs_disco_compa.tab

One-to-n matrix alignment; reference matrix: oligos_6nt_test_vs_ctrl_m4_shift2 ; 3 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_test_vs_ctrl_m4_shift2 (oligos_6nt_test_vs_ctrl_m4)
; oligos_6nt_test_vs_ctrl_m4; m=0 (reference); ncol1=11; shift=2; ncol=13; --wwAGCGAAAww ; Alignment reference a 0 0 137 147 338 40 10 4 347 340 337 144 160 c 0 0 46 60 7 17 315 0 13 6 9 54 56 g 0 0 59 51 10 280 9 364 9 13 17 51 56 t 0 0 139 123 26 44 47 13 12 22 18 132 109

oligos_6nt_test_vs_ctrl_m4_shift2 (oligos_6nt_test_vs_ctrl_m4)
; oligos_6nt_test_vs_ctrl_m4 versus oligos_6nt_test_vs_ctrl_m4; m=1/2; ncol2=11; w=0; offset=0; strand=D; shift=2; score= 1; --wwAGCGAAAww ; cor=; Ncor= a 0 0 137 147 338 40 10 4 347 340 337 144 160 c 0 0 46 60 7 17 315 0 13 6 9 54 56 g 0 0 59 51 10 280 9 364 9 13 17 51 56 t 0 0 139 123 26 44 47 13 12 22 18 132 109

oligos_6nt_test_vs_ctrl_m5_rc_shift0 (oligos_6nt_test_vs_ctrl_m5_rc)
; oligos_6nt_test_vs_ctrl_m4 versus oligos_6nt_test_vs_ctrl_m5_rc; m=2/2; ncol2=10; w=-2; offset=-2; strand=R; shift=0; score=0.443309; wwTCAGCGww--- ; cor=; Ncor= a 210 219 18 50 492 28 58 43 217 188 0 0 0 c 82 63 5 398 7 15 406 9 81 69 0 0 0 g 64 70 19 25 4 437 13 448 75 81 0 0 0 t 169 173 483 52 22 45 48 25 152 187 0 0 0

One-to-n matrix alignment; reference matrix: oligos_7nt_test_vs_ctrl_m5_shift0 ; 2 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_test_vs_ctrl_m5_shift0 (oligos_7nt_test_vs_ctrl_m5)
; oligos_7nt_test_vs_ctrl_m5; m=0 (reference); ncol1=12; shift=0; ncol=12; wwATGAATGAww ; Alignment reference a 275 339 654 49 62 676 672 35 56 651 342 268 c 67 57 14 6 14 9 15 9 5 18 82 61 g 165 89 20 21 617 8 16 26 638 17 97 87 t 230 252 49 661 44 44 34 667 38 51 216 321

oligos_7nt_test_vs_ctrl_m5_shift0 (oligos_7nt_test_vs_ctrl_m5)
; oligos_7nt_test_vs_ctrl_m5 versus oligos_7nt_test_vs_ctrl_m5; m=1/1; ncol2=12; w=0; offset=0; strand=D; shift=0; score= 1; wwATGAATGAww ; cor=; Ncor= a 275 339 654 49 62 676 672 35 56 651 342 268 c 67 57 14 6 14 9 15 9 5 18 82 61 g 165 89 20 21 617 8 16 26 638 17 97 87 t 230 252 49 661 44 44 34 667 38 51 216 321

One-to-n matrix alignment; reference matrix: oligos_6nt_test_vs_ctrl_m1_shift1 ; 5 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_test_vs_ctrl_m1_shift1 (oligos_6nt_test_vs_ctrl_m1)
; oligos_6nt_test_vs_ctrl_m1; m=0 (reference); ncol1=15; shift=1; ncol=16; -wwACAAACAAAAAww ; Alignment reference a 0 419 375 514 96 627 622 646 21 689 665 673 548 663 373 360 c 0 63 94 39 510 23 40 15 670 10 28 18 94 13 86 78 g 0 44 50 55 34 10 18 11 14 6 5 12 21 12 60 83 t 0 211 218 129 97 77 57 65 32 32 39 34 74 49 218 216

oligos_6nt_test_vs_ctrl_m1_shift1 (oligos_6nt_test_vs_ctrl_m1)
; oligos_6nt_test_vs_ctrl_m1 versus oligos_6nt_test_vs_ctrl_m1; m=1/4; ncol2=15; w=0; offset=0; strand=D; shift=1; score= 1; -wwACAAACAAAAAww ; cor=; Ncor= a 0 419 375 514 96 627 622 646 21 689 665 673 548 663 373 360 c 0 63 94 39 510 23 40 15 670 10 28 18 94 13 86 78 g 0 44 50 55 34 10 18 11 14 6 5 12 21 12 60 83 t 0 211 218 129 97 77 57 65 32 32 39 34 74 49 218 216

oligos_7nt_test_vs_ctrl_m2_shift0 (oligos_7nt_test_vs_ctrl_m2)
; oligos_6nt_test_vs_ctrl_m1 versus oligos_7nt_test_vs_ctrl_m2; m=2/4; ncol2=17; w=-1; offset=-1; strand=D; shift=0; score=0.854424; haAACAAACAAAaAAa ; cor=; Ncor= a 241 372 466 457 64 539 541 522 60 545 549 520 371 509 528 332 c 156 46 32 25 458 6 19 10 475 10 12 18 123 14 15 57 g 38 40 19 33 18 4 4 17 17 2 6 16 22 16 10 60 t 156 133 74 76 51 42 27 42 39 34 24 37 75 52 38 142

oligos_7nt_test_vs_ctrl_m1_shift2 (oligos_7nt_test_vs_ctrl_m1)
; oligos_6nt_test_vs_ctrl_m1 versus oligos_7nt_test_vs_ctrl_m1; m=3/4; ncol2=14; w=0; offset=1; strand=D; shift=2; score=0.667561; --wwcAAgCAAgCAaw ; cor=; Ncor= a 0 0 332 215 89 487 516 101 28 512 509 101 39 479 334 208 c 0 0 43 48 357 13 4 16 496 7 6 17 474 8 51 56 g 0 0 41 124 29 13 8 362 11 7 14 362 12 11 55 126 t 0 0 139 168 80 42 27 76 20 29 26 75 30 57 115 165

oligos_6nt_test_vs_ctrl_m3_shift0 (oligos_6nt_test_vs_ctrl_m3)
; oligos_6nt_test_vs_ctrl_m1 versus oligos_6nt_test_vs_ctrl_m3; m=4/4; ncol2=13; w=-1; offset=-1; strand=D; shift=0; score=0.639458; hwwACAcACAawh--- ; cor=; Ncor= a 207 341 225 563 51 566 141 586 50 574 367 365 198 0 0 0 c 169 58 103 6 510 13 378 5 516 4 67 39 166 0 0 0 g 47 50 41 12 16 6 19 3 6 3 26 41 46 0 0 0 t 185 159 239 27 31 23 70 14 36 27 148 163 198 0 0 0

One-to-n matrix alignment; reference matrix: oligos_6nt_test_vs_ctrl_m3_shift0 ; 5 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_test_vs_ctrl_m3_shift0 (oligos_6nt_test_vs_ctrl_m3)
; oligos_6nt_test_vs_ctrl_m3; m=0 (reference); ncol1=13; shift=0; ncol=13; hwwACAcACAawh ; Alignment reference a 207 341 225 563 51 566 141 586 50 574 367 365 198 c 169 58 103 6 510 13 378 5 516 4 67 39 166 g 47 50 41 12 16 6 19 3 6 3 26 41 46 t 185 159 239 27 31 23 70 14 36 27 148 163 198

oligos_6nt_test_vs_ctrl_m3_shift0 (oligos_6nt_test_vs_ctrl_m3)
; oligos_6nt_test_vs_ctrl_m3 versus oligos_6nt_test_vs_ctrl_m3; m=1/4; ncol2=13; w=0; offset=0; strand=D; shift=0; score= 1; hwwACAcACAawh ; cor=; Ncor= a 207 341 225 563 51 566 141 586 50 574 367 365 198 c 169 58 103 6 510 13 378 5 516 4 67 39 166 g 47 50 41 12 16 6 19 3 6 3 26 41 46 t 185 159 239 27 31 23 70 14 36 27 148 163 198

oligos_7nt_test_vs_ctrl_m3_shift1 (oligos_7nt_test_vs_ctrl_m3)
; oligos_6nt_test_vs_ctrl_m3 versus oligos_7nt_test_vs_ctrl_m3; m=2/4; ncol2=12; w=0; offset=1; strand=D; shift=1; score=0.792438; -whACACACACwh ; cor=; Ncor= a 0 150 106 221 19 237 27 252 14 247 11 177 92 c 0 29 93 16 257 9 261 5 271 11 260 28 93 g 0 32 17 12 7 18 9 7 4 6 4 19 23 t 0 95 90 57 23 42 9 42 17 42 31 82 98

oligos_7nt_test_vs_ctrl_m2_shift0 (oligos_7nt_test_vs_ctrl_m2)
; oligos_6nt_test_vs_ctrl_m3 versus oligos_7nt_test_vs_ctrl_m2; m=3/4; ncol2=17; w=0; offset=0; strand=D; shift=0; score=0.647474; haAACAAACAAAa ; cor=; Ncor= a 241 372 466 457 64 539 541 522 60 545 549 520 371 c 156 46 32 25 458 6 19 10 475 10 12 18 123 g 38 40 19 33 18 4 4 17 17 2 6 16 22 t 156 133 74 76 51 42 27 42 39 34 24 37 75

oligos_6nt_test_vs_ctrl_m1_shift1 (oligos_6nt_test_vs_ctrl_m1)
; oligos_6nt_test_vs_ctrl_m3 versus oligos_6nt_test_vs_ctrl_m1; m=4/4; ncol2=15; w=0; offset=1; strand=D; shift=1; score=0.639458; -wwACAAACAAAA ; cor=; Ncor= a 0 419 375 514 96 627 622 646 21 689 665 673 548 c 0 63 94 39 510 23 40 15 670 10 28 18 94 g 0 44 50 55 34 10 18 11 14 6 5 12 21 t 0 211 218 129 97 77 57 65 32 32 39 34 74

One-to-n matrix alignment; reference matrix: oligos_7nt_test_vs_ctrl_m4_shift0 ; 2 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_test_vs_ctrl_m4_shift0 (oligos_7nt_test_vs_ctrl_m4)
; oligos_7nt_test_vs_ctrl_m4; m=0 (reference); ncol1=11; shift=0; ncol=11; wwCACATGAww ; Alignment reference a 143 123 46 385 46 366 18 54 385 187 139 c 80 61 329 3 295 10 2 19 2 43 51 g 41 55 6 3 24 1 3 295 8 50 48 t 139 164 22 12 38 26 380 35 8 123 165

oligos_7nt_test_vs_ctrl_m4_shift0 (oligos_7nt_test_vs_ctrl_m4)
; oligos_7nt_test_vs_ctrl_m4 versus oligos_7nt_test_vs_ctrl_m4; m=1/1; ncol2=11; w=0; offset=0; strand=D; shift=0; score= 1; wwCACATGAww ; cor=; Ncor= a 143 123 46 385 46 366 18 54 385 187 139 c 80 61 329 3 295 10 2 19 2 43 51 g 41 55 6 3 24 1 3 295 8 50 48 t 139 164 22 12 38 26 380 35 8 123 165

One-to-n matrix alignment; reference matrix: oligos_7nt_test_vs_ctrl_m1_shift2 ; 5 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_test_vs_ctrl_m1_shift2 (oligos_7nt_test_vs_ctrl_m1)
; oligos_7nt_test_vs_ctrl_m1; m=0 (reference); ncol1=14; shift=2; ncol=16; --wwcAAgCAAgCAaw ; Alignment reference a 0 0 332 215 89 487 516 101 28 512 509 101 39 479 334 208 c 0 0 43 48 357 13 4 16 496 7 6 17 474 8 51 56 g 0 0 41 124 29 13 8 362 11 7 14 362 12 11 55 126 t 0 0 139 168 80 42 27 76 20 29 26 75 30 57 115 165

oligos_7nt_test_vs_ctrl_m1_shift2 (oligos_7nt_test_vs_ctrl_m1)
; oligos_7nt_test_vs_ctrl_m1 versus oligos_7nt_test_vs_ctrl_m1; m=1/4; ncol2=14; w=0; offset=0; strand=D; shift=2; score= 1; --wwcAAgCAAgCAaw ; cor=; Ncor= a 0 0 332 215 89 487 516 101 28 512 509 101 39 479 334 208 c 0 0 43 48 357 13 4 16 496 7 6 17 474 8 51 56 g 0 0 41 124 29 13 8 362 11 7 14 362 12 11 55 126 t 0 0 139 168 80 42 27 76 20 29 26 75 30 57 115 165

oligos_6nt_test_vs_ctrl_m2_shift3 (oligos_6nt_test_vs_ctrl_m2)
; oligos_7nt_test_vs_ctrl_m1 versus oligos_6nt_test_vs_ctrl_m2; m=2/4; ncol2=13; w=0; offset=1; strand=D; shift=3; score=0.888198; ---wwAAGCAAGCAww ; cor=; Ncor= a 0 0 0 196 152 360 448 39 27 462 476 44 29 386 278 188 c 0 0 0 53 123 34 15 9 445 5 7 9 431 12 53 58 g 0 0 0 112 59 30 15 437 9 8 10 432 12 16 48 122 t 0 0 0 147 174 84 30 23 27 33 15 23 36 94 129 140

oligos_6nt_test_vs_ctrl_m1_shift1 (oligos_6nt_test_vs_ctrl_m1)
; oligos_7nt_test_vs_ctrl_m1 versus oligos_6nt_test_vs_ctrl_m1; m=3/4; ncol2=15; w=-1; offset=-1; strand=D; shift=1; score=0.667561; -wwACAAACAAAAAww ; cor=; Ncor= a 0 419 375 514 96 627 622 646 21 689 665 673 548 663 373 360 c 0 63 94 39 510 23 40 15 670 10 28 18 94 13 86 78 g 0 44 50 55 34 10 18 11 14 6 5 12 21 12 60 83 t 0 211 218 129 97 77 57 65 32 32 39 34 74 49 218 216

oligos_7nt_test_vs_ctrl_m2_shift0 (oligos_7nt_test_vs_ctrl_m2)
; oligos_7nt_test_vs_ctrl_m1 versus oligos_7nt_test_vs_ctrl_m2; m=4/4; ncol2=17; w=-2; offset=-2; strand=D; shift=0; score=0.613494; haAACAAACAAAaAAa ; cor=; Ncor= a 241 372 466 457 64 539 541 522 60 545 549 520 371 509 528 332 c 156 46 32 25 458 6 19 10 475 10 12 18 123 14 15 57 g 38 40 19 33 18 4 4 17 17 2 6 16 22 16 10 60 t 156 133 74 76 51 42 27 42 39 34 24 37 75 52 38 142

One-to-n matrix alignment; reference matrix: oligos_6nt_test_vs_ctrl_m2_shift1 ; 3 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_test_vs_ctrl_m2_shift1 (oligos_6nt_test_vs_ctrl_m2)
; oligos_6nt_test_vs_ctrl_m2; m=0 (reference); ncol1=13; shift=1; ncol=14; -wwAAGCAAGCAww ; Alignment reference a 0 196 152 360 448 39 27 462 476 44 29 386 278 188 c 0 53 123 34 15 9 445 5 7 9 431 12 53 58 g 0 112 59 30 15 437 9 8 10 432 12 16 48 122 t 0 147 174 84 30 23 27 33 15 23 36 94 129 140

oligos_6nt_test_vs_ctrl_m2_shift1 (oligos_6nt_test_vs_ctrl_m2)
; oligos_6nt_test_vs_ctrl_m2 versus oligos_6nt_test_vs_ctrl_m2; m=1/2; ncol2=13; w=0; offset=0; strand=D; shift=1; score= 1; -wwAAGCAAGCAww ; cor=; Ncor= a 0 196 152 360 448 39 27 462 476 44 29 386 278 188 c 0 53 123 34 15 9 445 5 7 9 431 12 53 58 g 0 112 59 30 15 437 9 8 10 432 12 16 48 122 t 0 147 174 84 30 23 27 33 15 23 36 94 129 140

oligos_7nt_test_vs_ctrl_m1_shift0 (oligos_7nt_test_vs_ctrl_m1)
; oligos_6nt_test_vs_ctrl_m2 versus oligos_7nt_test_vs_ctrl_m1; m=2/2; ncol2=14; w=-1; offset=-1; strand=D; shift=0; score=0.888198; wwcAAgCAAgCAaw ; cor=; Ncor= a 332 215 89 487 516 101 28 512 509 101 39 479 334 208 c 43 48 357 13 4 16 496 7 6 17 474 8 51 56 g 41 124 29 13 8 362 11 7 14 362 12 11 55 126 t 139 168 80 42 27 76 20 29 26 75 30 57 115 165

One-to-n matrix alignment; reference matrix: oligos_7nt_test_vs_ctrl_m2_shift0 ; 5 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_test_vs_ctrl_m2_shift0 (oligos_7nt_test_vs_ctrl_m2)
; oligos_7nt_test_vs_ctrl_m2; m=0 (reference); ncol1=17; shift=0; ncol=17; haAACAAACAAAaAAaw ; Alignment reference a 241 372 466 457 64 539 541 522 60 545 549 520 371 509 528 332 226 c 156 46 32 25 458 6 19 10 475 10 12 18 123 14 15 57 119 g 38 40 19 33 18 4 4 17 17 2 6 16 22 16 10 60 55 t 156 133 74 76 51 42 27 42 39 34 24 37 75 52 38 142 191

oligos_7nt_test_vs_ctrl_m2_shift0 (oligos_7nt_test_vs_ctrl_m2)
; oligos_7nt_test_vs_ctrl_m2 versus oligos_7nt_test_vs_ctrl_m2; m=1/4; ncol2=17; w=0; offset=0; strand=D; shift=0; score= 1; haAACAAACAAAaAAaw ; cor=; Ncor= a 241 372 466 457 64 539 541 522 60 545 549 520 371 509 528 332 226 c 156 46 32 25 458 6 19 10 475 10 12 18 123 14 15 57 119 g 38 40 19 33 18 4 4 17 17 2 6 16 22 16 10 60 55 t 156 133 74 76 51 42 27 42 39 34 24 37 75 52 38 142 191

oligos_6nt_test_vs_ctrl_m1_shift1 (oligos_6nt_test_vs_ctrl_m1)
; oligos_7nt_test_vs_ctrl_m2 versus oligos_6nt_test_vs_ctrl_m1; m=2/4; ncol2=15; w=0; offset=1; strand=D; shift=1; score=0.854424; -wwACAAACAAAAAww- ; cor=; Ncor= a 0 419 375 514 96 627 622 646 21 689 665 673 548 663 373 360 0 c 0 63 94 39 510 23 40 15 670 10 28 18 94 13 86 78 0 g 0 44 50 55 34 10 18 11 14 6 5 12 21 12 60 83 0 t 0 211 218 129 97 77 57 65 32 32 39 34 74 49 218 216 0

oligos_6nt_test_vs_ctrl_m3_shift0 (oligos_6nt_test_vs_ctrl_m3)
; oligos_7nt_test_vs_ctrl_m2 versus oligos_6nt_test_vs_ctrl_m3; m=3/4; ncol2=13; w=0; offset=0; strand=D; shift=0; score=0.647474; hwwACAcACAawh---- ; cor=; Ncor= a 207 341 225 563 51 566 141 586 50 574 367 365 198 0 0 0 0 c 169 58 103 6 510 13 378 5 516 4 67 39 166 0 0 0 0 g 47 50 41 12 16 6 19 3 6 3 26 41 46 0 0 0 0 t 185 159 239 27 31 23 70 14 36 27 148 163 198 0 0 0 0

oligos_7nt_test_vs_ctrl_m1_shift2 (oligos_7nt_test_vs_ctrl_m1)
; oligos_7nt_test_vs_ctrl_m2 versus oligos_7nt_test_vs_ctrl_m1; m=4/4; ncol2=14; w=0; offset=2; strand=D; shift=2; score=0.613494; --wwcAAgCAAgCAaw- ; cor=; Ncor= a 0 0 332 215 89 487 516 101 28 512 509 101 39 479 334 208 0 c 0 0 43 48 357 13 4 16 496 7 6 17 474 8 51 56 0 g 0 0 41 124 29 13 8 362 11 7 14 362 12 11 55 126 0 t 0 0 139 168 80 42 27 76 20 29 26 75 30 57 115 165 0

One-to-n matrix alignment; reference matrix: oligos_6nt_test_vs_ctrl_m5_shift3 ; 3 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_test_vs_ctrl_m5_shift3 (oligos_6nt_test_vs_ctrl_m5)
; oligos_6nt_test_vs_ctrl_m5; m=0 (reference); ncol1=10; shift=3; ncol=13; ---wwCGCTGAww ; Alignment reference a 0 0 0 187 152 25 48 45 22 52 483 173 169 c 0 0 0 81 75 448 13 437 4 25 19 70 64 g 0 0 0 69 81 9 406 15 7 398 5 63 82 t 0 0 0 188 217 43 58 28 492 50 18 219 210

oligos_6nt_test_vs_ctrl_m5_shift3 (oligos_6nt_test_vs_ctrl_m5)
; oligos_6nt_test_vs_ctrl_m5 versus oligos_6nt_test_vs_ctrl_m5; m=1/2; ncol2=10; w=0; offset=0; strand=D; shift=3; score= 1; ---wwCGCTGAww ; cor=; Ncor= a 0 0 0 187 152 25 48 45 22 52 483 173 169 c 0 0 0 81 75 448 13 437 4 25 19 70 64 g 0 0 0 69 81 9 406 15 7 398 5 63 82 t 0 0 0 188 217 43 58 28 492 50 18 219 210

oligos_6nt_test_vs_ctrl_m4_rc_shift0 (oligos_6nt_test_vs_ctrl_m4_rc)
; oligos_6nt_test_vs_ctrl_m5 versus oligos_6nt_test_vs_ctrl_m4_rc; m=2/2; ncol2=11; w=-3; offset=-3; strand=R; shift=0; score=0.443309; wwTTTCGCTww-- ; cor=; Ncor= a 109 132 18 22 12 13 47 44 26 123 139 0 0 c 56 51 17 13 9 364 9 280 10 51 59 0 0 g 56 54 9 6 13 0 315 17 7 60 46 0 0 t 160 144 337 340 347 4 10 40 338 147 137 0 0

One-to-n matrix alignment; reference matrix: oligos_7nt_test_vs_ctrl_m3_shift1 ; 3 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_test_vs_ctrl_m3_shift1 (oligos_7nt_test_vs_ctrl_m3)
; oligos_7nt_test_vs_ctrl_m3; m=0 (reference); ncol1=12; shift=1; ncol=13; -whACACACACwh ; Alignment reference a 0 150 106 221 19 237 27 252 14 247 11 177 92 c 0 29 93 16 257 9 261 5 271 11 260 28 93 g 0 32 17 12 7 18 9 7 4 6 4 19 23 t 0 95 90 57 23 42 9 42 17 42 31 82 98

oligos_7nt_test_vs_ctrl_m3_shift1 (oligos_7nt_test_vs_ctrl_m3)
; oligos_7nt_test_vs_ctrl_m3 versus oligos_7nt_test_vs_ctrl_m3; m=1/2; ncol2=12; w=0; offset=0; strand=D; shift=1; score= 1; -whACACACACwh ; cor=; Ncor= a 0 150 106 221 19 237 27 252 14 247 11 177 92 c 0 29 93 16 257 9 261 5 271 11 260 28 93 g 0 32 17 12 7 18 9 7 4 6 4 19 23 t 0 95 90 57 23 42 9 42 17 42 31 82 98

oligos_6nt_test_vs_ctrl_m3_shift0 (oligos_6nt_test_vs_ctrl_m3)
; oligos_7nt_test_vs_ctrl_m3 versus oligos_6nt_test_vs_ctrl_m3; m=2/2; ncol2=13; w=-1; offset=-1; strand=D; shift=0; score=0.792438; hwwACAcACAawh ; cor=; Ncor= a 207 341 225 563 51 566 141 586 50 574 367 365 198 c 169 58 103 6 510 13 378 5 516 4 67 39 166 g 47 50 41 12 16 6 19 3 6 3 26 41 46 t 185 159 239 27 31 23 70 14 36 27 148 163 198

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_6nt_test_vs_ctrl_m1_shift1 (oligos_6nt_test_vs_ctrl_m1)				; oligos_6nt_test_vs_ctrl_m1; m=0 (reference); ncol1=15; shift=1; ncol=16; -wwACAAACAAAAAww ; Alignment reference a 0 419 375 514 96 627 622 646 21 689 665 673 548 663 373 360 c 0 63 94 39 510 23 40 15 670 10 28 18 94 13 86 78 g 0 44 50 55 34 10 18 11 14 6 5 12 21 12 60 83 t 0 211 218 129 97 77 57 65 32 32 39 34 74 49 218 216
oligos_6nt_test_vs_ctrl_m1_shift1 (oligos_6nt_test_vs_ctrl_m1)				; oligos_6nt_test_vs_ctrl_m1 versus oligos_6nt_test_vs_ctrl_m1; m=1/4; ncol2=15; w=0; offset=0; strand=D; shift=1; score= 1; -wwACAAACAAAAAww ; cor=; Ncor= a 0 419 375 514 96 627 622 646 21 689 665 673 548 663 373 360 c 0 63 94 39 510 23 40 15 670 10 28 18 94 13 86 78 g 0 44 50 55 34 10 18 11 14 6 5 12 21 12 60 83 t 0 211 218 129 97 77 57 65 32 32 39 34 74 49 218 216
oligos_7nt_test_vs_ctrl_m2_shift0 (oligos_7nt_test_vs_ctrl_m2)				; oligos_6nt_test_vs_ctrl_m1 versus oligos_7nt_test_vs_ctrl_m2; m=2/4; ncol2=17; w=-1; offset=-1; strand=D; shift=0; score=0.854424; haAACAAACAAAaAAa ; cor=; Ncor= a 241 372 466 457 64 539 541 522 60 545 549 520 371 509 528 332 c 156 46 32 25 458 6 19 10 475 10 12 18 123 14 15 57 g 38 40 19 33 18 4 4 17 17 2 6 16 22 16 10 60 t 156 133 74 76 51 42 27 42 39 34 24 37 75 52 38 142
oligos_7nt_test_vs_ctrl_m1_shift2 (oligos_7nt_test_vs_ctrl_m1)				; oligos_6nt_test_vs_ctrl_m1 versus oligos_7nt_test_vs_ctrl_m1; m=3/4; ncol2=14; w=0; offset=1; strand=D; shift=2; score=0.667561; --wwcAAgCAAgCAaw ; cor=; Ncor= a 0 0 332 215 89 487 516 101 28 512 509 101 39 479 334 208 c 0 0 43 48 357 13 4 16 496 7 6 17 474 8 51 56 g 0 0 41 124 29 13 8 362 11 7 14 362 12 11 55 126 t 0 0 139 168 80 42 27 76 20 29 26 75 30 57 115 165
oligos_6nt_test_vs_ctrl_m3_shift0 (oligos_6nt_test_vs_ctrl_m3)				; oligos_6nt_test_vs_ctrl_m1 versus oligos_6nt_test_vs_ctrl_m3; m=4/4; ncol2=13; w=-1; offset=-1; strand=D; shift=0; score=0.639458; hwwACAcACAawh--- ; cor=; Ncor= a 207 341 225 563 51 566 141 586 50 574 367 365 198 0 0 0 c 169 58 103 6 510 13 378 5 516 4 67 39 166 0 0 0 g 47 50 41 12 16 6 19 3 6 3 26 41 46 0 0 0 t 185 159 239 27 31 23 70 14 36 27 148 163 198 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_6nt_test_vs_ctrl_m3_shift0 (oligos_6nt_test_vs_ctrl_m3)				; oligos_6nt_test_vs_ctrl_m3; m=0 (reference); ncol1=13; shift=0; ncol=13; hwwACAcACAawh ; Alignment reference a 207 341 225 563 51 566 141 586 50 574 367 365 198 c 169 58 103 6 510 13 378 5 516 4 67 39 166 g 47 50 41 12 16 6 19 3 6 3 26 41 46 t 185 159 239 27 31 23 70 14 36 27 148 163 198
oligos_6nt_test_vs_ctrl_m3_shift0 (oligos_6nt_test_vs_ctrl_m3)				; oligos_6nt_test_vs_ctrl_m3 versus oligos_6nt_test_vs_ctrl_m3; m=1/4; ncol2=13; w=0; offset=0; strand=D; shift=0; score= 1; hwwACAcACAawh ; cor=; Ncor= a 207 341 225 563 51 566 141 586 50 574 367 365 198 c 169 58 103 6 510 13 378 5 516 4 67 39 166 g 47 50 41 12 16 6 19 3 6 3 26 41 46 t 185 159 239 27 31 23 70 14 36 27 148 163 198
oligos_7nt_test_vs_ctrl_m3_shift1 (oligos_7nt_test_vs_ctrl_m3)				; oligos_6nt_test_vs_ctrl_m3 versus oligos_7nt_test_vs_ctrl_m3; m=2/4; ncol2=12; w=0; offset=1; strand=D; shift=1; score=0.792438; -whACACACACwh ; cor=; Ncor= a 0 150 106 221 19 237 27 252 14 247 11 177 92 c 0 29 93 16 257 9 261 5 271 11 260 28 93 g 0 32 17 12 7 18 9 7 4 6 4 19 23 t 0 95 90 57 23 42 9 42 17 42 31 82 98
oligos_7nt_test_vs_ctrl_m2_shift0 (oligos_7nt_test_vs_ctrl_m2)				; oligos_6nt_test_vs_ctrl_m3 versus oligos_7nt_test_vs_ctrl_m2; m=3/4; ncol2=17; w=0; offset=0; strand=D; shift=0; score=0.647474; haAACAAACAAAa ; cor=; Ncor= a 241 372 466 457 64 539 541 522 60 545 549 520 371 c 156 46 32 25 458 6 19 10 475 10 12 18 123 g 38 40 19 33 18 4 4 17 17 2 6 16 22 t 156 133 74 76 51 42 27 42 39 34 24 37 75
oligos_6nt_test_vs_ctrl_m1_shift1 (oligos_6nt_test_vs_ctrl_m1)				; oligos_6nt_test_vs_ctrl_m3 versus oligos_6nt_test_vs_ctrl_m1; m=4/4; ncol2=15; w=0; offset=1; strand=D; shift=1; score=0.639458; -wwACAAACAAAA ; cor=; Ncor= a 0 419 375 514 96 627 622 646 21 689 665 673 548 c 0 63 94 39 510 23 40 15 670 10 28 18 94 g 0 44 50 55 34 10 18 11 14 6 5 12 21 t 0 211 218 129 97 77 57 65 32 32 39 34 74

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_test_vs_ctrl_m1_shift2 (oligos_7nt_test_vs_ctrl_m1)				; oligos_7nt_test_vs_ctrl_m1; m=0 (reference); ncol1=14; shift=2; ncol=16; --wwcAAgCAAgCAaw ; Alignment reference a 0 0 332 215 89 487 516 101 28 512 509 101 39 479 334 208 c 0 0 43 48 357 13 4 16 496 7 6 17 474 8 51 56 g 0 0 41 124 29 13 8 362 11 7 14 362 12 11 55 126 t 0 0 139 168 80 42 27 76 20 29 26 75 30 57 115 165
oligos_7nt_test_vs_ctrl_m1_shift2 (oligos_7nt_test_vs_ctrl_m1)				; oligos_7nt_test_vs_ctrl_m1 versus oligos_7nt_test_vs_ctrl_m1; m=1/4; ncol2=14; w=0; offset=0; strand=D; shift=2; score= 1; --wwcAAgCAAgCAaw ; cor=; Ncor= a 0 0 332 215 89 487 516 101 28 512 509 101 39 479 334 208 c 0 0 43 48 357 13 4 16 496 7 6 17 474 8 51 56 g 0 0 41 124 29 13 8 362 11 7 14 362 12 11 55 126 t 0 0 139 168 80 42 27 76 20 29 26 75 30 57 115 165
oligos_6nt_test_vs_ctrl_m2_shift3 (oligos_6nt_test_vs_ctrl_m2)				; oligos_7nt_test_vs_ctrl_m1 versus oligos_6nt_test_vs_ctrl_m2; m=2/4; ncol2=13; w=0; offset=1; strand=D; shift=3; score=0.888198; ---wwAAGCAAGCAww ; cor=; Ncor= a 0 0 0 196 152 360 448 39 27 462 476 44 29 386 278 188 c 0 0 0 53 123 34 15 9 445 5 7 9 431 12 53 58 g 0 0 0 112 59 30 15 437 9 8 10 432 12 16 48 122 t 0 0 0 147 174 84 30 23 27 33 15 23 36 94 129 140
oligos_6nt_test_vs_ctrl_m1_shift1 (oligos_6nt_test_vs_ctrl_m1)				; oligos_7nt_test_vs_ctrl_m1 versus oligos_6nt_test_vs_ctrl_m1; m=3/4; ncol2=15; w=-1; offset=-1; strand=D; shift=1; score=0.667561; -wwACAAACAAAAAww ; cor=; Ncor= a 0 419 375 514 96 627 622 646 21 689 665 673 548 663 373 360 c 0 63 94 39 510 23 40 15 670 10 28 18 94 13 86 78 g 0 44 50 55 34 10 18 11 14 6 5 12 21 12 60 83 t 0 211 218 129 97 77 57 65 32 32 39 34 74 49 218 216
oligos_7nt_test_vs_ctrl_m2_shift0 (oligos_7nt_test_vs_ctrl_m2)				; oligos_7nt_test_vs_ctrl_m1 versus oligos_7nt_test_vs_ctrl_m2; m=4/4; ncol2=17; w=-2; offset=-2; strand=D; shift=0; score=0.613494; haAACAAACAAAaAAa ; cor=; Ncor= a 241 372 466 457 64 539 541 522 60 545 549 520 371 509 528 332 c 156 46 32 25 458 6 19 10 475 10 12 18 123 14 15 57 g 38 40 19 33 18 4 4 17 17 2 6 16 22 16 10 60 t 156 133 74 76 51 42 27 42 39 34 24 37 75 52 38 142

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_test_vs_ctrl_m2_shift0 (oligos_7nt_test_vs_ctrl_m2)				; oligos_7nt_test_vs_ctrl_m2; m=0 (reference); ncol1=17; shift=0; ncol=17; haAACAAACAAAaAAaw ; Alignment reference a 241 372 466 457 64 539 541 522 60 545 549 520 371 509 528 332 226 c 156 46 32 25 458 6 19 10 475 10 12 18 123 14 15 57 119 g 38 40 19 33 18 4 4 17 17 2 6 16 22 16 10 60 55 t 156 133 74 76 51 42 27 42 39 34 24 37 75 52 38 142 191
oligos_7nt_test_vs_ctrl_m2_shift0 (oligos_7nt_test_vs_ctrl_m2)				; oligos_7nt_test_vs_ctrl_m2 versus oligos_7nt_test_vs_ctrl_m2; m=1/4; ncol2=17; w=0; offset=0; strand=D; shift=0; score= 1; haAACAAACAAAaAAaw ; cor=; Ncor= a 241 372 466 457 64 539 541 522 60 545 549 520 371 509 528 332 226 c 156 46 32 25 458 6 19 10 475 10 12 18 123 14 15 57 119 g 38 40 19 33 18 4 4 17 17 2 6 16 22 16 10 60 55 t 156 133 74 76 51 42 27 42 39 34 24 37 75 52 38 142 191
oligos_6nt_test_vs_ctrl_m1_shift1 (oligos_6nt_test_vs_ctrl_m1)				; oligos_7nt_test_vs_ctrl_m2 versus oligos_6nt_test_vs_ctrl_m1; m=2/4; ncol2=15; w=0; offset=1; strand=D; shift=1; score=0.854424; -wwACAAACAAAAAww- ; cor=; Ncor= a 0 419 375 514 96 627 622 646 21 689 665 673 548 663 373 360 0 c 0 63 94 39 510 23 40 15 670 10 28 18 94 13 86 78 0 g 0 44 50 55 34 10 18 11 14 6 5 12 21 12 60 83 0 t 0 211 218 129 97 77 57 65 32 32 39 34 74 49 218 216 0
oligos_6nt_test_vs_ctrl_m3_shift0 (oligos_6nt_test_vs_ctrl_m3)				; oligos_7nt_test_vs_ctrl_m2 versus oligos_6nt_test_vs_ctrl_m3; m=3/4; ncol2=13; w=0; offset=0; strand=D; shift=0; score=0.647474; hwwACAcACAawh---- ; cor=; Ncor= a 207 341 225 563 51 566 141 586 50 574 367 365 198 0 0 0 0 c 169 58 103 6 510 13 378 5 516 4 67 39 166 0 0 0 0 g 47 50 41 12 16 6 19 3 6 3 26 41 46 0 0 0 0 t 185 159 239 27 31 23 70 14 36 27 148 163 198 0 0 0 0
oligos_7nt_test_vs_ctrl_m1_shift2 (oligos_7nt_test_vs_ctrl_m1)				; oligos_7nt_test_vs_ctrl_m2 versus oligos_7nt_test_vs_ctrl_m1; m=4/4; ncol2=14; w=0; offset=2; strand=D; shift=2; score=0.613494; --wwcAAgCAAgCAaw- ; cor=; Ncor= a 0 0 332 215 89 487 516 101 28 512 509 101 39 479 334 208 0 c 0 0 43 48 357 13 4 16 496 7 6 17 474 8 51 56 0 g 0 0 41 124 29 13 8 362 11 7 14 362 12 11 55 126 0 t 0 0 139 168 80 42 27 76 20 29 26 75 30 57 115 165 0