One-to-n alignments

Command: compare-matrices  -v 1 -format transfac -file $RSAT/public_html/tmp/www-data/2025/11/25/peak-motifs.2025-11-25.172023_2025-11-25.172023_YEwTMW/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/2025/11/25/peak-motifs.2025-11-25.172023_2025-11-25.172023_YEwTMW/results/discovered_motifs/peak-motifs_motifs_disco_compa.tab

One-to-n matrix alignment; reference matrix: oligos_7nt_test_vs_ctrl_m1_shift7 ; 7 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_test_vs_ctrl_m1_shift7 (oligos_7nt_test_vs_ctrl_m1)
; oligos_7nt_test_vs_ctrl_m1; m=0 (reference); ncol1=24; shift=7; ncol=31; -------bkGgmGCTGTCCrtGGTGCTGAav ; Alignment reference a 0 0 0 0 0 0 0 118 124 97 53 195 81 2 1 24 17 0 1 359 132 21 4 4 55 3 4 28 589 420 200 c 0 0 0 0 0 0 0 211 82 22 140 377 60 720 3 89 10 728 724 65 95 6 4 4 130 723 16 11 45 162 234 g 0 0 0 0 0 0 0 217 313 562 464 19 511 7 4 625 41 4 1 230 70 707 733 0 508 5 5 693 93 77 191 t 0 0 0 0 0 0 0 195 222 60 84 150 89 12 733 3 673 9 15 87 444 7 0 733 48 10 716 9 14 82 116

oligos_7nt_test_vs_ctrl_m1_shift7 (oligos_7nt_test_vs_ctrl_m1)
; oligos_7nt_test_vs_ctrl_m1 versus oligos_7nt_test_vs_ctrl_m1; m=1/6; ncol2=24; w=0; offset=0; strand=D; shift=7; score= 1; -------bkGgmGCTGTCCrtGGTGCTGAav ; cor=; Ncor= a 0 0 0 0 0 0 0 118 124 97 53 195 81 2 1 24 17 0 1 359 132 21 4 4 55 3 4 28 589 420 200 c 0 0 0 0 0 0 0 211 82 22 140 377 60 720 3 89 10 728 724 65 95 6 4 4 130 723 16 11 45 162 234 g 0 0 0 0 0 0 0 217 313 562 464 19 511 7 4 625 41 4 1 230 70 707 733 0 508 5 5 693 93 77 191 t 0 0 0 0 0 0 0 195 222 60 84 150 89 12 733 3 673 9 15 87 444 7 0 733 48 10 716 9 14 82 116

oligos_7nt_test_vs_ctrl_m4_shift7 (oligos_7nt_test_vs_ctrl_m4)
; oligos_7nt_test_vs_ctrl_m1 versus oligos_7nt_test_vs_ctrl_m4; m=2/6; ncol2=24; w=0; offset=0; strand=D; shift=7; score=0.999851; -------bkGgmGCTGTCCrtGGTGCTGAav ; cor=; Ncor= a 0 0 0 0 0 0 0 125 128 98 54 209 80 3 1 24 18 1 0 366 129 23 5 4 57 8 4 31 590 417 199 c 0 0 0 0 0 0 0 204 81 23 134 353 52 716 4 88 9 718 722 64 94 6 3 1 124 711 14 12 46 160 232 g 0 0 0 0 0 0 0 215 308 557 469 22 518 7 5 622 39 8 2 226 70 701 730 1 510 10 5 687 88 77 187 t 0 0 0 0 0 0 0 194 221 60 81 154 88 12 728 4 672 11 14 82 445 8 0 732 47 9 715 8 14 84 120

oligos_6nt_test_vs_ctrl_m2_rc_shift8 (oligos_6nt_test_vs_ctrl_m2_rc)
; oligos_7nt_test_vs_ctrl_m1 versus oligos_6nt_test_vs_ctrl_m2_rc; m=3/6; ncol2=24; w=0; offset=1; strand=R; shift=8; score=0.919731; --------kGgmGCTGTCCrtGGTGCTGAav ; cor=; Ncor= a 0 0 0 0 0 0 0 0 126 99 56 187 80 6 4 25 17 3 3 329 123 21 6 5 50 1 5 21 594 433 198 c 0 0 0 0 0 0 0 0 87 22 136 378 62 716 4 88 16 715 715 71 97 6 1 2 123 719 11 8 46 157 227 g 0 0 0 0 0 0 0 0 303 546 457 21 505 4 8 620 42 6 1 245 67 703 729 1 518 6 2 700 85 67 196 t 0 0 0 0 0 0 0 0 221 70 88 151 90 11 721 4 662 13 18 92 450 7 1 729 46 11 719 8 12 80 116

oligos_7nt_test_vs_ctrl_m2_shift8 (oligos_7nt_test_vs_ctrl_m2)
; oligos_7nt_test_vs_ctrl_m1 versus oligos_7nt_test_vs_ctrl_m2; m=4/6; ncol2=24; w=0; offset=1; strand=D; shift=8; score=0.919556; --------kGgcGCTGTCCrtGGTGCTGAav ; cor=; Ncor= a 0 0 0 0 0 0 0 0 120 95 55 177 77 6 4 23 16 2 3 315 113 21 5 5 46 1 5 18 584 429 195 c 0 0 0 0 0 0 0 0 85 22 134 365 60 692 4 84 15 692 690 70 95 6 1 1 116 697 7 5 39 149 222 g 0 0 0 0 0 0 0 0 293 531 439 21 490 3 6 601 37 6 1 241 61 678 705 1 506 4 2 683 80 59 185 t 0 0 0 0 0 0 0 0 214 64 84 149 85 11 698 4 644 12 18 86 443 7 1 705 44 10 698 6 9 75 110

oligos_6nt_test_vs_ctrl_m3_rc_shift1 (oligos_6nt_test_vs_ctrl_m3_rc)
; oligos_7nt_test_vs_ctrl_m1 versus oligos_6nt_test_vs_ctrl_m3_rc; m=5/6; ncol2=24; w=-6; offset=-6; strand=R; shift=1; score=0.561672; -ssggscggGGcGCTGTCCrtgsts------ ; cor=; Ncor= a 0 73 70 44 40 29 30 47 39 24 25 82 15 4 3 4 15 1 2 189 31 24 19 34 43 0 0 0 0 0 0 c 0 109 106 63 87 188 213 80 48 26 36 219 13 342 7 19 13 344 344 37 66 45 116 64 91 0 0 0 0 0 0 g 0 124 117 213 180 100 73 155 217 290 273 11 310 6 10 329 14 9 8 98 63 216 203 44 182 0 0 0 0 0 0 t 0 51 64 37 50 40 41 75 53 17 23 45 19 5 337 5 315 3 3 33 197 72 19 215 41 0 0 0 0 0 0

oligos_6nt_test_vs_ctrl_m1_shift0 (oligos_6nt_test_vs_ctrl_m1)
; oligos_7nt_test_vs_ctrl_m1 versus oligos_6nt_test_vs_ctrl_m1; m=6/6; ncol2=24; w=-7; offset=-7; strand=D; shift=0; score=0.521761; ssgggscsgGGcGCTGTCCgtGGt------- ; cor=; Ncor= a 112 114 87 91 67 56 52 61 71 47 42 132 40 4 8 6 26 6 7 135 61 30 52 46 0 0 0 0 0 0 0 c 188 182 139 127 144 301 352 163 92 47 79 371 20 586 27 40 28 579 577 74 147 61 93 100 0 0 0 0 0 0 0 g 253 244 298 348 320 192 136 281 341 485 460 38 525 26 41 565 61 27 29 363 108 500 441 88 0 0 0 0 0 0 0 t 68 81 97 55 90 72 81 116 117 42 40 80 36 5 545 10 506 9 8 49 305 30 35 387 0 0 0 0 0 0 0

One-to-n matrix alignment; reference matrix: oligos_7nt_test_vs_ctrl_m2_shift8 ; 7 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_test_vs_ctrl_m2_shift8 (oligos_7nt_test_vs_ctrl_m2)
; oligos_7nt_test_vs_ctrl_m2; m=0 (reference); ncol1=24; shift=8; ncol=32; --------kGgcGCTGTCCrtGGTGCTGAavc ; Alignment reference a 0 0 0 0 0 0 0 0 120 95 55 177 77 6 4 23 16 2 3 315 113 21 5 5 46 1 5 18 584 429 195 150 c 0 0 0 0 0 0 0 0 85 22 134 365 60 692 4 84 15 692 690 70 95 6 1 1 116 697 7 5 39 149 222 250 g 0 0 0 0 0 0 0 0 293 531 439 21 490 3 6 601 37 6 1 241 61 678 705 1 506 4 2 683 80 59 185 162 t 0 0 0 0 0 0 0 0 214 64 84 149 85 11 698 4 644 12 18 86 443 7 1 705 44 10 698 6 9 75 110 150

oligos_7nt_test_vs_ctrl_m2_shift8 (oligos_7nt_test_vs_ctrl_m2)
; oligos_7nt_test_vs_ctrl_m2 versus oligos_7nt_test_vs_ctrl_m2; m=1/6; ncol2=24; w=0; offset=0; strand=D; shift=8; score= 1; --------kGgcGCTGTCCrtGGTGCTGAavc ; cor=; Ncor= a 0 0 0 0 0 0 0 0 120 95 55 177 77 6 4 23 16 2 3 315 113 21 5 5 46 1 5 18 584 429 195 150 c 0 0 0 0 0 0 0 0 85 22 134 365 60 692 4 84 15 692 690 70 95 6 1 1 116 697 7 5 39 149 222 250 g 0 0 0 0 0 0 0 0 293 531 439 21 490 3 6 601 37 6 1 241 61 678 705 1 506 4 2 683 80 59 185 162 t 0 0 0 0 0 0 0 0 214 64 84 149 85 11 698 4 644 12 18 86 443 7 1 705 44 10 698 6 9 75 110 150

oligos_6nt_test_vs_ctrl_m2_rc_shift8 (oligos_6nt_test_vs_ctrl_m2_rc)
; oligos_7nt_test_vs_ctrl_m2 versus oligos_6nt_test_vs_ctrl_m2_rc; m=2/6; ncol2=24; w=0; offset=0; strand=R; shift=8; score=0.99994; --------kGgmGCTGTCCrtGGTGCTGAavc ; cor=; Ncor= a 0 0 0 0 0 0 0 0 126 99 56 187 80 6 4 25 17 3 3 329 123 21 6 5 50 1 5 21 594 433 198 156 c 0 0 0 0 0 0 0 0 87 22 136 378 62 716 4 88 16 715 715 71 97 6 1 2 123 719 11 8 46 157 227 256 g 0 0 0 0 0 0 0 0 303 546 457 21 505 4 8 620 42 6 1 245 67 703 729 1 518 6 2 700 85 67 196 171 t 0 0 0 0 0 0 0 0 221 70 88 151 90 11 721 4 662 13 18 92 450 7 1 729 46 11 719 8 12 80 116 154

oligos_7nt_test_vs_ctrl_m1_shift7 (oligos_7nt_test_vs_ctrl_m1)
; oligos_7nt_test_vs_ctrl_m2 versus oligos_7nt_test_vs_ctrl_m1; m=3/6; ncol2=24; w=-1; offset=-1; strand=D; shift=7; score=0.919556; -------bkGgmGCTGTCCrtGGTGCTGAav- ; cor=; Ncor= a 0 0 0 0 0 0 0 118 124 97 53 195 81 2 1 24 17 0 1 359 132 21 4 4 55 3 4 28 589 420 200 0 c 0 0 0 0 0 0 0 211 82 22 140 377 60 720 3 89 10 728 724 65 95 6 4 4 130 723 16 11 45 162 234 0 g 0 0 0 0 0 0 0 217 313 562 464 19 511 7 4 625 41 4 1 230 70 707 733 0 508 5 5 693 93 77 191 0 t 0 0 0 0 0 0 0 195 222 60 84 150 89 12 733 3 673 9 15 87 444 7 0 733 48 10 716 9 14 82 116 0

oligos_7nt_test_vs_ctrl_m4_shift7 (oligos_7nt_test_vs_ctrl_m4)
; oligos_7nt_test_vs_ctrl_m2 versus oligos_7nt_test_vs_ctrl_m4; m=4/6; ncol2=24; w=-1; offset=-1; strand=D; shift=7; score=0.919383; -------bkGgmGCTGTCCrtGGTGCTGAav- ; cor=; Ncor= a 0 0 0 0 0 0 0 125 128 98 54 209 80 3 1 24 18 1 0 366 129 23 5 4 57 8 4 31 590 417 199 0 c 0 0 0 0 0 0 0 204 81 23 134 353 52 716 4 88 9 718 722 64 94 6 3 1 124 711 14 12 46 160 232 0 g 0 0 0 0 0 0 0 215 308 557 469 22 518 7 5 622 39 8 2 226 70 701 730 1 510 10 5 687 88 77 187 0 t 0 0 0 0 0 0 0 194 221 60 81 154 88 12 728 4 672 11 14 82 445 8 0 732 47 9 715 8 14 84 120 0

oligos_6nt_test_vs_ctrl_m3_rc_shift1 (oligos_6nt_test_vs_ctrl_m3_rc)
; oligos_7nt_test_vs_ctrl_m2 versus oligos_6nt_test_vs_ctrl_m3_rc; m=5/6; ncol2=24; w=-7; offset=-7; strand=R; shift=1; score=0.512785; -ssggscggGGcGCTGTCCrtgsts------- ; cor=; Ncor= a 0 73 70 44 40 29 30 47 39 24 25 82 15 4 3 4 15 1 2 189 31 24 19 34 43 0 0 0 0 0 0 0 c 0 109 106 63 87 188 213 80 48 26 36 219 13 342 7 19 13 344 344 37 66 45 116 64 91 0 0 0 0 0 0 0 g 0 124 117 213 180 100 73 155 217 290 273 11 310 6 10 329 14 9 8 98 63 216 203 44 182 0 0 0 0 0 0 0 t 0 51 64 37 50 40 41 75 53 17 23 45 19 5 337 5 315 3 3 33 197 72 19 215 41 0 0 0 0 0 0 0

oligos_6nt_test_vs_ctrl_m1_shift0 (oligos_6nt_test_vs_ctrl_m1)
; oligos_7nt_test_vs_ctrl_m2 versus oligos_6nt_test_vs_ctrl_m1; m=6/6; ncol2=24; w=-8; offset=-8; strand=D; shift=0; score= 0.4778; ssgggscsgGGcGCTGTCCgtGGt-------- ; cor=; Ncor= a 112 114 87 91 67 56 52 61 71 47 42 132 40 4 8 6 26 6 7 135 61 30 52 46 0 0 0 0 0 0 0 0 c 188 182 139 127 144 301 352 163 92 47 79 371 20 586 27 40 28 579 577 74 147 61 93 100 0 0 0 0 0 0 0 0 g 253 244 298 348 320 192 136 281 341 485 460 38 525 26 41 565 61 27 29 363 108 500 441 88 0 0 0 0 0 0 0 0 t 68 81 97 55 90 72 81 116 117 42 40 80 36 5 545 10 506 9 8 49 305 30 35 387 0 0 0 0 0 0 0 0

One-to-n matrix alignment; reference matrix: oligos_6nt_test_vs_ctrl_m4_shift0 ; 3 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_test_vs_ctrl_m4_shift0 (oligos_6nt_test_vs_ctrl_m4)
; oligos_6nt_test_vs_ctrl_m4; m=0 (reference); ncol1=24; shift=0; ncol=24; scmGCsCCCGCCGCCsCsGCCcss ; Alignment reference a 35 19 82 3 12 6 9 3 5 12 6 10 13 4 4 11 9 13 10 11 9 9 16 32 c 91 141 89 36 199 66 158 182 193 36 194 180 20 206 182 134 185 75 48 194 172 153 117 86 g 79 54 37 176 13 137 55 30 26 170 23 28 182 14 31 75 28 130 158 15 32 51 72 85 t 24 15 21 14 5 20 7 14 5 11 6 11 14 5 12 9 7 11 13 9 16 16 24 26

oligos_6nt_test_vs_ctrl_m4_shift0 (oligos_6nt_test_vs_ctrl_m4)
; oligos_6nt_test_vs_ctrl_m4 versus oligos_6nt_test_vs_ctrl_m4; m=1/2; ncol2=24; w=0; offset=0; strand=D; shift=0; score= 1; scmGCsCCCGCCGCCsCsGCCcss ; cor=; Ncor= a 35 19 82 3 12 6 9 3 5 12 6 10 13 4 4 11 9 13 10 11 9 9 16 32 c 91 141 89 36 199 66 158 182 193 36 194 180 20 206 182 134 185 75 48 194 172 153 117 86 g 79 54 37 176 13 137 55 30 26 170 23 28 182 14 31 75 28 130 158 15 32 51 72 85 t 24 15 21 14 5 20 7 14 5 11 6 11 14 5 12 9 7 11 13 9 16 16 24 26

oligos_7nt_test_vs_ctrl_m5_shift3 (oligos_7nt_test_vs_ctrl_m5)
; oligos_6nt_test_vs_ctrl_m4 versus oligos_7nt_test_vs_ctrl_m5; m=2/2; ncol2=23; w=0; offset=3; strand=D; shift=3; score=0.599023; ---ssGGCGsCGGCssCGsCsCCG ; cor=; Ncor= a 0 0 0 28 37 17 19 13 17 11 9 11 8 5 13 10 6 15 11 3 8 13 15 14 c 0 0 0 124 173 60 69 275 55 81 274 32 68 279 179 209 268 14 212 242 183 221 226 44 g 0 0 0 130 79 223 214 16 218 210 22 260 220 17 110 82 31 274 79 44 103 67 54 237 t 0 0 0 30 23 12 10 8 22 10 7 9 16 11 10 11 7 9 10 23 18 11 17 17

One-to-n matrix alignment; reference matrix: oligos_6nt_test_vs_ctrl_m3_shift7 ; 7 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_test_vs_ctrl_m3_shift7 (oligos_6nt_test_vs_ctrl_m3)
; oligos_6nt_test_vs_ctrl_m3; m=0 (reference); ncol1=24; shift=7; ncol=31; -------sascayGGACAGCgCCccgsccss ; Alignment reference a 0 0 0 0 0 0 0 41 215 19 72 197 33 3 3 315 5 337 5 19 45 23 17 53 75 41 40 50 37 64 51 c 0 0 0 0 0 0 0 182 44 203 216 63 98 8 9 14 329 10 6 310 11 273 290 217 155 73 100 180 213 117 124 g 0 0 0 0 0 0 0 91 64 116 45 66 37 344 344 13 19 7 342 13 219 36 26 48 80 213 188 87 63 106 109 t 0 0 0 0 0 0 0 43 34 19 24 31 189 2 1 15 4 3 4 15 82 25 24 39 47 30 29 40 44 70 73

oligos_6nt_test_vs_ctrl_m3_shift7 (oligos_6nt_test_vs_ctrl_m3)
; oligos_6nt_test_vs_ctrl_m3 versus oligos_6nt_test_vs_ctrl_m3; m=1/6; ncol2=24; w=0; offset=0; strand=D; shift=7; score= 1; -------sascayGGACAGCgCCccgsccss ; cor=; Ncor= a 0 0 0 0 0 0 0 41 215 19 72 197 33 3 3 315 5 337 5 19 45 23 17 53 75 41 40 50 37 64 51 c 0 0 0 0 0 0 0 182 44 203 216 63 98 8 9 14 329 10 6 310 11 273 290 217 155 73 100 180 213 117 124 g 0 0 0 0 0 0 0 91 64 116 45 66 37 344 344 13 19 7 342 13 219 36 26 48 80 213 188 87 63 106 109 t 0 0 0 0 0 0 0 43 34 19 24 31 189 2 1 15 4 3 4 15 82 25 24 39 47 30 29 40 44 70 73

oligos_6nt_test_vs_ctrl_m1_rc_shift8 (oligos_6nt_test_vs_ctrl_m1_rc)
; oligos_6nt_test_vs_ctrl_m3 versus oligos_6nt_test_vs_ctrl_m1_rc; m=2/6; ncol2=24; w=0; offset=1; strand=R; shift=8; score=0.893423; --------aCCacGGACAGCgCCcsgscccs ; cor=; Ncor= a 0 0 0 0 0 0 0 0 387 35 30 305 49 8 9 506 10 545 5 36 80 40 42 117 116 81 72 90 55 97 81 c 0 0 0 0 0 0 0 0 88 441 500 108 363 29 27 61 565 41 26 525 38 460 485 341 281 136 192 320 348 298 244 g 0 0 0 0 0 0 0 0 100 93 61 147 74 577 579 28 40 27 586 20 371 79 47 92 163 352 301 144 127 139 182 t 0 0 0 0 0 0 0 0 46 52 30 61 135 7 6 26 6 8 4 40 132 42 47 71 61 52 56 67 91 87 114

oligos_7nt_test_vs_ctrl_m1_rc_shift1 (oligos_7nt_test_vs_ctrl_m1_rc)
; oligos_6nt_test_vs_ctrl_m3 versus oligos_7nt_test_vs_ctrl_m1_rc; m=3/6; ncol2=24; w=-6; offset=-6; strand=R; shift=1; score=0.561672; -btTCAGCACCayGGACAGCkcCmv------ ; cor=; Ncor= a 0 116 82 14 9 716 10 48 733 0 7 444 87 15 9 673 3 733 12 89 150 84 60 222 195 0 0 0 0 0 0 c 0 191 77 93 693 5 5 508 0 733 707 70 230 1 4 41 625 4 7 511 19 464 562 313 217 0 0 0 0 0 0 g 0 234 162 45 11 16 723 130 4 4 6 95 65 724 728 10 89 3 720 60 377 140 22 82 211 0 0 0 0 0 0 t 0 200 420 589 28 4 3 55 4 4 21 132 359 1 0 17 24 1 2 81 195 53 97 124 118 0 0 0 0 0 0

oligos_7nt_test_vs_ctrl_m4_rc_shift1 (oligos_7nt_test_vs_ctrl_m4_rc)
; oligos_6nt_test_vs_ctrl_m3 versus oligos_7nt_test_vs_ctrl_m4_rc; m=4/6; ncol2=24; w=-6; offset=-6; strand=R; shift=1; score=0.561403; -btTCAGCACCayGGACAGCkcCmv------ ; cor=; Ncor= a 0 120 84 14 8 715 9 47 732 0 8 445 82 14 11 672 4 728 12 88 154 81 60 221 194 0 0 0 0 0 0 c 0 187 77 88 687 5 10 510 1 730 701 70 226 2 8 39 622 5 7 518 22 469 557 308 215 0 0 0 0 0 0 g 0 232 160 46 12 14 711 124 1 3 6 94 64 722 718 9 88 4 716 52 353 134 23 81 204 0 0 0 0 0 0 t 0 199 417 590 31 4 8 57 4 5 23 129 366 0 1 18 24 1 3 80 209 54 98 128 125 0 0 0 0 0 0

oligos_7nt_test_vs_ctrl_m2_rc_shift0 (oligos_7nt_test_vs_ctrl_m2_rc)
; oligos_6nt_test_vs_ctrl_m3 versus oligos_7nt_test_vs_ctrl_m2_rc; m=5/6; ncol2=24; w=-7; offset=-7; strand=R; shift=0; score=0.512785; gbtTCAGCACCayGGACAGCgcCm------- ; cor=; Ncor= a 150 110 75 9 6 698 10 44 705 1 7 443 86 18 12 644 4 698 11 85 149 84 64 214 0 0 0 0 0 0 0 c 162 185 59 80 683 2 4 506 1 705 678 61 241 1 6 37 601 6 3 490 21 439 531 293 0 0 0 0 0 0 0 g 250 222 149 39 5 7 697 116 1 1 6 95 70 690 692 15 84 4 692 60 365 134 22 85 0 0 0 0 0 0 0 t 150 195 429 584 18 5 1 46 5 5 21 113 315 3 2 16 23 4 6 77 177 55 95 120 0 0 0 0 0 0 0

oligos_6nt_test_vs_ctrl_m2_shift0 (oligos_6nt_test_vs_ctrl_m2)
; oligos_6nt_test_vs_ctrl_m3 versus oligos_6nt_test_vs_ctrl_m2; m=6/6; ncol2=24; w=-7; offset=-7; strand=D; shift=0; score=0.512749; gbtTCAGCACCayGGACAGCkcCm------- ; cor=; Ncor= a 154 116 80 12 8 719 11 46 729 1 7 450 92 18 13 662 4 721 11 90 151 88 70 221 0 0 0 0 0 0 0 c 171 196 67 85 700 2 6 518 1 729 703 67 245 1 6 42 620 8 4 505 21 457 546 303 0 0 0 0 0 0 0 g 256 227 157 46 8 11 719 123 2 1 6 97 71 715 715 16 88 4 716 62 378 136 22 87 0 0 0 0 0 0 0 t 156 198 433 594 21 5 1 50 5 6 21 123 329 3 3 17 25 4 6 80 187 56 99 126 0 0 0 0 0 0 0

One-to-n matrix alignment; reference matrix: oligos_6nt_test_vs_ctrl_m2_shift0 ; 7 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_test_vs_ctrl_m2_shift0 (oligos_6nt_test_vs_ctrl_m2)
; oligos_6nt_test_vs_ctrl_m2; m=0 (reference); ncol1=24; shift=0; ncol=24; gbtTCAGCACCayGGACAGCkcCm ; Alignment reference a 154 116 80 12 8 719 11 46 729 1 7 450 92 18 13 662 4 721 11 90 151 88 70 221 c 171 196 67 85 700 2 6 518 1 729 703 67 245 1 6 42 620 8 4 505 21 457 546 303 g 256 227 157 46 8 11 719 123 2 1 6 97 71 715 715 16 88 4 716 62 378 136 22 87 t 156 198 433 594 21 5 1 50 5 6 21 123 329 3 3 17 25 4 6 80 187 56 99 126

oligos_6nt_test_vs_ctrl_m2_shift0 (oligos_6nt_test_vs_ctrl_m2)
; oligos_6nt_test_vs_ctrl_m2 versus oligos_6nt_test_vs_ctrl_m2; m=1/6; ncol2=24; w=0; offset=0; strand=D; shift=0; score= 1; gbtTCAGCACCayGGACAGCkcCm ; cor=; Ncor= a 154 116 80 12 8 719 11 46 729 1 7 450 92 18 13 662 4 721 11 90 151 88 70 221 c 171 196 67 85 700 2 6 518 1 729 703 67 245 1 6 42 620 8 4 505 21 457 546 303 g 256 227 157 46 8 11 719 123 2 1 6 97 71 715 715 16 88 4 716 62 378 136 22 87 t 156 198 433 594 21 5 1 50 5 6 21 123 329 3 3 17 25 4 6 80 187 56 99 126

oligos_7nt_test_vs_ctrl_m2_rc_shift0 (oligos_7nt_test_vs_ctrl_m2_rc)
; oligos_6nt_test_vs_ctrl_m2 versus oligos_7nt_test_vs_ctrl_m2_rc; m=2/6; ncol2=24; w=0; offset=0; strand=R; shift=0; score=0.99994; gbtTCAGCACCayGGACAGCgcCm ; cor=; Ncor= a 150 110 75 9 6 698 10 44 705 1 7 443 86 18 12 644 4 698 11 85 149 84 64 214 c 162 185 59 80 683 2 4 506 1 705 678 61 241 1 6 37 601 6 3 490 21 439 531 293 g 250 222 149 39 5 7 697 116 1 1 6 95 70 690 692 15 84 4 692 60 365 134 22 85 t 150 195 429 584 18 5 1 46 5 5 21 113 315 3 2 16 23 4 6 77 177 55 95 120

oligos_7nt_test_vs_ctrl_m1_rc_shift1 (oligos_7nt_test_vs_ctrl_m1_rc)
; oligos_6nt_test_vs_ctrl_m2 versus oligos_7nt_test_vs_ctrl_m1_rc; m=3/6; ncol2=24; w=0; offset=1; strand=R; shift=1; score=0.919731; -btTCAGCACCayGGACAGCkcCm ; cor=; Ncor= a 0 116 82 14 9 716 10 48 733 0 7 444 87 15 9 673 3 733 12 89 150 84 60 222 c 0 191 77 93 693 5 5 508 0 733 707 70 230 1 4 41 625 4 7 511 19 464 562 313 g 0 234 162 45 11 16 723 130 4 4 6 95 65 724 728 10 89 3 720 60 377 140 22 82 t 0 200 420 589 28 4 3 55 4 4 21 132 359 1 0 17 24 1 2 81 195 53 97 124

oligos_7nt_test_vs_ctrl_m4_rc_shift1 (oligos_7nt_test_vs_ctrl_m4_rc)
; oligos_6nt_test_vs_ctrl_m2 versus oligos_7nt_test_vs_ctrl_m4_rc; m=4/6; ncol2=24; w=0; offset=1; strand=R; shift=1; score=0.919555; -btTCAGCACCayGGACAGCkcCm ; cor=; Ncor= a 0 120 84 14 8 715 9 47 732 0 8 445 82 14 11 672 4 728 12 88 154 81 60 221 c 0 187 77 88 687 5 10 510 1 730 701 70 226 2 8 39 622 5 7 518 22 469 557 308 g 0 232 160 46 12 14 711 124 1 3 6 94 64 722 718 9 88 4 716 52 353 134 23 81 t 0 199 417 590 31 4 8 57 4 5 23 129 366 0 1 18 24 1 3 80 209 54 98 128

oligos_6nt_test_vs_ctrl_m3_shift7 (oligos_6nt_test_vs_ctrl_m3)
; oligos_6nt_test_vs_ctrl_m2 versus oligos_6nt_test_vs_ctrl_m3; m=5/6; ncol2=24; w=0; offset=7; strand=D; shift=7; score=0.512749; -------sascayGGACAGCgCCc ; cor=; Ncor= a 0 0 0 0 0 0 0 41 215 19 72 197 33 3 3 315 5 337 5 19 45 23 17 53 c 0 0 0 0 0 0 0 182 44 203 216 63 98 8 9 14 329 10 6 310 11 273 290 217 g 0 0 0 0 0 0 0 91 64 116 45 66 37 344 344 13 19 7 342 13 219 36 26 48 t 0 0 0 0 0 0 0 43 34 19 24 31 189 2 1 15 4 3 4 15 82 25 24 39

oligos_6nt_test_vs_ctrl_m1_rc_shift8 (oligos_6nt_test_vs_ctrl_m1_rc)
; oligos_6nt_test_vs_ctrl_m2 versus oligos_6nt_test_vs_ctrl_m1_rc; m=6/6; ncol2=24; w=0; offset=8; strand=R; shift=8; score=0.477583; --------aCCacGGACAGCgCCc ; cor=; Ncor= a 0 0 0 0 0 0 0 0 387 35 30 305 49 8 9 506 10 545 5 36 80 40 42 117 c 0 0 0 0 0 0 0 0 88 441 500 108 363 29 27 61 565 41 26 525 38 460 485 341 g 0 0 0 0 0 0 0 0 100 93 61 147 74 577 579 28 40 27 586 20 371 79 47 92 t 0 0 0 0 0 0 0 0 46 52 30 61 135 7 6 26 6 8 4 40 132 42 47 71

One-to-n matrix alignment; reference matrix: oligos_6nt_test_vs_ctrl_m1_shift0 ; 7 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_test_vs_ctrl_m1_shift0 (oligos_6nt_test_vs_ctrl_m1)
; oligos_6nt_test_vs_ctrl_m1; m=0 (reference); ncol1=24; shift=0; ncol=24; ssgggscsgGGcGCTGTCCgtGGt ; Alignment reference a 112 114 87 91 67 56 52 61 71 47 42 132 40 4 8 6 26 6 7 135 61 30 52 46 c 188 182 139 127 144 301 352 163 92 47 79 371 20 586 27 40 28 579 577 74 147 61 93 100 g 253 244 298 348 320 192 136 281 341 485 460 38 525 26 41 565 61 27 29 363 108 500 441 88 t 68 81 97 55 90 72 81 116 117 42 40 80 36 5 545 10 506 9 8 49 305 30 35 387

oligos_6nt_test_vs_ctrl_m1_shift0 (oligos_6nt_test_vs_ctrl_m1)
; oligos_6nt_test_vs_ctrl_m1 versus oligos_6nt_test_vs_ctrl_m1; m=1/6; ncol2=24; w=0; offset=0; strand=D; shift=0; score= 1; ssgggscsgGGcGCTGTCCgtGGt ; cor=; Ncor= a 112 114 87 91 67 56 52 61 71 47 42 132 40 4 8 6 26 6 7 135 61 30 52 46 c 188 182 139 127 144 301 352 163 92 47 79 371 20 586 27 40 28 579 577 74 147 61 93 100 g 253 244 298 348 320 192 136 281 341 485 460 38 525 26 41 565 61 27 29 363 108 500 441 88 t 68 81 97 55 90 72 81 116 117 42 40 80 36 5 545 10 506 9 8 49 305 30 35 387

oligos_6nt_test_vs_ctrl_m3_rc_shift1 (oligos_6nt_test_vs_ctrl_m3_rc)
; oligos_6nt_test_vs_ctrl_m1 versus oligos_6nt_test_vs_ctrl_m3_rc; m=2/6; ncol2=24; w=0; offset=1; strand=R; shift=1; score=0.893423; -ssggscggGGcGCTGTCCrtgst ; cor=; Ncor= a 0 73 70 44 40 29 30 47 39 24 25 82 15 4 3 4 15 1 2 189 31 24 19 34 c 0 109 106 63 87 188 213 80 48 26 36 219 13 342 7 19 13 344 344 37 66 45 116 64 g 0 124 117 213 180 100 73 155 217 290 273 11 310 6 10 329 14 9 8 98 63 216 203 44 t 0 51 64 37 50 40 41 75 53 17 23 45 19 5 337 5 315 3 3 33 197 72 19 215

oligos_7nt_test_vs_ctrl_m1_shift7 (oligos_7nt_test_vs_ctrl_m1)
; oligos_6nt_test_vs_ctrl_m1 versus oligos_7nt_test_vs_ctrl_m1; m=3/6; ncol2=24; w=0; offset=7; strand=D; shift=7; score=0.521761; -------bkGgmGCTGTCCrtGGT ; cor=; Ncor= a 0 0 0 0 0 0 0 118 124 97 53 195 81 2 1 24 17 0 1 359 132 21 4 4 c 0 0 0 0 0 0 0 211 82 22 140 377 60 720 3 89 10 728 724 65 95 6 4 4 g 0 0 0 0 0 0 0 217 313 562 464 19 511 7 4 625 41 4 1 230 70 707 733 0 t 0 0 0 0 0 0 0 195 222 60 84 150 89 12 733 3 673 9 15 87 444 7 0 733

oligos_7nt_test_vs_ctrl_m4_shift7 (oligos_7nt_test_vs_ctrl_m4)
; oligos_6nt_test_vs_ctrl_m1 versus oligos_7nt_test_vs_ctrl_m4; m=4/6; ncol2=24; w=0; offset=7; strand=D; shift=7; score=0.521106; -------bkGgmGCTGTCCrtGGT ; cor=; Ncor= a 0 0 0 0 0 0 0 125 128 98 54 209 80 3 1 24 18 1 0 366 129 23 5 4 c 0 0 0 0 0 0 0 204 81 23 134 353 52 716 4 88 9 718 722 64 94 6 3 1 g 0 0 0 0 0 0 0 215 308 557 469 22 518 7 5 622 39 8 2 226 70 701 730 1 t 0 0 0 0 0 0 0 194 221 60 81 154 88 12 728 4 672 11 14 82 445 8 0 732

oligos_7nt_test_vs_ctrl_m2_shift8 (oligos_7nt_test_vs_ctrl_m2)
; oligos_6nt_test_vs_ctrl_m1 versus oligos_7nt_test_vs_ctrl_m2; m=5/6; ncol2=24; w=0; offset=8; strand=D; shift=8; score= 0.4778; --------kGgcGCTGTCCrtGGT ; cor=; Ncor= a 0 0 0 0 0 0 0 0 120 95 55 177 77 6 4 23 16 2 3 315 113 21 5 5 c 0 0 0 0 0 0 0 0 85 22 134 365 60 692 4 84 15 692 690 70 95 6 1 1 g 0 0 0 0 0 0 0 0 293 531 439 21 490 3 6 601 37 6 1 241 61 678 705 1 t 0 0 0 0 0 0 0 0 214 64 84 149 85 11 698 4 644 12 18 86 443 7 1 705

oligos_6nt_test_vs_ctrl_m2_rc_shift8 (oligos_6nt_test_vs_ctrl_m2_rc)
; oligos_6nt_test_vs_ctrl_m1 versus oligos_6nt_test_vs_ctrl_m2_rc; m=6/6; ncol2=24; w=0; offset=8; strand=R; shift=8; score=0.477583; --------kGgmGCTGTCCrtGGT ; cor=; Ncor= a 0 0 0 0 0 0 0 0 126 99 56 187 80 6 4 25 17 3 3 329 123 21 6 5 c 0 0 0 0 0 0 0 0 87 22 136 378 62 716 4 88 16 715 715 71 97 6 1 2 g 0 0 0 0 0 0 0 0 303 546 457 21 505 4 8 620 42 6 1 245 67 703 729 1 t 0 0 0 0 0 0 0 0 221 70 88 151 90 11 721 4 662 13 18 92 450 7 1 729

One-to-n matrix alignment; reference matrix: oligos_6nt_test_vs_ctrl_m5_shift0 ; 2 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_test_vs_ctrl_m5_shift0 (oligos_6nt_test_vs_ctrl_m5)
; oligos_6nt_test_vs_ctrl_m5; m=0 (reference); ncol1=24; shift=0; ncol=24; skTTCAkCACCatGGTGmTGAAms ; Alignment reference a 9 20 2 12 4 90 8 6 79 1 2 59 17 8 5 19 2 44 1 11 79 90 41 27 c 47 23 10 18 79 20 5 90 6 108 102 13 25 2 0 10 16 57 3 20 5 12 30 31 g 31 30 12 5 20 3 57 16 10 0 2 25 13 102 108 6 90 5 20 79 18 10 23 47 t 27 41 90 79 11 1 44 2 19 5 8 17 59 2 1 79 6 8 90 4 12 2 20 9

oligos_6nt_test_vs_ctrl_m5_shift0 (oligos_6nt_test_vs_ctrl_m5)
; oligos_6nt_test_vs_ctrl_m5 versus oligos_6nt_test_vs_ctrl_m5; m=1/1; ncol2=24; w=0; offset=0; strand=D; shift=0; score= 1; skTTCAkCACCatGGTGmTGAAms ; cor=; Ncor= a 9 20 2 12 4 90 8 6 79 1 2 59 17 8 5 19 2 44 1 11 79 90 41 27 c 47 23 10 18 79 20 5 90 6 108 102 13 25 2 0 10 16 57 3 20 5 12 30 31 g 31 30 12 5 20 3 57 16 10 0 2 25 13 102 108 6 90 5 20 79 18 10 23 47 t 27 41 90 79 11 1 44 2 19 5 8 17 59 2 1 79 6 8 90 4 12 2 20 9

One-to-n matrix alignment; reference matrix: oligos_7nt_test_vs_ctrl_m5_shift3 ; 3 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_test_vs_ctrl_m5_shift3 (oligos_7nt_test_vs_ctrl_m5)
; oligos_7nt_test_vs_ctrl_m5; m=0 (reference); ncol1=23; shift=3; ncol=26; ---ssGGCGsCGGCssCGsCsCCGss ; Alignment reference a 0 0 0 28 37 17 19 13 17 11 9 11 8 5 13 10 6 15 11 3 8 13 15 14 21 40 c 0 0 0 124 173 60 69 275 55 81 274 32 68 279 179 209 268 14 212 242 183 221 226 44 131 150 g 0 0 0 130 79 223 214 16 218 210 22 260 220 17 110 82 31 274 79 44 103 67 54 237 131 83 t 0 0 0 30 23 12 10 8 22 10 7 9 16 11 10 11 7 9 10 23 18 11 17 17 29 39

oligos_7nt_test_vs_ctrl_m5_shift3 (oligos_7nt_test_vs_ctrl_m5)
; oligos_7nt_test_vs_ctrl_m5 versus oligos_7nt_test_vs_ctrl_m5; m=1/2; ncol2=23; w=0; offset=0; strand=D; shift=3; score= 1; ---ssGGCGsCGGCssCGsCsCCGss ; cor=; Ncor= a 0 0 0 28 37 17 19 13 17 11 9 11 8 5 13 10 6 15 11 3 8 13 15 14 21 40 c 0 0 0 124 173 60 69 275 55 81 274 32 68 279 179 209 268 14 212 242 183 221 226 44 131 150 g 0 0 0 130 79 223 214 16 218 210 22 260 220 17 110 82 31 274 79 44 103 67 54 237 131 83 t 0 0 0 30 23 12 10 8 22 10 7 9 16 11 10 11 7 9 10 23 18 11 17 17 29 39

oligos_6nt_test_vs_ctrl_m4_shift0 (oligos_6nt_test_vs_ctrl_m4)
; oligos_7nt_test_vs_ctrl_m5 versus oligos_6nt_test_vs_ctrl_m4; m=2/2; ncol2=24; w=-3; offset=-3; strand=D; shift=0; score=0.599023; scmGCsCCCGCCGCCsCsGCCcss-- ; cor=; Ncor= a 35 19 82 3 12 6 9 3 5 12 6 10 13 4 4 11 9 13 10 11 9 9 16 32 0 0 c 91 141 89 36 199 66 158 182 193 36 194 180 20 206 182 134 185 75 48 194 172 153 117 86 0 0 g 79 54 37 176 13 137 55 30 26 170 23 28 182 14 31 75 28 130 158 15 32 51 72 85 0 0 t 24 15 21 14 5 20 7 14 5 11 6 11 14 5 12 9 7 11 13 9 16 16 24 26 0 0

One-to-n matrix alignment; reference matrix: oligos_7nt_test_vs_ctrl_m3_shift0 ; 2 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_test_vs_ctrl_m3_shift0 (oligos_7nt_test_vs_ctrl_m3)
; oligos_7nt_test_vs_ctrl_m3; m=0 (reference); ncol1=16; shift=0; ncol=16; AATGGAATGGAATGGA ; Alignment reference a 14876 13435 751 657 746 16033 15052 527 581 526 16050 14873 768 860 2548 14724 c 869 866 614 1601 634 158 302 529 687 754 150 490 517 2793 740 287 g 323 1818 205 13508 14837 102 939 188 14785 14972 111 877 154 12249 12693 251 t 472 421 14970 774 323 247 247 15296 487 288 229 300 15101 638 559 1278

oligos_7nt_test_vs_ctrl_m3_shift0 (oligos_7nt_test_vs_ctrl_m3)
; oligos_7nt_test_vs_ctrl_m3 versus oligos_7nt_test_vs_ctrl_m3; m=1/1; ncol2=16; w=0; offset=0; strand=D; shift=0; score= 1; AATGGAATGGAATGGA ; cor=; Ncor= a 14876 13435 751 657 746 16033 15052 527 581 526 16050 14873 768 860 2548 14724 c 869 866 614 1601 634 158 302 529 687 754 150 490 517 2793 740 287 g 323 1818 205 13508 14837 102 939 188 14785 14972 111 877 154 12249 12693 251 t 472 421 14970 774 323 247 247 15296 487 288 229 300 15101 638 559 1278

One-to-n matrix alignment; reference matrix: oligos_7nt_test_vs_ctrl_m4_shift7 ; 7 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_test_vs_ctrl_m4_shift7 (oligos_7nt_test_vs_ctrl_m4)
; oligos_7nt_test_vs_ctrl_m4; m=0 (reference); ncol1=24; shift=7; ncol=31; -------bkGgmGCTGTCCrtGGTGCTGAav ; Alignment reference a 0 0 0 0 0 0 0 125 128 98 54 209 80 3 1 24 18 1 0 366 129 23 5 4 57 8 4 31 590 417 199 c 0 0 0 0 0 0 0 204 81 23 134 353 52 716 4 88 9 718 722 64 94 6 3 1 124 711 14 12 46 160 232 g 0 0 0 0 0 0 0 215 308 557 469 22 518 7 5 622 39 8 2 226 70 701 730 1 510 10 5 687 88 77 187 t 0 0 0 0 0 0 0 194 221 60 81 154 88 12 728 4 672 11 14 82 445 8 0 732 47 9 715 8 14 84 120

oligos_7nt_test_vs_ctrl_m4_shift7 (oligos_7nt_test_vs_ctrl_m4)
; oligos_7nt_test_vs_ctrl_m4 versus oligos_7nt_test_vs_ctrl_m4; m=1/6; ncol2=24; w=0; offset=0; strand=D; shift=7; score= 1; -------bkGgmGCTGTCCrtGGTGCTGAav ; cor=; Ncor= a 0 0 0 0 0 0 0 125 128 98 54 209 80 3 1 24 18 1 0 366 129 23 5 4 57 8 4 31 590 417 199 c 0 0 0 0 0 0 0 204 81 23 134 353 52 716 4 88 9 718 722 64 94 6 3 1 124 711 14 12 46 160 232 g 0 0 0 0 0 0 0 215 308 557 469 22 518 7 5 622 39 8 2 226 70 701 730 1 510 10 5 687 88 77 187 t 0 0 0 0 0 0 0 194 221 60 81 154 88 12 728 4 672 11 14 82 445 8 0 732 47 9 715 8 14 84 120

oligos_7nt_test_vs_ctrl_m1_shift7 (oligos_7nt_test_vs_ctrl_m1)
; oligos_7nt_test_vs_ctrl_m4 versus oligos_7nt_test_vs_ctrl_m1; m=2/6; ncol2=24; w=0; offset=0; strand=D; shift=7; score=0.999851; -------bkGgmGCTGTCCrtGGTGCTGAav ; cor=; Ncor= a 0 0 0 0 0 0 0 118 124 97 53 195 81 2 1 24 17 0 1 359 132 21 4 4 55 3 4 28 589 420 200 c 0 0 0 0 0 0 0 211 82 22 140 377 60 720 3 89 10 728 724 65 95 6 4 4 130 723 16 11 45 162 234 g 0 0 0 0 0 0 0 217 313 562 464 19 511 7 4 625 41 4 1 230 70 707 733 0 508 5 5 693 93 77 191 t 0 0 0 0 0 0 0 195 222 60 84 150 89 12 733 3 673 9 15 87 444 7 0 733 48 10 716 9 14 82 116

oligos_6nt_test_vs_ctrl_m2_rc_shift8 (oligos_6nt_test_vs_ctrl_m2_rc)
; oligos_7nt_test_vs_ctrl_m4 versus oligos_6nt_test_vs_ctrl_m2_rc; m=3/6; ncol2=24; w=0; offset=1; strand=R; shift=8; score=0.919555; --------kGgmGCTGTCCrtGGTGCTGAav ; cor=; Ncor= a 0 0 0 0 0 0 0 0 126 99 56 187 80 6 4 25 17 3 3 329 123 21 6 5 50 1 5 21 594 433 198 c 0 0 0 0 0 0 0 0 87 22 136 378 62 716 4 88 16 715 715 71 97 6 1 2 123 719 11 8 46 157 227 g 0 0 0 0 0 0 0 0 303 546 457 21 505 4 8 620 42 6 1 245 67 703 729 1 518 6 2 700 85 67 196 t 0 0 0 0 0 0 0 0 221 70 88 151 90 11 721 4 662 13 18 92 450 7 1 729 46 11 719 8 12 80 116

oligos_7nt_test_vs_ctrl_m2_shift8 (oligos_7nt_test_vs_ctrl_m2)
; oligos_7nt_test_vs_ctrl_m4 versus oligos_7nt_test_vs_ctrl_m2; m=4/6; ncol2=24; w=0; offset=1; strand=D; shift=8; score=0.919383; --------kGgcGCTGTCCrtGGTGCTGAav ; cor=; Ncor= a 0 0 0 0 0 0 0 0 120 95 55 177 77 6 4 23 16 2 3 315 113 21 5 5 46 1 5 18 584 429 195 c 0 0 0 0 0 0 0 0 85 22 134 365 60 692 4 84 15 692 690 70 95 6 1 1 116 697 7 5 39 149 222 g 0 0 0 0 0 0 0 0 293 531 439 21 490 3 6 601 37 6 1 241 61 678 705 1 506 4 2 683 80 59 185 t 0 0 0 0 0 0 0 0 214 64 84 149 85 11 698 4 644 12 18 86 443 7 1 705 44 10 698 6 9 75 110

oligos_6nt_test_vs_ctrl_m3_rc_shift1 (oligos_6nt_test_vs_ctrl_m3_rc)
; oligos_7nt_test_vs_ctrl_m4 versus oligos_6nt_test_vs_ctrl_m3_rc; m=5/6; ncol2=24; w=-6; offset=-6; strand=R; shift=1; score=0.561403; -ssggscggGGcGCTGTCCrtgsts------ ; cor=; Ncor= a 0 73 70 44 40 29 30 47 39 24 25 82 15 4 3 4 15 1 2 189 31 24 19 34 43 0 0 0 0 0 0 c 0 109 106 63 87 188 213 80 48 26 36 219 13 342 7 19 13 344 344 37 66 45 116 64 91 0 0 0 0 0 0 g 0 124 117 213 180 100 73 155 217 290 273 11 310 6 10 329 14 9 8 98 63 216 203 44 182 0 0 0 0 0 0 t 0 51 64 37 50 40 41 75 53 17 23 45 19 5 337 5 315 3 3 33 197 72 19 215 41 0 0 0 0 0 0

oligos_6nt_test_vs_ctrl_m1_shift0 (oligos_6nt_test_vs_ctrl_m1)
; oligos_7nt_test_vs_ctrl_m4 versus oligos_6nt_test_vs_ctrl_m1; m=6/6; ncol2=24; w=-7; offset=-7; strand=D; shift=0; score=0.521106; ssgggscsgGGcGCTGTCCgtGGt------- ; cor=; Ncor= a 112 114 87 91 67 56 52 61 71 47 42 132 40 4 8 6 26 6 7 135 61 30 52 46 0 0 0 0 0 0 0 c 188 182 139 127 144 301 352 163 92 47 79 371 20 586 27 40 28 579 577 74 147 61 93 100 0 0 0 0 0 0 0 g 253 244 298 348 320 192 136 281 341 485 460 38 525 26 41 565 61 27 29 363 108 500 441 88 0 0 0 0 0 0 0 t 68 81 97 55 90 72 81 116 117 42 40 80 36 5 545 10 506 9 8 49 305 30 35 387 0 0 0 0 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_test_vs_ctrl_m1_shift7 (oligos_7nt_test_vs_ctrl_m1)				; oligos_7nt_test_vs_ctrl_m1; m=0 (reference); ncol1=24; shift=7; ncol=31; -------bkGgmGCTGTCCrtGGTGCTGAav ; Alignment reference a 0 0 0 0 0 0 0 118 124 97 53 195 81 2 1 24 17 0 1 359 132 21 4 4 55 3 4 28 589 420 200 c 0 0 0 0 0 0 0 211 82 22 140 377 60 720 3 89 10 728 724 65 95 6 4 4 130 723 16 11 45 162 234 g 0 0 0 0 0 0 0 217 313 562 464 19 511 7 4 625 41 4 1 230 70 707 733 0 508 5 5 693 93 77 191 t 0 0 0 0 0 0 0 195 222 60 84 150 89 12 733 3 673 9 15 87 444 7 0 733 48 10 716 9 14 82 116
oligos_7nt_test_vs_ctrl_m1_shift7 (oligos_7nt_test_vs_ctrl_m1)				; oligos_7nt_test_vs_ctrl_m1 versus oligos_7nt_test_vs_ctrl_m1; m=1/6; ncol2=24; w=0; offset=0; strand=D; shift=7; score= 1; -------bkGgmGCTGTCCrtGGTGCTGAav ; cor=; Ncor= a 0 0 0 0 0 0 0 118 124 97 53 195 81 2 1 24 17 0 1 359 132 21 4 4 55 3 4 28 589 420 200 c 0 0 0 0 0 0 0 211 82 22 140 377 60 720 3 89 10 728 724 65 95 6 4 4 130 723 16 11 45 162 234 g 0 0 0 0 0 0 0 217 313 562 464 19 511 7 4 625 41 4 1 230 70 707 733 0 508 5 5 693 93 77 191 t 0 0 0 0 0 0 0 195 222 60 84 150 89 12 733 3 673 9 15 87 444 7 0 733 48 10 716 9 14 82 116
oligos_7nt_test_vs_ctrl_m4_shift7 (oligos_7nt_test_vs_ctrl_m4)				; oligos_7nt_test_vs_ctrl_m1 versus oligos_7nt_test_vs_ctrl_m4; m=2/6; ncol2=24; w=0; offset=0; strand=D; shift=7; score=0.999851; -------bkGgmGCTGTCCrtGGTGCTGAav ; cor=; Ncor= a 0 0 0 0 0 0 0 125 128 98 54 209 80 3 1 24 18 1 0 366 129 23 5 4 57 8 4 31 590 417 199 c 0 0 0 0 0 0 0 204 81 23 134 353 52 716 4 88 9 718 722 64 94 6 3 1 124 711 14 12 46 160 232 g 0 0 0 0 0 0 0 215 308 557 469 22 518 7 5 622 39 8 2 226 70 701 730 1 510 10 5 687 88 77 187 t 0 0 0 0 0 0 0 194 221 60 81 154 88 12 728 4 672 11 14 82 445 8 0 732 47 9 715 8 14 84 120
oligos_6nt_test_vs_ctrl_m2_rc_shift8 (oligos_6nt_test_vs_ctrl_m2_rc)				; oligos_7nt_test_vs_ctrl_m1 versus oligos_6nt_test_vs_ctrl_m2_rc; m=3/6; ncol2=24; w=0; offset=1; strand=R; shift=8; score=0.919731; --------kGgmGCTGTCCrtGGTGCTGAav ; cor=; Ncor= a 0 0 0 0 0 0 0 0 126 99 56 187 80 6 4 25 17 3 3 329 123 21 6 5 50 1 5 21 594 433 198 c 0 0 0 0 0 0 0 0 87 22 136 378 62 716 4 88 16 715 715 71 97 6 1 2 123 719 11 8 46 157 227 g 0 0 0 0 0 0 0 0 303 546 457 21 505 4 8 620 42 6 1 245 67 703 729 1 518 6 2 700 85 67 196 t 0 0 0 0 0 0 0 0 221 70 88 151 90 11 721 4 662 13 18 92 450 7 1 729 46 11 719 8 12 80 116
oligos_7nt_test_vs_ctrl_m2_shift8 (oligos_7nt_test_vs_ctrl_m2)				; oligos_7nt_test_vs_ctrl_m1 versus oligos_7nt_test_vs_ctrl_m2; m=4/6; ncol2=24; w=0; offset=1; strand=D; shift=8; score=0.919556; --------kGgcGCTGTCCrtGGTGCTGAav ; cor=; Ncor= a 0 0 0 0 0 0 0 0 120 95 55 177 77 6 4 23 16 2 3 315 113 21 5 5 46 1 5 18 584 429 195 c 0 0 0 0 0 0 0 0 85 22 134 365 60 692 4 84 15 692 690 70 95 6 1 1 116 697 7 5 39 149 222 g 0 0 0 0 0 0 0 0 293 531 439 21 490 3 6 601 37 6 1 241 61 678 705 1 506 4 2 683 80 59 185 t 0 0 0 0 0 0 0 0 214 64 84 149 85 11 698 4 644 12 18 86 443 7 1 705 44 10 698 6 9 75 110
oligos_6nt_test_vs_ctrl_m3_rc_shift1 (oligos_6nt_test_vs_ctrl_m3_rc)				; oligos_7nt_test_vs_ctrl_m1 versus oligos_6nt_test_vs_ctrl_m3_rc; m=5/6; ncol2=24; w=-6; offset=-6; strand=R; shift=1; score=0.561672; -ssggscggGGcGCTGTCCrtgsts------ ; cor=; Ncor= a 0 73 70 44 40 29 30 47 39 24 25 82 15 4 3 4 15 1 2 189 31 24 19 34 43 0 0 0 0 0 0 c 0 109 106 63 87 188 213 80 48 26 36 219 13 342 7 19 13 344 344 37 66 45 116 64 91 0 0 0 0 0 0 g 0 124 117 213 180 100 73 155 217 290 273 11 310 6 10 329 14 9 8 98 63 216 203 44 182 0 0 0 0 0 0 t 0 51 64 37 50 40 41 75 53 17 23 45 19 5 337 5 315 3 3 33 197 72 19 215 41 0 0 0 0 0 0
oligos_6nt_test_vs_ctrl_m1_shift0 (oligos_6nt_test_vs_ctrl_m1)				; oligos_7nt_test_vs_ctrl_m1 versus oligos_6nt_test_vs_ctrl_m1; m=6/6; ncol2=24; w=-7; offset=-7; strand=D; shift=0; score=0.521761; ssgggscsgGGcGCTGTCCgtGGt------- ; cor=; Ncor= a 112 114 87 91 67 56 52 61 71 47 42 132 40 4 8 6 26 6 7 135 61 30 52 46 0 0 0 0 0 0 0 c 188 182 139 127 144 301 352 163 92 47 79 371 20 586 27 40 28 579 577 74 147 61 93 100 0 0 0 0 0 0 0 g 253 244 298 348 320 192 136 281 341 485 460 38 525 26 41 565 61 27 29 363 108 500 441 88 0 0 0 0 0 0 0 t 68 81 97 55 90 72 81 116 117 42 40 80 36 5 545 10 506 9 8 49 305 30 35 387 0 0 0 0 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_test_vs_ctrl_m2_shift8 (oligos_7nt_test_vs_ctrl_m2)				; oligos_7nt_test_vs_ctrl_m2; m=0 (reference); ncol1=24; shift=8; ncol=32; --------kGgcGCTGTCCrtGGTGCTGAavc ; Alignment reference a 0 0 0 0 0 0 0 0 120 95 55 177 77 6 4 23 16 2 3 315 113 21 5 5 46 1 5 18 584 429 195 150 c 0 0 0 0 0 0 0 0 85 22 134 365 60 692 4 84 15 692 690 70 95 6 1 1 116 697 7 5 39 149 222 250 g 0 0 0 0 0 0 0 0 293 531 439 21 490 3 6 601 37 6 1 241 61 678 705 1 506 4 2 683 80 59 185 162 t 0 0 0 0 0 0 0 0 214 64 84 149 85 11 698 4 644 12 18 86 443 7 1 705 44 10 698 6 9 75 110 150
oligos_7nt_test_vs_ctrl_m2_shift8 (oligos_7nt_test_vs_ctrl_m2)				; oligos_7nt_test_vs_ctrl_m2 versus oligos_7nt_test_vs_ctrl_m2; m=1/6; ncol2=24; w=0; offset=0; strand=D; shift=8; score= 1; --------kGgcGCTGTCCrtGGTGCTGAavc ; cor=; Ncor= a 0 0 0 0 0 0 0 0 120 95 55 177 77 6 4 23 16 2 3 315 113 21 5 5 46 1 5 18 584 429 195 150 c 0 0 0 0 0 0 0 0 85 22 134 365 60 692 4 84 15 692 690 70 95 6 1 1 116 697 7 5 39 149 222 250 g 0 0 0 0 0 0 0 0 293 531 439 21 490 3 6 601 37 6 1 241 61 678 705 1 506 4 2 683 80 59 185 162 t 0 0 0 0 0 0 0 0 214 64 84 149 85 11 698 4 644 12 18 86 443 7 1 705 44 10 698 6 9 75 110 150
oligos_6nt_test_vs_ctrl_m2_rc_shift8 (oligos_6nt_test_vs_ctrl_m2_rc)				; oligos_7nt_test_vs_ctrl_m2 versus oligos_6nt_test_vs_ctrl_m2_rc; m=2/6; ncol2=24; w=0; offset=0; strand=R; shift=8; score=0.99994; --------kGgmGCTGTCCrtGGTGCTGAavc ; cor=; Ncor= a 0 0 0 0 0 0 0 0 126 99 56 187 80 6 4 25 17 3 3 329 123 21 6 5 50 1 5 21 594 433 198 156 c 0 0 0 0 0 0 0 0 87 22 136 378 62 716 4 88 16 715 715 71 97 6 1 2 123 719 11 8 46 157 227 256 g 0 0 0 0 0 0 0 0 303 546 457 21 505 4 8 620 42 6 1 245 67 703 729 1 518 6 2 700 85 67 196 171 t 0 0 0 0 0 0 0 0 221 70 88 151 90 11 721 4 662 13 18 92 450 7 1 729 46 11 719 8 12 80 116 154
oligos_7nt_test_vs_ctrl_m1_shift7 (oligos_7nt_test_vs_ctrl_m1)				; oligos_7nt_test_vs_ctrl_m2 versus oligos_7nt_test_vs_ctrl_m1; m=3/6; ncol2=24; w=-1; offset=-1; strand=D; shift=7; score=0.919556; -------bkGgmGCTGTCCrtGGTGCTGAav- ; cor=; Ncor= a 0 0 0 0 0 0 0 118 124 97 53 195 81 2 1 24 17 0 1 359 132 21 4 4 55 3 4 28 589 420 200 0 c 0 0 0 0 0 0 0 211 82 22 140 377 60 720 3 89 10 728 724 65 95 6 4 4 130 723 16 11 45 162 234 0 g 0 0 0 0 0 0 0 217 313 562 464 19 511 7 4 625 41 4 1 230 70 707 733 0 508 5 5 693 93 77 191 0 t 0 0 0 0 0 0 0 195 222 60 84 150 89 12 733 3 673 9 15 87 444 7 0 733 48 10 716 9 14 82 116 0
oligos_7nt_test_vs_ctrl_m4_shift7 (oligos_7nt_test_vs_ctrl_m4)				; oligos_7nt_test_vs_ctrl_m2 versus oligos_7nt_test_vs_ctrl_m4; m=4/6; ncol2=24; w=-1; offset=-1; strand=D; shift=7; score=0.919383; -------bkGgmGCTGTCCrtGGTGCTGAav- ; cor=; Ncor= a 0 0 0 0 0 0 0 125 128 98 54 209 80 3 1 24 18 1 0 366 129 23 5 4 57 8 4 31 590 417 199 0 c 0 0 0 0 0 0 0 204 81 23 134 353 52 716 4 88 9 718 722 64 94 6 3 1 124 711 14 12 46 160 232 0 g 0 0 0 0 0 0 0 215 308 557 469 22 518 7 5 622 39 8 2 226 70 701 730 1 510 10 5 687 88 77 187 0 t 0 0 0 0 0 0 0 194 221 60 81 154 88 12 728 4 672 11 14 82 445 8 0 732 47 9 715 8 14 84 120 0
oligos_6nt_test_vs_ctrl_m3_rc_shift1 (oligos_6nt_test_vs_ctrl_m3_rc)				; oligos_7nt_test_vs_ctrl_m2 versus oligos_6nt_test_vs_ctrl_m3_rc; m=5/6; ncol2=24; w=-7; offset=-7; strand=R; shift=1; score=0.512785; -ssggscggGGcGCTGTCCrtgsts------- ; cor=; Ncor= a 0 73 70 44 40 29 30 47 39 24 25 82 15 4 3 4 15 1 2 189 31 24 19 34 43 0 0 0 0 0 0 0 c 0 109 106 63 87 188 213 80 48 26 36 219 13 342 7 19 13 344 344 37 66 45 116 64 91 0 0 0 0 0 0 0 g 0 124 117 213 180 100 73 155 217 290 273 11 310 6 10 329 14 9 8 98 63 216 203 44 182 0 0 0 0 0 0 0 t 0 51 64 37 50 40 41 75 53 17 23 45 19 5 337 5 315 3 3 33 197 72 19 215 41 0 0 0 0 0 0 0
oligos_6nt_test_vs_ctrl_m1_shift0 (oligos_6nt_test_vs_ctrl_m1)				; oligos_7nt_test_vs_ctrl_m2 versus oligos_6nt_test_vs_ctrl_m1; m=6/6; ncol2=24; w=-8; offset=-8; strand=D; shift=0; score= 0.4778; ssgggscsgGGcGCTGTCCgtGGt-------- ; cor=; Ncor= a 112 114 87 91 67 56 52 61 71 47 42 132 40 4 8 6 26 6 7 135 61 30 52 46 0 0 0 0 0 0 0 0 c 188 182 139 127 144 301 352 163 92 47 79 371 20 586 27 40 28 579 577 74 147 61 93 100 0 0 0 0 0 0 0 0 g 253 244 298 348 320 192 136 281 341 485 460 38 525 26 41 565 61 27 29 363 108 500 441 88 0 0 0 0 0 0 0 0 t 68 81 97 55 90 72 81 116 117 42 40 80 36 5 545 10 506 9 8 49 305 30 35 387 0 0 0 0 0 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_6nt_test_vs_ctrl_m3_shift7 (oligos_6nt_test_vs_ctrl_m3)				; oligos_6nt_test_vs_ctrl_m3; m=0 (reference); ncol1=24; shift=7; ncol=31; -------sascayGGACAGCgCCccgsccss ; Alignment reference a 0 0 0 0 0 0 0 41 215 19 72 197 33 3 3 315 5 337 5 19 45 23 17 53 75 41 40 50 37 64 51 c 0 0 0 0 0 0 0 182 44 203 216 63 98 8 9 14 329 10 6 310 11 273 290 217 155 73 100 180 213 117 124 g 0 0 0 0 0 0 0 91 64 116 45 66 37 344 344 13 19 7 342 13 219 36 26 48 80 213 188 87 63 106 109 t 0 0 0 0 0 0 0 43 34 19 24 31 189 2 1 15 4 3 4 15 82 25 24 39 47 30 29 40 44 70 73
oligos_6nt_test_vs_ctrl_m3_shift7 (oligos_6nt_test_vs_ctrl_m3)				; oligos_6nt_test_vs_ctrl_m3 versus oligos_6nt_test_vs_ctrl_m3; m=1/6; ncol2=24; w=0; offset=0; strand=D; shift=7; score= 1; -------sascayGGACAGCgCCccgsccss ; cor=; Ncor= a 0 0 0 0 0 0 0 41 215 19 72 197 33 3 3 315 5 337 5 19 45 23 17 53 75 41 40 50 37 64 51 c 0 0 0 0 0 0 0 182 44 203 216 63 98 8 9 14 329 10 6 310 11 273 290 217 155 73 100 180 213 117 124 g 0 0 0 0 0 0 0 91 64 116 45 66 37 344 344 13 19 7 342 13 219 36 26 48 80 213 188 87 63 106 109 t 0 0 0 0 0 0 0 43 34 19 24 31 189 2 1 15 4 3 4 15 82 25 24 39 47 30 29 40 44 70 73
oligos_6nt_test_vs_ctrl_m1_rc_shift8 (oligos_6nt_test_vs_ctrl_m1_rc)				; oligos_6nt_test_vs_ctrl_m3 versus oligos_6nt_test_vs_ctrl_m1_rc; m=2/6; ncol2=24; w=0; offset=1; strand=R; shift=8; score=0.893423; --------aCCacGGACAGCgCCcsgscccs ; cor=; Ncor= a 0 0 0 0 0 0 0 0 387 35 30 305 49 8 9 506 10 545 5 36 80 40 42 117 116 81 72 90 55 97 81 c 0 0 0 0 0 0 0 0 88 441 500 108 363 29 27 61 565 41 26 525 38 460 485 341 281 136 192 320 348 298 244 g 0 0 0 0 0 0 0 0 100 93 61 147 74 577 579 28 40 27 586 20 371 79 47 92 163 352 301 144 127 139 182 t 0 0 0 0 0 0 0 0 46 52 30 61 135 7 6 26 6 8 4 40 132 42 47 71 61 52 56 67 91 87 114
oligos_7nt_test_vs_ctrl_m1_rc_shift1 (oligos_7nt_test_vs_ctrl_m1_rc)				; oligos_6nt_test_vs_ctrl_m3 versus oligos_7nt_test_vs_ctrl_m1_rc; m=3/6; ncol2=24; w=-6; offset=-6; strand=R; shift=1; score=0.561672; -btTCAGCACCayGGACAGCkcCmv------ ; cor=; Ncor= a 0 116 82 14 9 716 10 48 733 0 7 444 87 15 9 673 3 733 12 89 150 84 60 222 195 0 0 0 0 0 0 c 0 191 77 93 693 5 5 508 0 733 707 70 230 1 4 41 625 4 7 511 19 464 562 313 217 0 0 0 0 0 0 g 0 234 162 45 11 16 723 130 4 4 6 95 65 724 728 10 89 3 720 60 377 140 22 82 211 0 0 0 0 0 0 t 0 200 420 589 28 4 3 55 4 4 21 132 359 1 0 17 24 1 2 81 195 53 97 124 118 0 0 0 0 0 0
oligos_7nt_test_vs_ctrl_m4_rc_shift1 (oligos_7nt_test_vs_ctrl_m4_rc)				; oligos_6nt_test_vs_ctrl_m3 versus oligos_7nt_test_vs_ctrl_m4_rc; m=4/6; ncol2=24; w=-6; offset=-6; strand=R; shift=1; score=0.561403; -btTCAGCACCayGGACAGCkcCmv------ ; cor=; Ncor= a 0 120 84 14 8 715 9 47 732 0 8 445 82 14 11 672 4 728 12 88 154 81 60 221 194 0 0 0 0 0 0 c 0 187 77 88 687 5 10 510 1 730 701 70 226 2 8 39 622 5 7 518 22 469 557 308 215 0 0 0 0 0 0 g 0 232 160 46 12 14 711 124 1 3 6 94 64 722 718 9 88 4 716 52 353 134 23 81 204 0 0 0 0 0 0 t 0 199 417 590 31 4 8 57 4 5 23 129 366 0 1 18 24 1 3 80 209 54 98 128 125 0 0 0 0 0 0
oligos_7nt_test_vs_ctrl_m2_rc_shift0 (oligos_7nt_test_vs_ctrl_m2_rc)				; oligos_6nt_test_vs_ctrl_m3 versus oligos_7nt_test_vs_ctrl_m2_rc; m=5/6; ncol2=24; w=-7; offset=-7; strand=R; shift=0; score=0.512785; gbtTCAGCACCayGGACAGCgcCm------- ; cor=; Ncor= a 150 110 75 9 6 698 10 44 705 1 7 443 86 18 12 644 4 698 11 85 149 84 64 214 0 0 0 0 0 0 0 c 162 185 59 80 683 2 4 506 1 705 678 61 241 1 6 37 601 6 3 490 21 439 531 293 0 0 0 0 0 0 0 g 250 222 149 39 5 7 697 116 1 1 6 95 70 690 692 15 84 4 692 60 365 134 22 85 0 0 0 0 0 0 0 t 150 195 429 584 18 5 1 46 5 5 21 113 315 3 2 16 23 4 6 77 177 55 95 120 0 0 0 0 0 0 0
oligos_6nt_test_vs_ctrl_m2_shift0 (oligos_6nt_test_vs_ctrl_m2)				; oligos_6nt_test_vs_ctrl_m3 versus oligos_6nt_test_vs_ctrl_m2; m=6/6; ncol2=24; w=-7; offset=-7; strand=D; shift=0; score=0.512749; gbtTCAGCACCayGGACAGCkcCm------- ; cor=; Ncor= a 154 116 80 12 8 719 11 46 729 1 7 450 92 18 13 662 4 721 11 90 151 88 70 221 0 0 0 0 0 0 0 c 171 196 67 85 700 2 6 518 1 729 703 67 245 1 6 42 620 8 4 505 21 457 546 303 0 0 0 0 0 0 0 g 256 227 157 46 8 11 719 123 2 1 6 97 71 715 715 16 88 4 716 62 378 136 22 87 0 0 0 0 0 0 0 t 156 198 433 594 21 5 1 50 5 6 21 123 329 3 3 17 25 4 6 80 187 56 99 126 0 0 0 0 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_6nt_test_vs_ctrl_m2_shift0 (oligos_6nt_test_vs_ctrl_m2)				; oligos_6nt_test_vs_ctrl_m2; m=0 (reference); ncol1=24; shift=0; ncol=24; gbtTCAGCACCayGGACAGCkcCm ; Alignment reference a 154 116 80 12 8 719 11 46 729 1 7 450 92 18 13 662 4 721 11 90 151 88 70 221 c 171 196 67 85 700 2 6 518 1 729 703 67 245 1 6 42 620 8 4 505 21 457 546 303 g 256 227 157 46 8 11 719 123 2 1 6 97 71 715 715 16 88 4 716 62 378 136 22 87 t 156 198 433 594 21 5 1 50 5 6 21 123 329 3 3 17 25 4 6 80 187 56 99 126
oligos_6nt_test_vs_ctrl_m2_shift0 (oligos_6nt_test_vs_ctrl_m2)				; oligos_6nt_test_vs_ctrl_m2 versus oligos_6nt_test_vs_ctrl_m2; m=1/6; ncol2=24; w=0; offset=0; strand=D; shift=0; score= 1; gbtTCAGCACCayGGACAGCkcCm ; cor=; Ncor= a 154 116 80 12 8 719 11 46 729 1 7 450 92 18 13 662 4 721 11 90 151 88 70 221 c 171 196 67 85 700 2 6 518 1 729 703 67 245 1 6 42 620 8 4 505 21 457 546 303 g 256 227 157 46 8 11 719 123 2 1 6 97 71 715 715 16 88 4 716 62 378 136 22 87 t 156 198 433 594 21 5 1 50 5 6 21 123 329 3 3 17 25 4 6 80 187 56 99 126
oligos_7nt_test_vs_ctrl_m2_rc_shift0 (oligos_7nt_test_vs_ctrl_m2_rc)				; oligos_6nt_test_vs_ctrl_m2 versus oligos_7nt_test_vs_ctrl_m2_rc; m=2/6; ncol2=24; w=0; offset=0; strand=R; shift=0; score=0.99994; gbtTCAGCACCayGGACAGCgcCm ; cor=; Ncor= a 150 110 75 9 6 698 10 44 705 1 7 443 86 18 12 644 4 698 11 85 149 84 64 214 c 162 185 59 80 683 2 4 506 1 705 678 61 241 1 6 37 601 6 3 490 21 439 531 293 g 250 222 149 39 5 7 697 116 1 1 6 95 70 690 692 15 84 4 692 60 365 134 22 85 t 150 195 429 584 18 5 1 46 5 5 21 113 315 3 2 16 23 4 6 77 177 55 95 120
oligos_7nt_test_vs_ctrl_m1_rc_shift1 (oligos_7nt_test_vs_ctrl_m1_rc)				; oligos_6nt_test_vs_ctrl_m2 versus oligos_7nt_test_vs_ctrl_m1_rc; m=3/6; ncol2=24; w=0; offset=1; strand=R; shift=1; score=0.919731; -btTCAGCACCayGGACAGCkcCm ; cor=; Ncor= a 0 116 82 14 9 716 10 48 733 0 7 444 87 15 9 673 3 733 12 89 150 84 60 222 c 0 191 77 93 693 5 5 508 0 733 707 70 230 1 4 41 625 4 7 511 19 464 562 313 g 0 234 162 45 11 16 723 130 4 4 6 95 65 724 728 10 89 3 720 60 377 140 22 82 t 0 200 420 589 28 4 3 55 4 4 21 132 359 1 0 17 24 1 2 81 195 53 97 124
oligos_7nt_test_vs_ctrl_m4_rc_shift1 (oligos_7nt_test_vs_ctrl_m4_rc)				; oligos_6nt_test_vs_ctrl_m2 versus oligos_7nt_test_vs_ctrl_m4_rc; m=4/6; ncol2=24; w=0; offset=1; strand=R; shift=1; score=0.919555; -btTCAGCACCayGGACAGCkcCm ; cor=; Ncor= a 0 120 84 14 8 715 9 47 732 0 8 445 82 14 11 672 4 728 12 88 154 81 60 221 c 0 187 77 88 687 5 10 510 1 730 701 70 226 2 8 39 622 5 7 518 22 469 557 308 g 0 232 160 46 12 14 711 124 1 3 6 94 64 722 718 9 88 4 716 52 353 134 23 81 t 0 199 417 590 31 4 8 57 4 5 23 129 366 0 1 18 24 1 3 80 209 54 98 128
oligos_6nt_test_vs_ctrl_m3_shift7 (oligos_6nt_test_vs_ctrl_m3)				; oligos_6nt_test_vs_ctrl_m2 versus oligos_6nt_test_vs_ctrl_m3; m=5/6; ncol2=24; w=0; offset=7; strand=D; shift=7; score=0.512749; -------sascayGGACAGCgCCc ; cor=; Ncor= a 0 0 0 0 0 0 0 41 215 19 72 197 33 3 3 315 5 337 5 19 45 23 17 53 c 0 0 0 0 0 0 0 182 44 203 216 63 98 8 9 14 329 10 6 310 11 273 290 217 g 0 0 0 0 0 0 0 91 64 116 45 66 37 344 344 13 19 7 342 13 219 36 26 48 t 0 0 0 0 0 0 0 43 34 19 24 31 189 2 1 15 4 3 4 15 82 25 24 39
oligos_6nt_test_vs_ctrl_m1_rc_shift8 (oligos_6nt_test_vs_ctrl_m1_rc)				; oligos_6nt_test_vs_ctrl_m2 versus oligos_6nt_test_vs_ctrl_m1_rc; m=6/6; ncol2=24; w=0; offset=8; strand=R; shift=8; score=0.477583; --------aCCacGGACAGCgCCc ; cor=; Ncor= a 0 0 0 0 0 0 0 0 387 35 30 305 49 8 9 506 10 545 5 36 80 40 42 117 c 0 0 0 0 0 0 0 0 88 441 500 108 363 29 27 61 565 41 26 525 38 460 485 341 g 0 0 0 0 0 0 0 0 100 93 61 147 74 577 579 28 40 27 586 20 371 79 47 92 t 0 0 0 0 0 0 0 0 46 52 30 61 135 7 6 26 6 8 4 40 132 42 47 71

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_6nt_test_vs_ctrl_m1_shift0 (oligos_6nt_test_vs_ctrl_m1)				; oligos_6nt_test_vs_ctrl_m1; m=0 (reference); ncol1=24; shift=0; ncol=24; ssgggscsgGGcGCTGTCCgtGGt ; Alignment reference a 112 114 87 91 67 56 52 61 71 47 42 132 40 4 8 6 26 6 7 135 61 30 52 46 c 188 182 139 127 144 301 352 163 92 47 79 371 20 586 27 40 28 579 577 74 147 61 93 100 g 253 244 298 348 320 192 136 281 341 485 460 38 525 26 41 565 61 27 29 363 108 500 441 88 t 68 81 97 55 90 72 81 116 117 42 40 80 36 5 545 10 506 9 8 49 305 30 35 387
oligos_6nt_test_vs_ctrl_m1_shift0 (oligos_6nt_test_vs_ctrl_m1)				; oligos_6nt_test_vs_ctrl_m1 versus oligos_6nt_test_vs_ctrl_m1; m=1/6; ncol2=24; w=0; offset=0; strand=D; shift=0; score= 1; ssgggscsgGGcGCTGTCCgtGGt ; cor=; Ncor= a 112 114 87 91 67 56 52 61 71 47 42 132 40 4 8 6 26 6 7 135 61 30 52 46 c 188 182 139 127 144 301 352 163 92 47 79 371 20 586 27 40 28 579 577 74 147 61 93 100 g 253 244 298 348 320 192 136 281 341 485 460 38 525 26 41 565 61 27 29 363 108 500 441 88 t 68 81 97 55 90 72 81 116 117 42 40 80 36 5 545 10 506 9 8 49 305 30 35 387
oligos_6nt_test_vs_ctrl_m3_rc_shift1 (oligos_6nt_test_vs_ctrl_m3_rc)				; oligos_6nt_test_vs_ctrl_m1 versus oligos_6nt_test_vs_ctrl_m3_rc; m=2/6; ncol2=24; w=0; offset=1; strand=R; shift=1; score=0.893423; -ssggscggGGcGCTGTCCrtgst ; cor=; Ncor= a 0 73 70 44 40 29 30 47 39 24 25 82 15 4 3 4 15 1 2 189 31 24 19 34 c 0 109 106 63 87 188 213 80 48 26 36 219 13 342 7 19 13 344 344 37 66 45 116 64 g 0 124 117 213 180 100 73 155 217 290 273 11 310 6 10 329 14 9 8 98 63 216 203 44 t 0 51 64 37 50 40 41 75 53 17 23 45 19 5 337 5 315 3 3 33 197 72 19 215
oligos_7nt_test_vs_ctrl_m1_shift7 (oligos_7nt_test_vs_ctrl_m1)				; oligos_6nt_test_vs_ctrl_m1 versus oligos_7nt_test_vs_ctrl_m1; m=3/6; ncol2=24; w=0; offset=7; strand=D; shift=7; score=0.521761; -------bkGgmGCTGTCCrtGGT ; cor=; Ncor= a 0 0 0 0 0 0 0 118 124 97 53 195 81 2 1 24 17 0 1 359 132 21 4 4 c 0 0 0 0 0 0 0 211 82 22 140 377 60 720 3 89 10 728 724 65 95 6 4 4 g 0 0 0 0 0 0 0 217 313 562 464 19 511 7 4 625 41 4 1 230 70 707 733 0 t 0 0 0 0 0 0 0 195 222 60 84 150 89 12 733 3 673 9 15 87 444 7 0 733
oligos_7nt_test_vs_ctrl_m4_shift7 (oligos_7nt_test_vs_ctrl_m4)				; oligos_6nt_test_vs_ctrl_m1 versus oligos_7nt_test_vs_ctrl_m4; m=4/6; ncol2=24; w=0; offset=7; strand=D; shift=7; score=0.521106; -------bkGgmGCTGTCCrtGGT ; cor=; Ncor= a 0 0 0 0 0 0 0 125 128 98 54 209 80 3 1 24 18 1 0 366 129 23 5 4 c 0 0 0 0 0 0 0 204 81 23 134 353 52 716 4 88 9 718 722 64 94 6 3 1 g 0 0 0 0 0 0 0 215 308 557 469 22 518 7 5 622 39 8 2 226 70 701 730 1 t 0 0 0 0 0 0 0 194 221 60 81 154 88 12 728 4 672 11 14 82 445 8 0 732
oligos_7nt_test_vs_ctrl_m2_shift8 (oligos_7nt_test_vs_ctrl_m2)				; oligos_6nt_test_vs_ctrl_m1 versus oligos_7nt_test_vs_ctrl_m2; m=5/6; ncol2=24; w=0; offset=8; strand=D; shift=8; score= 0.4778; --------kGgcGCTGTCCrtGGT ; cor=; Ncor= a 0 0 0 0 0 0 0 0 120 95 55 177 77 6 4 23 16 2 3 315 113 21 5 5 c 0 0 0 0 0 0 0 0 85 22 134 365 60 692 4 84 15 692 690 70 95 6 1 1 g 0 0 0 0 0 0 0 0 293 531 439 21 490 3 6 601 37 6 1 241 61 678 705 1 t 0 0 0 0 0 0 0 0 214 64 84 149 85 11 698 4 644 12 18 86 443 7 1 705
oligos_6nt_test_vs_ctrl_m2_rc_shift8 (oligos_6nt_test_vs_ctrl_m2_rc)				; oligos_6nt_test_vs_ctrl_m1 versus oligos_6nt_test_vs_ctrl_m2_rc; m=6/6; ncol2=24; w=0; offset=8; strand=R; shift=8; score=0.477583; --------kGgmGCTGTCCrtGGT ; cor=; Ncor= a 0 0 0 0 0 0 0 0 126 99 56 187 80 6 4 25 17 3 3 329 123 21 6 5 c 0 0 0 0 0 0 0 0 87 22 136 378 62 716 4 88 16 715 715 71 97 6 1 2 g 0 0 0 0 0 0 0 0 303 546 457 21 505 4 8 620 42 6 1 245 67 703 729 1 t 0 0 0 0 0 0 0 0 221 70 88 151 90 11 721 4 662 13 18 92 450 7 1 729

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_test_vs_ctrl_m4_shift7 (oligos_7nt_test_vs_ctrl_m4)				; oligos_7nt_test_vs_ctrl_m4; m=0 (reference); ncol1=24; shift=7; ncol=31; -------bkGgmGCTGTCCrtGGTGCTGAav ; Alignment reference a 0 0 0 0 0 0 0 125 128 98 54 209 80 3 1 24 18 1 0 366 129 23 5 4 57 8 4 31 590 417 199 c 0 0 0 0 0 0 0 204 81 23 134 353 52 716 4 88 9 718 722 64 94 6 3 1 124 711 14 12 46 160 232 g 0 0 0 0 0 0 0 215 308 557 469 22 518 7 5 622 39 8 2 226 70 701 730 1 510 10 5 687 88 77 187 t 0 0 0 0 0 0 0 194 221 60 81 154 88 12 728 4 672 11 14 82 445 8 0 732 47 9 715 8 14 84 120
oligos_7nt_test_vs_ctrl_m4_shift7 (oligos_7nt_test_vs_ctrl_m4)				; oligos_7nt_test_vs_ctrl_m4 versus oligos_7nt_test_vs_ctrl_m4; m=1/6; ncol2=24; w=0; offset=0; strand=D; shift=7; score= 1; -------bkGgmGCTGTCCrtGGTGCTGAav ; cor=; Ncor= a 0 0 0 0 0 0 0 125 128 98 54 209 80 3 1 24 18 1 0 366 129 23 5 4 57 8 4 31 590 417 199 c 0 0 0 0 0 0 0 204 81 23 134 353 52 716 4 88 9 718 722 64 94 6 3 1 124 711 14 12 46 160 232 g 0 0 0 0 0 0 0 215 308 557 469 22 518 7 5 622 39 8 2 226 70 701 730 1 510 10 5 687 88 77 187 t 0 0 0 0 0 0 0 194 221 60 81 154 88 12 728 4 672 11 14 82 445 8 0 732 47 9 715 8 14 84 120
oligos_7nt_test_vs_ctrl_m1_shift7 (oligos_7nt_test_vs_ctrl_m1)				; oligos_7nt_test_vs_ctrl_m4 versus oligos_7nt_test_vs_ctrl_m1; m=2/6; ncol2=24; w=0; offset=0; strand=D; shift=7; score=0.999851; -------bkGgmGCTGTCCrtGGTGCTGAav ; cor=; Ncor= a 0 0 0 0 0 0 0 118 124 97 53 195 81 2 1 24 17 0 1 359 132 21 4 4 55 3 4 28 589 420 200 c 0 0 0 0 0 0 0 211 82 22 140 377 60 720 3 89 10 728 724 65 95 6 4 4 130 723 16 11 45 162 234 g 0 0 0 0 0 0 0 217 313 562 464 19 511 7 4 625 41 4 1 230 70 707 733 0 508 5 5 693 93 77 191 t 0 0 0 0 0 0 0 195 222 60 84 150 89 12 733 3 673 9 15 87 444 7 0 733 48 10 716 9 14 82 116
oligos_6nt_test_vs_ctrl_m2_rc_shift8 (oligos_6nt_test_vs_ctrl_m2_rc)				; oligos_7nt_test_vs_ctrl_m4 versus oligos_6nt_test_vs_ctrl_m2_rc; m=3/6; ncol2=24; w=0; offset=1; strand=R; shift=8; score=0.919555; --------kGgmGCTGTCCrtGGTGCTGAav ; cor=; Ncor= a 0 0 0 0 0 0 0 0 126 99 56 187 80 6 4 25 17 3 3 329 123 21 6 5 50 1 5 21 594 433 198 c 0 0 0 0 0 0 0 0 87 22 136 378 62 716 4 88 16 715 715 71 97 6 1 2 123 719 11 8 46 157 227 g 0 0 0 0 0 0 0 0 303 546 457 21 505 4 8 620 42 6 1 245 67 703 729 1 518 6 2 700 85 67 196 t 0 0 0 0 0 0 0 0 221 70 88 151 90 11 721 4 662 13 18 92 450 7 1 729 46 11 719 8 12 80 116
oligos_7nt_test_vs_ctrl_m2_shift8 (oligos_7nt_test_vs_ctrl_m2)				; oligos_7nt_test_vs_ctrl_m4 versus oligos_7nt_test_vs_ctrl_m2; m=4/6; ncol2=24; w=0; offset=1; strand=D; shift=8; score=0.919383; --------kGgcGCTGTCCrtGGTGCTGAav ; cor=; Ncor= a 0 0 0 0 0 0 0 0 120 95 55 177 77 6 4 23 16 2 3 315 113 21 5 5 46 1 5 18 584 429 195 c 0 0 0 0 0 0 0 0 85 22 134 365 60 692 4 84 15 692 690 70 95 6 1 1 116 697 7 5 39 149 222 g 0 0 0 0 0 0 0 0 293 531 439 21 490 3 6 601 37 6 1 241 61 678 705 1 506 4 2 683 80 59 185 t 0 0 0 0 0 0 0 0 214 64 84 149 85 11 698 4 644 12 18 86 443 7 1 705 44 10 698 6 9 75 110
oligos_6nt_test_vs_ctrl_m3_rc_shift1 (oligos_6nt_test_vs_ctrl_m3_rc)				; oligos_7nt_test_vs_ctrl_m4 versus oligos_6nt_test_vs_ctrl_m3_rc; m=5/6; ncol2=24; w=-6; offset=-6; strand=R; shift=1; score=0.561403; -ssggscggGGcGCTGTCCrtgsts------ ; cor=; Ncor= a 0 73 70 44 40 29 30 47 39 24 25 82 15 4 3 4 15 1 2 189 31 24 19 34 43 0 0 0 0 0 0 c 0 109 106 63 87 188 213 80 48 26 36 219 13 342 7 19 13 344 344 37 66 45 116 64 91 0 0 0 0 0 0 g 0 124 117 213 180 100 73 155 217 290 273 11 310 6 10 329 14 9 8 98 63 216 203 44 182 0 0 0 0 0 0 t 0 51 64 37 50 40 41 75 53 17 23 45 19 5 337 5 315 3 3 33 197 72 19 215 41 0 0 0 0 0 0
oligos_6nt_test_vs_ctrl_m1_shift0 (oligos_6nt_test_vs_ctrl_m1)				; oligos_7nt_test_vs_ctrl_m4 versus oligos_6nt_test_vs_ctrl_m1; m=6/6; ncol2=24; w=-7; offset=-7; strand=D; shift=0; score=0.521106; ssgggscsgGGcGCTGTCCgtGGt------- ; cor=; Ncor= a 112 114 87 91 67 56 52 61 71 47 42 132 40 4 8 6 26 6 7 135 61 30 52 46 0 0 0 0 0 0 0 c 188 182 139 127 144 301 352 163 92 47 79 371 20 586 27 40 28 579 577 74 147 61 93 100 0 0 0 0 0 0 0 g 253 244 298 348 320 192 136 281 341 485 460 38 525 26 41 565 61 27 29 363 108 500 441 88 0 0 0 0 0 0 0 t 68 81 97 55 90 72 81 116 117 42 40 80 36 5 545 10 506 9 8 49 305 30 35 387 0 0 0 0 0 0 0