One-to-n alignments

Command: compare-matrices  -v 1 -format transfac -file $RSAT/public_html/tmp/www-data/2025/04/13/peak-motifs.2025-04-13.173152_2025-04-13.173152_WAHiVU/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/2025/04/13/peak-motifs.2025-04-13.173152_2025-04-13.173152_WAHiVU/results/discovered_motifs/peak-motifs_motifs_disco_compa.tab

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv4_m1_shift2 ; 5 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_mkv4_m1_shift2 (oligos_7nt_mkv4_m1)
; oligos_7nt_mkv4_m1; m=0 (reference); ncol1=11; shift=2; ncol=13; --gsCGACGAGsd ; Alignment reference a 0 0 86 128 5 8 544 18 17 557 3 56 144 c 0 0 135 177 529 39 4 433 45 0 9 177 129 g 0 0 239 150 18 475 10 98 488 1 545 234 142 t 0 0 98 103 6 36 0 9 8 0 1 91 143

oligos_7nt_mkv4_m1_shift2 (oligos_7nt_mkv4_m1)
; oligos_7nt_mkv4_m1 versus oligos_7nt_mkv4_m1; m=1/4; ncol2=11; w=0; offset=0; strand=D; shift=2; score= 1; --gsCGACGAGsd ; cor=; Ncor= a 0 0 86 128 5 8 544 18 17 557 3 56 144 c 0 0 135 177 529 39 4 433 45 0 9 177 129 g 0 0 239 150 18 475 10 98 488 1 545 234 142 t 0 0 98 103 6 36 0 9 8 0 1 91 143

oligos_7nt_mkv4_m2_shift2 (oligos_7nt_mkv4_m2)
; oligos_7nt_mkv4_m1 versus oligos_7nt_mkv4_m2; m=2/4; ncol2=11; w=0; offset=0; strand=D; shift=2; score=0.850922; --ssCGAGGAGsy ; cor=; Ncor= a 0 0 126 138 18 48 703 18 23 704 22 91 171 c 0 0 180 236 591 78 4 7 112 3 28 248 183 g 0 0 285 194 78 578 4 678 555 3 656 246 175 t 0 0 121 144 25 8 1 9 22 2 6 127 183

oligos_6nt_mkv3_m2_shift2 (oligos_6nt_mkv3_m2)
; oligos_7nt_mkv4_m1 versus oligos_6nt_mkv3_m2; m=3/4; ncol2=11; w=0; offset=0; strand=D; shift=2; score=0.797065; --gcCGAGGAssk ; cor=; Ncor= a 0 0 91 130 0 4 539 0 0 539 104 74 131 c 0 0 120 168 538 2 0 1 2 0 171 176 126 g 0 0 236 118 1 526 0 538 528 0 214 200 146 t 0 0 92 123 0 7 0 0 9 0 50 89 136

positions_6nt_m4_shift0 (positions_6nt_m4)
; oligos_7nt_mkv4_m1 versus positions_6nt_m4; m=4/4; ncol2=10; w=-2; offset=-2; strand=D; shift=0; score=0.445032; ssGCCGACss--- ; cor=; Ncor= a 116 73 0 0 0 0 632 0 113 142 0 0 0 c 189 263 0 632 632 0 0 632 188 159 0 0 0 g 172 186 632 0 0 632 0 0 258 217 0 0 0 t 155 110 0 0 0 0 0 0 73 114 0 0 0

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv3_m1_shift0 ; 5 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_mkv3_m1_shift0 (oligos_6nt_mkv3_m1)
; oligos_6nt_mkv3_m1; m=0 (reference); ncol1=15; shift=0; ncol=15; sstcATCGCCGAGsm ; Alignment reference a 57 84 77 29 345 25 10 17 26 4 27 414 34 94 123 c 189 144 69 319 54 46 441 19 429 454 30 29 79 161 131 g 198 184 69 117 63 29 32 446 22 25 427 21 346 160 121 t 47 79 276 26 29 391 8 9 14 8 7 27 32 76 116

oligos_6nt_mkv3_m1_shift0 (oligos_6nt_mkv3_m1)
; oligos_6nt_mkv3_m1 versus oligos_6nt_mkv3_m1; m=1/4; ncol2=15; w=0; offset=0; strand=D; shift=0; score= 1; sstcATCGCCGAGsm ; cor=; Ncor= a 57 84 77 29 345 25 10 17 26 4 27 414 34 94 123 c 189 144 69 319 54 46 441 19 429 454 30 29 79 161 131 g 198 184 69 117 63 29 32 446 22 25 427 21 346 160 121 t 47 79 276 26 29 391 8 9 14 8 7 27 32 76 116

oligos_7nt_mkv4_m3_shift3 (oligos_7nt_mkv4_m3)
; oligos_6nt_mkv3_m1 versus oligos_7nt_mkv4_m3; m=2/4; ncol2=11; w=0; offset=3; strand=D; shift=3; score=0.674338; ---ssTCGCCGAss- ; cor=; Ncor= a 0 0 0 75 107 6 27 18 0 5 20 571 98 102 0 c 0 0 0 224 230 5 431 26 563 557 58 1 164 182 0 g 0 0 0 213 150 2 98 532 16 6 474 2 247 209 0 t 0 0 0 67 92 566 23 3 0 11 27 5 70 86 0

oligos_7nt_mkv4_m4_shift3 (oligos_7nt_mkv4_m4)
; oligos_6nt_mkv3_m1 versus oligos_7nt_mkv4_m4; m=3/4; ncol2=11; w=0; offset=3; strand=D; shift=3; score=0.534141; ---ssTCACCGAss- ; cor=; Ncor= a 0 0 0 109 155 21 12 847 22 27 44 772 149 162 0 c 0 0 0 348 290 48 791 26 796 755 54 50 303 306 0 g 0 0 0 325 295 42 75 21 56 87 773 61 318 281 0 t 0 0 0 115 157 786 19 3 23 28 26 14 127 148 0

positions_6nt_m4_shift5 (positions_6nt_m4)
; oligos_6nt_mkv3_m1 versus positions_6nt_m4; m=4/4; ncol2=10; w=0; offset=5; strand=D; shift=5; score=0.508262; -----ssGCCGACss ; cor=; Ncor= a 0 0 0 0 0 116 73 0 0 0 0 632 0 113 142 c 0 0 0 0 0 189 263 0 632 632 0 0 632 188 159 g 0 0 0 0 0 172 186 632 0 0 632 0 0 258 217 t 0 0 0 0 0 155 110 0 0 0 0 0 0 73 114

One-to-n matrix alignment; reference matrix: positions_6nt_m5_shift0 ; 4 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
positions_6nt_m5_shift0 (positions_6nt_m5)
; positions_6nt_m5; m=0 (reference); ncol1=11; shift=0; ncol=11; ssGCCAGGCcs ; Alignment reference a 48 58 23 1 7 319 4 0 1 44 60 c 131 91 44 290 300 0 4 34 269 144 109 g 97 127 238 29 0 0 310 288 43 76 91 t 46 46 17 2 15 3 4 0 9 58 62

positions_6nt_m5_shift0 (positions_6nt_m5)
; positions_6nt_m5 versus positions_6nt_m5; m=1/3; ncol2=11; w=0; offset=0; strand=D; shift=0; score= 1; ssGCCAGGCcs ; cor=; Ncor= a 48 58 23 1 7 319 4 0 1 44 60 c 131 91 44 290 300 0 4 34 269 144 109 g 97 127 238 29 0 0 310 288 43 76 91 t 46 46 17 2 15 3 4 0 9 58 62

positions_7nt_m2_shift1 (positions_7nt_m2)
; positions_6nt_m5 versus positions_7nt_m2; m=2/3; ncol2=11; w=0; offset=1; strand=D; shift=1; score=0.664875; -ssCGAGGCCs ; cor=; Ncor= a 0 42 47 9 12 246 0 1 1 0 40 c 0 72 75 230 48 0 1 4 237 241 74 g 0 92 75 6 178 1 245 242 7 3 90 t 0 41 50 2 9 0 1 0 2 3 43

positions_6nt_m2_shift1 (positions_6nt_m2)
; positions_6nt_m5 versus positions_6nt_m2; m=3/3; ncol2=11; w=0; offset=1; strand=D; shift=1; score=0.632253; -ssCGAGGCCs ; cor=; Ncor= a 0 57 64 25 10 319 0 1 0 0 54 c 0 104 96 220 43 0 1 4 312 314 103 g 0 116 98 52 258 1 319 315 6 3 106 t 0 43 62 23 9 0 0 0 2 3 57

One-to-n matrix alignment; reference matrix: positions_7nt_m2_shift1 ; 6 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
positions_7nt_m2_shift1 (positions_7nt_m2)
; positions_7nt_m2; m=0 (reference); ncol1=11; shift=1; ncol=12; -ssCGAGGCCss ; Alignment reference a 0 42 47 9 12 246 0 1 1 0 40 47 c 0 72 75 230 48 0 1 4 237 241 74 69 g 0 92 75 6 178 1 245 242 7 3 90 70 t 0 41 50 2 9 0 1 0 2 3 43 61

positions_7nt_m2_shift1 (positions_7nt_m2)
; positions_7nt_m2 versus positions_7nt_m2; m=1/5; ncol2=11; w=0; offset=0; strand=D; shift=1; score= 1; -ssCGAGGCCss ; cor=; Ncor= a 0 42 47 9 12 246 0 1 1 0 40 47 c 0 72 75 230 48 0 1 4 237 241 74 69 g 0 92 75 6 178 1 245 242 7 3 90 70 t 0 41 50 2 9 0 1 0 2 3 43 61

positions_6nt_m2_shift1 (positions_6nt_m2)
; positions_7nt_m2 versus positions_6nt_m2; m=2/5; ncol2=11; w=0; offset=0; strand=D; shift=1; score=0.98886; -ssCGAGGCCsb ; cor=; Ncor= a 0 57 64 25 10 319 0 1 0 0 54 53 c 0 104 96 220 43 0 1 4 312 314 103 92 g 0 116 98 52 258 1 319 315 6 3 106 88 t 0 43 62 23 9 0 0 0 2 3 57 87

positions_6nt_m3_shift1 (positions_6nt_m3)
; positions_7nt_m2 versus positions_6nt_m3; m=3/5; ncol2=11; w=0; offset=0; strand=D; shift=1; score=0.712559; -sssGCGGCCss ; cor=; Ncor= a 0 145 115 88 0 0 0 0 0 0 116 111 c 0 196 286 243 0 728 0 0 728 728 196 191 g 0 246 205 268 728 0 728 728 0 0 280 249 t 0 141 122 129 0 0 0 0 0 0 136 177

oligos_6nt_mkv3_m2_shift1 (oligos_6nt_mkv3_m2)
; positions_7nt_m2 versus oligos_6nt_mkv3_m2; m=4/5; ncol2=11; w=0; offset=0; strand=D; shift=1; score=0.706649; -gcCGAGGAssk ; cor=; Ncor= a 0 91 130 0 4 539 0 0 539 104 74 131 c 0 120 168 538 2 0 1 2 0 171 176 126 g 0 236 118 1 526 0 538 528 0 214 200 146 t 0 92 123 0 7 0 0 9 0 50 89 136

positions_6nt_m5_shift0 (positions_6nt_m5)
; positions_7nt_m2 versus positions_6nt_m5; m=5/5; ncol2=11; w=-1; offset=-1; strand=D; shift=0; score=0.664875; ssGCCAGGCcs- ; cor=; Ncor= a 48 58 23 1 7 319 4 0 1 44 60 0 c 131 91 44 290 300 0 4 34 269 144 109 0 g 97 127 238 29 0 0 310 288 43 76 91 0 t 46 46 17 2 15 3 4 0 9 58 62 0

One-to-n matrix alignment; reference matrix: positions_6nt_m4_shift5 ; 7 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
positions_6nt_m4_shift5 (positions_6nt_m4)
; positions_6nt_m4; m=0 (reference); ncol1=10; shift=5; ncol=15; -----ssGCCGACss ; Alignment reference a 0 0 0 0 0 116 73 0 0 0 0 632 0 113 142 c 0 0 0 0 0 189 263 0 632 632 0 0 632 188 159 g 0 0 0 0 0 172 186 632 0 0 632 0 0 258 217 t 0 0 0 0 0 155 110 0 0 0 0 0 0 73 114

positions_6nt_m4_shift5 (positions_6nt_m4)
; positions_6nt_m4 versus positions_6nt_m4; m=1/6; ncol2=10; w=0; offset=0; strand=D; shift=5; score= 1; -----ssGCCGACss ; cor=; Ncor= a 0 0 0 0 0 116 73 0 0 0 0 632 0 113 142 c 0 0 0 0 0 189 263 0 632 632 0 0 632 188 159 g 0 0 0 0 0 172 186 632 0 0 632 0 0 258 217 t 0 0 0 0 0 155 110 0 0 0 0 0 0 73 114

positions_6nt_m1_rc_shift5 (positions_6nt_m1_rc)
; positions_6nt_m4 versus positions_6nt_m1_rc; m=2/6; ncol2=11; w=0; offset=0; strand=R; shift=5; score=0.682502; -----csGCCGTCGs ; cor=; Ncor= a 0 0 0 0 0 83 62 0 1 0 1 0 48 12 88 c 0 0 0 0 0 121 110 0 374 374 6 1 325 40 108 g 0 0 0 0 0 82 136 377 1 1 368 0 3 317 102 t 0 0 0 0 0 91 69 0 1 2 2 376 1 8 79

positions_7nt_m1_rc_shift5 (positions_7nt_m1_rc)
; positions_6nt_m4 versus positions_7nt_m1_rc; m=3/6; ncol2=11; w=0; offset=0; strand=R; shift=5; score=0.667339; -----ysGCCGTCGs ; cor=; Ncor= a 0 0 0 0 0 74 56 1 1 0 1 0 50 3 78 c 0 0 0 0 0 105 109 1 332 332 7 1 277 5 92 g 0 0 0 0 0 71 104 333 1 1 325 0 5 326 91 t 0 0 0 0 0 85 66 0 1 2 2 334 3 1 74

oligos_7nt_mkv4_m3_shift3 (oligos_7nt_mkv4_m3)
; positions_6nt_m4 versus oligos_7nt_mkv4_m3; m=4/6; ncol2=11; w=-2; offset=-2; strand=D; shift=3; score=0.60913; ---ssTCGCCGAss- ; cor=; Ncor= a 0 0 0 75 107 6 27 18 0 5 20 571 98 102 0 c 0 0 0 224 230 5 431 26 563 557 58 1 164 182 0 g 0 0 0 213 150 2 98 532 16 6 474 2 247 209 0 t 0 0 0 67 92 566 23 3 0 11 27 5 70 86 0

oligos_6nt_mkv3_m1_shift0 (oligos_6nt_mkv3_m1)
; positions_6nt_m4 versus oligos_6nt_mkv3_m1; m=5/6; ncol2=15; w=-5; offset=-5; strand=D; shift=0; score=0.508262; sstcATCGCCGAGsm ; cor=; Ncor= a 57 84 77 29 345 25 10 17 26 4 27 414 34 94 123 c 189 144 69 319 54 46 441 19 429 454 30 29 79 161 131 g 198 184 69 117 63 29 32 446 22 25 427 21 346 160 121 t 47 79 276 26 29 391 8 9 14 8 7 27 32 76 116

oligos_7nt_mkv4_m1_shift7 (oligos_7nt_mkv4_m1)
; positions_6nt_m4 versus oligos_7nt_mkv4_m1; m=6/6; ncol2=11; w=0; offset=2; strand=D; shift=7; score=0.445032; -------gsCGACGA ; cor=; Ncor= a 0 0 0 0 0 0 0 86 128 5 8 544 18 17 557 c 0 0 0 0 0 0 0 135 177 529 39 4 433 45 0 g 0 0 0 0 0 0 0 239 150 18 475 10 98 488 1 t 0 0 0 0 0 0 0 98 103 6 36 0 9 8 0

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv3_m5_shift0 ; 2 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_mkv3_m5_shift0 (oligos_6nt_mkv3_m5)
; oligos_6nt_mkv3_m5; m=0 (reference); ncol1=10; shift=0; ncol=10; ysCTCCAGsm ; Alignment reference a 77 51 0 0 18 1 355 0 35 96 c 93 116 355 0 332 348 0 0 139 94 g 69 123 0 0 4 0 0 355 124 88 t 116 65 0 355 1 6 0 0 57 77

oligos_6nt_mkv3_m5_shift0 (oligos_6nt_mkv3_m5)
; oligos_6nt_mkv3_m5 versus oligos_6nt_mkv3_m5; m=1/1; ncol2=10; w=0; offset=0; strand=D; shift=0; score= 1; ysCTCCAGsm ; cor=; Ncor= a 77 51 0 0 18 1 355 0 35 96 c 93 116 355 0 332 348 0 0 139 94 g 69 123 0 0 4 0 0 355 124 88 t 116 65 0 355 1 6 0 0 57 77

One-to-n matrix alignment; reference matrix: positions_6nt_m1_shift0 ; 4 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
positions_6nt_m1_shift0 (positions_6nt_m1)
; positions_6nt_m1; m=0 (reference); ncol1=11; shift=0; ncol=11; ssCGACGGCsg ; Alignment reference a 51 79 8 1 376 2 2 1 0 69 91 c 104 102 317 3 0 368 1 1 377 136 82 g 161 108 40 325 1 6 374 374 0 110 121 t 61 88 12 48 0 1 0 1 0 62 83

positions_6nt_m1_shift0 (positions_6nt_m1)
; positions_6nt_m1 versus positions_6nt_m1; m=1/3; ncol2=11; w=0; offset=0; strand=D; shift=0; score= 1; ssCGACGGCsg ; cor=; Ncor= a 51 79 8 1 376 2 2 1 0 69 91 c 104 102 317 3 0 368 1 1 377 136 82 g 161 108 40 325 1 6 374 374 0 110 121 t 61 88 12 48 0 1 0 1 0 62 83

positions_7nt_m1_shift0 (positions_7nt_m1)
; positions_6nt_m1 versus positions_7nt_m1; m=2/3; ncol2=11; w=0; offset=0; strand=D; shift=0; score=0.99665; ssCGACGGCsr ; cor=; Ncor= a 45 74 1 3 334 2 2 1 0 66 85 c 89 91 326 5 0 325 1 1 333 104 71 g 144 92 5 277 1 7 332 332 1 109 105 t 57 78 3 50 0 1 0 1 1 56 74

positions_6nt_m4_rc_shift1 (positions_6nt_m4_rc)
; positions_6nt_m1 versus positions_6nt_m4_rc; m=3/3; ncol2=10; w=0; offset=1; strand=R; shift=1; score=0.682502; -ssGTCGGCss ; cor=; Ncor= a 0 114 73 0 0 0 0 0 0 110 155 c 0 217 258 0 0 632 0 0 632 186 172 g 0 159 188 632 0 0 632 632 0 263 189 t 0 142 113 0 632 0 0 0 0 73 116

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv4_m5_shift0 ; 2 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_mkv4_m5_shift0 (oligos_7nt_mkv4_m5)
; oligos_7nt_mkv4_m5; m=0 (reference); ncol1=11; shift=0; ncol=11; rsCAGCTCGss ; Alignment reference a 168 86 20 615 17 12 5 9 46 94 94 c 148 209 576 2 57 544 17 522 87 196 271 g 170 239 18 2 542 50 7 57 470 216 161 t 137 89 9 4 7 17 594 35 20 117 97

oligos_7nt_mkv4_m5_shift0 (oligos_7nt_mkv4_m5)
; oligos_7nt_mkv4_m5 versus oligos_7nt_mkv4_m5; m=1/1; ncol2=11; w=0; offset=0; strand=D; shift=0; score= 1; rsCAGCTCGss ; cor=; Ncor= a 168 86 20 615 17 12 5 9 46 94 94 c 148 209 576 2 57 544 17 522 87 196 271 g 170 239 18 2 542 50 7 57 470 216 161 t 137 89 9 4 7 17 594 35 20 117 97

One-to-n matrix alignment; reference matrix: positions_7nt_m1_shift0 ; 4 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
positions_7nt_m1_shift0 (positions_7nt_m1)
; positions_7nt_m1; m=0 (reference); ncol1=11; shift=0; ncol=11; ssCGACGGCsr ; Alignment reference a 45 74 1 3 334 2 2 1 0 66 85 c 89 91 326 5 0 325 1 1 333 104 71 g 144 92 5 277 1 7 332 332 1 109 105 t 57 78 3 50 0 1 0 1 1 56 74

positions_7nt_m1_shift0 (positions_7nt_m1)
; positions_7nt_m1 versus positions_7nt_m1; m=1/3; ncol2=11; w=0; offset=0; strand=D; shift=0; score= 1; ssCGACGGCsr ; cor=; Ncor= a 45 74 1 3 334 2 2 1 0 66 85 c 89 91 326 5 0 325 1 1 333 104 71 g 144 92 5 277 1 7 332 332 1 109 105 t 57 78 3 50 0 1 0 1 1 56 74

positions_6nt_m1_shift0 (positions_6nt_m1)
; positions_7nt_m1 versus positions_6nt_m1; m=2/3; ncol2=11; w=0; offset=0; strand=D; shift=0; score=0.99665; ssCGACGGCsg ; cor=; Ncor= a 51 79 8 1 376 2 2 1 0 69 91 c 104 102 317 3 0 368 1 1 377 136 82 g 161 108 40 325 1 6 374 374 0 110 121 t 61 88 12 48 0 1 0 1 0 62 83

positions_6nt_m4_rc_shift1 (positions_6nt_m4_rc)
; positions_7nt_m1 versus positions_6nt_m4_rc; m=3/3; ncol2=10; w=0; offset=1; strand=R; shift=1; score=0.667339; -ssGTCGGCss ; cor=; Ncor= a 0 114 73 0 0 0 0 0 0 110 155 c 0 217 258 0 0 632 0 0 632 186 172 g 0 159 188 632 0 0 632 632 0 263 189 t 0 142 113 0 632 0 0 0 0 73 116

One-to-n matrix alignment; reference matrix: positions_6nt_m3_shift0 ; 4 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
positions_6nt_m3_shift0 (positions_6nt_m3)
; positions_6nt_m3; m=0 (reference); ncol1=11; shift=0; ncol=11; sssGCGGCCss ; Alignment reference a 145 115 88 0 0 0 0 0 0 116 111 c 196 286 243 0 728 0 0 728 728 196 191 g 246 205 268 728 0 728 728 0 0 280 249 t 141 122 129 0 0 0 0 0 0 136 177

positions_6nt_m3_shift0 (positions_6nt_m3)
; positions_6nt_m3 versus positions_6nt_m3; m=1/3; ncol2=11; w=0; offset=0; strand=D; shift=0; score= 1; sssGCGGCCss ; cor=; Ncor= a 145 115 88 0 0 0 0 0 0 116 111 c 196 286 243 0 728 0 0 728 728 196 191 g 246 205 268 728 0 728 728 0 0 280 249 t 141 122 129 0 0 0 0 0 0 136 177

positions_6nt_m2_shift0 (positions_6nt_m2)
; positions_6nt_m3 versus positions_6nt_m2; m=2/3; ncol2=11; w=0; offset=0; strand=D; shift=0; score=0.749366; ssCGAGGCCsb ; cor=; Ncor= a 57 64 25 10 319 0 1 0 0 54 53 c 104 96 220 43 0 1 4 312 314 103 92 g 116 98 52 258 1 319 315 6 3 106 88 t 43 62 23 9 0 0 0 2 3 57 87

positions_7nt_m2_shift0 (positions_7nt_m2)
; positions_6nt_m3 versus positions_7nt_m2; m=3/3; ncol2=11; w=0; offset=0; strand=D; shift=0; score=0.712559; ssCGAGGCCss ; cor=; Ncor= a 42 47 9 12 246 0 1 1 0 40 47 c 72 75 230 48 0 1 4 237 241 74 69 g 92 75 6 178 1 245 242 7 3 90 70 t 41 50 2 9 0 1 0 2 3 43 61

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv3_m2_shift0 ; 5 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_mkv3_m2_shift0 (oligos_6nt_mkv3_m2)
; oligos_6nt_mkv3_m2; m=0 (reference); ncol1=11; shift=0; ncol=11; gcCGAGGAssk ; Alignment reference a 91 130 0 4 539 0 0 539 104 74 131 c 120 168 538 2 0 1 2 0 171 176 126 g 236 118 1 526 0 538 528 0 214 200 146 t 92 123 0 7 0 0 9 0 50 89 136

oligos_6nt_mkv3_m2_shift0 (oligos_6nt_mkv3_m2)
; oligos_6nt_mkv3_m2 versus oligos_6nt_mkv3_m2; m=1/4; ncol2=11; w=0; offset=0; strand=D; shift=0; score= 1; gcCGAGGAssk ; cor=; Ncor= a 91 130 0 4 539 0 0 539 104 74 131 c 120 168 538 2 0 1 2 0 171 176 126 g 236 118 1 526 0 538 528 0 214 200 146 t 92 123 0 7 0 0 9 0 50 89 136

oligos_7nt_mkv4_m2_shift0 (oligos_7nt_mkv4_m2)
; oligos_6nt_mkv3_m2 versus oligos_7nt_mkv4_m2; m=2/4; ncol2=11; w=0; offset=0; strand=D; shift=0; score=0.937891; ssCGAGGAGsy ; cor=; Ncor= a 126 138 18 48 703 18 23 704 22 91 171 c 180 236 591 78 4 7 112 3 28 248 183 g 285 194 78 578 4 678 555 3 656 246 175 t 121 144 25 8 1 9 22 2 6 127 183

oligos_7nt_mkv4_m1_shift0 (oligos_7nt_mkv4_m1)
; oligos_6nt_mkv3_m2 versus oligos_7nt_mkv4_m1; m=3/4; ncol2=11; w=0; offset=0; strand=D; shift=0; score=0.797065; gsCGACGAGsd ; cor=; Ncor= a 86 128 5 8 544 18 17 557 3 56 144 c 135 177 529 39 4 433 45 0 9 177 129 g 239 150 18 475 10 98 488 1 545 234 142 t 98 103 6 36 0 9 8 0 1 91 143

positions_7nt_m2_shift0 (positions_7nt_m2)
; oligos_6nt_mkv3_m2 versus positions_7nt_m2; m=4/4; ncol2=11; w=0; offset=0; strand=D; shift=0; score=0.706649; ssCGAGGCCss ; cor=; Ncor= a 42 47 9 12 246 0 1 1 0 40 47 c 72 75 230 48 0 1 4 237 241 74 69 g 92 75 6 178 1 245 242 7 3 90 70 t 41 50 2 9 0 1 0 2 3 43 61

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv4_m2_shift0 ; 5 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_mkv4_m2_shift0 (oligos_7nt_mkv4_m2)
; oligos_7nt_mkv4_m2; m=0 (reference); ncol1=11; shift=0; ncol=11; ssCGAGGAGsy ; Alignment reference a 126 138 18 48 703 18 23 704 22 91 171 c 180 236 591 78 4 7 112 3 28 248 183 g 285 194 78 578 4 678 555 3 656 246 175 t 121 144 25 8 1 9 22 2 6 127 183

oligos_7nt_mkv4_m2_shift0 (oligos_7nt_mkv4_m2)
; oligos_7nt_mkv4_m2 versus oligos_7nt_mkv4_m2; m=1/4; ncol2=11; w=0; offset=0; strand=D; shift=0; score= 1; ssCGAGGAGsy ; cor=; Ncor= a 126 138 18 48 703 18 23 704 22 91 171 c 180 236 591 78 4 7 112 3 28 248 183 g 285 194 78 578 4 678 555 3 656 246 175 t 121 144 25 8 1 9 22 2 6 127 183

oligos_6nt_mkv3_m2_shift0 (oligos_6nt_mkv3_m2)
; oligos_7nt_mkv4_m2 versus oligos_6nt_mkv3_m2; m=2/4; ncol2=11; w=0; offset=0; strand=D; shift=0; score=0.937891; gcCGAGGAssk ; cor=; Ncor= a 91 130 0 4 539 0 0 539 104 74 131 c 120 168 538 2 0 1 2 0 171 176 126 g 236 118 1 526 0 538 528 0 214 200 146 t 92 123 0 7 0 0 9 0 50 89 136

oligos_7nt_mkv4_m1_shift0 (oligos_7nt_mkv4_m1)
; oligos_7nt_mkv4_m2 versus oligos_7nt_mkv4_m1; m=3/4; ncol2=11; w=0; offset=0; strand=D; shift=0; score=0.850922; gsCGACGAGsd ; cor=; Ncor= a 86 128 5 8 544 18 17 557 3 56 144 c 135 177 529 39 4 433 45 0 9 177 129 g 239 150 18 475 10 98 488 1 545 234 142 t 98 103 6 36 0 9 8 0 1 91 143

oligos_6nt_mkv3_m3_rc_shift0 (oligos_6nt_mkv3_m3_rc)
; oligos_7nt_mkv4_m2 versus oligos_6nt_mkv3_m3_rc; m=4/4; ncol2=12; w=0; offset=0; strand=R; shift=0; score=0.685557; sstGAGCAGgg ; cor=; Ncor= a 107 127 49 6 587 15 4 591 10 51 150 c 189 165 143 19 34 17 631 29 18 124 161 g 277 223 112 625 21 603 15 14 615 421 188 t 85 143 354 8 16 23 8 24 15 62 159

One-to-n matrix alignment; reference matrix: positions_6nt_m2_shift1 ; 5 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
positions_6nt_m2_shift1 (positions_6nt_m2)
; positions_6nt_m2; m=0 (reference); ncol1=11; shift=1; ncol=12; -ssCGAGGCCsb ; Alignment reference a 0 57 64 25 10 319 0 1 0 0 54 53 c 0 104 96 220 43 0 1 4 312 314 103 92 g 0 116 98 52 258 1 319 315 6 3 106 88 t 0 43 62 23 9 0 0 0 2 3 57 87

positions_6nt_m2_shift1 (positions_6nt_m2)
; positions_6nt_m2 versus positions_6nt_m2; m=1/4; ncol2=11; w=0; offset=0; strand=D; shift=1; score= 1; -ssCGAGGCCsb ; cor=; Ncor= a 0 57 64 25 10 319 0 1 0 0 54 53 c 0 104 96 220 43 0 1 4 312 314 103 92 g 0 116 98 52 258 1 319 315 6 3 106 88 t 0 43 62 23 9 0 0 0 2 3 57 87

positions_7nt_m2_shift1 (positions_7nt_m2)
; positions_6nt_m2 versus positions_7nt_m2; m=2/4; ncol2=11; w=0; offset=0; strand=D; shift=1; score=0.98886; -ssCGAGGCCss ; cor=; Ncor= a 0 42 47 9 12 246 0 1 1 0 40 47 c 0 72 75 230 48 0 1 4 237 241 74 69 g 0 92 75 6 178 1 245 242 7 3 90 70 t 0 41 50 2 9 0 1 0 2 3 43 61

positions_6nt_m3_shift1 (positions_6nt_m3)
; positions_6nt_m2 versus positions_6nt_m3; m=3/4; ncol2=11; w=0; offset=0; strand=D; shift=1; score=0.749366; -sssGCGGCCss ; cor=; Ncor= a 0 145 115 88 0 0 0 0 0 0 116 111 c 0 196 286 243 0 728 0 0 728 728 196 191 g 0 246 205 268 728 0 728 728 0 0 280 249 t 0 141 122 129 0 0 0 0 0 0 136 177

positions_6nt_m5_shift0 (positions_6nt_m5)
; positions_6nt_m2 versus positions_6nt_m5; m=4/4; ncol2=11; w=-1; offset=-1; strand=D; shift=0; score=0.632253; ssGCCAGGCcs- ; cor=; Ncor= a 48 58 23 1 7 319 4 0 1 44 60 0 c 131 91 44 290 300 0 4 34 269 144 109 0 g 97 127 238 29 0 0 310 288 43 76 91 0 t 46 46 17 2 15 3 4 0 9 58 62 0

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv3_m4_shift0 ; 2 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_mkv3_m4_shift0 (oligos_6nt_mkv3_m4)
; oligos_6nt_mkv3_m4; m=0 (reference); ncol1=10; shift=0; ncol=10; ssTGCGCAss ; Alignment reference a 51 64 0 3 0 0 0 324 67 41 c 121 96 0 0 322 2 321 0 97 111 g 111 97 0 321 2 322 0 0 96 121 t 41 67 324 0 0 0 3 0 64 51

oligos_6nt_mkv3_m4_shift0 (oligos_6nt_mkv3_m4)
; oligos_6nt_mkv3_m4 versus oligos_6nt_mkv3_m4; m=1/1; ncol2=10; w=0; offset=0; strand=D; shift=0; score= 1; ssTGCGCAss ; cor=; Ncor= a 51 64 0 3 0 0 0 324 67 41 c 121 96 0 0 322 2 321 0 97 111 g 111 97 0 321 2 322 0 0 96 121 t 41 67 324 0 0 0 3 0 64 51

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv3_m3_shift0 ; 3 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_mkv3_m3_shift0 (oligos_6nt_mkv3_m3)
; oligos_6nt_mkv3_m3; m=0 (reference); ncol1=12; shift=0; ncol=12; sccCTGCTCass ; Alignment reference a 102 159 62 15 24 8 23 16 8 354 143 85 c 188 188 421 615 14 15 603 21 625 112 223 277 g 251 161 124 18 29 631 17 34 19 143 165 189 t 117 150 51 10 591 4 15 587 6 49 127 107

oligos_6nt_mkv3_m3_shift0 (oligos_6nt_mkv3_m3)
; oligos_6nt_mkv3_m3 versus oligos_6nt_mkv3_m3; m=1/2; ncol2=12; w=0; offset=0; strand=D; shift=0; score= 1; sccCTGCTCass ; cor=; Ncor= a 102 159 62 15 24 8 23 16 8 354 143 85 c 188 188 421 615 14 15 603 21 625 112 223 277 g 251 161 124 18 29 631 17 34 19 143 165 189 t 117 150 51 10 591 4 15 587 6 49 127 107

oligos_7nt_mkv4_m2_rc_shift1 (oligos_7nt_mkv4_m2_rc)
; oligos_6nt_mkv3_m3 versus oligos_7nt_mkv4_m2_rc; m=2/2; ncol2=11; w=0; offset=1; strand=R; shift=1; score=0.685557; -rsCTCCTCGss ; cor=; Ncor= a 0 183 127 6 2 22 9 1 8 25 144 121 c 0 175 246 656 3 555 678 4 578 78 194 285 g 0 183 248 28 3 112 7 4 78 591 236 180 t 0 171 91 22 704 23 18 703 48 18 138 126

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv4_m3_shift3 ; 5 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_mkv4_m3_shift3 (oligos_7nt_mkv4_m3)
; oligos_7nt_mkv4_m3; m=0 (reference); ncol1=11; shift=3; ncol=14; ---ssTCGCCGAss ; Alignment reference a 0 0 0 75 107 6 27 18 0 5 20 571 98 102 c 0 0 0 224 230 5 431 26 563 557 58 1 164 182 g 0 0 0 213 150 2 98 532 16 6 474 2 247 209 t 0 0 0 67 92 566 23 3 0 11 27 5 70 86

oligos_7nt_mkv4_m3_shift3 (oligos_7nt_mkv4_m3)
; oligos_7nt_mkv4_m3 versus oligos_7nt_mkv4_m3; m=1/4; ncol2=11; w=0; offset=0; strand=D; shift=3; score= 1; ---ssTCGCCGAss ; cor=; Ncor= a 0 0 0 75 107 6 27 18 0 5 20 571 98 102 c 0 0 0 224 230 5 431 26 563 557 58 1 164 182 g 0 0 0 213 150 2 98 532 16 6 474 2 247 209 t 0 0 0 67 92 566 23 3 0 11 27 5 70 86

oligos_7nt_mkv4_m4_shift3 (oligos_7nt_mkv4_m4)
; oligos_7nt_mkv4_m3 versus oligos_7nt_mkv4_m4; m=2/4; ncol2=11; w=0; offset=0; strand=D; shift=3; score=0.787206; ---ssTCACCGAss ; cor=; Ncor= a 0 0 0 109 155 21 12 847 22 27 44 772 149 162 c 0 0 0 348 290 48 791 26 796 755 54 50 303 306 g 0 0 0 325 295 42 75 21 56 87 773 61 318 281 t 0 0 0 115 157 786 19 3 23 28 26 14 127 148

oligos_6nt_mkv3_m1_shift0 (oligos_6nt_mkv3_m1)
; oligos_7nt_mkv4_m3 versus oligos_6nt_mkv3_m1; m=3/4; ncol2=15; w=-3; offset=-3; strand=D; shift=0; score=0.674338; sstcATCGCCGAGs ; cor=; Ncor= a 57 84 77 29 345 25 10 17 26 4 27 414 34 94 c 189 144 69 319 54 46 441 19 429 454 30 29 79 161 g 198 184 69 117 63 29 32 446 22 25 427 21 346 160 t 47 79 276 26 29 391 8 9 14 8 7 27 32 76

positions_6nt_m4_shift5 (positions_6nt_m4)
; oligos_7nt_mkv4_m3 versus positions_6nt_m4; m=4/4; ncol2=10; w=0; offset=2; strand=D; shift=5; score=0.60913; -----ssGCCGACs ; cor=; Ncor= a 0 0 0 0 0 116 73 0 0 0 0 632 0 113 c 0 0 0 0 0 189 263 0 632 632 0 0 632 188 g 0 0 0 0 0 172 186 632 0 0 632 0 0 258 t 0 0 0 0 0 155 110 0 0 0 0 0 0 73

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv4_m4_shift3 ; 4 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_mkv4_m4_shift3 (oligos_7nt_mkv4_m4)
; oligos_7nt_mkv4_m4; m=0 (reference); ncol1=11; shift=3; ncol=14; ---ssTCACCGAss ; Alignment reference a 0 0 0 109 155 21 12 847 22 27 44 772 149 162 c 0 0 0 348 290 48 791 26 796 755 54 50 303 306 g 0 0 0 325 295 42 75 21 56 87 773 61 318 281 t 0 0 0 115 157 786 19 3 23 28 26 14 127 148

oligos_7nt_mkv4_m4_shift3 (oligos_7nt_mkv4_m4)
; oligos_7nt_mkv4_m4 versus oligos_7nt_mkv4_m4; m=1/3; ncol2=11; w=0; offset=0; strand=D; shift=3; score= 1; ---ssTCACCGAss ; cor=; Ncor= a 0 0 0 109 155 21 12 847 22 27 44 772 149 162 c 0 0 0 348 290 48 791 26 796 755 54 50 303 306 g 0 0 0 325 295 42 75 21 56 87 773 61 318 281 t 0 0 0 115 157 786 19 3 23 28 26 14 127 148

oligos_7nt_mkv4_m3_shift3 (oligos_7nt_mkv4_m3)
; oligos_7nt_mkv4_m4 versus oligos_7nt_mkv4_m3; m=2/3; ncol2=11; w=0; offset=0; strand=D; shift=3; score=0.787206; ---ssTCGCCGAss ; cor=; Ncor= a 0 0 0 75 107 6 27 18 0 5 20 571 98 102 c 0 0 0 224 230 5 431 26 563 557 58 1 164 182 g 0 0 0 213 150 2 98 532 16 6 474 2 247 209 t 0 0 0 67 92 566 23 3 0 11 27 5 70 86

oligos_6nt_mkv3_m1_shift0 (oligos_6nt_mkv3_m1)
; oligos_7nt_mkv4_m4 versus oligos_6nt_mkv3_m1; m=3/3; ncol2=15; w=-3; offset=-3; strand=D; shift=0; score=0.534141; sstcATCGCCGAGs ; cor=; Ncor= a 57 84 77 29 345 25 10 17 26 4 27 414 34 94 c 189 144 69 319 54 46 441 19 429 454 30 29 79 161 g 198 184 69 117 63 29 32 446 22 25 427 21 346 160 t 47 79 276 26 29 391 8 9 14 8 7 27 32 76

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_mkv4_m1_shift2 (oligos_7nt_mkv4_m1)				; oligos_7nt_mkv4_m1; m=0 (reference); ncol1=11; shift=2; ncol=13; --gsCGACGAGsd ; Alignment reference a 0 0 86 128 5 8 544 18 17 557 3 56 144 c 0 0 135 177 529 39 4 433 45 0 9 177 129 g 0 0 239 150 18 475 10 98 488 1 545 234 142 t 0 0 98 103 6 36 0 9 8 0 1 91 143
oligos_7nt_mkv4_m1_shift2 (oligos_7nt_mkv4_m1)				; oligos_7nt_mkv4_m1 versus oligos_7nt_mkv4_m1; m=1/4; ncol2=11; w=0; offset=0; strand=D; shift=2; score= 1; --gsCGACGAGsd ; cor=; Ncor= a 0 0 86 128 5 8 544 18 17 557 3 56 144 c 0 0 135 177 529 39 4 433 45 0 9 177 129 g 0 0 239 150 18 475 10 98 488 1 545 234 142 t 0 0 98 103 6 36 0 9 8 0 1 91 143
oligos_7nt_mkv4_m2_shift2 (oligos_7nt_mkv4_m2)				; oligos_7nt_mkv4_m1 versus oligos_7nt_mkv4_m2; m=2/4; ncol2=11; w=0; offset=0; strand=D; shift=2; score=0.850922; --ssCGAGGAGsy ; cor=; Ncor= a 0 0 126 138 18 48 703 18 23 704 22 91 171 c 0 0 180 236 591 78 4 7 112 3 28 248 183 g 0 0 285 194 78 578 4 678 555 3 656 246 175 t 0 0 121 144 25 8 1 9 22 2 6 127 183
oligos_6nt_mkv3_m2_shift2 (oligos_6nt_mkv3_m2)				; oligos_7nt_mkv4_m1 versus oligos_6nt_mkv3_m2; m=3/4; ncol2=11; w=0; offset=0; strand=D; shift=2; score=0.797065; --gcCGAGGAssk ; cor=; Ncor= a 0 0 91 130 0 4 539 0 0 539 104 74 131 c 0 0 120 168 538 2 0 1 2 0 171 176 126 g 0 0 236 118 1 526 0 538 528 0 214 200 146 t 0 0 92 123 0 7 0 0 9 0 50 89 136
positions_6nt_m4_shift0 (positions_6nt_m4)				; oligos_7nt_mkv4_m1 versus positions_6nt_m4; m=4/4; ncol2=10; w=-2; offset=-2; strand=D; shift=0; score=0.445032; ssGCCGACss--- ; cor=; Ncor= a 116 73 0 0 0 0 632 0 113 142 0 0 0 c 189 263 0 632 632 0 0 632 188 159 0 0 0 g 172 186 632 0 0 632 0 0 258 217 0 0 0 t 155 110 0 0 0 0 0 0 73 114 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_6nt_mkv3_m1_shift0 (oligos_6nt_mkv3_m1)				; oligos_6nt_mkv3_m1; m=0 (reference); ncol1=15; shift=0; ncol=15; sstcATCGCCGAGsm ; Alignment reference a 57 84 77 29 345 25 10 17 26 4 27 414 34 94 123 c 189 144 69 319 54 46 441 19 429 454 30 29 79 161 131 g 198 184 69 117 63 29 32 446 22 25 427 21 346 160 121 t 47 79 276 26 29 391 8 9 14 8 7 27 32 76 116
oligos_6nt_mkv3_m1_shift0 (oligos_6nt_mkv3_m1)				; oligos_6nt_mkv3_m1 versus oligos_6nt_mkv3_m1; m=1/4; ncol2=15; w=0; offset=0; strand=D; shift=0; score= 1; sstcATCGCCGAGsm ; cor=; Ncor= a 57 84 77 29 345 25 10 17 26 4 27 414 34 94 123 c 189 144 69 319 54 46 441 19 429 454 30 29 79 161 131 g 198 184 69 117 63 29 32 446 22 25 427 21 346 160 121 t 47 79 276 26 29 391 8 9 14 8 7 27 32 76 116
oligos_7nt_mkv4_m3_shift3 (oligos_7nt_mkv4_m3)				; oligos_6nt_mkv3_m1 versus oligos_7nt_mkv4_m3; m=2/4; ncol2=11; w=0; offset=3; strand=D; shift=3; score=0.674338; ---ssTCGCCGAss- ; cor=; Ncor= a 0 0 0 75 107 6 27 18 0 5 20 571 98 102 0 c 0 0 0 224 230 5 431 26 563 557 58 1 164 182 0 g 0 0 0 213 150 2 98 532 16 6 474 2 247 209 0 t 0 0 0 67 92 566 23 3 0 11 27 5 70 86 0
oligos_7nt_mkv4_m4_shift3 (oligos_7nt_mkv4_m4)				; oligos_6nt_mkv3_m1 versus oligos_7nt_mkv4_m4; m=3/4; ncol2=11; w=0; offset=3; strand=D; shift=3; score=0.534141; ---ssTCACCGAss- ; cor=; Ncor= a 0 0 0 109 155 21 12 847 22 27 44 772 149 162 0 c 0 0 0 348 290 48 791 26 796 755 54 50 303 306 0 g 0 0 0 325 295 42 75 21 56 87 773 61 318 281 0 t 0 0 0 115 157 786 19 3 23 28 26 14 127 148 0
positions_6nt_m4_shift5 (positions_6nt_m4)				; oligos_6nt_mkv3_m1 versus positions_6nt_m4; m=4/4; ncol2=10; w=0; offset=5; strand=D; shift=5; score=0.508262; -----ssGCCGACss ; cor=; Ncor= a 0 0 0 0 0 116 73 0 0 0 0 632 0 113 142 c 0 0 0 0 0 189 263 0 632 632 0 0 632 188 159 g 0 0 0 0 0 172 186 632 0 0 632 0 0 258 217 t 0 0 0 0 0 155 110 0 0 0 0 0 0 73 114

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
positions_6nt_m5_shift0 (positions_6nt_m5)				; positions_6nt_m5; m=0 (reference); ncol1=11; shift=0; ncol=11; ssGCCAGGCcs ; Alignment reference a 48 58 23 1 7 319 4 0 1 44 60 c 131 91 44 290 300 0 4 34 269 144 109 g 97 127 238 29 0 0 310 288 43 76 91 t 46 46 17 2 15 3 4 0 9 58 62
positions_6nt_m5_shift0 (positions_6nt_m5)				; positions_6nt_m5 versus positions_6nt_m5; m=1/3; ncol2=11; w=0; offset=0; strand=D; shift=0; score= 1; ssGCCAGGCcs ; cor=; Ncor= a 48 58 23 1 7 319 4 0 1 44 60 c 131 91 44 290 300 0 4 34 269 144 109 g 97 127 238 29 0 0 310 288 43 76 91 t 46 46 17 2 15 3 4 0 9 58 62
positions_7nt_m2_shift1 (positions_7nt_m2)				; positions_6nt_m5 versus positions_7nt_m2; m=2/3; ncol2=11; w=0; offset=1; strand=D; shift=1; score=0.664875; -ssCGAGGCCs ; cor=; Ncor= a 0 42 47 9 12 246 0 1 1 0 40 c 0 72 75 230 48 0 1 4 237 241 74 g 0 92 75 6 178 1 245 242 7 3 90 t 0 41 50 2 9 0 1 0 2 3 43
positions_6nt_m2_shift1 (positions_6nt_m2)				; positions_6nt_m5 versus positions_6nt_m2; m=3/3; ncol2=11; w=0; offset=1; strand=D; shift=1; score=0.632253; -ssCGAGGCCs ; cor=; Ncor= a 0 57 64 25 10 319 0 1 0 0 54 c 0 104 96 220 43 0 1 4 312 314 103 g 0 116 98 52 258 1 319 315 6 3 106 t 0 43 62 23 9 0 0 0 2 3 57

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
positions_7nt_m2_shift1 (positions_7nt_m2)				; positions_7nt_m2; m=0 (reference); ncol1=11; shift=1; ncol=12; -ssCGAGGCCss ; Alignment reference a 0 42 47 9 12 246 0 1 1 0 40 47 c 0 72 75 230 48 0 1 4 237 241 74 69 g 0 92 75 6 178 1 245 242 7 3 90 70 t 0 41 50 2 9 0 1 0 2 3 43 61
positions_7nt_m2_shift1 (positions_7nt_m2)				; positions_7nt_m2 versus positions_7nt_m2; m=1/5; ncol2=11; w=0; offset=0; strand=D; shift=1; score= 1; -ssCGAGGCCss ; cor=; Ncor= a 0 42 47 9 12 246 0 1 1 0 40 47 c 0 72 75 230 48 0 1 4 237 241 74 69 g 0 92 75 6 178 1 245 242 7 3 90 70 t 0 41 50 2 9 0 1 0 2 3 43 61
positions_6nt_m2_shift1 (positions_6nt_m2)				; positions_7nt_m2 versus positions_6nt_m2; m=2/5; ncol2=11; w=0; offset=0; strand=D; shift=1; score=0.98886; -ssCGAGGCCsb ; cor=; Ncor= a 0 57 64 25 10 319 0 1 0 0 54 53 c 0 104 96 220 43 0 1 4 312 314 103 92 g 0 116 98 52 258 1 319 315 6 3 106 88 t 0 43 62 23 9 0 0 0 2 3 57 87
positions_6nt_m3_shift1 (positions_6nt_m3)				; positions_7nt_m2 versus positions_6nt_m3; m=3/5; ncol2=11; w=0; offset=0; strand=D; shift=1; score=0.712559; -sssGCGGCCss ; cor=; Ncor= a 0 145 115 88 0 0 0 0 0 0 116 111 c 0 196 286 243 0 728 0 0 728 728 196 191 g 0 246 205 268 728 0 728 728 0 0 280 249 t 0 141 122 129 0 0 0 0 0 0 136 177
oligos_6nt_mkv3_m2_shift1 (oligos_6nt_mkv3_m2)				; positions_7nt_m2 versus oligos_6nt_mkv3_m2; m=4/5; ncol2=11; w=0; offset=0; strand=D; shift=1; score=0.706649; -gcCGAGGAssk ; cor=; Ncor= a 0 91 130 0 4 539 0 0 539 104 74 131 c 0 120 168 538 2 0 1 2 0 171 176 126 g 0 236 118 1 526 0 538 528 0 214 200 146 t 0 92 123 0 7 0 0 9 0 50 89 136
positions_6nt_m5_shift0 (positions_6nt_m5)				; positions_7nt_m2 versus positions_6nt_m5; m=5/5; ncol2=11; w=-1; offset=-1; strand=D; shift=0; score=0.664875; ssGCCAGGCcs- ; cor=; Ncor= a 48 58 23 1 7 319 4 0 1 44 60 0 c 131 91 44 290 300 0 4 34 269 144 109 0 g 97 127 238 29 0 0 310 288 43 76 91 0 t 46 46 17 2 15 3 4 0 9 58 62 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
positions_6nt_m4_shift5 (positions_6nt_m4)				; positions_6nt_m4; m=0 (reference); ncol1=10; shift=5; ncol=15; -----ssGCCGACss ; Alignment reference a 0 0 0 0 0 116 73 0 0 0 0 632 0 113 142 c 0 0 0 0 0 189 263 0 632 632 0 0 632 188 159 g 0 0 0 0 0 172 186 632 0 0 632 0 0 258 217 t 0 0 0 0 0 155 110 0 0 0 0 0 0 73 114
positions_6nt_m4_shift5 (positions_6nt_m4)				; positions_6nt_m4 versus positions_6nt_m4; m=1/6; ncol2=10; w=0; offset=0; strand=D; shift=5; score= 1; -----ssGCCGACss ; cor=; Ncor= a 0 0 0 0 0 116 73 0 0 0 0 632 0 113 142 c 0 0 0 0 0 189 263 0 632 632 0 0 632 188 159 g 0 0 0 0 0 172 186 632 0 0 632 0 0 258 217 t 0 0 0 0 0 155 110 0 0 0 0 0 0 73 114
positions_6nt_m1_rc_shift5 (positions_6nt_m1_rc)				; positions_6nt_m4 versus positions_6nt_m1_rc; m=2/6; ncol2=11; w=0; offset=0; strand=R; shift=5; score=0.682502; -----csGCCGTCGs ; cor=; Ncor= a 0 0 0 0 0 83 62 0 1 0 1 0 48 12 88 c 0 0 0 0 0 121 110 0 374 374 6 1 325 40 108 g 0 0 0 0 0 82 136 377 1 1 368 0 3 317 102 t 0 0 0 0 0 91 69 0 1 2 2 376 1 8 79
positions_7nt_m1_rc_shift5 (positions_7nt_m1_rc)				; positions_6nt_m4 versus positions_7nt_m1_rc; m=3/6; ncol2=11; w=0; offset=0; strand=R; shift=5; score=0.667339; -----ysGCCGTCGs ; cor=; Ncor= a 0 0 0 0 0 74 56 1 1 0 1 0 50 3 78 c 0 0 0 0 0 105 109 1 332 332 7 1 277 5 92 g 0 0 0 0 0 71 104 333 1 1 325 0 5 326 91 t 0 0 0 0 0 85 66 0 1 2 2 334 3 1 74
oligos_7nt_mkv4_m3_shift3 (oligos_7nt_mkv4_m3)				; positions_6nt_m4 versus oligos_7nt_mkv4_m3; m=4/6; ncol2=11; w=-2; offset=-2; strand=D; shift=3; score=0.60913; ---ssTCGCCGAss- ; cor=; Ncor= a 0 0 0 75 107 6 27 18 0 5 20 571 98 102 0 c 0 0 0 224 230 5 431 26 563 557 58 1 164 182 0 g 0 0 0 213 150 2 98 532 16 6 474 2 247 209 0 t 0 0 0 67 92 566 23 3 0 11 27 5 70 86 0
oligos_6nt_mkv3_m1_shift0 (oligos_6nt_mkv3_m1)				; positions_6nt_m4 versus oligos_6nt_mkv3_m1; m=5/6; ncol2=15; w=-5; offset=-5; strand=D; shift=0; score=0.508262; sstcATCGCCGAGsm ; cor=; Ncor= a 57 84 77 29 345 25 10 17 26 4 27 414 34 94 123 c 189 144 69 319 54 46 441 19 429 454 30 29 79 161 131 g 198 184 69 117 63 29 32 446 22 25 427 21 346 160 121 t 47 79 276 26 29 391 8 9 14 8 7 27 32 76 116
oligos_7nt_mkv4_m1_shift7 (oligos_7nt_mkv4_m1)				; positions_6nt_m4 versus oligos_7nt_mkv4_m1; m=6/6; ncol2=11; w=0; offset=2; strand=D; shift=7; score=0.445032; -------gsCGACGA ; cor=; Ncor= a 0 0 0 0 0 0 0 86 128 5 8 544 18 17 557 c 0 0 0 0 0 0 0 135 177 529 39 4 433 45 0 g 0 0 0 0 0 0 0 239 150 18 475 10 98 488 1 t 0 0 0 0 0 0 0 98 103 6 36 0 9 8 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
positions_6nt_m1_shift0 (positions_6nt_m1)				; positions_6nt_m1; m=0 (reference); ncol1=11; shift=0; ncol=11; ssCGACGGCsg ; Alignment reference a 51 79 8 1 376 2 2 1 0 69 91 c 104 102 317 3 0 368 1 1 377 136 82 g 161 108 40 325 1 6 374 374 0 110 121 t 61 88 12 48 0 1 0 1 0 62 83
positions_6nt_m1_shift0 (positions_6nt_m1)				; positions_6nt_m1 versus positions_6nt_m1; m=1/3; ncol2=11; w=0; offset=0; strand=D; shift=0; score= 1; ssCGACGGCsg ; cor=; Ncor= a 51 79 8 1 376 2 2 1 0 69 91 c 104 102 317 3 0 368 1 1 377 136 82 g 161 108 40 325 1 6 374 374 0 110 121 t 61 88 12 48 0 1 0 1 0 62 83
positions_7nt_m1_shift0 (positions_7nt_m1)				; positions_6nt_m1 versus positions_7nt_m1; m=2/3; ncol2=11; w=0; offset=0; strand=D; shift=0; score=0.99665; ssCGACGGCsr ; cor=; Ncor= a 45 74 1 3 334 2 2 1 0 66 85 c 89 91 326 5 0 325 1 1 333 104 71 g 144 92 5 277 1 7 332 332 1 109 105 t 57 78 3 50 0 1 0 1 1 56 74
positions_6nt_m4_rc_shift1 (positions_6nt_m4_rc)				; positions_6nt_m1 versus positions_6nt_m4_rc; m=3/3; ncol2=10; w=0; offset=1; strand=R; shift=1; score=0.682502; -ssGTCGGCss ; cor=; Ncor= a 0 114 73 0 0 0 0 0 0 110 155 c 0 217 258 0 0 632 0 0 632 186 172 g 0 159 188 632 0 0 632 632 0 263 189 t 0 142 113 0 632 0 0 0 0 73 116

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
positions_7nt_m1_shift0 (positions_7nt_m1)				; positions_7nt_m1; m=0 (reference); ncol1=11; shift=0; ncol=11; ssCGACGGCsr ; Alignment reference a 45 74 1 3 334 2 2 1 0 66 85 c 89 91 326 5 0 325 1 1 333 104 71 g 144 92 5 277 1 7 332 332 1 109 105 t 57 78 3 50 0 1 0 1 1 56 74
positions_7nt_m1_shift0 (positions_7nt_m1)				; positions_7nt_m1 versus positions_7nt_m1; m=1/3; ncol2=11; w=0; offset=0; strand=D; shift=0; score= 1; ssCGACGGCsr ; cor=; Ncor= a 45 74 1 3 334 2 2 1 0 66 85 c 89 91 326 5 0 325 1 1 333 104 71 g 144 92 5 277 1 7 332 332 1 109 105 t 57 78 3 50 0 1 0 1 1 56 74
positions_6nt_m1_shift0 (positions_6nt_m1)				; positions_7nt_m1 versus positions_6nt_m1; m=2/3; ncol2=11; w=0; offset=0; strand=D; shift=0; score=0.99665; ssCGACGGCsg ; cor=; Ncor= a 51 79 8 1 376 2 2 1 0 69 91 c 104 102 317 3 0 368 1 1 377 136 82 g 161 108 40 325 1 6 374 374 0 110 121 t 61 88 12 48 0 1 0 1 0 62 83
positions_6nt_m4_rc_shift1 (positions_6nt_m4_rc)				; positions_7nt_m1 versus positions_6nt_m4_rc; m=3/3; ncol2=10; w=0; offset=1; strand=R; shift=1; score=0.667339; -ssGTCGGCss ; cor=; Ncor= a 0 114 73 0 0 0 0 0 0 110 155 c 0 217 258 0 0 632 0 0 632 186 172 g 0 159 188 632 0 0 632 632 0 263 189 t 0 142 113 0 632 0 0 0 0 73 116

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
positions_6nt_m3_shift0 (positions_6nt_m3)				; positions_6nt_m3; m=0 (reference); ncol1=11; shift=0; ncol=11; sssGCGGCCss ; Alignment reference a 145 115 88 0 0 0 0 0 0 116 111 c 196 286 243 0 728 0 0 728 728 196 191 g 246 205 268 728 0 728 728 0 0 280 249 t 141 122 129 0 0 0 0 0 0 136 177
positions_6nt_m3_shift0 (positions_6nt_m3)				; positions_6nt_m3 versus positions_6nt_m3; m=1/3; ncol2=11; w=0; offset=0; strand=D; shift=0; score= 1; sssGCGGCCss ; cor=; Ncor= a 145 115 88 0 0 0 0 0 0 116 111 c 196 286 243 0 728 0 0 728 728 196 191 g 246 205 268 728 0 728 728 0 0 280 249 t 141 122 129 0 0 0 0 0 0 136 177
positions_6nt_m2_shift0 (positions_6nt_m2)				; positions_6nt_m3 versus positions_6nt_m2; m=2/3; ncol2=11; w=0; offset=0; strand=D; shift=0; score=0.749366; ssCGAGGCCsb ; cor=; Ncor= a 57 64 25 10 319 0 1 0 0 54 53 c 104 96 220 43 0 1 4 312 314 103 92 g 116 98 52 258 1 319 315 6 3 106 88 t 43 62 23 9 0 0 0 2 3 57 87
positions_7nt_m2_shift0 (positions_7nt_m2)				; positions_6nt_m3 versus positions_7nt_m2; m=3/3; ncol2=11; w=0; offset=0; strand=D; shift=0; score=0.712559; ssCGAGGCCss ; cor=; Ncor= a 42 47 9 12 246 0 1 1 0 40 47 c 72 75 230 48 0 1 4 237 241 74 69 g 92 75 6 178 1 245 242 7 3 90 70 t 41 50 2 9 0 1 0 2 3 43 61

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_6nt_mkv3_m2_shift0 (oligos_6nt_mkv3_m2)				; oligos_6nt_mkv3_m2; m=0 (reference); ncol1=11; shift=0; ncol=11; gcCGAGGAssk ; Alignment reference a 91 130 0 4 539 0 0 539 104 74 131 c 120 168 538 2 0 1 2 0 171 176 126 g 236 118 1 526 0 538 528 0 214 200 146 t 92 123 0 7 0 0 9 0 50 89 136
oligos_6nt_mkv3_m2_shift0 (oligos_6nt_mkv3_m2)				; oligos_6nt_mkv3_m2 versus oligos_6nt_mkv3_m2; m=1/4; ncol2=11; w=0; offset=0; strand=D; shift=0; score= 1; gcCGAGGAssk ; cor=; Ncor= a 91 130 0 4 539 0 0 539 104 74 131 c 120 168 538 2 0 1 2 0 171 176 126 g 236 118 1 526 0 538 528 0 214 200 146 t 92 123 0 7 0 0 9 0 50 89 136
oligos_7nt_mkv4_m2_shift0 (oligos_7nt_mkv4_m2)				; oligos_6nt_mkv3_m2 versus oligos_7nt_mkv4_m2; m=2/4; ncol2=11; w=0; offset=0; strand=D; shift=0; score=0.937891; ssCGAGGAGsy ; cor=; Ncor= a 126 138 18 48 703 18 23 704 22 91 171 c 180 236 591 78 4 7 112 3 28 248 183 g 285 194 78 578 4 678 555 3 656 246 175 t 121 144 25 8 1 9 22 2 6 127 183
oligos_7nt_mkv4_m1_shift0 (oligos_7nt_mkv4_m1)				; oligos_6nt_mkv3_m2 versus oligos_7nt_mkv4_m1; m=3/4; ncol2=11; w=0; offset=0; strand=D; shift=0; score=0.797065; gsCGACGAGsd ; cor=; Ncor= a 86 128 5 8 544 18 17 557 3 56 144 c 135 177 529 39 4 433 45 0 9 177 129 g 239 150 18 475 10 98 488 1 545 234 142 t 98 103 6 36 0 9 8 0 1 91 143
positions_7nt_m2_shift0 (positions_7nt_m2)				; oligos_6nt_mkv3_m2 versus positions_7nt_m2; m=4/4; ncol2=11; w=0; offset=0; strand=D; shift=0; score=0.706649; ssCGAGGCCss ; cor=; Ncor= a 42 47 9 12 246 0 1 1 0 40 47 c 72 75 230 48 0 1 4 237 241 74 69 g 92 75 6 178 1 245 242 7 3 90 70 t 41 50 2 9 0 1 0 2 3 43 61

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_mkv4_m2_shift0 (oligos_7nt_mkv4_m2)				; oligos_7nt_mkv4_m2; m=0 (reference); ncol1=11; shift=0; ncol=11; ssCGAGGAGsy ; Alignment reference a 126 138 18 48 703 18 23 704 22 91 171 c 180 236 591 78 4 7 112 3 28 248 183 g 285 194 78 578 4 678 555 3 656 246 175 t 121 144 25 8 1 9 22 2 6 127 183
oligos_7nt_mkv4_m2_shift0 (oligos_7nt_mkv4_m2)				; oligos_7nt_mkv4_m2 versus oligos_7nt_mkv4_m2; m=1/4; ncol2=11; w=0; offset=0; strand=D; shift=0; score= 1; ssCGAGGAGsy ; cor=; Ncor= a 126 138 18 48 703 18 23 704 22 91 171 c 180 236 591 78 4 7 112 3 28 248 183 g 285 194 78 578 4 678 555 3 656 246 175 t 121 144 25 8 1 9 22 2 6 127 183
oligos_6nt_mkv3_m2_shift0 (oligos_6nt_mkv3_m2)				; oligos_7nt_mkv4_m2 versus oligos_6nt_mkv3_m2; m=2/4; ncol2=11; w=0; offset=0; strand=D; shift=0; score=0.937891; gcCGAGGAssk ; cor=; Ncor= a 91 130 0 4 539 0 0 539 104 74 131 c 120 168 538 2 0 1 2 0 171 176 126 g 236 118 1 526 0 538 528 0 214 200 146 t 92 123 0 7 0 0 9 0 50 89 136
oligos_7nt_mkv4_m1_shift0 (oligos_7nt_mkv4_m1)				; oligos_7nt_mkv4_m2 versus oligos_7nt_mkv4_m1; m=3/4; ncol2=11; w=0; offset=0; strand=D; shift=0; score=0.850922; gsCGACGAGsd ; cor=; Ncor= a 86 128 5 8 544 18 17 557 3 56 144 c 135 177 529 39 4 433 45 0 9 177 129 g 239 150 18 475 10 98 488 1 545 234 142 t 98 103 6 36 0 9 8 0 1 91 143
oligos_6nt_mkv3_m3_rc_shift0 (oligos_6nt_mkv3_m3_rc)				; oligos_7nt_mkv4_m2 versus oligos_6nt_mkv3_m3_rc; m=4/4; ncol2=12; w=0; offset=0; strand=R; shift=0; score=0.685557; sstGAGCAGgg ; cor=; Ncor= a 107 127 49 6 587 15 4 591 10 51 150 c 189 165 143 19 34 17 631 29 18 124 161 g 277 223 112 625 21 603 15 14 615 421 188 t 85 143 354 8 16 23 8 24 15 62 159

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
positions_6nt_m2_shift1 (positions_6nt_m2)				; positions_6nt_m2; m=0 (reference); ncol1=11; shift=1; ncol=12; -ssCGAGGCCsb ; Alignment reference a 0 57 64 25 10 319 0 1 0 0 54 53 c 0 104 96 220 43 0 1 4 312 314 103 92 g 0 116 98 52 258 1 319 315 6 3 106 88 t 0 43 62 23 9 0 0 0 2 3 57 87
positions_6nt_m2_shift1 (positions_6nt_m2)				; positions_6nt_m2 versus positions_6nt_m2; m=1/4; ncol2=11; w=0; offset=0; strand=D; shift=1; score= 1; -ssCGAGGCCsb ; cor=; Ncor= a 0 57 64 25 10 319 0 1 0 0 54 53 c 0 104 96 220 43 0 1 4 312 314 103 92 g 0 116 98 52 258 1 319 315 6 3 106 88 t 0 43 62 23 9 0 0 0 2 3 57 87
positions_7nt_m2_shift1 (positions_7nt_m2)				; positions_6nt_m2 versus positions_7nt_m2; m=2/4; ncol2=11; w=0; offset=0; strand=D; shift=1; score=0.98886; -ssCGAGGCCss ; cor=; Ncor= a 0 42 47 9 12 246 0 1 1 0 40 47 c 0 72 75 230 48 0 1 4 237 241 74 69 g 0 92 75 6 178 1 245 242 7 3 90 70 t 0 41 50 2 9 0 1 0 2 3 43 61
positions_6nt_m3_shift1 (positions_6nt_m3)				; positions_6nt_m2 versus positions_6nt_m3; m=3/4; ncol2=11; w=0; offset=0; strand=D; shift=1; score=0.749366; -sssGCGGCCss ; cor=; Ncor= a 0 145 115 88 0 0 0 0 0 0 116 111 c 0 196 286 243 0 728 0 0 728 728 196 191 g 0 246 205 268 728 0 728 728 0 0 280 249 t 0 141 122 129 0 0 0 0 0 0 136 177
positions_6nt_m5_shift0 (positions_6nt_m5)				; positions_6nt_m2 versus positions_6nt_m5; m=4/4; ncol2=11; w=-1; offset=-1; strand=D; shift=0; score=0.632253; ssGCCAGGCcs- ; cor=; Ncor= a 48 58 23 1 7 319 4 0 1 44 60 0 c 131 91 44 290 300 0 4 34 269 144 109 0 g 97 127 238 29 0 0 310 288 43 76 91 0 t 46 46 17 2 15 3 4 0 9 58 62 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_mkv4_m3_shift3 (oligos_7nt_mkv4_m3)				; oligos_7nt_mkv4_m3; m=0 (reference); ncol1=11; shift=3; ncol=14; ---ssTCGCCGAss ; Alignment reference a 0 0 0 75 107 6 27 18 0 5 20 571 98 102 c 0 0 0 224 230 5 431 26 563 557 58 1 164 182 g 0 0 0 213 150 2 98 532 16 6 474 2 247 209 t 0 0 0 67 92 566 23 3 0 11 27 5 70 86
oligos_7nt_mkv4_m3_shift3 (oligos_7nt_mkv4_m3)				; oligos_7nt_mkv4_m3 versus oligos_7nt_mkv4_m3; m=1/4; ncol2=11; w=0; offset=0; strand=D; shift=3; score= 1; ---ssTCGCCGAss ; cor=; Ncor= a 0 0 0 75 107 6 27 18 0 5 20 571 98 102 c 0 0 0 224 230 5 431 26 563 557 58 1 164 182 g 0 0 0 213 150 2 98 532 16 6 474 2 247 209 t 0 0 0 67 92 566 23 3 0 11 27 5 70 86
oligos_7nt_mkv4_m4_shift3 (oligos_7nt_mkv4_m4)				; oligos_7nt_mkv4_m3 versus oligos_7nt_mkv4_m4; m=2/4; ncol2=11; w=0; offset=0; strand=D; shift=3; score=0.787206; ---ssTCACCGAss ; cor=; Ncor= a 0 0 0 109 155 21 12 847 22 27 44 772 149 162 c 0 0 0 348 290 48 791 26 796 755 54 50 303 306 g 0 0 0 325 295 42 75 21 56 87 773 61 318 281 t 0 0 0 115 157 786 19 3 23 28 26 14 127 148
oligos_6nt_mkv3_m1_shift0 (oligos_6nt_mkv3_m1)				; oligos_7nt_mkv4_m3 versus oligos_6nt_mkv3_m1; m=3/4; ncol2=15; w=-3; offset=-3; strand=D; shift=0; score=0.674338; sstcATCGCCGAGs ; cor=; Ncor= a 57 84 77 29 345 25 10 17 26 4 27 414 34 94 c 189 144 69 319 54 46 441 19 429 454 30 29 79 161 g 198 184 69 117 63 29 32 446 22 25 427 21 346 160 t 47 79 276 26 29 391 8 9 14 8 7 27 32 76
positions_6nt_m4_shift5 (positions_6nt_m4)				; oligos_7nt_mkv4_m3 versus positions_6nt_m4; m=4/4; ncol2=10; w=0; offset=2; strand=D; shift=5; score=0.60913; -----ssGCCGACs ; cor=; Ncor= a 0 0 0 0 0 116 73 0 0 0 0 632 0 113 c 0 0 0 0 0 189 263 0 632 632 0 0 632 188 g 0 0 0 0 0 172 186 632 0 0 632 0 0 258 t 0 0 0 0 0 155 110 0 0 0 0 0 0 73

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_mkv4_m4_shift3 (oligos_7nt_mkv4_m4)				; oligos_7nt_mkv4_m4; m=0 (reference); ncol1=11; shift=3; ncol=14; ---ssTCACCGAss ; Alignment reference a 0 0 0 109 155 21 12 847 22 27 44 772 149 162 c 0 0 0 348 290 48 791 26 796 755 54 50 303 306 g 0 0 0 325 295 42 75 21 56 87 773 61 318 281 t 0 0 0 115 157 786 19 3 23 28 26 14 127 148
oligos_7nt_mkv4_m4_shift3 (oligos_7nt_mkv4_m4)				; oligos_7nt_mkv4_m4 versus oligos_7nt_mkv4_m4; m=1/3; ncol2=11; w=0; offset=0; strand=D; shift=3; score= 1; ---ssTCACCGAss ; cor=; Ncor= a 0 0 0 109 155 21 12 847 22 27 44 772 149 162 c 0 0 0 348 290 48 791 26 796 755 54 50 303 306 g 0 0 0 325 295 42 75 21 56 87 773 61 318 281 t 0 0 0 115 157 786 19 3 23 28 26 14 127 148
oligos_7nt_mkv4_m3_shift3 (oligos_7nt_mkv4_m3)				; oligos_7nt_mkv4_m4 versus oligos_7nt_mkv4_m3; m=2/3; ncol2=11; w=0; offset=0; strand=D; shift=3; score=0.787206; ---ssTCGCCGAss ; cor=; Ncor= a 0 0 0 75 107 6 27 18 0 5 20 571 98 102 c 0 0 0 224 230 5 431 26 563 557 58 1 164 182 g 0 0 0 213 150 2 98 532 16 6 474 2 247 209 t 0 0 0 67 92 566 23 3 0 11 27 5 70 86
oligos_6nt_mkv3_m1_shift0 (oligos_6nt_mkv3_m1)				; oligos_7nt_mkv4_m4 versus oligos_6nt_mkv3_m1; m=3/3; ncol2=15; w=-3; offset=-3; strand=D; shift=0; score=0.534141; sstcATCGCCGAGs ; cor=; Ncor= a 57 84 77 29 345 25 10 17 26 4 27 414 34 94 c 189 144 69 319 54 46 441 19 429 454 30 29 79 161 g 198 184 69 117 63 29 32 446 22 25 427 21 346 160 t 47 79 276 26 29 391 8 9 14 8 7 27 32 76