One-to-n alignments

Command: compare-matrices  -v 1 -format transfac -file $RSAT/public_html/tmp/www-data/2026/01/22/peak-motifs.2026-01-22.083931_2026-01-22.083931_nNIkDc/results/discovered_motifs/peak-motifs_motifs_discovered.tf -distinct -mode matches -strand DR -uth offset_rank 1 -lth w 5 -lth Wr 0.3 -lth cor 0.7 -lth Ncor 0.4 -return matrix_name,matrix_id,cor,Ncor,width,strand,offset,alignments_1ton -sort Ncor -quick -o $RSAT/public_html/tmp/www-data/2026/01/22/peak-motifs.2026-01-22.083931_2026-01-22.083931_nNIkDc/results/discovered_motifs/peak-motifs_motifs_disco_compa.tab

One-to-n matrix alignment; reference matrix: oligos_7nt_test_vs_ctrl_m3_shift1 ; 11 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_test_vs_ctrl_m3_shift1 (oligos_7nt_test_vs_ctrl_m3)
; oligos_7nt_test_vs_ctrl_m3; m=0 (reference); ncol1=17; shift=1; ncol=18; -ssgcCGAACTCCCCbss ; Alignment reference a 0 69 37 29 27 10 6 324 321 5 13 8 15 15 15 20 80 37 c 0 101 159 86 238 298 54 12 21 332 12 295 268 274 251 99 91 190 g 0 103 121 224 51 30 295 10 12 22 18 49 64 35 77 133 111 94 t 0 86 42 20 43 21 4 13 5 0 316 7 12 35 16 107 77 38

oligos_7nt_test_vs_ctrl_m3_shift1 (oligos_7nt_test_vs_ctrl_m3)
; oligos_7nt_test_vs_ctrl_m3 versus oligos_7nt_test_vs_ctrl_m3; m=1/10; ncol2=17; w=0; offset=0; strand=D; shift=1; score= 1; -ssgcCGAACTCCCCbss ; cor=; Ncor= a 0 69 37 29 27 10 6 324 321 5 13 8 15 15 15 20 80 37 c 0 101 159 86 238 298 54 12 21 332 12 295 268 274 251 99 91 190 g 0 103 121 224 51 30 295 10 12 22 18 49 64 35 77 133 111 94 t 0 86 42 20 43 21 4 13 5 0 316 7 12 35 16 107 77 38

oligos_7nt_test_vs_ctrl_m1_shift0 (oligos_7nt_test_vs_ctrl_m1)
; oligos_7nt_test_vs_ctrl_m3 versus oligos_7nt_test_vs_ctrl_m1; m=2/10; ncol2=18; w=-1; offset=-1; strand=D; shift=0; score=0.87038; sysscCCAACTCCCsbgs ; cor=; Ncor= a 32 47 28 14 19 17 4 217 206 1 9 5 8 9 7 8 52 37 c 90 71 79 74 157 186 180 9 10 232 4 205 195 187 154 72 53 105 g 90 56 89 131 37 16 51 9 19 5 14 21 31 18 60 73 79 60 t 26 64 42 19 25 19 3 3 3 0 211 7 4 24 17 85 54 36

oligos_6nt_test_vs_ctrl_m4_shift1 (oligos_6nt_test_vs_ctrl_m4)
; oligos_7nt_test_vs_ctrl_m3 versus oligos_6nt_test_vs_ctrl_m4; m=3/10; ncol2=15; w=0; offset=0; strand=D; shift=1; score=0.864826; -ssscCGAACTCCCss-- ; cor=; Ncor= a 0 91 53 30 44 14 4 419 428 6 16 11 12 41 33 26 0 0 c 0 127 198 156 289 370 63 16 12 421 10 386 376 314 196 166 0 0 g 0 139 152 244 65 53 390 9 8 32 24 53 64 49 186 210 0 0 t 0 103 57 30 62 23 3 16 12 1 410 10 8 56 45 58 0 0

oligos_6nt_test_vs_ctrl_m2_shift1 (oligos_6nt_test_vs_ctrl_m2)
; oligos_7nt_test_vs_ctrl_m3 versus oligos_6nt_test_vs_ctrl_m2; m=4/10; ncol2=17; w=0; offset=0; strand=D; shift=1; score=0.814746; -gsscCCAACTGCcssss ; cor=; Ncor= a 0 66 44 25 25 7 6 308 291 1 9 14 13 17 34 24 76 53 c 0 79 130 112 216 265 261 6 14 310 8 52 245 214 132 122 86 140 g 0 110 105 174 62 36 58 9 18 17 13 248 62 60 136 112 96 93 t 0 74 50 18 26 21 4 6 6 1 299 15 9 38 27 71 71 43

oligos_6nt_test_vs_ctrl_m1_shift1 (oligos_6nt_test_vs_ctrl_m1)
; oligos_7nt_test_vs_ctrl_m3 versus oligos_6nt_test_vs_ctrl_m1; m=5/10; ncol2=15; w=0; offset=0; strand=D; shift=1; score=0.793253; -ssscCCAACTCCCss-- ; cor=; Ncor= a 0 69 52 26 35 18 2 340 304 2 12 12 8 20 34 19 0 0 c 0 108 150 131 231 284 292 12 23 356 7 312 318 265 156 137 0 0 g 0 102 100 185 55 30 72 10 33 9 20 36 37 42 129 145 0 0 t 0 90 67 27 48 37 3 7 9 2 330 9 6 42 50 68 0 0

oligos_7nt_test_vs_ctrl_m5_rc_shift1 (oligos_7nt_test_vs_ctrl_m5_rc)
; oligos_7nt_test_vs_ctrl_m3 versus oligos_7nt_test_vs_ctrl_m5_rc; m=6/10; ncol2=17; w=0; offset=0; strand=R; shift=1; score=0.767624; -sssagCAACTCCCsbsc ; cor=; Ncor= a 0 47 35 13 137 20 2 232 211 1 7 4 7 12 16 10 55 38 c 0 78 100 150 54 49 216 16 22 247 11 210 223 205 154 82 66 122 g 0 78 72 80 44 168 37 7 16 9 15 38 26 26 66 87 83 64 t 0 55 51 15 23 21 3 3 9 1 225 6 2 15 22 79 54 34

oligos_6nt_test_vs_ctrl_m5_shift1 (oligos_6nt_test_vs_ctrl_m5)
; oligos_7nt_test_vs_ctrl_m3 versus oligos_6nt_test_vs_ctrl_m5; m=7/10; ncol2=15; w=0; offset=0; strand=D; shift=1; score=0.738809; -ssscCCAACTCSscs-- ; cor=; Ncor= a 0 84 43 26 40 13 3 374 336 0 4 5 8 48 40 26 0 0 c 0 113 163 119 240 336 316 8 30 388 10 341 103 148 223 140 0 0 g 0 108 122 234 81 31 82 12 29 11 6 49 285 121 97 172 0 0 t 0 97 74 23 41 22 1 8 7 3 382 7 6 85 42 64 0 0

oligos_7nt_test_vs_ctrl_m4_shift0 (oligos_7nt_test_vs_ctrl_m4)
; oligos_7nt_test_vs_ctrl_m3 versus oligos_7nt_test_vs_ctrl_m4; m=8/10; ncol2=16; w=-1; offset=-1; strand=D; shift=0; score=0.712074; sssgCCCAACTCGcss-- ; cor=; Ncor= a 36 67 16 15 22 13 3 285 246 2 6 3 8 22 24 16 0 0 c 129 88 109 77 228 270 231 6 32 289 9 259 58 203 168 106 0 0 g 115 83 132 199 37 14 72 10 25 13 9 37 238 46 85 127 0 0 t 29 71 52 18 22 12 3 8 6 5 285 10 5 38 32 60 0 0

oligos_7nt_test_vs_ctrl_m2_shift0 (oligos_7nt_test_vs_ctrl_m2)
; oligos_7nt_test_vs_ctrl_m3 versus oligos_7nt_test_vs_ctrl_m2; m=9/10; ncol2=17; w=-1; offset=-1; strand=D; shift=0; score=0.700433; sbssCCCAACTGCCgsv- ; cor=; Ncor= a 21 29 21 13 13 7 4 194 177 0 11 5 4 5 13 14 56 0 c 89 65 67 61 160 166 159 5 13 201 8 32 188 176 43 91 57 0 g 80 65 95 135 29 28 47 11 21 11 15 171 22 22 145 69 56 0 t 24 55 31 5 12 13 4 4 3 2 180 6 0 11 13 40 45 0

oligos_6nt_test_vs_ctrl_m3_rc_shift1 (oligos_6nt_test_vs_ctrl_m3_rc)
; oligos_7nt_test_vs_ctrl_m3 versus oligos_6nt_test_vs_ctrl_m3_rc; m=10/10; ncol2=15; w=0; offset=0; strand=R; shift=1; score=0.651498; -sssggCAACTCCcss-- ; cor=; Ncor= a 0 82 67 29 52 30 3 362 347 1 10 18 10 26 57 22 0 0 c 0 114 158 190 84 65 337 11 19 374 8 312 350 234 133 156 0 0 g 0 115 105 145 216 246 39 8 12 11 24 43 25 69 141 158 0 0 t 0 79 60 26 38 49 11 9 12 4 348 17 5 61 59 54 0 0

One-to-n matrix alignment; reference matrix: oligos_6nt_test_vs_ctrl_m3_shift2 ; 11 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_test_vs_ctrl_m3_shift2 (oligos_6nt_test_vs_ctrl_m3)
; oligos_6nt_test_vs_ctrl_m3; m=0 (reference); ncol1=15; shift=2; ncol=17; --ssgGGAGTTGccsss ; Alignment reference a 0 0 54 59 61 5 17 348 4 12 9 11 49 38 26 60 79 c 0 0 158 141 69 25 43 24 11 12 8 39 246 216 145 105 115 g 0 0 156 133 234 350 312 8 374 19 11 337 65 84 190 158 114 t 0 0 22 57 26 10 18 10 1 347 362 3 30 52 29 67 82

oligos_6nt_test_vs_ctrl_m3_shift2 (oligos_6nt_test_vs_ctrl_m3)
; oligos_6nt_test_vs_ctrl_m3 versus oligos_6nt_test_vs_ctrl_m3; m=1/10; ncol2=15; w=0; offset=0; strand=D; shift=2; score= 1; --ssgGGAGTTGccsss ; cor=; Ncor= a 0 0 54 59 61 5 17 348 4 12 9 11 49 38 26 60 79 c 0 0 158 141 69 25 43 24 11 12 8 39 246 216 145 105 115 g 0 0 156 133 234 350 312 8 374 19 11 337 65 84 190 158 114 t 0 0 22 57 26 10 18 10 1 347 362 3 30 52 29 67 82

oligos_6nt_test_vs_ctrl_m1_rc_shift2 (oligos_6nt_test_vs_ctrl_m1_rc)
; oligos_6nt_test_vs_ctrl_m3 versus oligos_6nt_test_vs_ctrl_m1_rc; m=2/10; ncol2=15; w=0; offset=0; strand=R; shift=2; score=0.884576; --ssGGGAGTTGGgsss ; cor=; Ncor= a 0 0 68 50 42 6 9 330 2 9 7 3 37 48 27 67 90 c 0 0 145 129 42 37 36 20 9 33 10 72 30 55 185 100 102 g 0 0 137 156 265 318 312 7 356 23 12 292 284 231 131 150 108 t 0 0 19 34 20 8 12 12 2 304 340 2 18 35 26 52 69

oligos_7nt_test_vs_ctrl_m5_shift0 (oligos_7nt_test_vs_ctrl_m5)
; oligos_6nt_test_vs_ctrl_m3 versus oligos_7nt_test_vs_ctrl_m5; m=3/10; ncol2=17; w=-2; offset=-2; strand=D; shift=0; score=0.833413; gsvsGGGAGTTGctsss ; cor=; Ncor= a 34 54 79 22 15 2 6 225 1 9 3 3 21 23 15 51 55 c 64 83 87 66 26 26 38 15 9 16 7 37 168 44 80 72 78 g 122 66 82 154 205 223 210 11 247 22 16 216 49 54 150 100 78 t 38 55 10 16 12 7 4 7 1 211 232 2 20 137 13 35 47

oligos_6nt_test_vs_ctrl_m5_rc_shift2 (oligos_6nt_test_vs_ctrl_m5_rc)
; oligos_6nt_test_vs_ctrl_m3 versus oligos_6nt_test_vs_ctrl_m5_rc; m=4/10; ncol2=15; w=0; offset=0; strand=R; shift=2; score=0.774417; --sgsSGAGTTGGgsss ; cor=; Ncor= a 0 0 64 42 85 6 7 382 3 7 8 1 22 41 23 74 97 c 0 0 172 97 121 285 49 6 11 29 12 82 31 81 234 122 108 g 0 0 140 223 148 103 341 10 388 30 8 316 336 240 119 163 113 t 0 0 26 40 48 8 5 4 0 336 374 3 13 40 26 43 84

oligos_6nt_test_vs_ctrl_m4_rc_shift2 (oligos_6nt_test_vs_ctrl_m4_rc)
; oligos_6nt_test_vs_ctrl_m3 versus oligos_6nt_test_vs_ctrl_m4_rc; m=5/10; ncol2=15; w=0; offset=0; strand=R; shift=2; score=0.77154; --ssGGGAGTTCGgsss ; cor=; Ncor= a 0 0 58 45 56 8 10 410 1 12 16 3 23 62 30 57 103 c 0 0 210 186 49 64 53 24 32 8 9 390 53 65 244 152 139 g 0 0 166 196 314 376 386 10 421 12 16 63 370 289 156 198 127 t 0 0 26 33 41 12 11 16 6 428 419 4 14 44 30 53 91

oligos_7nt_test_vs_ctrl_m1_rc_shift0 (oligos_7nt_test_vs_ctrl_m1_rc)
; oligos_6nt_test_vs_ctrl_m3 versus oligos_7nt_test_vs_ctrl_m1_rc; m=6/10; ncol2=18; w=-2; offset=-2; strand=R; shift=0; score=0.712312; scvsGGGAGTTGGgssr ; cor=; Ncor= a 36 54 85 17 24 4 7 211 0 3 3 3 19 25 19 42 64 c 60 79 73 60 18 31 21 14 5 19 9 51 16 37 131 89 56 g 105 53 72 154 187 195 205 4 232 10 9 180 186 157 74 79 71 t 37 52 8 7 9 8 5 9 1 206 217 4 17 19 14 28 47

oligos_6nt_test_vs_ctrl_m2_rc_shift0 (oligos_6nt_test_vs_ctrl_m2_rc)
; oligos_6nt_test_vs_ctrl_m3 versus oligos_6nt_test_vs_ctrl_m2_rc; m=7/10; ncol2=17; w=-2; offset=-2; strand=R; shift=0; score=0.69619; ssssgGCAGTTGGgssc ; cor=; Ncor= a 43 71 71 27 38 9 15 299 1 6 6 4 21 26 18 50 74 c 93 96 112 136 60 62 248 13 17 18 9 58 36 62 174 105 110 g 140 86 122 132 214 245 52 8 310 14 6 261 265 216 112 130 79 t 53 76 24 34 17 13 14 9 1 291 308 6 7 25 25 44 66

oligos_7nt_test_vs_ctrl_m4_rc_shift2 (oligos_7nt_test_vs_ctrl_m4_rc)
; oligos_6nt_test_vs_ctrl_m3 versus oligos_7nt_test_vs_ctrl_m4_rc; m=8/10; ncol2=16; w=0; offset=0; strand=R; shift=2; score=0.685798; --ssgCGAGTTGGGcss ; cor=; Ncor= a 0 0 60 32 38 5 10 285 5 6 8 3 12 22 18 52 71 c 0 0 127 85 46 238 37 9 13 25 10 72 14 37 199 132 83 g 0 0 106 168 203 58 259 9 289 32 6 231 270 228 77 109 88 t 0 0 16 24 22 8 3 6 2 246 285 3 13 22 15 16 67

oligos_7nt_test_vs_ctrl_m2_rc_shift1 (oligos_7nt_test_vs_ctrl_m2_rc)
; oligos_6nt_test_vs_ctrl_m3 versus oligos_7nt_test_vs_ctrl_m2_rc; m=9/10; ncol2=17; w=-1; offset=-1; strand=R; shift=1; score=0.66836; -bscGGCAGTTGGGssv ; cor=; Ncor= a 0 45 40 13 11 0 6 180 2 3 4 4 13 12 5 31 55 c 0 56 69 145 22 22 171 15 11 21 11 47 28 29 135 95 65 g 0 57 91 43 176 188 32 8 201 13 5 159 166 160 61 67 65 t 0 56 14 13 5 4 5 11 0 177 194 4 7 13 13 21 29

oligos_7nt_test_vs_ctrl_m3_rc_shift0 (oligos_7nt_test_vs_ctrl_m3_rc)
; oligos_6nt_test_vs_ctrl_m3 versus oligos_7nt_test_vs_ctrl_m3_rc; m=10/10; ncol2=17; w=-2; offset=-2; strand=R; shift=0; score=0.651498; ssvGGGGAGTTCGgcss ; cor=; Ncor= a 38 77 107 16 35 12 7 316 0 5 13 4 21 43 20 42 86 c 94 111 133 77 35 64 49 18 22 12 10 295 30 51 224 121 103 g 190 91 99 251 274 268 295 12 332 21 12 54 298 238 86 159 101 t 37 80 20 15 15 15 8 13 5 321 324 6 10 27 29 37 69

One-to-n matrix alignment; reference matrix: oligos_6nt_test_vs_ctrl_m4_shift1 ; 11 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_test_vs_ctrl_m4_shift1 (oligos_6nt_test_vs_ctrl_m4)
; oligos_6nt_test_vs_ctrl_m4; m=0 (reference); ncol1=15; shift=1; ncol=16; -ssscCGAACTCCCss ; Alignment reference a 0 91 53 30 44 14 4 419 428 6 16 11 12 41 33 26 c 0 127 198 156 289 370 63 16 12 421 10 386 376 314 196 166 g 0 139 152 244 65 53 390 9 8 32 24 53 64 49 186 210 t 0 103 57 30 62 23 3 16 12 1 410 10 8 56 45 58

oligos_6nt_test_vs_ctrl_m4_shift1 (oligos_6nt_test_vs_ctrl_m4)
; oligos_6nt_test_vs_ctrl_m4 versus oligos_6nt_test_vs_ctrl_m4; m=1/10; ncol2=15; w=0; offset=0; strand=D; shift=1; score= 1; -ssscCGAACTCCCss ; cor=; Ncor= a 0 91 53 30 44 14 4 419 428 6 16 11 12 41 33 26 c 0 127 198 156 289 370 63 16 12 421 10 386 376 314 196 166 g 0 139 152 244 65 53 390 9 8 32 24 53 64 49 186 210 t 0 103 57 30 62 23 3 16 12 1 410 10 8 56 45 58

oligos_6nt_test_vs_ctrl_m1_shift1 (oligos_6nt_test_vs_ctrl_m1)
; oligos_6nt_test_vs_ctrl_m4 versus oligos_6nt_test_vs_ctrl_m1; m=2/10; ncol2=15; w=0; offset=0; strand=D; shift=1; score=0.908064; -ssscCCAACTCCCss ; cor=; Ncor= a 0 69 52 26 35 18 2 340 304 2 12 12 8 20 34 19 c 0 108 150 131 231 284 292 12 23 356 7 312 318 265 156 137 g 0 102 100 185 55 30 72 10 33 9 20 36 37 42 129 145 t 0 90 67 27 48 37 3 7 9 2 330 9 6 42 50 68

oligos_7nt_test_vs_ctrl_m3_shift1 (oligos_7nt_test_vs_ctrl_m3)
; oligos_6nt_test_vs_ctrl_m4 versus oligos_7nt_test_vs_ctrl_m3; m=3/10; ncol2=17; w=0; offset=0; strand=D; shift=1; score=0.864826; -ssgcCGAACTCCCCb ; cor=; Ncor= a 0 69 37 29 27 10 6 324 321 5 13 8 15 15 15 20 c 0 101 159 86 238 298 54 12 21 332 12 295 268 274 251 99 g 0 103 121 224 51 30 295 10 12 22 18 49 64 35 77 133 t 0 86 42 20 43 21 4 13 5 0 316 7 12 35 16 107

oligos_6nt_test_vs_ctrl_m5_shift1 (oligos_6nt_test_vs_ctrl_m5)
; oligos_6nt_test_vs_ctrl_m4 versus oligos_6nt_test_vs_ctrl_m5; m=4/10; ncol2=15; w=0; offset=0; strand=D; shift=1; score=0.825501; -ssscCCAACTCSscs ; cor=; Ncor= a 0 84 43 26 40 13 3 374 336 0 4 5 8 48 40 26 c 0 113 163 119 240 336 316 8 30 388 10 341 103 148 223 140 g 0 108 122 234 81 31 82 12 29 11 6 49 285 121 97 172 t 0 97 74 23 41 22 1 8 7 3 382 7 6 85 42 64

oligos_7nt_test_vs_ctrl_m4_shift0 (oligos_7nt_test_vs_ctrl_m4)
; oligos_6nt_test_vs_ctrl_m4 versus oligos_7nt_test_vs_ctrl_m4; m=5/10; ncol2=16; w=-1; offset=-1; strand=D; shift=0; score=0.780483; sssgCCCAACTCGcss ; cor=; Ncor= a 36 67 16 15 22 13 3 285 246 2 6 3 8 22 24 16 c 129 88 109 77 228 270 231 6 32 289 9 259 58 203 168 106 g 115 83 132 199 37 14 72 10 25 13 9 37 238 46 85 127 t 29 71 52 18 22 12 3 8 6 5 285 10 5 38 32 60

oligos_6nt_test_vs_ctrl_m3_rc_shift1 (oligos_6nt_test_vs_ctrl_m3_rc)
; oligos_6nt_test_vs_ctrl_m4 versus oligos_6nt_test_vs_ctrl_m3_rc; m=6/10; ncol2=15; w=0; offset=0; strand=R; shift=1; score=0.77154; -sssggCAACTCCcss ; cor=; Ncor= a 0 82 67 29 52 30 3 362 347 1 10 18 10 26 57 22 c 0 114 158 190 84 65 337 11 19 374 8 312 350 234 133 156 g 0 115 105 145 216 246 39 8 12 11 24 43 25 69 141 158 t 0 79 60 26 38 49 11 9 12 4 348 17 5 61 59 54

oligos_7nt_test_vs_ctrl_m1_shift0 (oligos_7nt_test_vs_ctrl_m1)
; oligos_6nt_test_vs_ctrl_m4 versus oligos_7nt_test_vs_ctrl_m1; m=7/10; ncol2=18; w=-1; offset=-1; strand=D; shift=0; score=0.751455; sysscCCAACTCCCsb ; cor=; Ncor= a 32 47 28 14 19 17 4 217 206 1 9 5 8 9 7 8 c 90 71 79 74 157 186 180 9 10 232 4 205 195 187 154 72 g 90 56 89 131 37 16 51 9 19 5 14 21 31 18 60 73 t 26 64 42 19 25 19 3 3 3 0 211 7 4 24 17 85

oligos_6nt_test_vs_ctrl_m2_shift1 (oligos_6nt_test_vs_ctrl_m2)
; oligos_6nt_test_vs_ctrl_m4 versus oligos_6nt_test_vs_ctrl_m2; m=8/10; ncol2=17; w=0; offset=0; strand=D; shift=1; score=0.718885; -gsscCCAACTGCcss ; cor=; Ncor= a 0 66 44 25 25 7 6 308 291 1 9 14 13 17 34 24 c 0 79 130 112 216 265 261 6 14 310 8 52 245 214 132 122 g 0 110 105 174 62 36 58 9 18 17 13 248 62 60 136 112 t 0 74 50 18 26 21 4 6 6 1 299 15 9 38 27 71

oligos_7nt_test_vs_ctrl_m2_shift0 (oligos_7nt_test_vs_ctrl_m2)
; oligos_6nt_test_vs_ctrl_m4 versus oligos_7nt_test_vs_ctrl_m2; m=9/10; ncol2=17; w=-1; offset=-1; strand=D; shift=0; score=0.711714; sbssCCCAACTGCCgs ; cor=; Ncor= a 21 29 21 13 13 7 4 194 177 0 11 5 4 5 13 14 c 89 65 67 61 160 166 159 5 13 201 8 32 188 176 43 91 g 80 65 95 135 29 28 47 11 21 11 15 171 22 22 145 69 t 24 55 31 5 12 13 4 4 3 2 180 6 0 11 13 40

oligos_7nt_test_vs_ctrl_m5_rc_shift1 (oligos_7nt_test_vs_ctrl_m5_rc)
; oligos_6nt_test_vs_ctrl_m4 versus oligos_7nt_test_vs_ctrl_m5_rc; m=10/10; ncol2=17; w=0; offset=0; strand=R; shift=1; score=0.677468; -sssagCAACTCCCsb ; cor=; Ncor= a 0 47 35 13 137 20 2 232 211 1 7 4 7 12 16 10 c 0 78 100 150 54 49 216 16 22 247 11 210 223 205 154 82 g 0 78 72 80 44 168 37 7 16 9 15 38 26 26 66 87 t 0 55 51 15 23 21 3 3 9 1 225 6 2 15 22 79

One-to-n matrix alignment; reference matrix: oligos_7nt_test_vs_ctrl_m2_shift0 ; 11 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_test_vs_ctrl_m2_shift0 (oligos_7nt_test_vs_ctrl_m2)
; oligos_7nt_test_vs_ctrl_m2; m=0 (reference); ncol1=17; shift=0; ncol=17; sbssCCCAACTGCCgsv ; Alignment reference a 21 29 21 13 13 7 4 194 177 0 11 5 4 5 13 14 56 c 89 65 67 61 160 166 159 5 13 201 8 32 188 176 43 91 57 g 80 65 95 135 29 28 47 11 21 11 15 171 22 22 145 69 56 t 24 55 31 5 12 13 4 4 3 2 180 6 0 11 13 40 45

oligos_7nt_test_vs_ctrl_m2_shift0 (oligos_7nt_test_vs_ctrl_m2)
; oligos_7nt_test_vs_ctrl_m2 versus oligos_7nt_test_vs_ctrl_m2; m=1/10; ncol2=17; w=0; offset=0; strand=D; shift=0; score= 1; sbssCCCAACTGCCgsv ; cor=; Ncor= a 21 29 21 13 13 7 4 194 177 0 11 5 4 5 13 14 56 c 89 65 67 61 160 166 159 5 13 201 8 32 188 176 43 91 57 g 80 65 95 135 29 28 47 11 21 11 15 171 22 22 145 69 56 t 24 55 31 5 12 13 4 4 3 2 180 6 0 11 13 40 45

oligos_6nt_test_vs_ctrl_m2_shift1 (oligos_6nt_test_vs_ctrl_m2)
; oligos_7nt_test_vs_ctrl_m2 versus oligos_6nt_test_vs_ctrl_m2; m=2/10; ncol2=17; w=0; offset=1; strand=D; shift=1; score=0.866075; -gsscCCAACTGCcsss ; cor=; Ncor= a 0 66 44 25 25 7 6 308 291 1 9 14 13 17 34 24 76 c 0 79 130 112 216 265 261 6 14 310 8 52 245 214 132 122 86 g 0 110 105 174 62 36 58 9 18 17 13 248 62 60 136 112 96 t 0 74 50 18 26 21 4 6 6 1 299 15 9 38 27 71 71

oligos_7nt_test_vs_ctrl_m1_shift0 (oligos_7nt_test_vs_ctrl_m1)
; oligos_7nt_test_vs_ctrl_m2 versus oligos_7nt_test_vs_ctrl_m1; m=3/10; ncol2=18; w=0; offset=0; strand=D; shift=0; score=0.809066; sysscCCAACTCCCsbg ; cor=; Ncor= a 32 47 28 14 19 17 4 217 206 1 9 5 8 9 7 8 52 c 90 71 79 74 157 186 180 9 10 232 4 205 195 187 154 72 53 g 90 56 89 131 37 16 51 9 19 5 14 21 31 18 60 73 79 t 26 64 42 19 25 19 3 3 3 0 211 7 4 24 17 85 54

oligos_6nt_test_vs_ctrl_m1_shift1 (oligos_6nt_test_vs_ctrl_m1)
; oligos_7nt_test_vs_ctrl_m2 versus oligos_6nt_test_vs_ctrl_m1; m=4/10; ncol2=15; w=0; offset=1; strand=D; shift=1; score=0.771807; -ssscCCAACTCCCss- ; cor=; Ncor= a 0 69 52 26 35 18 2 340 304 2 12 12 8 20 34 19 0 c 0 108 150 131 231 284 292 12 23 356 7 312 318 265 156 137 0 g 0 102 100 185 55 30 72 10 33 9 20 36 37 42 129 145 0 t 0 90 67 27 48 37 3 7 9 2 330 9 6 42 50 68 0

oligos_7nt_test_vs_ctrl_m4_shift0 (oligos_7nt_test_vs_ctrl_m4)
; oligos_7nt_test_vs_ctrl_m2 versus oligos_7nt_test_vs_ctrl_m4; m=5/10; ncol2=16; w=0; offset=0; strand=D; shift=0; score=0.739286; sssgCCCAACTCGcss- ; cor=; Ncor= a 36 67 16 15 22 13 3 285 246 2 6 3 8 22 24 16 0 c 129 88 109 77 228 270 231 6 32 289 9 259 58 203 168 106 0 g 115 83 132 199 37 14 72 10 25 13 9 37 238 46 85 127 0 t 29 71 52 18 22 12 3 8 6 5 285 10 5 38 32 60 0

oligos_6nt_test_vs_ctrl_m4_shift1 (oligos_6nt_test_vs_ctrl_m4)
; oligos_7nt_test_vs_ctrl_m2 versus oligos_6nt_test_vs_ctrl_m4; m=6/10; ncol2=15; w=0; offset=1; strand=D; shift=1; score=0.711714; -ssscCGAACTCCCss- ; cor=; Ncor= a 0 91 53 30 44 14 4 419 428 6 16 11 12 41 33 26 0 c 0 127 198 156 289 370 63 16 12 421 10 386 376 314 196 166 0 g 0 139 152 244 65 53 390 9 8 32 24 53 64 49 186 210 0 t 0 103 57 30 62 23 3 16 12 1 410 10 8 56 45 58 0

oligos_7nt_test_vs_ctrl_m3_shift1 (oligos_7nt_test_vs_ctrl_m3)
; oligos_7nt_test_vs_ctrl_m2 versus oligos_7nt_test_vs_ctrl_m3; m=7/10; ncol2=17; w=0; offset=1; strand=D; shift=1; score=0.700433; -ssgcCGAACTCCCCbs ; cor=; Ncor= a 0 69 37 29 27 10 6 324 321 5 13 8 15 15 15 20 80 c 0 101 159 86 238 298 54 12 21 332 12 295 268 274 251 99 91 g 0 103 121 224 51 30 295 10 12 22 18 49 64 35 77 133 111 t 0 86 42 20 43 21 4 13 5 0 316 7 12 35 16 107 77

oligos_6nt_test_vs_ctrl_m5_shift1 (oligos_6nt_test_vs_ctrl_m5)
; oligos_7nt_test_vs_ctrl_m2 versus oligos_6nt_test_vs_ctrl_m5; m=8/10; ncol2=15; w=0; offset=1; strand=D; shift=1; score=0.669062; -ssscCCAACTCSscs- ; cor=; Ncor= a 0 84 43 26 40 13 3 374 336 0 4 5 8 48 40 26 0 c 0 113 163 119 240 336 316 8 30 388 10 341 103 148 223 140 0 g 0 108 122 234 81 31 82 12 29 11 6 49 285 121 97 172 0 t 0 97 74 23 41 22 1 8 7 3 382 7 6 85 42 64 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=9/10; ncol2=15; w=0; offset=1; strand=R; shift=1; score=0.66836; -sssggCAACTCCcss- ; cor=; Ncor= a 0 82 67 29 52 30 3 362 347 1 10 18 10 26 57 22 0 c 0 114 158 190 84 65 337 11 19 374 8 312 350 234 133 156 0 g 0 115 105 145 216 246 39 8 12 11 24 43 25 69 141 158 0 t 0 79 60 26 38 49 11 9 12 4 348 17 5 61 59 54 0

oligos_7nt_test_vs_ctrl_m5_rc_shift1 (oligos_7nt_test_vs_ctrl_m5_rc)
; oligos_7nt_test_vs_ctrl_m2 versus oligos_7nt_test_vs_ctrl_m5_rc; m=10/10; ncol2=17; w=0; offset=1; strand=R; shift=1; score=0.657516; -sssagCAACTCCCsbs ; cor=; Ncor= a 0 47 35 13 137 20 2 232 211 1 7 4 7 12 16 10 55 c 0 78 100 150 54 49 216 16 22 247 11 210 223 205 154 82 66 g 0 78 72 80 44 168 37 7 16 9 15 38 26 26 66 87 83 t 0 55 51 15 23 21 3 3 9 1 225 6 2 15 22 79 54

One-to-n matrix alignment; reference matrix: oligos_7nt_test_vs_ctrl_m5_shift0 ; 11 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_test_vs_ctrl_m5_shift0 (oligos_7nt_test_vs_ctrl_m5)
; oligos_7nt_test_vs_ctrl_m5; m=0 (reference); ncol1=17; shift=0; ncol=17; gsvsGGGAGTTGctsss ; Alignment reference a 34 54 79 22 15 2 6 225 1 9 3 3 21 23 15 51 55 c 64 83 87 66 26 26 38 15 9 16 7 37 168 44 80 72 78 g 122 66 82 154 205 223 210 11 247 22 16 216 49 54 150 100 78 t 38 55 10 16 12 7 4 7 1 211 232 2 20 137 13 35 47

oligos_7nt_test_vs_ctrl_m5_shift0 (oligos_7nt_test_vs_ctrl_m5)
; oligos_7nt_test_vs_ctrl_m5 versus oligos_7nt_test_vs_ctrl_m5; m=1/10; ncol2=17; w=0; offset=0; strand=D; shift=0; score= 1; gsvsGGGAGTTGctsss ; cor=; Ncor= a 34 54 79 22 15 2 6 225 1 9 3 3 21 23 15 51 55 c 64 83 87 66 26 26 38 15 9 16 7 37 168 44 80 72 78 g 122 66 82 154 205 223 210 11 247 22 16 216 49 54 150 100 78 t 38 55 10 16 12 7 4 7 1 211 232 2 20 137 13 35 47

oligos_6nt_test_vs_ctrl_m3_shift2 (oligos_6nt_test_vs_ctrl_m3)
; oligos_7nt_test_vs_ctrl_m5 versus oligos_6nt_test_vs_ctrl_m3; m=2/10; ncol2=15; w=0; offset=2; strand=D; shift=2; score=0.833413; --ssgGGAGTTGccsss ; cor=; Ncor= a 0 0 54 59 61 5 17 348 4 12 9 11 49 38 26 60 79 c 0 0 158 141 69 25 43 24 11 12 8 39 246 216 145 105 115 g 0 0 156 133 234 350 312 8 374 19 11 337 65 84 190 158 114 t 0 0 22 57 26 10 18 10 1 347 362 3 30 52 29 67 82

oligos_7nt_test_vs_ctrl_m1_rc_shift0 (oligos_7nt_test_vs_ctrl_m1_rc)
; oligos_7nt_test_vs_ctrl_m5 versus oligos_7nt_test_vs_ctrl_m1_rc; m=3/10; ncol2=18; w=0; offset=0; strand=R; shift=0; score=0.824086; scvsGGGAGTTGGgssr ; cor=; Ncor= a 36 54 85 17 24 4 7 211 0 3 3 3 19 25 19 42 64 c 60 79 73 60 18 31 21 14 5 19 9 51 16 37 131 89 56 g 105 53 72 154 187 195 205 4 232 10 9 180 186 157 74 79 71 t 37 52 8 7 9 8 5 9 1 206 217 4 17 19 14 28 47

oligos_6nt_test_vs_ctrl_m2_rc_shift0 (oligos_6nt_test_vs_ctrl_m2_rc)
; oligos_7nt_test_vs_ctrl_m5 versus oligos_6nt_test_vs_ctrl_m2_rc; m=4/10; ncol2=17; w=0; offset=0; strand=R; shift=0; score=0.777693; ssssgGCAGTTGGgssc ; cor=; Ncor= a 43 71 71 27 38 9 15 299 1 6 6 4 21 26 18 50 74 c 93 96 112 136 60 62 248 13 17 18 9 58 36 62 174 105 110 g 140 86 122 132 214 245 52 8 310 14 6 261 265 216 112 130 79 t 53 76 24 34 17 13 14 9 1 291 308 6 7 25 25 44 66

oligos_6nt_test_vs_ctrl_m1_rc_shift2 (oligos_6nt_test_vs_ctrl_m1_rc)
; oligos_7nt_test_vs_ctrl_m5 versus oligos_6nt_test_vs_ctrl_m1_rc; m=5/10; ncol2=15; w=0; offset=2; strand=R; shift=2; score=0.772425; --ssGGGAGTTGGgsss ; cor=; Ncor= a 0 0 68 50 42 6 9 330 2 9 7 3 37 48 27 67 90 c 0 0 145 129 42 37 36 20 9 33 10 72 30 55 185 100 102 g 0 0 137 156 265 318 312 7 356 23 12 292 284 231 131 150 108 t 0 0 19 34 20 8 12 12 2 304 340 2 18 35 26 52 69

oligos_7nt_test_vs_ctrl_m3_rc_shift0 (oligos_7nt_test_vs_ctrl_m3_rc)
; oligos_7nt_test_vs_ctrl_m5 versus oligos_7nt_test_vs_ctrl_m3_rc; m=6/10; ncol2=17; w=0; offset=0; strand=R; shift=0; score=0.767624; ssvGGGGAGTTCGgcss ; cor=; Ncor= a 38 77 107 16 35 12 7 316 0 5 13 4 21 43 20 42 86 c 94 111 133 77 35 64 49 18 22 12 10 295 30 51 224 121 103 g 190 91 99 251 274 268 295 12 332 21 12 54 298 238 86 159 101 t 37 80 20 15 15 15 8 13 5 321 324 6 10 27 29 37 69

oligos_6nt_test_vs_ctrl_m4_rc_shift2 (oligos_6nt_test_vs_ctrl_m4_rc)
; oligos_7nt_test_vs_ctrl_m5 versus oligos_6nt_test_vs_ctrl_m4_rc; m=7/10; ncol2=15; w=0; offset=2; strand=R; shift=2; score=0.677468; --ssGGGAGTTCGgsss ; cor=; Ncor= a 0 0 58 45 56 8 10 410 1 12 16 3 23 62 30 57 103 c 0 0 210 186 49 64 53 24 32 8 9 390 53 65 244 152 139 g 0 0 166 196 314 376 386 10 421 12 16 63 370 289 156 198 127 t 0 0 26 33 41 12 11 16 6 428 419 4 14 44 30 53 91

oligos_6nt_test_vs_ctrl_m5_rc_shift2 (oligos_6nt_test_vs_ctrl_m5_rc)
; oligos_7nt_test_vs_ctrl_m5 versus oligos_6nt_test_vs_ctrl_m5_rc; m=8/10; ncol2=15; w=0; offset=2; strand=R; shift=2; score=0.670473; --sgsSGAGTTGGgsss ; cor=; Ncor= a 0 0 64 42 85 6 7 382 3 7 8 1 22 41 23 74 97 c 0 0 172 97 121 285 49 6 11 29 12 82 31 81 234 122 108 g 0 0 140 223 148 103 341 10 388 30 8 316 336 240 119 163 113 t 0 0 26 40 48 8 5 4 0 336 374 3 13 40 26 43 84

oligos_7nt_test_vs_ctrl_m2_rc_shift1 (oligos_7nt_test_vs_ctrl_m2_rc)
; oligos_7nt_test_vs_ctrl_m5 versus oligos_7nt_test_vs_ctrl_m2_rc; m=9/10; ncol2=17; w=0; offset=1; strand=R; shift=1; score=0.657516; -bscGGCAGTTGGGssv ; cor=; Ncor= a 0 45 40 13 11 0 6 180 2 3 4 4 13 12 5 31 55 c 0 56 69 145 22 22 171 15 11 21 11 47 28 29 135 95 65 g 0 57 91 43 176 188 32 8 201 13 5 159 166 160 61 67 65 t 0 56 14 13 5 4 5 11 0 177 194 4 7 13 13 21 29

oligos_7nt_test_vs_ctrl_m4_rc_shift2 (oligos_7nt_test_vs_ctrl_m4_rc)
; oligos_7nt_test_vs_ctrl_m5 versus oligos_7nt_test_vs_ctrl_m4_rc; m=10/10; ncol2=16; w=0; offset=2; strand=R; shift=2; score=0.616285; --ssgCGAGTTGGGcss ; cor=; Ncor= a 0 0 60 32 38 5 10 285 5 6 8 3 12 22 18 52 71 c 0 0 127 85 46 238 37 9 13 25 10 72 14 37 199 132 83 g 0 0 106 168 203 58 259 9 289 32 6 231 270 228 77 109 88 t 0 0 16 24 22 8 3 6 2 246 285 3 13 22 15 16 67

One-to-n matrix alignment; reference matrix: oligos_6nt_test_vs_ctrl_m2_shift1 ; 11 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_test_vs_ctrl_m2_shift1 (oligos_6nt_test_vs_ctrl_m2)
; oligos_6nt_test_vs_ctrl_m2; m=0 (reference); ncol1=17; shift=1; ncol=18; -gsscCCAACTGCcssss ; Alignment reference a 0 66 44 25 25 7 6 308 291 1 9 14 13 17 34 24 76 53 c 0 79 130 112 216 265 261 6 14 310 8 52 245 214 132 122 86 140 g 0 110 105 174 62 36 58 9 18 17 13 248 62 60 136 112 96 93 t 0 74 50 18 26 21 4 6 6 1 299 15 9 38 27 71 71 43

oligos_6nt_test_vs_ctrl_m2_shift1 (oligos_6nt_test_vs_ctrl_m2)
; oligos_6nt_test_vs_ctrl_m2 versus oligos_6nt_test_vs_ctrl_m2; m=1/10; ncol2=17; w=0; offset=0; strand=D; shift=1; score= 1; -gsscCCAACTGCcssss ; cor=; Ncor= a 0 66 44 25 25 7 6 308 291 1 9 14 13 17 34 24 76 53 c 0 79 130 112 216 265 261 6 14 310 8 52 245 214 132 122 86 140 g 0 110 105 174 62 36 58 9 18 17 13 248 62 60 136 112 96 93 t 0 74 50 18 26 21 4 6 6 1 299 15 9 38 27 71 71 43

oligos_7nt_test_vs_ctrl_m2_shift0 (oligos_7nt_test_vs_ctrl_m2)
; oligos_6nt_test_vs_ctrl_m2 versus oligos_7nt_test_vs_ctrl_m2; m=2/10; ncol2=17; w=-1; offset=-1; strand=D; shift=0; score=0.866075; sbssCCCAACTGCCgsv- ; cor=; Ncor= a 21 29 21 13 13 7 4 194 177 0 11 5 4 5 13 14 56 0 c 89 65 67 61 160 166 159 5 13 201 8 32 188 176 43 91 57 0 g 80 65 95 135 29 28 47 11 21 11 15 171 22 22 145 69 56 0 t 24 55 31 5 12 13 4 4 3 2 180 6 0 11 13 40 45 0

oligos_7nt_test_vs_ctrl_m1_shift0 (oligos_7nt_test_vs_ctrl_m1)
; oligos_6nt_test_vs_ctrl_m2 versus oligos_7nt_test_vs_ctrl_m1; m=3/10; ncol2=18; w=-1; offset=-1; strand=D; shift=0; score=0.837195; sysscCCAACTCCCsbgs ; cor=; Ncor= a 32 47 28 14 19 17 4 217 206 1 9 5 8 9 7 8 52 37 c 90 71 79 74 157 186 180 9 10 232 4 205 195 187 154 72 53 105 g 90 56 89 131 37 16 51 9 19 5 14 21 31 18 60 73 79 60 t 26 64 42 19 25 19 3 3 3 0 211 7 4 24 17 85 54 36

oligos_7nt_test_vs_ctrl_m3_shift1 (oligos_7nt_test_vs_ctrl_m3)
; oligos_6nt_test_vs_ctrl_m2 versus oligos_7nt_test_vs_ctrl_m3; m=4/10; ncol2=17; w=0; offset=0; strand=D; shift=1; score=0.814746; -ssgcCGAACTCCCCbss ; cor=; Ncor= a 0 69 37 29 27 10 6 324 321 5 13 8 15 15 15 20 80 37 c 0 101 159 86 238 298 54 12 21 332 12 295 268 274 251 99 91 190 g 0 103 121 224 51 30 295 10 12 22 18 49 64 35 77 133 111 94 t 0 86 42 20 43 21 4 13 5 0 316 7 12 35 16 107 77 38

oligos_6nt_test_vs_ctrl_m1_shift1 (oligos_6nt_test_vs_ctrl_m1)
; oligos_6nt_test_vs_ctrl_m2 versus oligos_6nt_test_vs_ctrl_m1; m=5/10; ncol2=15; w=0; offset=0; strand=D; shift=1; score=0.792564; -ssscCCAACTCCCss-- ; cor=; Ncor= a 0 69 52 26 35 18 2 340 304 2 12 12 8 20 34 19 0 0 c 0 108 150 131 231 284 292 12 23 356 7 312 318 265 156 137 0 0 g 0 102 100 185 55 30 72 10 33 9 20 36 37 42 129 145 0 0 t 0 90 67 27 48 37 3 7 9 2 330 9 6 42 50 68 0 0

oligos_7nt_test_vs_ctrl_m5_rc_shift1 (oligos_7nt_test_vs_ctrl_m5_rc)
; oligos_6nt_test_vs_ctrl_m2 versus oligos_7nt_test_vs_ctrl_m5_rc; m=6/10; ncol2=17; w=0; offset=0; strand=R; shift=1; score=0.777693; -sssagCAACTCCCsbsc ; cor=; Ncor= a 0 47 35 13 137 20 2 232 211 1 7 4 7 12 16 10 55 38 c 0 78 100 150 54 49 216 16 22 247 11 210 223 205 154 82 66 122 g 0 78 72 80 44 168 37 7 16 9 15 38 26 26 66 87 83 64 t 0 55 51 15 23 21 3 3 9 1 225 6 2 15 22 79 54 34

oligos_6nt_test_vs_ctrl_m5_shift1 (oligos_6nt_test_vs_ctrl_m5)
; oligos_6nt_test_vs_ctrl_m2 versus oligos_6nt_test_vs_ctrl_m5; m=7/10; ncol2=15; w=0; offset=0; strand=D; shift=1; score=0.734247; -ssscCCAACTCSscs-- ; cor=; Ncor= a 0 84 43 26 40 13 3 374 336 0 4 5 8 48 40 26 0 0 c 0 113 163 119 240 336 316 8 30 388 10 341 103 148 223 140 0 0 g 0 108 122 234 81 31 82 12 29 11 6 49 285 121 97 172 0 0 t 0 97 74 23 41 22 1 8 7 3 382 7 6 85 42 64 0 0

oligos_6nt_test_vs_ctrl_m4_shift1 (oligos_6nt_test_vs_ctrl_m4)
; oligos_6nt_test_vs_ctrl_m2 versus oligos_6nt_test_vs_ctrl_m4; m=8/10; ncol2=15; w=0; offset=0; strand=D; shift=1; score=0.718885; -ssscCGAACTCCCss-- ; cor=; Ncor= a 0 91 53 30 44 14 4 419 428 6 16 11 12 41 33 26 0 0 c 0 127 198 156 289 370 63 16 12 421 10 386 376 314 196 166 0 0 g 0 139 152 244 65 53 390 9 8 32 24 53 64 49 186 210 0 0 t 0 103 57 30 62 23 3 16 12 1 410 10 8 56 45 58 0 0

oligos_6nt_test_vs_ctrl_m3_rc_shift1 (oligos_6nt_test_vs_ctrl_m3_rc)
; oligos_6nt_test_vs_ctrl_m2 versus oligos_6nt_test_vs_ctrl_m3_rc; m=9/10; ncol2=15; w=0; offset=0; strand=R; shift=1; score=0.69619; -sssggCAACTCCcss-- ; cor=; Ncor= a 0 82 67 29 52 30 3 362 347 1 10 18 10 26 57 22 0 0 c 0 114 158 190 84 65 337 11 19 374 8 312 350 234 133 156 0 0 g 0 115 105 145 216 246 39 8 12 11 24 43 25 69 141 158 0 0 t 0 79 60 26 38 49 11 9 12 4 348 17 5 61 59 54 0 0

oligos_7nt_test_vs_ctrl_m4_shift0 (oligos_7nt_test_vs_ctrl_m4)
; oligos_6nt_test_vs_ctrl_m2 versus oligos_7nt_test_vs_ctrl_m4; m=10/10; ncol2=16; w=-1; offset=-1; strand=D; shift=0; score=0.69265; sssgCCCAACTCGcss-- ; cor=; Ncor= a 36 67 16 15 22 13 3 285 246 2 6 3 8 22 24 16 0 0 c 129 88 109 77 228 270 231 6 32 289 9 259 58 203 168 106 0 0 g 115 83 132 199 37 14 72 10 25 13 9 37 238 46 85 127 0 0 t 29 71 52 18 22 12 3 8 6 5 285 10 5 38 32 60 0 0

One-to-n matrix alignment; reference matrix: oligos_7nt_test_vs_ctrl_m4_shift0 ; 11 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_test_vs_ctrl_m4_shift0 (oligos_7nt_test_vs_ctrl_m4)
; oligos_7nt_test_vs_ctrl_m4; m=0 (reference); ncol1=16; shift=0; ncol=16; sssgCCCAACTCGcss ; Alignment reference a 36 67 16 15 22 13 3 285 246 2 6 3 8 22 24 16 c 129 88 109 77 228 270 231 6 32 289 9 259 58 203 168 106 g 115 83 132 199 37 14 72 10 25 13 9 37 238 46 85 127 t 29 71 52 18 22 12 3 8 6 5 285 10 5 38 32 60

oligos_7nt_test_vs_ctrl_m4_shift0 (oligos_7nt_test_vs_ctrl_m4)
; oligos_7nt_test_vs_ctrl_m4 versus oligos_7nt_test_vs_ctrl_m4; m=1/10; ncol2=16; w=0; offset=0; strand=D; shift=0; score= 1; sssgCCCAACTCGcss ; cor=; Ncor= a 36 67 16 15 22 13 3 285 246 2 6 3 8 22 24 16 c 129 88 109 77 228 270 231 6 32 289 9 259 58 203 168 106 g 115 83 132 199 37 14 72 10 25 13 9 37 238 46 85 127 t 29 71 52 18 22 12 3 8 6 5 285 10 5 38 32 60

oligos_6nt_test_vs_ctrl_m5_shift1 (oligos_6nt_test_vs_ctrl_m5)
; oligos_7nt_test_vs_ctrl_m4 versus oligos_6nt_test_vs_ctrl_m5; m=2/10; ncol2=15; w=0; offset=1; strand=D; shift=1; score=0.919236; -ssscCCAACTCSscs ; cor=; Ncor= a 0 84 43 26 40 13 3 374 336 0 4 5 8 48 40 26 c 0 113 163 119 240 336 316 8 30 388 10 341 103 148 223 140 g 0 108 122 234 81 31 82 12 29 11 6 49 285 121 97 172 t 0 97 74 23 41 22 1 8 7 3 382 7 6 85 42 64

oligos_6nt_test_vs_ctrl_m1_shift1 (oligos_6nt_test_vs_ctrl_m1)
; oligos_7nt_test_vs_ctrl_m4 versus oligos_6nt_test_vs_ctrl_m1; m=3/10; ncol2=15; w=0; offset=1; strand=D; shift=1; score=0.838858; -ssscCCAACTCCCss ; cor=; Ncor= a 0 69 52 26 35 18 2 340 304 2 12 12 8 20 34 19 c 0 108 150 131 231 284 292 12 23 356 7 312 318 265 156 137 g 0 102 100 185 55 30 72 10 33 9 20 36 37 42 129 145 t 0 90 67 27 48 37 3 7 9 2 330 9 6 42 50 68

oligos_7nt_test_vs_ctrl_m1_shift0 (oligos_7nt_test_vs_ctrl_m1)
; oligos_7nt_test_vs_ctrl_m4 versus oligos_7nt_test_vs_ctrl_m1; m=4/10; ncol2=18; w=0; offset=0; strand=D; shift=0; score=0.807345; sysscCCAACTCCCsb ; cor=; Ncor= a 32 47 28 14 19 17 4 217 206 1 9 5 8 9 7 8 c 90 71 79 74 157 186 180 9 10 232 4 205 195 187 154 72 g 90 56 89 131 37 16 51 9 19 5 14 21 31 18 60 73 t 26 64 42 19 25 19 3 3 3 0 211 7 4 24 17 85

oligos_6nt_test_vs_ctrl_m4_shift1 (oligos_6nt_test_vs_ctrl_m4)
; oligos_7nt_test_vs_ctrl_m4 versus oligos_6nt_test_vs_ctrl_m4; m=5/10; ncol2=15; w=0; offset=1; strand=D; shift=1; score=0.780483; -ssscCGAACTCCCss ; cor=; Ncor= a 0 91 53 30 44 14 4 419 428 6 16 11 12 41 33 26 c 0 127 198 156 289 370 63 16 12 421 10 386 376 314 196 166 g 0 139 152 244 65 53 390 9 8 32 24 53 64 49 186 210 t 0 103 57 30 62 23 3 16 12 1 410 10 8 56 45 58

oligos_7nt_test_vs_ctrl_m2_shift0 (oligos_7nt_test_vs_ctrl_m2)
; oligos_7nt_test_vs_ctrl_m4 versus oligos_7nt_test_vs_ctrl_m2; m=6/10; ncol2=17; w=0; offset=0; strand=D; shift=0; score=0.739286; sbssCCCAACTGCCgs ; cor=; Ncor= a 21 29 21 13 13 7 4 194 177 0 11 5 4 5 13 14 c 89 65 67 61 160 166 159 5 13 201 8 32 188 176 43 91 g 80 65 95 135 29 28 47 11 21 11 15 171 22 22 145 69 t 24 55 31 5 12 13 4 4 3 2 180 6 0 11 13 40

oligos_7nt_test_vs_ctrl_m3_shift1 (oligos_7nt_test_vs_ctrl_m3)
; oligos_7nt_test_vs_ctrl_m4 versus oligos_7nt_test_vs_ctrl_m3; m=7/10; ncol2=17; w=0; offset=1; strand=D; shift=1; score=0.712074; -ssgcCGAACTCCCCb ; cor=; Ncor= a 0 69 37 29 27 10 6 324 321 5 13 8 15 15 15 20 c 0 101 159 86 238 298 54 12 21 332 12 295 268 274 251 99 g 0 103 121 224 51 30 295 10 12 22 18 49 64 35 77 133 t 0 86 42 20 43 21 4 13 5 0 316 7 12 35 16 107

oligos_6nt_test_vs_ctrl_m2_shift1 (oligos_6nt_test_vs_ctrl_m2)
; oligos_7nt_test_vs_ctrl_m4 versus oligos_6nt_test_vs_ctrl_m2; m=8/10; ncol2=17; w=0; offset=1; strand=D; shift=1; score=0.69265; -gsscCCAACTGCcss ; cor=; Ncor= a 0 66 44 25 25 7 6 308 291 1 9 14 13 17 34 24 c 0 79 130 112 216 265 261 6 14 310 8 52 245 214 132 122 g 0 110 105 174 62 36 58 9 18 17 13 248 62 60 136 112 t 0 74 50 18 26 21 4 6 6 1 299 15 9 38 27 71

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=9/10; ncol2=15; w=0; offset=1; strand=R; shift=1; score=0.685798; -sssggCAACTCCcss ; cor=; Ncor= a 0 82 67 29 52 30 3 362 347 1 10 18 10 26 57 22 c 0 114 158 190 84 65 337 11 19 374 8 312 350 234 133 156 g 0 115 105 145 216 246 39 8 12 11 24 43 25 69 141 158 t 0 79 60 26 38 49 11 9 12 4 348 17 5 61 59 54

oligos_7nt_test_vs_ctrl_m5_rc_shift1 (oligos_7nt_test_vs_ctrl_m5_rc)
; oligos_7nt_test_vs_ctrl_m4 versus oligos_7nt_test_vs_ctrl_m5_rc; m=10/10; ncol2=17; w=0; offset=1; strand=R; shift=1; score=0.616285; -sssagCAACTCCCsb ; cor=; Ncor= a 0 47 35 13 137 20 2 232 211 1 7 4 7 12 16 10 c 0 78 100 150 54 49 216 16 22 247 11 210 223 205 154 82 g 0 78 72 80 44 168 37 7 16 9 15 38 26 26 66 87 t 0 55 51 15 23 21 3 3 9 1 225 6 2 15 22 79

One-to-n matrix alignment; reference matrix: oligos_6nt_test_vs_ctrl_m1_shift1 ; 11 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_test_vs_ctrl_m1_shift1 (oligos_6nt_test_vs_ctrl_m1)
; oligos_6nt_test_vs_ctrl_m1; m=0 (reference); ncol1=15; shift=1; ncol=16; -ssscCCAACTCCCss ; Alignment reference a 0 69 52 26 35 18 2 340 304 2 12 12 8 20 34 19 c 0 108 150 131 231 284 292 12 23 356 7 312 318 265 156 137 g 0 102 100 185 55 30 72 10 33 9 20 36 37 42 129 145 t 0 90 67 27 48 37 3 7 9 2 330 9 6 42 50 68

oligos_6nt_test_vs_ctrl_m1_shift1 (oligos_6nt_test_vs_ctrl_m1)
; oligos_6nt_test_vs_ctrl_m1 versus oligos_6nt_test_vs_ctrl_m1; m=1/10; ncol2=15; w=0; offset=0; strand=D; shift=1; score= 1; -ssscCCAACTCCCss ; cor=; Ncor= a 0 69 52 26 35 18 2 340 304 2 12 12 8 20 34 19 c 0 108 150 131 231 284 292 12 23 356 7 312 318 265 156 137 g 0 102 100 185 55 30 72 10 33 9 20 36 37 42 129 145 t 0 90 67 27 48 37 3 7 9 2 330 9 6 42 50 68

oligos_6nt_test_vs_ctrl_m4_shift1 (oligos_6nt_test_vs_ctrl_m4)
; oligos_6nt_test_vs_ctrl_m1 versus oligos_6nt_test_vs_ctrl_m4; m=2/10; ncol2=15; w=0; offset=0; strand=D; shift=1; score=0.908064; -ssscCGAACTCCCss ; cor=; Ncor= a 0 91 53 30 44 14 4 419 428 6 16 11 12 41 33 26 c 0 127 198 156 289 370 63 16 12 421 10 386 376 314 196 166 g 0 139 152 244 65 53 390 9 8 32 24 53 64 49 186 210 t 0 103 57 30 62 23 3 16 12 1 410 10 8 56 45 58

oligos_6nt_test_vs_ctrl_m5_shift1 (oligos_6nt_test_vs_ctrl_m5)
; oligos_6nt_test_vs_ctrl_m1 versus oligos_6nt_test_vs_ctrl_m5; m=3/10; ncol2=15; w=0; offset=0; strand=D; shift=1; score=0.898794; -ssscCCAACTCSscs ; cor=; Ncor= a 0 84 43 26 40 13 3 374 336 0 4 5 8 48 40 26 c 0 113 163 119 240 336 316 8 30 388 10 341 103 148 223 140 g 0 108 122 234 81 31 82 12 29 11 6 49 285 121 97 172 t 0 97 74 23 41 22 1 8 7 3 382 7 6 85 42 64

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=4/10; ncol2=15; w=0; offset=0; strand=R; shift=1; score=0.884576; -sssggCAACTCCcss ; cor=; Ncor= a 0 82 67 29 52 30 3 362 347 1 10 18 10 26 57 22 c 0 114 158 190 84 65 337 11 19 374 8 312 350 234 133 156 g 0 115 105 145 216 246 39 8 12 11 24 43 25 69 141 158 t 0 79 60 26 38 49 11 9 12 4 348 17 5 61 59 54

oligos_7nt_test_vs_ctrl_m4_shift0 (oligos_7nt_test_vs_ctrl_m4)
; oligos_6nt_test_vs_ctrl_m1 versus oligos_7nt_test_vs_ctrl_m4; m=5/10; ncol2=16; w=-1; offset=-1; strand=D; shift=0; score=0.838858; sssgCCCAACTCGcss ; cor=; Ncor= a 36 67 16 15 22 13 3 285 246 2 6 3 8 22 24 16 c 129 88 109 77 228 270 231 6 32 289 9 259 58 203 168 106 g 115 83 132 199 37 14 72 10 25 13 9 37 238 46 85 127 t 29 71 52 18 22 12 3 8 6 5 285 10 5 38 32 60

oligos_7nt_test_vs_ctrl_m1_shift0 (oligos_7nt_test_vs_ctrl_m1)
; oligos_6nt_test_vs_ctrl_m1 versus oligos_7nt_test_vs_ctrl_m1; m=6/10; ncol2=18; w=-1; offset=-1; strand=D; shift=0; score=0.821026; sysscCCAACTCCCsb ; cor=; Ncor= a 32 47 28 14 19 17 4 217 206 1 9 5 8 9 7 8 c 90 71 79 74 157 186 180 9 10 232 4 205 195 187 154 72 g 90 56 89 131 37 16 51 9 19 5 14 21 31 18 60 73 t 26 64 42 19 25 19 3 3 3 0 211 7 4 24 17 85

oligos_7nt_test_vs_ctrl_m3_shift1 (oligos_7nt_test_vs_ctrl_m3)
; oligos_6nt_test_vs_ctrl_m1 versus oligos_7nt_test_vs_ctrl_m3; m=7/10; ncol2=17; w=0; offset=0; strand=D; shift=1; score=0.793253; -ssgcCGAACTCCCCb ; cor=; Ncor= a 0 69 37 29 27 10 6 324 321 5 13 8 15 15 15 20 c 0 101 159 86 238 298 54 12 21 332 12 295 268 274 251 99 g 0 103 121 224 51 30 295 10 12 22 18 49 64 35 77 133 t 0 86 42 20 43 21 4 13 5 0 316 7 12 35 16 107

oligos_6nt_test_vs_ctrl_m2_shift1 (oligos_6nt_test_vs_ctrl_m2)
; oligos_6nt_test_vs_ctrl_m1 versus oligos_6nt_test_vs_ctrl_m2; m=8/10; ncol2=17; w=0; offset=0; strand=D; shift=1; score=0.792564; -gsscCCAACTGCcss ; cor=; Ncor= a 0 66 44 25 25 7 6 308 291 1 9 14 13 17 34 24 c 0 79 130 112 216 265 261 6 14 310 8 52 245 214 132 122 g 0 110 105 174 62 36 58 9 18 17 13 248 62 60 136 112 t 0 74 50 18 26 21 4 6 6 1 299 15 9 38 27 71

oligos_7nt_test_vs_ctrl_m5_rc_shift1 (oligos_7nt_test_vs_ctrl_m5_rc)
; oligos_6nt_test_vs_ctrl_m1 versus oligos_7nt_test_vs_ctrl_m5_rc; m=9/10; ncol2=17; w=0; offset=0; strand=R; shift=1; score=0.772425; -sssagCAACTCCCsb ; cor=; Ncor= a 0 47 35 13 137 20 2 232 211 1 7 4 7 12 16 10 c 0 78 100 150 54 49 216 16 22 247 11 210 223 205 154 82 g 0 78 72 80 44 168 37 7 16 9 15 38 26 26 66 87 t 0 55 51 15 23 21 3 3 9 1 225 6 2 15 22 79

oligos_7nt_test_vs_ctrl_m2_shift0 (oligos_7nt_test_vs_ctrl_m2)
; oligos_6nt_test_vs_ctrl_m1 versus oligos_7nt_test_vs_ctrl_m2; m=10/10; ncol2=17; w=-1; offset=-1; strand=D; shift=0; score=0.771807; sbssCCCAACTGCCgs ; cor=; Ncor= a 21 29 21 13 13 7 4 194 177 0 11 5 4 5 13 14 c 89 65 67 61 160 166 159 5 13 201 8 32 188 176 43 91 g 80 65 95 135 29 28 47 11 21 11 15 171 22 22 145 69 t 24 55 31 5 12 13 4 4 3 2 180 6 0 11 13 40

One-to-n matrix alignment; reference matrix: oligos_6nt_test_vs_ctrl_m5_shift1 ; 11 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_test_vs_ctrl_m5_shift1 (oligos_6nt_test_vs_ctrl_m5)
; oligos_6nt_test_vs_ctrl_m5; m=0 (reference); ncol1=15; shift=1; ncol=16; -ssscCCAACTCSscs ; Alignment reference a 0 84 43 26 40 13 3 374 336 0 4 5 8 48 40 26 c 0 113 163 119 240 336 316 8 30 388 10 341 103 148 223 140 g 0 108 122 234 81 31 82 12 29 11 6 49 285 121 97 172 t 0 97 74 23 41 22 1 8 7 3 382 7 6 85 42 64

oligos_6nt_test_vs_ctrl_m5_shift1 (oligos_6nt_test_vs_ctrl_m5)
; oligos_6nt_test_vs_ctrl_m5 versus oligos_6nt_test_vs_ctrl_m5; m=1/10; ncol2=15; w=0; offset=0; strand=D; shift=1; score= 1; -ssscCCAACTCSscs ; cor=; Ncor= a 0 84 43 26 40 13 3 374 336 0 4 5 8 48 40 26 c 0 113 163 119 240 336 316 8 30 388 10 341 103 148 223 140 g 0 108 122 234 81 31 82 12 29 11 6 49 285 121 97 172 t 0 97 74 23 41 22 1 8 7 3 382 7 6 85 42 64

oligos_7nt_test_vs_ctrl_m4_shift0 (oligos_7nt_test_vs_ctrl_m4)
; oligos_6nt_test_vs_ctrl_m5 versus oligos_7nt_test_vs_ctrl_m4; m=2/10; ncol2=16; w=-1; offset=-1; strand=D; shift=0; score=0.919236; sssgCCCAACTCGcss ; cor=; Ncor= a 36 67 16 15 22 13 3 285 246 2 6 3 8 22 24 16 c 129 88 109 77 228 270 231 6 32 289 9 259 58 203 168 106 g 115 83 132 199 37 14 72 10 25 13 9 37 238 46 85 127 t 29 71 52 18 22 12 3 8 6 5 285 10 5 38 32 60

oligos_6nt_test_vs_ctrl_m1_shift1 (oligos_6nt_test_vs_ctrl_m1)
; oligos_6nt_test_vs_ctrl_m5 versus oligos_6nt_test_vs_ctrl_m1; m=3/10; ncol2=15; w=0; offset=0; strand=D; shift=1; score=0.898794; -ssscCCAACTCCCss ; cor=; Ncor= a 0 69 52 26 35 18 2 340 304 2 12 12 8 20 34 19 c 0 108 150 131 231 284 292 12 23 356 7 312 318 265 156 137 g 0 102 100 185 55 30 72 10 33 9 20 36 37 42 129 145 t 0 90 67 27 48 37 3 7 9 2 330 9 6 42 50 68

oligos_6nt_test_vs_ctrl_m4_shift1 (oligos_6nt_test_vs_ctrl_m4)
; oligos_6nt_test_vs_ctrl_m5 versus oligos_6nt_test_vs_ctrl_m4; m=4/10; ncol2=15; w=0; offset=0; strand=D; shift=1; score=0.825501; -ssscCGAACTCCCss ; cor=; Ncor= a 0 91 53 30 44 14 4 419 428 6 16 11 12 41 33 26 c 0 127 198 156 289 370 63 16 12 421 10 386 376 314 196 166 g 0 139 152 244 65 53 390 9 8 32 24 53 64 49 186 210 t 0 103 57 30 62 23 3 16 12 1 410 10 8 56 45 58

oligos_6nt_test_vs_ctrl_m3_rc_shift1 (oligos_6nt_test_vs_ctrl_m3_rc)
; oligos_6nt_test_vs_ctrl_m5 versus oligos_6nt_test_vs_ctrl_m3_rc; m=5/10; ncol2=15; w=0; offset=0; strand=R; shift=1; score=0.774417; -sssggCAACTCCcss ; cor=; Ncor= a 0 82 67 29 52 30 3 362 347 1 10 18 10 26 57 22 c 0 114 158 190 84 65 337 11 19 374 8 312 350 234 133 156 g 0 115 105 145 216 246 39 8 12 11 24 43 25 69 141 158 t 0 79 60 26 38 49 11 9 12 4 348 17 5 61 59 54

oligos_7nt_test_vs_ctrl_m1_shift0 (oligos_7nt_test_vs_ctrl_m1)
; oligos_6nt_test_vs_ctrl_m5 versus oligos_7nt_test_vs_ctrl_m1; m=6/10; ncol2=18; w=-1; offset=-1; strand=D; shift=0; score=0.749124; sysscCCAACTCCCsb ; cor=; Ncor= a 32 47 28 14 19 17 4 217 206 1 9 5 8 9 7 8 c 90 71 79 74 157 186 180 9 10 232 4 205 195 187 154 72 g 90 56 89 131 37 16 51 9 19 5 14 21 31 18 60 73 t 26 64 42 19 25 19 3 3 3 0 211 7 4 24 17 85

oligos_7nt_test_vs_ctrl_m3_shift1 (oligos_7nt_test_vs_ctrl_m3)
; oligos_6nt_test_vs_ctrl_m5 versus oligos_7nt_test_vs_ctrl_m3; m=7/10; ncol2=17; w=0; offset=0; strand=D; shift=1; score=0.738809; -ssgcCGAACTCCCCb ; cor=; Ncor= a 0 69 37 29 27 10 6 324 321 5 13 8 15 15 15 20 c 0 101 159 86 238 298 54 12 21 332 12 295 268 274 251 99 g 0 103 121 224 51 30 295 10 12 22 18 49 64 35 77 133 t 0 86 42 20 43 21 4 13 5 0 316 7 12 35 16 107

oligos_6nt_test_vs_ctrl_m2_shift1 (oligos_6nt_test_vs_ctrl_m2)
; oligos_6nt_test_vs_ctrl_m5 versus oligos_6nt_test_vs_ctrl_m2; m=8/10; ncol2=17; w=0; offset=0; strand=D; shift=1; score=0.734247; -gsscCCAACTGCcss ; cor=; Ncor= a 0 66 44 25 25 7 6 308 291 1 9 14 13 17 34 24 c 0 79 130 112 216 265 261 6 14 310 8 52 245 214 132 122 g 0 110 105 174 62 36 58 9 18 17 13 248 62 60 136 112 t 0 74 50 18 26 21 4 6 6 1 299 15 9 38 27 71

oligos_7nt_test_vs_ctrl_m5_rc_shift1 (oligos_7nt_test_vs_ctrl_m5_rc)
; oligos_6nt_test_vs_ctrl_m5 versus oligos_7nt_test_vs_ctrl_m5_rc; m=9/10; ncol2=17; w=0; offset=0; strand=R; shift=1; score=0.670473; -sssagCAACTCCCsb ; cor=; Ncor= a 0 47 35 13 137 20 2 232 211 1 7 4 7 12 16 10 c 0 78 100 150 54 49 216 16 22 247 11 210 223 205 154 82 g 0 78 72 80 44 168 37 7 16 9 15 38 26 26 66 87 t 0 55 51 15 23 21 3 3 9 1 225 6 2 15 22 79

oligos_7nt_test_vs_ctrl_m2_shift0 (oligos_7nt_test_vs_ctrl_m2)
; oligos_6nt_test_vs_ctrl_m5 versus oligos_7nt_test_vs_ctrl_m2; m=10/10; ncol2=17; w=-1; offset=-1; strand=D; shift=0; score=0.669062; sbssCCCAACTGCCgs ; cor=; Ncor= a 21 29 21 13 13 7 4 194 177 0 11 5 4 5 13 14 c 89 65 67 61 160 166 159 5 13 201 8 32 188 176 43 91 g 80 65 95 135 29 28 47 11 21 11 15 171 22 22 145 69 t 24 55 31 5 12 13 4 4 3 2 180 6 0 11 13 40

One-to-n matrix alignment; reference matrix: oligos_7nt_test_vs_ctrl_m1_shift0 ; 11 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_test_vs_ctrl_m1_shift0 (oligos_7nt_test_vs_ctrl_m1)
; oligos_7nt_test_vs_ctrl_m1; m=0 (reference); ncol1=18; shift=0; ncol=18; sysscCCAACTCCCsbgs ; Alignment reference a 32 47 28 14 19 17 4 217 206 1 9 5 8 9 7 8 52 37 c 90 71 79 74 157 186 180 9 10 232 4 205 195 187 154 72 53 105 g 90 56 89 131 37 16 51 9 19 5 14 21 31 18 60 73 79 60 t 26 64 42 19 25 19 3 3 3 0 211 7 4 24 17 85 54 36

oligos_7nt_test_vs_ctrl_m1_shift0 (oligos_7nt_test_vs_ctrl_m1)
; oligos_7nt_test_vs_ctrl_m1 versus oligos_7nt_test_vs_ctrl_m1; m=1/10; ncol2=18; w=0; offset=0; strand=D; shift=0; score= 1; sysscCCAACTCCCsbgs ; cor=; Ncor= a 32 47 28 14 19 17 4 217 206 1 9 5 8 9 7 8 52 37 c 90 71 79 74 157 186 180 9 10 232 4 205 195 187 154 72 53 105 g 90 56 89 131 37 16 51 9 19 5 14 21 31 18 60 73 79 60 t 26 64 42 19 25 19 3 3 3 0 211 7 4 24 17 85 54 36

oligos_7nt_test_vs_ctrl_m3_shift1 (oligos_7nt_test_vs_ctrl_m3)
; oligos_7nt_test_vs_ctrl_m1 versus oligos_7nt_test_vs_ctrl_m3; m=2/10; ncol2=17; w=0; offset=1; strand=D; shift=1; score=0.87038; -ssgcCGAACTCCCCbss ; cor=; Ncor= a 0 69 37 29 27 10 6 324 321 5 13 8 15 15 15 20 80 37 c 0 101 159 86 238 298 54 12 21 332 12 295 268 274 251 99 91 190 g 0 103 121 224 51 30 295 10 12 22 18 49 64 35 77 133 111 94 t 0 86 42 20 43 21 4 13 5 0 316 7 12 35 16 107 77 38

oligos_6nt_test_vs_ctrl_m2_shift1 (oligos_6nt_test_vs_ctrl_m2)
; oligos_7nt_test_vs_ctrl_m1 versus oligos_6nt_test_vs_ctrl_m2; m=3/10; ncol2=17; w=0; offset=1; strand=D; shift=1; score=0.837195; -gsscCCAACTGCcssss ; cor=; Ncor= a 0 66 44 25 25 7 6 308 291 1 9 14 13 17 34 24 76 53 c 0 79 130 112 216 265 261 6 14 310 8 52 245 214 132 122 86 140 g 0 110 105 174 62 36 58 9 18 17 13 248 62 60 136 112 96 93 t 0 74 50 18 26 21 4 6 6 1 299 15 9 38 27 71 71 43

oligos_7nt_test_vs_ctrl_m5_rc_shift1 (oligos_7nt_test_vs_ctrl_m5_rc)
; oligos_7nt_test_vs_ctrl_m1 versus oligos_7nt_test_vs_ctrl_m5_rc; m=4/10; ncol2=17; w=0; offset=1; strand=R; shift=1; score=0.824086; -sssagCAACTCCCsbsc ; cor=; Ncor= a 0 47 35 13 137 20 2 232 211 1 7 4 7 12 16 10 55 38 c 0 78 100 150 54 49 216 16 22 247 11 210 223 205 154 82 66 122 g 0 78 72 80 44 168 37 7 16 9 15 38 26 26 66 87 83 64 t 0 55 51 15 23 21 3 3 9 1 225 6 2 15 22 79 54 34

oligos_6nt_test_vs_ctrl_m1_shift1 (oligos_6nt_test_vs_ctrl_m1)
; oligos_7nt_test_vs_ctrl_m1 versus oligos_6nt_test_vs_ctrl_m1; m=5/10; ncol2=15; w=0; offset=1; strand=D; shift=1; score=0.821026; -ssscCCAACTCCCss-- ; cor=; Ncor= a 0 69 52 26 35 18 2 340 304 2 12 12 8 20 34 19 0 0 c 0 108 150 131 231 284 292 12 23 356 7 312 318 265 156 137 0 0 g 0 102 100 185 55 30 72 10 33 9 20 36 37 42 129 145 0 0 t 0 90 67 27 48 37 3 7 9 2 330 9 6 42 50 68 0 0

oligos_7nt_test_vs_ctrl_m2_shift0 (oligos_7nt_test_vs_ctrl_m2)
; oligos_7nt_test_vs_ctrl_m1 versus oligos_7nt_test_vs_ctrl_m2; m=6/10; ncol2=17; w=0; offset=0; strand=D; shift=0; score=0.809066; sbssCCCAACTGCCgsv- ; cor=; Ncor= a 21 29 21 13 13 7 4 194 177 0 11 5 4 5 13 14 56 0 c 89 65 67 61 160 166 159 5 13 201 8 32 188 176 43 91 57 0 g 80 65 95 135 29 28 47 11 21 11 15 171 22 22 145 69 56 0 t 24 55 31 5 12 13 4 4 3 2 180 6 0 11 13 40 45 0

oligos_7nt_test_vs_ctrl_m4_shift0 (oligos_7nt_test_vs_ctrl_m4)
; oligos_7nt_test_vs_ctrl_m1 versus oligos_7nt_test_vs_ctrl_m4; m=7/10; ncol2=16; w=0; offset=0; strand=D; shift=0; score=0.807345; sssgCCCAACTCGcss-- ; cor=; Ncor= a 36 67 16 15 22 13 3 285 246 2 6 3 8 22 24 16 0 0 c 129 88 109 77 228 270 231 6 32 289 9 259 58 203 168 106 0 0 g 115 83 132 199 37 14 72 10 25 13 9 37 238 46 85 127 0 0 t 29 71 52 18 22 12 3 8 6 5 285 10 5 38 32 60 0 0

oligos_6nt_test_vs_ctrl_m4_shift1 (oligos_6nt_test_vs_ctrl_m4)
; oligos_7nt_test_vs_ctrl_m1 versus oligos_6nt_test_vs_ctrl_m4; m=8/10; ncol2=15; w=0; offset=1; strand=D; shift=1; score=0.751455; -ssscCGAACTCCCss-- ; cor=; Ncor= a 0 91 53 30 44 14 4 419 428 6 16 11 12 41 33 26 0 0 c 0 127 198 156 289 370 63 16 12 421 10 386 376 314 196 166 0 0 g 0 139 152 244 65 53 390 9 8 32 24 53 64 49 186 210 0 0 t 0 103 57 30 62 23 3 16 12 1 410 10 8 56 45 58 0 0

oligos_6nt_test_vs_ctrl_m5_shift1 (oligos_6nt_test_vs_ctrl_m5)
; oligos_7nt_test_vs_ctrl_m1 versus oligos_6nt_test_vs_ctrl_m5; m=9/10; ncol2=15; w=0; offset=1; strand=D; shift=1; score=0.749124; -ssscCCAACTCSscs-- ; cor=; Ncor= a 0 84 43 26 40 13 3 374 336 0 4 5 8 48 40 26 0 0 c 0 113 163 119 240 336 316 8 30 388 10 341 103 148 223 140 0 0 g 0 108 122 234 81 31 82 12 29 11 6 49 285 121 97 172 0 0 t 0 97 74 23 41 22 1 8 7 3 382 7 6 85 42 64 0 0

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=10/10; ncol2=15; w=0; offset=1; strand=R; shift=1; score=0.712312; -sssggCAACTCCcss-- ; cor=; Ncor= a 0 82 67 29 52 30 3 362 347 1 10 18 10 26 57 22 0 0 c 0 114 158 190 84 65 337 11 19 374 8 312 350 234 133 156 0 0 g 0 115 105 145 216 246 39 8 12 11 24 43 25 69 141 158 0 0 t 0 79 60 26 38 49 11 9 12 4 348 17 5 61 59 54 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_test_vs_ctrl_m3_shift1 (oligos_7nt_test_vs_ctrl_m3)				; oligos_7nt_test_vs_ctrl_m3; m=0 (reference); ncol1=17; shift=1; ncol=18; -ssgcCGAACTCCCCbss ; Alignment reference a 0 69 37 29 27 10 6 324 321 5 13 8 15 15 15 20 80 37 c 0 101 159 86 238 298 54 12 21 332 12 295 268 274 251 99 91 190 g 0 103 121 224 51 30 295 10 12 22 18 49 64 35 77 133 111 94 t 0 86 42 20 43 21 4 13 5 0 316 7 12 35 16 107 77 38
oligos_7nt_test_vs_ctrl_m3_shift1 (oligos_7nt_test_vs_ctrl_m3)				; oligos_7nt_test_vs_ctrl_m3 versus oligos_7nt_test_vs_ctrl_m3; m=1/10; ncol2=17; w=0; offset=0; strand=D; shift=1; score= 1; -ssgcCGAACTCCCCbss ; cor=; Ncor= a 0 69 37 29 27 10 6 324 321 5 13 8 15 15 15 20 80 37 c 0 101 159 86 238 298 54 12 21 332 12 295 268 274 251 99 91 190 g 0 103 121 224 51 30 295 10 12 22 18 49 64 35 77 133 111 94 t 0 86 42 20 43 21 4 13 5 0 316 7 12 35 16 107 77 38
oligos_7nt_test_vs_ctrl_m1_shift0 (oligos_7nt_test_vs_ctrl_m1)				; oligos_7nt_test_vs_ctrl_m3 versus oligos_7nt_test_vs_ctrl_m1; m=2/10; ncol2=18; w=-1; offset=-1; strand=D; shift=0; score=0.87038; sysscCCAACTCCCsbgs ; cor=; Ncor= a 32 47 28 14 19 17 4 217 206 1 9 5 8 9 7 8 52 37 c 90 71 79 74 157 186 180 9 10 232 4 205 195 187 154 72 53 105 g 90 56 89 131 37 16 51 9 19 5 14 21 31 18 60 73 79 60 t 26 64 42 19 25 19 3 3 3 0 211 7 4 24 17 85 54 36
oligos_6nt_test_vs_ctrl_m4_shift1 (oligos_6nt_test_vs_ctrl_m4)				; oligos_7nt_test_vs_ctrl_m3 versus oligos_6nt_test_vs_ctrl_m4; m=3/10; ncol2=15; w=0; offset=0; strand=D; shift=1; score=0.864826; -ssscCGAACTCCCss-- ; cor=; Ncor= a 0 91 53 30 44 14 4 419 428 6 16 11 12 41 33 26 0 0 c 0 127 198 156 289 370 63 16 12 421 10 386 376 314 196 166 0 0 g 0 139 152 244 65 53 390 9 8 32 24 53 64 49 186 210 0 0 t 0 103 57 30 62 23 3 16 12 1 410 10 8 56 45 58 0 0
oligos_6nt_test_vs_ctrl_m2_shift1 (oligos_6nt_test_vs_ctrl_m2)				; oligos_7nt_test_vs_ctrl_m3 versus oligos_6nt_test_vs_ctrl_m2; m=4/10; ncol2=17; w=0; offset=0; strand=D; shift=1; score=0.814746; -gsscCCAACTGCcssss ; cor=; Ncor= a 0 66 44 25 25 7 6 308 291 1 9 14 13 17 34 24 76 53 c 0 79 130 112 216 265 261 6 14 310 8 52 245 214 132 122 86 140 g 0 110 105 174 62 36 58 9 18 17 13 248 62 60 136 112 96 93 t 0 74 50 18 26 21 4 6 6 1 299 15 9 38 27 71 71 43
oligos_6nt_test_vs_ctrl_m1_shift1 (oligos_6nt_test_vs_ctrl_m1)				; oligos_7nt_test_vs_ctrl_m3 versus oligos_6nt_test_vs_ctrl_m1; m=5/10; ncol2=15; w=0; offset=0; strand=D; shift=1; score=0.793253; -ssscCCAACTCCCss-- ; cor=; Ncor= a 0 69 52 26 35 18 2 340 304 2 12 12 8 20 34 19 0 0 c 0 108 150 131 231 284 292 12 23 356 7 312 318 265 156 137 0 0 g 0 102 100 185 55 30 72 10 33 9 20 36 37 42 129 145 0 0 t 0 90 67 27 48 37 3 7 9 2 330 9 6 42 50 68 0 0
oligos_7nt_test_vs_ctrl_m5_rc_shift1 (oligos_7nt_test_vs_ctrl_m5_rc)				; oligos_7nt_test_vs_ctrl_m3 versus oligos_7nt_test_vs_ctrl_m5_rc; m=6/10; ncol2=17; w=0; offset=0; strand=R; shift=1; score=0.767624; -sssagCAACTCCCsbsc ; cor=; Ncor= a 0 47 35 13 137 20 2 232 211 1 7 4 7 12 16 10 55 38 c 0 78 100 150 54 49 216 16 22 247 11 210 223 205 154 82 66 122 g 0 78 72 80 44 168 37 7 16 9 15 38 26 26 66 87 83 64 t 0 55 51 15 23 21 3 3 9 1 225 6 2 15 22 79 54 34
oligos_6nt_test_vs_ctrl_m5_shift1 (oligos_6nt_test_vs_ctrl_m5)				; oligos_7nt_test_vs_ctrl_m3 versus oligos_6nt_test_vs_ctrl_m5; m=7/10; ncol2=15; w=0; offset=0; strand=D; shift=1; score=0.738809; -ssscCCAACTCSscs-- ; cor=; Ncor= a 0 84 43 26 40 13 3 374 336 0 4 5 8 48 40 26 0 0 c 0 113 163 119 240 336 316 8 30 388 10 341 103 148 223 140 0 0 g 0 108 122 234 81 31 82 12 29 11 6 49 285 121 97 172 0 0 t 0 97 74 23 41 22 1 8 7 3 382 7 6 85 42 64 0 0
oligos_7nt_test_vs_ctrl_m4_shift0 (oligos_7nt_test_vs_ctrl_m4)				; oligos_7nt_test_vs_ctrl_m3 versus oligos_7nt_test_vs_ctrl_m4; m=8/10; ncol2=16; w=-1; offset=-1; strand=D; shift=0; score=0.712074; sssgCCCAACTCGcss-- ; cor=; Ncor= a 36 67 16 15 22 13 3 285 246 2 6 3 8 22 24 16 0 0 c 129 88 109 77 228 270 231 6 32 289 9 259 58 203 168 106 0 0 g 115 83 132 199 37 14 72 10 25 13 9 37 238 46 85 127 0 0 t 29 71 52 18 22 12 3 8 6 5 285 10 5 38 32 60 0 0
oligos_7nt_test_vs_ctrl_m2_shift0 (oligos_7nt_test_vs_ctrl_m2)				; oligos_7nt_test_vs_ctrl_m3 versus oligos_7nt_test_vs_ctrl_m2; m=9/10; ncol2=17; w=-1; offset=-1; strand=D; shift=0; score=0.700433; sbssCCCAACTGCCgsv- ; cor=; Ncor= a 21 29 21 13 13 7 4 194 177 0 11 5 4 5 13 14 56 0 c 89 65 67 61 160 166 159 5 13 201 8 32 188 176 43 91 57 0 g 80 65 95 135 29 28 47 11 21 11 15 171 22 22 145 69 56 0 t 24 55 31 5 12 13 4 4 3 2 180 6 0 11 13 40 45 0
oligos_6nt_test_vs_ctrl_m3_rc_shift1 (oligos_6nt_test_vs_ctrl_m3_rc)				; oligos_7nt_test_vs_ctrl_m3 versus oligos_6nt_test_vs_ctrl_m3_rc; m=10/10; ncol2=15; w=0; offset=0; strand=R; shift=1; score=0.651498; -sssggCAACTCCcss-- ; cor=; Ncor= a 0 82 67 29 52 30 3 362 347 1 10 18 10 26 57 22 0 0 c 0 114 158 190 84 65 337 11 19 374 8 312 350 234 133 156 0 0 g 0 115 105 145 216 246 39 8 12 11 24 43 25 69 141 158 0 0 t 0 79 60 26 38 49 11 9 12 4 348 17 5 61 59 54 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_6nt_test_vs_ctrl_m3_shift2 (oligos_6nt_test_vs_ctrl_m3)				; oligos_6nt_test_vs_ctrl_m3; m=0 (reference); ncol1=15; shift=2; ncol=17; --ssgGGAGTTGccsss ; Alignment reference a 0 0 54 59 61 5 17 348 4 12 9 11 49 38 26 60 79 c 0 0 158 141 69 25 43 24 11 12 8 39 246 216 145 105 115 g 0 0 156 133 234 350 312 8 374 19 11 337 65 84 190 158 114 t 0 0 22 57 26 10 18 10 1 347 362 3 30 52 29 67 82
oligos_6nt_test_vs_ctrl_m3_shift2 (oligos_6nt_test_vs_ctrl_m3)				; oligos_6nt_test_vs_ctrl_m3 versus oligos_6nt_test_vs_ctrl_m3; m=1/10; ncol2=15; w=0; offset=0; strand=D; shift=2; score= 1; --ssgGGAGTTGccsss ; cor=; Ncor= a 0 0 54 59 61 5 17 348 4 12 9 11 49 38 26 60 79 c 0 0 158 141 69 25 43 24 11 12 8 39 246 216 145 105 115 g 0 0 156 133 234 350 312 8 374 19 11 337 65 84 190 158 114 t 0 0 22 57 26 10 18 10 1 347 362 3 30 52 29 67 82
oligos_6nt_test_vs_ctrl_m1_rc_shift2 (oligos_6nt_test_vs_ctrl_m1_rc)				; oligos_6nt_test_vs_ctrl_m3 versus oligos_6nt_test_vs_ctrl_m1_rc; m=2/10; ncol2=15; w=0; offset=0; strand=R; shift=2; score=0.884576; --ssGGGAGTTGGgsss ; cor=; Ncor= a 0 0 68 50 42 6 9 330 2 9 7 3 37 48 27 67 90 c 0 0 145 129 42 37 36 20 9 33 10 72 30 55 185 100 102 g 0 0 137 156 265 318 312 7 356 23 12 292 284 231 131 150 108 t 0 0 19 34 20 8 12 12 2 304 340 2 18 35 26 52 69
oligos_7nt_test_vs_ctrl_m5_shift0 (oligos_7nt_test_vs_ctrl_m5)				; oligos_6nt_test_vs_ctrl_m3 versus oligos_7nt_test_vs_ctrl_m5; m=3/10; ncol2=17; w=-2; offset=-2; strand=D; shift=0; score=0.833413; gsvsGGGAGTTGctsss ; cor=; Ncor= a 34 54 79 22 15 2 6 225 1 9 3 3 21 23 15 51 55 c 64 83 87 66 26 26 38 15 9 16 7 37 168 44 80 72 78 g 122 66 82 154 205 223 210 11 247 22 16 216 49 54 150 100 78 t 38 55 10 16 12 7 4 7 1 211 232 2 20 137 13 35 47
oligos_6nt_test_vs_ctrl_m5_rc_shift2 (oligos_6nt_test_vs_ctrl_m5_rc)				; oligos_6nt_test_vs_ctrl_m3 versus oligos_6nt_test_vs_ctrl_m5_rc; m=4/10; ncol2=15; w=0; offset=0; strand=R; shift=2; score=0.774417; --sgsSGAGTTGGgsss ; cor=; Ncor= a 0 0 64 42 85 6 7 382 3 7 8 1 22 41 23 74 97 c 0 0 172 97 121 285 49 6 11 29 12 82 31 81 234 122 108 g 0 0 140 223 148 103 341 10 388 30 8 316 336 240 119 163 113 t 0 0 26 40 48 8 5 4 0 336 374 3 13 40 26 43 84
oligos_6nt_test_vs_ctrl_m4_rc_shift2 (oligos_6nt_test_vs_ctrl_m4_rc)				; oligos_6nt_test_vs_ctrl_m3 versus oligos_6nt_test_vs_ctrl_m4_rc; m=5/10; ncol2=15; w=0; offset=0; strand=R; shift=2; score=0.77154; --ssGGGAGTTCGgsss ; cor=; Ncor= a 0 0 58 45 56 8 10 410 1 12 16 3 23 62 30 57 103 c 0 0 210 186 49 64 53 24 32 8 9 390 53 65 244 152 139 g 0 0 166 196 314 376 386 10 421 12 16 63 370 289 156 198 127 t 0 0 26 33 41 12 11 16 6 428 419 4 14 44 30 53 91
oligos_7nt_test_vs_ctrl_m1_rc_shift0 (oligos_7nt_test_vs_ctrl_m1_rc)				; oligos_6nt_test_vs_ctrl_m3 versus oligos_7nt_test_vs_ctrl_m1_rc; m=6/10; ncol2=18; w=-2; offset=-2; strand=R; shift=0; score=0.712312; scvsGGGAGTTGGgssr ; cor=; Ncor= a 36 54 85 17 24 4 7 211 0 3 3 3 19 25 19 42 64 c 60 79 73 60 18 31 21 14 5 19 9 51 16 37 131 89 56 g 105 53 72 154 187 195 205 4 232 10 9 180 186 157 74 79 71 t 37 52 8 7 9 8 5 9 1 206 217 4 17 19 14 28 47
oligos_6nt_test_vs_ctrl_m2_rc_shift0 (oligos_6nt_test_vs_ctrl_m2_rc)				; oligos_6nt_test_vs_ctrl_m3 versus oligos_6nt_test_vs_ctrl_m2_rc; m=7/10; ncol2=17; w=-2; offset=-2; strand=R; shift=0; score=0.69619; ssssgGCAGTTGGgssc ; cor=; Ncor= a 43 71 71 27 38 9 15 299 1 6 6 4 21 26 18 50 74 c 93 96 112 136 60 62 248 13 17 18 9 58 36 62 174 105 110 g 140 86 122 132 214 245 52 8 310 14 6 261 265 216 112 130 79 t 53 76 24 34 17 13 14 9 1 291 308 6 7 25 25 44 66
oligos_7nt_test_vs_ctrl_m4_rc_shift2 (oligos_7nt_test_vs_ctrl_m4_rc)				; oligos_6nt_test_vs_ctrl_m3 versus oligos_7nt_test_vs_ctrl_m4_rc; m=8/10; ncol2=16; w=0; offset=0; strand=R; shift=2; score=0.685798; --ssgCGAGTTGGGcss ; cor=; Ncor= a 0 0 60 32 38 5 10 285 5 6 8 3 12 22 18 52 71 c 0 0 127 85 46 238 37 9 13 25 10 72 14 37 199 132 83 g 0 0 106 168 203 58 259 9 289 32 6 231 270 228 77 109 88 t 0 0 16 24 22 8 3 6 2 246 285 3 13 22 15 16 67
oligos_7nt_test_vs_ctrl_m2_rc_shift1 (oligos_7nt_test_vs_ctrl_m2_rc)				; oligos_6nt_test_vs_ctrl_m3 versus oligos_7nt_test_vs_ctrl_m2_rc; m=9/10; ncol2=17; w=-1; offset=-1; strand=R; shift=1; score=0.66836; -bscGGCAGTTGGGssv ; cor=; Ncor= a 0 45 40 13 11 0 6 180 2 3 4 4 13 12 5 31 55 c 0 56 69 145 22 22 171 15 11 21 11 47 28 29 135 95 65 g 0 57 91 43 176 188 32 8 201 13 5 159 166 160 61 67 65 t 0 56 14 13 5 4 5 11 0 177 194 4 7 13 13 21 29
oligos_7nt_test_vs_ctrl_m3_rc_shift0 (oligos_7nt_test_vs_ctrl_m3_rc)				; oligos_6nt_test_vs_ctrl_m3 versus oligos_7nt_test_vs_ctrl_m3_rc; m=10/10; ncol2=17; w=-2; offset=-2; strand=R; shift=0; score=0.651498; ssvGGGGAGTTCGgcss ; cor=; Ncor= a 38 77 107 16 35 12 7 316 0 5 13 4 21 43 20 42 86 c 94 111 133 77 35 64 49 18 22 12 10 295 30 51 224 121 103 g 190 91 99 251 274 268 295 12 332 21 12 54 298 238 86 159 101 t 37 80 20 15 15 15 8 13 5 321 324 6 10 27 29 37 69

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_6nt_test_vs_ctrl_m4_shift1 (oligos_6nt_test_vs_ctrl_m4)				; oligos_6nt_test_vs_ctrl_m4; m=0 (reference); ncol1=15; shift=1; ncol=16; -ssscCGAACTCCCss ; Alignment reference a 0 91 53 30 44 14 4 419 428 6 16 11 12 41 33 26 c 0 127 198 156 289 370 63 16 12 421 10 386 376 314 196 166 g 0 139 152 244 65 53 390 9 8 32 24 53 64 49 186 210 t 0 103 57 30 62 23 3 16 12 1 410 10 8 56 45 58
oligos_6nt_test_vs_ctrl_m4_shift1 (oligos_6nt_test_vs_ctrl_m4)				; oligos_6nt_test_vs_ctrl_m4 versus oligos_6nt_test_vs_ctrl_m4; m=1/10; ncol2=15; w=0; offset=0; strand=D; shift=1; score= 1; -ssscCGAACTCCCss ; cor=; Ncor= a 0 91 53 30 44 14 4 419 428 6 16 11 12 41 33 26 c 0 127 198 156 289 370 63 16 12 421 10 386 376 314 196 166 g 0 139 152 244 65 53 390 9 8 32 24 53 64 49 186 210 t 0 103 57 30 62 23 3 16 12 1 410 10 8 56 45 58
oligos_6nt_test_vs_ctrl_m1_shift1 (oligos_6nt_test_vs_ctrl_m1)				; oligos_6nt_test_vs_ctrl_m4 versus oligos_6nt_test_vs_ctrl_m1; m=2/10; ncol2=15; w=0; offset=0; strand=D; shift=1; score=0.908064; -ssscCCAACTCCCss ; cor=; Ncor= a 0 69 52 26 35 18 2 340 304 2 12 12 8 20 34 19 c 0 108 150 131 231 284 292 12 23 356 7 312 318 265 156 137 g 0 102 100 185 55 30 72 10 33 9 20 36 37 42 129 145 t 0 90 67 27 48 37 3 7 9 2 330 9 6 42 50 68
oligos_7nt_test_vs_ctrl_m3_shift1 (oligos_7nt_test_vs_ctrl_m3)				; oligos_6nt_test_vs_ctrl_m4 versus oligos_7nt_test_vs_ctrl_m3; m=3/10; ncol2=17; w=0; offset=0; strand=D; shift=1; score=0.864826; -ssgcCGAACTCCCCb ; cor=; Ncor= a 0 69 37 29 27 10 6 324 321 5 13 8 15 15 15 20 c 0 101 159 86 238 298 54 12 21 332 12 295 268 274 251 99 g 0 103 121 224 51 30 295 10 12 22 18 49 64 35 77 133 t 0 86 42 20 43 21 4 13 5 0 316 7 12 35 16 107
oligos_6nt_test_vs_ctrl_m5_shift1 (oligos_6nt_test_vs_ctrl_m5)				; oligos_6nt_test_vs_ctrl_m4 versus oligos_6nt_test_vs_ctrl_m5; m=4/10; ncol2=15; w=0; offset=0; strand=D; shift=1; score=0.825501; -ssscCCAACTCSscs ; cor=; Ncor= a 0 84 43 26 40 13 3 374 336 0 4 5 8 48 40 26 c 0 113 163 119 240 336 316 8 30 388 10 341 103 148 223 140 g 0 108 122 234 81 31 82 12 29 11 6 49 285 121 97 172 t 0 97 74 23 41 22 1 8 7 3 382 7 6 85 42 64
oligos_7nt_test_vs_ctrl_m4_shift0 (oligos_7nt_test_vs_ctrl_m4)				; oligos_6nt_test_vs_ctrl_m4 versus oligos_7nt_test_vs_ctrl_m4; m=5/10; ncol2=16; w=-1; offset=-1; strand=D; shift=0; score=0.780483; sssgCCCAACTCGcss ; cor=; Ncor= a 36 67 16 15 22 13 3 285 246 2 6 3 8 22 24 16 c 129 88 109 77 228 270 231 6 32 289 9 259 58 203 168 106 g 115 83 132 199 37 14 72 10 25 13 9 37 238 46 85 127 t 29 71 52 18 22 12 3 8 6 5 285 10 5 38 32 60
oligos_6nt_test_vs_ctrl_m3_rc_shift1 (oligos_6nt_test_vs_ctrl_m3_rc)				; oligos_6nt_test_vs_ctrl_m4 versus oligos_6nt_test_vs_ctrl_m3_rc; m=6/10; ncol2=15; w=0; offset=0; strand=R; shift=1; score=0.77154; -sssggCAACTCCcss ; cor=; Ncor= a 0 82 67 29 52 30 3 362 347 1 10 18 10 26 57 22 c 0 114 158 190 84 65 337 11 19 374 8 312 350 234 133 156 g 0 115 105 145 216 246 39 8 12 11 24 43 25 69 141 158 t 0 79 60 26 38 49 11 9 12 4 348 17 5 61 59 54
oligos_7nt_test_vs_ctrl_m1_shift0 (oligos_7nt_test_vs_ctrl_m1)				; oligos_6nt_test_vs_ctrl_m4 versus oligos_7nt_test_vs_ctrl_m1; m=7/10; ncol2=18; w=-1; offset=-1; strand=D; shift=0; score=0.751455; sysscCCAACTCCCsb ; cor=; Ncor= a 32 47 28 14 19 17 4 217 206 1 9 5 8 9 7 8 c 90 71 79 74 157 186 180 9 10 232 4 205 195 187 154 72 g 90 56 89 131 37 16 51 9 19 5 14 21 31 18 60 73 t 26 64 42 19 25 19 3 3 3 0 211 7 4 24 17 85
oligos_6nt_test_vs_ctrl_m2_shift1 (oligos_6nt_test_vs_ctrl_m2)				; oligos_6nt_test_vs_ctrl_m4 versus oligos_6nt_test_vs_ctrl_m2; m=8/10; ncol2=17; w=0; offset=0; strand=D; shift=1; score=0.718885; -gsscCCAACTGCcss ; cor=; Ncor= a 0 66 44 25 25 7 6 308 291 1 9 14 13 17 34 24 c 0 79 130 112 216 265 261 6 14 310 8 52 245 214 132 122 g 0 110 105 174 62 36 58 9 18 17 13 248 62 60 136 112 t 0 74 50 18 26 21 4 6 6 1 299 15 9 38 27 71
oligos_7nt_test_vs_ctrl_m2_shift0 (oligos_7nt_test_vs_ctrl_m2)				; oligos_6nt_test_vs_ctrl_m4 versus oligos_7nt_test_vs_ctrl_m2; m=9/10; ncol2=17; w=-1; offset=-1; strand=D; shift=0; score=0.711714; sbssCCCAACTGCCgs ; cor=; Ncor= a 21 29 21 13 13 7 4 194 177 0 11 5 4 5 13 14 c 89 65 67 61 160 166 159 5 13 201 8 32 188 176 43 91 g 80 65 95 135 29 28 47 11 21 11 15 171 22 22 145 69 t 24 55 31 5 12 13 4 4 3 2 180 6 0 11 13 40
oligos_7nt_test_vs_ctrl_m5_rc_shift1 (oligos_7nt_test_vs_ctrl_m5_rc)				; oligos_6nt_test_vs_ctrl_m4 versus oligos_7nt_test_vs_ctrl_m5_rc; m=10/10; ncol2=17; w=0; offset=0; strand=R; shift=1; score=0.677468; -sssagCAACTCCCsb ; cor=; Ncor= a 0 47 35 13 137 20 2 232 211 1 7 4 7 12 16 10 c 0 78 100 150 54 49 216 16 22 247 11 210 223 205 154 82 g 0 78 72 80 44 168 37 7 16 9 15 38 26 26 66 87 t 0 55 51 15 23 21 3 3 9 1 225 6 2 15 22 79

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_test_vs_ctrl_m2_shift0 (oligos_7nt_test_vs_ctrl_m2)				; oligos_7nt_test_vs_ctrl_m2; m=0 (reference); ncol1=17; shift=0; ncol=17; sbssCCCAACTGCCgsv ; Alignment reference a 21 29 21 13 13 7 4 194 177 0 11 5 4 5 13 14 56 c 89 65 67 61 160 166 159 5 13 201 8 32 188 176 43 91 57 g 80 65 95 135 29 28 47 11 21 11 15 171 22 22 145 69 56 t 24 55 31 5 12 13 4 4 3 2 180 6 0 11 13 40 45
oligos_7nt_test_vs_ctrl_m2_shift0 (oligos_7nt_test_vs_ctrl_m2)				; oligos_7nt_test_vs_ctrl_m2 versus oligos_7nt_test_vs_ctrl_m2; m=1/10; ncol2=17; w=0; offset=0; strand=D; shift=0; score= 1; sbssCCCAACTGCCgsv ; cor=; Ncor= a 21 29 21 13 13 7 4 194 177 0 11 5 4 5 13 14 56 c 89 65 67 61 160 166 159 5 13 201 8 32 188 176 43 91 57 g 80 65 95 135 29 28 47 11 21 11 15 171 22 22 145 69 56 t 24 55 31 5 12 13 4 4 3 2 180 6 0 11 13 40 45
oligos_6nt_test_vs_ctrl_m2_shift1 (oligos_6nt_test_vs_ctrl_m2)				; oligos_7nt_test_vs_ctrl_m2 versus oligos_6nt_test_vs_ctrl_m2; m=2/10; ncol2=17; w=0; offset=1; strand=D; shift=1; score=0.866075; -gsscCCAACTGCcsss ; cor=; Ncor= a 0 66 44 25 25 7 6 308 291 1 9 14 13 17 34 24 76 c 0 79 130 112 216 265 261 6 14 310 8 52 245 214 132 122 86 g 0 110 105 174 62 36 58 9 18 17 13 248 62 60 136 112 96 t 0 74 50 18 26 21 4 6 6 1 299 15 9 38 27 71 71
oligos_7nt_test_vs_ctrl_m1_shift0 (oligos_7nt_test_vs_ctrl_m1)				; oligos_7nt_test_vs_ctrl_m2 versus oligos_7nt_test_vs_ctrl_m1; m=3/10; ncol2=18; w=0; offset=0; strand=D; shift=0; score=0.809066; sysscCCAACTCCCsbg ; cor=; Ncor= a 32 47 28 14 19 17 4 217 206 1 9 5 8 9 7 8 52 c 90 71 79 74 157 186 180 9 10 232 4 205 195 187 154 72 53 g 90 56 89 131 37 16 51 9 19 5 14 21 31 18 60 73 79 t 26 64 42 19 25 19 3 3 3 0 211 7 4 24 17 85 54
oligos_6nt_test_vs_ctrl_m1_shift1 (oligos_6nt_test_vs_ctrl_m1)				; oligos_7nt_test_vs_ctrl_m2 versus oligos_6nt_test_vs_ctrl_m1; m=4/10; ncol2=15; w=0; offset=1; strand=D; shift=1; score=0.771807; -ssscCCAACTCCCss- ; cor=; Ncor= a 0 69 52 26 35 18 2 340 304 2 12 12 8 20 34 19 0 c 0 108 150 131 231 284 292 12 23 356 7 312 318 265 156 137 0 g 0 102 100 185 55 30 72 10 33 9 20 36 37 42 129 145 0 t 0 90 67 27 48 37 3 7 9 2 330 9 6 42 50 68 0
oligos_7nt_test_vs_ctrl_m4_shift0 (oligos_7nt_test_vs_ctrl_m4)				; oligos_7nt_test_vs_ctrl_m2 versus oligos_7nt_test_vs_ctrl_m4; m=5/10; ncol2=16; w=0; offset=0; strand=D; shift=0; score=0.739286; sssgCCCAACTCGcss- ; cor=; Ncor= a 36 67 16 15 22 13 3 285 246 2 6 3 8 22 24 16 0 c 129 88 109 77 228 270 231 6 32 289 9 259 58 203 168 106 0 g 115 83 132 199 37 14 72 10 25 13 9 37 238 46 85 127 0 t 29 71 52 18 22 12 3 8 6 5 285 10 5 38 32 60 0
oligos_6nt_test_vs_ctrl_m4_shift1 (oligos_6nt_test_vs_ctrl_m4)				; oligos_7nt_test_vs_ctrl_m2 versus oligos_6nt_test_vs_ctrl_m4; m=6/10; ncol2=15; w=0; offset=1; strand=D; shift=1; score=0.711714; -ssscCGAACTCCCss- ; cor=; Ncor= a 0 91 53 30 44 14 4 419 428 6 16 11 12 41 33 26 0 c 0 127 198 156 289 370 63 16 12 421 10 386 376 314 196 166 0 g 0 139 152 244 65 53 390 9 8 32 24 53 64 49 186 210 0 t 0 103 57 30 62 23 3 16 12 1 410 10 8 56 45 58 0
oligos_7nt_test_vs_ctrl_m3_shift1 (oligos_7nt_test_vs_ctrl_m3)				; oligos_7nt_test_vs_ctrl_m2 versus oligos_7nt_test_vs_ctrl_m3; m=7/10; ncol2=17; w=0; offset=1; strand=D; shift=1; score=0.700433; -ssgcCGAACTCCCCbs ; cor=; Ncor= a 0 69 37 29 27 10 6 324 321 5 13 8 15 15 15 20 80 c 0 101 159 86 238 298 54 12 21 332 12 295 268 274 251 99 91 g 0 103 121 224 51 30 295 10 12 22 18 49 64 35 77 133 111 t 0 86 42 20 43 21 4 13 5 0 316 7 12 35 16 107 77
oligos_6nt_test_vs_ctrl_m5_shift1 (oligos_6nt_test_vs_ctrl_m5)				; oligos_7nt_test_vs_ctrl_m2 versus oligos_6nt_test_vs_ctrl_m5; m=8/10; ncol2=15; w=0; offset=1; strand=D; shift=1; score=0.669062; -ssscCCAACTCSscs- ; cor=; Ncor= a 0 84 43 26 40 13 3 374 336 0 4 5 8 48 40 26 0 c 0 113 163 119 240 336 316 8 30 388 10 341 103 148 223 140 0 g 0 108 122 234 81 31 82 12 29 11 6 49 285 121 97 172 0 t 0 97 74 23 41 22 1 8 7 3 382 7 6 85 42 64 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=9/10; ncol2=15; w=0; offset=1; strand=R; shift=1; score=0.66836; -sssggCAACTCCcss- ; cor=; Ncor= a 0 82 67 29 52 30 3 362 347 1 10 18 10 26 57 22 0 c 0 114 158 190 84 65 337 11 19 374 8 312 350 234 133 156 0 g 0 115 105 145 216 246 39 8 12 11 24 43 25 69 141 158 0 t 0 79 60 26 38 49 11 9 12 4 348 17 5 61 59 54 0
oligos_7nt_test_vs_ctrl_m5_rc_shift1 (oligos_7nt_test_vs_ctrl_m5_rc)				; oligos_7nt_test_vs_ctrl_m2 versus oligos_7nt_test_vs_ctrl_m5_rc; m=10/10; ncol2=17; w=0; offset=1; strand=R; shift=1; score=0.657516; -sssagCAACTCCCsbs ; cor=; Ncor= a 0 47 35 13 137 20 2 232 211 1 7 4 7 12 16 10 55 c 0 78 100 150 54 49 216 16 22 247 11 210 223 205 154 82 66 g 0 78 72 80 44 168 37 7 16 9 15 38 26 26 66 87 83 t 0 55 51 15 23 21 3 3 9 1 225 6 2 15 22 79 54

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_test_vs_ctrl_m5_shift0 (oligos_7nt_test_vs_ctrl_m5)				; oligos_7nt_test_vs_ctrl_m5; m=0 (reference); ncol1=17; shift=0; ncol=17; gsvsGGGAGTTGctsss ; Alignment reference a 34 54 79 22 15 2 6 225 1 9 3 3 21 23 15 51 55 c 64 83 87 66 26 26 38 15 9 16 7 37 168 44 80 72 78 g 122 66 82 154 205 223 210 11 247 22 16 216 49 54 150 100 78 t 38 55 10 16 12 7 4 7 1 211 232 2 20 137 13 35 47
oligos_7nt_test_vs_ctrl_m5_shift0 (oligos_7nt_test_vs_ctrl_m5)				; oligos_7nt_test_vs_ctrl_m5 versus oligos_7nt_test_vs_ctrl_m5; m=1/10; ncol2=17; w=0; offset=0; strand=D; shift=0; score= 1; gsvsGGGAGTTGctsss ; cor=; Ncor= a 34 54 79 22 15 2 6 225 1 9 3 3 21 23 15 51 55 c 64 83 87 66 26 26 38 15 9 16 7 37 168 44 80 72 78 g 122 66 82 154 205 223 210 11 247 22 16 216 49 54 150 100 78 t 38 55 10 16 12 7 4 7 1 211 232 2 20 137 13 35 47
oligos_6nt_test_vs_ctrl_m3_shift2 (oligos_6nt_test_vs_ctrl_m3)				; oligos_7nt_test_vs_ctrl_m5 versus oligos_6nt_test_vs_ctrl_m3; m=2/10; ncol2=15; w=0; offset=2; strand=D; shift=2; score=0.833413; --ssgGGAGTTGccsss ; cor=; Ncor= a 0 0 54 59 61 5 17 348 4 12 9 11 49 38 26 60 79 c 0 0 158 141 69 25 43 24 11 12 8 39 246 216 145 105 115 g 0 0 156 133 234 350 312 8 374 19 11 337 65 84 190 158 114 t 0 0 22 57 26 10 18 10 1 347 362 3 30 52 29 67 82
oligos_7nt_test_vs_ctrl_m1_rc_shift0 (oligos_7nt_test_vs_ctrl_m1_rc)				; oligos_7nt_test_vs_ctrl_m5 versus oligos_7nt_test_vs_ctrl_m1_rc; m=3/10; ncol2=18; w=0; offset=0; strand=R; shift=0; score=0.824086; scvsGGGAGTTGGgssr ; cor=; Ncor= a 36 54 85 17 24 4 7 211 0 3 3 3 19 25 19 42 64 c 60 79 73 60 18 31 21 14 5 19 9 51 16 37 131 89 56 g 105 53 72 154 187 195 205 4 232 10 9 180 186 157 74 79 71 t 37 52 8 7 9 8 5 9 1 206 217 4 17 19 14 28 47
oligos_6nt_test_vs_ctrl_m2_rc_shift0 (oligos_6nt_test_vs_ctrl_m2_rc)				; oligos_7nt_test_vs_ctrl_m5 versus oligos_6nt_test_vs_ctrl_m2_rc; m=4/10; ncol2=17; w=0; offset=0; strand=R; shift=0; score=0.777693; ssssgGCAGTTGGgssc ; cor=; Ncor= a 43 71 71 27 38 9 15 299 1 6 6 4 21 26 18 50 74 c 93 96 112 136 60 62 248 13 17 18 9 58 36 62 174 105 110 g 140 86 122 132 214 245 52 8 310 14 6 261 265 216 112 130 79 t 53 76 24 34 17 13 14 9 1 291 308 6 7 25 25 44 66
oligos_6nt_test_vs_ctrl_m1_rc_shift2 (oligos_6nt_test_vs_ctrl_m1_rc)				; oligos_7nt_test_vs_ctrl_m5 versus oligos_6nt_test_vs_ctrl_m1_rc; m=5/10; ncol2=15; w=0; offset=2; strand=R; shift=2; score=0.772425; --ssGGGAGTTGGgsss ; cor=; Ncor= a 0 0 68 50 42 6 9 330 2 9 7 3 37 48 27 67 90 c 0 0 145 129 42 37 36 20 9 33 10 72 30 55 185 100 102 g 0 0 137 156 265 318 312 7 356 23 12 292 284 231 131 150 108 t 0 0 19 34 20 8 12 12 2 304 340 2 18 35 26 52 69
oligos_7nt_test_vs_ctrl_m3_rc_shift0 (oligos_7nt_test_vs_ctrl_m3_rc)				; oligos_7nt_test_vs_ctrl_m5 versus oligos_7nt_test_vs_ctrl_m3_rc; m=6/10; ncol2=17; w=0; offset=0; strand=R; shift=0; score=0.767624; ssvGGGGAGTTCGgcss ; cor=; Ncor= a 38 77 107 16 35 12 7 316 0 5 13 4 21 43 20 42 86 c 94 111 133 77 35 64 49 18 22 12 10 295 30 51 224 121 103 g 190 91 99 251 274 268 295 12 332 21 12 54 298 238 86 159 101 t 37 80 20 15 15 15 8 13 5 321 324 6 10 27 29 37 69
oligos_6nt_test_vs_ctrl_m4_rc_shift2 (oligos_6nt_test_vs_ctrl_m4_rc)				; oligos_7nt_test_vs_ctrl_m5 versus oligos_6nt_test_vs_ctrl_m4_rc; m=7/10; ncol2=15; w=0; offset=2; strand=R; shift=2; score=0.677468; --ssGGGAGTTCGgsss ; cor=; Ncor= a 0 0 58 45 56 8 10 410 1 12 16 3 23 62 30 57 103 c 0 0 210 186 49 64 53 24 32 8 9 390 53 65 244 152 139 g 0 0 166 196 314 376 386 10 421 12 16 63 370 289 156 198 127 t 0 0 26 33 41 12 11 16 6 428 419 4 14 44 30 53 91
oligos_6nt_test_vs_ctrl_m5_rc_shift2 (oligos_6nt_test_vs_ctrl_m5_rc)				; oligos_7nt_test_vs_ctrl_m5 versus oligos_6nt_test_vs_ctrl_m5_rc; m=8/10; ncol2=15; w=0; offset=2; strand=R; shift=2; score=0.670473; --sgsSGAGTTGGgsss ; cor=; Ncor= a 0 0 64 42 85 6 7 382 3 7 8 1 22 41 23 74 97 c 0 0 172 97 121 285 49 6 11 29 12 82 31 81 234 122 108 g 0 0 140 223 148 103 341 10 388 30 8 316 336 240 119 163 113 t 0 0 26 40 48 8 5 4 0 336 374 3 13 40 26 43 84
oligos_7nt_test_vs_ctrl_m2_rc_shift1 (oligos_7nt_test_vs_ctrl_m2_rc)				; oligos_7nt_test_vs_ctrl_m5 versus oligos_7nt_test_vs_ctrl_m2_rc; m=9/10; ncol2=17; w=0; offset=1; strand=R; shift=1; score=0.657516; -bscGGCAGTTGGGssv ; cor=; Ncor= a 0 45 40 13 11 0 6 180 2 3 4 4 13 12 5 31 55 c 0 56 69 145 22 22 171 15 11 21 11 47 28 29 135 95 65 g 0 57 91 43 176 188 32 8 201 13 5 159 166 160 61 67 65 t 0 56 14 13 5 4 5 11 0 177 194 4 7 13 13 21 29
oligos_7nt_test_vs_ctrl_m4_rc_shift2 (oligos_7nt_test_vs_ctrl_m4_rc)				; oligos_7nt_test_vs_ctrl_m5 versus oligos_7nt_test_vs_ctrl_m4_rc; m=10/10; ncol2=16; w=0; offset=2; strand=R; shift=2; score=0.616285; --ssgCGAGTTGGGcss ; cor=; Ncor= a 0 0 60 32 38 5 10 285 5 6 8 3 12 22 18 52 71 c 0 0 127 85 46 238 37 9 13 25 10 72 14 37 199 132 83 g 0 0 106 168 203 58 259 9 289 32 6 231 270 228 77 109 88 t 0 0 16 24 22 8 3 6 2 246 285 3 13 22 15 16 67

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_6nt_test_vs_ctrl_m2_shift1 (oligos_6nt_test_vs_ctrl_m2)				; oligos_6nt_test_vs_ctrl_m2; m=0 (reference); ncol1=17; shift=1; ncol=18; -gsscCCAACTGCcssss ; Alignment reference a 0 66 44 25 25 7 6 308 291 1 9 14 13 17 34 24 76 53 c 0 79 130 112 216 265 261 6 14 310 8 52 245 214 132 122 86 140 g 0 110 105 174 62 36 58 9 18 17 13 248 62 60 136 112 96 93 t 0 74 50 18 26 21 4 6 6 1 299 15 9 38 27 71 71 43
oligos_6nt_test_vs_ctrl_m2_shift1 (oligos_6nt_test_vs_ctrl_m2)				; oligos_6nt_test_vs_ctrl_m2 versus oligos_6nt_test_vs_ctrl_m2; m=1/10; ncol2=17; w=0; offset=0; strand=D; shift=1; score= 1; -gsscCCAACTGCcssss ; cor=; Ncor= a 0 66 44 25 25 7 6 308 291 1 9 14 13 17 34 24 76 53 c 0 79 130 112 216 265 261 6 14 310 8 52 245 214 132 122 86 140 g 0 110 105 174 62 36 58 9 18 17 13 248 62 60 136 112 96 93 t 0 74 50 18 26 21 4 6 6 1 299 15 9 38 27 71 71 43
oligos_7nt_test_vs_ctrl_m2_shift0 (oligos_7nt_test_vs_ctrl_m2)				; oligos_6nt_test_vs_ctrl_m2 versus oligos_7nt_test_vs_ctrl_m2; m=2/10; ncol2=17; w=-1; offset=-1; strand=D; shift=0; score=0.866075; sbssCCCAACTGCCgsv- ; cor=; Ncor= a 21 29 21 13 13 7 4 194 177 0 11 5 4 5 13 14 56 0 c 89 65 67 61 160 166 159 5 13 201 8 32 188 176 43 91 57 0 g 80 65 95 135 29 28 47 11 21 11 15 171 22 22 145 69 56 0 t 24 55 31 5 12 13 4 4 3 2 180 6 0 11 13 40 45 0
oligos_7nt_test_vs_ctrl_m1_shift0 (oligos_7nt_test_vs_ctrl_m1)				; oligos_6nt_test_vs_ctrl_m2 versus oligos_7nt_test_vs_ctrl_m1; m=3/10; ncol2=18; w=-1; offset=-1; strand=D; shift=0; score=0.837195; sysscCCAACTCCCsbgs ; cor=; Ncor= a 32 47 28 14 19 17 4 217 206 1 9 5 8 9 7 8 52 37 c 90 71 79 74 157 186 180 9 10 232 4 205 195 187 154 72 53 105 g 90 56 89 131 37 16 51 9 19 5 14 21 31 18 60 73 79 60 t 26 64 42 19 25 19 3 3 3 0 211 7 4 24 17 85 54 36
oligos_7nt_test_vs_ctrl_m3_shift1 (oligos_7nt_test_vs_ctrl_m3)				; oligos_6nt_test_vs_ctrl_m2 versus oligos_7nt_test_vs_ctrl_m3; m=4/10; ncol2=17; w=0; offset=0; strand=D; shift=1; score=0.814746; -ssgcCGAACTCCCCbss ; cor=; Ncor= a 0 69 37 29 27 10 6 324 321 5 13 8 15 15 15 20 80 37 c 0 101 159 86 238 298 54 12 21 332 12 295 268 274 251 99 91 190 g 0 103 121 224 51 30 295 10 12 22 18 49 64 35 77 133 111 94 t 0 86 42 20 43 21 4 13 5 0 316 7 12 35 16 107 77 38
oligos_6nt_test_vs_ctrl_m1_shift1 (oligos_6nt_test_vs_ctrl_m1)				; oligos_6nt_test_vs_ctrl_m2 versus oligos_6nt_test_vs_ctrl_m1; m=5/10; ncol2=15; w=0; offset=0; strand=D; shift=1; score=0.792564; -ssscCCAACTCCCss-- ; cor=; Ncor= a 0 69 52 26 35 18 2 340 304 2 12 12 8 20 34 19 0 0 c 0 108 150 131 231 284 292 12 23 356 7 312 318 265 156 137 0 0 g 0 102 100 185 55 30 72 10 33 9 20 36 37 42 129 145 0 0 t 0 90 67 27 48 37 3 7 9 2 330 9 6 42 50 68 0 0
oligos_7nt_test_vs_ctrl_m5_rc_shift1 (oligos_7nt_test_vs_ctrl_m5_rc)				; oligos_6nt_test_vs_ctrl_m2 versus oligos_7nt_test_vs_ctrl_m5_rc; m=6/10; ncol2=17; w=0; offset=0; strand=R; shift=1; score=0.777693; -sssagCAACTCCCsbsc ; cor=; Ncor= a 0 47 35 13 137 20 2 232 211 1 7 4 7 12 16 10 55 38 c 0 78 100 150 54 49 216 16 22 247 11 210 223 205 154 82 66 122 g 0 78 72 80 44 168 37 7 16 9 15 38 26 26 66 87 83 64 t 0 55 51 15 23 21 3 3 9 1 225 6 2 15 22 79 54 34
oligos_6nt_test_vs_ctrl_m5_shift1 (oligos_6nt_test_vs_ctrl_m5)				; oligos_6nt_test_vs_ctrl_m2 versus oligos_6nt_test_vs_ctrl_m5; m=7/10; ncol2=15; w=0; offset=0; strand=D; shift=1; score=0.734247; -ssscCCAACTCSscs-- ; cor=; Ncor= a 0 84 43 26 40 13 3 374 336 0 4 5 8 48 40 26 0 0 c 0 113 163 119 240 336 316 8 30 388 10 341 103 148 223 140 0 0 g 0 108 122 234 81 31 82 12 29 11 6 49 285 121 97 172 0 0 t 0 97 74 23 41 22 1 8 7 3 382 7 6 85 42 64 0 0
oligos_6nt_test_vs_ctrl_m4_shift1 (oligos_6nt_test_vs_ctrl_m4)				; oligos_6nt_test_vs_ctrl_m2 versus oligos_6nt_test_vs_ctrl_m4; m=8/10; ncol2=15; w=0; offset=0; strand=D; shift=1; score=0.718885; -ssscCGAACTCCCss-- ; cor=; Ncor= a 0 91 53 30 44 14 4 419 428 6 16 11 12 41 33 26 0 0 c 0 127 198 156 289 370 63 16 12 421 10 386 376 314 196 166 0 0 g 0 139 152 244 65 53 390 9 8 32 24 53 64 49 186 210 0 0 t 0 103 57 30 62 23 3 16 12 1 410 10 8 56 45 58 0 0
oligos_6nt_test_vs_ctrl_m3_rc_shift1 (oligos_6nt_test_vs_ctrl_m3_rc)				; oligos_6nt_test_vs_ctrl_m2 versus oligos_6nt_test_vs_ctrl_m3_rc; m=9/10; ncol2=15; w=0; offset=0; strand=R; shift=1; score=0.69619; -sssggCAACTCCcss-- ; cor=; Ncor= a 0 82 67 29 52 30 3 362 347 1 10 18 10 26 57 22 0 0 c 0 114 158 190 84 65 337 11 19 374 8 312 350 234 133 156 0 0 g 0 115 105 145 216 246 39 8 12 11 24 43 25 69 141 158 0 0 t 0 79 60 26 38 49 11 9 12 4 348 17 5 61 59 54 0 0
oligos_7nt_test_vs_ctrl_m4_shift0 (oligos_7nt_test_vs_ctrl_m4)				; oligos_6nt_test_vs_ctrl_m2 versus oligos_7nt_test_vs_ctrl_m4; m=10/10; ncol2=16; w=-1; offset=-1; strand=D; shift=0; score=0.69265; sssgCCCAACTCGcss-- ; cor=; Ncor= a 36 67 16 15 22 13 3 285 246 2 6 3 8 22 24 16 0 0 c 129 88 109 77 228 270 231 6 32 289 9 259 58 203 168 106 0 0 g 115 83 132 199 37 14 72 10 25 13 9 37 238 46 85 127 0 0 t 29 71 52 18 22 12 3 8 6 5 285 10 5 38 32 60 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_test_vs_ctrl_m4_shift0 (oligos_7nt_test_vs_ctrl_m4)				; oligos_7nt_test_vs_ctrl_m4; m=0 (reference); ncol1=16; shift=0; ncol=16; sssgCCCAACTCGcss ; Alignment reference a 36 67 16 15 22 13 3 285 246 2 6 3 8 22 24 16 c 129 88 109 77 228 270 231 6 32 289 9 259 58 203 168 106 g 115 83 132 199 37 14 72 10 25 13 9 37 238 46 85 127 t 29 71 52 18 22 12 3 8 6 5 285 10 5 38 32 60
oligos_7nt_test_vs_ctrl_m4_shift0 (oligos_7nt_test_vs_ctrl_m4)				; oligos_7nt_test_vs_ctrl_m4 versus oligos_7nt_test_vs_ctrl_m4; m=1/10; ncol2=16; w=0; offset=0; strand=D; shift=0; score= 1; sssgCCCAACTCGcss ; cor=; Ncor= a 36 67 16 15 22 13 3 285 246 2 6 3 8 22 24 16 c 129 88 109 77 228 270 231 6 32 289 9 259 58 203 168 106 g 115 83 132 199 37 14 72 10 25 13 9 37 238 46 85 127 t 29 71 52 18 22 12 3 8 6 5 285 10 5 38 32 60
oligos_6nt_test_vs_ctrl_m5_shift1 (oligos_6nt_test_vs_ctrl_m5)				; oligos_7nt_test_vs_ctrl_m4 versus oligos_6nt_test_vs_ctrl_m5; m=2/10; ncol2=15; w=0; offset=1; strand=D; shift=1; score=0.919236; -ssscCCAACTCSscs ; cor=; Ncor= a 0 84 43 26 40 13 3 374 336 0 4 5 8 48 40 26 c 0 113 163 119 240 336 316 8 30 388 10 341 103 148 223 140 g 0 108 122 234 81 31 82 12 29 11 6 49 285 121 97 172 t 0 97 74 23 41 22 1 8 7 3 382 7 6 85 42 64
oligos_6nt_test_vs_ctrl_m1_shift1 (oligos_6nt_test_vs_ctrl_m1)				; oligos_7nt_test_vs_ctrl_m4 versus oligos_6nt_test_vs_ctrl_m1; m=3/10; ncol2=15; w=0; offset=1; strand=D; shift=1; score=0.838858; -ssscCCAACTCCCss ; cor=; Ncor= a 0 69 52 26 35 18 2 340 304 2 12 12 8 20 34 19 c 0 108 150 131 231 284 292 12 23 356 7 312 318 265 156 137 g 0 102 100 185 55 30 72 10 33 9 20 36 37 42 129 145 t 0 90 67 27 48 37 3 7 9 2 330 9 6 42 50 68
oligos_7nt_test_vs_ctrl_m1_shift0 (oligos_7nt_test_vs_ctrl_m1)				; oligos_7nt_test_vs_ctrl_m4 versus oligos_7nt_test_vs_ctrl_m1; m=4/10; ncol2=18; w=0; offset=0; strand=D; shift=0; score=0.807345; sysscCCAACTCCCsb ; cor=; Ncor= a 32 47 28 14 19 17 4 217 206 1 9 5 8 9 7 8 c 90 71 79 74 157 186 180 9 10 232 4 205 195 187 154 72 g 90 56 89 131 37 16 51 9 19 5 14 21 31 18 60 73 t 26 64 42 19 25 19 3 3 3 0 211 7 4 24 17 85
oligos_6nt_test_vs_ctrl_m4_shift1 (oligos_6nt_test_vs_ctrl_m4)				; oligos_7nt_test_vs_ctrl_m4 versus oligos_6nt_test_vs_ctrl_m4; m=5/10; ncol2=15; w=0; offset=1; strand=D; shift=1; score=0.780483; -ssscCGAACTCCCss ; cor=; Ncor= a 0 91 53 30 44 14 4 419 428 6 16 11 12 41 33 26 c 0 127 198 156 289 370 63 16 12 421 10 386 376 314 196 166 g 0 139 152 244 65 53 390 9 8 32 24 53 64 49 186 210 t 0 103 57 30 62 23 3 16 12 1 410 10 8 56 45 58
oligos_7nt_test_vs_ctrl_m2_shift0 (oligos_7nt_test_vs_ctrl_m2)				; oligos_7nt_test_vs_ctrl_m4 versus oligos_7nt_test_vs_ctrl_m2; m=6/10; ncol2=17; w=0; offset=0; strand=D; shift=0; score=0.739286; sbssCCCAACTGCCgs ; cor=; Ncor= a 21 29 21 13 13 7 4 194 177 0 11 5 4 5 13 14 c 89 65 67 61 160 166 159 5 13 201 8 32 188 176 43 91 g 80 65 95 135 29 28 47 11 21 11 15 171 22 22 145 69 t 24 55 31 5 12 13 4 4 3 2 180 6 0 11 13 40
oligos_7nt_test_vs_ctrl_m3_shift1 (oligos_7nt_test_vs_ctrl_m3)				; oligos_7nt_test_vs_ctrl_m4 versus oligos_7nt_test_vs_ctrl_m3; m=7/10; ncol2=17; w=0; offset=1; strand=D; shift=1; score=0.712074; -ssgcCGAACTCCCCb ; cor=; Ncor= a 0 69 37 29 27 10 6 324 321 5 13 8 15 15 15 20 c 0 101 159 86 238 298 54 12 21 332 12 295 268 274 251 99 g 0 103 121 224 51 30 295 10 12 22 18 49 64 35 77 133 t 0 86 42 20 43 21 4 13 5 0 316 7 12 35 16 107
oligos_6nt_test_vs_ctrl_m2_shift1 (oligos_6nt_test_vs_ctrl_m2)				; oligos_7nt_test_vs_ctrl_m4 versus oligos_6nt_test_vs_ctrl_m2; m=8/10; ncol2=17; w=0; offset=1; strand=D; shift=1; score=0.69265; -gsscCCAACTGCcss ; cor=; Ncor= a 0 66 44 25 25 7 6 308 291 1 9 14 13 17 34 24 c 0 79 130 112 216 265 261 6 14 310 8 52 245 214 132 122 g 0 110 105 174 62 36 58 9 18 17 13 248 62 60 136 112 t 0 74 50 18 26 21 4 6 6 1 299 15 9 38 27 71
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=9/10; ncol2=15; w=0; offset=1; strand=R; shift=1; score=0.685798; -sssggCAACTCCcss ; cor=; Ncor= a 0 82 67 29 52 30 3 362 347 1 10 18 10 26 57 22 c 0 114 158 190 84 65 337 11 19 374 8 312 350 234 133 156 g 0 115 105 145 216 246 39 8 12 11 24 43 25 69 141 158 t 0 79 60 26 38 49 11 9 12 4 348 17 5 61 59 54
oligos_7nt_test_vs_ctrl_m5_rc_shift1 (oligos_7nt_test_vs_ctrl_m5_rc)				; oligos_7nt_test_vs_ctrl_m4 versus oligos_7nt_test_vs_ctrl_m5_rc; m=10/10; ncol2=17; w=0; offset=1; strand=R; shift=1; score=0.616285; -sssagCAACTCCCsb ; cor=; Ncor= a 0 47 35 13 137 20 2 232 211 1 7 4 7 12 16 10 c 0 78 100 150 54 49 216 16 22 247 11 210 223 205 154 82 g 0 78 72 80 44 168 37 7 16 9 15 38 26 26 66 87 t 0 55 51 15 23 21 3 3 9 1 225 6 2 15 22 79

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_6nt_test_vs_ctrl_m1_shift1 (oligos_6nt_test_vs_ctrl_m1)				; oligos_6nt_test_vs_ctrl_m1; m=0 (reference); ncol1=15; shift=1; ncol=16; -ssscCCAACTCCCss ; Alignment reference a 0 69 52 26 35 18 2 340 304 2 12 12 8 20 34 19 c 0 108 150 131 231 284 292 12 23 356 7 312 318 265 156 137 g 0 102 100 185 55 30 72 10 33 9 20 36 37 42 129 145 t 0 90 67 27 48 37 3 7 9 2 330 9 6 42 50 68
oligos_6nt_test_vs_ctrl_m1_shift1 (oligos_6nt_test_vs_ctrl_m1)				; oligos_6nt_test_vs_ctrl_m1 versus oligos_6nt_test_vs_ctrl_m1; m=1/10; ncol2=15; w=0; offset=0; strand=D; shift=1; score= 1; -ssscCCAACTCCCss ; cor=; Ncor= a 0 69 52 26 35 18 2 340 304 2 12 12 8 20 34 19 c 0 108 150 131 231 284 292 12 23 356 7 312 318 265 156 137 g 0 102 100 185 55 30 72 10 33 9 20 36 37 42 129 145 t 0 90 67 27 48 37 3 7 9 2 330 9 6 42 50 68
oligos_6nt_test_vs_ctrl_m4_shift1 (oligos_6nt_test_vs_ctrl_m4)				; oligos_6nt_test_vs_ctrl_m1 versus oligos_6nt_test_vs_ctrl_m4; m=2/10; ncol2=15; w=0; offset=0; strand=D; shift=1; score=0.908064; -ssscCGAACTCCCss ; cor=; Ncor= a 0 91 53 30 44 14 4 419 428 6 16 11 12 41 33 26 c 0 127 198 156 289 370 63 16 12 421 10 386 376 314 196 166 g 0 139 152 244 65 53 390 9 8 32 24 53 64 49 186 210 t 0 103 57 30 62 23 3 16 12 1 410 10 8 56 45 58
oligos_6nt_test_vs_ctrl_m5_shift1 (oligos_6nt_test_vs_ctrl_m5)				; oligos_6nt_test_vs_ctrl_m1 versus oligos_6nt_test_vs_ctrl_m5; m=3/10; ncol2=15; w=0; offset=0; strand=D; shift=1; score=0.898794; -ssscCCAACTCSscs ; cor=; Ncor= a 0 84 43 26 40 13 3 374 336 0 4 5 8 48 40 26 c 0 113 163 119 240 336 316 8 30 388 10 341 103 148 223 140 g 0 108 122 234 81 31 82 12 29 11 6 49 285 121 97 172 t 0 97 74 23 41 22 1 8 7 3 382 7 6 85 42 64
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=4/10; ncol2=15; w=0; offset=0; strand=R; shift=1; score=0.884576; -sssggCAACTCCcss ; cor=; Ncor= a 0 82 67 29 52 30 3 362 347 1 10 18 10 26 57 22 c 0 114 158 190 84 65 337 11 19 374 8 312 350 234 133 156 g 0 115 105 145 216 246 39 8 12 11 24 43 25 69 141 158 t 0 79 60 26 38 49 11 9 12 4 348 17 5 61 59 54
oligos_7nt_test_vs_ctrl_m4_shift0 (oligos_7nt_test_vs_ctrl_m4)				; oligos_6nt_test_vs_ctrl_m1 versus oligos_7nt_test_vs_ctrl_m4; m=5/10; ncol2=16; w=-1; offset=-1; strand=D; shift=0; score=0.838858; sssgCCCAACTCGcss ; cor=; Ncor= a 36 67 16 15 22 13 3 285 246 2 6 3 8 22 24 16 c 129 88 109 77 228 270 231 6 32 289 9 259 58 203 168 106 g 115 83 132 199 37 14 72 10 25 13 9 37 238 46 85 127 t 29 71 52 18 22 12 3 8 6 5 285 10 5 38 32 60
oligos_7nt_test_vs_ctrl_m1_shift0 (oligos_7nt_test_vs_ctrl_m1)				; oligos_6nt_test_vs_ctrl_m1 versus oligos_7nt_test_vs_ctrl_m1; m=6/10; ncol2=18; w=-1; offset=-1; strand=D; shift=0; score=0.821026; sysscCCAACTCCCsb ; cor=; Ncor= a 32 47 28 14 19 17 4 217 206 1 9 5 8 9 7 8 c 90 71 79 74 157 186 180 9 10 232 4 205 195 187 154 72 g 90 56 89 131 37 16 51 9 19 5 14 21 31 18 60 73 t 26 64 42 19 25 19 3 3 3 0 211 7 4 24 17 85
oligos_7nt_test_vs_ctrl_m3_shift1 (oligos_7nt_test_vs_ctrl_m3)				; oligos_6nt_test_vs_ctrl_m1 versus oligos_7nt_test_vs_ctrl_m3; m=7/10; ncol2=17; w=0; offset=0; strand=D; shift=1; score=0.793253; -ssgcCGAACTCCCCb ; cor=; Ncor= a 0 69 37 29 27 10 6 324 321 5 13 8 15 15 15 20 c 0 101 159 86 238 298 54 12 21 332 12 295 268 274 251 99 g 0 103 121 224 51 30 295 10 12 22 18 49 64 35 77 133 t 0 86 42 20 43 21 4 13 5 0 316 7 12 35 16 107
oligos_6nt_test_vs_ctrl_m2_shift1 (oligos_6nt_test_vs_ctrl_m2)				; oligos_6nt_test_vs_ctrl_m1 versus oligos_6nt_test_vs_ctrl_m2; m=8/10; ncol2=17; w=0; offset=0; strand=D; shift=1; score=0.792564; -gsscCCAACTGCcss ; cor=; Ncor= a 0 66 44 25 25 7 6 308 291 1 9 14 13 17 34 24 c 0 79 130 112 216 265 261 6 14 310 8 52 245 214 132 122 g 0 110 105 174 62 36 58 9 18 17 13 248 62 60 136 112 t 0 74 50 18 26 21 4 6 6 1 299 15 9 38 27 71
oligos_7nt_test_vs_ctrl_m5_rc_shift1 (oligos_7nt_test_vs_ctrl_m5_rc)				; oligos_6nt_test_vs_ctrl_m1 versus oligos_7nt_test_vs_ctrl_m5_rc; m=9/10; ncol2=17; w=0; offset=0; strand=R; shift=1; score=0.772425; -sssagCAACTCCCsb ; cor=; Ncor= a 0 47 35 13 137 20 2 232 211 1 7 4 7 12 16 10 c 0 78 100 150 54 49 216 16 22 247 11 210 223 205 154 82 g 0 78 72 80 44 168 37 7 16 9 15 38 26 26 66 87 t 0 55 51 15 23 21 3 3 9 1 225 6 2 15 22 79
oligos_7nt_test_vs_ctrl_m2_shift0 (oligos_7nt_test_vs_ctrl_m2)				; oligos_6nt_test_vs_ctrl_m1 versus oligos_7nt_test_vs_ctrl_m2; m=10/10; ncol2=17; w=-1; offset=-1; strand=D; shift=0; score=0.771807; sbssCCCAACTGCCgs ; cor=; Ncor= a 21 29 21 13 13 7 4 194 177 0 11 5 4 5 13 14 c 89 65 67 61 160 166 159 5 13 201 8 32 188 176 43 91 g 80 65 95 135 29 28 47 11 21 11 15 171 22 22 145 69 t 24 55 31 5 12 13 4 4 3 2 180 6 0 11 13 40

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_6nt_test_vs_ctrl_m5_shift1 (oligos_6nt_test_vs_ctrl_m5)				; oligos_6nt_test_vs_ctrl_m5; m=0 (reference); ncol1=15; shift=1; ncol=16; -ssscCCAACTCSscs ; Alignment reference a 0 84 43 26 40 13 3 374 336 0 4 5 8 48 40 26 c 0 113 163 119 240 336 316 8 30 388 10 341 103 148 223 140 g 0 108 122 234 81 31 82 12 29 11 6 49 285 121 97 172 t 0 97 74 23 41 22 1 8 7 3 382 7 6 85 42 64
oligos_6nt_test_vs_ctrl_m5_shift1 (oligos_6nt_test_vs_ctrl_m5)				; oligos_6nt_test_vs_ctrl_m5 versus oligos_6nt_test_vs_ctrl_m5; m=1/10; ncol2=15; w=0; offset=0; strand=D; shift=1; score= 1; -ssscCCAACTCSscs ; cor=; Ncor= a 0 84 43 26 40 13 3 374 336 0 4 5 8 48 40 26 c 0 113 163 119 240 336 316 8 30 388 10 341 103 148 223 140 g 0 108 122 234 81 31 82 12 29 11 6 49 285 121 97 172 t 0 97 74 23 41 22 1 8 7 3 382 7 6 85 42 64
oligos_7nt_test_vs_ctrl_m4_shift0 (oligos_7nt_test_vs_ctrl_m4)				; oligos_6nt_test_vs_ctrl_m5 versus oligos_7nt_test_vs_ctrl_m4; m=2/10; ncol2=16; w=-1; offset=-1; strand=D; shift=0; score=0.919236; sssgCCCAACTCGcss ; cor=; Ncor= a 36 67 16 15 22 13 3 285 246 2 6 3 8 22 24 16 c 129 88 109 77 228 270 231 6 32 289 9 259 58 203 168 106 g 115 83 132 199 37 14 72 10 25 13 9 37 238 46 85 127 t 29 71 52 18 22 12 3 8 6 5 285 10 5 38 32 60
oligos_6nt_test_vs_ctrl_m1_shift1 (oligos_6nt_test_vs_ctrl_m1)				; oligos_6nt_test_vs_ctrl_m5 versus oligos_6nt_test_vs_ctrl_m1; m=3/10; ncol2=15; w=0; offset=0; strand=D; shift=1; score=0.898794; -ssscCCAACTCCCss ; cor=; Ncor= a 0 69 52 26 35 18 2 340 304 2 12 12 8 20 34 19 c 0 108 150 131 231 284 292 12 23 356 7 312 318 265 156 137 g 0 102 100 185 55 30 72 10 33 9 20 36 37 42 129 145 t 0 90 67 27 48 37 3 7 9 2 330 9 6 42 50 68
oligos_6nt_test_vs_ctrl_m4_shift1 (oligos_6nt_test_vs_ctrl_m4)				; oligos_6nt_test_vs_ctrl_m5 versus oligos_6nt_test_vs_ctrl_m4; m=4/10; ncol2=15; w=0; offset=0; strand=D; shift=1; score=0.825501; -ssscCGAACTCCCss ; cor=; Ncor= a 0 91 53 30 44 14 4 419 428 6 16 11 12 41 33 26 c 0 127 198 156 289 370 63 16 12 421 10 386 376 314 196 166 g 0 139 152 244 65 53 390 9 8 32 24 53 64 49 186 210 t 0 103 57 30 62 23 3 16 12 1 410 10 8 56 45 58
oligos_6nt_test_vs_ctrl_m3_rc_shift1 (oligos_6nt_test_vs_ctrl_m3_rc)				; oligos_6nt_test_vs_ctrl_m5 versus oligos_6nt_test_vs_ctrl_m3_rc; m=5/10; ncol2=15; w=0; offset=0; strand=R; shift=1; score=0.774417; -sssggCAACTCCcss ; cor=; Ncor= a 0 82 67 29 52 30 3 362 347 1 10 18 10 26 57 22 c 0 114 158 190 84 65 337 11 19 374 8 312 350 234 133 156 g 0 115 105 145 216 246 39 8 12 11 24 43 25 69 141 158 t 0 79 60 26 38 49 11 9 12 4 348 17 5 61 59 54
oligos_7nt_test_vs_ctrl_m1_shift0 (oligos_7nt_test_vs_ctrl_m1)				; oligos_6nt_test_vs_ctrl_m5 versus oligos_7nt_test_vs_ctrl_m1; m=6/10; ncol2=18; w=-1; offset=-1; strand=D; shift=0; score=0.749124; sysscCCAACTCCCsb ; cor=; Ncor= a 32 47 28 14 19 17 4 217 206 1 9 5 8 9 7 8 c 90 71 79 74 157 186 180 9 10 232 4 205 195 187 154 72 g 90 56 89 131 37 16 51 9 19 5 14 21 31 18 60 73 t 26 64 42 19 25 19 3 3 3 0 211 7 4 24 17 85
oligos_7nt_test_vs_ctrl_m3_shift1 (oligos_7nt_test_vs_ctrl_m3)				; oligos_6nt_test_vs_ctrl_m5 versus oligos_7nt_test_vs_ctrl_m3; m=7/10; ncol2=17; w=0; offset=0; strand=D; shift=1; score=0.738809; -ssgcCGAACTCCCCb ; cor=; Ncor= a 0 69 37 29 27 10 6 324 321 5 13 8 15 15 15 20 c 0 101 159 86 238 298 54 12 21 332 12 295 268 274 251 99 g 0 103 121 224 51 30 295 10 12 22 18 49 64 35 77 133 t 0 86 42 20 43 21 4 13 5 0 316 7 12 35 16 107
oligos_6nt_test_vs_ctrl_m2_shift1 (oligos_6nt_test_vs_ctrl_m2)				; oligos_6nt_test_vs_ctrl_m5 versus oligos_6nt_test_vs_ctrl_m2; m=8/10; ncol2=17; w=0; offset=0; strand=D; shift=1; score=0.734247; -gsscCCAACTGCcss ; cor=; Ncor= a 0 66 44 25 25 7 6 308 291 1 9 14 13 17 34 24 c 0 79 130 112 216 265 261 6 14 310 8 52 245 214 132 122 g 0 110 105 174 62 36 58 9 18 17 13 248 62 60 136 112 t 0 74 50 18 26 21 4 6 6 1 299 15 9 38 27 71
oligos_7nt_test_vs_ctrl_m5_rc_shift1 (oligos_7nt_test_vs_ctrl_m5_rc)				; oligos_6nt_test_vs_ctrl_m5 versus oligos_7nt_test_vs_ctrl_m5_rc; m=9/10; ncol2=17; w=0; offset=0; strand=R; shift=1; score=0.670473; -sssagCAACTCCCsb ; cor=; Ncor= a 0 47 35 13 137 20 2 232 211 1 7 4 7 12 16 10 c 0 78 100 150 54 49 216 16 22 247 11 210 223 205 154 82 g 0 78 72 80 44 168 37 7 16 9 15 38 26 26 66 87 t 0 55 51 15 23 21 3 3 9 1 225 6 2 15 22 79
oligos_7nt_test_vs_ctrl_m2_shift0 (oligos_7nt_test_vs_ctrl_m2)				; oligos_6nt_test_vs_ctrl_m5 versus oligos_7nt_test_vs_ctrl_m2; m=10/10; ncol2=17; w=-1; offset=-1; strand=D; shift=0; score=0.669062; sbssCCCAACTGCCgs ; cor=; Ncor= a 21 29 21 13 13 7 4 194 177 0 11 5 4 5 13 14 c 89 65 67 61 160 166 159 5 13 201 8 32 188 176 43 91 g 80 65 95 135 29 28 47 11 21 11 15 171 22 22 145 69 t 24 55 31 5 12 13 4 4 3 2 180 6 0 11 13 40

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_test_vs_ctrl_m1_shift0 (oligos_7nt_test_vs_ctrl_m1)				; oligos_7nt_test_vs_ctrl_m1; m=0 (reference); ncol1=18; shift=0; ncol=18; sysscCCAACTCCCsbgs ; Alignment reference a 32 47 28 14 19 17 4 217 206 1 9 5 8 9 7 8 52 37 c 90 71 79 74 157 186 180 9 10 232 4 205 195 187 154 72 53 105 g 90 56 89 131 37 16 51 9 19 5 14 21 31 18 60 73 79 60 t 26 64 42 19 25 19 3 3 3 0 211 7 4 24 17 85 54 36
oligos_7nt_test_vs_ctrl_m1_shift0 (oligos_7nt_test_vs_ctrl_m1)				; oligos_7nt_test_vs_ctrl_m1 versus oligos_7nt_test_vs_ctrl_m1; m=1/10; ncol2=18; w=0; offset=0; strand=D; shift=0; score= 1; sysscCCAACTCCCsbgs ; cor=; Ncor= a 32 47 28 14 19 17 4 217 206 1 9 5 8 9 7 8 52 37 c 90 71 79 74 157 186 180 9 10 232 4 205 195 187 154 72 53 105 g 90 56 89 131 37 16 51 9 19 5 14 21 31 18 60 73 79 60 t 26 64 42 19 25 19 3 3 3 0 211 7 4 24 17 85 54 36
oligos_7nt_test_vs_ctrl_m3_shift1 (oligos_7nt_test_vs_ctrl_m3)				; oligos_7nt_test_vs_ctrl_m1 versus oligos_7nt_test_vs_ctrl_m3; m=2/10; ncol2=17; w=0; offset=1; strand=D; shift=1; score=0.87038; -ssgcCGAACTCCCCbss ; cor=; Ncor= a 0 69 37 29 27 10 6 324 321 5 13 8 15 15 15 20 80 37 c 0 101 159 86 238 298 54 12 21 332 12 295 268 274 251 99 91 190 g 0 103 121 224 51 30 295 10 12 22 18 49 64 35 77 133 111 94 t 0 86 42 20 43 21 4 13 5 0 316 7 12 35 16 107 77 38
oligos_6nt_test_vs_ctrl_m2_shift1 (oligos_6nt_test_vs_ctrl_m2)				; oligos_7nt_test_vs_ctrl_m1 versus oligos_6nt_test_vs_ctrl_m2; m=3/10; ncol2=17; w=0; offset=1; strand=D; shift=1; score=0.837195; -gsscCCAACTGCcssss ; cor=; Ncor= a 0 66 44 25 25 7 6 308 291 1 9 14 13 17 34 24 76 53 c 0 79 130 112 216 265 261 6 14 310 8 52 245 214 132 122 86 140 g 0 110 105 174 62 36 58 9 18 17 13 248 62 60 136 112 96 93 t 0 74 50 18 26 21 4 6 6 1 299 15 9 38 27 71 71 43
oligos_7nt_test_vs_ctrl_m5_rc_shift1 (oligos_7nt_test_vs_ctrl_m5_rc)				; oligos_7nt_test_vs_ctrl_m1 versus oligos_7nt_test_vs_ctrl_m5_rc; m=4/10; ncol2=17; w=0; offset=1; strand=R; shift=1; score=0.824086; -sssagCAACTCCCsbsc ; cor=; Ncor= a 0 47 35 13 137 20 2 232 211 1 7 4 7 12 16 10 55 38 c 0 78 100 150 54 49 216 16 22 247 11 210 223 205 154 82 66 122 g 0 78 72 80 44 168 37 7 16 9 15 38 26 26 66 87 83 64 t 0 55 51 15 23 21 3 3 9 1 225 6 2 15 22 79 54 34
oligos_6nt_test_vs_ctrl_m1_shift1 (oligos_6nt_test_vs_ctrl_m1)				; oligos_7nt_test_vs_ctrl_m1 versus oligos_6nt_test_vs_ctrl_m1; m=5/10; ncol2=15; w=0; offset=1; strand=D; shift=1; score=0.821026; -ssscCCAACTCCCss-- ; cor=; Ncor= a 0 69 52 26 35 18 2 340 304 2 12 12 8 20 34 19 0 0 c 0 108 150 131 231 284 292 12 23 356 7 312 318 265 156 137 0 0 g 0 102 100 185 55 30 72 10 33 9 20 36 37 42 129 145 0 0 t 0 90 67 27 48 37 3 7 9 2 330 9 6 42 50 68 0 0
oligos_7nt_test_vs_ctrl_m2_shift0 (oligos_7nt_test_vs_ctrl_m2)				; oligos_7nt_test_vs_ctrl_m1 versus oligos_7nt_test_vs_ctrl_m2; m=6/10; ncol2=17; w=0; offset=0; strand=D; shift=0; score=0.809066; sbssCCCAACTGCCgsv- ; cor=; Ncor= a 21 29 21 13 13 7 4 194 177 0 11 5 4 5 13 14 56 0 c 89 65 67 61 160 166 159 5 13 201 8 32 188 176 43 91 57 0 g 80 65 95 135 29 28 47 11 21 11 15 171 22 22 145 69 56 0 t 24 55 31 5 12 13 4 4 3 2 180 6 0 11 13 40 45 0
oligos_7nt_test_vs_ctrl_m4_shift0 (oligos_7nt_test_vs_ctrl_m4)				; oligos_7nt_test_vs_ctrl_m1 versus oligos_7nt_test_vs_ctrl_m4; m=7/10; ncol2=16; w=0; offset=0; strand=D; shift=0; score=0.807345; sssgCCCAACTCGcss-- ; cor=; Ncor= a 36 67 16 15 22 13 3 285 246 2 6 3 8 22 24 16 0 0 c 129 88 109 77 228 270 231 6 32 289 9 259 58 203 168 106 0 0 g 115 83 132 199 37 14 72 10 25 13 9 37 238 46 85 127 0 0 t 29 71 52 18 22 12 3 8 6 5 285 10 5 38 32 60 0 0
oligos_6nt_test_vs_ctrl_m4_shift1 (oligos_6nt_test_vs_ctrl_m4)				; oligos_7nt_test_vs_ctrl_m1 versus oligos_6nt_test_vs_ctrl_m4; m=8/10; ncol2=15; w=0; offset=1; strand=D; shift=1; score=0.751455; -ssscCGAACTCCCss-- ; cor=; Ncor= a 0 91 53 30 44 14 4 419 428 6 16 11 12 41 33 26 0 0 c 0 127 198 156 289 370 63 16 12 421 10 386 376 314 196 166 0 0 g 0 139 152 244 65 53 390 9 8 32 24 53 64 49 186 210 0 0 t 0 103 57 30 62 23 3 16 12 1 410 10 8 56 45 58 0 0
oligos_6nt_test_vs_ctrl_m5_shift1 (oligos_6nt_test_vs_ctrl_m5)				; oligos_7nt_test_vs_ctrl_m1 versus oligos_6nt_test_vs_ctrl_m5; m=9/10; ncol2=15; w=0; offset=1; strand=D; shift=1; score=0.749124; -ssscCCAACTCSscs-- ; cor=; Ncor= a 0 84 43 26 40 13 3 374 336 0 4 5 8 48 40 26 0 0 c 0 113 163 119 240 336 316 8 30 388 10 341 103 148 223 140 0 0 g 0 108 122 234 81 31 82 12 29 11 6 49 285 121 97 172 0 0 t 0 97 74 23 41 22 1 8 7 3 382 7 6 85 42 64 0 0
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=10/10; ncol2=15; w=0; offset=1; strand=R; shift=1; score=0.712312; -sssggCAACTCCcss-- ; cor=; Ncor= a 0 82 67 29 52 30 3 362 347 1 10 18 10 26 57 22 0 0 c 0 114 158 190 84 65 337 11 19 374 8 312 350 234 133 156 0 0 g 0 115 105 145 216 246 39 8 12 11 24 43 25 69 141 158 0 0 t 0 79 60 26 38 49 11 9 12 4 348 17 5 61 59 54 0 0