One-to-n alignments

Command: compare-matrices  -v 1 -format transfac -file $RSAT/public_html/tmp/www-data/2025/11/26/peak-motifs.2025-11-26.203955_2025-11-26.203955_uGowT0/results/discovered_motifs/peak-motifs_motifs_discovered.tf -distinct -mode matches -strand DR -uth offset_rank 1 -lth w 5 -lth Wr 0.3 -lth cor 0.7 -lth Ncor 0.4 -return matrix_name,matrix_id,cor,Ncor,width,strand,offset,alignments_1ton -sort Ncor -quick -o $RSAT/public_html/tmp/www-data/2025/11/26/peak-motifs.2025-11-26.203955_2025-11-26.203955_uGowT0/results/discovered_motifs/peak-motifs_motifs_disco_compa.tab

One-to-n matrix alignment; reference matrix: oligos_7nt_test_vs_ctrl_m1_shift0 ; 4 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=24; shift=0; ncol=24; wwAaATTTTTTTAAAAAAATtTww ; Alignment reference a 359 362 701 671 685 139 156 112 119 104 122 143 750 789 810 775 781 709 739 160 173 174 335 326 c 127 150 65 91 90 73 65 55 55 50 46 56 56 48 41 55 57 75 54 71 69 64 157 193 g 193 158 64 70 70 55 76 57 55 41 48 56 56 46 50 55 55 65 73 90 91 65 150 126 t 326 335 175 173 160 738 708 781 776 810 789 750 143 122 104 120 112 156 139 684 672 702 363 360

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=1/3; ncol2=24; w=0; offset=0; strand=D; shift=0; score= 1; wwAaATTTTTTTAAAAAAATtTww ; cor=; Ncor= a 359 362 701 671 685 139 156 112 119 104 122 143 750 789 810 775 781 709 739 160 173 174 335 326 c 127 150 65 91 90 73 65 55 55 50 46 56 56 48 41 55 57 75 54 71 69 64 157 193 g 193 158 64 70 70 55 76 57 55 41 48 56 56 46 50 55 55 65 73 90 91 65 150 126 t 326 335 175 173 160 738 708 781 776 810 789 750 143 122 104 120 112 156 139 684 672 702 363 360

oligos_7nt_test_vs_ctrl_m5_shift0 (oligos_7nt_test_vs_ctrl_m5)
; oligos_7nt_test_vs_ctrl_m1 versus oligos_7nt_test_vs_ctrl_m5; m=2/3; ncol2=24; w=0; offset=0; strand=D; shift=0; score=0.843171; wwttaaaTTTTTAAAAAAATttww ; cor=; Ncor= a 371 384 215 195 701 710 729 153 148 97 126 153 843 867 908 841 845 806 811 161 183 179 344 342 c 186 173 100 90 90 104 84 78 52 42 63 66 42 69 49 62 69 87 70 71 77 97 186 221 g 164 159 82 93 107 75 87 53 73 43 50 49 61 52 50 58 56 54 69 73 100 79 189 163 t 384 389 708 727 207 216 205 821 832 923 866 837 159 117 98 144 135 158 155 800 745 750 386 379

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=3/3; ncol2=24; w=0; offset=0; strand=D; shift=0; score=0.717768; wwttAAAAtTTTAAAAAAATtaww ; cor=; Ncor= a 429 442 242 218 862 887 856 894 233 180 195 202 929 931 972 963 952 912 953 194 224 804 382 401 c 189 186 133 94 81 92 90 81 90 46 73 96 61 78 62 76 52 76 61 76 91 91 228 277 g 162 189 95 85 84 78 88 77 66 68 69 60 72 61 59 61 70 68 58 81 103 106 245 177 t 431 394 741 814 184 154 177 159 822 917 874 853 149 141 118 111 137 155 139 860 793 210 356 356

One-to-n matrix alignment; reference matrix: oligos_6nt_test_vs_ctrl_m1_shift1 ; 4 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=24; shift=1; ncol=25; -twTwTwwTTTTyTTTTTTaAgAcr ; Alignment reference a 0 140 152 67 292 57 306 292 35 42 36 28 75 52 48 29 27 37 65 351 517 84 486 148 210 c 0 92 89 40 68 24 36 33 27 21 28 23 216 19 27 21 19 23 33 25 11 36 25 201 86 g 0 100 79 38 27 27 25 31 27 17 20 26 51 12 23 20 22 29 24 141 23 407 29 107 183 t 0 270 282 457 215 494 235 246 513 522 518 525 260 519 504 532 534 513 480 85 51 75 62 146 123

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=1/3; ncol2=24; w=0; offset=0; strand=D; shift=1; score= 1; -twTwTwwTTTTyTTTTTTaAgAcr ; cor=; Ncor= a 0 140 152 67 292 57 306 292 35 42 36 28 75 52 48 29 27 37 65 351 517 84 486 148 210 c 0 92 89 40 68 24 36 33 27 21 28 23 216 19 27 21 19 23 33 25 11 36 25 201 86 g 0 100 79 38 27 27 25 31 27 17 20 26 51 12 23 20 22 29 24 141 23 407 29 107 183 t 0 270 282 457 215 494 235 246 513 522 518 525 260 519 504 532 534 513 480 85 51 75 62 146 123

oligos_6nt_test_vs_ctrl_m4_rc_shift1 (oligos_6nt_test_vs_ctrl_m4_rc)
; oligos_6nt_test_vs_ctrl_m1 versus oligos_6nt_test_vs_ctrl_m4_rc; m=2/3; ncol2=24; w=0; offset=0; strand=R; shift=1; score=0.763909; -ttTTTTkTTTTTwTTTTwataadd ; cor=; Ncor= a 0 300 272 109 89 98 102 167 78 102 83 76 76 630 83 90 106 156 815 988 240 975 868 498 425 c 0 201 204 68 75 59 32 95 53 43 31 49 53 85 55 32 45 50 79 78 93 115 227 242 241 g 0 241 252 80 70 47 57 541 51 39 47 71 47 119 25 70 57 99 198 138 307 151 151 387 383 t 0 787 801 1272 1295 1325 1338 726 1347 1345 1368 1333 1353 695 1366 1337 1321 1224 437 325 889 288 283 402 480

oligos_7nt_test_vs_ctrl_m3_rc_shift0 (oligos_7nt_test_vs_ctrl_m3_rc)
; oligos_6nt_test_vs_ctrl_m1 versus oligos_7nt_test_vs_ctrl_m3_rc; m=3/3; ncol2=24; w=-1; offset=-1; strand=R; shift=0; score=0.667524; twyTTTTwTTTTyTTTAataaAww- ; cor=; Ncor= a 286 334 206 112 83 84 88 693 79 101 107 90 166 96 91 134 812 791 230 772 740 807 360 441 0 c 214 197 499 82 50 64 71 95 55 52 50 67 536 77 70 60 91 89 93 98 128 102 194 187 0 g 198 199 134 39 53 53 57 90 58 44 31 40 92 27 75 69 75 107 120 106 144 91 250 203 0 t 482 450 341 947 994 979 964 302 988 983 992 983 386 980 944 917 202 193 737 204 168 180 376 349 0

One-to-n matrix alignment; reference matrix: oligos_7nt_test_vs_ctrl_m2_shift0 ; 3 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=13; shift=0; ncol=13; kcaAGGACCTGgv ; Alignment reference a 1212 1260 3568 5260 123 84 4651 145 136 106 258 1157 1554 c 1072 1964 1235 167 83 94 190 5279 5220 199 235 1261 1494 g 1868 1384 426 175 5376 5364 128 146 233 114 4772 2159 1607 t 1528 1072 451 78 98 138 711 110 91 5261 415 1103 1025

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=1/2; ncol2=13; w=0; offset=0; strand=D; shift=0; score= 1; kcaAGGACCTGgv ; cor=; Ncor= a 1212 1260 3568 5260 123 84 4651 145 136 106 258 1157 1554 c 1072 1964 1235 167 83 94 190 5279 5220 199 235 1261 1494 g 1868 1384 426 175 5376 5364 128 146 233 114 4772 2159 1607 t 1528 1072 451 78 98 138 711 110 91 5261 415 1103 1025

oligos_6nt_test_vs_ctrl_m5_rc_shift1 (oligos_6nt_test_vs_ctrl_m5_rc)
; oligos_7nt_test_vs_ctrl_m2 versus oligos_6nt_test_vs_ctrl_m5_rc; m=2/2; ncol2=12; w=0; offset=1; strand=R; shift=1; score=0.824335; -ccAGGACCTTgs ; cor=; Ncor= a 0 2067 2411 9292 259 202 8278 243 271 173 427 1650 2339 c 0 3423 4496 99 78 241 262 9058 9060 743 600 2352 2877 g 0 2168 1494 251 9246 9233 295 262 107 142 2019 3473 2468 t 0 2134 1391 150 209 116 957 229 354 8734 6746 2317 2108

One-to-n matrix alignment; reference matrix: oligos_6nt_test_vs_ctrl_m4_shift0 ; 4 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_test_vs_ctrl_m4_shift0 (oligos_6nt_test_vs_ctrl_m4)
; oligos_6nt_test_vs_ctrl_m4; m=0 (reference); ncol1=24; shift=0; ncol=24; hhttatwAAAAwAAAAAmAAAAaa ; Alignment reference a 480 402 283 288 889 325 437 1224 1321 1337 1366 695 1353 1333 1368 1345 1347 726 1338 1325 1295 1272 801 787 c 383 387 151 151 307 138 198 99 57 70 25 119 47 71 47 39 51 541 57 47 70 80 252 241 g 241 242 227 115 93 78 79 50 45 32 55 85 53 49 31 43 53 95 32 59 75 68 204 201 t 425 498 868 975 240 988 815 156 106 90 83 630 76 76 83 102 78 167 102 98 89 109 272 300

oligos_6nt_test_vs_ctrl_m4_shift0 (oligos_6nt_test_vs_ctrl_m4)
; oligos_6nt_test_vs_ctrl_m4 versus oligos_6nt_test_vs_ctrl_m4; m=1/3; ncol2=24; w=0; offset=0; strand=D; shift=0; score= 1; hhttatwAAAAwAAAAAmAAAAaa ; cor=; Ncor= a 480 402 283 288 889 325 437 1224 1321 1337 1366 695 1353 1333 1368 1345 1347 726 1338 1325 1295 1272 801 787 c 383 387 151 151 307 138 198 99 57 70 25 119 47 71 47 39 51 541 57 47 70 80 252 241 g 241 242 227 115 93 78 79 50 45 32 55 85 53 49 31 43 53 95 32 59 75 68 204 201 t 425 498 868 975 240 988 815 156 106 90 83 630 76 76 83 102 78 167 102 98 89 109 272 300

oligos_7nt_test_vs_ctrl_m3_shift0 (oligos_7nt_test_vs_ctrl_m3)
; oligos_6nt_test_vs_ctrl_m4 versus oligos_7nt_test_vs_ctrl_m3; m=2/3; ncol2=24; w=0; offset=0; strand=D; shift=0; score=0.775782; wwTttatTAAArAAAAwAAAArwa ; cor=; Ncor= a 349 376 180 168 204 737 193 202 917 944 980 386 983 992 983 988 302 964 979 994 947 341 450 482 c 203 250 91 144 106 120 107 75 69 75 27 92 40 31 44 58 90 57 53 53 39 134 199 198 g 187 194 102 128 98 93 89 91 60 70 77 536 67 50 52 55 95 71 64 50 82 499 197 214 t 441 360 807 740 772 230 791 812 134 91 96 166 90 107 101 79 693 88 84 83 112 206 334 286

oligos_6nt_test_vs_ctrl_m1_rc_shift0 (oligos_6nt_test_vs_ctrl_m1_rc)
; oligos_6nt_test_vs_ctrl_m4 versus oligos_6nt_test_vs_ctrl_m1_rc; m=3/3; ncol2=24; w=0; offset=0; strand=R; shift=0; score=0.763909; ygTcTtAAAAAArAAAAwwAwAwa ; cor=; Ncor= a 123 146 62 75 51 85 480 513 534 532 504 519 260 525 518 522 513 246 235 494 215 457 282 270 c 183 107 29 407 23 141 24 29 22 20 23 12 51 26 20 17 27 31 25 27 27 38 79 100 g 86 201 25 36 11 25 33 23 19 21 27 19 216 23 28 21 27 33 36 24 68 40 89 92 t 210 148 486 84 517 351 65 37 27 29 48 52 75 28 36 42 35 292 306 57 292 67 152 140

One-to-n matrix alignment; reference matrix: oligos_6nt_test_vs_ctrl_m3_shift0 ; 3 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_test_vs_ctrl_m3_shift0 (oligos_6nt_test_vs_ctrl_m3)
; oligos_6nt_test_vs_ctrl_m3; m=0 (reference); ncol1=24; shift=0; ncol=24; wwTTacTTTTTATTAAATTATAww ; Alignment reference a 164 176 86 44 333 122 76 59 54 58 61 411 60 75 385 384 404 83 51 402 70 392 171 169 c 79 77 38 41 80 267 30 41 26 46 36 28 21 26 42 56 39 32 55 41 37 31 84 115 g 106 106 42 30 34 54 21 39 35 59 23 23 15 66 34 36 20 24 41 38 30 47 90 71 t 196 186 379 430 98 102 418 406 430 382 425 83 449 378 84 69 82 406 398 64 408 75 200 190

oligos_6nt_test_vs_ctrl_m3_shift0 (oligos_6nt_test_vs_ctrl_m3)
; oligos_6nt_test_vs_ctrl_m3 versus oligos_6nt_test_vs_ctrl_m3; m=1/2; ncol2=24; w=0; offset=0; strand=D; shift=0; score= 1; wwTTacTTTTTATTAAATTATAww ; cor=; Ncor= a 164 176 86 44 333 122 76 59 54 58 61 411 60 75 385 384 404 83 51 402 70 392 171 169 c 79 77 38 41 80 267 30 41 26 46 36 28 21 26 42 56 39 32 55 41 37 31 84 115 g 106 106 42 30 34 54 21 39 35 59 23 23 15 66 34 36 20 24 41 38 30 47 90 71 t 196 186 379 430 98 102 418 406 430 382 425 83 449 378 84 69 82 406 398 64 408 75 200 190

oligos_7nt_test_vs_ctrl_m4_rc_shift1 (oligos_7nt_test_vs_ctrl_m4_rc)
; oligos_6nt_test_vs_ctrl_m3 versus oligos_7nt_test_vs_ctrl_m4_rc; m=2/2; ncol2=24; w=0; offset=1; strand=R; shift=1; score=0.703348; -wwtaATTTTTTTAAAaTTTTaaw ; cor=; Ncor= a 0 356 356 210 793 860 139 155 137 111 118 141 149 853 874 917 822 159 177 154 184 814 741 394 c 0 177 245 106 103 81 58 68 70 61 59 61 72 60 69 68 66 77 88 78 84 85 95 189 g 0 277 228 91 91 76 61 76 52 76 62 78 61 96 73 46 90 81 90 92 81 94 133 186 t 0 401 382 804 224 194 953 912 952 963 972 931 929 202 195 180 233 894 856 887 862 218 242 442

One-to-n matrix alignment; reference matrix: oligos_7nt_test_vs_ctrl_m4_shift0 ; 5 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=24; shift=0; ncol=24; wwttAAAAtTTTAAAAAAATtaww ; Alignment reference a 429 442 242 218 862 887 856 894 233 180 195 202 929 931 972 963 952 912 953 194 224 804 382 401 c 189 186 133 94 81 92 90 81 90 46 73 96 61 78 62 76 52 76 61 76 91 91 228 277 g 162 189 95 85 84 78 88 77 66 68 69 60 72 61 59 61 70 68 58 81 103 106 245 177 t 431 394 741 814 184 154 177 159 822 917 874 853 149 141 118 111 137 155 139 860 793 210 356 356

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=1/4; ncol2=24; w=0; offset=0; strand=D; shift=0; score= 1; wwttAAAAtTTTAAAAAAATtaww ; cor=; Ncor= a 429 442 242 218 862 887 856 894 233 180 195 202 929 931 972 963 952 912 953 194 224 804 382 401 c 189 186 133 94 81 92 90 81 90 46 73 96 61 78 62 76 52 76 61 76 91 91 228 277 g 162 189 95 85 84 78 88 77 66 68 69 60 72 61 59 61 70 68 58 81 103 106 245 177 t 431 394 741 814 184 154 177 159 822 917 874 853 149 141 118 111 137 155 139 860 793 210 356 356

oligos_7nt_test_vs_ctrl_m5_shift0 (oligos_7nt_test_vs_ctrl_m5)
; oligos_7nt_test_vs_ctrl_m4 versus oligos_7nt_test_vs_ctrl_m5; m=2/4; ncol2=24; w=0; offset=0; strand=D; shift=0; score=0.896165; wwttaaaTTTTTAAAAAAATttww ; cor=; Ncor= a 371 384 215 195 701 710 729 153 148 97 126 153 843 867 908 841 845 806 811 161 183 179 344 342 c 186 173 100 90 90 104 84 78 52 42 63 66 42 69 49 62 69 87 70 71 77 97 186 221 g 164 159 82 93 107 75 87 53 73 43 50 49 61 52 50 58 56 54 69 73 100 79 189 163 t 384 389 708 727 207 216 205 821 832 923 866 837 159 117 98 144 135 158 155 800 745 750 386 379

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=3/4; ncol2=24; w=0; offset=0; strand=D; shift=0; score=0.717768; wwAaATTTTTTTAAAAAAATtTww ; cor=; Ncor= a 359 362 701 671 685 139 156 112 119 104 122 143 750 789 810 775 781 709 739 160 173 174 335 326 c 127 150 65 91 90 73 65 55 55 50 46 56 56 48 41 55 57 75 54 71 69 64 157 193 g 193 158 64 70 70 55 76 57 55 41 48 56 56 46 50 55 55 65 73 90 91 65 150 126 t 326 335 175 173 160 738 708 781 776 810 789 750 143 122 104 120 112 156 139 684 672 702 363 360

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=4/4; ncol2=24; w=0; offset=1; strand=R; shift=1; score=0.703348; -wwTATAATTTAATAAAAAgtAAw ; cor=; Ncor= a 0 190 200 75 408 64 398 406 82 69 84 378 449 83 425 382 430 406 418 102 98 430 379 186 c 0 71 90 47 30 38 41 24 20 36 34 66 15 23 23 59 35 39 21 54 34 30 42 106 g 0 115 84 31 37 41 55 32 39 56 42 26 21 28 36 46 26 41 30 267 80 41 38 77 t 0 169 171 392 70 402 51 83 404 384 385 75 60 411 61 58 54 59 76 122 333 44 86 176

One-to-n matrix alignment; reference matrix: oligos_7nt_test_vs_ctrl_m5_shift0 ; 4 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=24; shift=0; ncol=24; wwttaaaTTTTTAAAAAAATttww ; Alignment reference a 371 384 215 195 701 710 729 153 148 97 126 153 843 867 908 841 845 806 811 161 183 179 344 342 c 186 173 100 90 90 104 84 78 52 42 63 66 42 69 49 62 69 87 70 71 77 97 186 221 g 164 159 82 93 107 75 87 53 73 43 50 49 61 52 50 58 56 54 69 73 100 79 189 163 t 384 389 708 727 207 216 205 821 832 923 866 837 159 117 98 144 135 158 155 800 745 750 386 379

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=1/3; ncol2=24; w=0; offset=0; strand=D; shift=0; score= 1; wwttaaaTTTTTAAAAAAATttww ; cor=; Ncor= a 371 384 215 195 701 710 729 153 148 97 126 153 843 867 908 841 845 806 811 161 183 179 344 342 c 186 173 100 90 90 104 84 78 52 42 63 66 42 69 49 62 69 87 70 71 77 97 186 221 g 164 159 82 93 107 75 87 53 73 43 50 49 61 52 50 58 56 54 69 73 100 79 189 163 t 384 389 708 727 207 216 205 821 832 923 866 837 159 117 98 144 135 158 155 800 745 750 386 379

oligos_7nt_test_vs_ctrl_m4_shift0 (oligos_7nt_test_vs_ctrl_m4)
; oligos_7nt_test_vs_ctrl_m5 versus oligos_7nt_test_vs_ctrl_m4; m=2/3; ncol2=24; w=0; offset=0; strand=D; shift=0; score=0.896165; wwttAAAAtTTTAAAAAAATtaww ; cor=; Ncor= a 429 442 242 218 862 887 856 894 233 180 195 202 929 931 972 963 952 912 953 194 224 804 382 401 c 189 186 133 94 81 92 90 81 90 46 73 96 61 78 62 76 52 76 61 76 91 91 228 277 g 162 189 95 85 84 78 88 77 66 68 69 60 72 61 59 61 70 68 58 81 103 106 245 177 t 431 394 741 814 184 154 177 159 822 917 874 853 149 141 118 111 137 155 139 860 793 210 356 356

oligos_7nt_test_vs_ctrl_m1_shift0 (oligos_7nt_test_vs_ctrl_m1)
; oligos_7nt_test_vs_ctrl_m5 versus oligos_7nt_test_vs_ctrl_m1; m=3/3; ncol2=24; w=0; offset=0; strand=D; shift=0; score=0.843171; wwAaATTTTTTTAAAAAAATtTww ; cor=; Ncor= a 359 362 701 671 685 139 156 112 119 104 122 143 750 789 810 775 781 709 739 160 173 174 335 326 c 127 150 65 91 90 73 65 55 55 50 46 56 56 48 41 55 57 75 54 71 69 64 157 193 g 193 158 64 70 70 55 76 57 55 41 48 56 56 46 50 55 55 65 73 90 91 65 150 126 t 326 335 175 173 160 738 708 781 776 810 789 750 143 122 104 120 112 156 139 684 672 702 363 360

One-to-n matrix alignment; reference matrix: oligos_6nt_test_vs_ctrl_m2_shift0 ; 2 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_test_vs_ctrl_m2_shift0 (oligos_6nt_test_vs_ctrl_m2)
; oligos_6nt_test_vs_ctrl_m2; m=0 (reference); ncol1=17; shift=0; ncol=17; wwATTAcTTTTAAgAww ; Alignment reference a 611 596 1509 181 167 1450 204 188 90 136 206 1569 1736 423 1648 655 667 c 303 444 130 149 130 150 1347 101 74 93 105 178 37 139 84 377 392 g 390 386 123 140 163 155 134 52 76 81 131 129 98 1238 128 453 395 t 710 588 252 1544 1554 259 329 1673 1774 1704 1572 138 143 214 154 529 560

oligos_6nt_test_vs_ctrl_m2_shift0 (oligos_6nt_test_vs_ctrl_m2)
; oligos_6nt_test_vs_ctrl_m2 versus oligos_6nt_test_vs_ctrl_m2; m=1/1; ncol2=17; w=0; offset=0; strand=D; shift=0; score= 1; wwATTAcTTTTAAgAww ; cor=; Ncor= a 611 596 1509 181 167 1450 204 188 90 136 206 1569 1736 423 1648 655 667 c 303 444 130 149 130 150 1347 101 74 93 105 178 37 139 84 377 392 g 390 386 123 140 163 155 134 52 76 81 131 129 98 1238 128 453 395 t 710 588 252 1544 1554 259 329 1673 1774 1704 1572 138 143 214 154 529 560

One-to-n matrix alignment; reference matrix: oligos_6nt_test_vs_ctrl_m5_shift0 ; 3 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_test_vs_ctrl_m5_shift0 (oligos_6nt_test_vs_ctrl_m5)
; oligos_6nt_test_vs_ctrl_m5; m=0 (reference); ncol1=12; shift=0; ncol=12; scAAGGTCCTgg ; Alignment reference a 2108 2317 6746 8734 354 229 957 116 209 150 1391 2134 c 2468 3473 2019 142 107 262 295 9233 9246 251 1494 2168 g 2877 2352 600 743 9060 9058 262 241 78 99 4496 3423 t 2339 1650 427 173 271 243 8278 202 259 9292 2411 2067

oligos_6nt_test_vs_ctrl_m5_shift0 (oligos_6nt_test_vs_ctrl_m5)
; oligos_6nt_test_vs_ctrl_m5 versus oligos_6nt_test_vs_ctrl_m5; m=1/2; ncol2=12; w=0; offset=0; strand=D; shift=0; score= 1; scAAGGTCCTgg ; cor=; Ncor= a 2108 2317 6746 8734 354 229 957 116 209 150 1391 2134 c 2468 3473 2019 142 107 262 295 9233 9246 251 1494 2168 g 2877 2352 600 743 9060 9058 262 241 78 99 4496 3423 t 2339 1650 427 173 271 243 8278 202 259 9292 2411 2067

oligos_7nt_test_vs_ctrl_m2_rc_shift0 (oligos_7nt_test_vs_ctrl_m2_rc)
; oligos_6nt_test_vs_ctrl_m5 versus oligos_7nt_test_vs_ctrl_m2_rc; m=2/2; ncol2=13; w=0; offset=0; strand=R; shift=0; score=0.824335; bcCAGGTCCTtg ; cor=; Ncor= a 1025 1103 415 5261 91 110 711 138 98 78 451 1072 c 1607 2159 4772 114 233 146 128 5364 5376 175 426 1384 g 1494 1261 235 199 5220 5279 190 94 83 167 1235 1964 t 1554 1157 258 106 136 145 4651 84 123 5260 3568 1260

One-to-n matrix alignment; reference matrix: oligos_7nt_test_vs_ctrl_m3_shift1 ; 4 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=24; shift=1; ncol=25; -wwTttatTAAArAAAAwAAAArwa ; Alignment reference a 0 349 376 180 168 204 737 193 202 917 944 980 386 983 992 983 988 302 964 979 994 947 341 450 482 c 0 203 250 91 144 106 120 107 75 69 75 27 92 40 31 44 58 90 57 53 53 39 134 199 198 g 0 187 194 102 128 98 93 89 91 60 70 77 536 67 50 52 55 95 71 64 50 82 499 197 214 t 0 441 360 807 740 772 230 791 812 134 91 96 166 90 107 101 79 693 88 84 83 112 206 334 286

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=1/3; ncol2=24; w=0; offset=0; strand=D; shift=1; score= 1; -wwTttatTAAArAAAAwAAAArwa ; cor=; Ncor= a 0 349 376 180 168 204 737 193 202 917 944 980 386 983 992 983 988 302 964 979 994 947 341 450 482 c 0 203 250 91 144 106 120 107 75 69 75 27 92 40 31 44 58 90 57 53 53 39 134 199 198 g 0 187 194 102 128 98 93 89 91 60 70 77 536 67 50 52 55 95 71 64 50 82 499 197 214 t 0 441 360 807 740 772 230 791 812 134 91 96 166 90 107 101 79 693 88 84 83 112 206 334 286

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=2/3; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.775782; -hhttatwAAAAwAAAAAmAAAAaa ; cor=; Ncor= a 0 480 402 283 288 889 325 437 1224 1321 1337 1366 695 1353 1333 1368 1345 1347 726 1338 1325 1295 1272 801 787 c 0 383 387 151 151 307 138 198 99 57 70 25 119 47 71 47 39 51 541 57 47 70 80 252 241 g 0 241 242 227 115 93 78 79 50 45 32 55 85 53 49 31 43 53 95 32 59 75 68 204 201 t 0 425 498 868 975 240 988 815 156 106 90 83 630 76 76 83 102 78 167 102 98 89 109 272 300

oligos_6nt_test_vs_ctrl_m1_rc_shift0 (oligos_6nt_test_vs_ctrl_m1_rc)
; oligos_7nt_test_vs_ctrl_m3 versus oligos_6nt_test_vs_ctrl_m1_rc; m=3/3; ncol2=24; w=-1; offset=-1; strand=R; shift=0; score=0.667524; ygTcTtAAAAAArAAAAwwAwAwa- ; cor=; Ncor= a 123 146 62 75 51 85 480 513 534 532 504 519 260 525 518 522 513 246 235 494 215 457 282 270 0 c 183 107 29 407 23 141 24 29 22 20 23 12 51 26 20 17 27 31 25 27 27 38 79 100 0 g 86 201 25 36 11 25 33 23 19 21 27 19 216 23 28 21 27 33 36 24 68 40 89 92 0 t 210 148 486 84 517 351 65 37 27 29 48 52 75 28 36 42 35 292 306 57 292 67 152 140 0

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=24; shift=0; ncol=24; wwAaATTTTTTTAAAAAAATtTww ; Alignment reference a 359 362 701 671 685 139 156 112 119 104 122 143 750 789 810 775 781 709 739 160 173 174 335 326 c 127 150 65 91 90 73 65 55 55 50 46 56 56 48 41 55 57 75 54 71 69 64 157 193 g 193 158 64 70 70 55 76 57 55 41 48 56 56 46 50 55 55 65 73 90 91 65 150 126 t 326 335 175 173 160 738 708 781 776 810 789 750 143 122 104 120 112 156 139 684 672 702 363 360
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=1/3; ncol2=24; w=0; offset=0; strand=D; shift=0; score= 1; wwAaATTTTTTTAAAAAAATtTww ; cor=; Ncor= a 359 362 701 671 685 139 156 112 119 104 122 143 750 789 810 775 781 709 739 160 173 174 335 326 c 127 150 65 91 90 73 65 55 55 50 46 56 56 48 41 55 57 75 54 71 69 64 157 193 g 193 158 64 70 70 55 76 57 55 41 48 56 56 46 50 55 55 65 73 90 91 65 150 126 t 326 335 175 173 160 738 708 781 776 810 789 750 143 122 104 120 112 156 139 684 672 702 363 360
oligos_7nt_test_vs_ctrl_m5_shift0 (oligos_7nt_test_vs_ctrl_m5)				; oligos_7nt_test_vs_ctrl_m1 versus oligos_7nt_test_vs_ctrl_m5; m=2/3; ncol2=24; w=0; offset=0; strand=D; shift=0; score=0.843171; wwttaaaTTTTTAAAAAAATttww ; cor=; Ncor= a 371 384 215 195 701 710 729 153 148 97 126 153 843 867 908 841 845 806 811 161 183 179 344 342 c 186 173 100 90 90 104 84 78 52 42 63 66 42 69 49 62 69 87 70 71 77 97 186 221 g 164 159 82 93 107 75 87 53 73 43 50 49 61 52 50 58 56 54 69 73 100 79 189 163 t 384 389 708 727 207 216 205 821 832 923 866 837 159 117 98 144 135 158 155 800 745 750 386 379
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=3/3; ncol2=24; w=0; offset=0; strand=D; shift=0; score=0.717768; wwttAAAAtTTTAAAAAAATtaww ; cor=; Ncor= a 429 442 242 218 862 887 856 894 233 180 195 202 929 931 972 963 952 912 953 194 224 804 382 401 c 189 186 133 94 81 92 90 81 90 46 73 96 61 78 62 76 52 76 61 76 91 91 228 277 g 162 189 95 85 84 78 88 77 66 68 69 60 72 61 59 61 70 68 58 81 103 106 245 177 t 431 394 741 814 184 154 177 159 822 917 874 853 149 141 118 111 137 155 139 860 793 210 356 356

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=24; shift=1; ncol=25; -twTwTwwTTTTyTTTTTTaAgAcr ; Alignment reference a 0 140 152 67 292 57 306 292 35 42 36 28 75 52 48 29 27 37 65 351 517 84 486 148 210 c 0 92 89 40 68 24 36 33 27 21 28 23 216 19 27 21 19 23 33 25 11 36 25 201 86 g 0 100 79 38 27 27 25 31 27 17 20 26 51 12 23 20 22 29 24 141 23 407 29 107 183 t 0 270 282 457 215 494 235 246 513 522 518 525 260 519 504 532 534 513 480 85 51 75 62 146 123
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=1/3; ncol2=24; w=0; offset=0; strand=D; shift=1; score= 1; -twTwTwwTTTTyTTTTTTaAgAcr ; cor=; Ncor= a 0 140 152 67 292 57 306 292 35 42 36 28 75 52 48 29 27 37 65 351 517 84 486 148 210 c 0 92 89 40 68 24 36 33 27 21 28 23 216 19 27 21 19 23 33 25 11 36 25 201 86 g 0 100 79 38 27 27 25 31 27 17 20 26 51 12 23 20 22 29 24 141 23 407 29 107 183 t 0 270 282 457 215 494 235 246 513 522 518 525 260 519 504 532 534 513 480 85 51 75 62 146 123
oligos_6nt_test_vs_ctrl_m4_rc_shift1 (oligos_6nt_test_vs_ctrl_m4_rc)				; oligos_6nt_test_vs_ctrl_m1 versus oligos_6nt_test_vs_ctrl_m4_rc; m=2/3; ncol2=24; w=0; offset=0; strand=R; shift=1; score=0.763909; -ttTTTTkTTTTTwTTTTwataadd ; cor=; Ncor= a 0 300 272 109 89 98 102 167 78 102 83 76 76 630 83 90 106 156 815 988 240 975 868 498 425 c 0 201 204 68 75 59 32 95 53 43 31 49 53 85 55 32 45 50 79 78 93 115 227 242 241 g 0 241 252 80 70 47 57 541 51 39 47 71 47 119 25 70 57 99 198 138 307 151 151 387 383 t 0 787 801 1272 1295 1325 1338 726 1347 1345 1368 1333 1353 695 1366 1337 1321 1224 437 325 889 288 283 402 480
oligos_7nt_test_vs_ctrl_m3_rc_shift0 (oligos_7nt_test_vs_ctrl_m3_rc)				; oligos_6nt_test_vs_ctrl_m1 versus oligos_7nt_test_vs_ctrl_m3_rc; m=3/3; ncol2=24; w=-1; offset=-1; strand=R; shift=0; score=0.667524; twyTTTTwTTTTyTTTAataaAww- ; cor=; Ncor= a 286 334 206 112 83 84 88 693 79 101 107 90 166 96 91 134 812 791 230 772 740 807 360 441 0 c 214 197 499 82 50 64 71 95 55 52 50 67 536 77 70 60 91 89 93 98 128 102 194 187 0 g 198 199 134 39 53 53 57 90 58 44 31 40 92 27 75 69 75 107 120 106 144 91 250 203 0 t 482 450 341 947 994 979 964 302 988 983 992 983 386 980 944 917 202 193 737 204 168 180 376 349 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_6nt_test_vs_ctrl_m4_shift0 (oligos_6nt_test_vs_ctrl_m4)				; oligos_6nt_test_vs_ctrl_m4; m=0 (reference); ncol1=24; shift=0; ncol=24; hhttatwAAAAwAAAAAmAAAAaa ; Alignment reference a 480 402 283 288 889 325 437 1224 1321 1337 1366 695 1353 1333 1368 1345 1347 726 1338 1325 1295 1272 801 787 c 383 387 151 151 307 138 198 99 57 70 25 119 47 71 47 39 51 541 57 47 70 80 252 241 g 241 242 227 115 93 78 79 50 45 32 55 85 53 49 31 43 53 95 32 59 75 68 204 201 t 425 498 868 975 240 988 815 156 106 90 83 630 76 76 83 102 78 167 102 98 89 109 272 300
oligos_6nt_test_vs_ctrl_m4_shift0 (oligos_6nt_test_vs_ctrl_m4)				; oligos_6nt_test_vs_ctrl_m4 versus oligos_6nt_test_vs_ctrl_m4; m=1/3; ncol2=24; w=0; offset=0; strand=D; shift=0; score= 1; hhttatwAAAAwAAAAAmAAAAaa ; cor=; Ncor= a 480 402 283 288 889 325 437 1224 1321 1337 1366 695 1353 1333 1368 1345 1347 726 1338 1325 1295 1272 801 787 c 383 387 151 151 307 138 198 99 57 70 25 119 47 71 47 39 51 541 57 47 70 80 252 241 g 241 242 227 115 93 78 79 50 45 32 55 85 53 49 31 43 53 95 32 59 75 68 204 201 t 425 498 868 975 240 988 815 156 106 90 83 630 76 76 83 102 78 167 102 98 89 109 272 300
oligos_7nt_test_vs_ctrl_m3_shift0 (oligos_7nt_test_vs_ctrl_m3)				; oligos_6nt_test_vs_ctrl_m4 versus oligos_7nt_test_vs_ctrl_m3; m=2/3; ncol2=24; w=0; offset=0; strand=D; shift=0; score=0.775782; wwTttatTAAArAAAAwAAAArwa ; cor=; Ncor= a 349 376 180 168 204 737 193 202 917 944 980 386 983 992 983 988 302 964 979 994 947 341 450 482 c 203 250 91 144 106 120 107 75 69 75 27 92 40 31 44 58 90 57 53 53 39 134 199 198 g 187 194 102 128 98 93 89 91 60 70 77 536 67 50 52 55 95 71 64 50 82 499 197 214 t 441 360 807 740 772 230 791 812 134 91 96 166 90 107 101 79 693 88 84 83 112 206 334 286
oligos_6nt_test_vs_ctrl_m1_rc_shift0 (oligos_6nt_test_vs_ctrl_m1_rc)				; oligos_6nt_test_vs_ctrl_m4 versus oligos_6nt_test_vs_ctrl_m1_rc; m=3/3; ncol2=24; w=0; offset=0; strand=R; shift=0; score=0.763909; ygTcTtAAAAAArAAAAwwAwAwa ; cor=; Ncor= a 123 146 62 75 51 85 480 513 534 532 504 519 260 525 518 522 513 246 235 494 215 457 282 270 c 183 107 29 407 23 141 24 29 22 20 23 12 51 26 20 17 27 31 25 27 27 38 79 100 g 86 201 25 36 11 25 33 23 19 21 27 19 216 23 28 21 27 33 36 24 68 40 89 92 t 210 148 486 84 517 351 65 37 27 29 48 52 75 28 36 42 35 292 306 57 292 67 152 140

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=24; shift=0; ncol=24; wwttAAAAtTTTAAAAAAATtaww ; Alignment reference a 429 442 242 218 862 887 856 894 233 180 195 202 929 931 972 963 952 912 953 194 224 804 382 401 c 189 186 133 94 81 92 90 81 90 46 73 96 61 78 62 76 52 76 61 76 91 91 228 277 g 162 189 95 85 84 78 88 77 66 68 69 60 72 61 59 61 70 68 58 81 103 106 245 177 t 431 394 741 814 184 154 177 159 822 917 874 853 149 141 118 111 137 155 139 860 793 210 356 356
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=1/4; ncol2=24; w=0; offset=0; strand=D; shift=0; score= 1; wwttAAAAtTTTAAAAAAATtaww ; cor=; Ncor= a 429 442 242 218 862 887 856 894 233 180 195 202 929 931 972 963 952 912 953 194 224 804 382 401 c 189 186 133 94 81 92 90 81 90 46 73 96 61 78 62 76 52 76 61 76 91 91 228 277 g 162 189 95 85 84 78 88 77 66 68 69 60 72 61 59 61 70 68 58 81 103 106 245 177 t 431 394 741 814 184 154 177 159 822 917 874 853 149 141 118 111 137 155 139 860 793 210 356 356
oligos_7nt_test_vs_ctrl_m5_shift0 (oligos_7nt_test_vs_ctrl_m5)				; oligos_7nt_test_vs_ctrl_m4 versus oligos_7nt_test_vs_ctrl_m5; m=2/4; ncol2=24; w=0; offset=0; strand=D; shift=0; score=0.896165; wwttaaaTTTTTAAAAAAATttww ; cor=; Ncor= a 371 384 215 195 701 710 729 153 148 97 126 153 843 867 908 841 845 806 811 161 183 179 344 342 c 186 173 100 90 90 104 84 78 52 42 63 66 42 69 49 62 69 87 70 71 77 97 186 221 g 164 159 82 93 107 75 87 53 73 43 50 49 61 52 50 58 56 54 69 73 100 79 189 163 t 384 389 708 727 207 216 205 821 832 923 866 837 159 117 98 144 135 158 155 800 745 750 386 379
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=3/4; ncol2=24; w=0; offset=0; strand=D; shift=0; score=0.717768; wwAaATTTTTTTAAAAAAATtTww ; cor=; Ncor= a 359 362 701 671 685 139 156 112 119 104 122 143 750 789 810 775 781 709 739 160 173 174 335 326 c 127 150 65 91 90 73 65 55 55 50 46 56 56 48 41 55 57 75 54 71 69 64 157 193 g 193 158 64 70 70 55 76 57 55 41 48 56 56 46 50 55 55 65 73 90 91 65 150 126 t 326 335 175 173 160 738 708 781 776 810 789 750 143 122 104 120 112 156 139 684 672 702 363 360
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=4/4; ncol2=24; w=0; offset=1; strand=R; shift=1; score=0.703348; -wwTATAATTTAATAAAAAgtAAw ; cor=; Ncor= a 0 190 200 75 408 64 398 406 82 69 84 378 449 83 425 382 430 406 418 102 98 430 379 186 c 0 71 90 47 30 38 41 24 20 36 34 66 15 23 23 59 35 39 21 54 34 30 42 106 g 0 115 84 31 37 41 55 32 39 56 42 26 21 28 36 46 26 41 30 267 80 41 38 77 t 0 169 171 392 70 402 51 83 404 384 385 75 60 411 61 58 54 59 76 122 333 44 86 176

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=24; shift=0; ncol=24; wwttaaaTTTTTAAAAAAATttww ; Alignment reference a 371 384 215 195 701 710 729 153 148 97 126 153 843 867 908 841 845 806 811 161 183 179 344 342 c 186 173 100 90 90 104 84 78 52 42 63 66 42 69 49 62 69 87 70 71 77 97 186 221 g 164 159 82 93 107 75 87 53 73 43 50 49 61 52 50 58 56 54 69 73 100 79 189 163 t 384 389 708 727 207 216 205 821 832 923 866 837 159 117 98 144 135 158 155 800 745 750 386 379
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=1/3; ncol2=24; w=0; offset=0; strand=D; shift=0; score= 1; wwttaaaTTTTTAAAAAAATttww ; cor=; Ncor= a 371 384 215 195 701 710 729 153 148 97 126 153 843 867 908 841 845 806 811 161 183 179 344 342 c 186 173 100 90 90 104 84 78 52 42 63 66 42 69 49 62 69 87 70 71 77 97 186 221 g 164 159 82 93 107 75 87 53 73 43 50 49 61 52 50 58 56 54 69 73 100 79 189 163 t 384 389 708 727 207 216 205 821 832 923 866 837 159 117 98 144 135 158 155 800 745 750 386 379
oligos_7nt_test_vs_ctrl_m4_shift0 (oligos_7nt_test_vs_ctrl_m4)				; oligos_7nt_test_vs_ctrl_m5 versus oligos_7nt_test_vs_ctrl_m4; m=2/3; ncol2=24; w=0; offset=0; strand=D; shift=0; score=0.896165; wwttAAAAtTTTAAAAAAATtaww ; cor=; Ncor= a 429 442 242 218 862 887 856 894 233 180 195 202 929 931 972 963 952 912 953 194 224 804 382 401 c 189 186 133 94 81 92 90 81 90 46 73 96 61 78 62 76 52 76 61 76 91 91 228 277 g 162 189 95 85 84 78 88 77 66 68 69 60 72 61 59 61 70 68 58 81 103 106 245 177 t 431 394 741 814 184 154 177 159 822 917 874 853 149 141 118 111 137 155 139 860 793 210 356 356
oligos_7nt_test_vs_ctrl_m1_shift0 (oligos_7nt_test_vs_ctrl_m1)				; oligos_7nt_test_vs_ctrl_m5 versus oligos_7nt_test_vs_ctrl_m1; m=3/3; ncol2=24; w=0; offset=0; strand=D; shift=0; score=0.843171; wwAaATTTTTTTAAAAAAATtTww ; cor=; Ncor= a 359 362 701 671 685 139 156 112 119 104 122 143 750 789 810 775 781 709 739 160 173 174 335 326 c 127 150 65 91 90 73 65 55 55 50 46 56 56 48 41 55 57 75 54 71 69 64 157 193 g 193 158 64 70 70 55 76 57 55 41 48 56 56 46 50 55 55 65 73 90 91 65 150 126 t 326 335 175 173 160 738 708 781 776 810 789 750 143 122 104 120 112 156 139 684 672 702 363 360

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=24; shift=1; ncol=25; -wwTttatTAAArAAAAwAAAArwa ; Alignment reference a 0 349 376 180 168 204 737 193 202 917 944 980 386 983 992 983 988 302 964 979 994 947 341 450 482 c 0 203 250 91 144 106 120 107 75 69 75 27 92 40 31 44 58 90 57 53 53 39 134 199 198 g 0 187 194 102 128 98 93 89 91 60 70 77 536 67 50 52 55 95 71 64 50 82 499 197 214 t 0 441 360 807 740 772 230 791 812 134 91 96 166 90 107 101 79 693 88 84 83 112 206 334 286
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=1/3; ncol2=24; w=0; offset=0; strand=D; shift=1; score= 1; -wwTttatTAAArAAAAwAAAArwa ; cor=; Ncor= a 0 349 376 180 168 204 737 193 202 917 944 980 386 983 992 983 988 302 964 979 994 947 341 450 482 c 0 203 250 91 144 106 120 107 75 69 75 27 92 40 31 44 58 90 57 53 53 39 134 199 198 g 0 187 194 102 128 98 93 89 91 60 70 77 536 67 50 52 55 95 71 64 50 82 499 197 214 t 0 441 360 807 740 772 230 791 812 134 91 96 166 90 107 101 79 693 88 84 83 112 206 334 286
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=2/3; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.775782; -hhttatwAAAAwAAAAAmAAAAaa ; cor=; Ncor= a 0 480 402 283 288 889 325 437 1224 1321 1337 1366 695 1353 1333 1368 1345 1347 726 1338 1325 1295 1272 801 787 c 0 383 387 151 151 307 138 198 99 57 70 25 119 47 71 47 39 51 541 57 47 70 80 252 241 g 0 241 242 227 115 93 78 79 50 45 32 55 85 53 49 31 43 53 95 32 59 75 68 204 201 t 0 425 498 868 975 240 988 815 156 106 90 83 630 76 76 83 102 78 167 102 98 89 109 272 300
oligos_6nt_test_vs_ctrl_m1_rc_shift0 (oligos_6nt_test_vs_ctrl_m1_rc)				; oligos_7nt_test_vs_ctrl_m3 versus oligos_6nt_test_vs_ctrl_m1_rc; m=3/3; ncol2=24; w=-1; offset=-1; strand=R; shift=0; score=0.667524; ygTcTtAAAAAArAAAAwwAwAwa- ; cor=; Ncor= a 123 146 62 75 51 85 480 513 534 532 504 519 260 525 518 522 513 246 235 494 215 457 282 270 0 c 183 107 29 407 23 141 24 29 22 20 23 12 51 26 20 17 27 31 25 27 27 38 79 100 0 g 86 201 25 36 11 25 33 23 19 21 27 19 216 23 28 21 27 33 36 24 68 40 89 92 0 t 210 148 486 84 517 351 65 37 27 29 48 52 75 28 36 42 35 292 306 57 292 67 152 140 0