Tandem Repeats Finder Program written by: Gary Benson Program in Bioinformatics Boston University Version 4.09 Sequence: VEPZ01008890.1 Hibiscus syriacus cultivar Beakdansim tig00112155_pilon, whole genome shotgun sequence Parameters: 2 7 7 80 10 50 1000 Pmatch=0.80,Pindel=0.10 tuple sizes 0,4,5,7 tuple distances 0, 29, 159, 1000 Length: 142419 ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33 Found at i:4611 original size:21 final size:21 Alignment explanation
Indices: 4585--4624 Score: 62 Period size: 21 Copynumber: 1.9 Consensus size: 21 4575 CCCCCTTTGA * 4585 AGGGGAACCGATTCCCCCCAC 1 AGGGGAACCGATACCCCCCAC * 4606 AGGGGAATCGATACCCCCC 1 AGGGGAACCGATACCCCCC 4625 TGGGGTTCTG Statistics Matches: 17, Mismatches: 2, Indels: 0 0.89 0.11 0.00 Matches are distributed among these distances: 21 17 1.00 ACGTcount: A:0.25, C:0.40, G:0.25, T:0.10 Consensus pattern (21 bp): AGGGGAACCGATACCCCCCAC Found at i:10997 original size:19 final size:18 Alignment explanation
Indices: 10973--11015 Score: 52 Period size: 19 Copynumber: 2.3 Consensus size: 18 10963 CTCCTCGGAT 10973 TCAAAC-TTAAAAAAGATAA 1 TCAAACATTAAAAAA-A-AA 10992 TCAAACATTTAAAAAAAAA 1 TCAAACA-TTAAAAAAAAA 11011 TCAAA 1 TCAAA 11016 GGAACTTCTA Statistics Matches: 22, Mismatches: 0, Indels: 4 0.85 0.00 0.15 Matches are distributed among these distances: 19 13 0.59 20 1 0.05 21 8 0.36 ACGTcount: A:0.65, C:0.12, G:0.02, T:0.21 Consensus pattern (18 bp): TCAAACATTAAAAAAAAA Found at i:11963 original size:24 final size:24 Alignment explanation
Indices: 11937--12012 Score: 143 Period size: 24 Copynumber: 3.2 Consensus size: 24 11927 AGTTCGATTG * 11937 AAGCCTAAAATTTGAGCTCAATTG 1 AAGCCTAAAATTTGAGCTCAATTA 11961 AAGCCTAAAATTTGAGCTCAATTA 1 AAGCCTAAAATTTGAGCTCAATTA 11985 AAGCCTAAAATTTGAGCTCAATTA 1 AAGCCTAAAATTTGAGCTCAATTA 12009 AAGC 1 AAGC 12013 GAAAGAATAG Statistics Matches: 51, Mismatches: 1, Indels: 0 0.98 0.02 0.00 Matches are distributed among these distances: 24 51 1.00 ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28 Consensus pattern (24 bp): AAGCCTAAAATTTGAGCTCAATTA Found at i:15345 original size:21 final size:21 Alignment explanation
Indices: 15321--15386 Score: 71 Period size: 21 Copynumber: 3.2 Consensus size: 21 15311 TATCGCAAAT 15321 TCGCGTTGCGATAGTTGAAAA 1 TCGCGTTGCGATAGTTGAAAA * ** ** 15342 TCGCGTTGCGAT-TTTCCATT 1 TCGCGTTGCGATAGTTGAAAA * 15362 TCGCGTTGCAATAGTTGAAAA 1 TCGCGTTGCGATAGTTGAAAA 15383 TCGC 1 TCGC 15387 AACGCGATTT Statistics Matches: 33, Mismatches: 11, Indels: 2 0.72 0.24 0.04 Matches are distributed among these distances: 20 14 0.42 21 19 0.58 ACGTcount: A:0.23, C:0.20, G:0.24, T:0.33 Consensus pattern (21 bp): TCGCGTTGCGATAGTTGAAAA Found at i:15367 original size:20 final size:20 Alignment explanation
Indices: 15342--15434 Score: 87 Period size: 20 Copynumber: 4.6 Consensus size: 20 15332 TAGTTGAAAA 15342 TCGCGTTGCGATTTTCCATT 1 TCGCGTTGCGATTTTCCATT * * ** ** 15362 TCGCGTTGCAATAGTTGAAAA 1 TCGCGTTGCGAT-TTTCCATT *** * 15383 TCGCAACGCGATTTTTCATT 1 TCGCGTTGCGATTTTCCATT 15403 TCGCGTTGCGATTTTCCATT 1 TCGCGTTGCGATTTTCCATT 15423 TCGCGTTGCGAT 1 TCGCGTTGCGAT 15435 AGTCTATAGT Statistics Matches: 53, Mismatches: 19, Indels: 2 0.72 0.26 0.03 Matches are distributed among these distances: 20 42 0.79 21 11 0.21 ACGTcount: A:0.17, C:0.23, G:0.22, T:0.39 Consensus pattern (20 bp): TCGCGTTGCGATTTTCCATT Found at i:15377 original size:41 final size:41 Alignment explanation
Indices: 15320--15411 Score: 139 Period size: 41 Copynumber: 2.2 Consensus size: 41 15310 CTATCGCAAA * *** 15320 TTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCAT 1 TTCGCGTTGCAATAGTTGAAAATCGCAACGCGATTTTCCAT * 15361 TTCGCGTTGCAATAGTTGAAAATCGCAACGCGATTTTTCAT 1 TTCGCGTTGCAATAGTTGAAAATCGCAACGCGATTTTCCAT 15402 TTCGCGTTGC 1 TTCGCGTTGC 15412 GATTTTCCAT Statistics Matches: 46, Mismatches: 5, Indels: 0 0.90 0.10 0.00 Matches are distributed among these distances: 41 46 1.00 ACGTcount: A:0.21, C:0.21, G:0.23, T:0.36 Consensus pattern (41 bp): TTCGCGTTGCAATAGTTGAAAATCGCAACGCGATTTTCCAT Found at i:15545 original size:6 final size:6 Alignment explanation
Indices: 15534--15573 Score: 59 Period size: 6 Copynumber: 7.2 Consensus size: 6 15524 GTGTCGAAGA 15534 CACGAC CACGAC CACGAC CACGAC C-CGAC C-CGAC C-CGAC C 1 CACGAC CACGAC CACGAC CACGAC CACGAC CACGAC CACGAC C 15574 CGAGACGGAC Statistics Matches: 34, Mismatches: 0, Indels: 1 0.97 0.00 0.03 Matches are distributed among these distances: 5 15 0.44 6 19 0.56 ACGTcount: A:0.28, C:0.55, G:0.17, T:0.00 Consensus pattern (6 bp): CACGAC Found at i:15564 original size:5 final size:5 Alignment explanation
Indices: 15536--15576 Score: 55 Period size: 5 Copynumber: 7.6 Consensus size: 5 15526 GTCGAAGACA 15536 CGACC ACGACC ACGACC ACGACC CGACC CGACC CGACC CGA 1 CGACC -CGACC -CGACC -CGACC CGACC CGACC CGACC CGA 15577 GACGGACGAC Statistics Matches: 35, Mismatches: 0, Indels: 1 0.97 0.00 0.03 Matches are distributed among these distances: 5 18 0.51 6 17 0.49 ACGTcount: A:0.27, C:0.54, G:0.20, T:0.00 Consensus pattern (5 bp): CGACC Found at i:16073 original size:6 final size:6 Alignment explanation
Indices: 16064--16090 Score: 54 Period size: 6 Copynumber: 4.5 Consensus size: 6 16054 GTCCGTCTCG 16064 GGTCGT GGTCGT GGTCGT GGTCGT GGT 1 GGTCGT GGTCGT GGTCGT GGTCGT GGT 16091 AATACGTGTC Statistics Matches: 21, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 6 21 1.00 ACGTcount: A:0.00, C:0.15, G:0.52, T:0.33 Consensus pattern (6 bp): GGTCGT Found at i:16218 original size:22 final size:22 Alignment explanation
Indices: 16191--16243 Score: 97 Period size: 22 Copynumber: 2.4 Consensus size: 22 16181 AATTCGGAAA 16191 ATCGCAACGACAACTGTAGACT 1 ATCGCAACGACAACTGTAGACT * 16213 ATCGCAACAACAACTGTAGACT 1 ATCGCAACGACAACTGTAGACT 16235 ATCGCAACG 1 ATCGCAACG 16244 CGAAATGGAA Statistics Matches: 29, Mismatches: 2, Indels: 0 0.94 0.06 0.00 Matches are distributed among these distances: 22 29 1.00 ACGTcount: A:0.38, C:0.28, G:0.17, T:0.17 Consensus pattern (22 bp): ATCGCAACGACAACTGTAGACT Found at i:17495 original size:24 final size:20 Alignment explanation
Indices: 17438--17514 Score: 68 Period size: 20 Copynumber: 3.7 Consensus size: 20 17428 TTCCCCTTGA * 17438 AGTGCATCGATGCATTCTAC 1 AGTGCATCGATGCATCCTAC * 17458 AGTGTATCGATGCATCCCTTAAC 1 AGTGCATCGATGCAT-CC-T-AC * 17481 ATGTGCATCGATGCACTCCT-T 1 A-GTGCATCGATGCA-TCCTAC 17502 A-TGCATCGATGCA 1 AGTGCATCGATGCA 17515 CTAATTGCAT Statistics Matches: 48, Mismatches: 4, Indels: 11 0.76 0.06 0.17 Matches are distributed among these distances: 19 12 0.25 20 14 0.29 21 2 0.04 22 1 0.02 23 4 0.08 24 14 0.29 25 1 0.02 ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30 Consensus pattern (20 bp): AGTGCATCGATGCATCCTAC Found at i:20321 original size:26 final size:26 Alignment explanation
Indices: 20285--20343 Score: 109 Period size: 26 Copynumber: 2.3 Consensus size: 26 20275 TAGAAGAATG 20285 TAAACCTTGTCGATTGAAAAATACAA 1 TAAACCTTGTCGATTGAAAAATACAA 20311 TAAACCTTGTCGATTGAAAAATACAA 1 TAAACCTTGTCGATTGAAAAATACAA * 20337 AAAACCT 1 TAAACCT 20344 CCCAGTAAAT Statistics Matches: 32, Mismatches: 1, Indels: 0 0.97 0.03 0.00 Matches are distributed among these distances: 26 32 1.00 ACGTcount: A:0.47, C:0.17, G:0.10, T:0.25 Consensus pattern (26 bp): TAAACCTTGTCGATTGAAAAATACAA Found at i:23880 original size:13 final size:13 Alignment explanation
Indices: 23862--23888 Score: 54 Period size: 13 Copynumber: 2.1 Consensus size: 13 23852 AAGATGAGAT 23862 GAGGCTGGAAAAA 1 GAGGCTGGAAAAA 23875 GAGGCTGGAAAAA 1 GAGGCTGGAAAAA 23888 G 1 G 23889 TTTGAAAATT Statistics Matches: 14, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 13 14 1.00 ACGTcount: A:0.44, C:0.07, G:0.41, T:0.07 Consensus pattern (13 bp): GAGGCTGGAAAAA Found at i:26263 original size:5 final size:5 Alignment explanation
Indices: 26253--26279 Score: 54 Period size: 5 Copynumber: 5.4 Consensus size: 5 26243 TCATATTATC 26253 ATAAA ATAAA ATAAA ATAAA ATAAA AT 1 ATAAA ATAAA ATAAA ATAAA ATAAA AT 26280 TGTCCATGGA Statistics Matches: 22, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 5 22 1.00 ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22 Consensus pattern (5 bp): ATAAA Found at i:28227 original size:3 final size:3 Alignment explanation
Indices: 28221--28254 Score: 68 Period size: 3 Copynumber: 11.3 Consensus size: 3 28211 CAATACTGGA 28221 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A 1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A 28255 GAAAACTCAC Statistics Matches: 31, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 3 31 1.00 ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00 Consensus pattern (3 bp): AAG Found at i:29902 original size:17 final size:17 Alignment explanation
Indices: 29880--29922 Score: 86 Period size: 17 Copynumber: 2.5 Consensus size: 17 29870 AATATGTATT 29880 TAATTATTTGATTTATA 1 TAATTATTTGATTTATA 29897 TAATTATTTGATTTATA 1 TAATTATTTGATTTATA 29914 TAATTATTT 1 TAATTATTT 29923 AATTAATGAC Statistics Matches: 26, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 17 26 1.00 ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60 Consensus pattern (17 bp): TAATTATTTGATTTATA Found at i:30086 original size:27 final size:29 Alignment explanation
Indices: 30056--30109 Score: 76 Period size: 27 Copynumber: 1.9 Consensus size: 29 30046 TAGTAATAAA * 30056 ATAAATATAAATTTTAA-A-TTATTTATG 1 ATAAAAATAAATTTTAATAGTTATTTATG * 30083 ATAAAAATAATTTTTAATAGTTATTTA 1 ATAAAAATAAATTTTAATAGTTATTTA 30110 ATTTGAAATA Statistics Matches: 23, Mismatches: 2, Indels: 2 0.85 0.07 0.07 Matches are distributed among these distances: 27 15 0.65 28 1 0.04 29 7 0.30 ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48 Consensus pattern (29 bp): ATAAAAATAAATTTTAATAGTTATTTATG Found at i:31326 original size:23 final size:23 Alignment explanation
Indices: 31278--31326 Score: 62 Period size: 23 Copynumber: 2.1 Consensus size: 23 31268 AACGTGCCAC * * * 31278 AAAACATAGATAAACGTGTAATA 1 AAAACAAAGATAAACATGTAACA * 31301 AAAACAAAGATAAACATGTTACA 1 AAAACAAAGATAAACATGTAACA 31324 AAA 1 AAA 31327 TATATTTATT Statistics Matches: 22, Mismatches: 4, Indels: 0 0.85 0.15 0.00 Matches are distributed among these distances: 23 22 1.00 ACGTcount: A:0.61, C:0.10, G:0.10, T:0.18 Consensus pattern (23 bp): AAAACAAAGATAAACATGTAACA Found at i:35125 original size:30 final size:30 Alignment explanation
Indices: 35091--35165 Score: 132 Period size: 30 Copynumber: 2.5 Consensus size: 30 35081 AACGTAAGAA * 35091 ATGTTCTTGGTGTTTTTCTAAGTTCAAGCG 1 ATGTTCTTGGTGTTCTTCTAAGTTCAAGCG 35121 ATGTTCTTGGTGTTCTTCTAAGTTCAAGCG 1 ATGTTCTTGGTGTTCTTCTAAGTTCAAGCG * 35151 ATGTACTTGGTGTTC 1 ATGTTCTTGGTGTTC 35166 CTCAAAAATC Statistics Matches: 43, Mismatches: 2, Indels: 0 0.96 0.04 0.00 Matches are distributed among these distances: 30 43 1.00 ACGTcount: A:0.16, C:0.15, G:0.24, T:0.45 Consensus pattern (30 bp): ATGTTCTTGGTGTTCTTCTAAGTTCAAGCG Found at i:42566 original size:24 final size:23 Alignment explanation
Indices: 42539--42589 Score: 66 Period size: 23 Copynumber: 2.2 Consensus size: 23 42529 TTTTGTAGGG * 42539 TATTGTTTTGGTAAATTTTTTAAT 1 TATTGTTTTAGTAAA-TTTTTAAT * * 42563 TATTGTTTTATTGAATTTTTAAT 1 TATTGTTTTAGTAAATTTTTAAT 42586 TATT 1 TATT 42590 AAAAGTTATA Statistics Matches: 24, Mismatches: 3, Indels: 1 0.86 0.11 0.04 Matches are distributed among these distances: 23 12 0.50 24 12 0.50 ACGTcount: A:0.25, C:0.00, G:0.10, T:0.65 Consensus pattern (23 bp): TATTGTTTTAGTAAATTTTTAAT Found at i:42902 original size:49 final size:50 Alignment explanation
Indices: 42856--42952 Score: 128 Period size: 54 Copynumber: 1.9 Consensus size: 50 42846 TATTTTATAA 42856 TTTTT-TAATAATTAA-AA-GATTCAACAAAATAATATTATATAATTTAT 1 TTTTTATAATAATTAATAAGGATTCAACAAAATAATATTATATAATTTAT * 42903 TTTTTAATAATATTTAATAATCGGGATTCAACAAAATAATATTATATAAT 1 TTTTT-ATAATAATTAATAA---GGATTCAACAAAATAATATTATATAAT 42953 CGAGAGAGTA Statistics Matches: 42, Mismatches: 1, Indels: 7 0.84 0.02 0.14 Matches are distributed among these distances: 47 5 0.12 49 9 0.21 50 2 0.05 54 26 0.62 ACGTcount: A:0.47, C:0.05, G:0.04, T:0.43 Consensus pattern (50 bp): TTTTTATAATAATTAATAAGGATTCAACAAAATAATATTATATAATTTAT Found at i:43661 original size:2 final size:2 Alignment explanation
Indices: 43654--43700 Score: 87 Period size: 2 Copynumber: 24.0 Consensus size: 2 43644 ATGAAAATTA 43654 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT 1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT 43696 A- AT AT 1 AT AT AT 43701 CTTTATGATT Statistics Matches: 44, Mismatches: 0, Indels: 2 0.96 0.00 0.04 Matches are distributed among these distances: 1 1 0.02 2 43 0.98 ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49 Consensus pattern (2 bp): AT Found at i:44509 original size:3 final size:3 Alignment explanation
Indices: 44501--44528 Score: 56 Period size: 3 Copynumber: 9.3 Consensus size: 3 44491 GACTTTCAAG 44501 TCT TCT TCT TCT TCT TCT TCT TCT TCT T 1 TCT TCT TCT TCT TCT TCT TCT TCT TCT T 44529 TTTTTTTTTT Statistics Matches: 25, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 3 25 1.00 ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68 Consensus pattern (3 bp): TCT Found at i:45562 original size:16 final size:16 Alignment explanation
Indices: 45541--45574 Score: 59 Period size: 16 Copynumber: 2.1 Consensus size: 16 45531 TTACTATTCA * 45541 CGTGAATAGTGAATTT 1 CGTGAATAGTGAAATT 45557 CGTGAATAGTGAAATT 1 CGTGAATAGTGAAATT 45573 CG 1 CG 45575 GTCGGCGATA Statistics Matches: 17, Mismatches: 1, Indels: 0 0.94 0.06 0.00 Matches are distributed among these distances: 16 17 1.00 ACGTcount: A:0.32, C:0.09, G:0.26, T:0.32 Consensus pattern (16 bp): CGTGAATAGTGAAATT Found at i:57080 original size:31 final size:31 Alignment explanation
Indices: 57045--57105 Score: 77 Period size: 31 Copynumber: 2.0 Consensus size: 31 57035 TCACGAGCCT * * * 57045 AAAATTTTCAAGCTCGATTCGAACTCGAAAG 1 AAAATATTCAAACTCGACTCGAACTCGAAAG * * 57076 AAAATATTGAAACTTGACTCGAACTCGAAA 1 AAAATATTCAAACTCGACTCGAACTCGAAA 57106 AGGCTCAAAC Statistics Matches: 25, Mismatches: 5, Indels: 0 0.83 0.17 0.00 Matches are distributed among these distances: 31 25 1.00 ACGTcount: A:0.43, C:0.18, G:0.15, T:0.25 Consensus pattern (31 bp): AAAATATTCAAACTCGACTCGAACTCGAAAG Found at i:58341 original size:14 final size:14 Alignment explanation
Indices: 58324--58362 Score: 51 Period size: 14 Copynumber: 2.8 Consensus size: 14 58314 AGATTTAGGG * 58324 TTTATGGTTTATGA 1 TTTATGGTTTATAA * 58338 TTTATAGTTTATAA 1 TTTATGGTTTATAA * 58352 TTTAGGGTTTA 1 TTTATGGTTTA 58363 GGGTGTAATC Statistics Matches: 21, Mismatches: 4, Indels: 0 0.84 0.16 0.00 Matches are distributed among these distances: 14 21 1.00 ACGTcount: A:0.26, C:0.00, G:0.18, T:0.56 Consensus pattern (14 bp): TTTATGGTTTATAA Found at i:58492 original size:13 final size:13 Alignment explanation
Indices: 58469--58506 Score: 58 Period size: 13 Copynumber: 2.8 Consensus size: 13 58459 GAGTTTATAA 58469 TTTATGATTTAGGG 1 TTTA-GATTTAGGG 58483 TTTAGATTTAGGG 1 TTTAGATTTAGGG 58496 TTTAGAATTTA 1 TTTAG-ATTTA 58507 TAATTTAGGG Statistics Matches: 23, Mismatches: 0, Indels: 2 0.92 0.00 0.08 Matches are distributed among these distances: 13 14 0.61 14 9 0.39 ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50 Consensus pattern (13 bp): TTTAGATTTAGGG Found at i:58514 original size:21 final size:21 Alignment explanation
Indices: 58494--58549 Score: 60 Period size: 21 Copynumber: 2.7 Consensus size: 21 58484 TTAGATTTAG * 58494 GGTTTAGAATTTATAATTTAG 1 GGTTTAGAATTTAGAATTTAG * * * 58515 GGTTTATAGTTTAGGATTTAG 1 GGTTTAGAATTTAGAATTTAG * 58536 GGTTTA-AGTTTAGA 1 GGTTTAGAATTTAGA 58550 GTGTAATCTA Statistics Matches: 30, Mismatches: 5, Indels: 1 0.83 0.14 0.03 Matches are distributed among these distances: 20 7 0.23 21 23 0.77 ACGTcount: A:0.29, C:0.00, G:0.25, T:0.46 Consensus pattern (21 bp): GGTTTAGAATTTAGAATTTAG Found at i:58540 original size:14 final size:14 Alignment explanation
Indices: 58469--58541 Score: 67 Period size: 14 Copynumber: 5.3 Consensus size: 14 58459 GAGTTTATAA * 58469 TTTATGATTTAGGG 1 TTTAGGATTTAGGG 58483 TTTA-GATTTAGGG 1 TTTAGGATTTAGGG * *** 58496 TTTAGAATTTATAA 1 TTTAGGATTTAGGG * ** 58510 TTTAGGGTTTATAG 1 TTTAGGATTTAGGG 58524 TTTAGGATTTAGGG 1 TTTAGGATTTAGGG 58538 TTTA 1 TTTA 58542 AGTTTAGAGT Statistics Matches: 48, Mismatches: 10, Indels: 2 0.80 0.17 0.03 Matches are distributed among these distances: 13 13 0.27 14 35 0.73 ACGTcount: A:0.26, C:0.00, G:0.25, T:0.49 Consensus pattern (14 bp): TTTAGGATTTAGGG Found at i:58548 original size:55 final size:55 Alignment explanation
Indices: 58432--58541 Score: 148 Period size: 55 Copynumber: 2.0 Consensus size: 55 58422 CACATAATTG * ** * * 58432 GATTAAGGGTTTAGGGTTTATGACTTAGAGTTTATAATTTATGATTTAGGGTTTA 1 GATTTAGGGTTTAGAATTTATAACTTAGAGTTTATAATTTAGGATTTAGGGTTTA * * * 58487 GATTTAGGGTTTAGAATTTATAATTTAGGGTTTATAGTTTAGGATTTAGGGTTTA 1 GATTTAGGGTTTAGAATTTATAACTTAGAGTTTATAATTTAGGATTTAGGGTTTA 58542 AGTTTAGAGT Statistics Matches: 47, Mismatches: 8, Indels: 0 0.85 0.15 0.00 Matches are distributed among these distances: 55 47 1.00 ACGTcount: A:0.27, C:0.01, G:0.25, T:0.46 Consensus pattern (55 bp): GATTTAGGGTTTAGAATTTATAACTTAGAGTTTATAATTTAGGATTTAGGGTTTA Found at i:59789 original size:42 final size:41 Alignment explanation
Indices: 59742--59831 Score: 112 Period size: 42 Copynumber: 2.1 Consensus size: 41 59732 CCACTAGGGG * 59742 CACTGAATATTTGTCCCGAATGACCAC-TATGTCCCGAAGGAC 1 CACTGAATA--TGTCCCGAAGGACCACATATGTCCCGAAGGAC * 59784 CACTG-ATATGTCCCGAAGGACCACAGATATGTCTCGAAGGAC 1 CACTGAATATGTCCCGAAGGACCAC--ATATGTCCCGAAGGAC 59826 CACTGA 1 CACTGA 59832 TAATCCCTCG Statistics Matches: 42, Mismatches: 2, Indels: 7 0.82 0.04 0.14 Matches are distributed among these distances: 39 15 0.36 41 3 0.07 42 24 0.57 ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21 Consensus pattern (41 bp): CACTGAATATGTCCCGAAGGACCACATATGTCCCGAAGGAC Found at i:59795 original size:21 final size:21 Alignment explanation
Indices: 59753--59833 Score: 114 Period size: 21 Copynumber: 4.0 Consensus size: 21 59743 ACTGAATATT * 59753 TGTCCCGAATGACCAC---TA 1 TGTCCCGAAGGACCACTGATA 59771 TGTCCCGAAGGACCACTGATA 1 TGTCCCGAAGGACCACTGATA * 59792 TGTCCCGAAGGACCACAGATA 1 TGTCCCGAAGGACCACTGATA * 59813 TGTCTCGAAGGACCACTGATA 1 TGTCCCGAAGGACCACTGATA 59834 ATCCCTCGAC Statistics Matches: 56, Mismatches: 4, Indels: 3 0.89 0.06 0.05 Matches are distributed among these distances: 18 15 0.27 21 41 0.73 ACGTcount: A:0.30, C:0.28, G:0.22, T:0.20 Consensus pattern (21 bp): TGTCCCGAAGGACCACTGATA Found at i:61417 original size:24 final size:20 Alignment explanation
Indices: 61360--61417 Score: 62 Period size: 20 Copynumber: 2.7 Consensus size: 20 61350 TTCCCTTTGA * 61360 AGTGCATCGATGCATTTTAC 1 AGTGCATCGATGCATTTAAC * 61380 AGTGTATCGATGCATCCCTTAAC 1 AGTGCATCGATGCAT---TTAAC 61403 ATGTGCATCGATGCA 1 A-GTGCATCGATGCA 61418 CTACCCCATG Statistics Matches: 31, Mismatches: 3, Indels: 4 0.82 0.08 0.11 Matches are distributed among these distances: 20 14 0.45 23 5 0.16 24 12 0.39 ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31 Consensus pattern (20 bp): AGTGCATCGATGCATTTAAC Found at i:61516 original size:18 final size:19 Alignment explanation
Indices: 61477--61516 Score: 57 Period size: 18 Copynumber: 2.2 Consensus size: 19 61467 AGGTGTATCA 61477 ATGCACTCCCTATGCATCG 1 ATGCACTCCCTATGCATCG 61496 ATGCACT-CCT-TGCATTCG 1 ATGCACTCCCTATGCA-TCG 61514 ATG 1 ATG 61517 TTCATTTATT Statistics Matches: 20, Mismatches: 0, Indels: 3 0.87 0.00 0.13 Matches are distributed among these distances: 17 4 0.20 18 9 0.45 19 7 0.35 ACGTcount: A:0.20, C:0.33, G:0.17, T:0.30 Consensus pattern (19 bp): ATGCACTCCCTATGCATCG Found at i:61719 original size:17 final size:17 Alignment explanation
Indices: 61697--61735 Score: 78 Period size: 17 Copynumber: 2.3 Consensus size: 17 61687 ATAACACTTT 61697 ACCATCTCCCATAATTC 1 ACCATCTCCCATAATTC 61714 ACCATCTCCCATAATTC 1 ACCATCTCCCATAATTC 61731 ACCAT 1 ACCAT 61736 AATTCTTGAA Statistics Matches: 22, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 17 22 1.00 ACGTcount: A:0.31, C:0.41, G:0.00, T:0.28 Consensus pattern (17 bp): ACCATCTCCCATAATTC Found at i:64974 original size:18 final size:18 Alignment explanation
Indices: 64951--65022 Score: 90 Period size: 18 Copynumber: 3.8 Consensus size: 18 64941 TGAATATTTG * 64951 TCCCGAATGACCATTATA 1 TCCCGAATGACCACTATA 64969 TCCCGAATGACCACTATA 1 TCCCGAATGACCACTATA * 64987 TCCCGAAGGACCACTGATA 1 TCCCGAATGACCACT-ATA * 65006 TGTCCCGAAGGACCACT 1 --TCCCGAATGACCACT 65023 GATAATCCCT Statistics Matches: 49, Mismatches: 2, Indels: 3 0.91 0.04 0.06 Matches are distributed among these distances: 18 31 0.63 19 3 0.06 21 15 0.31 ACGTcount: A:0.31, C:0.32, G:0.17, T:0.21 Consensus pattern (18 bp): TCCCGAATGACCACTATA Found at i:75454 original size:13 final size:13 Alignment explanation
Indices: 75435--75471 Score: 56 Period size: 13 Copynumber: 2.8 Consensus size: 13 75425 AACCCGACCC * 75435 GACCCGACTCGTT 1 GACCCGACCCGTT * 75448 TACCCGACCCGTT 1 GACCCGACCCGTT 75461 GACCCGACCCG 1 GACCCGACCCG 75472 ACACGTTGAC Statistics Matches: 21, Mismatches: 3, Indels: 0 0.88 0.12 0.00 Matches are distributed among these distances: 13 21 1.00 ACGTcount: A:0.16, C:0.46, G:0.22, T:0.16 Consensus pattern (13 bp): GACCCGACCCGTT Found at i:75454 original size:18 final size:17 Alignment explanation
Indices: 75430--75500 Score: 78 Period size: 18 Copynumber: 4.2 Consensus size: 17 75420 GTCATAACCC 75430 GACCCGACCCGACTCGTT 1 GACCCGACCCGAC-CGTT * 75448 TACCCGA--C--CCGTT 1 GACCCGACCCGACCGTT 75461 GACCCGACCCGACACGTT 1 GACCCGACCCGAC-CGTT 75479 GACCCGACCCGACCCGTT 1 GACCCGACCCGA-CCGTT 75497 GACC 1 GACC 75501 GTTAACCCGT Statistics Matches: 45, Mismatches: 2, Indels: 12 0.76 0.03 0.20 Matches are distributed among these distances: 13 10 0.22 14 1 0.02 15 1 0.02 16 1 0.02 17 1 0.02 18 30 0.67 19 1 0.02 ACGTcount: A:0.18, C:0.46, G:0.21, T:0.14 Consensus pattern (17 bp): GACCCGACCCGACCGTT Found at i:75465 original size:31 final size:31 Alignment explanation
Indices: 75430--75489 Score: 102 Period size: 31 Copynumber: 1.9 Consensus size: 31 75420 GTCATAACCC * * 75430 GACCCGACCCGACTCGTTTACCCGACCCGTT 1 GACCCGACCCGACACGTTGACCCGACCCGTT 75461 GACCCGACCCGACACGTTGACCCGACCCG 1 GACCCGACCCGACACGTTGACCCGACCCG 75490 ACCCGTTGAC Statistics Matches: 27, Mismatches: 2, Indels: 0 0.93 0.07 0.00 Matches are distributed among these distances: 31 27 1.00 ACGTcount: A:0.18, C:0.47, G:0.22, T:0.13 Consensus pattern (31 bp): GACCCGACCCGACACGTTGACCCGACCCGTT Found at i:78026 original size:24 final size:24 Alignment explanation
Indices: 77999--78089 Score: 112 Period size: 24 Copynumber: 3.8 Consensus size: 24 77989 TCAAATTTGA * * 77999 ATTCTGTTATGATACCTGACCTGG 1 ATTCTGATATGATACTTGACCTGG * * 78023 ATTCTGATCTGATA-TTGACATGG 1 ATTCTGATATGATACTTGACCTGG * * 78046 ATTCTGATCTGATACATGACCTGG 1 ATTCTGATATGATACTTGACCTGG * 78070 ATTCTGATATAATACTTGAC 1 ATTCTGATATGATACTTGAC 78090 TTGAATTATG Statistics Matches: 57, Mismatches: 9, Indels: 2 0.84 0.13 0.03 Matches are distributed among these distances: 23 21 0.37 24 36 0.63 ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37 Consensus pattern (24 bp): ATTCTGATATGATACTTGACCTGG Found at i:78213 original size:35 final size:35 Alignment explanation
Indices: 78166--78240 Score: 132 Period size: 35 Copynumber: 2.1 Consensus size: 35 78156 TGGAGGAAGA * 78166 TTACTTGGAGGCTCCTCGGCTTTGTGCTCAGGGCC 1 TTACTTGGAGGCTCCTCGGCTTTGTGCTCAAGGCC * 78201 TTACTTGTAGGCTCCTCGGCTTTGTGCTCAAGGCC 1 TTACTTGGAGGCTCCTCGGCTTTGTGCTCAAGGCC 78236 TTACT 1 TTACT 78241 GTTCGTGACG Statistics Matches: 38, Mismatches: 2, Indels: 0 0.95 0.05 0.00 Matches are distributed among these distances: 35 38 1.00 ACGTcount: A:0.11, C:0.28, G:0.27, T:0.35 Consensus pattern (35 bp): TTACTTGGAGGCTCCTCGGCTTTGTGCTCAAGGCC Found at i:79532 original size:8 final size:8 Alignment explanation
Indices: 79519--79558 Score: 52 Period size: 8 Copynumber: 5.5 Consensus size: 8 79509 TCGTTTACCC 79519 GACCCGTT 1 GACCCGTT 79527 GACCC--- 1 GACCCGTT 79532 GACCCGTT 1 GACCCGTT 79540 GA-CCGTT 1 GACCCGTT 79547 GACCCGTT 1 GACCCGTT 79555 GACC 1 GACC 79559 AATGTTGACC Statistics Matches: 28, Mismatches: 0, Indels: 8 0.78 0.00 0.22 Matches are distributed among these distances: 5 5 0.18 7 7 0.25 8 16 0.57 ACGTcount: A:0.15, C:0.40, G:0.25, T:0.20 Consensus pattern (8 bp): GACCCGTT Found at i:79552 original size:15 final size:13 Alignment explanation
Indices: 79510--79558 Score: 62 Period size: 13 Copynumber: 3.6 Consensus size: 13 79500 CGACCCAACT * 79510 CGTTTACCCGACC 1 CGTTGACCCGACC 79523 CGTTGACCCGACC 1 CGTTGACCCGACC * 79536 CGTTGACCGTTGACC 1 CGTTGACC--CGACC 79551 CGTTGACC 1 CGTTGACC 79559 AATGTTGACC Statistics Matches: 32, Mismatches: 2, Indels: 2 0.89 0.06 0.06 Matches are distributed among these distances: 13 20 0.62 15 12 0.38 ACGTcount: A:0.14, C:0.41, G:0.22, T:0.22 Consensus pattern (13 bp): CGTTGACCCGACC Found at i:79883 original size:17 final size:17 Alignment explanation
Indices: 79861--79895 Score: 70 Period size: 17 Copynumber: 2.1 Consensus size: 17 79851 ACCCGATTCG 79861 ATCAGTTTATCGTAATT 1 ATCAGTTTATCGTAATT 79878 ATCAGTTTATCGTAATT 1 ATCAGTTTATCGTAATT 79895 A 1 A 79896 AGCTCCATTT Statistics Matches: 18, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 17 18 1.00 ACGTcount: A:0.31, C:0.11, G:0.11, T:0.46 Consensus pattern (17 bp): ATCAGTTTATCGTAATT Found at i:82077 original size:24 final size:24 Alignment explanation
Indices: 82050--82140 Score: 121 Period size: 24 Copynumber: 3.8 Consensus size: 24 82040 TCAAATTTGA * * 82050 ATTCTGTTATGATACCTGACCTGG 1 ATTCTGATATGATACTTGACCTGG * * 82074 ATTCTGATCTGATA-TTGACATGG 1 ATTCTGATATGATACTTGACCTGG * 82097 ATTCTGATATGATACATGACCTGG 1 ATTCTGATATGATACTTGACCTGG * 82121 ATTCTGATATAATACTTGAC 1 ATTCTGATATGATACTTGAC 82141 TTGAATTATG Statistics Matches: 57, Mismatches: 9, Indels: 2 0.84 0.13 0.03 Matches are distributed among these distances: 23 20 0.35 24 37 0.65 ACGTcount: A:0.27, C:0.16, G:0.19, T:0.37 Consensus pattern (24 bp): ATTCTGATATGATACTTGACCTGG Found at i:82265 original size:35 final size:35 Alignment explanation
Indices: 82218--82292 Score: 132 Period size: 35 Copynumber: 2.1 Consensus size: 35 82208 TGGAGGAAGA * * 82218 TTACTTGGAGGCTCCTCGGCTTTGTGCTCAGGGCC 1 TTACTTGCAGGCTCATCGGCTTTGTGCTCAGGGCC 82253 TTACTTGCAGGCTCATCGGCTTTGTGCTCAGGGCC 1 TTACTTGCAGGCTCATCGGCTTTGTGCTCAGGGCC 82288 TTACT 1 TTACT 82293 GTTCGTGACG Statistics Matches: 38, Mismatches: 2, Indels: 0 0.95 0.05 0.00 Matches are distributed among these distances: 35 38 1.00 ACGTcount: A:0.11, C:0.28, G:0.28, T:0.33 Consensus pattern (35 bp): TTACTTGCAGGCTCATCGGCTTTGTGCTCAGGGCC Found at i:84553 original size:6 final size:6 Alignment explanation
Indices: 84538--84623 Score: 86 Period size: 6 Copynumber: 14.5 Consensus size: 6 84528 GTTGTATATG * * * * 84538 TAATAA -AATAA TAATAT TAATAT TAATAA TAAAAA TAAAAA TAATAA 1 TAATAA TAATAA TAATAA TAATAA TAATAA TAATAA TAATAA TAATAA * * * 84585 TAATAA TAGTAA TAAAAA TAAAAA TAATAA -ATATAA TAA 1 TAATAA TAATAA TAATAA TAATAA TAATAA TA-ATAA TAA 84624 AAACCAAATG Statistics Matches: 69, Mismatches: 8, Indels: 6 0.83 0.10 0.07 Matches are distributed among these distances: 5 6 0.09 6 62 0.90 7 1 0.01 ACGTcount: A:0.69, C:0.00, G:0.01, T:0.30 Consensus pattern (6 bp): TAATAA Found at i:84567 original size:9 final size:9 Alignment explanation
Indices: 84538--84623 Score: 86 Period size: 9 Copynumber: 9.7 Consensus size: 9 84528 GTTGTATATG 84538 TAATAA-AA 1 TAATAATAA * 84546 TAATAATAT 1 TAATAATAA * 84555 TAATATTAA 1 TAATAATAA * 84564 TAATAAAAA 1 TAATAATAA * 84573 TAAAAATAA 1 TAATAATAA 84582 TAATAATAA 1 TAATAATAA * 84591 TAGTAATAA 1 TAATAATAA * * 84600 AAATAAAAA 1 TAATAATAA 84609 TAATAA-ATA 1 TAATAATA-A 84618 TAATAA 1 TAATAA 84624 AAACCAAATG Statistics Matches: 63, Mismatches: 13, Indels: 3 0.80 0.16 0.04 Matches are distributed among these distances: 8 7 0.11 9 56 0.89 ACGTcount: A:0.69, C:0.00, G:0.01, T:0.30 Consensus pattern (9 bp): TAATAATAA Found at i:84574 original size:15 final size:15 Alignment explanation
Indices: 84544--84623 Score: 88 Period size: 15 Copynumber: 5.3 Consensus size: 15 84534 TATGTAATAA ** 84544 AATAATAATATTAAT 1 AATAATAATAAAAAT * 84559 ATTAATAATAAAAAT 1 AATAATAATAAAAAT * * 84574 AAAAATAATAATAAT 1 AATAATAATAAAAAT * 84589 AATAGTAATAAAAAT 1 AATAATAATAAAAAT * * 84604 AAAAATAATAAATAT 1 AATAATAATAAAAAT 84619 AATAA 1 AATAA 84624 AAACCAAATG Statistics Matches: 52, Mismatches: 13, Indels: 0 0.80 0.20 0.00 Matches are distributed among these distances: 15 52 1.00 ACGTcount: A:0.69, C:0.00, G:0.01, T:0.30 Consensus pattern (15 bp): AATAATAATAAAAAT Found at i:84583 original size:30 final size:30 Alignment explanation
Indices: 84547--84623 Score: 111 Period size: 30 Copynumber: 2.6 Consensus size: 30 84537 GTAATAAAAT * * 84547 AATAATATTAATATTAATAATAAAAATAAA 1 AATAATAATAATAATAATAATAAAAATAAA * 84577 AATAATAATAATAATAGTAATAAAAATAAA 1 AATAATAATAATAATAATAATAAAAATAAA 84607 AATAATAA-ATATAATAA 1 AATAATAATA-ATAATAA 84624 AAACCAAATG Statistics Matches: 42, Mismatches: 4, Indels: 2 0.88 0.08 0.04 Matches are distributed among these distances: 29 1 0.02 30 41 0.98 ACGTcount: A:0.69, C:0.00, G:0.01, T:0.30 Consensus pattern (30 bp): AATAATAATAATAATAATAATAAAAATAAA Found at i:89493 original size:21 final size:21 Alignment explanation
Indices: 89467--89678 Score: 179 Period size: 21 Copynumber: 10.1 Consensus size: 21 89457 CATATTCGCA 89467 TTGCGATTTATTCCAAATTCG 1 TTGCGATTTATTCCAAATTCG * 89488 TTGCGATTTATTTCAAATTCG 1 TTGCGATTTATTCCAAATTCG * * 89509 TTGCGA--TAGTCCAAGTTCGCG 1 TTGCGATTTATTCCAAATT--CG * 89530 TTGCGATTTATTCCAAGTTCG 1 TTGCGATTTATTCCAAATTCG * * * 89551 TTGCGA--TAGTCGAAGTTCGCG 1 TTGCGATTTATTCCAAATT--CG 89572 TTGCGATTTATTCCAAATTCG 1 TTGCGATTTATTCCAAATTCG * * 89593 TTGCGA--TAGTCCAAGTTCGCG 1 TTGCGATTTATTCCAAATT--CG * 89614 TTGTGATTTATTCCAAATTCG 1 TTGCGATTTATTCCAAATTCG * * * 89635 TTGCGA--TAGTCGAAGTTCGCG 1 TTGCGATTTATTCCAAATT--CG 89656 TTGCGATTTATTCCAAATTCG 1 TTGCGATTTATTCCAAATTCG 89677 TT 1 TT 89679 TCTTAAGAAT Statistics Matches: 153, Mismatches: 22, Indels: 32 0.74 0.11 0.15 Matches are distributed among these distances: 19 34 0.22 21 84 0.55 23 35 0.23 ACGTcount: A:0.21, C:0.19, G:0.21, T:0.39 Consensus pattern (21 bp): TTGCGATTTATTCCAAATTCG Found at i:89532 original size:42 final size:42 Alignment explanation
Indices: 89486--89678 Score: 341 Period size: 42 Copynumber: 4.6 Consensus size: 42 89476 ATTCCAAATT * 89486 CGTTGCGATTTATTTCAAATTCGTTGCGATAGTCCAAGTTCG 1 CGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCG * * 89528 CGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTCG 1 CGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCG 89570 CGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCG 1 CGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCG * * 89612 CGTTGTGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCG 1 CGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCG 89654 CGTTGCGATTTATTCCAAATTCGTT 1 CGTTGCGATTTATTCCAAATTCGTT 89679 TCTTAAGAAT Statistics Matches: 143, Mismatches: 8, Indels: 0 0.95 0.05 0.00 Matches are distributed among these distances: 42 143 1.00 ACGTcount: A:0.21, C:0.19, G:0.22, T:0.38 Consensus pattern (42 bp): CGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCG Found at i:90257 original size:3 final size:3 Alignment explanation
Indices: 90249--90280 Score: 55 Period size: 3 Copynumber: 10.7 Consensus size: 3 90239 GGGTCGGGTC * 90249 GTG GTG GTG GTG GTG GTG GTG GTC GTG GTG GT 1 GTG GTG GTG GTG GTG GTG GTG GTG GTG GTG GT 90281 CGTGAATACC Statistics Matches: 27, Mismatches: 2, Indels: 0 0.93 0.07 0.00 Matches are distributed among these distances: 3 27 1.00 ACGTcount: A:0.00, C:0.03, G:0.62, T:0.34 Consensus pattern (3 bp): GTG Found at i:90281 original size:9 final size:9 Alignment explanation
Indices: 90249--90284 Score: 54 Period size: 9 Copynumber: 4.0 Consensus size: 9 90239 GGGTCGGGTC * 90249 GTGGTGGTG 1 GTGGTCGTG * 90258 GTGGTGGTG 1 GTGGTCGTG 90267 GTGGTCGTG 1 GTGGTCGTG 90276 GTGGTCGTG 1 GTGGTCGTG 90285 AATACCGAAA Statistics Matches: 26, Mismatches: 1, Indels: 0 0.96 0.04 0.00 Matches are distributed among these distances: 9 26 1.00 ACGTcount: A:0.00, C:0.06, G:0.61, T:0.33 Consensus pattern (9 bp): GTGGTCGTG Found at i:90916 original size:21 final size:21 Alignment explanation
Indices: 90890--90934 Score: 90 Period size: 21 Copynumber: 2.1 Consensus size: 21 90880 ATCTTCATTC 90890 AATGTCTAAAATTTTCATATA 1 AATGTCTAAAATTTTCATATA 90911 AATGTCTAAAATTTTCATATA 1 AATGTCTAAAATTTTCATATA 90932 AAT 1 AAT 90935 AAAATTATTC Statistics Matches: 24, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 21 24 1.00 ACGTcount: A:0.44, C:0.09, G:0.04, T:0.42 Consensus pattern (21 bp): AATGTCTAAAATTTTCATATA Found at i:95027 original size:20 final size:21 Alignment explanation
Indices: 94988--95037 Score: 59 Period size: 20 Copynumber: 2.5 Consensus size: 21 94978 TTCTCTAAAA 94988 TATAATATTATGAATATATTT 1 TATAATATTATGAATATATTT * * 95009 TATAATTTTA-GATTATATTT 1 TATAATATTATGAATATATTT * 95029 GAT-ATATTA 1 TATAATATTA 95038 AATAACATTT Statistics Matches: 25, Mismatches: 4, Indels: 2 0.81 0.13 0.06 Matches are distributed among these distances: 19 5 0.20 20 11 0.44 21 9 0.36 ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54 Consensus pattern (21 bp): TATAATATTATGAATATATTT Found at i:96734 original size:2 final size:2 Alignment explanation
Indices: 96729--96769 Score: 57 Period size: 2 Copynumber: 20.5 Consensus size: 2 96719 TTTAATTGAA * 96729 AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AGT AT AT -T AT A 1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT A 96770 GACATTTGGT Statistics Matches: 35, Mismatches: 2, Indels: 4 0.85 0.05 0.10 Matches are distributed among these distances: 1 1 0.03 2 32 0.91 3 2 0.06 ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46 Consensus pattern (2 bp): AT Found at i:97402 original size:17 final size:17 Alignment explanation
Indices: 97380--97416 Score: 74 Period size: 17 Copynumber: 2.2 Consensus size: 17 97370 TTTCAAATGA 97380 TTTTTTCTTCCAATTTT 1 TTTTTTCTTCCAATTTT 97397 TTTTTTCTTCCAATTTT 1 TTTTTTCTTCCAATTTT 97414 TTT 1 TTT 97417 GGTTGTTGTT Statistics Matches: 20, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 17 20 1.00 ACGTcount: A:0.11, C:0.16, G:0.00, T:0.73 Consensus pattern (17 bp): TTTTTTCTTCCAATTTT Found at i:102948 original size:23 final size:23 Alignment explanation
Indices: 102917--102971 Score: 94 Period size: 23 Copynumber: 2.4 Consensus size: 23 102907 GTTGTTAATT 102917 GTTACGATGTTAATATGATATTTC 1 GTTA-GATGTTAATATGATATTTC 102941 GTTAGATGTTAATATGATATTTC 1 GTTAGATGTTAATATGATATTTC 102964 GTTA-ATGT 1 GTTAGATGT 102972 AGGGATTCAA Statistics Matches: 31, Mismatches: 0, Indels: 2 0.94 0.00 0.06 Matches are distributed among these distances: 22 4 0.13 23 23 0.74 24 4 0.13 ACGTcount: A:0.29, C:0.05, G:0.18, T:0.47 Consensus pattern (23 bp): GTTAGATGTTAATATGATATTTC Found at i:103114 original size:22 final size:23 Alignment explanation
Indices: 103086--103132 Score: 60 Period size: 22 Copynumber: 2.1 Consensus size: 23 103076 TTTTTATTTT * 103086 TTCTAAAATATATATAT-AAATA 1 TTCTAAAATATAAATATAAAATA * * 103108 TTCTAAATTTTAAATATAAAATA 1 TTCTAAAATATAAATATAAAATA 103131 TT 1 TT 103133 AAAAAGTTAA Statistics Matches: 21, Mismatches: 3, Indels: 1 0.84 0.12 0.04 Matches are distributed among these distances: 22 14 0.67 23 7 0.33 ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45 Consensus pattern (23 bp): TTCTAAAATATAAATATAAAATA Found at i:106357 original size:15 final size:15 Alignment explanation
Indices: 106337--106371 Score: 61 Period size: 15 Copynumber: 2.3 Consensus size: 15 106327 TGCTCACCAT 106337 TCGAACAAACTTCAC 1 TCGAACAAACTTCAC * 106352 TCGAACAAGCTTCAC 1 TCGAACAAACTTCAC 106367 TCGAA 1 TCGAA 106372 GAGCCTTGCT Statistics Matches: 19, Mismatches: 1, Indels: 0 0.95 0.05 0.00 Matches are distributed among these distances: 15 19 1.00 ACGTcount: A:0.37, C:0.31, G:0.11, T:0.20 Consensus pattern (15 bp): TCGAACAAACTTCAC Found at i:107117 original size:117 final size:116 Alignment explanation
Indices: 106978--107283 Score: 350 Period size: 117 Copynumber: 2.6 Consensus size: 116 106968 ACCTTTGCAC * * * * * 106978 CGGAAACAC-TCAAGTTGCTCTCGCTTATTTACCCTCGGCTCT-TCAGCTTGGCC-CTTGGCTTT 1 CGGAAACACTTCAA-TGGCTCTCGCTTCTTTACCCTCGGCT-TAT-AGCTTCGCCAC-TCGCATT ** * * * 107040 CG-CACCGAGCTTTACTTCGGTGGTGCAATCTCGCACCTTGTGTTGTCCACCGCAT 62 -GTCACCGAGCCCTACTTCAGTGGTGCAATCTCGCACCTTGTGTTCTCCACCACAT * * 107095 TGGAAACACTTCAATGGCTCTCGCTTCTTTACCCTCGGCTTAGTTGCTTCGCCACTCGCATTGTC 1 CGGAAACACTTCAATGGCTCTCGCTTCTTTACCCTCGGCTTA-TAGCTTCGCCACTCGCATTGTC * * * 107160 ACCGAGCCCTGCTTCATTGGTGCAATCTCGCACCTTGTGTTCTCCATCACAT 65 ACCGAGCCCTACTTCAGTGGTGCAATCTCGCACCTTGTGTTCTCCACCACAT * * * * 107212 CGGAAATACTTCAATGGCTCTCGCTTCTTTATCCTCGGCTTAGTTGCTTCGCCACTCGCATTGGC 1 CGGAAACACTTCAATGGCTCTCGCTTCTTTACCCTCGGCTTA-TAGCTTCGCCACTCGCATTGTC 107277 ACCGAGC 65 ACCGAGC 107284 TTTGCTTTGT Statistics Matches: 165, Mismatches: 19, Indels: 10 0.85 0.10 0.05 Matches are distributed among these distances: 116 2 0.01 117 157 0.95 118 6 0.04 ACGTcount: A:0.16, C:0.33, G:0.20, T:0.32 Consensus pattern (116 bp): CGGAAACACTTCAATGGCTCTCGCTTCTTTACCCTCGGCTTATAGCTTCGCCACTCGCATTGTCA CCGAGCCCTACTTCAGTGGTGCAATCTCGCACCTTGTGTTCTCCACCACAT Found at i:107290 original size:117 final size:117 Alignment explanation
Indices: 107041--107290 Score: 392 Period size: 117 Copynumber: 2.1 Consensus size: 117 107031 CTTGGCTTTC * * * * * 107041 GCACCGAGCTTTACTTCGGTGGTGCAATCTCGCACCTTGTGTTGTCCACCGCATTGGAAACACTT 1 GCACCGAGCTTTGCTTCAGTGGTGCAATCTCGCACCTTGTGTTCTCCACCACATCGGAAACACTT 107106 CAATGGCTCTCGCTTCTTTACCCTCGGCTTAGTTGCTTCGCCACTCGCATTG 66 CAATGGCTCTCGCTTCTTTACCCTCGGCTTAGTTGCTTCGCCACTCGCATTG * ** * * * 107158 TCACCGAGCCCTGCTTCATTGGTGCAATCTCGCACCTTGTGTTCTCCATCACATCGGAAATACTT 1 GCACCGAGCTTTGCTTCAGTGGTGCAATCTCGCACCTTGTGTTCTCCACCACATCGGAAACACTT * 107223 CAATGGCTCTCGCTTCTTTATCCTCGGCTTAGTTGCTTCGCCACTCGCATTG 66 CAATGGCTCTCGCTTCTTTACCCTCGGCTTAGTTGCTTCGCCACTCGCATTG 107275 GCACCGAGCTTTGCTT 1 GCACCGAGCTTTGCTT 107291 TGTTTGGGCA Statistics Matches: 118, Mismatches: 15, Indels: 0 0.89 0.11 0.00 Matches are distributed among these distances: 117 118 1.00 ACGTcount: A:0.16, C:0.32, G:0.20, T:0.32 Consensus pattern (117 bp): GCACCGAGCTTTGCTTCAGTGGTGCAATCTCGCACCTTGTGTTCTCCACCACATCGGAAACACTT CAATGGCTCTCGCTTCTTTACCCTCGGCTTAGTTGCTTCGCCACTCGCATTG Found at i:107340 original size:117 final size:116 Alignment explanation
Indices: 107060--107369 Score: 365 Period size: 117 Copynumber: 2.6 Consensus size: 116 107050 TTTACTTCGG * * * * 107060 TGGTGCAATCTCGCACCTTGTGTTGTCCACCGCATTGGAAACACTTCAATGGCTCTCGCTTCTTT 1 TGGTGCAATCTCGCACCTTGTG-TCTCCATCACATAGGAAACACTTCAATGGCTCTCGCTTCTTT * 107125 ACCCTCGGCTTAGTTGCTTCGCCACTCGCATTGTCACCGAGCCCTGCTTCAT 65 ACCCTCGGCTTAGTTGCTTCGCCACTCGCATTGGCACCGAGCCCTGCTTCAT * * 107177 TGGTGCAATCTCGCACCTTGTGTTCTCCATCACATCGGAAATACTTCAATGGCTCTCGCTTCTTT 1 TGGTGCAATCTCGCACCTTGTG-TCTCCATCACATAGGAAACACTTCAATGGCTCTCGCTTCTTT * ** ** 107242 ATCCTCGGCTTAGTTGCTTCGCCACTCGCATTGGCACCGAGCTTTGCTTTGTT 65 ACCCTCGGCTTAGTTGCTTCGCCACTCGCATTGGCACCGAGCCCTGC-TTCAT * * * * * * * * 107295 TGG-GCAACTCTTGGC-CCTATGTG-CTCCTTGACATATGAAGCACTTCAGTGGATCTCGCTTGT 1 TGGTGCAA-TC-TCGCACCT-TGTGTCTCCATCACATAGGAAACACTTCAATGGCTCTCGCTTCT 107357 TTACCCTCGGCTT 63 TTACCCTCGGCTT 107370 TCCTGCACCA Statistics Matches: 167, Mismatches: 22, Indels: 8 0.85 0.11 0.04 Matches are distributed among these distances: 117 149 0.89 118 11 0.07 119 7 0.04 ACGTcount: A:0.15, C:0.31, G:0.20, T:0.34 Consensus pattern (116 bp): TGGTGCAATCTCGCACCTTGTGTCTCCATCACATAGGAAACACTTCAATGGCTCTCGCTTCTTTA CCCTCGGCTTAGTTGCTTCGCCACTCGCATTGGCACCGAGCCCTGCTTCAT Found at i:110636 original size:12 final size:12 Alignment explanation
Indices: 110619--110669 Score: 54 Period size: 12 Copynumber: 4.3 Consensus size: 12 110609 TTTAAAGAGG 110619 TTTTATATTTAA 1 TTTTATATTTAA 110631 TTTTATA-TTATA 1 TTTTATATTTA-A * 110643 TTTGAT-TTTAA 1 TTTTATATTTAA 110654 TTTTA-ATATTAA 1 TTTTATAT-TTAA 110666 TTTT 1 TTTT 110670 TTAAATAAAT Statistics Matches: 33, Mismatches: 2, Indels: 8 0.77 0.05 0.19 Matches are distributed among these distances: 11 9 0.27 12 24 0.73 ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67 Consensus pattern (12 bp): TTTTATATTTAA Found at i:110673 original size:14 final size:14 Alignment explanation
Indices: 110654--110702 Score: 52 Period size: 14 Copynumber: 3.8 Consensus size: 14 110644 TTGATTTTAA 110654 TTTTAATATTAATT 1 TTTTAATATTAATT 110668 TTTTAA-A-TAA-- 1 TTTTAATATTAATT * * 110678 ATTAAATATTAATT 1 TTTTAATATTAATT 110692 TTTTAATATTA 1 TTTTAATATTA 110703 TATTATAGAT Statistics Matches: 27, Mismatches: 4, Indels: 8 0.69 0.10 0.21 Matches are distributed among these distances: 10 4 0.15 11 1 0.04 12 6 0.22 13 1 0.04 14 15 0.56 ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57 Consensus pattern (14 bp): TTTTAATATTAATT Found at i:110756 original size:21 final size:19 Alignment explanation
Indices: 110718--110763 Score: 60 Period size: 19 Copynumber: 2.5 Consensus size: 19 110708 TAGATATTTA * 110718 ATTTTATATCATATAAATT 1 ATTTTATATAATATAAATT 110737 ATTTTATATAATATTAAA-- 1 ATTTTATATAATA-TAAATT 110755 ATTTTATAT 1 ATTTTATAT 110764 TTATTTTAAT Statistics Matches: 25, Mismatches: 1, Indels: 3 0.86 0.03 0.10 Matches are distributed among these distances: 18 9 0.36 19 12 0.48 20 4 0.16 ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54 Consensus pattern (19 bp): ATTTTATATAATATAAATT Found at i:111286 original size:31 final size:31 Alignment explanation
Indices: 111249--111308 Score: 93 Period size: 31 Copynumber: 1.9 Consensus size: 31 111239 TAGCTGTATT * * 111249 AATTATTTAAATTTCAGTATTGTAAAACTAA 1 AATTATTTAAATCTCAGTATTGCAAAACTAA * 111280 AATTATTTAAGTCTCAGTATTGCAAAACT 1 AATTATTTAAATCTCAGTATTGCAAAACT 111309 CTTTTAAGTT Statistics Matches: 26, Mismatches: 3, Indels: 0 0.90 0.10 0.00 Matches are distributed among these distances: 31 26 1.00 ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40 Consensus pattern (31 bp): AATTATTTAAATCTCAGTATTGCAAAACTAA Found at i:113243 original size:18 final size:18 Alignment explanation
Indices: 113212--113250 Score: 60 Period size: 18 Copynumber: 2.2 Consensus size: 18 113202 GTCCCAAAGG * * 113212 ACTATTTCCTGAAGGACC 1 ACTATATCCCGAAGGACC 113230 ACTATATCCCGAAGGACC 1 ACTATATCCCGAAGGACC 113248 ACT 1 ACT 113251 CCTTAAGAAC Statistics Matches: 19, Mismatches: 2, Indels: 0 0.90 0.10 0.00 Matches are distributed among these distances: 18 19 1.00 ACGTcount: A:0.31, C:0.31, G:0.15, T:0.23 Consensus pattern (18 bp): ACTATATCCCGAAGGACC Found at i:117834 original size:32 final size:32 Alignment explanation
Indices: 117798--117879 Score: 92 Period size: 32 Copynumber: 2.6 Consensus size: 32 117788 AATTGTTACA * 117798 CATTATCTAAATGTGACACTAACGCTCATATG 1 CATTATCTAAATGTAACACTAACGCTCATATG * * * * * 117830 CATTATCTGAATGTAACATTGACTCTGATATG 1 CATTATCTAAATGTAACACTAACGCTCATATG * * 117862 CATTATCTGAATATAACA 1 CATTATCTAAATGTAACA 117880 TTGACTCTAA Statistics Matches: 43, Mismatches: 7, Indels: 0 0.86 0.14 0.00 Matches are distributed among these distances: 32 43 1.00 ACGTcount: A:0.35, C:0.18, G:0.12, T:0.34 Consensus pattern (32 bp): CATTATCTAAATGTAACACTAACGCTCATATG Found at i:117865 original size:16 final size:18 Alignment explanation
Indices: 117835--117887 Score: 60 Period size: 16 Copynumber: 3.2 Consensus size: 18 117825 ATATGCATTA * 117835 TCTGAATGTAACATTGAC 1 TCTGAATATAACATTGAC * 117853 TCTG-ATAT-GCATT-A- 1 TCTGAATATAACATTGAC 117867 TCTGAATATAACATTGAC 1 TCTGAATATAACATTGAC 117885 TCT 1 TCT 117888 AATGTGTATT Statistics Matches: 28, Mismatches: 3, Indels: 8 0.72 0.08 0.21 Matches are distributed among these distances: 14 4 0.14 15 5 0.18 16 8 0.29 17 4 0.14 18 7 0.25 ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38 Consensus pattern (18 bp): TCTGAATATAACATTGAC Found at i:117880 original size:32 final size:32 Alignment explanation
Indices: 117825--117905 Score: 117 Period size: 32 Copynumber: 2.5 Consensus size: 32 117815 ACTAACGCTC * * 117825 ATATGCATTATCTGAATGTAACATTGACTCTG 1 ATATGCATTATCTGAATATAACATTGACTCTA 117857 ATATGCATTATCTGAATATAACATTGACTCTA 1 ATATGCATTATCTGAATATAACATTGACTCTA * * * 117889 ATGTGTATTATTTGAAT 1 ATATGCATTATCTGAAT 117906 GAAACACTAA Statistics Matches: 44, Mismatches: 5, Indels: 0 0.90 0.10 0.00 Matches are distributed among these distances: 32 44 1.00 ACGTcount: A:0.33, C:0.12, G:0.14, T:0.41 Consensus pattern (32 bp): ATATGCATTATCTGAATATAACATTGACTCTA Found at i:119668 original size:20 final size:21 Alignment explanation
Indices: 119643--119682 Score: 73 Period size: 21 Copynumber: 2.0 Consensus size: 21 119633 TTTACACCAA 119643 TTCAT-CCAGTATCGATACTG 1 TTCATCCCAGTATCGATACTG 119663 TTCATCCCAGTATCGATACT 1 TTCATCCCAGTATCGATACT 119683 CGAACCCATA Statistics Matches: 19, Mismatches: 0, Indels: 1 0.95 0.00 0.05 Matches are distributed among these distances: 20 5 0.26 21 14 0.74 ACGTcount: A:0.25, C:0.28, G:0.12, T:0.35 Consensus pattern (21 bp): TTCATCCCAGTATCGATACTG Found at i:121443 original size:20 final size:20 Alignment explanation
Indices: 121418--121510 Score: 105 Period size: 21 Copynumber: 4.5 Consensus size: 20 121408 TTTTCCCAAT 121418 TCGCAATGCGAATAAGTAAA 1 TCGCAATGCGAATAAGTAAA * ** * 121438 TCGCAACGCGAATTGGGAAA 1 TCGCAATGCGAATAAGTAAA 121458 TTCGCAATGCGAATAAGTAAA 1 -TCGCAATGCGAATAAGTAAA * * * 121479 TCGCAACGCGAATTGAGAAAA 1 TCGCAATGCGAA-TAAGTAAA 121500 TCGCAATGCGA 1 TCGCAATGCGA 121511 TACTAACTAT Statistics Matches: 59, Mismatches: 12, Indels: 3 0.80 0.16 0.04 Matches are distributed among these distances: 20 27 0.46 21 32 0.54 ACGTcount: A:0.40, C:0.18, G:0.24, T:0.18 Consensus pattern (20 bp): TCGCAATGCGAATAAGTAAA Found at i:121460 original size:41 final size:41 Alignment explanation
Indices: 121415--121510 Score: 174 Period size: 41 Copynumber: 2.3 Consensus size: 41 121405 CGATTTTCCC * 121415 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA 1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGAGA 121456 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGAGA 1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGAGA * 121497 AAATCGCAATGCGA 1 AATTCGCAATGCGA 121511 TACTAACTAT Statistics Matches: 53, Mismatches: 2, Indels: 0 0.96 0.04 0.00 Matches are distributed among these distances: 41 53 1.00 ACGTcount: A:0.41, C:0.18, G:0.23, T:0.19 Consensus pattern (41 bp): AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGAGA Found at i:121523 original size:41 final size:41 Alignment explanation
Indices: 121437--121571 Score: 132 Period size: 41 Copynumber: 3.3 Consensus size: 41 121427 GAATAAGTAA * * * 121437 ATCGCAACGCGAATTGGGAAATTCGCAATGCGA-A-TAAGT 1 ATCGCAACGCGAATTGAGAAAATCGCAATGCGATACTAACT 121476 AAATCGCAACGCGAATTGAGAAAATCGCAATGCGATACTAACT 1 --ATCGCAACGCGAATTGAGAAAATCGCAATGCGATACTAACT * * * * * * 121519 ATCGCAATGCGATAAT-AAAAAATCGCAACGAGATACTTACT 1 ATCGCAACGCGA-ATTGAGAAAATCGCAATGCGATACTAACT * 121560 TTCGCAACGCGA 1 ATCGCAACGCGA 121572 TACTGACTTT Statistics Matches: 80, Mismatches: 11, Indels: 6 0.82 0.11 0.06 Matches are distributed among these distances: 41 73 0.91 42 3 0.04 43 4 0.05 ACGTcount: A:0.39, C:0.21, G:0.20, T:0.20 Consensus pattern (41 bp): ATCGCAACGCGAATTGAGAAAATCGCAATGCGATACTAACT Found at i:121524 original size:20 final size:20 Alignment explanation
Indices: 121499--121593 Score: 91 Period size: 20 Copynumber: 4.7 Consensus size: 20 121489 AATTGAGAAA * 121499 ATCGCAATGCGATACTAACT 1 ATCGCAACGCGATACTAACT * * ** 121519 ATCGCAATGCGATAATAAAAA 1 ATCGCAACGCGATACT-AACT * * 121540 ATCGCAACGAGATACTTACT 1 ATCGCAACGCGATACTAACT * * 121560 TTCGCAACGCGATACTGACT 1 ATCGCAACGCGATACTAACT * 121580 TTCGCAACGCGATA 1 ATCGCAACGCGATA 121594 ATACATAATC Statistics Matches: 62, Mismatches: 12, Indels: 2 0.82 0.16 0.03 Matches are distributed among these distances: 20 47 0.76 21 15 0.24 ACGTcount: A:0.36, C:0.24, G:0.17, T:0.23 Consensus pattern (20 bp): ATCGCAACGCGATACTAACT Found at i:121809 original size:22 final size:22 Alignment explanation
Indices: 121781--121824 Score: 79 Period size: 22 Copynumber: 2.0 Consensus size: 22 121771 CACTCTCTCA 121781 CCCATCTCCGACGAAATCCGTC 1 CCCATCTCCGACGAAATCCGTC * 121803 CCCATCTCCGGCGAAATCCGTC 1 CCCATCTCCGACGAAATCCGTC 121825 TATCTAAATC Statistics Matches: 21, Mismatches: 1, Indels: 0 0.95 0.05 0.00 Matches are distributed among these distances: 22 21 1.00 ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18 Consensus pattern (22 bp): CCCATCTCCGACGAAATCCGTC Found at i:123440 original size:18 final size:18 Alignment explanation
Indices: 123419--123463 Score: 63 Period size: 18 Copynumber: 2.5 Consensus size: 18 123409 TCCACTTCGG * 123419 GAGCCATCACCTCGCCCA 1 GAGCCATCACCTCACCCA * * 123437 GAGCTATCACCTCACCTA 1 GAGCCATCACCTCACCCA 123455 GAGCCATCA 1 GAGCCATCA 123464 TCTGATCGAC Statistics Matches: 23, Mismatches: 4, Indels: 0 0.85 0.15 0.00 Matches are distributed among these distances: 18 23 1.00 ACGTcount: A:0.27, C:0.42, G:0.16, T:0.16 Consensus pattern (18 bp): GAGCCATCACCTCACCCA Found at i:123986 original size:20 final size:20 Alignment explanation
Indices: 123936--124002 Score: 82 Period size: 20 Copynumber: 3.4 Consensus size: 20 123926 TAGTTTACTT * 123936 TCGCAACACGAAAATGACTA 1 TCGCAACGCGAAAATGACTA * 123956 TCGCAACGCGAAAATGGCTA 1 TCGCAACGCGAAAATGACTA * ** 123976 TCGCAATGCG-AAATGAAAA 1 TCGCAACGCGAAAATGACTA 123995 TCGCAACG 1 TCGCAACG 124003 ACAAAATCGC Statistics Matches: 40, Mismatches: 7, Indels: 1 0.83 0.15 0.02 Matches are distributed among these distances: 19 13 0.32 20 27 0.68 ACGTcount: A:0.40, C:0.24, G:0.21, T:0.15 Consensus pattern (20 bp): TCGCAACGCGAAAATGACTA Found at i:123997 original size:19 final size:18 Alignment explanation
Indices: 123975--124070 Score: 75 Period size: 19 Copynumber: 5.6 Consensus size: 18 123965 GAAAATGGCT 123975 ATCGCAATGCGAAATGAAA 1 ATCGCAA-GCGAAATGAAA * 123994 ATCGCAA-CG--A-CAAA 1 ATCGCAAGCGAAATGAAA 124008 ATCGCAACGCGAAATG-AA 1 ATCGCAA-GCGAAATGAAA * 124026 ATCGCAA-CG--A-CAAA 1 ATCGCAAGCGAAATGAAA 124040 ATCGCAACGCGAAATGAAA 1 ATCGCAA-GCGAAATGAAA 124059 ATCGCAATGCGA 1 ATCGCAA-GCGA 124071 TTTGTGTTTC Statistics Matches: 61, Mismatches: 5, Indels: 22 0.69 0.06 0.25 Matches are distributed among these distances: 14 20 0.33 15 1 0.02 16 6 0.10 17 2 0.03 18 11 0.18 19 21 0.34 ACGTcount: A:0.46, C:0.23, G:0.20, T:0.11 Consensus pattern (18 bp): ATCGCAAGCGAAATGAAA Found at i:124010 original size:14 final size:14 Alignment explanation
Indices: 123991--124048 Score: 71 Period size: 14 Copynumber: 3.9 Consensus size: 14 123981 ATGCGAAATG 123991 AAAATCGCAACGAC 1 AAAATCGCAACGAC * 124005 AAAATCGCAACGCGAA 1 AAAATCGCAA--CGAC 124021 ATGAAATCGCAACGAC 1 A--AAATCGCAACGAC 124037 AAAATCGCAACG 1 AAAATCGCAACG 124049 CGAAATGAAA Statistics Matches: 38, Mismatches: 2, Indels: 8 0.79 0.04 0.17 Matches are distributed among these distances: 14 21 0.55 16 8 0.21 18 9 0.24 ACGTcount: A:0.48, C:0.26, G:0.17, T:0.09 Consensus pattern (14 bp): AAAATCGCAACGAC Found at i:124033 original size:32 final size:33 Alignment explanation
Indices: 123975--124065 Score: 166 Period size: 32 Copynumber: 2.8 Consensus size: 33 123965 GAAAATGGCT * 123975 ATCGCAATGCGAAATGAAAATCGCAACGACAAA 1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA 124008 ATCGCAACGCGAAATG-AAATCGCAACGACAAA 1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA 124040 ATCGCAACGCGAAATGAAAATCGCAA 1 ATCGCAACGCGAAATGAAAATCGCAA 124066 TGCGATTTGT Statistics Matches: 56, Mismatches: 1, Indels: 2 0.95 0.02 0.03 Matches are distributed among these distances: 32 32 0.57 33 24 0.43 ACGTcount: A:0.47, C:0.23, G:0.19, T:0.11 Consensus pattern (33 bp): ATCGCAACGCGAAATGAAAATCGCAACGACAAA Found at i:124120 original size:32 final size:32 Alignment explanation
Indices: 124077--124187 Score: 168 Period size: 32 Copynumber: 3.4 Consensus size: 32 124067 GCGATTTGTG * * 124077 TTTCGCGTTGCGATTTTGTCATTGCGATTTCA 1 TTTCGCATTGCGATTTTGTCGTTGCGATTTCA * * 124109 TTTTGCGTTGCGATTTTGTCGTTGCGATTTCA 1 TTTCGCATTGCGATTTTGTCGTTGCGATTTCA * 124141 TTTCGCATTCCGATTTTGTCGTTGCGATTTTCA 1 TTTCGCATTGCGATTTTGTCGTTGCGA-TTTCA 124174 TTTCGCATTGCGAT 1 TTTCGCATTGCGAT 124188 AGCCATTTCC Statistics Matches: 72, Mismatches: 6, Indels: 1 0.91 0.08 0.01 Matches are distributed among these distances: 32 54 0.75 33 18 0.25 ACGTcount: A:0.12, C:0.19, G:0.22, T:0.48 Consensus pattern (32 bp): TTTCGCATTGCGATTTTGTCGTTGCGATTTCA Found at i:124124 original size:13 final size:14 Alignment explanation
Indices: 124082--124171 Score: 72 Period size: 14 Copynumber: 5.9 Consensus size: 14 124072 TTGTGTTTCG 124082 CGTTGCGATTTTGT 1 CGTTGCGATTTTGT * * 124096 CATTGCGATTTCATTTT 1 CGTTGCGA-TT--TTGT 124113 GCGTTGCGATTTTGT 1 -CGTTGCGATTTTGT * 124128 CGTTGCGATTTCATTT 1 CGTTGCGATTT--TGT * 124144 CGCATTCCGATTTTGT 1 CG--TTGCGATTTTGT 124160 CGTTGCGATTTT 1 CGTTGCGATTTT 124172 CATTTCGCAT Statistics Matches: 60, Mismatches: 8, Indels: 16 0.71 0.10 0.19 Matches are distributed among these distances: 14 27 0.45 15 5 0.08 16 8 0.13 17 5 0.08 18 15 0.25 ACGTcount: A:0.11, C:0.18, G:0.22, T:0.49 Consensus pattern (14 bp): CGTTGCGATTTTGT Found at i:124143 original size:19 final size:19 Alignment explanation
Indices: 124089--124143 Score: 59 Period size: 19 Copynumber: 3.2 Consensus size: 19 124079 TCGCGTTGCG * 124089 ATTTTGTCATTGCGATTTC 1 ATTTTGTCGTTGCGATTTC 124108 ATTTTG-CGTTGCG----- 1 ATTTTGTCGTTGCGATTTC 124121 ATTTTGTCGTTGCGATTTC 1 ATTTTGTCGTTGCGATTTC 124140 ATTT 1 ATTT 124144 CGCATTCCGA Statistics Matches: 29, Mismatches: 1, Indels: 12 0.69 0.02 0.29 Matches are distributed among these distances: 13 6 0.21 14 7 0.24 18 6 0.21 19 10 0.34 ACGTcount: A:0.13, C:0.15, G:0.20, T:0.53 Consensus pattern (19 bp): ATTTTGTCGTTGCGATTTC Found at i:124186 original size:19 final size:19 Alignment explanation
Indices: 124130--124229 Score: 68 Period size: 19 Copynumber: 5.5 Consensus size: 19 124120 GATTTTGTCG 124130 TTGCGA-TTTCATTTCGCA 1 TTGCGATTTTCATTTCGCA * * 124148 TTCCGA-TTT--TGTCG-- 1 TTGCGATTTTCATTTCGCA 124162 TTGCGATTTTCATTTCGCA 1 TTGCGATTTTCATTTCGCA *** * 124181 TTGCGATAGCCATTTCCGCG 1 TTGCGATTTTCATTT-CGCA ** * 124201 TTGCGATAGTCATTTCGCG 1 TTGCGATTTTCATTTCGCA 124220 TTGCGATTTT 1 TTGCGATTTT 124230 AAGTTTCGTG Statistics Matches: 65, Mismatches: 11, Indels: 11 0.75 0.13 0.13 Matches are distributed among these distances: 14 5 0.08 15 3 0.05 16 4 0.06 17 4 0.06 18 8 0.12 19 24 0.37 20 17 0.26 ACGTcount: A:0.14, C:0.22, G:0.21, T:0.43 Consensus pattern (19 bp): TTGCGATTTTCATTTCGCA Found at i:124206 original size:20 final size:19 Alignment explanation
Indices: 124172--124226 Score: 83 Period size: 20 Copynumber: 2.8 Consensus size: 19 124162 TTGCGATTTT * 124172 CATTTCGCATTGCGATAGC 1 CATTTCGCGTTGCGATAGC * 124191 CATTTCCGCGTTGCGATAGT 1 CATTT-CGCGTTGCGATAGC 124211 CATTTCGCGTTGCGAT 1 CATTTCGCGTTGCGAT 124227 TTTAAGTTTC Statistics Matches: 33, Mismatches: 2, Indels: 2 0.89 0.05 0.05 Matches are distributed among these distances: 19 16 0.48 20 17 0.52 ACGTcount: A:0.16, C:0.25, G:0.24, T:0.35 Consensus pattern (19 bp): CATTTCGCGTTGCGATAGC Found at i:126112 original size:14 final size:14 Alignment explanation
Indices: 126093--126128 Score: 54 Period size: 14 Copynumber: 2.6 Consensus size: 14 126083 ATTGTTTAAT 126093 TGATTTGTAAAAGA 1 TGATTTGTAAAAGA * * 126107 TGATTTGTAAATGT 1 TGATTTGTAAAAGA 126121 TGATTTGT 1 TGATTTGT 126129 TTAATTGATG Statistics Matches: 20, Mismatches: 2, Indels: 0 0.91 0.09 0.00 Matches are distributed among these distances: 14 20 1.00 ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47 Consensus pattern (14 bp): TGATTTGTAAAAGA Found at i:126699 original size:14 final size:14 Alignment explanation
Indices: 126680--126715 Score: 54 Period size: 14 Copynumber: 2.6 Consensus size: 14 126670 ATTGTTTAAT 126680 TGATTTGTAAAAGA 1 TGATTTGTAAAAGA * * 126694 TGATTTGTAAATGT 1 TGATTTGTAAAAGA 126708 TGATTTGT 1 TGATTTGT 126716 TTAATTGATG Statistics Matches: 20, Mismatches: 2, Indels: 0 0.91 0.09 0.00 Matches are distributed among these distances: 14 20 1.00 ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47 Consensus pattern (14 bp): TGATTTGTAAAAGA Found at i:127286 original size:14 final size:14 Alignment explanation
Indices: 127267--127302 Score: 54 Period size: 14 Copynumber: 2.6 Consensus size: 14 127257 ATTGTTTAAT 127267 TGATTTGTAAAAGA 1 TGATTTGTAAAAGA * * 127281 TGATTTGTAAATGT 1 TGATTTGTAAAAGA 127295 TGATTTGT 1 TGATTTGT 127303 TTAATTGATG Statistics Matches: 20, Mismatches: 2, Indels: 0 0.91 0.09 0.00 Matches are distributed among these distances: 14 20 1.00 ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47 Consensus pattern (14 bp): TGATTTGTAAAAGA Found at i:127874 original size:14 final size:14 Alignment explanation
Indices: 127855--127890 Score: 54 Period size: 14 Copynumber: 2.6 Consensus size: 14 127845 ATTGTTTAAT 127855 TGATTTGTAAAAGA 1 TGATTTGTAAAAGA * * 127869 TGATTTGTAAATGT 1 TGATTTGTAAAAGA 127883 TGATTTGT 1 TGATTTGT 127891 TTAATTGATG Statistics Matches: 20, Mismatches: 2, Indels: 0 0.91 0.09 0.00 Matches are distributed among these distances: 14 20 1.00 ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47 Consensus pattern (14 bp): TGATTTGTAAAAGA Found at i:128138 original size:588 final size:589 Alignment explanation
Indices: 125845--128853 Score: 5883 Period size: 587 Copynumber: 5.1 Consensus size: 589 125835 TGGTAAGTCA * 125845 AATGCCAGTTTTGTTAAC--ATATACTCCTTTTGGTTTGAAAATGTTTGGTTAAGTACCTAGAAT 1 AATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAAATGTTTGGTTAAGTACCTAGAAT 125908 TCAATAATTTGCTGTTTGTAGGTTTTAGATGTGTAGGAAGTCTTGTTTGAGCAAATGTTTGGTTT 66 TCAATAATTTGCTGTTTGTAGGTTTTAGATGTGTAGGAAGTCTTGTTTGAGCAAATGTTTGGTTT 125973 CTGCAGGTTAATCCTTAAGTGAGCTGCGTGAAATGGATGTACGGGGTCACAAAGTTGTTGATTCT 131 CTGCAGGTTAATCCTTAAGTGAGCTGCGTGAAATGGATGTACGGGGTCACAAAGTTGTTGATTCT 126038 TGATTCAATAATTGATGAAGAAATAAGAATTATTATTATTTTTTGATTGTTTAATTGATTTGTAA 196 TGATTCAATAATTGATGAAGAAATAAGAATTATTATTATTTTTTGATTGTTTAATTGATTTGTAA 126103 AAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTACATAATTTGTGTTGAAATGTAATAG 261 AAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTACATAATTTGTGTTGAAATGTAATAG 126168 TTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAAAACAGACTATCGCAACGCGAAATGG 326 TTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAAAACAGACTATCGCAACGCGAAATGG 126233 CTATCGCAACGAGAAAATCGCAATGCGATTTTCATTTCGCATTGCGATTTTCTCGTTGCGATAAC 391 CTATCGCAACGAGAAAATCGCAATGCGATTTTCATTTCGCATTGCGATTTTCTCGTTGCGATAAC * 126298 CATTTTCGCATTGCGATAGTTAAATGAATGTCTAATAAGTGATGACAACTGAACAGATCATAGCA 456 CATTTTCGCATTGCGATAGTCAAATGAATGTCTAATAAGTGATGACAACTGAACAGATCATAGCA 126363 ATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTGCACACATAAAATAC 521 ATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTGCACACATAAAATAC 126428 ACAT 586 ACAT 126432 AATGCAAGTTTTGTTAAC--ATATACTCCTTTTGGTTTGAAAATGTTTGGTTAAGTACCTAGAAT 1 AATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAAATGTTTGGTTAAGTACCTAGAAT * 126495 TCAATAATTTGTTGTTTGTAGGTTTTAGATGTGTAGGAAGTCTTGTTTGAGCAAATGTTTGGTTT 66 TCAATAATTTGCTGTTTGTAGGTTTTAGATGTGTAGGAAGTCTTGTTTGAGCAAATGTTTGGTTT 126560 CTGCAGGTTAATCCTTAAGTGAGCTGCGTGAAATGGATGTACGGGGTCACAAAGTTGTTGATTCT 131 CTGCAGGTTAATCCTTAAGTGAGCTGCGTGAAATGGATGTACGGGGTCACAAAGTTGTTGATTCT 126625 TGATTCAATAATTGATGAAGAAATAAGAATTATTATTATTTTTTGATTGTTTAATTGATTTGTAA 196 TGATTCAATAATTGATGAAGAAATAAGAATTATTATTATTTTTTGATTGTTTAATTGATTTGTAA 126690 AAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTACATAATTTGTGTTGAAATGTAATAG 261 AAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTACATAATTTGTGTTGAAATGTAATAG 126755 TTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAAAACAGACTATCGCAACGCGAAATGG 326 TTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAAAACAGACTATCGCAACGCGAAATGG 126820 CTATCGCAACGAGAAAATCGCAATGCGATTTTCATTTCGCATTGCGATTTTCTCGTTGCGATAAC 391 CTATCGCAACGAGAAAATCGCAATGCGATTTTCATTTCGCATTGCGATTTTCTCGTTGCGATAAC 126885 CATTTTCGCATTGCGATAGTCAAATGAATGTCTAATAAGTGATGACAACTGAACAGATCATAGCA 456 CATTTTCGCATTGCGATAGTCAAATGAATGTCTAATAAGTGATGACAACTGAACAGATCATAGCA 126950 ATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTGCACACATAAAATAC 521 ATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTGCACACATAAAATAC 127015 ACAT 586 ACAT 127019 AATGCAAGTTTTGTTAACATATAT-C-CCTTTTGGTTTGAAAATGTTTGGTTAAGTACCTAGAAT 1 AATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAAATGTTTGGTTAAGTACCTAGAAT 127082 TCAATAATTTGCTGTTTGTAGGTTTTAGATGTGTAGGAAGTCTTGTTTGAGCAAATGTTTGGTTT 66 TCAATAATTTGCTGTTTGTAGGTTTTAGATGTGTAGGAAGTCTTGTTTGAGCAAATGTTTGGTTT 127147 CTGCAGGTTAATCCTTAAGTGAGCTGCGTGAAATGGATGTACGGGGTCACAAAGTTGTTGATTCT 131 CTGCAGGTTAATCCTTAAGTGAGCTGCGTGAAATGGATGTACGGGGTCACAAAGTTGTTGATTCT 127212 TGATTCAATAATTGATGAAGAAATAAGAATTATTATTATTTTTTGATTGTTTAATTGATTTGTAA 196 TGATTCAATAATTGATGAAGAAATAAGAATTATTATTATTTTTTGATTGTTTAATTGATTTGTAA 127277 AAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTACATAATTTGTGTTGAAATGTAATAG 261 AAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTACATAATTTGTGTTGAAATGTAATAG 127342 TTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAAAACAGACTATCGCAACGCGAAATGG 326 TTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAAAACAGACTATCGCAACGCGAAATGG 127407 CTATCGCAACGAGAAAATCGCAATGCGATTTTCATTTCGCATTGCGATTTTCTCGTTGCGATAAC 391 CTATCGCAACGAGAAAATCGCAATGCGATTTTCATTTCGCATTGCGATTTTCTCGTTGCGATAAC 127472 CATTTTCGCATTGCGATAGTCAAATGAATGTCTAATAAGTGATGACAACTGAACAGATCATAGCA 456 CATTTTCGCATTGCGATAGTCAAATGAATGTCTAATAAGTGATGACAACTGAACAGATCATAGCA 127537 ATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTGCACACAT-AAATAC 521 ATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTGCACACATAAAATAC 127601 ACAT 586 ACAT 127605 AATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAAATGTTTGGTTAAGTACCTAGAAT 1 AATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAAATGTTTGGTTAAGTACCTAGAAT * 127670 TCAATAATTTGCTGTTTATAGGTTTTAGATGTGTAGGAAGTCTTGTTTGAGCAAATGTTTGGTTT 66 TCAATAATTTGCTGTTTGTAGGTTTTAGATGTGTAGGAAGTCTTGTTTGAGCAAATGTTTGGTTT * 127735 ATGCAGGTTAATCCTTAAGTGAGCTGCGTGAAATGGATGTACGGGGTCACAAAGTTGTTGATTCT 131 CTGCAGGTTAATCCTTAAGTGAGCTGCGTGAAATGGATGTACGGGGTCACAAAGTTGTTGATTCT 127800 TGATTCAATAATTGATGAAGAAATAAGAATTATTATTATTTTTTGATTGTTTAATTGATTTGTAA 196 TGATTCAATAATTGATGAAGAAATAAGAATTATTATTATTTTTTGATTGTTTAATTGATTTGTAA 127865 AAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTACATAATTTGTGTTGAAATGTAATAG 261 AAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTACATAATTTGTGTTGAAATGTAATAG * 127930 TTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAAAATAGACTATCGCAACGCGAAATGG 326 TTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAAAACAGACTATCGCAACGCGAAATGG 127995 CTATCGCAACGAGAAAATCGCAATGCGATTTTCATTTCGCATTGCGATTTTCTCGTTGCGATAAC 391 CTATCGCAACGAGAAAATCGCAATGCGATTTTCATTTCGCATTGCGATTTTCTCGTTGCGATAAC 128060 CATTTTCGCATTGCGATAGTCAAATGAATGTCTAATAAGTGATGACAACTGAACAGATCATAGCA 456 CATTTTCGCATTGCGATAGTCAAATGAATGTCTAATAAGTGATGACAACTGAACAGATCATAGCA 128125 ATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTGCACACATAAAATAC 521 ATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTGCACACATAAAATAC 128190 ACAT 586 ACAT 128194 AATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAAATGTTTGGTTAAGTACCTAGAAT 1 AATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAAATGTTTGGTTAAGTACCTAGAAT * 128259 TCAATAATTTGTTGTTTGTAGGTTTTAGATGTGTAGGAAGTCTTGTTTGAGCAAATGTTTGGTTT 66 TCAATAATTTGCTGTTTGTAGGTTTTAGATGTGTAGGAAGTCTTGTTTGAGCAAATGTTTGGTTT 128324 CTGCAGGTTAATCCTTAAGTGAGCTGCGTGAAATGGATGTACGGGGTCACAAAGTTGTTGATTCT 131 CTGCAGGTTAATCCTTAAGTGAGCTGCGTGAAATGGATGTACGGGGTCACAAAGTTGTTGATTCT 128389 TGATTCAATAATTGATGAAG-AATAAGAATTATTATTATTTTTTGATTGTTTAATTGATTTGTAA 196 TGATTCAATAATTGATGAAGAAATAAGAATTATTATTATTTTTTGATTGTTTAATTGATTTGTAA 128453 AAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTACATAATTTGTGTTGAAATGTAATAG 261 AAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTACATAATTTGTGTTGAAATGTAATAG 128518 TTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAAAACAGACTATCGCAACGCGAAATGG 326 TTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAAAACAGACTATCGCAACGCGAAATGG 128583 CTATCGCAACGAGAAAATCGCAATGCGATTTTCATTTCGCATTGCGATTTTCTCGTTGCGATAAC 391 CTATCGCAACGAGAAAATCGCAATGCGATTTTCATTTCGCATTGCGATTTTCTCGTTGCGATAAC 128648 CATTTTCGCATTGCGATAGTCAAATGAATGTCTAATAAGTGATGACAACTGAACAGATCATAGCA 456 CATTTTCGCATTGCGATAGTCAAATGAATGTCTAATAAGTGATGACAACTGAACAGATCATAGCA 128713 ATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTGCACACATAAAATAC 521 ATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTGCACACATAAAATAC 128778 ACAT 586 ACAT * 128782 AATGCAAGTTTTGTTAACATATATACTCC-TTTGGTTTGAAAATATTTGGTTAAGTACCTAGAAT 1 AATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAAATGTTTGGTTAAGTACCTAGAAT 128846 TCAATAAT 66 TCAATAAT 128854 AATTGTTAAA Statistics Matches: 2405, Mismatches: 12, Indels: 10 0.99 0.00 0.00 Matches are distributed among these distances: 586 34 0.01 587 1195 0.50 588 950 0.40 589 226 0.09 ACGTcount: A:0.32, C:0.12, G:0.19, T:0.37 Consensus pattern (589 bp): AATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAAATGTTTGGTTAAGTACCTAGAAT TCAATAATTTGCTGTTTGTAGGTTTTAGATGTGTAGGAAGTCTTGTTTGAGCAAATGTTTGGTTT CTGCAGGTTAATCCTTAAGTGAGCTGCGTGAAATGGATGTACGGGGTCACAAAGTTGTTGATTCT TGATTCAATAATTGATGAAGAAATAAGAATTATTATTATTTTTTGATTGTTTAATTGATTTGTAA AAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTACATAATTTGTGTTGAAATGTAATAG TTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAAAACAGACTATCGCAACGCGAAATGG CTATCGCAACGAGAAAATCGCAATGCGATTTTCATTTCGCATTGCGATTTTCTCGTTGCGATAAC CATTTTCGCATTGCGATAGTCAAATGAATGTCTAATAAGTGATGACAACTGAACAGATCATAGCA ATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTGCACACATAAAATAC ACAT Found at i:128462 original size:14 final size:14 Alignment explanation
Indices: 128443--128478 Score: 54 Period size: 14 Copynumber: 2.6 Consensus size: 14 128433 ATTGTTTAAT 128443 TGATTTGTAAAAGA 1 TGATTTGTAAAAGA * * 128457 TGATTTGTAAATGT 1 TGATTTGTAAAAGA 128471 TGATTTGT 1 TGATTTGT 128479 TTAATTGATG Statistics Matches: 20, Mismatches: 2, Indels: 0 0.91 0.09 0.00 Matches are distributed among these distances: 14 20 1.00 ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47 Consensus pattern (14 bp): TGATTTGTAAAAGA Found at i:129776 original size:24 final size:24 Alignment explanation
Indices: 129720--129778 Score: 73 Period size: 24 Copynumber: 2.5 Consensus size: 24 129710 AGTCAGTATT * * 129720 CGAAATTTGATCTTGGTCAATACC 1 CGAAATTTGATATTGGTCAATACA * * 129744 CGGACTTTGATATTGGTCAATACA 1 CGAAATTTGATATTGGTCAATACA * 129768 CGAATTTTGAT 1 CGAAATTTGAT 129779 GATGTTTCAG Statistics Matches: 29, Mismatches: 6, Indels: 0 0.83 0.17 0.00 Matches are distributed among these distances: 24 29 1.00 ACGTcount: A:0.29, C:0.17, G:0.19, T:0.36 Consensus pattern (24 bp): CGAAATTTGATATTGGTCAATACA Found at i:129970 original size:12 final size:12 Alignment explanation
Indices: 129953--129977 Score: 50 Period size: 12 Copynumber: 2.1 Consensus size: 12 129943 ATATAATCCT 129953 GAAGAAGAAAAA 1 GAAGAAGAAAAA 129965 GAAGAAGAAAAA 1 GAAGAAGAAAAA 129977 G 1 G 129978 TCCCCGAAGA Statistics Matches: 13, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 12 13 1.00 ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00 Consensus pattern (12 bp): GAAGAAGAAAAA Found at i:130772 original size:20 final size:20 Alignment explanation
Indices: 130679--130772 Score: 89 Period size: 20 Copynumber: 4.7 Consensus size: 20 130669 CGCTAAGTAA * 130679 ATCGCGTTGCGAAAGTCAGT 1 ATCGCGTTGCGATAGTCAGT * * 130699 ATCGCGTTGCGAAAGTAAGT 1 ATCGCGTTGCGATAGTCAGT * ** * * 130719 ATCTCGTTGCGATTTTTTATT 1 ATCGCGTTGCGA-TAGTCAGT * 130740 ATCGCATTGCGATAGTCAGT 1 ATCGCGTTGCGATAGTCAGT * 130760 ATCGCATTGCGAT 1 ATCGCGTTGCGAT 130773 TTTCCCAATT Statistics Matches: 60, Mismatches: 13, Indels: 2 0.80 0.17 0.03 Matches are distributed among these distances: 20 47 0.78 21 13 0.22 ACGTcount: A:0.23, C:0.18, G:0.24, T:0.34 Consensus pattern (20 bp): ATCGCGTTGCGATAGTCAGT Found at i:130791 original size:41 final size:41 Alignment explanation
Indices: 130700--130834 Score: 130 Period size: 41 Copynumber: 3.3 Consensus size: 41 130690 AAAGTCAGTA * * * ** * 130700 TCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTT-TTATT 1 TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT * * 130740 ATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAAT 1 -TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT * ** * 130782 TCGCGTTGCGAT-TTACTTATTCGCATTGCGAATTTCCCAAT 1 TCGCGTTGCGATAGTAAGTA-TCGCATTGCGATTTTCCCAAT 130823 TCGCGTTGCGAT 1 TCGCGTTGCGAT 130835 TTACTTATTC Statistics Matches: 78, Mismatches: 14, Indels: 4 0.81 0.15 0.04 Matches are distributed among these distances: 40 3 0.04 41 73 0.94 42 2 0.03 ACGTcount: A:0.20, C:0.21, G:0.21, T:0.38 Consensus pattern (41 bp): TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT Found at i:130805 original size:20 final size:20 Alignment explanation
Indices: 130761--130853 Score: 96 Period size: 20 Copynumber: 4.5 Consensus size: 20 130751 ATAGTCAGTA * ** 130761 TCGCATTGCGATTTTCCCAAT 1 TCGCATTGCGA-TTTACTTAT * 130782 TCGCGTTGCGATTTACTTAT 1 TCGCATTGCGATTTACTTAT * ** 130802 TCGCATTGCGAATTTCCCAAT 1 TCGCATTGCG-ATTTACTTAT * 130823 TCGCGTTGCGATTTACTTAT 1 TCGCATTGCGATTTACTTAT 130843 TCGCATTGCGA 1 TCGCATTGCGA 130854 ATTGGGAAAA Statistics Matches: 58, Mismatches: 13, Indels: 3 0.78 0.18 0.04 Matches are distributed among these distances: 20 32 0.55 21 26 0.45 ACGTcount: A:0.18, C:0.25, G:0.18, T:0.39 Consensus pattern (20 bp): TCGCATTGCGATTTACTTAT Found at i:130835 original size:41 final size:41 Alignment explanation
Indices: 130761--130856 Score: 183 Period size: 41 Copynumber: 2.3 Consensus size: 41 130751 ATAGTCAGTA * 130761 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT 1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT 130802 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT 1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT 130843 TCGCATTGCGAATT 1 TCGCATTGCGAATT 130857 GGGAAAATCG Statistics Matches: 54, Mismatches: 1, Indels: 0 0.98 0.02 0.00 Matches are distributed among these distances: 41 54 1.00 ACGTcount: A:0.19, C:0.24, G:0.18, T:0.40 Consensus pattern (41 bp): TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT Found at i:133480 original size:17 final size:16 Alignment explanation
Indices: 133458--133511 Score: 56 Period size: 17 Copynumber: 3.3 Consensus size: 16 133448 AACCGGGTAT 133458 CGGGTACCCGCAAAATC 1 CGGGTACCCG-AAAATC ** 133475 CGGGTACCCGATTA-C 1 CGGGTACCCGAAAATC * 133490 CGGGTACCCGTAACATC 1 CGGGTACCCG-AAAATC 133507 CGGGT 1 CGGGT 133512 CGGGACACGG Statistics Matches: 31, Mismatches: 4, Indels: 4 0.79 0.10 0.10 Matches are distributed among these distances: 15 11 0.35 16 4 0.13 17 16 0.52 ACGTcount: A:0.22, C:0.33, G:0.28, T:0.17 Consensus pattern (16 bp): CGGGTACCCGAAAATC Found at i:133585 original size:16 final size:16 Alignment explanation
Indices: 133547--133588 Score: 59 Period size: 15 Copynumber: 2.7 Consensus size: 16 133537 ACCCGGAAGT * * 133547 TCCGGGTACCAGTAAA 1 TCCGGGTACCCGAAAA 133563 T-CGGGTACCCGAAAA 1 TCCGGGTACCCGAAAA 133578 TCCGGGTACCC 1 TCCGGGTACCC 133589 AGATTTGCAC Statistics Matches: 23, Mismatches: 2, Indels: 2 0.85 0.07 0.07 Matches are distributed among these distances: 15 13 0.57 16 10 0.43 ACGTcount: A:0.26, C:0.31, G:0.26, T:0.17 Consensus pattern (16 bp): TCCGGGTACCCGAAAA Found at i:137436 original size:113 final size:113 Alignment explanation
Indices: 137238--137603 Score: 610 Period size: 113 Copynumber: 3.3 Consensus size: 113 137228 TTGTCGGTTT * * 137238 GTGTCGATACTTTATAAAAATATATTGATCCATAACAATATAACAGGTAAAAAAAATGACAAAAC 1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAAATGACAAAAC * * 137303 CGGCCTATAAATGACTAAACAGGTAAAGCGCTACCGGATATATTGAAA 66 CGGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA * 137351 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAAATGAAAAAAC 1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAAATGACAAAAC 137416 CGGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA 66 CGGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA ** 137464 GTGTCGATACTTTATAAAAATGTATTTATCCATAACAATATAACAGGT-AAAAAAATGACAAAAC 1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAAATGACAAAAC * * * 137528 CGGTCTATAAATGACAAAACAGGTAAAGCGCTATCGGATATGTTGATA 66 CGGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA * * 137576 GTGTCGATACTTTATTATAA-GTATCGAT 1 GTGTCGATACTTTATAAAAATGTATCGAT 137604 ACTTTTGGAA Statistics Matches: 238, Mismatches: 15, Indels: 2 0.93 0.06 0.01 Matches are distributed among these distances: 111 6 0.03 112 78 0.33 113 154 0.65 ACGTcount: A:0.44, C:0.14, G:0.16, T:0.26 Consensus pattern (113 bp): GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAAATGACAAAAC CGGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA Found at i:137768 original size:182 final size:182 Alignment explanation
Indices: 137461--138140 Score: 979 Period size: 182 Copynumber: 3.8 Consensus size: 182 137451 GGATATATTG ** * 137461 AAAGTGTCGATACTTTATAAAAATGTATTTATCCATAACAATATAACAGGTAAAAAAATGACAAA 1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAA ** * * * * * 137526 ACCGGTCTATAAATGACAAAACAGGTAAAGCGCTATCGGATATGTTGATAGTGTCGATACTTTAT 66 ACCGGTCTCGAAATGACAAAACCGGTAAAGAGCTACCGAATATGTTGAAAGTGTCGATACTTTAT * * 137591 TATAAGTATCGATACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCTAAT 131 TATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCAAT 137643 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAA 1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAA * 137708 ACCGATCTCGAAATGACAAAACCGGTAAAGAGCTACCGAATATGTTGAAAGTGTCGATACTTTAT 66 ACCGGTCTCGAAATGACAAAACCGGTAAAGAGCTACCGAATATGTTGAAAGTGTCGATACTTTAT 137773 TATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCAAT 131 TATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCAAT * 137825 AAAGTTTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAA 1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAA * * * * * 137890 ACCGG--T--AAA-GAGC--TACCGG-ATA-TG-T--TGAAAATGTTG--A---T----ACTTTA 66 ACCGGTCTCGAAATGA-CAAAACCGGTAAAGAGCTACCGAATATGTTGAAAGTGTCGATACTTTA * * 137934 TTATAAGTATCGACACTTTTAGAATTTAAAAGAAAAGAAGTTATAGCGCCAAT 130 TTATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCAAT * * 137987 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAGAAATATGAAAAA 1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAA * * 138052 ATCGGTCTCGAAATGACAAAACCGGTAAAGAGCTACCGGATATGTTGAAAGTGTCGATACTTTAT 66 ACCGGTCTCGAAATGACAAAACCGGTAAAGAGCTACCGAATATGTTGAAAGTGTCGATACTTTAT 138117 TATAAGTATCGACACTTTTGGAAT 131 TATAAGTATCGACACTTTTGGAAT 138141 AATAAAGTAT Statistics Matches: 443, Mismatches: 33, Indels: 44 0.85 0.06 0.08 Matches are distributed among these distances: 162 123 0.28 164 1 0.00 166 5 0.01 167 2 0.00 168 5 0.01 169 3 0.01 170 1 0.00 171 10 0.02 173 9 0.02 174 1 0.00 175 3 0.01 176 5 0.01 177 2 0.00 178 5 0.01 180 1 0.00 182 267 0.60 ACGTcount: A:0.42, C:0.13, G:0.17, T:0.28 Consensus pattern (182 bp): AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAA ACCGGTCTCGAAATGACAAAACCGGTAAAGAGCTACCGAATATGTTGAAAGTGTCGATACTTTAT TATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCAAT Found at i:137904 original size:162 final size:162 Alignment explanation
Indices: 137720--138057 Score: 595 Period size: 162 Copynumber: 2.1 Consensus size: 162 137710 CGATCTCGAA * 137720 ATGACAAAACCGGTAAAGAGCTACCGAATATGTTGAAAGTGTCGATACTTTATTATAAGTATCGA 1 ATGACAAAACCGGTAAAGAGCTACCGAATATGTTGAAAATGTCGATACTTTATTATAAGTATCGA * * * 137785 CACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTTTCGATACTTTATAAAAATG 66 CACTTTTAGAATTTAAAAGAAAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATG 137850 TATCGATCCATAACAATATAACAGGTAAAAAT 131 TATCGATCCATAACAATATAACAGGTAAAAAT * * 137882 ATGACAAAACCGGTAAAGAGCTACCGGATATGTTGAAAATGTTGATACTTTATTATAAGTATCGA 1 ATGACAAAACCGGTAAAGAGCTACCGAATATGTTGAAAATGTCGATACTTTATTATAAGTATCGA 137947 CACTTTTAGAATTTAAAAGAAAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATG 66 CACTTTTAGAATTTAAAAGAAAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATG * 138012 TATCGATCCATAACAATATAACAGGTAGAAAT 131 TATCGATCCATAACAATATAACAGGTAAAAAT * * 138044 ATGAAAAAATCGGT 1 ATGACAAAACCGGT 138058 CTCGAAATGA Statistics Matches: 167, Mismatches: 9, Indels: 0 0.95 0.05 0.00 Matches are distributed among these distances: 162 167 1.00 ACGTcount: A:0.43, C:0.12, G:0.17, T:0.28 Consensus pattern (162 bp): ATGACAAAACCGGTAAAGAGCTACCGAATATGTTGAAAATGTCGATACTTTATTATAAGTATCGA CACTTTTAGAATTTAAAAGAAAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATG TATCGATCCATAACAATATAACAGGTAAAAAT Found at i:138955 original size:23 final size:23 Alignment explanation
Indices: 138926--138973 Score: 78 Period size: 23 Copynumber: 2.1 Consensus size: 23 138916 AAATAGGTTA * 138926 ATATAAGCGCTACCTATTACATT 1 ATATAAGCGCTACCTAATACATT * 138949 ATATAAGCGCTACCTAATATATT 1 ATATAAGCGCTACCTAATACATT 138972 AT 1 AT 138974 TGTACTTGAT Statistics Matches: 23, Mismatches: 2, Indels: 0 0.92 0.08 0.00 Matches are distributed among these distances: 23 23 1.00 ACGTcount: A:0.38, C:0.19, G:0.08, T:0.35 Consensus pattern (23 bp): ATATAAGCGCTACCTAATACATT Found at i:139183 original size:14 final size:14 Alignment explanation
Indices: 139164--139190 Score: 54 Period size: 14 Copynumber: 1.9 Consensus size: 14 139154 TTGATTTAAG 139164 AATCAGTTATAGTA 1 AATCAGTTATAGTA 139178 AATCAGTTATAGT 1 AATCAGTTATAGT 139191 TTGTACTTAT Statistics Matches: 13, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 14 13 1.00 ACGTcount: A:0.41, C:0.07, G:0.15, T:0.37 Consensus pattern (14 bp): AATCAGTTATAGTA Found at i:140443 original size:2 final size:2 Alignment explanation
Indices: 140436--140462 Score: 54 Period size: 2 Copynumber: 13.5 Consensus size: 2 140426 TGTAATGAAG 140436 AT AT AT AT AT AT AT AT AT AT AT AT AT A 1 AT AT AT AT AT AT AT AT AT AT AT AT AT A 140463 AACAACTAAT Statistics Matches: 25, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 2 25 1.00 ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48 Consensus pattern (2 bp): AT Found at i:141234 original size:2 final size:2 Alignment explanation
Indices: 141227--141260 Score: 68 Period size: 2 Copynumber: 17.0 Consensus size: 2 141217 ATATTCTCTA 141227 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT 1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT 141261 TCAATAAAAT Statistics Matches: 32, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 2 32 1.00 ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50 Consensus pattern (2 bp): AT Found at i:141750 original size:21 final size:21 Alignment explanation
Indices: 141721--141773 Score: 70 Period size: 21 Copynumber: 2.5 Consensus size: 21 141711 ATTCTGACTA * 141721 TCGCATTGCGATTTTCCAAAT 1 TCGCATTGCGATTATCCAAAT * * 141742 TCGCGTTGCGATTATCCTAAT 1 TCGCATTGCGATTATCCAAAT * 141763 TCGCAATGCGA 1 TCGCATTGCGA 141774 ATACGTAATT Statistics Matches: 27, Mismatches: 5, Indels: 0 0.84 0.16 0.00 Matches are distributed among these distances: 21 27 1.00 ACGTcount: A:0.23, C:0.25, G:0.19, T:0.34 Consensus pattern (21 bp): TCGCATTGCGATTATCCAAAT Found at i:141784 original size:20 final size:20 Alignment explanation
Indices: 141763--141851 Score: 115 Period size: 20 Copynumber: 4.4 Consensus size: 20 141753 TTATCCTAAT * * 141763 TCGCAATGCGAATACGTAAT 1 TCGCAACGCGAATACGTAAA * 141783 TCGCAATGCGAATACGTAAA 1 TCGCAACGCGAATACGTAAA ** * 141803 TCGCAACGCGAATTTGGAAAA 1 TCGCAACGCGAA-TACGTAAA 141824 TCGCAACGCGAATACGTAAA 1 TCGCAACGCGAATACGTAAA 141844 TCGCAACG 1 TCGCAACG 141852 AGATTCTGAC Statistics Matches: 60, Mismatches: 8, Indels: 2 0.86 0.11 0.03 Matches are distributed among these distances: 20 43 0.72 21 17 0.28 ACGTcount: A:0.37, C:0.22, G:0.21, T:0.19 Consensus pattern (20 bp): TCGCAACGCGAATACGTAAA Found at i:141793 original size:41 final size:40 Alignment explanation
Indices: 141739--141851 Score: 100 Period size: 41 Copynumber: 2.8 Consensus size: 40 141729 CGATTTTCCA ** * * * 141739 AATTCGCGTTGCGATTATCCTAATTCGCAATGCGAATACGT 1 AATTCGCAATGCGAATA-CCTAAATCGCAACGCGAATACGT * ** * 141780 AATTCGCAATGCGAATACGTAAATCGCAACGCGAATTTGGA 1 AATTCGCAATGCGAATACCTAAATCGCAACGCGAA-TACGT * * * 141821 AAATCGCAACGCGAATACGTAAATCGCAACG 1 AATTCGCAATGCGAATACCTAAATCGCAACG 141852 AGATTCTGAC Statistics Matches: 60, Mismatches: 11, Indels: 2 0.82 0.15 0.03 Matches are distributed among these distances: 40 15 0.25 41 45 0.75 ACGTcount: A:0.35, C:0.22, G:0.20, T:0.23 Consensus pattern (40 bp): AATTCGCAATGCGAATACCTAAATCGCAACGCGAATACGT Done.