Tandem Repeats Finder Program written by: Gary Benson Program in Bioinformatics Boston University Version 4.09 Sequence: Gbar_A13 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: 109233746 ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32 Warning! 2708888 characters in sequence are not A, C, G, or T File 126 of 332 Found at i:41071239 original size:14 final size:14 Alignment explanation
Indices: 41071220--41071247 Score: 56 Period size: 14 Copynumber: 2.0 Consensus size: 14 41071210 CAGGCTTCAT 41071220 GCCGGTGATGTGTA 1 GCCGGTGATGTGTA 41071234 GCCGGTGATGTGTA 1 GCCGGTGATGTGTA 41071248 TTCGGGCCTT Statistics Matches: 14, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 14 14 1.00 ACGTcount: A:0.14, C:0.14, G:0.43, T:0.29 Consensus pattern (14 bp): GCCGGTGATGTGTA Found at i:41071266 original size:57 final size:57 Alignment explanation
Indices: 41071177--41071290 Score: 192 Period size: 57 Copynumber: 2.0 Consensus size: 57 41071167 CAGGCTTCGT * * 41071177 GCCGGTGATGTGTATTCGGGCCTTTGTGCCTAGCAGGCTTCATGCCGGTGATGTGTA 1 GCCGGTGATGTGTATTCGGGCCTTCGTACCTAGCAGGCTTCATGCCGGTGATGTGTA * * 41071234 GCCGGTGATGTGTATTCGGGCCTTCGTACCTAGCAGGCTTCGTGCTGGTGATGTGTA 1 GCCGGTGATGTGTATTCGGGCCTTCGTACCTAGCAGGCTTCATGCCGGTGATGTGTA 41071291 TTCGGGCCTT Statistics Matches: 53, Mismatches: 4, Indels: 0 0.93 0.07 0.00 Matches are distributed among these distances: 57 53 1.00 ACGTcount: A:0.12, C:0.21, G:0.35, T:0.32 Consensus pattern (57 bp): GCCGGTGATGTGTATTCGGGCCTTCGTACCTAGCAGGCTTCATGCCGGTGATGTGTA Found at i:41071298 original size:43 final size:43 Alignment explanation
Indices: 41071237--41071401 Score: 294 Period size: 43 Copynumber: 3.8 Consensus size: 43 41071227 ATGTGTAGCC * 41071237 GGTGATGTGTATTCGGGCCTTCGTACCTAGCAGGCTTCGTGCT 1 GGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCT * * 41071280 GGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCC 1 GGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCT * 41071323 GGTGATGTGTATTCGGGCCTTCGTGTCTAGCAGGCTTCGTGCT 1 GGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCT 41071366 GGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCT 1 GGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCT 41071402 ATAGTACCGG Statistics Matches: 115, Mismatches: 7, Indels: 0 0.94 0.06 0.00 Matches are distributed among these distances: 43 115 1.00 ACGTcount: A:0.11, C:0.23, G:0.34, T:0.32 Consensus pattern (43 bp): GGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCT Found at i:41071307 original size:100 final size:100 Alignment explanation
Indices: 41071134--41071333 Score: 373 Period size: 100 Copynumber: 2.0 Consensus size: 100 41071124 CAGGCTTCGT * 41071134 GCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCC 1 GCCGGTGATGTGTATTCGGGCCTTCGTACCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCC * 41071199 TTTGTGCCTAGCAGGCTTCATGCCGGTGATGTGTA 66 TTCGTGCCTAGCAGGCTTCATGCCGGTGATGTGTA * 41071234 GCCGGTGATGTGTATTCGGGCCTTCGTACCTAGCAGGCTTCGTGCTGGTGATGTGTATTCGGGCC 1 GCCGGTGATGTGTATTCGGGCCTTCGTACCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCC 41071299 TTCGTGCCTAGCAGGCTTCATGCCGGTGATGTGTA 66 TTCGTGCCTAGCAGGCTTCATGCCGGTGATGTGTA 41071334 TTCGGGCCTT Statistics Matches: 97, Mismatches: 3, Indels: 0 0.97 0.03 0.00 Matches are distributed among these distances: 100 97 1.00 ACGTcount: A:0.12, C:0.23, G:0.34, T:0.31 Consensus pattern (100 bp): GCCGGTGATGTGTATTCGGGCCTTCGTACCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCC TTCGTGCCTAGCAGGCTTCATGCCGGTGATGTGTA Found at i:41071353 original size:143 final size:143 Alignment explanation
Indices: 41071095--41071376 Score: 492 Period size: 143 Copynumber: 2.0 Consensus size: 143 41071085 CTTCGTGCCA * 41071095 GTGATGTGTATTAGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCG 1 GTGATGTGTATTAGGGCCTTCGTACCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCG * * 41071160 TGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTTGTGCCTAGCAGGCTTCATGCCGG 66 TGCCTAGCAGGCTTCATGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGG 41071225 TGATGTGTAGCCG 131 TGATGTGTAGCCG * * 41071238 GTGATGTGTATTCGGGCCTTCGTACCTAGCAGGCTTCGTGCTGGTGATGTGTATTCGGGCCTTCG 1 GTGATGTGTATTAGGGCCTTCGTACCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCG * * * 41071303 TGCCTAGCAGGCTTCATGCCGGTGATGTGTATTCGGGCCTTCGTGTCTAGCAGGCTTCGTGCTGG 66 TGCCTAGCAGGCTTCATGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGG 41071368 TGATGTGTA 131 TGATGTGTA 41071377 TTCGGGCCTT Statistics Matches: 131, Mismatches: 8, Indels: 0 0.94 0.06 0.00 Matches are distributed among these distances: 143 131 1.00 ACGTcount: A:0.11, C:0.22, G:0.34, T:0.32 Consensus pattern (143 bp): GTGATGTGTATTAGGGCCTTCGTACCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCG TGCCTAGCAGGCTTCATGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGG TGATGTGTAGCCG Found at i:41071363 original size:186 final size:186 Alignment explanation
Indices: 41071049--41071401 Score: 625 Period size: 186 Copynumber: 1.9 Consensus size: 186 41071039 AGGCTTCGTA * 41071049 CCGGTGATGTGCATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCAGTGATGTGTATTAGGGCCT 1 CCGGTGATGTGCATTCGGGCCTTCGTACCTAGCAGGCTTCGTGCCAGTGATGTGTATTAGGGCCT * 41071114 TCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC 66 TCGTGCCTAGCAGGCTTCATGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC * 41071179 CGGTGATGTGTATTCGGGCCTTTGTGCCTAGCAGGCTTCATGCCGGTGATGTGTAG 131 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGATGTGTAG * ** * 41071235 CCGGTGATGTGTATTCGGGCCTTCGTACCTAGCAGGCTTCGTGCTGGTGATGTGTATTCGGGCCT 1 CCGGTGATGTGCATTCGGGCCTTCGTACCTAGCAGGCTTCGTGCCAGTGATGTGTATTAGGGCCT * 41071300 TCGTGCCTAGCAGGCTTCATGCCGGTGATGTGTATTCGGGCCTTCGTGTCTAGCAGGCTTCGTGC 66 TCGTGCCTAGCAGGCTTCATGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC * 41071365 TGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCT 131 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCT 41071402 ATAGTACCGG Statistics Matches: 158, Mismatches: 9, Indels: 0 0.95 0.05 0.00 Matches are distributed among these distances: 186 158 1.00 ACGTcount: A:0.11, C:0.24, G:0.34, T:0.31 Consensus pattern (186 bp): CCGGTGATGTGCATTCGGGCCTTCGTACCTAGCAGGCTTCGTGCCAGTGATGTGTATTAGGGCCT TCGTGCCTAGCAGGCTTCATGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGATGTGTAG Found at i:41071439 original size:86 final size:86 Alignment explanation
Indices: 41071235--41071442 Score: 280 Period size: 86 Copynumber: 2.4 Consensus size: 86 41071225 TGATGTGTAG ** 41071235 CCGGTGATGTGTATTCGGGCCTTCGTA-CCTAGCAGGCTTCGTGCTGGTGATGTGTATTCGGGCC 1 CCGGTGAAATGTATTCGGGCCTTCG-AGCCTAGCAGGCTTCGTGCTGGTGATGTGTATTCGGGCC * 41071299 TTCGTGCCTAGCAGGCTTCATG 65 TTCGTGCCTAGCAGGCTTCATA ** * * 41071321 CCGGTGATGTGTATTCGGGCCTTCGTGTCTAGCAGGCTTCGTGCTGGTGATGTGTATTCGGGCCT 1 CCGGTGAAATGTATTCGGGCCTTCGAGCCTAGCAGGCTTCGTGCTGGTGATGTGTATTCGGGCCT 41071386 TCGTGCCTAGCAGGCTAT-AGTA 66 TCGTGCCTAGCAGGCT-TCA-TA * 41071408 CCGGTGAAATG-ATATCGGGGC-TCGAGCCTAGCAGG 1 CCGGTGAAATGTAT-TCGGGCCTTCGAGCCTAGCAGG 41071443 TGAGAAAAGC Statistics Matches: 110, Mismatches: 8, Indels: 8 0.87 0.06 0.06 Matches are distributed among these distances: 86 93 0.85 87 17 0.15 ACGTcount: A:0.14, C:0.23, G:0.34, T:0.29 Consensus pattern (86 bp): CCGGTGAAATGTATTCGGGCCTTCGAGCCTAGCAGGCTTCGTGCTGGTGATGTGTATTCGGGCCT TCGTGCCTAGCAGGCTTCATA Found at i:41075988 original size:46 final size:46 Alignment explanation
Indices: 41075938--41076113 Score: 183 Period size: 46 Copynumber: 3.8 Consensus size: 46 41075928 TGTTTGGGCA * 41075938 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG 1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG *** * * ** * 41075984 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGCA 1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGC-AAACG * * * 41076031 TCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG 1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG * * * * 41076077 CCCGAGCTCATTGATTTGAGTCCGAGTTCACTTATGG 1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG 41076114 GCGAGTTACA Statistics Matches: 103, Mismatches: 24, Indels: 6 0.77 0.18 0.05 Matches are distributed among these distances: 46 69 0.67 47 34 0.33 ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30 Consensus pattern (46 bp): TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG Found at i:41076096 original size:93 final size:93 Alignment explanation
Indices: 41075934--41076105 Score: 272 Period size: 93 Copynumber: 1.8 Consensus size: 93 41075924 AGGATGTTTG * * * 41075934 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG 1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAG 41075999 TTGAGTCCGAGTTCGAGAGATGTAACTA 66 TTGAGTCCGAGTTCGAGAGATGTAACTA * * * * * 41076027 GGCATCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAT 1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAG 41076092 TTGAGTCCGAGTTC 66 TTGAGTCCGAGTTC 41076106 ACTTATGGGC Statistics Matches: 71, Mismatches: 8, Indels: 0 0.90 0.10 0.00 Matches are distributed among these distances: 93 71 1.00 ACGTcount: A:0.22, C:0.21, G:0.28, T:0.28 Consensus pattern (93 bp): GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAG TTGAGTCCGAGTTCGAGAGATGTAACTA Found at i:41080490 original size:31 final size:31 Alignment explanation
Indices: 41080455--41080518 Score: 128 Period size: 31 Copynumber: 2.1 Consensus size: 31 41080445 GGTAAGCTCA 41080455 TAGTGTTTCAATACATAAATAAATTTCTACT 1 TAGTGTTTCAATACATAAATAAATTTCTACT 41080486 TAGTGTTTCAATACATAAATAAATTTCTACT 1 TAGTGTTTCAATACATAAATAAATTTCTACT 41080517 TA 1 TA 41080519 CATTTGTAAT Statistics Matches: 33, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 31 33 1.00 ACGTcount: A:0.39, C:0.12, G:0.06, T:0.42 Consensus pattern (31 bp): TAGTGTTTCAATACATAAATAAATTTCTACT Found at i:41080618 original size:40 final size:40 Alignment explanation
Indices: 41080556--41080642 Score: 111 Period size: 40 Copynumber: 2.2 Consensus size: 40 41080546 TTATTGAATT * * * * 41080556 ATTGCACTTACGTGCCAGTGTTTGTATTTTGGAACCCCTG 1 ATTGCACTTACATGCCACTGTTTGTACTTCGGAACCCCTG * * 41080596 ATTGCACTTACATGCCTCTGTTTGTACTTCGGTACCCCTG 1 ATTGCACTTACATGCCACTGTTTGTACTTCGGAACCCCTG * 41080636 AATGCAC 1 ATTGCAC 41080643 ATCTGTGCCC Statistics Matches: 40, Mismatches: 7, Indels: 0 0.85 0.15 0.00 Matches are distributed among these distances: 40 40 1.00 ACGTcount: A:0.18, C:0.26, G:0.20, T:0.36 Consensus pattern (40 bp): ATTGCACTTACATGCCACTGTTTGTACTTCGGAACCCCTG Found at i:41084264 original size:26 final size:26 Alignment explanation
Indices: 41084234--41084296 Score: 72 Period size: 26 Copynumber: 2.4 Consensus size: 26 41084224 TATTTTTTAT * 41084234 TTTTTTATTTTTTATTATTCTTACTAG 1 TTTTTCATTTTTT-TTATTCTTACTAG * * ** 41084261 TTTTTCATTATTTTTATTGTTTTTAG 1 TTTTTCATTTTTTTTATTCTTACTAG 41084287 TTTTTCATTT 1 TTTTTCATTT 41084297 CATTTCTTAT Statistics Matches: 30, Mismatches: 6, Indels: 1 0.81 0.16 0.03 Matches are distributed among these distances: 26 19 0.63 27 11 0.37 ACGTcount: A:0.16, C:0.06, G:0.05, T:0.73 Consensus pattern (26 bp): TTTTTCATTTTTTTTATTCTTACTAG Found at i:41084276 original size:29 final size:28 Alignment explanation
Indices: 41084242--41084310 Score: 79 Period size: 29 Copynumber: 2.4 Consensus size: 28 41084232 ATTTTTTTAT 41084242 TTTTTATTATTCTTACTAGTTTTTCA-TT-A 1 TTTTTATTATT-TT--TAGTTTTTCATTTCA * 41084271 TTTTTATTGTTTTTAGTTTTTCATTTCA 1 TTTTTATTATTTTTAGTTTTTCATTTCA 41084299 TTTCTTATTATT 1 TTT-TTATTATT 41084311 ATTTTTCTTC Statistics Matches: 35, Mismatches: 2, Indels: 6 0.81 0.05 0.14 Matches are distributed among these distances: 26 10 0.29 27 2 0.06 28 6 0.17 29 17 0.49 ACGTcount: A:0.17, C:0.09, G:0.04, T:0.70 Consensus pattern (28 bp): TTTTTATTATTTTTAGTTTTTCATTTCA Found at i:41084326 original size:16 final size:15 Alignment explanation
Indices: 41084299--41084330 Score: 55 Period size: 16 Copynumber: 2.1 Consensus size: 15 41084289 TTTCATTTCA 41084299 TTTCTTATTATTATT 1 TTTCTTATTATTATT 41084314 TTTCTTCATTATTATT 1 TTTCTT-ATTATTATT 41084330 T 1 T 41084331 CTTAGTAGTT Statistics Matches: 16, Mismatches: 0, Indels: 1 0.94 0.00 0.06 Matches are distributed among these distances: 15 6 0.38 16 10 0.62 ACGTcount: A:0.19, C:0.09, G:0.00, T:0.72 Consensus pattern (15 bp): TTTCTTATTATTATT Found at i:41085031 original size:10 final size:10 Alignment explanation
Indices: 41085016--41085072 Score: 60 Period size: 10 Copynumber: 5.6 Consensus size: 10 41085006 AACTCCAATC 41085016 AGCTCAATTG 1 AGCTCAATTG * 41085026 AGCTCAATTT 1 AGCTCAATTG * 41085036 AGCTCACTTG 1 AGCTCAATTG * 41085046 AGCTCGAATTT 1 AGCTC-AATTG * * 41085057 AGCTCATTTC 1 AGCTCAATTG 41085067 AGCTCA 1 AGCTCA 41085073 TTTCTTCTTC Statistics Matches: 39, Mismatches: 7, Indels: 2 0.81 0.15 0.04 Matches are distributed among these distances: 10 31 0.79 11 8 0.21 ACGTcount: A:0.26, C:0.25, G:0.16, T:0.33 Consensus pattern (10 bp): AGCTCAATTG Found at i:41085057 original size:21 final size:20 Alignment explanation
Indices: 41085016--41085072 Score: 78 Period size: 21 Copynumber: 2.8 Consensus size: 20 41085006 AACTCCAATC 41085016 AGCTCAATTGAGCTCAATTT 1 AGCTCAATTGAGCTCAATTT * 41085036 AGCTCACTTGAGCTCGAATTT 1 AGCTCAATTGAGCTC-AATTT * * 41085057 AGCTCATTTCAGCTCA 1 AGCTCAATTGAGCTCA 41085073 TTTCTTCTTC Statistics Matches: 33, Mismatches: 3, Indels: 2 0.87 0.08 0.05 Matches are distributed among these distances: 20 15 0.45 21 18 0.55 ACGTcount: A:0.26, C:0.25, G:0.16, T:0.33 Consensus pattern (20 bp): AGCTCAATTGAGCTCAATTT Found at i:41085303 original size:13 final size:13 Alignment explanation
Indices: 41085285--41085319 Score: 61 Period size: 13 Copynumber: 2.7 Consensus size: 13 41085275 ATTATATGAA * 41085285 TAATTATTTTATT 1 TAATTATGTTATT 41085298 TAATTATGTTATT 1 TAATTATGTTATT 41085311 TAATTATGT 1 TAATTATGT 41085320 AGGTTAGTCG Statistics Matches: 21, Mismatches: 1, Indels: 0 0.95 0.05 0.00 Matches are distributed among these distances: 13 21 1.00 ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63 Consensus pattern (13 bp): TAATTATGTTATT Found at i:41087374 original size:6 final size:6 Alignment explanation
Indices: 41087336--41087420 Score: 75 Period size: 6 Copynumber: 13.5 Consensus size: 6 41087326 GGATCATTAA * * * 41087336 TTTTAT TTTT-T TCTTTAT TTTATTT TATTTAT GTTTAT GTTTAT TTTTAT 1 TTTTAT TTTTAT T-TTTAT TTT-TAT T-TTTAT TTTTAT TTTTAT TTTTAT 41087386 TTTTAT TTTTAGT TGTTT-T GTTTTAT TTTTAT TTT 1 TTTTAT TTTTA-T T-TTTAT -TTTTAT TTTTAT TTT 41087421 CTTATACTTC Statistics Matches: 67, Mismatches: 4, Indels: 16 0.77 0.05 0.18 Matches are distributed among these distances: 5 2 0.03 6 49 0.73 7 11 0.16 8 5 0.07 ACGTcount: A:0.14, C:0.01, G:0.06, T:0.79 Consensus pattern (6 bp): TTTTAT Found at i:41087385 original size:32 final size:31 Alignment explanation
Indices: 41087349--41087420 Score: 85 Period size: 32 Copynumber: 2.3 Consensus size: 31 41087339 TATTTTTTTC * 41087349 TTTATTTTATTTTATTTA-TGTTTATG-TTTATT 1 TTTATTTT-TATT-TTTAGTGTTT-TGTTTTATT 41087381 TTTATTTTTATTTTTAGTTGTTTTGTTTTATT 1 TTTATTTTTATTTTTAG-TGTTTTGTTTTATT 41087413 TTTATTTT 1 TTTATTTT 41087421 CTTATACTTC Statistics Matches: 36, Mismatches: 1, Indels: 6 0.84 0.02 0.14 Matches are distributed among these distances: 30 4 0.11 31 5 0.14 32 27 0.75 ACGTcount: A:0.15, C:0.00, G:0.07, T:0.78 Consensus pattern (31 bp): TTTATTTTTATTTTTAGTGTTTTGTTTTATT Found at i:41107903 original size:21 final size:19 Alignment explanation
Indices: 41107871--41107909 Score: 51 Period size: 21 Copynumber: 1.9 Consensus size: 19 41107861 AGGACAAGGT 41107871 TTATAGGCTGAAGAAGGCC 1 TTATAGGCTGAAGAAGGCC * 41107890 TTATATGGCCTGAAGCAGGC 1 TTATA-GG-CTGAAGAAGGC 41107910 ACCAAGAGCC Statistics Matches: 17, Mismatches: 1, Indels: 2 0.85 0.05 0.10 Matches are distributed among these distances: 19 5 0.29 20 2 0.12 21 10 0.59 ACGTcount: A:0.28, C:0.18, G:0.31, T:0.23 Consensus pattern (19 bp): TTATAGGCTGAAGAAGGCC Found at i:41115914 original size:14 final size:14 Alignment explanation
Indices: 41115876--41115915 Score: 53 Period size: 14 Copynumber: 2.9 Consensus size: 14 41115866 CTTACCTAAT * * 41115876 TGTGCAAGTTATGA 1 TGTGCAAGTTGTAA * 41115890 TTTGCAAGTTGTAA 1 TGTGCAAGTTGTAA 41115904 TGTGCAAGTTGT 1 TGTGCAAGTTGT 41115916 GCAAGTTGCA Statistics Matches: 22, Mismatches: 4, Indels: 0 0.85 0.15 0.00 Matches are distributed among these distances: 14 22 1.00 ACGTcount: A:0.25, C:0.07, G:0.28, T:0.40 Consensus pattern (14 bp): TGTGCAAGTTGTAA Found at i:41131149 original size:37 final size:37 Alignment explanation
Indices: 41131098--41131215 Score: 191 Period size: 37 Copynumber: 3.2 Consensus size: 37 41131088 GGCGAGACCT * * 41131098 TTACCTCAGACAAAATCTCCACACGAAGTTATCGGGTC 1 TTACC-CAGACAAAATCTCCACACGTAGTCATCGGGTC 41131136 TTACCCAGACAAAATCTCCACACGTAGTCATCGGGTC 1 TTACCCAGACAAAATCTCCACACGTAGTCATCGGGTC * * 41131173 TTACCCGGACATAATCTCCACACGTAGTCATCGGGTC 1 TTACCCAGACAAAATCTCCACACGTAGTCATCGGGTC 41131210 TTACCC 1 TTACCC 41131216 GGAATATATT Statistics Matches: 76, Mismatches: 4, Indels: 1 0.94 0.05 0.01 Matches are distributed among these distances: 37 71 0.93 38 5 0.07 ACGTcount: A:0.28, C:0.32, G:0.16, T:0.24 Consensus pattern (37 bp): TTACCCAGACAAAATCTCCACACGTAGTCATCGGGTC Found at i:41131615 original size:145 final size:145 Alignment explanation
Indices: 41131365--41131660 Score: 472 Period size: 145 Copynumber: 2.0 Consensus size: 145 41131355 GCACATCGCC * 41131365 TACATGTTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAG 1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAG * * 41131430 CCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT-GACCATTCGGCTTTAC 66 CCATTCGGCTTTACCACATATACATATCTCA-ATACATATTTCACATTAG-CCATTCGACTTTAC * 41131494 CACATATGCATAT-TCA 129 CACATATACATATCTCA * * 41131510 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG 1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAG 41131575 CCATTCGGCGCTTTACCACATATACATATCTC-ATACATATTTCACATTAGCCATTCGACTTTAC 66 CCATTC-G-GCTTTACCACATATACATATCTCAATACATATTTCACATTAGCCATTCGACTTTAC * 41131639 CACATATACATATCTTA 129 CACATATACATATCTCA 41131656 TACAT 1 TACAT 41131661 CAATTTCAGC Statistics Matches: 140, Mismatches: 7, Indels: 7 0.91 0.05 0.05 Matches are distributed among these distances: 145 108 0.77 146 9 0.06 147 23 0.16 ACGTcount: A:0.31, C:0.27, G:0.07, T:0.35 Consensus pattern (145 bp): TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAG CCATTCGGCTTTACCACATATACATATCTCAATACATATTTCACATTAGCCATTCGACTTTACCA CATATACATATCTCA Found at i:41131668 original size:50 final size:48 Alignment explanation
Indices: 41131365--41131660 Score: 470 Period size: 48 Copynumber: 6.1 Consensus size: 48 41131355 GCACATCGCC * * 41131365 TACATGTTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA 1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA * 41131413 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA 1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A * * 41131463 TATATATTTCACATT-GACCATTCGGCTTTACCACATATGCATAT-TCA 1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA 41131510 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA 1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA 41131558 TACATATTTCACATTAGCCATTCGGCGCTTTACCACATATACATATCTCA 1 TACATATTTCACATTAGCCATTC-G-GCTTTACCACATATACATATCTCA * * 41131608 TACATATTTCACATTAGCCATTCGACTTTACCACATATACATATCTTA 1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA 41131656 TACAT 1 TACAT 41131661 CAATTTCAGC Statistics Matches: 233, Mismatches: 8, Indels: 14 0.91 0.03 0.05 Matches are distributed among these distances: 47 41 0.18 48 100 0.43 49 5 0.02 50 87 0.37 ACGTcount: A:0.31, C:0.27, G:0.07, T:0.35 Consensus pattern (48 bp): TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA Found at i:41139918 original size:32 final size:33 Alignment explanation
Indices: 41139864--41139927 Score: 121 Period size: 32 Copynumber: 2.0 Consensus size: 33 41139854 TTGAATGTAT 41139864 GAGAAAAGTATATTTTTATGTATTGTAAGTCCG 1 GAGAAAAGTATATTTTTATGTATTGTAAGTCCG 41139897 GAGAAAAGTATA-TTTTATGTATTGTAAGTCC 1 GAGAAAAGTATATTTTTATGTATTGTAAGTCC 41139928 AGTAATGCTC Statistics Matches: 31, Mismatches: 0, Indels: 1 0.97 0.00 0.03 Matches are distributed among these distances: 32 19 0.61 33 12 0.39 ACGTcount: A:0.34, C:0.06, G:0.20, T:0.39 Consensus pattern (33 bp): GAGAAAAGTATATTTTTATGTATTGTAAGTCCG Found at i:41147189 original size:40 final size:40 Alignment explanation
Indices: 41147134--41147313 Score: 148 Period size: 40 Copynumber: 4.5 Consensus size: 40 41147124 GGCACAACCA * * * * 41147134 CCCTTCGGAATCAAGCACGATTCTTAACACTGGCTC-AAAG 1 CCCTTCGAAACCAAGCTCGATT-ATAACACTGGCTCAAAAG * *** * * 41147174 CCCTTCGAGACCAAGCTCGGATTAGGCCACTGGCTCGAAGG 1 CCCTTCGAAACCAAGCTC-GATTATAACACTGGCTCAAAAG * * * 41147215 CCCTTCGAAACTAAG-TCCGGTTATGACACTGGCTCAAAAG 1 CCCTTCGAAACCAAGCT-CGATTATAACACTGGCTCAAAAG * * * * 41147255 CCCTTCGAAACTAAGTTCGGTTATTAGCACTGGCTCAAAAG 1 CCCTTCGAAACCAAGCTCGATTA-TAACACTGGCTCAAAAG * 41147296 CCCTTCGAACCCAAGCTC 1 CCCTTCGAAACCAAGCTC 41147314 AGACTTACAC Statistics Matches: 114, Mismatches: 21, Indels: 9 0.79 0.15 0.06 Matches are distributed among these distances: 40 62 0.54 41 52 0.46 ACGTcount: A:0.27, C:0.31, G:0.21, T:0.22 Consensus pattern (40 bp): CCCTTCGAAACCAAGCTCGATTATAACACTGGCTCAAAAG Found at i:41147298 original size:41 final size:41 Alignment explanation
Indices: 41147161--41147304 Score: 179 Period size: 40 Copynumber: 3.6 Consensus size: 41 41147151 CGATTCTTAA * * * 41147161 CACTGGCTC-AAAGCCCTTCGAGACCAAGCTCGG--ATTAGG 1 CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTA-G * * * * 41147200 CCACTGGCTCGAAGGCCCTTCGAAACTAAGTCCGGTTATGA- 1 -CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG 41147241 CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG 1 CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG 41147282 CACTGGCTCAAAAGCCCTTCGAA 1 CACTGGCTCAAAAGCCCTTCGAA 41147305 CCCAAGCTCA Statistics Matches: 90, Mismatches: 10, Indels: 7 0.84 0.09 0.07 Matches are distributed among these distances: 40 45 0.50 41 42 0.47 43 3 0.03 ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22 Consensus pattern (41 bp): CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG Found at i:41155500 original size:40 final size:40 Alignment explanation
Indices: 41155353--41155536 Score: 225 Period size: 40 Copynumber: 4.7 Consensus size: 40 41155343 TCGAATGATG * * * * 41155353 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA 1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA * 41155393 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACT-AA 1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA * * 41155432 TTCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA 1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA * 41155471 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA 1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA * 41155512 -CCGGGCTATGTCCCGAAGGCATTTG 1 TCCGGGCTAAGTCCCGAAGGCATTTG 41155537 AACGAGTAGC Statistics Matches: 125, Mismatches: 13, Indels: 12 0.83 0.09 0.08 Matches are distributed among these distances: 38 23 0.18 39 21 0.17 40 71 0.57 41 10 0.08 ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26 Consensus pattern (40 bp): TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA Found at i:41158984 original size:40 final size:40 Alignment explanation
Indices: 41158929--41159151 Score: 200 Period size: 41 Copynumber: 5.5 Consensus size: 40 41158919 GGCACAACCA * * * * 41158929 CCCTTCGGAATCAAGCACGATTCTTAACACTGGCTC-AAAG 1 CCCTTCGAAACCAAGCTCGGTT-TTAACACTGGCTCAAAAG * * * * * 41158969 CCCTTCGAGACCAAGCTCGG-ATTAGGCCACTGGCTCGAAGG 1 CCCTTCGAAACCAAGCTCGGTTTTA--ACACTGGCTCAAAAG * * * 41159010 CCCTTCGAAACTAAG-TCCGGTTATGACACTGGCTCAAAAG 1 CCCTTCGAAACCAAGCT-CGGTTTTAACACTGGCTCAAAAG * * * 41159050 CCCTTCGAAACTAAGTTCGGTTATTAGCACTGGCTCAAAAG 1 CCCTTCGAAACCAAGCTCGGTT-TTAACACTGGCTCAAAAG * * * 41159091 CCCTTCGAAACTAAGTTCGGTTATTAGCACTGGCTCAAAAG 1 CCCTTCGAAACCAAGCTCGGTT-TTAACACTGGCTCAAAAG * 41159132 CCCTTCGAACCCAAGCTCGG 1 CCCTTCGAAACCAAGCTCGG 41159152 ACTTACACCC Statistics Matches: 154, Mismatches: 22, Indels: 13 0.81 0.12 0.07 Matches are distributed among these distances: 38 3 0.02 40 57 0.37 41 93 0.60 42 1 0.01 ACGTcount: A:0.27, C:0.29, G:0.21, T:0.22 Consensus pattern (40 bp): CCCTTCGAAACCAAGCTCGGTTTTAACACTGGCTCAAAAG Found at i:41159081 original size:81 final size:81 Alignment explanation
Indices: 41158955--41159152 Score: 276 Period size: 81 Copynumber: 2.4 Consensus size: 81 41158945 ACGATTCTTA * * * 41158955 ACACTGGCTC-AAAGCCCTTCGAGACCAAGCTCGGATTAGGCCACTGGCTCGAAGGCCCTTCGAA 1 ACACTGGCTCAAAAGCCCTTCGAAACCAAGCTCGGATTAGGCCACTGGCTCAAAAGCCCTTCGAA 41159019 ACTAAGTCCGGTTATG 66 ACTAAGTCCGGTTATG * * 41159035 ACACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTA-G-CACTGGCTCAAAAGCCCTTCG 1 ACACTGGCTCAAAAGCCCTTCGAAACCAAGCTCGG--ATTAGGCCACTGGCTCAAAAGCCCTTCG * * 41159098 AAACTAAGTTCGGTTATT 64 AAACTAAGTCCGGTTATG * 41159116 AGCACTGGCTCAAAAGCCCTTCGAACCCAAGCTCGGA 1 A-CACTGGCTCAAAAGCCCTTCGAAACCAAGCTCGGA 41159153 CTTACACCCC Statistics Matches: 104, Mismatches: 10, Indels: 8 0.85 0.08 0.07 Matches are distributed among these distances: 80 11 0.11 81 57 0.55 82 32 0.31 83 4 0.04 ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22 Consensus pattern (81 bp): ACACTGGCTCAAAAGCCCTTCGAAACCAAGCTCGGATTAGGCCACTGGCTCAAAAGCCCTTCGAA ACTAAGTCCGGTTATG Found at i:41159093 original size:41 final size:41 Alignment explanation
Indices: 41158956--41159140 Score: 261 Period size: 41 Copynumber: 4.6 Consensus size: 41 41158946 CGATTCTTAA * * * 41158956 CACTGGCTC-AAAGCCCTTCGAGACCAAGCTCGG--ATTAGG 1 CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTA-G * * * * 41158995 CCACTGGCTCGAAGGCCCTTCGAAACTAAGTCCGGTTATGA- 1 -CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG 41159036 CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG 1 CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG 41159077 CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG 1 CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG 41159118 CACTGGCTCAAAAGCCCTTCGAA 1 CACTGGCTCAAAAGCCCTTCGAA 41159141 CCCAAGCTCG Statistics Matches: 131, Mismatches: 10, Indels: 7 0.89 0.07 0.05 Matches are distributed among these distances: 40 45 0.34 41 83 0.63 43 3 0.02 ACGTcount: A:0.28, C:0.28, G:0.22, T:0.23 Consensus pattern (41 bp): CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG Found at i:41162111 original size:19 final size:18 Alignment explanation
Indices: 41162089--41162128 Score: 62 Period size: 19 Copynumber: 2.2 Consensus size: 18 41162079 TGAATAAAAC 41162089 TTATCTAACTAAATAAGAT 1 TTATCTAACTAAATAA-AT * 41162108 TTATCTACCTAAATAAAT 1 TTATCTAACTAAATAAAT 41162126 TTA 1 TTA 41162129 AATATATCCC Statistics Matches: 20, Mismatches: 1, Indels: 1 0.91 0.05 0.05 Matches are distributed among these distances: 18 5 0.25 19 15 0.75 ACGTcount: A:0.45, C:0.12, G:0.03, T:0.40 Consensus pattern (18 bp): TTATCTAACTAAATAAAT Found at i:41175858 original size:13 final size:14 Alignment explanation
Indices: 41175835--41175879 Score: 58 Period size: 13 Copynumber: 3.3 Consensus size: 14 41175825 ACAACAAAAG 41175835 AAAG-TGAAAAGAA 1 AAAGATGAAAAGAA * 41175848 AATGA-GAAAAGAA 1 AAAGATGAAAAGAA 41175861 AAAGATGAGAAAGAA 1 AAAGATGA-AAAGAA 41175876 AAAG 1 AAAG 41175880 CATGTGAGAA Statistics Matches: 27, Mismatches: 2, Indels: 4 0.82 0.06 0.12 Matches are distributed among these distances: 13 15 0.56 14 2 0.07 15 10 0.37 ACGTcount: A:0.69, C:0.00, G:0.24, T:0.07 Consensus pattern (14 bp): AAAGATGAAAAGAA Found at i:41175875 original size:15 final size:16 Alignment explanation
Indices: 41175849--41175879 Score: 55 Period size: 15 Copynumber: 2.0 Consensus size: 16 41175839 TGAAAAGAAA 41175849 ATGAGAAAAGAAAAAG 1 ATGAGAAAAGAAAAAG 41175865 ATGAG-AAAGAAAAAG 1 ATGAGAAAAGAAAAAG 41175880 CATGTGAGAA Statistics Matches: 15, Mismatches: 0, Indels: 1 0.94 0.00 0.06 Matches are distributed among these distances: 15 10 0.67 16 5 0.33 ACGTcount: A:0.68, C:0.00, G:0.26, T:0.06 Consensus pattern (16 bp): ATGAGAAAAGAAAAAG Found at i:41179044 original size:29 final size:28 Alignment explanation
Indices: 41179012--41179082 Score: 88 Period size: 29 Copynumber: 2.5 Consensus size: 28 41179002 ATACAAGTCT ** * 41179012 TTAATATGTCTTACCTTAAATTCATGTTA 1 TTAATATGTCTTAAATTAAA-ACATGTTA * 41179041 TTAATATGTCTTAAAATTAAAACATGTTT 1 TTAATATGTCTT-AAATTAAAACATGTTA 41179070 TTAATATGTCTTA 1 TTAATATGTCTTA 41179083 GTGCAGCCGA Statistics Matches: 37, Mismatches: 4, Indels: 3 0.84 0.09 0.07 Matches are distributed among these distances: 28 1 0.03 29 30 0.81 30 6 0.16 ACGTcount: A:0.35, C:0.10, G:0.07, T:0.48 Consensus pattern (28 bp): TTAATATGTCTTAAATTAAAACATGTTA Found at i:41185206 original size:8 final size:8 Alignment explanation
Indices: 41185173--41185214 Score: 59 Period size: 8 Copynumber: 5.4 Consensus size: 8 41185163 AAAGAAAATA 41185173 AAATAATT 1 AAATAATT 41185181 -AATAATT 1 AAATAATT * * 41185188 AAACAAGT 1 AAATAATT 41185196 AAATAATT 1 AAATAATT 41185204 AAATAATT 1 AAATAATT 41185212 AAA 1 AAA 41185215 AGAAATGATG Statistics Matches: 29, Mismatches: 4, Indels: 2 0.83 0.11 0.06 Matches are distributed among these distances: 7 7 0.24 8 22 0.76 ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31 Consensus pattern (8 bp): AAATAATT Found at i:41188582 original size:27 final size:26 Alignment explanation
Indices: 41188520--41188634 Score: 131 Period size: 27 Copynumber: 4.3 Consensus size: 26 41188510 AACATGGCTG * * 41188520 CCAGAACAGATAATGTGACAGAGTCA 1 CCAGAACAGATAATGTGGCAGAGCCA * * 41188546 CTAGATACAGATAATCGTGGCAGGGCCA 1 CCAGA-ACAGATAAT-GTGGCAGAGCCA * 41188574 CCATAACAGATATATGTGGCAGAGCCA 1 CCAGAACAGATA-ATGTGGCAGAGCCA * * 41188601 CCAGATCAGATATTTGTGGCAGAGCCA 1 CCAGAACAGATA-ATGTGGCAGAGCCA 41188628 CCAGAAC 1 CCAGAAC 41188635 GCTTCCTCCA Statistics Matches: 75, Mismatches: 11, Indels: 5 0.82 0.12 0.05 Matches are distributed among these distances: 26 4 0.05 27 57 0.76 28 14 0.19 ACGTcount: A:0.36, C:0.23, G:0.24, T:0.17 Consensus pattern (26 bp): CCAGAACAGATAATGTGGCAGAGCCA Found at i:41190281 original size:26 final size:26 Alignment explanation
Indices: 41190245--41190380 Score: 245 Period size: 26 Copynumber: 5.2 Consensus size: 26 41190235 CATGAAATTC * 41190245 TTATCATGAAACATTTACCTAACCCA 1 TTATCATGAAACATTTACCTAACCTA * 41190271 TTATCATGAAACATTTACCTAACCCA 1 TTATCATGAAACATTTACCTAACCTA 41190297 TTATCATGAAACATTTACCTAACCTA 1 TTATCATGAAACATTTACCTAACCTA * 41190323 TTATCATGGAACATTTACCTAACCTA 1 TTATCATGAAACATTTACCTAACCTA 41190349 TTATCATGAAACATTTACCTAACCTA 1 TTATCATGAAACATTTACCTAACCTA 41190375 TTATCA 1 TTATCA 41190381 ATTTGTATCA Statistics Matches: 107, Mismatches: 3, Indels: 0 0.97 0.03 0.00 Matches are distributed among these distances: 26 107 1.00 ACGTcount: A:0.38, C:0.24, G:0.04, T:0.34 Consensus pattern (26 bp): TTATCATGAAACATTTACCTAACCTA Found at i:41191987 original size:12 final size:12 Alignment explanation
Indices: 41191953--41191994 Score: 50 Period size: 12 Copynumber: 3.6 Consensus size: 12 41191943 AATTAGAATG * * 41191953 TAAAAATTAAAC 1 TAAAAAATAAAA * 41191965 TAAATAA-AAAA 1 TAAAAAATAAAA 41191976 TAAAAAATAAAA 1 TAAAAAATAAAA 41191988 TAAAAAA 1 TAAAAAA 41191995 GGCTAAATTA Statistics Matches: 25, Mismatches: 4, Indels: 2 0.81 0.13 0.06 Matches are distributed among these distances: 11 9 0.36 12 16 0.64 ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19 Consensus pattern (12 bp): TAAAAAATAAAA Found at i:41192102 original size:37 final size:37 Alignment explanation
Indices: 41192042--41192112 Score: 124 Period size: 37 Copynumber: 1.9 Consensus size: 37 41192032 AGTCCCCAAT * 41192042 AATGGTGCCAAAAACTTGGTAGTCACAAAACTAAGAC 1 AATGGTGCCAAAAACTTGATAGTCACAAAACTAAGAC * 41192079 AATGGTGCCAAAACCTTGATAGTCACAAAACTAA 1 AATGGTGCCAAAAACTTGATAGTCACAAAACTAA 41192113 CTATAAATAC Statistics Matches: 32, Mismatches: 2, Indels: 0 0.94 0.06 0.00 Matches are distributed among these distances: 37 32 1.00 ACGTcount: A:0.44, C:0.20, G:0.17, T:0.20 Consensus pattern (37 bp): AATGGTGCCAAAAACTTGATAGTCACAAAACTAAGAC Found at i:41195434 original size:14 final size:14 Alignment explanation
Indices: 41195415--41195441 Score: 54 Period size: 14 Copynumber: 1.9 Consensus size: 14 41195405 AATACTTAGT 41195415 TTTGTTCTTAATTA 1 TTTGTTCTTAATTA 41195429 TTTGTTCTTAATT 1 TTTGTTCTTAATT 41195442 CTTAGTTTAA 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:0.19, C:0.07, G:0.07, T:0.67 Consensus pattern (14 bp): TTTGTTCTTAATTA Found at i:41208246 original size:47 final size:47 Alignment explanation
Indices: 41208167--41208383 Score: 353 Period size: 47 Copynumber: 4.6 Consensus size: 47 41208157 TATTTGAATA 41208167 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG 1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG 41208216 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG 1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG 41208263 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG 1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG * * * * * 41208310 AATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATG 1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG * * 41208357 GATGTGAAAGTGTATAAATGTGATAAG 1 AATGTGAAAGTGTATATATGTGATAAG 41208384 TCCCGAAGGG Statistics Matches: 160, Mismatches: 8, Indels: 2 0.94 0.05 0.01 Matches are distributed among these distances: 47 148 0.93 49 12 0.08 ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29 Consensus pattern (47 bp): AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG Found at i:41225679 original size:93 final size:93 Alignment explanation
Indices: 41225571--41225743 Score: 256 Period size: 93 Copynumber: 1.9 Consensus size: 93 41225561 CGCCCATAAG * * * 41225571 TGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAAATCAGACTCAACTCA 1 TGAACTCAGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAAATCAGACTCAACTCA 41225636 ACGAGCTCGGATGCCTAGTTACATCTCT 66 ACGAGCTCGGATGCCTAGTTACATCTCT * * * * * * 41225664 TGAACTCGGACTCAACTCAACAAGTTCTGACATTCGCATCCATAAGTGAACTCGGTCTCAACTCA 1 TGAACTCAGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAAATCAGACTCAACTCA * 41225729 ACGAGTTCGGATGCC 66 ACGAGCTCGGATGCC 41225744 CAAATATCCT Statistics Matches: 70, Mismatches: 10, Indels: 0 0.88 0.12 0.00 Matches are distributed among these distances: 93 70 1.00 ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23 Consensus pattern (93 bp): TGAACTCAGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAAATCAGACTCAACTCA ACGAGCTCGGATGCCTAGTTACATCTCT Found at i:41226043 original size:40 final size:39 Alignment explanation
Indices: 41225999--41226156 Score: 126 Period size: 41 Copynumber: 3.9 Consensus size: 39 41225989 CGATTCTTAA * 41225999 CACTGGTTC-AAAGCCCTTCGAGACCAAGCTCGGATTAGG 1 CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGATTA-G * * * * * 41226038 CCACTGGCTCGAAGGCCCTTCG-GAACTATG-TCCGATTATG 1 -CACTGGCTCAAAAGCCCTTCGAG-ACCAAGCTCGGATTA-G * * * * 41226078 ACACTGTCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG 1 -CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGG--ATTAG 41226120 CACTGGCTCAAAAGCCCTTCGA-ACCCAAGCTCGGATT 1 CACTGGCTCAAAAGCCCTTCGAGA-CCAAGCTCGGATT 41226157 TACACCCCGA Statistics Matches: 95, Mismatches: 16, Indels: 15 0.75 0.13 0.12 Matches are distributed among these distances: 39 3 0.03 40 41 0.43 41 46 0.48 42 1 0.01 43 4 0.04 ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23 Consensus pattern (39 bp): CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGATTAG Found at i:41226133 original size:41 final size:41 Alignment explanation
Indices: 41225999--41226142 Score: 134 Period size: 40 Copynumber: 3.6 Consensus size: 41 41225989 CGATTCTTAA * * * * 41225999 CACTGGTTC-AAAGCCCTTCGAGACCAAGCTCGG--ATTAGG 1 CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTA-G * * * * * * * 41226038 CCACTGGCTCGAAGGCCCTTCGGAACTATGTCCGATTATGA- 1 -CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG * 41226079 CACTGTCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG 1 CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG 41226120 CACTGGCTCAAAAGCCCTTCGAA 1 CACTGGCTCAAAAGCCCTTCGAA 41226143 CCCAAGCTCG Statistics Matches: 81, Mismatches: 19, Indels: 7 0.76 0.18 0.07 Matches are distributed among these distances: 40 40 0.49 41 38 0.47 43 3 0.04 ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24 Consensus pattern (41 bp): CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG Found at i:41229760 original size:39 final size:39 Alignment explanation
Indices: 41229683--41229786 Score: 111 Period size: 40 Copynumber: 2.6 Consensus size: 39 41229673 TAGCTCCTCG * * * 41229683 TTCAAGTGCCTTCGGGACATAGCCCGGTTATAGTAACTCA 1 TTCAA-TGCCTTCGGGACTTAACCCGGTTATAGAAACTCA * * 41229723 TTCAATGCCTTCGGGACTTAACCCGGATTTTA-AAACTCG 1 TTCAATGCCTTCGGGACTTAACCCGG-TTATAGAAACTCA ** 41229762 CACGAATGCCTTCGGGACTTAACCC 1 TTC-AATGCCTTCGGGACTTAACCC 41229787 AGAATTAGTA Statistics Matches: 55, Mismatches: 7, Indels: 4 0.83 0.11 0.06 Matches are distributed among these distances: 39 25 0.45 40 30 0.55 ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27 Consensus pattern (39 bp): TTCAATGCCTTCGGGACTTAACCCGGTTATAGAAACTCA Found at i:41229802 original size:40 final size:40 Alignment explanation
Indices: 41229726--41229816 Score: 112 Period size: 40 Copynumber: 2.3 Consensus size: 40 41229716 TAACTCATTC * * * 41229726 AATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACG 1 AATGCCTTCGGGACTTAACCCAGATATTAAAACTCGCACA * * 41229766 AATGCCTTCGGGACTTAACCCAGA-ATTAGTATCTCGCACA 1 AATGCCTTCGGGACTTAACCCAGATATTA-AAACTCGCACA * 41229806 AATACCTTCGG 1 AATGCCTTCGG 41229817 ATCTTAGTCC Statistics Matches: 44, Mismatches: 6, Indels: 2 0.85 0.12 0.04 Matches are distributed among these distances: 39 3 0.07 40 41 0.93 ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25 Consensus pattern (40 bp): AATGCCTTCGGGACTTAACCCAGATATTAAAACTCGCACA Found at i:41237584 original size:39 final size:38 Alignment explanation
Indices: 41237497--41237639 Score: 121 Period size: 39 Copynumber: 3.7 Consensus size: 38 41237487 AGTACTCATT * 41237497 CAATGCCTTCGGGACTTAACCCGGATTTTAAACTCGCA 1 CAATGCCTTCGGGACTTAACCCGGATTGTAAACTCGCA * 41237535 CGAATGCCTTCGGGACTTAACCCGGAATTAGT-ATCTCGCA 1 C-AATGCCTTCGGGACTTAACCCGG-ATT-GTAAACTCGCA * ** * * 41237575 CAATACCTTC-GGATCTTAGTCCGGATATAGT-CACTTAGCA 1 CAATGCCTTCGGGA-CTTAACCCGGAT-T-GTAAAC-TCGCA * * 41237615 CAAAGCCTTCGGGACTTAGCCCGGA 1 CAATGCCTTCGGGACTTAACCCGGA 41237640 CAGCATTCAA Statistics Matches: 87, Mismatches: 11, Indels: 12 0.79 0.10 0.11 Matches are distributed among these distances: 38 6 0.07 39 44 0.51 40 33 0.38 41 4 0.05 ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25 Consensus pattern (38 bp): CAATGCCTTCGGGACTTAACCCGGATTGTAAACTCGCA Found at i:41245267 original size:40 final size:39 Alignment explanation
Indices: 41245223--41245380 Score: 169 Period size: 41 Copynumber: 3.9 Consensus size: 39 41245213 CGATTCTTAA * 41245223 CACTGGCTC-AAAGCCCTTCGAGACCAAGCTCGGATTAGG 1 CACTGGCTCAAAAGCCCTTCGAAACCAAGCTCGGATTA-G * * * 41245262 CCACTGGCTCGAAGGCCCTTCGAAACTAAG-TCTGG-TTATG 1 -CACTGGCTCAAAAGCCCTTCGAAACCAAGCTC-GGATTA-G * * 41245302 ACACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG 1 -CACTGGCTCAAAAGCCCTTCGAAACCAAGCTCGG--ATTAG * 41245344 CACTGGCTCAAAAGCCCTTCGAACCCAAGCTCGGATT 1 CACTGGCTCAAAAGCCCTTCGAAACCAAGCTCGGATT 41245381 TACACCCCGA Statistics Matches: 102, Mismatches: 10, Indels: 13 0.82 0.08 0.10 Matches are distributed among these distances: 39 3 0.03 40 44 0.43 41 51 0.50 42 1 0.01 43 3 0.03 ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22 Consensus pattern (39 bp): CACTGGCTCAAAAGCCCTTCGAAACCAAGCTCGGATTAG Found at i:41245360 original size:41 final size:40 Alignment explanation
Indices: 41245223--41245366 Score: 170 Period size: 40 Copynumber: 3.6 Consensus size: 40 41245213 CGATTCTTAA * * 41245223 CACTGGCTC-AAAGCCCTTCGAGACCAAGCTCGG--ATTAGG 1 CACTGGCTCAAAAGCCCTTCGAAACTAAG-TCGGTTATTA-G * * * 41245262 CCACTGGCTCGAAGGCCCTTCGAAACTAAGTCTGGTTATGA- 1 -CACTGGCTCAAAAGCCCTTCGAAACTAAGTC-GGTTATTAG 41245303 CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG 1 CACTGGCTCAAAAGCCCTTCGAAACTAAG-TCGGTTATTAG 41245344 CACTGGCTCAAAAGCCCTTCGAA 1 CACTGGCTCAAAAGCCCTTCGAA 41245367 CCCAAGCTCG Statistics Matches: 91, Mismatches: 7, Indels: 11 0.83 0.06 0.10 Matches are distributed among these distances: 40 45 0.49 41 43 0.47 43 3 0.03 ACGTcount: A:0.27, C:0.28, G:0.22, T:0.22 Consensus pattern (40 bp): CACTGGCTCAAAAGCCCTTCGAAACTAAGTCGGTTATTAG Found at i:41248667 original size:46 final size:45 Alignment explanation
Indices: 41248600--41248774 Score: 172 Period size: 46 Copynumber: 3.8 Consensus size: 45 41248590 TGTAACCCGC 41248600 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT 1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGC-TTCGCAT * * * * 41248646 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGATGCCTAG-TT 1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--GCTTCGCAT * *** * * * * 41248692 ACATCTCTCGAACTCAGACTCAACTCAACGAGTTTGGACATTCGCAT 1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGGC-TTCGCAT * * 41248739 CCATAAGTGAACTCGGTCTCAACTCAACGAGTTCGG 1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG 41248775 ATGCCCAAAT Statistics Matches: 101, Mismatches: 23, Indels: 10 0.75 0.17 0.07 Matches are distributed among these distances: 45 1 0.01 46 67 0.66 47 31 0.31 48 2 0.02 ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22 Consensus pattern (45 bp): CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCTTCGCAT Found at i:41248713 original size:93 final size:93 Alignment explanation
Indices: 41248608--41248779 Score: 272 Period size: 93 Copynumber: 1.8 Consensus size: 93 41248598 GCCCATAAGT * * * 41248608 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA 1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA 41248673 CAAGCTCGGATGCCTAGTTACATCTCTC 66 CAAGCTCGGATGCCTAGTTACATCTCTC * * * 41248701 GAACTCAGACTCAACTCAACGAGTTTGGACATTCGCATCCATAAGTGAACTCGGTCTCAACTCAA 1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA * * 41248766 CGAGTTCGGATGCC 66 CAAGCTCGGATGCC 41248780 CAAATATCCT Statistics Matches: 71, Mismatches: 8, Indels: 0 0.90 0.10 0.00 Matches are distributed among these distances: 93 71 1.00 ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22 Consensus pattern (93 bp): GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA CAAGCTCGGATGCCTAGTTACATCTCTC Found at i:41257436 original size:40 final size:40 Alignment explanation
Indices: 41257392--41257583 Score: 232 Period size: 40 Copynumber: 4.8 Consensus size: 40 41257382 TGATACTTGA * * 41257392 GGAATGTTATCCGGGCTTAAAGACCCGCAGGCT-TCGTTCT 1 GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTAT-ATGCT * 41257432 GGAAT-TGTATCCGGGCTTAAAGACCCGTAGGCTATATGCT 1 GGAATGT-TATCCGGGCTTAAAGACCCGCAGGCTATATGCT * * 41257472 AGAATGTTATCCGGGCTTAAAGACCCGCCGGCTATATGCT 1 GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTATATGCT * * 41257512 GGAATGTTATCTGGG-TTAAAGACCCGCAGGCT-TCGTGCT 1 GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTAT-ATGCT * * * 41257551 GGAATGCTATTCGGGC-TAAAGACCCGTAGGCTA 1 GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTA 41257584 CGAGCTGGTA Statistics Matches: 132, Mismatches: 14, Indels: 12 0.84 0.09 0.08 Matches are distributed among these distances: 38 1 0.01 39 48 0.36 40 81 0.61 41 2 0.02 ACGTcount: A:0.23, C:0.22, G:0.28, T:0.26 Consensus pattern (40 bp): GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTATATGCT Found at i:41257551 original size:39 final size:40 Alignment explanation
Indices: 41257392--41257621 Score: 231 Period size: 40 Copynumber: 5.8 Consensus size: 40 41257382 TGATACTTGA * 41257392 GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTTCGTTCT 1 GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCT * * 41257432 GGAAT-TGTATCCGGGCTTAAAGACCCGTAGGCTAT-ATGCT 1 GGAATGT-TATCCGGGCTTAAAGACCCGCAGGCT-TCGTGCT * * * 41257472 AGAATGTTATCCGGGCTTAAAGACCCGCCGGCTAT-ATGCT 1 GGAATGTTATCCGGGCTTAAAGACCCGCAGGCT-TCGTGCT * 41257512 GGAATGTTATCTGGG-TTAAAGACCCGCAGGCTTCGTGCT 1 GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCT * * * * * 41257551 GGAATGCTATTCGGGC-TAAAGACCCGTAGGCTACGAGCT 1 GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCT * * ** 41257590 GG--TATTATACCGGGTTTAAATTCCCGCAGGCT 1 GGAATGTTAT-CCGGGCTTAAAGACCCGCAGGCT 41257622 GGTGCTAGAA Statistics Matches: 160, Mismatches: 23, Indels: 15 0.81 0.12 0.08 Matches are distributed among these distances: 37 4 0.03 38 5 0.03 39 68 0.43 40 81 0.51 41 2 0.01 ACGTcount: A:0.23, C:0.23, G:0.28, T:0.27 Consensus pattern (40 bp): GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCT Found at i:41259427 original size:383 final size:385 Alignment explanation
Indices: 41258664--41259432 Score: 1355 Period size: 383 Copynumber: 2.0 Consensus size: 385 41258654 ATGGGACAGC * 41258664 GCCGATGGACTCTCAACCTATCACAAGCAATCAGAATGATGAGGCCAGACAGGCTTTTTATAGTG 1 GCCGATGGACTCTCAACCTATCACAAGCAATCAGAACGATGAGGCCAGACAGGCTTTTTATAGTG * * * * 41258729 TGATGAATGATTGGTTCAACCAATACCTTCGAACTAATATAGCTGTTCCGCAACCCCCACTCCCG 66 TGATGAATGATTGGTTCAACCAATACATTCAAACTAATACAGCTGTTCCACAACCCCCACTCCCG * * * 41258794 AATAATACACCCCTTGCACCTACGATACCTCTGATAATTGATCAGATGAGGTTGAATAAGCCCTC 131 AATAATACACCCCCTGCACCTACGATACCTCCGATAATTGATCAGATGAGGTTGAATAAGCCCCC * * 41258859 GGTTGACAGAATTCGAAAGCACGGGGCTACTGAATTTAAGGCTACCGATAGTGATGATGCTGAGC 196 GGTTGACAGAATTCGAAAGCACGGGGCTACTGAATTTAAGGCTACCGATAGTGATAATGCTAAGC * * 41258924 AAGCTGAATTTTGGTTGGACAATACTATCCGAGTGTTTGATGAACTGTCTTGCACACCCGATGAA 261 AAGCTAAATTTTGGTTGGACAATACTATCCGAGTGTTCGATGAACTGTCTTGCACACCCGATGAA 41258989 TGCCTAAAATGTGCTGTATCTTTGCTACGTGATTCTGCCTACTATTGGTGGAATACGTTG 326 TGCCTAAAATGTGCTGTATCTTTGCTACGTGATTCTGCCTACTATTGGTGGAATACGTTG * 41259049 GCCGATGGACTCTCAACCTATCGCAAGCAATCAGAACGATGAGGCCAGACAGGCTTTTTATAGTG 1 GCCGATGGACTCTCAACCTATCACAAGCAATCAGAACGATGAGGCCAGACAGGCTTTTTATAGTG * 41259114 TGATGAATGATTGGTTCAACCAATACATTCAAACTAATACGGCTGTTCCACAA-CCCCACTCCCG 66 TGATGAATGATTGGTTCAACCAATACATTCAAACTAATACAGCTGTTCCACAACCCCCACTCCCG * 41259178 AATAATACACCCCCTGCACCTACGATACCTCCGATGATTGATCAGATGAGGTTGAATAAGCCCCC 131 AATAATACACCCCCTGCACCTACGATACCTCCGATAATTGATCAGATGAGGTTGAATAAGCCCCC 41259243 GGTTGACAGAA-TCTGAAAGCACGGGGCTACTGAATTTAAGGCTACCGATAGTG-TAATGCTAAG 196 GGTTGACAGAATTC-GAAAGCACGGGGCTACTGAATTTAAGGCTACCGATAGTGATAATGCTAAG * 41259306 CAAGCTAAATTTTGGTTGGACAATACTATTCGAGTGTTCGATGAACTGTCTTGCACACCCGATGA 260 CAAGCTAAATTTTGGTTGGACAATACTATCCGAGTGTTCGATGAACTGTCTTGCACACCCGATGA * 41259371 ATGCCTAAAATGTGTTGTATCTTTGCTACGTGATTCTGCCTACTATTGGTGGAATACGTTG 325 ATGCCTAAAATGTGCTGTATCTTTGCTACGTGATTCTGCCTACTATTGGTGGAATACGTTG 41259432 G 1 G 41259433 TTTCTGTTGT Statistics Matches: 366, Mismatches: 17, Indels: 4 0.95 0.04 0.01 Matches are distributed among these distances: 383 133 0.36 384 122 0.33 385 111 0.30 ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27 Consensus pattern (385 bp): GCCGATGGACTCTCAACCTATCACAAGCAATCAGAACGATGAGGCCAGACAGGCTTTTTATAGTG TGATGAATGATTGGTTCAACCAATACATTCAAACTAATACAGCTGTTCCACAACCCCCACTCCCG AATAATACACCCCCTGCACCTACGATACCTCCGATAATTGATCAGATGAGGTTGAATAAGCCCCC GGTTGACAGAATTCGAAAGCACGGGGCTACTGAATTTAAGGCTACCGATAGTGATAATGCTAAGC AAGCTAAATTTTGGTTGGACAATACTATCCGAGTGTTCGATGAACTGTCTTGCACACCCGATGAA TGCCTAAAATGTGCTGTATCTTTGCTACGTGATTCTGCCTACTATTGGTGGAATACGTTG Found at i:41265521 original size:40 final size:40 Alignment explanation
Indices: 41265477--41265707 Score: 267 Period size: 40 Copynumber: 5.8 Consensus size: 40 41265467 ATTAAATTGA 41265477 GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCT 1 GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCT * * 41265517 GGAAT-TGTATCCGAGCTTAAAGACCCGCAGGCTAT-ATGCT 1 GGAATGT-TATCCGGGCTTAAAGACCCGCAGGCT-TCGTGCT * 41265557 GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTAT-ATGCT 1 GGAATGTTATCCGGGCTTAAAGACCCGCAGGCT-TCGTGCT * * 41265597 GGAATGTTATTCGGGCTTAAAGACCCGCAGGTTTCGTGCT 1 GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCT * * * * 41265637 GGAATGCTATCCTGGC-TAAAGACCCGCAGGCTACGAGCT 1 GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCT * * ** 41265676 GG--TATTATACCGGGTTTAAATTCCCGCAGGCT 1 GGAATGTTAT-CCGGGCTTAAAGACCCGCAGGCT 41265708 GGTGCTAGAA Statistics Matches: 167, Mismatches: 18, Indels: 13 0.84 0.09 0.07 Matches are distributed among these distances: 37 4 0.02 38 4 0.02 39 38 0.23 40 119 0.71 41 2 0.01 ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26 Consensus pattern (40 bp): GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCT Found at i:41273966 original size:24 final size:24 Alignment explanation
Indices: 41273938--41273983 Score: 65 Period size: 24 Copynumber: 1.9 Consensus size: 24 41273928 AAGTTTTTTC * * 41273938 TCCTAGTTAAACTCTTATTAATCT 1 TCCTAGTCAAACTCTAATTAATCT * 41273962 TCCTAGTCGAACTCTAATTAAT 1 TCCTAGTCAAACTCTAATTAAT 41273984 TTAGGATATT Statistics Matches: 19, Mismatches: 3, Indels: 0 0.86 0.14 0.00 Matches are distributed among these distances: 24 19 1.00 ACGTcount: A:0.30, C:0.22, G:0.07, T:0.41 Consensus pattern (24 bp): TCCTAGTCAAACTCTAATTAATCT Found at i:41277129 original size:47 final size:47 Alignment explanation
Indices: 41277075--41277268 Score: 289 Period size: 47 Copynumber: 4.1 Consensus size: 47 41277065 TTAGGATTTT ** * * 41277075 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA 1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA 41277122 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA 1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA * * 41277169 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA 1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA ** * * * 41277216 ATGTGATGAACATGAACATGCATATATGTGGTAAAGCCGAATGGTCA 1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA 41277263 ATGTGA 1 ATGTGA 41277269 AATATATATA Statistics Matches: 134, Mismatches: 13, Indels: 0 0.91 0.09 0.00 Matches are distributed among these distances: 47 134 1.00 ACGTcount: A:0.34, C:0.11, G:0.29, T:0.26 Consensus pattern (47 bp): ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA Found at i:41277175 original size:22 final size:22 Alignment explanation
Indices: 41277104--41277222 Score: 59 Period size: 22 Copynumber: 5.1 Consensus size: 22 41277094 GTATATATGA 41277104 GATAAGGCCGAATGGCCAATGT 1 GATAAGGCCGAATGGCCAATGT * * * 41277126 GATGAATG-TGAACAT-GCATATATGT 1 GAT-AAGGCCG-A-ATGGC-CA-ATGT 41277151 GATAAGGCCGAATGGCCAATGT 1 GATAAGGCCGAATGGCCAATGT * * 41277173 GATGAATGTG-AGCAT-G-CATATGTGT 1 GAT-AA-G-GCCGAATGGCCA-A--TGT 41277198 GATAAGGCCGAATGGCCAATGT 1 GATAAGGCCGAATGGCCAATGT 41277220 GAT 1 GAT 41277223 GAACATGAAC Statistics Matches: 71, Mismatches: 10, Indels: 32 0.63 0.09 0.28 Matches are distributed among these distances: 22 20 0.28 23 17 0.24 24 17 0.24 25 17 0.24 ACGTcount: A:0.32, C:0.13, G:0.30, T:0.24 Consensus pattern (22 bp): GATAAGGCCGAATGGCCAATGT Found at i:41277348 original size:48 final size:48 Alignment explanation
Indices: 41277238--41277614 Score: 648 Period size: 48 Copynumber: 7.8 Consensus size: 48 41277228 TGAACATGCA * * 41277238 TATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATG 1 TATATGTGGTAAAGCCGAATGGCT-AGTGTG-AA-ATATGTATGAGATATG 41277288 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG 1 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG * 41277336 TATATGTGGTAAAGCTGAATGGCTAGTGTGAAATATGTATGAGATATG 1 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG 41277384 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG 1 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG * * 41277432 TATATGCGGTAAAGCTGAATGGCTAGTGTGAAATATGTATGAGATATG 1 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG * 41277480 TATATGTGGTAAAGCTGAATGGCTAGTGTGAAATATGTATGAGATATG 1 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG 41277528 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG 1 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG * * 41277576 TATATGCGGTAAAGCTGAATGGCTAGTGTGAAATATGTA 1 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA 41277615 GGCGATGTGC Statistics Matches: 316, Mismatches: 10, Indels: 4 0.96 0.03 0.01 Matches are distributed among these distances: 48 286 0.91 49 2 0.01 50 27 0.09 51 1 0.00 ACGTcount: A:0.34, C:0.06, G:0.28, T:0.32 Consensus pattern (48 bp): TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG Found at i:41277811 original size:37 final size:37 Alignment explanation
Indices: 41277761--41277865 Score: 183 Period size: 37 Copynumber: 2.8 Consensus size: 37 41277751 GGAAATATAT 41277761 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG 1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG * 41277798 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG 1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG * * 41277835 TCCGGGTAAGACCCGATAACTTCGTGTGGAG 1 TCCGGGTAAGACCCGATGACTACGTGTGGAG 41277866 GTTTCGTCTG Statistics Matches: 65, Mismatches: 3, Indels: 0 0.96 0.04 0.00 Matches are distributed among these distances: 37 65 1.00 ACGTcount: A:0.23, C:0.20, G:0.32, T:0.25 Consensus pattern (37 bp): TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG Found at i:41286550 original size:47 final size:47 Alignment explanation
Indices: 41286462--41286711 Score: 349 Period size: 47 Copynumber: 5.3 Consensus size: 47 41286452 GGCCGAGTGG * * * 41286462 TGTGATGAATGTGAAAGTATATATATGCGTGATAAGGCCGAATGGCCAA 1 TGTGATGAATGTG-AA-CATGTATATGTGTGATAAGGCCGAATGGCCAA * * 41286511 TGTGATGAATGTGATCATGTGTATGTGTGATAAGGCCGAATGGCCAA 1 TGTGATGAATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAA * 41286558 TGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAA 1 TGTGATGAATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAA * * * 41286605 TGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAA 1 TGTGATGAATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAA * * * 41286652 TGTGATGAATGAGAA-AGTGTATATATGTGATAAGGCCGAATGACCAA 1 TGTGATGAATGTGAACA-TGTATATGTGTGATAAGGCCGAATGGCCAA * 41286699 TGTGATGGATGTG 1 TGTGATGAATGTG 41286712 GAAGTGTATA Statistics Matches: 184, Mismatches: 16, Indels: 4 0.90 0.08 0.02 Matches are distributed among these distances: 46 1 0.01 47 169 0.92 48 1 0.01 49 13 0.07 ACGTcount: A:0.32, C:0.10, G:0.30, T:0.27 Consensus pattern (47 bp): TGTGATGAATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAA Found at i:41286717 original size:47 final size:46 Alignment explanation
Indices: 41286433--41286732 Score: 340 Period size: 47 Copynumber: 6.4 Consensus size: 46 41286423 ATTGATGTAC * * * 41286433 AAGTATATATATGTGATAGGGCCGAGTGG----TGTGATGAATGTG 1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTG * 41286475 AAAGTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTG 1 -AAGTGTATATAT--GTGATAAGGCCGAATGGCCAATGTGATGAATGTG * * 41286524 ATCA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTG 1 A--AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTG * * * 41286571 AACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTG 1 AA-GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTG * * * * 41286618 AACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGAG 1 AA-GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTG * * 41286665 AAAGTGTATATATGTGATAAGGCCGAATGACCAATGTGATGGATGTGG 1 -AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGT-G * 41286713 AAGTGTATAAATGTGATAAG 1 AAGTGTATATATGTGATAAG 41286733 TCCCGAAGGG Statistics Matches: 228, Mismatches: 17, Indels: 20 0.86 0.06 0.08 Matches are distributed among these distances: 43 12 0.05 45 16 0.07 47 176 0.77 48 4 0.02 49 19 0.08 50 1 0.00 ACGTcount: A:0.33, C:0.09, G:0.31, T:0.27 Consensus pattern (46 bp): AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTG Found at i:41289352 original size:40 final size:40 Alignment explanation
Indices: 41289291--41289647 Score: 527 Period size: 40 Copynumber: 8.9 Consensus size: 40 41289281 CTCGACAATG * 41289291 ATCCGGGCTAAGTCCCAAAGAGCATTCATGCTAGTGATAT 1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT * 41289331 ATCCGGGCTAATTCCCGAAGAGCATTCATGCTAGTGATAT 1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT * * 41289371 ATCCGGGCTAAGTCCCGAAGGGCATTCATGCTAGTGATGT 1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT 41289411 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT 1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT * * * 41289451 ATCCGGGCTAAGTCCAGAAGAGCATTCATCCTAGTGATGT 1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT * * 41289491 ATCTGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT 1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT * * 41289531 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT 1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT * * * * * 41289571 ATCCGTGCTAA-ACTCCGAAGAGCATTCGTGCTGGTGTTAT 1 ATCCGGGCTAAGTC-CCGAAGAGCATTCATGCTAGTGATAT * * * 41289611 ATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTGA 1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA 41289648 CGTGTATTCG Statistics Matches: 287, Mismatches: 28, Indels: 4 0.90 0.09 0.01 Matches are distributed among these distances: 40 286 1.00 41 1 0.00 ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26 Consensus pattern (40 bp): ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT Found at i:41293086 original size:47 final size:47 Alignment explanation
Indices: 41293029--41293332 Score: 407 Period size: 47 Copynumber: 6.4 Consensus size: 47 41293019 ATTGATGTAC * * * 41293029 AAGTATATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGA 1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA * 41293076 AAGTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA 1 AAGTGTATATAT--GTGATAAGGCCGAATGGCCAATGTGATGAATGTGA * * 41293125 ACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA 1 A-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA * * 41293172 ACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA 1 A-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA * * * 41293219 ACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGAGA 1 A-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA * * * 41293266 AAGTGTATATATGTGATAAGGCCGAATGACCAATGTGATGGATGTGG 1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA * 41293313 AAGTGTATAAATGTGATAAG 1 AAGTGTATATATGTGATAAG 41293333 TCCAGAAGGG Statistics Matches: 236, Mismatches: 17, Indels: 8 0.90 0.07 0.03 Matches are distributed among these distances: 46 1 0.00 47 194 0.82 49 40 0.17 50 1 0.00 ACGTcount: A:0.34, C:0.10, G:0.30, T:0.27 Consensus pattern (47 bp): AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA Found at i:41297524 original size:6 final size:6 Alignment explanation
Indices: 41297513--41297538 Score: 52 Period size: 6 Copynumber: 4.3 Consensus size: 6 41297503 TTTTATTGCG 41297513 TTTTAT TTTTAT TTTTAT TTTTAT TT 1 TTTTAT TTTTAT TTTTAT TTTTAT TT 41297539 CCTAACTTTT Statistics Matches: 20, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 6 20 1.00 ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85 Consensus pattern (6 bp): TTTTAT Found at i:41303982 original size:61 final size:61 Alignment explanation
Indices: 41303887--41304009 Score: 246 Period size: 61 Copynumber: 2.0 Consensus size: 61 41303877 TGTAGGCGTA 41303887 TTTGTATGATTCACGTGTGGTTAACTCATTTCCATTTCATCATGGCTCACTTAGAAGCTAT 1 TTTGTATGATTCACGTGTGGTTAACTCATTTCCATTTCATCATGGCTCACTTAGAAGCTAT 41303948 TTTGTATGATTCACGTGTGGTTAACTCATTTCCATTTCATCATGGCTCACTTAGAAGCTAT 1 TTTGTATGATTCACGTGTGGTTAACTCATTTCCATTTCATCATGGCTCACTTAGAAGCTAT 41304009 T 1 T 41304010 GTGCTTTCAA Statistics Matches: 62, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 61 62 1.00 ACGTcount: A:0.23, C:0.20, G:0.16, T:0.41 Consensus pattern (61 bp): TTTGTATGATTCACGTGTGGTTAACTCATTTCCATTTCATCATGGCTCACTTAGAAGCTAT Found at i:41310881 original size:42 final size:42 Alignment explanation
Indices: 41310827--41310953 Score: 159 Period size: 43 Copynumber: 3.0 Consensus size: 42 41310817 TACATAGTGC * * 41310827 CATACCAATGCCATATCCCAGATATGGTCTTACATGTAATCT 1 CATATCAATGCCATATCCCAGATATGGTCTTACACGTAATCT * * * 41310869 CGTATCGATGCCAATAGCCCA-ACTATGGTCTTACACG-AAGTCT 1 CATATCAATGCC-ATATCCCAGA-TATGGTCTTACACGTAA-TCT * 41310912 CATATCAATGCCATATCTCAGATATGGTCTTACACGTAATCT 1 CATATCAATGCCATATCCCAGATATGGTCTTACACGTAATCT 41310954 TAGTAACCCT Statistics Matches: 71, Mismatches: 9, Indels: 10 0.79 0.10 0.11 Matches are distributed among these distances: 42 35 0.49 43 36 0.51 ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30 Consensus pattern (42 bp): CATATCAATGCCATATCCCAGATATGGTCTTACACGTAATCT Found at i:41316831 original size:20 final size:21 Alignment explanation
Indices: 41316806--41316847 Score: 59 Period size: 21 Copynumber: 2.0 Consensus size: 21 41316796 CCTTTGAAAC * 41316806 AGGGC-ACACGCCCGTGTGGA 1 AGGGCAACACGCCCATGTGGA * 41316826 AGGGCAACATGCCCATGTGGA 1 AGGGCAACACGCCCATGTGGA 41316847 A 1 A 41316848 CTTGTACATG Statistics Matches: 19, Mismatches: 2, Indels: 1 0.86 0.09 0.05 Matches are distributed among these distances: 20 5 0.26 21 14 0.74 ACGTcount: A:0.26, C:0.26, G:0.36, T:0.12 Consensus pattern (21 bp): AGGGCAACACGCCCATGTGGA Found at i:41318370 original size:46 final size:46 Alignment explanation
Indices: 41318298--41318425 Score: 211 Period size: 46 Copynumber: 2.8 Consensus size: 46 41318288 TGTAACCCGC * * 41318298 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT 1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCAT * * * 41318344 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGTCATTTGCAT 1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCAT 41318390 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG 1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG 41318426 ATGCTCAAAT Statistics Matches: 76, Mismatches: 6, Indels: 0 0.93 0.07 0.00 Matches are distributed among these distances: 46 76 1.00 ACGTcount: A:0.27, C:0.28, G:0.23, T:0.22 Consensus pattern (46 bp): CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCAT Found at i:41320366 original size:30 final size:30 Alignment explanation
Indices: 41320322--41320410 Score: 101 Period size: 30 Copynumber: 3.0 Consensus size: 30 41320312 CAAAGATAAC 41320322 AAGAAAACC-GAATAAAGAAATCCAAGATA 1 AAGAAAACCAGAATAAAGAAATCCAAGATA * * 41320351 GAGAAACCCAGAATAAAGAAATCC-AGAATA 1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA * * * * 41320381 AAGAGATCCAGGATAAAGAAACCCAAGATA 1 AAGAAAACCAGAATAAAGAAATCCAAGATA 41320411 CGATACTATG Statistics Matches: 50, Mismatches: 7, Indels: 5 0.81 0.11 0.08 Matches are distributed among these distances: 29 9 0.18 30 39 0.78 31 2 0.04 ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10 Consensus pattern (30 bp): AAGAAAACCAGAATAAAGAAATCCAAGATA Found at i:41320370 original size:15 final size:15 Alignment explanation
Indices: 41320322--41320401 Score: 92 Period size: 15 Copynumber: 5.4 Consensus size: 15 41320312 CAAAGATAAC * 41320322 AAGAAAACC-GAATA 1 AAGAAATCCAGAATA 41320336 AAGAAATCCA-AGATA 1 AAGAAATCCAGA-ATA * * 41320351 GAGAAACCCAGAATA 1 AAGAAATCCAGAATA 41320366 AAGAAATCCAGAATA 1 AAGAAATCCAGAATA * * 41320381 AAGAGATCCAGGATA 1 AAGAAATCCAGAATA 41320396 AAGAAA 1 AAGAAA 41320402 CCCAAGATAC Statistics Matches: 55, Mismatches: 8, Indels: 5 0.81 0.12 0.07 Matches are distributed among these distances: 14 9 0.16 15 45 0.82 16 1 0.02 ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10 Consensus pattern (15 bp): AAGAAATCCAGAATA Found at i:41320410 original size:15 final size:15 Alignment explanation
Indices: 41320333--41320410 Score: 79 Period size: 15 Copynumber: 5.2 Consensus size: 15 41320323 AGAAAACCGA 41320333 ATAAAGAAATCCAAG 1 ATAAAGAAATCCAAG * * 41320348 ATAGAGAAA-CCCAG 1 ATAAAGAAATCCAAG 41320362 AATAAAGAAATCC-AG 1 -ATAAAGAAATCCAAG * * 41320377 AATAAAGAGATCCAGG 1 -ATAAAGAAATCCAAG * 41320393 ATAAAGAAACCCAAG 1 ATAAAGAAATCCAAG 41320408 ATA 1 ATA 41320411 CGATACTATG Statistics Matches: 52, Mismatches: 8, Indels: 6 0.79 0.12 0.09 Matches are distributed among these distances: 14 4 0.08 15 45 0.87 16 3 0.06 ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12 Consensus pattern (15 bp): ATAAAGAAATCCAAG Found at i:41323388 original size:46 final size:46 Alignment explanation
Indices: 41323316--41323444 Score: 215 Period size: 46 Copynumber: 2.8 Consensus size: 46 41323306 TGTAACCCGC * 41323316 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAC-TTTCGCAT 1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTT-GCAT * * 41323362 TCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT 1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT 41323408 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA 1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA 41323445 TGCCCAAATA Statistics Matches: 77, Mismatches: 5, Indels: 2 0.92 0.06 0.02 Matches are distributed among these distances: 46 74 0.96 47 3 0.04 ACGTcount: A:0.29, C:0.27, G:0.21, T:0.22 Consensus pattern (46 bp): CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT Found at i:41325366 original size:49 final size:49 Alignment explanation
Indices: 41325313--41325481 Score: 202 Period size: 49 Copynumber: 3.5 Consensus size: 49 41325303 AGTCGATGTT * 41325313 ATGTCCCAAACAAGTCTTACACTGACTTTCATATATCGAGGCCGATGCC 1 ATGTCCCAGACAAGTCTTACACTGACTTTCATATATCGAGGCCGATGCC * * * * 41325362 ATGTCCCAGACAGGTCTTACACTGTCTCTT-ATCTATCG-GTGTCGATGCC 1 ATGTCCCAGACAAGTCTTACACTGACT-TTCATATATCGAG-GCCGATGCC * * * 41325411 ATGTCCCAGACAAGTCTTACACT-AGCTTGCATATCTTGAGGCCGATG-C 1 ATGTCCCAGACAAGTCTTACACTGA-CTTTCATATATCGAGGCCGATGCC * 41325459 ATGTCCCAGACATGTCTTACACT 1 ATGTCCCAGACAAGTCTTACACT 41325482 AGCTCTCGTA Statistics Matches: 102, Mismatches: 13, Indels: 11 0.81 0.10 0.09 Matches are distributed among these distances: 48 25 0.25 49 74 0.73 50 3 0.03 ACGTcount: A:0.24, C:0.28, G:0.18, T:0.29 Consensus pattern (49 bp): ATGTCCCAGACAAGTCTTACACTGACTTTCATATATCGAGGCCGATGCC Found at i:41325424 original size:98 final size:94 Alignment explanation
Indices: 41325304--41325572 Score: 278 Period size: 98 Copynumber: 2.8 Consensus size: 94 41325294 ACACATCTAA ** * 41325304 GTCGATGTTATGTCCCAAACAAGTCTTACACTGACTTTCATATATCGAGGCCGATGCCATGTCCC 1 GTCGATGCCATGTCCCAGACAAGTCTTACACTGACTTTCATATAT-GAGGCCGATG-CATGTCCC * * 41325369 AGACAGGTCTTACACT-G-TCTCTTATCTATCGGT 64 AGACATGTCTTACACTAGCTCTCGTAT-TAT---T * * 41325402 GTCGATGCCATGTCCCAGACAAGTCTTACACT-AGCTTGCATATCTTGAGGCCGATGCATGTCCC 1 GTCGATGCCATGTCCCAGACAAGTCTTACACTGA-CTTTCATAT-ATGAGGCCGATGCATGTCCC 41325466 AGACATGTCTTACACTAGCTCTCGTATTATT 64 AGACATGTCTTACACTAGCTCTCGTATTATT * * * * * * * 41325497 -ACTAATACCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-ATGTGGCCGATGCATGTCCC 1 GTC-GATGCCATGTCCCAGACA-AGTCTTACACTGACTTTCATATATGAGGCCGATGCATGTCCC * 41325560 AGGCATGTCTTAC 64 AGACATGTCTTAC 41325573 GCTTGAATGT Statistics Matches: 147, Mismatches: 17, Indels: 18 0.81 0.09 0.10 Matches are distributed among these distances: 94 31 0.21 95 17 0.12 96 16 0.11 97 24 0.16 98 51 0.35 99 8 0.05 ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30 Consensus pattern (94 bp): GTCGATGCCATGTCCCAGACAAGTCTTACACTGACTTTCATATATGAGGCCGATGCATGTCCCAG ACATGTCTTACACTAGCTCTCGTATTATT Found at i:41334691 original size:26 final size:26 Alignment explanation
Indices: 41334662--41334724 Score: 108 Period size: 26 Copynumber: 2.4 Consensus size: 26 41334652 ATCAAACCAC 41334662 ATACATATATAAATACATCTAAGCAT 1 ATACATATATAAATACATCTAAGCAT 41334688 ATACATATATAAATACATCTAAGCAT 1 ATACATATATAAATACATCTAAGCAT * * 41334714 ATTCGTATATA 1 ATACATATATA 41334725 TATCAATATA Statistics Matches: 35, Mismatches: 2, Indels: 0 0.95 0.05 0.00 Matches are distributed among these distances: 26 35 1.00 ACGTcount: A:0.48, C:0.14, G:0.05, T:0.33 Consensus pattern (26 bp): ATACATATATAAATACATCTAAGCAT Found at i:41351497 original size:149 final size:149 Alignment explanation
Indices: 41351227--41351551 Score: 605 Period size: 149 Copynumber: 2.2 Consensus size: 149 41351217 GGGCTTTGTT * * 41351227 GGATTACCAGTCCAGGCTAAATCCTTTACATGACAAATAATACCCTACAAAGTCTAATCTAGATT 1 GGATTACCTGTCCGGGCTAAATCCTTTACATGACAAATAATACCCTACAAAGTCTAATCTAGATT * 41351292 ACCAGTCTAGGCTAAATCCAGTCAACTAGGATTACTAGTCCAAGCTAAATCCAATTGAAACGTAA 66 ACCAGTCTAGGCTAAATCCAGTCAACTAGGATTACTAGTCCAAACTAAATCCAATTGAAACGTAA 41351357 GCTCAATAGGCTCATTTCA 131 GCTCAATAGGCTCATTTCA * * 41351376 GGATTACTTGTCCGGGCTAAATCCTTTACATGACAAATAATACCCTACAAAGTCTAATCTGGATT 1 GGATTACCTGTCCGGGCTAAATCCTTTACATGACAAATAATACCCTACAAAGTCTAATCTAGATT 41351441 ACCAGTCTAGGCTAAATCCAGTCAACTAGGATTACTAGTCCAAACTAAATCCAATTGAAACGTAA 66 ACCAGTCTAGGCTAAATCCAGTCAACTAGGATTACTAGTCCAAACTAAATCCAATTGAAACGTAA 41351506 GCTCAATAGGCTCATTTCA 131 GCTCAATAGGCTCATTTCA 41351525 GGATTACCTGTCCGGGCTAAATCCTTT 1 GGATTACCTGTCCGGGCTAAATCCTTT 41351552 CCATAATGAG Statistics Matches: 170, Mismatches: 6, Indels: 0 0.97 0.03 0.00 Matches are distributed among these distances: 149 170 1.00 ACGTcount: A:0.34, C:0.23, G:0.15, T:0.27 Consensus pattern (149 bp): GGATTACCTGTCCGGGCTAAATCCTTTACATGACAAATAATACCCTACAAAGTCTAATCTAGATT ACCAGTCTAGGCTAAATCCAGTCAACTAGGATTACTAGTCCAAACTAAATCCAATTGAAACGTAA GCTCAATAGGCTCATTTCA Found at i:41351806 original size:35 final size:35 Alignment explanation
Indices: 41351760--41351826 Score: 125 Period size: 35 Copynumber: 1.9 Consensus size: 35 41351750 AAAATCAAAT 41351760 TCAACATGCATAAACATCCAATTAGGTTACACGAC 1 TCAACATGCATAAACATCCAATTAGGTTACACGAC * 41351795 TCAACATGCATAAACGTCCAATTAGGTTACAC 1 TCAACATGCATAAACATCCAATTAGGTTACAC 41351827 AACCTTTCCT Statistics Matches: 31, Mismatches: 1, Indels: 0 0.97 0.03 0.00 Matches are distributed among these distances: 35 31 1.00 ACGTcount: A:0.39, C:0.25, G:0.12, T:0.24 Consensus pattern (35 bp): TCAACATGCATAAACATCCAATTAGGTTACACGAC Found at i:41357154 original size:39 final size:39 Alignment explanation
Indices: 41357109--41357268 Score: 248 Period size: 39 Copynumber: 4.1 Consensus size: 39 41357099 ATGCAAGATA * 41357109 CTGGAAATGTATCCGGGCTAAAGTCCTGCAGGCTTCGTG 1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG * * 41357148 CTGGAAATGTATCCAGGCTAAAGTCCCGTAGGCTTCGTG 1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG * * 41357187 CTGGAAATGTATTCGGGCTAAAGTCCCGTAGGCTTCGTG 1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG ** * 41357226 CAAGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTTGTG 1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG 41357265 CTGG 1 CTGG 41357269 TAATATAATT Statistics Matches: 109, Mismatches: 12, Indels: 0 0.90 0.10 0.00 Matches are distributed among these distances: 39 109 1.00 ACGTcount: A:0.22, C:0.23, G:0.30, T:0.26 Consensus pattern (39 bp): CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG Found at i:41390774 original size:297 final size:297 Alignment explanation
Indices: 41390240--41390806 Score: 1125 Period size: 297 Copynumber: 1.9 Consensus size: 297 41390230 AATTTTTTCA 41390240 CTCAATTCAACCGAACGCTCACCTCTACCTCTGGTATTTCCTTAAATTCAAAGCAATCTAATCAA 1 CTCAATTCAACCGAACGCTCACCTCTACCTCTGGTATTTCCTTAAATTCAAAGCAATCTAATCAA 41390305 CTTACATGCTTGAAATTTGCAGCAAATTATTTAAAACTATAAATAATAATGGTTAAGGTTAACAA 66 CTTACATGCTTGAAATTTGCAGCAAATTATTTAAAACTATAAATAATAATGGTTAAGGTTAACAA 41390370 TCCCTAAACGTTTTTCAAAAACTAAAATCACTTAAATTCATCCGTAATAAATACATCGGTCTGCA 131 TCCCTAAACGTTTTTCAAAAACTAAAATCACTTAAATTCATCCGTAATAAATACATCGGTCTGCA 41390435 TTTTTAAATTCAAAAATTGCATTGATTAAGACCTTTGACTAATGAAAACTATCTCTAACGGTTAT 196 TTTTTAAATTCAAAAATTGCATTGATTAAGACCTTTGACTAATGAAAACTATCTCTAACGGTTAT 41390500 TATTCTGATCTAATTGTTAGCTTTGACTTACAGAACG 261 TATTCTGATCTAATTGTTAGCTTTGACTTACAGAACG 41390537 CTCAATTCAACCGAACGCTCACCTCTACCTCTGGTATTTCCTTAAATTCAAAGCAATCTAATCAA 1 CTCAATTCAACCGAACGCTCACCTCTACCTCTGGTATTTCCTTAAATTCAAAGCAATCTAATCAA 41390602 CTTACATGCTTGAAATTTGCAGCAAATTATTTAAAACTATAAATAATAATGGTTAAGGTTAACAA 66 CTTACATGCTTGAAATTTGCAGCAAATTATTTAAAACTATAAATAATAATGGTTAAGGTTAACAA * 41390667 TCCCTAAACGTTTTTCAAAAACTAAAATCACTTAAATTCATCTGTAATAAATACATCGGTCTGCA 131 TCCCTAAACGTTTTTCAAAAACTAAAATCACTTAAATTCATCCGTAATAAATACATCGGTCTGCA 41390732 TTTTTAAATTCAAAAATTGCATTGATTAAGACCTTTGACTAATGAAAACTATCTCTAACGGTTAT 196 TTTTTAAATTCAAAAATTGCATTGATTAAGACCTTTGACTAATGAAAACTATCTCTAACGGTTAT 41390797 TATTCTGATC 261 TATTCTGATC 41390807 AATGTGCGCT Statistics Matches: 269, Mismatches: 1, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 297 269 1.00 ACGTcount: A:0.37, C:0.19, G:0.10, T:0.34 Consensus pattern (297 bp): CTCAATTCAACCGAACGCTCACCTCTACCTCTGGTATTTCCTTAAATTCAAAGCAATCTAATCAA CTTACATGCTTGAAATTTGCAGCAAATTATTTAAAACTATAAATAATAATGGTTAAGGTTAACAA TCCCTAAACGTTTTTCAAAAACTAAAATCACTTAAATTCATCCGTAATAAATACATCGGTCTGCA TTTTTAAATTCAAAAATTGCATTGATTAAGACCTTTGACTAATGAAAACTATCTCTAACGGTTAT TATTCTGATCTAATTGTTAGCTTTGACTTACAGAACG Found at i:41391346 original size:21 final size:20 Alignment explanation
Indices: 41391317--41391355 Score: 51 Period size: 21 Copynumber: 1.9 Consensus size: 20 41391307 CACTATCAAG * 41391317 TCAATAAAAATTATAAAAAAT 1 TCAAAAAAAATTA-AAAAAAT * 41391338 TCAAAAAAAGTTAAAAAA 1 TCAAAAAAAATTAAAAAA 41391356 TTTAAACATG Statistics Matches: 16, Mismatches: 2, Indels: 1 0.84 0.11 0.05 Matches are distributed among these distances: 20 5 0.31 21 11 0.69 ACGTcount: A:0.69, C:0.05, G:0.03, T:0.23 Consensus pattern (20 bp): TCAAAAAAAATTAAAAAAAT Found at i:41392639 original size:6 final size:6 Alignment explanation
Indices: 41392630--41392658 Score: 58 Period size: 6 Copynumber: 4.8 Consensus size: 6 41392620 AAAGTTTAGG 41392630 GTGATA GTGATA GTGATA GTGATA GTGAT 1 GTGATA GTGATA GTGATA GTGATA GTGAT 41392659 CCAAAAAAGA Statistics Matches: 23, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 6 23 1.00 ACGTcount: A:0.31, C:0.00, G:0.34, T:0.34 Consensus pattern (6 bp): GTGATA Found at i:41392764 original size:6 final size:6 Alignment explanation
Indices: 41392726--41392762 Score: 60 Period size: 6 Copynumber: 6.5 Consensus size: 6 41392716 ATTGGCTAAA 41392726 TTTATC TTTATC TTTATC TTTATC TTT-TC TTT-TC TTT 1 TTTATC TTTATC TTTATC TTTATC TTTATC TTTATC TTT 41392763 TTTTACGTTT Statistics Matches: 31, Mismatches: 0, Indels: 1 0.97 0.00 0.03 Matches are distributed among these distances: 5 10 0.32 6 21 0.68 ACGTcount: A:0.11, C:0.16, G:0.00, T:0.73 Consensus pattern (6 bp): TTTATC Found at i:41393049 original size:33 final size:33 Alignment explanation
Indices: 41393012--41393076 Score: 103 Period size: 33 Copynumber: 2.0 Consensus size: 33 41393002 TTTGATCTTG 41393012 ACCATTGTCGGCAACAATCTCAATTGGTGATCA 1 ACCATTGTCGGCAACAATCTCAATTGGTGATCA * * * 41393045 ACCATTGTTGGCGATAATCTCAATTGGTGATC 1 ACCATTGTCGGCAACAATCTCAATTGGTGATC 41393077 TCGTGATTTT Statistics Matches: 29, Mismatches: 3, Indels: 0 0.91 0.09 0.00 Matches are distributed among these distances: 33 29 1.00 ACGTcount: A:0.28, C:0.22, G:0.20, T:0.31 Consensus pattern (33 bp): ACCATTGTCGGCAACAATCTCAATTGGTGATCA Found at i:41412295 original size:43 final size:43 Alignment explanation
Indices: 41412248--41412342 Score: 113 Period size: 43 Copynumber: 2.2 Consensus size: 43 41412238 TCCCGAACAA * 41412248 GGTCTTACACAAAATCGATTAAT-G-ATGCCAATGTACCAGAAAT 1 GGTCTTACACAAAATC--TTAATAGAATGCCAATGCACCAGAAAT ** * * 41412291 GGTCTTACACGTAATCTTAATAGAATGCCAATGCCCCAGACAT 1 GGTCTTACACAAAATCTTAATAGAATGCCAATGCACCAGAAAT 41412334 GGTCTTACA 1 GGTCTTACA 41412343 TGTAATCACA Statistics Matches: 45, Mismatches: 5, Indels: 4 0.83 0.09 0.07 Matches are distributed among these distances: 41 5 0.11 42 1 0.02 43 39 0.87 ACGTcount: A:0.35, C:0.22, G:0.17, T:0.26 Consensus pattern (43 bp): GGTCTTACACAAAATCTTAATAGAATGCCAATGCACCAGAAAT Found at i:41415520 original size:47 final size:47 Alignment explanation
Indices: 41415466--41415581 Score: 135 Period size: 47 Copynumber: 2.5 Consensus size: 47 41415456 TGAATAATAT * * 41415466 CTTGATTTGGCTACGGGCCATGGCATAGGTATTC-AGAGAGGAGTTAC 1 CTTGATTTGGCTACGGGCCATGGCATAGGTACTCTAG-GAGAAGTTAC ** * * 41415513 CTTGATTTGGCTATAGGCCATGGTATAGGTACTCTAGGATAAGTTAC 1 CTTGATTTGGCTACGGGCCATGGCATAGGTACTCTAGGAGAAGTTAC * * * 41415560 CTTGATTGGGTTACGAGCCATG 1 CTTGATTTGGCTACGGGCCATG 41415582 ATATAAGTAC Statistics Matches: 57, Mismatches: 11, Indels: 2 0.81 0.16 0.03 Matches are distributed among these distances: 47 55 0.96 48 2 0.04 ACGTcount: A:0.23, C:0.16, G:0.29, T:0.31 Consensus pattern (47 bp): CTTGATTTGGCTACGGGCCATGGCATAGGTACTCTAGGAGAAGTTAC Found at i:41418527 original size:15 final size:15 Alignment explanation
Indices: 41418507--41418537 Score: 62 Period size: 15 Copynumber: 2.1 Consensus size: 15 41418497 AAGTTTAAGA 41418507 GAAACATAATTTTAC 1 GAAACATAATTTTAC 41418522 GAAACATAATTTTAC 1 GAAACATAATTTTAC 41418537 G 1 G 41418538 CTTGTAAATA Statistics Matches: 16, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 15 16 1.00 ACGTcount: A:0.45, C:0.13, G:0.10, T:0.32 Consensus pattern (15 bp): GAAACATAATTTTAC Found at i:41421017 original size:25 final size:23 Alignment explanation
Indices: 41420980--41421026 Score: 60 Period size: 25 Copynumber: 2.0 Consensus size: 23 41420970 AACCATTCAT 41420980 TCTTCAATTTTCTCTCACTTTTCTC 1 TCTTCAATTTTCT-TCA-TTTTCTC 41421005 TCTTC-ATTGTTCTTCATTTTCT 1 TCTTCAATT-TTCTTCATTTTCT 41421027 TCCCCATTCC Statistics Matches: 21, Mismatches: 0, Indels: 4 0.84 0.00 0.16 Matches are distributed among these distances: 23 6 0.29 24 6 0.29 25 9 0.43 ACGTcount: A:0.11, C:0.28, G:0.02, T:0.60 Consensus pattern (23 bp): TCTTCAATTTTCTTCATTTTCTC Found at i:41424357 original size:43 final size:43 Alignment explanation
Indices: 41424309--41424394 Score: 172 Period size: 43 Copynumber: 2.0 Consensus size: 43 41424299 TTCAGTAGAA 41424309 GACATTGTAAATAGAGAAAGGATCGGTTTTGAAAATGAATGAT 1 GACATTGTAAATAGAGAAAGGATCGGTTTTGAAAATGAATGAT 41424352 GACATTGTAAATAGAGAAAGGATCGGTTTTGAAAATGAATGAT 1 GACATTGTAAATAGAGAAAGGATCGGTTTTGAAAATGAATGAT 41424395 TTCGAAGGAC Statistics Matches: 43, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 43 43 1.00 ACGTcount: A:0.42, C:0.05, G:0.26, T:0.28 Consensus pattern (43 bp): GACATTGTAAATAGAGAAAGGATCGGTTTTGAAAATGAATGAT Found at i:41430988 original size:4 final size:4 Alignment explanation
Indices: 41430979--41431009 Score: 62 Period size: 4 Copynumber: 7.8 Consensus size: 4 41430969 GGTTGCATGT 41430979 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA 1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA 41431010 TAAATGCATA Statistics Matches: 27, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 4 27 1.00 ACGTcount: A:0.52, C:0.23, G:0.00, T:0.26 Consensus pattern (4 bp): ATAC Found at i:41433029 original size:48 final size:47 Alignment explanation
Indices: 41432955--41433177 Score: 297 Period size: 48 Copynumber: 4.7 Consensus size: 47 41432945 GATATGTGTA 41432955 CCAGTGTAAGACCATGTTTGGGACATGGCATCGGCCACGACATGAGAG 1 CCAGTGTAAGACCATGTTTGGGACATGGCATCGGCCACGA-ATGAGAG * * * 41433003 CCAGTGTAAGACCATGTTTGGAACATGGCATCGGCAATGTAATGAGAG 1 CCAGTGTAAGACCATGTTTGGGACATGGCATCGGCCACG-AATGAGAG * 41433051 CCAGTGTAAGACCATATTTGGGACATGGCATCGGCCAC-ATTATGAGAG 1 CCAGTGTAAGACCATGTTTGGGACATGGCATCGGCCACGA--ATGAGAG * * * 41433099 CCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CATTGAGACGAGAG 1 CCAGTGTAAGACCATGTTTGGGACATGGCATCGGCCA-CGA-ATGAGAG * * 41433147 CAAGTGTAAGACCATGTCTGGGACATGGCAT 1 CCAGTGTAAGACCATGTTTGGGACATGGCAT 41433178 TGGCAGTTAC Statistics Matches: 157, Mismatches: 13, Indels: 10 0.87 0.07 0.06 Matches are distributed among these distances: 46 1 0.01 47 2 0.01 48 152 0.97 49 2 0.01 ACGTcount: A:0.29, C:0.20, G:0.30, T:0.21 Consensus pattern (47 bp): CCAGTGTAAGACCATGTTTGGGACATGGCATCGGCCACGAATGAGAG Found at i:41433125 original size:96 final size:96 Alignment explanation
Indices: 41432955--41433177 Score: 342 Period size: 96 Copynumber: 2.3 Consensus size: 96 41432945 GATATGTGTA 41432955 CCAGTGTAAGACCATGTTTGGGACATGGCATCGGCCACGACATGAGAGCCAGTGTAAGACCATGT 1 CCAGTGTAAGACCATGTTTGGGACATGGCATCGGCCACGACATGAGAGCCAGTGTAAGACCATGT * * 41433020 TTGGAACATGGCATCGGCAATGTA-ATGAGAG 66 CTGGAACATGGCATCGGCAATG-AGACGAGAG * * 41433051 CCAGTGTAAGACCATATTTGGGACATGGCATCGGCCAC-ATTATGAGAGCCAGTGTAAGACCATG 1 CCAGTGTAAGACCATGTTTGGGACATGGCATCGGCCACGA-CATGAGAGCCAGTGTAAGACCATG * * 41433115 TCTGGGACATGGCATCGGCATTGAGACGAGAG 65 TCTGGAACATGGCATCGGCAATGAGACGAGAG * * 41433147 CAAGTGTAAGACCATGTCTGGGACATGGCAT 1 CCAGTGTAAGACCATGTTTGGGACATGGCAT 41433178 TGGCAGTTAC Statistics Matches: 116, Mismatches: 9, Indels: 4 0.90 0.07 0.03 Matches are distributed among these distances: 95 2 0.02 96 114 0.98 ACGTcount: A:0.29, C:0.20, G:0.30, T:0.21 Consensus pattern (96 bp): CCAGTGTAAGACCATGTTTGGGACATGGCATCGGCCACGACATGAGAGCCAGTGTAAGACCATGT CTGGAACATGGCATCGGCAATGAGACGAGAG Found at i:41440717 original size:48 final size:48 Alignment explanation
Indices: 41440646--41440913 Score: 267 Period size: 48 Copynumber: 5.6 Consensus size: 48 41440636 ATGTGTGCCC * * * 41440646 GTGTAAGATCATGTCTCGGACATGGCATCGGCCACGAAATGAGAGCCA 1 GTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCCA * * * * 41440694 GTGTAAGACCATGTTTGGGACATGGCATC-G-CATTGATATGTGCA-CTA 1 GTGTAAGACCATGTCTGGGACATGGCATCGGCCA-CGATATGAG-AGCCA * * * 41440741 GTGTAAAACCATGTCTGGGTCATGGCGTCGGCCAC-ATTATGAGAGCCA 1 GTGTAAGACCATGTCTGGGACATGGCATCGGCCACGA-TATGAGAGCCA * * * * * 41440789 GTGTAAAACCATGTCTGGGACATGGCATCGG-CATTGAGACGAGAGCGA 1 GTGTAAGACCATGTCTGGGACATGGCATCGGCCA-CGATATGAGAGCCA * * * * 41440837 GTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGACATGTGAGCTA 1 GTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCCA * ** 41440885 GTGTAAGACCATGTTTGAAACATGGCATC 1 GTGTAAGACCATGTCTGGGACATGGCATC 41440914 AGCAGTTCAC Statistics Matches: 181, Mismatches: 30, Indels: 18 0.79 0.13 0.08 Matches are distributed among these distances: 46 2 0.01 47 38 0.21 48 137 0.76 49 4 0.02 ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23 Consensus pattern (48 bp): GTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCCA Found at i:41443530 original size:32 final size:33 Alignment explanation
Indices: 41443488--41443629 Score: 80 Period size: 34 Copynumber: 4.3 Consensus size: 33 41443478 AACATCCACT 41443488 AATATATATAT-TGTAT-ACAACAAAA-CCATGC 1 AATATATATATATGTATAACAACAAAACCCAT-C * * * * 41443519 ATATATATATATATATTATAACACCAAAATCCATT 1 A-ATATATATATAT-GTATAACAACAAAACCCATC * * * * 41443554 AATATATATA-CTGCAT-ACAATAGAA-CCATGC 1 AATATATATATATGTATAACAACAAAACCCAT-C * * * * 41443585 ATATGTATATTATATATATGACACCAAAACCCATC 1 A-ATATATA-TATATGTATAACAACAAAACCCATC 41443620 AATATATATA 1 AATATATATA 41443630 CTATACATAA Statistics Matches: 82, Mismatches: 18, Indels: 20 0.68 0.15 0.17 Matches are distributed among these distances: 30 4 0.05 31 8 0.10 32 18 0.22 33 6 0.07 34 21 0.26 35 17 0.21 36 8 0.10 ACGTcount: A:0.47, C:0.16, G:0.05, T:0.32 Consensus pattern (33 bp): AATATATATATATGTATAACAACAAAACCCATC Found at i:41443557 original size:66 final size:66 Alignment explanation
Indices: 41443481--41443631 Score: 205 Period size: 66 Copynumber: 2.3 Consensus size: 66 41443471 TACATATAAC * * * 41443481 ATCCACTAATATATATATTGTATACAACAAAACCATGCATATATATA-TATATATTATAACACCA 1 ATCCATTAATATATATACTGCATACAACAAAACCATGCATATATATATTATATA-TATAACACCA 41443545 AA 65 AA * * * * 41443547 ATCCATTAATATATATACTGCATACAATAGAACCATGCATATGTATATTATATATATGACACCAA 1 ATCCATTAATATATATACTGCATACAACAAAACCATGCATATATATATTATATATATAACACCAA 41443612 A 66 A * * 41443613 ACCCATCAATATATATACT 1 ATCCATTAATATATATACT 41443632 ATACATAAAA Statistics Matches: 75, Mismatches: 9, Indels: 2 0.87 0.10 0.02 Matches are distributed among these distances: 66 69 0.92 67 6 0.08 ACGTcount: A:0.46, C:0.18, G:0.05, T:0.32 Consensus pattern (66 bp): ATCCATTAATATATATACTGCATACAACAAAACCATGCATATATATATTATATATATAACACCAA A Found at i:41445389 original size:41 final size:41 Alignment explanation
Indices: 41445344--41445428 Score: 100 Period size: 41 Copynumber: 2.1 Consensus size: 41 41445334 TCACGCTTTT * * 41445344 TGCCTAGCAAGCTCCGTGCCGGTG-TGTTTTATTAGCCTCTG 1 TGCCTAGCAAGCTCCGTGCCAGTGAT-TTATATTAGCCTCTG * ** * 41445385 TGCCTAGCAGGCTTTGTGCCAGTGATTTATATTAGCCTTTG 1 TGCCTAGCAAGCTCCGTGCCAGTGATTTATATTAGCCTCTG 41445426 TGC 1 TGC 41445429 TGATTTAATT Statistics Matches: 37, Mismatches: 6, Indels: 2 0.82 0.13 0.04 Matches are distributed among these distances: 41 36 0.97 42 1 0.03 ACGTcount: A:0.14, C:0.24, G:0.26, T:0.36 Consensus pattern (41 bp): TGCCTAGCAAGCTCCGTGCCAGTGATTTATATTAGCCTCTG Found at i:41450131 original size:45 final size:45 Alignment explanation
Indices: 41450059--41450149 Score: 103 Period size: 45 Copynumber: 2.0 Consensus size: 45 41450049 TACGGTGTTC * * * * * 41450059 TATGGTCTAATCTGGCTCGATCGAAAG-TCTTGTCGAGCACTCCTA 1 TATGGTCCAATCTGGCTCAATCAAAAGTTC-TATCAAGCACTCCTA * * 41450104 TATGGTCCAATCTGTCTCAATTAAAAGTTCTATCAAGCACTCCTA 1 TATGGTCCAATCTGGCTCAATCAAAAGTTCTATCAAGCACTCCTA 41450149 T 1 T 41450150 CAAAATTTCG Statistics Matches: 38, Mismatches: 7, Indels: 2 0.81 0.15 0.04 Matches are distributed among these distances: 45 36 0.95 46 2 0.05 ACGTcount: A:0.26, C:0.24, G:0.16, T:0.33 Consensus pattern (45 bp): TATGGTCCAATCTGGCTCAATCAAAAGTTCTATCAAGCACTCCTA Found at i:41458043 original size:42 final size:43 Alignment explanation
Indices: 41457930--41458045 Score: 119 Period size: 43 Copynumber: 2.7 Consensus size: 43 41457920 AGCTCGTACA * * * * * 41457930 ATGCCAACGTCCCATACGTGGTCTTACATGTAATCAAATATCG 1 ATGCCAATGTCCCAGACGTGGTCTTACACGAAATAAAATATCG ** * 41457973 ATGCCTCTGTCCCAGACAG-CGTCTTACACGAAATAAAATA-CG 1 ATGCCAATGTCCCAGAC-GTGGTCTTACACGAAATAAAATATCG * * 41458015 ATGCCAATGTCCTAGACGTGGTCATACACGA 1 ATGCCAATGTCCCAGACGTGGTCTTACACGA 41458046 TAACACTTAT Statistics Matches: 58, Mismatches: 13, Indels: 5 0.76 0.17 0.07 Matches are distributed among these distances: 41 1 0.02 42 26 0.45 43 30 0.52 44 1 0.02 ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24 Consensus pattern (43 bp): ATGCCAATGTCCCAGACGTGGTCTTACACGAAATAAAATATCG Found at i:41465262 original size:20 final size:21 Alignment explanation
Indices: 41465226--41465264 Score: 71 Period size: 21 Copynumber: 1.9 Consensus size: 21 41465216 AAGAAAAAAT 41465226 AATGACAAACAAAAACTTACC 1 AATGACAAACAAAAACTTACC 41465247 AATGACAAAC-AAAACTTA 1 AATGACAAACAAAAACTTA 41465265 TCAACAAGAG Statistics Matches: 18, Mismatches: 0, Indels: 1 0.95 0.00 0.05 Matches are distributed among these distances: 20 8 0.44 21 10 0.56 ACGTcount: A:0.59, C:0.21, G:0.05, T:0.15 Consensus pattern (21 bp): AATGACAAACAAAAACTTACC Found at i:41467530 original size:13 final size:12 Alignment explanation
Indices: 41467512--41467550 Score: 53 Period size: 12 Copynumber: 3.2 Consensus size: 12 41467502 AATAAGATTT 41467512 AATATTAAATATA 1 AATATTAAAT-TA 41467525 AATATTAAATTA 1 AATATTAAATTA 41467537 AAT-TTAATATTA 1 AATATTAA-ATTA 41467549 AA 1 AA 41467551 GTAATTAAGT Statistics Matches: 25, Mismatches: 0, Indels: 3 0.89 0.00 0.11 Matches are distributed among these distances: 11 4 0.16 12 11 0.44 13 10 0.40 ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41 Consensus pattern (12 bp): AATATTAAATTA Found at i:41478464 original size:16 final size:16 Alignment explanation
Indices: 41478443--41478475 Score: 50 Period size: 16 Copynumber: 2.1 Consensus size: 16 41478433 ATTCTCTCAC 41478443 AAAAAAAATAA-AAATT 1 AAAAAAAA-AACAAATT 41478459 AAAAAAAAAACAAATT 1 AAAAAAAAAACAAATT 41478475 A 1 A 41478476 TATATAATAT Statistics Matches: 16, Mismatches: 0, Indels: 2 0.89 0.00 0.11 Matches are distributed among these distances: 15 2 0.12 16 14 0.88 ACGTcount: A:0.82, C:0.03, G:0.00, T:0.15 Consensus pattern (16 bp): AAAAAAAAAACAAATT Found at i:41484776 original size:25 final size:26 Alignment explanation
Indices: 41484743--41484796 Score: 65 Period size: 25 Copynumber: 2.1 Consensus size: 26 41484733 TTTTTTTATT 41484743 TTTAGTTTTTTAAAATTTTAAAAATA 1 TTTAGTTTTTTAAAATTTTAAAAATA * ** * 41484769 TTTA-TTTTTTGACTTTTTTAAAATA 1 TTTAGTTTTTTAAAATTTTAAAAATA 41484794 TTT 1 TTT 41484797 TAAGTATTTT Statistics Matches: 24, Mismatches: 4, Indels: 1 0.83 0.14 0.03 Matches are distributed among these distances: 25 20 0.83 26 4 0.17 ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61 Consensus pattern (26 bp): TTTAGTTTTTTAAAATTTTAAAAATA Found at i:41489523 original size:17 final size:17 Alignment explanation
Indices: 41489495--41489539 Score: 54 Period size: 19 Copynumber: 2.5 Consensus size: 17 41489485 AATTTTAAAT * * 41489495 ATTTTTCAAAAATATCA 1 ATTTTTAAAAAATAGCA 41489512 ATTTTTAAAAAAAATAGCA 1 ATTTTT--AAAAAATAGCA 41489531 ATTTTTAAA 1 ATTTTTAAA 41489540 TTTTTTAAAT Statistics Matches: 24, Mismatches: 2, Indels: 4 0.80 0.07 0.13 Matches are distributed among these distances: 17 9 0.38 19 15 0.62 ACGTcount: A:0.51, C:0.07, G:0.02, T:0.40 Consensus pattern (17 bp): ATTTTTAAAAAATAGCA Found at i:41489526 original size:19 final size:19 Alignment explanation
Indices: 41489502--41489539 Score: 67 Period size: 19 Copynumber: 2.0 Consensus size: 19 41489492 AATATTTTTC * 41489502 AAAAATATCAATTTTTAAA 1 AAAAATAGCAATTTTTAAA 41489521 AAAAATAGCAATTTTTAAA 1 AAAAATAGCAATTTTTAAA 41489540 TTTTTTAAAT Statistics Matches: 18, Mismatches: 1, Indels: 0 0.95 0.05 0.00 Matches are distributed among these distances: 19 18 1.00 ACGTcount: A:0.58, C:0.05, G:0.03, T:0.34 Consensus pattern (19 bp): AAAAATAGCAATTTTTAAA Found at i:41491491 original size:18 final size:20 Alignment explanation
Indices: 41491456--41491500 Score: 51 Period size: 19 Copynumber: 2.4 Consensus size: 20 41491446 AGTATTATTG 41491456 ATAATTTTTATAATAA-TTA 1 ATAATTTTTATAATAATTTA * * 41491475 ATAATTTTTTTCA-AATTTA 1 ATAATTTTTATAATAATTTA 41491494 A-AATTTT 1 ATAATTTT 41491501 ATAGTTGTGT Statistics Matches: 23, Mismatches: 2, Indels: 3 0.82 0.07 0.11 Matches are distributed among these distances: 18 8 0.35 19 15 0.65 ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56 Consensus pattern (20 bp): ATAATTTTTATAATAATTTA Found at i:41493151 original size:28 final size:28 Alignment explanation
Indices: 41493119--41493242 Score: 115 Period size: 28 Copynumber: 4.4 Consensus size: 28 41493109 GTGAAAACGA * * ** 41493119 CACTTAGTGTGTGAATTATTGAGGATGG 1 CACTTAGTGTGCGAATCATCCAGGATGG * * * 41493147 CACTTAGTGTGCGAAACATCCAGAAATAG 1 CACTTAGTGTGCGAATCATCCAG-GATGG * * ** * 41493176 CACTTAGTGTGCAAATTATTGAAGATGG 1 CACTTAGTGTGCGAATCATCCAGGATGG 41493204 CACTTAGTGTGCGAGA-CATCCAGGATGG 1 CACTTAGTGTGCGA-ATCATCCAGGATGG 41493232 CACTTAGTGTG 1 CACTTAGTGTG 41493243 TGATAGATCC Statistics Matches: 74, Mismatches: 20, Indels: 4 0.76 0.20 0.04 Matches are distributed among these distances: 28 53 0.72 29 21 0.28 ACGTcount: A:0.29, C:0.15, G:0.27, T:0.28 Consensus pattern (28 bp): CACTTAGTGTGCGAATCATCCAGGATGG Found at i:41493186 original size:57 final size:56 Alignment explanation
Indices: 41493119--41493245 Score: 191 Period size: 57 Copynumber: 2.2 Consensus size: 56 41493109 GTGAAAACGA * 41493119 CACTTAGTGTGTGAATTATTGAGGATGGCACTTAGTGTGCGAAACATCCAGAAATAG 1 CACTTAGTGTGTGAATTATTGAAGATGGCACTTAGTGTGCGAAACATCCAG-AATAG ** * * * 41493176 CACTTAGTGTGCAAATTATTGAAGATGGCACTTAGTGTGCGAGACATCCAGGATGG 1 CACTTAGTGTGTGAATTATTGAAGATGGCACTTAGTGTGCGAAACATCCAGAATAG 41493232 CACTTAGTGTGTGA 1 CACTTAGTGTGTGA 41493246 TAGATCCGTG Statistics Matches: 62, Mismatches: 8, Indels: 1 0.87 0.11 0.01 Matches are distributed among these distances: 56 15 0.24 57 47 0.76 ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28 Consensus pattern (56 bp): CACTTAGTGTGTGAATTATTGAAGATGGCACTTAGTGTGCGAAACATCCAGAATAG Found at i:41493252 original size:28 final size:28 Alignment explanation
Indices: 41493199--41493273 Score: 89 Period size: 28 Copynumber: 2.7 Consensus size: 28 41493189 AATTATTGAA * 41493199 GATGGCACTTAGTGTGCGAGACATCCAG- 1 GATGGCACTTAGTGTGTGAGACATCC-GT * * 41493227 GATGGCACTTAGTGTGTGATAGATCCGT 1 GATGGCACTTAGTGTGTGAGACATCCGT * * 41493255 GAAGGCACTGAGTGTGTGA 1 GATGGCACTTAGTGTGTGA 41493274 AACTTCGAGA Statistics Matches: 41, Mismatches: 5, Indels: 2 0.85 0.10 0.04 Matches are distributed among these distances: 27 1 0.02 28 40 0.98 ACGTcount: A:0.24, C:0.16, G:0.35, T:0.25 Consensus pattern (28 bp): GATGGCACTTAGTGTGTGAGACATCCGT Found at i:41495547 original size:47 final size:47 Alignment explanation
Indices: 41495475--41495603 Score: 163 Period size: 47 Copynumber: 2.7 Consensus size: 47 41495465 TGAGTTGTGC * ** 41495475 GCCAGTGTAAGACATGTTTGGGACATGCTTCGGCCACA-TTATGAGA 1 GCCAGTGTAAGACATGTTTGGGACATGCATCGGCCACAGAGATGAGA * * 41495521 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CACAGAGATGAGT 1 GCCAGTGTAAGA-CATGTTTGGGACAT-GCATCGGCCACAGAGATGAGA * * 41495569 GCTAGAGTAAGACATGTTTGGGACATGCATCGGCC 1 GCCAGTGTAAGACATGTTTGGGACATGCATCGGCC 41495604 TCAACAGAGA Statistics Matches: 71, Mismatches: 8, Indels: 7 0.83 0.09 0.08 Matches are distributed among these distances: 46 19 0.27 47 31 0.44 48 21 0.30 ACGTcount: A:0.26, C:0.20, G:0.31, T:0.22 Consensus pattern (47 bp): GCCAGTGTAAGACATGTTTGGGACATGCATCGGCCACAGAGATGAGA Found at i:41495903 original size:335 final size:335 Alignment explanation
Indices: 41495293--41495957 Score: 1267 Period size: 335 Copynumber: 2.0 Consensus size: 335 41495283 GAGGTAAGTT * * 41495293 GTATGTAAATGATATAACTATACTGTAAATACTTGTATTCATATTGTCATTGAATTGATATTGTA 1 GTATGTAAATGATACAACTACACTGTAAATACTTGTATTCATATTGTCATTGAATTGATATTGTA * 41495358 CGTGTTGTTAAGTTATAAGTTGAGAATGCCTTGTAATATTTGAGATAGTAGAAATATCCCATTGA 66 CGAGTTGTTAAGTTATAAGTTGAGAATGCCTTGTAATATTTGAGATAGTAGAAATATCCCATTGA 41495423 AACCTTAGGATATGAACTAGATATTCGCGCCAAGACATTAGGTGAGTTGTGCGCCAGTGTAAGAC 131 AACCTTAGGATATGAACTAGATATTCGCGCCAAGACATTAGGTGAGTTGTGCGCCAGTGTAAGAC * * 41495488 ATGTTTGGGACATGCTTCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCAT 196 ATGTCTGAGACATGCTTCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCAT 41495553 CGGCACAGAGATGAGTGCTAGAGTAAGACATGTTTGGGACATGCATCGGCCTCAACAGAGATAGC 261 CGGCACAGAGATGAGTGCTAGAGTAAGACATGTTTGGGACATGCATCGGCCTCAACAGAGATAGC 41495618 CAGTGCTAGA 326 CAGTGCTAGA 41495628 GTATGTAAATGATACAACTACACTGTAAATACTTGTATTCATATTGTCATTGAATTGATATTGTA 1 GTATGTAAATGATACAACTACACTGTAAATACTTGTATTCATATTGTCATTGAATTGATATTGTA 41495693 CGAGTTGTTAAGTTATAAGTTGAGAATGCCTTGTAATATTTGAGATAGTAGAAATATCCCATTGA 66 CGAGTTGTTAAGTTATAAGTTGAGAATGCCTTGTAATATTTGAGATAGTAGAAATATCCCATTGA 41495758 AACCTTAGGATATGAACTAGATATTCGCGCCAAGACATTAGGTGAGTTGTGCGCCAGTGTAAGAC 131 AACCTTAGGATATGAACTAGATATTCGCGCCAAGACATTAGGTGAGTTGTGCGCCAGTGTAAGAC * 41495823 ATGTCTGAGACATGCTTTGGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCAT 196 ATGTCTGAGACATGCTTCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCAT * 41495888 CGGCACAGAGATGAGTGCTAGAGTAAGACATGTTTGGGACATGCATCGGCCTCGACAGAGATAGC 261 CGGCACAGAGATGAGTGCTAGAGTAAGACATGTTTGGGACATGCATCGGCCTCAACAGAGATAGC 41495953 CAGTG 326 CAGTG 41495958 TAAGACGTGT Statistics Matches: 323, Mismatches: 7, Indels: 0 0.98 0.02 0.00 Matches are distributed among these distances: 335 323 1.00 ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29 Consensus pattern (335 bp): GTATGTAAATGATACAACTACACTGTAAATACTTGTATTCATATTGTCATTGAATTGATATTGTA CGAGTTGTTAAGTTATAAGTTGAGAATGCCTTGTAATATTTGAGATAGTAGAAATATCCCATTGA AACCTTAGGATATGAACTAGATATTCGCGCCAAGACATTAGGTGAGTTGTGCGCCAGTGTAAGAC ATGTCTGAGACATGCTTCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCAT CGGCACAGAGATGAGTGCTAGAGTAAGACATGTTTGGGACATGCATCGGCCTCAACAGAGATAGC CAGTGCTAGA Found at i:41495920 original size:47 final size:45 Alignment explanation
Indices: 41495810--41496079 Score: 196 Period size: 47 Copynumber: 5.8 Consensus size: 45 41495800 TGAGTTGTGC * * * * 41495810 GCCAGTGTAAGACATGTCTGAGACATGCTTTGGCCACATTATGA-GA- 1 GCCAGTGTAAGACATGTCTGGGACATGCATCGG-CACA-GA-GATGAT 41495856 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGAGATGAGT 1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCACAGAGATGA-T * * * 41495904 GCTAGAGTAAGACATGTTTGGGACATGCATCGGCCTCGACAGAGAT-A- 1 GCCAGTGTAAGACATGTCTGGGACATGCATCGG---C-ACAGAGATGAT * * * 41495951 GCCAGTGTAAGACGTGTTTGGGACATGCATCGGCTA-AGAGTTGTAT 1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGC-ACAGAGATG-AT * * * * 41495997 --TAGTGTAAGACATGTCTGGGACATGCATCAGCATGCATATG-TGAGA 1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCA--CAGA-GATGA-T 41496043 GCCAGTGTAAGACAATGTCTGGGACATGGCATCGGCA 1 GCCAGTGTAAGAC-ATGTCTGGGACAT-GCATCGGCA 41496080 ATTTATCCCA Statistics Matches: 183, Mismatches: 20, Indels: 38 0.76 0.08 0.16 Matches are distributed among these distances: 43 6 0.03 44 30 0.16 45 4 0.02 46 26 0.14 47 61 0.33 48 25 0.14 49 15 0.08 50 16 0.09 ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23 Consensus pattern (45 bp): GCCAGTGTAAGACATGTCTGGGACATGCATCGGCACAGAGATGAT Found at i:41504738 original size:24 final size:25 Alignment explanation
Indices: 41504722--41504773 Score: 63 Period size: 24 Copynumber: 2.1 Consensus size: 25 41504712 TTAACTTAAT 41504722 ATAT-TATAATTTAATT-ATTATAA 1 ATATCTATAATTTAATTAATTATAA * * 41504745 ATATCTATCATTTAATTAATAATACA 1 ATATCTATAATTTAATTAATTATA-A 41504771 ATA 1 ATA 41504774 CAAATGTATA Statistics Matches: 24, Mismatches: 2, Indels: 3 0.83 0.07 0.10 Matches are distributed among these distances: 23 4 0.17 24 11 0.46 25 5 0.21 26 4 0.17 ACGTcount: A:0.48, C:0.06, G:0.00, T:0.46 Consensus pattern (25 bp): ATATCTATAATTTAATTAATTATAA Found at i:41504912 original size:29 final size:29 Alignment explanation
Indices: 41504879--41504948 Score: 88 Period size: 29 Copynumber: 2.3 Consensus size: 29 41504869 ATTATTTAAT * 41504879 TAATAACTATCTT-TTTAATTTAATAAAAA 1 TAATAAATAT-TTATTTAATTTAATAAAAA * 41504908 TAATAAATATTTATTTACTTTAATAAAAA 1 TAATAAATATTTATTTAATTTAATAAAAA 41504937 GTAAATAAATAT 1 -T-AATAAATAT 41504949 GTTACAATTT Statistics Matches: 36, Mismatches: 2, Indels: 4 0.86 0.05 0.10 Matches are distributed among these distances: 28 2 0.06 29 24 0.67 30 1 0.03 31 9 0.25 ACGTcount: A:0.51, C:0.04, G:0.01, T:0.43 Consensus pattern (29 bp): TAATAAATATTTATTTAATTTAATAAAAA Found at i:41509501 original size:5 final size:6 Alignment explanation
Indices: 41509457--41509593 Score: 58 Period size: 5 Copynumber: 25.0 Consensus size: 6 41509447 CTTAATCCCT * 41509457 TTAATA TTAA-A TTAAT- CTAATA TT--TA -TAATA TT-ATA TTAAT- 1 TTAATA TTAATA TTAATA TTAATA TTAATA TTAATA TTAATA TTAATA * * 41509498 TTAATA TTAA-A TCT--TA TTAA-A TTAATA -TAATA TT--TA TCAAGA 1 TTAATA TTAATA T-TAATA TTAATA TTAATA TTAATA TTAATA TTAATA * * 41509540 TAAATA TTAA-A TTAA-A TTAAATA TTAAGA -TAATCA TTTTAATA TTAA-A 1 TTAATA TTAATA TTAATA TT-AATA TTAATA TTAAT-A --TTAATA TTAATA 41509588 TTAATA 1 TTAATA 41509594 AAATACTTTT Statistics Matches: 100, Mismatches: 9, Indels: 44 0.65 0.06 0.29 Matches are distributed among these distances: 3 1 0.01 4 6 0.06 5 51 0.51 6 34 0.34 7 3 0.03 8 1 0.01 9 4 0.04 ACGTcount: A:0.50, C:0.03, G:0.01, T:0.46 Consensus pattern (6 bp): TTAATA Found at i:41509517 original size:51 final size:52 Alignment explanation
Indices: 41509461--41509561 Score: 143 Period size: 51 Copynumber: 2.0 Consensus size: 52 41509451 ATCCCTTTAA * * * * 41509461 TATTAAATTAATCTAATATTTAT-AATAT-TATATTAATTTAATATTAAATCT 1 TATTAAATTAATATAATATTTATCAAGATAAATATTAAATTAA-ATTAAATCT 41509512 TATTAAATTAATATAATATTTATCAAGATAAATATTAAATTAAATTAAAT 1 TATTAAATTAATATAATATTTATCAAGATAAATATTAAATTAAATTAAAT 41509562 ATTAAGATAA Statistics Matches: 44, Mismatches: 4, Indels: 3 0.86 0.08 0.06 Matches are distributed among these distances: 51 22 0.50 52 11 0.25 53 11 0.25 ACGTcount: A:0.50, C:0.03, G:0.01, T:0.47 Consensus pattern (52 bp): TATTAAATTAATATAATATTTATCAAGATAAATATTAAATTAAATTAAATCT Found at i:41509559 original size:42 final size:39 Alignment explanation
Indices: 41509459--41509561 Score: 100 Period size: 42 Copynumber: 2.5 Consensus size: 39 41509449 TAATCCCTTT * * * 41509459 AATATTAAATTAATCTAATATTTATAATATTATATTAATTT 1 AATATTAAATTAAT-TAA-ATTTATAATATTATATCAAATA * 41509500 AATATTAAATCTTATTAAATTAATATAATATT-TATCAAGATA 1 AATATTAAAT-TAATTAAATT--TATAATATTATATCAA-ATA 41509542 AATATTAAATTAAATTAAAT 1 AATATTAAATT-AATTAAAT 41509562 ATTAAGATAA Statistics Matches: 52, Mismatches: 5, Indels: 9 0.79 0.08 0.14 Matches are distributed among these distances: 40 3 0.06 41 19 0.37 42 30 0.58 ACGTcount: A:0.50, C:0.03, G:0.01, T:0.46 Consensus pattern (39 bp): AATATTAAATTAATTAAATTTATAATATTATATCAAATA Found at i:41509592 original size:20 final size:18 Alignment explanation
Indices: 41509459--41509593 Score: 69 Period size: 16 Copynumber: 7.8 Consensus size: 18 41509449 TAATCCCTTT * 41509459 AATATTAAATTAAT-CT- 1 AATATTAAATTAATATTA * 41509475 AATATT-TA-TAATATT- 1 AATATTAAATTAATATTA * 41509490 -ATATTAATTTAATATTA 1 AATATTAAATTAATATTA 41509507 AATCTTATTAAATTAATA-T- 1 AA---TATTAAATTAATATTA * * * 41509526 AATATT-TATCAAGA-TA 1 AATATTAAATTAATATTA 41509542 AATATTAAATTAA-ATTA 1 AATATTAAATTAATATTA * 41509559 AATATTAAGA-TAATCATTTT 1 AATATTAA-ATTAAT-A-TTA 41509579 AATATTAAATTAATA 1 AATATTAAATTAATA 41509594 AAATACTTTT Statistics Matches: 92, Mismatches: 11, Indels: 29 0.70 0.08 0.22 Matches are distributed among these distances: 14 9 0.10 15 8 0.09 16 24 0.26 17 17 0.18 18 2 0.02 19 5 0.05 20 15 0.16 21 12 0.13 ACGTcount: A:0.50, C:0.03, G:0.01, T:0.45 Consensus pattern (18 bp): AATATTAAATTAATATTA Found at i:41511204 original size:30 final size:30 Alignment explanation
Indices: 41511168--41511237 Score: 95 Period size: 30 Copynumber: 2.3 Consensus size: 30 41511158 GTTGTCCCCA * * 41511168 CCCTTTTCATAGATCTATAGCCGAAGCTAT 1 CCCTTTTCATAGATCGATAGCCAAAGCTAT ** * 41511198 CCCTTTTCGCAGCTCGATAGCCAAAGCTAT 1 CCCTTTTCATAGATCGATAGCCAAAGCTAT 41511228 CCCTTTTCAT 1 CCCTTTTCAT 41511238 TATTTAATGG Statistics Matches: 33, Mismatches: 7, Indels: 0 0.82 0.17 0.00 Matches are distributed among these distances: 30 33 1.00 ACGTcount: A:0.23, C:0.31, G:0.13, T:0.33 Consensus pattern (30 bp): CCCTTTTCATAGATCGATAGCCAAAGCTAT Found at i:41511260 original size:30 final size:30 Alignment explanation
Indices: 41511226--41511301 Score: 118 Period size: 29 Copynumber: 2.6 Consensus size: 30 41511216 AGCCAAAGCT * 41511226 ATCCCTTTTCATTATTTAATGGTCGTCACC 1 ATCCCTTTTCATTATTTAATGATCGTCACC * * 41511256 ATCCCTTTTCATTA-TTGATGATCGTCGCC 1 ATCCCTTTTCATTATTTAATGATCGTCACC 41511285 ATCCCTTTTCATTATTT 1 ATCCCTTTTCATTATTT 41511302 GATATCCAAA Statistics Matches: 42, Mismatches: 3, Indels: 2 0.89 0.06 0.04 Matches are distributed among these distances: 29 26 0.62 30 16 0.38 ACGTcount: A:0.18, C:0.26, G:0.09, T:0.46 Consensus pattern (30 bp): ATCCCTTTTCATTATTTAATGATCGTCACC Done.