Tandem Repeats Finder Program written by: Gary Benson Program in Bioinformatics Boston University Version 4.09 Sequence: A05 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: 100714657 ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32 Warning! 3970000 characters in sequence are not A, C, G, or T File 268 of 318 Found at i:85732262 original size:101 final size:101 Alignment explanation
Indices: 85732021--85732332 Score: 416 Period size: 101 Copynumber: 3.1 Consensus size: 101 85732011 TGTCATAGTT * * * ** ** * * * 85732021 CAACTATGGTCTTACATG--TGCATTGCCATGGCCCTGCCATATTCTTCCGTTTATAGTGTCATA 1 CAACTATGGTCTTACATGTATACATTGTCATGGTCCAACCATGGTCTTACGTCTATAGTGCCATA ** * 85732084 ACCCAGTTATGGTCTTC-TCATCATCATGCCATA-AC 66 ACCCAGTTATGGTC-TCATCATCAAAATGCCATAGCC * * 85732119 CAGCTATGGTCTTACATGTATACACTGTCATGGTCCAACCATGGTCTTACGTCTATAGTGCCATA 1 CAACTATGGTCTTACATGTATACATTGTCATGGTCCAACCATGGTCTTACGTCTATAGTGCCATA * * 85732184 ATCCAGTTATGGTCTCATCATCAGAATGCCATAGCC 66 ACCCAGTTATGGTCTCATCATCAAAATGCCATAGCC 85732220 CAACTATGGTCTTACATGTATACATTGTCATGGTCCAACCATGGTCTTACGTCTATAGTGCCATA 1 CAACTATGGTCTTACATGTATACATTGTCATGGTCCAACCATGGTCTTACGTCTATAGTGCCATA * * 85732285 ACCCAGTTATGGTCTAATCATCAAAATGTCATAGCC 66 ACCCAGTTATGGTCTCATCATCAAAATGCCATAGCC 85732321 CAACTATGGTCT 1 CAACTATGGTCT 85732333 CATCATCAGA Statistics Matches: 188, Mismatches: 22, Indels: 5 0.87 0.10 0.02 Matches are distributed among these distances: 98 17 0.09 99 2 0.01 100 61 0.32 101 108 0.57 ACGTcount: A:0.26, C:0.26, G:0.16, T:0.32 Consensus pattern (101 bp): CAACTATGGTCTTACATGTATACATTGTCATGGTCCAACCATGGTCTTACGTCTATAGTGCCATA ACCCAGTTATGGTCTCATCATCAAAATGCCATAGCC Found at i:85732383 original size:101 final size:100 Alignment explanation
Indices: 85732080--85732384 Score: 314 Period size: 101 Copynumber: 3.0 Consensus size: 100 85732070 TTTATAGTGT ** ** * * * * 85732080 CATAACCCAGTTATGGTCTTCTCATCATCATGCCATA-ACCAGCTATGGTCTTACATGTATACAC 1 CATAACCCAGTTATGGTCTAATCATCAAAATGCCATAGCCCAACTATGGTCTTACATGCATACAA * * * 85732144 TGTCATGGTCCAACCATGGTCTTACGTCTATAGTGC 66 TGTCATGGT-CAACCATGGTCTTACGTATACACTGC * * * * * 85732180 CATAATCCAGTTATGGTCTCATCATCAGAATGCCATAGCCCAACTATGGTCTTACATGTATACAT 1 CATAACCCAGTTATGGTCTAATCATCAAAATGCCATAGCCCAACTATGGTCTTACATGCATACAA * * * 85732245 TGTCATGGTCCAACCATGGTCTTACGTCTATAGTGC 66 TGTCATGGT-CAACCATGGTCTTACGTATACACTGC * * 85732281 CATAACCCAGTTATGGTCTAATCATCAAAATGTCATAGCCCAACTATGGTC-T-CAT-CATCAGA 1 CATAACCCAGTTATGGTCTAATCATCAAAATGCCATAGCCCAACTATGGTCTTACATGCAT-ACA * 85732343 ATGTCATAGCGT-AACTATGGTCTTACATGTATACACTGC 65 ATGTCAT-G-GTCAACCATGGTCTTAC--GTATACACTGC 85732382 CAT 1 CAT 85732385 GGTCCAACCA Statistics Matches: 180, Mismatches: 19, Indels: 11 0.86 0.09 0.05 Matches are distributed among these distances: 98 2 0.01 99 24 0.13 100 34 0.19 101 120 0.67 ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31 Consensus pattern (100 bp): CATAACCCAGTTATGGTCTAATCATCAAAATGCCATAGCCCAACTATGGTCTTACATGCATACAA TGTCATGGTCAACCATGGTCTTACGTATACACTGC Found at i:85732683 original size:6 final size:6 Alignment explanation
Indices: 85732672--85732699 Score: 56 Period size: 6 Copynumber: 4.7 Consensus size: 6 85732662 TCAATTCATT 85732672 ATTTTC ATTTTC ATTTTC ATTTTC ATTT 1 ATTTTC ATTTTC ATTTTC ATTTTC ATTT 85732700 ACACAAATCA Statistics Matches: 22, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 6 22 1.00 ACGTcount: A:0.18, C:0.14, G:0.00, T:0.68 Consensus pattern (6 bp): ATTTTC Found at i:85737167 original size:27 final size:27 Alignment explanation
Indices: 85737137--85737194 Score: 116 Period size: 27 Copynumber: 2.1 Consensus size: 27 85737127 GTTTGAAAGT 85737137 CTAACTAAATTTACAAGTCGTTTTATA 1 CTAACTAAATTTACAAGTCGTTTTATA 85737164 CTAACTAAATTTACAAGTCGTTTTATA 1 CTAACTAAATTTACAAGTCGTTTTATA 85737191 CTAA 1 CTAA 85737195 AAATAAAACT Statistics Matches: 31, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 27 31 1.00 ACGTcount: A:0.38, C:0.16, G:0.07, T:0.40 Consensus pattern (27 bp): CTAACTAAATTTACAAGTCGTTTTATA Found at i:85738217 original size:27 final size:27 Alignment explanation
Indices: 85738185--85738246 Score: 88 Period size: 27 Copynumber: 2.3 Consensus size: 27 85738175 AGTCCCAGCT * ** 85738185 GACTACCTTGTGCTTAGTGTCTTGGTG 1 GACTACCTCGTGCTTAGTGTCTCAGTG * 85738212 GACTACCTCGTGTTTAGTGTCTCAGTG 1 GACTACCTCGTGCTTAGTGTCTCAGTG 85738239 GACTACCT 1 GACTACCT 85738247 ATGATGTCGT Statistics Matches: 31, Mismatches: 4, Indels: 0 0.89 0.11 0.00 Matches are distributed among these distances: 27 31 1.00 ACGTcount: A:0.15, C:0.23, G:0.26, T:0.37 Consensus pattern (27 bp): GACTACCTCGTGCTTAGTGTCTCAGTG Found at i:85738443 original size:45 final size:45 Alignment explanation
Indices: 85738376--85738512 Score: 163 Period size: 45 Copynumber: 3.1 Consensus size: 45 85738366 TATAGCGTAC * * 85738376 TTTTAT-ATGAT-ATCATAGCATCTTTTAGCTATGGTCTTATTCAT 1 TTTTATCATGATGA-CATAACATCTTTCAGCTATGGTCTTATTCAT * * 85738420 TTTTATCATGATGACATAACATCTTTCAACTATGGTCTT-TCTCAC 1 TTTTATCATGATGACATAACATCTTTCAGCTATGGTCTTAT-TCAT * * * * 85738465 TTTTATCATGATGCCATAACATATTTCAGTTATGGTCTTACTCAT 1 TTTTATCATGATGACATAACATCTTTCAGCTATGGTCTTATTCAT 85738510 TTT 1 TTT 85738513 CGGTTTATAG Statistics Matches: 79, Mismatches: 10, Indels: 7 0.82 0.10 0.07 Matches are distributed among these distances: 44 7 0.09 45 71 0.90 46 1 0.01 ACGTcount: A:0.26, C:0.18, G:0.10, T:0.47 Consensus pattern (45 bp): TTTTATCATGATGACATAACATCTTTCAGCTATGGTCTTATTCAT Found at i:85741628 original size:14 final size:14 Alignment explanation
Indices: 85741611--85741645 Score: 61 Period size: 14 Copynumber: 2.5 Consensus size: 14 85741601 TAAAGTCGAC 85741611 ACTTCCAGGGAACG 1 ACTTCCAGGGAACG * 85741625 ACTTCCAGGGACCG 1 ACTTCCAGGGAACG 85741639 ACTTCCA 1 ACTTCCA 85741646 ATTTTGTATT Statistics Matches: 20, Mismatches: 1, Indels: 0 0.95 0.05 0.00 Matches are distributed among these distances: 14 20 1.00 ACGTcount: A:0.26, C:0.34, G:0.23, T:0.17 Consensus pattern (14 bp): ACTTCCAGGGAACG Found at i:85753931 original size:35 final size:35 Alignment explanation
Indices: 85753892--85753963 Score: 90 Period size: 35 Copynumber: 2.1 Consensus size: 35 85753882 GTTTTTAAGG * * 85753892 TTAGGGTTTTGCCAAAATAAGTTAAGGTTTAGTGT 1 TTAGGGTTTTGCCAAAACAAGTTAAGGTTTAGAGT * ** * 85753927 TTAGGTTTTTGTTAAAACAAGTTAGGGTTTAGAGT 1 TTAGGGTTTTGCCAAAACAAGTTAAGGTTTAGAGT 85753962 TT 1 TT 85753964 TAGTAGATTT Statistics Matches: 31, Mismatches: 6, Indels: 0 0.84 0.16 0.00 Matches are distributed among these distances: 35 31 1.00 ACGTcount: A:0.28, C:0.04, G:0.25, T:0.43 Consensus pattern (35 bp): TTAGGGTTTTGCCAAAACAAGTTAAGGTTTAGAGT Found at i:85754054 original size:34 final size:35 Alignment explanation
Indices: 85753980--85754063 Score: 93 Period size: 34 Copynumber: 2.4 Consensus size: 35 85753970 ATTTTAAAAA ** 85753980 TAAATTAGGTTTTAGTGTTAGTTTATAAAAATTATT 1 TAAATTAGGTTTTAGTGTTA-TTTATAAAAATTAAG 85754016 TAAATTAGGTTTTA-TGGTT-TTTA-AACAAATTAAG 1 TAAATTAGGTTTTAGT-GTTATTTATAA-AAATTAAG 85754050 TAAATTAGAGTTTT 1 TAAATTAG-GTTTT 85754064 GAGAGTTTTA Statistics Matches: 43, Mismatches: 2, Indels: 7 0.83 0.04 0.13 Matches are distributed among these distances: 33 2 0.05 34 18 0.42 35 6 0.14 36 17 0.40 ACGTcount: A:0.37, C:0.01, G:0.14, T:0.48 Consensus pattern (35 bp): TAAATTAGGTTTTAGTGTTATTTATAAAAATTAAG Found at i:85754205 original size:85 final size:83 Alignment explanation
Indices: 85754091--85754245 Score: 249 Period size: 85 Copynumber: 1.8 Consensus size: 83 85754081 TAGGGCTTAA 85754091 GGTTTATGGTTTTAAATAAATTAAATAAATTAGGGTT-TAGGGTTTAAAAATAAATTAAAATAGG 1 GGTTTATGGTTTTAAATAAATTAAATAAATTAGGGTTCTAGGGTTT-AAAATAAATTAAAATAGG 85754155 GCTTTAATTAAATTGATTGG 65 G-TTTAATTAAATTGATTGG * * * 85754175 GGTTTATGGTTTTTAAATAAATTAAGTAAATTAGGGTTCTAGGGTTTTAAATAAATTAAATTAGG 1 GGTTTATGG-TTTTAAATAAATTAAATAAATTAGGGTTCTAGGGTTTAAAATAAATTAAAATAGG 85754240 GTTTAA 65 GTTTAA 85754246 GGTTTAAGAT Statistics Matches: 66, Mismatches: 3, Indels: 4 0.90 0.04 0.05 Matches are distributed among these distances: 84 14 0.21 85 44 0.67 86 8 0.12 ACGTcount: A:0.39, C:0.01, G:0.19, T:0.41 Consensus pattern (83 bp): GGTTTATGGTTTTAAATAAATTAAATAAATTAGGGTTCTAGGGTTTAAAATAAATTAAAATAGGG TTTAATTAAATTGATTGG Found at i:85754212 original size:34 final size:31 Alignment explanation
Indices: 85754174--85754285 Score: 97 Period size: 35 Copynumber: 3.4 Consensus size: 31 85754164 AAATTGATTG 85754174 GGGTTTATGGTTTTTAAATAAATTAAGTAAATTA 1 GGGTTTA-GG-TTTTAAATAAATTAA-TAAATTA 85754208 GGGTTCTAGGGTTTTAAATAAA-T--TAAATTA 1 GGGTT-TA-GGTTTTAAATAAATTAATAAATTA 85754238 GGGTTTAAGG-TTTAAGATTAAATTTAATTAAATTA 1 GGGTTT-AGGTTTTAA-A-TAAA-TTAA-TAAATTA * 85754273 GGGTTTAGTTTTT 1 GGGTTTAGGTTTT 85754286 TTTTCAATGA Statistics Matches: 66, Mismatches: 2, Indels: 19 0.76 0.02 0.22 Matches are distributed among these distances: 28 5 0.08 29 4 0.06 30 17 0.26 32 1 0.02 33 1 0.02 34 18 0.27 35 20 0.30 ACGTcount: A:0.35, C:0.01, G:0.20, T:0.45 Consensus pattern (31 bp): GGGTTTAGGTTTTAAATAAATTAATAAATTA Found at i:85754260 original size:30 final size:30 Alignment explanation
Indices: 85754192--85754267 Score: 84 Period size: 30 Copynumber: 2.5 Consensus size: 30 85754182 GGTTTTTAAA * * * 85754192 TAAATTAAGTAAATTAGGGTTCTAGGGTTT 1 TAAATAAATTAAATTAGGGTTCTAAGGTTT 85754222 TAAATAAATTAAATTAGGGTT-TAAGG-TT 1 TAAATAAATTAAATTAGGGTTCTAAGGTTT * 85754250 TAAGATTAAATTTAATTA 1 TAA-A-TAAATTAAATTA 85754268 AATTAGGGTT Statistics Matches: 40, Mismatches: 4, Indels: 4 0.83 0.08 0.08 Matches are distributed among these distances: 28 5 0.12 29 5 0.12 30 30 0.75 ACGTcount: A:0.41, C:0.01, G:0.17, T:0.41 Consensus pattern (30 bp): TAAATAAATTAAATTAGGGTTCTAAGGTTT Found at i:85754780 original size:128 final size:126 Alignment explanation
Indices: 85754336--85754841 Score: 624 Period size: 126 Copynumber: 4.0 Consensus size: 126 85754326 GTATTTTTAC * * * * * 85754336 CCTGAAAAAATAATTTTGAGAAGATGTTTCTAAACAAATAGTGTCAAAAATGTTTCAGACAGGAT 1 CCTGAAAAAATAA-ATTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAACAGGAT * * * * * 85754401 GCACTGTCAGCAAAAATACAAAAAAAAAGCTCCCACGTGAACGCTC-TTTTCTATAATAGTT 65 GCACTGTCAGCAAAATTACAGAAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTT * * * * 85754462 CCTGAAAAAATAATTTTGAGAAGATGTTTCCGAACAAATAGTGTCAAAAACGCTTCAAGCAAGAT 1 CCTGAAAAAATAA-ATTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAACAGGAT * * * * * * 85754527 GTATTGTTAGAAAAATTAC-GAAAAAAAGCTACCACGTGGACGCTCTTTTTCTAAAGTAGTT 65 GCACTGTCAGCAAAATTACAGAAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTT * * * * 85754588 CGTGAAAAAATAAATTTGAGAAGAAGTTTCTGAATAAATAGTGTCAAAAACGCTTCAAGCAGGAT 1 CCTGAAAAAATAAA-TTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAACAGGAT * * * * 85754653 GCACTGTTAGCAAAATTACAGAAAAAAAGCTCCCACGTGGACACTTTTTTTCTACAGTATTT 65 GCACTGTCAGCAAAATTACAGAAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTT * * * 85754715 CTTGAAAAAAATGAAATTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACTCTTCAAATAGGA 1 CCTG-AAAAAAT-AAATTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAACAGGA * * * * 85754780 TGCAATGTCAGCAAAATTTCTG-AAAAAAGCT-CCACGTGGACGCTCTATTTCTACAGTAGTT 64 TGCACTGTCAGCAAAATTACAGAAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTT 85754841 C 1 C 85754842 ATAATTGGCC Statistics Matches: 330, Mismatches: 45, Indels: 10 0.86 0.12 0.03 Matches are distributed among these distances: 125 23 0.07 126 186 0.56 127 49 0.15 128 69 0.21 129 3 0.01 ACGTcount: A:0.40, C:0.16, G:0.17, T:0.27 Consensus pattern (126 bp): CCTGAAAAAATAAATTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAACAGGATG CACTGTCAGCAAAATTACAGAAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTT Found at i:85758607 original size:42 final size:42 Alignment explanation
Indices: 85758561--85758707 Score: 188 Period size: 42 Copynumber: 3.3 Consensus size: 42 85758551 CATAGTTCAA 85758561 CTATGGTCTTACACATCTTCACATAAT-GATGTCATAGCCCAG 1 CTATGGTCTTACACATCTTCACAT-ATCGATGTCATAGCCCAG * * 85758603 CTATGGTCTTACACATATTCATATATCGATGTCATAGCCCAG 1 CTATGGTCTTACACATCTTCACATATCGATGTCATAGCCCAG * 85758645 CTATGGTCTTACACGTAATCACATATCACATATCGATGCCATAGCCCAG 1 CTATGGTCTTACAC---AT--C-T-TCACATATCGATGTCATAGCCCAG 85758694 CTATGGTCTTACAC 1 CTATGGTCTTACAC 85758708 GAATCACATA Statistics Matches: 92, Mismatches: 5, Indels: 9 0.87 0.05 0.08 Matches are distributed among these distances: 41 2 0.02 42 51 0.55 45 2 0.02 48 1 0.01 49 36 0.39 ACGTcount: A:0.29, C:0.27, G:0.14, T:0.31 Consensus pattern (42 bp): CTATGGTCTTACACATCTTCACATATCGATGTCATAGCCCAG Found at i:85758688 original size:49 final size:48 Alignment explanation
Indices: 85758614--85758750 Score: 188 Period size: 49 Copynumber: 2.9 Consensus size: 48 85758604 TATGGTCTTA * * 85758614 CACATATTCATATATCGATGTCATAGCCCAGCTATGGTCTTACACGTAAT 1 CACATA-TCACATATCGATGCCATAGCCCAGCTATGGTCTTACACG-AAT 85758664 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGAAT 1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGAAT * * * * 85758712 CACATATCTCA-CT-GATGCCATATCCCAGATATGGTCTTA 1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTA 85758751 TACAGTAGCA Statistics Matches: 81, Mismatches: 6, Indels: 4 0.89 0.07 0.04 Matches are distributed among these distances: 46 24 0.30 47 1 0.01 48 13 0.16 49 37 0.46 50 6 0.07 ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29 Consensus pattern (48 bp): CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGAAT Found at i:85758782 original size:47 final size:46 Alignment explanation
Indices: 85758629--85758796 Score: 174 Period size: 47 Copynumber: 3.6 Consensus size: 46 85758619 ATTCATATAT * * * * * 85758629 CGATGTCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACATAT 1 CGATGCCATATCCCAGATATGGTCTTACACG-AAGCACATATCAC--AC * * * * 85758678 CGATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCTCAC 1 CGATGCCATATCCCAGATATGGTCTTACACGAAGCACATATCACAC * * * * 85758724 TGATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC 1 CGATGCCATATCCCAGATATGGTCTTACAC-GAAGCACATATCACAC * 85758771 CGATGCTATATCCCAGATATGGTCTT 1 CGATGCCATATCCCAGATATGGTCTT 85758797 GTACGGAAAT Statistics Matches: 105, Mismatches: 13, Indels: 4 0.86 0.11 0.03 Matches are distributed among these distances: 46 27 0.26 47 36 0.34 48 12 0.11 49 30 0.29 ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29 Consensus pattern (46 bp): CGATGCCATATCCCAGATATGGTCTTACACGAAGCACATATCACAC Found at i:85758876 original size:31 final size:31 Alignment explanation
Indices: 85758819--85758937 Score: 177 Period size: 31 Copynumber: 3.8 Consensus size: 31 85758809 CTTGTTACTT * * 85758819 GTAGCCGAAGCTACCACTATTTCACTGATCAA 1 GTAGCCGGAGCTACCACT-TTTCACTGATCAG 85758851 GTAGCCGGTA-CTACCACTTTTCACTGATCAG 1 GTAGCCGG-AGCTACCACTTTTCACTGATCAG 85758882 GTAGCCGGAGCTACCACTTTTCACTGATCAG 1 GTAGCCGGAGCTACCACTTTTCACTGATCAG ** 85758913 GTAGCCAAAGCTACCACTTTTCACT 1 GTAGCCGGAGCTACCACTTTTCACT 85758938 TGTCATTTGT Statistics Matches: 81, Mismatches: 4, Indels: 5 0.90 0.04 0.06 Matches are distributed among these distances: 30 1 0.01 31 64 0.79 32 15 0.19 33 1 0.01 ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27 Consensus pattern (31 bp): GTAGCCGGAGCTACCACTTTTCACTGATCAG Found at i:85759020 original size:50 final size:51 Alignment explanation
Indices: 85758913--85759041 Score: 190 Period size: 50 Copynumber: 2.5 Consensus size: 51 85758903 CACTGATCAG * * * 85758913 GTAGCCAAAGCTACCACTTTTCACTTGTCATTTGTCATTAATCAGATAAGT 1 GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTAATCAGATAAGT * * 85758964 GTAGCCGAAGCTATCACTTATCACTT-TCACTTT-TCCTTGATCAGATAAGT 1 GTAGCCGAAGCTATCACTTATCACTTGTCA-TTTGTCATTAATCAGATAAGT 85759014 GTAGCCGAAGCTATCACTTATCACTTGT 1 GTAGCCGAAGCTATCACTTATCACTTGT 85759042 TGCCATGGTC Statistics Matches: 71, Mismatches: 5, Indels: 4 0.89 0.06 0.05 Matches are distributed among these distances: 50 44 0.62 51 27 0.38 ACGTcount: A:0.27, C:0.23, G:0.15, T:0.35 Consensus pattern (51 bp): GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTAATCAGATAAGT Found at i:85761420 original size:21 final size:22 Alignment explanation
Indices: 85761391--85761432 Score: 68 Period size: 21 Copynumber: 2.0 Consensus size: 22 85761381 TTGCTCTGGC 85761391 GGGGATTGTGGTTGCTTCGGTA 1 GGGGATTGTGGTTGCTTCGGTA * 85761413 GGGG-TTGTGGTTTCTTCGGT 1 GGGGATTGTGGTTGCTTCGGT 85761433 TGTAAGTATT Statistics Matches: 19, Mismatches: 1, Indels: 1 0.90 0.05 0.05 Matches are distributed among these distances: 21 15 0.79 22 4 0.21 ACGTcount: A:0.05, C:0.10, G:0.45, T:0.40 Consensus pattern (22 bp): GGGGATTGTGGTTGCTTCGGTA Found at i:85761676 original size:18 final size:18 Alignment explanation
Indices: 85761650--85761692 Score: 68 Period size: 18 Copynumber: 2.4 Consensus size: 18 85761640 GACTGAGAAA * * 85761650 AGGAAACATATAAGGGTT 1 AGGATACATATAAGGGCT 85761668 AGGATACATATAAGGGCT 1 AGGATACATATAAGGGCT 85761686 AGGATAC 1 AGGATAC 85761693 GCACCTGGCA Statistics Matches: 23, Mismatches: 2, Indels: 0 0.92 0.08 0.00 Matches are distributed among these distances: 18 23 1.00 ACGTcount: A:0.42, C:0.09, G:0.28, T:0.21 Consensus pattern (18 bp): AGGATACATATAAGGGCT Found at i:85763282 original size:28 final size:27 Alignment explanation
Indices: 85763251--85763337 Score: 79 Period size: 27 Copynumber: 3.2 Consensus size: 27 85763241 ATTACATAAA 85763251 TAAAAAATATTAAATAATATTCAAATT 1 TAAAAAATATTAAATAATATTCAAATT * * * * * 85763278 TTAAAATTAATTAAA-ATTACAT-AAATG 1 TAAAAAAT-ATTAAATAATA-TTCAAATT * 85763305 AAAAAAATATTAAATAATATTCCAAATT 1 TAAAAAATATTAAATAATATT-CAAATT 85763333 TAAAA 1 TAAAA 85763338 TAAATCGTTA Statistics Matches: 43, Mismatches: 12, Indels: 9 0.67 0.19 0.14 Matches are distributed among these distances: 26 7 0.16 27 21 0.49 28 15 0.35 ACGTcount: A:0.60, C:0.05, G:0.01, T:0.34 Consensus pattern (27 bp): TAAAAAATATTAAATAATATTCAAATT Found at i:85763309 original size:52 final size:53 Alignment explanation
Indices: 85763229--85763338 Score: 188 Period size: 54 Copynumber: 2.1 Consensus size: 53 85763219 TATAAAATAC 85763229 AAATTAATTAAAATTACATAAAT-AAAAAATATTAAATAATATT-CAAATTTTA 1 AAATTAATTAAAATTACATAAATAAAAAAATATTAAATAATATTCCAAA-TTTA 85763281 AAATTAATTAAAATTACATAAATGAAAAAAATATTAAATAATATTCCAAATTTA 1 AAATTAATTAAAATTACATAAAT-AAAAAAATATTAAATAATATTCCAAATTTA 85763335 AAAT 1 AAAT 85763339 AAATCGTTAC Statistics Matches: 55, Mismatches: 0, Indels: 4 0.93 0.00 0.07 Matches are distributed among these distances: 52 23 0.42 54 28 0.51 55 4 0.07 ACGTcount: A:0.60, C:0.05, G:0.01, T:0.35 Consensus pattern (53 bp): AAATTAATTAAAATTACATAAATAAAAAAATATTAAATAATATTCCAAATTTA Found at i:85766379 original size:19 final size:19 Alignment explanation
Indices: 85766344--85766388 Score: 51 Period size: 19 Copynumber: 2.5 Consensus size: 19 85766334 GTTGGTGGCC 85766344 TTTAATTT-TATAAATTTTG 1 TTTAATTTATATAAA-TTTG * 85766363 TTTAATTTATAT-TATTTG 1 TTTAATTTATATAAATTTG 85766381 TTT-ATTTA 1 TTTAATTTA 85766389 AAATAATTAA Statistics Matches: 24, Mismatches: 1, Indels: 4 0.83 0.03 0.14 Matches are distributed among these distances: 17 5 0.21 18 7 0.29 19 9 0.38 20 3 0.12 ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67 Consensus pattern (19 bp): TTTAATTTATATAAATTTG Found at i:85775354 original size:24 final size:24 Alignment explanation
Indices: 85775299--85775355 Score: 71 Period size: 24 Copynumber: 2.4 Consensus size: 24 85775289 TGTGGATAAC * 85775299 AATATTAGA-ATAAATATTAGATT 1 AATATTAAATATAAATATTAGATT * * * 85775322 AACACTAAATATAAATGTTAGATT 1 AATATTAAATATAAATATTAGATT 85775346 AATATTAAAT 1 AATATTAAAT 85775356 TAATAAGATA Statistics Matches: 27, Mismatches: 6, Indels: 1 0.79 0.18 0.03 Matches are distributed among these distances: 23 6 0.22 24 21 0.78 ACGTcount: A:0.53, C:0.04, G:0.07, T:0.37 Consensus pattern (24 bp): AATATTAAATATAAATATTAGATT Found at i:85778310 original size:54 final size:54 Alignment explanation
Indices: 85778244--85778352 Score: 191 Period size: 54 Copynumber: 2.0 Consensus size: 54 85778234 ATTATTGATT * * 85778244 CAATAAATTTTTTAATTGAATCAACCCATTCATAACAATTAATTTAGTACTCAA 1 CAATAAAATTTTTAATTGAATCAACCCATTCATAACAATTAATTTAATACTCAA * 85778298 CAATAAAATTTTTAATTGAATCAACCCATTCATACCAATTAATTTAATACTCAA 1 CAATAAAATTTTTAATTGAATCAACCCATTCATAACAATTAATTTAATACTCAA 85778352 C 1 C 85778353 GTATTCTTAA Statistics Matches: 52, Mismatches: 3, Indels: 0 0.95 0.05 0.00 Matches are distributed among these distances: 54 52 1.00 ACGTcount: A:0.43, C:0.18, G:0.03, T:0.36 Consensus pattern (54 bp): CAATAAAATTTTTAATTGAATCAACCCATTCATAACAATTAATTTAATACTCAA Found at i:85779043 original size:6 final size:6 Alignment explanation
Indices: 85779034--85779094 Score: 50 Period size: 6 Copynumber: 10.2 Consensus size: 6 85779024 CTCTCTCTCT * * * * * * 85779034 CACACA CACACA CACACG CACACG CACACG CACACG CAGACA CACGCA 1 CACACA CACACA CACACA CACACA CACACA CACACA CACACA CACACA * * 85779082 GACACA CGCACA C 1 CACACA CACACA C 85779095 TTGTTTTAAC Statistics Matches: 46, Mismatches: 9, Indels: 0 0.84 0.16 0.00 Matches are distributed among these distances: 6 46 1.00 ACGTcount: A:0.39, C:0.48, G:0.13, T:0.00 Consensus pattern (6 bp): CACACA Found at i:85779047 original size:10 final size:10 Alignment explanation
Indices: 85779034--85779094 Score: 50 Period size: 10 Copynumber: 6.1 Consensus size: 10 85779024 CTCTCTCTCT 85779034 CACACACACA 1 CACACACACA * 85779044 CACACACGCA 1 CACACACACA * * 85779054 CACGCACACG 1 CACACACACA * * 85779064 CACACGCAGA 1 CACACACACA * * 85779074 CACACGCAGA 1 CACACACACA * 85779084 CACACGCACA 1 CACACACACA 85779094 C 1 C 85779095 TTGTTTTAAC Statistics Matches: 42, Mismatches: 9, Indels: 0 0.82 0.18 0.00 Matches are distributed among these distances: 10 42 1.00 ACGTcount: A:0.39, C:0.48, G:0.13, T:0.00 Consensus pattern (10 bp): CACACACACA Found at i:85791775 original size:21 final size:21 Alignment explanation
Indices: 85791749--85791789 Score: 64 Period size: 21 Copynumber: 2.0 Consensus size: 21 85791739 TCCAGCAACC * 85791749 AAACACTCTCATTCCAGCTCT 1 AAACACTCCCATTCCAGCTCT * 85791770 AAACACTCCCATTCCGGCTC 1 AAACACTCCCATTCCAGCTC 85791790 CCGTCCAGCA Statistics Matches: 18, Mismatches: 2, Indels: 0 0.90 0.10 0.00 Matches are distributed among these distances: 21 18 1.00 ACGTcount: A:0.27, C:0.41, G:0.07, T:0.24 Consensus pattern (21 bp): AAACACTCCCATTCCAGCTCT Found at i:85792889 original size:30 final size:30 Alignment explanation
Indices: 85792854--85792913 Score: 120 Period size: 30 Copynumber: 2.0 Consensus size: 30 85792844 TAGGTAAGTT 85792854 AAAATATTTCCTTGGTATTGAAGTGGCACA 1 AAAATATTTCCTTGGTATTGAAGTGGCACA 85792884 AAAATATTTCCTTGGTATTGAAGTGGCACA 1 AAAATATTTCCTTGGTATTGAAGTGGCACA 85792914 CTCTCAGGAA Statistics Matches: 30, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 30 30 1.00 ACGTcount: A:0.33, C:0.13, G:0.20, T:0.33 Consensus pattern (30 bp): AAAATATTTCCTTGGTATTGAAGTGGCACA Found at i:85806862 original size:18 final size:18 Alignment explanation
Indices: 85806839--85806875 Score: 74 Period size: 18 Copynumber: 2.1 Consensus size: 18 85806829 CTGGGCTAGC 85806839 TAGACCTAGTTCCAACAA 1 TAGACCTAGTTCCAACAA 85806857 TAGACCTAGTTCCAACAA 1 TAGACCTAGTTCCAACAA 85806875 T 1 T 85806876 CTCAAAAACA Statistics Matches: 19, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 18 19 1.00 ACGTcount: A:0.38, C:0.27, G:0.11, T:0.24 Consensus pattern (18 bp): TAGACCTAGTTCCAACAA Found at i:85810339 original size:21 final size:21 Alignment explanation
Indices: 85810313--85810354 Score: 84 Period size: 21 Copynumber: 2.0 Consensus size: 21 85810303 ATCTCTGTCC 85810313 CATGACCAGATTGGAATAGGG 1 CATGACCAGATTGGAATAGGG 85810334 CATGACCAGATTGGAATAGGG 1 CATGACCAGATTGGAATAGGG 85810355 GAAGACTCTA Statistics Matches: 21, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 21 21 1.00 ACGTcount: A:0.33, C:0.14, G:0.33, T:0.19 Consensus pattern (21 bp): CATGACCAGATTGGAATAGGG Found at i:85819711 original size:91 final size:91 Alignment explanation
Indices: 85819550--85819742 Score: 214 Period size: 91 Copynumber: 2.1 Consensus size: 91 85819540 AAAAGGGTTA * * * 85819550 TGTAACATTTGGTACATGTACTTTTATAAAAAATTTAATGTGATATATGTACTTTGAAAACGTTA 1 TGTATCATTTGGTACATGTACTTTTATAAAAAATTAAATGTGATATATATACTTTGAAAACGTTA * * 85819615 AATGTGGTACATGAACTATGAATTTG 66 AATGTGATACATGAACTATCAATTTG * * * * 85819641 TTTATTATTTGGTACTTGTAC-TTT-TAAAAAATCTCAAATGT-AGTATTTATACTTT-AAAACT 1 TGTATCATTTGGTACATGTACTTTTATAAAAAAT-T-AAATGTGA-TATATATACTTTGAAAAC- * * * 85819702 GTTCAATGTGATACCTGAATTATCAATTTG 62 GTTAAATGTGATACATGAACTATCAATTTG 85819732 TGTATCATTTG 1 TGTATCATTTG 85819743 ATACCTATAC Statistics Matches: 84, Mismatches: 14, Indels: 8 0.79 0.13 0.08 Matches are distributed among these distances: 89 8 0.10 90 10 0.12 91 66 0.79 ACGTcount: A:0.34, C:0.09, G:0.14, T:0.43 Consensus pattern (91 bp): TGTATCATTTGGTACATGTACTTTTATAAAAAATTAAATGTGATATATATACTTTGAAAACGTTA AATGTGATACATGAACTATCAATTTG Found at i:85819826 original size:62 final size:62 Alignment explanation
Indices: 85819695--85819824 Score: 145 Period size: 62 Copynumber: 2.1 Consensus size: 62 85819685 ATTTATACTT * * * * * * 85819695 TAAAACTGTTCAATGTGATACCTGAATTATCAATTTGTGTATCATTTGATACCTATACTTTCG 1 TAAAA-TGTCCAATGTGATACCTGAACTATCAATCTGTGTATCATTTGACACCTAGACTTTAG * * * 85819758 TAAAATGTCCAATGTGGTACTTGAACTATCAATCTGTGTATTATTATGACACCTAGA-TTATAG 1 TAAAATGTCCAATGTGATACCTGAACTATCAATCTGTGTATCATT-TGACACCTAGACTT-TAG 85819821 TAAA 1 TAAA 85819825 TGCTAAATGT Statistics Matches: 56, Mismatches: 9, Indels: 4 0.81 0.13 0.06 Matches are distributed among these distances: 62 36 0.64 63 20 0.36 ACGTcount: A:0.33, C:0.15, G:0.14, T:0.38 Consensus pattern (62 bp): TAAAATGTCCAATGTGATACCTGAACTATCAATCTGTGTATCATTTGACACCTAGACTTTAG Found at i:85827189 original size:12 final size:12 Alignment explanation
Indices: 85827164--85827217 Score: 54 Period size: 13 Copynumber: 4.2 Consensus size: 12 85827154 ATAACCAAAC 85827164 TTTTTAAAAGTAA 1 TTTTTAAAA-TAA 85827177 TTTTTAAAATAA 1 TTTTTAAAATAA * * 85827189 TTTTTCTAAAACAC 1 -TTTT-TAAAATAA * 85827203 TTTTTAAAATCA 1 TTTTTAAAATAA 85827215 TTT 1 TTT 85827218 CTCAAAAACT Statistics Matches: 34, Mismatches: 5, Indels: 5 0.77 0.11 0.11 Matches are distributed among these distances: 12 11 0.32 13 17 0.50 14 6 0.18 ACGTcount: A:0.41, C:0.07, G:0.02, T:0.50 Consensus pattern (12 bp): TTTTTAAAATAA Found at i:85827206 original size:26 final size:26 Alignment explanation
Indices: 85827177--85827226 Score: 73 Period size: 26 Copynumber: 1.9 Consensus size: 26 85827167 TTAAAAGTAA * * 85827177 TTTTTAAAATAATTTTTCTAAAACAC 1 TTTTTAAAATAATTTCTCAAAAACAC * 85827203 TTTTTAAAATCATTTCTCAAAAAC 1 TTTTTAAAATAATTTCTCAAAAAC 85827227 TTGCTAAAGT Statistics Matches: 21, Mismatches: 3, Indels: 0 0.88 0.12 0.00 Matches are distributed among these distances: 26 21 1.00 ACGTcount: A:0.42, C:0.14, G:0.00, T:0.44 Consensus pattern (26 bp): TTTTTAAAATAATTTCTCAAAAACAC Found at i:85828048 original size:24 final size:24 Alignment explanation
Indices: 85828021--85828066 Score: 58 Period size: 25 Copynumber: 1.9 Consensus size: 24 85828011 TATTTTTAAT * 85828021 TTAA-AATTTAACAAGTAATTTATA 1 TTAATAATTTAAAAAGT-ATTTATA * 85828045 TTAATTATTTAAAAAGTATTTA 1 TTAATAATTTAAAAAGTATTTA 85828067 ACTTTTTTAT Statistics Matches: 19, Mismatches: 2, Indels: 2 0.83 0.09 0.09 Matches are distributed among these distances: 24 9 0.47 25 10 0.53 ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46 Consensus pattern (24 bp): TTAATAATTTAAAAAGTATTTATA Found at i:85833800 original size:10 final size:11 Alignment explanation
Indices: 85833773--85833805 Score: 50 Period size: 10 Copynumber: 3.1 Consensus size: 11 85833763 ACCTTTTGGT * 85833773 TAAAATAAATA 1 TAAAATATATA 85833784 TAAAATATATA 1 TAAAATATATA 85833795 -AAAATATATA 1 TAAAATATATA 85833805 T 1 T 85833806 TGCTAATGTT Statistics Matches: 20, Mismatches: 1, Indels: 2 0.87 0.04 0.09 Matches are distributed among these distances: 10 10 0.50 11 10 0.50 ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33 Consensus pattern (11 bp): TAAAATATATA Found at i:85834283 original size:20 final size:20 Alignment explanation
Indices: 85834260--85834298 Score: 69 Period size: 20 Copynumber: 1.9 Consensus size: 20 85834250 ATTATCAAAA 85834260 ATATAAAATTATGAAAATTG 1 ATATAAAATTATGAAAATTG * 85834280 ATATAAACTTATGAAAATT 1 ATATAAAATTATGAAAATT 85834299 ATAAACAAAA Statistics Matches: 18, Mismatches: 1, Indels: 0 0.95 0.05 0.00 Matches are distributed among these distances: 20 18 1.00 ACGTcount: A:0.54, C:0.03, G:0.08, T:0.36 Consensus pattern (20 bp): ATATAAAATTATGAAAATTG Found at i:85834317 original size:9 final size:8 Alignment explanation
Indices: 85834247--85834303 Score: 51 Period size: 9 Copynumber: 6.4 Consensus size: 8 85834237 AATCAGGAAA 85834247 AAAATTAT 1 AAAATTAT * 85834255 CAAAAATAT 1 -AAAATTAT 85834264 AAAATTAT 1 AAAATTAT 85834272 GAAAATTGAT 1 -AAAATT-AT 85834282 ATAAACTTAT 1 A-AAA-TTAT 85834292 GAAAATTAT 1 -AAAATTAT 85834301 AAA 1 AAA 85834304 CAAAATTTAT Statistics Matches: 41, Mismatches: 2, Indels: 11 0.76 0.04 0.20 Matches are distributed among these distances: 8 10 0.24 9 18 0.44 10 10 0.24 11 3 0.07 ACGTcount: A:0.60, C:0.04, G:0.05, T:0.32 Consensus pattern (8 bp): AAAATTAT Found at i:85846463 original size:27 final size:27 Alignment explanation
Indices: 85846430--85846487 Score: 116 Period size: 27 Copynumber: 2.1 Consensus size: 27 85846420 AAATTTTAAG 85846430 TTTAATTCTTGATGTATTTGCTAAGTT 1 TTTAATTCTTGATGTATTTGCTAAGTT 85846457 TTTAATTCTTGATGTATTTGCTAAGTT 1 TTTAATTCTTGATGTATTTGCTAAGTT 85846484 TTTA 1 TTTA 85846488 TAAGCTTAAC Statistics Matches: 31, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 27 31 1.00 ACGTcount: A:0.22, C:0.07, G:0.14, T:0.57 Consensus pattern (27 bp): TTTAATTCTTGATGTATTTGCTAAGTT Found at i:85847259 original size:6 final size:6 Alignment explanation
Indices: 85847228--85847253 Score: 52 Period size: 6 Copynumber: 4.3 Consensus size: 6 85847218 AGTATTAATT 85847228 AAGAAA AAGAAA AAGAAA AAGAAA AA 1 AAGAAA AAGAAA AAGAAA AAGAAA AA 85847254 ACAAAACATA 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:0.85, C:0.00, G:0.15, T:0.00 Consensus pattern (6 bp): AAGAAA Found at i:85847783 original size:40 final size:40 Alignment explanation
Indices: 85847736--85848377 Score: 847 Period size: 40 Copynumber: 16.1 Consensus size: 40 85847726 CATGTTTTGA * * 85847736 TTGGATCAGCTCTTATGAGCTTCTGTTTAGCGTGTTTCAG 1 TTGGATCAGCTCTTATGAGCTTCTGTTTGGCGTGTTTCGG * * * * 85847776 TTAGATCAACTCTTATGAGCTTTTGTTTGGTGTGTTT-GAG 1 TTGGATCAGCTCTTATGAGCTTCTGTTTGGCGTGTTTCG-G * * 85847816 TTGGATAAGCTCTTATGAGCTTCTGTTTGGCGTGTTTCAG 1 TTGGATCAGCTCTTATGAGCTTCTGTTTGGCGTGTTTCGG * * 85847856 TTGGATTAGCTCTTATGAGCTTCTGTTTGGCATGTTTCGG 1 TTGGATCAGCTCTTATGAGCTTCTGTTTGGCGTGTTTCGG * * * 85847896 TTGGATCAGCTCTTATGAGCTTCTGTTTGGTGTGCTTCGA 1 TTGGATCAGCTCTTATGAGCTTCTGTTTGGCGTGTTTCGG * * 85847936 TTGGATCAACTCTTATGAGCTTCTATTTGGCGTGTTTCGG 1 TTGGATCAGCTCTTATGAGCTTCTGTTTGGCGTGTTTCGG * * * 85847976 TTGGCTCAGCTCTTATGAGCCTCTGTTTGGTGTGTTTCGG 1 TTGGATCAGCTCTTATGAGCTTCTGTTTGGCGTGTTTCGG * * * * * 85848016 TTGGATAAACTCTTATGAGCCTCTGTTTGGCATGTTTCGA 1 TTGGATCAGCTCTTATGAGCTTCTGTTTGGCGTGTTTCGG * 85848056 TTGGATCAGCTCTTATGAGCCTCTGTTTGGCGTGTTTCGG 1 TTGGATCAGCTCTTATGAGCTTCTGTTTGGCGTGTTTCGG * 85848096 TTGGATCAGCTCTTATGAGCTTCTGTTTGGCGTGTTTCAG 1 TTGGATCAGCTCTTATGAGCTTCTGTTTGGCGTGTTTCGG * * * * 85848136 TTGGATCAGATTTTATGAGCTTCTGTTTGGTGTGTTTCGA 1 TTGGATCAGCTCTTATGAGCTTCTGTTTGGCGTGTTTCGG * * * 85848176 TTGGATCAACTCTTATGATCTTCTGTTTGGCGTGCTTCGG 1 TTGGATCAGCTCTTATGAGCTTCTGTTTGGCGTGTTTCGG * * * * 85848216 TTGGATAAACTCTTATGAGCTTCTGTTTGACGTGTTTCTG 1 TTGGATCAGCTCTTATGAGCTTCTGTTTGGCGTGTTTCGG * * ** 85848256 TTGGATCAACTCTTATGAGCCTCTGTTTGGCGTGTTTCTA 1 TTGGATCAGCTCTTATGAGCTTCTGTTTGGCGTGTTTCGG * * 85848296 TTGGATCAGCTCTTATGAGCTTTTGTTTAGCGTGTTTCGG 1 TTGGATCAGCTCTTATGAGCTTCTGTTTGGCGTGTTTCGG * * * * 85848336 TTGGATTAGCTCTTATGAGCTTCTATCTGGTGTG-TTCGG 1 TTGGATCAGCTCTTATGAGCTTCTGTTTGGCGTGTTTCGG 85848375 TTG 1 TTG 85848378 ATCTGACGAT Statistics Matches: 525, Mismatches: 75, Indels: 5 0.87 0.12 0.01 Matches are distributed among these distances: 39 8 0.02 40 517 0.98 ACGTcount: A:0.14, C:0.16, G:0.26, T:0.43 Consensus pattern (40 bp): TTGGATCAGCTCTTATGAGCTTCTGTTTGGCGTGTTTCGG Found at i:85848704 original size:20 final size:20 Alignment explanation
Indices: 85848658--85848707 Score: 82 Period size: 20 Copynumber: 2.5 Consensus size: 20 85848648 TACTATGCAA * 85848658 ATGAAAAGATATAATTTCTT 1 ATGAAATGATATAATTTCTT * 85848678 ATGAAATGATGTAATTTCTT 1 ATGAAATGATATAATTTCTT 85848698 ATGAAATGAT 1 ATGAAATGAT 85848708 TTATCATGTA Statistics Matches: 28, Mismatches: 2, Indels: 0 0.93 0.07 0.00 Matches are distributed among these distances: 20 28 1.00 ACGTcount: A:0.42, C:0.04, G:0.14, T:0.40 Consensus pattern (20 bp): ATGAAATGATATAATTTCTT Found at i:85851333 original size:21 final size:20 Alignment explanation
Indices: 85851275--85851338 Score: 74 Period size: 21 Copynumber: 3.1 Consensus size: 20 85851265 CCTGATCAAT 85851275 ATACGACACATAAGTGCCTG 1 ATACGACACATAAGTGCCTG * * * * 85851295 AAATGACACACGAGGTGCCTG 1 ATACGACACA-TAAGTGCCTG 85851316 ATACGACACATAAAGTGCCTG 1 ATACGACACAT-AAGTGCCTG 85851337 AT 1 AT 85851339 TGGCAAAGCC Statistics Matches: 34, Mismatches: 8, Indels: 3 0.76 0.18 0.07 Matches are distributed among these distances: 20 8 0.24 21 26 0.76 ACGTcount: A:0.36, C:0.23, G:0.22, T:0.19 Consensus pattern (20 bp): ATACGACACATAAGTGCCTG Found at i:85852520 original size:21 final size:20 Alignment explanation
Indices: 85852496--85852534 Score: 51 Period size: 21 Copynumber: 1.9 Consensus size: 20 85852486 TCAAATTTCC 85852496 CTTTTCTTCATTCCGTTCTTT 1 CTTTTCTTCATTCC-TTCTTT * * 85852517 CTTTTTTTCCTTCCTTCT 1 CTTTTCTTCATTCCTTCT 85852535 CTATTTCGTT Statistics Matches: 16, Mismatches: 2, Indels: 1 0.84 0.11 0.05 Matches are distributed among these distances: 20 4 0.25 21 12 0.75 ACGTcount: A:0.03, C:0.31, G:0.03, T:0.64 Consensus pattern (20 bp): CTTTTCTTCATTCCTTCTTT Found at i:85852578 original size:14 final size:15 Alignment explanation
Indices: 85852561--85852593 Score: 50 Period size: 14 Copynumber: 2.3 Consensus size: 15 85852551 ATTCTGTTTC 85852561 TTTCCTTTCCTTT-T 1 TTTCCTTTCCTTTAT * 85852575 TTTCCTTTCTTTTAT 1 TTTCCTTTCCTTTAT 85852590 TTTC 1 TTTC 85852594 ATTAAATTAT Statistics Matches: 17, Mismatches: 1, Indels: 1 0.89 0.05 0.05 Matches are distributed among these distances: 14 12 0.71 15 5 0.29 ACGTcount: A:0.03, C:0.24, G:0.00, T:0.73 Consensus pattern (15 bp): TTTCCTTTCCTTTAT Found at i:85852762 original size:31 final size:32 Alignment explanation
Indices: 85852706--85852768 Score: 85 Period size: 31 Copynumber: 2.0 Consensus size: 32 85852696 TACATTTGTC * 85852706 ATAATTTAATTTATTTGTTACATAAAAATCTT 1 ATAATATAATTTATTTGTTACATAAAAATCTT * 85852738 ATAATATAA-TTATTTGATTA-ATAAATATCTT 1 ATAATATAATTTATTTG-TTACATAAAAATCTT 85852769 TTACTTAATA Statistics Matches: 28, Mismatches: 2, Indels: 3 0.85 0.06 0.09 Matches are distributed among these distances: 31 17 0.61 32 11 0.39 ACGTcount: A:0.43, C:0.05, G:0.03, T:0.49 Consensus pattern (32 bp): ATAATATAATTTATTTGTTACATAAAAATCTT Found at i:85852778 original size:18 final size:19 Alignment explanation
Indices: 85852755--85852790 Score: 56 Period size: 18 Copynumber: 1.9 Consensus size: 19 85852745 AATTATTTGA 85852755 TTAATAAATATCT-TTTAC 1 TTAATAAATATCTATTTAC * 85852773 TTAATAATTATCTATTTA 1 TTAATAAATATCTATTTA 85852791 ATAACTAAAT Statistics Matches: 16, Mismatches: 1, Indels: 1 0.89 0.06 0.06 Matches are distributed among these distances: 18 12 0.75 19 4 0.25 ACGTcount: A:0.39, C:0.08, G:0.00, T:0.53 Consensus pattern (19 bp): TTAATAAATATCTATTTAC Found at i:85855352 original size:2 final size:2 Alignment explanation
Indices: 85855345--85855377 Score: 57 Period size: 2 Copynumber: 16.5 Consensus size: 2 85855335 CATGGGACCT * 85855345 TC TC TC TC TC TC TC TC TC TT TC TC TC TC TC TC T 1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T 85855378 TTAGATTGAG Statistics Matches: 29, Mismatches: 2, Indels: 0 0.94 0.06 0.00 Matches are distributed among these distances: 2 29 1.00 ACGTcount: A:0.00, C:0.45, G:0.00, T:0.55 Consensus pattern (2 bp): TC Found at i:85863731 original size:21 final size:21 Alignment explanation
Indices: 85863706--85863748 Score: 52 Period size: 21 Copynumber: 2.0 Consensus size: 21 85863696 AAGAATGATT 85863706 TTTAACTCTTTTCTTAA-TTAA 1 TTTAA-TCTTTTCTTAACTTAA * * 85863727 TTTAATGTTTTGTTAACTTAA 1 TTTAATCTTTTCTTAACTTAA 85863748 T 1 T 85863749 CAAAAACTTA Statistics Matches: 19, Mismatches: 2, Indels: 2 0.83 0.09 0.09 Matches are distributed among these distances: 20 9 0.47 21 10 0.53 ACGTcount: A:0.28, C:0.09, G:0.05, T:0.58 Consensus pattern (21 bp): TTTAATCTTTTCTTAACTTAA Found at i:85867890 original size:22 final size:24 Alignment explanation
Indices: 85867865--85867917 Score: 65 Period size: 24 Copynumber: 2.3 Consensus size: 24 85867855 TACCAACATC * 85867865 AATAATCGAAAA-AA-ATGAAATA 1 AATAATAGAAAACAATATGAAATA * * 85867887 AATAATATAAAACAATTTGAAATA 1 AATAATAGAAAACAATATGAAATA 85867911 AATAATA 1 AATAATA 85867918 AGATAATTTT Statistics Matches: 26, Mismatches: 3, Indels: 2 0.84 0.10 0.06 Matches are distributed among these distances: 22 10 0.38 23 2 0.08 24 14 0.54 ACGTcount: A:0.66, C:0.04, G:0.06, T:0.25 Consensus pattern (24 bp): AATAATAGAAAACAATATGAAATA Found at i:85867912 original size:24 final size:23 Alignment explanation
Indices: 85867882--85868008 Score: 87 Period size: 24 Copynumber: 5.1 Consensus size: 23 85867872 GAAAAAAATG 85867882 AAATAAATAATATAAAACAATTT 1 AAATAAATAATATAAAACAATTT * * 85867905 GAAATAAATAATA-AGATA-ATTTT 1 -AAATAAATAATATA-AAACAATTT * 85867928 AAATAAATAATATATATCAAAAAGGGTTT 1 AAATAAATAATATA-A--AACAA---TTT * * 85867957 AAATAGATACTATAAAAAGCAATTT 1 AAATAAATAATAT-AAAA-CAATTT * 85867982 AAAGTAAATAATATAAAATAATTT 1 AAA-TAAATAATATAAAACAATTT 85868006 AAA 1 AAA 85868009 ATCATTAATA Statistics Matches: 81, Mismatches: 11, Indels: 22 0.71 0.10 0.19 Matches are distributed among these distances: 22 12 0.15 23 7 0.09 24 22 0.27 25 11 0.14 26 9 0.11 27 2 0.02 28 2 0.02 29 15 0.19 30 1 0.01 ACGTcount: A:0.60, C:0.03, G:0.06, T:0.31 Consensus pattern (23 bp): AAATAAATAATATAAAACAATTT Found at i:85867918 original size:22 final size:22 Alignment explanation
Indices: 85867880--85867939 Score: 75 Period size: 22 Copynumber: 2.6 Consensus size: 22 85867870 TCGAAAAAAA 85867880 TGAAATAAATAATATAAAACAATT 1 TGAAATAAAT-A-ATAAAACAATT * * 85867904 TGAAATAAATAATAAGATAATT 1 TGAAATAAATAATAAAACAATT * 85867926 TTAAATAAATAATA 1 TGAAATAAATAATA 85867940 TATATCAAAA Statistics Matches: 33, Mismatches: 3, Indels: 2 0.87 0.08 0.05 Matches are distributed among these distances: 22 22 0.67 23 1 0.03 24 10 0.30 ACGTcount: A:0.62, C:0.02, G:0.05, T:0.32 Consensus pattern (22 bp): TGAAATAAATAATAAAACAATT Found at i:85868129 original size:29 final size:28 Alignment explanation
Indices: 85868096--85868150 Score: 74 Period size: 29 Copynumber: 1.9 Consensus size: 28 85868086 ATATAAAAAG * * 85868096 TTTAAAATAAATAATATGTGAAAAATAAA 1 TTTAAAATAAAGAATATAT-AAAAATAAA * 85868125 TTTAAAATAGAGAATATATAAAAATA 1 TTTAAAATAAAGAATATATAAAAATA 85868151 TATATATAAA Statistics Matches: 23, Mismatches: 3, Indels: 1 0.85 0.11 0.04 Matches are distributed among these distances: 28 7 0.30 29 16 0.70 ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31 Consensus pattern (28 bp): TTTAAAATAAAGAATATATAAAAATAAA Found at i:85868330 original size:21 final size:18 Alignment explanation
Indices: 85868299--85868337 Score: 51 Period size: 19 Copynumber: 2.0 Consensus size: 18 85868289 TAAAATAGAT 85868299 AATATATAAAATAGTTTAA 1 AATATATAAAATA-TTTAA 85868318 AATATATGAAAAATATTTAA 1 AATATAT--AAAATATTTAA 85868338 TAAATAATAT Statistics Matches: 18, Mismatches: 0, Indels: 3 0.86 0.00 0.14 Matches are distributed among these distances: 19 7 0.39 20 5 0.28 21 6 0.33 ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36 Consensus pattern (18 bp): AATATATAAAATATTTAA Found at i:85874761 original size:3 final size:3 Alignment explanation
Indices: 85874753--85874793 Score: 73 Period size: 3 Copynumber: 13.7 Consensus size: 3 85874743 TACTAAACAT * 85874753 TTC TTC TTC TTC TTC TTC TTT TTC TTC TTC TTC TTC TTC TT 1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT 85874794 TTCAGTTAAT Statistics Matches: 36, Mismatches: 2, Indels: 0 0.95 0.05 0.00 Matches are distributed among these distances: 3 36 1.00 ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71 Consensus pattern (3 bp): TTC Found at i:85876249 original size:24 final size:24 Alignment explanation
Indices: 85876222--85876273 Score: 77 Period size: 24 Copynumber: 2.2 Consensus size: 24 85876212 TTAGTAAGTC * 85876222 AAATAAACTATACTAATAAATGCT 1 AAATAAACTATACTAATAAATACT * * 85876246 AAATATATTATACTAATAAATACT 1 AAATAAACTATACTAATAAATACT 85876270 AAAT 1 AAAT 85876274 CTTCTAGAAA Statistics Matches: 25, Mismatches: 3, Indels: 0 0.89 0.11 0.00 Matches are distributed among these distances: 24 25 1.00 ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33 Consensus pattern (24 bp): AAATAAACTATACTAATAAATACT Found at i:85886810 original size:47 final size:47 Alignment explanation
Indices: 85886751--85887385 Score: 1081 Period size: 47 Copynumber: 13.5 Consensus size: 47 85886741 ATTCAGCCAA * 85886751 GAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT 1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT 85886798 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT 1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT * * * 85886845 GAAAGTGTATATAAGTGATAAGGCCTAATAGTCGATGTGATGAATGT 1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT * 85886892 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT 1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT 85886939 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT 1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT 85886986 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT 1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT * * 85887033 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT 1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT * 85887080 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT 1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT 85887127 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT 1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT * 85887174 GAAAGTGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT 1 GAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT * 85887223 GAAAGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGT 1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT 85887270 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT 1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT * * * * * * * 85887317 GAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGT 1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT * * 85887364 GAAAGTGCATAAATGTGATAAG 1 GAAAGTGTATATATGTGATAAG 85887386 TCCCGAAGGG Statistics Matches: 560, Mismatches: 26, Indels: 4 0.95 0.04 0.01 Matches are distributed among these distances: 47 514 0.92 49 46 0.08 ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29 Consensus pattern (47 bp): GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT Found at i:85890149 original size:16 final size:16 Alignment explanation
Indices: 85890115--85890160 Score: 60 Period size: 16 Copynumber: 2.9 Consensus size: 16 85890105 AATATTATTT 85890115 ATTAAGTTAA-TTT-TA 1 ATTAA-TTAATTTTCTA 85890130 ATTAATTAATTTTCTA 1 ATTAATTAATTTTCTA * 85890146 ATTAAATAATTTTCT 1 ATTAATTAATTTTCT 85890161 TAACCCAATT Statistics Matches: 28, Mismatches: 1, Indels: 3 0.88 0.03 0.09 Matches are distributed among these distances: 14 4 0.14 15 8 0.29 16 16 0.57 ACGTcount: A:0.39, C:0.04, G:0.02, T:0.54 Consensus pattern (16 bp): ATTAATTAATTTTCTA Found at i:85891113 original size:20 final size:20 Alignment explanation
Indices: 85891021--85891115 Score: 93 Period size: 20 Copynumber: 4.7 Consensus size: 20 85891011 ACGACTGTTG * * 85891021 TGTTGAGCCATAAG-AACCTA 1 TGTTGAGCCAT-AGTAGCTTA ** * 85891041 TGTTGAGTTATAGTAGCTCTTG 1 TGTTGAGCCATAGTAG--CTTA ** 85891063 TGTTGAGCCGCAGTAGCTTA 1 TGTTGAGCCATAGTAGCTTA 85891083 TGTTGAGCCATAGTAGCTTA 1 TGTTGAGCCATAGTAGCTTA 85891103 TGTTGAGCCATAG 1 TGTTGAGCCATAG 85891116 CCTGAATATG Statistics Matches: 60, Mismatches: 12, Indels: 6 0.77 0.15 0.08 Matches are distributed among these distances: 19 2 0.03 20 44 0.73 22 14 0.23 ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34 Consensus pattern (20 bp): TGTTGAGCCATAGTAGCTTA Found at i:85896937 original size:38 final size:38 Alignment explanation
Indices: 85896895--85896971 Score: 145 Period size: 38 Copynumber: 2.0 Consensus size: 38 85896885 GAATCTTGAA * 85896895 TGTTGTTTTGCTAATACTACCCATTATTGCTACTAATT 1 TGTTGTTTTGCTAATACTACCCATTATTGCTACCAATT 85896933 TGTTGTTTTGCTAATACTACCCATTATTGCTACCAATT 1 TGTTGTTTTGCTAATACTACCCATTATTGCTACCAATT 85896971 T 1 T 85896972 CTTGCTTTCA Statistics Matches: 38, Mismatches: 1, Indels: 0 0.97 0.03 0.00 Matches are distributed among these distances: 38 38 1.00 ACGTcount: A:0.23, C:0.19, G:0.10, T:0.47 Consensus pattern (38 bp): TGTTGTTTTGCTAATACTACCCATTATTGCTACCAATT Found at i:85897927 original size:72 final size:72 Alignment explanation
Indices: 85897781--85898037 Score: 284 Period size: 72 Copynumber: 3.6 Consensus size: 72 85897771 ATCCAAGCCC * * * * * * 85897781 AAACTTTTCAACCAAGTGAGGACCTCTCTTATAGACATAGCCTCTACCAACCGTGGTTCCATTAA 1 AAACCTTTCAGCCAGGTGAGGGCCTCTCTTATAGACATAGCATCTGCCAACCGTGGTTCCATTAA * 85897846 TGGGAAG 66 TGGGGAG * * * * * * * 85897853 AAACCTTTTAGCTAGGTGCGGGCCTCTCTAATAGACATAGCTTCTGCCAGCCGTGGTTCCGTTAA 1 AAACCTTTCAGCCAGGTGAGGGCCTCTCTTATAGACATAGCATCTGCCAACCGTGGTTCCATTAA * 85897918 CGGGGAG 66 TGGGGAG * * * ** 85897925 AAACCTTTCATCCAGGTGAGGGCCTAT-TTGATAGACATAGCCATC-GCAAATTGTGGTTCCATT 1 AAACCTTTCAGCCAGGTGAGGGCCTCTCTT-ATAGACATAG-CATCTGCCAACCGTGGTTCCATT * 85897988 AATGAGGAG 64 AATGGGGAG * 85897997 AAACCTTTCAGCCAAGTGAGGGCCTCTCTTATAGACATAGC 1 AAACCTTTCAGCCAGGTGAGGGCCTCTCTTATAGACATAGC 85898038 CACCACCGAT Statistics Matches: 151, Mismatches: 31, Indels: 7 0.80 0.16 0.04 Matches are distributed among these distances: 71 2 0.01 72 144 0.95 73 5 0.03 ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26 Consensus pattern (72 bp): AAACCTTTCAGCCAGGTGAGGGCCTCTCTTATAGACATAGCATCTGCCAACCGTGGTTCCATTAA TGGGGAG Found at i:85898060 original size:72 final size:72 Alignment explanation
Indices: 85897781--85898072 Score: 264 Period size: 72 Copynumber: 4.1 Consensus size: 72 85897771 ATCCAAGCCC * * * * * 85897781 AAACTTTTCAACCAAGTGAGGACCTCTCTTATAGACATAGCCTCTACCAACCGTGGTTCCATTAA 1 AAACCTTTCAGCCAAGTGAGGGCCTCTCTTATAGACATAGCCACCACCAACCGTGGTTCCATTAA * 85897846 TG-GGAAG 66 CGAGG-AG * * * * * ** ** * * 85897853 AAACCTTTTAGCTAGGTGCGGGCCTCTCTAATAGACATAGCTTCTGCCAGCCGTGGTTCCGTTAA 1 AAACCTTTCAGCCAAGTGAGGGCCTCTCTTATAGACATAGCCACCACCAACCGTGGTTCCATTAA * 85897918 CGGGGAG 66 CGAGGAG * * * * * * ** 85897925 AAACCTTTCATCCAGGTGAGGGCCTAT-TTGATAGACATAGCCATCGCAAATTGTGGTTCCATTA 1 AAACCTTTCAGCCAAGTGAGGGCCTCTCTT-ATAGACATAGCCACCACCAACCGTGGTTCCATTA * 85897989 ATGAGGAG 65 ACGAGGAG * * * * 85897997 AAACCTTTCAGCCAAGTGAGGGCCTCTCTTATAGACATAGCCACCACCGATCGTGATTTCATTAA 1 AAACCTTTCAGCCAAGTGAGGGCCTCTCTTATAGACATAGCCACCACCAACCGTGGTTCCATTAA * 85898062 CGAGGAT 66 CGAGGAG 85898069 AAAC 1 AAAC 85898073 AATGTGTGAA Statistics Matches: 175, Mismatches: 42, Indels: 6 0.78 0.19 0.03 Matches are distributed among these distances: 71 1 0.01 72 170 0.97 73 4 0.02 ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26 Consensus pattern (72 bp): AAACCTTTCAGCCAAGTGAGGGCCTCTCTTATAGACATAGCCACCACCAACCGTGGTTCCATTAA CGAGGAG Found at i:85898618 original size:16 final size:16 Alignment explanation
Indices: 85898569--85898619 Score: 57 Period size: 16 Copynumber: 3.0 Consensus size: 16 85898559 TTTAATTTTG 85898569 TAGATAATAGAGTAAATT 1 TAGATAATA-A-TAAATT * * 85898587 TAAGAAAATTATAAATT 1 T-AGATAATAATAAATT 85898604 TAGATAATAATAAATT 1 TAGATAATAATAAATT 85898620 AAACCCTAAT Statistics Matches: 28, Mismatches: 4, Indels: 4 0.78 0.11 0.11 Matches are distributed among these distances: 16 13 0.46 17 7 0.25 18 2 0.07 19 6 0.21 ACGTcount: A:0.55, C:0.00, G:0.10, T:0.35 Consensus pattern (16 bp): TAGATAATAATAAATT Found at i:85901094 original size:2 final size:2 Alignment explanation
Indices: 85901087--85901111 Score: 50 Period size: 2 Copynumber: 12.5 Consensus size: 2 85901077 AGATGGTTGA 85901087 AT AT AT AT AT AT AT AT AT AT AT AT A 1 AT AT AT AT AT AT AT AT AT AT AT AT A 85901112 ATTTGTTTGG Statistics Matches: 23, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 2 23 1.00 ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48 Consensus pattern (2 bp): AT Found at i:85904836 original size:21 final size:21 Alignment explanation
Indices: 85904810--85904854 Score: 74 Period size: 21 Copynumber: 2.1 Consensus size: 21 85904800 TTTTCTCTTA 85904810 GGGTAGCTTCTT-AGTGAGTTG 1 GGGTAGCTTCTTGA-TGAGTTG 85904831 GGGTAGCTTCTTGATGAGTTG 1 GGGTAGCTTCTTGATGAGTTG 85904852 GGG 1 GGG 85904855 CAACCACTTG Statistics Matches: 23, Mismatches: 0, Indels: 2 0.92 0.00 0.08 Matches are distributed among these distances: 21 22 0.96 22 1 0.04 ACGTcount: A:0.13, C:0.09, G:0.42, T:0.36 Consensus pattern (21 bp): GGGTAGCTTCTTGATGAGTTG Found at i:85910254 original size:44 final size:44 Alignment explanation
Indices: 85910191--85910274 Score: 123 Period size: 44 Copynumber: 1.9 Consensus size: 44 85910181 TAATAAGCAA * ** 85910191 ACACTTTAAAACAAACAAATCTATTTCTGTCATGCACATGTCAT 1 ACACTTTAAAACAAACAAATCCATTTCTACCATGCACATGTCAT * * 85910235 ACACTTTAATACAATCAAATCCATTTCTACCATGCACATG 1 ACACTTTAAAACAAACAAATCCATTTCTACCATGCACATG 85910275 GCAAACAATA Statistics Matches: 35, Mismatches: 5, Indels: 0 0.88 0.12 0.00 Matches are distributed among these distances: 44 35 1.00 ACGTcount: A:0.38, C:0.25, G:0.06, T:0.31 Consensus pattern (44 bp): ACACTTTAAAACAAACAAATCCATTTCTACCATGCACATGTCAT Found at i:85910623 original size:199 final size:199 Alignment explanation
Indices: 85910276--85910654 Score: 485 Period size: 199 Copynumber: 1.9 Consensus size: 199 85910266 ATGCACATGG * * * 85910276 CAAACAATAATCATATTTGAATTAGCATTTAAAAAATATGTTTCACAACTAGGAACTGATTTGTC 1 CAAACAATAATCATATTTGAATCAACATTTAAAAAATATGTTTCACAACTAGGAACTGATTTATC * ** * * 85910341 ATATTTAAATCCAAATAAGCTTAATATTGTTGGTCATACAAATAGGAACTGATTTATCTCTTTCC 66 ATATTTAAATCCAAAGAAGCTTAATATTAATAGTCATAAAAATAGGAACTGATTTATCTCTTTCC * * * 85910406 TAAAGATATCTATATGCACATGGCAAACAATATCTTTATAAA-AATCCAAATCTATCATACACTT 131 TAAAGATATATATATGCACATAGCAAACAATAACTTTA-AAAGAATCCAAATCTATCATACACTT 85910470 TGATA 195 TGATA * * * * * 85910475 CAAATAATAATCATATTTGAATCAACATTTAAAAAATGT-TCTTGACAATTAGGAACTTATTTAT 1 CAAACAATAATCATATTTGAATCAACATTTAAAAAATATGT-TTCACAACTAGGAACTGATTTAT * * * * * * 85910539 CATATTTGAA-CTTAAAGAAGCTTGATATTAATAGTCATAAAAATATGAATTGATTTGTCTCTTT 65 CATATTTAAATC-CAAAGAAGCTTAATATTAATAGTCATAAAAATAGGAACTGATTTATCTCTTT * * * 85910603 CTTAAAGCTATATGTATGCACATAGCAAACAATAACTTTAAAAGAATCCAAA 129 CCTAAAGATATATATATGCACATAGCAAACAATAACTTTAAAAGAATCCAAA 85910655 CCCGCCATAC Statistics Matches: 152, Mismatches: 25, Indels: 6 0.83 0.14 0.03 Matches are distributed among these distances: 198 5 0.03 199 147 0.97 ACGTcount: A:0.41, C:0.14, G:0.10, T:0.35 Consensus pattern (199 bp): CAAACAATAATCATATTTGAATCAACATTTAAAAAATATGTTTCACAACTAGGAACTGATTTATC ATATTTAAATCCAAAGAAGCTTAATATTAATAGTCATAAAAATAGGAACTGATTTATCTCTTTCC TAAAGATATATATATGCACATAGCAAACAATAACTTTAAAAGAATCCAAATCTATCATACACTTT GATA Found at i:85910682 original size:34 final size:35 Alignment explanation
Indices: 85910643--85910708 Score: 107 Period size: 35 Copynumber: 1.9 Consensus size: 35 85910633 AATAACTTTA * 85910643 AAAG-AATCCAAACCCGCCATACACTTTAATAACC 1 AAAGAAATCAAAACCCGCCATACACTTTAATAACC * 85910677 AAAGAAATCAAAATCCGCCATACACTTTAATA 1 AAAGAAATCAAAACCCGCCATACACTTTAATA 85910709 CAAATAATAA Statistics Matches: 29, Mismatches: 2, Indels: 1 0.91 0.06 0.03 Matches are distributed among these distances: 34 4 0.14 35 25 0.86 ACGTcount: A:0.47, C:0.27, G:0.06, T:0.20 Consensus pattern (35 bp): AAAGAAATCAAAACCCGCCATACACTTTAATAACC Found at i:85910823 original size:26 final size:25 Alignment explanation
Indices: 85910774--85910822 Score: 98 Period size: 25 Copynumber: 2.0 Consensus size: 25 85910764 AAAGAAATCC 85910774 AAAAAACCCTAAACTCAAATCCCCA 1 AAAAAACCCTAAACTCAAATCCCCA 85910799 AAAAAACCCTAAACTCAAATCCCC 1 AAAAAACCCTAAACTCAAATCCCC 85910823 CTAAGTCCAA Statistics Matches: 24, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 25 24 1.00 ACGTcount: A:0.51, C:0.37, G:0.00, T:0.12 Consensus pattern (25 bp): AAAAAACCCTAAACTCAAATCCCCA Found at i:85911096 original size:30 final size:30 Alignment explanation
Indices: 85911060--85911148 Score: 90 Period size: 31 Copynumber: 2.9 Consensus size: 30 85911050 CCCTAAAATA * 85911060 TTAATCCTAATCAATTTTCTTTTCTTCTCC 1 TTAATCCCAATCAATTTTCTTTTCTTCTCC ** * 85911090 TTAATCCCAATTGATCCTTTCTTTT-TTTTCC 1 TTAATCCCAATCAAT--TTTCTTTTCTTCTCC * 85911121 TTAATCCCAATCCATCTTTTCTTTTCTT 1 TTAATCCCAAT-CA-ATTTTCTTTTCTT 85911149 TTCCCTAAAC Statistics Matches: 47, Mismatches: 7, Indels: 8 0.76 0.11 0.13 Matches are distributed among these distances: 30 12 0.26 31 24 0.51 32 10 0.21 33 1 0.02 ACGTcount: A:0.18, C:0.27, G:0.01, T:0.54 Consensus pattern (30 bp): TTAATCCCAATCAATTTTCTTTTCTTCTCC Found at i:85911125 original size:31 final size:32 Alignment explanation
Indices: 85911075--85911152 Score: 113 Period size: 31 Copynumber: 2.5 Consensus size: 32 85911065 CCTAATCAAT * ** 85911075 TTTCTTTTCTTCTCCTTAATCCCAATTGATCC 1 TTTCTTTTCTTTTCCTTAATCCCAATCCATCC * 85911107 TTTCTTTT-TTTTCCTTAATCCCAATCCATCT 1 TTTCTTTTCTTTTCCTTAATCCCAATCCATCC 85911138 TTTCTTTTCTTTTCC 1 TTTCTTTTCTTTTCC 85911153 CTAAACTTGT Statistics Matches: 41, Mismatches: 4, Indels: 2 0.87 0.09 0.04 Matches are distributed among these distances: 31 27 0.66 32 14 0.34 ACGTcount: A:0.13, C:0.29, G:0.01, T:0.56 Consensus pattern (32 bp): TTTCTTTTCTTTTCCTTAATCCCAATCCATCC Found at i:85911756 original size:27 final size:27 Alignment explanation
Indices: 85911726--85911781 Score: 103 Period size: 27 Copynumber: 2.1 Consensus size: 27 85911716 CTATGCTTGA * 85911726 ATTATTTATTCACATCAAAATTTATAT 1 ATTATTTATTCACAACAAAATTTATAT 85911753 ATTATTTATTCACAACAAAATTTATAT 1 ATTATTTATTCACAACAAAATTTATAT 85911780 AT 1 AT 85911782 AGCCAAGTGT Statistics Matches: 28, Mismatches: 1, Indels: 0 0.97 0.03 0.00 Matches are distributed among these distances: 27 28 1.00 ACGTcount: A:0.43, C:0.11, G:0.00, T:0.46 Consensus pattern (27 bp): ATTATTTATTCACAACAAAATTTATAT Found at i:85917099 original size:12 final size:12 Alignment explanation
Indices: 85917082--85917114 Score: 52 Period size: 11 Copynumber: 2.9 Consensus size: 12 85917072 AAATTCACCC 85917082 ATATTAATTTTT 1 ATATTAATTTTT 85917094 ATATT-ATTTTT 1 ATATTAATTTTT 85917105 ATA-TAATTTT 1 ATATTAATTTT 85917115 AAAATATATA Statistics Matches: 20, Mismatches: 0, Indels: 3 0.87 0.00 0.13 Matches are distributed among these distances: 10 1 0.05 11 14 0.70 12 5 0.25 ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67 Consensus pattern (12 bp): ATATTAATTTTT Found at i:85917338 original size:22 final size:22 Alignment explanation
Indices: 85917290--85917338 Score: 62 Period size: 22 Copynumber: 2.2 Consensus size: 22 85917280 ATATCCAAAT * 85917290 AATAACAACAAAATAGTAGTAA 1 AATAACAACAAAATAGTAGCAA * * * 85917312 CATAATAATAAAATAGTAGCAA 1 AATAACAACAAAATAGTAGCAA 85917334 AATAA 1 AATAA 85917339 GGAGAAAACA Statistics Matches: 22, Mismatches: 5, Indels: 0 0.81 0.19 0.00 Matches are distributed among these distances: 22 22 1.00 ACGTcount: A:0.63, C:0.08, G:0.08, T:0.20 Consensus pattern (22 bp): AATAACAACAAAATAGTAGCAA Found at i:85917666 original size:31 final size:33 Alignment explanation
Indices: 85917631--85917691 Score: 83 Period size: 31 Copynumber: 1.9 Consensus size: 33 85917621 TTCTAAAAAA 85917631 TTCAAACAAAT-TATAA-A-TATACATAAATATT 1 TTCAAA-AAATATATAATACTATACATAAATATT * 85917662 TTCAAAAAATATATAATACTATATATAAAT 1 TTCAAAAAATATATAATACTATACATAAAT 85917692 TACATCGTAT Statistics Matches: 26, Mismatches: 1, Indels: 4 0.84 0.03 0.13 Matches are distributed among these distances: 30 4 0.15 31 11 0.42 32 1 0.04 33 10 0.38 ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36 Consensus pattern (33 bp): TTCAAAAAATATATAATACTATACATAAATATT Found at i:85920399 original size:25 final size:25 Alignment explanation
Indices: 85920352--85920399 Score: 60 Period size: 25 Copynumber: 1.9 Consensus size: 25 85920342 TACACTAATC * * * 85920352 AGAGTTTAAGTGGAAAACTAAAAAT 1 AGAGTTTAACTAGAAAACAAAAAAT * 85920377 AGAGTTTAACTAGAAAAGAAAAA 1 AGAGTTTAACTAGAAAACAAAAA 85920400 GCTGAAAGAA Statistics Matches: 19, Mismatches: 4, Indels: 0 0.83 0.17 0.00 Matches are distributed among these distances: 25 19 1.00 ACGTcount: A:0.56, C:0.04, G:0.19, T:0.21 Consensus pattern (25 bp): AGAGTTTAACTAGAAAACAAAAAAT Found at i:85922201 original size:21 final size:21 Alignment explanation
Indices: 85922177--85922245 Score: 59 Period size: 21 Copynumber: 3.1 Consensus size: 21 85922167 TGCTAGTACA 85922177 GTGTGGATAAATCACTCATTG 1 GTGTGGATAAATCACTCATTG * ** 85922198 GTGTAGATAAAAGTTGCT-AGTATG 1 GTGTGGAT-AAA-TCACTCA-T-TG * 85922222 GTGTGGATAAACCACTCATTG 1 GTGTGGATAAATCACTCATTG 85922243 GTG 1 GTG 85922246 CAGATAAAAG Statistics Matches: 36, Mismatches: 7, Indels: 10 0.68 0.13 0.19 Matches are distributed among these distances: 21 12 0.33 22 7 0.19 23 8 0.22 24 9 0.25 ACGTcount: A:0.29, C:0.12, G:0.28, T:0.32 Consensus pattern (21 bp): GTGTGGATAAATCACTCATTG Found at i:85922230 original size:45 final size:45 Alignment explanation
Indices: 85922166--85922329 Score: 195 Period size: 45 Copynumber: 3.6 Consensus size: 45 85922156 TGCAGACAAA ** * 85922166 TTGCTAGTACAGTGTGGATAAATCACTCATTGGTGTAGATAAAAG 1 TTGCTAGTATGGTGTGGATAAACCACTCATTGGTGTAGATAAAAG * 85922211 TTGCTAGTATGGTGTGGATAAACCACTCATTGGTGCAGATAAAAG 1 TTGCTAGTATGGTGTGGATAAACCACTCATTGGTGTAGATAAAAG * * * * * ** 85922256 TTGTTAATATGGTATGGATAAACTACTTATCAGTGTAGATAAAAG 1 TTGCTAGTATGGTGTGGATAAACCACTCATTGGTGTAGATAAAAG * * 85922301 ATGCT-GATATGATGTGGATAAACCACTCA 1 TTGCTAG-TATGGTGTGGATAAACCACTCA 85922330 ACAGTGCAAA Statistics Matches: 99, Mismatches: 19, Indels: 2 0.82 0.16 0.02 Matches are distributed among these distances: 45 99 1.00 ACGTcount: A:0.34, C:0.12, G:0.23, T:0.31 Consensus pattern (45 bp): TTGCTAGTATGGTGTGGATAAACCACTCATTGGTGTAGATAAAAG Found at i:85922445 original size:34 final size:34 Alignment explanation
Indices: 85922394--85922538 Score: 145 Period size: 34 Copynumber: 4.3 Consensus size: 34 85922384 AATGGAAAAT * * 85922394 GTCATGCTTATAGCAGATCAATATGATAGCAATA 1 GTCATGCTTATAACAGATCAATATAATAGCAATA * * * * 85922428 TTCATGCTTACAACAGATCAATACAGTAGCAATA 1 GTCATGCTTATAACAGATCAATATAATAGCAATA * * * 85922462 GGCATGCTTATAACATATCAATATAATAACAATA 1 GTCATGCTTATAACAGATCAATATAATAGCAATA * 85922496 GACATGCTTATAACA-A--AATAGTACAGTAGCAA-A 1 GTCATGCTTATAACAGATCAATA-TA-A-TAGCAATA 85922529 GTCATGCTTA 1 GTCATGCTTA 85922539 ACATGTATTC Statistics Matches: 92, Mismatches: 16, Indels: 7 0.80 0.14 0.06 Matches are distributed among these distances: 31 4 0.04 32 2 0.02 33 12 0.13 34 74 0.80 ACGTcount: A:0.42, C:0.17, G:0.14, T:0.28 Consensus pattern (34 bp): GTCATGCTTATAACAGATCAATATAATAGCAATA Found at i:85922505 original size:68 final size:67 Alignment explanation
Indices: 85922396--85922538 Score: 171 Period size: 68 Copynumber: 2.1 Consensus size: 67 85922386 TGGAAAATGT * * * ** * 85922396 CATGCTTATAGCAGATCAATATGATAGCAATATTCATGCTTACAAC-AGATCAATACAGTAGCAA 1 CATGCTTATAACAGATCAATATAATAACAATAGACATGCTTACAACAAAAT-AATACAGTAGCAA 85922460 TAGG 65 -AGG * * * 85922464 CATGCTTATAACATATCAATATAATAACAATAGACATGCTTATAACAAAATAGTACAGTAGCAAA 1 CATGCTTATAACAGATCAATATAATAACAATAGACATGCTTACAACAAAATAATACAGTAGCAAA * 85922529 GT 66 GG 85922531 CATGCTTA 1 CATGCTTA 85922539 ACATGTATTC Statistics Matches: 64, Mismatches: 10, Indels: 3 0.83 0.13 0.04 Matches are distributed among these distances: 67 10 0.16 68 51 0.80 69 3 0.05 ACGTcount: A:0.43, C:0.17, G:0.13, T:0.27 Consensus pattern (67 bp): CATGCTTATAACAGATCAATATAATAACAATAGACATGCTTACAACAAAATAATACAGTAGCAAA GG Found at i:85925035 original size:19 final size:20 Alignment explanation
Indices: 85925013--85925052 Score: 55 Period size: 20 Copynumber: 2.0 Consensus size: 20 85925003 TAAATTAACC 85925013 AATAT-TTTATAAAAATTAA 1 AATATATTTATAAAAATTAA * * 85925032 AATATATTTGTAATAATTAA 1 AATATATTTATAAAAATTAA 85925052 A 1 A 85925053 TTTTATTATT Statistics Matches: 18, Mismatches: 2, Indels: 1 0.86 0.10 0.05 Matches are distributed among these distances: 19 5 0.28 20 13 0.72 ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42 Consensus pattern (20 bp): AATATATTTATAAAAATTAA Found at i:85936403 original size:25 final size:27 Alignment explanation
Indices: 85936375--85936424 Score: 86 Period size: 25 Copynumber: 1.9 Consensus size: 27 85936365 AGATCAATAA 85936375 ACAAATAATTAAA-TAAAA-TCTAACC 1 ACAAATAATTAAATTAAAAGTCTAACC 85936400 ACAAATAATTAAATTAAAAGTCTAA 1 ACAAATAATTAAATTAAAAGTCTAA 85936425 TTATAAAAAT Statistics Matches: 23, Mismatches: 0, Indels: 2 0.92 0.00 0.08 Matches are distributed among these distances: 25 13 0.57 26 5 0.22 27 5 0.22 ACGTcount: A:0.60, C:0.12, G:0.02, T:0.26 Consensus pattern (27 bp): ACAAATAATTAAATTAAAAGTCTAACC Found at i:85937321 original size:22 final size:22 Alignment explanation
Indices: 85937296--85937337 Score: 59 Period size: 22 Copynumber: 1.9 Consensus size: 22 85937286 TTAAAAGATA 85937296 TTTTA-ATAATTAAATTTAATGT 1 TTTTACAT-ATTAAATTTAATGT * 85937318 TTTTACATTTTAAATTTAAT 1 TTTTACATATTAAATTTAAT 85937338 CTTAATTTTT Statistics Matches: 18, Mismatches: 1, Indels: 2 0.86 0.05 0.10 Matches are distributed among these distances: 22 16 0.89 23 2 0.11 ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57 Consensus pattern (22 bp): TTTTACATATTAAATTTAATGT Found at i:85939463 original size:31 final size:32 Alignment explanation
Indices: 85939401--85939463 Score: 74 Period size: 31 Copynumber: 2.0 Consensus size: 32 85939391 AACTTAATTA * ** * 85939401 CCATATGGCACATTAGTGATTGGTTTGATGTG 1 CCATATGGCACAATAGTGATTGGCGTCATGTG * 85939433 CCATGTGGCACAATA-TGATTGGCGTCATGTG 1 CCATATGGCACAATAGTGATTGGCGTCATGTG 85939464 ACAACTGGGT Statistics Matches: 26, Mismatches: 5, Indels: 1 0.81 0.16 0.03 Matches are distributed among these distances: 31 13 0.50 32 13 0.50 ACGTcount: A:0.22, C:0.16, G:0.29, T:0.33 Consensus pattern (32 bp): CCATATGGCACAATAGTGATTGGCGTCATGTG Found at i:85939903 original size:55 final size:56 Alignment explanation
Indices: 85939834--85939968 Score: 150 Period size: 58 Copynumber: 2.4 Consensus size: 56 85939824 TATATTAGTA * * * * * * 85939834 GTCACCTAATTATTAGTAATTTTTTTGGTCACTCAATTATAAAAA-TTATAAAATT 1 GTCACTTAACTATTAGTAATTTTTTTGGTCACCCAACTATAAAAAGTTACAAAATG * 85939889 GTCACTTAACTATTAGTAAATTTTTTTTTTGTCACCCAACTATAAAAAGTTACAAAATG 1 GTCACTTAACTATTAGT-AA--TTTTTTTGGTCACCCAACTATAAAAAGTTACAAAATG * 85939948 GTCATTTAACTATT--TAATTTT 1 GTCACTTAACTATTAGTAATTTT 85939969 GTCTTTTTTT Statistics Matches: 68, Mismatches: 8, Indels: 9 0.80 0.09 0.11 Matches are distributed among these distances: 54 4 0.06 55 15 0.22 56 4 0.06 57 1 0.01 58 23 0.34 59 21 0.31 ACGTcount: A:0.36, C:0.13, G:0.07, T:0.44 Consensus pattern (56 bp): GTCACTTAACTATTAGTAATTTTTTTGGTCACCCAACTATAAAAAGTTACAAAATG Found at i:85939977 original size:59 final size:58 Alignment explanation
Indices: 85939853--85939968 Score: 148 Period size: 59 Copynumber: 2.0 Consensus size: 58 85939843 TTATTAGTAA * * * * 85939853 TTTTTTTGGTCACTCAATTATAAAAATTATAAAATTGTCACTTAACTATTAGTAAATTT 1 TTTTTTTGGTCACCCAACTATAAAAATTACAAAATGGTCACTTAACTATTA-TAAATTT * 85939912 TTTTTTT-GTCACCCAACTATAAAAAGTTACAAAATGGTCATTTAACTATT-T-AATTT 1 TTTTTTTGGTCACCCAACTATAAAAA-TTACAAAATGGTCACTTAACTATTATAAATTT 85939968 T 1 T 85939969 GTCTTTTTTT Statistics Matches: 51, Mismatches: 5, Indels: 5 0.84 0.08 0.08 Matches are distributed among these distances: 56 6 0.12 57 1 0.02 58 16 0.31 59 28 0.55 ACGTcount: A:0.36, C:0.12, G:0.07, T:0.45 Consensus pattern (58 bp): TTTTTTTGGTCACCCAACTATAAAAATTACAAAATGGTCACTTAACTATTATAAATTT Found at i:85947414 original size:22 final size:23 Alignment explanation
Indices: 85947389--85947440 Score: 56 Period size: 22 Copynumber: 2.3 Consensus size: 23 85947379 TGTAGAACTC 85947389 AATAGAA-GTGGTTAAATGTA-AA 1 AATAGAATGTGGTT-AATGTACAA * 85947411 AATA-AATGTTGTTAATGTACAA 1 AATAGAATGTGGTTAATGTACAA 85947433 AATTAGAA 1 AA-TAGAA 85947441 CTGAGAAAGT Statistics Matches: 25, Mismatches: 1, Indels: 6 0.78 0.03 0.19 Matches are distributed among these distances: 21 8 0.32 22 13 0.52 23 2 0.08 24 2 0.08 ACGTcount: A:0.50, C:0.02, G:0.17, T:0.31 Consensus pattern (23 bp): AATAGAATGTGGTTAATGTACAA Found at i:85948420 original size:30 final size:30 Alignment explanation
Indices: 85948386--85948446 Score: 122 Period size: 30 Copynumber: 2.0 Consensus size: 30 85948376 AAGAATAGTG 85948386 TGTATTTGCTATTAAGCGGTATAGCATGAA 1 TGTATTTGCTATTAAGCGGTATAGCATGAA 85948416 TGTATTTGCTATTAAGCGGTATAGCATGAA 1 TGTATTTGCTATTAAGCGGTATAGCATGAA 85948446 T 1 T 85948447 ATATCAGTGG Statistics Matches: 31, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 30 31 1.00 ACGTcount: A:0.30, C:0.10, G:0.23, T:0.38 Consensus pattern (30 bp): TGTATTTGCTATTAAGCGGTATAGCATGAA Found at i:85948662 original size:35 final size:35 Alignment explanation
Indices: 85948616--85948685 Score: 131 Period size: 35 Copynumber: 2.0 Consensus size: 35 85948606 TCAATACGTA * 85948616 TGACTGAAGACCATGGAAACCTTGATTCTAAAACT 1 TGACTGAAGACCATGAAAACCTTGATTCTAAAACT 85948651 TGACTGAAGACCATGAAAACCTTGATTCTAAAACT 1 TGACTGAAGACCATGAAAACCTTGATTCTAAAACT 85948686 ATCTGTATGT Statistics Matches: 34, Mismatches: 1, Indels: 0 0.97 0.03 0.00 Matches are distributed among these distances: 35 34 1.00 ACGTcount: A:0.39, C:0.20, G:0.16, T:0.26 Consensus pattern (35 bp): TGACTGAAGACCATGAAAACCTTGATTCTAAAACT Found at i:85953097 original size:146 final size:145 Alignment explanation
Indices: 85952935--85954072 Score: 1485 Period size: 145 Copynumber: 7.9 Consensus size: 145 85952925 TATTTTGGTA * 85952935 TTTATTTTATTTTCGGATTTTATTTTTTAAAATATATTATTTTCGTATTTTA-TTTTTATATTAT 1 TTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT * 85952999 TTTAGTACATAATGTTTCAAATGTATTATTTTTGTATTTTTTATATTAATTTAATAAAAATTTGA 66 TTTAGTACATAATGTTTCAAATGTATTATTTTAGT-TTTTTTATATTAATTTAATAAAAATTTGA * 85953064 TTTTGACCGTTTATTTT 130 TTTTGGCCGTTT-TTTT * * * * 85953081 TTTATTTTATTCTCGGATTTTACTTTTTAAAATAAACTATTTTCATATTTTATTTTTTATATTAT 1 TTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT * * 85953146 TTTAGTACATAATGTTCCAAATGTATTATTTTAG-TTTTTTATATTAATTTAATAAAAACTCTGA 66 TTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAATAAAAA-TTTGA * * 85953210 TTTTTGCCGTTTATTT 130 TTTTGGCCGTTTTTTT * * 85953226 TTTATTTTATTTTTGGATTTTATTTTTTTAAAATATACTATTTTCTTATTTTATGTTTTTTATAT 1 TTTATTTTATTTTCGGATTTTA-TTTTTTAAAATATACTATTTTCGTATTTTA--TTTTTTATAT * * * * * 85953291 TATTTTAGTACATAATATTTAAAATGTATTATTTTAGTTTTTTTATATGAATATAGAAAAAAGAC 63 TATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTA-ATAAAA-A- * * * 85953356 TCTGATTTTGGCC--CTTCTT 125 TTTGATTTTGGCCGTTTTTTT * * 85953375 ATT-TTTTATTTTCGAATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT 1 TTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT * * * * 85953439 TATAGTACATAATGTTTC--ATTTATTGTTTTAGTTTTTTTTATATTAATTTAGTAAAAATCTGT 66 TTTAGTACATAATGTTTCAAATGTATTATTTTAG-TTTTTTTATATTAATTTAATAAAAAT-T-T * 85953502 GATTTTGGCCG--TTTTA 128 GATTTTGGCCGTTTTTTT * 85953518 TTTATTTTGTTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT 1 TTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT * * * * 85953583 TTTAGTATATAATGTTTCAAATGTATTATTTTAATTTTTTTATATTTATTTAGA-AAAAACTCTG 66 TTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTA-ATAAAAA-TTTG 85953647 ATTTTGGCC--TTTTTT 129 ATTTTGGCCGTTTTTTT * * * * 85953662 ATT-TTTT-TTTTCAGG-TTTTATTTTTTAAGATATATTATTTTTGTATTTTATTTTTTTATATT 1 TTTATTTTATTTTC-GGATTTTATTTTTTAAAATATACTATTTTCGTATTTTA-TTTTTTATATT * 85953724 ATTTTAGTACATAATGTTTC--ATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAATCTA 64 ATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAATAAAAAT-T- * 85953787 TGGTTTTGGCC---TTTTT 127 TGATTTTGGCCGTTTTTTT * * 85953803 TTTATTTTGTTTTCGGATTTT-TTATTTTAAAATATACTATTTTTGTATTTTATTTTTTTATATT 1 TTTATTTTATTTTCGGATTTTATT-TTTTAAAATATACTATTTTCGTATTTTA-TTTTTTATATT * 85953867 ATTTTAGTACATAATGTTTCAAATGTATTATTTTAG-TTTTTTATATTAATTTAGTAAAAAATTC 64 ATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAAT-AAAAATT- * 85953931 TGATTTTGGCCGTTTATTT 127 TGATTTTGGCCGTTTTTTT * 85953950 TTTATTTTATTTTCGGATTTTATTTTTCAAAATATACTATTTTCGTATTTTATTTTTT-TATTAT 1 TTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT * * * * 85954014 TTTAGTACATAATGTTTCATATGTATTATTTTAGTATATTTATATTAATTTAGTAAAAA 66 TTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAATAAAAA 85954073 AACTCTGATT Statistics Matches: 881, Mismatches: 76, Indels: 71 0.86 0.07 0.07 Matches are distributed among these distances: 140 1 0.00 141 43 0.05 142 56 0.06 143 135 0.15 144 138 0.16 145 161 0.18 146 123 0.14 147 123 0.14 148 62 0.07 149 20 0.02 150 5 0.01 151 14 0.02 ACGTcount: A:0.27, C:0.05, G:0.08, T:0.59 Consensus pattern (145 bp): TTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT TTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAATAAAAATTTGAT TTTGGCCGTTTTTTT Found at i:85953542 original size:144 final size:144 Alignment explanation
Indices: 85952935--85954101 Score: 1562 Period size: 144 Copynumber: 8.1 Consensus size: 144 85952925 TATTTTGGTA * 85952935 TTTATTTTATTTTCGGATTTTATTTTTTAAAATATATTATTTTCGTATTTTA-TTTTTATATTAT 1 TTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT * * 85952999 TTTAGTACATAATGTTTCAAATGTATTATTTTTGTATTTTTTATATTAATTTAATAAAAAT-T-T 66 TTTAGTACATAATGTTTC-AATGTATTATTTTAGT-TTTTTTATATTAATTTAGTAAAAATCTCT * 85953062 GATTTTGACCGTTTATTTT 129 GATTTTGGCCG--T-TTTT * * * * 85953081 TTTATTTTATTCTCGGATTTTACTTTTTAAAATAAACTATTTTCATATTTTATTTTTTATATTAT 1 TTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT * * 85953146 TTTAGTACATAATGTTCCAAATGTATTATTTTAG-TTTTTTATATTAATTTAATAAAAA-CTCTG 66 TTTAGTACATAATGTTTC-AATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAATCTCTG * 85953209 ATTTTTGCCGTTTATTT 130 ATTTTGGCCG-TT-TTT * * 85953226 TTTATTTTATTTTTGGATTTTATTTTTTTAAAATATACTATTTTCTTATTTTATGTTTTTTATAT 1 TTTATTTTATTTTCGGATTTTA-TTTTTTAAAATATACTATTTTCGTATTTTA--TTTTTTATAT * * * * * * 85953291 TATTTTAGTACATAATATTTAAAATGTATTATTTTAGTTTTTTTATATGAATATAGAAAAAAGAC 63 TATTTTAGTACATAATGTTT-CAATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAA-TC * * 85953356 TCTGATTTTGGCCCTTCTT 126 TCTGATTTTGGCCGTTTTT * * 85953375 ATT-TTTTATTTTCGAATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT 1 TTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT * * * * 85953439 TATAGTACATAATGTTTC-ATTTATTGTTTTAGTTTTTTTTATATTAATTTAGTAAAAATCTGTG 66 TTTAGTACATAATGTTTCAATGTATTATTTTAG-TTTTTTTATATTAATTTAGTAAAAATCTCTG * 85953503 ATTTTGGCCGTTTTA 130 ATTTTGGCCGTTTTT * 85953518 TTTATTTTGTTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT 1 TTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT * * * * 85953583 TTTAGTATATAATGTTTCAAATGTATTATTTTAATTTTTTTATATTTATTTAG-AAAAAACTCTG 66 TTTAGTACATAATGTTTC-AATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAATCTCTG 85953647 ATTTTGGCC-TTTTT 130 ATTTTGGCCGTTTTT * * * 85953661 TATT-TTTT-TTTTCAGG-TTTTATTTTTTAAGATATATTATTTTTGTATTTTATTTTTTTATAT 1 T-TTATTTTATTTTC-GGATTTTATTTTTTAAAATATACTATTTTCGTATTTTA-TTTTTTATAT * 85953723 TATTTTAGTACATAATGTTTC-ATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAATCTA 63 TATTTTAGTACATAATGTTTCAATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAATCTC * 85953787 TGGTTTTGGCC-TTTTT 128 TGATTTTGGCCGTTTTT * * 85953803 TTTATTTTGTTTTCGGATTTT-TTATTTTAAAATATACTATTTTTGTATTTTATTTTTTTATATT 1 TTTATTTTATTTTCGGATTTTATT-TTTTAAAATATACTATTTTCGTATTTTA-TTTTTTATATT 85953867 ATTTTAGTACATAATGTTTCAAATGTATTATTTTAG-TTTTTTATATTAATTTAGTAAAAAAT-T 64 ATTTTAGTACATAATGTTTC-AATGTATTATTTTAGTTTTTTTATATTAATTTAGT-AAAAATCT 85953930 CTGATTTTGGCCGTTTATTT 127 CTGATTTTGGCCG-TT-TTT * 85953950 TTTATTTTATTTTCGGATTTTATTTTTCAAAATATACTATTTTCGTATTTTATTTTTT-TATTAT 1 TTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT * * * 85954014 TTTAGTACATAATGTTTCATATGTATTATTTTAGTATATTTATATTAATTTAGTAAAAAAACTCT 66 TTTAGTACATAATGTTTCA-ATGTATTATTTTAGTTTTTTTATATTAATTTAGT-AAAAATCTCT * 85954079 GATTTTGACC-TTTTT 129 GATTTTGGCCGTTTTT 85954094 TTTATTTT 1 TTTATTTT 85954102 CGAATTTCTT Statistics Matches: 915, Mismatches: 73, Indels: 68 0.87 0.07 0.06 Matches are distributed among these distances: 141 33 0.04 142 68 0.07 143 138 0.15 144 160 0.17 145 156 0.17 146 126 0.14 147 134 0.15 148 61 0.07 149 24 0.03 150 2 0.00 151 13 0.01 ACGTcount: A:0.27, C:0.06, G:0.08, T:0.59 Consensus pattern (144 bp): TTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT TTTAGTACATAATGTTTCAATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAATCTCTGA TTTTGGCCGTTTTT Found at i:85953714 original size:13 final size:13 Alignment explanation
Indices: 85953692--85953728 Score: 56 Period size: 13 Copynumber: 2.8 Consensus size: 13 85953682 TTTTTTAAGA 85953692 TATATTATTTTTG 1 TATATTATTTTTG * * 85953705 TATTTTATTTTTT 1 TATATTATTTTTG 85953718 TATATTATTTT 1 TATATTATTTT 85953729 AGTACATAAT Statistics Matches: 21, Mismatches: 3, Indels: 0 0.88 0.12 0.00 Matches are distributed among these distances: 13 21 1.00 ACGTcount: A:0.22, C:0.00, G:0.03, T:0.76 Consensus pattern (13 bp): TATATTATTTTTG Found at i:85954604 original size:12 final size:12 Alignment explanation
Indices: 85954589--85954622 Score: 59 Period size: 12 Copynumber: 2.8 Consensus size: 12 85954579 CTTCTTCTCC 85954589 TTCTCTTTTTCT 1 TTCTCTTTTTCT 85954601 TTCTCTTTTTCT 1 TTCTCTTTTTCT * 85954613 TTTTCTTTTT 1 TTCTCTTTTT 85954623 TCTTCCCTCA Statistics Matches: 21, Mismatches: 1, Indels: 0 0.95 0.05 0.00 Matches are distributed among these distances: 12 21 1.00 ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79 Consensus pattern (12 bp): TTCTCTTTTTCT Found at i:85954604 original size:18 final size:18 Alignment explanation
Indices: 85954583--85954620 Score: 58 Period size: 18 Copynumber: 2.1 Consensus size: 18 85954573 CTTCTTCTTC 85954583 TTCTCCTTCTCTTTTTCT 1 TTCTCCTTCTCTTTTTCT * * 85954601 TTCTCTTTTTCTTTTTCT 1 TTCTCCTTCTCTTTTTCT 85954619 TT 1 TT 85954621 TTTCTTCCCT Statistics Matches: 18, Mismatches: 2, Indels: 0 0.90 0.10 0.00 Matches are distributed among these distances: 18 18 1.00 ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74 Consensus pattern (18 bp): TTCTCCTTCTCTTTTTCT Found at i:85954859 original size:27 final size:27 Alignment explanation
Indices: 85954821--85954873 Score: 106 Period size: 27 Copynumber: 2.0 Consensus size: 27 85954811 AGGAGTCAGC 85954821 GGTGCCGCCTGTGGGGTACCCTCCACT 1 GGTGCCGCCTGTGGGGTACCCTCCACT 85954848 GGTGCCGCCTGTGGGGTACCCTCCAC 1 GGTGCCGCCTGTGGGGTACCCTCCAC 85954874 CCATATTTTA Statistics Matches: 26, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 27 26 1.00 ACGTcount: A:0.08, C:0.38, G:0.34, T:0.21 Consensus pattern (27 bp): GGTGCCGCCTGTGGGGTACCCTCCACT Found at i:85955205 original size:39 final size:37 Alignment explanation
Indices: 85955146--85955219 Score: 103 Period size: 39 Copynumber: 1.9 Consensus size: 37 85955136 AAAATATCAA * 85955146 AAAAATATAAAAACTATTTTAATAATTATAATTTATT 1 AAAAATATAAAAAATATTTTAATAATTATAATTTATT * * 85955183 AAAAATATAAAAAAATATTTTTAATATTTTTAATTTA 1 AAAAATAT-AAAAAATA-TTTTAATAATTATAATTTA 85955220 AAAAAATTAA Statistics Matches: 32, Mismatches: 3, Indels: 2 0.86 0.08 0.05 Matches are distributed among these distances: 37 8 0.25 38 7 0.22 39 17 0.53 ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45 Consensus pattern (37 bp): AAAAATATAAAAAATATTTTAATAATTATAATTTATT Found at i:85956143 original size:44 final size:44 Alignment explanation
Indices: 85956074--85956157 Score: 114 Period size: 44 Copynumber: 1.9 Consensus size: 44 85956064 TATCTCCCAG * * * * * * 85956074 CAATGTAATATCTTTATATCTGATTCGATCCTCTGAACTCAATA 1 CAATGCAACATCTTTATACCCGATTCAATCCTCTAAACTCAATA 85956118 CAATGCAACATCTTTATACCCGATTCAATCCTCTAAACTC 1 CAATGCAACATCTTTATACCCGATTCAATCCTCTAAACTC 85956158 GATATAAAAA Statistics Matches: 34, Mismatches: 6, Indels: 0 0.85 0.15 0.00 Matches are distributed among these distances: 44 34 1.00 ACGTcount: A:0.32, C:0.26, G:0.07, T:0.35 Consensus pattern (44 bp): CAATGCAACATCTTTATACCCGATTCAATCCTCTAAACTCAATA Found at i:85958390 original size:25 final size:25 Alignment explanation
Indices: 85958326--85958409 Score: 82 Period size: 25 Copynumber: 3.4 Consensus size: 25 85958316 TTCCCGATAT * * 85958326 ATAGCTTGTGAGAGATTATTGATTC 1 ATAGCTTGTGAGAGCTTACTGATTC * * 85958351 -TAAACTCGT-ATGAGCTTACTGATTC 1 AT-AGCTTGTGA-GAGCTTACTGATTC * * 85958376 ATAGCTTGTGAGAGCATACCGATTC 1 ATAGCTTGTGAGAGCTTACTGATTC 85958401 ATAGCTTGT 1 ATAGCTTGT 85958410 ATGAACATAT Statistics Matches: 47, Mismatches: 8, Indels: 8 0.75 0.13 0.13 Matches are distributed among these distances: 24 2 0.04 25 43 0.91 26 2 0.04 ACGTcount: A:0.27, C:0.15, G:0.21, T:0.36 Consensus pattern (25 bp): ATAGCTTGTGAGAGCTTACTGATTC Found at i:85958400 original size:50 final size:50 Alignment explanation
Indices: 85958305--85958400 Score: 124 Period size: 50 Copynumber: 1.9 Consensus size: 50 85958295 CAGACCACAG * ** 85958305 CTCGTATGAGCTTCCCGATATATAGCTTGTGAGAGATTATTGATTCTAAA 1 CTCGTATGAGCTTACCGATATATAGCTTGTGAGAGATTACCGATTCTAAA * 85958355 CTCGTATGAGCTTACTGAT-TCATAGCTTGTGAGAGCA-TACCGATTC 1 CTCGTATGAGCTTACCGATAT-ATAGCTTGTGAGAG-ATTACCGATTC 85958401 ATAGCTTGTA Statistics Matches: 40, Mismatches: 4, Indels: 4 0.83 0.08 0.08 Matches are distributed among these distances: 49 1 0.03 50 38 0.95 51 1 0.03 ACGTcount: A:0.26, C:0.19, G:0.21, T:0.34 Consensus pattern (50 bp): CTCGTATGAGCTTACCGATATATAGCTTGTGAGAGATTACCGATTCTAAA Found at i:85958418 original size:25 final size:25 Alignment explanation
Indices: 85958371--85958418 Score: 71 Period size: 25 Copynumber: 1.9 Consensus size: 25 85958361 TGAGCTTACT * 85958371 GATTCATAGCTTGTGAGAGCATACC 1 GATTCATAGCTTGTGAGAACATACC 85958396 GATTCATAGCTTGT-ATGAACATA 1 GATTCATAGCTTGTGA-GAACATA 85958419 TATGTATATG Statistics Matches: 21, Mismatches: 1, Indels: 2 0.88 0.04 0.08 Matches are distributed among these distances: 24 1 0.05 25 20 0.95 ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31 Consensus pattern (25 bp): GATTCATAGCTTGTGAGAACATACC Found at i:85961958 original size:24 final size:22 Alignment explanation
Indices: 85961931--85961974 Score: 61 Period size: 22 Copynumber: 1.9 Consensus size: 22 85961921 AAAAAGCAAA 85961931 AAGAAGAACACAAGAAAAAAAACC 1 AAGAAGAA-AC-AGAAAAAAAACC * 85961955 AAGAAGAAACAGAACAAAAA 1 AAGAAGAAACAGAAAAAAAA 85961975 TAACGTGCCA Statistics Matches: 19, Mismatches: 1, Indels: 2 0.86 0.05 0.09 Matches are distributed among these distances: 22 9 0.47 23 2 0.11 24 8 0.42 ACGTcount: A:0.73, C:0.14, G:0.14, T:0.00 Consensus pattern (22 bp): AAGAAGAAACAGAAAAAAAACC Found at i:85966344 original size:28 final size:28 Alignment explanation
Indices: 85966267--85966332 Score: 118 Period size: 28 Copynumber: 2.4 Consensus size: 28 85966257 AATTCATAAT 85966267 TTAA-TTA-TAAAATAATTAATTTGCAC 1 TTAAGTTATTAAAATAATTAATTTGCAC 85966293 TTAAGTTATTAAAATAATTAATTTGCAC 1 TTAAGTTATTAAAATAATTAATTTGCAC 85966321 TTAAGTTATTAA 1 TTAAGTTATTAA 85966333 CATATTGAAT Statistics Matches: 38, Mismatches: 0, Indels: 2 0.95 0.00 0.05 Matches are distributed among these distances: 26 4 0.11 27 3 0.08 28 31 0.82 ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44 Consensus pattern (28 bp): TTAAGTTATTAAAATAATTAATTTGCAC Found at i:85966943 original size:14 final size:16 Alignment explanation
Indices: 85966912--85966945 Score: 50 Period size: 16 Copynumber: 2.1 Consensus size: 16 85966902 TTTCACCTAT 85966912 TCATTCAACACATCTC 1 TCATTCAACACATCTC * * 85966928 TCATTCCACACTTCTC 1 TCATTCAACACATCTC 85966944 TC 1 TC 85966946 TTTCTTGTAG Statistics Matches: 16, Mismatches: 2, Indels: 0 0.89 0.11 0.00 Matches are distributed among these distances: 16 16 1.00 ACGTcount: A:0.24, C:0.41, G:0.00, T:0.35 Consensus pattern (16 bp): TCATTCAACACATCTC Found at i:85968860 original size:6 final size:6 Alignment explanation
Indices: 85968849--85968914 Score: 51 Period size: 6 Copynumber: 10.5 Consensus size: 6 85968839 TTCTGTTTTA * * * * * 85968849 TTTATT TTTATT TTTATT TTAAGT TGTACT TTTATT TTTATT GTTGATT 1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT -TTTATT * 85968898 GTTTTTAT TTTATT TTT 1 -TTTAT-T TTTATT TTT 85968915 GAGACTTATA Statistics Matches: 47, Mismatches: 11, Indels: 4 0.76 0.18 0.06 Matches are distributed among these distances: 6 33 0.70 7 13 0.28 8 1 0.02 ACGTcount: A:0.17, C:0.02, G:0.08, T:0.74 Consensus pattern (6 bp): TTTATT Found at i:85968882 original size:24 final size:21 Alignment explanation
Indices: 85968844--85968913 Score: 70 Period size: 24 Copynumber: 3.2 Consensus size: 21 85968834 TAGTTTTCTG * * 85968844 TTTTATTTATTTTTATTTTTA 1 TTTTAATTGTTTTTATTTTTA 85968865 TTTTAAGTTGTACTTTTATTTTTA 1 TTTTAA-TTGT--TTTTATTTTTA * 85968889 TTGTTGATTGTTTTTA-TTTTA 1 TT-TTAATTGTTTTTATTTTTA 85968910 TTTT 1 TTTT 85968914 TGAGACTTAT Statistics Matches: 42, Mismatches: 3, Indels: 9 0.78 0.06 0.17 Matches are distributed among these distances: 20 2 0.05 21 12 0.29 22 8 0.19 24 17 0.40 25 3 0.07 ACGTcount: A:0.17, C:0.01, G:0.07, T:0.74 Consensus pattern (21 bp): TTTTAATTGTTTTTATTTTTA Found at i:85970605 original size:27 final size:28 Alignment explanation
Indices: 85970575--85970631 Score: 80 Period size: 27 Copynumber: 2.1 Consensus size: 28 85970565 AAATGAATGG * 85970575 AATAATTAGATCTAGTTATTA-AATATA 1 AATAATTAGATCTAGCTATTATAATATA * * 85970602 AATAATTAGTTCTAGCTATTATACTATA 1 AATAATTAGATCTAGCTATTATAATATA 85970630 AA 1 AA 85970632 AAAATAATTA Statistics Matches: 26, Mismatches: 3, Indels: 1 0.87 0.10 0.03 Matches are distributed among these distances: 27 19 0.73 28 7 0.27 ACGTcount: A:0.46, C:0.07, G:0.07, T:0.40 Consensus pattern (28 bp): AATAATTAGATCTAGCTATTATAATATA Found at i:85971151 original size:18 final size:18 Alignment explanation
Indices: 85971130--85971164 Score: 52 Period size: 18 Copynumber: 1.9 Consensus size: 18 85971120 AAAGAAAGCA * 85971130 AATAAATAAATGAAAGAG 1 AATAAACAAATGAAAGAG * 85971148 AATAAACAATTGAAAGA 1 AATAAACAAATGAAAGA 85971165 AGTGGGATAG Statistics Matches: 15, Mismatches: 2, Indels: 0 0.88 0.12 0.00 Matches are distributed among these distances: 18 15 1.00 ACGTcount: A:0.66, C:0.03, G:0.14, T:0.17 Consensus pattern (18 bp): AATAAACAAATGAAAGAG Found at i:85972076 original size:10 final size:10 Alignment explanation
Indices: 85972061--85972100 Score: 53 Period size: 10 Copynumber: 3.9 Consensus size: 10 85972051 TCACAAGTCT 85972061 TGTGATATAG 1 TGTGATATAG * 85972071 TGTGATATAT 1 TGTGATATAG 85972081 TGTGATATATG 1 TGTGATATA-G * 85972092 TATGATATA 1 TGTGATATA 85972101 TGTAGGGGAT Statistics Matches: 26, Mismatches: 3, Indels: 1 0.87 0.10 0.03 Matches are distributed among these distances: 10 18 0.69 11 8 0.31 ACGTcount: A:0.33, C:0.00, G:0.23, T:0.45 Consensus pattern (10 bp): TGTGATATAG Found at i:85972085 original size:20 final size:21 Alignment explanation
Indices: 85972060--85972101 Score: 68 Period size: 20 Copynumber: 2.0 Consensus size: 21 85972050 ATCACAAGTC * 85972060 TTGTGATATA-GTGTGATATA 1 TTGTGATATATGTATGATATA 85972080 TTGTGATATATGTATGATATA 1 TTGTGATATATGTATGATATA 85972101 T 1 T 85972102 GTAGGGGATC Statistics Matches: 20, Mismatches: 1, Indels: 1 0.91 0.05 0.05 Matches are distributed among these distances: 20 10 0.50 21 10 0.50 ACGTcount: A:0.31, C:0.00, G:0.21, T:0.48 Consensus pattern (21 bp): TTGTGATATATGTATGATATA Found at i:85976341 original size:15 final size:17 Alignment explanation
Indices: 85976307--85976339 Score: 59 Period size: 16 Copynumber: 2.0 Consensus size: 17 85976297 ATAATTAATA 85976307 TATTATATTATAAAATT 1 TATTATATTATAAAATT 85976324 TATTAT-TTATAAAATT 1 TATTATATTATAAAATT 85976340 ATACATATGA Statistics Matches: 16, Mismatches: 0, Indels: 1 0.94 0.00 0.06 Matches are distributed among these distances: 16 10 0.62 17 6 0.38 ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55 Consensus pattern (17 bp): TATTATATTATAAAATT Found at i:85977586 original size:20 final size:19 Alignment explanation
Indices: 85977551--85977638 Score: 65 Period size: 20 Copynumber: 4.6 Consensus size: 19 85977541 TCAGGAAAAT * * 85977551 TATAAATATATTAAAATTA 1 TATAAACATATAAAAATTA 85977570 GTATAAACATATAAAAACTTA 1 -TATAAACATATAAAAA-TTA * * 85977591 TAAAATACATA-AAAAATAA 1 TATAA-ACATATAAAAATTA * * * 85977610 TAAAAACTTATAAATATTA 1 TATAAACATATAAAAATTA 85977629 TA-AAA-ATATA 1 TATAAACATATA 85977639 TATTTTTATA Statistics Matches: 57, Mismatches: 8, Indels: 9 0.77 0.11 0.12 Matches are distributed among these distances: 17 4 0.07 18 7 0.12 19 15 0.26 20 23 0.40 21 8 0.14 ACGTcount: A:0.62, C:0.05, G:0.01, T:0.32 Consensus pattern (19 bp): TATAAACATATAAAAATTA Found at i:85977592 original size:10 final size:10 Alignment explanation
Indices: 85977574--85977634 Score: 56 Period size: 10 Copynumber: 6.3 Consensus size: 10 85977564 AAATTAGTAT * 85977574 AAACATATAA 1 AAACTTATAA 85977584 AAACTTATAA 1 AAACTTATAA 85977594 AATAC--ATAA 1 AA-ACTTATAA * * 85977603 AAAATAATAA 1 AAACTTATAA 85977613 AAACTTATAA 1 AAACTTATAA * 85977623 ATA-TTATAA 1 AAACTTATAA 85977632 AAA 1 AAA 85977635 TATATATTTT Statistics Matches: 42, Mismatches: 6, Indels: 7 0.76 0.11 0.13 Matches are distributed among these distances: 8 1 0.02 9 14 0.33 10 25 0.60 11 2 0.05 ACGTcount: A:0.67, C:0.07, G:0.00, T:0.26 Consensus pattern (10 bp): AAACTTATAA Found at i:85977640 original size:10 final size:10 Alignment explanation
Indices: 85977546--85977640 Score: 53 Period size: 9 Copynumber: 10.0 Consensus size: 10 85977536 AAAAATCAGG 85977546 AAAAT-TATA 1 AAAATATATA * 85977555 AATATAT-TA 1 AAAATATATA * 85977564 AAATTAGTATA 1 AAAATA-TATA * 85977575 AACATATA-A 1 AAAATATATA * 85977584 AAACT-TAT- 1 AAAATATATA * 85977592 AAAATACATA 1 AAAATATATA 85977602 AAAA-ATAATA 1 AAAATAT-ATA 85977612 AAAACT-TATA 1 AAAA-TATATA * 85977622 AATAT-TATA 1 AAAATATATA 85977631 AAAATATATA 1 AAAATATATA 85977641 TTTTTATAAA Statistics Matches: 64, Mismatches: 12, Indels: 19 0.67 0.13 0.20 Matches are distributed among these distances: 8 6 0.09 9 26 0.41 10 25 0.39 11 7 0.11 ACGTcount: A:0.63, C:0.04, G:0.01, T:0.32 Consensus pattern (10 bp): AAAATATATA Found at i:85977640 original size:19 final size:19 Alignment explanation
Indices: 85977546--85977640 Score: 72 Period size: 19 Copynumber: 5.0 Consensus size: 19 85977536 AAAAATCAGG * 85977546 AAAATTAT--AAATATATT 1 AAAATTATAAAAATATATA * * 85977563 AAAATTAGTATAAACATATA 1 AAAATTA-TAAAAATATATA * 85977583 AAAACTTAT-AAAATACATAA 1 AAAA-TTATAAAAATATAT-A * 85977603 AAAATAATAAAAACT-TATA 1 AAAATTATAAAAA-TATATA * 85977622 AATATTATAAAAATATATA 1 AAAATTATAAAAATATATA 85977641 TTTTTATAAA Statistics Matches: 61, Mismatches: 9, Indels: 14 0.73 0.11 0.17 Matches are distributed among these distances: 17 7 0.11 18 2 0.03 19 25 0.41 20 23 0.38 21 4 0.07 ACGTcount: A:0.63, C:0.04, G:0.01, T:0.32 Consensus pattern (19 bp): AAAATTATAAAAATATATA Found at i:85978297 original size:9 final size:9 Alignment explanation
Indices: 85978283--85978375 Score: 57 Period size: 10 Copynumber: 10.1 Consensus size: 9 85978273 TATCATTTTT 85978283 AATTTTTAA 1 AATTTTTAA 85978292 AATTTTTAA 1 AATTTTTAA * 85978301 TATGTTTT-- 1 AAT-TTTTAA * 85978309 TATTTTTAA 1 AATTTTTAA * 85978318 AATTTATTAT 1 AATTT-TTAA 85978328 AATTTTT-A 1 AATTTTTAA * * 85978336 CATTATTTAT 1 AATT-TTTAA * 85978346 AATTTTTATG 1 AATTTTTA-A 85978356 AATTTTTATA 1 AATTTTTA-A * 85978366 AAATTTTAA 1 AATTTTTAA 85978375 A 1 A 85978376 TATATTTTAT Statistics Matches: 67, Mismatches: 10, Indels: 14 0.74 0.11 0.15 Matches are distributed among these distances: 7 4 0.06 8 6 0.09 9 26 0.39 10 31 0.46 ACGTcount: A:0.38, C:0.01, G:0.02, T:0.59 Consensus pattern (9 bp): AATTTTTAA Found at i:85978298 original size:17 final size:18 Alignment explanation
Indices: 85978283--85978391 Score: 80 Period size: 18 Copynumber: 5.8 Consensus size: 18 85978273 TATCATTTTT * 85978283 AATTTTTAAAATTTTTAA 1 AATTTTTATAATTTTTAA * 85978301 TATGTTTT-T-ATTTTTAA 1 AAT-TTTTATAATTTTTAA 85978318 AATTTATTATAATTTTT-A 1 AATTT-TTATAATTTTTAA * * 85978336 CATTATTTATAATTTTTATG 1 AATT-TTTATAATTTTTA-A * 85978356 AATTTTTATAAAATTTTAA 1 AATTTTTAT-AATTTTTAA 85978375 ATATATTTTATTAATTT 1 A-AT-TTTTA-TAATTT 85978392 CATATATGTT Statistics Matches: 71, Mismatches: 9, Indels: 19 0.72 0.09 0.19 Matches are distributed among these distances: 16 2 0.03 17 12 0.17 18 18 0.25 19 17 0.24 20 12 0.17 21 9 0.13 22 1 0.01 ACGTcount: A:0.37, C:0.01, G:0.02, T:0.61 Consensus pattern (18 bp): AATTTTTATAATTTTTAA Found at i:85978299 original size:27 final size:26 Alignment explanation
Indices: 85978268--85978363 Score: 99 Period size: 26 Copynumber: 3.6 Consensus size: 26 85978258 TAAATGATTC 85978268 TTTTATATCATTTTTAATTTTTAAAAT 1 TTTTATAT-ATTTTTAATTTTTAAAAT * 85978295 TTTTA-ATATGTTTTTATTTTTAAAAT 1 TTTTATATAT-TTTTAATTTTTAAAAT * 85978321 TTATTATA-ATTTTTACATTATTTATAAT 1 TT-TTATATATTTTTA-ATT-TTTAAAAT 85978349 TTTTATGA-ATTTTTA 1 TTTTAT-ATATTTTTA 85978364 TAAAATTTTA Statistics Matches: 60, Mismatches: 3, Indels: 11 0.81 0.04 0.15 Matches are distributed among these distances: 25 2 0.03 26 23 0.38 27 17 0.28 28 18 0.30 ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64 Consensus pattern (26 bp): TTTTATATATTTTTAATTTTTAAAAT Found at i:85978370 original size:11 final size:10 Alignment explanation
Indices: 85978283--85978391 Score: 51 Period size: 10 Copynumber: 11.5 Consensus size: 10 85978273 TATCATTTTT 85978283 AATTTTTA-A 1 AATTTTTATA 85978292 AATTTTTA-A 1 AATTTTTATA * 85978301 TATGTTTT-T- 1 AAT-TTTTATA 85978310 -ATTTTTA-A 1 AATTTTTATA 85978318 AATTTATTAT- 1 AATTT-TTATA 85978328 AA-TTTT-TA 1 AATTTTTATA * 85978336 CATTATTTAT- 1 AATT-TTTATA * 85978346 AATTTTTATG 1 AATTTTTATA 85978356 AATTTTTATA 1 AATTTTTATA * 85978366 AAATTTTA-A 1 AATTTTTATA * 85978375 ATATATTTTATT 1 A-AT-TTTTATA 85978387 AATTT 1 AATTT 85978392 CATATATGTT Statistics Matches: 78, Mismatches: 7, Indels: 29 0.68 0.06 0.25 Matches are distributed among these distances: 7 5 0.06 8 5 0.06 9 25 0.32 10 34 0.44 11 8 0.10 12 1 0.01 ACGTcount: A:0.37, C:0.01, G:0.02, T:0.61 Consensus pattern (10 bp): AATTTTTATA Found at i:85978653 original size:10 final size:9 Alignment explanation
Indices: 85978638--85978740 Score: 65 Period size: 9 Copynumber: 11.6 Consensus size: 9 85978628 TCAATATTAA 85978638 TTTTATAATT 1 TTTTATAA-T * 85978648 TTTTATAGT 1 TTTTATAAT * 85978657 TTATTA-GAT 1 TT-TTATAAT 85978666 TTTTAT-AT 1 TTTTATAAT 85978674 TTTTATAAT 1 TTTTATAAT * 85978683 ATTTATAAT 1 TTTTATAAT 85978692 GTTTTATAAGT 1 -TTTTATAA-T * * 85978703 TTATATAAA 1 TTTTATAAT 85978712 TTTTA-ATAT 1 TTTTATA-AT * 85978721 TTTGA-AAT 1 TTTTATAAT 85978729 TTTT-T-AT 1 TTTTATAAT 85978736 TTTTA 1 TTTTA 85978741 AAATATTCAT Statistics Matches: 74, Mismatches: 11, Indels: 18 0.72 0.11 0.17 Matches are distributed among these distances: 7 6 0.08 8 17 0.23 9 26 0.35 10 24 0.32 11 1 0.01 ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63 Consensus pattern (9 bp): TTTTATAAT Done.