Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NC_043888
Parameters: 2 7 7 80 10 50 500
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 500
Length: 171891
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.27
Found at i:32588 original size:1 final size:1
Alignment explanation
Indices: 32582--32608 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
32572 GCCATGCTCC
32582 GGGGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGG
32609 ATCCGGAATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:0.00, G:1.00, T:0.00
Consensus pattern (1 bp):
G
Left flanking sequence: Indices 32082 -- 32581
AAAGGCTGGGGTGGGTGAATCCTCTCTCCTTCCCTTTTTCCTTCCCCCCTTCCTCATGAGCCTCT
GAAGAGCTGGTAGACGGAGAGGGGGCATATGTCCACACGGATAAGGGGCCGACGGTGAAAGCGAA
GAAGTCTACTTCGGATCCTTAAAAGTCGGATTACCGAAGAGATAACAAACAACTATTAGGCCCGC
CGCCCTTTTCTTTTATTACAAACCGATGGGAGGCTCATTCCCGTAAGCTACGAGGAAGGAGAGGG
CCCCTTTAACTATGTCAAGCGCGCTGTTGGGGAAAAGAGGGGGGGCGGGTTTCGCCGGATCATAG
ATGTTGATCTGGCGTCGTGCTACACGACTATTATAGCCGGCGGCCCATAACCTAGTGCCGCAGGC
CCCCCCGGAATTGACTTTGAAATTACTTTGGAAATGAATCCGTCCGACGGAGGTTGGAAGGTGAC
GAGAGGTCGGTCTCATCATTGTTCCCGGGAGGGATGCCATGCTCC
Right flanking sequence: Indices 32609 -- 33108
ATCCGGAATCGGAAAGGAAGTCCGTTGGACTTACTATGGATGGATTCGAGGGCGGCCCCAAAGCC
GACCGGGGACTGTCAGACGGGCCGGCGGGGGTCTGACAGACGGAAAAAGGGAGAAAGAACCGACG
GAAGAAACGAGAGAAAAGGACACGAGCTGAAATGGCTGAGAAGGAAGAGTACTTCGATCTACAAG
CCCGAACACGCTCCCCGCGCACTACGTGCCTATGGGGCGGCGGCCTCCGTCCGGAGGTGGTGCGT
AAGCACTTTCAAACAGGAGACGGCTTTACGAAAGACCTGAAGGGCGGCACGAGACTATGGAGGTG
CTACGCACGGCCCAAAGCGAAGGTTTCGGGGTTTCCTTCTTCATCGAAGGCCGTGGGTGGGTCTC
TTATCGCCTCTTATTACCATATTCATCTATGAGGATCCCTCGGATTCAGCCCTTATTTATCCATT
CCTCCCTATTCATCCATAATGATTTCTCATTCCTCTATGCTTATT
Found at i:33240 original size:24 final size:25
Alignment explanation
Indices: 33196--33242 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
33186 TCCGATGAAT
*
33196 GATACTTCAATAATGCGATTACAAC
1 GATACTTCAATAATGCAATTACAAC
*
33221 GATACTTGAA-AATGCAATTACA
1 GATACTTCAATAATGCAATTACA
33243 TAATGAATCG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.43, C:0.17, G:0.13, T:0.28
Consensus pattern (25 bp):
GATACTTCAATAATGCAATTACAAC
Left flanking sequence: Indices 32696 -- 33195
CGGCGGGGGTCTGACAGACGGAAAAAGGGAGAAAGAACCGACGGAAGAAACGAGAGAAAAGGACA
CGAGCTGAAATGGCTGAGAAGGAAGAGTACTTCGATCTACAAGCCCGAACACGCTCCCCGCGCAC
TACGTGCCTATGGGGCGGCGGCCTCCGTCCGGAGGTGGTGCGTAAGCACTTTCAAACAGGAGACG
GCTTTACGAAAGACCTGAAGGGCGGCACGAGACTATGGAGGTGCTACGCACGGCCCAAAGCGAAG
GTTTCGGGGTTTCCTTCTTCATCGAAGGCCGTGGGTGGGTCTCTTATCGCCTCTTATTACCATAT
TCATCTATGAGGATCCCTCGGATTCAGCCCTTATTTATCCATTCCTCCCTATTCATCCATAATGA
TTTCTCATTCCTCTATGCTTATTCGAGGCTGGGGACGGAAACGAGCCATTCATCATGGAATTGCA
TAGTTAATGGCATAACTGGAAAATTCATCGTGTATTCCGATGAAT
Right flanking sequence: Indices 33243 -- 33742
TAATGAATCGCATTTTCAAGCAAATCAATAAGGCGGACAATGACCGACTCGGACTCTTACGGACT
TGGGCGAACGTATAAAGGCTGAAGAACTAATACACGTCCGTGAGGCCAAAAATCTCTTTCTTTTT
CCTTAGCCTTTCCTATTAATGCTGATCAATCAAATCTTAAGCATTAATATAATACTCTTTGGGGG
AGCCAAGGTGTGGCGCAATTTGGTAGCGCGTCTGCCTTGGGCGCAGAAAGTTACAGGTTCAAATC
CTGTCACCTTGAATCAAAATCGGAGTCAACTAAAAAGATGAAAATAAATCGACCGTTATCACCTC
ACCTCACCATCTATAAACCACAGCTTACTTCGACGTTTTCTATTTTCCATAGAATATCCGGGGCG
TTCTTGGCCACTATGGTTTCGTTTAGTATTTTTTCTTTCAAAATAGGTGATCTCAGCCTCACGTT
TTATCATTTCTACCAGTATTTCTTCCTTCTCACTTTCTATTTGAA
Found at i:36437 original size:1 final size:1
Alignment explanation
Indices: 36431--36475 Score: 90
Period size: 1 Copynumber: 45.0 Consensus size: 1
36421 TACAGAGGCT
36431 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
36476 GCTCTCCGCG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 44 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Left flanking sequence: Indices 35931 -- 36430
GAGGCGGGTTGGAAGTCAGAAGGCCCGCAGTACCCGCCTATAAACCTCCGCTTCGGGAAGGGGAA
GGCACCGGAAACACCAGTAATCGGGAAAGGGGCCTAGGTATCTGCTTGATCTAGGCGGATCTAAC
TCTACACAGCTTATCAAAGCAACTCCCACGGATCTCAGATTGGATGTGACCGACACGGTATGCGG
TTTGCTCCCTGTTAGGCCTTTGGATCTCTAGCTACGAAAAAGAGCGAACAGGCGGACAAAGCGGC
GTTTCCTCTAGCTTCTCTATCAAGCTATAGGGTACGGCGCAGCACAAAATAGTTTTCATTCACTT
AGTCCACTCGCCCCGGCGGCTCCCCGAAACTTGCCAAGGATGCTCGAACCCCGCAAGGCGATAAG
TATAAACTCTGGAATCGTTGAAAAAGCAGAGCAACCCGACAAATACGAGATCATTCTATGCCCTG
TCTTGCGTGGCTCCACCCAAAAGGCTGTTCAGCACTACAGAGGCT
Right flanking sequence: Indices 36476 -- 36975
GCTCTCCGCGCATCGACGGAGATCGCGGAATGGAATCATGCTTTACGAAGAAACCTATTCCGTTT
ATTCGGCGGAGACTGGAGGCCCATGAAGAACACCTAGAGGAGATAATCGGTTCTCGGGAACCGGA
AATGAATATAGAAATATATATATATTAACATATATATATATGCTGCGCCCGTAGTGGAAAAAGGA
CCGAAGTAAGTAGAGTTAGTGAGCCGTGTAATGGGCAACTATTTCGCACGGTTCGGAGGGCACTT
CAGTAAGCCCTACATGGGCTGAAGTCTTGACCCCTATTCCTTTTGATGATGCCAGAAGTCGTTTC
GATATACGATTTTATCTTGTTTCTATTTCATTTATTATATTTGATTTGGAAGTCACCTCTTTATT
TCCTTGGGCAGTTTCTCCTAACAGGATTGGTTCGTTTGGATTCTGGTCTATGATGGTATTTTTAC
TTATTTTGACGATTGGATCTGTATATGAATGGAAAAAGGGCGCTT
Found at i:38421 original size:29 final size:30
Alignment explanation
Indices: 38367--38424 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 30
38357 CCATGAAAAA
*
38367 AAGACAAAGGGATAATATGCTAATACCTCG
1 AAGACAAAGGGATAATATGATAATACCTCG
* *
38397 AAGA-AAAGGGATAATATTATCATACCTC
1 AAGACAAAGGGATAATATGATAATACCTC
38425 TATTGACGGG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 21 0.84
30 4 0.16
ACGTcount: A:0.45, C:0.16, G:0.17, T:0.22
Consensus pattern (30 bp):
AAGACAAAGGGATAATATGATAATACCTCG
Left flanking sequence: Indices 37867 -- 38366
GCTAGGGAAAGGACCGAATGAGAGGATTACGAGGAAGAACCCCCCGTAAATGTGATCCAATTGTG
AAAATCAATCCGCCGCGAACGTGACGATATGACAGATAGATCGATATATAGAAAAATAGAATGAG
CGGCGGGGCCGCCGGGGGGGGGCGGCGGGAACCGAGATACGCAACGGTGACGAATTATCGCAAAT
GTGACGGAGATATTAGGAAATAATAATAATAACAATTGTTTCATATTATTACTATTATTACCAAT
AAGGGATAAGGCTTATCCATACAATATGCCCTTATTGGAACGGCGCCGCCCCCTAAGGCTTCGGT
GCCGTCTATCAAAATATCTCGGCGGGACCACCCACAAGCCGTCCCCGCCGGTCGACTAAAAAACC
CAGTATGAGGATTTGGAACCAGAAAAAGCCATTGAAGTCCGGGCCTATGCATTTTACGAAGCCAA
ATCAAAAACAATTTTTGATTTGACCATGAATTTGGCCATGAAAAA
Right flanking sequence: Indices 38425 -- 38924
TATTGACGGGCACGGAGTGCTGTCCAATTCCAATGTGGCGTGGTGCCGAGCACCCAAGGAAGCGG
CGTCGGGCGCCCGACACGAAATGGGCCGTAGGGGTCGTCGTCGGCCGGCGGGTCATGGCTCCGGT
GTATGGATAATCAAGTATATACAATACTTATCCCGCGGTCGGGAGTGACTGGACAGCGCTTTCCA
GAAAATGCTCTTCCGTGTACCATACGGGGGTAATGATACAGCCCTATAATTGCGCGTAGCGCACC
GATTCAATTATTTCTACCAACATCGAAAATTTCGTATCTGTCAGGTAAACCCGAAGACGATCCAT
CCTTTTTTTTAGTAGTTCATTCGTATATCTTTTTTTTCGGTAGTTCATTCATATAGAAATAGATG
ATATTTATTCCTACGATGGTTCGGCGACGACCCACTCTTAGATGCCCCTATATATCAATGATAAG
AAATATATAAGGTGCTAACTTTCATATTGGCCCGAAGAACGGAAA
Found at i:38792 original size:28 final size:27
Alignment explanation
Indices: 38751--38804 Score: 81
Period size: 28 Copynumber: 2.0 Consensus size: 27
38741 ACGATCCATC
*
38751 CTTTTTTTTAGTAGTTCATTCGTATAT
1 CTTTTTTTTAGTAGTTCATTCATATAT
*
38778 CTTTTTTTTCGGTAGTTCATTCATATA
1 CTTTTTTTT-AGTAGTTCATTCATATA
38805 GAAATAGATG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 9 0.38
28 15 0.62
ACGTcount: A:0.19, C:0.13, G:0.11, T:0.57
Consensus pattern (27 bp):
CTTTTTTTTAGTAGTTCATTCATATAT
Left flanking sequence: Indices 38251 -- 38750
AAAACCCAGTATGAGGATTTGGAACCAGAAAAAGCCATTGAAGTCCGGGCCTATGCATTTTACGA
AGCCAAATCAAAAACAATTTTTGATTTGACCATGAATTTGGCCATGAAAAAAAGACAAAGGGATA
ATATGCTAATACCTCGAAGAAAAGGGATAATATTATCATACCTCTATTGACGGGCACGGAGTGCT
GTCCAATTCCAATGTGGCGTGGTGCCGAGCACCCAAGGAAGCGGCGTCGGGCGCCCGACACGAAA
TGGGCCGTAGGGGTCGTCGTCGGCCGGCGGGTCATGGCTCCGGTGTATGGATAATCAAGTATATA
CAATACTTATCCCGCGGTCGGGAGTGACTGGACAGCGCTTTCCAGAAAATGCTCTTCCGTGTACC
ATACGGGGGTAATGATACAGCCCTATAATTGCGCGTAGCGCACCGATTCAATTATTTCTACCAAC
ATCGAAAATTTCGTATCTGTCAGGTAAACCCGAAGACGATCCATC
Right flanking sequence: Indices 38805 -- 39304
GAAATAGATGATATTTATTCCTACGATGGTTCGGCGACGACCCACTCTTAGATGCCCCTATATAT
CAATGATAAGAAATATATAAGGTGCTAACTTTCATATTGGCCCGAAGAACGGAAATGCTAGTCGC
TATACAGCGACGAAGCAAATACGCTTCGCGTAGCCTGAGTTTGGGGGCCGACAGTATAACGTGTC
ATTTCGTAAAGGCAGGAGTTCCCACCCGTCTCGGCATCTGGCAAGTAGATGGATCGAACCGCCGG
TCGAGCCCCCAGAGATCGAGAATGATTTCCCCGTGAAGAAATAATAAAAAGAAAATAGATATCAG
CCATCCCGTCCCTGTTAGTAATGGAGACGCTACGCTTTTCAAGTACTAGGTTACCGCCGGCACCA
CGTCTACGACGGCGGCCGACGCATCGCGGAAGGCGAAGGTATCGTTTCCCGTCCGTCGTAGACGG
CTAATTGTCTACGACGCTTAGCCGTCCACGACGCTTAGCTCTTCG
Found at i:54286 original size:53 final size:53
Alignment explanation
Indices: 54195--54305 Score: 145
Period size: 53 Copynumber: 2.1 Consensus size: 53
54185 CCTTGGTCCC
* * *
54195 AAGGGCCGAAGGCCGGAAATGGCTTGACGATTTCCGCACACGATACTGGGGAG
1 AAGGACCGAAGGCCGGAAATGGCTGGACGATTTCCGCACACGATACTGGGAAG
* *
54248 AAGGACCGAAGGCCGGGAATGGCTGGTA-GA-TTCTCGCACACGATATTGGGAAG
1 AAGGACCGAAGGCCGGAAATGGCTGG-ACGATTTC-CGCACACGATACTGGGAAG
54301 AAGGA
1 AAGGA
54306 GACGAGATCC
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
52 3 0.06
53 47 0.92
54 1 0.02
ACGTcount: A:0.29, C:0.20, G:0.36, T:0.15
Consensus pattern (53 bp):
AAGGACCGAAGGCCGGAAATGGCTGGACGATTTCCGCACACGATACTGGGAAG
Left flanking sequence: Indices 53695 -- 54194
TGACCCAAATCGTTCGTCTTGGATTGCTTTAGTACGATGGATCGAAGGGGTTCTACGCCCGCCGC
ACCCGCCGGCTTTTTCTTTTTATAGAGCGAATAGTCGAAGAGAAAAAAATATGTTCTTTCTCGGC
CTCTTATTCTCGTTCTCTTCGCTGCCTAGACGAGCTCGGGGAATAAAATGCGAAAAAACGCGGCC
CGGAGGAGGGCCCTGCGGGCAGATACTGGAAAGTTCTCGGGTCTTAGGGGCACGAGGGGGAGACC
TTAGGGCCGAAGAAGTGGCCTTAAGACCTTTGGGTAGCTTTCTCGGGTTACCCGGCGTAGCAGTA
GCTGGGGCAAAGCCCGCTTTCTTCGCTTTTCGAATTAAGGGCCCTTCCTCCCTAACGGGAAGAGA
GCGCCTGTCGGCCCTCAGGGAAGAAAATACGTTCTCTCGAAGCGGGGGCCAAGGGTGGAGAACGC
ACAGCGGGGCGACGAAGATGAAAAGCCTAGTACTCCCTTGGTCCC
Right flanking sequence: Indices 54306 -- 54805
GACGAGATCCAAGGGAGAGGCACGTAGTGCTCGACCCTTCTTTCTACAAGCCCGAACACGCCCCC
CGCGCACTCCATGCCGTCGGGCCTTCGGGTTCGGGTCGAGTGCTACGCACCTCCGAGCCTTTCAC
TTATATATTAGCCAGTGAAAAATTGGAAGCAGGCAAGACGGTGATGAATTTTCATCGGTCTAAAC
CTTCGACCCCGTTAAACTACCATCAACCTTCCCAGAAAGCTAATGACCCGGCGGGGGGGGGCCGG
GGGGTAGAGACCGCGCGGGATAGCCAAGCTTGGCTACACGGAGACTACGCTTCTAGTGAGAATAA
ATACATACTCGATTCGTATTATCAAATGGTCGGAAATTGCATACCATTAGCCAAAATACCTATAG
GCACGTGGGTACATAATATTGAAGGGAACCCAGGTCAAGGCGCAAAGTTGACTCGAGCTGCGGGA
ACCTTTGCTCAAATAATTAAGAAAGTTGAGAATACACCACAATGT
Found at i:57200 original size:27 final size:27
Alignment explanation
Indices: 57170--57242 Score: 128
Period size: 27 Copynumber: 2.7 Consensus size: 27
57160 CTCTCTTTTT
57170 GGTCGAGTGCTATGCACCTCTCCCCCC
1 GGTCGAGTGCTATGCACCTCTCCCCCC
*
57197 GGTCGAGTGCTATGCACCTCTCCCCCT
1 GGTCGAGTGCTATGCACCTCTCCCCCC
*
57224 GGTCGAGTGCTACGCACCT
1 GGTCGAGTGCTATGCACCT
57243 ACAATCAAGA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.12, C:0.40, G:0.25, T:0.23
Consensus pattern (27 bp):
GGTCGAGTGCTATGCACCTCTCCCCCC
Left flanking sequence: Indices 56670 -- 57169
CGTAAATATCGAAGAGGCAGATGTGAAGGTTGCGAAGCAGACGGTACAGAACTTTGTTTTGGAAA
GTACGGCATCAAAAGCTGCGAAGCTGGCCGTATTTCGTATCAAGCAATTGAAGCAGCGCGGCGTG
CTATAAGCAGAAAATTTCGAAGAAATTCTAAAATATGGGTAAGAGTTTTCGCAGATATTCCTATT
ACCAGTAAACCGGCAGAAGTGCGAATGGGAAAGGGCAAGGGAAATACTAAAGGTTGGATTGCTCG
TGTGTTGAAGGGACAAATCTTATTTGAAATGGATTGCGTCAGTCCGTCGAATGCTCAACAAGCTG
CTACATTGGCCGCGCATAAACCAGGTTTGTCGATAAAGTTTTTTAAGTGGTCATAAGAAGGAGAA
AAGAATATGGCGAAAAGTCAAAATTAGCTTGTAACCTTCGTCACGTTATTTAGCTGTATCGGATG
AGTCCGCCCCAAATAAAGAAGTGGCATTTCGCACGCTCTCTTTTT
Right flanking sequence: Indices 57243 -- 57742
ACAATCAAGATTTCTTTTATGTTCCGATCATGCCTATGTATATGCTCAATGGCGCTTCGCGCCTT
TATTTATTCCATTACTGCGTTCTATTGTTCCGACCCCTGTGTCGGCTCGGATTCTGCCAGACAGT
CGCGGGCCCCTGTGGGACAGTATCTTGGTTTCGTGGTGTCCGAAAAGTCCGCTTCCACAGATTAA
TACGATTCGATATTGCAAGGTTCGGCATCGACCCCGATAGCAAGAGTAGACCTTGCTATGTTCAC
GGGGGTCGCTCATATCTCGGGTAAAGCGGCGTCGCCGACCGGCGGGAAACCCTTGGGAATTGGGG
AGGACGGGGCGCTAAATTTATTGCAGTTAGTAATGAGACGAGAGCAGGAGCTGCCGAGGCCAAGG
CTACTCTGGCCATGTATGAATACGAAACAGAATGACTTGAAGCGGTTCCTCGCACAACCCGAAGA
ACGGAAGGTAGCCCACCCTCGGAGACCAAGTATTTGGGGACAACC
Found at i:62672 original size:27 final size:27
Alignment explanation
Indices: 62642--62697 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
62632 ATAAACGCTC
* *
62642 ATGCAAGAAAAGCAC-GATATTACTAAT
1 ATGCAAAAAAAACACTG-TATTACTAAT
*
62669 ATGCAAAAAAAACACTGTATTACTCAT
1 ATGCAAAAAAAACACTGTATTACTAAT
62696 AT
1 AT
62698 TCAATCAACT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 24 0.96
28 1 0.04
ACGTcount: A:0.48, C:0.16, G:0.11, T:0.25
Consensus pattern (27 bp):
ATGCAAAAAAAACACTGTATTACTAAT
Left flanking sequence: Indices 62142 -- 62641
AGAAATAAATCATGTCATATATTTTAGGAACCAATCTAAATTCCAATAAACAGGTTAAAATTGCC
TCAACTCGAATCTTTGGAATTGGGCCTGAAAAGGCAATTCAAGTTTGTGATCGATTAGGCCTCAG
CGCTAACATTAAGGTTAATAAGTTAACTAAGTATCAATTTGACCAAATTATAGAGATAATAAGTC
AAAATTATTTAGTCGATTCGGAATTGGAGAGAGTCATTCAGAGAGACATCAAACGATTAATTAGT
ATTGGTTGTTATCGCGGGTTTCGCCATAATGCAGGATTGCCCTTACGCGGCCAACGGACTCATAC
TAATGCTAAGACTTCTCGCAAATTGAGATACATTTCGATCAGAAGTTGAGAAAAGTTTTTTTCGT
TTTTTCCAGTTCGTACAAAATATCTTTGTAATTGGTGAACGGATTGGATGGATCATAAAAAAACG
GAATCGATGGTATCGAGCAACACCAAAAACATTCAATAAACGCTC
Right flanking sequence: Indices 62698 -- 63197
TCAATCAACTTTTGGTAATACAATTATTACTTTAACGGATTGTGACGGAAATACAAAAACTTGGT
CCTCCTCAGGTTCGGTGGGGTTTAAGGGATCTCGTCGCTCAACCAATTATGCTGCTCAAGCAACT
GCAGAAAATGCCGCGCGAGCTGCCATTCGACTTGGATTTAAGTTTGTCGAAGTGAGAATCAAAGG
ATTGGGTTATGGAAAGGAATCTTCGCTACGTGGTTTAAAACTGGGAGGTCTTATTATTACCAAAA
TTCGCGATGTAACCCCAACGCCACATAATGGATGCCGACCCCCCAAAAAACGTCGTGTTTAAATA
TCATCATAGAGTGCTGTGTCATCATAAAATGGTAAATTGAGGTTCAAGAGTAGAAACAATTTTTT
CAGGGTCCGAGGGTCTTTGGCTTCACAGGGAGGGCTTAACCCTTCCTTCGTAAAGGCGAATCAGG
GAATCTACAAGCCATGTCTGGCCTTCGGCGGCCCTTCGGACCCAC
Found at i:71515 original size:2 final size:2
Alignment explanation
Indices: 71508--71534 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
71498 GAAAGAACAG
71508 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
71535 GATTTATCCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Left flanking sequence: Indices 71008 -- 71507
AGAAAGATTTTTTTTTCGCTAATCGGCACAAAGGAAGGGGCTTGAGCGTCTGCTATATCTTAGCG
GATCGGATTCAACCAAGTCCTCAAGTAAGACTCCCTCCTCCCAAGGATCCCGGATGGGTCAATAC
AAAGAATATTTGGGCTGACGCGGATCTTTGGATTTTTGGATTTTGGAGAAAAAATACGCTACGCG
CCAGGTTTCGAAAATGCATCATGTTCGGGGTCTCGGGGACGGGCGGCGGCTCGTATAAGAGAATG
CTTGGTTTTGTTCCCTCCCACTAGAATCGCGCATGATCGCTATAGTGAGAAAGCAAGTTACTTCA
TGTTACTCACGACGGGCCCGCATAGGTCACTGGAAAAACAAGCCAAGACCTCGCGACGGAAGCAA
ATCCTCCAAAGGAAGGTTGAATCGGAGAGCCGTATGATGGGCGACCATCTCGTACGGTTCGGAGA
GGGCTCGAGTACCAATGCATTAAATATGTGTCCGGGAAAGAACAG
Right flanking sequence: Indices 71535 -- 72034
GATTTATCCACTCTATTCAATTGCATGAAGGGTTAAGCACAGAAACATGTGCTTCGCCTCTATTT
CCAAAATACGAAGTATACTTGGGAGAGGCAGGATTCGAACCTACGTAGAAAACCTTCAGCAGATT
TACAGTCTGTCGCTTTTAACCACTCGGCCACTCCCCCTATGATAAGTAAGCTTCTATTTCCCGGT
GCCGGACTCCGGTGAAAAATGGATCAATCCACGCGTGCAACGTTGTTCCTTTGGACTAACCGAAC
AAGCAGAAGGATGTACCGTTGGTACATATTATCCATTGCGCACTTTACGCATTCTACAGGATTTG
AACCTGTGACCTTCAACTTAGAAGGTTGTTGCTCTATCCAACTGAGCTAAGAATGCGGTACATTA
CTAACCACTTCGCAGAAAAAGAGTGAACTCCAGAGAAGAAAGAAGCTTGCTTCTTTCTTCTCTCC
CGCTTTATTCGCATCGCGAATGAAGGCTGAAAAAGGGTCAATGGA
Found at i:83802 original size:9 final size:9
Alignment explanation
Indices: 83790--83824 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
83780 AAATCCCCCA
83790 AAATGAATG
1 AAATGAATG
83799 AAATGAAT-
1 AAATGAATG
83807 -AATGAATG
1 AAATGAATG
83815 AAATGAATG
1 AAATGAATG
83824 A
1 A
83825 CTTCAAGTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
7 7 0.29
9 17 0.71
ACGTcount: A:0.57, C:0.00, G:0.20, T:0.23
Consensus pattern (9 bp):
AAATGAATG
Left flanking sequence: Indices 83290 -- 83789
CCGAAGAACCTTCGTAAGGGCGGGGCCGGGATATGAAACTGGACACGGCAAATGGGCAGATATAC
ATGGAGCGGCTGTGACCCGGGGGAAGGGAAGACCGGCGGATATTGCCGGTGCGGTGGAAGCGCCG
AGTGCAAGACGAGCTGGTAGTAGGTATTGATGCTTACGCAGGCTAAACCAAGCCCCAGGTCATGA
CGTTGAACTCGCTTTACCCTATCCCCCTTCGTATATATGGTCGATTTAGGATGCGCCCCACTATT
TTCTTATTCTCTTTGACAGGGTTTACCACAGAAACATGCCAATACTGCTGTCATAAGTGGCCCCA
TACTATATGTTACTGATGACACCGTCATCGGCGACTCTATCAGAGGGGATGGATTAATGACGACA
GTTTACGCTACGCACCTCCTACCTCTGCGGGGCGGAGCACGATAGCCGAGAAATCAGCGGTGCGA
GCTGCCCAAGGAAAGCCCTTGCTTTCTTTGGTTTCAAATCCCCCA
Right flanking sequence: Indices 83825 -- 84324
CTTCAAGTAGAAGACTTCCAGGCTCGGGCTAAAGAAGTGGAAGTGTTCGGCGGAGTGTCTCACAT
TCCGGACTTTCGCTACCAAGGCCGCCCCTCTTCCGCTTTTACTGTAGACAGTAAAAGCGAATTAG
TAAAAGCGAATTCTCTCTCATGATGTATAATTAGCCGAAGCCACCATTCGGCCCCTCTTTCCCGA
AGGAACTGAACTACTGAGGGGGAAGGTGCCACCAGAGGGAGAGCGCTTTACCGATCTTTGCTTTC
CGATCTTTTCTTTCCGATCCTTCTGAGGGTCGAGTTGAAGGACCGAAAGGTCGGAAATGGCCCTT
TCCGCGCACTTCGCCGAAATGGGAGGTAGTGCCGGAAAGGGAAAGAAAAGAAAGGATCGGTAAAG
CGCTCTCCCTCTGGTCGAGTGCTACGCACCTCCTTCCGTGAGGCGCTCCAATCGTAAAGCCCCAA
GGAGTGCGGCCAGTTATCTGTTGAATATTTCCTTCGTCTTACTCC
Found at i:83812 original size:16 final size:16
Alignment explanation
Indices: 83791--83822 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
83781 AATCCCCCAA
83791 AATGAATGAAATGAAT
1 AATGAATGAAATGAAT
83807 AATGAATGAAATGAAT
1 AATGAATGAAATGAAT
83823 GACTTCAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.19, T:0.25
Consensus pattern (16 bp):
AATGAATGAAATGAAT
Left flanking sequence: Indices 83291 -- 83790
CGAAGAACCTTCGTAAGGGCGGGGCCGGGATATGAAACTGGACACGGCAAATGGGCAGATATACA
TGGAGCGGCTGTGACCCGGGGGAAGGGAAGACCGGCGGATATTGCCGGTGCGGTGGAAGCGCCGA
GTGCAAGACGAGCTGGTAGTAGGTATTGATGCTTACGCAGGCTAAACCAAGCCCCAGGTCATGAC
GTTGAACTCGCTTTACCCTATCCCCCTTCGTATATATGGTCGATTTAGGATGCGCCCCACTATTT
TCTTATTCTCTTTGACAGGGTTTACCACAGAAACATGCCAATACTGCTGTCATAAGTGGCCCCAT
ACTATATGTTACTGATGACACCGTCATCGGCGACTCTATCAGAGGGGATGGATTAATGACGACAG
TTTACGCTACGCACCTCCTACCTCTGCGGGGCGGAGCACGATAGCCGAGAAATCAGCGGTGCGAG
CTGCCCAAGGAAAGCCCTTGCTTTCTTTGGTTTCAAATCCCCCAA
Right flanking sequence: Indices 83823 -- 84322
GACTTCAAGTAGAAGACTTCCAGGCTCGGGCTAAAGAAGTGGAAGTGTTCGGCGGAGTGTCTCAC
ATTCCGGACTTTCGCTACCAAGGCCGCCCCTCTTCCGCTTTTACTGTAGACAGTAAAAGCGAATT
AGTAAAAGCGAATTCTCTCTCATGATGTATAATTAGCCGAAGCCACCATTCGGCCCCTCTTTCCC
GAAGGAACTGAACTACTGAGGGGGAAGGTGCCACCAGAGGGAGAGCGCTTTACCGATCTTTGCTT
TCCGATCTTTTCTTTCCGATCCTTCTGAGGGTCGAGTTGAAGGACCGAAAGGTCGGAAATGGCCC
TTTCCGCGCACTTCGCCGAAATGGGAGGTAGTGCCGGAAAGGGAAAGAAAAGAAAGGATCGGTAA
AGCGCTCTCCCTCTGGTCGAGTGCTACGCACCTCCTTCCGTGAGGCGCTCCAATCGTAAAGCCCC
AAGGAGTGCGGCCAGTTATCTGTTGAATATTTCCTTCGTCTTACT
Found at i:83958 original size:14 final size:14
Alignment explanation
Indices: 83939--83966 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
83929 TACTGTAGAC
83939 AGTAAAAGCGAATT
1 AGTAAAAGCGAATT
83953 AGTAAAAGCGAATT
1 AGTAAAAGCGAATT
83967 CTCTCTCATG
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:0.50, C:0.07, G:0.21, T:0.21
Consensus pattern (14 bp):
AGTAAAAGCGAATT
Left flanking sequence: Indices 83439 -- 83938
GTAGGTATTGATGCTTACGCAGGCTAAACCAAGCCCCAGGTCATGACGTTGAACTCGCTTTACCC
TATCCCCCTTCGTATATATGGTCGATTTAGGATGCGCCCCACTATTTTCTTATTCTCTTTGACAG
GGTTTACCACAGAAACATGCCAATACTGCTGTCATAAGTGGCCCCATACTATATGTTACTGATGA
CACCGTCATCGGCGACTCTATCAGAGGGGATGGATTAATGACGACAGTTTACGCTACGCACCTCC
TACCTCTGCGGGGCGGAGCACGATAGCCGAGAAATCAGCGGTGCGAGCTGCCCAAGGAAAGCCCT
TGCTTTCTTTGGTTTCAAATCCCCCAAAATGAATGAAATGAATAATGAATGAAATGAATGACTTC
AAGTAGAAGACTTCCAGGCTCGGGCTAAAGAAGTGGAAGTGTTCGGCGGAGTGTCTCACATTCCG
GACTTTCGCTACCAAGGCCGCCCCTCTTCCGCTTTTACTGTAGAC
Right flanking sequence: Indices 83967 -- 84466
CTCTCTCATGATGTATAATTAGCCGAAGCCACCATTCGGCCCCTCTTTCCCGAAGGAACTGAACT
ACTGAGGGGGAAGGTGCCACCAGAGGGAGAGCGCTTTACCGATCTTTGCTTTCCGATCTTTTCTT
TCCGATCCTTCTGAGGGTCGAGTTGAAGGACCGAAAGGTCGGAAATGGCCCTTTCCGCGCACTTC
GCCGAAATGGGAGGTAGTGCCGGAAAGGGAAAGAAAAGAAAGGATCGGTAAAGCGCTCTCCCTCT
GGTCGAGTGCTACGCACCTCCTTCCGTGAGGCGCTCCAATCGTAAAGCCCCAAGGAGTGCGGCCA
GTTATCTGTTGAATATTTCCTTCGTCTTACTCCCTTTATTACGTAATTTCGTGGATAATCCAAGA
TGACCAATCTTTCGGTTATGCCATTATTACGTAATCTATTTCGGTCACAATGAATAAAAAAAAAG
CCAACAAATATGAGAATTTATCTAATTGGTCTTGTCGCTAAGATA
Found at i:84089 original size:14 final size:14
Alignment explanation
Indices: 84064--84103 Score: 62
Period size: 14 Copynumber: 2.8 Consensus size: 14
84054 GAGGGAGAGC
84064 GCTTTACCGATCTTT
1 GCTTT-CCGATCTTT
84079 GCTTTCCGATCTTT
1 GCTTTCCGATCTTT
*
84093 TCTTTCCGATC
1 GCTTTCCGATC
84104 CTTCTGAGGG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 19 0.79
15 5 0.21
ACGTcount: A:0.10, C:0.30, G:0.12, T:0.47
Consensus pattern (14 bp):
GCTTTCCGATCTTT
Left flanking sequence: Indices 83564 -- 84063
GACAGGGTTTACCACAGAAACATGCCAATACTGCTGTCATAAGTGGCCCCATACTATATGTTACT
GATGACACCGTCATCGGCGACTCTATCAGAGGGGATGGATTAATGACGACAGTTTACGCTACGCA
CCTCCTACCTCTGCGGGGCGGAGCACGATAGCCGAGAAATCAGCGGTGCGAGCTGCCCAAGGAAA
GCCCTTGCTTTCTTTGGTTTCAAATCCCCCAAAATGAATGAAATGAATAATGAATGAAATGAATG
ACTTCAAGTAGAAGACTTCCAGGCTCGGGCTAAAGAAGTGGAAGTGTTCGGCGGAGTGTCTCACA
TTCCGGACTTTCGCTACCAAGGCCGCCCCTCTTCCGCTTTTACTGTAGACAGTAAAAGCGAATTA
GTAAAAGCGAATTCTCTCTCATGATGTATAATTAGCCGAAGCCACCATTCGGCCCCTCTTTCCCG
AAGGAACTGAACTACTGAGGGGGAAGGTGCCACCAGAGGGAGAGC
Right flanking sequence: Indices 84104 -- 84603
CTTCTGAGGGTCGAGTTGAAGGACCGAAAGGTCGGAAATGGCCCTTTCCGCGCACTTCGCCGAAA
TGGGAGGTAGTGCCGGAAAGGGAAAGAAAAGAAAGGATCGGTAAAGCGCTCTCCCTCTGGTCGAG
TGCTACGCACCTCCTTCCGTGAGGCGCTCCAATCGTAAAGCCCCAAGGAGTGCGGCCAGTTATCT
GTTGAATATTTCCTTCGTCTTACTCCCTTTATTACGTAATTTCGTGGATAATCCAAGATGACCAA
TCTTTCGGTTATGCCATTATTACGTAATCTATTTCGGTCACAATGAATAAAAAAAAAGCCAACAA
ATATGAGAATTTATCTAATTGGTCTTGTCGCTAAGATACTTGGAATTATAATACCCCTGTTACTG
GGCGTCGCGTTCCTGGTACTAGCAGAACGAAAAGTCATGGCGTCTATGCAAAGGAGAAAAGGACC
GAACGTAGTCGGCATTTTGGGACTGTTGCAACCTTTAGCAGATGG
Found at i:90074 original size:18 final size:18
Alignment explanation
Indices: 90051--90086 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
90041 ATACCCCTTA
90051 ATTAATATGGAATTAAAG
1 ATTAATATGGAATTAAAG
90069 ATTAATATGGAATTAAAG
1 ATTAATATGGAATTAAAG
90087 GGTCGGGAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.17, T:0.33
Consensus pattern (18 bp):
ATTAATATGGAATTAAAG
Left flanking sequence: Indices 89551 -- 90050
GCGAGGTTCGGAGCGAGAATCCGAATCTTTATCGCCTGGATGCCGGATATATCAGCCCACTCTAG
CACTTCGCTTTATGTGAAAAAAAAATAATGACCTCTATTGCGACCCGGAGAAACCCAAATGCTTA
CTAATCAAACGCTGCGTCGTTTCGGGCAAGAAATGAAGTAATGACCTAGTAGGTAGACGACCGCG
AACAAATAATGACAGAAGTTGTTTCCAATCAGATTCAAAAAGAGCCAAGCTATCCCAGCCCGCCA
TAAAACCCAATAGATATAGATATAGATATAGTACCCGAAATCTCCCCGCTAACGTGAAGGAAGCA
TTGCCAAATGACTCAATTTCGACGATATGACTAAATCCCGAGGATTTGTAGATAAATATATATAA
TTAATACTCCGGAAGAACCCTCATCGCTAATAACACCTTCGCCAAATGACGCATATTTAGCTAAT
ACGACTGAACCTGCTGGGGATCTGTAGTATAAGGAATACCCCTTA
Right flanking sequence: Indices 90087 -- 90586
GGTCGGGAAGGGAATATATAATAGGAATCTATATGAGATATGAAAGAATTCCATAGAATTGGGAA
AGATTAATCAATTGAATTGGAATGAATGGAACGGATTAGGAAATAAAAGAAATTCAAATATATAT
ATATATATATATATATTTGTGTATAACGGAGGAGATGCATAAATAAAATAGATTCTATCATTTAT
AGGAGAGACTATTAAATTCATGTTGATTCTTCGCCCATCTTTCAAAAGAAAATGAGCTACTATTT
ATCTTCTTCGAGAGAGAGGATGAGCTGCAATAGATATATAGATATATCTCTCTCTATATATATAT
ATATATATAATTCATAGGTCAGGGGAGATAGCCTTGACCCATAACCTTTGAAGATACTGAAGGCC
CGCCGCCGGATCTTCCCCGGTTACCACGTTCTCGAGATCTGTTACATAGGCCTCTAGTTTTCCCT
CGGGAAGACTTTCATCGTGGAAGTGACATAGGAACTCCGGGCGAG
Found at i:93002 original size:1 final size:1
Alignment explanation
Indices: 92996--93022 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
92986 TCTCGGCCTA
92996 CCCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCC
93023 GGACGGGAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Left flanking sequence: Indices 92496 -- 92995
ACGAGTGAAATGCTCGGAGGAAAGGGCTGTAGATGATAAAATGCTATGCCGGCGCGGAAGGGCGG
CTCTCTGATAGTAACTGACCCCCTTCTACGTAGTGAGGGGTGAGCGCTCGCCGCGCCTGGCGGCG
GAATCGGATAAAGCGAAGTAGGAGTAGAGGCTGGCTTACTGGGAATTTCGGTCGAGTTTCGTGTG
AGACAAACCTCGAGGCTGGCTACGTTTGAGCGGAGGAATTGGCGGTGGACCCCAGAAACTGAAAG
GGCAAGAAACAAAGGTACCTTATGAGGTAGGGAAAGAAAAAAATATGAATTTTTCCCTGCAACAG
CTACAATCCCAACCTGGATGGCGTATAGCAGGTTACCCCGGTGCTGTCTGAGAAGGCGCGGGAGA
CGTGCCACTGGAATCTGGGTTCCTAGGCGTATGCCCCCCCCGGACATGCTTAGTAACTCCAGAAT
CCAAGGGAACGGCCCCCCGACTTGCCATCTGGGCATCTCGGCCTA
Right flanking sequence: Indices 93023 -- 93522
GGACGGGAGGGACCCTGGAGCCTAAAGCCCCAACGTATCGAACGTGATGCTCCAGCCTAGATGCT
TACGGGTCAAAATCCAATCCGTCCACGCCGGATGTCAATTTTGGAGCCTTCAAACGAAGCTTACT
ACGTCAAAAAAAAAGTCCAACCCTGTCAGACAGTCCCCGCCGCCGGGCCTGGATGGGGGATGAAT
GCAACAGCTGGTAAGCCGTTACGCGGCCTTCATTTGGACTTAACCGATATATCCCGAATCAGGAT
TTTCAATTACGGCGGAATGCCCTGCCGGATAGGAGATATCGCTTATGCCACGAAGGCCCGTAAAA
CCTGAATAAGTTATCATGGACGAGCCACATGCAGGAAAACTTGCACGTGTGGTTCTGACCGGGGG
GGAAGAACCCTATCGGTATTTATCAATGATTATAACAGCTTTTATAGGATACGTACTACCTCGGG
GTCAAATGAGCTTTTGGGGGGCCACAGTAATTACAAGCTTAGCTA
Found at i:117580 original size:21 final size:22
Alignment explanation
Indices: 117547--117589 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
117537 GTTAGAGTAA
117547 GAAAAACCACTAC-AAAGAAAC
1 GAAAAACCACTACTAAAGAAAC
*
117568 GAAAAATCC-CTACTACAGAAAC
1 GAAAAA-CCACTACTAAAGAAAC
117590 ATATGAGCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.56, C:0.26, G:0.09, T:0.09
Consensus pattern (22 bp):
GAAAAACCACTACTAAAGAAAC
Left flanking sequence: Indices 117047 -- 117546
GGCCCTACTCCTAGCGGGGGGCCGGTAGGCCCTGAGGTAGGCTTAGTAACTGAAAACTCTTAACG
CTGGAAAGACATGCCCGTATATCTCCCGCTACTCAAGCGCTCTCCTTTGGGCGAAAATGAGTAAG
ATGTCCCATGTAATAGATACATAAAACACTACTCAAGCGCCATTTTGGGCGAATGTACAAGTAGG
ACTCGGCGGAGGAATGCCAAATACAGGAGGGGGGGTAGGCGCCAGCCTGGCCTGGCTCGGTCAAG
TCCCTAACCACAATTTTCGGGGCGGGCTCCGCCCTATAAGGACTAGGTCTGTATAGGGCGGAGCG
GATCGGTGCTTAAGTTGCACAAATTGCTCAGACGTTTAAATGCTTTCCTTGATAGCTGGAAGTTC
TTCAAAAGTATGAAATGCCGGAGGGCTTGGGACCATCCACTCAAGTGTCGTTGAATTCTGTTCAA
CAGCCCAAGGACTTGAGGCACACCTGTTTTCACTAGTTAGAGTAA
Right flanking sequence: Indices 117590 -- 118089
ATATGAGCCAAAACTACTAAAGGCATTCCATCCAGCGTAAGCATCTGGATAATCAGGAATGCGAC
GCGGCATACCTGCAAGCGGTTTTTTCCTTATTTATCAAATGTTAATGGATTGCGACTAAATATTT
TTCTTTTGTAAACTTCATCCGGAATTAGTCCTTGAGACGTTTCAGTGTGTTTAAATCTCAATGTT
GAATCAGTTGCTTTATTGGTATTAGGAACTGGTTCATAAAGATCGAAATAGTCCTGTTCTCGAGC
TAAATAATCCTTTTCACTAATAGTACCTGTTGAACCACATGACTCAATAATAACTAAAATTGTCA
TGACCATATTTCCAAATGGAATTATACATCTGTTATCAGATAATTTGGAGGGGTGATAGTATTCA
GCAAGTCTATCGCTTAATTTATAACCACTACCTACATATTGTTTACCATTAACTGAATTATGCCA
GAGATAGATTCCAGTTTCCGTTAGATAATCAGAAACGATTTGCTC
Found at i:118432 original size:20 final size:20
Alignment explanation
Indices: 118403--118443 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
118393 CAAGAGTCTA
*
118403 CTACTAATTCTTCCTTTCTG
1 CTACTAATTCTTCCTTCCTG
*
118423 CTACTGATTCTTCCTTCCTG
1 CTACTAATTCTTCCTTCCTG
118443 C
1 C
118444 CTCAAAAGGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.12, C:0.34, G:0.07, T:0.46
Consensus pattern (20 bp):
CTACTAATTCTTCCTTCCTG
Left flanking sequence: Indices 117903 -- 118402
CTAAAATTGTCATGACCATATTTCCAAATGGAATTATACATCTGTTATCAGATAATTTGGAGGGG
TGATAGTATTCAGCAAGTCTATCGCTTAATTTATAACCACTACCTACATATTGTTTACCATTAAC
TGAATTATGCCAGAGATAGATTCCAGTTTCCGTTAGATAATCAGAAACGATTTGCTCTCCATTTA
ACCAAGCGTTATCATATACTGAAAGGTTCCCTTGGTGAATTATAATTCATGGGTGATTAATCGAG
AATTTATGATCTAATTTGACCGTAATTGGTCCGTCAGAATTAGCGATAGAATTATTTTCAGAGCC
TTTTGGCTCTTCTAAATTACCATTAGACCCGGCGGACTGATCGCCAGTTTCGAATCTTTTTCGGT
TTAGCATCGGATAATTAATTATAAGGACTCTCGAATAGAATTTACGCTCGAGTTAGGGTTATCCT
GAATAGTATATCCTATTAGCAGCAAGTTACCATTTCAAGAGTCTA
Right flanking sequence: Indices 118444 -- 118943
CTCAAAAGGCAAACTAGTCCAATGATAAATAAGGAATATCCTCGATATTTATAACGAGGCCGGAC
TGTATCTTCACCCTAATTGTATAGGGGCATCACGTGTAGTCTCTGAGGATCCTATTCGTCGGCGT
CGAGATTAGACTTTGGTTTCCTGCTGATTGTCCAATCCCTGAGATGGTTACTGCTCGAAGTGAGT
ACCAAGGGCTCTAAGGAATTTCCAGCGTATAGTGATGTTTCACTCCAAATTTGACTTCGGAAGTG
GGCCTAATATTGACCTAGGAAATGCATAGGAAAGAGAGTCGGATTCACACCAAAGAAAGTAATCC
GAAAATGAATTTGACCTAAAGTCTCTGGGTATTGAGGACCAGTTATTTTACCTATCCAGTAATAG
AATCCCGCAAATGAAGCAAAAACGGCTCCCATAGAAAGAACGTAATGGAAATGTGCAACCACATA
ATAAGTCAACTTTACCTAGATATTTTCATATCTACTCGGACTATA
Found at i:149138 original size:14 final size:14
Alignment explanation
Indices: 149121--149151 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
149111 TAATATACAA
149121 AAGCATATATGGAG
1 AAGCATATATGGAG
149135 AAGCATATATGGAG
1 AAGCATATATGGAG
149149 AAG
1 AAG
149152 GCTTAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.45, C:0.06, G:0.29, T:0.19
Consensus pattern (14 bp):
AAGCATATATGGAG
Left flanking sequence: Indices 148621 -- 149120
GGCCTCCTCAAATTGCCTACTAAAATCTTTAACCCTATCAATACTATAACAATATGCGTTGGTTA
CAATCTCCTCAGCTAAATCTTTAAAAATGAAGGAAGGTTTTTGAAGAAGACTTCAGATTCGTCGA
ATACATGAATTTAGGTTGATAACCCGGCGGAGTATAATCCGAAAGGTTTGATTCATAGATATATT
TCTCAAAACCTGTGGGGCCCCAGCAGCCTGCATCTGAATCCTGAATTTTATTCGCAAGTGTATAC
AGATGATTTCTTCATGTGAGCTATGCCGTATCCTGTTCGCAGTTCCAGTGAGCGGTTGGCTGTAA
GCTGCGAGCATACAGCAGCCGCGAGCGCATAACCCGGGGCGGCGCCGCCCTAATAATAGACATAT
ATAGTAAAGGGCCCGCGGCGGGGAAGGCACCGAAGGAGGTGCCTTTACAACTCGGATGTGGTAAA
TCAATTATTTCATGGAGTAATAGTAATAATAATAGTAATATACAA
Right flanking sequence: Indices 149152 -- 149651
GCTTAATAATAGAAGATACGTATATAATAAAGAAACCATAGAGTGTCACTACTAATAAATATTTA
GTAGTTACTTCTCATTATTTAGAATAAATAGACGCGTTGGAATTTTTCATGGGGGGATCGTAGTC
TCCGTGCGCGTGAATCTACGAGCCATTTCCGGCCGTATCGGCTGGCGCGTGCGGAAAAGCCATAT
CGGATCTATTACCCACCCTCCCTCCGTAAAACCAAAAAAGTATCAGTATCCCTTGGACCCTCCGG
ATAAAACAGAAAATTCTTTTTTCACTATCACACATTTCCGACTCTTTCGTCATAACGCATTATTC
CACCACCCATCTCGGATCGTCAAGCCGATAATTCATCTGGTTTTCGCCCACAGCATCTAGCCTCA
CCTCAGTGACATTCCCTGAGCTGTACAAGGCTACGGTAGGAGCCGACGAGGCGGCGGCCCCCAGG
GGGATTGTCAGGGGGAGAAAGAGGAAAGAACTGGCAGGACGAAAA
Found at i:152475 original size:2 final size:2
Alignment explanation
Indices: 152468--152493 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
152458 TTTTCCATTT
152468 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
152494 ATTTTCAACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Left flanking sequence: Indices 151968 -- 152467
TTTTAGCCACATAGTGCTCGACCCGACGATATGGGAGAGGGGTAGAAAAATATAGATTTTTTCCG
CTACGCGCCTTCTTTATGAGCCATTGATAGAAGCGTCGGACCTATGGGCAGAAAATGTCAAACAA
AGAAATAAAATATTTCGTAGAGTACCTCCCCGGACCTAGAAACTTTACAGTATCTGCCCGCAGGG
CCGATAACTTTTTATGTCTGACGGGCCCGCCGCGGCCGGAGCCTATAATGATATTCTTTTCAGGT
AACGCTGTTTTCGGGTGCCGCCGCCCCCAGCAGCCATCCACGAAGGGTTAGCTGCGCCCTAACGT
TCAGCTAATGCAAGTTGAATCACGAAGTTACGATCGTAAAAAAATTTTTACAATGCCACTACAAA
GTAATTGCATGCTTTGCTCGACTCAGTTATGCTCGTATGGCTAAACAGGGATGGGTAGAAGAGAA
TACATTTTTCCTTCTCTGAGCCGGGCGTTGGTCATTTTTCCATTT
Right flanking sequence: Indices 152494 -- 152993
ATTTTCAACACCTGAGCCTATTAGGCTTAGCGCAATGGCTCGTAATATATGATTCCCGACACTAA
GGTGATATTTGGACGCGTATACGAATTGCCGAAACTACTAAATCCAAAGTTTGGGTATAGCAGGA
CTCGAACCTGCGACCTTTAAGTTAAAAGCCTATTGCTCTACCAACTGAGCTATACACCCGGAGAT
TTTTGATTGTGACAATTTCAATTCCTTAATTGGACAACAAATTCGTGGGAAACAACTCCGACCTG
AAATGCGAGCCATGAACAGAGCGTATAGCGATTCATCCACCGCATAGCGAGGAATAAAACAATAG
ATATATTTTTTCCTTTCCGCATCTTGGAACTGTGAAACAGAAAAACCCGGATGAGCGGGAGAACG
AAGTGGAGAGAGCCACCGGATATTTGGTCACAGCTATCTCTTGACCGCTTTACCAATCGAAAGAG
TGGTCAATTTGCGCTTAGGGTCCGCCGAATGGGGGGCCAAAGACC
Found at i:171601 original size:18 final size:19
Alignment explanation
Indices: 171578--171613 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
171568 ACGAAAAAAG
171578 ATATAT-TTTTTTGCGCAA
1 ATATATCTTTTTTGCGCAA
*
171596 ATATATCTTTTTTTCGCA
1 ATATATCTTTTTTGCGCA
171614 TAAATATTCG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.25, C:0.14, G:0.08, T:0.53
Consensus pattern (19 bp):
ATATATCTTTTTTGCGCAA
Left flanking sequence: Indices 171078 -- 171577
ACGCCACAGCACCTAGAACCTCCTGCATAGGTAGCGTTTAGTTAGGCGGGGCTCAAGTTCTAGCC
CGGGATAGCAATGGGCAAAAAAATTTTTCGGTGGCTAAGACCATACATAATTGTACGAGGTACTA
TCCGTGTCTTACCATGAACTGCTCCGGGCGGTTGACTTGATAAAATTGATATAAATGGATTCACT
ACAGCAGGGGCTGGCCACCACTCTCAGCGCCTTGTATCATTAATCCAGTCTTTATGGGAGCCTGG
CGCTACGCGAACAAAAAAAAATCTTTTTTTTGCTTTGCATGTTTCTGGCACTCCATCGGCGGGGA
CCAAGGGGACTTTGTCGGACACCATAATAGTGAAATACCGTCCGACAAAACAAAGGGCTAAAGCC
TTTCAGGCCGAAAGTCGCCCCGATCGCAGCCTCTAAGCTCTCTGCCTCTTTCTGAAAAGCAATCC
TCCGCAATTTCACAAAAAACTTTAGAGTATGGTCTACGAAAAAAG
Right flanking sequence: Indices 171614 -- 171891
TAAATATTCGAGCCAACGGATGAGGGCCGCAGGCGAAATGAAATATATATTTCATGACAAAATAT
TTCAGTCTTTCGGCGAATAACGGGATTCGAACCCGTGTTTTCAGAGCCACAATCTGCAACTTTAA
CCCCTAAGTTATATCCGCCCCTATTTATATAAATGAGATACTCGCTATCGGATTCGAACCGATAT
TCCATTAGAAACAGATTTTGAGTCTGCCGTGTTTGCCGTTCCACCAAGCGAGTCTTGGCTCTTAT
TAGGAATAGATCGAAAAT
Done.