Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004447.1 Hibiscus syriacus cultivar Beakdansim tig00009766_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 86919
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Found at i:8789 original size:137 final size:136
Alignment explanation
Indices: 8533--8875 Score: 433
Period size: 137 Copynumber: 2.5 Consensus size: 136
8523 TTTGATGCAT
* * *
8533 AATTAGT-CTTTAATTTAGGAAATTTTTAATTTGGTCCTCGCTTTTGCTCGAGGTTCCATTTTAA
1 AATTAGTCCTTTAATTTAGGGAATTTTTAATTTGGTCATCGCTTATGCTCGAGGTTCCATTTTAA
* * * * * *
8597 TCATTCAAATCAATTATTAATTAAAATTGAATAGGTTGATTTTTAAAGCCTTCACTTTAGTTTTA
66 TTATTCAAATCAATAATTAAGTAAAATTGAATAGGTTGATTATTAAAGCCTTCACTTTAGGTCTA
8662 ATTTTAA
131 ATTTT-A
* *
8669 AATTAGTCCTATAATTTAGGGAATTTTTAATTTGGTCATAGCTTATGCTCGAGGTTCCATTTTAA
1 AATTAGTCCTTTAATTTAGGGAATTTTTAATTTGGTCATCGCTTATGCTCGAGGTTCCATTTTAA
* *
8734 TTATTCAAATCAATAATTGAGTAAAATT-AATTAGGATTGA-TATTAGAGCCTTCACTTTAGGTC
66 TTATTCAAATCAATAATTAAGTAAAATTGAA-TAGG-TTGATTATTAAAGCCTTCACTTTAGGTC
8797 TAATTTTA
129 TAATTTTA
** * * * * * *
8805 TTTTAGTCCTTTAATTTAAGGGAATTCTTAATTTGGTCTTCCCTCATGCTCAAGTTTCCA-TTTA
1 AATTAGTCCTTTAATTT-AGGGAATTTTTAATTTGGTCATCGCTTATGCTCGAGGTTCCATTTTA
8869 ATTATTC
65 ATTATTC
8876 GATTTAATAA
Statistics
Matches: 180, Mismatches: 23, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
136 35 0.19
137 141 0.78
138 4 0.02
ACGTcount: A:0.29, C:0.13, G:0.13, T:0.45
Consensus pattern (136 bp):
AATTAGTCCTTTAATTTAGGGAATTTTTAATTTGGTCATCGCTTATGCTCGAGGTTCCATTTTAA
TTATTCAAATCAATAATTAAGTAAAATTGAATAGGTTGATTATTAAAGCCTTCACTTTAGGTCTA
ATTTTA
Found at i:17664 original size:46 final size:47
Alignment explanation
Indices: 17608--17739 Score: 169
Period size: 46 Copynumber: 2.9 Consensus size: 47
17598 TTTTGAATAA
* * *
17608 ATGTATGCGAACTAGAAATCATGCGGTTATGTTTATTTTT-TTGAGC
1 ATGTATGCGAACTAGAAATCATGCGGTTAGGTTTATTTTTCTCGAAC
*
17654 ATGTATGCGAACTAGAAATCATGCGGCTAGGTTTATTTTTCTCGAAC
1 ATGTATGCGAACTAGAAATCATGCGGTTAGGTTTATTTTTCTCGAAC
* * * * *
17701 AAGCATGCGAATTAGATATCATGCGGTTAGGATT-TTTTT
1 ATGTATGCGAACTAGAAATCATGCGGTTAGGTTTATTTTT
17740 GTGAATGACA
Statistics
Matches: 75, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
46 43 0.57
47 32 0.43
ACGTcount: A:0.27, C:0.13, G:0.22, T:0.38
Consensus pattern (47 bp):
ATGTATGCGAACTAGAAATCATGCGGTTAGGTTTATTTTTCTCGAAC
Found at i:18891 original size:72 final size:72
Alignment explanation
Indices: 18774--18924 Score: 248
Period size: 72 Copynumber: 2.1 Consensus size: 72
18764 CCCTATTACA
* * * * *
18774 CAAGAAAATATGAAGACTTCGGGTGAGAATCTGAATGTTAGTGGTGCAGTCAATGTGATGATAGC
1 CAAGAACAGATGAAAACTTCGAGTGAGAATCTGAATGTTAGTGGTGCAGCCAATGTGATGATAGC
18839 AAATGAT
66 AAATGAT
18846 CAAGAACAGATGAAAACTTCGAGTGAGAATCTGAATGTTAGTGGTGCAGCCAATGTGATGATAGC
1 CAAGAACAGATGAAAACTTCGAGTGAGAATCTGAATGTTAGTGGTGCAGCCAATGTGATGATAGC
*
18911 AACTGAT
66 AAATGAT
18918 CAAGAAC
1 CAAGAAC
18925 CTGTTAGGGG
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
72 73 1.00
ACGTcount: A:0.37, C:0.13, G:0.26, T:0.24
Consensus pattern (72 bp):
CAAGAACAGATGAAAACTTCGAGTGAGAATCTGAATGTTAGTGGTGCAGCCAATGTGATGATAGC
AAATGAT
Found at i:23625 original size:37 final size:37
Alignment explanation
Indices: 23574--23675 Score: 118
Period size: 36 Copynumber: 2.8 Consensus size: 37
23564 AAGTCTTCAC
*
23574 CAAAGAGTAGTGAAGCAAATCCATTTTGACCCTCCA-
1 CAAAGAGTAGTGAAGCAAATCCATTTTAACCCTCCAT
* * *
23610 CTAAAGAGTAGTGAAGCAAA-CCATCTTAAGCCTTCAT
1 C-AAAGAGTAGTGAAGCAAATCCATTTTAACCCTCCAT
* * *
23647 CGAAGAGTAGTGAAGCATATCCTTTTTAA
1 CAAAGAGTAGTGAAGCAAATCCATTTTAA
23676 ACCTTCTCGG
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
36 29 0.53
37 26 0.47
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.25
Consensus pattern (37 bp):
CAAAGAGTAGTGAAGCAAATCCATTTTAACCCTCCAT
Found at i:23660 original size:36 final size:37
Alignment explanation
Indices: 23576--23707 Score: 110
Period size: 37 Copynumber: 3.6 Consensus size: 37
23566 GTCTTCACCA
* * * * **
23576 AAGAGTAGTGAAGCAAATCCATTTTGACCCTCCA-CTA
1 AAGAGTAGTGAAGCAAA-CCATCTTAAACCTTCATCGG
*
23613 AAGAGTAGTGAAGCAAACCATCTTAAGCCTTCATC-G
1 AAGAGTAGTGAAGCAAACCATCTTAAACCTTCATCGG
* * *
23649 AAGAGTAGTGAAGCATATCCTTTTTAAACCTTC-TCGG
1 AAGAGTAGTGAAGCA-AACCATCTTAAACCTTCATCGG
*
23686 AAGAGT-GTTGGAGCAAACCATC
1 AAGAGTAG-TGAAGCAAACCATC
23708 AGACTATCAG
Statistics
Matches: 78, Mismatches: 13, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
36 34 0.44
37 44 0.56
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.25
Consensus pattern (37 bp):
AAGAGTAGTGAAGCAAACCATCTTAAACCTTCATCGG
Found at i:24130 original size:54 final size:54
Alignment explanation
Indices: 24068--24202 Score: 234
Period size: 54 Copynumber: 2.5 Consensus size: 54
24058 GTAGTAAAGC
*
24068 AGAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
1 AGAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGAGAACCCGTA
* *
24122 AGAAGAAGATATTCGAGTTCCATACTCCCTAGATAAAGAGGGAGAGAACCCGTA
1 AGAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGAGAACCCGTA
*
24176 AGAAGAAGATGTTTGAGTTCCATACTC
1 AGAAGAAGATGTTCGAGTTCCATACTC
24203 TCTGAAGGAA
Statistics
Matches: 76, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 76 1.00
ACGTcount: A:0.36, C:0.19, G:0.25, T:0.20
Consensus pattern (54 bp):
AGAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGAGAACCCGTA
Found at i:24371 original size:55 final size:54
Alignment explanation
Indices: 24180--24754 Score: 500
Period size: 55 Copynumber: 10.8 Consensus size: 54
24170 CCCGTAAGAA
*
24180 GAAGATGTTT-GAGTTCCATACTCTCTGAAGGAATAGGGAGCGGACACGTTTGT-T
1 GAAGAT-TTTCGAGTTCTATACTCTCTGAAGGAATAGGGAGCGGACACGTTT-TAT
* * *
24234 GAAGA---TCGAGTCCTATACTCTCTAAAGGAATAGGGAGCAGACACG-TTTATT
1 GAAGATTTTCGAGTTCTATACTCTCTGAAGGAATAGGGAGCGGACACGTTTTA-T
* *
24285 GAAGA---TCGAG-TCTTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTAT
1 GAAGATTTTCGAGTTC-TATACTCTCTGAAGGAATAGGGAGCGGACACGTTTTAT
* * * **
24336 GAAGATTGCTCGAGTTCTATACTTTCTGAATGAATAGGGAGCTAACACGTTTGT-T
1 GAAGATT-TTCGAGTTCTATACTCTCTGAAGGAATAGGGAGCGGACACGTTT-TAT
* *
24391 AAAGA--TT-GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACACG-TTTATT
1 GAAGATTTTCGAGTTCTATACTCTCTGAAGGAATAGGGAGCGGACACGTTTTA-T
** *
24442 GAAGA---TCGAG-TCTTATACTCTCTGAAGGAATAGGGAGCATACCCGTTTGT-T
1 GAAGATTTTCGAGTTC-TATACTCTCTGAAGGAATAGGGAGCGGACACGTTT-TAT
* * * * *
24493 GAAGATTTTTCGAGTTCTATACTCTCTGAAAGAATAGAGAGTGAACCCGTTTGT-T
1 GAAGA-TTTTCGAGTTCTATACTCTCTGAAGGAATAGGGAGCGGACACGTTT-TAT
* * *
24548 GAAGATTGTTCAAGTTCTATACTCTCTGAAGGAATAGAGAGC-GA-ACCTGTTTATT
1 GAAGATT-TTCGAGTTCTATACTCTCTGAAGGAATAGGGAGCGGACACGT-TTTA-T
* *
24603 GAAGATTTTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTATT
1 GAAGA-TTTTCGAGTTCTATACTCTCTGAAGGAATAGGGAGCGGACACGTTTTA-T
* * * * *
24659 GAAGATTGTTCAAGTTTTATACTCTCTGAATGAATAGGGAACAGACACG-TTTAT
1 GAAGATT-TTCGAGTTCTATACTCTCTGAAGGAATAGGGAGCGGACACGTTTTAT
*
24713 GAAGATTGTTCGAG-TCTTATACT-TCTTGAAGGAATAGAGAGC
1 GAAGATT-TTCGAGTTC-TATACTCTC-TGAAGGAATAGGGAGC
24755 AGGCTCGTCA
Statistics
Matches: 436, Mismatches: 53, Indels: 64
0.79 0.10 0.12
Matches are distributed among these distances:
49 2 0.00
50 8 0.02
51 155 0.36
52 7 0.02
53 7 0.02
54 43 0.10
55 158 0.36
56 54 0.12
57 2 0.00
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (54 bp):
GAAGATTTTCGAGTTCTATACTCTCTGAAGGAATAGGGAGCGGACACGTTTTAT
Found at i:24384 original size:157 final size:156
Alignment explanation
Indices: 24180--24754 Score: 662
Period size: 157 Copynumber: 3.6 Consensus size: 156
24170 CCCGTAAGAA
* * * **
24180 GAAGA-TGTTTGAGTTCCATACTCTCTGAAGGAATAGGGAGCGGACACGTTTGTTGAAGATCGAG
1 GAAGATTGTTCGAGTTCTATACTCTCTGAATGAATAGGGAGCTAACACGTTTGTTGAAGATCGAG
*
24244 TCCTATACTCTCTAAAGGAATAGGGAGCAGACACGTTTATTGAAGATCGAGTCTTATACTCTCTG
66 TCCTATACTCTCTGAAGGAATAGGGAGC-GACACGTTTATTGAAGATCGAGTCTTATACTCTCTG
24309 AAGGAATAGAGAGCGGACCCGTTTTAT
130 AAGGAATAGAGAGCGGACCCGTTTTAT
* * * *
24336 GAAGATTGCTCGAGTTCTATACTTTCTGAATGAATAGGGAGCTAACACGTTTGTTAAAGATTGAG
1 GAAGATTGTTCGAGTTCTATACTCTCTGAATGAATAGGGAGCTAACACGTTTGTTGAAGATCGAG
24401 TCCTATACTCTCTGAAGGAATAGGGAGCGGACACGTTTATTGAAGATCGAGTCTTATACTCTCTG
66 TCCTATACTCTCTGAAGGAATAGGGAGC-GACACGTTTATTGAAGATCGAGTCTTATACTCTCTG
* **
24466 AAGGAATAGGGAGCATACCCGTTTGT-T
130 AAGGAATAGAGAGCGGACCCGTTT-TAT
* * * *
24493 GAAGATTTTTCGAGTTCTATACTCTCTGAAAGAATAGAGAG-TGAACCCGTTTGTTGAAGATTGT
1 GAAGATTGTTCGAGTTCTATACTCTCTGAATGAATAGGGAGCT-AACACGTTTGTTGAAGA----
* * *
24557 TCAAGTTCTATACTCTCTGAAGGAATAGAGAGCGA-ACCTGTTTATTGAAGATTTTTCGAGT-TC
61 TCGAGTCCTATACTCTCTGAAGGAATAGGGAGCGACA-C-GTTTATTGAAGA----TCGAGTCT-
24620 TATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTATT
119 TATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTA-T
* * * *
24659 GAAGATTGTTCAAGTTTTATACTCTCTGAATGAATAGGGAAC-AGACACGTTT-ATGAAGATTGT
1 GAAGATTGTTCGAGTTCTATACTCTCTGAATGAATAGGGAGCTA-ACACGTTTGTTGAAGA----
* *
24722 TCGAGTCTTATACT-TCTTGAAGGAATAGAGAGC
61 TCGAGTCCTATACTCTC-TGAAGGAATAGGGAGC
24755 AGGCTCGTCA
Statistics
Matches: 361, Mismatches: 39, Indels: 29
0.84 0.09 0.07
Matches are distributed among these distances:
156 6 0.02
157 186 0.52
158 1 0.00
159 1 0.00
160 3 0.01
161 41 0.11
164 4 0.01
165 76 0.21
166 43 0.12
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (156 bp):
GAAGATTGTTCGAGTTCTATACTCTCTGAATGAATAGGGAGCTAACACGTTTGTTGAAGATCGAG
TCCTATACTCTCTGAAGGAATAGGGAGCGACACGTTTATTGAAGATCGAGTCTTATACTCTCTGA
AGGAATAGAGAGCGGACCCGTTTTAT
Found at i:29151 original size:24 final size:25
Alignment explanation
Indices: 29110--29156 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
29100 GAACTCAAAA
29110 AAAATTAGAAGCTCGATTGAAGTCT
1 AAAATTAGAAGCTCGATTGAAGTCT
* *
29135 AAAATTCG-AGCTTGATTGAAGT
1 AAAATTAGAAGCTCGATTGAAGT
29157 GAAAAAATAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.38, C:0.11, G:0.21, T:0.30
Consensus pattern (25 bp):
AAAATTAGAAGCTCGATTGAAGTCT
Found at i:29162 original size:24 final size:25
Alignment explanation
Indices: 29109--29162 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
29099 TGAACTCAAA
29109 AAAAATTAGAAGCTCGATTGAAGTC
1 AAAAATTAGAAGCTCGATTGAAGTC
* * * *
29134 TAAAATTCG-AGCTTGATTGAAGTG
1 AAAAATTAGAAGCTCGATTGAAGTC
29158 AAAAA
1 AAAAA
29163 ATAGTTCACT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
24 17 0.71
25 7 0.29
ACGTcount: A:0.44, C:0.09, G:0.20, T:0.26
Consensus pattern (25 bp):
AAAAATTAGAAGCTCGATTGAAGTC
Found at i:29641 original size:9 final size:9
Alignment explanation
Indices: 29627--29654 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
29617 GACTGGATCG
29627 ACCGGTTCA
1 ACCGGTTCA
29636 ACCGGTTCA
1 ACCGGTTCA
29645 ACCGGTTCA
1 ACCGGTTCA
29654 A
1 A
29655 TCGGGAACCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.25, C:0.32, G:0.21, T:0.21
Consensus pattern (9 bp):
ACCGGTTCA
Found at i:30895 original size:875 final size:876
Alignment explanation
Indices: 28408--31048 Score: 4462
Period size: 875 Copynumber: 3.0 Consensus size: 876
28398 ATATTATAAA
*
28408 CTCAAATTAGACAAGTGTAGTCGTAATTATATTCATTTTCTTATGTATTGTTTTGATACTGTGAA
1 CTCATATTAGACAAGTGTAGTCGTAATTATATTCATTTTCTTATGTATTGTTTTGATACTGTGAA
*
28473 TGTAGGTAAATTCCTTAAATGTCAAATTCATCTTTAAATCTAACTTTCCTCTATTATGTATATTG
66 TGTAAGTAAATTCCTTAAATGTCAAATTCATCTTTAAATCTAACTTTCCTCTATTATGTATATTG
* *
28538 ATGAAGTATGTAAGTGTTTTGAAATAAAAATTAATGTTTGAATTTGGTAATAAGGTTGGTAATGA
131 ATGAAGTATGCATGTGTTTTGAAATAAAAATTAATGTTTGAATTTGGTAATAAGGTTGGTAATGA
*
28603 AATGACAAGTGGTATGCTAAAATGTTAGAAATTTTAAATGATAAATTTGATCTCTATGTTTTGAT
196 AATGACAAGTGATATGCTAAAATGTTAGAAATTTTAAATGAT-AATTTGATCTCTATGTTTTGAT
* *
28668 TAATTAAACTCTAGGTATAATTAGCATGTCATAGAATCTAATACGAGTTACTGGTATTACTGGTG
260 TAATTAAACTCTAGGTATAATTAGCATGTCATAGAATCTAGTACGAGTTACTGGTATTCCTGGTG
* * * * * * * * *
28733 AGCAGTGTTTTCAACACCGGACCGGACCGGCCGGTTCAACTGGTTCAACCGGGAACTGTTGCCTA
325 AGCAGTGTTTTGAAAATCAGACTGGATCGACCGGTTCAA---GTT----CGGGAACCGTTGTCTA
* * *
28798 GTCCGGTTCAATCTATACTGGTTGAACCGCTACTAGTGAACCGGCCGGAACCGCTGAACCGTTCG
383 GTCCGGTTTAATCTACACTGGTTGAACCGCTACTAGTGAACCGACCGGAACCGCTGAACCGTTCG
* *
28863 AACCGGACCGGCTGAAAACC-GG-------G-AAAAACCCGCCAATCTTGTCTTTTTTTTAAAAT
448 AACCGGACCGGCTGAAAACCGGGAAAAATCGAAAAAACCCGCCAATTTTGT-TTTCTTTTAAAA-
28919 AAATTAAACCAAACGACGTCGTTTGTTAAACGAGCCAAGTCGAACTCGAGTATTGTTGAGCTCAA
511 AAATTAAACCAAACGACGTCGTTTGTTAAACGAGCCAAGTCGAACTCGAGTATTGTTGAGCTCAA
*
28984 CTCGAACTTGAAAACTTTAAAAGTAAGCTCAACTCGACTCAAACTCACGAGCTAAAAATTATCAA
576 CTCGAACTTGAAAACTTTAAAAGTAAGCTCAACTCAACTCAAACTCACGAGCTAAAAATTATCAA
29049 GTTCAACTCAAATTCGAAATATAATATTGAAACTTGAACTCAAAAAGGCTTGAACTCAAAAAAAA
641 GTTCAACTCAAATTCGAAATATAATATTGAAACTTGAACTCAAAAAGGCTTGAACTCAAAAAAAA
* * *
29114 -TTAGAAGCTCGATTGAAGTCTAAAATTCGAGCTTGATTGAAGTGAAAAAATAGTTCACTCAATG
706 TTTAGAAGCTCGATTGAAGCCTAAAATTTGAGCTTAATTGAAGTGAAAAAATAGTTCACTCAATG
* * * * * * *
29178 CTCAATAAAAGGCTATATGATTTTGAATGTCAAATTAACTCTATTATTTATAGAAATTAGTTATG
771 CTCACTAAAAGGCTCTATGATTTTGAATGACAAATTACCTCTATTATTTATAGAAGTTAGTTGTA
29243 ATGCTCTTCTATGTTTCTTAACCATGTGGGATTGTTTTGTT
836 ATGCTCTTCTATGTTTCTTAACCATGTGGGATTGTTTTGTT
29284 CTCATATTAGACAAGTGTAGTCGTAATTATATTCATTTTCTTATGTATTGTTTTGATACTGTGAA
1 CTCATATTAGACAAGTGTAGTCGTAATTATATTCATTTTCTTATGTATTGTTTTGATACTGTGAA
29349 TGTAAGTAAATTCCTTAAATGTCAAATTCATCTTTAAATCTAACTTTCCTCTATTATGTATATTG
66 TGTAAGTAAATTCCTTAAATGTCAAATTCATCTTTAAATCTAACTTTCCTCTATTATGTATATTG
*
29414 ATGAAGTATGCATGTGTTTTGAAATAAAAATTAATGTTTGAATTTGGTAATAATGTTGGTAATGA
131 ATGAAGTATGCATGTGTTTTGAAATAAAAATTAATGTTTGAATTTGGTAATAAGGTTGGTAATGA
29479 AATGACAAGTGATATGCTAAAATGTTAGAAATTTTAAATG---A--T-A----TATGTTTTGATT
196 AATGACAAGTGATATGCTAAAATGTTAGAAATTTTAAATGATAATTTGATCTCTATGTTTTGATT
29534 AATTAAACTCTAGGTATAATTAGCATGTCATAGAATCTAGTACGAGTTACTGGTATTCCTGGTGA
261 AATTAAACTCTAGGTATAATTAGCATGTCATAGAATCTAGTACGAGTTACTGGTATTCCTGGTGA
29599 GCAGTGTTTTGAAAATCAGACTGGATCGACCGGTTCAACCGGTTCAACCGGTTCAATCGGGAACC
326 GCAGTGTTTTGAAAATCAGACTGGAT----C-G----ACCGGTTCAA---G-T---TCGGGAACC
*
29664 GTTGTCTAGTCCGGTTTAATCTACACTGGTTGAACCGTTACTAGTGAACCGACCGGAACCGCTGA
375 GTTGTCTAGTCCGGTTTAATCTACACTGGTTGAACCGCTACTAGTGAACCGACCGGAACCGCTGA
*
29729 ACCGTTCGAACCGGACCGGCTGAAAACTGGGAAAAATCGAAAAAACCCGCCAATTTTGTTTTCTT
440 ACCGTTCGAACCGGACCGGCTGAAAACCGGGAAAAATCGAAAAAACCCGCCAATTTTGTTTTCTT
29794 TTAAAAAAATTAAACCAAACGACGTCGTTTGTTAAACGAGCCAAGTCGAACTCGAGTATTGTTGA
505 TTAAAAAAATTAAACCAAACGACGTCGTTTGTTAAACGAGCCAAGTCGAACTCGAGTATTGTTGA
29859 GCTCAACTCGAACTTGAAAACTTTAAAAGTAAGCTCAACTCAACTCAAACTCACGAGCTAAAAAT
570 GCTCAACTCGAACTTGAAAACTTTAAAAGTAAGCTCAACTCAACTCAAACTCACGAGCTAAAAAT
*
29924 TATCAAGTTCAACTCAAACTCGAAATATAATATTGAAACTTGAACTCAAAAAGGCTTGAACTCAA
635 TATCAAGTTCAACTCAAATTCGAAATATAATATTGAAACTTGAACTCAAAAAGGCTTGAACTCAA
*
29989 AAAAAATTTAAAAGCTCGATTGAAGCCTAAAATTTGAGCTTAATTGAAGTGAAAAAATAGTTCAC
700 AAAAAATTTAGAAGCTCGATTGAAGCCTAAAATTTGAGCTTAATTGAAGTGAAAAAATAGTTCAC
*
30054 TCAATGCTCACCAAAAGGCTCTATGATTTTGAATGACAAATTACCTCTATTATTTATAGAAGTTA
765 TCAATGCTCACTAAAAGGCTCTATGATTTTGAATGACAAATTACCTCTATTATTTATAGAAGTTA
*
30119 GTTGTAATGCTCTTCTATGTTTCTTAACCATGTGGGATTGTTTTATT
830 GTTGTAATGCTCTTCTATGTTTCTTAACCATGTGGGATTGTTTTGTT
30166 CTCATATTAGACAAGTGTAGTCGTAATTATATTCATTTTCTTATGTATTGTTTTGATACTGTGAA
1 CTCATATTAGACAAGTGTAGTCGTAATTATATTCATTTTCTTATGTATTGTTTTGATACTGTGAA
30231 TGTAAGTAAATTCCTTAAATGTCAAATTCATCTTTAAATCTAACTTTCCTCTATTATGTATATTG
66 TGTAAGTAAATTCCTTAAATGTCAAATTCATCTTTAAATCTAACTTTCCTCTATTATGTATATTG
30296 ATGAAGTATGCATGTGTTTTGAAATAAAAATTAATGTTTGAATTTGGTAATAAGGTTGGTAATGA
131 ATGAAGTATGCATGTGTTTTGAAATAAAAATTAATGTTTGAATTTGGTAATAAGGTTGGTAATGA
30361 AATGACAAGTGATATGCTAAAATGTTAGAAATTTTAAATGATAATTTTGATCTCTATGTTTTGAT
196 AATGACAAGTGATATGCTAAAATGTTAGAAATTTTAAATGATAA-TTTGATCTCTATGTTTTGAT
*
30426 TAATTAAACTCTAGGTATAATTAGCATGTCATAGAATCTAGTACGAGTTACTAGTATTCCTGGTG
260 TAATTAAACTCTAGGTATAATTAGCATGTCATAGAATCTAGTACGAGTTACTGGTATTCCTGGTG
30491 AGCAGTGTTTTGAAAATCAGACTGGATCGACCGGTTCAA-TT-GGGAACCGTTGTCTAGTCCGGT
325 AGCAGTGTTTTGAAAATCAGACTGGATCGACCGGTTCAAGTTCGGGAACCGTTGTCTAGTCCGGT
30554 TTAATCTACACTGGTTGAACCGCTACTAGTGAACCGACCGGAACCGCTGAACCGTTCGAACCGGA
390 TTAATCTACACTGGTTGAACCGCTACTAGTGAACCGACCGGAACCGCTGAACCGTTCGAACCGGA
30619 CCGGCTGAAAACCGGGAAAAATCGAAAAAACCCGCCAATTTTGTTTTCTTTTAAAAAAATTAAAC
455 CCGGCTGAAAACCGGGAAAAATCGAAAAAACCCGCCAATTTTGTTTTCTTTTAAAAAAATTAAAC
*
30684 CAAACGACGTCGTTTGTTAAACGAGCCAAGTCGAACTCGAGTATTGTTGAGCTTAACTCGAACTT
520 CAAACGACGTCGTTTGTTAAACGAGCCAAGTCGAACTCGAGTATTGTTGAGCTCAACTCGAACTT
30749 GAAAACTTTAAAAGTAAGCTCAACTCAACTCAAACTCACGAGCTAAAAATTATCAAGTTCAACTC
585 GAAAACTTTAAAAGTAAGCTCAACTCAACTCAAACTCACGAGCTAAAAATTATCAAGTTCAACTC
30814 AAATTCGAAATATAATATTGAAACTTGAACTCAAAAAGGCTTGAACTCAAAAAAAATTTAGAAGC
650 AAATTCGAAATATAATATTGAAACTTGAACTCAAAAAGGCTTGAACTCAAAAAAAATTTAGAAGC
*
30879 TCGATTGAAGCCTAAAATTTGAGCTTAATTGAAGTGAAAAAATAGTTCACTCAATGCTCACTGAA
715 TCGATTGAAGCCTAAAATTTGAGCTTAATTGAAGTGAAAAAATAGTTCACTCAATGCTCACTAAA
* * *
30944 AGACTCTATGATTTTAAATGCCAAATTACCTCTATTATTTATAGAAGTTAGTTGTAATGCTCTTC
780 AGGCTCTATGATTTTGAATGACAAATTACCTCTATTATTTATAGAAGTTAGTTGTAATGCTCTTC
* *
31009 TATGTTTCTTAGCCATATGGGATTGTTTTGTT
845 TATGTTTCTTAACCATGTGGGATTGTTTTGTT
31041 CTCATATT
1 CTCATATT
31049 TTTACTCTTT
Statistics
Matches: 1676, Mismatches: 55, Indels: 69
0.93 0.03 0.04
Matches are distributed among these distances:
865 95 0.06
869 2 0.00
870 2 0.00
872 1 0.00
874 106 0.06
875 507 0.30
876 230 0.14
878 1 0.00
879 1 0.00
881 193 0.12
882 403 0.24
883 18 0.01
884 10 0.01
885 1 0.00
888 2 0.00
889 2 0.00
893 102 0.06
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Consensus pattern (876 bp):
CTCATATTAGACAAGTGTAGTCGTAATTATATTCATTTTCTTATGTATTGTTTTGATACTGTGAA
TGTAAGTAAATTCCTTAAATGTCAAATTCATCTTTAAATCTAACTTTCCTCTATTATGTATATTG
ATGAAGTATGCATGTGTTTTGAAATAAAAATTAATGTTTGAATTTGGTAATAAGGTTGGTAATGA
AATGACAAGTGATATGCTAAAATGTTAGAAATTTTAAATGATAATTTGATCTCTATGTTTTGATT
AATTAAACTCTAGGTATAATTAGCATGTCATAGAATCTAGTACGAGTTACTGGTATTCCTGGTGA
GCAGTGTTTTGAAAATCAGACTGGATCGACCGGTTCAAGTTCGGGAACCGTTGTCTAGTCCGGTT
TAATCTACACTGGTTGAACCGCTACTAGTGAACCGACCGGAACCGCTGAACCGTTCGAACCGGAC
CGGCTGAAAACCGGGAAAAATCGAAAAAACCCGCCAATTTTGTTTTCTTTTAAAAAAATTAAACC
AAACGACGTCGTTTGTTAAACGAGCCAAGTCGAACTCGAGTATTGTTGAGCTCAACTCGAACTTG
AAAACTTTAAAAGTAAGCTCAACTCAACTCAAACTCACGAGCTAAAAATTATCAAGTTCAACTCA
AATTCGAAATATAATATTGAAACTTGAACTCAAAAAGGCTTGAACTCAAAAAAAATTTAGAAGCT
CGATTGAAGCCTAAAATTTGAGCTTAATTGAAGTGAAAAAATAGTTCACTCAATGCTCACTAAAA
GGCTCTATGATTTTGAATGACAAATTACCTCTATTATTTATAGAAGTTAGTTGTAATGCTCTTCT
ATGTTTCTTAACCATGTGGGATTGTTTTGTT
Found at i:32816 original size:14 final size:14
Alignment explanation
Indices: 32797--32824 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
32787 GACTATGAAC
32797 ATTTTCCTTATTTT
1 ATTTTCCTTATTTT
32811 ATTTTCCTTATTTT
1 ATTTTCCTTATTTT
32825 CTCGTAAAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (14 bp):
ATTTTCCTTATTTT
Found at i:32974 original size:25 final size:25
Alignment explanation
Indices: 32940--32994 Score: 92
Period size: 25 Copynumber: 2.2 Consensus size: 25
32930 AAATCTTTCT
*
32940 TTTTCTTGAAGAGCAAGGGAAACTA
1 TTTTCTTGAAGAGCAAGGAAAACTA
*
32965 TTTTCTTGAAGAGCAAGGAAAACTT
1 TTTTCTTGAAGAGCAAGGAAAACTA
32990 TTTTC
1 TTTTC
32995 CTTTTTTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.35
Consensus pattern (25 bp):
TTTTCTTGAAGAGCAAGGAAAACTA
Found at i:33567 original size:31 final size:31
Alignment explanation
Indices: 33532--33601 Score: 122
Period size: 31 Copynumber: 2.3 Consensus size: 31
33522 TAAAGGAAAA
33532 TAGTCCCTAATATTATTGATCCGTTCAAGTT
1 TAGTCCCTAATATTATTGATCCGTTCAAGTT
*
33563 TAGTCCCTAATATTATTGATCCGTTCAATTT
1 TAGTCCCTAATATTATTGATCCGTTCAAGTT
*
33594 TCGTCCCT
1 TAGTCCCT
33602 CAATCGTTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.23, C:0.23, G:0.11, T:0.43
Consensus pattern (31 bp):
TAGTCCCTAATATTATTGATCCGTTCAAGTT
Found at i:36731 original size:36 final size:38
Alignment explanation
Indices: 36665--36738 Score: 98
Period size: 36 Copynumber: 1.9 Consensus size: 38
36655 TGTAACCTGA
*
36665 TTAATTCTGAAATTAAGAAAAAGATAATAAAGTTTCATATG
1 TTAATTCTGAAATT---AAAAAGATAATAAAATTTCATATG
36706 TTAATTCTGAAATT-AAAA-ATAATAAAATTTCAT
1 TTAATTCTGAAATTAAAAAGATAATAAAATTTCAT
36739 TTCTGAAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
36 14 0.44
37 4 0.12
41 14 0.44
ACGTcount: A:0.50, C:0.05, G:0.08, T:0.36
Consensus pattern (38 bp):
TTAATTCTGAAATTAAAAAGATAATAAAATTTCATATG
Found at i:44302 original size:2 final size:2
Alignment explanation
Indices: 44297--44358 Score: 124
Period size: 2 Copynumber: 31.0 Consensus size: 2
44287 CGTCACTTTA
44297 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
44339 AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
44359 TTAATAATTG
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:50232 original size:31 final size:31
Alignment explanation
Indices: 50194--50316 Score: 203
Period size: 31 Copynumber: 4.0 Consensus size: 31
50184 GGGTCGAGGG
50194 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
50225 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
*
50256 TTACCTATGTTCTTCGGGACATATGGACTGA
1 TTACCTATGTTCTTCGGGACATATGGACTGT
* *
50287 TTACCTAGGTTCTTCGGAATC-TATGGACTG
1 TTACCTATGTTCTTCGGGA-CATATGGACTG
50317 GTCCTTCGGG
Statistics
Matches: 88, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
31 87 0.99
32 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.37
Consensus pattern (31 bp):
TTACCTATGTTCTTCGGGACATATGGACTGT
Found at i:54679 original size:31 final size:31
Alignment explanation
Indices: 54641--54763 Score: 203
Period size: 31 Copynumber: 4.0 Consensus size: 31
54631 GGGTCGAGGG
54641 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
54672 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
*
54703 TTACCTATGTTCTTCGGGACATATGGACTGA
1 TTACCTATGTTCTTCGGGACATATGGACTGT
* *
54734 TTACCTAGGTTCTTCGGAATC-TATGGACTG
1 TTACCTATGTTCTTCGGGA-CATATGGACTG
54764 GTCCTTCGGG
Statistics
Matches: 88, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
31 87 0.99
32 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.37
Consensus pattern (31 bp):
TTACCTATGTTCTTCGGGACATATGGACTGT
Found at i:64613 original size:52 final size:49
Alignment explanation
Indices: 64505--64613 Score: 123
Period size: 52 Copynumber: 2.1 Consensus size: 49
64495 ATTTATTAAT
**
64505 ATTTATAATAATATAATATTATATTTTTAATTATATAAAATAATCAATT
1 ATTTATAATAATATAATATTATATTTTTAATTATATAAAATAATCAAAA
*
64554 ATATTATAATAATATAAGATATTATATTTTT-ATTTTAATAATATATAAT-AAAA
1 AT-TTATAATAATAT-A-ATATTATATTTTTAATTAT-ATAA-A-ATAATCAAAA
64607 ATTTATA
1 ATTTATA
64614 TATTTAATAA
Statistics
Matches: 51, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
49 2 0.04
50 12 0.24
51 5 0.10
52 22 0.43
53 5 0.10
54 5 0.10
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.49
Consensus pattern (49 bp):
ATTTATAATAATATAATATTATATTTTTAATTATATAAAATAATCAAAA
Found at i:64619 original size:29 final size:29
Alignment explanation
Indices: 64487--64664 Score: 98
Period size: 29 Copynumber: 6.0 Consensus size: 29
64477 AATATTATTT
* *
64487 ATTTATTTATTTATTAATATTTATAATAATATA
1 ATTTATATATTTAATAATA--TATAATAA-A-A
* * * *
64520 ATATTATATTTTTAATTATATAAAATAATCA
1 AT-TTATATATTTAATAATATATAATAA-AA
* * *
64551 A-TTATAT-TATAATAATATA-AGATATTAT
1 ATTTATATATTTAATAATATATA-ATA-AAA
*
64579 ATTTTTAT-TTTAATAATATATAATAAAA
1 ATTTATATATTTAATAATATATAATAAAA
**
64607 ATTTATATATTTAATAATGA-ATAAT-ATT
1 ATTTATATATTTAATAAT-ATATAATAAAA
*
64635 ATTTATATATTTTAATAATATTTTAATAAA
1 ATTTATATA-TTTAATAATA-TATAATAAA
64665 GATATTTAAA
Statistics
Matches: 114, Mismatches: 20, Indels: 24
0.72 0.13 0.15
Matches are distributed among these distances:
27 1 0.01
28 33 0.29
29 48 0.42
30 6 0.05
31 3 0.03
32 8 0.07
33 2 0.02
34 13 0.11
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (29 bp):
ATTTATATATTTAATAATATATAATAAAA
Found at i:64624 original size:58 final size:60
Alignment explanation
Indices: 64553--64664 Score: 144
Period size: 58 Copynumber: 1.9 Consensus size: 60
64543 AATAATCAAT
*
64553 TATATTATAATAAT--ATAAGATATTATATT-TTTATTTTAATAATA-TATAATAAAAATTTA
1 TATATTATAATAATGAAT-A-ATATTAT-TTATATATTTTAATAATATTATAATAAAAATTTA
*
64612 TATATT-TAATAATGAATAATATTATTTATATATTTTAATAATATTTTAATAAA
1 TATATTATAATAATGAATAATATTATTTATATATTTTAATAATATTATAATAAA
64665 GATATTTAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
57 2 0.04
58 28 0.60
59 15 0.32
60 2 0.04
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (60 bp):
TATATTATAATAATGAATAATATTATTTATATATTTTAATAATATTATAATAAAAATTTA
Found at i:64633 original size:19 final size:19
Alignment explanation
Indices: 64611--64663 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
64601 ATAAAAATTT
64611 ATATATTTAATAATGAATA
1 ATATATTTAATAATGAATA
* *
64630 ATATTATTTATATATTTTAATA
1 ATA-TATTTA-ATA-ATGAATA
64652 ATAT-TTTAATAA
1 ATATATTTAATAA
64664 AGATATTTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
19 6 0.21
20 10 0.36
21 4 0.14
22 8 0.29
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (19 bp):
ATATATTTAATAATGAATA
Found at i:64671 original size:14 final size:11
Alignment explanation
Indices: 64626--64700 Score: 57
Period size: 11 Copynumber: 6.7 Consensus size: 11
64616 TTTAATAATG
64626 AATAATATTATT
1 AATAATATT-TT
*
64638 TAT-ATATTTT
1 AATAATATTTT
64648 AATAATATTTT
1 AATAATATTTT
*
64659 AATAAAGATATTT
1 AAT-AATAT-TTT
**
64672 AA-AATATACT
1 AATAATATTTT
64682 AATTAATATTTT
1 AA-TAATATTTT
64694 AA-AATAT
1 AATAATAT
64701 AATATAACAC
Statistics
Matches: 50, Mismatches: 8, Indels: 12
0.71 0.11 0.17
Matches are distributed among these distances:
10 12 0.24
11 19 0.38
12 14 0.28
13 5 0.10
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (11 bp):
AATAATATTTT
Found at i:64684 original size:23 final size:22
Alignment explanation
Indices: 64643--64701 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 22
64633 TTATTTATAT
**
64643 ATTTTAATAATATTTTAATAAAG
1 ATTTTAA-AATATACTAATAAAG
* *
64666 ATATTTAAAATATACTAATTAAT
1 AT-TTTAAAATATACTAATAAAG
64689 ATTTTAAAATATA
1 ATTTTAAAATATA
64702 ATATAACACT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
22 11 0.35
23 15 0.48
24 5 0.16
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (22 bp):
ATTTTAAAATATACTAATAAAG
Found at i:64807 original size:29 final size:32
Alignment explanation
Indices: 64741--64810 Score: 85
Period size: 29 Copynumber: 2.3 Consensus size: 32
64731 AATATAATTT
*
64741 ATAATA-TTTTATTTCACTAAAATATACAAAA
1 ATAATATTTTTATTTCAATAAAATATACAAAA
*
64772 ATTAATATTTTTA-TT-AATAAAAT-TATAAAA
1 A-TAATATTTTTATTTCAATAAAATATACAAAA
64802 ATAATATTT
1 ATAATATTT
64811 AATAATAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
29 8 0.23
30 7 0.20
31 8 0.23
32 7 0.20
33 5 0.14
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.44
Consensus pattern (32 bp):
ATAATATTTTTATTTCAATAAAATATACAAAA
Found at i:65088 original size:15 final size:15
Alignment explanation
Indices: 65046--65091 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
65036 TTCCAGAAAT
*
65046 GTAATTCATTTTCTA
1 GTAATTCATTTTCCA
**
65061 G-AATTCAAATTCCA
1 GTAATTCATTTTCCA
65075 GTAATTCATTTTCCA
1 GTAATTCATTTTCCA
65090 GT
1 GT
65092 TCCAATAATT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
14 11 0.44
15 14 0.56
ACGTcount: A:0.30, C:0.17, G:0.09, T:0.43
Consensus pattern (15 bp):
GTAATTCATTTTCCA
Found at i:73022 original size:17 final size:16
Alignment explanation
Indices: 72991--73024 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
72981 CACGTGAGGA
72991 TTATTTTCTTCTTATT
1 TTATTTTCTTCTTATT
*
73007 TTATTTATCTTTTTATT
1 TTATTT-TCTTCTTATT
73024 T
1 T
73025 ACTTTTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (16 bp):
TTATTTTCTTCTTATT
Found at i:78081 original size:20 final size:20
Alignment explanation
Indices: 78045--78082 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
78035 ATCCTATTCC
**
78045 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
78065 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
78083 GTGAACCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:84857 original size:22 final size:21
Alignment explanation
Indices: 84832--84872 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
84822 CAGATTGTCC
84832 AGAGGG-AACCGATTCTCCCCCA
1 AGAGGGTAA-CGATTC-CCCCCA
84854 AGAGGGTAACGATTCCCCC
1 AGAGGGTAACGATTCCCCC
84873 TGAATGGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 4 0.22
22 12 0.67
23 2 0.11
ACGTcount: A:0.27, C:0.34, G:0.24, T:0.15
Consensus pattern (21 bp):
AGAGGGTAACGATTCCCCCCA
Done.