Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032250.1 Gossypioides kirkii chromosome KI_08
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: 39602670
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 500 characters in sequence are not A, C, G, or T
File 89 of 125
Found at i:27276467 original size:43 final size:43
Alignment explanation
Indices: 27276400--27276511 Score: 120
Period size: 42 Copynumber: 2.6 Consensus size: 43
27276390 TTAGAGGTAA
* ** * * *
27276400 AGCAATAGCGACGTTT-TTAGGAAAAACACTGCAACAGGTATAG
1 AGCAATAGCGACGTTTATGA-GAAAAACACCACAAAAAGTAAAG
*
27276443 AGCAATAGCGGCGTTTATGAG-AAAACACCACAAAAAGTAAAG
1 AGCAATAGCGACGTTTATGAGAAAAACACCACAAAAAGTAAAG
* *
27276485 AGCATTAGCGACGTTTATGGGAAAAAC
1 AGCAATAGCGACGTTTATGAGAAAAAC
27276512 GCCTATCGAA
Statistics
Matches: 57, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
42 34 0.60
43 21 0.37
44 2 0.04
ACGTcount: A:0.42, C:0.16, G:0.23, T:0.19
Consensus pattern (43 bp):
AGCAATAGCGACGTTTATGAGAAAAACACCACAAAAAGTAAAG
Found at i:27277704 original size:30 final size:28
Alignment explanation
Indices: 27277670--27277920 Score: 168
Period size: 30 Copynumber: 8.5 Consensus size: 28
27277660 AAAATCAAAC
27277670 TTTTGGAAAGTTTGAGGTTGAAAATGTGAT
1 TTTTGGAAAGTTTGAGGTT-AAAATGT-AT
* **
27277700 TTTTGGAAA-TTTAAGGGCAAAATGGTAAT
1 TTTTGGAAAGTTTGAGGTTAAAAT-GT-AT
* *
27277729 TTTT-GAGAAGTTTGGGGGTCAAAATGTAAT
1 TTTTGGA-AAGTTT-GAGGTTAAAATGT-AT
* * *
27277759 TTTTGTAAA-TTTTATGGTGAAAATGTGA-
1 TTTTGGAAAGTTTGA-GGTTAAAATGT-AT
* *
27277787 TTTTGGAAAAGTTTAAGGATTAAAATGTAA
1 TTTTGG-AAAGTTTGAGG-TTAAAATGTAT
* *
27277817 TTTTGGAGAAGTTTGAGGATCAAAATGTAA
1 TTTTGGA-AAGTTTGAGG-TTAAAATGTAT
* * *
27277847 TTTTAGAGAAGTTTAGGGGTTAAAATGTAA
1 TTTTGGA-AAGTTT-GAGGTTAAAATGTAT
*
27277877 TTTTGGAAAAGTTTGAGGGTTAAAATATGAT
1 TTTTGG-AAAGTTTGA-GGTTAAAATGT-AT
27277908 TTTTGGAAAGTTT
1 TTTTGGAAAGTTT
27277921 AGAGACCTTA
Statistics
Matches: 182, Mismatches: 24, Indels: 30
0.77 0.10 0.13
Matches are distributed among these distances:
28 12 0.07
29 38 0.21
30 112 0.62
31 20 0.11
ACGTcount: A:0.35, C:0.01, G:0.25, T:0.39
Consensus pattern (28 bp):
TTTTGGAAAGTTTGAGGTTAAAATGTAT
Found at i:27277753 original size:89 final size:88
Alignment explanation
Indices: 27277670--27277890 Score: 245
Period size: 89 Copynumber: 2.5 Consensus size: 88
27277660 AAAATCAAAC
*
27277670 TTTTGGAAAGTTTGAGGTTGAAAATGTGATTTTTGGAAA-TTTAAGG-GCAAAATGGTAATTTTT
1 TTTTGGAAAGTTTGAGGTTGAAAATGTGA-TTTTGGAAAGTTTAAGGAGCAAAAT-GTAATTTTG
* *
27277733 GAGAAGTTTGGGGGTCAAAATGTAA
64 GAGAAGTTTGAGGATCAAAATGTAA
* * **
27277758 TTTTTGTAAA-TTTTATGG-TGAAAATGTGATTTTGGAAAAGTTTAAGGATTAAAATGTAATTTT
1 -TTTTGGAAAGTTTGA-GGTTGAAAATGTGATTTTGG-AAAGTTTAAGGAGCAAAATGTAATTTT
27277821 GGAGAAGTTTGAGGATCAAAATGTAA
63 GGAGAAGTTTGAGGATCAAAATGTAA
* * *
27277847 TTTTAGAGAAGTTTAGGGGTT-AAAATGTAATTTTGGAAAAGTTT
1 TTTTGGA-AAGTTT-GAGGTTGAAAATGTGATTTTGG-AAAGTTT
27277891 GAGGGTTAAA
Statistics
Matches: 112, Mismatches: 12, Indels: 15
0.81 0.09 0.11
Matches are distributed among these distances:
87 6 0.05
88 23 0.21
89 50 0.45
90 32 0.29
91 1 0.01
ACGTcount: A:0.35, C:0.01, G:0.25, T:0.38
Consensus pattern (88 bp):
TTTTGGAAAGTTTGAGGTTGAAAATGTGATTTTGGAAAGTTTAAGGAGCAAAATGTAATTTTGGA
GAAGTTTGAGGATCAAAATGTAA
Found at i:27277859 original size:60 final size:58
Alignment explanation
Indices: 27277589--27277920 Score: 223
Period size: 60 Copynumber: 5.6 Consensus size: 58
27277579 AGTTTCAGAG
* * *
27277589 AATTTGA-GATGAAAATGTAATTTTTGAGGAA-TTTGAGGATTAAAATTGAAACTTTTGGAA
1 AATTTGAGGATCAAAATGTAATTTTGGA-GAAGTTTGAGGATTAAAA-TGTAA-TTTTGG-A
* * ** *
27277649 AAATTG-GGATTAAAATCAAACTTTTGGA-AAGTTTGAGG-TTGAAAATGTGATTTTTGGA
1 AATTTGAGGATCAAAATGTAA-TTTTGGAGAAGTTTGAGGATT-AAAATGT-AATTTTGGA
* * * * * * *
27277707 AATTTAAGG-GCAAAATGGTAATTTTTGAGAAGTTTGGGGGTCAAAATGTAATTTTTGTA
1 AATTTGAGGATCAAAAT-GTAATTTTGGAGAAGTTTGAGGATTAAAATGTAA-TTTTGGA
* * * * *
27277766 AATTTTATGG-TGAAAATGTGATTTTGGAAAAGTTTAAGGATTAAAATGTAATTTTGGA
1 AATTTGA-GGATCAAAATGTAATTTTGGAGAAGTTTGAGGATTAAAATGTAATTTTGGA
* *
27277824 GAAGTTTGAGGATCAAAATGTAATTTTAGAGAAGTTT-AGGGGTTAAAATGTAATTTTGGAA
1 -AA-TTTGAGGATCAAAATGTAATTTTGGAGAAGTTTGA-GGATTAAAATGTAATTTTGG-A
* * * *
27277885 AAGTTTGAGGGTTAAAATATGATTTTTGGA-AAGTTT
1 AA-TTTGAGGATCAAAATGT-AATTTTGGAGAAGTTT
27277921 AGAGACCTTA
Statistics
Matches: 215, Mismatches: 40, Indels: 34
0.74 0.14 0.12
Matches are distributed among these distances:
58 23 0.11
59 76 0.35
60 102 0.47
61 14 0.07
ACGTcount: A:0.37, C:0.02, G:0.24, T:0.37
Consensus pattern (58 bp):
AATTTGAGGATCAAAATGTAATTTTGGAGAAGTTTGAGGATTAAAATGTAATTTTGGA
Found at i:27278481 original size:2 final size:2
Alignment explanation
Indices: 27278476--27278518 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
27278466 AAACACTACT
27278476 TC TC TC TC TC T- TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
27278517 TC
1 TC
27278519 AAGTCTTCAA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:27279716 original size:6 final size:6
Alignment explanation
Indices: 27279699--27279815 Score: 55
Period size: 6 Copynumber: 19.8 Consensus size: 6
27279689 GGACTTTTAA
* ** *
27279699 TTAAATT TTAAAT TTAAAT TCAAA- AGAAAT TTAAAT TTAAA- ATAAAT
1 TTAAA-T TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
** * * * * *
27279746 TTAAACT CAAAAA TT-AGT TTAAAT TTAAA- ATGAAT TTAAAC TTAAA-
1 TTAAA-T TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
* *
27279792 ATAAAT TAAAAT TTAAAAT TTAAA
1 TTAAAT TTAAAT TT-AAAT TTAAA
27279816 ATTAGGTTCA
Statistics
Matches: 79, Mismatches: 24, Indels: 15
0.67 0.20 0.13
Matches are distributed among these distances:
5 17 0.22
6 47 0.59
7 15 0.19
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (6 bp):
TTAAAT
Found at i:27279810 original size:17 final size:17
Alignment explanation
Indices: 27279707--27279810 Score: 118
Period size: 17 Copynumber: 6.1 Consensus size: 17
27279697 AATTAAATTT
*
27279707 TAAATTTAAATTCAAAA
1 TAAATTTAAATTTAAAA
*
27279724 GAAATTTAAATTTAAAA
1 TAAATTTAAATTTAAAA
**
27279741 TAAATTTAAACTCAAAAA
1 TAAATTTAAA-TTTAAAA
* *
27279759 TTAGTTTAAATTTAAAA
1 TAAATTTAAATTTAAAA
* *
27279776 TGAATTTAAACTTAAAA
1 TAAATTTAAATTTAAAA
*
27279793 TAAATTAAAATTTAAAA
1 TAAATTTAAATTTAAAA
27279810 T
1 T
27279811 TTAAAATTAG
Statistics
Matches: 71, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
17 58 0.82
18 13 0.18
ACGTcount: A:0.57, C:0.04, G:0.03, T:0.37
Consensus pattern (17 bp):
TAAATTTAAATTTAAAA
Found at i:27279811 original size:41 final size:36
Alignment explanation
Indices: 27279725--27279817 Score: 107
Period size: 35 Copynumber: 2.5 Consensus size: 36
27279715 AATTCAAAAG
*
27279725 AAATTTAAATTTAAAATAAATTTAAACTCAAAAATT
1 AAATTTAAATTTAAAATAAATTTAAACTAAAAAATT
* *
27279761 -AGTTTAAATTTAAAATGAATTTAAACTTAAAATAAATT
1 AAATTTAAATTTAAAATAAATTTAAAC-T-AAA-AAATT
27279799 AAAATTTAAAATTTAAAAT
1 -AAATTT-AAATTTAAAAT
27279818 TAGGTTCAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
35 24 0.51
36 1 0.02
37 2 0.04
38 5 0.11
40 4 0.09
41 11 0.23
ACGTcount: A:0.57, C:0.03, G:0.02, T:0.38
Consensus pattern (36 bp):
AAATTTAAATTTAAAATAAATTTAAACTAAAAAATT
Found at i:27280844 original size:13 final size:13
Alignment explanation
Indices: 27280826--27280850 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27280816 AACTTTTTGC
27280826 TATTGTTGTTAAA
1 TATTGTTGTTAAA
27280839 TATTGTTGTTAA
1 TATTGTTGTTAA
27280851 GGCTAATATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.00, G:0.16, T:0.56
Consensus pattern (13 bp):
TATTGTTGTTAAA
Found at i:27281202 original size:21 final size:22
Alignment explanation
Indices: 27281158--27281202 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
27281148 CTTTTGATTC
* * *
27281158 TTTTTTGGTTTTGTTTGGTCTG
1 TTTTTTGCTTTGGTTTGCTCTG
27281180 TTTTTTGCTTTGGTTTGCT-TG
1 TTTTTTGCTTTGGTTTGCTCTG
27281201 TT
1 TT
27281203 GGACCTTTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.00, C:0.07, G:0.24, T:0.69
Consensus pattern (22 bp):
TTTTTTGCTTTGGTTTGCTCTG
Found at i:27283087 original size:26 final size:25
Alignment explanation
Indices: 27283042--27283140 Score: 76
Period size: 26 Copynumber: 3.9 Consensus size: 25
27283032 TTATTTTTAG
27283042 AAACAACACAATATTTAATTATTAA
1 AAACAACACAATATTTAATTATTAA
* * *
27283067 AAACAACCCAAATTTTTAATTATT-T
1 AAACAACAC-AATATTTAATTATTAA
** * *
27283092 AATTATCTA-AATATTTAACTATTAA
1 AAACAAC-ACAATATTTAATTATTAA
* *
27283117 AATCAACTCAAATATTTAATTATT
1 AAACAACAC-AATATTTAATTATT
27283141 TAATTATTAA
Statistics
Matches: 55, Mismatches: 14, Indels: 9
0.71 0.18 0.12
Matches are distributed among these distances:
24 12 0.22
25 17 0.31
26 26 0.47
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (25 bp):
AAACAACACAATATTTAATTATTAA
Found at i:27283105 original size:50 final size:49
Alignment explanation
Indices: 27283051--27283151 Score: 157
Period size: 50 Copynumber: 2.0 Consensus size: 49
27283041 GAAACAACAC
* *
27283051 AATATTTAATTATTAAAAACAACCCAAATTTTTAATTATTTAATTATCTA
1 AATATTTAACTATTAAAAACAACCCAAATATTTAATTATTTAATTAT-TA
* *
27283101 AATATTTAACTATTAAAATCAACTCAAATATTTAATTATTTAATTATTA
1 AATATTTAACTATTAAAAACAACCCAAATATTTAATTATTTAATTATTA
27283150 AA
1 AA
27283152 AAACCCAAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
49 4 0.09
50 43 0.91
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.44
Consensus pattern (49 bp):
AATATTTAACTATTAAAAACAACCCAAATATTTAATTATTTAATTATTA
Found at i:27283166 original size:32 final size:33
Alignment explanation
Indices: 27283103--27283203 Score: 150
Period size: 34 Copynumber: 3.0 Consensus size: 33
27283093 ATTATCTAAA
* *
27283103 TATTTAACTATTAAAATCAACTCAAATATTTAAT
1 TATTTAATTATTAAAA-CAACCCAAATATTTAAT
*
27283137 TATTTAATTATTAAAA-AACCCAAATATTTAAA
1 TATTTAATTATTAAAACAACCCAAATATTTAAT
27283169 TATTTAATTATTAAAAACAACCCAAATATTTAAT
1 TATTTAATTATT-AAAACAACCCAAATATTTAAT
27283203 T
1 T
27283204 CAAAATGAAT
Statistics
Matches: 61, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
32 26 0.43
33 4 0.07
34 31 0.51
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.40
Consensus pattern (33 bp):
TATTTAATTATTAAAACAACCCAAATATTTAAT
Found at i:27283385 original size:6 final size:6
Alignment explanation
Indices: 27283374--27283436 Score: 126
Period size: 6 Copynumber: 10.5 Consensus size: 6
27283364 TAGGATGATA
27283374 AAATCT AAATCT AAATCT AAATCT AAATCT AAATCT AAATCT AAATCT
1 AAATCT AAATCT AAATCT AAATCT AAATCT AAATCT AAATCT AAATCT
27283422 AAATCT AAATCT AAA
1 AAATCT AAATCT AAA
27283437 CATATAACAA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 57 1.00
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (6 bp):
AAATCT
Found at i:27289274 original size:66 final size:64
Alignment explanation
Indices: 27289143--27289274 Score: 165
Period size: 65 Copynumber: 2.0 Consensus size: 64
27289133 GCAAATTGCT
* * * *
27289143 CAACTTAAAGCGAAGGTAGCAGCAAGGAAGTAGAGGCTCAAAGAAAATATGTGAACTTCAGCTA
1 CAACTTAAAGCCAAGGTAGCAGCAAGGAAGCAGAGGCTCAAAGAAAATATGCGAACTGCAGCTA
* * * * *
27289207 CAACTTGAAGCCAAGGTAGTAGCGAATGAAGCAGAGTCTCAAAGAAAGTATGACGAACTGCAGCT
1 CAACTTAAAGCCAAGGTAGCAGC-AAGGAAGCAGAGGCTCAAAGAAAATATG-CGAACTGCAGCT
27289272 A
64 A
27289273 CA
1 CA
27289275 GCTTCAAAAT
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
64 20 0.35
65 24 0.42
66 13 0.23
ACGTcount: A:0.41, C:0.17, G:0.25, T:0.17
Consensus pattern (64 bp):
CAACTTAAAGCCAAGGTAGCAGCAAGGAAGCAGAGGCTCAAAGAAAATATGCGAACTGCAGCTA
Found at i:27289676 original size:43 final size:43
Alignment explanation
Indices: 27289545--27289676 Score: 167
Period size: 43 Copynumber: 3.1 Consensus size: 43
27289535 CTGTTAATAT
* * * * *
27289545 TAGCGGCGTTTGGGGGAAAAGCGTCGCTAAAAACCATGTTCTA
1 TAGCGGCGTTTGTGAGAAAAACGTCGCTAAAGATCATGTTCTA
* **
27289588 TAACGGCGTTTGTGA-AAAAAGCACCGCTAAAGATCATGTTCTA
1 TAGCGGCGTTTGTGAGAAAAA-CGTCGCTAAAGATCATGTTCTA
*
27289631 TAGCGGCGTTTGTGAGAAAAACGTCTCTAAAGATCATGTTCTA
1 TAGCGGCGTTTGTGAGAAAAACGTCGCTAAAGATCATGTTCTA
27289674 TAG
1 TAG
27289677 TGGCATTTTT
Statistics
Matches: 75, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
42 4 0.05
43 66 0.88
44 5 0.07
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (43 bp):
TAGCGGCGTTTGTGAGAAAAACGTCGCTAAAGATCATGTTCTA
Found at i:27290431 original size:23 final size:23
Alignment explanation
Indices: 27290392--27290456 Score: 78
Period size: 23 Copynumber: 2.8 Consensus size: 23
27290382 ATTGAACCCA
* *
27290392 ATTTTAAATTTTAAATTTTAA-TAT
1 ATTTT-AAGTTTAAATTTAAACT-T
27290416 ATTTTAAGTTTAAATTTAAACTT
1 ATTTTAAGTTTAAATTTAAACTT
*
27290439 ATTCTAAGTTTAAATTTA
1 ATTTTAAGTTTAAATTTA
27290457 TTTTGAATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
23 31 0.84
24 6 0.16
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.54
Consensus pattern (23 bp):
ATTTTAAGTTTAAATTTAAACTT
Found at i:27290467 original size:17 final size:16
Alignment explanation
Indices: 27290428--27290473 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
27290418 TTTAAGTTTA
*
27290428 AATTTAAACTTATTCT
1 AATTTAAATTTATTCT
*
27290444 AAGTTTAAATTTATTTT
1 AA-TTTAAATTTATTCT
27290461 GAATTTAAATTTA
1 -AATTTAAATTTA
27290474 AAGTTTAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
16 2 0.08
17 22 0.85
18 2 0.08
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.52
Consensus pattern (16 bp):
AATTTAAATTTATTCT
Found at i:27291195 original size:21 final size:21
Alignment explanation
Indices: 27291153--27291197 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
27291143 TAATAAATGA
* * *
27291153 ATTTAATACCTAAATTTTTTT
1 ATTTAATACATAAATATATTT
*
27291174 ATTTAATACATTAATATATTT
1 ATTTAATACATAAATATATTT
27291195 ATT
1 ATT
27291198 GCTGTCAATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.56
Consensus pattern (21 bp):
ATTTAATACATAAATATATTT
Found at i:27292369 original size:31 final size:30
Alignment explanation
Indices: 27292287--27292632 Score: 142
Period size: 30 Copynumber: 11.7 Consensus size: 30
27292277 AGGTCTCTGT
* * *
27292287 TTTTCTAAAAATCA-CATTTTTAGCCCCGAAC
1 TTTTC-AAAAATTACCATTTTGA-CCTCGAAC
* *
27292318 TTTCCAAAAATCA-CATTTTGAAACCT-GAAC
1 TTTTCAAAAATTACCATTTTG--ACCTCGAAC
*
27292348 TTTTCTAAAATTACCATTTTGACCTCGAAC
1 TTTTCAAAAATTACCATTTTGACCTCGAAC
* * **
27292378 TTTTCCAAAATTACCATTTTAACCTTAAAC
1 TTTTCAAAAATTACCATTTTGACCTCGAAC
** ** * * *
27292408 TTAGCAAAAATTA-TGTTTT-AGCCCCAAAT
1 TTTTCAAAAATTACCATTTTGA-CCTCGAAC
* * *
27292437 TTTTCTAAAATTA-TATTTT-TCGCTCGAAC
1 TTTTCAAAAATTACCATTTTGAC-CTCGAAC
*** * *
27292466 -ACCCAAAAATTACCATTTTGACCACAAAC
1 TTTTCAAAAATTACCATTTTGACCTCGAAC
** * **
27292495 TTTTTTAAAATTACCATTTTAACCTTAAAC
1 TTTTCAAAAATTACCATTTTGACCTCGAAC
* ** * *
27292525 TTCGT-AAAAATTA-TGTTTTGGCC-CTAAAC
1 TT-TTCAAAAATTACCATTTTGACCTC-GAAC
* *
27292554 TTTTCCAAAATTACCATTTTGCCCTCGAAC
1 TTTTCAAAAATTACCATTTTGACCTCGAAC
* * * *
27292584 -ATCCACAAATTACCA-TTTCACCCTCGAAC
1 TTTTCAAAAATTACCATTTTGA-CCTCGAAC
*
27292613 TTTGCAAAAATTACCATTTT
1 TTTTCAAAAATTACCATTTT
27292633 TCCCTCAAAT
Statistics
Matches: 234, Mismatches: 64, Indels: 34
0.70 0.19 0.10
Matches are distributed among these distances:
28 14 0.06
29 80 0.34
30 121 0.52
31 18 0.08
32 1 0.00
ACGTcount: A:0.34, C:0.23, G:0.06, T:0.36
Consensus pattern (30 bp):
TTTTCAAAAATTACCATTTTGACCTCGAAC
Found at i:27292448 original size:59 final size:58
Alignment explanation
Indices: 27292378--27292573 Score: 168
Period size: 59 Copynumber: 3.3 Consensus size: 58
27292368 GACCTCGAAC
27292378 TTTTCCAAAATTACCATTTTAACCTTAAACTTAGCAAAAATTATGTTTTAGCCCCAAAT
1 TTTTCCAAAATTACCATTTTAACCTTAAACTTAGCAAAAATTATGTTTT-GCCCCAAAT
* * * ** * ** *
27292437 TTTTCTAAAATTA-TATTTT-TCGCTCGAAC--ACCCAAAAATTACCATTTTGACCACAAACT
1 TTTTCCAAAATTACCATTTTAAC-CTTAAACTTA-GCAAAAATTA-TGTTTTG-CCCCAAA-T
* * * * *
27292496 TTTT-TAAAATTACCATTTTAACCTTAAACTTCGTAAAAATTATGTTTTGGCCCTAAAC
1 TTTTCCAAAATTACCATTTTAACCTTAAACTTAGCAAAAATTATGTTTT-GCCCCAAAT
27292554 TTTTCCAAAATTACCATTTT
1 TTTTCCAAAATTACCATTTT
27292574 GCCCTCGAAC
Statistics
Matches: 104, Mismatches: 22, Indels: 22
0.70 0.15 0.15
Matches are distributed among these distances:
56 1 0.01
57 11 0.11
58 32 0.31
59 50 0.48
60 10 0.10
ACGTcount: A:0.35, C:0.20, G:0.05, T:0.39
Consensus pattern (58 bp):
TTTTCCAAAATTACCATTTTAACCTTAAACTTAGCAAAAATTATGTTTTGCCCCAAAT
Found at i:27292512 original size:117 final size:118
Alignment explanation
Indices: 27292354--27292632 Score: 355
Period size: 117 Copynumber: 2.4 Consensus size: 118
27292344 GAACTTTTCT
* *
27292354 AAAATTACCATTTTGACCTCGAACTTTTCCAAAATTACCATTTTAACCTTAAACTTAGCAAAAAT
1 AAAATTACCATTTTGACCACAAACTTTTCCAAAATTACCATTTTAACCTTAAACTTAGCAAAAAT
* * * * *
27292419 TATGTTTTAGCCCCAAATTTTTCTAAAATTA-TATTTTTCGCTCGAACACCCA
66 TATGTTTTAGCCCCAAACTTTTCCAAAATTACCATTTTGCCCTCGAACACCCA
** * *
27292471 AAAATTACCATTTTGACCACAAACTTTTTTAAAATTACCATTTTAACCTTAAACTTCGTAAAAAT
1 AAAATTACCATTTTGACCACAAACTTTTCCAAAATTACCATTTTAACCTTAAACTTAGCAAAAAT
* * *
27292536 TATGTTTTGGCCCTAAACTTTTCCAAAATTACCATTTTGCCCTCGAACATCCA
66 TATGTTTTAGCCCCAAACTTTTCCAAAATTACCATTTTGCCCTCGAACACCCA
* * * * * *
27292589 CAAATTACCA-TTTCACCCTCGAACTTTGCAAAAATTACCATTTT
1 AAAATTACCATTTTGA-CCACAAACTTTTCCAAAATTACCATTTT
27292633 TCCCTCAAAT
Statistics
Matches: 139, Mismatches: 21, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
117 90 0.65
118 49 0.35
ACGTcount: A:0.35, C:0.23, G:0.06, T:0.36
Consensus pattern (118 bp):
AAAATTACCATTTTGACCACAAACTTTTCCAAAATTACCATTTTAACCTTAAACTTAGCAAAAAT
TATGTTTTAGCCCCAAACTTTTCCAAAATTACCATTTTGCCCTCGAACACCCA
Found at i:27292698 original size:29 final size:31
Alignment explanation
Indices: 27292665--27292730 Score: 109
Period size: 30 Copynumber: 2.2 Consensus size: 31
27292655 TTTTCTATCT
27292665 CAAATTTTCC-AAAATTTTGATTTTAAT-CC
1 CAAATTTTCCAAAAATTTTGATTTTAATCCC
*
27292694 CAAATTTTCCAAAAATTTTGATTTTGATCCC
1 CAAATTTTCCAAAAATTTTGATTTTAATCCC
27292725 CAAATT
1 CAAATT
27292731 CCTCAAAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
29 10 0.29
30 16 0.47
31 8 0.24
ACGTcount: A:0.35, C:0.18, G:0.05, T:0.42
Consensus pattern (31 bp):
CAAATTTTCCAAAAATTTTGATTTTAATCCC
Found at i:27292738 original size:31 final size:30
Alignment explanation
Indices: 27292665--27292767 Score: 95
Period size: 30 Copynumber: 3.5 Consensus size: 30
27292655 TTTTCTATCT
*
27292665 CAAATTTTCC-AAAATTTTGATTTTAATCC
1 CAAATTCTCCAAAAATTTTGATTTTAATCC
* *
27292694 CAAATTTTCCAAAAATTTTGATTTTGATCCC
1 CAAATTCTCCAAAAATTTTGATTTTAAT-CC
** *
27292725 CAAATTC-CTCAAAAATTACG-TTTTCATCC
1 CAAATTCTC-CAAAAATTTTGATTTTAATCC
* *
27292754 CGAATTCCCCAAAA
1 CAAATTCTCCAAAA
27292768 CTCTATTTTT
Statistics
Matches: 64, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
29 23 0.36
30 24 0.38
31 17 0.27
ACGTcount: A:0.35, C:0.23, G:0.05, T:0.37
Consensus pattern (30 bp):
CAAATTCTCCAAAAATTTTGATTTTAATCC
Found at i:27297326 original size:21 final size:21
Alignment explanation
Indices: 27297284--27297328 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
27297274 TAATAAATGA
* * *
27297284 ATTTAATACCTAAATTTTTTT
1 ATTTAATACATAAATATATTT
*
27297305 ATTTAATACATTAATATATTT
1 ATTTAATACATAAATATATTT
27297326 ATT
1 ATT
27297329 GCTTTAAATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.56
Consensus pattern (21 bp):
ATTTAATACATAAATATATTT
Found at i:27298412 original size:30 final size:30
Alignment explanation
Indices: 27298376--27298435 Score: 84
Period size: 31 Copynumber: 2.0 Consensus size: 30
27298366 CTATTTTATC
*
27298376 TAAAAATAACATTTTAACCCTTAAACTTTTT
1 TAAAATTAACATTTTAA-CCTTAAACTTTTT
* *
27298407 TAAAATTACCATTTTGACCTTAAACTTTT
1 TAAAATTAACATTTTAACCTTAAACTTTT
27298436 CCAAAATTGC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 12 0.46
31 14 0.54
ACGTcount: A:0.38, C:0.17, G:0.02, T:0.43
Consensus pattern (30 bp):
TAAAATTAACATTTTAACCTTAAACTTTTT
Found at i:27298442 original size:30 final size:30
Alignment explanation
Indices: 27298398--27298880 Score: 131
Period size: 29 Copynumber: 16.5 Consensus size: 30
27298388 TTTAACCCTT
** *
27298398 AAACTTTTTTAAAATTACCATTTTGACCTT
1 AAACTTTTCCAAAATTACCATTTTGACCTC
*
27298428 AAACTTTTCCAAAATT-GCATTTTTG-CCTCC
1 AAACTTTTCCAAAATTACCA-TTTTGACCT-C
**
27298458 AAAC--ACCCAAAAATTACCATTTTGACCTC
1 AAACTTTTCC-AAAATTACCATTTTGACCTC
* * *
27298487 AAACTTTTTCAAAATTACCATTTTAACCTT
1 AAACTTTTCCAAAATTACCATTTTGACCTC
* ** * * *
27298517 GAACTTCACAAAAATTA-CGTTTTGGCCTC
1 AAACTTTTCCAAAATTACCATTTTGACCTC
* ** * *
27298546 GAACTTTTCCAAAA-TGGCATTTTTACCCCC
1 AAACTTTTCCAAAATTACCATTTTGA-CCTC
* ** * *
27298576 GAAC--ACCCAAAAATTACCATTTTAACCCC
1 AAACTTTTCC-AAAATTACCATTTTGACCTC
* *** ** *
27298605 GAACTTTTTTGAAATTGTCATTTTAACCTC
1 AAACTTTTCCAAAATTACCATTTTGACCTC
* *
27298635 GAA-TTTTCCAAAAATTA-CATTTTGGA-CTT
1 AAACTTTTCC-AAAATTACCATTTT-GACCTC
* *
27298664 GAACTTTTCCAAAATTACCATTTTGCCCTC
1 AAACTTTTCCAAAATTACCATTTTGACCTC
* * * *
27298694 GAAC--ATCTAGAAATTACCATTTT-ACCCTT
1 AAACTTTTCCA-AAATTACCATTTTGA-CCTC
* * *
27298723 GAA--TGTCCAAAAATTACCATTTT-ACTCCC
1 AAACTTTTCC-AAAATTACCATTTTGAC-CTC
** * *
27298752 AAACTTCACAAAAATTACCATTTTGGCC-C
1 AAACTTTTCCAAAATTACCATTTTGACCTC
* * *
27298781 CAAC--ATCAAAAAATTACCATTTT-ACCCTC
1 AAACTTTTC-CAAAATTACCATTTTGA-CCTC
* * *
27298810 GAAC--ATCCAAAAATTACCATTTTG-CCTTT
1 AAACTTTTCC-AAAATTACCATTTTGACC-TC
*
27298839 AAA--TTTCCAAAAATTA-CATTTTCGATCTC
1 AAACTTTTCC-AAAATTACCATTTT-GACCTC
27298868 AAA-TTTTCCAAAA
1 AAACTTTTCCAAAA
27298881 GTTTGATTTT
Statistics
Matches: 343, Mismatches: 74, Indels: 73
0.70 0.15 0.15
Matches are distributed among these distances:
27 1 0.00
28 34 0.10
29 166 0.48
30 138 0.40
31 4 0.01
ACGTcount: A:0.35, C:0.25, G:0.06, T:0.35
Consensus pattern (30 bp):
AAACTTTTCCAAAATTACCATTTTGACCTC
Found at i:27298656 original size:29 final size:30
Alignment explanation
Indices: 27298464--27298912 Score: 157
Period size: 29 Copynumber: 15.3 Consensus size: 30
27298454 CTCCAAACAC
* *
27298464 CCAAAAATTACCATTTTGACCTCAAACTTTT
1 CCAAAAATTACCATTTTAACCTCGAA-TTTT
* * *
27298495 TC-AAAATTACCATTTTAACCTTGAA-CTT
1 CCAAAAATTACCATTTTAACCTCGAATTTT
* **
27298523 CACAAAAATTA-CGTTTTGGCCTCGAACTTTT
1 C-CAAAAATTACCATTTTAACCTCGAA-TTTT
** * * ***
27298554 CC-AAAA-TGGCATTTTTACCCCCGAA-CAC
1 CCAAAAATTACCA-TTTTAACCTCGAATTTT
*
27298582 CCAAAAATTACCATTTTAACCCCGAACTTTT
1 CCAAAAATTACCATTTTAACCTCGAA-TTTT
*** **
27298613 -TTGAAATTGTCATTTTAACCTCGAATTTT
1 CCAAAAATTACCATTTTAACCTCGAATTTT
* *
27298642 CCAAAAATTA-CATTTTGGA-CTTGAACTTTT
1 CCAAAAATTACCATTTT-AACCTCGAA-TTTT
** **
27298672 CC-AAAATTACCATTTTGCCCTCGAA-CAT
1 CCAAAAATTACCATTTTAACCTCGAATTTT
* * * * *
27298700 CTAGAAATTACCATTTTACCCTTGAA-TGT
1 CCAAAAATTACCATTTTAACCTCGAATTTT
* **
27298729 CCAAAAATTACCATTTT-A-CTCCCAAACTT
1 CCAAAAATTACCATTTTAACCT-CGAATTTT
** * **
27298758 CACAAAAATTACCATTTTGGCC-CCAA-CAT
1 C-CAAAAATTACCATTTTAACCTCGAATTTT
* * **
27298787 CAAAAAATTACCATTTTACCCTCGAA-CAT
1 CCAAAAATTACCATTTTAACCTCGAATTTT
* ** *
27298816 CCAAAAATTACCATTTT-GCCTTTAAATTT
1 CCAAAAATTACCATTTTAACCTCGAATTTT
* * *
27298845 CCAAAAATTA-CATTTTCGATCTCAAATTTT
1 CCAAAAATTACCATTTT-AACCTCGAATTTT
* ** *
27298875 CCAAAAGTT-TGATTTTAATCC-CAAATTTT
1 CCAAAAATTACCATTTTAA-CCTCGAATTTT
27298904 CCAAAAATT
1 CCAAAAATT
27298913 TCAATTTTGA
Statistics
Matches: 315, Mismatches: 76, Indels: 56
0.70 0.17 0.13
Matches are distributed among these distances:
27 2 0.01
28 37 0.12
29 147 0.47
30 124 0.39
31 4 0.01
32 1 0.00
ACGTcount: A:0.35, C:0.24, G:0.06, T:0.35
Consensus pattern (30 bp):
CCAAAAATTACCATTTTAACCTCGAATTTT
Found at i:27298697 original size:118 final size:118
Alignment explanation
Indices: 27298408--27298777 Score: 360
Period size: 118 Copynumber: 3.1 Consensus size: 118
27298398 AAACTTTTTT
* *
27298408 AAAATTACCATTTT-GACCTTAAACTTTTCCAAAATTGCATTTTTG-CCTCCAAACACCCAAAAA
1 AAAATTA-CATTTTGGA-CTTGAACTTTTCCAAAATTGCATTTTTGCCCT-CGAACACCCAAAAA
* * *
27298471 TTACCATTTTGACCTCAAACTTTTTCAAAATTACCATTTTAACCTTGAACTTCACA
63 TTACCATTTTAACCCCAAACTTTTTCAAAATTACCATTTTAACCTCGAACTTCACA
* * * * * *
27298527 AAAATTACGTTTTGGCCTCGAACTTTTCCAAAATGGCATTTTTACCCCCGAACACCCAAAAATTA
1 AAAATTACATTTTGGACTTGAACTTTTCCAAAATTGCATTTTTGCCCTCGAACACCCAAAAATTA
* ** ** *
27298592 CCATTTTAACCCCGAACTTTTTTGAAATTGTCATTTTAACCTCGAATTTTC-CA
66 CCATTTTAACCCCAAACTTTTTCAAAATTACCATTTTAACCTCGAA-CTTCACA
* * * *
27298645 AAAATTACATTTTGGACTTGAACTTTTCCAAAATTACCA-TTTTGCCCTCGAACATCTAGAAATT
1 AAAATTACATTTTGGACTTGAACTTTTCCAAAATT-GCATTTTTGCCCTCGAACACCCAAAAATT
** * * * *
27298709 ACCATTTT-ACCCTTGAA--TGTCCAAAAATTACCATTTT-ACTCCCAAACTTCACA
65 ACCATTTTAACCC-CAAACTTTTTC-AAAATTACCATTTTAAC-CTCGAACTTCACA
27298762 AAAATTACCATTTTGG
1 AAAATTA-CATTTTGG
27298778 CCCCAACATC
Statistics
Matches: 205, Mismatches: 37, Indels: 19
0.79 0.14 0.07
Matches are distributed among these distances:
116 7 0.03
117 28 0.14
118 155 0.76
119 15 0.07
ACGTcount: A:0.34, C:0.25, G:0.07, T:0.35
Consensus pattern (118 bp):
AAAATTACATTTTGGACTTGAACTTTTCCAAAATTGCATTTTTGCCCTCGAACACCCAAAAATTA
CCATTTTAACCCCAAACTTTTTCAAAATTACCATTTTAACCTCGAACTTCACA
Found at i:27298724 original size:59 final size:59
Alignment explanation
Indices: 27298408--27298833 Score: 300
Period size: 59 Copynumber: 7.3 Consensus size: 59
27298398 AAACTTTTTT
** * ** * *
27298408 AAAATTACCATTTTGACCTTAAACTTTTCCAAAATT-GCATTTTTGCCTCCAAACACCCA
1 AAAATTACCATTTTGACCTCGAACTTTTCCAAAATTACCATTTTAACCT-CGAACATCCA
* * * *
27298467 AAAATTACCATTTTGACCTCAAACTTTTTCAAAATTACCATTTTAACCTTGAACTTCACA
1 AAAATTACCATTTTGACCTCGAACTTTTCCAAAATTACCATTTTAACCTCGAACATC-CA
* * ** * * *
27298527 AAAATTA-CGTTTTGGCCTCGAACTTTTCCAAAA-TGGCATTTTTACCCCCGAACACCCA
1 AAAATTACCATTTTGACCTCGAACTTTTCCAAAATTACCA-TTTTAACCTCGAACATCCA
* * *** ** **
27298585 AAAATTACCATTTTAACCCCGAACTTTTTTGAAATTGTCATTTTAACCTCGAATTTTCCA
1 AAAATTACCATTTTGACCTCGAACTTTTCCAAAATTACCATTTTAACCTCGAA-CATCCA
* ** *
27298645 AAAATTA-CATTTTGGA-CTTGAACTTTTCCAAAATTACCATTTTGCCCTCGAACATCTA
1 AAAATTACCATTTT-GACCTCGAACTTTTCCAAAATTACCATTTTAACCTCGAACATCCA
* * * * * *
27298703 GAAATTACCATTTT-ACCCTTGAA--TGTCCAAAAATTACCATTTT-ACTCCCAAACTTCACA
1 AAAATTACCATTTTGA-CCTCGAACTTTTCC-AAAATTACCATTTTAAC-CTCGAACATC-CA
* * * * *
27298762 AAAATTACCATTTTGGCC-CCAAC--ATCAAAAAATTACCATTTTACCCTCGAACATCCA
1 AAAATTACCATTTTGACCTCGAACTTTTC-CAAAATTACCATTTTAACCTCGAACATCCA
27298819 AAAATTACCATTTTG
1 AAAATTACCATTTTG
27298834 CCTTTAAATT
Statistics
Matches: 287, Mismatches: 63, Indels: 36
0.74 0.16 0.09
Matches are distributed among these distances:
57 23 0.08
58 67 0.23
59 164 0.57
60 33 0.11
ACGTcount: A:0.34, C:0.25, G:0.07, T:0.34
Consensus pattern (59 bp):
AAAATTACCATTTTGACCTCGAACTTTTCCAAAATTACCATTTTAACCTCGAACATCCA
Found at i:27298742 original size:58 final size:58
Alignment explanation
Indices: 27298674--27298860 Score: 202
Period size: 58 Copynumber: 3.2 Consensus size: 58
27298664 GAACTTTTCC
* * * * * *
27298674 AAAATTACCATTTTGCCCTCGAACATCTAGAAATTACCATTTTACCCTTGAATGTCCA
1 AAAATTACCATTTTACCCTCGAACATCCAAAAATTACCATTTTGCCCTTAAATATCCA
* * * * *
27298732 AAAATTACCATTTTACTCC-CAAACTTCACAAAAATTACCATTTTGGCCC--CAACATCAA
1 AAAATTACCATTTTAC-CCTCGAACATC-CAAAAATTACCATTTT-GCCCTTAAATATCCA
* *
27298790 AAAATTACCATTTTACCCTCGAACATCCAAAAATTACCATTTTGCCTTTAAATTTCCA
1 AAAATTACCATTTTACCCTCGAACATCCAAAAATTACCATTTTGCCCTTAAATATCCA
27298848 AAAATTA-CATTTT
1 AAAATTACCATTTT
27298861 CGATCTCAAA
Statistics
Matches: 106, Mismatches: 17, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
56 3 0.03
57 24 0.23
58 60 0.57
59 16 0.15
60 3 0.03
ACGTcount: A:0.37, C:0.26, G:0.05, T:0.33
Consensus pattern (58 bp):
AAAATTACCATTTTACCCTCGAACATCCAAAAATTACCATTTTGCCCTTAAATATCCA
Found at i:27298934 original size:29 final size:28
Alignment explanation
Indices: 27298839--27298932 Score: 98
Period size: 30 Copynumber: 3.2 Consensus size: 28
27298829 TTTTGCCTTT
* *
27298839 AAATTTCCAAAAATTACATTTTCGATCTC
1 AAATTTCCAAAAATTTCATTTT-GATCCC
* * *
27298868 AAATTTTCCAAAAGTTTGATTTTAATCCC
1 AAA-TTTCCAAAAATTTCATTTTGATCCC
27298897 AAATTTTCCAAAAATTTCAATTTTGATCCCC
1 AAA-TTTCCAAAAATTTC-ATTTTGAT-CCC
27298928 AAATT
1 AAATT
27298933 CCTCGAAAAT
Statistics
Matches: 54, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
29 23 0.43
30 25 0.46
31 6 0.11
ACGTcount: A:0.37, C:0.19, G:0.04, T:0.39
Consensus pattern (28 bp):
AAATTTCCAAAAATTTCATTTTGATCCC
Found at i:27300692 original size:29 final size:31
Alignment explanation
Indices: 27300660--27300717 Score: 84
Period size: 29 Copynumber: 1.9 Consensus size: 31
27300650 TTTAATGTGC
*
27300660 AATTATTTACATGAA-TTTTAATT-TGGTGT
1 AATTATATACATGAATTTTTAATTGTGGTGT
*
27300689 AATTATATACGTGAATTTTTAATTGTGGT
1 AATTATATACATGAATTTTTAATTGTGGT
27300718 TCACATGTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 13 0.52
30 8 0.32
31 4 0.16
ACGTcount: A:0.31, C:0.03, G:0.16, T:0.50
Consensus pattern (31 bp):
AATTATATACATGAATTTTTAATTGTGGTGT
Found at i:27301498 original size:32 final size:31
Alignment explanation
Indices: 27301457--27301517 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
27301447 AAGATAAAGT
**
27301457 AAATAATAAATTTATAAAAATAAAATAATTGA
1 AAATAATAAACATAT-AAAATAAAATAATTGA
*
27301489 AAATTATAAACATATAAAATAAAATAATT
1 AAATAATAAACATATAAAATAAAATAATT
27301518 AATTACCTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 14 0.54
32 12 0.46
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (31 bp):
AAATAATAAACATATAAAATAAAATAATTGA
Found at i:27302827 original size:21 final size:19
Alignment explanation
Indices: 27302803--27302845 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
27302793 TTTAAATTTT
27302803 TTTTAAAATATAAATTTTGAA
1 TTTTAAAA-ATAAA-TTTGAA
*
27302824 TTTTAAAAATTAATTTGAA
1 TTTTAAAAATAAATTTGAA
27302843 TTT
1 TTT
27302846 ATGAAAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 9 0.43
20 4 0.19
21 8 0.38
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (19 bp):
TTTTAAAAATAAATTTGAA
Found at i:27302852 original size:20 final size:19
Alignment explanation
Indices: 27302803--27302867 Score: 67
Period size: 20 Copynumber: 3.2 Consensus size: 19
27302793 TTTAAATTTT
*
27302803 TTTTAAAATATAAATTTTGAA
1 TTTTAAAA-ATTAA-TTTGAA
27302824 TTTTAAAAATTAATTTGAA
1 TTTTAAAAATTAATTTGAA
* *
27302843 TTTATGAAAATTATTTTGTAA
1 TTT-TAAAAATTAATTTG-AA
27302864 TTTT
1 TTTT
27302868 TGTTGTGAGA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
19 9 0.23
20 17 0.44
21 13 0.33
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (19 bp):
TTTTAAAAATTAATTTGAA
Found at i:27303579 original size:10 final size:11
Alignment explanation
Indices: 27303556--27303599 Score: 54
Period size: 11 Copynumber: 4.1 Consensus size: 11
27303546 TTTTAAAATG
27303556 TTTATAACTTT
1 TTTATAACTTT
*
27303567 TTTATAATTTT
1 TTTATAACTTT
*
27303578 TTTATGA-TTT
1 TTTATAACTTT
*
27303588 TTAATAACTTT
1 TTTATAACTTT
27303599 T
1 T
27303600 AAAATTTAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
10 8 0.29
11 20 0.71
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.66
Consensus pattern (11 bp):
TTTATAACTTT
Found at i:27305436 original size:29 final size:28
Alignment explanation
Indices: 27305381--27305651 Score: 165
Period size: 30 Copynumber: 9.4 Consensus size: 28
27305371 CCCAGTGGGT
* *
27305381 CCCTAAACTTTCCAAAAAT-CATGTTTTGA
1 CCCTAAATTTTCCAAAATTACA--TTTTGA
*
27305410 CCTTAAATATTTCCAAAATTACATTTTGA
1 CCCTAAAT-TTTCCAAAATTACATTTTGA
* * *
27305439 CACCCAAACTTTT-TAAAATTATA-TTTGA
1 C-CCTAAA-TTTTCCAAAATTACATTTTGA
* * *
27305467 CCCTCAAA-CTCCCAAAATCACATTTTGA
1 CCCT-AAATTTTCCAAAATTACATTTTGA
* * * **
27305495 TGCCAAAACTTCTCCAAAATTGTATTTTGA
1 -CCCTAAA-TTTTCCAAAATTACATTTTGA
* * *
27305525 CCCCTAAACTTTTCCAAAATTATAATTTAA
1 -CCCTAAA-TTTTCCAAAATTACATTTTGA
* *
27305555 CCCCTAAATTTCTCTAAAATTATATTTTGA
1 -CCCTAAATTT-TCCAAAATTACATTTTGA
* * *
27305585 CCCCAAA-CTTCCTAAAATTACATCTTGA
1 CCCTAAATTTTCC-AAAATTACATTTTGA
*
27305613 CCCTAAACTTTTCCAAAATTACATTTTAA
1 CCCTAAA-TTTTCCAAAATTACATTTTGA
*
27305642 CCCCAAATTT
1 CCCTAAATTT
27305652 CCTGAAACTT
Statistics
Matches: 187, Mismatches: 41, Indels: 29
0.73 0.16 0.11
Matches are distributed among these distances:
26 1 0.01
27 11 0.06
28 40 0.21
29 51 0.27
30 81 0.43
31 3 0.02
ACGTcount: A:0.36, C:0.24, G:0.04, T:0.36
Consensus pattern (28 bp):
CCCTAAATTTTCCAAAATTACATTTTGA
Found at i:27314972 original size:39 final size:39
Alignment explanation
Indices: 27314846--27315273 Score: 189
Period size: 39 Copynumber: 11.0 Consensus size: 39
27314836 TCTCTAACCT
* ** * *
27314846 CGAGCCTAGGCCAGATTGTAGTCATCCGATCTTTTATCC
1 CGAGCCTAGGGCAGATTACAGCCATCCGATCTTTTACCC
* * * * * * *
27314885 TGAG-CTTGGGACAAATTACCATCAAT-CAATCTCTTA-CC
1 CGAGCCTAGGG-CAGATTA-CAGCCATCCGATCTTTTACCC
*
27314923 CGAGCTTAGGGCAGATTACAGCCATCCGATCTTTTACCC
1 CGAGCCTAGGGCAGATTACAGCCATCCGATCTTTTACCC
* * * * *
27314962 CGAGCCTAGGGCAGATCACCA-TCAGCCAATCTCTTACCC
1 CGAGCCTAGGGCAGATTA-CAGCCATCCGATCTTTTACCC
* * *
27315001 CGAG-CTTGAGGCAGATTGCAGCGATCCGATCTTTTACCC
1 CGAGCCTAG-GGCAGATTACAGCCATCCGATCTTTTACCC
* * * * * * *
27315040 CGAG-CTTGAGGCAGATCACCA-TCACCCAATCTCTTACCT
1 CGAGCCTAG-GGCAGATTA-CAGCCATCCGATCTTTTACCC
* * * * *
27315079 CGAGCTTGGGGCAGATTGCAGCCATCTGATCTTTTA-TC
1 CGAGCCTAGGGCAGATTACAGCCATCCGATCTTTTACCC
* * * * * * * * *
27315117 CTAACTTTGGGGCAGATAACCA-TCAGCCAATCTCTTACCC
1 CGAGC-CTAGGGCAGATTA-CAGCCATCCGATCTTTTACCC
* * *
27315157 CGAGCCTTGGGCAAATCGA-AGCCATCCGATCTTTTACCC
1 CGAGCCTAGGGCAGAT-TACAGCCATCCGATCTTTTACCC
* * * * *
27315196 CGAGCCTGGGGTAGA-T-CA-CCATCAGCCACACTCTTACCC
1 CGAGCCTAGGGCAGATTACAGCCATC--CGA-TCTTTTACCC
**
27315235 CGAGCCTAGGGCAGATTGTAGCCATCCGATCTTTTACCC
1 CGAGCCTAGGGCAGATTACAGCCATCCGATCTTTTACCC
27315274 ATAACCTGAG
Statistics
Matches: 281, Mismatches: 85, Indels: 46
0.68 0.21 0.11
Matches are distributed among these distances:
36 5 0.02
37 6 0.02
38 36 0.13
39 209 0.74
40 19 0.07
41 1 0.00
42 5 0.02
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.25
Consensus pattern (39 bp):
CGAGCCTAGGGCAGATTACAGCCATCCGATCTTTTACCC
Found at i:27315035 original size:78 final size:78
Alignment explanation
Indices: 27314832--27315550 Score: 569
Period size: 78 Copynumber: 9.2 Consensus size: 78
27314822 ATTGAAGATT
* * * * * * * *
27314832 CCAATCTCTAACCTCGAGCCT-AGGCCAGATTGTAGTCATCCGATCTTTTATCCTGAG-CTTGGG
1 CCAATCTCTTACCCCGAGCTTGAGG-CAGATTGCAGCCATCCGATCTTTTACCCCGAGCCTAGGG
* * *
27314895 ACAAATTACCATCAA
65 -CAGATCACCATCAG
* *
27314910 TCAATCTCTTA-CCCGAGCTT-AGGGCAGATTACAGCCATCCGATCTTTTACCCCGAGCCTAGGG
1 CCAATCTCTTACCCCGAGCTTGA-GGCAGATTGCAGCCATCCGATCTTTTACCCCGAGCCTAGGG
27314973 CAGATCACCATCAG
65 CAGATCACCATCAG
* *
27314987 CCAATCTCTTACCCCGAGCTTGAGGCAGATTGCAGCGATCCGATCTTTTACCCCGAG-CTTGAGG
1 CCAATCTCTTACCCCGAGCTTGAGGCAGATTGCAGCCATCCGATCTTTTACCCCGAGCCTAG-GG
*
27315051 CAGATCACCATCAC
65 CAGATCACCATCAG
* * * * * * * *
27315065 CCAATCTCTTACCTCGAGCTTGGGGCAGATTGCAGCCATCTGATCTTTTA-TCCTAACTTTGGGG
1 CCAATCTCTTACCCCGAGCTTGAGGCAGATTGCAGCCATCCGATCTTTTACCCCGAGC-CTAGGG
*
27315129 CAGATAACCATCAG
65 CAGATCACCATCAG
* * * *
27315143 CCAATCTCTTACCCCGAGCCTTG-GGCAAATCGAAGCCATCCGATCTTTTACCCCGAGCCTGGGG
1 CCAATCTCTTACCCCGAG-CTTGAGGCAGATTGCAGCCATCCGATCTTTTACCCCGAGCCTAGGG
*
27315207 TAGATCACCATCAG
65 CAGATCACCATCAG
* * ** *
27315221 CCACA-CTCTTACCCCGAGCCT-AGGGCAGATTGTAGCCATCCGATCTTTTACCCATAACCT-GA
1 CCA-ATCTCTTACCCCGAGCTTGA-GGCAGATTGCAGCCATCCGATCTTTTACCCCGAGCCTAG-
* *
27315283 GGTAGATCACCATCAA
63 GGCAGATCACCATCAG
* * * * * * * * *
27315299 TCAATCTCTTACTCTGAG-TCTGAGACAAATTGTAGCCATCCGATCTCTTACCCTGA--TTATGG
1 CCAATCTCTTACCCCGAGCT-TGAGGCAGATTGCAGCCATCCGATCTTTTACCCCGAGCCTA-GG
* *
27315361 TGCAGATCACAATCAT
64 -GCAGATCACCATCAG
* * * * *
27315377 CCAATCTTTTACCTCGAGCTTGGGGCAGA-T-CA-CCATCGGCCAATCTCTTACCCCGAGCCTAG
1 CCAATCTCTTACCCCGAGCTTGAGGCAGATTGCAGCCAT---CCGATCTTTTACCCCGAGCCTAG
*
27315439 GGCAAATCACCATCAG
63 GGCAGATCACCATCAG
* * * * * * *
27315455 CCAATCTCTTATCCCGAG-TCTGA-GCAGATTACAACCATCCGATCTTTTACCCCAATCATAAGG
1 CCAATCTCTTACCCCGAGCT-TGAGGCAGATTGCAGCCATCCGATCTTTTACCCCGAGCCTAGGG
*
27315518 TAGATCA-CAGTCA-
65 CAGATCACCA-TCAG
*
27315531 CCTGATCTCTTACCCCGAGC
1 CC-AATCTCTTACCCCGAGC
27315551 CATGAGACAA
Statistics
Matches: 519, Mismatches: 90, Indels: 64
0.77 0.13 0.10
Matches are distributed among these distances:
75 4 0.01
76 6 0.01
77 115 0.22
78 370 0.71
79 18 0.03
80 6 0.01
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.25
Consensus pattern (78 bp):
CCAATCTCTTACCCCGAGCTTGAGGCAGATTGCAGCCATCCGATCTTTTACCCCGAGCCTAGGGC
AGATCACCATCAG
Found at i:27315405 original size:39 final size:37
Alignment explanation
Indices: 27315362--27315472 Score: 114
Period size: 39 Copynumber: 2.9 Consensus size: 37
27315352 TGATTATGGT
* *
27315362 GCAGATCACAATCATCCAATCTTTTACCTCGAGCTTGGG
1 GCAGATCACAATCAGCCAATCTCTTACC-CGAGCTT-GG
* * *
27315401 GCAGATCACCATCGGCCAATCTCTTACCCCGAGCCTAGG
1 GCAGATCACAATCAGCCAATCTCTTA-CCCGAG-CTTGG
* *
27315440 GCAAATCACCATCAGCCAATCTCTTATCCCGAG
1 GCAGATCACAATCAGCCAATCTCTTA-CCCGAG
27315473 TCTGAGCAGA
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
39 58 0.94
40 4 0.06
ACGTcount: A:0.26, C:0.34, G:0.17, T:0.23
Consensus pattern (37 bp):
GCAGATCACAATCAGCCAATCTCTTACCCGAGCTTGG
Found at i:27317517 original size:29 final size:29
Alignment explanation
Indices: 27317483--27317695 Score: 94
Period size: 30 Copynumber: 7.2 Consensus size: 29
27317473 AGAAATCATG
* *
27317483 TTTTAA-CCATAAATGTTTTTAAAATTGTA
1 TTTTAACCCATAAA-CTTTTTAAAATTATA
*
27317512 TTTTAACCCTTAAACTTTTTAAAATTATA
1 TTTTAACCCATAAACTTTTTAAAATTATA
* ** * ** * *
27317541 TTTTGACCTTTGAACTTTCCAAAAATCACA
1 TTTTAACCCATAAACTTT-TTAAAATTATA
* ** *
27317571 TTTTAACCCCA-AAACATCTCCAAAATTACA
1 TTTTAA-CCCATAAAC-TTTTTAAAATTATA
* * *
27317601 TTTTGACCTC-TAAA-TTTATCCAAAATTACA
1 TTTTAACC-CATAAACTTT-T-TAAAATTATA
* * *
27317631 TTTTAACCCTTAAATTTATTTAAAATTACA
1 TTTTAACCCATAAACTT-TTTAAAATTATA
* *
27317661 TTTTAACCCCTAAA-TTCCTTCAAAATTATA
1 TTTTAACCCATAAACTT--TTTAAAATTATA
27317691 TTTTA
1 TTTTA
27317696 GCCCCAAACT
Statistics
Matches: 146, Mismatches: 26, Indels: 23
0.75 0.13 0.12
Matches are distributed among these distances:
28 2 0.01
29 39 0.27
30 97 0.66
31 7 0.05
32 1 0.01
ACGTcount: A:0.38, C:0.18, G:0.02, T:0.42
Consensus pattern (29 bp):
TTTTAACCCATAAACTTTTTAAAATTATA
Found at i:27317656 original size:60 final size:58
Alignment explanation
Indices: 27317511--27317752 Score: 202
Period size: 60 Copynumber: 4.1 Consensus size: 58
27317501 TTAAAATTGT
* * * * *
27317511 ATTTTAACCCTTAAACTTTTTAAAATTATATTTTGACCTTTGAACTTTCCAAAAATCAC
1 ATTTTAACCCTTAAACTTTTTAAAATTACATTTTGACCTCTAAATTTTCC-AAAATTAC
** * **
27317570 ATTTTAACCCCAAAACATCTCCAAAATTACATTTTGACCTCTAAATTTATCCAAAATTAC
1 ATTTTAACCCTTAAAC-TTTTTAAAATTACATTTTGACCTCTAAATTT-TCCAAAATTAC
* * * *
27317630 ATTTTAACCCTTAAATTTATTTAAAATTACATTTTAACCCCTAAATTCCTT-CAAAATTAT
1 ATTTTAACCCTTAAACTT-TTTAAAATTACATTTTGACCTCTAAATT--TTCCAAAATTAC
* * ** * * *
27317690 ATTTTAGCCC-CAAACTTTCCCAAGATTACATCTTGACC-CTAAACTTTTCCAAAATTGC
1 ATTTTAACCCTTAAACTTT-TTAAAATTACATTTTGACCTCTAAA-TTTTCCAAAATTAC
27317748 ATTTT
1 ATTTT
27317753 GATCCTGAAT
Statistics
Matches: 146, Mismatches: 29, Indels: 17
0.76 0.15 0.09
Matches are distributed among these distances:
57 2 0.01
58 18 0.12
59 36 0.25
60 85 0.58
61 4 0.03
62 1 0.01
ACGTcount: A:0.36, C:0.22, G:0.03, T:0.39
Consensus pattern (58 bp):
ATTTTAACCCTTAAACTTTTTAAAATTACATTTTGACCTCTAAATTTTCCAAAATTAC
Found at i:27317754 original size:29 final size:29
Alignment explanation
Indices: 27317511--27317752 Score: 163
Period size: 30 Copynumber: 8.2 Consensus size: 29
27317501 TTAAAATTGT
* *
27317511 ATTTTAACCCTTAAACTTTT-TAAAATTAT
1 ATTTTAACCC-TAAACTTTTCCAAAATTAC
* * * *
27317540 ATTTTGACCTTTGAAC-TTTCCAAAAATCAC
1 ATTTTAACC-CTAAACTTTTCC-AAAATTAC
* * *
27317570 ATTTTAACCCCAAAACATCTCCAAAATTAC
1 ATTTTAA-CCCTAAACTTTTCCAAAATTAC
*
27317600 ATTTTGACCTCTAAA-TTTATCCAAAATTAC
1 ATTTTAACC-CTAAACTTT-TCCAAAATTAC
**
27317630 ATTTTAACCCTTAAA-TTTATTTAAAATTAC
1 ATTTTAACCC-TAAACTTT-TCCAAAATTAC
*
27317660 ATTTTAACCCCTAAA-TTCCTT-CAAAATTAT
1 ATTTTAA-CCCTAAACTT--TTCCAAAATTAC
* * * *
27317690 ATTTTAGCCCCAAACTTTCCCAAGATTAC
1 ATTTTAACCCTAAACTTTTCCAAAATTAC
* * *
27317719 ATCTTGACCCTAAACTTTTCCAAAATTGC
1 ATTTTAACCCTAAACTTTTCCAAAATTAC
27317748 ATTTT
1 ATTTT
27317753 GATCCTGAAT
Statistics
Matches: 166, Mismatches: 34, Indels: 26
0.73 0.15 0.12
Matches are distributed among these distances:
28 4 0.02
29 55 0.33
30 96 0.58
31 10 0.06
32 1 0.01
ACGTcount: A:0.36, C:0.22, G:0.03, T:0.39
Consensus pattern (29 bp):
ATTTTAACCCTAAACTTTTCCAAAATTAC
Found at i:27319644 original size:32 final size:31
Alignment explanation
Indices: 27319578--27319647 Score: 79
Period size: 32 Copynumber: 2.2 Consensus size: 31
27319568 GCATAATTAA
* *
27319578 ATTTACAAATAATTTATTAATTATTAAAACT
1 ATTTAAAAATAATGTATTAATTATTAAAACT
* *
27319609 ATTTAAAAGATAATGTA-TAATTATATTAAATT
1 ATTTAAAA-ATAATGTATTAATTAT-TAAAACT
27319641 ATTTAAA
1 ATTTAAA
27319648 TAAAATATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
31 14 0.42
32 19 0.58
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (31 bp):
ATTTAAAAATAATGTATTAATTATTAAAACT
Found at i:27320655 original size:3 final size:3
Alignment explanation
Indices: 27320649--27320679 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
27320639 CTAAAAAATG
27320649 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
27320680 CATGACATAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:27322768 original size:123 final size:122
Alignment explanation
Indices: 27322546--27322826 Score: 341
Period size: 123 Copynumber: 2.3 Consensus size: 122
27322536 TATTTCTCTA
* * *
27322546 TATCTCATCAAGAAGAAGGGGTTTGAAGTTTTACTCACATGGAGATTCGCTTTATTATTTTGGTC
1 TATCTCATCAAGAAGAAGGAGTTTGAAGTTTTACTCACATGGAGATTCGCCTCATTATTTTGGTC
* * *
27322611 TACTTCTCTGTATCTCATCAGGAAGATGACCGCTTCGTTGTCTGACTCACTTATCTG
66 CACTTCTCTGTATCTCATCAGGAAAATGACCGCTTCGTTGTCTGACCCACTTATCTG
* * * ** *
27322668 TATCTCATC-AGAAAGATGGAGTTTGAAGTTTTACTCACATTTGAGCTTTTCCTCATTTTTTTGG
1 TATCTCATCAAG-AAGAAGGAGTTTGAAGTTTTACTCACA-TGGAGATTCGCCTCATTATTTTGG
* * * *
27322732 TCCACTTCTCTGTATCTCATCAGGAAAATGATCGCTTCGTTGTTTGACCCACTTTTTTG
64 TCCACTTCTCTGTATCTCATCAGGAAAATGACCGCTTCGTTGTCTGACCCACTTATCTG
* * * *
27322791 TACCTCACCAAGAAGATAGGA-TTAGAAGTTTCACTC
1 TATCTCATCAAGAAGA-AGGAGTTTGAAGTTTTACTC
27322827 CACTCTACTA
Statistics
Matches: 134, Mismatches: 21, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
121 2 0.01
122 34 0.25
123 93 0.69
124 5 0.04
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.38
Consensus pattern (122 bp):
TATCTCATCAAGAAGAAGGAGTTTGAAGTTTTACTCACATGGAGATTCGCCTCATTATTTTGGTC
CACTTCTCTGTATCTCATCAGGAAAATGACCGCTTCGTTGTCTGACCCACTTATCTG
Found at i:27323207 original size:220 final size:221
Alignment explanation
Indices: 27322860--27323265 Score: 602
Period size: 220 Copynumber: 1.8 Consensus size: 221
27322850 GTTGAGCTTG
* * * *
27322860 GCTTCGTTGTTTCGATTTAACATACTGTATTGACCCACTTCTCTGTACCTCACTAGAAAGATGTG
1 GCTTCGTTGTTTCGATTCAACACACTGTATTGACCCACTTCTCTATACCTCACCAGAAAGATGTG
* *
27322925 AATTCGAAATTTCATTCCACTCCACTGTATCCTCAGGGACGTTGAGCTCTGCTTCATTATTTTAA
66 AATTCGAAATCTCACTCCACTCCACTGTATCCTCAGGGACGTTGAGCTCTGCTTCATTATTTTAA
* *
27322990 TTCAACACACTGTTTTGACCCACTTCTCTGTACCTCACCAGGAATATGGGATTTGAAATCTCACT
131 TTCAACACACTG-TTTGACCCACTTCTCTGTACCTCACCAAGAAAATGGGATTTGAAATCTCACT
27323055 CCTCTTTACTGTATCCTTAGGGACGTT
195 CCTCTTTACTGTATCCTTAGGGACGTT
* ** *
27323082 GCTTCGTTTTTTTTATTCAACACACTGT-TTGACCCACTTCTCTATACCTCACCAGGAAGATG-G
1 GCTTCGTTGTTTCGATTCAACACACTGTATTGACCCACTTCTCTATACCTCACCAGAAAGATGTG
* * * * * *
27323145 GATTTGAAGTCTCACTCCACTTCACTGTATCCTCAGGGACGTTGAGCT-TGGCTTCGTTATTTTG
66 AATTCGAAATCTCACTCCACTCCACTGTATCCTCAGGGACGTTGAGCTCT-GCTTCATTATTTTA
*
27323209 ATTCAACACATTGTTTGACCCACTTCTCTGTACCTCACCAAGAAAATGGGATTTGAA
130 ATTCAACACACTGTTTGACCCACTTCTCTGTACCTCACCAAGAAAATGGGATTTGAA
27323266 GTTTTACTCC
Statistics
Matches: 164, Mismatches: 19, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
219 43 0.26
220 67 0.41
221 31 0.19
222 23 0.14
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.35
Consensus pattern (221 bp):
GCTTCGTTGTTTCGATTCAACACACTGTATTGACCCACTTCTCTATACCTCACCAGAAAGATGTG
AATTCGAAATCTCACTCCACTCCACTGTATCCTCAGGGACGTTGAGCTCTGCTTCATTATTTTAA
TTCAACACACTGTTTGACCCACTTCTCTGTACCTCACCAAGAAAATGGGATTTGAAATCTCACTC
CTCTTTACTGTATCCTTAGGGACGTT
Found at i:27323245 original size:113 final size:113
Alignment explanation
Indices: 27322772--27323320 Score: 630
Period size: 113 Copynumber: 4.9 Consensus size: 113
27322762 ATCGCTTCGT
* * * * *
27322772 TGTTTGACCCACTTTTTTGTACCTCACCAAGAAGATAGGATTAGAAGTTTCACTCCAC-TCTACT
1 TGTTTGACCCACTTCTCTGTACCTCACCAGGAAGATGGGATTTGAAGTTTCACTCCACTTC-ACT
* * * * * * *
27322836 ATATCCTCTGGGCCGTTGAGCTTGGCTTCGTTGTTTCGATTTAACATAC
65 GTATCCTCAGGGACGTTGAGCTTGGCTTCGTTATTTTGATTCAACACAC
* * * * * * *
27322885 TGTATTGACCCACTTCTCTGTACCTCACTAGAAAGATGTGAATTCGAAATTTCATTCCACTCCAC
1 TGT-TTGACCCACTTCTCTGTACCTCACCAGGAAGATG-GGATTTGAAGTTTCACTCCACTTCAC
* *
27322950 TGTATCCTCAGGGACGTTGAGCTCT-GCTTCATTATTTTAATTCAACACAC
64 TGTATCCTCAGGGACGTTGAGCT-TGGCTTCGTTATTTTGATTCAACACAC
* * * * *
27323000 TGTTTTGACCCACTTCTCTGTACCTCACCAGGAATATGGGATTTGAAATCTCACTCCTCTTTACT
1 TG-TTTGACCCACTTCTCTGTACCTCACCAGGAAGATGGGATTTGAAGTTTCACTCCACTTCACT
* *
27323065 GTATCCTTAGGGACGTT--GCTTCG-TT--TT-TTTT-ATTCAACACAC
65 GTATCCTCAGGGACGTTGAGCTTGGCTTCGTTATTTTGATTCAACACAC
* *
27323107 TGTTTGACCCACTTCTCTATACCTCACCAGGAAGATGGGATTTGAAGTCTCACTCCACTTCACTG
1 TGTTTGACCCACTTCTCTGTACCTCACCAGGAAGATGGGATTTGAAGTTTCACTCCACTTCACTG
*
27323172 TATCCTCAGGGACGTTGAGCTTGGCTTCGTTATTTTGATTCAACACAT
66 TATCCTCAGGGACGTTGAGCTTGGCTTCGTTATTTTGATTCAACACAC
* * * *
27323220 TGTTTGACCCACTTCTCTGTACCTCACCAAGAAAATGGGATTTGAAGTTTTACTCCACTCCACTG
1 TGTTTGACCCACTTCTCTGTACCTCACCAGGAAGATGGGATTTGAAGTTTCACTCCACTTCACTG
* * * * *
27323285 TATCCTCAAGGACATGGAGCTCGGCTTCGTTGTTTT
66 TATCCTCAGGGACGTTGAGCTTGGCTTCGTTATTTT
27323321 AATCTACTTC
Statistics
Matches: 373, Mismatches: 50, Indels: 26
0.83 0.11 0.06
Matches are distributed among these distances:
106 73 0.20
107 13 0.03
108 9 0.02
109 4 0.01
111 5 0.01
112 8 0.02
113 103 0.28
114 64 0.17
115 91 0.24
116 3 0.01
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (113 bp):
TGTTTGACCCACTTCTCTGTACCTCACCAGGAAGATGGGATTTGAAGTTTCACTCCACTTCACTG
TATCCTCAGGGACGTTGAGCTTGGCTTCGTTATTTTGATTCAACACAC
Found at i:27323694 original size:100 final size:99
Alignment explanation
Indices: 27323533--27323783 Score: 297
Period size: 99 Copynumber: 2.5 Consensus size: 99
27323523 TACGGTTCTT
* * * *
27323533 GATTTGTCGTTGCAGCCTCAATCCTTCCTATCACATCTTCTAAGGTATAGGGTTCGTCGTTG-CA
1 GATTTGTCGTTGCAGCCTCAATCCTTCCCATCACATCTTCTAAGGTACAAGGTTCGCCGTTGTCA
*
27323597 GCTTCAACCTTTCCCCTTTATATCTTAATGATACTG
66 GCTT-AA-CTTTCCCCTTTATATCTTAATGATACCG
* * * * **
27323633 GATTTGTCGTTGCAACCTCAATCCTTCCCATCACATCTTTTAAGGTGCAAGGTTTGCCGTTGTGG
1 GATTTGTCGTTGCAGCCTCAATCCTTCCCATCACATCTTCTAAGGTACAAGGTTCGCCGTTGTCA
* * * * *
27323698 GCTTAATTTTTCCCTTTATCTCTTTATGGTACCG
66 GCTTAACTTTCCCCTTTATATCTTAATGATACCG
* * **
27323732 GATTCGTCATTGTGGCCTCAATCCTTCCCATCACATCTTCTAAGGTACAAGG
1 GATTTGTCGTTGCAGCCTCAATCCTTCCCATCACATCTTCTAAGGTACAAGG
27323784 ATCGTCATTG
Statistics
Matches: 127, Mismatches: 23, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
99 67 0.53
100 56 0.44
101 4 0.03
ACGTcount: A:0.20, C:0.26, G:0.17, T:0.37
Consensus pattern (99 bp):
GATTTGTCGTTGCAGCCTCAATCCTTCCCATCACATCTTCTAAGGTACAAGGTTCGCCGTTGTCA
GCTTAACTTTCCCCTTTATATCTTAATGATACCG
Found at i:27323790 original size:50 final size:49
Alignment explanation
Indices: 27323648--27323793 Score: 125
Period size: 49 Copynumber: 2.9 Consensus size: 49
27323638 GTCGTTGCAA
* * * * *
27323648 CCTCAATCCTTCCCATCACATCTTTTAAGGTGCAAGGTTTGCCGTTGTGG
1 CCTCAATCCTTCCCATCACATC-TTTAAGGTACAAGGATCGTCATTGTGG
* * ** * * * *
27323698 GCTTAATTTTTCCCTTTATC-TCTTTATGGTAC-CGGATTCGTCATTGTGG
1 CCTCAATCCTTCCCATCA-CATCTTTAAGGTACAAGGA-TCGTCATTGTGG
27323747 CCTCAATCCTTCCCATCACATCTTCTAAGGTACAAGGATCGTCATTG
1 CCTCAATCCTTCCCATCACATCTT-TAAGGTACAAGGATCGTCATTG
27323794 CAACCTCAAC
Statistics
Matches: 70, Mismatches: 21, Indels: 10
0.69 0.21 0.10
Matches are distributed among these distances:
48 3 0.04
49 33 0.47
50 30 0.43
51 4 0.06
ACGTcount: A:0.19, C:0.27, G:0.17, T:0.37
Consensus pattern (49 bp):
CCTCAATCCTTCCCATCACATCTTTAAGGTACAAGGATCGTCATTGTGG
Found at i:27323814 original size:99 final size:99
Alignment explanation
Indices: 27323533--27323815 Score: 296
Period size: 99 Copynumber: 2.8 Consensus size: 99
27323523 TACGGTTCTT
* * * * *
27323533 GATTTGTCGTTGCAGCCTCAATCCTTCCTATCACATCTTCTAAGGTATAGGGTTCGTCGTTGCAG
1 GATTCGTCATTGCAGCCTCAATCCTTCCCATCACATCTTCTAAGGTACAAGGTTCGTCGTTGCAG
* *
27323598 CTTCAACCTTTCCCCTTTATATCTTAATGATACTG
66 CCTCAACCTTT-CCCTTTATATCTTAATGATACCG
* * * * * * * **
27323633 GATTTGTCGTTGCAACCTCAATCCTTCCCATCACATCTTTTAAGGTGCAAGGTTTGCCGTTGTGG
1 GATTCGTCATTGCAGCCTCAATCCTTCCCATCACATCTTCTAAGGTACAAGGTTCGTCGTTGCAG
* * ** * * *
27323698 GCTTAATTTTTCCCTTTATCTCTTTATGGTACCG
66 CCTCAACCTTTCCCTTTATATCTTAATGATACCG
** * * *
27323732 GATTCGTCATTGTGGCCTCAATCCTTCCCATCACATCTTCTAAGGTACAAGGATCGTCATTGCAA
1 GATTCGTCATTGCAGCCTCAATCCTTCCCATCACATCTTCTAAGGTACAAGGTTCGTCGTTGCAG
*
27323797 CCTCAACCTTTCTCTTTAT
66 CCTCAACCTTTCCCTTTAT
27323816 TTCCATGGTG
Statistics
Matches: 145, Mismatches: 38, Indels: 1
0.79 0.21 0.01
Matches are distributed among these distances:
99 84 0.58
100 61 0.42
ACGTcount: A:0.20, C:0.27, G:0.16, T:0.38
Consensus pattern (99 bp):
GATTCGTCATTGCAGCCTCAATCCTTCCCATCACATCTTCTAAGGTACAAGGTTCGTCGTTGCAG
CCTCAACCTTTCCCTTTATATCTTAATGATACCG
Found at i:27323950 original size:196 final size:199
Alignment explanation
Indices: 27323547--27323954 Score: 425
Period size: 196 Copynumber: 2.1 Consensus size: 199
27323537 TGTCGTTGCA
* * * * * * *
27323547 GCCTCAATCCTTCCTATCACATCTTCTAAGGTATAGGGTTCGTCGTTGCAGCTTCAACCTTTCCC
1 GCCTCAATCCTTCCCATCACATCTTCTAAGGTACAAGGATCGTCATTGCAACCTCAACCTTTCCC
* * * * * *
27323612 CTTTATATCTTAATGATACTGGATTTGTCGTTGCAACCTCAATCCTTCCCATCACATCTTTTAAG
66 CTTTATATCTCAATGATACTAGATCTGTCGTTACAACCTCAATACTTCCCATCACATCTTCTAAG
** * ** * * ** *
27323677 GTGCAAGGTTTGCCGTTGTGGGCTTAATTTTTCCCTTTATCTCTTTATGGTACCGGATTCGTCAT
131 GTAAAAGGCTTGCCGTTGTGGGCTTAACCTTTCCCTTTATCTCTTCAAGGTACCAAATTCGCCAT
*
27323742 TGTG
196 TGAG
*
27323746 GCCTCAATCCTTCCCATCACATCTTCTAAGGTACAAGGATCGTCATTGCAACCTCAACCTTT-CT
1 GCCTCAATCCTTCCCATCACATCTTCTAAGGTACAAGGATCGTCATTGCAACCTCAACCTTTCCC
* * * * * * *
27323810 CTTTAT-T-TCCATGGTGCTAGATCTGTCGTTACGACCTCGATATTTCCCATCATATCTTCTAAG
66 CTTTATATCTCAATGATACTAGATCTGTCGTTACAACCTCAATACTTCCCATCACATCTTCTAAG
* *
27323873 GTAAAAGGCTTGTCGTTGT-GGCTTCAACCTTTCCCTTCGTAT-T-TTCAAGGTATCAAATTCGC
131 GTAAAAGGCTTGCCGTTGTGGGCTT-AACCTTTCCCTT--TATCTCTTCAAGGTACCAAATTCGC
*
27323935 CGTTGAG
193 CATTGAG
27323942 GCCTCAAT-CTTCC
1 GCCTCAATCCTTCC
27323955 TTGTCAAACC
Statistics
Matches: 171, Mismatches: 35, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
195 10 0.06
196 94 0.55
197 2 0.01
198 10 0.06
199 55 0.32
ACGTcount: A:0.20, C:0.27, G:0.16, T:0.37
Consensus pattern (199 bp):
GCCTCAATCCTTCCCATCACATCTTCTAAGGTACAAGGATCGTCATTGCAACCTCAACCTTTCCC
CTTTATATCTCAATGATACTAGATCTGTCGTTACAACCTCAATACTTCCCATCACATCTTCTAAG
GTAAAAGGCTTGCCGTTGTGGGCTTAACCTTTCCCTTTATCTCTTCAAGGTACCAAATTCGCCAT
TGAG
Found at i:27326848 original size:51 final size:51
Alignment explanation
Indices: 27326767--27326870 Score: 145
Period size: 51 Copynumber: 2.0 Consensus size: 51
27326757 CTATAAATGA
* * *
27326767 AAAGGTCCGATGATTAAATGTCATCGTGAGTAAATGAATCATTTATGGATT
1 AAAGGTCCAATGACTAAATGTCATCCTGAGTAAATGAATCATTTATGGATT
* * * *
27326818 AAAGGTCCAATGACTAAGTTTCATCCTGAGTGAATGAATCCTTTATGGATT
1 AAAGGTCCAATGACTAAATGTCATCCTGAGTAAATGAATCATTTATGGATT
27326869 AA
1 AA
27326871 TGGTTTGTAA
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 46 1.00
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33
Consensus pattern (51 bp):
AAAGGTCCAATGACTAAATGTCATCCTGAGTAAATGAATCATTTATGGATT
Found at i:27328273 original size:32 final size:33
Alignment explanation
Indices: 27328232--27328293 Score: 99
Period size: 32 Copynumber: 1.9 Consensus size: 33
27328222 AATGGTCAAC
*
27328232 AGTCAATGGTCAGTCAACGCTTGGTCAACGGTT
1 AGTCAATGGTCAGTCAACGCTCGGTCAACGGTT
*
27328265 AGTC-ATGGTCGGTCAACGCTCGGTCAACG
1 AGTCAATGGTCAGTCAACGCTCGGTCAACG
27328294 ATCAACCAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 23 0.85
33 4 0.15
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.24
Consensus pattern (33 bp):
AGTCAATGGTCAGTCAACGCTCGGTCAACGGTT
Found at i:27328336 original size:22 final size:22
Alignment explanation
Indices: 27328276--27328341 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 22
27328266 GTCATGGTCG
*
27328276 GTCAACGCTCGGTCAA-CGATCA
1 GTCAACGCTCGGTCAATAG-TCA
** *
27328298 ACCAACGCTTGGTCAATAGTCA
1 GTCAACGCTCGGTCAATAGTCA
*
27328320 GTCAACGCTCGGTCAATGGTCA
1 GTCAACGCTCGGTCAATAGTCA
27328342 TAATTAGTTT
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
22 34 0.97
23 1 0.03
ACGTcount: A:0.27, C:0.29, G:0.23, T:0.21
Consensus pattern (22 bp):
GTCAACGCTCGGTCAATAGTCA
Found at i:27336366 original size:51 final size:51
Alignment explanation
Indices: 27336285--27336567 Score: 460
Period size: 51 Copynumber: 5.5 Consensus size: 51
27336275 TAAACGAAAG
*
27336285 GGTCCGATGACTAAGTGTCATCGTGAGTGAATGAATCCTTTATGGATTAAT
1 GGTCTGATGACTAAGTGTCATCGTGAGTGAATGAATCCTTTATGGATTAAT
* *
27336336 GGTCTGATGACTAAGTGTCATCATGAGTGAATGAATCCTTTATGGACTAAT
1 GGTCTGATGACTAAGTGTCATCGTGAGTGAATGAATCCTTTATGGATTAAT
* *
27336387 GGTCTGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTATGGATTAAA
1 GGTCTGATGACTAAGTGTCATCGTGAGTGAATGAATCCTTTATGGATTAAT
* *
27336438 GGTCCGATGAATAAGTGTCATCGTGAGTGAATGAATCCTTTATGGATTAAT
1 GGTCTGATGACTAAGTGTCATCGTGAGTGAATGAATCCTTTATGGATTAAT
* * *
27336489 GGTCTGATGACTAAGTGTCATCATGAGTAAATGAATCCTTTATGGATTAAA
1 GGTCTGATGACTAAGTGTCATCGTGAGTGAATGAATCCTTTATGGATTAAT
27336540 GGT-TCGATGACTAAGTGTCATCGTGAGT
1 GGTCT-GATGACTAAGTGTCATCGTGAGT
27336568 TTATGGATTC
Statistics
Matches: 214, Mismatches: 17, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
50 1 0.00
51 213 1.00
ACGTcount: A:0.29, C:0.13, G:0.25, T:0.33
Consensus pattern (51 bp):
GGTCTGATGACTAAGTGTCATCGTGAGTGAATGAATCCTTTATGGATTAAT
Found at i:27336563 original size:153 final size:155
Alignment explanation
Indices: 27336285--27336620 Score: 518
Period size: 153 Copynumber: 2.2 Consensus size: 155
27336275 TAAACGAAAG
*
27336285 GGTCCGATGACTAAGTGTCATCGTGAGTGAATGAATCCTTTATGGATTAATGGTCTGATGACTAA
1 GGTCCGATGAATAAGTGTCATCGTGAGTGAATGAATCCTTTATGGATTAATGGTCTGATGACTAA
* *
27336350 GTGTCATCATGAGTGAATGAATCCTTTATGGACTAATGGTCTGATGACTAAGTGTCATCGTGAGT
66 GTGTCATCATGAGTAAATGAATCCTTTATGGACTAAAGGTCTGATGACTAAGTGTCATCGTGAGT
* **
27336415 AAAT-GAATCCTTTATGGATTAA-A
131 AAATGGAATCCTATATGGAACAAGA
27336438 GGTCCGATGAATAAGTGTCATCGTGAGTGAATGAATCCTTTATGGATTAATGGTCTGATGACTAA
1 GGTCCGATGAATAAGTGTCATCGTGAGTGAATGAATCCTTTATGGATTAATGGTCTGATGACTAA
*
27336503 GTGTCATCATGAGTAAATGAATCCTTTATGGATTAAAGGT-TCGATGACTAAGTGTCATCGTGAG
66 GTGTCATCATGAGTAAATGAATCCTTTATGGACTAAAGGTCT-GATGACTAAGTGTCATCGTGAG
** *
27336567 TTTATGGATTCCTATATGGAACAAGA
130 TAAATGGAATCCTATATGGAACAAGA
* *
27336593 GGTCCGATGATTATA-TATCATCGTGAGT
1 GGTCCGATGAATA-AGTGTCATCGTGAGT
27336621 ATTAAATGAA
Statistics
Matches: 167, Mismatches: 12, Indels: 6
0.90 0.06 0.03
Matches are distributed among these distances:
152 1 0.01
153 126 0.75
154 14 0.08
155 25 0.15
156 1 0.01
ACGTcount: A:0.29, C:0.13, G:0.24, T:0.33
Consensus pattern (155 bp):
GGTCCGATGAATAAGTGTCATCGTGAGTGAATGAATCCTTTATGGATTAATGGTCTGATGACTAA
GTGTCATCATGAGTAAATGAATCCTTTATGGACTAAAGGTCTGATGACTAAGTGTCATCGTGAGT
AAATGGAATCCTATATGGAACAAGA
Found at i:27338686 original size:20 final size:20
Alignment explanation
Indices: 27338649--27338685 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
27338639 GACCCGACCC
27338649 GTTGATCGTTGACTTTTTGG
1 GTTGATCGTTGACTTTTTGG
*
27338669 GTTGATTGTTGA-TTTTT
1 GTTGATCGTTGACTTTTT
27338686 TTTAGAAACC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.11, C:0.05, G:0.27, T:0.57
Consensus pattern (20 bp):
GTTGATCGTTGACTTTTTGG
Found at i:27340026 original size:21 final size:21
Alignment explanation
Indices: 27340002--27340041 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
27339992 CCTTGAATGA
*
27340002 ATTGGGAAT-TGTATTTTTGAC
1 ATTGCGAATGTGT-TTTTTGAC
27340023 ATTGCGAATGTGTTTTTTG
1 ATTGCGAATGTGTTTTTTG
27340042 GTATAAATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.20, C:0.05, G:0.25, T:0.50
Consensus pattern (21 bp):
ATTGCGAATGTGTTTTTTGAC
Found at i:27343896 original size:2 final size:2
Alignment explanation
Indices: 27343889--27343916 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
27343879 AGTTGTAGGG
27343889 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
27343917 TTCTGCCACC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:27347109 original size:6 final size:6
Alignment explanation
Indices: 27347098--27347122 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
27347088 TGGTCTCATC
27347098 GAGAGT GAGAGT GAGAGT GAGAGT G
1 GAGAGT GAGAGT GAGAGT GAGAGT G
27347123 GGAAGGGGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.52, T:0.16
Consensus pattern (6 bp):
GAGAGT
Found at i:27357174 original size:20 final size:21
Alignment explanation
Indices: 27357128--27357197 Score: 63
Period size: 20 Copynumber: 3.4 Consensus size: 21
27357118 ACATTTTTAA
* *
27357128 AATTTTAAAATTAAGTTAAAAT
1 AATTTT-AAACTAAGTCAAAAT
* *
27357150 GATTTTAAAC-ATGTCAAAAT
1 AATTTTAAACTAAGTCAAAAT
*
27357170 AA-TTTGAACTAAGTCAAAAT
1 AATTTTAAACTAAGTCAAAAT
*
27357190 CATTTTAA
1 AATTTTAA
27357198 CACTCCACAA
Statistics
Matches: 37, Mismatches: 9, Indels: 5
0.73 0.18 0.10
Matches are distributed among these distances:
19 6 0.16
20 19 0.51
21 7 0.19
22 5 0.14
ACGTcount: A:0.49, C:0.07, G:0.07, T:0.37
Consensus pattern (21 bp):
AATTTTAAACTAAGTCAAAAT
Found at i:27357762 original size:13 final size:13
Alignment explanation
Indices: 27357743--27357776 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
27357733 AAAGCTTAAA
27357743 CTTTCATATCTTAT
1 CTTTCATATCTT-T
27357757 -TTTCATATCTTT
1 CTTTCATATCTTT
27357769 CTTTCATA
1 CTTTCATA
27357777 CACTTGTGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 1 0.05
13 18 0.95
ACGTcount: A:0.21, C:0.21, G:0.00, T:0.59
Consensus pattern (13 bp):
CTTTCATATCTTT
Found at i:27359343 original size:2 final size:2
Alignment explanation
Indices: 27359338--27359364 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
27359328 CCCCCCCCAA
27359338 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
27359365 ATAATTATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:27365419 original size:29 final size:28
Alignment explanation
Indices: 27365387--27365452 Score: 69
Period size: 29 Copynumber: 2.3 Consensus size: 28
27365377 ATTTTCGAGG
* * *
27365387 AAATTGGGATCAAAATTGAAATTTTTGAA
1 AAATTGGGAT-AAAAGTCAAACTTTTGAA
* *
27365416 AAATTTGGGATTAAAGTCAAACTTTTGGA
1 AAA-TTGGGATAAAAGTCAAACTTTTGAA
27365445 AAATTGGG
1 AAATTGGG
27365453 GGTTGAAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
28 5 0.16
29 19 0.61
30 7 0.23
ACGTcount: A:0.41, C:0.05, G:0.21, T:0.33
Consensus pattern (28 bp):
AAATTGGGATAAAAGTCAAACTTTTGAA
Found at i:27365500 original size:29 final size:30
Alignment explanation
Indices: 27365468--27365769 Score: 184
Period size: 30 Copynumber: 10.3 Consensus size: 30
27365458 AAAATGTGAC
*
27365468 TTTTGGAAATTTGAGGG-AAAAATGATAAT
1 TTTTGGAAGTTTGAGGGTAAAAATGATAAT
* * * ** * *
27365497 TTTTGGATG-CTAAGGGGCAAAATAATGAT
1 TTTTGGAAGTTTGAGGGTAAAAATGATAAT
* * *
27365526 TTTTAGAAGTTCG-GGAGCAAAAATG-TAAT
1 TTTTGGAAGTTTGAGG-GTAAAAATGATAAT
* *
27365555 TTTTGAGAAGTTCGAGGGTAAAAATG-TGAT
1 TTTTG-GAAGTTTGAGGGTAAAAATGATAAT
* * *
27365585 TTTTGGAAGTATAAGGGTAAAAAT-ATGAT
1 TTTTGGAAGTTTGAGGGTAAAAATGATAAT
27365614 TTTTGGAAGTTTGAGGGTAAAAAT-ATAAT
1 TTTTGGAAGTTTGAGGGTAAAAATGATAAT
* *
27365643 TTTTAAGAAGTTT-AGGGGTAAAAATG-TAAA
1 TTTT-GGAAGTTTGA-GGGTAAAAATGATAAT
* * * *
27365673 ATTTGTAAAGTTTAAGGGTTAAAATG-TAA-
1 TTTTG-GAAGTTTGAGGGTAAAAATGATAAT
* *
27365702 TTTTGGAAAAGTTTGAGGGTCAAAAT-ATGAT
1 TTTTGG--AAGTTTGAGGGTAAAAATGATAAT
* *
27365733 TTTTAGAAAGTTT-AGGGGTCAAAAT-ATAA-
1 TTTT-GGAAGTTTGA-GGGTAAAAATGATAAT
27365762 TTTTGGAA
1 TTTTGGAA
27365770 AGTTCAGAGA
Statistics
Matches: 217, Mismatches: 39, Indels: 35
0.75 0.13 0.12
Matches are distributed among these distances:
28 8 0.04
29 92 0.42
30 109 0.50
31 7 0.03
32 1 0.00
ACGTcount: A:0.38, C:0.02, G:0.25, T:0.35
Consensus pattern (30 bp):
TTTTGGAAGTTTGAGGGTAAAAATGATAAT
Found at i:27365587 original size:88 final size:87
Alignment explanation
Indices: 27365478--27365671 Score: 223
Period size: 88 Copynumber: 2.2 Consensus size: 87
27365468 TTTTGGAAAT
* * *
27365478 TTGAGGG-AAAAATGATAATTTTTGGATG-CTAAGGGGCAAAATAATGATTTTTAGAAGTTCG-G
1 TTGAGGGTAAAAATG-TAATTTTTGGAAGTATAAGGGGAAAAAT-ATGATTTTTAGAAGTTCGAG
27365540 GAGCAAAAATGTAATTTTTGAGAAG
64 G-GCAAAAATGTAATTTTTGAGAAG
* * * *
27365565 TTCGAGGGTAAAAATGTGATTTTTGGAAGTATAAGGGTAAAAATATGATTTTTGGAAGTTTGAGG
1 TT-GAGGGTAAAAATGTAATTTTTGGAAGTATAAGGGGAAAAATATGATTTTTAGAAGTTCGAGG
* * *
27365630 GTAAAAATATAATTTTTAAGAAG
65 GCAAAAATGTAATTTTTGAGAAG
*
27365653 TTTAGGGGTAAAAATGTAA
1 TTGA-GGGTAAAAATGTAA
27365672 AATTTGTAAA
Statistics
Matches: 90, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
87 3 0.03
88 67 0.74
89 20 0.22
ACGTcount: A:0.39, C:0.03, G:0.26, T:0.33
Consensus pattern (87 bp):
TTGAGGGTAAAAATGTAATTTTTGGAAGTATAAGGGGAAAAATATGATTTTTAGAAGTTCGAGGG
CAAAAATGTAATTTTTGAGAAG
Found at i:27366721 original size:10 final size:10
Alignment explanation
Indices: 27366706--27366736 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
27366696 CAAGTTCTTT
27366706 TTATTATTTA
1 TTATTATTTA
27366716 TTATTATTTA
1 TTATTATTTA
27366726 TTA-TATTTA
1 TTATTATTTA
27366735 TT
1 TT
27366737 TAATAAAACG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 8 0.38
10 13 0.62
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (10 bp):
TTATTATTTA
Found at i:27367330 original size:6 final size:6
Alignment explanation
Indices: 27367319--27367410 Score: 52
Period size: 6 Copynumber: 16.0 Consensus size: 6
27367309 ACATTGATAT
* * * * *
27367319 TTTAAA TTTAAA -ATAAA TTTAAA TTTTAAA -ATAAA CTTAAA CTTAGGA
1 TTTAAA TTTAAA TTTAAA TTTAAA -TTTAAA TTTAAA TTTAAA TTTA-AA
* * *
27367367 --TAAA TTTAAA TTTAAA -ATAAA TTTAAA CTTAAA -ATAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
27367411 AATGGATTTA
Statistics
Matches: 67, Mismatches: 11, Indels: 16
0.71 0.12 0.17
Matches are distributed among these distances:
4 1 0.01
5 18 0.27
6 41 0.61
7 7 0.10
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.39
Consensus pattern (6 bp):
TTTAAA
Found at i:27367341 original size:17 final size:17
Alignment explanation
Indices: 27367319--27367410 Score: 130
Period size: 17 Copynumber: 5.4 Consensus size: 17
27367309 ACATTGATAT
27367319 TTTAAATTTAAAATAAA
1 TTTAAATTTAAAATAAA
27367336 TTTAAATTTTAAAATAAA
1 TTTAAA-TTTAAAATAAA
* * **
27367354 CTTAAACTTAGGATAAA
1 TTTAAATTTAAAATAAA
27367371 TTTAAATTTAAAATAAA
1 TTTAAATTTAAAATAAA
*
27367388 TTTAAACTTAAAATAAA
1 TTTAAATTTAAAATAAA
27367405 TTTAAA
1 TTTAAA
27367411 AATGGATTTA
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
17 49 0.75
18 16 0.25
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.39
Consensus pattern (17 bp):
TTTAAATTTAAAATAAA
Found at i:27368820 original size:15 final size:15
Alignment explanation
Indices: 27368770--27368821 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
27368760 ACTACAACAC
*
27368770 ATTTATTATTAATAT
1 ATTTATTATTAAAAT
*
27368785 ATTTACAATTATAATAAAT
1 ATTT---ATTATTA-AAAT
27368804 ATTTATTATTAAAAT
1 ATTTATTATTAAAAT
27368819 ATT
1 ATT
27368822 GCTATTGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 11 0.37
16 6 0.20
18 6 0.20
19 7 0.23
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (15 bp):
ATTTATTATTAAAAT
Found at i:27368887 original size:16 final size:16
Alignment explanation
Indices: 27368854--27368893 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 16
27368844 ATGTGAAGAA
27368854 TATTATTTAAAATAAT
1 TATTATTTAAAATAAT
27368870 TATT-TTTAAAAT--T
1 TATTATTTAAAATAAT
27368883 TATTA-TTAAAA
1 TATTATTTAAAA
27368894 GAAAATTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
13 11 0.48
15 8 0.35
16 4 0.17
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TATTATTTAAAATAAT
Found at i:27369947 original size:22 final size:22
Alignment explanation
Indices: 27369917--27369958 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
27369907 TACACTTTTC
27369917 AAAAGAATAAATCATTTTACAAG
1 AAAAGAAT-AATCATTTTACAAG
*
27369940 AAAA-AATATTCATTTTACA
1 AAAAGAATAATCATTTTACA
27369959 TTGAGTTGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 11 0.61
22 3 0.17
23 4 0.22
ACGTcount: A:0.55, C:0.10, G:0.05, T:0.31
Consensus pattern (22 bp):
AAAAGAATAATCATTTTACAAG
Found at i:27374571 original size:19 final size:19
Alignment explanation
Indices: 27374537--27374573 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
27374527 AATACCATTA
27374537 TAAAAATAAAGAATTAAAT
1 TAAAAATAAAGAATTAAAT
27374556 TAAAATATAAAG-ATTAAA
1 TAAAA-ATAAAGAATTAAA
27374574 ACTTTAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (19 bp):
TAAAAATAAAGAATTAAAT
Found at i:27375131 original size:90 final size:89
Alignment explanation
Indices: 27374975--27375148 Score: 226
Period size: 90 Copynumber: 1.9 Consensus size: 89
27374965 TAAAAAGCCC
* * *
27374975 TCAAATTTTTTCAAAAAAGCAATTAAGCCCTTACTTTTTTTTTGCATTAACTTGAGTACTTAAAC
1 TCAAACTTTTTCAAAAAAGCAATTAAGCCCTTACTTTTATTTTGCACTAACTTGAGTACTTAAAC
*
27375040 TTTCAAAATGCATCAAAAAGGTTT
66 TTTCAAAATGCATAAAAAAGGTTT
* * * * *
27375064 TCAAACTTTTTCAAAAAAAGCGATTAATCTCC-TACTTTTATTTTGCACCTAA-TTGGGTATTTT
1 TCAAACTTTTTC-AAAAAAGCAATTAAGC-CCTTACTTTTATTTTGCA-CTAACTTGAGTACTTA
27375127 AACTTTCAAAATGCATAAAAAA
63 AACTTTCAAAATGCATAAAAAA
27375149 AAAAAACCCT
Statistics
Matches: 73, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
89 11 0.15
90 57 0.78
91 5 0.07
ACGTcount: A:0.37, C:0.16, G:0.09, T:0.39
Consensus pattern (89 bp):
TCAAACTTTTTCAAAAAAGCAATTAAGCCCTTACTTTTATTTTGCACTAACTTGAGTACTTAAAC
TTTCAAAATGCATAAAAAAGGTTT
Found at i:27375449 original size:9 final size:9
Alignment explanation
Indices: 27375345--27375430 Score: 68
Period size: 9 Copynumber: 9.4 Consensus size: 9
27375335 GACATGTGGC
27375345 AAAAAAT-T
1 AAAAAATAT
*
27375353 ATAAAATAT
1 AAAAAATAT
27375362 AAAAAATAT
1 AAAAAATAT
27375371 AAAAAATAT
1 AAAAAATAT
*
27375380 AAAAAAAAT
1 AAAAAATAT
* * *
27375389 ATTAAATTTT
1 A-AAAAATAT
27375399 AATAAAAGT-T
1 AA-AAAA-TAT
*
27375409 ATAAAATAT
1 AAAAAATAT
*
27375418 AAAAAAAAT
1 AAAAAATAT
27375427 AAAA
1 AAAA
27375431 TTAGAAAAAA
Statistics
Matches: 61, Mismatches: 12, Indels: 9
0.74 0.15 0.11
Matches are distributed among these distances:
8 7 0.11
9 43 0.70
10 10 0.16
11 1 0.02
ACGTcount: A:0.72, C:0.00, G:0.01, T:0.27
Consensus pattern (9 bp):
AAAAAATAT
Found at i:27375710 original size:87 final size:88
Alignment explanation
Indices: 27375563--27375831 Score: 396
Period size: 87 Copynumber: 3.0 Consensus size: 88
27375553 CAGTATGCAA
*
27375563 AAAAAAAATCAGGAGCTTAATTACTTTTTTGAAAAAGTTTGAGGGTCTTTTTGACGCATTTTGAA
1 AAAAAAAATCAGGAGCTTAATTACTTTTTTGAAAAAGTTTGAGGGTCTTTTTGATGCATTTTGAA
27375628 AGTTTAAGTACCCAATTGAATG-
66 AGTTTAAGTACCCAATTGAATGC
* * * * *
27375650 AAAAAAAATTAGGGGATTAATTACTTTTTTGAAAAAGTTTGAGGGTCTTTTTTATTCATTTTGAA
1 AAAAAAAATCAGGAGCTTAATTACTTTTTTGAAAAAGTTTGAGGGTCTTTTTGATGCATTTTGAA
*
27375715 AGTTTAAGTACCCAATTGAGTGC
66 AGTTTAAGTACCCAATTGAATGC
* * *
27375738 AAAATAAAAACAGAAGCTTAATTGCTTTTTCTGAAAAAGTTTGAGGGTCTTTTTGATGCATTTTG
1 AAAA-AAAATCAGGAGCTTAATTACTTTTT-TGAAAAAGTTTGAGGGTCTTTTTGATGCATTTTG
* * *
27375803 AAAGTTTAAGTATCCAAGTGAGTGC
64 AAAGTTTAAGTACCCAATTGAATGC
27375828 AAAA
1 AAAA
27375832 TCAAAGTAGG
Statistics
Matches: 162, Mismatches: 17, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
87 80 0.49
88 4 0.02
89 19 0.12
90 59 0.36
ACGTcount: A:0.36, C:0.09, G:0.19, T:0.36
Consensus pattern (88 bp):
AAAAAAAATCAGGAGCTTAATTACTTTTTTGAAAAAGTTTGAGGGTCTTTTTGATGCATTTTGAA
AGTTTAAGTACCCAATTGAATGC
Found at i:27375851 original size:90 final size:89
Alignment explanation
Indices: 27375558--27375850 Score: 410
Period size: 90 Copynumber: 3.3 Consensus size: 89
27375548 ACTAACAGTA
* * *
27375558 TGCAAAAAAAAAATCAGGAGCTTAATTACTTTTTTGAAAAAGTTTGAGGGTCTTTTTGACGCATT
1 TGCAAAATAAAAAT-AGGGGCTTAATTACTTTTTTGAAAAAGTTTGAGGGTCTTTTTGATGCATT
*
27375623 TTGAAAGTTTAAGTACCCAATTGAA
65 TTGAAAGTTTAAGTACCCAATTGAG
* * * *
27375648 TG-AAAA-AAAATTAGGGGATTAATTACTTTTTTGAAAAAGTTTGAGGGTCTTTTTTATTCATTT
1 TGCAAAATAAAAATAGGGGCTTAATTACTTTTTTGAAAAAGTTTGAGGGTCTTTTTGATGCATTT
27375711 TGAAAGTTTAAGTACCCAATTGAG
66 TGAAAGTTTAAGTACCCAATTGAG
* ** *
27375735 TGCAAAATAAAAACAGAAGCTTAATTGCTTTTTCTGAAAAAGTTTGAGGGTCTTTTTGATGCATT
1 TGCAAAATAAAAATAGGGGCTTAATTACTTTTT-TGAAAAAGTTTGAGGGTCTTTTTGATGCATT
* *
27375800 TTGAAAGTTTAAGTATCCAAGTGAG
65 TTGAAAGTTTAAGTACCCAATTGAG
* *
27375825 TGCAAAATCAAAGTAGGGGCTTAATT
1 TGCAAAATAAAAATAGGGGCTTAATT
27375851 GTTTTCTTTT
Statistics
Matches: 178, Mismatches: 22, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
87 71 0.40
88 9 0.05
89 23 0.13
90 75 0.42
ACGTcount: A:0.35, C:0.10, G:0.19, T:0.36
Consensus pattern (89 bp):
TGCAAAATAAAAATAGGGGCTTAATTACTTTTTTGAAAAAGTTTGAGGGTCTTTTTGATGCATTT
TGAAAGTTTAAGTACCCAATTGAG
Found at i:27377299 original size:29 final size:28
Alignment explanation
Indices: 27377267--27377617 Score: 97
Period size: 29 Copynumber: 12.3 Consensus size: 28
27377257 AAAATGAGAC
27377267 TTTTTGGATATTCGGGGGTAAAATGGTAA
1 TTTTTGGA-ATTCGGGGGTAAAATGGTAA
* *
27377296 -TTTT-GAACTCTCGAGGGCAAAATGGTAA
1 TTTTTGGAA-T-TCGGGGGTAAAATGGTAA
* ** *
27377324 TTTTGGGAAAATTTAGGGTTAAAAAT-G-ACA
1 TTTTTGG--AATTCGGGGGT-AAAATGGTA-A
* *
27377354 -TTTTAGACATTCGGGGGGGTAAAATAGTAA
1 TTTTTGGA-ATTC--GGGGGTAAAATGGTAA
* * * ** *
27377384 TTTTAAGGAAAATCGAGATTAAAAACGG-AA
1 TTTT-TGG-AATTCGGGGGT-AAAATGGTAA
27377414 TTTTTGGACATTC-GGGGTAAAATGGTAA
1 TTTTTGGA-ATTCGGGGGTAAAATGGTAA
*
27377442 -TTTTGGAAGTTTCGGGGTTAAAATGG-AA
1 TTTTTGGAA--TTCGGGGGTAAAATGGTAA
* *
27377470 -TTTTGGAAGTT-TGGGG-CAAATGG-AA
1 TTTTTGGAA-TTCGGGGGTAAAATGGTAA
** **
27377495 TTTTTGGAAGTTTTAGGATTAAAATGG-AA
1 TTTTTGGAA--TTCGGGGGTAAAATGGTAA
* **
27377524 TTTTTGGAAGTTTGGGGGTAAAAAAGTAA
1 TTTTTGGAA-TTCGGGGGTAAAATGGTAA
* * ** *
27377553 TTTCTAGAAGTTTTGGCGTCAAAATGG-AA
1 TTTTTGGAA-TTCGGGGGT-AAAATGGTAA
*
27377582 TTTTTGGAAGTTC-GGGGTCAAAAT-ATAA
1 TTTTTGGAA-TTCGGGGGT-AAAATGGTAA
27377610 TTTTTGGA
1 TTTTTGGA
27377618 CAGTTTAGGG
Statistics
Matches: 239, Mismatches: 54, Indels: 59
0.68 0.15 0.17
Matches are distributed among these distances:
25 8 0.03
26 13 0.05
27 21 0.09
28 74 0.31
29 75 0.31
30 26 0.11
31 15 0.06
32 6 0.03
33 1 0.00
ACGTcount: A:0.33, C:0.05, G:0.27, T:0.34
Consensus pattern (28 bp):
TTTTTGGAATTCGGGGGTAAAATGGTAA
Found at i:27377529 original size:83 final size:87
Alignment explanation
Indices: 27377431--27377593 Score: 228
Period size: 83 Copynumber: 1.9 Consensus size: 87
27377421 ACATTCGGGG
* * *
27377431 TAAAATGGTAATTTTGGAAGTTTCGGGGTTAAAATGGAATTT-TGGAAG-TTTGG-GGC-AAATG
1 TAAAATGGTAATTTTGGAAGTTTCGGGGTAAAAAAGGAATTTCTAGAAGTTTTGGCGGCAAAATG
27377492 GAATTTTTGGAAGTTTTAGGAT
66 GAATTTTTGGAAGTTTTAGGAT
* * *
27377514 TAAAATGG-AATTTTTGGAAGTTTGGGGGTAAAAAAGTAATTTCTAGAAGTTTTGGCGTCAAAAT
1 TAAAATGGTAA-TTTTGGAAGTTTCGGGGTAAAAAAGGAATTTCTAGAAGTTTTGGCGGCAAAAT
27377578 GGAATTTTTGGAAGTT
65 GGAATTTTTGGAAGTT
27377594 CGGGGTCAAA
Statistics
Matches: 69, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
82 2 0.03
83 35 0.51
84 5 0.07
85 5 0.07
86 2 0.03
87 20 0.29
ACGTcount: A:0.32, C:0.03, G:0.28, T:0.37
Consensus pattern (87 bp):
TAAAATGGTAATTTTGGAAGTTTCGGGGTAAAAAAGGAATTTCTAGAAGTTTTGGCGGCAAAATG
GAATTTTTGGAAGTTTTAGGAT
Found at i:27377611 original size:28 final size:29
Alignment explanation
Indices: 27377405--27377623 Score: 204
Period size: 29 Copynumber: 7.8 Consensus size: 29
27377395 ATCGAGATTA
*
27377405 AAAACGGAATTTTTGGACA--TTCGGGGT-
1 AAAATGGAATTTTTGGA-AGTTTCGGGGTC
*
27377432 AAAATGGTAA-TTTTGGAAGTTTCGGGGTT
1 AAAATGG-AATTTTTGGAAGTTTCGGGGTC
27377461 AAAATGGAA-TTTTGGAAGTTT-GGGG-C
1 AAAATGGAATTTTTGGAAGTTTCGGGGTC
** * *
27377487 -AAATGGAATTTTTGGAAGTTTTAGGATT
1 AAAATGGAATTTTTGGAAGTTTCGGGGTC
* *
27377515 AAAATGGAATTTTTGGAAGTTTGGGGGTA
1 AAAATGGAATTTTTGGAAGTTTCGGGGTC
* * * * * *
27377544 AAAAAGTAATTTCTAGAAGTTTTGGCGTC
1 AAAATGGAATTTTTGGAAGTTTCGGGGTC
27377573 AAAATGGAATTTTTGGAAG-TTCGGGGTC
1 AAAATGGAATTTTTGGAAGTTTCGGGGTC
**
27377601 AAAATATAATTTTTGGACAGTTT
1 AAAATGGAATTTTTGGA-AGTTT
27377624 AGGGACTTGT
Statistics
Matches: 158, Mismatches: 24, Indels: 17
0.79 0.12 0.09
Matches are distributed among these distances:
25 8 0.05
26 13 0.08
27 19 0.12
28 46 0.29
29 70 0.44
30 2 0.01
ACGTcount: A:0.32, C:0.05, G:0.28, T:0.36
Consensus pattern (29 bp):
AAAATGGAATTTTTGGAAGTTTCGGGGTC
Found at i:27379533 original size:6 final size:6
Alignment explanation
Indices: 27379468--27379513 Score: 58
Period size: 6 Copynumber: 7.8 Consensus size: 6
27379458 ACTTTTTTAA
* * *
27379468 TTAATT TTAAAT TTAAAT TTGAA- TTAAAT TTAAAT TTAAAC TTAAA
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAA
27379514 AGAAAAATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
5 4 0.11
6 31 0.89
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (6 bp):
TTAAAT
Found at i:27379574 original size:15 final size:15
Alignment explanation
Indices: 27379554--27379583 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
27379544 TTCAATCATG
*
27379554 AATTAAAATTTAAAA
1 AATTAAAAGTTAAAA
27379569 AATTAAAAGTTAAAA
1 AATTAAAAGTTAAAA
27379584 TTGAATTTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (15 bp):
AATTAAAAGTTAAAA
Found at i:27383328 original size:22 final size:21
Alignment explanation
Indices: 27383288--27383342 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
27383278 ATCTAAGGAA
*
27383288 AAATAAAAGAAATAGAATTAG
1 AAATAAAAGAAATAAAATTAG
27383309 AAATAAAAGTAAATAAAATTA-
1 AAATAAAAG-AAATAAAATTAG
*
27383330 AAAGAAATAGAAA
1 AAATAAA-AGAAA
27383343 ATTGGGAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 18 0.60
22 12 0.40
ACGTcount: A:0.71, C:0.00, G:0.11, T:0.18
Consensus pattern (21 bp):
AAATAAAAGAAATAAAATTAG
Found at i:27383344 original size:22 final size:22
Alignment explanation
Indices: 27383292--27383344 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
27383282 AAGGAAAAAT
* *
27383292 AAAAG-AAATAGAATTAGAAAT
1 AAAAGAAAATAAAATTAGAAAG
*
27383313 AAAAGTAAATAAAATTA-AAAG
1 AAAAGAAAATAAAATTAGAAAG
27383334 AAATAGAAAAT
1 AAA-AGAAAAT
27383345 TGGGAAGTCG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 11 0.41
22 16 0.59
ACGTcount: A:0.70, C:0.00, G:0.11, T:0.19
Consensus pattern (22 bp):
AAAAGAAAATAAAATTAGAAAG
Found at i:27383834 original size:31 final size:32
Alignment explanation
Indices: 27383799--27383866 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 32
27383789 CTCTAAAAGA
27383799 TAAATACAAAAAGATAAAT-ATATATTAAAT-T
1 TAAATACAAAAA-ATAAATAATATATTAAATAT
** * *
27383830 TAAATTTAAATAATAAATAATATCTTAAATAT
1 TAAATACAAAAAATAAATAATATATTAAATAT
27383862 TAAAT
1 TAAAT
27383867 CCTAATATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
30 6 0.19
31 19 0.61
32 6 0.19
ACGTcount: A:0.59, C:0.03, G:0.01, T:0.37
Consensus pattern (32 bp):
TAAATACAAAAAATAAATAATATATTAAATAT
Found at i:27384116 original size:24 final size:23
Alignment explanation
Indices: 27384073--27384117 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
27384063 AGGATCATAC
27384073 TCTAAAAATATATATATTTAATA
1 TCTAAAAATATATATATTTAATA
* *
27384096 TCTAAAAGTATGTCATATTTAA
1 TCTAAAAATATAT-ATATTTAA
27384118 GCATTATCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.47, C:0.07, G:0.04, T:0.42
Consensus pattern (23 bp):
TCTAAAAATATATATATTTAATA
Found at i:27384598 original size:105 final size:103
Alignment explanation
Indices: 27384416--27384606 Score: 258
Period size: 105 Copynumber: 1.8 Consensus size: 103
27384406 ATTTTGTAAA
*
27384416 TTTTTTCTTTTTTTTTCTTTAAGAATACATTAAACCTTTTGATGCGAAATGAAATGACACTCAAG
1 TTTTTTCTTTTTTTTTCTTTAAGAATACATTAAACCTTTTGACGCGAAATGAAATGACACTCAAG
*
27384481 CACTCCATCCCGGTTACTCAGCCTAACATGCTCTCAAT
66 CACTCCACCCCGGTTACTCAGCCTAACATGCTCTCAAT
* * * * ** *
27384519 TTTTTTCTTCTTTTTTTTTTTGTAGAATGCGTTAGCCCTTTTGACGCGAAGTGAAATGACAAC-C
1 TTTTTTCTT-TTTTTTTCTTT-AAGAATACATTAAACCTTTTGACGCGAAATGAAATGAC-ACTC
*
27384583 AAGCACTCCACCCCGGTTGCTCAG
63 AAGCACTCCACCCCGGTTACTCAG
27384607 TATAAACACA
Statistics
Matches: 75, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
103 9 0.12
104 10 0.13
105 54 0.72
106 2 0.03
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.38
Consensus pattern (103 bp):
TTTTTTCTTTTTTTTTCTTTAAGAATACATTAAACCTTTTGACGCGAAATGAAATGACACTCAAG
CACTCCACCCCGGTTACTCAGCCTAACATGCTCTCAAT
Found at i:27384643 original size:105 final size:105
Alignment explanation
Indices: 27384450--27384644 Score: 241
Period size: 105 Copynumber: 1.9 Consensus size: 105
27384440 ATACATTAAA
* * * **
27384450 CCTTTTGATGCGAAATGAAATGACACTCAAGCACTCCATCCCGGTTACTCAGCCTAACATGCTCT
1 CCTTTTGACGCGAAATGAAATGACACTCAAGCACTCCACCCCGGTTACTCAGCATAACACACTCT
* * *
27384515 CAATTTTTTTCTTCTTTTTTTTTTTGTAGAATGCGTTAGC
66 CAATTTATTTATTCTTTTCTTTTTTGTAGAATGCGTTAGC
* * * *
27384555 CCTTTTGACGCGAAGTGAAATGACAAC-CAAGCACTCCACCCCGGTTGCTCAGTATAAACACATT
1 CCTTTTGACGCGAAATGAAATGAC-ACTCAAGCACTCCACCCCGGTTACTCAGCAT-AACACACT
*
27384619 CTGAATTTATTTATT-TTTTCTTTTTT
64 CTCAATTTATTTATTCTTTTCTTTTTT
27384645 TTATTCGGGT
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
105 56 0.75
106 19 0.25
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.38
Consensus pattern (105 bp):
CCTTTTGACGCGAAATGAAATGACACTCAAGCACTCCACCCCGGTTACTCAGCATAACACACTCT
CAATTTATTTATTCTTTTCTTTTTTGTAGAATGCGTTAGC
Found at i:27385444 original size:15 final size:15
Alignment explanation
Indices: 27385404--27385456 Score: 70
Period size: 15 Copynumber: 3.3 Consensus size: 15
27385394 TTTCCTGGAC
27385404 AAAAATAAATAAATAA
1 AAAAATAAA-AAATAA
*
27385420 ACAAATATAAAATATAA
1 A-AAA-ATAAAAAATAA
27385437 AAAAATAAAAAATAA
1 AAAAATAAAAAATAA
27385452 AAAAA
1 AAAAA
27385457 ATAATTGGGT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
15 15 0.45
16 4 0.12
17 9 0.27
18 5 0.15
ACGTcount: A:0.81, C:0.02, G:0.00, T:0.17
Consensus pattern (15 bp):
AAAAATAAAAAATAA
Found at i:27385456 original size:8 final size:8
Alignment explanation
Indices: 27385404--27385456 Score: 63
Period size: 8 Copynumber: 6.6 Consensus size: 8
27385394 TTTCCTGGAC
27385404 AAAAATAA
1 AAAAATAA
*
27385412 ATAAATAA
1 AAAAATAA
*
27385420 ACAAATATA
1 AAAAATA-A
*
27385429 AAATATAA
1 AAAAATAA
27385437 AAAAAT-A
1 AAAAATAA
27385444 AAAAATAA
1 AAAAATAA
27385452 AAAAA
1 AAAAA
27385457 ATAATTGGGT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
7 7 0.18
8 25 0.66
9 6 0.16
ACGTcount: A:0.81, C:0.02, G:0.00, T:0.17
Consensus pattern (8 bp):
AAAAATAA
Found at i:27391110 original size:22 final size:21
Alignment explanation
Indices: 27391051--27391107 Score: 80
Period size: 22 Copynumber: 2.7 Consensus size: 21
27391041 CGATCTAAGG
*
27391051 AAAAATAAAAGAAACAGAATT
1 AAAAATAAAAGAAATAGAATT
27391072 AAAAATAAAAGTAAATAGAATT
1 AAAAATAAAAG-AAATAGAATT
27391094 AAAAGA-AAAAGAAA
1 AAAA-ATAAAAGAAA
27391108 ATAAGGAAGT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
21 14 0.42
22 18 0.55
23 1 0.03
ACGTcount: A:0.74, C:0.02, G:0.11, T:0.14
Consensus pattern (21 bp):
AAAAATAAAAGAAATAGAATT
Found at i:27391934 original size:19 final size:19
Alignment explanation
Indices: 27391910--27391952 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
27391900 AAACATAAAT
27391910 TAAATACAAAT-TTAAATAA
1 TAAATA-AAATCTTAAATAA
* *
27391929 TAAATAATATCTTAAATAT
1 TAAATAAAATCTTAAATAA
27391948 TAAAT
1 TAAAT
27391953 CCTAATATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (19 bp):
TAAATAAAATCTTAAATAA
Found at i:27397215 original size:20 final size:20
Alignment explanation
Indices: 27397171--27397217 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
27397161 TTGCAGCTTC
27397171 GTTGTATCAATAGAAAGAAA
1 GTTGTATCAATAGAAAGAAA
* *
27397191 CTTGTATCGATAG-AAGAAAA
1 GTTGTATCAATAGAAAG-AAA
27397211 GTTGTAT
1 GTTGTAT
27397218 TGGTAGAAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 3 0.13
20 20 0.87
ACGTcount: A:0.43, C:0.06, G:0.21, T:0.30
Consensus pattern (20 bp):
GTTGTATCAATAGAAAGAAA
Found at i:27397551 original size:21 final size:21
Alignment explanation
Indices: 27397507--27397560 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
27397497 AAAAGTCCGT
*
27397507 GTTGTATC-GATAGAACTCAGA
1 GTTGTATCAG-TAGAACTCACA
*
27397528 GTTGTATCAGTAGAACTCCCA
1 GTTGTATCAGTAGAACTCACA
* *
27397549 GTTCTACCAGTA
1 GTTGTATCAGTA
27397561 AAATTTTGTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 27 0.96
22 1 0.04
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (21 bp):
GTTGTATCAGTAGAACTCACA
Found at i:27401707 original size:6 final size:6
Alignment explanation
Indices: 27401696--27401740 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
27401686 TAGTCTATCT
* * *
27401696 ACCTGA ACCTGA ACCTGA ACCTGA ACCTAA ACCTAA ACCTAA ACC
1 ACCTGA ACCTGA ACCTGA ACCTGA ACCTGA ACCTGA ACCTGA ACC
27401741 CTTTTGCTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.40, C:0.36, G:0.09, T:0.16
Consensus pattern (6 bp):
ACCTGA
Found at i:27406096 original size:24 final size:24
Alignment explanation
Indices: 27406052--27406097 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
27406042 ATTTCAAGTA
* *
27406052 AATAAAAAATTGAAATCAAAATTC
1 AATAAAAAAGTGAAATAAAAATTC
27406076 AATAAAAAAGT-AAATTAAAAAT
1 AATAAAAAAGTGAAA-TAAAAAT
27406098 AATCTCTCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 3 0.16
24 16 0.84
ACGTcount: A:0.67, C:0.04, G:0.04, T:0.24
Consensus pattern (24 bp):
AATAAAAAAGTGAAATAAAAATTC
Found at i:27406963 original size:33 final size:33
Alignment explanation
Indices: 27406921--27406997 Score: 127
Period size: 33 Copynumber: 2.3 Consensus size: 33
27406911 CGATTTAAGT
*
27406921 TGAGCAATTTGCTCAACTGTGCTCGCTTGCATC
1 TGAGCAATTTGCTCAACTGTGCTCACTTGCATC
*
27406954 TGAGCAATTTGCTCAATTGTGCTCACTTGCATC
1 TGAGCAATTTGCTCAACTGTGCTCACTTGCATC
*
27406987 TGAGCCATTTG
1 TGAGCAATTTG
27406998 ATCTTTTAAC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.35
Consensus pattern (33 bp):
TGAGCAATTTGCTCAACTGTGCTCACTTGCATC
Found at i:27411192 original size:20 final size:20
Alignment explanation
Indices: 27411167--27411206 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
27411157 GGTGTACCGG
27411167 TGTTAGCAAAAGAGAAAGGA
1 TGTTAGCAAAAGAGAAAGGA
27411187 TGTTAGCAAAAGAGAAAGGA
1 TGTTAGCAAAAGAGAAAGGA
27411207 ATGGGCAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.50, C:0.05, G:0.30, T:0.15
Consensus pattern (20 bp):
TGTTAGCAAAAGAGAAAGGA
Found at i:27411218 original size:18 final size:18
Alignment explanation
Indices: 27411195--27411271 Score: 64
Period size: 18 Copynumber: 3.8 Consensus size: 18
27411185 GATGTTAGCA
27411195 AAAGAGAAAGGAATGGGC
1 AAAGAGAAAGGAATGGGC
* *
27411213 AAAGAGAAACGACTGGTATGTTAGC
1 AAAGAG-AA--A--GGAATG--GGC
27411238 AAAAGAGAAAGGAATGGGC
1 AA-AGAGAAAGGAATGGGC
27411257 AAAGAGAAAGGAATG
1 AAAGAGAAAGGAATG
27411272 ATGGTGTACC
Statistics
Matches: 47, Mismatches: 4, Indels: 16
0.70 0.06 0.24
Matches are distributed among these distances:
18 19 0.40
19 6 0.13
21 6 0.13
23 6 0.13
25 6 0.13
26 4 0.09
ACGTcount: A:0.49, C:0.06, G:0.34, T:0.10
Consensus pattern (18 bp):
AAAGAGAAAGGAATGGGC
Found at i:27411249 original size:44 final size:48
Alignment explanation
Indices: 27411186--27411315 Score: 169
Period size: 44 Copynumber: 2.7 Consensus size: 48
27411176 AAGAGAAAGG
*
27411186 ATGTTAGCAAAAGAGAAAGGAATGGGCAAAGAGAAACG-A-CT-G-GT
1 ATGTTAGCAAAAGAGAAAGGAATGGGCAAAGAGAAACGAAGATGGTGT
*
27411230 ATGTTAGCAAAAGAGAAAGGAATGGGCAAAGAGAAAGGAATGATGGTGT
1 ATGTTAGCAAAAGAGAAAGGAATGGGCAAAGAGAAACGAA-GATGGTGT
27411279 ACCGGTGTTAGCAAAAGAGAAAGGAATGGGCAAAGAG
1 A----TGTTAGCAAAAGAGAAAGGAATGGGCAAAGAG
27411316 GAAGGAATGC
Statistics
Matches: 75, Mismatches: 2, Indels: 9
0.87 0.02 0.10
Matches are distributed among these distances:
44 37 0.49
45 1 0.01
47 1 0.01
48 1 0.01
49 3 0.04
53 32 0.43
ACGTcount: A:0.45, C:0.08, G:0.34, T:0.14
Consensus pattern (48 bp):
ATGTTAGCAAAAGAGAAAGGAATGGGCAAAGAGAAACGAAGATGGTGT
Found at i:27411311 original size:53 final size:53
Alignment explanation
Indices: 27411231--27411334 Score: 190
Period size: 53 Copynumber: 2.0 Consensus size: 53
27411221 ACGACTGGTA
27411231 TGTTAGCAAAAGAGAAAGGAATGGGCAAAGAGAAAGGAATGATGGTGTACCGG
1 TGTTAGCAAAAGAGAAAGGAATGGGCAAAGAGAAAGGAATGATGGTGTACCGG
* *
27411284 TGTTAGCAAAAGAGAAAGGAATGGGCAAAGAGGAAGGAATGCTGGTGTACC
1 TGTTAGCAAAAGAGAAAGGAATGGGCAAAGAGAAAGGAATGATGGTGTACC
27411335 CGTTTCGATT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 49 1.00
ACGTcount: A:0.40, C:0.09, G:0.36, T:0.15
Consensus pattern (53 bp):
TGTTAGCAAAAGAGAAAGGAATGGGCAAAGAGAAAGGAATGATGGTGTACCGG
Found at i:27413631 original size:41 final size:41
Alignment explanation
Indices: 27413561--27413641 Score: 110
Period size: 41 Copynumber: 2.0 Consensus size: 41
27413551 GCTCTGACCT
* * * *
27413561 CTCTGACCTTTAGCGGTGCCTTCTGATAAACGCCGCTAATA
1 CTCTGACCTTTAGCAGCGCCTTCTCATAAACGCCACTAATA
27413602 CTCTGACCTTTAGCAGCG-CTTCCTCATAAACGCCACTAAT
1 CTCTGACCTTTAGCAGCGCCTT-CTCATAAACGCCACTAAT
27413642 GCTTTACCTT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 3 0.09
41 32 0.91
ACGTcount: A:0.23, C:0.32, G:0.16, T:0.28
Consensus pattern (41 bp):
CTCTGACCTTTAGCAGCGCCTTCTCATAAACGCCACTAATA
Found at i:27416475 original size:6 final size:6
Alignment explanation
Indices: 27416464--27416508 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
27416454 TGATCAAAAT
* * *
27416464 TGAAAG TGAAAG TGAAAG TGAAAG TGAAAT TGGAAT TGAAAG TGA
1 TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGA
27416509 TATGAATTGT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.47, C:0.00, G:0.31, T:0.22
Consensus pattern (6 bp):
TGAAAG
Found at i:27416658 original size:41 final size:41
Alignment explanation
Indices: 27416611--27416710 Score: 100
Period size: 38 Copynumber: 2.5 Consensus size: 41
27416601 CGACCTTGAG
** * *
27416611 TCGATGAGACACTGGGTGTCATTATTTTACTTCGGATAGAT
1 TCGATGAGACACTGGGTGTCACCACTTTACTTCGGATAGAC
** * *
27416652 TCGATGAGGTACT-GG-GT-ACCACTTTACTTCGGCTAGGC
1 TCGATGAGACACTGGGTGTCACCACTTTACTTCGGATAGAC
27416690 T-GATGAGACACTGGGTGTCAC
1 TCGATGAGACACTGGGTGTCAC
27416711 TTTATTTCTT
Statistics
Matches: 46, Mismatches: 10, Indels: 7
0.73 0.16 0.11
Matches are distributed among these distances:
37 9 0.20
38 18 0.39
39 4 0.09
40 4 0.09
41 11 0.24
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (41 bp):
TCGATGAGACACTGGGTGTCACCACTTTACTTCGGATAGAC
Found at i:27418526 original size:19 final size:19
Alignment explanation
Indices: 27418504--27418548 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
27418494 TTATATTAGG
27418504 ATTTAATATTTAAGATAT-T
1 ATTTAATATTTAA-ATATGT
* *
27418523 ATTTATTATTTAAATTTGT
1 ATTTAATATTTAAATATGT
27418542 ATTTAAT
1 ATTTAAT
27418549 TTATGTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (19 bp):
ATTTAATATTTAAATATGT
Found at i:27422012 original size:13 final size:13
Alignment explanation
Indices: 27421990--27422047 Score: 62
Period size: 14 Copynumber: 4.3 Consensus size: 13
27421980 ACCCAATTAT
*
27421990 TTTTATTTTTATTT
1 TTTTATTTTT-TTA
*
27422004 TTTTATTTTTCTA
1 TTTTATTTTTTTA
*
27422017 TCTTATTTTATTTA
1 TTTTATTTT-TTTA
*
27422031 TTTTATTTATTTA
1 TTTTATTTTTTTA
27422044 TTTT
1 TTTT
27422048 TGTCTAGGAA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
13 17 0.46
14 20 0.54
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTTATTTTTTTA
Found at i:27422013 original size:9 final size:8
Alignment explanation
Indices: 27421995--27422048 Score: 63
Period size: 8 Copynumber: 6.4 Consensus size: 8
27421985 ATTATTTTTA
27421995 TTTTTATT
1 TTTTTATT
27422003 TTTTTATT
1 TTTTTATT
*
27422011 TTTCTATCT
1 TTTTTAT-T
27422020 TATTTTATT
1 T-TTTTATT
27422029 TATTTTATT
1 T-TTTTATT
*
27422038 TATTTATT
1 TTTTTATT
27422046 TTT
1 TTT
27422049 GTCTAGGAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
8 22 0.55
9 13 0.32
10 5 0.12
ACGTcount: A:0.17, C:0.04, G:0.00, T:0.80
Consensus pattern (8 bp):
TTTTTATT
Found at i:27422425 original size:21 final size:25
Alignment explanation
Indices: 27422378--27422425 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 25
27422368 CCTATCAGTA
*
27422378 TGATTCTTGTTGACTGAGTTAATTT
1 TGATTCTTGTTGACTGAGTTAAATT
27422403 TGATT-TTGTT-A-TGA-TTAAATT
1 TGATTCTTGTTGACTGAGTTAAATT
27422424 TG
1 TG
27422426 TCTCCACTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
21 8 0.36
22 3 0.14
23 1 0.05
24 5 0.23
25 5 0.23
ACGTcount: A:0.23, C:0.04, G:0.19, T:0.54
Consensus pattern (25 bp):
TGATTCTTGTTGACTGAGTTAAATT
Found at i:27424469 original size:16 final size:17
Alignment explanation
Indices: 27424450--27424491 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
27424440 TTTCGACTTC
27424450 CTTTTATTTTCTA-TTT
1 CTTTTATTTTCTATTTT
*
27424466 CTTTTA-ATTCTATTTT
1 CTTTTATTTTCTATTTT
*
27424482 CTTTAATTTT
1 CTTTTATTTT
27424492 TAAATCTGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
15 5 0.24
16 14 0.67
17 2 0.10
ACGTcount: A:0.17, C:0.12, G:0.00, T:0.71
Consensus pattern (17 bp):
CTTTTATTTTCTATTTT
Found at i:27425305 original size:12 final size:12
Alignment explanation
Indices: 27425290--27425315 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
27425280 AATCTTAATG
27425290 AAAATCTGCTTC
1 AAAATCTGCTTC
27425302 AAAATCTGCTTC
1 AAAATCTGCTTC
27425314 AA
1 AA
27425316 TGGTGTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.23, G:0.08, T:0.31
Consensus pattern (12 bp):
AAAATCTGCTTC
Found at i:27426538 original size:15 final size:16
Alignment explanation
Indices: 27426511--27426540 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
27426501 TAAGGACCAG
27426511 ATGAAAGACTCTTCAA
1 ATGAAAGACTCTTCAA
27426527 ATGAAA-ACTCTTCA
1 ATGAAAGACTCTTCA
27426541 TATCGTTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.43, C:0.20, G:0.10, T:0.27
Consensus pattern (16 bp):
ATGAAAGACTCTTCAA
Found at i:27442402 original size:19 final size:19
Alignment explanation
Indices: 27442374--27442410 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
27442364 ACCACCGTCA
* *
27442374 TCCACTATAATTAAATTTG
1 TCCACCATAATCAAATTTG
27442393 TCCACCATAATCAAATTT
1 TCCACCATAATCAAATTT
27442411 ATTATTAACT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.38, C:0.22, G:0.03, T:0.38
Consensus pattern (19 bp):
TCCACCATAATCAAATTTG
Found at i:27443005 original size:30 final size:29
Alignment explanation
Indices: 27442971--27443029 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
27442961 GGATGGGATG
27442971 AAATGAGA-GGAGGATAAAAGTTTTAGGGAA
1 AAATGAGAGGGA-G-TAAAAGTTTTAGGGAA
* *
27443001 AAATGGGAGGGAGTAAAAGTTTTGGGGAA
1 AAATGAGAGGGAGTAAAAGTTTTAGGGAA
27443030 GAATAAAAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 15 0.58
30 8 0.31
31 3 0.12
ACGTcount: A:0.42, C:0.00, G:0.37, T:0.20
Consensus pattern (29 bp):
AAATGAGAGGGAGTAAAAGTTTTAGGGAA
Found at i:27449941 original size:15 final size:16
Alignment explanation
Indices: 27449915--27449947 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
27449905 TTAATTAAAA
27449915 TTATTCATTTAAATAT
1 TTATTCATTTAAATAT
*
27449931 TTATT-ATTTAATTAT
1 TTATTCATTTAAATAT
27449946 TT
1 TT
27449948 CTTCTTTCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (16 bp):
TTATTCATTTAAATAT
Found at i:27449947 original size:82 final size:83
Alignment explanation
Indices: 27449855--27450056 Score: 256
Period size: 79 Copynumber: 2.5 Consensus size: 83
27449845 AAAATTATAT
**
27449855 TTTAATTATTT-TTCTTTCAAGTCCCATCAATGTCTTTTTTTTTTCTTTTTTTAATTAAAAT-TA
1 TTTAATTATTTCTTCTTTCAAGTCCCATCAATGTCTTTTTTTTTT-AATTTTTAATTAAAATCTA
*
27449918 TTCATTTAAATATTTATTA
65 TTCATTTAAATATTTATCA
* *
27449937 TTTAATTATTTCTTCTTTCAAG-GCCATCAATGTC---TTTTTTTAATTTTTAATTAATATCTAT
1 TTTAATTATTTCTTCTTTCAAGTCCCATCAATGTCTTTTTTTTTTAATTTTTAATTAAAATCTAT
*
27449998 TCATTTAAATATTTATCC
66 TCATTTAAATATTTATCA
* * * *
27450016 TTTAAATATTTCTTCATTCAAGTCCCGTCAATAT-TTTTTTT
1 TTTAATTATTTCTTCTTTCAAGTCCCATCAATGTCTTTTTTT
27450057 CAATTAAAAT
Statistics
Matches: 103, Mismatches: 11, Indels: 12
0.82 0.09 0.10
Matches are distributed among these distances:
78 13 0.13
79 46 0.45
80 8 0.08
82 26 0.25
83 10 0.10
ACGTcount: A:0.27, C:0.13, G:0.03, T:0.56
Consensus pattern (83 bp):
TTTAATTATTTCTTCTTTCAAGTCCCATCAATGTCTTTTTTTTTTAATTTTTAATTAAAATCTAT
TCATTTAAATATTTATCA
Found at i:27450556 original size:17 final size:17
Alignment explanation
Indices: 27450536--27450572 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
27450526 CCCAAACAAA
27450536 AAATAAATTTTAAATTT
1 AAATAAATTTTAAATTT
**
27450553 AAATTTATTTTAAATTT
1 AAATAAATTTTAAATTT
27450570 AAA
1 AAA
27450573 AATGTCCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
AAATAAATTTTAAATTT
Found at i:27450638 original size:18 final size:18
Alignment explanation
Indices: 27450615--27450650 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
27450605 GACCCCAATT
27450615 AAACCCAATTACATCATG
1 AAACCCAATTACATCATG
27450633 AAACCCAATTACATCATG
1 AAACCCAATTACATCATG
27450651 CCCAAAAGGC
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:0.44, C:0.28, G:0.06, T:0.22
Consensus pattern (18 bp):
AAACCCAATTACATCATG
Found at i:27451106 original size:17 final size:17
Alignment explanation
Indices: 27451086--27451122 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
27451076 CCCAAACAAA
27451086 AAATAAATTTTAAATTT
1 AAATAAATTTTAAATTT
**
27451103 AAATTTATTTTAAATTT
1 AAATAAATTTTAAATTT
27451120 AAA
1 AAA
27451123 AATGTCCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
AAATAAATTTTAAATTT
Done.