Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
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: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 197 of 214
Found at i:57624644 original size:126 final size:126
Alignment explanation
Indices: 57624410--57624741 Score: 461
Period size: 126 Copynumber: 2.6 Consensus size: 126
57624400 GAATAGACAA
* * * *
57624410 TGTAAAAAATGTTTCAAGCAGGATGCCCTGTCAGCAAAATTACTAAAAAAAAGTTCCCACGTGGA
1 TGTAAAAAATGCTTCAAGCAGGATGCACTGTCAGCAAAATTACT-GAAAAAAGCTCCCACGTGGA
* * * *
57624475 TGCTTTTTTTCTACAGTTATTCCTAAAAAAATAATTTTAAGAAGAATGTTCAGAACAAATAG
65 CGCTCTTTTTCTACAGATATTCCTAAAAAAATAATTTTAAGAAGAAGGTTCAGAACAAATAG
*
57624537 TGTAAAAAATGCTTCAAGCATGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGAC
1 TGTAAAAAATGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGAC
* * * *
57624602 GCTCTTTTTCTACA-ATAGTTCTTGAAAAAATAATTTTAAGAAGACGGTTCTGAACAAATAG
66 GCTCTTTTTCTACAGATA-TTCCTAAAAAAATAATTTTAAGAAGAAGGTTCAGAACAAATAG
* * * * * *
57624663 TGT-AAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTATTGCAAAAATCTCTCACGTGTAC
1 TGTAAAAAATGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGAC
57624727 GCTCTTTTTCTACAG
66 GCTCTTTTTCTACAG
57624742 TAGCTCCTGT
Statistics
Matches: 183, Mismatches: 20, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
125 70 0.38
126 72 0.39
127 41 0.22
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (126 bp):
TGTAAAAAATGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGAC
GCTCTTTTTCTACAGATATTCCTAAAAAAATAATTTTAAGAAGAAGGTTCAGAACAAATAG
Found at i:57626476 original size:11 final size:10
Alignment explanation
Indices: 57626448--57626500 Score: 65
Period size: 10 Copynumber: 5.3 Consensus size: 10
57626438 TTTAAAATAC
57626448 TTTTTTAAA-
1 TTTTTTAAAT
57626457 -TTTTTAAAT
1 TTTTTTAAAT
57626466 TTTTTTAAAAT
1 TTTTTT-AAAT
*
57626477 ACTTTTTAAAT
1 -TTTTTTAAAT
57626488 TTTTTTAAAT
1 TTTTTTAAAT
57626498 TTT
1 TTT
57626501 AAAATATTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
8 8 0.21
10 17 0.45
11 8 0.21
12 5 0.13
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (10 bp):
TTTTTTAAAT
Found at i:57626476 original size:31 final size:31
Alignment explanation
Indices: 57626438--57626514 Score: 101
Period size: 29 Copynumber: 2.6 Consensus size: 31
57626428 ATTTTTTTAG
57626438 TTTAAAATACTTTTTTAAA-TTTTTAAATTTT
1 TTTAAAATAC-TTTTTAAATTTTTTAAATTTT
57626469 TTTAAAATACTTTTTAAATTTTTTTAAA---T
1 TTTAAAATACTTTTTAAA-TTTTTTAAATTTT
57626498 TTTAAAATA-TTTTTAAA
1 TTTAAAATACTTTTTAAA
57626515 ATACTGTTTT
Statistics
Matches: 44, Mismatches: 0, Indels: 7
0.86 0.00 0.14
Matches are distributed among these distances:
28 8 0.18
29 10 0.23
30 8 0.18
31 10 0.23
32 8 0.18
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (31 bp):
TTTAAAATACTTTTTAAATTTTTTAAATTTT
Found at i:57626499 original size:40 final size:40
Alignment explanation
Indices: 57626448--57626531 Score: 134
Period size: 40 Copynumber: 2.1 Consensus size: 40
57626438 TTTAAAATAC
* *
57626448 TTTTTTAAATTTTTAAATTTTTTTAAAATACT-TTTTAAAT
1 TTTTTTAAATTTTAAAATATTTTTAAAATACTGTTTT-AAT
57626488 TTTTTTAAATTTTAAAATATTTTTAAAATACTGTTTTAAT
1 TTTTTTAAATTTTAAAATATTTTTAAAATACTGTTTTAAT
57626528 TTTT
1 TTTT
57626532 AAAATAAATT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
40 37 0.90
41 4 0.10
ACGTcount: A:0.35, C:0.02, G:0.01, T:0.62
Consensus pattern (40 bp):
TTTTTTAAATTTTAAAATATTTTTAAAATACTGTTTTAAT
Found at i:57626517 original size:11 final size:10
Alignment explanation
Indices: 57626442--57626514 Score: 62
Period size: 9 Copynumber: 7.3 Consensus size: 10
57626432 TTTTAGTTTA
57626442 AAATACTTTTT
1 AAATA-TTTTT
*
57626453 TAA-ATTTTT
1 AAATATTTTT
*
57626462 AAATTTTTTT
1 AAATATTTTT
57626472 AAAATACTTTTT
1 -AAATA-TTTTT
57626484 AAAT-TTTTT
1 AAATATTTTT
* *
57626493 TAA-ATTTTA
1 AAATATTTTT
57626502 AAATATTTTT
1 AAATATTTTT
57626512 AAA
1 AAA
57626515 ATACTGTTTT
Statistics
Matches: 49, Mismatches: 8, Indels: 11
0.72 0.12 0.16
Matches are distributed among these distances:
9 20 0.41
10 14 0.29
11 10 0.20
12 5 0.10
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.58
Consensus pattern (10 bp):
AAATATTTTT
Found at i:57626526 original size:13 final size:11
Alignment explanation
Indices: 57626438--57626517 Score: 59
Period size: 11 Copynumber: 7.8 Consensus size: 11
57626428 ATTTTTTTAG
57626438 TTTAAAATACTT
1 TTTAAAATA-TT
*
57626450 TTT-TAA-ATT
1 TTTAAAATATT
*
57626459 TTT-AAATTTT
1 TTTAAAATATT
57626469 TTTAAAATACTT
1 TTTAAAATA-TT
57626481 TTT-AAAT-TT
1 TTTAAAATATT
*
57626490 TTT-TAA-A-T
1 TTTAAAATATT
57626498 TTTAAAATATT
1 TTTAAAATATT
57626509 TTTAAAATA
1 TTTAAAATA
57626518 CTGTTTTAAT
Statistics
Matches: 55, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
8 4 0.07
9 16 0.29
10 7 0.13
11 20 0.36
12 8 0.15
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (11 bp):
TTTAAAATATT
Found at i:57628475 original size:95 final size:95
Alignment explanation
Indices: 57628276--57628472 Score: 319
Period size: 95 Copynumber: 2.1 Consensus size: 95
57628266 ACTTCTAATT
*
57628276 TATTAAAAATATAAAAATAAATTTCTATTAAAATATTAAAAAACAACTTTTATTTTATTAAATGA
1 TATTAAAAATATAAAAATAAATTACTATTAAAATATTAAAAAACAACTTTTATTTTATTAAATGA
*
57628341 AACAATATAAAAAACCAATTTGTACAAGTA
66 AACAATATAAAAAACCAATTTGTACAAATA
**
57628371 TATTAAAAATATAAAAAGTAAATTACTATTACTATATT-AAAAACAACTTTTATTTTATTAAATG
1 TATTAAAAATATAAAAA-TAAATTACTATTAAAATATTAAAAAACAACTTTTATTTTATTAAATG
*
57628435 AAACAATAT-AAAAA-CAGTTTGTACAAATA
65 AAACAATATAAAAAACCAATTTGTACAAATA
57628464 TATTAAAAA
1 TATTAAAAA
57628473 AATCCATGTT
Statistics
Matches: 96, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
93 22 0.23
94 5 0.05
95 52 0.54
96 17 0.18
ACGTcount: A:0.54, C:0.07, G:0.04, T:0.35
Consensus pattern (95 bp):
TATTAAAAATATAAAAATAAATTACTATTAAAATATTAAAAAACAACTTTTATTTTATTAAATGA
AACAATATAAAAAACCAATTTGTACAAATA
Found at i:57629759 original size:30 final size:30
Alignment explanation
Indices: 57629725--57629783 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
57629715 TACAAGCTTT
*
57629725 GGGGCAAAAGTGTAAATATGCAAAAGTTTA
1 GGGGCAAAAGTGTAAATATGAAAAAGTTTA
* * *
57629755 GGGGCAAAATTGTAATTTTGAAAAAGTTT
1 GGGGCAAAAGTGTAAATATGAAAAAGTTT
57629784 GAGTTAAGGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.05, G:0.25, T:0.29
Consensus pattern (30 bp):
GGGGCAAAAGTGTAAATATGAAAAAGTTTA
Found at i:57630263 original size:23 final size:23
Alignment explanation
Indices: 57630232--57630284 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
57630222 AGTGTTATTG
57630232 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
57630255 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
57630278 ATCAGTG
1 ATCAGTG
57630285 TGGCACTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:57630456 original size:38 final size:37
Alignment explanation
Indices: 57630414--57630486 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 37
57630404 ATGTGCAGAA
* *
57630414 TTGAATTGAATATTGACTTGAAAA-TGGAAAAGTGAATT
1 TTGAATTGAATAGTGA-TT-AAAAGTGAAAAAGTGAATT
57630452 TTGAATTGAATAGTGATTAAAAGTGAAAAAGTGAA
1 TTGAATTGAATAGTGATTAAAAGTGAAAAAGTGAA
57630487 ATTATGAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
36 4 0.12
37 13 0.41
38 15 0.47
ACGTcount: A:0.45, C:0.01, G:0.22, T:0.32
Consensus pattern (37 bp):
TTGAATTGAATAGTGATTAAAAGTGAAAAAGTGAATT
Found at i:57635117 original size:19 final size:21
Alignment explanation
Indices: 57635082--57635127 Score: 78
Period size: 19 Copynumber: 2.3 Consensus size: 21
57635072 ATGCATGTAT
57635082 ATAAAAACATAAAGTATAAAA
1 ATAAAAACATAAAGTATAAAA
57635103 ATAAAAA-AT-AAGTATAAAA
1 ATAAAAACATAAAGTATAAAA
57635122 ATAAAA
1 ATAAAA
57635128 GTAATAATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 16 0.64
20 2 0.08
21 7 0.28
ACGTcount: A:0.74, C:0.02, G:0.04, T:0.20
Consensus pattern (21 bp):
ATAAAAACATAAAGTATAAAA
Found at i:57638551 original size:21 final size:19
Alignment explanation
Indices: 57638514--57638580 Score: 64
Period size: 21 Copynumber: 3.4 Consensus size: 19
57638504 AAAATTTAAA
* *
57638514 GAAG-AGGCGGCAACGAGG
1 GAAGCAGGCTGCAGCGAGG
57638532 GAAGCAGCGACTGCAGCGAGG
1 GAAGCAG-G-CTGCAGCGAGG
*
57638553 GAAGCGAAGGCTGCAGCGAGA
1 GAAGC--AGGCTGCAGCGAGG
57638574 GAAGCAG
1 GAAGCAG
57638581 AGCAGAGCAA
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
18 4 0.10
19 4 0.10
20 1 0.02
21 29 0.71
22 1 0.02
23 2 0.05
ACGTcount: A:0.33, C:0.19, G:0.45, T:0.03
Consensus pattern (19 bp):
GAAGCAGGCTGCAGCGAGG
Found at i:57638813 original size:15 final size:15
Alignment explanation
Indices: 57638793--57638831 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
57638783 ATTTATTGCT
*
57638793 TTTGGTTGGTTTAGA
1 TTTGGTTGCTTTAGA
*
57638808 TTTGGTTGCTTTTGA
1 TTTGGTTGCTTTAGA
57638823 TTT-GTTGCT
1 TTTGGTTGCT
57638832 ACAGGAGGGC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 6 0.27
15 16 0.73
ACGTcount: A:0.08, C:0.05, G:0.28, T:0.59
Consensus pattern (15 bp):
TTTGGTTGCTTTAGA
Found at i:57638963 original size:16 final size:16
Alignment explanation
Indices: 57638942--57638974 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
57638932 CTTAGAAAAA
57638942 AACGCCGCTAAAGAAC
1 AACGCCGCTAAAGAAC
57638958 AACGCCGCTAAAGAAC
1 AACGCCGCTAAAGAAC
57638974 A
1 A
57638975 TGTTCTTTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.45, C:0.30, G:0.18, T:0.06
Consensus pattern (16 bp):
AACGCCGCTAAAGAAC
Found at i:57639724 original size:24 final size:25
Alignment explanation
Indices: 57639696--57639747 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 25
57639686 ACTGTTATAA
*
57639696 AAAATTATA-AAATAAAAATAA-ATT
1 AAAATTACATAAATAAAAA-AATATT
57639720 AAAATTACATAAATAAAAAAATATT
1 AAAATTACATAAATAAAAAAATATT
57639745 AAA
1 AAA
57639748 TAGTATTAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 10 0.40
25 15 0.60
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (25 bp):
AAAATTACATAAATAAAAAAATATT
Found at i:57641010 original size:30 final size:30
Alignment explanation
Indices: 57640976--57641038 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
57640966 ACTTAACAAG
*
57640976 CAAATGTCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
57641006 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
57641036 CAA
1 CAA
57641039 TAAAACTAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.57, C:0.16, G:0.03, T:0.24
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:57645874 original size:97 final size:99
Alignment explanation
Indices: 57645771--57645973 Score: 277
Period size: 97 Copynumber: 2.1 Consensus size: 99
57645761 TTTTTAATTC
*
57645771 ATATTTTTAATTAATAACTCTTTTATTTATA-TAAATAAAATAATAAACATGTAATTATATAAT-
1 ATATTTTTAATTAATAACTCATTTATTTATACT-AATAAAATAATAAACATGTAATTATATAATG
57645834 AAA-AATATATTTTATATATATCATTAAGTTAAAA
65 AAATAATATATTTTATATATATCATTAAGTTAAAA
* * * * *
57645868 ATATTTTTAATTAATAACTCATTTATTTATACTTATAAATTAATAAATATGTCATTCTATAATGA
1 ATATTTTTAATTAATAACTCATTTATTTATACTAATAAAATAATAAACATGTAATTATATAATGA
* * * * *
57645933 AATTATATATTTTATATTTATTATTATGTTAAAT
66 AATAATATATTTTATATATATCATTAAGTTAAAA
57645967 ATATTTT
1 ATATTTT
57645974 ATTGTAACTA
Statistics
Matches: 92, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
97 55 0.60
98 4 0.04
99 33 0.36
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.49
Consensus pattern (99 bp):
ATATTTTTAATTAATAACTCATTTATTTATACTAATAAAATAATAAACATGTAATTATATAATGA
AATAATATATTTTATATATATCATTAAGTTAAAA
Found at i:57645997 original size:97 final size:97
Alignment explanation
Indices: 57645771--57645998 Score: 257
Period size: 97 Copynumber: 2.4 Consensus size: 97
57645761 TTTTTAATTC
** *
57645771 ATATTTTTAATTAATAACTCTTTTATTTATA-TAAATAAAATAATAAACATGTAATTATATAATA
1 ATATTTTTAATTAATAACTAATTTATTTATACT-TATAAAATAATAAACATGTAATTATATAATA
57645835 AAAATATATTTTATATATATCATTAAGTTAAAA
65 AAAATATATTTTATATATATCATTAAGTTAAAA
* * * * *
57645868 ATATTTTTAATTAATAACTCATTTATTTATACTTATAAATTAATAAATATGTCATTCTATAATGA
1 ATATTTTTAATTAATAACTAATTTATTTATACTTATAAAATAATAAACATGTAATTATATAAT-A
* * * * *
57645933 AATTATATATTTTATATTTATTATTATGTTAAAT
65 AA-AATATATTTTATATATATCATTAAGTTAAAA
* *
57645967 ATA-TTTT-ATT-GTAACTAATTTGTTTGATACTT
1 ATATTTTTAATTAATAACTAATTTATTT-ATACTT
57645999 TTTTCTGTAT
Statistics
Matches: 113, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
96 12 0.11
97 64 0.57
98 8 0.07
99 29 0.26
ACGTcount: A:0.43, C:0.05, G:0.04, T:0.49
Consensus pattern (97 bp):
ATATTTTTAATTAATAACTAATTTATTTATACTTATAAAATAATAAACATGTAATTATATAATAA
AAATATATTTTATATATATCATTAAGTTAAAA
Found at i:57651740 original size:46 final size:46
Alignment explanation
Indices: 57651662--57651846 Score: 307
Period size: 46 Copynumber: 4.0 Consensus size: 46
57651652 ACATTACTAT
* *
57651662 AACTCAGTATGGTTTTCTTCACGGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
* * *
57651708 AACTCAGTATGGTTTTCTTTACCAAAACACCATACCTACTTTTAAC
1 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
* *
57651754 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAT
1 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
57651800 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
57651846 A
1 A
57651847 CATTGCCATG
Statistics
Matches: 127, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 127 1.00
ACGTcount: A:0.30, C:0.27, G:0.09, T:0.35
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
Found at i:57656056 original size:157 final size:157
Alignment explanation
Indices: 57655810--57656112 Score: 536
Period size: 157 Copynumber: 1.9 Consensus size: 157
57655800 ATGAGTCTCA
*
57655810 AGATGAACGCTCCAGATCCAGTTCGGCGCAGGTTAGTTTGGATTTCTTCTTCTCATCTTTTGATT
1 AGATGAACGCTCCAGATCCAGTTCGGCGCAGGTTAGTTTGGATTTCTTCCTCTCATCTTTTGATT
* *
57655875 CTTATGTTATATCTTGGTTAAAAAAGAAAAAAAATTGCTGATTGAGTTTGATAATGTTCGCAGGC
66 CTTATGTTATATCATAGTTAAAAAAGAAAAAAAATTGCTGATTGAGTTTGATAATGTTCGCAGGC
57655940 GGTGTCAGGGGATCAGGAACACCAACG
131 GGTGTCAGGGGATCAGGAACACCAACG
* *
57655967 AGATGAACGCTCCAGATCCAGTTGGGCGCAGGTTAGTTTGGATTTCTTCCTCTGATCTTTTGATT
1 AGATGAACGCTCCAGATCCAGTTCGGCGCAGGTTAGTTTGGATTTCTTCCTCTCATCTTTTGA-T
57656032 TCTTATGTTATATCATAGTT-AAAAAGAAAAAAAATTGCTGATTGAGTTTGATAATGTTCGCAGG
65 TCTTATGTTATATCATAGTTAAAAAAGAAAAAAAATTGCTGATTGAGTTTGATAATGTTCGCAGG
*
57656096 TGGTGTCAGGGGATCAG
130 CGGTGTCAGGGGATCAG
57656113 TATCACGAAA
Statistics
Matches: 139, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
157 120 0.86
158 19 0.14
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.34
Consensus pattern (157 bp):
AGATGAACGCTCCAGATCCAGTTCGGCGCAGGTTAGTTTGGATTTCTTCCTCTCATCTTTTGATT
CTTATGTTATATCATAGTTAAAAAAGAAAAAAAATTGCTGATTGAGTTTGATAATGTTCGCAGGC
GGTGTCAGGGGATCAGGAACACCAACG
Found at i:57658875 original size:6 final size:6
Alignment explanation
Indices: 57658864--57658889 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
57658854 ACTATAGATA
57658864 TCATGT TCATGT TCATGT TCATGT TC
1 TCATGT TCATGT TCATGT TCATGT TC
57658890 CTGTCTAGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.19, G:0.15, T:0.50
Consensus pattern (6 bp):
TCATGT
Found at i:57668216 original size:34 final size:34
Alignment explanation
Indices: 57668177--57668241 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
57668167 TATATAAATT
57668177 ATATTTTAAATATTTGTAATTAAT-ATTTTAAAAA
1 ATATTTT-AATATTTGTAATTAATGATTTTAAAAA
** *
57668211 ATATTTTTTTATTTTTAATTAATGATTTTAA
1 ATATTTTAATATTTGTAATTAATGATTTTAA
57668242 CACATTTGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
33 13 0.48
34 14 0.52
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (34 bp):
ATATTTTAATATTTGTAATTAATGATTTTAAAAA
Found at i:57674889 original size:48 final size:48
Alignment explanation
Indices: 57674837--57674930 Score: 179
Period size: 48 Copynumber: 2.0 Consensus size: 48
57674827 TTTTTAGTAA
57674837 AAACATAAAAAATAATTTATTGTAATTTGTTATTTATATTTCAATACT
1 AAACATAAAAAATAATTTATTGTAATTTGTTATTTATATTTCAATACT
*
57674885 AAACATAAAAAATAATTTATTGTAATTTGTTATTTATATTTTAATA
1 AAACATAAAAAATAATTTATTGTAATTTGTTATTTATATTTCAATA
57674931 TATGAAATAT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (48 bp):
AAACATAAAAAATAATTTATTGTAATTTGTTATTTATATTTCAATACT
Found at i:57675202 original size:16 final size:16
Alignment explanation
Indices: 57675181--57675213 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
57675171 TTCGCTGTAT
57675181 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
57675197 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
57675213 T
1 T
57675214 AGCAATTCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.06, G:0.36, T:0.21
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:57675586 original size:18 final size:17
Alignment explanation
Indices: 57675565--57675599 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
57675555 TTATTATTAA
*
57675565 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
57675583 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
57675600 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:57675638 original size:120 final size:120
Alignment explanation
Indices: 57675425--57675744 Score: 615
Period size: 120 Copynumber: 2.7 Consensus size: 120
57675415 TTAATCATAT
*
57675425 TTTAACATAATTATTATTAAAAATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
*
57675490 CAATATTCTTATATAAATTTACTAAAATCATAATATATGATACTATAAAATATAA
66 CAATATTCTTATATAAATTTACCAAAATCATAATATATGATACTATAAAATATAA
57675545 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
57675610 CAATATTCTTATATAAATTTACCAAAATCATAATATATGATACTATAAAATATAA
66 CAATATTCTTATATAAATTTACCAAAATCATAATATATGATACTATAAAATATAA
57675665 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
57675730 CAATATTCTTA-ATAA
66 CAATATTCTTATATAA
57675745 CCAATATTCT
Statistics
Matches: 198, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
119 4 0.02
120 194 0.98
ACGTcount: A:0.50, C:0.06, G:0.01, T:0.43
Consensus pattern (120 bp):
TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
CAATATTCTTATATAAATTTACCAAAATCATAATATATGATACTATAAAATATAA
Found at i:57675706 original size:18 final size:17
Alignment explanation
Indices: 57675685--57675719 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
57675675 TTATTATTAA
*
57675685 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
57675703 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
57675720 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:57675739 original size:16 final size:16
Alignment explanation
Indices: 57675718--57675760 Score: 70
Period size: 16 Copynumber: 2.8 Consensus size: 16
57675708 ATTTAATAAA
*
57675718 ATTCTTAATAATCAAT
1 ATTCTTAATAACCAAT
57675734 ATTCTTAATAACCAAT
1 ATTCTTAATAACCAAT
57675750 ATTCTT-ATAAC
1 ATTCTTAATAAC
57675761 AAAAATTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
15 5 0.19
16 21 0.81
ACGTcount: A:0.42, C:0.16, G:0.00, T:0.42
Consensus pattern (16 bp):
ATTCTTAATAACCAAT
Found at i:57678203 original size:5 final size:5
Alignment explanation
Indices: 57678193--57678218 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
57678183 GGGAGGGAGA
57678193 GGGTG GGGTG GGGTG GGGTG GGGTG G
1 GGGTG GGGTG GGGTG GGGTG GGGTG G
57678219 AGAATCGATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.00, G:0.81, T:0.19
Consensus pattern (5 bp):
GGGTG
Found at i:57683126 original size:21 final size:21
Alignment explanation
Indices: 57683092--57683132 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
57683082 AGACGAGCAA
* * *
57683092 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTAGAGTG
57683113 TACTCCAAAACAGGTAGAGT
1 TACTCCAAAACAGGTAGAGT
57683133 TTGAGCAGAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.32, C:0.22, G:0.27, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTAGAGTG
Found at i:57692329 original size:14 final size:15
Alignment explanation
Indices: 57692304--57692332 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
57692294 CCATTCAATT
57692304 AATCAGTTCATAACA
1 AATCAGTTCATAACA
57692319 AATCA-TTCATAACA
1 AATCAGTTCATAACA
57692333 TATTCAATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.48, C:0.21, G:0.03, T:0.28
Consensus pattern (15 bp):
AATCAGTTCATAACA
Found at i:57692653 original size:41 final size:40
Alignment explanation
Indices: 57692546--57692656 Score: 120
Period size: 41 Copynumber: 2.8 Consensus size: 40
57692536 CGGATAATTT
*
57692546 GAAGTAATAAGTTGACACCCAATGTCTCATCG-GCTAAACC
1 GAAGTAATAA-TTGACACCCAATGTCTCATCGAACTAAACC
* * * * *
57692586 GAAGT-A-AATTGGCACCCAATGCCTCATCGAATTAATCG
1 GAAGTAATAATTGACACCCAATGTCTCATCGAACTAAACC
*
57692624 GAAGTAATAGATTGACACCCAGTGTCTCATCGA
1 GAAGTAATA-ATTGACACCCAATGTCTCATCGA
57692657 CTCGTAGTTG
Statistics
Matches: 58, Mismatches: 9, Indels: 7
0.78 0.12 0.09
Matches are distributed among these distances:
37 19 0.33
38 11 0.19
39 2 0.03
40 6 0.10
41 20 0.34
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.23
Consensus pattern (40 bp):
GAAGTAATAATTGACACCCAATGTCTCATCGAACTAAACC
Found at i:57699585 original size:23 final size:23
Alignment explanation
Indices: 57699566--57699619 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
57699556 TGTATACACG
57699566 TACATAATAAAAATATATACTAA
1 TACATAATAAAAATATATACTAA
* *
57699589 TACATAATAATAATA-ATAGTAA
1 TACATAATAAAAATATATACTAA
57699611 TAC-TAATAA
1 TACATAATAA
57699620 TACTAATAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 6 0.21
22 9 0.31
23 14 0.48
ACGTcount: A:0.59, C:0.07, G:0.02, T:0.31
Consensus pattern (23 bp):
TACATAATAAAAATATATACTAA
Found at i:57699600 original size:3 final size:3
Alignment explanation
Indices: 57699569--57699639 Score: 63
Period size: 3 Copynumber: 23.3 Consensus size: 3
57699559 ATACACGTAC
* * * *
57699569 ATA ATA AAA ATA TATA CTA ATA CATA ATA ATA ATA ATA GTA ATA CTA
1 ATA ATA ATA ATA -ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
* *
57699616 ATA ATA CTA ATA AT- ATA AAA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
57699640 CAAGGATATT
Statistics
Matches: 53, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
2 2 0.04
3 45 0.85
4 6 0.11
ACGTcount: A:0.62, C:0.06, G:0.01, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:57700126 original size:11 final size:12
Alignment explanation
Indices: 57700106--57700143 Score: 60
Period size: 11 Copynumber: 3.2 Consensus size: 12
57700096 AGAAAAAAAA
57700106 GAAGAGAGAGAGG
1 GAAGAGAGA-AGG
57700119 GAAGAGAGAAGG
1 GAAGAGAGAAGG
57700131 G-AGAGAGAAGG
1 GAAGAGAGAAGG
57700142 GA
1 GA
57700144 GGGGGAAAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.46
12 4 0.17
13 9 0.38
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (12 bp):
GAAGAGAGAAGG
Found at i:57700636 original size:8 final size:8
Alignment explanation
Indices: 57700623--57700647 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
57700613 GGTGTTCGGC
57700623 GCAAGTGG
1 GCAAGTGG
57700631 GCAAGTGG
1 GCAAGTGG
57700639 GCAAGTGG
1 GCAAGTGG
57700647 G
1 G
57700648 GGGTAGATGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.12, G:0.52, T:0.12
Consensus pattern (8 bp):
GCAAGTGG
Found at i:57705438 original size:25 final size:25
Alignment explanation
Indices: 57705375--57705534 Score: 131
Period size: 25 Copynumber: 6.6 Consensus size: 25
57705365 TTGTTATGCA
* *
57705375 CTAATGAA-CAGAGAGCACTGAAGTG
1 CTAAT-AATCAGAGAGCACAGACGTG
57705400 CT-AT-A-CAGAGAGCACAGACGTG
1 CTAATAATCAGAGAGCACAGACGTG
* *
57705422 CTAGTAATCAAAGAGCACTA-ACGTG
1 CTAATAATCAGAGAGCAC-AGACGTG
* *
57705447 CTAATAATCAGAGAGCACTGATGTG
1 CTAATAATCAGAGAGCACAGACGTG
* * *
57705472 CTAATAATCAGATAGCACATATGTG
1 CTAATAATCAGAGAGCACAGACGTG
**
57705497 CT-A-AA-CAGAGAGCAGTGACGTG
1 CTAATAATCAGAGAGCACAGACGTG
57705519 CTAA-ATATCAGAGAGC
1 CTAATA-ATCAGAGAGC
57705535 GCGCTAGAGT
Statistics
Matches: 111, Mismatches: 16, Indels: 16
0.78 0.11 0.11
Matches are distributed among these distances:
22 32 0.29
23 5 0.05
24 5 0.05
25 68 0.61
26 1 0.01
ACGTcount: A:0.39, C:0.18, G:0.24, T:0.19
Consensus pattern (25 bp):
CTAATAATCAGAGAGCACAGACGTG
Found at i:57705439 original size:47 final size:46
Alignment explanation
Indices: 57705386--57705522 Score: 148
Period size: 50 Copynumber: 2.8 Consensus size: 46
57705376 TAATGAACAG
* *
57705386 AGAGCACTGAAGTGCTATACAGAGAGCACAGACGTGCTAGTAATCAA
1 AGAGCACT-AAGTGCTATACAGAGAGCACTGACGTGCTAATAATCAA
* *
57705433 AGAGCACTAACGTGCTAATAATCAGAGAGCACTGATGTGCTAATAATCAG
1 AGAGCACTAA-GTGCT-AT-A-CAGAGAGCACTGACGTGCTAATAATCAA
* * * *
57705483 ATAGCACATATGTGCTAAACAGAGAGCAGTGACGTGCTAA
1 AGAGCAC-TAAGTGCTATACAGAGAGCACTGACGTGCTAA
57705523 ATATCAGAGA
Statistics
Matches: 76, Mismatches: 9, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
46 2 0.03
47 32 0.42
48 3 0.04
49 2 0.03
50 35 0.46
51 2 0.03
ACGTcount: A:0.38, C:0.18, G:0.24, T:0.20
Consensus pattern (46 bp):
AGAGCACTAAGTGCTATACAGAGAGCACTGACGTGCTAATAATCAA
Found at i:57705509 original size:72 final size:71
Alignment explanation
Indices: 57705375--57705534 Score: 175
Period size: 72 Copynumber: 2.2 Consensus size: 71
57705365 TTGTTATGCA
57705375 CTAATGAA-CAGAGAGCACTGAAGTGCTATACAGAGAGCACAGACGTGCTAGTAATCAAAGAGCA
1 CTAAT-AATCAGAGAGCACTGAAGTGCTATACAGAGAGCACAGACGTGCTAG-AATCAAAGAGCA
57705439 CTAACGTG
64 CTAACGTG
* * * * *
57705447 CTAATAATCAGAGAGCACTGATGTGCTAATAATCAGATAGCACATATGTGCTA-AA-CAGAGAGC
1 CTAATAATCAGAGAGCACTGAAGTGCT-AT-A-CAGAGAGCACAGACGTGCTAGAATCAAAGAGC
* *
57705510 AGTGACGTG
63 ACTAACGTG
57705519 CTAA-ATATCAGAGAGC
1 CTAATA-ATCAGAGAGC
57705535 GCGCTAGAGT
Statistics
Matches: 76, Mismatches: 7, Indels: 10
0.82 0.08 0.11
Matches are distributed among these distances:
71 3 0.04
72 51 0.67
73 4 0.05
74 1 0.01
75 17 0.22
ACGTcount: A:0.39, C:0.18, G:0.24, T:0.19
Consensus pattern (71 bp):
CTAATAATCAGAGAGCACTGAAGTGCTATACAGAGAGCACAGACGTGCTAGAATCAAAGAGCACT
AACGTG
Found at i:57708188 original size:12 final size:12
Alignment explanation
Indices: 57708168--57708198 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
57708158 TCTCACTTTT
*
57708168 AAAAAAAAAAAG
1 AAAAGAAAAAAG
57708180 AAAAGAAAAAAG
1 AAAAGAAAAAAG
57708192 AAAAGAA
1 AAAAGAA
57708199 TCTCCTAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (12 bp):
AAAAGAAAAAAG
Found at i:57711572 original size:42 final size:42
Alignment explanation
Indices: 57711518--57711629 Score: 122
Period size: 42 Copynumber: 2.7 Consensus size: 42
57711508 GATTTATGTA
* * * *
57711518 TAAGACCATGTCTGTGACA-TCGGCATT-ATATTTGATTTCGTG
1 TAAGACCATGTCTGGGACAGT-GGCATTGAT-GTTGATTACATG
*
57711560 TAAGACCCTGTCTGGGACAGTGGCATTGATGTTGATTACATG
1 TAAGACCATGTCTGGGACAGTGGCATTGATGTTGATTACATG
*
57711602 TAAGACCACGTCTGGGAC-GTTGGCATTG
1 TAAGACCATGTCTGGGACAG-TGGCATTG
57711630 TACGAGTTTT
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
41 1 0.02
42 56 0.93
43 3 0.05
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (42 bp):
TAAGACCATGTCTGGGACAGTGGCATTGATGTTGATTACATG
Found at i:57711970 original size:17 final size:18
Alignment explanation
Indices: 57711926--57711970 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
57711916 TATGAAATTT
57711926 TGATATGAAATGTGAGTA
1 TGATATGAAATGTGAGTA
*
57711944 TGAT-TAAAATGATGA-TA
1 TGATATGAAATG-TGAGTA
57711961 T-ATATGAAAT
1 TGATATGAAAT
57711971 ATATGATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
16 2 0.09
17 14 0.61
18 7 0.30
ACGTcount: A:0.44, C:0.00, G:0.20, T:0.36
Consensus pattern (18 bp):
TGATATGAAATGTGAGTA
Found at i:57717156 original size:36 final size:36
Alignment explanation
Indices: 57717115--57717305 Score: 240
Period size: 36 Copynumber: 5.0 Consensus size: 36
57717105 CTAAGGCTAA
57717115 CACTTATCACTTTGTT-ACTTGATCAGATAAGTATAG
1 CACTTATCACTTT-TTCACTTGATCAGATAAGTATAG
57717151 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
1 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
57717187 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAG
1 CACTTATCACTTTTTCACTTGATCAGATAA--GTA--T--AG
* * *
57717229 CTACCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
1 ----CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
*
57717269 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAG
1 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
57717305 C
1 C
57717306 TAAAGCTACC
Statistics
Matches: 139, Mismatches: 5, Indels: 22
0.84 0.03 0.13
Matches are distributed among these distances:
35 2 0.01
36 98 0.71
38 3 0.02
40 3 0.02
42 3 0.02
44 2 0.01
46 28 0.20
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.38
Consensus pattern (36 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
Found at i:57717237 original size:82 final size:81
Alignment explanation
Indices: 57717026--57717341 Score: 350
Period size: 82 Copynumber: 3.9 Consensus size: 81
57717016 TACGTATGAT
* * * *
57717026 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCTAGGCTACCACTTATCACTTTCTCACTT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTTATCACTT
57717089 GATCAGATAAGTGTAGCTAAGG
66 GATCAGATAA--GTA--T-A-G
*
57717111 CTAACACTTATCACTTTGTT-ACTTGATCAGATAA--GTA--T-AG----CACTTATCACTTTTT
1 ----CACTTATCACTTT-TTCACTTGATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTTAT
57717166 CACTTGATCAGATAAGTATAG
61 CACTTGATCAGATAAGTATAG
* *
57717187 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCACTTTATCACT
*
57717252 TGATCAGATAAGTGTAG
65 TGATCAGATAAGTATAG
*
57717269 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCTCT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCACTTTATCACT
57717334 TGATCAGA
65 TGATCAGA
57717342 AGTACTCAAA
Statistics
Matches: 205, Mismatches: 8, Indels: 35
0.83 0.03 0.14
Matches are distributed among these distances:
71 2 0.01
72 27 0.13
74 3 0.01
76 2 0.01
77 1 0.00
78 3 0.01
80 3 0.01
82 134 0.65
86 1 0.00
87 1 0.00
89 13 0.06
90 2 0.01
91 13 0.06
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.36
Consensus pattern (81 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTTATCACTT
GATCAGATAAGTATAG
Found at i:57717241 original size:118 final size:118
Alignment explanation
Indices: 57717069--57717305 Score: 413
Period size: 118 Copynumber: 2.0 Consensus size: 118
57717059 GCTAGGCTAC
*
57717069 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTAACACTTATCACTTTGT-TAC
1 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAAGCTAACACTTATCACTTTGTCT-C
57717133 TTGATCAGATAAGTATAGCACTTATCACTTTTTCACTTGATCAGATAAGTATAG
65 TTGATCAGATAAGTATAGCACTTATCACTTTTTCACTTGATCAGATAAGTATAG
* *
57717187 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
1 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAAGCTAACACTTATCACTTTGTCTCT
* *
57717252 TGATCAGATAAGTGTAGCACTTATCACTTTTTCACTTGATCAGATAAGTGTAG
66 TGATCAGATAAGTATAGCACTTATCACTTTTTCACTTGATCAGATAAGTATAG
57717305 C
1 C
57717306 TAAAGCTACC
Statistics
Matches: 113, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
118 112 0.99
119 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.37
Consensus pattern (118 bp):
CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAAGCTAACACTTATCACTTTGTCTCT
TGATCAGATAAGTATAGCACTTATCACTTTTTCACTTGATCAGATAAGTATAG
Found at i:57720819 original size:9 final size:9
Alignment explanation
Indices: 57720805--57720853 Score: 73
Period size: 9 Copynumber: 5.6 Consensus size: 9
57720795 TTTGGTTAAA
*
57720805 AATTACCCG
1 AATTAACCG
*
57720814 AATTACCCG
1 AATTAACCG
57720823 -ATTAACCG
1 AATTAACCG
57720831 AATTAACCG
1 AATTAACCG
57720840 AATTAACCG
1 AATTAACCG
57720849 AATTA
1 AATTA
57720854 CCCAAAAATT
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
8 7 0.18
9 31 0.82
ACGTcount: A:0.41, C:0.24, G:0.10, T:0.24
Consensus pattern (9 bp):
AATTAACCG
Found at i:57720846 original size:18 final size:18
Alignment explanation
Indices: 57720805--57720853 Score: 73
Period size: 17 Copynumber: 2.8 Consensus size: 18
57720795 TTTGGTTAAA
* *
57720805 AATTACCCGAATTACCCG
1 AATTAACCGAATTAACCG
57720823 -ATTAACCGAATTAACCG
1 AATTAACCGAATTAACCG
57720840 AATTAACCGAATTA
1 AATTAACCGAATTA
57720854 CCCAAAAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 15 0.54
18 13 0.46
ACGTcount: A:0.41, C:0.24, G:0.10, T:0.24
Consensus pattern (18 bp):
AATTAACCGAATTAACCG
Found at i:57738039 original size:86 final size:86
Alignment explanation
Indices: 57737919--57738092 Score: 303
Period size: 86 Copynumber: 2.0 Consensus size: 86
57737909 AAATCGGACA
* *
57737919 CAAACATTTATAACAATAGAGAGTCCAAATATAGATAAGCATATTTAGCAGTAACAAACTCTTCA
1 CAAACATTTATAACAATAAAGAGTCCAAATATAGATAAGCATATTTAGCAGTAACAAACTCGTCA
57737984 AATTAGTAGACACAACTTTCT
66 AATTAGTAGACACAACTTTCT
* * *
57738005 CAAACATTTATAATAATAAAGGGTCCAAATATAGATGAGCATATTTAGCAGTAACAAACTCGTCA
1 CAAACATTTATAACAATAAAGAGTCCAAATATAGATAAGCATATTTAGCAGTAACAAACTCGTCA
57738070 AATTAGTAGACACAACTTTCT
66 AATTAGTAGACACAACTTTCT
57738091 CA
1 CA
57738093 GAGTCTCATG
Statistics
Matches: 83, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
86 83 1.00
ACGTcount: A:0.44, C:0.17, G:0.11, T:0.28
Consensus pattern (86 bp):
CAAACATTTATAACAATAAAGAGTCCAAATATAGATAAGCATATTTAGCAGTAACAAACTCGTCA
AATTAGTAGACACAACTTTCT
Found at i:57743681 original size:20 final size:19
Alignment explanation
Indices: 57743668--57743712 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
57743658 TTTAATTGTA
57743668 TAAAAATTAATTTATCATTT
1 TAAAAATTAATTTA-CATTT
* *
57743688 TAAAAATTAATATATATTAT
1 TAAAAATTAATTTACATT-T
57743708 TAAAA
1 TAAAA
57743713 CTAAACGCCG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 3 0.14
20 19 0.86
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (19 bp):
TAAAAATTAATTTACATTT
Found at i:57746418 original size:12 final size:11
Alignment explanation
Indices: 57746403--57746503 Score: 56
Period size: 12 Copynumber: 9.6 Consensus size: 11
57746393 AAAACAAAAA
57746403 TTTAAAAAGTAT
1 TTTAAAAA-TAT
57746415 TTTAAAAATAT
1 TTTAAAAATAT
57746426 TTT--AAA-A-
1 TTTAAAAATAT
*
57746433 -TTAAAAA-AA
1 TTTAAAAATAT
*
57746442 TTAAAAAAGTAT
1 TTTAAAAA-TAT
*
57746454 TTTAAAAAAAT
1 TTTAAAAATAT
57746465 TTT-AAAAT-T
1 TTTAAAAATAT
**
57746474 TAAAAAAAGTAT
1 TTTAAAAA-TAT
* *
57746486 TTCAAAAGTAT
1 TTTAAAAATAT
57746497 TTTAAAA
1 TTTAAAA
57746504 GTTAAAAAAA
Statistics
Matches: 69, Mismatches: 11, Indels: 19
0.70 0.11 0.19
Matches are distributed among these distances:
6 2 0.03
8 5 0.07
9 5 0.07
10 14 0.20
11 21 0.30
12 22 0.32
ACGTcount: A:0.57, C:0.01, G:0.04, T:0.38
Consensus pattern (11 bp):
TTTAAAAATAT
Found at i:57746449 original size:39 final size:39
Alignment explanation
Indices: 57746380--57746481 Score: 141
Period size: 39 Copynumber: 2.5 Consensus size: 39
57746370 ACCAAAAATT
*
57746380 TATTTTAAAAATTAAAACAAAAATTTAAAAAGTATTTTAAAAA
1 TATTTT-AAAATT--AA-AAAAATTAAAAAAGTATTTTAAAAA
57746423 TATTTTAAAATTAAAAAAATTAAAAAAGTATTTTAAAAA
1 TATTTTAAAATTAAAAAAATTAAAAAAGTATTTTAAAAA
*
57746462 AATTTTAAAATTTAAAAAAA
1 TATTTTAAAA-TTAAAAAAA
57746482 GTATTTCAAA
Statistics
Matches: 56, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
39 33 0.59
40 11 0.20
42 6 0.11
43 6 0.11
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.35
Consensus pattern (39 bp):
TATTTTAAAATTAAAAAAATTAAAAAAGTATTTTAAAAA
Found at i:57746485 original size:32 final size:32
Alignment explanation
Indices: 57746444--57746513 Score: 104
Period size: 32 Copynumber: 2.2 Consensus size: 32
57746434 TAAAAAAATT
* *
57746444 AAAAAAGTATTTTAAAAAAATTTTAAAATTTA
1 AAAAAAGTATTTCAAAAAAATTTTAAAAGTTA
**
57746476 AAAAAAGTATTTCAAAAGTATTTTAAAAGTTA
1 AAAAAAGTATTTCAAAAAAATTTTAAAAGTTA
57746508 AAAAAA
1 AAAAAA
57746514 TTTTAAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.60, C:0.01, G:0.06, T:0.33
Consensus pattern (32 bp):
AAAAAAGTATTTCAAAAAAATTTTAAAAGTTA
Found at i:57746527 original size:18 final size:18
Alignment explanation
Indices: 57746495--57746534 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
57746485 TTTCAAAAGT
**
57746495 ATTTTAAAAGTTAAAAAA
1 ATTTTAAAAAATAAAAAA
*
57746513 ATTTTAAAAAATAAAAAT
1 ATTTTAAAAAATAAAAAA
57746531 ATTT
1 ATTT
57746535 ATTATTCGGG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.38
Consensus pattern (18 bp):
ATTTTAAAAAATAAAAAA
Found at i:57759604 original size:13 final size:13
Alignment explanation
Indices: 57759586--57759612 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
57759576 ATTTCCTTAG
57759586 TCTGAAGTATGCC
1 TCTGAAGTATGCC
57759599 TCTGAAGTATGCC
1 TCTGAAGTATGCC
57759612 T
1 T
57759613 TAGCTATCGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.33
Consensus pattern (13 bp):
TCTGAAGTATGCC
Found at i:57764209 original size:61 final size:61
Alignment explanation
Indices: 57764135--57764254 Score: 204
Period size: 61 Copynumber: 2.0 Consensus size: 61
57764125 CTGTATATGC
* *
57764135 ATGAATTTATGGGTGTTGGTGTTTGTGTAAGGGTGTATTTATTGTGCATATGTGTTGTTGG
1 ATGAATTTATGGGTGTTGGTGTTAGTGTAAGGGTGTACTTATTGTGCATATGTGTTGTTGG
* *
57764196 ATGAATTTATGGGTGTTGGTGTTAGTGTAAGGGTGTGCTTATTGTGCATGTGTGTTGTT
1 ATGAATTTATGGGTGTTGGTGTTAGTGTAAGGGTGTACTTATTGTGCATATGTGTTGTT
57764255 TTTGTATGTG
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
61 55 1.00
ACGTcount: A:0.16, C:0.03, G:0.35, T:0.47
Consensus pattern (61 bp):
ATGAATTTATGGGTGTTGGTGTTAGTGTAAGGGTGTACTTATTGTGCATATGTGTTGTTGG
Found at i:57771679 original size:26 final size:26
Alignment explanation
Indices: 57771649--57771702 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
57771639 TTTGTAATAT
57771649 AGGTATTTTATTTTATCAATGTTTTA
1 AGGTATTTTATTTTATCAATGTTTTA
57771675 AGGTATTTTATTTTATCAATGTTTTA
1 AGGTATTTTATTTTATCAATGTTTTA
57771701 AG
1 AG
57771703 TTAATTATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.28, C:0.04, G:0.13, T:0.56
Consensus pattern (26 bp):
AGGTATTTTATTTTATCAATGTTTTA
Found at i:57772354 original size:42 final size:42
Alignment explanation
Indices: 57772307--57772393 Score: 174
Period size: 42 Copynumber: 2.1 Consensus size: 42
57772297 TTTGGTCTAC
57772307 GTTATTGGCATAAGAATATAATACAATAGTTGAATTAATTTA
1 GTTATTGGCATAAGAATATAATACAATAGTTGAATTAATTTA
57772349 GTTATTGGCATAAGAATATAATACAATAGTTGAATTAATTTA
1 GTTATTGGCATAAGAATATAATACAATAGTTGAATTAATTTA
57772391 GTT
1 GTT
57772394 CTTTAATTGC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.41, C:0.05, G:0.15, T:0.39
Consensus pattern (42 bp):
GTTATTGGCATAAGAATATAATACAATAGTTGAATTAATTTA
Found at i:57777865 original size:100 final size:104
Alignment explanation
Indices: 57777753--57777942 Score: 282
Period size: 100 Copynumber: 1.9 Consensus size: 104
57777743 TTATTACACA
* * *
57777753 TGTAATTTTTAAAATTTT-AAAGGTAAATTATTTAAAAGATAATGTTAAAAAATAAAAT-AAT-A
1 TGTAAGTTTTAAAATTTTAAAAAGTAAATTATTTAAAAGATAACGTT-AAAAATAAAATAAATAA
*
57777815 -AAAAATT-TAAAAATCAACATTAAGCGATAAGTAATATG
65 TAAAAATTAAAAAAATCAACATTAAGCGATAAGTAATATG
*
57777853 TGTAAGTTTTAAAATTTTAAAAAGTAAATTATTTTAAAGATAACGTTAAAAATAAAATAAAATAA
1 TGTAAGTTTTAAAATTTTAAAAAGTAAATTATTTAAAAGATAACGTTAAAAATAAAAT-AAATAA
57777918 TAAAAATTAAAAAAATCAACATTAA
65 TAAAAATTAAAAAAATCAACATTAA
57777943 ACCCTTATCT
Statistics
Matches: 79, Mismatches: 5, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
100 28 0.35
101 25 0.32
102 3 0.04
103 1 0.01
104 7 0.09
105 15 0.19
ACGTcount: A:0.56, C:0.03, G:0.07, T:0.33
Consensus pattern (104 bp):
TGTAAGTTTTAAAATTTTAAAAAGTAAATTATTTAAAAGATAACGTTAAAAATAAAATAAATAAT
AAAAATTAAAAAAATCAACATTAAGCGATAAGTAATATG
Found at i:57794423 original size:157 final size:157
Alignment explanation
Indices: 57794257--57794566 Score: 530
Period size: 157 Copynumber: 2.0 Consensus size: 157
57794247 ATAAGAATAT
*
57794257 TAATTATTAAGAATTTTATTAAATTATATATTTTAAGTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAAGTAAAATATATTTAATAATAATTATGTTT
* * *
57794322 AAATATGATTAAATTATTTATTATTCATATTAATAATCTTATCAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTCATTATTCATAATAATAATCTTATCAAAATTTAAATAACAATAACAA
57794387 TAATAATTTACCAAAACAAATTTTTGG
131 TAATAATTTACCAAAACAAATTTTTGG
* *
57794414 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATGTTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAAGTAAAATATATTTAATAATAATTATGTTT
* *
57794479 AAATATGATTAAAATATTCATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTCATTATTCATAATAATAATCTTATCAAAATTTAAATAACAATAACAA
* *
57794544 TAATCATTTACCAAAATAAATTT
131 TAATAATTTACCAAAACAAATTT
57794567 ATGCTAAGGG
Statistics
Matches: 143, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
157 143 1.00
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.44
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAAGTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAAATATTCATTATTCATAATAATAATCTTATCAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTTTGG
Found at i:57794717 original size:16 final size:16
Alignment explanation
Indices: 57794696--57794763 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
57794686 GATTTGCTAT
57794696 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
57794712 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
57794728 TACACTTCTAATCCAA
1 TACACCTCTAATCCAA
*
57794744 TACATCTCTAATCCAA
1 TACACCTCTAATCCAA
57794760 TACA
1 TACA
57794764 GCGAACCAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.38, C:0.34, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:57797976 original size:2 final size:2
Alignment explanation
Indices: 57797969--57797993 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
57797959 CTTTTATTCC
57797969 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
57797994 CTAAATAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:57800593 original size:13 final size:11
Alignment explanation
Indices: 57800565--57800607 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
57800555 AGTTAACAAT
57800565 TATTTTATTAA
1 TATTTTATTAA
57800576 TATTTTACTTAGA
1 TATTTTA-TTA-A
*
57800589 TA-TTTATTAT
1 TATTTTATTAA
57800599 TATTTTATT
1 TATTTTATT
57800608 TAGAAAATGG
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
10 2 0.07
11 16 0.57
12 7 0.25
13 3 0.11
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:57800594 original size:23 final size:23
Alignment explanation
Indices: 57800568--57800611 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
57800558 TAACAATTAT
57800568 TTTATTAATATTTTACTTAGATA
1 TTTATTAATATTTTACTTAGATA
* *
57800591 TTTATTATTATTTTATTTAGA
1 TTTATTAATATTTTACTTAGA
57800612 AAATGGTAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (23 bp):
TTTATTAATATTTTACTTAGATA
Found at i:57803056 original size:9 final size:9
Alignment explanation
Indices: 57803042--57803072 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
57803032 GTTAAACGAA
57803042 TCGAGTTAT
1 TCGAGTTAT
*
57803051 TCGAGTTAA
1 TCGAGTTAT
57803060 TCGAGTTAT
1 TCGAGTTAT
57803069 TCGA
1 TCGA
57803073 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:57803140 original size:9 final size:9
Alignment explanation
Indices: 57803126--57803162 Score: 74
Period size: 9 Copynumber: 4.1 Consensus size: 9
57803116 TGAGTTTTCG
57803126 AATTCGAAT
1 AATTCGAAT
57803135 AATTCGAAT
1 AATTCGAAT
57803144 AATTCGAAT
1 AATTCGAAT
57803153 AATTCGAAT
1 AATTCGAAT
57803162 A
1 A
57803163 TCAAACTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:57804670 original size:26 final size:25
Alignment explanation
Indices: 57804629--57804726 Score: 65
Period size: 26 Copynumber: 3.6 Consensus size: 25
57804619 TATTTTCAAA
* *
57804629 AAATATAATAATAAATTTAAGAAAT
1 AAATAAAATAAAAAATTTAAGAAAT
*
57804654 AAATACAAATAAAAAATATTAGTGACAAT
1 AAATA-AAATAAAAAAT-TTA-AGA-AAT
57804683 AAATAATAATATATAAAATTT-A-AAAT
1 AAATAA-AATA-A-AAAATTTAAGAAAT
*
57804709 ATATAAAAATAAATAAAT
1 AAAT-AAAATAAA-AAAT
57804727 AATTTTAAAA
Statistics
Matches: 59, Mismatches: 5, Indels: 18
0.72 0.06 0.22
Matches are distributed among these distances:
24 1 0.02
25 10 0.17
26 19 0.32
27 6 0.10
28 3 0.05
29 12 0.20
30 3 0.05
31 5 0.08
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.30
Consensus pattern (25 bp):
AAATAAAATAAAAAATTTAAGAAAT
Found at i:57804763 original size:30 final size:29
Alignment explanation
Indices: 57804680--57804763 Score: 82
Period size: 31 Copynumber: 2.9 Consensus size: 29
57804670 TATTAGTGAC
*
57804680 AATA-AATAATAATATATAAAATTT-AAAA
1 AATATAATAATAA-ATATAAATTTTAAAAA
* * *
57804708 TATATAAAAATAAATAAATAATTTTAAAAA
1 AATATAATAATAAATATA-AATTTTAAAAA
*
57804738 AAGTATAATAATAAATTTAAATTTTA
1 AA-TATAATAATAAATATAAATTTTA
57804764 TATTAATATT
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
28 7 0.16
29 12 0.27
30 12 0.27
31 13 0.30
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.36
Consensus pattern (29 bp):
AATATAATAATAAATATAAATTTTAAAAA
Found at i:57806627 original size:5 final size:5
Alignment explanation
Indices: 57806626--57806654 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
57806616 TTATATATTA
57806626 TATAT TATAT TATAT TATAT TATAT TATA
1 TATAT TATAT TATAT TATAT TATAT TATA
57806655 AAAGAAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:57808760 original size:12 final size:11
Alignment explanation
Indices: 57808732--57808772 Score: 55
Period size: 12 Copynumber: 3.5 Consensus size: 11
57808722 ATTAAAATTT
57808732 AATAATATATAA
1 AATAA-ATATAA
57808744 AATAAATATAA
1 AATAAATATAA
57808755 ATATAAATATGAA
1 A-ATAAATAT-AA
57808768 AATAA
1 AATAA
57808773 TTATTTTGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
11 7 0.26
12 17 0.63
13 3 0.11
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.29
Consensus pattern (11 bp):
AATAAATATAA
Found at i:57813797 original size:180 final size:180
Alignment explanation
Indices: 57813562--57814097 Score: 1009
Period size: 180 Copynumber: 3.0 Consensus size: 180
57813552 GGAGATTTCG
57813562 AGCTTAATTCCACATGTAGTGTGGTTGTAGGATACATGCCATCTTTACTCCCACAAATTTTATCT
1 AGCTTAATTCCACATGTAGTGTGGTTGTAGGATACATGCCATCTTTACTCCCACAAATTTTATCT
* * *
57813627 TGATCTTTCCGAGTGTTAATGGTAAAATTTTATAATATTAGAGTTCAAAAACCACACTGTCTACA
66 TGATCTTTCCAAGTGTTAATGGTAAAATTTTATAATATCAGAGTTGAAAAACCACACTGTCTACA
*
57813692 CTGATACTAGTTTCATACTAGCAGATTATGTTACAATTTGTAAAACTTCA
131 CCGATACTAGTTTCATACTAGCAGATTATGTTACAATTTGTAAAACTTCA
57813742 AGCTTAATTCCACATGTAGTGTGGTTGTAGGATACATGCCATCTTTACTCCCACAAATTTTATCT
1 AGCTTAATTCCACATGTAGTGTGGTTGTAGGATACATGCCATCTTTACTCCCACAAATTTTATCT
57813807 TGATCTTTCCAAGTGTTAATGGTAAAATTTTATAATATCAGAGTTGAAAAACCACACTGTCTACA
66 TGATCTTTCCAAGTGTTAATGGTAAAATTTTATAATATCAGAGTTGAAAAACCACACTGTCTACA
57813872 CCGATACTAGTTTCATACTAGCAGATTATGTTACAATTTGTAAAACTTCA
131 CCGATACTAGTTTCATACTAGCAGATTATGTTACAATTTGTAAAACTTCA
* *
57813922 AGCTTAATTCCACATGTAGTGTGGTTGTAGGATACAAGCCATCTTTACTCCCACAAATTTTATAT
1 AGCTTAATTCCACATGTAGTGTGGTTGTAGGATACATGCCATCTTTACTCCCACAAATTTTATCT
57813987 TGATCTTTCCAAGTGTTAATGGTAAAATTTTATAATATCAGAGTTGAAAAACCACACTGTCTACA
66 TGATCTTTCCAAGTGTTAATGGTAAAATTTTATAATATCAGAGTTGAAAAACCACACTGTCTACA
*
57814052 CCGATACTAGTTTCATACTAGCAGGTTATGTTACAATTTGTAAAAC
131 CCGATACTAGTTTCATACTAGCAGATTATGTTACAATTTGTAAAAC
57814098 ATTATACTGA
Statistics
Matches: 349, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
180 349 1.00
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (180 bp):
AGCTTAATTCCACATGTAGTGTGGTTGTAGGATACATGCCATCTTTACTCCCACAAATTTTATCT
TGATCTTTCCAAGTGTTAATGGTAAAATTTTATAATATCAGAGTTGAAAAACCACACTGTCTACA
CCGATACTAGTTTCATACTAGCAGATTATGTTACAATTTGTAAAACTTCA
Found at i:57820796 original size:22 final size:23
Alignment explanation
Indices: 57820757--57820812 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
57820747 TGTATGTTGA
*
57820757 ATATGTTT-AAAATGTTTTAATT
1 ATATATTTGAAAATGTTTTAATT
* *
57820779 AT-TATTTGAAAATTTTTTTATT
1 ATATATTTGAAAATGTTTTAATT
57820801 ATAATATTTGAA
1 AT-ATATTTGAA
57820813 TTGATAAGCT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
21 4 0.14
22 16 0.57
24 8 0.29
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (23 bp):
ATATATTTGAAAATGTTTTAATT
Found at i:57821804 original size:25 final size:26
Alignment explanation
Indices: 57821766--57821815 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
57821756 TACTGTATAC
57821766 TAATTAAAATTAATATTTAA-CATTA
1 TAATTAAAATTAATATTTAAGCATTA
57821791 TAATTATAAA-TAATATTTAAGCATT
1 TAATTA-AAATTAATATTTAAGCATT
57821816 TCCAAATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (26 bp):
TAATTAAAATTAATATTTAAGCATTA
Found at i:57823082 original size:16 final size:15
Alignment explanation
Indices: 57823061--57823090 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
57823051 ATCGGTCCAA
57823061 TTAAAAATAATTAAAT
1 TTAAAAA-AATTAAAT
57823077 TTAAAAAAATTAAA
1 TTAAAAAAATTAAA
57823091 AATACTGGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
TTAAAAAAATTAAAT
Found at i:57826556 original size:20 final size:21
Alignment explanation
Indices: 57826521--57826562 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
57826511 CATGAATAAC
*
57826521 AAATCTATAATATATACCAAT
1 AAATCTATAATATATAACAAT
*
57826542 AAATCTAT-TTATATAACAAT
1 AAATCTATAATATATAACAAT
57826562 A
1 A
57826563 TCTCTATTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (21 bp):
AAATCTATAATATATAACAAT
Found at i:57826565 original size:18 final size:18
Alignment explanation
Indices: 57826485--57826565 Score: 58
Period size: 18 Copynumber: 4.3 Consensus size: 18
57826475 ATTGTTCACC
*
57826485 ATATCTATTTATATAACA
1 ATATCTATATATATAACA
* *
57826503 ACATCT-TACATGAATAACA
1 ATATCTATATAT--ATAACA
*
57826522 A-ATCTATAATATATACCA
1 ATATCTAT-ATATATAACA
*
57826540 ATAAATCTATTTATATAACA
1 AT--ATCTATATATATAACA
57826560 ATATCT
1 ATATCT
57826566 CTATTGGTCC
Statistics
Matches: 49, Mismatches: 7, Indels: 14
0.70 0.10 0.20
Matches are distributed among these distances:
17 3 0.06
18 19 0.39
19 8 0.16
20 13 0.27
21 6 0.12
ACGTcount: A:0.47, C:0.15, G:0.01, T:0.37
Consensus pattern (18 bp):
ATATCTATATATATAACA
Found at i:57826568 original size:20 final size:20
Alignment explanation
Indices: 57826488--57826570 Score: 57
Period size: 20 Copynumber: 4.3 Consensus size: 20
57826478 GTTCACCATA
*
57826488 TCTATTTATATAACAACATC
1 TCTATTTATATAACAATATC
* *
57826508 T-TACATGA-ATAACAA-ATC
1 TCTA-TTTATATAACAATATC
* * * **
57826526 TATA-ATATATACCAATAAA
1 TCTATTTATATAACAATATC
57826545 TCTATTTATATAACAATATC
1 TCTATTTATATAACAATATC
57826565 TCTATT
1 TCTATT
57826571 GGTCCTACAC
Statistics
Matches: 46, Mismatches: 12, Indels: 10
0.68 0.18 0.15
Matches are distributed among these distances:
17 1 0.02
18 10 0.22
19 15 0.33
20 20 0.43
ACGTcount: A:0.45, C:0.16, G:0.01, T:0.39
Consensus pattern (20 bp):
TCTATTTATATAACAATATC
Found at i:57827432 original size:21 final size:21
Alignment explanation
Indices: 57827387--57827439 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
57827377 AACGGTGGCT
* **
57827387 GTGAGATTAGTTACTGTAGTA
1 GTGAGATTAGATACTGTAACA
*
57827408 GTGAGATTAGATACTGTAACG
1 GTGAGATTAGATACTGTAACA
57827429 GTGAGATTAGA
1 GTGAGATTAGA
57827440 AACAGCGGTG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.32, C:0.06, G:0.30, T:0.32
Consensus pattern (21 bp):
GTGAGATTAGATACTGTAACA
Found at i:57827949 original size:16 final size:16
Alignment explanation
Indices: 57827928--57827960 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
57827918 CATGCTTCAC
57827928 TGGAAGTAACTGGGCA
1 TGGAAGTAACTGGGCA
57827944 TGGAAGTAACTGGGCA
1 TGGAAGTAACTGGGCA
57827960 T
1 T
57827961 CCAAAGGAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.12, G:0.36, T:0.21
Consensus pattern (16 bp):
TGGAAGTAACTGGGCA
Found at i:57834493 original size:20 final size:20
Alignment explanation
Indices: 57834460--57834500 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
57834450 TTAAATAAAA
57834460 AATATTAATGTATTTTCAAAT
1 AATATTAATGTA-TTTCAAAT
*
57834481 AATA-TAATTTATTTCAAAT
1 AATATTAATGTATTTCAAAT
57834500 A
1 A
57834501 TAAATATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 9 0.47
20 6 0.32
21 4 0.21
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.46
Consensus pattern (20 bp):
AATATTAATGTATTTCAAAT
Found at i:57834511 original size:20 final size:19
Alignment explanation
Indices: 57834473--57834511 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
57834463 ATTAATGTAT
*
57834473 TTTCAAATAATATAATTTA
1 TTTCAAATAAAATAATTTA
*
57834492 TTTCAAATATAAATATTTTA
1 TTTCAAATA-AAATAATTTA
57834512 ATAATTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (19 bp):
TTTCAAATAAAATAATTTA
Found at i:57842184 original size:20 final size:20
Alignment explanation
Indices: 57842150--57842191 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
57842140 AACTATTTAA
** *
57842150 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
57842170 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
57842190 AT
1 AT
57842192 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:57844342 original size:8 final size:8
Alignment explanation
Indices: 57844329--57844353 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
57844319 GGAAGTCAAA
57844329 AGTAGTCG
1 AGTAGTCG
57844337 AGTAGTCG
1 AGTAGTCG
57844345 AGTAGTCG
1 AGTAGTCG
57844353 A
1 A
57844354 TTGTGTCCGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.28, C:0.12, G:0.36, T:0.24
Consensus pattern (8 bp):
AGTAGTCG
Found at i:57844713 original size:43 final size:43
Alignment explanation
Indices: 57844586--57844714 Score: 117
Period size: 43 Copynumber: 3.0 Consensus size: 43
57844576 ATGGGATTTC
* * * *
57844586 CGATATGTGTTATCGTGTAAGACCACATC-AGCGATGTTGGCAT
1 CGATATGTGTTA-CATGTAAGACCACGTCTAGAGACGTTGGCAT
57844629 CGACTTATGT-TTACATGTAAGACC-CTGTCT-GAGACAG-TGGCAT
1 CGA--TATGTGTTACATGTAAGACCAC-GTCTAGAGAC-GTTGGCAT
*
57844672 CGATATGTGATTACATGTAAGACCACGTCTAG-GGCGTTGGCAT
1 CGATATGTG-TTACATGTAAGACCACGTCTAGAGACGTTGGCAT
57844715 TGTACGAGCT
Statistics
Matches: 71, Mismatches: 5, Indels: 20
0.74 0.05 0.21
Matches are distributed among these distances:
41 5 0.07
42 2 0.03
43 53 0.75
44 6 0.08
45 5 0.07
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (43 bp):
CGATATGTGTTACATGTAAGACCACGTCTAGAGACGTTGGCAT
Found at i:57850703 original size:21 final size:20
Alignment explanation
Indices: 57850677--57850787 Score: 87
Period size: 21 Copynumber: 5.3 Consensus size: 20
57850667 CACAAAAGCA
* *
57850677 CATAAGTGCTAAACAGAAACC
1 CATAAGAGCTGAAC-GAAACC
* * *
57850698 CATAAGGGCTGAACGGAAGCT
1 CATAAGAGCTGAAC-GAAACC
57850719 CATAAGAGCTGAACGAAAACC
1 CATAAGAGCTGAACG-AAACC
* * * *
57850740 CATAAGGGTTGAACGGAAGCT
1 CATAAGAGCTGAAC-GAAACC
*
57850761 CGTAAGAGCTGAACGAAAACC
1 CATAAGAGCTGAACG-AAACC
57850782 CATAAG
1 CATAAG
57850788 GGTTGAACGG
Statistics
Matches: 69, Mismatches: 18, Indels: 6
0.74 0.19 0.06
Matches are distributed among these distances:
20 2 0.03
21 66 0.96
22 1 0.01
ACGTcount: A:0.41, C:0.21, G:0.24, T:0.14
Consensus pattern (20 bp):
CATAAGAGCTGAACGAAACC
Found at i:57850724 original size:42 final size:41
Alignment explanation
Indices: 57850672--57850875 Score: 212
Period size: 42 Copynumber: 4.9 Consensus size: 41
57850662 GGTTGCACAA
* * *
57850672 AAGCACATAAGTGCTAAACAGAAACCCATAAGGGCTGAACGG
1 AAGCTCATAAGAGCTAAAC-GAAACCCATAAGGGTTGAACGG
*
57850714 AAGCTCATAAGAGCTGAACGAAAACCCATAAGGGTTGAACGG
1 AAGCTCATAAGAGCTAAACG-AAACCCATAAGGGTTGAACGG
* *
57850756 AAGCTCGTAAGAGCTGAACGAAAACCCATAAGGGTTGAACGG
1 AAGCTCATAAGAGCTAAACG-AAACCCATAAGGGTTGAACGG
* * ** **
57850798 AAGCTCGTAAGAGTTGAAAAAAAACCCATAAGGG-TGAAACTA
1 AAGCTCATAAGAGCT-AAACGAAACCCATAAGGGTTG-AACGG
* * *
57850840 AAGCTCAAAAGAGCTTAACGGAAACTCATAAGGGTT
1 AAGCTCATAAGAGCTAAAC-GAAACCCATAAGGGTT
57850876 AAAATGAAAT
Statistics
Matches: 139, Mismatches: 18, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
41 5 0.04
42 131 0.94
43 3 0.02
ACGTcount: A:0.42, C:0.18, G:0.25, T:0.15
Consensus pattern (41 bp):
AAGCTCATAAGAGCTAAACGAAACCCATAAGGGTTGAACGG
Found at i:57850794 original size:21 final size:21
Alignment explanation
Indices: 57850693--57850832 Score: 109
Period size: 21 Copynumber: 6.7 Consensus size: 21
57850683 TGCTAAACAG
* *
57850693 AAACCCATAAGGGCTGAACGG
1 AAACCCATAAGGGTTGAACGA
* * * *
57850714 AAGCTCATAAGAGCTGAACGA
1 AAACCCATAAGGGTTGAACGA
*
57850735 AAACCCATAAGGGTTGAACGG
1 AAACCCATAAGGGTTGAACGA
* * * * *
57850756 AAGCTCGTAAGAGCTGAACGA
1 AAACCCATAAGGGTTGAACGA
*
57850777 AAACCCATAAGGGTTGAACGG
1 AAACCCATAAGGGTTGAACGA
* * * * **
57850798 AAGCTCGTAAGAGTTGAAAAA
1 AAACCCATAAGGGTTGAACGA
57850819 AAACCCATAAGGGT
1 AAACCCATAAGGGT
57850833 GAAACTAAAG
Statistics
Matches: 87, Mismatches: 32, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
21 87 1.00
ACGTcount: A:0.41, C:0.19, G:0.26, T:0.14
Consensus pattern (21 bp):
AAACCCATAAGGGTTGAACGA
Found at i:57850803 original size:84 final size:84
Alignment explanation
Indices: 57850693--57850875 Score: 242
Period size: 84 Copynumber: 2.2 Consensus size: 84
57850683 TGCTAAACAG
* ** *
57850693 AAACCCATAAGGGCTGAACGGAAGCTCATAAGAGCTGAACGAAAACCCATAAGGGTTG-AACGGA
1 AAACCCATAAGGGTTGAACGGAAGCTCATAAGAGCTGAAAAAAAACCCATAAGGG-TGAAACGAA
**
57850757 AGCTCGTAAGAGCTGAACGA
65 AGCTCAAAAGAGCTGAACGA
* * *
57850777 AAACCCATAAGGGTTGAACGGAAGCTCGTAAGAGTTGAAAAAAAACCCATAAGGGTGAAACTAAA
1 AAACCCATAAGGGTTGAACGGAAGCTCATAAGAGCTGAAAAAAAACCCATAAGGGTGAAACGAAA
* *
57850842 GCTCAAAAGAGCTTAACGG
66 GCTCAAAAGAGCTGAACGA
*
57850861 AAACTCATAAGGGTT
1 AAACCCATAAGGGTT
57850876 AAAATGAAAT
Statistics
Matches: 86, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
83 2 0.02
84 84 0.98
ACGTcount: A:0.42, C:0.18, G:0.25, T:0.15
Consensus pattern (84 bp):
AAACCCATAAGGGTTGAACGGAAGCTCATAAGAGCTGAAAAAAAACCCATAAGGGTGAAACGAAA
GCTCAAAAGAGCTGAACGA
Found at i:57851010 original size:24 final size:24
Alignment explanation
Indices: 57850975--57851022 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
57850965 TACTTGGGTA
*
57850975 ATTTGCCATCAATTCATCCTTTGC
1 ATTTGCCATCAATTCATCCATTGC
*
57850999 ATTTGCCGTCAATTCATCCATTGC
1 ATTTGCCATCAATTCATCCATTGC
57851023 CACAGAACGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.21, C:0.29, G:0.10, T:0.40
Consensus pattern (24 bp):
ATTTGCCATCAATTCATCCATTGC
Found at i:57851162 original size:44 final size:45
Alignment explanation
Indices: 57851079--57851163 Score: 109
Period size: 44 Copynumber: 1.9 Consensus size: 45
57851069 CTTTCAATTC
* * * *
57851079 ATAAATTAACAATATTTCATTTTTTAACAATATGCTAAATACATA
1 ATAAATTAACAACATTCCATTTTTCAACAATATACTAAATACATA
* *
57851124 ATAATTTAACAACATTCCA-TTTTCAACAATATATTAAATA
1 ATAAATTAACAACATTCCATTTTTCAACAATATACTAAATA
57851164 TGTAACATCA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
44 18 0.53
45 16 0.47
ACGTcount: A:0.47, C:0.13, G:0.01, T:0.39
Consensus pattern (45 bp):
ATAAATTAACAACATTCCATTTTTCAACAATATACTAAATACATA
Found at i:57852928 original size:10 final size:10
Alignment explanation
Indices: 57852913--57852955 Score: 52
Period size: 10 Copynumber: 4.2 Consensus size: 10
57852903 TATATACTAA
57852913 ATAAAATAAT
1 ATAAAATAAT
57852923 ATAAAAT-AT
1 ATAAAATAAT
*
57852932 ATTAAAATATT
1 A-TAAAATAAT
57852943 AATAAAATAAT
1 -ATAAAATAAT
57852954 AT
1 AT
57852956 TTATCTAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
9 3 0.11
10 15 0.54
11 9 0.32
12 1 0.04
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (10 bp):
ATAAAATAAT
Found at i:57854230 original size:16 final size:16
Alignment explanation
Indices: 57854209--57854239 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
57854199 GGGTTTGTAG
57854209 ATTTTTTTAGATTTTA
1 ATTTTTTTAGATTTTA
*
57854225 ATTTTTTTATATTTT
1 ATTTTTTTAGATTTT
57854240 CTATATTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (16 bp):
ATTTTTTTAGATTTTA
Found at i:57868004 original size:20 final size:20
Alignment explanation
Indices: 57867970--57868011 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
57867960 AACTATTTAA
** *
57867970 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
57867990 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
57868010 AT
1 AT
57868012 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:57870063 original size:8 final size:8
Alignment explanation
Indices: 57870050--57870074 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
57870040 AGAAGTCAAA
57870050 AGTAGTCG
1 AGTAGTCG
57870058 AGTAGTCG
1 AGTAGTCG
57870066 AGTAGTCG
1 AGTAGTCG
57870074 A
1 A
57870075 TTGTGTCCGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.28, C:0.12, G:0.36, T:0.24
Consensus pattern (8 bp):
AGTAGTCG
Found at i:57876371 original size:21 final size:20
Alignment explanation
Indices: 57876345--57876455 Score: 87
Period size: 21 Copynumber: 5.3 Consensus size: 20
57876335 CACAAAAGCA
* *
57876345 CATAAGTGCTAAACAGAAACC
1 CATAAGAGCTGAAC-GAAACC
* * *
57876366 CATAAGGGCTGAACGGAAGCT
1 CATAAGAGCTGAAC-GAAACC
57876387 CATAAGAGCTGAACGAAAACC
1 CATAAGAGCTGAACG-AAACC
* * * *
57876408 CATAAGGGTTGAACGGAAGCT
1 CATAAGAGCTGAAC-GAAACC
*
57876429 CGTAAGAGCTGAACGAAAACC
1 CATAAGAGCTGAACG-AAACC
57876450 CATAAG
1 CATAAG
57876456 GGTTGAACGG
Statistics
Matches: 69, Mismatches: 18, Indels: 6
0.74 0.19 0.06
Matches are distributed among these distances:
20 2 0.03
21 66 0.96
22 1 0.01
ACGTcount: A:0.41, C:0.21, G:0.24, T:0.14
Consensus pattern (20 bp):
CATAAGAGCTGAACGAAACC
Found at i:57876392 original size:42 final size:41
Alignment explanation
Indices: 57876340--57876543 Score: 212
Period size: 42 Copynumber: 4.9 Consensus size: 41
57876330 GGTTGCACAA
* * *
57876340 AAGCACATAAGTGCTAAACAGAAACCCATAAGGGCTGAACGG
1 AAGCTCATAAGAGCTAAAC-GAAACCCATAAGGGTTGAACGG
*
57876382 AAGCTCATAAGAGCTGAACGAAAACCCATAAGGGTTGAACGG
1 AAGCTCATAAGAGCTAAACG-AAACCCATAAGGGTTGAACGG
* *
57876424 AAGCTCGTAAGAGCTGAACGAAAACCCATAAGGGTTGAACGG
1 AAGCTCATAAGAGCTAAACG-AAACCCATAAGGGTTGAACGG
* * ** **
57876466 AAGCTCGTAAGAGTTGAAAAAAAACCCATAAGGG-TGAAACTA
1 AAGCTCATAAGAGCT-AAACGAAACCCATAAGGGTTG-AACGG
* * *
57876508 AAGCTCAAAAGAGCTTAACGGAAACTCATAAGGGTT
1 AAGCTCATAAGAGCTAAAC-GAAACCCATAAGGGTT
57876544 AAAATGAAAT
Statistics
Matches: 139, Mismatches: 18, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
41 5 0.04
42 131 0.94
43 3 0.02
ACGTcount: A:0.42, C:0.18, G:0.25, T:0.15
Consensus pattern (41 bp):
AAGCTCATAAGAGCTAAACGAAACCCATAAGGGTTGAACGG
Found at i:57876462 original size:21 final size:21
Alignment explanation
Indices: 57876361--57876500 Score: 109
Period size: 21 Copynumber: 6.7 Consensus size: 21
57876351 TGCTAAACAG
* *
57876361 AAACCCATAAGGGCTGAACGG
1 AAACCCATAAGGGTTGAACGA
* * * *
57876382 AAGCTCATAAGAGCTGAACGA
1 AAACCCATAAGGGTTGAACGA
*
57876403 AAACCCATAAGGGTTGAACGG
1 AAACCCATAAGGGTTGAACGA
* * * * *
57876424 AAGCTCGTAAGAGCTGAACGA
1 AAACCCATAAGGGTTGAACGA
*
57876445 AAACCCATAAGGGTTGAACGG
1 AAACCCATAAGGGTTGAACGA
* * * * **
57876466 AAGCTCGTAAGAGTTGAAAAA
1 AAACCCATAAGGGTTGAACGA
57876487 AAACCCATAAGGGT
1 AAACCCATAAGGGT
57876501 GAAACTAAAG
Statistics
Matches: 87, Mismatches: 32, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
21 87 1.00
ACGTcount: A:0.41, C:0.19, G:0.26, T:0.14
Consensus pattern (21 bp):
AAACCCATAAGGGTTGAACGA
Found at i:57876471 original size:84 final size:84
Alignment explanation
Indices: 57876361--57876543 Score: 242
Period size: 84 Copynumber: 2.2 Consensus size: 84
57876351 TGCTAAACAG
* ** *
57876361 AAACCCATAAGGGCTGAACGGAAGCTCATAAGAGCTGAACGAAAACCCATAAGGGTTG-AACGGA
1 AAACCCATAAGGGTTGAACGGAAGCTCATAAGAGCTGAAAAAAAACCCATAAGGG-TGAAACGAA
**
57876425 AGCTCGTAAGAGCTGAACGA
65 AGCTCAAAAGAGCTGAACGA
* * *
57876445 AAACCCATAAGGGTTGAACGGAAGCTCGTAAGAGTTGAAAAAAAACCCATAAGGGTGAAACTAAA
1 AAACCCATAAGGGTTGAACGGAAGCTCATAAGAGCTGAAAAAAAACCCATAAGGGTGAAACGAAA
* *
57876510 GCTCAAAAGAGCTTAACGG
66 GCTCAAAAGAGCTGAACGA
*
57876529 AAACTCATAAGGGTT
1 AAACCCATAAGGGTT
57876544 AAAATGAAAT
Statistics
Matches: 86, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
83 2 0.02
84 84 0.98
ACGTcount: A:0.42, C:0.18, G:0.25, T:0.15
Consensus pattern (84 bp):
AAACCCATAAGGGTTGAACGGAAGCTCATAAGAGCTGAAAAAAAACCCATAAGGGTGAAACGAAA
GCTCAAAAGAGCTGAACGA
Found at i:57876678 original size:24 final size:24
Alignment explanation
Indices: 57876643--57876690 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
57876633 TACTTGGGTA
*
57876643 ATTTGCCATCAATTCATCCTTTGC
1 ATTTGCCATCAATTCATCCATTGC
*
57876667 ATTTGCCGTCAATTCATCCATTGC
1 ATTTGCCATCAATTCATCCATTGC
57876691 CACAGAACGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.21, C:0.29, G:0.10, T:0.40
Consensus pattern (24 bp):
ATTTGCCATCAATTCATCCATTGC
Found at i:57876833 original size:45 final size:46
Alignment explanation
Indices: 57876748--57876834 Score: 113
Period size: 45 Copynumber: 1.9 Consensus size: 46
57876738 TTTTCAATTC
* * * *
57876748 ATAAATTAACAATATTTCATTTTTTTAACAATATGCTAAATACATA
1 ATAAATTAACAACATTCCATTTTTTCAACAATATACTAAATACATA
* *
57876794 ATAATTTAACAACATTCCA-TTTTTCAACAATATATTAAATA
1 ATAAATTAACAACATTCCATTTTTTCAACAATATACTAAATA
57876835 TGTAACATCA
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
45 19 0.54
46 16 0.46
ACGTcount: A:0.46, C:0.13, G:0.01, T:0.40
Consensus pattern (46 bp):
ATAAATTAACAACATTCCATTTTTTCAACAATATACTAAATACATA
Found at i:57878618 original size:11 final size:11
Alignment explanation
Indices: 57878602--57878648 Score: 58
Period size: 11 Copynumber: 4.1 Consensus size: 11
57878592 TTATATACTA
57878602 AATAAAATAAT
1 AATAAAATAAT
57878613 AATAAAATATAT
1 AATAAAATA-AT
* *
57878625 CATTAAAATATT
1 -AATAAAATAAT
57878637 AATAAAATAAT
1 AATAAAATAAT
57878648 A
1 A
57878649 TTTATCTAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
11 19 0.63
12 3 0.10
13 8 0.27
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (11 bp):
AATAAAATAAT
Found at i:57886283 original size:22 final size:23
Alignment explanation
Indices: 57886255--57886299 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
57886245 ATACAATCTT
57886255 AGATATGA-TATATAATCATAGA
1 AGATATGATTATATAATCATAGA
* *
57886277 AGATATGATTTTGTAATCATAGA
1 AGATATGATTATATAATCATAGA
57886300 GATTTAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.44, C:0.04, G:0.16, T:0.36
Consensus pattern (23 bp):
AGATATGATTATATAATCATAGA
Found at i:57886309 original size:22 final size:23
Alignment explanation
Indices: 57886267--57886309 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
57886257 ATATGATATA
*
57886267 TAATCATAGAAGATATGATTTTG
1 TAATCATAGAAGATATAATTTTG
*
57886290 TAATCATAG-AGATTTAATTT
1 TAATCATAGAAGATATAATTT
57886310 GTAGATACCC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.40, C:0.05, G:0.14, T:0.42
Consensus pattern (23 bp):
TAATCATAGAAGATATAATTTTG
Found at i:57886312 original size:21 final size:23
Alignment explanation
Indices: 57886267--57886312 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
57886257 ATATGATATA
*
57886267 TAATCATAGAAGATATGATTTTG
1 TAATCATAGAAGATATGAATTTG
*
57886290 TAATCATAG-AGAT-TTAATTTG
1 TAATCATAGAAGATATGAATTTG
57886311 TA
1 TA
57886313 GATACCCTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 8 0.38
22 4 0.19
23 9 0.43
ACGTcount: A:0.39, C:0.04, G:0.15, T:0.41
Consensus pattern (23 bp):
TAATCATAGAAGATATGAATTTG
Found at i:57886727 original size:3 final size:3
Alignment explanation
Indices: 57886719--57886755 Score: 58
Period size: 3 Copynumber: 12.3 Consensus size: 3
57886709 ATTAATTTTG
57886719 TTA TTA TTA TTA TTA TTA TTA -TA TTA TATA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA T
57886756 ACCTACATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 2 0.06
3 27 0.84
4 3 0.09
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:57889907 original size:101 final size:101
Alignment explanation
Indices: 57889719--57889957 Score: 327
Period size: 101 Copynumber: 2.4 Consensus size: 101
57889709 AATTCATCCT
* * * * *
57889719 TTACATTC-TAGTGCCACAACCCAATTATGATCTTATCATCAGAATGCCATAGCCCAACTATGGT
1 TTACATTCATAGAGCCATAACCCAGTTACGGTCTTATCATCAGAATGCCATAGCCCAACTATGGT
57889783 CTTACATATAAACACTGTCATGGTCCAACCATGGTC
66 CTTACATATAAACACTGTCATGGTCCAACCATGGTC
* * * * * *
57889819 TTACGTTCATAGTGTCATAACCCAGTTACGGTCTTATCATCAGAATGTCATAGCTCAGCTATGGT
1 TTACATTCATAGAGCCATAACCCAGTTACGGTCTTATCATCAGAATGCCATAGCCCAACTATGGT
* * *
57889884 TTTACATATAAACACTGTTATGGTCCAACCATGGTG
66 CTTACATATAAACACTGTCATGGTCCAACCATGGTC
* *
57889920 TTACATTCATAGAGCCATAACCTAGTTATGGTCTTATC
1 TTACATTCATAGAGCCATAACCCAGTTACGGTCTTATC
57889958 TGTCAATTCA
Statistics
Matches: 121, Mismatches: 17, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
100 7 0.06
101 114 0.94
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.32
Consensus pattern (101 bp):
TTACATTCATAGAGCCATAACCCAGTTACGGTCTTATCATCAGAATGCCATAGCCCAACTATGGT
CTTACATATAAACACTGTCATGGTCCAACCATGGTC
Found at i:57891868 original size:29 final size:29
Alignment explanation
Indices: 57891826--57891884 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
57891816 TATCAACTAT
* * *
57891826 TTAAACTAGTTAATTACATTATAAAAATA
1 TTAAACTAATTAATAACATAATAAAAATA
*
57891855 TTAAATTAATTAATAACATAATAAAAATA
1 TTAAACTAATTAATAACATAATAAAAATA
57891884 T
1 T
57891885 AGAGATAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (29 bp):
TTAAACTAATTAATAACATAATAAAAATA
Found at i:57892892 original size:14 final size:14
Alignment explanation
Indices: 57892874--57892913 Score: 50
Period size: 12 Copynumber: 3.1 Consensus size: 14
57892864 AATAATAAAA
57892874 ATATAATTTTATAT
1 ATATAATTTTATAT
*
57892888 TTATAA-TTTATA-
1 ATATAATTTTATAT
57892900 AT-TAATTTTATAT
1 ATATAATTTTATAT
57892913 A
1 A
57892914 AAAATATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
11 3 0.14
12 7 0.32
13 7 0.32
14 5 0.23
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
ATATAATTTTATAT
Found at i:57892893 original size:25 final size:25
Alignment explanation
Indices: 57892865--57892912 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
57892855 AAATAATAAA
57892865 ATAA-TAAAAATATAATTTTATATTT
1 ATAATTAAAAAT-TAATTTTATATTT
* *
57892890 ATAATTTATAATTAATTTTATAT
1 ATAATTAAAAATTAATTTTATAT
57892913 AAAAATATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 15 0.75
26 5 0.25
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (25 bp):
ATAATTAAAAATTAATTTTATATTT
Found at i:57895609 original size:29 final size:31
Alignment explanation
Indices: 57895540--57895614 Score: 84
Period size: 30 Copynumber: 2.5 Consensus size: 31
57895530 ATATTTTTCC
*
57895540 ATAT-ATTAATATAAACACGGTTTTCTCATT
1 ATATAATTAATATAAACACGGTTTTCTCATA
* ** *
57895570 ATATATTTAATATAAACA-TTTTTTTTCATA
1 ATATAATTAATATAAACACGGTTTTCTCATA
57895600 AT-TAATTAATATAAA
1 ATATAATTAATATAAA
57895615 AATGTTCCAA
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
29 12 0.32
30 14 0.37
31 12 0.32
ACGTcount: A:0.43, C:0.08, G:0.03, T:0.47
Consensus pattern (31 bp):
ATATAATTAATATAAACACGGTTTTCTCATA
Found at i:57902444 original size:3 final size:3
Alignment explanation
Indices: 57902436--57902481 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
57902426 CCATTGGAGG
57902436 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
57902482 CTCTGTCTCT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:57902961 original size:2 final size:2
Alignment explanation
Indices: 57902954--57902984 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
57902944 GATGGTACAT
57902954 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
57902985 GCATCCTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:57907005 original size:33 final size:32
Alignment explanation
Indices: 57906964--57907029 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 32
57906954 TTGTTTTTTT
*
57906964 ATTTTTTTTAATA-TAAAATTTCAAAAAACAAA
1 ATTTTTTTTAATATTAAAAATT-AAAAAACAAA
* *
57906996 ATTTCTTTTTTATATTAAAAATTAAAAATCAAA
1 ATTT-TTTTTAATATTAAAAATTAAAAAACAAA
57907029 A
1 A
57907030 AACACATTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
32 4 0.14
33 18 0.62
34 7 0.24
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (32 bp):
ATTTTTTTTAATATTAAAAATTAAAAAACAAA
Found at i:57908392 original size:14 final size:14
Alignment explanation
Indices: 57908373--57908399 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
57908363 GTCACATCGG
57908373 TCAGGTTTTTTTTT
1 TCAGGTTTTTTTTT
57908387 TCAGGTTTTTTTT
1 TCAGGTTTTTTTT
57908400 GAATATATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.07, G:0.15, T:0.70
Consensus pattern (14 bp):
TCAGGTTTTTTTTT
Found at i:57912615 original size:32 final size:33
Alignment explanation
Indices: 57912579--57912650 Score: 80
Period size: 33 Copynumber: 2.2 Consensus size: 33
57912569 ATTGACAACT
57912579 TTTTTTTCA-ATTATT-T-AATGATATTTTAATAA
1 TTTTTTTCATATTATTATAAAT-A-ATTTTAATAA
*
57912611 -TTTTTTCATATTATTGATAAATAATTTTGATAA
1 TTTTTTTCATATTATT-ATAAATAATTTTAATAA
57912644 TTTTTTT
1 TTTTTTT
57912651 TAACTTGAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
31 8 0.24
32 6 0.18
33 9 0.26
34 8 0.24
35 3 0.09
ACGTcount: A:0.32, C:0.03, G:0.04, T:0.61
Consensus pattern (33 bp):
TTTTTTTCATATTATTATAAATAATTTTAATAA
Found at i:57912745 original size:13 final size:14
Alignment explanation
Indices: 57912702--57912751 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
57912692 TGATCTTTTG
* *
57912702 GTTTAGAGTTTCAA
1 GTTTAGATTTTGAA
*
57912716 GTTTCA-AATTTGAA
1 GTTT-AGATTTTGAA
57912730 GTTTAGATTTTG-A
1 GTTTAGATTTTGAA
57912743 GTTTAGATT
1 GTTTAGATT
57912752 CTAAGTAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
13 11 0.35
14 19 0.61
15 1 0.03
ACGTcount: A:0.28, C:0.04, G:0.20, T:0.48
Consensus pattern (14 bp):
GTTTAGATTTTGAA
Found at i:57914683 original size:188 final size:188
Alignment explanation
Indices: 57914447--57914814 Score: 461
Period size: 188 Copynumber: 2.0 Consensus size: 188
57914437 CTTTTATTTA
* * ** * *
57914447 ATATGAAAAAATATTTAGTATACTGTCTGTGGAGTTTTTAAACTCCACAGGTCGGGTCAAGGGTT
1 ATATGAAAAAATATTTAGTACACTGTCTATGGAGTTTTTAAACTCCACAAATAGGGTCAAGAGTT
* * * * * **
57914512 GACAAGTGTTCTATAAGAATATAGTAAAATATTTTAA-AAAATAGACACATGGTAATTTTTTAAG
66 AACAAGTGTCCTATAAGAATATAGTAAAATATTTAAATAAAACAAACACATGACAATTTTTTAAG
*
57914576 GCTACTTATAGAATAAAAAAAAGTACACTACCAGTGAACCAATTACTAACCTATTTAAT
131 GCTACTTATAGAATAAAAAAAA-TACACTACCAATGAACCAATTACTAACCTATTTAAT
* *
57914635 ATATGAAATAATATTTGGTACACTGT-TAATGGAGTTTTTAAACTCCACAAATAGGGTCAAGAGT
1 ATATGAAAAAATATTTAGTACACTGTCT-ATGGAGTTTTTAAACTCCACAAATAGGGTCAAGAGT
* ** *
57914699 TAACAAGTGTCCTATAGGGGTATAGTAAAATATTTAAATAAAACAAACACATTACAATTTTTTAA
65 TAACAAGTGTCCTATAAGAATATAGTAAAATATTTAAATAAAACAAACACATGACAATTTTTTAA
* * * * * * *
57914764 GGTTGCTTGTGGAATAAAAAAAATACATTATCAATGTACCAATTACTAACC
130 GGCTACTTATAGAATAAAAAAAATACACTACCAATGAACCAATTACTAACC
57914815 CTTAATATAT
Statistics
Matches: 151, Mismatches: 27, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
187 1 0.01
188 110 0.73
189 40 0.26
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.32
Consensus pattern (188 bp):
ATATGAAAAAATATTTAGTACACTGTCTATGGAGTTTTTAAACTCCACAAATAGGGTCAAGAGTT
AACAAGTGTCCTATAAGAATATAGTAAAATATTTAAATAAAACAAACACATGACAATTTTTTAAG
GCTACTTATAGAATAAAAAAAATACACTACCAATGAACCAATTACTAACCTATTTAAT
Found at i:57915599 original size:17 final size:17
Alignment explanation
Indices: 57915590--57915645 Score: 76
Period size: 17 Copynumber: 3.2 Consensus size: 17
57915580 AAAATATTTT
57915590 AAAATTAAAAAAATTAAA
1 AAAATT-AAAAAATTAAA
* **
57915608 AATATTTTAAAATTAAA
1 AAAATTAAAAAATTAAA
57915625 AAAATTAAAAAATTAAA
1 AAAATTAAAAAATTAAA
57915642 AAAA
1 AAAA
57915646 ATTATTATAT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
17 27 0.84
18 5 0.16
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (17 bp):
AAAATTAAAAAATTAAA
Found at i:57915604 original size:9 final size:9
Alignment explanation
Indices: 57915590--57915645 Score: 71
Period size: 9 Copynumber: 6.4 Consensus size: 9
57915580 AAAATATTTT
57915590 AAAATTAAA
1 AAAATTAAA
57915599 AAAATTAAA
1 AAAATTAAA
* **
57915608 AATATT-TT
1 AAAATTAAA
57915616 AAAATTAAA
1 AAAATTAAA
57915625 AAAATT-AA
1 AAAATTAAA
57915633 AAAATTAAA
1 AAAATTAAA
57915642 AAAA
1 AAAA
57915646 ATTATTATAT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
8 13 0.33
9 26 0.67
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (9 bp):
AAAATTAAA
Found at i:57915612 original size:26 final size:26
Alignment explanation
Indices: 57915577--57915635 Score: 118
Period size: 26 Copynumber: 2.3 Consensus size: 26
57915567 AAAAAGTATT
57915577 TTAAAAATATTTTAAAATTAAAAAAA
1 TTAAAAATATTTTAAAATTAAAAAAA
57915603 TTAAAAATATTTTAAAATTAAAAAAA
1 TTAAAAATATTTTAAAATTAAAAAAA
57915629 TTAAAAA
1 TTAAAAA
57915636 ATTAAAAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (26 bp):
TTAAAAATATTTTAAAATTAAAAAAA
Found at i:57915626 original size:7 final size:8
Alignment explanation
Indices: 57915590--57915644 Score: 65
Period size: 8 Copynumber: 6.5 Consensus size: 8
57915580 AAAATATTTT
57915590 AAAATTAAA
1 AAAATT-AA
57915599 AAAATTAA
1 AAAATTAA
**
57915607 AAATATTTT
1 AAA-ATTAA
57915616 AAAATTAAA
1 AAAATT-AA
57915625 AAAATTAA
1 AAAATTAA
57915633 AAAATTAA
1 AAAATTAA
57915641 AAAA
1 AAAA
57915645 AATTATTATA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
8 22 0.55
9 18 0.45
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (8 bp):
AAAATTAA
Done.