Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 306 of 425
Found at i:94994073 original size:35 final size:35
Alignment explanation
Indices: 94994027--94994095 Score: 122
Period size: 35 Copynumber: 2.0 Consensus size: 35
94994017 ATACCTTTTT
94994027 AAGCTTGGTAAGTTGCCTTCCTCTT-TCTTAGGTTC
1 AAGCTTGGTAAGTTGCCTTCCT-TTCTCTTAGGTTC
94994062 AAGCTTGGTAAGTTGCCTTCCTTTCTCTTAGGTT
1 AAGCTTGGTAAGTTGCCTTCCTTTCTCTTAGGTT
94994096 TTCCATAGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
34 2 0.06
35 31 0.94
ACGTcount: A:0.14, C:0.22, G:0.20, T:0.43
Consensus pattern (35 bp):
AAGCTTGGTAAGTTGCCTTCCTTTCTCTTAGGTTC
Found at i:95007473 original size:8 final size:8
Alignment explanation
Indices: 95007460--95007484 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
95007450 TACAATTTAC
95007460 AAAAATAA
1 AAAAATAA
95007468 AAAAATAA
1 AAAAATAA
95007476 AAAAATAA
1 AAAAATAA
95007484 A
1 A
95007485 TGAATAAATT
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:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (8 bp):
AAAAATAA
Found at i:95016010 original size:40 final size:40
Alignment explanation
Indices: 95015948--95016132 Score: 194
Period size: 40 Copynumber: 4.7 Consensus size: 40
95015938 CTCAATCAAT
* * *
95015948 CATAC-TTTCACTAGAATTAGTAGGTAAGGCTCGATAGCG
1 CATACATTTCAGTAGAATCAGTAGGTAAGGCTCGAAAGCG
* *
95015987 CATACATTTCAGTGGAATCAGTAGGTATGGCTCGAAAGCG
1 CATACATTTCAGTAGAATCAGTAGGTAAGGCTCGAAAGCG
* * * *
95016027 CATACATTTTAGTAGATTCTGTAGGTATA-GCTCAAAAGCG
1 CATACATTTCAGTAGAATCAGTAGGTA-AGGCTCGAAAGCG
* * * * *
95016067 CATACATTTTAGTAGATTCTGTAGGTATGGCTCGAAAGCA
1 CATACATTTCAGTAGAATCAGTAGGTAAGGCTCGAAAGCG
* * *
95016107 CATACATTTTAGAAGATTCAGTAGGT
1 CATACATTTCAGTAGAATCAGTAGGT
95016133 GTAACAGCCC
Statistics
Matches: 127, Mismatches: 16, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
39 5 0.04
40 122 0.96
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (40 bp):
CATACATTTCAGTAGAATCAGTAGGTAAGGCTCGAAAGCG
Found at i:95016072 original size:80 final size:80
Alignment explanation
Indices: 95015966--95016132 Score: 237
Period size: 80 Copynumber: 2.1 Consensus size: 80
95015956 CACTAGAATT
* * * *
95015966 AGTAGGTA-AGGCTCGATAGCGCATACATTTCAGTGGAATCAGTAGGTATGGCTCGAAAGCGCAT
1 AGTAGGTATA-GCTCAAAAGCGCATACATTTCAGTAGAATCAGTAGGTATGGCTCGAAAGCACAT
*
95016030 ACATTTTAGTAGATTC
65 ACATTTTAGAAGATTC
* * * *
95016046 TGTAGGTATAGCTCAAAAGCGCATACATTTTAGTAGATTCTGTAGGTATGGCTCGAAAGCACATA
1 AGTAGGTATAGCTCAAAAGCGCATACATTTCAGTAGAATCAGTAGGTATGGCTCGAAAGCACATA
95016111 CATTTTAGAAGATTC
66 CATTTTAGAAGATTC
95016126 AGTAGGT
1 AGTAGGT
95016133 GTAACAGCCC
Statistics
Matches: 76, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
80 75 0.99
81 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (80 bp):
AGTAGGTATAGCTCAAAAGCGCATACATTTCAGTAGAATCAGTAGGTATGGCTCGAAAGCACATA
CATTTTAGAAGATTC
Found at i:95017495 original size:46 final size:45
Alignment explanation
Indices: 95017387--95017519 Score: 144
Period size: 46 Copynumber: 2.9 Consensus size: 45
95017377 GCCACATTAT
* *
95017387 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAAAC
1 GAGAGCCAGTGTAAGA-CATGTATGGGACAT-ACATCGGC-TTGAAAC
* * * *
95017435 GAGTGCTAGTGTAAGACATGTATGGGACATACTTCGGCTTCGAGAC
1 GAGAGCCAGTGTAAGACATGTATGGGACATACATCGGCTT-GAAAC
95017481 GTA-AGCCAGTGTAAGACATGTCA-GGGACATACATCGGCT
1 G-AGAGCCAGTGTAAGACATGT-ATGGGACATACATCGGCT
95017520 ACAAGATGTG
Statistics
Matches: 73, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
45 2 0.03
46 42 0.58
47 15 0.21
48 14 0.19
ACGTcount: A:0.29, C:0.20, G:0.30, T:0.22
Consensus pattern (45 bp):
GAGAGCCAGTGTAAGACATGTATGGGACATACATCGGCTTGAAAC
Found at i:95023642 original size:59 final size:59
Alignment explanation
Indices: 95023550--95023668 Score: 193
Period size: 59 Copynumber: 2.0 Consensus size: 59
95023540 ATGAAACATG
* * *
95023550 AGTTAGATCTGACCAATCAATATCACACTATCACAAGTTTATATGGCATGTACTTTCTA
1 AGTTAGATCAGACCAAGCAATATCACACTATCACAAGTTTATATGGCATATACTTTCTA
* *
95023609 AGTTAGATCAGACCAAGCAATATCACACTATCACAGGTTTATATGTCATATACTTTCTA
1 AGTTAGATCAGACCAAGCAATATCACACTATCACAAGTTTATATGGCATATACTTTCTA
95023668 A
1 A
95023669 TCTTTCAACA
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
59 55 1.00
ACGTcount: A:0.35, C:0.20, G:0.12, T:0.33
Consensus pattern (59 bp):
AGTTAGATCAGACCAAGCAATATCACACTATCACAAGTTTATATGGCATATACTTTCTA
Found at i:95025120 original size:40 final size:40
Alignment explanation
Indices: 95025076--95025286 Score: 226
Period size: 40 Copynumber: 5.2 Consensus size: 40
95025066 GAATCAATAT
* * *
95025076 GTATGGCTCAAAAGCGCATACGTTTCAGTAAATTTAGTAG
1 GTATGGCTCGAAAGCACATACGTTTCAGTAAATTCAGTAG
* *
95025116 GTATGGCTTTGAAAGCACATACGTTTCAGTAGATTCAGTAG
1 GTATGGC-TCGAAAGCACATACGTTTCAGTAAATTCAGTAG
*
95025157 GTGTGGCTCGAAAGCACATACGTTTCAGTAAATTCAGTAG
1 GTATGGCTCGAAAGCACATACGTTTCAGTAAATTCAGTAG
* * * * *
95025197 GTATGGATTGAAAGCACATATGTTTCAATAGATTCTA-TAG
1 GTATGGCTCGAAAGCACATACGTTTCAGTAAATTC-AGTAG
* * * * * *
95025237 GTATGTCTCAAAAGCACATAAGTTTCAATAGATTCAATAG
1 GTATGGCTCGAAAGCACATACGTTTCAGTAAATTCAGTAG
* *
95025277 ATATCGCTCG
1 GTATGGCTCG
95025287 TCTGAGCACC
Statistics
Matches: 145, Mismatches: 23, Indels: 6
0.83 0.13 0.03
Matches are distributed among these distances:
39 1 0.01
40 109 0.75
41 35 0.24
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (40 bp):
GTATGGCTCGAAAGCACATACGTTTCAGTAAATTCAGTAG
Found at i:95025251 original size:80 final size:80
Alignment explanation
Indices: 95025058--95025272 Score: 270
Period size: 80 Copynumber: 2.7 Consensus size: 80
95025048 TAGCCATAAA
* * * * *
95025058 TTTCAATGGAATCAATATGTATGGCTCAAAAGCGCATACGTTTCAGTAAATTTAGTAGGTATGGC
1 TTTCAATAGATTC-ATAGGTATGGCTCAAAAGCACATACGTTTCAGTAAATTCAGTAGGTATGGC
*
95025123 TTTGAAAGCACATACG
65 ATTGAAAGCACATACG
* * *
95025139 TTTCAGTAGATTCAGTAGGTGTGGCTCGAAAGCACATACGTTTCAGTAAATTCAGTAGGTATGG-
1 TTTCAATAGATTCA-TAGGTATGGCTCAAAAGCACATACGTTTCAGTAAATTCAGTAGGTATGGC
*
95025203 ATTGAAAGCACATATG
65 ATTGAAAGCACATACG
* * * *
95025219 TTTCAATAGATTCTATAGGTATGTCTCAAAAGCACATAAGTTTCAATAGATTCA
1 TTTCAATAGATTC-ATAGGTATGGCTCAAAAGCACATACGTTTCAGTAAATTCA
95025273 ATAGATATCG
Statistics
Matches: 115, Mismatches: 17, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
80 60 0.52
81 55 0.48
ACGTcount: A:0.33, C:0.14, G:0.20, T:0.32
Consensus pattern (80 bp):
TTTCAATAGATTCATAGGTATGGCTCAAAAGCACATACGTTTCAGTAAATTCAGTAGGTATGGCA
TTGAAAGCACATACG
Found at i:95031416 original size:6 final size:6
Alignment explanation
Indices: 95031397--95031469 Score: 114
Period size: 6 Copynumber: 12.5 Consensus size: 6
95031387 AGTGACATTA
* *
95031397 TTTAGT TTTA-T TTTATT TTTATT TTTATT TTTA-T TTTATA TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
95031443 TTTATT TTTATT TTTATT TTTATT TTT
1 TTTATT TTTATT TTTATT TTTATT TTT
95031470 GTTATGTTTT
Statistics
Matches: 63, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
5 10 0.16
6 53 0.84
ACGTcount: A:0.18, C:0.00, G:0.01, T:0.81
Consensus pattern (6 bp):
TTTATT
Found at i:95031428 original size:23 final size:23
Alignment explanation
Indices: 95031397--95031469 Score: 119
Period size: 23 Copynumber: 3.1 Consensus size: 23
95031387 AGTGACATTA
*
95031397 TTTAGTTTTATTTTATTTTTATT
1 TTTATTTTTATTTTATTTTTATT
*
95031420 TTTATTTTTATTTTATATTTATT
1 TTTATTTTTATTTTATTTTTATT
95031443 TTTATTTTTATTTTTATTTTTATT
1 TTTATTTTTA-TTTTATTTTTATT
95031467 TTT
1 TTT
95031470 GTTATGTTTT
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
23 31 0.67
24 15 0.33
ACGTcount: A:0.18, C:0.00, G:0.01, T:0.81
Consensus pattern (23 bp):
TTTATTTTTATTTTATTTTTATT
Found at i:95031480 original size:18 final size:17
Alignment explanation
Indices: 95031407--95031484 Score: 79
Period size: 17 Copynumber: 4.5 Consensus size: 17
95031397 TTTAGTTTTA
*
95031407 TTTTATTTTTATTTTTAT
1 TTTTATTTTTA-TTTGAT
95031425 TTTTATTTTATATTT-AT
1 TTTTATTTT-TATTTGAT
*
95031442 TTTTATTTTTATTTTTAT
1 TTTTATTTTTA-TTTGAT
*
95031460 TTTTATTTTTGTTATG-T
1 TTTTATTTTTATT-TGAT
95031477 TTTTATTT
1 TTTTATTT
95031485 AATTTTTCGG
Statistics
Matches: 54, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
16 2 0.04
17 25 0.46
18 25 0.46
19 2 0.04
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.81
Consensus pattern (17 bp):
TTTTATTTTTATTTGAT
Found at i:95031484 original size:35 final size:35
Alignment explanation
Indices: 95031403--95031468 Score: 125
Period size: 35 Copynumber: 1.9 Consensus size: 35
95031393 ATTATTTAGT
95031403 TTTA-TTTTATTTTTATTTTTATTTTTATTTTATA
1 TTTATTTTTATTTTTATTTTTATTTTTATTTTATA
95031437 TTTATTTTTATTTTTATTTTTATTTTTATTTT
1 TTTATTTTTATTTTTATTTTTATTTTTATTTT
95031469 TGTTATGTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
34 4 0.13
35 27 0.87
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (35 bp):
TTTATTTTTATTTTTATTTTTATTTTTATTTTATA
Found at i:95035082 original size:27 final size:27
Alignment explanation
Indices: 95035062--95035192 Score: 169
Period size: 27 Copynumber: 4.9 Consensus size: 27
95035052 CACCAAATAT
*
95035062 AGATAT-TATGGCAGAGCCACCAGAAC
1 AGATATATGTGGCAGAGCCACCAGAAC
*
95035088 AGATATATGTGGCAGAGCCACCAGATC
1 AGATATATGTGGCAGAGCCACCAGAAC
*
95035115 AGATA-ATCGTGGCATAGCCACCAGAAC
1 AGATATAT-GTGGCAGAGCCACCAGAAC
*
95035142 AGATATATGTGGCAGAGCCACCAGATC
1 AGATATATGTGGCAGAGCCACCAGAAC
* *
95035169 AAATA-ATTGTGGCATAGCCACCAG
1 AGATATA-TGTGGCAGAGCCACCAG
95035193 GACGCTTCCT
Statistics
Matches: 93, Mismatches: 8, Indels: 7
0.86 0.07 0.06
Matches are distributed among these distances:
26 9 0.10
27 82 0.88
28 2 0.02
ACGTcount: A:0.36, C:0.23, G:0.24, T:0.18
Consensus pattern (27 bp):
AGATATATGTGGCAGAGCCACCAGAAC
Found at i:95035134 original size:54 final size:54
Alignment explanation
Indices: 95035070--95035192 Score: 219
Period size: 54 Copynumber: 2.3 Consensus size: 54
95035060 ATAGATATTA
* *
95035070 TGGCAGAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCG
1 TGGCATAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAAATAATCG
*
95035124 TGGCATAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAAATAATTG
1 TGGCATAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAAATAATCG
95035178 TGGCATAGCCACCAG
1 TGGCATAGCCACCAG
95035193 GACGCTTCCT
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 66 1.00
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.16
Consensus pattern (54 bp):
TGGCATAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAAATAATCG
Found at i:95035327 original size:26 final size:27
Alignment explanation
Indices: 95035298--95035371 Score: 96
Period size: 26 Copynumber: 2.7 Consensus size: 27
95035288 AAATTAACCC
*
95035298 TAGGGGTATAACAGTAATTTT-ACACT
1 TAGGGGTATAACAGTAATTTTCACACA
*
95035324 TAGGGGTATAACAGTAATTTTCCATACA
1 TAGGGGTATAACAGTAATTTT-CACACA
* *
95035352 TAGGGGTATTATAGTAATTT
1 TAGGGGTATAACAGTAATTT
95035372 AGCTACTTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 21 0.50
28 21 0.50
ACGTcount: A:0.34, C:0.09, G:0.20, T:0.36
Consensus pattern (27 bp):
TAGGGGTATAACAGTAATTTTCACACA
Found at i:95036835 original size:26 final size:26
Alignment explanation
Indices: 95036804--95036911 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
95036794 TGAAATGCCC
*
95036804 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
95036830 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
95036856 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
95036882 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
95036908 ATCA
1 ATCA
95036912 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:95039148 original size:2 final size:2
Alignment explanation
Indices: 95039136--95039184 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
95039126 TTATTGTTAT
95039136 TA TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
95039177 TA TA TA TA
1 TA TA TA TA
95039185 AAGTAAAATA
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 45 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:95041345 original size:46 final size:46
Alignment explanation
Indices: 95041293--95041454 Score: 227
Period size: 46 Copynumber: 3.5 Consensus size: 46
95041283 AGTGTGCTTT
*
95041293 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
95041339 CTGATATGAAATGTGTAAGACTATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* ***
95041385 GTGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
95041431 ATGACA-GAAAATGAGTAAGACCAT
1 CTGATATG-AAATGTGTAAGACCAT
95041455 AACTGAAAGA
Statistics
Matches: 104, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
45 1 0.01
46 103 0.99
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:95049163 original size:13 final size:13
Alignment explanation
Indices: 95049145--95049169 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
95049135 AATTGAATTA
95049145 AATTAATTCAATC
1 AATTAATTCAATC
95049158 AATTAATTCAAT
1 AATTAATTCAAT
95049170 TTTAACCGAT
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:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (13 bp):
AATTAATTCAATC
Found at i:95049511 original size:28 final size:28
Alignment explanation
Indices: 95049472--95049531 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
95049462 AAAAATGATA
*
95049472 TTTTTAAATATTTATGAAATTAGGTCGT
1 TTTTTAAATATTTATGAAATTAGGTCAT
* **
95049500 TTTTTTAATATTTATGGGATTAGGTCAT
1 TTTTTAAATATTTATGAAATTAGGTCAT
95049528 TTTT
1 TTTT
95049532 CTTTTTTTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.27, C:0.03, G:0.15, T:0.55
Consensus pattern (28 bp):
TTTTTAAATATTTATGAAATTAGGTCAT
Found at i:95049716 original size:22 final size:22
Alignment explanation
Indices: 95049670--95049716 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
95049660 TCCTAACCAA
* * *
95049670 TTTAGGGTTTTTCTTTTAGGGT
1 TTTAGGGTATTTCTTTCAGGAT
*
95049692 TTTAGGGTATTTGTTTCAGGAT
1 TTTAGGGTATTTCTTTCAGGAT
95049714 TTT
1 TTT
95049717 TAAAAGACAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.13, C:0.04, G:0.26, T:0.57
Consensus pattern (22 bp):
TTTAGGGTATTTCTTTCAGGAT
Found at i:95051432 original size:13 final size:13
Alignment explanation
Indices: 95051414--95051438 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
95051404 AAGGCACTCA
95051414 TAGATTTCAACCT
1 TAGATTTCAACCT
95051427 TAGATTTCAACC
1 TAGATTTCAACC
95051439 AAGGTAGACA
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:0.32, C:0.24, G:0.08, T:0.36
Consensus pattern (13 bp):
TAGATTTCAACCT
Found at i:95058122 original size:76 final size:76
Alignment explanation
Indices: 95058001--95058146 Score: 179
Period size: 76 Copynumber: 1.9 Consensus size: 76
95057991 TGCAATCATC
* * * * * *
95058001 GTTGGTTTATCCGACTAGAGTTGGGCTCACAATTACTATTGTCGGTAT-ACCCTACTAGCACTGG
1 GTTGGTTTATCCAACCAGAGCTGGGCTAACAATTACTACTATCGGT-TCACCCTACTAGCACTGG
*
95058065 GTGCAAAATGTT
65 GCGCAAAATGTT
* *
95058077 GTTGGTTTATCCAACCAGAGCTGGGCTAAC-ATTCATTACTATCGGTTCACCCTACTAGCGCTGG
1 GTTGGTTTATCCAACCAGAGCTGGGCTAACAATT-ACTACTATCGGTTCACCCTACTAGCACTGG
95058141 GCGCAA
65 GCGCAA
95058147 CCCTTTTCTG
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
75 4 0.07
76 55 0.93
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.30
Consensus pattern (76 bp):
GTTGGTTTATCCAACCAGAGCTGGGCTAACAATTACTACTATCGGTTCACCCTACTAGCACTGGG
CGCAAAATGTT
Found at i:95060367 original size:163 final size:163
Alignment explanation
Indices: 95060190--95060511 Score: 520
Period size: 163 Copynumber: 2.0 Consensus size: 163
95060180 ACCGATTCCG
* *
95060190 TTCCTCTATTATTATTTTTTATTTCCAAATGAATATTAAAACTAATAAAATTTGTTTTGGGA-TT
1 TTCCTCTATTATTATTTTTTATTTCCAAATGAATATTAAAACTAATAAAATCTGTTTTGAGATTT
* * * *
95060254 TTTCCAGCTGTTTAATAGATTTTATTCGATTTTGTTTCCAAATTAAAAGTAAATAAAATTCGTTT
66 TTTCC-GCCGTTTAACAGATTTTATTCAATTTTGTTTCCAAATTAAAAGTAAATAAAATCCGTTT
* *
95060319 CGAAATTTATTCTTGCCGTTCAACAGATTTCTTT
130 CGAAATTTATTCTCGCCCTTCAACAGATTTCTTT
95060353 TTCCTCTATTATTATTTTTTATTTCCAAATGAATATTAAAACTAATAAAATCTGTTTTGAGATTT
1 TTCCTCTATTATTATTTTTTATTTCCAAATGAATATTAAAACTAATAAAATCTGTTTTGAGATTT
95060418 TTTCCGCCGTTTAACAGATTTTATTCAATTTTGTTTCCAAATTAAAAGTAAATAAAATCCGTTTC
66 TTTCCGCCGTTTAACAGATTTTATTCAATTTTGTTTCCAAATTAAAAGTAAATAAAATCCGTTTC
** * *
95060483 GGGATTTGTTCTCGCCCTTCAACGGATTT
131 GAAATTTATTCTCGCCCTTCAACAGATTT
95060512 TATTCTATTA
Statistics
Matches: 146, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
163 139 0.95
164 7 0.05
ACGTcount: A:0.30, C:0.14, G:0.10, T:0.46
Consensus pattern (163 bp):
TTCCTCTATTATTATTTTTTATTTCCAAATGAATATTAAAACTAATAAAATCTGTTTTGAGATTT
TTTCCGCCGTTTAACAGATTTTATTCAATTTTGTTTCCAAATTAAAAGTAAATAAAATCCGTTTC
GAAATTTATTCTCGCCCTTCAACAGATTTCTTT
Found at i:95060675 original size:72 final size:73
Alignment explanation
Indices: 95060559--95060844 Score: 355
Period size: 72 Copynumber: 3.9 Consensus size: 73
95060549 TAAAGGTAAA
* *
95060559 TAAAATGTGTTTCGGAATTGATTC-T-CACGTTCAATGATTTTATTCCAATTTT-TTTTATTTCC
1 TAAAATCTGTTTCGGGATTGATTCTTGC-CGTTCAATGATTTTATTCCAATTTTGTTTTATTTCC
95060621 AAAAATGAG
65 AAAAATGAG
* * *
95060630 TAAAATCTGCTTCGGGATTGATTTTTGCCGTTCAATGATTTTATTCTAATTTT-TTTTATTTCCA
1 TAAAATCTGTTTCGGGATTGATTCTTGCCGTTCAATGATTTTATTCCAATTTTGTTTTATTTCCA
*
95060694 AAAATGAA
66 AAAATGAG
* ** *
95060702 TAAAATCTGTTTCTGGATTGATTCCCGCCGTTCAACGATTTTATTCCAAATTTTGTTTTATTTCC
1 TAAAATCTGTTTCGGGATTGATTCTTGCCGTTCAATGATTTTATTCC-AATTTTGTTTTATTTCC
* *
95060767 ATAAACGAG
65 AAAAATGAG
* * * * * *
95060776 TAAAATTTGTTTTGAGATTTATTCTTGCCGTTCAATAATTTTATTTCAAATTTTGTTTTATTTCC
1 TAAAATCTGTTTCGGGATTGATTCTTGCCGTTCAATGATTTTA-TTCCAATTTTGTTTTATTTCC
95060841 AAAA
65 AAAA
95060845 CCGAGTATTT
Statistics
Matches: 183, Mismatches: 27, Indels: 7
0.84 0.12 0.03
Matches are distributed among these distances:
71 20 0.11
72 83 0.45
73 7 0.04
74 70 0.38
75 3 0.02
ACGTcount: A:0.28, C:0.14, G:0.12, T:0.47
Consensus pattern (73 bp):
TAAAATCTGTTTCGGGATTGATTCTTGCCGTTCAATGATTTTATTCCAATTTTGTTTTATTTCCA
AAAATGAG
Found at i:95060804 original size:146 final size:145
Alignment explanation
Indices: 95060557--95060844 Score: 393
Period size: 146 Copynumber: 2.0 Consensus size: 145
95060547 ATTAAAGGTA
* * *
95060557 AATAAAATGTGTTTCGGAATTGATTCTCACGTTCAATGATTTTATTCCAATTTTTTTTATTTCCA
1 AATAAAATCTGTTTCGGAATTGATTCCCACGTTCAACGATTTTATTCCAATTTTTTTTATTTCCA
* * * * *
95060622 AAAATGAGTAAAATCTGCTTCGGGATTGATTTTTGCCGTTCAATGATTTTA-TTCTAATTTT-TT
66 AAAACGAGTAAAATCTGCTTCGAGATTGATTCTTGCCGTTCAATAATTTTATTTCAAATTTTGTT
95060685 TTATTTCCAAAAATG
131 TTATTTCCAAAAATG
*
95060700 AATAAAATCTGTTTCTGG-ATTGATTCCCGCCGTTCAACGATTTTATTCCAAATTTTGTTTTATT
1 AATAAAATCTGTTTC-GGAATTGATTCCC-ACGTTCAACGATTTTATTCC-AATTTT-TTTTATT
* * * * *
95060764 TCCATAAACGAGTAAAATTTGTTTTGAGATTTATTCTTGCCGTTCAATAATTTTATTTCAAATTT
62 TCCAAAAACGAGTAAAATCTGCTTCGAGATTGATTCTTGCCGTTCAATAATTTTATTTCAAATTT
95060829 TGTTTTATTTCCAAAA
127 TGTTTTATTTCCAAAA
95060845 CCGAGTATTT
Statistics
Matches: 125, Mismatches: 14, Indels: 7
0.86 0.10 0.05
Matches are distributed among these distances:
143 23 0.18
144 20 0.16
145 6 0.05
146 53 0.42
147 9 0.07
148 14 0.11
ACGTcount: A:0.28, C:0.14, G:0.12, T:0.46
Consensus pattern (145 bp):
AATAAAATCTGTTTCGGAATTGATTCCCACGTTCAACGATTTTATTCCAATTTTTTTTATTTCCA
AAAACGAGTAAAATCTGCTTCGAGATTGATTCTTGCCGTTCAATAATTTTATTTCAAATTTTGTT
TTATTTCCAAAAATG
Found at i:95061114 original size:84 final size:83
Alignment explanation
Indices: 95060944--95061165 Score: 272
Period size: 84 Copynumber: 2.7 Consensus size: 83
95060934 AAGAAATTAA
* * *
95060944 AAATTAAATAAAATATATTTCAGGATTTATTCCTGTC-ATTTAACAAGA--TTATTTTATTTTAT
1 AAATTAAATAAAATATGTTTCAGGATTTATT-CT-TCTGTTTAACAAGATTTTATTTGATTTTAT
*
95061006 TTTGTTTCCAAATTAGAATG
64 TTTGTTTCCAAATTAGAATC
* * *
95061026 AAATTAAATAAAATCTGTTTCTGGATTTATTCTTACTGTTTAATAAGATTTTATTTGATTTTATT
1 AAATTAAATAAAATATGTTTCAGGATTTATTCTT-CTGTTTAACAAGATTTTATTTGATTTTATT
95061091 TTGTTTCCAAATTAGAATC
65 TTGTTTCCAAATTAGAATC
* * **
95061110 AAATTAAATAAAAAAATGTTTCGGGATTTATTCCCGCTGTTTAACAAG-TTTTATTT
1 AAATTAAAT-AAAATATGTTTCAGGATTTATT-CTTCTGTTTAACAAGATTTTATTT
95061166 TGATATAATT
Statistics
Matches: 121, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
80 1 0.01
81 3 0.02
82 37 0.31
84 49 0.40
85 30 0.25
86 1 0.01
ACGTcount: A:0.35, C:0.09, G:0.10, T:0.46
Consensus pattern (83 bp):
AAATTAAATAAAATATGTTTCAGGATTTATTCTTCTGTTTAACAAGATTTTATTTGATTTTATTT
TGTTTCCAAATTAGAATC
Found at i:95066622 original size:29 final size:29
Alignment explanation
Indices: 95066598--95066691 Score: 170
Period size: 29 Copynumber: 3.2 Consensus size: 29
95066588 TCGCACACCC
*
95066598 AGTGCCGTATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
95066627 AGTGCCATATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
*
95066656 AGTGCCATATATTTCCAGCACGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
95066685 AGTGCCA
1 AGTGCCA
95066692 ATCTCGTCAC
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 63 1.00
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.29
Consensus pattern (29 bp):
AGTGCCATATATTTCCAGCATGCACACTT
Found at i:95066623 original size:58 final size:58
Alignment explanation
Indices: 95066560--95066691 Score: 167
Period size: 58 Copynumber: 2.3 Consensus size: 58
95066550 GATTTAAGCC
* * * *
95066560 CGCACACATAGTGCCATACCCTTCGAGC-TCGCACACCCAGTGCCGTATATTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCCAGCAT-GCACACCCAGTGCCATATATTTCCAGCA
* * * **
95066618 TGCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCA
95066676 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
95066692 ATCTCGTCAC
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
58 62 0.98
59 1 0.02
ACGTcount: A:0.26, C:0.33, G:0.16, T:0.25
Consensus pattern (58 bp):
CGCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCA
Found at i:95074576 original size:29 final size:29
Alignment explanation
Indices: 95074552--95074645 Score: 170
Period size: 29 Copynumber: 3.2 Consensus size: 29
95074542 TCGCACACCC
*
95074552 AGTGCCGTATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
95074581 AGTGCCATATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
*
95074610 AGTGCCATATATTTCCAGCACGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
95074639 AGTGCCA
1 AGTGCCA
95074646 ATCTCGTCAC
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 63 1.00
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.29
Consensus pattern (29 bp):
AGTGCCATATATTTCCAGCATGCACACTT
Found at i:95074577 original size:58 final size:58
Alignment explanation
Indices: 95074514--95074645 Score: 167
Period size: 58 Copynumber: 2.3 Consensus size: 58
95074504 GATTTAAGCC
* * * *
95074514 CGCACACATAGTGCCATACCCTTCGAGC-TCGCACACCCAGTGCCGTATATTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCCAGCAT-GCACACCCAGTGCCATATATTTCCAGCA
* * * **
95074572 TGCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCA
95074630 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
95074646 ATCTCGTCAC
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
58 62 0.98
59 1 0.02
ACGTcount: A:0.26, C:0.33, G:0.16, T:0.25
Consensus pattern (58 bp):
CGCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCA
Found at i:95078421 original size:18 final size:19
Alignment explanation
Indices: 95078398--95078433 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
95078388 TCTTTCTAGT
95078398 TTATTTTTATTT-ATTAAA
1 TTATTTTTATTTAATTAAA
*
95078416 TTATTTTTCTTTAATTAA
1 TTATTTTTATTTAATTAA
95078434 GTTTTATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (19 bp):
TTATTTTTATTTAATTAAA
Found at i:95078986 original size:42 final size:42
Alignment explanation
Indices: 95078913--95078996 Score: 132
Period size: 42 Copynumber: 2.0 Consensus size: 42
95078903 CAATGATAGA
*
95078913 AAAAGGCAACGTCCATTCAATTGATCATTGTAGAGGTGCTAC
1 AAAAGGCAACGTCCATTCAATTAATCATTGTAGAGGTGCTAC
* * *
95078955 AAAAGGCAACGTCCGTTCGATTAATCGTTGTAGAGGTGCTAC
1 AAAAGGCAACGTCCATTCAATTAATCATTGTAGAGGTGCTAC
95078997 TACTTTGATC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (42 bp):
AAAAGGCAACGTCCATTCAATTAATCATTGTAGAGGTGCTAC
Found at i:95079389 original size:22 final size:22
Alignment explanation
Indices: 95079337--95079391 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
95079327 TATATTGTCA
* **
95079337 TATGTATTTTTATATACATTTT
1 TATGTATATTTATATACATAAT
* * *
95079359 TACGGATATTTATATATATAAT
1 TATGTATATTTATATACATAAT
95079381 TATGTATATTT
1 TATGTATATTT
95079392 TTCACATATA
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.33, C:0.04, G:0.07, T:0.56
Consensus pattern (22 bp):
TATGTATATTTATATACATAAT
Found at i:95079545 original size:36 final size:33
Alignment explanation
Indices: 95079458--95079529 Score: 137
Period size: 33 Copynumber: 2.2 Consensus size: 33
95079448 AATTTTTATC
95079458 AAAC-ATTATTAAAATTGTTTAAAAACTAAAAA
1 AAACTATTATTAAAATTGTTTAAAAACTAAAAA
95079490 AAACTATTATTAAAATTGTTTAAAAACTAAAAA
1 AAACTATTATTAAAATTGTTTAAAAACTAAAAA
95079523 AAACTAT
1 AAACTAT
95079530 CATTTGTATA
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
32 4 0.10
33 35 0.90
ACGTcount: A:0.58, C:0.07, G:0.03, T:0.32
Consensus pattern (33 bp):
AAACTATTATTAAAATTGTTTAAAAACTAAAAA
Found at i:95079859 original size:2 final size:2
Alignment explanation
Indices: 95079852--95079886 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
95079842 TTAGAAACTA
95079852 AT AT AT AT 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 AT AT AT AT A
95079887 AACATATAGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:95082766 original size:22 final size:24
Alignment explanation
Indices: 95082714--95082768 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
95082704 TTTTTTAATA
*
95082714 TTAAATTATTGTTATTAAATATGCT
1 TTAAATTGTTGTTATTAAATAT-CT
* *
95082739 TGAAATTGTTG-TATTAAATCT-T
1 TTAAATTGTTGTTATTAAATATCT
95082761 TTAAATTG
1 TTAAATTG
95082769 AATTTATAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 8 0.31
24 9 0.35
25 9 0.35
ACGTcount: A:0.35, C:0.04, G:0.11, T:0.51
Consensus pattern (24 bp):
TTAAATTGTTGTTATTAAATATCT
Found at i:95091658 original size:39 final size:39
Alignment explanation
Indices: 95091572--95091943 Score: 593
Period size: 39 Copynumber: 9.5 Consensus size: 39
95091562 AAAAAGCATG
* * *
95091572 CGGGACTTTAAGCCCGGATGTAATACCAGCAC-AAAGCCTT
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCTT
* * *
95091612 CAGGACTTAGCCCGGGTATAACACCAGTACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
95091651 CGGGACTTAGCCCGGGTATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* *
95091690 CAGGACTTAGCCCGGGTATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* *
95091729 CGGGACTTAGCCCGAATATAACACCAGCAGGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
95091768 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
95091807 CGGGACTTAGCCCGGGTATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
95091846 CGGGACTTAGCCCGGGTATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
95091885 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
95091924 CGGGAATTAGCCCGGATATA
1 CGGGACTTAGCCCGGATATA
95091944 TATCTCACAC
Statistics
Matches: 313, Mismatches: 18, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
38 18 0.06
39 290 0.93
40 5 0.02
ACGTcount: A:0.28, C:0.29, G:0.24, T:0.19
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:95099527 original size:13 final size:13
Alignment explanation
Indices: 95099511--95099536 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
95099501 AATAAACTAA
95099511 AAAAAGGGGGGAG
1 AAAAAGGGGGGAG
95099524 AAAAAGGGGGGAG
1 AAAAAGGGGGGAG
95099537 TTTGAATGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.54, T:0.00
Consensus pattern (13 bp):
AAAAAGGGGGGAG
Found at i:95100110 original size:18 final size:18
Alignment explanation
Indices: 95100087--95100125 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
95100077 AAAACTCATG
95100087 TTACTTTCTCTTTATTAA
1 TTACTTTCTCTTTATTAA
*
95100105 TTACTTTCTTTTTATTAA
1 TTACTTTCTCTTTATTAA
95100123 TTA
1 TTA
95100126 TTAGTATGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.23, C:0.13, G:0.00, T:0.64
Consensus pattern (18 bp):
TTACTTTCTCTTTATTAA
Found at i:95106346 original size:27 final size:27
Alignment explanation
Indices: 95106302--95106354 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
95106292 GGTGATGGCT
*
95106302 CATTTGGAATGAAGGGAGCATTCGACC
1 CATTTGGAAAGAAGGGAGCATTCGACC
95106329 CATTTGGAAAG-AGAGGAGCATTCGAC
1 CATTTGGAAAGAAG-GGAGCATTCGAC
95106355 TTAGCAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 2 0.08
27 22 0.92
ACGTcount: A:0.32, C:0.17, G:0.30, T:0.21
Consensus pattern (27 bp):
CATTTGGAAAGAAGGGAGCATTCGACC
Found at i:95116269 original size:2 final size:2
Alignment explanation
Indices: 95116264--95116288 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
95116254 TCTCTCTCTC
95116264 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
95116289 CCAGAAAAGT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:95120738 original size:26 final size:27
Alignment explanation
Indices: 95120715--95120789 Score: 91
Period size: 26 Copynumber: 2.9 Consensus size: 27
95120705 TTTTAAAAAC
* *
95120715 AAAAGAAAATATATATTATAAAAAGGT
1 AAAAGTAAATATATATTATAAAAAGAT
* *
95120742 ACAAGTAAA-ATATATTA-AAAAATAT
1 AAAAGTAAATATATATTATAAAAAGAT
*
95120767 AAAATTAAATATATATTATAAAA
1 AAAAGTAAATATATATTATAAAA
95120790 TTTTAAAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
25 13 0.32
26 16 0.40
27 11 0.28
ACGTcount: A:0.64, C:0.01, G:0.05, T:0.29
Consensus pattern (27 bp):
AAAAGTAAATATATATTATAAAAAGAT
Found at i:95129297 original size:65 final size:65
Alignment explanation
Indices: 95129193--95129317 Score: 171
Period size: 65 Copynumber: 1.9 Consensus size: 65
95129183 CTTGAGACAT
* *
95129193 TAAACATATAGATAAACAATAAAGTAAAATTTGATCTTATGAG-CTCAAGACACATTCATGTTGT
1 TAAACATATAAATAAACAATAAAGTAAAATTTGATCTTATG-GTCTCAAAACACATTCATGTTGT
95129257 C
65 C
* ** **
95129258 TAAACATATAAATAAACAATAAGGTAATTTTTTTTCTTATGGTCTCAAAACACATTCATG
1 TAAACATATAAATAAACAATAAAGTAAAATTTGATCTTATGGTCTCAAAACACATTCATG
95129318 CTATCTCTAG
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
64 1 0.02
65 51 0.98
ACGTcount: A:0.42, C:0.14, G:0.10, T:0.34
Consensus pattern (65 bp):
TAAACATATAAATAAACAATAAAGTAAAATTTGATCTTATGGTCTCAAAACACATTCATGTTGTC
Found at i:95133867 original size:21 final size:21
Alignment explanation
Indices: 95133843--95133892 Score: 100
Period size: 21 Copynumber: 2.4 Consensus size: 21
95133833 ATAGGGCTTG
95133843 GTTGCAACACAATAGGCCTGT
1 GTTGCAACACAATAGGCCTGT
95133864 GTTGCAACACAATAGGCCTGT
1 GTTGCAACACAATAGGCCTGT
95133885 GTTGCAAC
1 GTTGCAAC
95133893 CAAGCACAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.24
Consensus pattern (21 bp):
GTTGCAACACAATAGGCCTGT
Found at i:95141242 original size:18 final size:18
Alignment explanation
Indices: 95141215--95141249 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
95141205 TTAAAGGTAA
95141215 ATTTTATTTTTTTAACAT
1 ATTTTATTTTTTTAACAT
*
95141233 ATTTTGTTTTTTTAACA
1 ATTTTATTTTTTTAACA
95141250 GAAATAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.06, G:0.03, T:0.66
Consensus pattern (18 bp):
ATTTTATTTTTTTAACAT
Found at i:95146784 original size:2 final size:2
Alignment explanation
Indices: 95146779--95146813 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
95146769 AACCCCCCCC
*
95146779 CT CT CT CT CT CT CT CT CT CT CT CA CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
95146814 AAAGCTTGGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.03, C:0.51, G:0.00, T:0.46
Consensus pattern (2 bp):
CT
Found at i:95149627 original size:16 final size:18
Alignment explanation
Indices: 95149589--95149628 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
95149579 AGTCTCGCTC
*
95149589 ATATTATTTTTATATAAA
1 ATATAATTTTTATATAAA
95149607 A-ATAATTTTTA-A-AAA
1 ATATAATTTTTATATAAA
95149622 ATATAAT
1 ATATAAT
95149629 ACATCAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
15 4 0.20
16 6 0.30
17 9 0.45
18 1 0.05
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
ATATAATTTTTATATAAA
Found at i:95154881 original size:20 final size:19
Alignment explanation
Indices: 95154853--95154890 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
95154843 GTAAAATTTA
95154853 ATTTTAATA-TATAAATCAT
1 ATTTTAATACTA-AAATCAT
95154872 ATTTTAAATACTAAAATCA
1 ATTTT-AATACTAAAATCA
95154891 CATATAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 5 0.29
20 10 0.59
21 2 0.12
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (19 bp):
ATTTTAATACTAAAATCAT
Found at i:95170323 original size:49 final size:49
Alignment explanation
Indices: 95170261--95170618 Score: 203
Period size: 49 Copynumber: 7.6 Consensus size: 49
95170251 ACATCAAAGT
* *
95170261 CGATACCATGTCCCAAACAGGTCTTACACTGACTTTCATATATCGAGGC
1 CGATGCCATGTCCCAAACAGGTCTTACACTGACTCTCATATATCGAGGC
* * * * *
95170310 CGATGCCATGTCCCAGATAGGTCTTACACTGGCTCTCATCTATCG-GTGT
1 CGATGCCATGTCCCAAACAGGTCTTACACTGACTCTCATATATCGAG-GC
* * * *
95170359 CGATGCCATGTCCTAGACAGGTCTTACACTGA--CACACA-A-C-AGGC
1 CGATGCCATGTCCCAAACAGGTCTTACACTGACTCTCATATATCGAGGC
* * * * * *
95170403 TGACGCCATGTCCCAGACAGGTCTTGCACT-AGCT-TGTATATCTCGAGGC
1 CGATGCCATGTCCCAAACAGGTCTTACACTGA-CTCT-CATATATCGAGGC
* * * * * *
95170452 CTATG-CATGTCCCAAACATGTCTTACACT-AGCTCTC--GTCTCAATGC
1 CGATGCCATGTCCCAAACAGGTCTTACACTGA-CTCTCATATATCGAGGC
* * * * * * *
95170498 TGATG-CATGTCCCAAACATGTCTTACATTGGCT-TGTATATCTCGAGAC
1 CGATGCCATGTCCCAAACAGGTCTTACACTGACTCT-CATATATCGAGGC
* * * ** *
95170546 CGATG-CATGTCCCAGACATGTCTTACACTGGCTCTGGTA-AT-GTGGC
1 CGATGCCATGTCCCAAACAGGTCTTACACTGACTCTCATATATCGAGGC
* *
95170592 CGAT-ACATGTCCCAAACATGTCTTACA
1 CGATGCCATGTCCCAAACAGGTCTTACA
95170619 ATAGCACACA
Statistics
Matches: 243, Mismatches: 50, Indels: 35
0.74 0.15 0.11
Matches are distributed among these distances:
43 1 0.00
44 27 0.11
45 3 0.01
46 66 0.27
47 4 0.02
48 65 0.27
49 77 0.32
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (49 bp):
CGATGCCATGTCCCAAACAGGTCTTACACTGACTCTCATATATCGAGGC
Found at i:95170481 original size:48 final size:48
Alignment explanation
Indices: 95170409--95170623 Score: 208
Period size: 46 Copynumber: 4.6 Consensus size: 48
95170399 AGGCTGACGC
* * * *
95170409 CATGTCCCAGACAGGTCTTGCACTAGCTTGTATATCTCGAGGCCTATG
1 CATGTCCCAAACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
* ** * * *
95170457 CATGTCCCAAACATGTCTTACACTAGC-TCT-CGTCTCAATGCTGATG
1 CATGTCCCAAACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
* * *
95170503 CATGTCCCAAACATGTCTTACATTGGCTTGTATATCTCGAGACCGATG
1 CATGTCCCAAACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
* * * *
95170551 CATGTCCCAGACATGTCTTACACTGGCTCTGGTA-A--T-GTGGCCGATA
1 CATGTCCCAAACATGTCTTACACTAGCT-T-GTATATCTCGAGGCCGATG
*
95170597 CATGTCCCAAACATGTCTTACAATAGC
1 CATGTCCCAAACATGTCTTACACTAGC
95170624 ACACATATCA
Statistics
Matches: 136, Mismatches: 27, Indels: 10
0.79 0.16 0.06
Matches are distributed among these distances:
46 66 0.49
47 5 0.04
48 60 0.44
49 2 0.01
50 3 0.02
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.29
Consensus pattern (48 bp):
CATGTCCCAAACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
Found at i:95170532 original size:94 final size:93
Alignment explanation
Indices: 95170409--95170623 Score: 263
Period size: 94 Copynumber: 2.3 Consensus size: 93
95170399 AGGCTGACGC
* * * * *
95170409 CATGTCCCAGACAGGTCTTGCACTAGCTTGTATATCTCGAGGCCTATGCATGTCCCAAACATGTC
1 CATGTCCCAAACATGTCTTACACTAGCTTGTATATCTCGAGACCGATGCATGTCCCAAACATGTC
* *
95170474 TTACACTAGCTCTCGTCTCAA-T-GCTGATG
66 TTACACTAGCTCT-G-CT-AAGTGGCCGATA
* * *
95170503 CATGTCCCAAACATGTCTTACATTGGCTTGTATATCTCGAGACCGATGCATGTCCCAGACATGTC
1 CATGTCCCAAACATGTCTTACACTAGCTTGTATATCTCGAGACCGATGCATGTCCCAAACATGTC
* *
95170568 TTACACTGGCTCTGGTAATGTGGCCGATA
66 TTACACTAGCTCTGCTAA-GTGGCCGATA
*
95170597 CATGTCCCAAACATGTCTTACAATAGC
1 CATGTCCCAAACATGTCTTACACTAGC
95170624 ACACATATCA
Statistics
Matches: 104, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
91 2 0.02
92 1 0.01
93 2 0.02
94 99 0.95
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.29
Consensus pattern (93 bp):
CATGTCCCAAACATGTCTTACACTAGCTTGTATATCTCGAGACCGATGCATGTCCCAAACATGTC
TTACACTAGCTCTGCTAAGTGGCCGATA
Found at i:95174785 original size:130 final size:130
Alignment explanation
Indices: 95174552--95174818 Score: 471
Period size: 130 Copynumber: 2.1 Consensus size: 130
95174542 CATGCCTACT
* *
95174552 TCTATTTATAATTTATCTCAATTCTAATACTTAAAATAGAAAAAATAAATGCATTTAATCACGTT
1 TCTATTTATAATTTATCTCAATTCTAATACTTAAAATAGAAAAAAGAAATGCATTTAATCACATT
*
95174617 CAAATACCCGTCCTTCTAATTTTTTCAATAATAATAGTGCAAATTGAGCTAAACCTGAATCGACA
66 CAAATACCCGTCCTTCTAATGTTTTCAATAATAATAGTGCAAATTGAGCTAAACCTGAATCGACA
95174682 TCTATTTATAATTTATCTCAATTCTAATACTTAAAATAGAAAAAAGAAATGCATTTAATCACATT
1 TCTATTTATAATTTATCTCAATTCTAATACTTAAAATAGAAAAAAGAAATGCATTTAATCACATT
* * * *
95174747 CAAATACCCGTCCTTCTAATGTTTTCAATAATAATAGTGCTAATTGAGCTAAATCTTAATCGGCA
66 CAAATACCCGTCCTTCTAATGTTTTCAATAATAATAGTGCAAATTGAGCTAAACCTGAATCGACA
95174812 TCTATTT
1 TCTATTT
95174819 GATTTTTTTT
Statistics
Matches: 130, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
130 130 1.00
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.37
Consensus pattern (130 bp):
TCTATTTATAATTTATCTCAATTCTAATACTTAAAATAGAAAAAAGAAATGCATTTAATCACATT
CAAATACCCGTCCTTCTAATGTTTTCAATAATAATAGTGCAAATTGAGCTAAACCTGAATCGACA
Found at i:95195972 original size:23 final size:24
Alignment explanation
Indices: 95195946--95196004 Score: 72
Period size: 23 Copynumber: 2.5 Consensus size: 24
95195936 TTTATTTCCT
95195946 TTAATATAATATCT-TAA-TTTTAA
1 TTAATATAATAT-TATAAGTTTTAA
95195969 TTAATATAAT-TTATAATGTTTTAA
1 TTAATATAATATTATAA-GTTTTAA
95195993 TTAA-ATAATATT
1 TTAATATAATATT
95196005 TTTATAATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
21 1 0.03
22 4 0.12
23 15 0.47
24 12 0.38
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (24 bp):
TTAATATAATATTATAAGTTTTAA
Found at i:95198346 original size:39 final size:39
Alignment explanation
Indices: 95198292--95198441 Score: 264
Period size: 39 Copynumber: 3.8 Consensus size: 39
95198282 TGTTCGGGTA
95198292 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
1 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
*
95198331 ATATCCAGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
1 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
95198370 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
1 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
* *
95198409 ATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 ATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
95198442 GGCTACCATA
Statistics
Matches: 106, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
39 89 0.84
40 17 0.16
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
Found at i:95204121 original size:2 final size:2
Alignment explanation
Indices: 95204114--95204141 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
95204104 TAAGCCCATA
95204114 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
95204142 GGCATTGGAG
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:95206184 original size:47 final size:48
Alignment explanation
Indices: 95206115--95206334 Score: 192
Period size: 47 Copynumber: 4.7 Consensus size: 48
95206105 AGATGCTGAT
*
95206115 GCCATGTCCCAGACACGGTCTTACACTGGCTCAT-ATCTCAAGTCGAA
1 GCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAAGTCGAA
* *
95206162 GCCATGTCCCAGACATGGTCTTACACTGACT-ATCATCTCGTAG-CTG-A
1 GCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTC-AAGTC-GAA
* * * * *
95206209 -CACATGTCCCAGACAT-GTTTTACACTGGCTTA-CATCTCGAGGCCAA
1 GC-CATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAAGTCGAA
* * *
95206255 TG-CATGTCCCAGATAT-GTCTTACACTAG--CATTCATCTCAATGTCGAT
1 -GCCATGTCCCAGACATGGTCTTACACTGGCTCA-TCATCTCAA-GTCGAA
* *
95206302 GCCATGTCCCAAACATGGTCTTACACTAGCTCA
1 GCCATGTCCCAGACATGGTCTTACACTGGCTCA
95206335 CACAAATGAC
Statistics
Matches: 140, Mismatches: 17, Indels: 29
0.75 0.09 0.16
Matches are distributed among these distances:
44 1 0.01
45 2 0.01
46 54 0.39
47 66 0.47
48 15 0.11
50 2 0.01
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.27
Consensus pattern (48 bp):
GCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAAGTCGAA
Found at i:95206308 original size:93 final size:91
Alignment explanation
Indices: 95206112--95206336 Score: 224
Period size: 93 Copynumber: 2.4 Consensus size: 91
95206102 GTAAGATGCT
* * * *
95206112 GATGCCATGTCCCAGACACGGTCTTACACTGGCTCATATCTCAAGTCGAAGCCATGTCCCAGACA
1 GATGCCATGTCCCAGACA-TGTCTTACACTGGCTCACATCTCAAGGCCAAGCCATGTCCCAGACA
95206177 TGGTCTTACACTGACTATCATCTCGTA
65 TGGTCTTACACTGACTATCATCTCGTA
* * * *
95206204 GCTGACACATGTCCCAGACATGTTTTACACTGGCTTACATCTCGAGGCCAATG-CATGTCCCAGA
1 GATG-C-CATGTCCCAGACATGTCTTACACTGGCTCACATCTCAAGGCCAA-GCCATGTCCCAGA
* *
95206268 TAT-GTCTTACACT-AGC-ATTCATCTCAATGTC
63 CATGGTCTTACACTGA-CTA-TCATCTC---GTA
* *
95206299 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCACA
1 GATGCCATGTCCCAGACAT-GTCTTACACTGGCTCACA
95206337 CAAATGACCC
Statistics
Matches: 109, Mismatches: 15, Indels: 16
0.78 0.11 0.11
Matches are distributed among these distances:
91 2 0.02
92 21 0.19
93 51 0.47
94 30 0.28
95 5 0.05
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.27
Consensus pattern (91 bp):
GATGCCATGTCCCAGACATGTCTTACACTGGCTCACATCTCAAGGCCAAGCCATGTCCCAGACAT
GGTCTTACACTGACTATCATCTCGTA
Found at i:95212374 original size:22 final size:21
Alignment explanation
Indices: 95212334--95212374 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
95212324 CACTTGGTAC
* *
95212334 AGGGGCACACGCCCTTGTGGA
1 AGGGGCACACACCCGTGTGGA
95212355 AGGGGCAACACACCCGTGTG
1 AGGGGC-ACACACCCGTGTG
95212375 ATCAATTTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.22, C:0.29, G:0.37, T:0.12
Consensus pattern (21 bp):
AGGGGCACACACCCGTGTGGA
Found at i:95213569 original size:47 final size:45
Alignment explanation
Indices: 95213498--95213715 Score: 174
Period size: 47 Copynumber: 4.6 Consensus size: 45
95213488 GGTAAGGTGT
* *
95213498 CGATGCCATGTCCCAGACACGGTCTTACACTGGCTCATATCT-TAAGT
1 CGATG-CATGTCCCAGACA-TGTCTTACACTGGCT-ATATCTCTAAGC
* *
95213545 CGAAGCCATGTCCCAGACATGGTCTTACACTGACTATCATCTCGT-AGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTAT-ATCTC-TAAGC
* * * * *
95213593 CGACGCATGTCCCAGACATGTTTTACACTGGCTTACATCTCGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGC-TATATCTCTAAGC
* *
95213639 CGATGCATGTCCCAGACATGTCTTACACTAGC-A-CTCGTCTCAATGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTATATC-TCT-AA-GC
* *
95213685 CGATGTCATGTCCTAGATATGGTCTTACACT
1 CGATG-CATGTCCCAGACAT-GTCTTACACT
95213716 AACTCACACA
Statistics
Matches: 142, Mismatches: 18, Indels: 21
0.78 0.10 0.12
Matches are distributed among these distances:
43 2 0.01
44 3 0.02
45 1 0.01
46 56 0.39
47 63 0.44
48 16 0.11
49 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (45 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCTATATCTCTAAGC
Found at i:95213634 original size:46 final size:46
Alignment explanation
Indices: 95213551--95213667 Score: 166
Period size: 46 Copynumber: 2.5 Consensus size: 46
95213541 AAGTCGAAGC
95213551 CATGTCCCAGACATGGTCTTACACTGACTATCATCTCGTA-GCCGACG
1 CATGTCCCAGACAT-GTCTTACACTGACTATCATCTCG-AGGCCGACG
* * *
95213598 CATGTCCCAGACATGTTTTACACTGGCT-TACATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGACTAT-CATCTCGAGGCCGACG
95213644 CATGTCCCAGACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
95213668 AGCACTCGTC
Statistics
Matches: 64, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
45 2 0.03
46 48 0.75
47 14 0.22
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGACTATCATCTCGAGGCCGACG
Found at i:95213687 original size:46 final size:46
Alignment explanation
Indices: 95213498--95213716 Score: 162
Period size: 46 Copynumber: 4.7 Consensus size: 46
95213488 GGTAAGGTGT
* * * * * *
95213498 CGATGCCATGTCCCAGACACGGTCTTACACTGGCTCAT-ATCTTAAGT
1 CGATG-CATGTCCCAGACATGGTCTTACACTAGCAC-TCATCTCATGC
* *
95213545 CGAAGCCATGTCCCAGACATGGTCTTACACT-G-ACTATCATCTCGTAGC
1 CGATG-CATGTCCCAGACATGGTCTTACACTAGCAC--TCATCTCAT-GC
* * * * *
95213593 CGACGCATGTCCCAGACAT-GTTTTACACTGGC-TTACATCTCGAGGC
1 CGATGCATGTCCCAGACATGGTCTTACACTAGCACT-CATCTC-ATGC
*
95213639 CGATGCATGTCCCAGACAT-GTCTTACACTAGCACTCGTCTCAATGC
1 CGATGCATGTCCCAGACATGGTCTTACACTAGCACTCATCTC-ATGC
* *
95213685 CGATGTCATGTCCTAGATATGGTCTTACACTA
1 CGATG-CATGTCCCAGACATGGTCTTACACTA
95213717 ACTCACACAA
Statistics
Matches: 141, Mismatches: 21, Indels: 19
0.78 0.12 0.10
Matches are distributed among these distances:
45 2 0.01
46 62 0.44
47 61 0.43
48 16 0.11
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGGTCTTACACTAGCACTCATCTCATGC
Found at i:95213695 original size:93 final size:92
Alignment explanation
Indices: 95213498--95213715 Score: 210
Period size: 93 Copynumber: 2.3 Consensus size: 92
95213488 GGTAAGGTGT
* * * *
95213498 CGATGCCATGTCCCAGACACGGTCTTACACTGGCTCATATCTTAAGTCGAAGCCATGTCCCAGAC
1 CGATG-CATGTCCCAGACA-TGTCTTACACTGGCTCACATCTGAAGCCGAAGCCATGTCCCAGAC
*
95213563 ATGGTCTTACACTGACTATCATCTCGTAGC
64 ATGGTCTTACACTGAC-ATCATCTCATAGC
* * * * *
95213593 CGACGCATGTCCCAGACATGTTTTACACTGGCTTACATCTCGAGGCCGATG-CATGTCCCAGACA
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTCACATCT-GAAGCCGAAGCCATGTCCCAGACA
*
95213657 T-GTCTTACACT-AGCACTCGTCTCA-ATGC
65 TGGTCTTACACTGA-CA-TCATCTCATA-GC
* *
95213685 CGATGTCATGTCCTAGATATGGTCTTACACT
1 CGATG-CATGTCCCAGACAT-GTCTTACACT
95213716 AACTCACACA
Statistics
Matches: 102, Mismatches: 15, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
91 3 0.03
92 23 0.23
93 44 0.43
94 28 0.27
95 4 0.04
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (92 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCTCACATCTGAAGCCGAAGCCATGTCCCAGACAT
GGTCTTACACTGACATCATCTCATAGC
Found at i:95217437 original size:29 final size:30
Alignment explanation
Indices: 95217394--95217452 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
95217384 GAATTGGATC
* *
95217394 AAATCAAAATTTCATGTATAAAATTGCACA
1 AAATCAAAAGTTCATGTATAAAATTACACA
*
95217424 AAATC-AAAGTTCATGTATACAATTACACA
1 AAATCAAAAGTTCATGTATAAAATTACACA
95217453 TTAAACCATA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 21 0.81
30 5 0.19
ACGTcount: A:0.49, C:0.15, G:0.07, T:0.29
Consensus pattern (30 bp):
AAATCAAAAGTTCATGTATAAAATTACACA
Found at i:95218675 original size:59 final size:59
Alignment explanation
Indices: 95218583--95218721 Score: 215
Period size: 59 Copynumber: 2.4 Consensus size: 59
95218573 TGTTGTTGTT
* *
95218583 TACAAATTACTTAACACTTGGTATACATAGCTGCTGGTTAGAAAAGATAACAATTGATA
1 TACAAATTACTTAACAGTTGGTATACATAGCTGCTAGTTAGAAAAGATAACAATTGATA
* * * *
95218642 TACAAATTTCTTAACAGTTGGTATACATGGCTGCTAGTTAGAAAAGATAACAGTTGGTA
1 TACAAATTACTTAACAGTTGGTATACATAGCTGCTAGTTAGAAAAGATAACAATTGATA
*
95218701 TACAAATTGCTTAACAGTTGG
1 TACAAATTACTTAACAGTTGG
95218722 ATAACAAATA
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
59 73 1.00
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.32
Consensus pattern (59 bp):
TACAAATTACTTAACAGTTGGTATACATAGCTGCTAGTTAGAAAAGATAACAATTGATA
Found at i:95219183 original size:21 final size:21
Alignment explanation
Indices: 95219150--95219198 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
95219140 GTTGGGGCAC
* *
95219150 CTTGTTGAGTTGGGGTACCCT
1 CTTGCTGACTTGGGGTACCCT
*
95219171 CTTGCTGACTTGGGGTAGCCT
1 CTTGCTGACTTGGGGTACCCT
*
95219192 GTTGCTG
1 CTTGCTG
95219199 GGTTCTAACA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.08, C:0.20, G:0.35, T:0.37
Consensus pattern (21 bp):
CTTGCTGACTTGGGGTACCCT
Found at i:95219955 original size:43 final size:43
Alignment explanation
Indices: 95219862--95220082 Score: 308
Period size: 43 Copynumber: 5.2 Consensus size: 43
95219852 TAAAAAAAAC
* * *
95219862 TCATTGCATGCATACTAAAAAATAAG-CAACA-C--ACTAACAA
1 TCATTGCATGCATATTAAAAAAT-AGTCAACAGCTTTCCAACAA
*
95219902 TCATTGCATGCATATTAAAAAATAGTCTACAGCTTTCCAACAA
1 TCATTGCATGCATATTAAAAAATAGTCAACAGCTTTCCAACAA
95219945 TCATTGCATGCATATTAAAAAATAGTCAACAGCTTTCCAACAA
1 TCATTGCATGCATATTAAAAAATAGTCAACAGCTTTCCAACAA
*
95219988 TCATTGCATGCATATTAAAAAATAGTCAACAACTTTCCAACAA
1 TCATTGCATGCATATTAAAAAATAGTCAACAGCTTTCCAACAA
* * * *
95220031 TCATTGCATACGTATTAAAAAA-AGTCAATAGCTTTCCAAAAA
1 TCATTGCATGCATATTAAAAAATAGTCAACAGCTTTCCAACAA
*
95220073 TCAGTGCATG
1 TCATTGCATG
95220083 TGATCAGCAA
Statistics
Matches: 164, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
39 2 0.01
40 26 0.16
41 1 0.01
42 25 0.15
43 110 0.67
ACGTcount: A:0.43, C:0.20, G:0.10, T:0.27
Consensus pattern (43 bp):
TCATTGCATGCATATTAAAAAATAGTCAACAGCTTTCCAACAA
Found at i:95221744 original size:15 final size:15
Alignment explanation
Indices: 95221724--95221752 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
95221714 ATGCATCACT
95221724 ATCACTACCAGACAC
1 ATCACTACCAGACAC
95221739 ATCACTACCAGACA
1 ATCACTACCAGACA
95221753 TGTTTTCTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.38, G:0.07, T:0.14
Consensus pattern (15 bp):
ATCACTACCAGACAC
Found at i:95222162 original size:48 final size:48
Alignment explanation
Indices: 95222057--95222225 Score: 250
Period size: 48 Copynumber: 3.5 Consensus size: 48
95222047 AATAAACATC
*
95222057 ATGGCAGATATACACAATAAACATCAGTTTGATAA-GGCATTCATACA
1 ATGGCAGATATACACAATAAACATCAATTTGATAATGGCATTCATACA
* ** * *
95222104 ATAGCAGATATATGCAATACACATCAATTTGATAATGACATTCATACA
1 ATGGCAGATATACACAATAAACATCAATTTGATAATGGCATTCATACA
95222152 ATGGCAGATATACACAATAAACATCAATTTGATAATGGCATTCATACA
1 ATGGCAGATATACACAATAAACATCAATTTGATAATGGCATTCATACA
* * *
95222200 ATGGCAGAAACAAACAATAAACATCA
1 ATGGCAGATATACACAATAAACATCA
95222226 TGCACATGAC
Statistics
Matches: 107, Mismatches: 14, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
47 30 0.28
48 77 0.72
ACGTcount: A:0.46, C:0.17, G:0.12, T:0.25
Consensus pattern (48 bp):
ATGGCAGATATACACAATAAACATCAATTTGATAATGGCATTCATACA
Found at i:95222273 original size:6 final size:6
Alignment explanation
Indices: 95222244--95222329 Score: 73
Period size: 6 Copynumber: 14.3 Consensus size: 6
95222234 ACATACAATA
* * * * * * *
95222244 CAAAAT CGAAAT CCAGAT CGAAAT CAAAAT CAAATT CTAAAT CTAAAT
1 CAAAAT CAAAAT CAAAAT CAAAAT CAAAAT CAAAAT CAAAAT CAAAAT
* * * *
95222292 CGAGAT CAAAAT TAGAAT CAAAAT CAAAAT CAAAAT CA
1 CAAAAT CAAAAT CAAAAT CAAAAT CAAAAT CAAAAT CA
95222330 GTGAGTATTT
Statistics
Matches: 63, Mismatches: 17, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
6 63 1.00
ACGTcount: A:0.55, C:0.17, G:0.07, T:0.21
Consensus pattern (6 bp):
CAAAAT
Found at i:95222362 original size:12 final size:12
Alignment explanation
Indices: 95222341--95222387 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
95222331 TGAGTATTTT
*
95222341 AAAATTGAAATC
1 AAAATCGAAATC
95222353 AAAATCGAAATC
1 AAAATCGAAATC
*
95222365 AGAATCGAAA-C
1 AAAATCGAAATC
*
95222376 TAAAATTGAAAT
1 -AAAATCGAAAT
95222388 AGAAATAACC
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
11 1 0.03
12 28 0.97
ACGTcount: A:0.57, C:0.11, G:0.11, T:0.21
Consensus pattern (12 bp):
AAAATCGAAATC
Found at i:95234044 original size:20 final size:20
Alignment explanation
Indices: 95234019--95234062 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
95234009 GAGAAATGGA
*
95234019 AAATGGGAAAATGAGAT-GTG
1 AAAT-GGAAAATGAAATGGTG
*
95234039 AAATGGAATATGAAATGGTG
1 AAATGGAAAATGAAATGGTG
95234059 AAAT
1 AAAT
95234063 CTATTGTGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 10 0.48
20 11 0.52
ACGTcount: A:0.48, C:0.00, G:0.30, T:0.23
Consensus pattern (20 bp):
AAATGGAAAATGAAATGGTG
Found at i:95239213 original size:40 final size:41
Alignment explanation
Indices: 95239158--95239252 Score: 122
Period size: 40 Copynumber: 2.4 Consensus size: 41
95239148 TGACTATGAC
** * *
95239158 TGGCACTAAGTGTGCGGTTTAATATAGCTTCGGCTATA-AA
1 TGGCACTAAGTGTGCGAATTAACATAGCTTCAGCTATAGAA
**
95239198 TGGCACTAAGTGTGCGAATTGGCATAGCTTCAGCTATAGAA
1 TGGCACTAAGTGTGCGAATTAACATAGCTTCAGCTATAGAA
95239239 -GGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
95239253 AATACCAATT
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
40 46 0.96
41 2 0.04
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.28
Consensus pattern (41 bp):
TGGCACTAAGTGTGCGAATTAACATAGCTTCAGCTATAGAA
Found at i:95241145 original size:21 final size:21
Alignment explanation
Indices: 95241121--95241163 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
95241111 GTAGTAGTTG
*
95241121 TGTTTGGTAAAAGGATTAGAC
1 TGTTTGGTAAAAAGATTAGAC
95241142 TGTTTGGTAAAAAGATTAGAC
1 TGTTTGGTAAAAAGATTAGAC
95241163 T
1 T
95241164 TCAAATCTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.35, C:0.05, G:0.26, T:0.35
Consensus pattern (21 bp):
TGTTTGGTAAAAAGATTAGAC
Found at i:95243474 original size:13 final size:13
Alignment explanation
Indices: 95243458--95243482 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
95243448 TTAAATCAGT
95243458 TAATTAGTTTAAA
1 TAATTAGTTTAAA
95243471 TAATTAGTTTAA
1 TAATTAGTTTAA
95243483 TAAACAAACC
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TAATTAGTTTAAA
Found at i:95247359 original size:22 final size:22
Alignment explanation
Indices: 95247308--95247349 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 22
95247298 CCTCTCCGCG
95247308 TCACACGCCC--GTGCTCGCCA
1 TCACACGCCCGTGTGCTCGCCA
95247328 TCACACGCCCGTGTGC-CGCCA
1 TCACACGCCCGTGTGCTCGCCA
95247349 T
1 T
95247350 ACAACAGCCC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 10 0.50
21 6 0.30
22 4 0.20
ACGTcount: A:0.14, C:0.48, G:0.21, T:0.17
Consensus pattern (22 bp):
TCACACGCCCGTGTGCTCGCCA
Found at i:95249301 original size:40 final size:40
Alignment explanation
Indices: 95249139--95249340 Score: 148
Period size: 40 Copynumber: 5.1 Consensus size: 40
95249129 CGAATGATGT
*
95249139 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-AAGTCG-CTATAA
* * * * ***
95249179 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATA-AA
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCAAGTCGCTATAA
**
95249218 TCCGGGCTAA-TCCCGAAGGC-TTTGTGCAAGTTACTA-AA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
* *
95249256 CCCGGGTTAAGTCCCGAAGGCATTCGTGCAAGTCGCTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
** * * * *
95249297 CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCGTTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
95249337 CCGG
1 CCGG
95249341 TTAAATTCCG
Statistics
Matches: 129, Mismatches: 25, Indels: 16
0.76 0.15 0.09
Matches are distributed among these distances:
38 24 0.19
39 19 0.15
40 77 0.60
41 9 0.07
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
Found at i:95249303 original size:78 final size:79
Alignment explanation
Indices: 95249138--95249289 Score: 200
Period size: 78 Copynumber: 1.9 Consensus size: 79
95249128 TCGAATGATG
* * *
95249138 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTC
1 TCCGGGCTAA-TCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
* *
95249203 GTGCGAGTTAATAAA
65 GTGCAAGTCAATAAA
* **
95249218 TCCGGGCTAATCCCGAAGGCTTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCATTC
1 TCCGGGCTAATCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCATTC
95249281 GTGCAAGTC
65 GTGCAAGTC
95249290 GCTATAACCG
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
77 1 0.02
78 35 0.56
79 17 0.27
80 10 0.16
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (79 bp):
TCCGGGCTAATCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTCG
TGCAAGTCAATAAA
Found at i:95257330 original size:40 final size:40
Alignment explanation
Indices: 95257168--95257369 Score: 148
Period size: 40 Copynumber: 5.1 Consensus size: 40
95257158 CGAATGATGT
*
95257168 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-AAGTCG-CTATAA
* * * * ***
95257208 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATA-AA
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCAAGTCGCTATAA
**
95257247 TCCGGGCTAA-TCCCGAAGGC-TTTGTGCAAGTTACTA-AA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
* *
95257285 CCCGGGTTAAGTCCCGAAGGCATTCGTGCAAGTCGCTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
** * * * *
95257326 CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCGTTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
95257366 CCGG
1 CCGG
95257370 TTAAATTCCG
Statistics
Matches: 129, Mismatches: 25, Indels: 16
0.76 0.15 0.09
Matches are distributed among these distances:
38 24 0.19
39 19 0.15
40 77 0.60
41 9 0.07
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
Found at i:95257332 original size:78 final size:79
Alignment explanation
Indices: 95257167--95257318 Score: 200
Period size: 78 Copynumber: 1.9 Consensus size: 79
95257157 TCGAATGATG
* * *
95257167 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTC
1 TCCGGGCTAA-TCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
* *
95257232 GTGCGAGTTAATAAA
65 GTGCAAGTCAATAAA
* **
95257247 TCCGGGCTAATCCCGAAGGCTTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCATTC
1 TCCGGGCTAATCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCATTC
95257310 GTGCAAGTC
65 GTGCAAGTC
95257319 GCTATAACCG
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
77 1 0.02
78 35 0.56
79 17 0.27
80 10 0.16
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (79 bp):
TCCGGGCTAATCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTCG
TGCAAGTCAATAAA
Found at i:95266227 original size:26 final size:26
Alignment explanation
Indices: 95266198--95266304 Score: 187
Period size: 26 Copynumber: 4.1 Consensus size: 26
95266188 TGGTACAAAT
95266198 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
95266224 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
95266250 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
95266276 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
95266302 TGA
1 TGA
95266305 GAATTTCATG
Statistics
Matches: 76, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:95269631 original size:27 final size:27
Alignment explanation
Indices: 95269601--95270134 Score: 159
Period size: 27 Copynumber: 19.8 Consensus size: 27
95269591 TCCCTTCATA
*
95269601 ATTTACCATAAAGTCTTTTCTTCCATG
1 ATTTACCACAAAGTCTTTTCTTCCATG
* *
95269628 ATTTGCCACAAAGTCTTTTCTTTCATG
1 ATTTACCACAAAGTCTTTTCTTCCATG
**
95269655 ATTCGCCACAAAGGT-TTTTCTTTCACAT-
1 ATTTACCACAAA-GTCTTTTC-TTC-CATG
* * * *
95269683 -TTTGCCACAAAGACTTTTGTTTCAT-
1 ATTTACCACAAAGTCTTTTCTTCCATG
* *
95269708 ATTTTGCCACAAAAGT-TTTTCTTTCATG
1 A-TTTACCAC-AAAGTCTTTTCTTCCATG
* ** *
95269736 ATTCACCACAAAGGT-TTTT-TT-TTTT
1 ATTTACCACAAA-GTCTTTTCTTCCATG
* * * *
95269761 TTTTCGCCACAAAGGT-TTTCCTT--TTG
1 ATTT-ACCACAAA-GTCTTTTCTTCCATG
* * *
95269787 TATTTTGCCACAAAGGT-TTTCCTT--TTG
1 -A-TTTACCACAAA-GTCTTTTCTTCCATG
* * *
95269814 CATTTCACCACAAAGGCTTTTTTTTCATG
1 -ATTT-ACCACAAAGTCTTTTCTTCCATG
* *
95269843 ATTCACCACAAAGTCTTTTTCTTTCATG
1 ATTTACCACAAAGTC-TTTTCTTCCATG
* *
95269871 ATTTGCCACAAAGTCTTTTCTTTCATG
1 ATTTACCACAAAGTCTTTTCTTCCATG
*** *
95269898 ATTCGTCACAAAGGT-TTTTCTTTCAT-
1 ATTTACCACAAA-GTCTTTTCTTCCATG
* * *
95269924 ATTTTGCCACAAAAGT-TTTTCTTTCATA
1 A-TTTACCAC-AAAGTCTTTTCTTCCATG
* * **
95269952 ATTCACCACAAAG-GTTTTCTT-TTTG
1 ATTTACCACAAAGTCTTTTCTTCCATG
* * *
95269977 TATTTTGCCACAAAGGT-TTTCCTT--TTG
1 -A-TTTACCACAAA-GTCTTTTCTTCCATG
* *
95270004 TATTTCGCCACAAAGGT-TTTCCGTT---TG
1 -ATTT-ACCACAAA-GTCTTTTC-TTCCATG
* * *
95270031 TATTTTGCCACAAAGGCTTTTCTTTCATG
1 -A-TTTACCACAAAGTCTTTTCTTCCATG
* * *
95270060 ATTCACCACAAAGGCTTTTCTTTCATG
1 ATTTACCACAAAGTCTTTTCTTCCATG
* *
95270087 ATTCACCACAAAGGCTTTTCTTCCATG
1 ATTTACCACAAAGTCTTTTCTTCCATG
*
95270114 ATTTACCATAAAG-CTTTTCTT
1 ATTTACCACAAAGTCTTTTCTT
95270135 TCTTGATGTG
Statistics
Matches: 421, Mismatches: 52, Indels: 69
0.78 0.10 0.13
Matches are distributed among these distances:
25 7 0.02
26 54 0.13
27 295 0.70
28 58 0.14
29 7 0.02
ACGTcount: A:0.23, C:0.22, G:0.11, T:0.44
Consensus pattern (27 bp):
ATTTACCACAAAGTCTTTTCTTCCATG
Found at i:95269687 original size:54 final size:54
Alignment explanation
Indices: 95269633--95270141 Score: 335
Period size: 54 Copynumber: 9.4 Consensus size: 54
95269623 CCATGATTTG
* * **
95269633 CCACAAAGTCTTTTCTTTCATGA-TTCGCCACAAAGGTTTTTCTTTCACATTTTG
1 CCACAAAGTCTTTTCTTTCATGATTTTGCCACAAAGGTTTTTCTTTCAGA-TTCA
* * *
95269687 CCACAAAGACTTTTGTTTCAT-ATTTTGCCACAAAAGTTTTTCTTTCATGATTCA
1 CCACAAAGTCTTTTCTTTCATGATTTTGCCACAAAGGTTTTTCTTTCA-GATTCA
** * * **
95269741 CCACAAAGGT-TTTT-TTT--TTTTTTTCGCCACAAAGGTTTTCCTTT-TGTATTTTG
1 CCACAAA-GTCTTTTCTTTCATGATTTT-GCCACAAAGGTTTTTCTTTCAG-A-TTCA
* **
95269794 CCACAAAGGT-TTTCCTTT--TGCATTTCACCACAAAGGCTTTTT-TTTCATGATTCA
1 CCACAAA-GTCTTTTCTTTCATG-ATTTTGCCACAAAGG-TTTTTCTTTCA-GATTCA
*
95269848 CCACAAAGTCTTTTTCTTTCATGA-TTTGCCACAAA-GTCTTTTCTTTCATGATTCG
1 CCACAAAGTC-TTTTCTTTCATGATTTTGCCACAAAGGT-TTTTCTTTCA-GATTCA
* * *
95269903 TCACAAAGGT-TTTTCTTTCAT-ATTTTGCCACAAAAGTTTTTCTTTCATAATTCA
1 CCACAAA-GTCTTTTCTTTCATGATTTTGCCACAAAGGTTTTTCTTTCA-GATTCA
* * * * *
95269957 CCACAAAG-GTTTTCTTT-TTGTATTTTGCCACAAAGGTTTTCCTTT-TGTATTTCG
1 CCACAAAGTCTTTTCTTTCATG-ATTTTGCCACAAAGGTTTTTCTTTCAG-A-TTCA
* * *
95270011 CCACAAAGGT-TTTCCGTT--TGTATTTTGCCACAAAGGCTTTTCTTTCATGATTCA
1 CCACAAA-GTCTTTTCTTTCATG-ATTTTGCCACAAAGGTTTTTCTTTCA-GATTCA
* ** * * *
95270065 CCACAAAGGCTTTTCTTTCATGA-TTCACCACAAAGGCTTTTCTTCCATGATTTA
1 CCACAAAGTCTTTTCTTTCATGATTTTGCCACAAAGGTTTTTCTTTCA-GATTCA
* *
95270119 CCATAAAG-CTTTTCTTTCTTGAT
1 CCACAAAGTCTTTTCTTTCATGAT
95270142 GTGTTTACGA
Statistics
Matches: 369, Mismatches: 52, Indels: 68
0.75 0.11 0.14
Matches are distributed among these distances:
51 2 0.01
52 6 0.02
53 64 0.17
54 234 0.63
55 54 0.15
56 7 0.02
57 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.11, T:0.44
Consensus pattern (54 bp):
CCACAAAGTCTTTTCTTTCATGATTTTGCCACAAAGGTTTTTCTTTCAGATTCA
Found at i:95269750 original size:81 final size:79
Alignment explanation
Indices: 95269595--95270141 Score: 425
Period size: 81 Copynumber: 6.8 Consensus size: 79
95269585 ATGCTATCCC
* * * *
95269595 TTCATAATTTACCATAAAGTCTTTTCTTCCATGA-TTTGCCACAAAGTCTTTTCTTTCATGATTC
1 TTCATATTTTGCCACAAAG-CTTTTCTTTCAT-ATTTTGCCACAAAGT-TTTTCTTTCATGATTC
*
95269659 GCCACAAAGGTTTTTCT
63 ACCACAAAGGTTTTTCT
* *
95269676 TTCACATTTTGCCACAAAGACTTTTGTTTCATATTTTGCCACAAAAGTTTTTCTTTCATGATTCA
1 TTCATATTTTGCCACAAAG-CTTTTCTTTCATATTTTGCCAC-AAAGTTTTTCTTTCATGATTCA
95269741 CCACAAAGGTTTTT-T
64 CCACAAAGGTTTTTCT
* * * ** *
95269756 TT-TTTTTTTCGCCACAAAGGTTTTCCTTTTGTATTTTGCCACAAAGGTTTTCCTTT--TGCATT
1 TTCATATTTT-GCCACAAAGCTTTT-CTTTCATATTTTGCCACAAA-GTTTTTCTTTCATG-A-T
95269818 TCACCACAAAGGCTTTTT-T
61 TCACCACAAAGG-TTTTTCT
**
95269837 TTCATGA-TTCACCACAAAGTCTTTTTCTTTCATGA-TTTGCCACAAAGTCTTTTCTTTCATGAT
1 TTCAT-ATTTTGCCACAAAG-C-TTTTCTTTCAT-ATTTTGCCACAAAGT-TTTTCTTTCATGAT
**
95269900 TCGTCACAAAGGTTTTTCT
61 TCACCACAAAGGTTTTTCT
* * ** * * *
95269919 TTCATATTTTGCCACAAAAGTTTTTCTTTCATAATTCACCACAAAGGTTTTCTTT-TTGTATTTT
1 TTCATATTTTGCCAC-AAAGCTTTTCTTTCATATTTTGCCACAAAGTTTTTCTTTCATG-A-TTC
* *
95269983 GCCACAAAGGTTTTCCT
63 ACCACAAAGGTTTTTCT
** * * * *
95270000 TTTGTATTTCGCCACAAAGGTTTTCCGTTT-GTATTTTGCCACAAAGGCTTTTCTTTCATGATTC
1 TTCATATTTTGCCACAAAGCTTTT-C-TTTCATATTTTGCCACAAA-GTTTTTCTTTCATGATTC
*
95270064 ACCACAAAGGCTTTTCT
63 ACCACAAAGGTTTTTCT
** * * * * *
95270081 TTCATGA-TTCACCACAAAGGCTTTTCTTCCATGA-TTTACCATAAAGCTTTTCTTTCTTGAT
1 TTCAT-ATTTTGCCACAAA-GCTTTTCTTTCAT-ATTTTGCCACAAAGTTTTTCTTTCATGAT
95270142 GTGTTTACGA
Statistics
Matches: 377, Mismatches: 59, Indels: 61
0.76 0.12 0.12
Matches are distributed among these distances:
78 2 0.01
79 14 0.04
80 84 0.22
81 189 0.50
82 74 0.20
83 12 0.03
84 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.11, T:0.44
Consensus pattern (79 bp):
TTCATATTTTGCCACAAAGCTTTTCTTTCATATTTTGCCACAAAGTTTTTCTTTCATGATTCACC
ACAAAGGTTTTTCT
Found at i:95271728 original size:37 final size:36
Alignment explanation
Indices: 95271678--95271761 Score: 89
Period size: 37 Copynumber: 2.3 Consensus size: 36
95271668 TTGAAAAGCC
**
95271678 TTTGTGGTGAATTCTCT-AAAAAGCCTTCGTGGAAGAT
1 TTTGTGGAAAATTCTCTGAAAAA-CCTTCGTGGAA-AT
* *
95271715 TTTGTGGAAAATTCTCTGGAAAACCTTTGTGGAAAT
1 TTTGTGGAAAATTCTCTGAAAAACCTTCGTGGAAAT
*
95271751 TTCTCTGGAAA
1 TT-TGTGGAAA
95271762 GCCTTTATGG
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
36 4 0.10
37 32 0.80
38 4 0.10
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.36
Consensus pattern (36 bp):
TTTGTGGAAAATTCTCTGAAAAACCTTCGTGGAAAT
Found at i:95271744 original size:25 final size:25
Alignment explanation
Indices: 95271715--95271812 Score: 106
Period size: 25 Copynumber: 3.9 Consensus size: 25
95271705 CGTGGAAGAT
95271715 TTTGTGGAAAATTCTCTGGAAAACC
1 TTTGTGGAAAATTCTCTGGAAAACC
* *
95271740 TTTGTGGAAATTTCTCTGGAAAGCC
1 TTTGTGGAAAATTCTCTGGAAAACC
* ** * *
95271765 TTTATGGTGAATTCTCGGGAAAGCC
1 TTTGTGGAAAATTCTCTGGAAAACC
** *
95271790 TTTGTGGCTAATTCTTTGGAAAA
1 TTTGTGGAAAATTCTCTGGAAAA
95271813 TTCATATAGT
Statistics
Matches: 60, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 60 1.00
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.36
Consensus pattern (25 bp):
TTTGTGGAAAATTCTCTGGAAAACC
Found at i:95272676 original size:159 final size:159
Alignment explanation
Indices: 95272387--95272704 Score: 591
Period size: 159 Copynumber: 2.0 Consensus size: 159
95272377 TTCTATTTAA
*
95272387 GAACACCATCACTGATTTGTTTTGGAGTTGATTAGAGATCTTTATTTTTTAGCTAAAACTAAGGA
1 GAACACCATCACTGATTTGTTTTGGAATTGATTAGAGATCTTTATTTTTTAGCTAAAACTAAGGA
* *
95272452 TCAGAGTTCATGCAGAAGGTTGTTTCATACTCTAGGTAAGTATTATGGACTTGCATATGAAAATA
66 TCAGAATTCATGCAGAAGGTTGTTTCATAATCTAGGTAAGTATTATGGACTTGCATATGAAAATA
95272517 GAAGCCTTTGTGGCAACATATGAGAATAG
131 GAAGCCTTTGTGGCAACATATGAGAATAG
*
95272546 GAACACCATCGCTGATTTGTTTTGGAATTGATTAGAGATCTTTATTTTTTAGCTAAAACTAAGGA
1 GAACACCATCACTGATTTGTTTTGGAATTGATTAGAGATCTTTATTTTTTAGCTAAAACTAAGGA
*
95272611 TCAGAATTCATGCAGAAGGTTGTTTCATAATCTAGGTAAGTATTATGGACTTGTATATGAAAATA
66 TCAGAATTCATGCAGAAGGTTGTTTCATAATCTAGGTAAGTATTATGGACTTGCATATGAAAATA
95272676 GAAGCCTTTGTGGCAACATATGAGAATAG
131 GAAGCCTTTGTGGCAACATATGAGAATAG
95272705 AAGCCTTGTG
Statistics
Matches: 154, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
159 154 1.00
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.34
Consensus pattern (159 bp):
GAACACCATCACTGATTTGTTTTGGAATTGATTAGAGATCTTTATTTTTTAGCTAAAACTAAGGA
TCAGAATTCATGCAGAAGGTTGTTTCATAATCTAGGTAAGTATTATGGACTTGCATATGAAAATA
GAAGCCTTTGTGGCAACATATGAGAATAG
Found at i:95272726 original size:28 final size:28
Alignment explanation
Indices: 95272667--95272727 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
95272657 GGACTTGTAT
*
95272667 ATGAAAATAGAAGCCTTTGTGGCAACAT
1 ATGAAAATAGAAGCCTTTGTGGCAACAC
* *
95272695 ATGAGAATAGAAGCC-TTGTGGCGACCAC
1 ATGAAAATAGAAGCCTTTGTGGC-AACAC
95272723 ATGAA
1 ATGAA
95272728 GAAAGGGCCT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 7 0.25
28 21 0.75
ACGTcount: A:0.38, C:0.16, G:0.25, T:0.21
Consensus pattern (28 bp):
ATGAAAATAGAAGCCTTTGTGGCAACAC
Found at i:95275028 original size:10 final size:9
Alignment explanation
Indices: 95275002--95275031 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
95274992 TAATTAACTT
95275002 TTTAAAAAA
1 TTTAAAAAA
95275011 TTTAAAAAA
1 TTTAAAAAA
95275020 TTTAGAAAAA
1 TTTA-AAAAA
95275030 TT
1 TT
95275032 AAATATTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 13 0.65
10 7 0.35
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (9 bp):
TTTAAAAAA
Found at i:95275254 original size:34 final size:35
Alignment explanation
Indices: 95275189--95275256 Score: 127
Period size: 35 Copynumber: 1.9 Consensus size: 35
95275179 AAAAGAGACG
95275189 AAAAATTAAATGAATAGCTAAAATAATTTTTTTAA
1 AAAAATTAAATGAATAGCTAAAATAATTTTTTTAA
*
95275224 AAAAATTAAATGAATGGCTAAAATAATTTTTTT
1 AAAAATTAAATGAATAGCTAAAATAATTTTTTT
95275257 TTTACTTGGA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.51, C:0.03, G:0.07, T:0.38
Consensus pattern (35 bp):
AAAAATTAAATGAATAGCTAAAATAATTTTTTTAA
Found at i:95297746 original size:29 final size:29
Alignment explanation
Indices: 95297712--95297770 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
95297702 GAAGACTTCT
95297712 AGCCTTCGACTTGTACACTATCAAATCAA
1 AGCCTTCGACTTGTACACTATCAAATCAA
95297741 AGCCTTCGACTTGTACACTATCAAATCAA
1 AGCCTTCGACTTGTACACTATCAAATCAA
95297770 A
1 A
95297771 ACTAACCCGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.36, C:0.27, G:0.10, T:0.27
Consensus pattern (29 bp):
AGCCTTCGACTTGTACACTATCAAATCAA
Found at i:95308199 original size:75 final size:76
Alignment explanation
Indices: 95308073--95308223 Score: 259
Period size: 75 Copynumber: 2.0 Consensus size: 76
95308063 CCTAAAATAC
* * *
95308073 GGGTGTGTGTCTTGGCCGTGTGAACCCTACACCTCATTTTTGAAATTTAAATTGATCACACGGCC
1 GGGTATGTGTCTTGGCCGTGTGAACCCTACACCTAATTTTTGAAAATTAAATTGATCACACGGCC
95308138 TACTCACAAGG
66 TACTCACAAGG
*
95308149 GGGTATGTGTCTTGGCCGTTTGAA-CCTACACCTAATTTTTGAAAATTAAATTGATCACACGGCC
1 GGGTATGTGTCTTGGCCGTGTGAACCCTACACCTAATTTTTGAAAATTAAATTGATCACACGGCC
95308213 TACTCACAAGG
66 TACTCACAAGG
95308224 ACGTGTGGCT
Statistics
Matches: 71, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
75 49 0.69
76 22 0.31
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (76 bp):
GGGTATGTGTCTTGGCCGTGTGAACCCTACACCTAATTTTTGAAAATTAAATTGATCACACGGCC
TACTCACAAGG
Found at i:95318134 original size:31 final size:29
Alignment explanation
Indices: 95318053--95318136 Score: 78
Period size: 31 Copynumber: 2.8 Consensus size: 29
95318043 AACTCTACAG
*
95318053 ATTAAACCAAAAATTTGTGTATAAAATTGC
1 ATTAAACC-AAAGTTTGTGTATAAAATTGC
* * ** **
95318083 ATAAAATCAAAGTTCATGTATACGATTGCAC
1 ATTAAACCAAAGTTTGTGTATAAAATTG--C
95318114 ATTAAACCAAAGTTTGTGTATAA
1 ATTAAACCAAAGTTTGTGTATAA
95318137 TTTTGACATT
Statistics
Matches: 40, Mismatches: 12, Indels: 3
0.73 0.22 0.05
Matches are distributed among these distances:
29 15 0.38
30 6 0.15
31 19 0.47
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.32
Consensus pattern (29 bp):
ATTAAACCAAAGTTTGTGTATAAAATTGC
Found at i:95322531 original size:47 final size:47
Alignment explanation
Indices: 95322459--95322552 Score: 170
Period size: 47 Copynumber: 2.0 Consensus size: 47
95322449 AATTATAGAG
95322459 ACAGATTTCCAGTCTCCTAGCTTGTTGAGAAACAAACTTACAATACT
1 ACAGATTTCCAGTCTCCTAGCTTGTTGAGAAACAAACTTACAATACT
* *
95322506 ACAGATTTCCAGTCTCCTAGTTTGTTGAGAAACAAATTTACAATACT
1 ACAGATTTCCAGTCTCCTAGCTTGTTGAGAAACAAACTTACAATACT
95322553 TGGTCCTTTA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.32
Consensus pattern (47 bp):
ACAGATTTCCAGTCTCCTAGCTTGTTGAGAAACAAACTTACAATACT
Found at i:95325360 original size:18 final size:18
Alignment explanation
Indices: 95325319--95325352 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
95325309 ATTGTTTCTC
*
95325319 AAAAA-TATTTTTAGGCT
1 AAAAAGTATTTTTAAGCT
95325336 AAAAAGTATTTTTAAGC
1 AAAAAGTATTTTTAAGC
95325353 AAAGAAGTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.44, C:0.06, G:0.12, T:0.38
Consensus pattern (18 bp):
AAAAAGTATTTTTAAGCT
Found at i:95325444 original size:42 final size:42
Alignment explanation
Indices: 95325398--95325485 Score: 140
Period size: 42 Copynumber: 2.1 Consensus size: 42
95325388 TTTTGTTCAA
*
95325398 AAAACACTTTTAAAATGTCCAAAAAGCATATTATTTAACAAT
1 AAAACACTTTTAAAATATCCAAAAAGCATATTATTTAACAAT
** *
95325440 AAAACACTTTTAAAATATTTAAAAAGTATATTATTTAACAAT
1 AAAACACTTTTAAAATATCCAAAAAGCATATTATTTAACAAT
95325482 AAAA
1 AAAA
95325486 ATAATTATTA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.53, C:0.10, G:0.03, T:0.33
Consensus pattern (42 bp):
AAAACACTTTTAAAATATCCAAAAAGCATATTATTTAACAAT
Found at i:95330111 original size:21 final size:23
Alignment explanation
Indices: 95330085--95330136 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
95330075 TTTCTCTCTC
*
95330085 TTAGGGTT-GAGTTTTTAAT-TT
1 TTAGGGTTAGAGTTTTAAATATT
*
95330106 TTAGGGTTAGGGTTTTAAATATT
1 TTAGGGTTAGAGTTTTAAATATT
95330129 TTAGGGTT
1 TTAGGGTT
95330137 TTAGGTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 8 0.30
22 9 0.33
23 10 0.37
ACGTcount: A:0.21, C:0.00, G:0.27, T:0.52
Consensus pattern (23 bp):
TTAGGGTTAGAGTTTTAAATATT
Found at i:95341447 original size:51 final size:51
Alignment explanation
Indices: 95341371--95341473 Score: 206
Period size: 51 Copynumber: 2.0 Consensus size: 51
95341361 TGGCTACATG
95341371 TGATCCCAACAGAACAACATCAAAGGTTCTTTTCATTGGTTATTTGCTAAC
1 TGATCCCAACAGAACAACATCAAAGGTTCTTTTCATTGGTTATTTGCTAAC
95341422 TGATCCCAACAGAACAACATCAAAGGTTCTTTTCATTGGTTATTTGCTAAC
1 TGATCCCAACAGAACAACATCAAAGGTTCTTTTCATTGGTTATTTGCTAAC
95341473 T
1 T
95341474 TTTGTGCCAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.31, C:0.21, G:0.14, T:0.34
Consensus pattern (51 bp):
TGATCCCAACAGAACAACATCAAAGGTTCTTTTCATTGGTTATTTGCTAAC
Found at i:95345894 original size:17 final size:18
Alignment explanation
Indices: 95345865--95345955 Score: 57
Period size: 17 Copynumber: 4.9 Consensus size: 18
95345855 ATTTATCTAA
*
95345865 AAGA-TAAACATTAAATT
1 AAGATTAAATATTAAATT
*
95345882 AA-ATTAAATATTAAGATA
1 AAGATTAAATATTAA-ATT
*
95345900 AATATTAAATTAAAGTTAATATT
1 AAGATTAAA-T--A-TTAA-ATT
95345923 AAGA-TAAATATTAAATT
1 AAGATTAAATATTAAATT
95345940 AA-AGTT-AATATTAAAT
1 AAGA-TTAAATATTAAAT
95345956 CTATTAAAAT
Statistics
Matches: 60, Mismatches: 5, Indels: 18
0.72 0.06 0.22
Matches are distributed among these distances:
16 2 0.03
17 26 0.43
18 9 0.15
19 7 0.12
20 1 0.02
21 1 0.02
22 5 0.08
23 9 0.15
ACGTcount: A:0.57, C:0.01, G:0.05, T:0.36
Consensus pattern (18 bp):
AAGATTAAATATTAAATT
Found at i:95345898 original size:29 final size:29
Alignment explanation
Indices: 95345865--95345953 Score: 153
Period size: 29 Copynumber: 3.1 Consensus size: 29
95345855 ATTTATCTAA
*
95345865 AAGATAAACATTAAATTAAA-TTAAATATT
1 AAGATAAATATTAAATTAAAGTT-AATATT
95345894 AAGATAAATATTAAATTAAAGTTAATATT
1 AAGATAAATATTAAATTAAAGTTAATATT
95345923 AAGATAAATATTAAATTAAAGTTAATATT
1 AAGATAAATATTAAATTAAAGTTAATATT
95345952 AA
1 AA
95345954 ATCTATTAAA
Statistics
Matches: 58, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
29 56 0.97
30 2 0.03
ACGTcount: A:0.57, C:0.01, G:0.06, T:0.36
Consensus pattern (29 bp):
AAGATAAATATTAAATTAAAGTTAATATT
Found at i:95345942 original size:12 final size:12
Alignment explanation
Indices: 95345879--95345913 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
95345869 TAAACATTAA
95345879 ATTAAATTAAAT
1 ATTAAATTAAAT
95345891 ATTAAGA-TAAAT
1 ATTAA-ATTAAAT
95345903 ATTAAATTAAA
1 ATTAAATTAAA
95345914 GTTAATATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
11 1 0.05
12 19 0.90
13 1 0.05
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (12 bp):
ATTAAATTAAAT
Found at i:95352168 original size:56 final size:57
Alignment explanation
Indices: 95352094--95352210 Score: 175
Period size: 56 Copynumber: 2.1 Consensus size: 57
95352084 AGAAGAAATT
* * *
95352094 TTAATTTCTTAAATCTAACTAGCAAAGTGAAATTAG-GTAGCTGCAAGAATAACACTG
1 TTAATTTCTTAAATCTAACTAGCAAAGTAAAATT-GTATAGCAGCAAGAATAACACTG
*
95352151 TTAA-TTCTTGAATCTAACTAGCAAAGTAAAATTGTATAGCAGCAAGAATAACACTG
1 TTAATTTCTTAAATCTAACTAGCAAAGTAAAATTGTATAGCAGCAAGAATAACACTG
95352207 TTAA
1 TTAA
95352211 GCTAAGTACT
Statistics
Matches: 55, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
55 1 0.02
56 50 0.91
57 4 0.07
ACGTcount: A:0.42, C:0.14, G:0.15, T:0.30
Consensus pattern (57 bp):
TTAATTTCTTAAATCTAACTAGCAAAGTAAAATTGTATAGCAGCAAGAATAACACTG
Found at i:95355202 original size:22 final size:22
Alignment explanation
Indices: 95355177--95355221 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
95355167 TTTAATAAAA
95355177 AAAATATCTACAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* *
95355199 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAAAATATTCCT
95355221 A
1 A
95355222 CACTCCCCCC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:95359796 original size:22 final size:22
Alignment explanation
Indices: 95359771--95359815 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
95359761 TTTAATAAAA
95359771 AAAATATCTACAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* *
95359793 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAAAATATTCCT
95359815 A
1 A
95359816 CAAGTTTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:95375251 original size:15 final size:15
Alignment explanation
Indices: 95375231--95375261 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
95375221 AGCATTGTAT
95375231 AGGTTTTTGTATTAG
1 AGGTTTTTGTATTAG
95375246 AGGTTTTTGTATTAG
1 AGGTTTTTGTATTAG
95375261 A
1 A
95375262 AGTCAGATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.23, C:0.00, G:0.26, T:0.52
Consensus pattern (15 bp):
AGGTTTTTGTATTAG
Found at i:95376601 original size:17 final size:17
Alignment explanation
Indices: 95376568--95376601 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
95376558 AGTTGATGAA
* *
95376568 TTTTAATTTTTATATTT
1 TTTTAATTTTAAAATTT
95376585 TTTTAATTTTAAAATTT
1 TTTTAATTTTAAAATTT
95376602 CAGTTCTGAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTAATTTTAAAATTT
Found at i:95381720 original size:40 final size:40
Alignment explanation
Indices: 95381672--95381837 Score: 264
Period size: 40 Copynumber: 4.2 Consensus size: 40
95381662 GGACTAAGAT
*
95381672 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTC
*
95381712 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTC
*
95381752 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTC
* *
95381792 CCGAAGGCATTTGTGCGAGTTG-TTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCGAG-TGACTATATCCGGGCTAAGTC
95381831 CCGAAGG
1 CCGAAGG
95381838 TACTTGGGTT
Statistics
Matches: 120, Mismatches: 5, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
39 15 0.12
40 104 0.87
41 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTC
Found at i:95388472 original size:13 final size:13
Alignment explanation
Indices: 95388433--95388485 Score: 72
Period size: 13 Copynumber: 4.1 Consensus size: 13
95388423 AGTTTGGCAA
95388433 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
95388446 TGC-TGTGAAAAAG
1 TGCTTTTG-AAAAG
*
95388459 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
95388472 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
95388485 T
1 T
95388486 TTAGTTTAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
12 3 0.09
13 28 0.82
14 3 0.09
ACGTcount: A:0.30, C:0.08, G:0.26, T:0.36
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:95390929 original size:27 final size:25
Alignment explanation
Indices: 95390898--95390953 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 25
95390888 TTTAAGTTAA
*
95390898 TAAAATTTTC-TTTGAGTTTTTCTCTT
1 TAAAAATTTCTTTTGAG-TTTTCT-TT
95390924 TAAAAATTTCTTTTGAGTTTTCTTT
1 TAAAAATTTCTTTTGAGTTTTCTTT
95390949 TAAAA
1 TAAAA
95390954 GAGTTTTAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
25 7 0.25
26 15 0.54
27 6 0.21
ACGTcount: A:0.27, C:0.09, G:0.07, T:0.57
Consensus pattern (25 bp):
TAAAAATTTCTTTTGAGTTTTCTTT
Found at i:95392929 original size:30 final size:30
Alignment explanation
Indices: 95392888--95392946 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
95392878 TCACACAGTC
95392888 GTGTGACTCACACGACCAAGAGACACGCCA
1 GTGTGACTCACACGACCAAGAGACACGCCA
* *
95392918 GTGTGATTCACATGACCAAGAGACACGCC
1 GTGTGACTCACACGACCAAGAGACACGCC
95392947 CATGTCTTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.32, C:0.31, G:0.24, T:0.14
Consensus pattern (30 bp):
GTGTGACTCACACGACCAAGAGACACGCCA
Found at i:95393194 original size:30 final size:30
Alignment explanation
Indices: 95393160--95393217 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
95393150 GGACACACGG
95393160 CCGTGTTACCTCGCCA-TGTGTCACACATGA
1 CCGTGTTACCT-GCCAGTGTGTCACACATGA
**
95393190 CCGTGTTACCTGGTAGTGTGTCACACAT
1 CCGTGTTACCTGCCAGTGTGTCACACAT
95393218 TGCTGAGACA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 2 0.08
30 23 0.92
ACGTcount: A:0.19, C:0.29, G:0.22, T:0.29
Consensus pattern (30 bp):
CCGTGTTACCTGCCAGTGTGTCACACATGA
Found at i:95395155 original size:46 final size:46
Alignment explanation
Indices: 95395070--95395195 Score: 135
Period size: 46 Copynumber: 2.7 Consensus size: 46
95395060 CACAATTAAT
* * ** * *
95395070 AAGTACCTATACCATGCCCCATAGCCAAATCAAGGTAACTTATCCCG
1 AAGTACCTATACCATGGCCC-GAGCCAAATCAAAATAACTCATCCCA
* *
95395117 AAGTACCTATACCATGGCCCGAGCCAAATCAAAATAACTCCTCTCA
1 AAGTACCTATACCATGGCCCGAGCCAAATCAAAATAACTCATCCCA
* * *
95395163 AAATACTTATATCATGGCCCGTAGCCAAATCAA
1 AAGTACCTATACCATGGCCCG-AGCCAAATCAA
95395196 GGTATTATTC
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
46 37 0.55
47 30 0.45
ACGTcount: A:0.37, C:0.30, G:0.12, T:0.21
Consensus pattern (46 bp):
AAGTACCTATACCATGGCCCGAGCCAAATCAAAATAACTCATCCCA
Found at i:95398301 original size:75 final size:75
Alignment explanation
Indices: 95398220--95398369 Score: 300
Period size: 75 Copynumber: 2.0 Consensus size: 75
95398210 CAAAACATGC
95398220 AAATTAACCATTTTTACATAGAATTGAGTTTAGCCAAATGTTCATGGTATCCAAAATAGTTGATT
1 AAATTAACCATTTTTACATAGAATTGAGTTTAGCCAAATGTTCATGGTATCCAAAATAGTTGATT
95398285 TTTGCAAAAA
66 TTTGCAAAAA
95398295 AAATTAACCATTTTTACATAGAATTGAGTTTAGCCAAATGTTCATGGTATCCAAAATAGTTGATT
1 AAATTAACCATTTTTACATAGAATTGAGTTTAGCCAAATGTTCATGGTATCCAAAATAGTTGATT
95398360 TTTGCAAAAA
66 TTTGCAAAAA
95398370 TTTTACATTG
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 75 1.00
ACGTcount: A:0.39, C:0.12, G:0.13, T:0.36
Consensus pattern (75 bp):
AAATTAACCATTTTTACATAGAATTGAGTTTAGCCAAATGTTCATGGTATCCAAAATAGTTGATT
TTTGCAAAAA
Found at i:95423689 original size:18 final size:17
Alignment explanation
Indices: 95423657--95423694 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
95423647 AATTTTTCAA
95423657 TAAATAAAAATATATAT
1 TAAATAAAAATATATAT
*
95423674 TAAATTAAAATA-ATA-
1 TAAATAAAAATATATAT
95423689 TAAATA
1 TAAATA
95423695 TATATTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
15 5 0.26
16 3 0.16
17 11 0.58
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
TAAATAAAAATATATAT
Found at i:95433647 original size:35 final size:35
Alignment explanation
Indices: 95433434--95433635 Score: 262
Period size: 35 Copynumber: 5.6 Consensus size: 35
95433424 TCCTCATTGA
** *
95433434 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* ***
95433469 AATGCCATACCTACATTTTTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
95433509 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
95433544 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
95433579 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
95433614 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
95433636 CTTTTCCATG
Statistics
Matches: 152, Mismatches: 10, Indels: 10
0.88 0.06 0.06
Matches are distributed among these distances:
35 123 0.81
39 3 0.02
40 26 0.17
ACGTcount: A:0.34, C:0.24, G:0.10, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:95435102 original size:20 final size:20
Alignment explanation
Indices: 95435073--95435140 Score: 62
Period size: 20 Copynumber: 3.8 Consensus size: 20
95435063 AGATAGGGGC
*
95435073 ACATGACCGTGTGGCTTGGG
1 ACATGGCCGTGTGGCTTGGG
95435093 ACATGGCCGTGTGGC-----
1 ACATGGCCGTGTGGCTTGGG
95435108 -CA--GCTCGTGTGGCTTGGG
1 ACATGGC-CGTGTGGCTTGGG
95435126 ACATGGCCGTGTGGC
1 ACATGGCCGTGTGGC
95435141 CAGTCCGTGG
Statistics
Matches: 38, Mismatches: 1, Indels: 18
0.67 0.02 0.32
Matches are distributed among these distances:
12 2 0.05
13 8 0.21
14 2 0.05
19 2 0.05
20 22 0.58
21 2 0.05
ACGTcount: A:0.12, C:0.24, G:0.41, T:0.24
Consensus pattern (20 bp):
ACATGGCCGTGTGGCTTGGG
Found at i:95435117 original size:33 final size:33
Alignment explanation
Indices: 95435080--95435143 Score: 128
Period size: 33 Copynumber: 1.9 Consensus size: 33
95435070 GGCACATGAC
95435080 CGTGTGGCTTGGGACATGGCCGTGTGGCCAGCT
1 CGTGTGGCTTGGGACATGGCCGTGTGGCCAGCT
95435113 CGTGTGGCTTGGGACATGGCCGTGTGGCCAG
1 CGTGTGGCTTGGGACATGGCCGTGTGGCCAG
95435144 TCCGTGGGGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.09, C:0.23, G:0.44, T:0.23
Consensus pattern (33 bp):
CGTGTGGCTTGGGACATGGCCGTGTGGCCAGCT
Found at i:95435452 original size:41 final size:42
Alignment explanation
Indices: 95435407--95435486 Score: 101
Period size: 41 Copynumber: 1.9 Consensus size: 42
95435397 ATGCAGGGGA
*
95435407 CACACGGCCT-ATCAACATACCCGTGTG-CAAGCCGTGTGTCT
1 CACACGGCCTGATC-ACACACCCGTGTGACAAGCCGTGTGTCT
* * *
95435448 CACACGGTCTGATCACACGCCCGTGTGACATGCCGTGTG
1 CACACGGCCTGATCACACACCCGTGTGACAAGCCGTGTG
95435487 GATTCAAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
41 20 0.61
42 13 0.39
ACGTcount: A:0.20, C:0.34, G:0.25, T:0.21
Consensus pattern (42 bp):
CACACGGCCTGATCACACACCCGTGTGACAAGCCGTGTGTCT
Found at i:95454684 original size:17 final size:18
Alignment explanation
Indices: 95454664--95454704 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
95454654 ATATAATTTT
*
95454664 AAAATATAT-AATACATC
1 AAAATATATAAAAACATC
95454681 AAAA-ATATCAAAAACATC
1 AAAATATAT-AAAAACATC
95454699 AAAATA
1 AAAATA
95454705 AATATTTCCC
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
16 4 0.20
17 4 0.20
18 11 0.55
19 1 0.05
ACGTcount: A:0.66, C:0.12, G:0.00, T:0.22
Consensus pattern (18 bp):
AAAATATATAAAAACATC
Found at i:95454819 original size:30 final size:30
Alignment explanation
Indices: 95454783--95454844 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 30
95454773 TAACTTAACA
*
95454783 AACAAATGCCTATAAAATAATAACCAAATT
1 AACAAATGCCTATAAAATAATAACAAAATT
* * *
95454813 AACAAATGTCTTTAAAATAATAATAAAATT
1 AACAAATGCCTATAAAATAATAACAAAATT
95454843 AA
1 AA
95454845 TAATAAAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.58, C:0.11, G:0.03, T:0.27
Consensus pattern (30 bp):
AACAAATGCCTATAAAATAATAACAAAATT
Done.