Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 46 of 207
Found at i:13424043 original size:33 final size:35
Alignment explanation
Indices: 13424005--13424101 Score: 91
Period size: 33 Copynumber: 2.8 Consensus size: 35
13423995 ATGGTTATAT
13424005 TTAAATATTTAAAATATATTTCATATATT-C-TAA
1 TTAAATATTTAAAATATATTTCATATATTGCTTAA
*
13424038 TTAAAT-TTTATAAATA-ATTAAT-ATTTATTGCTTAA
1 TTAAATATTTA-AAATATATT--TCATATATTGCTTAA
13424073 --AAATATTTAAAATTTATATTTCATATATT
1 TTAAATATTTAAAA--TATATTTCATATATT
13424102 AAAATATTAA
Statistics
Matches: 52, Mismatches: 2, Indels: 18
0.72 0.03 0.25
Matches are distributed among these distances:
32 7 0.13
33 24 0.46
34 7 0.13
35 11 0.21
36 3 0.06
ACGTcount: A:0.44, C:0.04, G:0.01, T:0.51
Consensus pattern (35 bp):
TTAAATATTTAAAATATATTTCATATATTGCTTAA
Found at i:13424338 original size:13 final size:13
Alignment explanation
Indices: 13424286--13424347 Score: 63
Period size: 13 Copynumber: 4.8 Consensus size: 13
13424276 TAAACCAAAT
13424286 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
* *
13424299 TTCTCAAAAGTAC
1 TTTTCAAAAGCAC
* *
13424312 TTTTC-CATGTCAC
1 TTTTCAAAAG-CAC
13424325 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
*
13424338 TTTTTAAAAG
1 TTTTCAAAAG
13424348 TATTGCCAAA
Statistics
Matches: 38, Mismatches: 9, Indels: 4
0.75 0.18 0.08
Matches are distributed among these distances:
12 2 0.05
13 34 0.89
14 2 0.05
ACGTcount: A:0.34, C:0.21, G:0.08, T:0.37
Consensus pattern (13 bp):
TTTTCAAAAGCAC
Found at i:13427451 original size:12 final size:12
Alignment explanation
Indices: 13427434--13427468 Score: 54
Period size: 11 Copynumber: 3.0 Consensus size: 12
13427424 TGTTCACAAT
13427434 AAAATATTAATA
1 AAAATATTAATA
*
13427446 AAAATA-TAATT
1 AAAATATTAATA
13427457 AAAATATTAATA
1 AAAATATTAATA
13427469 TTATAACATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (12 bp):
AAAATATTAATA
Found at i:13430053 original size:118 final size:118
Alignment explanation
Indices: 13429863--13430075 Score: 279
Period size: 118 Copynumber: 1.8 Consensus size: 118
13429853 AAAAACTGTA
* *
13429863 CCCAACACTCATTGACACATAGTCGAAGTAACCATTTGGCACTCGGTGCCTCATCGAAATGTCCA
1 CCCAACACTCATTGACACATAGTCGAAGTAACCAGTTGGCACTCGGTACCTCATCGAAATGTCCA
*
13429928 AAGTAATTAGTTTGCGCCCAACGCTCATCAGTATAATCAAAGTAAAGGTTCTG
66 AAGTAATTAGTTTGCACCCAACGCTCATCAGTATAATCAAAGTAAAGGTTCTG
** * * *
13429981 CCCAACACTCATTGACATGTAGTCGAAGTAACCAGTTGGCAC-CTGGTATCTTATTGAAACT-TC
1 CCCAACACTCATTGACACATAGTCGAAGTAACCAGTTGGCACTC-GGTACCTCATCGAAA-TGTC
* **
13430044 TGAAA-TAATTAGTTTGCACCCAATTCTCATCA
64 -CAAAGTAATTAGTTTGCACCCAACGCTCATCA
13430076 ACATATAGTC
Statistics
Matches: 81, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
117 1 0.01
118 76 0.94
119 4 0.05
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (118 bp):
CCCAACACTCATTGACACATAGTCGAAGTAACCAGTTGGCACTCGGTACCTCATCGAAATGTCCA
AAGTAATTAGTTTGCACCCAACGCTCATCAGTATAATCAAAGTAAAGGTTCTG
Found at i:13440575 original size:25 final size:26
Alignment explanation
Indices: 13440547--13440595 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
13440537 AAAAAGAAAA
*
13440547 AAATAG-AACAACGTGCCACAAGAGT
1 AAATAGAAAAAACGTGCCACAAGAGT
*
13440572 AAATAGAAAAAACGTGCCATAAGA
1 AAATAGAAAAAACGTGCCACAAGA
13440596 ATATATTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 6 0.29
26 15 0.71
ACGTcount: A:0.53, C:0.16, G:0.18, T:0.12
Consensus pattern (26 bp):
AAATAGAAAAAACGTGCCACAAGAGT
Found at i:13441450 original size:2 final size:2
Alignment explanation
Indices: 13441443--13441475 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
13441433 TATACCCATG
13441443 TC 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 TC T
13441476 TTCACATGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:13446367 original size:39 final size:39
Alignment explanation
Indices: 13446309--13446402 Score: 154
Period size: 39 Copynumber: 2.4 Consensus size: 39
13446299 TGCTTTTAGG
13446309 AAAA-CGCCGCTAAAAATGAGCATTAGCGGCATTTTCCA
1 AAAAGCGCCGCTAAAAATGAGCATTAGCGGCATTTTCCA
*
13446347 AAAAGCGCCGCTAAAAATGAGCATTAGCGGCGTTTTCCA
1 AAAAGCGCCGCTAAAAATGAGCATTAGCGGCATTTTCCA
* *
13446386 AAAAGCGCTGCAAAAAA
1 AAAAGCGCCGCTAAAAA
13446403 CCTAAGCCTA
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
38 4 0.08
39 48 0.92
ACGTcount: A:0.39, C:0.22, G:0.20, T:0.18
Consensus pattern (39 bp):
AAAAGCGCCGCTAAAAATGAGCATTAGCGGCATTTTCCA
Found at i:13446496 original size:41 final size:41
Alignment explanation
Indices: 13446434--13446783 Score: 538
Period size: 41 Copynumber: 8.5 Consensus size: 41
13446424 TTTTGAGTTT
* * *
13446434 TCGGGGCTTTAGCGGCATTTTTGAAGAAGCGTCGCTAATGC
1 TCGGGTCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGC
* *
13446475 TCGGGTCTTTAGTGGCGTTTTTTAAGAAGCGCCGCTAATGC
1 TCGGGTCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGC
*
13446516 TCGGATCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGC
1 TCGGGTCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGC
* *
13446557 TCGGGTCTTTAGCGACGTTTTTGAAGGAGCGCCGCTAATGC
1 TCGGGTCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGC
* * * * *
13446598 TCGAGTCTTTAGCGGCGTTTTTGAAAAATCACTGCTAATGC
1 TCGGGTCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGC
13446639 TCGGGTCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGC
1 TCGGGTCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGC
*
13446680 TCGGGTCTTTAGCGGCATTTTTGAAGAAGCGCCGCTAATGC
1 TCGGGTCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGC
* * *
13446721 TCGGGTCTTTAGTGGCGTTTTTGAAGAAGTGCCGCTAATTC
1 TCGGGTCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGC
*
13446762 TCGGGTCTTTAGCAGCGTTTTT
1 TCGGGTCTTTAGCGGCGTTTTT
13446784 AAAAAAGCAC
Statistics
Matches: 279, Mismatches: 30, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 279 1.00
ACGTcount: A:0.18, C:0.20, G:0.29, T:0.32
Consensus pattern (41 bp):
TCGGGTCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGC
Found at i:13446863 original size:16 final size:17
Alignment explanation
Indices: 13446842--13446879 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
13446832 CCAAAATCAA
13446842 TTCCCCCC-ACT-CTTT
1 TTCCCCCCAACTCCTTT
*
13446857 TTCCCCCCAATTCCTTT
1 TTCCCCCCAACTCCTTT
13446874 TTCCCC
1 TTCCCC
13446880 TACCCCAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 8 0.40
16 2 0.10
17 10 0.50
ACGTcount: A:0.08, C:0.53, G:0.00, T:0.39
Consensus pattern (17 bp):
TTCCCCCCAACTCCTTT
Found at i:13449389 original size:43 final size:43
Alignment explanation
Indices: 13449365--13449550 Score: 318
Period size: 43 Copynumber: 4.3 Consensus size: 43
13449355 AGGTCATAAG
*
13449365 CTTTAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGGTCTTGGT
1 CTTTAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGATCTTGGT
*
13449408 CTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCTTGGT
1 CTTTAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGATCTTGGT
* ** *
13449451 CTTTAGTGGCGTTTGTGGGAAAAGCGTCGCTAAAGATCCCGAT
1 CTTTAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGATCTTGGT
13449494 CTTTAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGATCTTGGT
1 CTTTAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGATCTTGGT
13449537 CTTTAGCGGCGTTT
1 CTTTAGCGGCGTTT
13449551 TTAGAAAAAA
Statistics
Matches: 132, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 132 1.00
ACGTcount: A:0.20, C:0.18, G:0.32, T:0.30
Consensus pattern (43 bp):
CTTTAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGATCTTGGT
Found at i:13449393 original size:85 final size:86
Alignment explanation
Indices: 13449282--13449550 Score: 233
Period size: 86 Copynumber: 3.2 Consensus size: 86
13449272 AATTTATGCT
* * *
13449282 TTTAGTGGCGTTTGT-GAAAAAGCGTCGCTAAAAGTCAAT-GT-TATAGCGACATTTTTAATAAA
1 TTTAGTGGCGTTTGTGGGAAAAGCGTCGCTAAAAGTC-ATGGTCTATAGCGACATTTGTAAGAAA
* *
13449344 AGCGCTGCTAAAGGTCATAAG-C
65 AGCGCCGCTAAAGATC-TAAGTC
* * * * * * **
13449366 TTTAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAAAA
1 TTTAGTGGCGTTTGTGGGAAAAGCGTCGCTAAAAGTCATGGTCTATAGCGACATTTGTAAGAAAA
**
13449431 GCGCCGCTAAAGATCTTGGTC
66 GCGCCGCTAAAGATCTAAGTC
** * * * * **
13449452 TTTAGTGGCGTTTGTGGGAAAAGCGTCGCT-AAAGATCCCGATCTTTAGCGGCGTTTGTGGGAAA
1 TTTAGTGGCGTTTGTGGGAAAAGCGTCGCTAAAAG-TCATGGTCTATAGCGACATTTGTAAGAAA
* **
13449516 AGCGTCGCTAAAGATCTTGGTC
65 AGCGCCGCTAAAGATCTAAGTC
*
13449538 TTTAGCGGCGTTT
1 TTTAGTGGCGTTT
13449551 TTAGAAAAAA
Statistics
Matches: 158, Mismatches: 22, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
84 15 0.09
85 26 0.16
86 117 0.74
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.30
Consensus pattern (86 bp):
TTTAGTGGCGTTTGTGGGAAAAGCGTCGCTAAAAGTCATGGTCTATAGCGACATTTGTAAGAAAA
GCGCCGCTAAAGATCTAAGTC
Found at i:13464519 original size:7 final size:7
Alignment explanation
Indices: 13464507--13464534 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
13464497 TGGTGAGTGA
13464507 GGTGATG
1 GGTGATG
13464514 GGTGATG
1 GGTGATG
13464521 GGTGATG
1 GGTGATG
13464528 GGTGATG
1 GGTGATG
13464535 CAATCGATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.14, C:0.00, G:0.57, T:0.29
Consensus pattern (7 bp):
GGTGATG
Found at i:13467267 original size:18 final size:18
Alignment explanation
Indices: 13467244--13467278 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
13467234 GAAGATATAA
13467244 TTTTAT-ATTAATATTTAT
1 TTTTATAATTAA-ATTTAT
13467262 TTTTATAATTAAATTTA
1 TTTTATAATTAAATTTA
13467279 AATAAAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
TTTTATAATTAAATTTAT
Found at i:13482374 original size:46 final size:46
Alignment explanation
Indices: 13482307--13482397 Score: 182
Period size: 46 Copynumber: 2.0 Consensus size: 46
13482297 ATGACAATGA
13482307 AAACCAACTAAGCATACCTGCTCCAACTCGCTCTCACTCTACCCCG
1 AAACCAACTAAGCATACCTGCTCCAACTCGCTCTCACTCTACCCCG
13482353 AAACCAACTAAGCATACCTGCTCCAACTCGCTCTCACTCTACCCC
1 AAACCAACTAAGCATACCTGCTCCAACTCGCTCTCACTCTACCCC
13482398 CACTTGCTCT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.29, C:0.44, G:0.08, T:0.20
Consensus pattern (46 bp):
AAACCAACTAAGCATACCTGCTCCAACTCGCTCTCACTCTACCCCG
Found at i:13482802 original size:9 final size:9
Alignment explanation
Indices: 13482788--13482821 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
13482778 GTTTTCGAAT
13482788 TCGAATAAC
1 TCGAATAAC
13482797 TCGAATAAC
1 TCGAATAAC
*
13482806 TCGAATAAT
1 TCGAATAAC
13482815 TCGAATA
1 TCGAATA
13482822 TTAAACTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.44, C:0.18, G:0.12, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:13482906 original size:29 final size:31
Alignment explanation
Indices: 13482870--13482930 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 31
13482860 AAACATTTTT
* *
13482870 ACTTTTCCCTCAAAACTTTTACTCCT-TCCC
1 ACTTTCCCCCCAAAACTTTTACTCCTCTCCC
*
13482900 ACTTTCCCCCCAAAGCTTTTACTCCTCTCCC
1 ACTTTCCCCCCAAAACTTTTACTCCTCTCCC
13482931 CTCCCAACCC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 23 0.85
31 4 0.15
ACGTcount: A:0.18, C:0.44, G:0.02, T:0.36
Consensus pattern (31 bp):
ACTTTCCCCCCAAAACTTTTACTCCTCTCCC
Found at i:13483331 original size:13 final size:12
Alignment explanation
Indices: 13483313--13483375 Score: 58
Period size: 12 Copynumber: 5.2 Consensus size: 12
13483303 AGTAATAATT
13483313 TTATTTATATCTA
1 TTATTTATAT-TA
13483326 TTATTTATATTA
1 TTATTTATATTA
* *
13483338 TTAAATTAAATT-
1 TT-ATTTATATTA
*
13483350 TTATATTTTA-TA
1 TTAT-TTATATTA
13483362 TTATTTATATTA
1 TTATTTATATTA
13483374 TT
1 TT
13483376 GAATTGTTTA
Statistics
Matches: 40, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
11 6 0.15
12 17 0.43
13 17 0.43
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (12 bp):
TTATTTATATTA
Found at i:13488245 original size:3 final size:3
Alignment explanation
Indices: 13488237--13488275 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
13488227 AAGGACCCAA
* * *
13488237 ATT ATT ATT ATT ATT ATC ATT AGT ACT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
13488276 TTTACAAATA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:13490118 original size:101 final size:102
Alignment explanation
Indices: 13490003--13490187 Score: 284
Period size: 101 Copynumber: 1.8 Consensus size: 102
13489993 AAAGTGATGG
*
13490003 TCACGTGTGTAGTACTATATGCAGGCTACTACGTGTACCAGA-A-TGATAGGTCGCATGTGTAGT
1 TCACGTGTGTAGTACTATATGCAGGCTACTACGTGTACCAGATAGTGAT-GGTCACATGTGTAGT
*
13490066 ACTATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
65 ACTATGTACAGGCTACTATGCGTACCGGATAGCTTCGA
* * * *
13490104 TCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTATCGGATAGTGATGGTCACATGTGTAGTA
1 TCACGTGTGTAGTACTATATGCAGGCTACTACGTGTACCAGATAGTGATGGTCACATGTGTAGTA
*
13490169 CTATGTACAGGTTACTATG
66 CTATGTACAGGCTACTATG
13490188 TGAATCGGTA
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
101 38 0.51
102 33 0.44
103 4 0.05
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.31
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATATGCAGGCTACTACGTGTACCAGATAGTGATGGTCACATGTGTAGTA
CTATGTACAGGCTACTATGCGTACCGGATAGCTTCGA
Found at i:13490138 original size:26 final size:25
Alignment explanation
Indices: 13490109--13490189 Score: 62
Period size: 26 Copynumber: 3.2 Consensus size: 25
13490099 TTCGATCACG
13490109 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGG-TACTA
*
13490135 TGTGTA-T-CGGATAGTG-ATGGTCAC-A
1 TGTGTAGTAC-TAT-GTGCA-GGT-ACTA
*
13490160 TGTGTAGTACTATGTACAGGTTACTA
1 TGTGTAGTACTATGTGCAGG-TACTA
13490186 TGTG
1 TGTG
13490190 AATCGGTATC
Statistics
Matches: 43, Mismatches: 3, Indels: 18
0.67 0.05 0.28
Matches are distributed among these distances:
24 1 0.02
25 18 0.42
26 23 0.53
27 1 0.02
ACGTcount: A:0.23, C:0.12, G:0.28, T:0.36
Consensus pattern (25 bp):
TGTGTAGTACTATGTGCAGGTACTA
Found at i:13490195 original size:51 final size:52
Alignment explanation
Indices: 13489995--13490189 Score: 231
Period size: 51 Copynumber: 3.8 Consensus size: 52
13489985 TGAAAGTGAA
* * * *
13489995 AGTGAT-GGTCACGTGTGTAGTACTATATGCAGGCTACTACGTGTACCAGA-
1 AGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGAT
* *
13490045 A-TGATAGGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGAT
1 AGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGAT
* * * *
13490096 AGCT--TCGATCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTATCGGAT
1 AG-TGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGAT
* *
13490147 AGTGAT-GGTCACATGTGTAGTACTATGTACAGGTTACTATGTG
1 AGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTG
13490190 AATCGGTATC
Statistics
Matches: 123, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
49 4 0.03
50 40 0.33
51 77 0.63
52 1 0.01
53 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.31
Consensus pattern (52 bp):
AGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGAT
Found at i:13490434 original size:16 final size:16
Alignment explanation
Indices: 13490413--13490444 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
13490403 TGATTGAAAG
*
13490413 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
13490429 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
13490445 GCAACAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:13492582 original size:16 final size:16
Alignment explanation
Indices: 13492561--13492592 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
13492551 GTTTTGTTGC
*
13492561 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
13492577 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
13492593 CTTTCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:13492970 original size:101 final size:101
Alignment explanation
Indices: 13492818--13493003 Score: 295
Period size: 101 Copynumber: 1.8 Consensus size: 101
13492808 TACCGGTTCA
* *
13492818 CATAGTAGCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGTAGCCTGCAC
1 CATAGTAGCTGCACATAGTACTACACATGCGACCATCACTATCCGATACACGTAGTAGCCTACAC
13492883 ATAGTACTACACACGTGATCGAAGCTATCCAGTACG
66 ATAGTACTACACACGTGATCGAAGCTATCCAGTACG
* * *
13492919 CATAGTAGCTTGCACATAGTACTACATATGCGACCTATCA-T-TCTGGTACACGTAGTAGCCTAC
1 CATAGTAGC-TGCACATAGTACTACACATGCGACC-ATCACTATCCGATACACGTAGTAGCCTAC
13492982 ACATAGTACTACACACGTGATC
64 ACATAGTACTACACACGTGATC
13493004 ATCACTTTCA
Statistics
Matches: 78, Mismatches: 5, Indels: 4
0.90 0.06 0.05
Matches are distributed among these distances:
101 50 0.64
102 24 0.31
103 4 0.05
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (101 bp):
CATAGTAGCTGCACATAGTACTACACATGCGACCATCACTATCCGATACACGTAGTAGCCTACAC
ATAGTACTACACACGTGATCGAAGCTATCCAGTACG
Found at i:13492989 original size:50 final size:50
Alignment explanation
Indices: 13492810--13493007 Score: 195
Period size: 51 Copynumber: 3.9 Consensus size: 50
13492800 ATTAATGATA
* *
13492810 CCGGTTCACATAGTAG-CTGCACATAGTACTACACATGTGACCATCACTAT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACCATCA-TAT
* * * *
13492860 CCGATACACGTAGTAGCCTGCACATAGTACTACACACGTGATCGAAGC-TAT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGA-C-CATCATAT
* * * * * *
13492911 CCAGTACGCATAGTAGCTTGCACATAGTACTACATATGCGACCTATCAT-T
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACC-ATCATAT
* * * *
13492961 CTGGTACACGTAGTAGCCTACACATAGTACTACACACGTGATCATCA
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACCATCA
13493008 CTTTCACTTT
Statistics
Matches: 117, Mismatches: 26, Indels: 11
0.76 0.17 0.07
Matches are distributed among these distances:
49 4 0.03
50 50 0.43
51 60 0.51
52 1 0.01
53 2 0.02
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (50 bp):
CCGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACCATCATAT
Found at i:13515296 original size:22 final size:21
Alignment explanation
Indices: 13515263--13515304 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
13515253 TCAAGAAAAA
*
13515263 AAAAAGAAAAAAGAAAAAGGG
1 AAAAAGAAAAAACAAAAAGGG
*
13515284 AAAAATAATAAAACAAAAAGG
1 AAAAAGAA-AAAACAAAAAGG
13515305 AAACAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.76, C:0.02, G:0.17, T:0.05
Consensus pattern (21 bp):
AAAAAGAAAAAACAAAAAGGG
Found at i:13515768 original size:42 final size:42
Alignment explanation
Indices: 13515721--13516026 Score: 346
Period size: 42 Copynumber: 7.3 Consensus size: 42
13515711 AAGGGAAACA
* * *
13515721 TTCATTGCATTTAGAGGCCCAAGTGTGGAGCTCCATTTACTT
1 TTCATTACATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* * * *
13515763 TTCATTACATTTAGAGGCTCGGGCGTAGAGGTCCATTTACTT
1 TTCATTACATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* * * *
13515805 TTCATTGCATTTAGAGGCCTAGG-GTAGAGGTCCACTTACGTT
1 TTCATTACATTTAGAGGCCCAGGTGTGGAGGTCCATTTAC-TT
* * *
13515847 TT-ATTACATTTAGAGGCCTAGGTGTGGAGTTTCATTTACTT
1 TTCATTACATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* * * *
13515888 TTCATTGCATTTAAAGGCCCAGATGTGTGGAGTTCCATTGACTT
1 TTCATTACATTTAGAGGCCCAG--GTGTGGAGGTCCATTTACTT
* * *
13515932 TTCATTACATTTAGAGGTCTAGGTGTGGAGGTCCATCTACTT
1 TTCATTACATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* * *
13515974 TTCATTACATTTAAAGGCTCAGGTGTGGAGGTTCATTTACTT
1 TTCATTACATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
*
13516016 TTCATTGCATT
1 TTCATTACATT
13516027 GTATATGAAG
Statistics
Matches: 223, Mismatches: 36, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
41 38 0.17
42 149 0.67
44 36 0.16
ACGTcount: A:0.22, C:0.17, G:0.23, T:0.38
Consensus pattern (42 bp):
TTCATTACATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
Found at i:13515883 original size:83 final size:81
Alignment explanation
Indices: 13515721--13516026 Score: 310
Period size: 83 Copynumber: 3.6 Consensus size: 81
13515711 AAGGGAAACA
* * *
13515721 TTCATTGCATTTAGAGGCCCAAGTGTGGAGCTCCATTTACTTTTCATTACATTTAGAGGCTCGGG
1 TTCATTGCATTTAAAGG-CCAAGGGTGGAGCTCCA-TTACTTTTCATTACATTTAGAGGCT-AGG
* *
13515786 CGTAGAGGTCCATTTACTT
63 TGTGGAGGTCCATTTACTT
* * * *
13515805 TTCATTGCATTTAGAGGCCTAGGGTAGAGGTCCACTTACGTTTT-ATTACATTTAGAGGCCTAGG
1 TTCATTGCATTTAAAGGCCAAGGGTGGAGCTCCA-TTAC-TTTTCATTACATTTAGAGG-CTAGG
* *
13515869 TGTGGAGTTTCATTTACTT
63 TGTGGAGGTCCATTTACTT
* *
13515888 TTCATTGCATTTAAAGGCCCAGATGTGTGGAGTTCCATTGACTTTTCATTACATTTAGAGGTCTA
1 TTCATTGCATTTAAAGG-CCA-A-GGGTGGAGCTCCATT-ACTTTTCATTACATTTAGAGG-CTA
*
13515953 GGTGTGGAGGTCCATCTACTT
61 GGTGTGGAGGTCCATTTACTT
* * * *
13515974 TTCATTACATTTAAAGGCTC-AGGTGTGGAGGTTCATTTACTTTTCATTGCATT
1 TTCATTGCATTTAAAGGC-CAAGG-GTGGAGCTCCA-TTACTTTTCATTACATT
13516027 GTATATGAAG
Statistics
Matches: 188, Mismatches: 24, Indels: 20
0.81 0.10 0.09
Matches are distributed among these distances:
83 65 0.35
84 49 0.26
85 10 0.05
86 64 0.34
ACGTcount: A:0.22, C:0.17, G:0.23, T:0.38
Consensus pattern (81 bp):
TTCATTGCATTTAAAGGCCAAGGGTGGAGCTCCATTACTTTTCATTACATTTAGAGGCTAGGTGT
GGAGGTCCATTTACTT
Found at i:13516675 original size:17 final size:16
Alignment explanation
Indices: 13516652--13516694 Score: 59
Period size: 17 Copynumber: 2.6 Consensus size: 16
13516642 AGCATTCTAG
13516652 TTTCTTTTTTTTCTTT
1 TTTCTTTTTTTTCTTT
*
13516668 TCTTCTTTTCCTTTCTTT
1 T-TTCTTTT-TTTTCTTT
13516686 TTTCTTTTT
1 TTTCTTTTT
13516695 GCCATATACA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 1 0.04
17 14 0.61
18 8 0.35
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTCTTTTTTTTCTTT
Found at i:13517131 original size:151 final size:149
Alignment explanation
Indices: 13516871--13517175 Score: 461
Period size: 151 Copynumber: 2.0 Consensus size: 149
13516861 TGACTTTTTT
*
13516871 AAAAGGAGAAAGTTTAGATTTTTAAAATAAAAATATGTTTTTTAGTCATATTAAAGGAAAATTTT
1 AAAAAGAGAAAGTTTAGATTTTTAAAATAAAAATATGTTTTTTAGTCATATTAAAGGAAAATTTT
13516936 AAATTCTTAAAACAAAGTTTTGATCTTTTTCAACTATTTCGAAATAAAGTTTTGATTTTTAAGAA
66 AAATTCTTAAAACAAAGTTTTGATCTTTTTCAACTATTTCGAAATAAAGTTTTGATTTTTAAGAA
*
13517001 AAATAGTGA-TTTTTTAAA
131 AAATAGAGATTTTTTTAAA
*
13517019 AAAAAGAGAAAGTTTAGATTTTTAAAATAAAAATATGTGTTTTTAGTCATTTTAAAGGAAAATGT
1 AAAAAGAGAAAGTTTAGATTTTTAAAATAAAAATATGT-TTTTTAGTCATATTAAAGGAAAAT-T
* * ****
13517084 TTAAATTTTTTAAAATAAAGTTTTGATCTTTTTCAACTATCTT-GAAATTTTTTTTTGATTTTTA
64 TTAAA-TTCTTAAAACAAAGTTTTGATCTTTTTCAACTAT-TTCGAAATAAAGTTTTGATTTTTA
*
13517148 AGAAAAGTAGAGATTTTTTTAAA
127 AGAAAAATAGAGATTTTTTTAAA
*
13517171 GAAAA
1 AAAAA
13517176 CTTTGATTTT
Statistics
Matches: 141, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
148 37 0.26
149 23 0.16
150 6 0.04
151 60 0.43
152 15 0.11
ACGTcount: A:0.42, C:0.04, G:0.12, T:0.43
Consensus pattern (149 bp):
AAAAAGAGAAAGTTTAGATTTTTAAAATAAAAATATGTTTTTTAGTCATATTAAAGGAAAATTTT
AAATTCTTAAAACAAAGTTTTGATCTTTTTCAACTATTTCGAAATAAAGTTTTGATTTTTAAGAA
AAATAGAGATTTTTTTAAA
Found at i:13519529 original size:3 final size:3
Alignment explanation
Indices: 13519523--13519548 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
13519513 TATTATTGTT
13519523 ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC AT
13519549 GTCAATGTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.31, G:0.00, T:0.35
Consensus pattern (3 bp):
ATC
Found at i:13520472 original size:31 final size:31
Alignment explanation
Indices: 13520434--13520497 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
13520424 GTTTTTTTGG
*
13520434 CTCATTTCAGCCCCTAATATT-TTCAGATGTT
1 CTCATTTCAGCCCCTAACATTATT-AGATGTT
*
13520465 CTCATTTCAGTCCCTAACATTATTAGATGTT
1 CTCATTTCAGCCCCTAACATTATTAGATGTT
13520496 CT
1 CT
13520498 ATTAACTCTA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 28 0.93
32 2 0.07
ACGTcount: A:0.23, C:0.25, G:0.09, T:0.42
Consensus pattern (31 bp):
CTCATTTCAGCCCCTAACATTATTAGATGTT
Found at i:13526709 original size:20 final size:20
Alignment explanation
Indices: 13526681--13526730 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
13526671 TATTGATCCA
*
13526681 GTATCGATACT-TTTCTTAAG
1 GTATCGATA-TATTTCCTAAG
*
13526701 GTATTGATATATTTCCTAAG
1 GTATCGATATATTTCCTAAG
13526721 GTATCGATAT
1 GTATCGATAT
13526731 TCCTTTTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 1 0.04
20 25 0.96
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (20 bp):
GTATCGATATATTTCCTAAG
Found at i:13532362 original size:20 final size:20
Alignment explanation
Indices: 13532326--13532363 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
13532316 TTAATTACCT
*
13532326 TAAAACGAATTTCAAAAAAA
1 TAAAACGAATCTCAAAAAAA
13532346 TAAAACTGAATCT-AAAAA
1 TAAAAC-GAATCTCAAAAA
13532364 TAATTAAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.63, C:0.11, G:0.05, T:0.21
Consensus pattern (20 bp):
TAAAACGAATCTCAAAAAAA
Found at i:13532591 original size:26 final size:26
Alignment explanation
Indices: 13532557--13532609 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
13532547 AATCAAAGCT
*
13532557 TTTTCTACTAACAAAAC-CTAAATGA
1 TTTTCTACTAACAAAACACCAAATGA
**
13532582 TTTTCTTACTTTCAAAACACCAAATGA
1 TTTTC-TACTAACAAAACACCAAATGA
13532609 T
1 T
13532610 CTTTTAATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 5 0.22
26 10 0.43
27 8 0.35
ACGTcount: A:0.40, C:0.21, G:0.04, T:0.36
Consensus pattern (26 bp):
TTTTCTACTAACAAAACACCAAATGA
Found at i:13533069 original size:21 final size:21
Alignment explanation
Indices: 13533044--13533086 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
13533034 GATAGCTTAG
13533044 ATATATTATAATATGAAATTT
1 ATATATTATAATATGAAATTT
13533065 ATATATTATAATATGAAATTT
1 ATATATTATAATATGAAATTT
13533086 A
1 A
13533087 GGATGCATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.47
Consensus pattern (21 bp):
ATATATTATAATATGAAATTT
Found at i:13546111 original size:46 final size:46
Alignment explanation
Indices: 13546061--13546154 Score: 170
Period size: 46 Copynumber: 2.0 Consensus size: 46
13546051 GTCAGATTGT
13546061 ATGGAGTACCAGTCTCCATCATTTCGGATAGAGATCCGCGGTTTAC
1 ATGGAGTACCAGTCTCCATCATTTCGGATAGAGATCCGCGGTTTAC
* *
13546107 ATGGAGTACCAGTCTCCATCATTTTGGATAGAGATCCGTGGTTTAC
1 ATGGAGTACCAGTCTCCATCATTTCGGATAGAGATCCGCGGTTTAC
13546153 AT
1 AT
13546155 CACGATTTTG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.31
Consensus pattern (46 bp):
ATGGAGTACCAGTCTCCATCATTTCGGATAGAGATCCGCGGTTTAC
Found at i:13560292 original size:20 final size:20
Alignment explanation
Indices: 13560225--13560290 Score: 69
Period size: 20 Copynumber: 3.3 Consensus size: 20
13560215 ACAAGTTACA
*
13560225 AGTATTATAGATAAACTGTT
1 AGTATTATAGATAAACTGTC
* * * **
13560245 AGTATTATGGACAAGCCATC
1 AGTATTATAGATAAACTGTC
*
13560265 AGTATTGTAGATAAACTGTC
1 AGTATTATAGATAAACTGTC
13560285 AGTATT
1 AGTATT
13560291 GTGGACAAGC
Statistics
Matches: 34, Mismatches: 12, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.35
Consensus pattern (20 bp):
AGTATTATAGATAAACTGTC
Found at i:13560306 original size:20 final size:20
Alignment explanation
Indices: 13560245--13560311 Score: 80
Period size: 20 Copynumber: 3.4 Consensus size: 20
13560235 ATAAACTGTT
*
13560245 AGTATTATGGACAAGCCATC
1 AGTATTGTGGACAAGCCATC
* * * **
13560265 AGTATTGTAGATAAACTGTC
1 AGTATTGTGGACAAGCCATC
13560285 AGTATTGTGGACAAGCCATC
1 AGTATTGTGGACAAGCCATC
13560305 AGTATTG
1 AGTATTG
13560312 CAAATACACT
Statistics
Matches: 36, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (20 bp):
AGTATTGTGGACAAGCCATC
Found at i:13560311 original size:40 final size:40
Alignment explanation
Indices: 13560225--13560326 Score: 150
Period size: 40 Copynumber: 2.5 Consensus size: 40
13560215 ACAAGTTACA
* *
13560225 AGTATTATAGATAAACTGTTAGTATTATGGACAAGCCATC
1 AGTATTGTAGATAAACTGTCAGTATTATGGACAAGCCATC
*
13560265 AGTATTGTAGATAAACTGTCAGTATTGTGGACAAGCCATC
1 AGTATTGTAGATAAACTGTCAGTATTATGGACAAGCCATC
* * *
13560305 AGTATTGCAAATACACTGTCAG
1 AGTATTGTAGATAAACTGTCAG
13560327 ATCTTCCTCC
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 56 1.00
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (40 bp):
AGTATTGTAGATAAACTGTCAGTATTATGGACAAGCCATC
Found at i:13563694 original size:21 final size:21
Alignment explanation
Indices: 13563660--13563718 Score: 55
Period size: 21 Copynumber: 2.7 Consensus size: 21
13563650 ATATATTTAA
**
13563660 ATTAATTTACTTTAATGTAAT
1 ATTAATTTGTTTTAATGTAAT
* *
13563681 ATTAATTTGTTTTAAATTTTAT
1 ATTAATTTGTTTT-AATGTAAT
13563703 ATTTATATTTGTTTTA
1 A-TTA-ATTTGTTTTA
13563719 CTTTAATAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
21 11 0.35
22 7 0.23
23 4 0.13
24 9 0.29
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (21 bp):
ATTAATTTGTTTTAATGTAAT
Found at i:13572971 original size:88 final size:88
Alignment explanation
Indices: 13572822--13573388 Score: 875
Period size: 88 Copynumber: 6.4 Consensus size: 88
13572812 ATGAAGATAA
* * *
13572822 CAGATCTTGCCTTCCTACACCGACAGTGAAGCAAATCGAAGACACCAGCCTTGCCTCCTTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCTTGGGTT
13572887 GCAGCGGAGCAGGCTAAAAATAG
66 GCAGCGGAGCAGGCTAAAAATAG
* * * *
13572910 CAGATCTTGCATTCCTGCACCGACAGCGAAGCAAATCAAAGACACCAGCCTTGCCTCCTTGGCTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCTTGGGTT
*
13572975 GTAGCGGAGCAGGCTAAAAATAG
66 GCAGCGGAGCAGGCTAAAAATAG
* *
13572998 CAGATCTTACCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTACCTCCTTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCTTGGGTT
*
13573063 GCAGCGAAGCAGGCTAAAAATAG
66 GCAGCGGAGCAGGCTAAAAATAG
*
13573086 CAGATCTTACCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCTTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCTTGGGTT
* * *
13573151 GCAGCGGAGTAAGCTAAAAATAT
66 GCAGCGGAGCAGGCTAAAAATAG
* * * *
13573174 TAGATCTTGCCTTCTTGCACCGACAGTGAAGCAGATCGAAGACACCAGCCTCGCCTCCCTT-GGT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT-CCTTGGGT
* *
13573238 TCCAGCGGAACAGGCTAAAAATAG
65 TGCAGCGGAGCAGGCTAAAAATAG
* * *
13573262 CAAATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAAACACCAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCTTGGGTT
* * *
13573327 GTAGCGGAGTAGGATAAAAATAG
66 GCAGCGGAGCAGGCTAAAAATAG
13573350 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGA
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGA
13573389 TGACCCCATC
Statistics
Matches: 435, Mismatches: 42, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
87 3 0.01
88 428 0.98
89 4 0.01
ACGTcount: A:0.29, C:0.29, G:0.23, T:0.19
Consensus pattern (88 bp):
CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCTTGGGTT
GCAGCGGAGCAGGCTAAAAATAG
Found at i:13573069 original size:43 final size:43
Alignment explanation
Indices: 13573021--13573156 Score: 123
Period size: 43 Copynumber: 3.1 Consensus size: 43
13573011 CCTGCACCGA
13573021 CAGCGAAGCAGATCGAAGACACCAGCCTTACCTCCTTGGGTTG
1 CAGCGAAGCAGATCGAAGACACCAGCCTTACCTCCTTGGGTTG
* * * * * * ****
13573064 CAGCGAAGCAG-GCTAAAAATAGCAGATCTTACCTTCC-TGCACCG
1 CAGCGAAGCAGATC-GAAGACACCAG-CCTTACC-TCCTTGGGTTG
*
13573108 ACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCTTGGGTTG
1 -CAGCGAAGCAGATCGAAGACACCAGCCTTACCTCCTTGGGTTG
13573152 CAGCG
1 CAGCG
13573157 GAGTAAGCTA
Statistics
Matches: 66, Mismatches: 21, Indels: 12
0.67 0.21 0.12
Matches are distributed among these distances:
42 1 0.02
43 26 0.39
44 17 0.26
45 21 0.32
46 1 0.02
ACGTcount: A:0.27, C:0.30, G:0.25, T:0.18
Consensus pattern (43 bp):
CAGCGAAGCAGATCGAAGACACCAGCCTTACCTCCTTGGGTTG
Found at i:13573095 original size:44 final size:44
Alignment explanation
Indices: 13572875--13573097 Score: 107
Period size: 44 Copynumber: 5.1 Consensus size: 44
13572865 ACCAGCCTTG
* * *
13572875 CCTCCTTGGGTTGCAGCGGAGCAGGCTAAAAATAGCAGATCTTG
1 CCTCCTTGGATTGCAGCGAAGCAGGCTAAAAATAGCAGATCTTA
* * ** ** * * * * *
13572919 CATTCC-TGCACCGACAGCGAAGCA-AATCAAAGACACCAG-CCTTG
1 C-CTCCTTGGATTG-CAGCGAAGCAGGCT-AAAAATAGCAGATCTTA
* * *
13572963 CCTCCTTGGCTTGTAGCGGAGCAGGCTAAAAATAGCAGATCTTA
1 CCTCCTTGGATTGCAGCGAAGCAGGCTAAAAATAGCAGATCTTA
* ** * * * * * *
13573007 CCTTCC-TGCACCGACAGCGAAGCA-GATCGAAGACACCAG-CCTTA
1 CC-TCCTTGGATTG-CAGCGAAGCAGGCT-AAAAATAGCAGATCTTA
*
13573051 CCTCCTTGGGTTGCAGCGAAGCAGGCTAAAAATAGCAGATCTTA
1 CCTCCTTGGATTGCAGCGAAGCAGGCTAAAAATAGCAGATCTTA
13573095 CCT
1 CCT
13573098 TCCTGCACCG
Statistics
Matches: 119, Mismatches: 48, Indels: 24
0.62 0.25 0.13
Matches are distributed among these distances:
43 39 0.33
44 42 0.35
45 38 0.32
ACGTcount: A:0.29, C:0.28, G:0.23, T:0.20
Consensus pattern (44 bp):
CCTCCTTGGATTGCAGCGAAGCAGGCTAAAAATAGCAGATCTTA
Found at i:13573117 original size:45 final size:45
Alignment explanation
Indices: 13572977--13573119 Score: 141
Period size: 45 Copynumber: 3.2 Consensus size: 45
13572967 CTTGGCTTGT
*
13572977 AGCGGAGCAGGCTAAAAATAGCAGATCTTACCTTCCTGCACCGAC
1 AGCGAAGCAGGCTAAAAATAGCAGATCTTACCTTCCTGCACCGAC
* * * * * * ****
13573022 AGCGAAGCA-GATCGAAGACACCAG-CCTTACC-TCCTTGGGTTG-C
1 AGCGAAGCAGGCT-AAAAATAGCAGATCTTACCTTCC-TGCACCGAC
13573065 AGCGAAGCAGGCTAAAAATAGCAGATCTTACCTTCCTGCACCGAC
1 AGCGAAGCAGGCTAAAAATAGCAGATCTTACCTTCCTGCACCGAC
13573110 AGCGAAGCAG
1 AGCGAAGCAG
13573120 ATCGAAGACA
Statistics
Matches: 71, Mismatches: 21, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
43 20 0.28
44 22 0.31
45 29 0.41
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.17
Consensus pattern (45 bp):
AGCGAAGCAGGCTAAAAATAGCAGATCTTACCTTCCTGCACCGAC
Found at i:13573479 original size:44 final size:44
Alignment explanation
Indices: 13573399--13573607 Score: 255
Period size: 44 Copynumber: 4.8 Consensus size: 44
13573389 TGACCCCATC
* * *
13573399 CCTATGTCTCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
* * *
13573443 CTTATCTCCCTTGTCAGCAGTGGAATAGGTTGAAGATTGAGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
* * *
13573487 TCTATCTCCCTAGGT-AGCAGTGGAATAGATTGAAGATTGT-AGGT
1 CCTATCTCCCT-GGTCAGCAGTGGAATAGGTTGAAGATTGTGA-AT
* *
13573531 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATCGTGAA-
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
*
13573574 CCTATCTCCCTGAG-CAGCAGTGGAGTAGGTTGAA
1 CCTATCTCCCTG-GTCAGCAGTGGAATAGGTTGAA
13573608 AATAGCAGAT
Statistics
Matches: 141, Mismatches: 19, Indels: 11
0.82 0.11 0.06
Matches are distributed among these distances:
43 34 0.24
44 104 0.74
45 3 0.02
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (44 bp):
CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
Found at i:13574204 original size:45 final size:43
Alignment explanation
Indices: 13574085--13574241 Score: 156
Period size: 44 Copynumber: 3.6 Consensus size: 43
13574075 TCACATCTAG
* *
13574085 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAGTAAGCAAG
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAGT-AGAAAA
*
13574129 TCTTATC-CTCCTAAAGTTGCAGT-GAGGCAGACTGAAGATGGAAAA
1 TCTTATCTC-CCTAAAGTTGCAGTGGA-GCAGACT-AAG-TAGAAAA
* * * * *
13574174 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGTCGATAA
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACT-AAGTAGAAAA
* *
13574218 TCCTATCTCCCTAAAGTTGTAGTG
1 TCTTATCTCCCTAAAGTTGCAGTG
13574242 AAGCGGATTA
Statistics
Matches: 96, Mismatches: 11, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
43 3 0.03
44 55 0.57
45 34 0.35
46 4 0.04
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (43 bp):
TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAGTAGAAAA
Found at i:13574269 original size:44 final size:44
Alignment explanation
Indices: 13573955--13574279 Score: 132
Period size: 44 Copynumber: 7.5 Consensus size: 44
13573945 TGCAATGGCG
* * * * *
13573955 AATCTTATCTCCCTAAAGTTGTAATGGAGTAGATTAAAG-CCAAT
1 AATCTTATCTCCCTGAAGTTGTAGTGAAGCAGATTAAAGACC-AC
* ** ***
13573999 AATCCTATCTCCCTGAAGTTACAGTGAAGCAGATTAAA-ACTTTG
1 AATCTTATCTCCCTGAAGTTGTAGTGAAGCAGATTAAAGAC-CAC
* * * * * * * *
13574043 GATCTTATCTCTCTGAAGTTGCAGAG-AGCAGA-T-CACATC-T
1 AATCTTATCTCCCTGAAGTTGTAGTGAAGCAGATTAAAGACCAC
* * * * *
13574083 AGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACT-AAGTA--AGC
1 AATCTTATCTCCCTGAAGTTGTAGTGAAGCAGATTAAAG-ACCA-C
* * * * * ** *
13574126 AAGTCTTATC-CTCCTAAAGTTGCAGTGAGGCAGACTGAAGATGGAA
1 AA-TCTTATCTC-CCTGAAGTTGTAGTGAAGCAGATTAAAGA-CCAC
* * * *
13574172 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGTCGAT
1 AATCTTATCTCCCTGAAGTTGTAGTGAAGCAGATTAAAGACCAC
* * *
13574216 AATCCTATCTCCCTAAAGTTGTAGTGAAGCGGATTAAA-ACCAC
1 AATCTTATCTCCCTGAAGTTGTAGTGAAGCAGATTAAAGACCAC
* *
13574259 AGATTTTATCTCTCTGAAGTT
1 A-ATCTTATCTCCCTGAAGTT
13574280 ACAGAGAGTA
Statistics
Matches: 214, Mismatches: 51, Indels: 32
0.72 0.17 0.11
Matches are distributed among these distances:
40 21 0.10
41 7 0.03
42 4 0.02
43 12 0.06
44 134 0.63
45 32 0.15
46 3 0.01
47 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.30
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGTAGTGAAGCAGATTAAAGACCAC
Found at i:13574328 original size:128 final size:128
Alignment explanation
Indices: 13574174--13574407 Score: 328
Period size: 128 Copynumber: 1.8 Consensus size: 128
13574164 AGATGGAAAA
* * * *
13574174 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTA-AAGTCGA-TAATCCTATCTCCCTAAAGTTG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CAGAAGAC-ACCAATCCTATCTCCCTAAAGTTG
*
13574237 TAGTGAAGCGGATTAAAACCACAGATTTTATCTCTCTGAAGTTACAGAGAGTAGATCGCATCCAG
64 TAGTGAAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTACAGAGAGTAGATCGCATCCAG
* *
13574302 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGACACCAATCCTATCTCCCTGAGGTTGTA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGACACCAATCCTATCTCCCTAAAGTTGTA
* * * **
13574367 GTGGAGTGGATTGAAACTGCAGATCTTATCTCTCTGAAGTT
66 GTGAAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTT
13574408 GCAAAGAACA
Statistics
Matches: 92, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
127 2 0.02
128 90 0.98
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (128 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGACACCAATCCTATCTCCCTAAAGTTGTA
GTGAAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTACAGAGAGTAGATCGCATCCAG
Found at i:13575821 original size:3 final size:3
Alignment explanation
Indices: 13575795--13575854 Score: 56
Period size: 3 Copynumber: 20.3 Consensus size: 3
13575785 GTTTTTTAGT
*
13575795 TTA TT- TTA TTA GTA TTGA -TA TTA TTA TT- TTCA TTA TTA TTA -TA
1 TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TT-A TTA TTA TTA TTA
13575838 TTA TATA TTA TTA TTA T
1 TTA T-TA TTA TTA TTA T
13575855 ACCTATATAT
Statistics
Matches: 48, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
2 7 0.15
3 35 0.73
4 6 0.12
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:13576397 original size:32 final size:32
Alignment explanation
Indices: 13576358--13576423 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
13576348 ATTTCCTTCA
*
13576358 TTTTTTTATTGATTTATGTTCTCATTTATATT
1 TTTTTTTATTGAATTATGTTCTCATTTATATT
*
13576390 TTTTTTTATTGAATTATGTTTTCATTTATATT
1 TTTTTTTATTGAATTATGTTCTCATTTATATT
13576422 TT
1 TT
13576424 AAAAGCATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.20, C:0.05, G:0.06, T:0.70
Consensus pattern (32 bp):
TTTTTTTATTGAATTATGTTCTCATTTATATT
Found at i:13583914 original size:45 final size:45
Alignment explanation
Indices: 13583850--13583943 Score: 161
Period size: 45 Copynumber: 2.1 Consensus size: 45
13583840 AACAGATACT
* *
13583850 CGGTGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTC
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
*
13583895 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTT
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
13583940 CGGT
1 CGGT
13583944 TCACATAGTA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
Found at i:13589713 original size:19 final size:18
Alignment explanation
Indices: 13589689--13589751 Score: 58
Period size: 19 Copynumber: 3.3 Consensus size: 18
13589679 TACATGAATT
13589689 CATTTCAATATTCATATCC
1 CATTTCAATATTCATAT-C
13589708 CATTTC-ATCATTTCATATTC
1 CATTTCAAT-A-TTCATA-TC
*
13589728 CATTTCCAAT-CTCATATC
1 CATTT-CAATATTCATATC
13589746 CATTTC
1 CATTTC
13589752 TCATCCTTGT
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
17 1 0.03
18 9 0.24
19 12 0.32
20 12 0.32
21 2 0.05
22 2 0.05
ACGTcount: A:0.27, C:0.29, G:0.00, T:0.44
Consensus pattern (18 bp):
CATTTCAATATTCATATC
Found at i:13589742 original size:27 final size:27
Alignment explanation
Indices: 13589688--13589742 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
13589678 ATACATGAAT
* *
13589688 TCATTTCAATATTCATATCCCATTTCA
1 TCATTTCAATATTCATATCCAATCTCA
*
13589715 TCATTTC-ATATTCCATTTCCAATCTCA
1 TCATTTCAATATT-CATATCCAATCTCA
13589742 T
1 T
13589743 ATCCATTTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 5 0.21
27 19 0.79
ACGTcount: A:0.27, C:0.27, G:0.00, T:0.45
Consensus pattern (27 bp):
TCATTTCAATATTCATATCCAATCTCA
Found at i:13595343 original size:38 final size:38
Alignment explanation
Indices: 13595250--13595369 Score: 118
Period size: 38 Copynumber: 3.1 Consensus size: 38
13595240 AAATAATAGA
* * * * *
13595250 CATGCTTTATCATGTATTCAATTCAATCAATAACATTAGA
1 CATGC-TTAACATGTATTTAGTTCAA-CAATAACAGTAGG
* * *
13595290 TATGCTTAACCTGTA-TTAGGTTCAA-AATTAATAGTAGG
1 CATGCTTAACATGTATTTA-GTTCAACAA-TAACAGTAGG
13595328 CATGCTTAACATGTATTTAGTTCAACAATAACAGTAGG
1 CATGCTTAACATGTATTTAGTTCAACAATAACAGTAGG
13595366 CATG
1 CATG
13595370 TTGGACAAGC
Statistics
Matches: 65, Mismatches: 11, Indels: 10
0.76 0.13 0.12
Matches are distributed among these distances:
37 2 0.03
38 41 0.63
39 18 0.28
40 4 0.06
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.35
Consensus pattern (38 bp):
CATGCTTAACATGTATTTAGTTCAACAATAACAGTAGG
Found at i:13596690 original size:43 final size:43
Alignment explanation
Indices: 13596625--13596744 Score: 197
Period size: 42 Copynumber: 2.8 Consensus size: 43
13596615 TGCCATTGTC
* *
13596625 AACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTTCCACA
1 AACGCCGCTATAGATCATGACCTTTAGCGGCGCTTTTTACACA
*
13596668 AACGCCACTATAGATCATGACCTTTAGCGGCGC-TTTTACACA
1 AACGCCGCTATAGATCATGACCTTTAGCGGCGCTTTTTACACA
*
13596710 AACGCCGCTATAGATCATGACCTTTAGCGACGCTT
1 AACGCCGCTATAGATCATGACCTTTAGCGGCGCTT
13596745 CAATTACAAA
Statistics
Matches: 71, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
42 39 0.55
43 32 0.45
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (43 bp):
AACGCCGCTATAGATCATGACCTTTAGCGGCGCTTTTTACACA
Found at i:13602272 original size:16 final size:17
Alignment explanation
Indices: 13602236--13602277 Score: 68
Period size: 16 Copynumber: 2.5 Consensus size: 17
13602226 CACTATAATC
13602236 ATTATTTTAATATATTAA
1 ATTA-TTTAATATATTAA
13602254 ATTATTTAATATA-TAA
1 ATTATTTAATATATTAA
13602270 ATTATTTA
1 ATTATTTA
13602278 TAAATAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 11 0.46
17 9 0.38
18 4 0.17
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
ATTATTTAATATATTAA
Found at i:13602496 original size:42 final size:43
Alignment explanation
Indices: 13602450--13602558 Score: 123
Period size: 42 Copynumber: 2.6 Consensus size: 43
13602440 CTTAAACCCC
** *
13602450 AACCCTTAATCTAT-AACCTTAAACCATAAACTGTAACTCCTA
1 AACCCTTAATCTATAAACCTTAAACCATAAACCATAACCCCTA
* * **
13602492 AACCCTAAATCT-TAAACCATAAACTGTAAACCATAACCCCTA
1 AACCCTTAATCTATAAACCTTAAACCATAAACCATAACCCCTA
* *
13602534 AACCCATAATCCATAAACCTTAAAC
1 AACCCTTAATCTATAAACCTTAAAC
13602559 TCTATACCAT
Statistics
Matches: 54, Mismatches: 11, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
41 1 0.02
42 42 0.78
43 11 0.20
ACGTcount: A:0.44, C:0.30, G:0.02, T:0.24
Consensus pattern (43 bp):
AACCCTTAATCTATAAACCTTAAACCATAAACCATAACCCCTA
Found at i:13602507 original size:14 final size:14
Alignment explanation
Indices: 13602490--13602527 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
13602480 CTGTAACTCC
*
13602490 TAAACCCTAAATCT-
1 TAAACCATAAA-CTG
13602504 TAAACCATAAACTG
1 TAAACCATAAACTG
13602518 TAAACCATAA
1 TAAACCATAA
13602528 CCCCTAAACC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 2 0.09
14 20 0.91
ACGTcount: A:0.50, C:0.24, G:0.03, T:0.24
Consensus pattern (14 bp):
TAAACCATAAACTG
Found at i:13602533 original size:35 final size:35
Alignment explanation
Indices: 13602467--13602535 Score: 104
Period size: 35 Copynumber: 2.0 Consensus size: 35
13602457 AATCTATAAC
*
13602467 CTTAAACCATAAACTGTAACTCCTAAACCCTAAAT
1 CTTAAACCATAAACTGTAACTCATAAACCCTAAAT
*
13602502 CTTAAACCATAAACTGTAAAC-CATAACCCCTAAA
1 CTTAAACCATAAACTGT-AACTCATAAACCCTAAA
13602536 CCCATAATCC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
35 28 0.90
36 3 0.10
ACGTcount: A:0.45, C:0.29, G:0.03, T:0.23
Consensus pattern (35 bp):
CTTAAACCATAAACTGTAACTCATAAACCCTAAAT
Found at i:13602992 original size:41 final size:41
Alignment explanation
Indices: 13602903--13603059 Score: 244
Period size: 41 Copynumber: 3.9 Consensus size: 41
13602893 AAATGTTTTT
*
13602903 GCGGCGCTTTTACAAAAACGCCGCTAAAG-CCTGAGCATTA
1 GCGGCGCTTCTACAAAAACGCCGCTAAAGCCCTGAGCATTA
* * *
13602943 GCGCCGCTTTTTCAAAAACGCCGCTAAAGCCCTGAGCATTA
1 GCGGCGCTTCTACAAAAACGCCGCTAAAGCCCTGAGCATTA
* *
13602984 GCGGCGCTTCTCCAAAAACGCCGCTAAAGCCTTGAGCATTA
1 GCGGCGCTTCTACAAAAACGCCGCTAAAGCCCTGAGCATTA
*
13603025 GCGGCGCTTCTACAAAAACGCTGCTAAAGCCCTGA
1 GCGGCGCTTCTACAAAAACGCCGCTAAAGCCCTGA
13603060 AAGGTAAGAA
Statistics
Matches: 107, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
40 27 0.25
41 80 0.75
ACGTcount: A:0.28, C:0.31, G:0.22, T:0.20
Consensus pattern (41 bp):
GCGGCGCTTCTACAAAAACGCCGCTAAAGCCCTGAGCATTA
Found at i:13603142 original size:40 final size:38
Alignment explanation
Indices: 13603092--13603228 Score: 134
Period size: 40 Copynumber: 3.4 Consensus size: 38
13603082 GGGTTCAGGC
* *
13603092 TTTTTGCGGCGTTTTTTGTAAAAACGCCGCTAATACTC-A
1 TTTTAGCGGCGTTTTTT-T-AAAGCGCCGCTAATACTCGA
*
13603131 TTATTAGCGGCGTTTTCCTTAAAGCGCCGCTAATACTCGA
1 TT-TTAGCGGCGTTTT-TTTAAAGCGCCGCTAATACTCGA
* * *
13603171 TCTTTAGTGGCGTTTTATATAAAGCGCCGCTTAA-GCTCGA
1 T-TTTAGCGGCGTTTT-TTTAAAGCGCCGC-TAATACTCGA
13603211 TTTTTAGCGGCGTTTTTT
1 -TTTTAGCGGCGTTTTTT
13603229 ATGCAAATGC
Statistics
Matches: 82, Mismatches: 10, Indels: 12
0.79 0.10 0.12
Matches are distributed among these distances:
39 20 0.24
40 56 0.68
41 6 0.07
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.39
Consensus pattern (38 bp):
TTTTAGCGGCGTTTTTTTAAAGCGCCGCTAATACTCGA
Found at i:13611663 original size:31 final size:31
Alignment explanation
Indices: 13611628--13611690 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 31
13611618 TTTCAAAGTA
*
13611628 TGTCAAATTT-TTTATTCCCTTCCTTAGTAAG
1 TGTC-AATTTCTTTATTCCCTTCATTAGTAAG
*
13611659 TGTCAATTTCTTTATTTCCTTCATTAGTAAG
1 TGTCAATTTCTTTATTCCCTTCATTAGTAAG
13611690 T
1 T
13611691 ATTTTTGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 5 0.17
31 24 0.83
ACGTcount: A:0.22, C:0.17, G:0.10, T:0.51
Consensus pattern (31 bp):
TGTCAATTTCTTTATTCCCTTCATTAGTAAG
Found at i:13630648 original size:18 final size:18
Alignment explanation
Indices: 13630625--13630663 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
13630615 TATACATTTG
13630625 CAATATCCATTCCACATT
1 CAATATCCATTCCACATT
13630643 CAATATCCATTCCACATT
1 CAATATCCATTCCACATT
13630661 CAA
1 CAA
13630664 ATCATGAGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.31
Consensus pattern (18 bp):
CAATATCCATTCCACATT
Found at i:13631890 original size:20 final size:19
Alignment explanation
Indices: 13631865--13631907 Score: 68
Period size: 20 Copynumber: 2.2 Consensus size: 19
13631855 TTTCATTTCG
*
13631865 CTTTCTCTATTTCTTTCTTT
1 CTTTCTCTATTTCCTT-TTT
13631885 CTTTCTCTATTTCCTTTTT
1 CTTTCTCTATTTCCTTTTT
13631904 CTTT
1 CTTT
13631908 TTACTTATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.05, C:0.26, G:0.00, T:0.70
Consensus pattern (19 bp):
CTTTCTCTATTTCCTTTTT
Found at i:13635215 original size:75 final size:75
Alignment explanation
Indices: 13635077--13635364 Score: 235
Period size: 75 Copynumber: 3.8 Consensus size: 75
13635067 TATATTTACA
* * * * ** *
13635077 TGTATATGTTCTTGTATTGAGTTTGGGTATGATTTTTATGTAAGTTTATATGAAATTTGGAAATG
1 TGTATATGTTCTTGTATTGAGTTTAGGTATGACTTTTATATAAGTTTATATGAGATTCAGAAATA
13635142 CAAATATAAT
66 CAAATATAAT
* * * *
13635152 TGTATATGCTATTGTTTTGAGTTTAGGTATGACTTTTATATAAGTTTATATGAGGTTCAGAAATA
1 TGTATATGTTCTTGTATTGAGTTTAGGTATGACTTTTATATAAGTTTATATGAGATTCAGAAATA
* *
13635217 TAAATATATT
66 CAAATATAAT
* *** * * * * *
13635227 TGAATATGTTCTTCCGTTAAATTTAGGTATGACTTTTATATAAGTGTGTATGAGACTC-GAATAT
1 TGTATATGTTCTTGTATTGAGTTTAGGTATGACTTTTATATAAGTTTATATGAGATTCAGAA-A-
13635291 GTACAAACT-TATAT
64 -TACAAA-TATA-AT
* * *
13635305 ATGTACATGTT-TATGTATTGAATTTAGGTATGA-TAATTATATAAGTTTA-AGTGAGATTCA
1 -TGTATATGTTCT-TGTATTGAGTTTAGGTATGACT-TTTATATAAGTTTATA-TGAGATTCA
13635365 ATTATGTAAG
Statistics
Matches: 166, Mismatches: 37, Indels: 15
0.76 0.17 0.07
Matches are distributed among these distances:
74 3 0.02
75 109 0.66
77 7 0.04
78 5 0.03
79 42 0.25
ACGTcount: A:0.32, C:0.05, G:0.18, T:0.44
Consensus pattern (75 bp):
TGTATATGTTCTTGTATTGAGTTTAGGTATGACTTTTATATAAGTTTATATGAGATTCAGAAATA
CAAATATAAT
Found at i:13635770 original size:41 final size:41
Alignment explanation
Indices: 13635686--13635777 Score: 103
Period size: 41 Copynumber: 2.2 Consensus size: 41
13635676 GGCTCAGTGC
* * * * *
13635686 CTAGCAGGCTTGATGCCAATGATATGTTTCAGACTTTATGT
1 CTAGCAGGCTTGATGCCAATGAAATATCTCAGACTATACGT
** *
13635727 CTAGCAGGCTTGATGCCGGTGAAATATCTCGGACTATACGT
1 CTAGCAGGCTTGATGCCAATGAAATATCTCAGACTATACGT
*
13635768 CTAGTAGGCT
1 CTAGCAGGCT
13635778 AATTGCCGGT
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.32
Consensus pattern (41 bp):
CTAGCAGGCTTGATGCCAATGAAATATCTCAGACTATACGT
Found at i:13645898 original size:25 final size:25
Alignment explanation
Indices: 13645866--13645930 Score: 87
Period size: 25 Copynumber: 2.6 Consensus size: 25
13645856 TATTGGCTTG
*
13645866 CAAGAGCTTCCCGTTATATGGCTCA
1 CAAGAGCTTCCCGTTACATGGCTCA
*
13645891 CATA-AGCTTCCTGTTACATGGCTCA
1 CA-AGAGCTTCCCGTTACATGGCTCA
*
13645916 GAAGAGCTTCCCGTT
1 CAAGAGCTTCCCGTT
13645931 TGTATGCTCG
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
24 1 0.03
25 32 0.94
26 1 0.03
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (25 bp):
CAAGAGCTTCCCGTTACATGGCTCA
Found at i:13648679 original size:8 final size:8
Alignment explanation
Indices: 13648666--13648693 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
13648656 TCATCATCCC
13648666 ATATATCT
1 ATATATCT
13648674 ATATATCT
1 ATATATCT
13648682 ATATATCT
1 ATATATCT
13648690 ATAT
1 ATAT
13648694 GTTTCTACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.50
Consensus pattern (8 bp):
ATATATCT
Found at i:13658283 original size:17 final size:19
Alignment explanation
Indices: 13658261--13658301 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 19
13658251 GAACAACACC
13658261 GTGTTAATTTGTGT-TC-T
1 GTGTTAATTTGTGTGTCTT
*
13658278 GTGTT-ATTTTTGTGTCTT
1 GTGTTAATTTGTGTGTCTT
13658296 GTGTTA
1 GTGTTA
13658302 TATTGTTAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
16 7 0.35
17 7 0.35
18 6 0.30
ACGTcount: A:0.10, C:0.05, G:0.24, T:0.61
Consensus pattern (19 bp):
GTGTTAATTTGTGTGTCTT
Found at i:13658291 original size:18 final size:18
Alignment explanation
Indices: 13658268--13658302 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
13658258 ACCGTGTTAA
13658268 TTTGTGT-TCTGTGTTATT
1 TTTGTGTCT-TGTGTTATT
13658286 TTTGTGTCTTGTGTTAT
1 TTTGTGTCTTGTGTTAT
13658303 ATTGTTAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 15 0.94
19 1 0.06
ACGTcount: A:0.06, C:0.06, G:0.23, T:0.66
Consensus pattern (18 bp):
TTTGTGTCTTGTGTTATT
Found at i:13660336 original size:19 final size:18
Alignment explanation
Indices: 13660303--13660348 Score: 67
Period size: 19 Copynumber: 2.6 Consensus size: 18
13660293 TAATAAGATT
13660303 TAATA-TTATATTTAATC
1 TAATATTTATATTTAATC
*
13660320 TAATATTTATAATTTAATG
1 TAATATTTAT-ATTTAATC
13660339 TAATATTTAT
1 TAATATTTAT
13660349 CTTGATAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 5 0.19
18 4 0.15
19 17 0.65
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (18 bp):
TAATATTTATATTTAATC
Found at i:13665646 original size:28 final size:29
Alignment explanation
Indices: 13665606--13665665 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
13665596 AACATATCAA
* *
13665606 TTCAGTAATTAAT-TTTTATCCATATTAT
1 TTCAATAAATAATATTTTATCCATATTAT
**
13665634 TTCAATAAATAATAATTTTATTTATATTAT
1 TTCAATAAATAAT-ATTTTATCCATATTAT
13665664 TT
1 TT
13665666 GAGTAATTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 11 0.42
30 15 0.58
ACGTcount: A:0.37, C:0.07, G:0.02, T:0.55
Consensus pattern (29 bp):
TTCAATAAATAATATTTTATCCATATTAT
Found at i:13666097 original size:22 final size:22
Alignment explanation
Indices: 13666072--13666116 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
13666062 GTCAACTCTG
*
13666072 CCTTTCTT-TTTTCTTTTTTTTT
1 CCTTT-TTCTTTTCTGTTTTTTT
*
13666094 CCTTTTTCTTTTGTGTTTTTTT
1 CCTTTTTCTTTTCTGTTTTTTT
13666116 C
1 C
13666117 TAATATTAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 2 0.10
22 18 0.90
ACGTcount: A:0.00, C:0.18, G:0.04, T:0.78
Consensus pattern (22 bp):
CCTTTTTCTTTTCTGTTTTTTT
Found at i:13669195 original size:21 final size:20
Alignment explanation
Indices: 13669171--13669211 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 20
13669161 AATAGAACGA
13669171 TTTAAAATAAATAACATAAAT
1 TTTAAAATAAATAA-ATAAAT
13669192 TTTAAAATAAATAAATAAAT
1 TTTAAAATAAATAAATAAAT
13669212 ATATTGCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.34
Consensus pattern (20 bp):
TTTAAAATAAATAAATAAAT
Found at i:13669293 original size:20 final size:19
Alignment explanation
Indices: 13669257--13669294 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
13669247 GGACTAAATC
*
13669257 AGGGTAAAAATGAAATAAG
1 AGGGTAAAAATCAAATAAG
13669276 AGGGTAAAAATCATAATAA
1 AGGGTAAAAATCA-AATAA
13669295 AAATAATAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.58, C:0.03, G:0.21, T:0.18
Consensus pattern (19 bp):
AGGGTAAAAATCAAATAAG
Found at i:13670916 original size:87 final size:87
Alignment explanation
Indices: 13670765--13671188 Score: 659
Period size: 87 Copynumber: 4.9 Consensus size: 87
13670755 GCTAGTGCTT
* * * * *
13670765 AGGAAGGCAAGATCTGCTATCTTTAACCAACTCCACTACAACCGATGAAGGTAAGGCTTCGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
*
13670830 CGATCTGCTTTGCTGTTAACGA
66 CGATCTGCTTCGCTGTTAACGA
*
13670852 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGACTTTGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTG-TTT
* *
13670917 TCGATCTGCTTCACTGTTAACGC
65 TCGATCTGCTTCGCTGTTAACGA
*
13670940 AGGAAGGCAAGATCTGCTATCTTTAACTAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
* *
13671005 CGATCTGCTTCGCTGTTAATGC
66 CGATCTGCTTCGCTGTTAACGA
* * * * *
13671027 AGGAATGTAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATGAAGGCAAGGCTTCGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
*
13671092 CGATCTGCTTCGCTGTTAGCGA
66 CGATCTGCTTCGCTGTTAACGA
*
13671114 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAATGCTTTGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTG-TTT
13671179 TCGATCTGCT
65 TCGATCTGCT
13671189 ATCTTTAACT
Statistics
Matches: 307, Mismatches: 28, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
87 212 0.69
88 95 0.31
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (87 bp):
AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
CGATCTGCTTCGCTGTTAACGA
Found at i:13670976 original size:175 final size:174
Alignment explanation
Indices: 13670765--13671188 Score: 659
Period size: 175 Copynumber: 2.4 Consensus size: 174
13670755 GCTAGTGCTT
* * * * *
13670765 AGGAAGGCAAGATCTGCTATCTTTAACCAACTCCACTACAACCGATGAAGGTAAGGCTTCGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
* *
13670830 CGATCTGCTTTGCTGTTAACGAAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACC
66 CGATCTGCTTCGCTGTTAACGAAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACC
* * *
13670895 GATGGAGGCAAGACTTTGTTTTTCGATCTGCTTCACTGTTAACGC
131 GATGAAGGCAAGACTTCG-TTTTCGATCTGCTTCACTGTTAACGA
*
13670940 AGGAAGGCAAGATCTGCTATCTTTAACTAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
* * * *
13671005 CGATCTGCTTCGCTGTTAATGCAGGAATGTAAGATCTGCTATCTTTAACCAGCTCCACTACAACC
66 CGATCTGCTTCGCTGTTAACGAAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACC
* * *
13671070 GATGAAGGCAAGGCTTCGTTTTCGATCTGCTTCGCTGTTAGCGA
131 GATGAAGGCAAGACTTCGTTTTCGATCTGCTTCACTGTTAACGA
*
13671114 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAATGCTTTGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTG-TTT
13671179 TCGATCTGCT
65 TCGATCTGCT
13671189 ATCTTTAACT
Statistics
Matches: 228, Mismatches: 20, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
174 82 0.36
175 146 0.64
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (174 bp):
AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
CGATCTGCTTCGCTGTTAACGAAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACC
GATGAAGGCAAGACTTCGTTTTCGATCTGCTTCACTGTTAACGA
Found at i:13670992 original size:44 final size:44
Alignment explanation
Indices: 13670856--13670994 Score: 137
Period size: 44 Copynumber: 3.2 Consensus size: 44
13670846 TAACGAAGGA
*
13670856 AGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGG
1 AGGCAAGATCTGCTATCTTTAACTAGCTCCACTGCAACCGATGG
* * * *
13670900 AGGCAAGACTTTG-T-T-TTTCGATCT-GCTTCACTGTTAA-CGCA-GG
1 AGGCAAGA-TCTGCTATCTTT--AACTAGCTCCACTG-CAACCG-ATGG
13670943 AAGGCAAGATCTGCTATCTTTAACTAGCTCCACTGCAACCGATGG
1 -AGGCAAGATCTGCTATCTTTAACTAGCTCCACTGCAACCGATGG
13670988 AGGCAAG
1 AGGCAAG
13670995 GCTTTGTTTT
Statistics
Matches: 74, Mismatches: 9, Indels: 24
0.69 0.08 0.22
Matches are distributed among these distances:
42 3 0.04
43 16 0.22
44 36 0.49
45 16 0.22
46 3 0.04
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.26
Consensus pattern (44 bp):
AGGCAAGATCTGCTATCTTTAACTAGCTCCACTGCAACCGATGG
Found at i:13671286 original size:20 final size:21
Alignment explanation
Indices: 13671244--13671287 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
13671234 TCCTTTTGCA
13671244 TTTGCTCCAGTTTCTCTAATC
1 TTTGCTCCAGTTTCTCTAATC
* * *
13671265 TTTGGTCCA-TTTCTTTAGTC
1 TTTGCTCCAGTTTCTCTAATC
13671285 TTT
1 TTT
13671288 CGACGAGTAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.11, C:0.23, G:0.11, T:0.55
Consensus pattern (21 bp):
TTTGCTCCAGTTTCTCTAATC
Found at i:13683478 original size:73 final size:72
Alignment explanation
Indices: 13683355--13683518 Score: 215
Period size: 73 Copynumber: 2.2 Consensus size: 72
13683345 GGACTTAACG
* *
13683355 GCGTTTTTGAGAAAA-CGACGCAAAAAAACCTAAGCCCAACGACGCTGTTTTCTGAACTTTCGGG
1 GCGTTTTTGA-AAAAGCG-CGCAAAAAAACCTAAGCCCAACGACACCGTTTTCTGAACTTTCGGG
*
13683419 GATTTAGCA
64 GAGTTAGCA
* * *
13683428 GCGTTTTTGAAAAAGCGCTGCAAAAAAACCTAAGCCCAACGGCACCGTTTTTTGAGCTTTCGGGG
1 GCGTTTTTGAAAAAGCGC-GCAAAAAAACCTAAGCCCAACGACACCGTTTTCTGAACTTTCGGGG
*
13683493 AGTTAGCG
65 AGTTAGCA
13683501 GCGTTTTT-AAGAAAGCGC
1 GCGTTTTTGAA-AAAGCGC
13683519 CGTTAATGCT
Statistics
Matches: 81, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
72 7 0.09
73 74 0.91
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.25
Consensus pattern (72 bp):
GCGTTTTTGAAAAAGCGCGCAAAAAAACCTAAGCCCAACGACACCGTTTTCTGAACTTTCGGGGA
GTTAGCA
Found at i:13683545 original size:114 final size:114
Alignment explanation
Indices: 13683417--13683766 Score: 513
Period size: 114 Copynumber: 3.1 Consensus size: 114
13683407 TGAACTTTCG
* * * *
13683417 GGGATTTAGCAGCGTTTTTGAAAAAGCGCTGCAAAAAAACCTAAGCCCAACGGCACCGTTTTTTG
1 GGGATTTAGCAGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGGCGCCGTTTTCTG
* * *
13683482 AGCTTTCGGGGAGTTAGCGGCGTTTTTAAGAAAGCGCCGTTAATGCTCA
66 AGCTTTCGGGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCA
* * * ** *
13683531 GGGATTTAGTAGCGTTTTTGAGAAAGCGCCACAAAAAAACCTAAGCCTAACGATGCCATTTTCTG
1 GGGATTTAGCAGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGGCGCCGTTTTCTG
*
13683596 AGCTTTCGGGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCT
66 AGCTTTCGGGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCA
* * *
13683645 GGGCTTTAGCGGCGTTTTTTG-GAAAGCGCCGCAAAAAAAACTAAGCCCAACGGCGCCGTTTTCT
1 GGGATTTAGCAGCG-TTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGGCGCCGTTTTCT
* *
13683709 GAGCTTTTGGGGATTTAGCGGCGTTTTTAAGGAAGTGCCGCTAATGCTCA
65 GAGCTTTCGGGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCA
13683759 GGGATTTA
1 GGGATTTA
13683767 AAATAATTTG
Statistics
Matches: 208, Mismatches: 27, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
114 202 0.97
115 6 0.03
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.27
Consensus pattern (114 bp):
GGGATTTAGCAGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGGCGCCGTTTTCTG
AGCTTTCGGGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCA
Found at i:13684013 original size:7 final size:7
Alignment explanation
Indices: 13684003--13684093 Score: 51
Period size: 7 Copynumber: 12.4 Consensus size: 7
13683993 GATTTAAGGT
13684003 TTAGGGG
1 TTAGGGG
*
13684010 TTAGGTG
1 TTAGGGG
* **
13684017 TTATGCT
1 TTAGGGG
13684024 TTAGGGG
1 TTAGGGG
13684031 TTAATGGGG
1 TT-A-GGGG
*
13684040 TTTATGGG
1 -TTAGGGG
13684048 TTAGGGG
1 TTAGGGG
* *
13684055 TTA-TGC
1 TTAGGGG
13684061 TTCAGGGG
1 TT-AGGGG
13684069 TT-GGGG
1 TTAGGGG
13684075 ATTTAGGGG
1 --TTAGGGG
13684084 TTAGGGG
1 TTAGGGG
13684091 TTA
1 TTA
13684094 TGCTTTAGAT
Statistics
Matches: 63, Mismatches: 13, Indels: 16
0.68 0.14 0.17
Matches are distributed among these distances:
6 7 0.11
7 36 0.57
8 9 0.14
9 9 0.14
10 2 0.03
ACGTcount: A:0.15, C:0.03, G:0.44, T:0.37
Consensus pattern (7 bp):
TTAGGGG
Found at i:13684049 original size:38 final size:35
Alignment explanation
Indices: 13684000--13684127 Score: 148
Period size: 38 Copynumber: 3.5 Consensus size: 35
13683990 TGGGATTTAA
*
13684000 GGTTTAGGGGTTAGGTGTTATGCTTTAGGGGTTAATGG
1 GGTTTAGGGGTTAGGGGTTATGCTTTAGGGG-T--TGG
* *
13684038 GGTTTATGGGTTAGGGGTTATGCTTCAGGGGTTGG
1 GGTTTAGGGGTTAGGGGTTATGCTTTAGGGGTTGG
**
13684073 GGATTTAGGGGTTAGGGGTTATGCTTTAGATGTTAGG
1 GG-TTTAGGGGTTAGGGGTTATGCTTTAGGGGTT-GG
13684110 GGATTTAGGGGTTTAGGG
1 GG-TTTAGGGG-TTAGGG
13684128 TTTCAACGGT
Statistics
Matches: 80, Mismatches: 7, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
35 5 0.06
36 27 0.34
37 14 0.17
38 34 0.43
ACGTcount: A:0.16, C:0.03, G:0.44, T:0.38
Consensus pattern (35 bp):
GGTTTAGGGGTTAGGGGTTATGCTTTAGGGGTTGG
Found at i:13684500 original size:27 final size:26
Alignment explanation
Indices: 13684453--13684506 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 26
13684443 GAATAGGACC
13684453 AAAATATAAGAAAAAATAAAA-TAAA
1 AAAATATAAGAAAAAATAAAACTAAA
13684478 AAAATATAAATGAAACAAA-AAAACTAAA
1 AAAATAT-AA-GAAA-AAATAAAACTAAA
13684506 A
1 A
13684507 TTTATACATG
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
25 7 0.28
26 2 0.08
27 8 0.32
28 8 0.32
ACGTcount: A:0.78, C:0.04, G:0.04, T:0.15
Consensus pattern (26 bp):
AAAATATAAGAAAAAATAAAACTAAA
Found at i:13684507 original size:19 final size:18
Alignment explanation
Indices: 13684465--13684507 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
13684455 AATATAAGAA
*
13684465 AAAATAAAATAAAAAAAT
1 AAAATAAAACAAAAAAAT
*
13684483 ATAAATGAAACAAAAAAACT
1 A-AAATAAAACAAAAAAA-T
13684503 AAAAT
1 AAAAT
13684508 TTATACATGT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 1 0.05
19 18 0.86
20 2 0.10
ACGTcount: A:0.77, C:0.05, G:0.02, T:0.16
Consensus pattern (18 bp):
AAAATAAAACAAAAAAAT
Found at i:13689831 original size:43 final size:43
Alignment explanation
Indices: 13689738--13689838 Score: 107
Period size: 43 Copynumber: 2.3 Consensus size: 43
13689728 CGTTTACAGA
* * *
13689738 AAAAAACGCCGTTAAAGATCATGTTCTTTAGCGGCGCTTTCTT
1 AAAAAACGCCGCTAAAGAACATGCTCTTTAGCGGCGCTTTCTT
* * *
13689781 CACAAACGCCGCTATAGAACATGACT-TTTAGCGGCGCTTT-TAT
1 AAAAAACGCCGCTAAAGAACATG-CTCTTTAGCGGCGCTTTCT-T
*
13689824 AAAAAACGCCACTAA
1 AAAAAACGCCGCTAA
13689839 TTTTGGGATT
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
42 1 0.02
43 44 0.96
44 1 0.02
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.27
Consensus pattern (43 bp):
AAAAAACGCCGCTAAAGAACATGCTCTTTAGCGGCGCTTTCTT
Found at i:13690203 original size:12 final size:12
Alignment explanation
Indices: 13690186--13690246 Score: 56
Period size: 12 Copynumber: 5.3 Consensus size: 12
13690176 TTTTGAACCT
13690186 CTGCTTCTCTCG
1 CTGCTTCTCTCG
*
13690198 CTGCTTCTCTAG
1 CTGCTTCTCTCG
**
13690210 CTGCAGC-CT--
1 CTGCTTCTCTCG
13690219 CTGCTTCTCTCG
1 CTGCTTCTCTCG
* *
13690231 TTACTTCTCTCG
1 CTGCTTCTCTCG
13690243 CTGC
1 CTGC
13690247 AGCCTCTGCT
Statistics
Matches: 37, Mismatches: 9, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
9 5 0.14
10 2 0.05
11 2 0.05
12 28 0.76
ACGTcount: A:0.05, C:0.39, G:0.16, T:0.39
Consensus pattern (12 bp):
CTGCTTCTCTCG
Found at i:13690225 original size:33 final size:33
Alignment explanation
Indices: 13690183--13690258 Score: 125
Period size: 33 Copynumber: 2.3 Consensus size: 33
13690173 TCCTTTTGAA
*
13690183 CCTCTGCTTCTCTCGCTGCTTCTCTAGCTGCAG
1 CCTCTGCTTCTCTCGCTACTTCTCTAGCTGCAG
* *
13690216 CCTCTGCTTCTCTCGTTACTTCTCTCGCTGCAG
1 CCTCTGCTTCTCTCGCTACTTCTCTAGCTGCAG
13690249 CCTCTGCTTC
1 CCTCTGCTTC
13690259 CTTCACTGCA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.05, C:0.41, G:0.16, T:0.38
Consensus pattern (33 bp):
CCTCTGCTTCTCTCGCTACTTCTCTAGCTGCAG
Found at i:13695348 original size:7 final size:7
Alignment explanation
Indices: 13695333--13695398 Score: 68
Period size: 7 Copynumber: 10.0 Consensus size: 7
13695323 AACTATAAAC
*
13695333 CCCTAAA
1 CCCTTAA
13695340 CCCTTAA
1 CCCTTAA
*
13695347 CCC-CAA
1 CCCTTAA
13695353 CCCTTAA
1 CCCTTAA
13695360 CCCTTAA
1 CCCTTAA
13695367 ---TTAA
1 CCCTTAA
*
13695371 ACCTTAA
1 CCCTTAA
13695378 CCCTTAA
1 CCCTTAA
13695385 CCCTTAA
1 CCCTTAA
*
13695392 ACCTTAA
1 CCCTTAA
13695399 ACACCAACTC
Statistics
Matches: 50, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
4 4 0.08
6 5 0.10
7 41 0.82
ACGTcount: A:0.35, C:0.39, G:0.00, T:0.26
Consensus pattern (7 bp):
CCCTTAA
Found at i:13695356 original size:13 final size:13
Alignment explanation
Indices: 13695338--13695362 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13695328 TAAACCCCTA
13695338 AACCCTTAACCCC
1 AACCCTTAACCCC
13695351 AACCCTTAACCC
1 AACCCTTAACCC
13695363 TTAATTAAAC
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:0.52, G:0.00, T:0.16
Consensus pattern (13 bp):
AACCCTTAACCCC
Found at i:13695372 original size:32 final size:32
Alignment explanation
Indices: 13695336--13695398 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
13695326 TATAAACCCC
*
13695336 TAAACCCTTAACCC-CAACCCTTAACCCTTAAT
1 TAAA-CCTTAACCCTCAACCCTTAAACCTTAAT
*
13695368 TAAACCTTAACCCTTAACCCTTAAACCTTAA
1 TAAACCTTAACCCTCAACCCTTAAACCTTAA
13695399 ACACCAACTC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 9 0.32
32 19 0.68
ACGTcount: A:0.37, C:0.37, G:0.00, T:0.27
Consensus pattern (32 bp):
TAAACCTTAACCCTCAACCCTTAAACCTTAAT
Found at i:13695622 original size:20 final size:20
Alignment explanation
Indices: 13695579--13695625 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
13695569 AACTATAAAC
* **
13695579 CCCTAAACCCCTAACCCCTG
1 CCCTTAACCCCTAACCCCAA
*
13695599 CCCTTAACCCTTAACCCCAA
1 CCCTTAACCCCTAACCCCAA
13695619 CCCTTAA
1 CCCTTAA
13695626 ACCATAATCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.28, C:0.51, G:0.02, T:0.19
Consensus pattern (20 bp):
CCCTTAACCCCTAACCCCAA
Found at i:13695645 original size:22 final size:23
Alignment explanation
Indices: 13695617--13695675 Score: 70
Period size: 22 Copynumber: 2.7 Consensus size: 23
13695607 CCTTAACCCC
13695617 AACCCTTAAACCATAAT-CCATA
1 AACCCTTAAACCATAATCCCATA
* *
13695639 AACCCTTAACCCAT-ATCCCTTA
1 AACCCTTAAACCATAATCCCATA
*
13695661 AACCC-TAAATCATAA
1 AACCCTTAAACCATAA
13695676 AACATATATA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
21 8 0.26
22 23 0.74
ACGTcount: A:0.42, C:0.34, G:0.00, T:0.24
Consensus pattern (23 bp):
AACCCTTAAACCATAATCCCATA
Found at i:13695701 original size:39 final size:39
Alignment explanation
Indices: 13695657--13695733 Score: 109
Period size: 39 Copynumber: 2.0 Consensus size: 39
13695647 ACCCATATCC
13695657 CTTAAACCCTAAATCATAAAACATATATAAACTATAAAT
1 CTTAAACCCTAAATCATAAAACATATATAAACTATAAAT
* * * * *
13695696 CTTAAACCTTGATTCATAACATATATATAAACTATAAA
1 CTTAAACCCTAAATCATAAAACATATATAAACTATAAA
13695734 GTGTAAACCC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.51, C:0.17, G:0.01, T:0.31
Consensus pattern (39 bp):
CTTAAACCCTAAATCATAAAACATATATAAACTATAAAT
Found at i:13707795 original size:21 final size:21
Alignment explanation
Indices: 13707756--13707795 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
13707746 TACTGTAGAG
* *
13707756 TTTTATTTATTAGTATATTAA
1 TTTTATTTATAAATATATTAA
*
13707777 TTTTATTTATAAATTTATT
1 TTTTATTTATAAATATATT
13707796 CCAACATCGT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.65
Consensus pattern (21 bp):
TTTTATTTATAAATATATTAA
Found at i:13715377 original size:67 final size:67
Alignment explanation
Indices: 13715290--13715440 Score: 157
Period size: 67 Copynumber: 2.3 Consensus size: 67
13715280 CATCAGGACG
* *
13715290 TTAAACATGGGAATTA-ATGTGTAAAACCATAGCTCAAATATGACAAC-CAAT-GG-AGTCCACC
1 TTAAACATGGG-GTTACATGTGTAAAACCATAACTCAAATATGAC--CTC-ATGGGTAGTCCACC
13715351 AAGACA
62 AAGACA
** * * *
13715357 TTAAACATGGGGTTACATGTGTATGACCATAACTCGACTATGACCTCATGGGTAGTCCACCAGGA
1 TTAAACATGGGGTTACATGTGTAAAACCATAACTCAAATATGACCTCATGGGTAGTCCACCAAGA
*
13715422 CG
66 CA
*
13715424 TAAAACATGGGGTTACA
1 TTAAACATGGGGTTACA
13715441 CATGTGAAGT
Statistics
Matches: 71, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
65 3 0.04
66 6 0.08
67 62 0.87
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23
Consensus pattern (67 bp):
TTAAACATGGGGTTACATGTGTAAAACCATAACTCAAATATGACCTCATGGGTAGTCCACCAAGA
CA
Found at i:13727880 original size:53 final size:53
Alignment explanation
Indices: 13727800--13727905 Score: 167
Period size: 53 Copynumber: 2.0 Consensus size: 53
13727790 AGTAGGGCCT
* * *
13727800 TAGCCCATCACAGTATCAGTATCAAATATGCAGTAGGGTCTTAGCCCATCACA
1 TAGCCCATCACAGAATCAGTATCAAATATGCAGTAAGGCCTTAGCCCATCACA
* *
13727853 TAGCCCATCACAGAATGAGTTTCAAATATGCAGTAAGGCCTTAGCCCATCACA
1 TAGCCCATCACAGAATCAGTATCAAATATGCAGTAAGGCCTTAGCCCATCACA
13727906 GAATTAGTTT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
53 48 1.00
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (53 bp):
TAGCCCATCACAGAATCAGTATCAAATATGCAGTAAGGCCTTAGCCCATCACA
Found at i:13730631 original size:3 final size:3
Alignment explanation
Indices: 13730623--13730671 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
13730613 AGTATACCAA
13730623 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
13730671 A
1 A
13730672 CGTGCTATTC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:13731012 original size:11 final size:10
Alignment explanation
Indices: 13730992--13731048 Score: 60
Period size: 11 Copynumber: 5.4 Consensus size: 10
13730982 CTCACTCAAT
13730992 AAAAAATTTA
1 AAAAAATTTA
13731002 AAAAAAGTTTA
1 AAAAAA-TTTA
*
13731013 AAAAATATTTT
1 AAAAA-ATTTA
**
13731024 TTAAAATTATA
1 AAAAAATT-TA
13731035 AAAAAATTTA
1 AAAAAATTTA
13731045 AAAA
1 AAAA
13731049 TCTAAAGAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
10 15 0.39
11 22 0.58
12 1 0.03
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (10 bp):
AAAAAATTTA
Found at i:13734001 original size:22 final size:22
Alignment explanation
Indices: 13733976--13734052 Score: 68
Period size: 22 Copynumber: 3.4 Consensus size: 22
13733966 CCAAAATATT
13733976 ATCTCCTAAACTTTAGCATCTA
1 ATCTCCTAAACTTTAGCATCTA
* * * *
13733998 ATCTCCT-AA-TTAAACCAAAATATT
1 ATCTCCTAAACTT-TAGC---ATCTA
13734022 ATCTCCTAAACTTTAGCATCTA
1 ATCTCCTAAACTTTAGCATCTA
13734044 ATCTCCTAA
1 ATCTCCTAA
13734053 TTAAAAGAAA
Statistics
Matches: 41, Mismatches: 8, Indels: 12
0.67 0.13 0.20
Matches are distributed among these distances:
20 2 0.05
21 4 0.10
22 19 0.46
24 10 0.24
25 4 0.10
26 2 0.05
ACGTcount: A:0.36, C:0.26, G:0.03, T:0.35
Consensus pattern (22 bp):
ATCTCCTAAACTTTAGCATCTA
Found at i:13734015 original size:46 final size:46
Alignment explanation
Indices: 13733963--13734057 Score: 190
Period size: 46 Copynumber: 2.1 Consensus size: 46
13733953 ACAAAGATAG
13733963 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
1 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
13734009 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
1 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
13734055 AAA
1 AAA
13734058 AGAAAATAGA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 49 1.00
ACGTcount: A:0.41, C:0.23, G:0.02, T:0.34
Consensus pattern (46 bp):
AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
Found at i:13737953 original size:101 final size:101
Alignment explanation
Indices: 13737778--13737981 Score: 390
Period size: 101 Copynumber: 2.0 Consensus size: 101
13737768 AGATGCTGGA
*
13737778 TCTAACCGTGCTATATGTCCCATCCAATCCCATCAGGAAGTGGTGAACTTTTTCCTCTTCTCGTC
1 TCTAACCGTGCTATATGTCCCATCCAATCCCATCAAGAAGTGGTGAACTTTTTCCTCTTCTCGTC
*
13737843 GCTTTTCCAACTCGGCTGATAATTGACAAGTACAAT
66 ACTTTTCCAACTCGGCTGATAATTGACAAGTACAAT
13737879 TCTAACCGTGCTATATGTCCCATCCAATCCCATCAAGAAGTGGTGAACTTTTTCCTCTTCTCGTC
1 TCTAACCGTGCTATATGTCCCATCCAATCCCATCAAGAAGTGGTGAACTTTTTCCTCTTCTCGTC
13737944 ACTTTTCCAACTCGGCTGATAATTGACAAGTACAAT
66 ACTTTTCCAACTCGGCTGATAATTGACAAGTACAAT
13737980 TC
1 TC
13737982 CCGCATTTAC
Statistics
Matches: 101, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
101 101 1.00
ACGTcount: A:0.25, C:0.28, G:0.15, T:0.33
Consensus pattern (101 bp):
TCTAACCGTGCTATATGTCCCATCCAATCCCATCAAGAAGTGGTGAACTTTTTCCTCTTCTCGTC
ACTTTTCCAACTCGGCTGATAATTGACAAGTACAAT
Found at i:13741344 original size:22 final size:24
Alignment explanation
Indices: 13741319--13741374 Score: 57
Period size: 26 Copynumber: 2.4 Consensus size: 24
13741309 CTTGTTTAAA
13741319 TTTGATTAATA-A-GTATTTATTT
1 TTTGATTAATATACGTATTTATTT
13741341 TTTG-TATAATATTATCGTATTTATTT
1 TTTGAT-TAATA-TA-CGTATTTATTT
13741367 TTT-ATTAA
1 TTTGATTAA
13741375 ACTTATGAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
21 1 0.04
22 9 0.32
24 1 0.04
25 3 0.11
26 14 0.50
ACGTcount: A:0.30, C:0.02, G:0.07, T:0.61
Consensus pattern (24 bp):
TTTGATTAATATACGTATTTATTT
Found at i:13746346 original size:43 final size:43
Alignment explanation
Indices: 13746297--13746381 Score: 170
Period size: 43 Copynumber: 2.0 Consensus size: 43
13746287 AGATGGAGAA
13746297 ATGTGGAAATATGAAATTGATATTGGCAAAAGATACATATGAG
1 ATGTGGAAATATGAAATTGATATTGGCAAAAGATACATATGAG
13746340 ATGTGGAAATATGAAATTGATATTGGCAAAAGATACATATGA
1 ATGTGGAAATATGAAATTGATATTGGCAAAAGATACATATGA
13746382 AATTGATATT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.45, C:0.05, G:0.22, T:0.28
Consensus pattern (43 bp):
ATGTGGAAATATGAAATTGATATTGGCAAAAGATACATATGAG
Found at i:13746380 original size:28 final size:28
Alignment explanation
Indices: 13746348--13746409 Score: 124
Period size: 28 Copynumber: 2.2 Consensus size: 28
13746338 AGATGTGGAA
13746348 ATATGAAATTGATATTGGCAAAAGATAC
1 ATATGAAATTGATATTGGCAAAAGATAC
13746376 ATATGAAATTGATATTGGCAAAAGATAC
1 ATATGAAATTGATATTGGCAAAAGATAC
13746404 ATATGA
1 ATATGA
13746410 GATGTGGAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.47, C:0.06, G:0.18, T:0.29
Consensus pattern (28 bp):
ATATGAAATTGATATTGGCAAAAGATAC
Found at i:13747330 original size:23 final size:23
Alignment explanation
Indices: 13747300--13747352 Score: 106
Period size: 23 Copynumber: 2.3 Consensus size: 23
13747290 GCACGGTTTA
13747300 GTCACACGGCCGTGTAACTTCTT
1 GTCACACGGCCGTGTAACTTCTT
13747323 GTCACACGGCCGTGTAACTTCTT
1 GTCACACGGCCGTGTAACTTCTT
13747346 GTCACAC
1 GTCACAC
13747353 AAGTTCAGCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.19, C:0.32, G:0.21, T:0.28
Consensus pattern (23 bp):
GTCACACGGCCGTGTAACTTCTT
Found at i:13760795 original size:15 final size:15
Alignment explanation
Indices: 13760777--13760816 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
13760767 TTCGTTTAAA
*
13760777 AAAAATAAAAATTAT
1 AAAAATAAAAATAAT
*
13760792 AAAAATAATAATAAT
1 AAAAATAAAAATAAT
13760807 -AAAATAAAAA
1 AAAAATAAAAA
13760817 ATAAAGCTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
14 9 0.41
15 13 0.59
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.23
Consensus pattern (15 bp):
AAAAATAAAAATAAT
Found at i:13762186 original size:44 final size:44
Alignment explanation
Indices: 13762132--13762376 Score: 157
Period size: 44 Copynumber: 5.5 Consensus size: 44
13762122 GATCTGCTCT
*
13762132 CTGCAACTTCAGAGAGATAAGATTCA-AGATTTTAATCCGCTCCA
1 CTGCAACTTCAGAGAGATAAGATT-ATAGACTTTAATCCGCTCCA
* * * * *
13762176 CTGCACCTTCAGGGAGAT-AGATTATCGGCTTTAATCTGCTCCA
1 CTGCAACTTCAGAGAGATAAGATTATAGACTTTAATCCGCTCCA
** *
13762219 CTGCAACTTCAGAGAGATAAGATT-T-GCCATCTTTTCGTCTGC-CTCA
1 CTGCAACTTCAGAGAGATAAGATTATAG--A-C-TTTAATCCGCTC-CA
* * * * *
13762265 CTGCAACTTTAG-GAGGATAAGACTTGCT-TAC-TTAGTCTGCTCCA
1 CTGCAACTTCAGAGA-GATAAGA-TT-ATAGACTTTAATCCGCTCCA
* * * *
13762309 CTGCAACTTCA-AGGAGATAGGATTATCGGCTTTAATCTGCTCCA
1 CTGCAACTTCAGA-GAGATAAGATTATAGACTTTAATCCGCTCCA
* *
13762353 CTGCAACTTCGGGGAGATAAGATT
1 CTGCAACTTCAGAGAGATAAGATT
13762377 CGTACGTTTG
Statistics
Matches: 161, Mismatches: 23, Indels: 34
0.74 0.11 0.16
Matches are distributed among these distances:
42 3 0.02
43 39 0.24
44 79 0.49
45 7 0.04
46 29 0.18
47 3 0.02
49 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (44 bp):
CTGCAACTTCAGAGAGATAAGATTATAGACTTTAATCCGCTCCA
Found at i:13762735 original size:44 final size:44
Alignment explanation
Indices: 13762685--13762796 Score: 154
Period size: 44 Copynumber: 2.5 Consensus size: 44
13762675 AACCTGCTCT
* * * *
13762685 CTGCAACTTTAGAGAGATAAGATCTA-TGGTTTTAATCCGCTCCA
1 CTGCAACTTCAGGGAGATAAGAT-TATTGGTTTTAATCCACTCAA
* *
13762729 CTGCAACTTCAGGGAGATAGGATTATTGGTTTTAATCTACTCAA
1 CTGCAACTTCAGGGAGATAAGATTATTGGTTTTAATCCACTCAA
13762773 CTGCAACTTCAGGGAGATAAGATT
1 CTGCAACTTCAGGGAGATAAGATT
13762797 CTCAATCTTC
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
43 2 0.03
44 58 0.97
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.31
Consensus pattern (44 bp):
CTGCAACTTCAGGGAGATAAGATTATTGGTTTTAATCCACTCAA
Found at i:13763183 original size:44 final size:44
Alignment explanation
Indices: 13763109--13763395 Score: 241
Period size: 44 Copynumber: 6.7 Consensus size: 44
13763099 ATCTGCTATT
* * * * *
13763109 TTCAACCTACTCCACTGCT-GCTTAGGGAGATAGGGTTCACGATC
1 TTCAACCTATTCCACTGCTAAC-CAGGGAGATAGGATTCACAATC
* * * *
13763153 TTCAACCTATTCCACTCCTAACCAGAGAGATAGCA-CCTACAATC
1 TTCAACCTATTCCACTGCTAACCAGGGAGATAGGATTC-ACAATC
* * ** * * *
13763197 TTCAATCTATTCCACTGATGCCCAGGGAGATAGAATTCTCAGTC
1 TTCAACCTATTCCACTGCTAACCAGGGAGATAGGATTCACAATC
* *
13763241 TTCAACCTATTCCACTGCTGACCAGGGAGGTAGGATTCACAATC
1 TTCAACCTATTCCACTGCTAACCAGGGAGATAGGATTCACAATC
* *
13763285 TTTAACCTATTCCACTGCTATCCAGGGAGAT-GAGATT--C--T-
1 TTCAACCTATTCCACTGCTAACCAGGGAGATAG-GATTCACAATC
* ** * *
13763324 TT-AATCTATTCCACTGCTGCCCAGGGAGATAGAATTCTCAATC
1 TTCAACCTATTCCACTGCTAACCAGGGAGATAGGATTCACAATC
* *
13763367 TTCAGCCTATTCCACTGCTGACCAGGGAG
1 TTCAACCTATTCCACTGCTAACCAGGGAG
13763396 GCAAGGCTGG
Statistics
Matches: 195, Mismatches: 37, Indels: 22
0.77 0.15 0.09
Matches are distributed among these distances:
38 28 0.14
39 3 0.02
40 2 0.01
42 2 0.01
43 4 0.02
44 154 0.79
45 2 0.01
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.28
Consensus pattern (44 bp):
TTCAACCTATTCCACTGCTAACCAGGGAGATAGGATTCACAATC
Found at i:13763870 original size:42 final size:42
Alignment explanation
Indices: 13763740--13763882 Score: 153
Period size: 42 Copynumber: 3.3 Consensus size: 42
13763730 TCCGCTGCTA
*
13763740 CTCAGGGAGATAAGGCTAGGGACTTCGATCTGCTCCACTACTG
1 CTCAGGGAGATAAGGCT-GGGACTTCAATCTGCTCCACTACTG
* * ** * * * *
13763783 CTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTG
1 CTCAGGGAGATAAG-GCTGGGA-CTTCAATCTGCTCCACTACTG
13763827 CTCAGGGAGAT-AGGCTGGGGACTTCAATCTGCTCCACTACTG
1 CTCAGGGAGATAAGGCT-GGGACTTCAATCTGCTCCACTACTG
*
13763869 CTTAGGGAGATAAG
1 CTCAGGGAGATAAG
13763883 ATCTGCAATC
Statistics
Matches: 78, Mismatches: 18, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
42 29 0.37
43 21 0.27
44 28 0.36
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (42 bp):
CTCAGGGAGATAAGGCTGGGACTTCAATCTGCTCCACTACTG
Found at i:13763875 original size:86 final size:87
Alignment explanation
Indices: 13763673--13763903 Score: 347
Period size: 86 Copynumber: 2.6 Consensus size: 87
13763663 AGACTAGTGT
* * * *
13763673 CTTCGATCTACTCCACTACTGCTTAAGGAGATAAGATCTGTAATTTTTTTAACCTACTCCGCTGC
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAA--TTTTCAACCTACTCCACTGC
13763738 TACTCAGGGAGATAAGGCTAGGGA
64 TACTCAGGGAGATAAGGCTAGGGA
*
13763762 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTG
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTA
*
13763827 CTCAGGGAGAT-AGGCTGGGGA
66 CTCAGGGAGATAAGGCTAGGGA
* * * *
13763848 CTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAATCTACT
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACT
13763904 TCGTTGTCAG
Statistics
Matches: 132, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
86 61 0.46
87 30 0.23
89 41 0.31
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (87 bp):
CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTA
CTCAGGGAGATAAGGCTAGGGA
Found at i:13765241 original size:15 final size:16
Alignment explanation
Indices: 13765206--13765235 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
13765196 TTGGCCTCTC
13765206 CTTTTTCTTTTT-TTA
1 CTTTTTCTTTTTCTTA
13765221 CTTTTTCTTTTTCTT
1 CTTTTTCTTTTTCTT
13765236 TTTTTTTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 12 0.86
16 2 0.14
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (16 bp):
CTTTTTCTTTTTCTTA
Found at i:13771640 original size:15 final size:14
Alignment explanation
Indices: 13771622--13771675 Score: 56
Period size: 15 Copynumber: 3.7 Consensus size: 14
13771612 TTCGTTTTAA
13771622 AAAAAATAAAATAAT
1 AAAAAATAAAA-AAT
*
13771637 AAAAATTATAAAAAT
1 AAAAAATA-AAAAAT
*
13771652 -AATAATAATAAAAT
1 AAAAAATAA-AAAAT
13771666 AAAAAATAAA
1 AAAAAATAAA
13771676 GCTTAAAGGG
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
13 1 0.03
14 11 0.34
15 17 0.53
16 3 0.09
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (14 bp):
AAAAAATAAAAAAT
Found at i:13771641 original size:9 final size:9
Alignment explanation
Indices: 13771619--13771675 Score: 55
Period size: 9 Copynumber: 6.4 Consensus size: 9
13771609 ATATTCGTTT
*
13771619 TAAAAAAAA
1 TAAAAATAA
13771628 T-AAAATAA
1 TAAAAATAA
*
13771636 TAAAAATTA
1 TAAAAATAA
13771645 TAAAAATAA
1 TAAAAATAA
*
13771654 TAATAATAA
1 TAAAAATAA
*
13771663 -AATAAAAAA
1 TAA-AAATAA
13771672 TAAA
1 TAAA
13771676 GCTTAAAGGG
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
8 9 0.23
9 28 0.72
10 2 0.05
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (9 bp):
TAAAAATAA
Found at i:13771657 original size:21 final size:21
Alignment explanation
Indices: 13771622--13771674 Score: 72
Period size: 23 Copynumber: 2.4 Consensus size: 21
13771612 TTCGTTTTAA
13771622 AAAAAATAA-AATAATAAAAATT
1 AAAAAATAATAATAAT-AAAA-T
13771644 ATAAAAATAATAATAATAAAAT
1 A-AAAAATAATAATAATAAAAT
13771666 AAAAAATAA
1 AAAAAATAA
13771675 AGCTTAAAGG
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
21 8 0.28
22 3 0.10
23 12 0.41
24 6 0.21
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (21 bp):
AAAAAATAATAATAATAAAAT
Found at i:13775375 original size:32 final size:31
Alignment explanation
Indices: 13775334--13775393 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 31
13775324 TTTTTAAAAA
13775334 TAAATTAGGGTTTAGAATTTTTTAA-AATTAAT
1 TAAATTAGGGTTTAG--TTTTTTAATAATTAAT
13775366 TAAATTAGGGTTTAGTTTTTTAATAATT
1 TAAATTAGGGTTTAGTTTTTTAATAATT
13775394 TGTGTGTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
30 8 0.30
31 4 0.15
32 15 0.56
ACGTcount: A:0.37, C:0.00, G:0.13, T:0.50
Consensus pattern (31 bp):
TAAATTAGGGTTTAGTTTTTTAATAATTAAT
Found at i:13775392 original size:27 final size:28
Alignment explanation
Indices: 13775323--13775393 Score: 83
Period size: 32 Copynumber: 2.5 Consensus size: 28
13775313 GTTTAATAAT
*
13775323 TTTTTTAA-AAATAAATTAGGGTTTAGAA
1 TTTTTTAATAATTAAATTAGGGTTTAG-A
13775351 TTTTTTAAAATTAATTAAATTAGGGTTTAG-
1 TTTTTT--AA-TAATTAAATTAGGGTTTAGA
13775381 TTTTTTAATAATT
1 TTTTTTAATAATT
13775394 TGTGTGTTTA
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
27 5 0.13
28 8 0.21
30 8 0.21
32 17 0.45
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (28 bp):
TTTTTTAATAATTAAATTAGGGTTTAGA
Found at i:13777523 original size:29 final size:30
Alignment explanation
Indices: 13777462--13777524 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 30
13777452 GGCTATTATA
*
13777462 AAAAAAATATAAAATTAAAATTACATAAAT
1 AAAAAAATATAAAATTAAAATTACAAAAAT
* *
13777492 AAAAAAATATTAAA-TAATATT-CAAAAAT
1 AAAAAAATATAAAATTAAAATTACAAAAAT
*
13777520 TAAAA
1 AAAAA
13777525 TTAACCCTTG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 10 0.34
29 6 0.21
30 13 0.45
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (30 bp):
AAAAAAATATAAAATTAAAATTACAAAAAT
Done.