Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 52 of 279
Found at i:17398088 original size:47 final size:47
Alignment explanation
Indices: 17398027--17398858 Score: 1655
Period size: 47 Copynumber: 17.7 Consensus size: 47
17398017 ATCCATGAGT
*
17398027 GAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
17398074 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
17398121 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
17398168 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
17398215 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
17398262 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
17398309 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
17398356 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
17398403 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
17398450 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
17398497 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
17398544 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
17398591 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
17398638 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
17398685 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
17398732 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
17398779 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
17398826 GAACTCGGACTCAACTCAACGAGTTCGGATGCC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCC
17398859 CAAACATCCT
Statistics
Matches: 784, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 784 1.00
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:17401291 original size:15 final size:15
Alignment explanation
Indices: 17401267--17401344 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
17401257 AGAAAACCGA
17401267 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
*
17401282 ATAGAGAAATCC-AG
1 ATAAAGAAATCCAAG
*
17401296 AATAAAGAATTCC-AG
1 -ATAAAGAAATCCAAG
* *
17401311 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
17401327 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
17401342 ATA
1 ATA
17401345 TGATACTATG
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
14 2 0.04
15 49 0.94
16 1 0.02
ACGTcount: A:0.55, C:0.14, G:0.17, T:0.14
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:17401300 original size:30 final size:30
Alignment explanation
Indices: 17401256--17401344 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
17401246 CAAAGATAAC
*
17401256 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAATCCAGAATAAAGAAATCCAAGATA
* *
17401285 GAGAAATCCAGAATAAAGAATTCC-AGAATA
1 AAGAAATCCAGAATAAAGAAATCCAAG-ATA
* * *
17401315 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAATCCAGAATAAAGAAATCCAAGATA
17401345 TGATACTATG
Statistics
Matches: 49, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
29 9 0.18
30 38 0.78
31 2 0.04
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (30 bp):
AAGAAATCCAGAATAAAGAAATCCAAGATA
Found at i:17404338 original size:47 final size:47
Alignment explanation
Indices: 17404277--17405108 Score: 1664
Period size: 47 Copynumber: 17.7 Consensus size: 47
17404267 ATCCATGAGT
17404277 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
17404324 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
17404371 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
17404418 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
17404465 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
17404512 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
17404559 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
17404606 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
17404653 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
17404700 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
17404747 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
17404794 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
17404841 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
17404888 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
17404935 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
17404982 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
17405029 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
17405076 GAACTCGGACTCAACTCAACGAGTTCGGATGCC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCC
17405109 CAAACATCCT
Statistics
Matches: 785, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 785 1.00
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:17406653 original size:6 final size:5
Alignment explanation
Indices: 17406629--17406685 Score: 53
Period size: 5 Copynumber: 11.0 Consensus size: 5
17406619 ACGAGAAAAC
* * *
17406629 AAAGA AAAGA AAAGAA AAAGCA AAAGA AGA-A AAAGA AAACA AAATAA
1 AAAGA AAAGA AAAG-A AAAG-A AAAGA AAAGA AAAGA AAAGA AAA-GA
17406676 AAAGA AAAGA
1 AAAGA AAAGA
17406686 GAGGCAAAAG
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
4 3 0.07
5 26 0.60
6 14 0.33
ACGTcount: A:0.79, C:0.04, G:0.16, T:0.02
Consensus pattern (5 bp):
AAAGA
Found at i:17406678 original size:25 final size:25
Alignment explanation
Indices: 17406633--17406681 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
17406623 GAAAACAAAG
*
17406633 AAAAGAAAAGAAAAAGCAAAAGAAGA
1 AAAAGAAAACAAAAA-CAAAAGAAGA
17406659 AAAAGAAAACAAAATA-AAAAGAA
1 AAAAGAAAACAAAA-ACAAAAGAA
17406682 AAGAGAGGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 7 0.33
26 13 0.62
27 1 0.05
ACGTcount: A:0.80, C:0.04, G:0.14, T:0.02
Consensus pattern (25 bp):
AAAAGAAAACAAAAACAAAAGAAGA
Found at i:17406764 original size:13 final size:12
Alignment explanation
Indices: 17406733--17406764 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
17406723 TTGAAAGAAC
*
17406733 TTGAAAAGGCCT
1 TTGAAAAAGCCT
17406745 TTGAAAAAGCCT
1 TTGAAAAAGCCT
17406757 TTGAAAAA
1 TTGAAAAA
17406765 CAAAAATAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.44, C:0.12, G:0.19, T:0.25
Consensus pattern (12 bp):
TTGAAAAAGCCT
Found at i:17408132 original size:22 final size:22
Alignment explanation
Indices: 17408104--17408149 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
17408094 GTGTTTAACC
17408104 TTCATCAAGTCACTAATTTGTT
1 TTCATCAAGTCACTAATTTGTT
17408126 TTCATCAAGTCACTAATTTGTT
1 TTCATCAAGTCACTAATTTGTT
17408148 TT
1 TT
17408150 ACTCTTTTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.26, C:0.17, G:0.09, T:0.48
Consensus pattern (22 bp):
TTCATCAAGTCACTAATTTGTT
Found at i:17418446 original size:79 final size:81
Alignment explanation
Indices: 17418343--17418524 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
17418333 GGTCCTCGTT
* *
17418343 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTC-GGATCTTAACC
* *
17418405 CGGATTTAGTAAC-TCGCA
63 CGGATATAGTAACTTAGCA
**
17418423 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
17418487 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
17418503 CAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
17418525 AGACATCATT
Statistics
Matches: 89, Mismatches: 8, Indels: 10
0.83 0.07 0.09
Matches are distributed among these distances:
78 5 0.06
79 53 0.60
80 31 0.35
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:17418460 original size:39 final size:40
Alignment explanation
Indices: 17418343--17418524 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
17418333 GGTCCTCGTT
*
17418343 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGT-ATCTCGCA
* *
17418383 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTATCTCGCA
*
17418423 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTATCTCGCA
* * * *
17418462 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-ATC-TCGCA
17418503 CAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
17418525 AGACATCATT
Statistics
Matches: 123, Mismatches: 12, Indels: 14
0.83 0.08 0.09
Matches are distributed among these distances:
38 2 0.02
39 34 0.28
40 73 0.59
41 14 0.11
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTATCTCGCA
Found at i:17426316 original size:79 final size:81
Alignment explanation
Indices: 17426214--17426398 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 81
17426204 GGTCCTCGTT
* *
17426214 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTC-GGATCTTAACC
* *
17426276 CGGATTTAGTAAC-TCGCA
63 CGGATATAGTAACTTAGCA
**
17426294 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
17426358 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
17426374 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
17426399 CATCATTCAA
Statistics
Matches: 92, Mismatches: 8, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
78 5 0.05
79 53 0.58
80 34 0.37
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:17426398 original size:40 final size:40
Alignment explanation
Indices: 17426214--17426398 Score: 211
Period size: 40 Copynumber: 4.7 Consensus size: 40
17426204 GGTCCTCGTT
* * *
17426214 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTACTTCGCA
* *
17426254 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAAC-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGT-ACTTCGCA
17426294 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTA-TCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTACT-TCGCA
* * *
17426333 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGT-ACTTCGCA
17426374 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
17426399 CATCATTCAA
Statistics
Matches: 124, Mismatches: 11, Indels: 20
0.80 0.07 0.13
Matches are distributed among these distances:
38 3 0.02
39 30 0.24
40 76 0.61
41 14 0.11
42 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTACTTCGCA
Found at i:17430715 original size:70 final size:70
Alignment explanation
Indices: 17430639--17430777 Score: 260
Period size: 70 Copynumber: 2.0 Consensus size: 70
17430629 CCCAAGGTGA
17430639 GAAACTTGGTCGAGCAAAACCTCTATCCGTCAATCCTTGCAACTAAGCTTTCAACTCTTTTAACT
1 GAAACTTGGTCGAGCAAAACCTCTATCCGTCAATCCTTGCAACTAAGCTTTCAACTCTTTTAACT
17430704 CGGTT
66 CGGTT
* *
17430709 GAAACTTGGTCGAGCAAAACCTCTATCCGTCAATTCTTGCAACTGAGCTTTCAACTCTTTTAACT
1 GAAACTTGGTCGAGCAAAACCTCTATCCGTCAATCCTTGCAACTAAGCTTTCAACTCTTTTAACT
17430774 CGGT
66 CGGT
17430778 CAAATCATCG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 67 1.00
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.32
Consensus pattern (70 bp):
GAAACTTGGTCGAGCAAAACCTCTATCCGTCAATCCTTGCAACTAAGCTTTCAACTCTTTTAACT
CGGTT
Found at i:17431413 original size:115 final size:115
Alignment explanation
Indices: 17431211--17431441 Score: 435
Period size: 115 Copynumber: 2.0 Consensus size: 115
17431201 CATTGCTGAT
17431211 ATTACAGCTGGCATCCCCTCCAAGTCCGTAGACTCAACTCAGATTACTTCGTTATTTGCGCACCT
1 ATTACAGCTGGCATCCCCTCCAAGTCCGTAGACTCAACTCAGATTACTTCGTTATTTGCGCACCT
17431276 CAAATCAATAGTCTTGCTTTTGCAATTCACAACCGCATCATGCGCGGTCA
66 CAAATCAATAGTCTTGCTTTTGCAATTCACAACCGCATCATGCGCGGTCA
*
17431326 ATTACAGCTGGCATCCCCTCCAAGTCCGTAGACTCGACTCAGATTACTTCGTTATTTGCGCACCT
1 ATTACAGCTGGCATCCCCTCCAAGTCCGTAGACTCAACTCAGATTACTTCGTTATTTGCGCACCT
* *
17431391 CAAATCAATAGTCTTGCTTTTGCAATTCACATCCGTATCATGCGCGGTCA
66 CAAATCAATAGTCTTGCTTTTGCAATTCACAACCGCATCATGCGCGGTCA
17431441 A
1 A
17431442 CCAATCCAAA
Statistics
Matches: 113, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
115 113 1.00
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.29
Consensus pattern (115 bp):
ATTACAGCTGGCATCCCCTCCAAGTCCGTAGACTCAACTCAGATTACTTCGTTATTTGCGCACCT
CAAATCAATAGTCTTGCTTTTGCAATTCACAACCGCATCATGCGCGGTCA
Found at i:17432504 original size:69 final size:69
Alignment explanation
Indices: 17432418--17432555 Score: 267
Period size: 69 Copynumber: 2.0 Consensus size: 69
17432408 AGTAACCGAC
*
17432418 ATGGAACCTTGCTTAAGCTCAAGAAATTCCTTCCGTTTTTGATCAACAAATCTCTGACTGATATA
1 ATGGAACCTTGCTTAAGCTCAAGAAATTCCTTCCCTTTTTGATCAACAAATCTCTGACTGATATA
17432483 CTTT
66 CTTT
17432487 ATGGAACCTTGCTTAAGCTCAAGAAATTCCTTCCCTTTTTGATCAACAAATCTCTGACTGATATA
1 ATGGAACCTTGCTTAAGCTCAAGAAATTCCTTCCCTTTTTGATCAACAAATCTCTGACTGATATA
17432552 CTTT
66 CTTT
17432556 TTCTGAAACT
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 68 1.00
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.36
Consensus pattern (69 bp):
ATGGAACCTTGCTTAAGCTCAAGAAATTCCTTCCCTTTTTGATCAACAAATCTCTGACTGATATA
CTTT
Found at i:17436385 original size:37 final size:36
Alignment explanation
Indices: 17436329--17436411 Score: 139
Period size: 37 Copynumber: 2.3 Consensus size: 36
17436319 CCCTTACCAG
17436329 CCAACACACCTATGGGATATCAATCAACCCACCCAA
1 CCAACACACCTATGGGATATCAATCAACCCACCCAA
* *
17436365 CCAGCACACCTGTGGGGATATCAATCAACCCACCCAA
1 CCAACACACCTAT-GGGATATCAATCAACCCACCCAA
17436402 CCAACACACC
1 CCAACACACC
17436412 AATATCGCAG
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
36 11 0.26
37 32 0.74
ACGTcount: A:0.36, C:0.41, G:0.11, T:0.12
Consensus pattern (36 bp):
CCAACACACCTATGGGATATCAATCAACCCACCCAA
Found at i:17436448 original size:26 final size:26
Alignment explanation
Indices: 17436412--17436462 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
17436402 CCAACACACC
* *
17436412 AATATCGCAGCACAGCTGGCAGTAAT
1 AATATCACAGCACAGCTGCCAGTAAT
*
17436438 AATATCACAGCATAGCTGCCAGTAA
1 AATATCACAGCACAGCTGCCAGTAA
17436463 CAGTAAGTGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.37, C:0.24, G:0.20, T:0.20
Consensus pattern (26 bp):
AATATCACAGCACAGCTGCCAGTAAT
Found at i:17449245 original size:40 final size:41
Alignment explanation
Indices: 17449188--17449403 Score: 252
Period size: 40 Copynumber: 5.4 Consensus size: 41
17449178 GATGATAACG
*
17449188 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAAT-TCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTAATATCC
* * *
17449228 GAGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTAAT-TCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTAATATCC
17449268 GGGCTAAGTCCCGAAGGCATTTGTG-TGAGTTACT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCT-AGTTACTAATATCC
**
17449308 GGGCTAAGTCCCGAAGGCATTTGT-CTGAACTACT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCT-AGTTACTAATATCC
* *
17449348 GGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTTA-CTAATATCC
* *
17449388 -GGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
17449404 TACTTGGTTT
Statistics
Matches: 157, Mismatches: 14, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
39 18 0.11
40 138 0.88
41 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.26
Consensus pattern (41 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTAATATCC
Found at i:17452466 original size:42 final size:42
Alignment explanation
Indices: 17452413--17452531 Score: 136
Period size: 42 Copynumber: 2.8 Consensus size: 42
17452403 TCAAACATTA
*
17452413 ATGCCACTGTCCCAGACAGGGTCTTACACGAAATTAGATA-CG
1 ATGCCAATGTCCCAGACAGGGTCTTACACGAAATTAGA-AGCG
* *
17452455 ATGCCAATGTCCCAGACATGGTCTTA-ACGTAAAATAGAAGTCG
1 ATGCCAATGTCCCAGACAGGGTCTTACACG-AAATTAGAAG-CG
**
17452498 ATGCCAACATCCCAGAC-GTGGTCTTACACGAAAT
1 ATGCCAATGTCCCAGACAG-GGTCTTACACGAAAT
17452532 CACATATCAG
Statistics
Matches: 65, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
41 4 0.06
42 31 0.48
43 27 0.42
44 3 0.05
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.22
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACAGGGTCTTACACGAAATTAGAAGCG
Found at i:17452514 original size:43 final size:42
Alignment explanation
Indices: 17452422--17452530 Score: 132
Period size: 43 Copynumber: 2.6 Consensus size: 42
17452412 AATGCCACTG
* * **
17452422 TCCCAGACAGGGTCTTACACGAAATTAGATACGATGCCAATG
1 TCCCAGACATGGTCTTACACGAAAATAGATACGATGCCAACA
17452464 TCCCAGACATGGTCTTA-ACGTAAAATAGA-AGTCGATGCCAACA
1 TCCCAGACATGGTCTTACACG-AAAATAGATA--CGATGCCAACA
*
17452507 TCCCAGACGTGGTCTTACACGAAA
1 TCCCAGACATGGTCTTACACGAAA
17452531 TCACATATCA
Statistics
Matches: 58, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
41 4 0.07
42 23 0.40
43 28 0.48
44 3 0.05
ACGTcount: A:0.34, C:0.25, G:0.20, T:0.21
Consensus pattern (42 bp):
TCCCAGACATGGTCTTACACGAAAATAGATACGATGCCAACA
Found at i:17464274 original size:27 final size:27
Alignment explanation
Indices: 17464244--17464296 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
17464234 CCCTATTTAA
17464244 TAAAATGACTATTTTGCCCCTATATGG
1 TAAAATGACTATTTTGCCCCTATATGG
*
17464271 TAAAATGATTATTTTGCCCCTATATG
1 TAAAATGACTATTTTGCCCCTATATG
17464297 ATGTATGGCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (27 bp):
TAAAATGACTATTTTGCCCCTATATGG
Found at i:17479200 original size:43 final size:43
Alignment explanation
Indices: 17478901--17479185 Score: 381
Period size: 43 Copynumber: 6.6 Consensus size: 43
17478891 ATATCATACA
* *** * *
17478901 ATGCCAACGTCCTAGATAAGGTCTTACATGTAATCACAAATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
*
17478944 ATGCCAACGTCCCAGACGTGGTTTTACACGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
* * * *
17478987 ATGCCAACATCCTAGATGTGGCCTTACACGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
* *
17479030 ATGCCAACGTCCCAGATGTGGTCTTACACGTAATCATATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
* * *
17479073 ATGCCAACGTCCTAGACGTGGTCTTACACATAATCACACATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
* * * *
17479116 ATGCTAATGTCCCAGACGTGGTCTTACACGTAATAACATATCA
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
*
17479159 ATGCCAACGTCCCAGACGTGGCCTTAC
1 ATGCCAACGTCCCAGACGTGGTCTTAC
17479186 TCGCACACAC
Statistics
Matches: 211, Mismatches: 31, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 211 1.00
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
Found at i:17482238 original size:27 final size:26
Alignment explanation
Indices: 17482201--17482314 Score: 122
Period size: 27 Copynumber: 4.2 Consensus size: 26
17482191 GCGTGACTGG
* * *
17482201 CAGATCAGATATTGTGACAGAGTCAC
1 CAGAACAGATATTGTGGCAGAGCCAC
* *
17482227 CAGATATAGATATTATGGCAGAGCCAC
1 CAGA-ACAGATATTGTGGCAGAGCCAC
*
17482254 CAGAACAGATATTTGTGGCATAGCCAC
1 CAGAACAGATA-TTGTGGCAGAGCCAC
17482281 CAGAAACAGATATTTGTGGCATG-GCCAC
1 CAG-AACAGATA-TTGTGGCA-GAGCCAC
17482309 CAGAAC
1 CAGAAC
17482315 GCTTCCTTCA
Statistics
Matches: 75, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
26 10 0.13
27 40 0.53
28 25 0.33
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (26 bp):
CAGAACAGATATTGTGGCAGAGCCAC
Found at i:17485759 original size:17 final size:18
Alignment explanation
Indices: 17485737--17485770 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
17485727 ACTGGGTCGT
17485737 GTGGGCCCCA-AGGGTAC
1 GTGGGCCCCATAGGGTAC
*
17485754 GTGGGCCTCATAGGGTA
1 GTGGGCCCCATAGGGTA
17485771 AACCACACTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.18, C:0.24, G:0.41, T:0.18
Consensus pattern (18 bp):
GTGGGCCCCATAGGGTAC
Found at i:17489340 original size:27 final size:27
Alignment explanation
Indices: 17489310--17489367 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 27
17489300 TTCTACCCTA
* *
17489310 CAAATCAGGGGTGTTTCTG-TAATTTTC
1 CAAATCAAGGGTATTTC-GATAATTTTC
17489337 CAAATCAAGGGTATTTCGATAATTTTC
1 CAAATCAAGGGTATTTCGATAATTTTC
17489364 CAAA
1 CAAA
17489368 ACACCCTTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 1 0.04
27 27 0.96
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.36
Consensus pattern (27 bp):
CAAATCAAGGGTATTTCGATAATTTTC
Found at i:17489671 original size:41 final size:41
Alignment explanation
Indices: 17489614--17489816 Score: 370
Period size: 41 Copynumber: 5.0 Consensus size: 41
17489604 GGAGAAAGAA
17489614 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
1 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
17489655 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
1 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
17489696 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
1 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
*
17489737 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCA
1 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
* * *
17489778 ATTAAGGATCGCATGGTTGCTTGATGATCGTGGATCCAC
1 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCAC
17489817 TGGTGGCTTT
Statistics
Matches: 158, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 158 1.00
ACGTcount: A:0.21, C:0.23, G:0.31, T:0.26
Consensus pattern (41 bp):
ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
Found at i:17490012 original size:22 final size:22
Alignment explanation
Indices: 17489960--17490015 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
17489950 GCCAATTATT
*
17489960 CTGATTATGGCTTTGGGCCAAC
1 CTGATTATGGCTCTGGGCCAAC
* *
17489982 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGGGCCAAC
17490004 CTGATTATGGCT
1 CTGATTATGGCT
17490016 TTATGGATGA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
21 1 0.04
22 26 0.93
23 1 0.04
ACGTcount: A:0.20, C:0.25, G:0.23, T:0.32
Consensus pattern (22 bp):
CTGATTATGGCTCTGGGCCAAC
Found at i:17490211 original size:22 final size:22
Alignment explanation
Indices: 17490186--17490235 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
17490176 TGCTGCAATG
* *
17490186 TTTATGGCTATGTGCTATCCTA
1 TTTACGGCTATATGCTATCCTA
* *
17490208 TTTACGGCTATATGCTGTCTTA
1 TTTACGGCTATATGCTATCCTA
17490230 TTTACG
1 TTTACG
17490236 ACCTTGAGCT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.18, C:0.18, G:0.18, T:0.46
Consensus pattern (22 bp):
TTTACGGCTATATGCTATCCTA
Found at i:17492498 original size:48 final size:48
Alignment explanation
Indices: 17492368--17492640 Score: 229
Period size: 48 Copynumber: 5.7 Consensus size: 48
17492358 GGGTTGATGA
* * * * *** *
17492368 GATCCCATATAAGACCATATTTGGGATATGGCATCATCATCGATATAT
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT
*
17492416 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGTTATGT
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT
* *
17492464 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGTATTGATATG-
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT
* * * * *
17492511 AATACATCGTGTAAGACCATAGT-TGGG-CTATCGGC-TTCG-AT--ATGTGT
1 GAT-C-CCATGTAAGACCAT-GTCTGGGAC-AT-GGCATTGGCATCGATATGT
* * *
17492558 GATCCCATGTAAGACCATGTTTGGGACAAGGCATTGGCATCAATATGT
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT
* * * *
17492606 G-GCTCCATGTAAAACCATATCTGGGATATGGCATT
1 GATC-CCATGTAAGACCATGTCTGGGACATGGCATT
17492641 AGTACCCTAC
Statistics
Matches: 183, Mismatches: 29, Indels: 26
0.77 0.12 0.11
Matches are distributed among these distances:
44 5 0.03
45 20 0.11
46 8 0.04
47 5 0.03
48 119 0.65
49 21 0.11
50 5 0.03
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (48 bp):
GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT
Found at i:17497808 original size:95 final size:95
Alignment explanation
Indices: 17497645--17497821 Score: 354
Period size: 95 Copynumber: 1.9 Consensus size: 95
17497635 CCTTGTTAAG
17497645 CATATCCATACCAAATGATTATAACATTATGCTCAAACATATATAAGCCATTTTCGCATGGCTAT
1 CATATCCATACCAAATGATTATAACATTATGCTCAAACATATATAAGCCATTTTCGCATGGCTAT
17497710 CCAAAATTATACAAATCACCTCTCAATAAC
66 CCAAAATTATACAAATCACCTCTCAATAAC
17497740 CATATCCATACCAAATGATTATAACATTATGCTCAAACATATATAAGCCATTTTCGCATGGCTAT
1 CATATCCATACCAAATGATTATAACATTATGCTCAAACATATATAAGCCATTTTCGCATGGCTAT
17497805 CCAAAATTATACAAATC
66 CCAAAATTATACAAATC
17497822 CAAAGGGTAC
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
95 82 1.00
ACGTcount: A:0.40, C:0.23, G:0.07, T:0.30
Consensus pattern (95 bp):
CATATCCATACCAAATGATTATAACATTATGCTCAAACATATATAAGCCATTTTCGCATGGCTAT
CCAAAATTATACAAATCACCTCTCAATAAC
Found at i:17498875 original size:47 final size:47
Alignment explanation
Indices: 17498803--17499348 Score: 950
Period size: 47 Copynumber: 11.6 Consensus size: 47
17498793 CCCTTCGGGA
* * * * * *
17498803 CTTATTACATTTATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
17498850 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATCGGCCATTAGGC
* *
17498897 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17498946 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17498993 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17499040 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17499087 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17499134 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17499181 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17499228 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17499275 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17499322 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
17499349 TATTCAAATA
Statistics
Matches: 485, Mismatches: 10, Indels: 8
0.96 0.02 0.02
Matches are distributed among these distances:
46 1 0.00
47 439 0.91
49 44 0.09
50 1 0.00
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:17500876 original size:56 final size:56
Alignment explanation
Indices: 17500809--17500925 Score: 225
Period size: 56 Copynumber: 2.1 Consensus size: 56
17500799 TAGTTTATTA
17500809 CCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTTTTG
1 CCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTTTTG
*
17500865 CCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTTTTG
1 CCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTTTTG
17500921 CCCAT
1 CCCAT
17500926 CATCCCTTGT
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 60 1.00
ACGTcount: A:0.23, C:0.24, G:0.09, T:0.44
Consensus pattern (56 bp):
CCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTTTTG
Found at i:17501531 original size:38 final size:38
Alignment explanation
Indices: 17501467--17501541 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
17501457 AATCCGAGTT
*
17501467 TAAAGACCCGCTGACTATATGAAGAGATTATGTCCGGG
1 TAAAGACCCGATGACTATATGAAGAGATTATGTCCGGG
* *
17501505 TAAAGACCCGATGGCTATGT-ACAGAGATTATGTCCGG
1 TAAAGACCCGATGACTATATGA-AGAGATTATGTCCGG
17501542 ATTAAAATTC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 1 0.03
38 32 0.97
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.24
Consensus pattern (38 bp):
TAAAGACCCGATGACTATATGAAGAGATTATGTCCGGG
Found at i:17501654 original size:40 final size:40
Alignment explanation
Indices: 17501595--17501835 Score: 358
Period size: 40 Copynumber: 6.0 Consensus size: 40
17501585 AGGTCTCGAC
17501595 GATG-ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
*
17501634 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* *
17501674 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
*
17501714 GATATATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* * * *
17501754 GATGTATCCGGGCTAAGTTCTGAAGAGCATTCGTGCTGGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* * * * *
17501794 GTTATATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
17501834 GA
1 GA
17501836 CGTGTATTCG
Statistics
Matches: 183, Mismatches: 18, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
39 4 0.02
40 179 0.98
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
Found at i:17503070 original size:27 final size:27
Alignment explanation
Indices: 17503015--17503070 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
17503005 CTAACAAGGT
**
17503015 AGGAGAAGGTTGTAGTAGAAAAGGGAA
1 AGGAGAAGGTTGTAGTAGAAAAGAAAA
17503042 AGGAGAAGGTTGTAGTAGAAAAGAAAA
1 AGGAGAAGGTTGTAGTAGAAAAGAAAA
17503069 AG
1 AG
17503071 AGCAAATTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.38, T:0.14
Consensus pattern (27 bp):
AGGAGAAGGTTGTAGTAGAAAAGAAAA
Found at i:17504856 original size:35 final size:35
Alignment explanation
Indices: 17504810--17504879 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 35
17504800 CTTTGATATG
* * *
17504810 TTTAAAATTTCCAAGAGATTGGTGATCACTCTTTC
1 TTTAAAATTTCCAAAAGATTGATGATCACTATTTC
17504845 TTTAAAATTTCCAAAAGATTGATGATCACTATTTC
1 TTTAAAATTTCCAAAAGATTGATGATCACTATTTC
17504880 CCTTGTCACT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.33, C:0.16, G:0.11, T:0.40
Consensus pattern (35 bp):
TTTAAAATTTCCAAAAGATTGATGATCACTATTTC
Found at i:17519702 original size:52 final size:54
Alignment explanation
Indices: 17519596--17519704 Score: 186
Period size: 52 Copynumber: 2.0 Consensus size: 54
17519586 GTATTCATCC
*
17519596 TCCATTAAAATTTTATGGGTGCAAAAAGAAGGACTGATCCCTCTAATGTCAGAAA
1 TCCATTAAAATTTTATAGGTGC-AAAAGAAGGACTGATCCCTCTAATGTCAGAAA
17519651 TCCATTAAAATTTTATAGGTGC-AAA-AAGGACTGATCCCTCTAATGTCAGAAA
1 TCCATTAAAATTTTATAGGTGCAAAAGAAGGACTGATCCCTCTAATGTCAGAAA
17519703 TC
1 TC
17519705 TTCCAAGCTA
Statistics
Matches: 53, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
52 29 0.55
53 3 0.06
55 21 0.40
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (54 bp):
TCCATTAAAATTTTATAGGTGCAAAAGAAGGACTGATCCCTCTAATGTCAGAAA
Found at i:17522595 original size:14 final size:14
Alignment explanation
Indices: 17522576--17522606 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
17522566 ATGATTGTTT
*
17522576 TAATCTAAATTTAC
1 TAATCTAAATTAAC
17522590 TAATCTAAATTAAC
1 TAATCTAAATTAAC
17522604 TAA
1 TAA
17522607 GAACATGACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.39
Consensus pattern (14 bp):
TAATCTAAATTAAC
Found at i:17524473 original size:46 final size:46
Alignment explanation
Indices: 17524423--17524595 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
17524413 TGGTTGAGCA
*
17524423 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * *
17524469 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
*
17524516 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
17524562 -CCTGAGCTTGTTGAGTTGAGTCTGAGTTCACTTA
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
17524596 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 15, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
43 5 0.05
45 5 0.05
46 58 0.56
47 29 0.28
48 3 0.03
50 4 0.04
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:17524579 original size:93 final size:93
Alignment explanation
Indices: 17524420--17524590 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
17524410 GGATGGTTGA
*
17524420 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAGT
17524485 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* * *
17524513 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTTGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCC-GAACTCGTTGAG
*
17524577 TTGAGTCTGAGTTC
65 TTGAGTCCGAGTTC
17524591 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:17526281 original size:40 final size:40
Alignment explanation
Indices: 17526226--17527197 Score: 1781
Period size: 40 Copynumber: 24.3 Consensus size: 40
17526216 AAGGGCGTGT
17526226 GCCCGGATACATCACTAGCACGAATGCTCTT-CGGGACTTA
1 GCCCGGATACATCACTAGCACGAATGCT-TTACGGGACTTA
* ***
17526266 GCCCGGATACATCACTAGCACAAATGCTTTTTAGGACTTA
1 GCCCGGATACATCACTAGCACGAATGCTTTACGGGACTTA
17526306 GCCCGGATACATCACTAGCACGAATGCTCTT-CGGGACTTA
1 GCCCGGATACATCACTAGCACGAATGCT-TTACGGGACTTA
* ***
17526346 GCCCGGATACATCACTAGCACAAATGCTTTTTAGGACTTA
1 GCCCGGATACATCACTAGCACGAATGCTTTACGGGACTTA
17526386 GCCCGGATACATCACTAGCACGAATGCTTTACGGGACTTA
1 GCCCGGATACATCACTAGCACGAATGCTTTACGGGACTTA
17526426 GCCCGGATACATCACTAGCACGAATGCTTTACGGGACTTA
1 GCCCGGATACATCACTAGCACGAATGCTTTACGGGACTTA
17526466 GCCCGGATACATCACTAGCACGAATGCTTTACGGGACTTA
1 GCCCGGATACATCACTAGCACGAATGCTTTACGGGACTTA
17526506 GCCCGGATACATCACTAGCACGAATGCTTTACGGGACTTA
1 GCCCGGATACATCACTAGCACGAATGCTTTACGGGACTTA
17526546 GCCCGGATACATCACTAGCACGAATGCTTTACGGGACTTA
1 GCCCGGATACATCACTAGCACGAATGCTTTACGGGACTTA
17526586 GCCCGGATACATCACTAGCACGAATGCTTTACGGGACTTA
1 GCCCGGATACATCACTAGCACGAATGCTTTACGGGACTTA
17526626 GCCCGGATACATCACTAGCACGAATGCTTTACGGGACTTA
1 GCCCGGATACATCACTAGCACGAATGCTTTACGGGACTTA
17526666 GCCCGGATACATCACTAGCACGAATGCTTTACGGGACTTA
1 GCCCGGATACATCACTAGCACGAATGCTTTACGGGACTTA
17526706 GCCCGGATACATCACTAGCACGAATGCTTTACGGGACTTA
1 GCCCGGATACATCACTAGCACGAATGCTTTACGGGACTTA
17526746 GCCCGGATACATCACTAGCACGAATGCTTTACGGGACTTA
1 GCCCGGATACATCACTAGCACGAATGCTTTACGGGACTTA
17526786 GCCCGGATACATCACTAGCACGAATGCTTTACGGGACTTA
1 GCCCGGATACATCACTAGCACGAATGCTTTACGGGACTTA
17526826 GCCCGGATACATCACTAGCACGAATGCTTTACGGGACTTA
1 GCCCGGATACATCACTAGCACGAATGCTTTACGGGACTTA
17526866 GCCCGGATACATCACTAGCACGAATGCTTTACGGGACTTA
1 GCCCGGATACATCACTAGCACGAATGCTTTACGGGACTTA
17526906 GCCCGGATACATCACTAGCACGAATGCTTTACGGGACTTA
1 GCCCGGATACATCACTAGCACGAATGCTTTACGGGACTTA
17526946 GCCCGGATACATCACTAGCACGAATGCTTTACGGGACTTA
1 GCCCGGATACATCACTAGCACGAATGCTTTACGGGACTTA
17526986 GCCCGGATACATCACTAGCACGAATGCTTTACGGGACTTA
1 GCCCGGATACATCACTAGCACGAATGCTTTACGGGACTTA
17527026 GCCCGGATACATCACTAGCACGAATGCTTTACGGGACTTA
1 GCCCGGATACATCACTAGCACGAATGCTTTACGGGACTTA
17527066 GCCCGGATACATCACTAGCACGAATGCTTTACGGGACTTA
1 GCCCGGATACATCACTAGCACGAATGCTTTACGGGACTTA
* *
17527106 GCCCGGATACATCACTAGCATGAATGCTCTT-TGGGACTTA
1 GCCCGGATACATCACTAGCACGAATGCT-TTACGGGACTTA
17527146 GCCCGGATACATCACTAGCACGAATGCTCTT-CGGGACTTA
1 GCCCGGATACATCACTAGCACGAATGCT-TTACGGGACTTA
*
17527186 GCCAGGATACAT
1 GCCCGGATACAT
17527198 TCGAATAATC
Statistics
Matches: 910, Mismatches: 18, Indels: 8
0.97 0.02 0.01
Matches are distributed among these distances:
39 4 0.00
40 902 0.99
41 4 0.00
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.23
Consensus pattern (40 bp):
GCCCGGATACATCACTAGCACGAATGCTTTACGGGACTTA
Found at i:17528953 original size:46 final size:46
Alignment explanation
Indices: 17528900--17528990 Score: 146
Period size: 46 Copynumber: 2.0 Consensus size: 46
17528890 TATATATACA
* *
17528900 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATCTCACATTAGCCATTCGGCTTTACCACATATC
* *
17528946 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
1 CATCTCATACACATCTCACATTAGCCATTCGGCTTTACCACATAT
17528991 ATATACACTT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.27, C:0.31, G:0.08, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATCTCACATTAGCCATTCGGCTTTACCACATATC
Found at i:17529037 original size:22 final size:22
Alignment explanation
Indices: 17529009--17529130 Score: 67
Period size: 22 Copynumber: 5.3 Consensus size: 22
17528999 TTCCACGTTC
17529009 ATCACATTGGCCATTCTGCCTT
1 ATCACATTGGCCATTCTGCCTT
*
17529031 ATCACATATATG-CATGT-T-CACATTT
1 ATCACAT-T-GGCCAT-TCTGC-C--TT
*
17529056 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCTGCCTT
17529078 ATCACATATGTG-CATGT-T-CACATTT
1 ATCACAT-TG-GCCAT-TCTGC-C--TT
*
17529103 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCTGCCTT
17529125 ATCACA
1 ATCACA
17529131 CATATGTGCA
Statistics
Matches: 77, Mismatches: 5, Indels: 36
0.65 0.04 0.31
Matches are distributed among these distances:
22 26 0.34
23 16 0.21
24 15 0.19
25 20 0.26
ACGTcount: A:0.25, C:0.27, G:0.13, T:0.35
Consensus pattern (22 bp):
ATCACATTGGCCATTCTGCCTT
Found at i:17529041 original size:49 final size:48
Alignment explanation
Indices: 17528964--17529206 Score: 323
Period size: 47 Copynumber: 5.1 Consensus size: 48
17528954 ACACATTTCG
* * * * * *
17528964 CATTAGCCATTCGGCTTTACCACATATATATACACT-TCCACGTTCATCA
1 CATTGGCCATTCGGCCTTATCACA-ATATATGCA-TGTTCACATTCATCA
* *
17529013 CATTGGCCATTCTGCCTTATCAC-ATATATGCATGTTCACATTTATCA
1 CATTGGCCATTCGGCCTTATCACAATATATGCATGTTCACATTCATCA
* *
17529060 CATTGGCCATTCGGCCTTATCAC-ATATGTGCATGTTCACATTTATCA
1 CATTGGCCATTCGGCCTTATCACAATATATGCATGTTCACATTCATCA
*
17529107 CATTGGCCATTCGGCCTTATCACACATATGTGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACA-ATATATGCATGTTCACATTCATCA
*
17529156 CATTGGCCATTCGGCCTTATCAC-ACATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACAATATATGCATGTTCACATTCATCA
17529203 CATT
1 CATT
17529207 TGCCTTGGCT
Statistics
Matches: 178, Mismatches: 13, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
46 1 0.01
47 112 0.63
49 65 0.37
ACGTcount: A:0.26, C:0.28, G:0.12, T:0.35
Consensus pattern (48 bp):
CATTGGCCATTCGGCCTTATCACAATATATGCATGTTCACATTCATCA
Found at i:17529062 original size:47 final size:47
Alignment explanation
Indices: 17529006--17529206 Score: 330
Period size: 47 Copynumber: 4.2 Consensus size: 47
17528996 CACTTCCACG
*
17529006 TTCATCACATTGGCCATTCTGCCTTATCACATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
* *
17529053 TTTATCACATTGGCCATTCGGCCTTATCACATATGTGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
* *
17529100 TTTATCACATTGGCCATTCGGCCTTATCACACATATGTGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTAT--CACATATATGCATGTTCACA
*
17529149 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
17529196 TTCATCACATT
1 TTCATCACATT
17529207 TGCCTTGGCT
Statistics
Matches: 146, Mismatches: 6, Indels: 4
0.94 0.04 0.03
Matches are distributed among these distances:
47 100 0.68
49 46 0.32
ACGTcount: A:0.25, C:0.27, G:0.12, T:0.35
Consensus pattern (47 bp):
TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
Found at i:17529084 original size:96 final size:96
Alignment explanation
Indices: 17528964--17529206 Score: 305
Period size: 96 Copynumber: 2.5 Consensus size: 96
17528954 ACACATTTCG
* * * * *
17528964 CATTAGCCATTCGGCTTTACCACATATATATACACT-TCCACGTTCATCACATTGGCCATTCTGC
1 CATTGGCCATTCGGCCTTATCACA-ATATATACA-TGTCCACATTCATCACATTGGCCATTCGGC
*
17529028 CTTAT-CACATATATGCATGTTCACATTTATCA
64 CTTATACACATATATGCATGTTCACATTCATCA
* * * *
17529060 CATTGGCCATTCGGCCTTATCAC-ATATGTGCATGTTCACATTTATCACATTGGCCATTCGGCCT
1 CATTGGCCATTCGGCCTTATCACAATATATACATGTCCACATTCATCACATTGGCCATTCGGCCT
*
17529124 TATCACACATATGTGCATGTTCACATTCATCA
66 TAT-ACACATATATGCATGTTCACATTCATCA
* * *
17529156 CATTGGCCATTCGGCCTTATCAC-ACATATGCATGTTCACATTCATCACATT
1 CATTGGCCATTCGGCCTTATCACAATATATACATGTCCACATTCATCACATT
17529207 TGCCTTGGCT
Statistics
Matches: 130, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
93 1 0.01
94 36 0.28
96 93 0.72
ACGTcount: A:0.26, C:0.28, G:0.12, T:0.35
Consensus pattern (96 bp):
CATTGGCCATTCGGCCTTATCACAATATATACATGTCCACATTCATCACATTGGCCATTCGGCCT
TATACACATATATGCATGTTCACATTCATCA
Found at i:17533955 original size:220 final size:221
Alignment explanation
Indices: 17533548--17533979 Score: 661
Period size: 220 Copynumber: 2.0 Consensus size: 221
17533538 GAAAAACGAT
* *
17533548 TCTTTGAGATTGTGTATAGATTACAGACAGTTGAATAAAGTCATAATTAAAAATAAGTATCCTTT
1 TCTTTGAGATTGTGTATAGATTACAGACAGTTGAATAAAGTCACAATAAAAAATAAGTATCCTTT
*
17533613 GCCACGTATTGACAATTTGTTTGATCAATTGAAAAGTGCCACAGTGTTCTCGAAGATAGATCTCA
66 GCCACGTATCGACAATTTGTTTGATCAATTGAAAAGTGCCACAGTGTTCTCGAAGATAGATCTCA
* * * * *
17533678 ACTTTGGGTATTATCAATTGAAGGTTAAAAACTATGATGTGTCAAAGACTACTTTCAGTACTTGT
131 ACTCTAGGTATTATCAATTGAAGGTTAAAAACTATGATATGTCAAAGACTACTTTCAGAACTCGT
*
17533743 TATGGTCATTATGAGTTAAAGATGGC
196 TATGGTCATTATAAGTTAAAGATGGC
*
17533769 TCTTTGAGATTGTGTATAGATTACATACAGTTGAATAAAGTCACAATAAAAAATAAGTATCC-TT
1 TCTTTGAGATTGTGTATAGATTACAGACAGTTGAATAAAGTCACAATAAAAAATAAGTATCCTTT
*** * *
17533833 GCCACGTATCGGTGATTTGTTTGATCAATTGAAAGGTGTCACAGTGTTCTCGAAGATAGATCTCA
66 GCCACGTATCGACAATTTGTTTGATCAATTGAAAAGTGCCACAGTGTTCTCGAAGATAGATCTCA
* * * * *
17533898 GA-TCTAGGTATTATCAATTGAAGGTTAAAGATTGTGATATGTCTAAGACTGCTTTCAGAACTCG
131 -ACTCTAGGTATTATCAATTGAAGGTTAAAAACTATGATATGTCAAAGACTACTTTCAGAACTCG
17533962 TTATGGTCATTATAAGTT
195 TTATGGTCATTATAAGTT
17533980 TCTAGTAATG
Statistics
Matches: 190, Mismatches: 20, Indels: 3
0.89 0.09 0.01
Matches are distributed among these distances:
220 130 0.68
221 60 0.32
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.35
Consensus pattern (221 bp):
TCTTTGAGATTGTGTATAGATTACAGACAGTTGAATAAAGTCACAATAAAAAATAAGTATCCTTT
GCCACGTATCGACAATTTGTTTGATCAATTGAAAAGTGCCACAGTGTTCTCGAAGATAGATCTCA
ACTCTAGGTATTATCAATTGAAGGTTAAAAACTATGATATGTCAAAGACTACTTTCAGAACTCGT
TATGGTCATTATAAGTTAAAGATGGC
Found at i:17538962 original size:43 final size:42
Alignment explanation
Indices: 17538831--17538983 Score: 209
Period size: 42 Copynumber: 3.6 Consensus size: 42
17538821 TAGGGTTACG
*
17538831 GAGATTACGTGTAAGACCATATCTGGGATATGGCACCGATAT
1 GAGATTACGTGTAAGACCATATCTGGGATATGGCATCGATAT
* *
17538873 GAGACTT-CGTGTAAAACCATATCTGAGATATGGCATCGATAT
1 GAGA-TTACGTGTAAGACCATATCTGGGATATGGCATCGATAT
* * * *
17538915 GAGATTTCGTGTAAGACCATAGCTGGGCTATTGGCATCGATAC
1 GAGATTACGTGTAAGACCATATCTGGGATA-TGGCATCGATAT
*
17538958 GAGATTACATGTAAGACCATATCTGG
1 GAGATTACGTGTAAGACCATATCTGG
17538984 AGATTCTCGA
Statistics
Matches: 97, Mismatches: 11, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
41 2 0.02
42 59 0.61
43 36 0.37
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (42 bp):
GAGATTACGTGTAAGACCATATCTGGGATATGGCATCGATAT
Found at i:17539026 original size:34 final size:34
Alignment explanation
Indices: 17538983--17539048 Score: 123
Period size: 34 Copynumber: 1.9 Consensus size: 34
17538973 ACCATATCTG
17538983 GAGATTCTCGAGTATCCTTTAGTATTCCAAGTAC
1 GAGATTCTCGAGTATCCTTTAGTATTCCAAGTAC
*
17539017 GAGATTCTCGAGTATCCTTTAGTATTTCAAGT
1 GAGATTCTCGAGTATCCTTTAGTATTCCAAGT
17539049 GGTTCAACGG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.38
Consensus pattern (34 bp):
GAGATTCTCGAGTATCCTTTAGTATTCCAAGTAC
Found at i:17542740 original size:61 final size:60
Alignment explanation
Indices: 17542645--17542767 Score: 210
Period size: 61 Copynumber: 2.0 Consensus size: 60
17542635 ACAACCGATC
17542645 ATAATTCCACAATGGAATTGGGAAAGAGAAACAGTGGATTATGTAAATGGGTTACCTCTA
1 ATAATTCCACAATGGAATTGGGAAAGAGAAACAGTGGATTATGTAAATGGGTTACCTCTA
* * *
17542705 NATAATTCCACAATTGAATTGGGAAAGAGTAACAGTGGATTTTGTAAATGGGTTACCTCTA
1 -ATAATTCCACAATGGAATTGGGAAAGAGAAACAGTGGATTATGTAAATGGGTTACCTCTA
17542766 AT
1 AT
17542768 TCCCTCGAGA
Statistics
Matches: 59, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
60 2 0.03
61 57 0.97
ACGTcount: A:0.37, C:0.11, G:0.22, T:0.29
Consensus pattern (60 bp):
ATAATTCCACAATGGAATTGGGAAAGAGAAACAGTGGATTATGTAAATGGGTTACCTCTA
Found at i:17547511 original size:42 final size:43
Alignment explanation
Indices: 17547425--17547537 Score: 129
Period size: 42 Copynumber: 2.7 Consensus size: 43
17547415 TTTATGAAAG
* **
17547425 AAACACCGCTATAGAACATGATTTTTAACGGCGCTTTCCCCAC
1 AAACGCCGCTATAGAACATGACCTTTAACGGCGCTTTCCCCAC
* ** * * *
17547468 AAATGTTGCTATAGAACA-GACCTTTAGCGGCGCTTTTCTCAC
1 AAACGCCGCTATAGAACATGACCTTTAACGGCGCTTTCCCCAC
*
17547510 AAACGCCGCTAAAGAACATGACCTTTAA
1 AAACGCCGCTATAGAACATGACCTTTAA
17547538 AAAAATTATT
Statistics
Matches: 55, Mismatches: 14, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
42 33 0.60
43 22 0.40
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.26
Consensus pattern (43 bp):
AAACGCCGCTATAGAACATGACCTTTAACGGCGCTTTCCCCAC
Found at i:17551647 original size:30 final size:30
Alignment explanation
Indices: 17551611--17551670 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
17551601 AAGAGTGCGG
17551611 TTTTATGTAAGACTTTTTGCGGCGTTTTTA
1 TTTTATGTAAGACTTTTTGCGGCGTTTTTA
17551641 TTTTATGTAAGACTTTTTGCGGCGTTTTTA
1 TTTTATGTAAGACTTTTTGCGGCGTTTTTA
17551671 ATAAAAACGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.17, C:0.10, G:0.20, T:0.53
Consensus pattern (30 bp):
TTTTATGTAAGACTTTTTGCGGCGTTTTTA
Found at i:17552028 original size:7 final size:7
Alignment explanation
Indices: 17552016--17552081 Score: 62
Period size: 7 Copynumber: 9.6 Consensus size: 7
17552006 TTTCTAACAG
17552016 TAAACCC
1 TAAACCC
*
17552023 TAAACCT
1 TAAACCC
*
17552030 TAAACCT
1 TAAACCC
*
17552037 TAAACCA
1 TAAACCC
*
17552044 TAAACCA
1 TAAACCC
*
17552051 TAAACCA
1 TAAACCC
*
17552058 TAAGCCC
1 TAAACCC
*
17552065 -ACACCC
1 TAAACCC
17552071 TAAACCC
1 TAAACCC
17552078 TAAA
1 TAAA
17552082 TATATATATA
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
6 4 0.08
7 47 0.92
ACGTcount: A:0.47, C:0.35, G:0.02, T:0.17
Consensus pattern (7 bp):
TAAACCC
Found at i:17552035 original size:14 final size:14
Alignment explanation
Indices: 17552016--17552081 Score: 71
Period size: 14 Copynumber: 4.8 Consensus size: 14
17552006 TTTCTAACAG
*
17552016 TAAACCCTAAACCT
1 TAAACCCTAAACCA
*
17552030 TAAACCTTAAACCA
1 TAAACCCTAAACCA
*
17552044 TAAACCATAAACCA
1 TAAACCCTAAACCA
* * *
17552058 TAAGCCC-ACACCC
1 TAAACCCTAAACCA
17552071 TAAACCCTAAA
1 TAAACCCTAAA
17552082 TATATATATA
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
13 10 0.24
14 32 0.76
ACGTcount: A:0.47, C:0.35, G:0.02, T:0.17
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:17552277 original size:14 final size:14
Alignment explanation
Indices: 17552252--17552304 Score: 54
Period size: 14 Copynumber: 3.7 Consensus size: 14
17552242 TATAAAACAA
17552252 AAACCCACAAACTCT
1 AAACCCA-AAACTCT
*
17552267 AAACCCTAAAC-CTT
1 AAACCCAAAACTC-T
* *
17552281 AAATCAAAAACTCT
1 AAACCCAAAACTCT
17552295 AAACCCAAAA
1 AAACCCAAAA
17552305 TAATAAATAT
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
13 1 0.03
14 22 0.73
15 7 0.23
ACGTcount: A:0.53, C:0.32, G:0.00, T:0.15
Consensus pattern (14 bp):
AAACCCAAAACTCT
Found at i:17552341 original size:43 final size:42
Alignment explanation
Indices: 17552288--17552416 Score: 125
Period size: 43 Copynumber: 3.0 Consensus size: 42
17552278 CTTAAATCAA
* *
17552288 AAACTCTAAACCCAAAATAATAAATATTATATCATAAACCCT
1 AAACTCTAAACCCAAAATAATAAACATTATATCATAAACCAT
** * * * * *
17552330 AAACTCTTAAA-CCATGGATATTAAACCTTAAATCTTAAATCAT
1 AAACTC-TAAACCCA-AAATAATAAACATTATATCATAAACCAT
* *
17552373 AAACCCTAAACCCCAAAATAATAAACATTATATCATAACCCAT
1 AAACTCTAAA-CCCAAAATAATAAACATTATATCATAAACCAT
17552416 A
1 A
17552417 TCCCTTAAAC
Statistics
Matches: 65, Mismatches: 18, Indels: 7
0.72 0.20 0.08
Matches are distributed among these distances:
42 13 0.20
43 49 0.75
44 3 0.05
ACGTcount: A:0.50, C:0.22, G:0.02, T:0.26
Consensus pattern (42 bp):
AAACTCTAAACCCAAAATAATAAACATTATATCATAAACCAT
Found at i:17552974 original size:21 final size:21
Alignment explanation
Indices: 17552925--17553012 Score: 70
Period size: 21 Copynumber: 4.2 Consensus size: 21
17552915 ATTTACCCTC
17552925 AAACCCTAAACCATAAACCAT
1 AAACCCTAAACCATAAACCAT
* * *
17552946 AAATCCTAGACTATAAACCCA-
1 AAACCCTAAACCATAAA-CCAT
** * *
17552967 AAACCCTAAATTATAAGCCCT
1 AAACCCTAAACCATAAACCAT
** *
17552988 AAATACTAAACCATAACCCAT
1 AAACCCTAAACCATAAACCAT
17553009 AAAC
1 AAAC
17553013 TAAATTGATT
Statistics
Matches: 50, Mismatches: 15, Indels: 4
0.72 0.22 0.06
Matches are distributed among these distances:
20 2 0.04
21 45 0.90
22 3 0.06
ACGTcount: A:0.50, C:0.30, G:0.02, T:0.18
Consensus pattern (21 bp):
AAACCCTAAACCATAAACCAT
Found at i:17553330 original size:40 final size:41
Alignment explanation
Indices: 17553286--17553450 Score: 203
Period size: 40 Copynumber: 4.1 Consensus size: 41
17553276 TTTACGGCAT
* * * * *
17553286 TTTTTCAGAAAGCGACGCTAATGGTTGACT-TATAGCGGCG
1 TTTTTCAAAAAGCGCCGCTAATGCTCGACTCTATAGCAGCG
*
17553326 TTTTTCAAAAAGCGCCGCTAATGCTC-AATCTATAGCAGCG
1 TTTTTCAAAAAGCGCCGCTAATGCTCGACTCTATAGCAGCG
* * *
17553366 TTTTTCAAAAAGTGCCGTTGATGCTCGA-TCTATAGCAGCG
1 TTTTTCAAAAAGCGCCGCTAATGCTCGACTCTATAGCAGCG
* *
17553406 TTTTTCAAAAAGCGCTGCTAATGCTCGAC-CTATAGCGGCG
1 TTTTTCAAAAAGCGCCGCTAATGCTCGACTCTATAGCAGCG
17553446 TTTTT
1 TTTTT
17553451 GGTCCTAGCG
Statistics
Matches: 108, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
39 2 0.02
40 105 0.97
41 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (41 bp):
TTTTTCAAAAAGCGCCGCTAATGCTCGACTCTATAGCAGCG
Found at i:17553374 original size:141 final size:139
Alignment explanation
Indices: 17553122--17553377 Score: 363
Period size: 141 Copynumber: 1.8 Consensus size: 139
17553112 AAGCTGACGT
** * *
17553122 CATTGTGCTTAACTTTTTGTGGCGTTTTTTAGAAAGCATCGCTAATGGTCGACCTATGGTGTGTT
1 CATTGTGCTTAACTTTTTACGGCATTTTTTAGAAAGCATCGCTAATGGTCGACCTATGGTGCGTT
* * *
17553187 TTTCAGAAAGCGCTGCTAATGCTCGATATATAGCAGCGTTTTTCAAAAAGCACCGCTAATGCCAC
66 TTTCAAAAAGCGCCGCTAATGCTCAATATATAGCAGCGTTTTTCAAAAAGCACCGCTAATGCCAC
17553252 TAAAGCTCA
131 TAAAGCTCA
* * *
17553261 CATTGTGCTTAATTTTTTACGGCATTTTTTCAGAAAGCGA-CGCTAATGGTTGACTTATAGCG-G
1 CATTGTGCTTAACTTTTTACGGCATTTTTT-AGAAAGC-ATCGCTAATGGTCGACCTAT-G-GTG
*
17553324 CGTTTTTCAAAAAGCGCCGCTAATGCTCAATCTATAGCAGCGTTTTTCAAAAAG
62 CGTTTTTCAAAAAGCGCCGCTAATGCTCAATATATAGCAGCGTTTTTCAAAAAG
17553378 TGCCGTTGAT
Statistics
Matches: 102, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
139 26 0.25
140 23 0.23
141 52 0.51
142 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.34
Consensus pattern (139 bp):
CATTGTGCTTAACTTTTTACGGCATTTTTTAGAAAGCATCGCTAATGGTCGACCTATGGTGCGTT
TTTCAAAAAGCGCCGCTAATGCTCAATATATAGCAGCGTTTTTCAAAAAGCACCGCTAATGCCAC
TAAAGCTCA
Found at i:17553988 original size:23 final size:22
Alignment explanation
Indices: 17553936--17553988 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
17553926 GCTAACCTCA
**
17553936 TATATATGTTACATGCGAACCC
1 TATATATGTTACATGAAAACCC
**
17553958 TATATATGTTACATGTAAAACTG
1 TATATATGTTACATG-AAAACCC
17553981 TATATATG
1 TATATATG
17553989 CGAACCTATA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
22 15 0.58
23 11 0.42
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.38
Consensus pattern (22 bp):
TATATATGTTACATGAAAACCC
Found at i:17554009 original size:37 final size:37
Alignment explanation
Indices: 17553948--17554023 Score: 91
Period size: 37 Copynumber: 2.1 Consensus size: 37
17553938 TATATGTTAC
** *
17553948 ATGCGAACCCTATATATGTTACATGTAAAACTGTATAT
1 ATGCGAACCCTATATACATCACATGTAAAACT-TATAT
* *
17553986 ATGCGAA-CCTATATACATCACATGTGAACCTTATAT
1 ATGCGAACCCTATATACATCACATGTAAAACTTATAT
17554022 AT
1 AT
17554024 CTGTTAAATG
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
36 7 0.21
37 19 0.58
38 7 0.21
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.33
Consensus pattern (37 bp):
ATGCGAACCCTATATACATCACATGTAAAACTTATAT
Found at i:17556244 original size:64 final size:64
Alignment explanation
Indices: 17556170--17556313 Score: 252
Period size: 64 Copynumber: 2.2 Consensus size: 64
17556160 AATGACCAAC
* * *
17556170 TGTATGAAAAATATTTAAAATTATATTTTTAGTATTTTATGTGTAAAACTATTAGTAAACAATTA
1 TGTAT-AAAAATATTTAAAATTATATTTTTAATATTTTATGTCTAAAACTATAAGTAAACAATTA
17556235 TGTATAAAAATATTTAAAATTATATTTTTAATATTTTATGTCTAAAACTATAAGTAAACAATTA
1 TGTATAAAAATATTTAAAATTATATTTTTAATATTTTATGTCTAAAACTATAAGTAAACAATTA
17556299 TGTATAAAAATATTT
1 TGTATAAAAATATTT
17556314 TTTAAATGCA
Statistics
Matches: 76, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
64 71 0.93
65 5 0.07
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.44
Consensus pattern (64 bp):
TGTATAAAAATATTTAAAATTATATTTTTAATATTTTATGTCTAAAACTATAAGTAAACAATTA
Found at i:17558508 original size:18 final size:17
Alignment explanation
Indices: 17558485--17558570 Score: 88
Period size: 18 Copynumber: 4.9 Consensus size: 17
17558475 AATAATAATG
17558485 TGTATAATAAAATTAAAA
1 TGTATAA-AAAATTAAAA
17558503 TGTATAAAAAA-TAAAA
1 TGTATAAAAAATTAAAA
*
17558519 -ATA-AAAGAAATAATAAAA
1 TGTATAAA-AAAT--TAAAA
17558537 TGTATAATAAAATTAAAA
1 TGTATAA-AAAATTAAAA
17558555 TGTATAAAAATATTAA
1 TGTATAAAAA-ATTAA
17558571 GATAAAACTT
Statistics
Matches: 58, Mismatches: 2, Indels: 16
0.76 0.03 0.21
Matches are distributed among these distances:
14 3 0.05
15 5 0.09
16 5 0.09
17 7 0.12
18 29 0.50
19 2 0.03
20 6 0.10
21 1 0.02
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (17 bp):
TGTATAAAAAATTAAAA
Found at i:17559055 original size:22 final size:23
Alignment explanation
Indices: 17559023--17559074 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 23
17559013 AAACCACTTA
* *
17559023 AGACAT-A-AACATCTAACATCT
1 AGACATCACAACACCTAAAATCT
17559044 A-ACATCACAACACCTAAAATCT
1 AGACATCACAACACCTAAAATCT
17559066 AGACATCAC
1 AGACATCAC
17559075 CAAATCACGA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 4 0.15
21 2 0.08
22 13 0.50
23 7 0.27
ACGTcount: A:0.48, C:0.29, G:0.04, T:0.19
Consensus pattern (23 bp):
AGACATCACAACACCTAAAATCT
Found at i:17569700 original size:27 final size:28
Alignment explanation
Indices: 17569657--17569770 Score: 137
Period size: 28 Copynumber: 4.2 Consensus size: 28
17569647 GAGAAAGCAT
*
17569657 TCTGGTGGATCTGCCACAAATATCTG-A
1 TCTGGTGGCTCTGCCACAAATATCTGTA
* *
17569684 TCTGGTGGCTCTACCACAAATATCTGTT
1 TCTGGTGGCTCTGCCACAAATATCTGTA
*
17569712 TCTGGTGGC-CTTGCCACAATTATCTGTA
1 TCTGGTGGCTC-TGCCACAAATATCTGTA
* *
17569740 TCTGGTGACTCTGTCAC-AATATCTGT-
1 TCTGGTGGCTCTGCCACAAATATCTGTA
17569766 TCTGG
1 TCTGG
17569771 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
26 5 0.07
27 33 0.44
28 36 0.48
29 1 0.01
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.35
Consensus pattern (28 bp):
TCTGGTGGCTCTGCCACAAATATCTGTA
Found at i:17571729 original size:14 final size:14
Alignment explanation
Indices: 17571710--17571749 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
17571700 AGTTGCTGAG
17571710 TACGAGGCTGAGTT
1 TACGAGGCTGAGTT
17571724 TACGAGGCTGAGTT
1 TACGAGGCTGAGTT
17571738 T-CTGAGGCTGAG
1 TAC-GAGGCTGAG
17571750 CCGGCATGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
13 1 0.04
14 24 0.96
ACGTcount: A:0.20, C:0.15, G:0.38, T:0.28
Consensus pattern (14 bp):
TACGAGGCTGAGTT
Found at i:17575834 original size:48 final size:47
Alignment explanation
Indices: 17575717--17576052 Score: 509
Period size: 46 Copynumber: 7.2 Consensus size: 47
17575707 GCCACAATAT
* *
17575717 ACACACATCTCCTACATATTTCACATTAGCCATTCGGCTTTACCAC-
1 ACACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACA
*
17575763 ACACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACA
1 ACACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACA
* *
17575810 TATACATATCGCATACATATTTCACATTAGCCATTCGGCTTTACCAC-
1 -ACACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACA
*
17575857 ACACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACA
1 ACACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACA
* * * *
17575904 TATACATATCACACATATATTTCACATTAGCCATTCGGCTTTACCAC-
1 -ACACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACA
*
17575951 ACACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACA
1 ACACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACA
*
17575998 TATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC-
1 -ACACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACA
17576045 ACACATAT
1 ACACATAT
17576053 ATATTTATCT
Statistics
Matches: 262, Mismatches: 22, Indels: 12
0.89 0.07 0.04
Matches are distributed among these distances:
46 134 0.51
48 128 0.49
ACGTcount: A:0.31, C:0.30, G:0.07, T:0.32
Consensus pattern (47 bp):
ACACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACA
Found at i:17575834 original size:94 final size:94
Alignment explanation
Indices: 17575729--17576052 Score: 612
Period size: 94 Copynumber: 3.4 Consensus size: 94
17575719 ACACATCTCC
17575729 TACATATTTCACATTAGCCATTCGGCTTTACCACACACATATCTCATACATATTTCACACTAGCC
1 TACATATTTCACATTAGCCATTCGGCTTTACCACACACATATCTCATACATATTTCACACTAGCC
*
17575794 ATTCGGCTTTACCACATATACATATCGCA
66 ATTCGGCTTTACCACATATACATATCACA
17575823 TACATATTTCACATTAGCCATTCGGCTTTACCACACACATATCTCATACATATTTCACACTAGCC
1 TACATATTTCACATTAGCCATTCGGCTTTACCACACACATATCTCATACATATTTCACACTAGCC
17575888 ATTCGGCTTTACCACATATACATATCACA
66 ATTCGGCTTTACCACATATACATATCACA
* *
17575917 CATATATTTCACATTAGCCATTCGGCTTTACCACACACATATCTCATACATATTTCACACTAGCC
1 TACATATTTCACATTAGCCATTCGGCTTTACCACACACATATCTCATACATATTTCACACTAGCC
*
17575982 ATTCGGCTTTACCACATATACATATCTCA
66 ATTCGGCTTTACCACATATACATATCACA
17576011 TACATATTTCACATTAGCCATTCGGCTTTACCACACACATAT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACACACATAT
17576053 ATATTTATCT
Statistics
Matches: 224, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
94 224 1.00
ACGTcount: A:0.31, C:0.30, G:0.07, T:0.32
Consensus pattern (94 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACACACATATCTCATACATATTTCACACTAGCC
ATTCGGCTTTACCACATATACATATCACA
Found at i:17576069 original size:54 final size:48
Alignment explanation
Indices: 17575723--17576045 Score: 496
Period size: 48 Copynumber: 6.9 Consensus size: 48
17575713 ATATACACAC
* * *
17575723 ATCTCCTACATATTTCACATTAGCCATTCGGCTTTACCAC--ACACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
17575769 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
17575817 ATCGCATACATATTTCACATTAGCCATTCGGCTTTACCAC--ACACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
17575863 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * * * *
17575911 ATCACACATATATTTCACATTAGCCATTCGGCTTTACCAC--ACACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
17575957 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
17576005 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACA
17576046 CACATATATA
Statistics
Matches: 251, Mismatches: 20, Indels: 10
0.89 0.07 0.04
Matches are distributed among these distances:
46 122 0.49
48 129 0.51
ACGTcount: A:0.31, C:0.30, G:0.07, T:0.33
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:17586329 original size:28 final size:28
Alignment explanation
Indices: 17586286--17586373 Score: 101
Period size: 28 Copynumber: 3.2 Consensus size: 28
17586276 GGAGGAAGCA
17586286 TTCTGGTGGCTCTGCCACAAATATCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
*
17586314 TTCTGGTGGC-CTTGCCACAATTATCTGT
1 TTCTGGTGGCTC-TGCCACAAATATCTGT
* * * *
17586342 ATCTGGTGACTCTGTCA-TAATATCTG-
1 TTCTGGTGGCTCTGCCACAAATATCTGT
17586368 TTCTGG
1 TTCTGG
17586374 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
26 5 0.10
27 8 0.16
28 37 0.73
29 1 0.02
ACGTcount: A:0.17, C:0.23, G:0.22, T:0.39
Consensus pattern (28 bp):
TTCTGGTGGCTCTGCCACAAATATCTGT
Found at i:17588659 original size:28 final size:28
Alignment explanation
Indices: 17588617--17588682 Score: 87
Period size: 28 Copynumber: 2.4 Consensus size: 28
17588607 ATAGTGCTTG
* * * *
17588617 CAGTAACAGTTTGGGCCTGAGCCCTATT
1 CAGTATCAGTGTGGGCCTAAGCCCGATT
17588645 CAGTATCAGTGTGGGCCTAAGCCCGATT
1 CAGTATCAGTGTGGGCCTAAGCCCGATT
*
17588673 TAGTATCAGT
1 CAGTATCAGT
17588683 ATAGTGCAGT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.29
Consensus pattern (28 bp):
CAGTATCAGTGTGGGCCTAAGCCCGATT
Found at i:17588809 original size:23 final size:23
Alignment explanation
Indices: 17588789--17588832 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
17588779 CACCAATATT
*
17588789 GCAGCATAGCTGCTAATAATAAC
1 GCAGCAAAGCTGCTAATAATAAC
*
17588812 GCAGCAAAGCTGCTTATAATA
1 GCAGCAAAGCTGCTAATAATA
17588833 GTAAACGTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.39, C:0.20, G:0.18, T:0.23
Consensus pattern (23 bp):
GCAGCAAAGCTGCTAATAATAAC
Found at i:17591736 original size:40 final size:41
Alignment explanation
Indices: 17591648--17591744 Score: 119
Period size: 40 Copynumber: 2.4 Consensus size: 41
17591638 TATGTCGGTA
*
17591648 TCGCACACTTAGTGCC-TTATATAGCCGAAGCTATGCCAAC
1 TCGCACACTTAGTGCCATTATATAGCCGAAGCTATGCAAAC
* * **
17591688 TCGAACACTTAGTGCCATT-TGTAGCCGAAGCTATATTAAAC
1 TCGCACACTTAGTGCCATTATATAGCCGAAGCTAT-GCAAAC
17591729 -CGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
17591745 AGCATAGACG
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
40 44 0.90
41 5 0.10
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.26
Consensus pattern (41 bp):
TCGCACACTTAGTGCCATTATATAGCCGAAGCTATGCAAAC
Found at i:17593353 original size:357 final size:357
Alignment explanation
Indices: 17592698--17593402 Score: 1320
Period size: 357 Copynumber: 2.0 Consensus size: 357
17592688 AGAAGGCCTA
* * *
17592698 TAATATCTTGATTTTGGGCCTAGTCGAAATAGCGGTTTCGTGACCACAAAATCTGAGATAGAAAT
1 TAATATCCTGATTTTGGGCCAAGTCGAAATAGCGGTTTCGTGACCACAAAATCCGAGATAGAAAT
*
17592763 AATTATTTTATGATTATTTTGAGGTCTATGATATGATTGCATGATTGTGTGAAAATTTCGTGAAG
66 AATTATTTTATGATTATCTTGAGGTCTATGATATGATTGCATGATTGTGTGAAAATTTCGTGAAG
*
17592828 AAATTTTATGCATAAAGTGCTTAAATTGAAATTAGGGACTAAATCGAATAATTTGTAAAACTTGC
131 AAATTTTATGCATAAAGTGCTTAAATTGAAATTAGGGACTAAATCGAATAATTTGCAAAACTTGC
17592893 ATTCTAGAAGTTTCTAGTATGAAATTGTTTTGAAATATTAATTAGGAGGTCTTAAATACAAATTT
196 ATTCTAGAAGTTTCTAGTATGAAATTGTTTTGAAATATTAATTAGGAGGTCTTAAATACAAATTT
* *
17592958 GACCAATTTCTAAGTTTATGGGCAAAAATTTGACATGGATGGAATTTTTGGAAAGTTTAGTAGTA
261 GACCAATTTCTAAGTTTATGGACAAAAATTGGACATGGATGGAATTTTTGGAAAGTTTAGTAGTA
17593023 AGGGCATTTTGGTCATTTAGGGGGGAGAGTTG
326 AGGGCATTTTGGTCATTTAGGGGGGAGAGTTG
* * *
17593055 TAATATCCTGATTTTGGGCCAAGTTGGAATAGTGGTTTCGTGACCACAAAATCCGAGATAGAAAT
1 TAATATCCTGATTTTGGGCCAAGTCGAAATAGCGGTTTCGTGACCACAAAATCCGAGATAGAAAT
17593120 AATTATTTTATGATTATCTTGAGGTCTATGATATGATTGCATGATTGTGTGAAAATTTCGTGAAG
66 AATTATTTTATGATTATCTTGAGGTCTATGATATGATTGCATGATTGTGTGAAAATTTCGTGAAG
17593185 AAATTTTATGCATAAAGTGCTTAAATTGAAATTAGGGACTAAATCGAATAATTTGCAAAACTTGC
131 AAATTTTATGCATAAAGTGCTTAAATTGAAATTAGGGACTAAATCGAATAATTTGCAAAACTTGC
17593250 ATTCTAGAAGTTTCTAGTATGAAATTGTTTTGAAATATTAATTAGGAGGTCTTAAATACAAATTT
196 ATTCTAGAAGTTTCTAGTATGAAATTGTTTTGAAATATTAATTAGGAGGTCTTAAATACAAATTT
17593315 GACCAATTTCTAAGTTTATGGACAAAAATTGGACATGGATGGAATTTTTGGAAAGTTTAGTAGTA
261 GACCAATTTCTAAGTTTATGGACAAAAATTGGACATGGATGGAATTTTTGGAAAGTTTAGTAGTA
17593380 AGGGCATTTTGGTCATTTAGGGG
326 AGGGCATTTTGGTCATTTAGGGG
17593403 TAAAATGAAT
Statistics
Matches: 338, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
357 338 1.00
ACGTcount: A:0.34, C:0.09, G:0.21, T:0.36
Consensus pattern (357 bp):
TAATATCCTGATTTTGGGCCAAGTCGAAATAGCGGTTTCGTGACCACAAAATCCGAGATAGAAAT
AATTATTTTATGATTATCTTGAGGTCTATGATATGATTGCATGATTGTGTGAAAATTTCGTGAAG
AAATTTTATGCATAAAGTGCTTAAATTGAAATTAGGGACTAAATCGAATAATTTGCAAAACTTGC
ATTCTAGAAGTTTCTAGTATGAAATTGTTTTGAAATATTAATTAGGAGGTCTTAAATACAAATTT
GACCAATTTCTAAGTTTATGGACAAAAATTGGACATGGATGGAATTTTTGGAAAGTTTAGTAGTA
AGGGCATTTTGGTCATTTAGGGGGGAGAGTTG
Found at i:17593488 original size:13 final size:13
Alignment explanation
Indices: 17593470--17593496 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
17593460 GAAGAAACCA
17593470 TGGCTAGGGTTTT
1 TGGCTAGGGTTTT
17593483 TGGCTAGGGTTTT
1 TGGCTAGGGTTTT
17593496 T
1 T
17593497 CAAGCTTCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.07, C:0.07, G:0.37, T:0.48
Consensus pattern (13 bp):
TGGCTAGGGTTTT
Found at i:17599135 original size:23 final size:25
Alignment explanation
Indices: 17599108--17599174 Score: 84
Period size: 23 Copynumber: 2.7 Consensus size: 25
17599098 AATGAAAAAG
17599108 GCACTATGTGTGCGAATGG-GGC-A
1 GCACTATGTGTGCGAATGGAGGCTA
*
17599131 GCACTATGTGTGCGTATGGAAAGGCTA
1 GCACTATGTGTGCGAATGG--AGGCTA
*
17599158 GTACTATGTGTGCGAAT
1 GCACTATGTGTGCGAAT
17599175 AAATATATGC
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
23 18 0.49
26 3 0.08
27 16 0.43
ACGTcount: A:0.24, C:0.15, G:0.34, T:0.27
Consensus pattern (25 bp):
GCACTATGTGTGCGAATGGAGGCTA
Found at i:17606686 original size:14 final size:14
Alignment explanation
Indices: 17606667--17606694 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
17606657 TAAGCAATTA
17606667 AGACTTAGATTACT
1 AGACTTAGATTACT
17606681 AGACTTAGATTACT
1 AGACTTAGATTACT
17606695 TTTTATTCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (14 bp):
AGACTTAGATTACT
Found at i:17607090 original size:130 final size:130
Alignment explanation
Indices: 17606857--17607134 Score: 556
Period size: 130 Copynumber: 2.1 Consensus size: 130
17606847 TGAATGAAAA
17606857 GGGCACTATGTGTGCGAATGGGGCAGCACTATGTGTGCTTATGGAAAAGCTAGTACTATGTGTGC
1 GGGCACTATGTGTGCGAATGGGGCAGCACTATGTGTGCTTATGGAAAAGCTAGTACTATGTGTGC
17606922 GAATGAATATATGCACTATGTGTACGAATTATTAACCGAGCACTATGTGTGCGAGATCGGTTGTG
66 GAATGAATATATGCACTATGTGTACGAATTATTAACCGAGCACTATGTGTGCGAGATCGGTTGTG
17606987 GGGCACTATGTGTGCGAATGGGGCAGCACTATGTGTGCTTATGGAAAAGCTAGTACTATGTGTGC
1 GGGCACTATGTGTGCGAATGGGGCAGCACTATGTGTGCTTATGGAAAAGCTAGTACTATGTGTGC
17607052 GAATGAATATATGCACTATGTGTACGAATTATTAACCGAGCACTATGTGTGCGAGATCGGTTGTG
66 GAATGAATATATGCACTATGTGTACGAATTATTAACCGAGCACTATGTGTGCGAGATCGGTTGTG
17607117 GGGCACTATGTGTGCGAA
1 GGGCACTATGTGTGCGAA
17607135 ATGATTAAGG
Statistics
Matches: 148, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
130 148 1.00
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.29
Consensus pattern (130 bp):
GGGCACTATGTGTGCGAATGGGGCAGCACTATGTGTGCTTATGGAAAAGCTAGTACTATGTGTGC
GAATGAATATATGCACTATGTGTACGAATTATTAACCGAGCACTATGTGTGCGAGATCGGTTGTG
Found at i:17610159 original size:40 final size:40
Alignment explanation
Indices: 17610104--17610429 Score: 345
Period size: 40 Copynumber: 8.2 Consensus size: 40
17610094 GTTTGGATAA
*
17610104 AAAAACGCCGATATAGATCGAGCATTAGCGGCGCTTTTTG
1 AAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTG
* * * * *
17610144 AAAAACACCGCTATAGATCGAGAATTAACGACGC-TTTTA
1 AAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTG
* *
17610183 AAAAACGCCGCTATAGAACGAGCATTAACGGCGCTTTTTG
1 AAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTG
* *
17610223 AAAAAACGCCGCTATAGATCGAGCATTAGCGGCACTTTTTA
1 -AAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTG
* * * *
17610264 AAAAACGTCGCTATAAATCAAGCATTAGCAGCGCTTTTTG
1 AAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTG
* * * * *
17610304 AAAAAACACCACTATAGATCGAGC-TATAGCGACACTTATT-
1 -AAAAACGCCGCTATAGATCGAGCAT-TAGCGGCGCTTTTTG
*
17610344 AAAAAAGCCGCTATAGATCGAGCATTA-CTGGCGCTTTTTG
1 AAAAACGCCGCTATAGATCGAGCATTAGC-GGCGCTTTTTG
* * * * * * *
17610384 AAAAATGCCACTATAGGTCAACCATTAGCGGCGCCTTTTA
1 AAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTG
17610424 AAAAAC
1 AAAAAC
17610430 ATCGCAAAAA
Statistics
Matches: 234, Mismatches: 44, Indels: 16
0.80 0.15 0.05
Matches are distributed among these distances:
38 1 0.00
39 63 0.27
40 105 0.45
41 65 0.28
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.24
Consensus pattern (40 bp):
AAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTG
Found at i:17610298 original size:81 final size:80
Alignment explanation
Indices: 17610103--17610429 Score: 367
Period size: 81 Copynumber: 4.1 Consensus size: 80
17610093 CGTTTGGATA
* * * *
17610103 AAAAAACGCCGATATAGATCGAGCATTAGCGGCGCTTTTTGAAAAACACCGCTATAGATCGAGAA
1 AAAAAACGCCGCTATAAATCGAGCATTAGCGGCGCTTTTTGAAAAACACCACTATAGATCGAGCA
* *
17610168 TTAACGACGC-TTTT
66 TTAGCGACACTTTTT
* * *
17610182 AAAAAACGCCGCTATAGAA-CGAGCATTAACGGCGCTTTTTGAAAAAACGCCGCTATAGATCGAG
1 AAAAAACGCCGCTATA-AATCGAGCATTAGCGGCGCTTTTTG-AAAAACACCACTATAGATCGAG
*
17610246 CATTAGCGGCACTTTTT
64 CATTAGCGACACTTTTT
* * *
17610263 AAAAAACGTCGCTATAAATCAAGCATTAGCAGCGCTTTTTGAAAAAACACCACTATAGATCGAGC
1 AAAAAACGCCGCTATAAATCGAGCATTAGCGGCGCTTTTTG-AAAAACACCACTATAGATCGAGC
*
17610328 -TATAGCGACACTTATT
65 AT-TAGCGACACTTTTT
* ** * * *
17610344 AAAAAA-GCCGCTATAGATCGAGCATTA-CTGGCGCTTTTTGAAAAATGCCACTATAGGTCAACC
1 AAAAAACGCCGCTATAAATCGAGCATTAGC-GGCGCTTTTTGAAAAACACCACTATAGATCGAGC
* * *
17610407 ATTAGCGGCGCCTTTT
65 ATTAGCGACACTTTTT
17610423 AAAAAAC
1 AAAAAAC
17610430 ATCGCAAAAA
Statistics
Matches: 211, Mismatches: 29, Indels: 15
0.83 0.11 0.06
Matches are distributed among these distances:
79 71 0.34
80 62 0.29
81 78 0.37
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.24
Consensus pattern (80 bp):
AAAAAACGCCGCTATAAATCGAGCATTAGCGGCGCTTTTTGAAAAACACCACTATAGATCGAGCA
TTAGCGACACTTTTT
Found at i:17610524 original size:40 final size:41
Alignment explanation
Indices: 17610469--17610571 Score: 156
Period size: 40 Copynumber: 2.6 Consensus size: 41
17610459 AGCTTTAGTG
17610469 GCATTAGCGGCGCTTTTTGAAAAATGCCGCCATAGATCG-C
1 GCATTAGCGGCGCTTTTTGAAAAATGCCGCCATAGATCGAC
* * *
17610509 GCATTAGTGGCGCTTTTTGAAAAATGCCGCTATAGGTCGAC
1 GCATTAGCGGCGCTTTTTGAAAAATGCCGCCATAGATCGAC
*
17610550 -CAATAGCGGCGCTTTTTGAAAA
1 GCATTAGCGGCGCTTTTTGAAAA
17610572 CGCCGCAAAA
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
40 56 0.98
41 1 0.02
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.27
Consensus pattern (41 bp):
GCATTAGCGGCGCTTTTTGAAAAATGCCGCCATAGATCGAC
Found at i:17610601 original size:144 final size:143
Alignment explanation
Indices: 17610344--17610617 Score: 374
Period size: 144 Copynumber: 1.9 Consensus size: 143
17610334 GACACTTATT
* *
17610344 AAAAAAGCCGCTATAGATCGAGCATTACTGGCGCTTTTTGAAAAATGCCACTATAGGTCAACCAT
1 AAAAAAGCCGCCATAGATCGAGCATTACTGGCGCTTTTTGAAAAATGCCACTATAGGTCAACCAA
*
17610409 TAGCGGCGCCTTTTAAAAAACATCGCAAAAAAAATTTAACCACAATGTTGAGCTTTAGTGGCATT
66 TAGCGGCGCCTTTTAAAAAACACCGC-AAAAAAATTTAACCACAATGTTGAGCTTTAGTGGCATT
17610474 AGCGGCGCTTTTTG
130 AGCGGCGCTTTTTG
* * * * *
17610488 AAAAATGCCGCCATAGATCGCGCATTAGTGGCGCTTTTTGAAAAATGCCGCTATAGGTCGACCAA
1 AAAAAAGCCGCCATAGATCGAGCATTACTGGCGCTTTTTGAAAAATGCCACTATAGGTCAACCAA
** * *
17610553 TAGCGGCG-CTTTTTGAAAACGCCGC-AAAAAA-TTAAGCACACTTTATGTTGAGCTTTAGTGGC
66 TAGCGGCGCCTTTTAAAAAACACCGCAAAAAAATTTAA-C-CAC--AATGTTGAGCTTTAGTGGC
17610615 ATT
127 ATT
17610618 TCGCTATAGA
Statistics
Matches: 114, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
140 4 0.04
141 7 0.06
142 3 0.03
143 13 0.11
144 87 0.76
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (143 bp):
AAAAAAGCCGCCATAGATCGAGCATTACTGGCGCTTTTTGAAAAATGCCACTATAGGTCAACCAA
TAGCGGCGCCTTTTAAAAAACACCGCAAAAAAATTTAACCACAATGTTGAGCTTTAGTGGCATTA
GCGGCGCTTTTTG
Found at i:17610666 original size:40 final size:40
Alignment explanation
Indices: 17610621--17610701 Score: 101
Period size: 40 Copynumber: 2.0 Consensus size: 40
17610611 TGGCATTTCG
* *
17610621 CTATAGATCAAGCATTTA-TGGCGCTTTTTGAAAAACGCCA
1 CTATAGATCAA-CAGTTAGCGGCGCTTTTTGAAAAACGCCA
* * *
17610661 CTATAGGTCAACCGTTAGCGGCTCTTTTTGAAAAACGCCA
1 CTATAGATCAACAGTTAGCGGCGCTTTTTGAAAAACGCCA
17610701 C
1 C
17610702 AAAAAAATTA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
39 4 0.11
40 31 0.89
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (40 bp):
CTATAGATCAACAGTTAGCGGCGCTTTTTGAAAAACGCCA
Found at i:17610902 original size:7 final size:7
Alignment explanation
Indices: 17610771--17610904 Score: 63
Period size: 7 Copynumber: 18.7 Consensus size: 7
17610761 TAGTTACTAT
*
17610771 TTTAAGG
1 TTTAGGG
*
17610778 TTTATGG
1 TTTAGGG
17610785 TTTATGGG
1 TTTA-GGG
*
17610793 TTAAGGG
1 TTTAGGG
17610800 -TTAGGG
1 TTTAGGG
* *
17610806 TTTAAGA
1 TTTAGGG
17610813 TTTAGGGG
1 TTTA-GGG
** *
17610821 GGTGGGG
1 TTTAGGG
*
17610828 TTTAAGG
1 TTTAGGG
17610835 TTTAGGGG
1 TTTA-GGG
*
17610843 TTAAGGG
1 TTTAGGG
* *
17610850 TTTATGT
1 TTTAGGG
*
17610857 TTTATGG
1 TTTAGGG
* *
17610864 TTTAAGA
1 TTTAGGG
17610871 TTTAGGG
1 TTTAGGG
**
17610878 GATAGGGG
1 TTTA-GGG
*
17610886 TTAAGGG
1 TTTAGGG
17610893 TTTAGGG
1 TTTAGGG
17610900 TTTAG
1 TTTAG
17610905 ATTAATTAGT
Statistics
Matches: 91, Mismatches: 31, Indels: 10
0.69 0.23 0.08
Matches are distributed among these distances:
6 5 0.05
7 70 0.77
8 16 0.18
ACGTcount: A:0.21, C:0.00, G:0.39, T:0.40
Consensus pattern (7 bp):
TTTAGGG
Found at i:17610902 original size:36 final size:36
Alignment explanation
Indices: 17610825--17610907 Score: 96
Period size: 36 Copynumber: 2.3 Consensus size: 36
17610815 TAGGGGGGTG
* * * * *
17610825 GGGTTTAAGGTTTAGGGGTTAAGGGTTTATGTTTTA
1 GGGTTTAAGATTTAGGGGATAAGGGTTAAGGGTTTA
* *
17610861 TGGTTTAAGATTTAGGGGATAGGGGTTAAGGGTTTA
1 GGGTTTAAGATTTAGGGGATAAGGGTTAAGGGTTTA
17610897 GGGTTT-AGATT
1 GGGTTTAAGATT
17610908 AATTAGTGTT
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
35 5 0.13
36 34 0.87
ACGTcount: A:0.22, C:0.00, G:0.37, T:0.41
Consensus pattern (36 bp):
GGGTTTAAGATTTAGGGGATAAGGGTTAAGGGTTTA
Found at i:17611741 original size:21 final size:22
Alignment explanation
Indices: 17611717--17611761 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
17611707 GCACGGTTTT
17611717 AACCCAAAATTTTCCCT-CTAA
1 AACCCAAAATTTTCCCTCCTAA
** *
17611738 AACCCCTAATTTTTCCTCCTAA
1 AACCCAAAATTTTCCCTCCTAA
17611760 AA
1 AA
17611762 TTGGTATCCT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.31
Consensus pattern (22 bp):
AACCCAAAATTTTCCCTCCTAA
Found at i:17617828 original size:44 final size:44
Alignment explanation
Indices: 17617780--17617868 Score: 124
Period size: 44 Copynumber: 2.0 Consensus size: 44
17617770 GCTATCCCTT
* **
17617780 TCATTTAGGTGTCAACTTTTTTTTAACAGATATTATACCTTATA
1 TCATTTAGGTGTCAACATTAATTTAACAGATATTATACCTTATA
* * *
17617824 TCATTTAGGTGTCAACATTAATTTAATAGATGTTATGCCTTATA
1 TCATTTAGGTGTCAACATTAATTTAACAGATATTATACCTTATA
17617868 T
1 T
17617869 GATGCTATAT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.30, C:0.12, G:0.11, T:0.46
Consensus pattern (44 bp):
TCATTTAGGTGTCAACATTAATTTAACAGATATTATACCTTATA
Found at i:17620081 original size:19 final size:19
Alignment explanation
Indices: 17620058--17620099 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
17620048 TTTTATTGAT
17620058 ATTTTTA-TATTTAATTTA
1 ATTTTTATTATTTAATTTA
*
17620076 ATTTTTATTATTTATTTTA
1 ATTTTTATTATTTAATTTA
*
17620095 GTTTT
1 ATTTT
17620100 GATTCTAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.71
Consensus pattern (19 bp):
ATTTTTATTATTTAATTTA
Found at i:17620239 original size:35 final size:35
Alignment explanation
Indices: 17620171--17620239 Score: 86
Period size: 35 Copynumber: 2.0 Consensus size: 35
17620161 TAATTGTGTT
*
17620171 ATTAATTTATTATTTTAGATTCTAAATTTAAATTC
1 ATTAATTTATTATTTTAGATTCTAAATTAAAATTC
* * *
17620206 ATTAATTT-TTATATTTAGTTTTTAAGTTAAAATT
1 ATTAATTTATTAT-TTTAGATTCTAAATTAAAATT
17620240 TTAACTTAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
34 4 0.14
35 25 0.86
ACGTcount: A:0.36, C:0.03, G:0.04, T:0.57
Consensus pattern (35 bp):
ATTAATTTATTATTTTAGATTCTAAATTAAAATTC
Found at i:17620448 original size:42 final size:42
Alignment explanation
Indices: 17620370--17620602 Score: 202
Period size: 42 Copynumber: 5.5 Consensus size: 42
17620360 AATAGTCATA
* * * *
17620370 TTCTTTAGCGGCGTTTATAGGAAAAGTGCCGCTAAAGGTCTG
1 TTCTATAGCGGCGTTTGTGGGAAAAATGCCGCTAAAGGTCTG
* * *
17620412 TTCTATAGCTGCATTTGTGGGAAAAATGCCGCTAAAGGTCTA
1 TTCTATAGCGGCGTTTGTGGGAAAAATGCCGCTAAAGGTCTG
** *
17620454 TTCTATAGCGGCGTTTGTGGGAAAAGCGCCGTTAAAGGTCTG
1 TTCTATAGCGGCGTTTGTGGGAAAAATGCCGCTAAAGGTCTG
* * * *
17620496 TTCTGTAGAGGCGTTTGT-GGAAAAAAGCGACGCTAAAGGCCAT-
1 TTCTATAGCGGCGTTTGTGGGAAAAATGC--CGCTAAAGGTC-TG
* * * * *
17620539 ATCTTTAGCGGCGTTTGTAGGAAAAGA-GCCGTTAAAGGCCATG
1 TTCTATAGCGGCGTTTGTGGGAAAA-ATGCCGCTAAAGGTC-TG
* * *
17620582 ATCTTTAGCGGCATTTGTGGG
1 TTCTATAGCGGCGTTTGTGGG
17620603 TAAAGCGCCG
Statistics
Matches: 160, Mismatches: 25, Indels: 11
0.82 0.13 0.06
Matches are distributed among these distances:
41 8 0.05
42 99 0.62
43 43 0.27
44 9 0.06
45 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.30, T:0.29
Consensus pattern (42 bp):
TTCTATAGCGGCGTTTGTGGGAAAAATGCCGCTAAAGGTCTG
Found at i:17620563 original size:85 final size:85
Alignment explanation
Indices: 17620366--17620602 Score: 282
Period size: 84 Copynumber: 2.8 Consensus size: 85
17620356 TTTTAATAGT
* * * **
17620366 CATATTCTTTAGCGGCGTTTATAGGAAAAGTGCCGCTAAAGGTCTGTTCTATAGCTGCATTTGTG
1 CATATTCTTTAGCGGCGTTTGTAGGAAAAGAGCCGTTAAAGGTCTGTTCTATAGAGGCATTTGTG
* *
17620431 GGAAAAATGCCGCTAAAGGT
66 GGAAAAAAGCCGCTAAAGGC
* * * * *
17620451 C-TATTCTATAGCGGCGTTTGTGGGAAAAGCGCCGTTAAAGGTCTGTTCTGTAGAGGCGTTTGT-
1 CATATTCTTTAGCGGCGTTTGTAGGAAAAGAGCCGTTAAAGGTCTGTTCTATAGAGGCATTTGTG
17620514 GGAAAAAAGCGACGCTAAAGGC
66 GGAAAAAAGC--CGCTAAAGGC
* * * *
17620536 CATA-TCTTTAGCGGCGTTTGTAGGAAAAGAGCCGTTAAAGGCCATGATCTTTAGCGGCATTTGT
1 CATATTCTTTAGCGGCGTTTGTAGGAAAAGAGCCGTTAAAGGTC-TGTTCTATAGAGGCATTTGT
17620600 GGG
65 GGG
17620603 TAAAGCGCCG
Statistics
Matches: 128, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
83 9 0.07
84 53 0.41
85 46 0.36
86 18 0.14
87 2 0.02
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (85 bp):
CATATTCTTTAGCGGCGTTTGTAGGAAAAGAGCCGTTAAAGGTCTGTTCTATAGAGGCATTTGTG
GGAAAAAAGCCGCTAAAGGC
Found at i:17620696 original size:15 final size:15
Alignment explanation
Indices: 17620665--17620695 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
17620655 CACAAAAATG
17620665 TTAGCGGCGTTGTTT
1 TTAGCGGCGTTGTTT
17620680 TTAGCGGCGTT-TTT
1 TTAGCGGCGTTGTTT
17620694 TT
1 TT
17620696 TGCGCTTGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.06, C:0.13, G:0.29, T:0.52
Consensus pattern (15 bp):
TTAGCGGCGTTGTTT
Found at i:17622580 original size:40 final size:41
Alignment explanation
Indices: 17622492--17622588 Score: 110
Period size: 40 Copynumber: 2.4 Consensus size: 41
17622482 TAAGCCGGTA
*
17622492 TCGCACACTTAGTGCC-TTATATAGCCGAAGCTATGCCAAC
1 TCGCACACTTAGTGCCATTATATAGCCGAAGCTATGCAAAC
** * **
17622532 TCAAACACTTAGTGCCATT-TGTAGCCGAAGCTATATTAAAC
1 TCGCACACTTAGTGCCATTATATAGCCGAAGCTAT-GCAAAC
17622573 -CGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
17622589 AGCATAGTCG
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
40 42 0.89
41 5 0.11
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (41 bp):
TCGCACACTTAGTGCCATTATATAGCCGAAGCTATGCAAAC
Found at i:17626052 original size:20 final size:21
Alignment explanation
Indices: 17626011--17626053 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
17626001 TCCTAGTTAT
17626011 TTATGTTATAATTGTTGCAAA
1 TTATGTTATAATTGTTGCAAA
17626032 TTATGTT-TAATT-TTGCTAAA
1 TTATGTTATAATTGTTGC-AAA
17626052 TT
1 TT
17626054 CTATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.19
20 10 0.48
21 7 0.33
ACGTcount: A:0.30, C:0.05, G:0.12, T:0.53
Consensus pattern (21 bp):
TTATGTTATAATTGTTGCAAA
Found at i:17626612 original size:35 final size:35
Alignment explanation
Indices: 17626565--17626632 Score: 118
Period size: 35 Copynumber: 1.9 Consensus size: 35
17626555 TCTAAAGAAG
*
17626565 AAAGATGACATTTGGGTAATTGTTGATCAGTTGTC
1 AAAGATGACATTTGGATAATTGTTGATCAGTTGTC
*
17626600 AAAGATGCCATTTGGATAATTGTTGATCAGTTG
1 AAAGATGACATTTGGATAATTGTTGATCAGTTG
17626633 ACTAAGTCTG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.29, C:0.09, G:0.25, T:0.37
Consensus pattern (35 bp):
AAAGATGACATTTGGATAATTGTTGATCAGTTGTC
Found at i:17641307 original size:21 final size:21
Alignment explanation
Indices: 17641266--17641309 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
17641256 TGGTTCAATC
* *
17641266 TCTGTGGGATCTTCTTCTTCT
1 TCTGTGGGATCCTCCTCTTCT
17641287 TCTGTGGGATCCTCACT-TTCT
1 TCTGTGGGATCCTC-CTCTTCT
17641308 TC
1 TC
17641310 AACTTGTTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.07, C:0.27, G:0.18, T:0.48
Consensus pattern (21 bp):
TCTGTGGGATCCTCCTCTTCT
Found at i:17642568 original size:16 final size:15
Alignment explanation
Indices: 17642543--17642576 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
17642533 AAAGTTGATA
*
17642543 ATAATTAATATATATT
1 ATAATAAATATA-ATT
17642559 ATAATAAATATAATT
1 ATAATAAATATAATT
17642574 ATA
1 ATA
17642577 TACTAGTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATAATAAATATAATT
Found at i:17644114 original size:21 final size:21
Alignment explanation
Indices: 17644088--17644128 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
17644078 ACACGGCTGC
17644088 GACACATGGTCGTGTCTCTGT
1 GACACATGGTCGTGTCTCTGT
17644109 GACACATGGTCGTGTCTCTG
1 GACACATGGTCGTGTCTCTG
17644129 CCTGTGTGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.15, C:0.24, G:0.29, T:0.32
Consensus pattern (21 bp):
GACACATGGTCGTGTCTCTGT
Found at i:17646315 original size:30 final size:30
Alignment explanation
Indices: 17646281--17646341 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
17646271 TCCTTAACTC
17646281 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
17646311 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
17646341 A
1 A
17646342 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:17649289 original size:26 final size:26
Alignment explanation
Indices: 17649236--17649302 Score: 91
Period size: 26 Copynumber: 2.6 Consensus size: 26
17649226 CATAGAGCCA
*
17649236 TAATCAGGAAGTTCACAAAGAAATTT
1 TAATCAGGAAGCTCACAAAGAAATTT
*
17649262 TAATCAGGAAGCTCACAAAG-AGTGTT
1 TAATCAGGAAGCTCACAAAGAAAT-TT
*
17649288 TAAACAGGAAGCTCA
1 TAATCAGGAAGCTCA
17649303 AATGAGCCAT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
25 2 0.05
26 35 0.95
ACGTcount: A:0.43, C:0.15, G:0.19, T:0.22
Consensus pattern (26 bp):
TAATCAGGAAGCTCACAAAGAAATTT
Found at i:17649489 original size:65 final size:65
Alignment explanation
Indices: 17649362--17649507 Score: 166
Period size: 65 Copynumber: 2.2 Consensus size: 65
17649352 AGCTAGCCAT
* * * ** *
17649362 AACAGGACACCCACAAATAGCTACGTTTGTTTCTGCAACATATGCCGGATCACAACCAATCATAA
1 AACAGGACGCTCACAAATAGCTACGTTTGTGTCCACAACATATGCAGGATCACAACCAATCATAA
* * * *** *
17649427 AATAGGACGCTCACAAATAGCTGCGTTTGTGTCCACAATATATGCAGGATCACAATTGATCATAT
1 AACAGGACGCTCACAAATAGCTACGTTTGTGTCCACAACATATGCAGGATCACAACCAATCATAA
*
17649492 AACAGTACGCTCACAA
1 AACAGGACGCTCACAA
17649508 GGAGTTGCGG
Statistics
Matches: 66, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
65 66 1.00
ACGTcount: A:0.36, C:0.25, G:0.16, T:0.23
Consensus pattern (65 bp):
AACAGGACGCTCACAAATAGCTACGTTTGTGTCCACAACATATGCAGGATCACAACCAATCATAA
Found at i:17653789 original size:16 final size:16
Alignment explanation
Indices: 17653770--17653800 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
17653760 CTTCTTCACT
17653770 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
17653786 TACTTACTTACTTAA
1 TACTCACTTACTTAA
17653801 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:17653806 original size:20 final size:20
Alignment explanation
Indices: 17653767--17653806 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
17653757 AAACTTCTTC
* *
17653767 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
17653787 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
17653807 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:17654181 original size:55 final size:53
Alignment explanation
Indices: 17653992--17654246 Score: 236
Period size: 55 Copynumber: 4.8 Consensus size: 53
17653982 ACGCGGGTAC
* * * * *
17653992 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTATCC-T---TT-TGAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG-AA
* *
17654041 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAA
* * *
17654094 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTCGCCTTATAGTAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTT-GCCTTAT-G-AA
* ***
17654149 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTA-GAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG-AA
* * * *
17654202 CCTTACCAATTGTCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -CTTACCAA-TGCCATGTCTTGACATGGTCTTACATGGGATCCTT
17654247 AAACCCTAAT
Statistics
Matches: 173, Mismatches: 22, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
49 38 0.22
50 1 0.01
52 4 0.02
53 47 0.27
54 10 0.06
55 69 0.40
56 4 0.02
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.36
Consensus pattern (53 bp):
CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAA
Found at i:17654183 original size:108 final size:110
Alignment explanation
Indices: 17654039--17654239 Score: 318
Period size: 108 Copynumber: 1.8 Consensus size: 110
17654029 ATCCTTTTGA
* *
17654039 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTA-GAAACCTCACCAA
17654102 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTCGCCTTATAGT
65 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTCGCCTTATAGT
* * *
17654147 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
*
17654212 TGTCATGCCTTGGCATGGTCTTACATGG
66 TGCCATGCCTTGGCATGGTCTTACATGG
17654240 TATCCTTAAA
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
107 1 0.01
108 49 0.58
109 7 0.08
110 27 0.32
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTCGCCTTATAGT
Found at i:17657477 original size:46 final size:46
Alignment explanation
Indices: 17657376--17657471 Score: 111
Period size: 46 Copynumber: 2.0 Consensus size: 46
17657366 TGTAACCCGC
* ****
17657376 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
1 CCATGAGTGAACTCGGACTCAACTCAACGAGCTCGGGCCCAAACAT
* *
17657422 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATAT
1 CCATGAGTGAACTCGGACTCAACTCAACGAGCTCGG--GCCCAAACAT
17657470 CC
1 CC
17657472 TAGTGAGATG
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
46 34 0.83
48 7 0.17
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATGAGTGAACTCGGACTCAACTCAACGAGCTCGGGCCCAAACAT
Found at i:17661039 original size:67 final size:64
Alignment explanation
Indices: 17660896--17661079 Score: 203
Period size: 67 Copynumber: 2.8 Consensus size: 64
17660886 ATATAGTTCG
* * * * * *
17660896 GCTCTCTTGTAC-ACATGGTGAACACTTAGTACCACCCATGTGACCTAGC--CAGTTTATCTCGT
1 GCTCTCTTGT-CTACATGGTGTACACATAGAACCACCCATGCGACCTAGCTACA-TATATCCCGT
17660958 A
64 A
* * *
17660959 GCTCTCTTGTCTACATGGTGTCCATCACTTGGAACCACGCATGCGACCTAGCTACATATATCCCG
1 GCTCTCTTGTCTACATGGTGT--A-CACATAGAACCACCCATGCGACCTAGCTACATATATCCCG
17661024 TA
63 TA
* *
17661026 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACAT
1 GCTCTCTTGTCTACATGGTGTACACATAGAACCACCCATGCGACCTAGCTACAT
17661080 CATAATGTCT
Statistics
Matches: 103, Mismatches: 12, Indels: 11
0.82 0.10 0.09
Matches are distributed among these distances:
62 1 0.01
63 18 0.17
64 27 0.26
65 2 0.02
66 23 0.22
67 30 0.29
68 2 0.02
ACGTcount: A:0.23, C:0.30, G:0.17, T:0.29
Consensus pattern (64 bp):
GCTCTCTTGTCTACATGGTGTACACATAGAACCACCCATGCGACCTAGCTACATATATCCCGTA
Found at i:17661848 original size:30 final size:30
Alignment explanation
Indices: 17661814--17661874 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
17661804 TCCTTAACTC
17661814 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
17661844 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
17661874 A
1 A
17661875 GGGTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:17666295 original size:30 final size:30
Alignment explanation
Indices: 17666261--17666321 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
17666251 TCCTCAACTC
*
17666261 AAACTTTGGTAAAATTACAATTTTGCCCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
* * * *
17666291 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
17666321 A
1 A
17666322 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.39
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACAATTTTGCCCCT
Found at i:17671284 original size:16 final size:16
Alignment explanation
Indices: 17671265--17671295 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
17671255 CTTCTTCGCT
17671265 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
17671281 TACTTACTTACTTAA
1 TACTCACTTACTTAA
17671296 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:17671301 original size:20 final size:20
Alignment explanation
Indices: 17671263--17671301 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
17671253 AACTTCTTCG
* *
17671263 CTTACTCACTTACTTAAATA
1 CTTACTCACTTAATCAAATA
*
17671283 CTTACTTACTTAATCAAAT
1 CTTACTCACTTAATCAAAT
17671302 TTATTAATAC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.36, C:0.23, G:0.00, T:0.41
Consensus pattern (20 bp):
CTTACTCACTTAATCAAATA
Found at i:17672236 original size:90 final size:90
Alignment explanation
Indices: 17672083--17672260 Score: 329
Period size: 90 Copynumber: 2.0 Consensus size: 90
17672073 ACCGAGTACT
* *
17672083 GGTATCGACATTCCATAGAAGATGGTTGAGACATATGATTGTGAAAAATGTCCCGTTGAACCTTA
1 GGTATCGACATTCCATAGAAGATCGTTGAGACATATGATTGGGAAAAATGTCCCGTTGAACCTTA
17672148 GGAATGGATTAGGATACAAGTGATC
66 GGAATGGATTAGGATACAAGTGATC
*
17672173 GGTATCGACATTCCATAGAAGATCGTTGAGAGATATGATTGGGAAAAATGTCCCGTTGAACCTTA
1 GGTATCGACATTCCATAGAAGATCGTTGAGACATATGATTGGGAAAAATGTCCCGTTGAACCTTA
17672238 GGAATGGATTAGGATACAAGTGA
66 GGAATGGATTAGGATACAAGTGA
17672261 CATGTCACTG
Statistics
Matches: 85, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
90 85 1.00
ACGTcount: A:0.34, C:0.13, G:0.26, T:0.27
Consensus pattern (90 bp):
GGTATCGACATTCCATAGAAGATCGTTGAGACATATGATTGGGAAAAATGTCCCGTTGAACCTTA
GGAATGGATTAGGATACAAGTGATC
Found at i:17672341 original size:46 final size:45
Alignment explanation
Indices: 17672284--17672459 Score: 183
Period size: 46 Copynumber: 3.8 Consensus size: 45
17672274 TATTTGGGCA
17672284 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGTG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAG-G
* *** * * *
17672330 TCCAAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGAGG
* * *
17672375 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCG-AGG
* * *
17672423 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
17672460 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 19, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
45 1 0.01
46 71 0.67
47 32 0.30
48 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGG
Found at i:17672439 original size:93 final size:93
Alignment explanation
Indices: 17672280--17672451 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
17672270 GGGATATTTG
** *
17672280 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGTGTCCAAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACTCGTTGAG
17672345 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * * *
17672373 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACTCGTTGAG
*
17672438 TTGAGTCTGAGTTC
66 TTGAGTCCGAGTTC
17672452 ACTTATGGGC
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:17674713 original size:47 final size:47
Alignment explanation
Indices: 17674650--17675712 Score: 1905
Period size: 47 Copynumber: 22.6 Consensus size: 47
17674640 CCCTTCGGGA
* * * * *
17674650 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
17674697 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
17674744 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATCGGCCATTAGGC
* * * *
17674791 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATCGGCCATTAGGC
* *
17674838 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17674887 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17674934 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17674981 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17675028 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17675075 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17675122 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17675169 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17675216 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17675263 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17675310 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17675357 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17675404 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17675451 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17675498 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17675545 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17675592 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
17675639 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
17675686 CTTATCATATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
17675713 TATTCAAATA
Statistics
Matches: 997, Mismatches: 15, Indels: 8
0.98 0.01 0.01
Matches are distributed among these distances:
46 1 0.00
47 952 0.95
49 43 0.04
50 1 0.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:17677236 original size:56 final size:56
Alignment explanation
Indices: 17677169--17677288 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
17677159 TATTAGTTTA
17677169 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
17677225 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
17677281 TTGCCCAT
1 TTGCCCAT
17677289 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:17680212 original size:15 final size:15
Alignment explanation
Indices: 17680162--17680234 Score: 62
Period size: 15 Copynumber: 4.9 Consensus size: 15
17680152 TCGTATCTTG
17680162 GGTTTCTTTA-TCCT
1 GGTTTCTTTATTCCT
* *
17680176 GAATCTCTTTATT-CT
1 G-GTTTCTTTATTCCT
17680191 GGATTTCTTTATTCCT
1 GG-TTTCTTTATTCCT
* *
17680207 GGTTTCTCTA-TCTT
1 GGTTTCTTTATTCCT
17680221 GGATTTCTTTATTC
1 GG-TTTCTTTATTC
17680235 GGTTTTCTTA
Statistics
Matches: 46, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
14 6 0.13
15 33 0.72
16 7 0.15
ACGTcount: A:0.12, C:0.19, G:0.12, T:0.56
Consensus pattern (15 bp):
GGTTTCTTTATTCCT
Found at i:17680233 original size:30 final size:31
Alignment explanation
Indices: 17680155--17680234 Score: 94
Period size: 30 Copynumber: 2.6 Consensus size: 31
17680145 CATAGTATCG
* *
17680155 TATCTTGGGTTTCTTTA-TCCTGAATCTCTT
1 TATCTTGGATTTCTTTATTCCTGAATCTCTC
* *
17680185 TAT-TCTGGATTTCTTTATTCCTG-GTTTCTC
1 TATCT-TGGATTTCTTTATTCCTGAATCTCTC
17680215 TATCTTGGATTTCTTTATTC
1 TATCTTGGATTTCTTTATTC
17680235 GGTTTTCTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
29 1 0.02
30 36 0.84
31 6 0.14
ACGTcount: A:0.12, C:0.19, G:0.12, T:0.56
Consensus pattern (31 bp):
TATCTTGGATTTCTTTATTCCTGAATCTCTC
Found at i:17682213 original size:46 final size:46
Alignment explanation
Indices: 17682160--17683067 Score: 1536
Period size: 46 Copynumber: 19.7 Consensus size: 46
17682150 TGGGCATCCG
17682160 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGTGTCCA
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGTGTCCA
17682206 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGTGTCCA
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGTGTCCA
17682252 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGTGTCCA
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGTGTCCA
17682298 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGTGTCCA
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGTGTCCA
17682344 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGTGTCCA
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGTGTCCA
17682390 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGTGTCCA
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGTGTCCA
17682436 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGTGTCCA
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGTGTCCA
17682482 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGTGTCCA
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGTGTCCA
17682528 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGTGTCCA
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGTGTCCA
17682574 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGTGTCCA
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGTGTCCA
17682620 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGTGTCCA
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGTGTCCA
17682666 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGTGTCCA
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGTGTCCA
17682712 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGTGTCCA
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGTGTCCA
17682758 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGTGTCCA
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGTGTCCA
17682804 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGTGTCCA
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGTGTCCA
* ** * ** *
17682850 AACTCGTTGAGTTGAGTCCGAGTTCAC-T-GGGATATTTGGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG--ATGCGAGTGTCCA
* *
17682896 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGTGTCCA
* *** * * * *
17682942 AACTCGTTGAGTTGAGTCTGAGTTCGAGAGATGTA-ACTAG-GCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGAGTG--TCCA
* ** * *
17682989 AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGTGTCCA
*
17683035 AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
17683068 GCGGGTTACA
Statistics
Matches: 824, Mismatches: 29, Indels: 18
0.95 0.03 0.02
Matches are distributed among these distances:
44 2 0.00
45 2 0.00
46 782 0.95
47 35 0.04
48 3 0.00
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGTGTCCA
Found at i:17684674 original size:108 final size:110
Alignment explanation
Indices: 17684535--17684735 Score: 300
Period size: 108 Copynumber: 1.8 Consensus size: 110
17684525 ATCCTTTTGA
* * *
17684535 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCAC-CA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTA-GAAACCTCACAAA
17684597 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTCGCCTTATAGT
65 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTCGCCTTATAGT
* * *
17684643 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACAAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACAAAT
**
17684708 TTTCATGCCTTGGCATGGTCTTACATGG
66 TGCCATGCCTTGGCATGGTCTTACATGG
17684736 TATCCTTAAA
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
107 1 0.01
108 49 0.60
109 4 0.05
110 28 0.34
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.35
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACAAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTCGCCTTATAGT
Done.