Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 279 of 320
Found at i:89979748 original size:54 final size:55
Alignment explanation
Indices: 89979588--89979765 Score: 164
Period size: 54 Copynumber: 3.3 Consensus size: 55
89979578 ATATTGAGCC
* * * * * * * * *
89979588 CGCACACTCAGTGCTATATAATCA-ACTCGCACGCTTAGTGCCACGTAATCGAAT
1 CGCACACTTAGTGCTACATAGTCAGACTCGCACACTGAGTGCAACATAGTCAAAT
* ** * *
89979642 CGCACACTTAGTGCTACATAGTCAGACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAGACTCGCACACTGAGTGCAACATAGTCAAAT
* **
89979697 CGCACACTTAGTGC-ATCATATTCA-TTTCGCACACTGAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTA-CATAGTCAGACTCGCACACTGAGTGCAACATAGTCAAAT
*
89979751 CGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
89979766 GTACAATTTA
Statistics
Matches: 102, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
54 58 0.57
55 44 0.43
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAGACTCGCACACTGAGTGCAACATAGTCAAAT
Found at i:89987080 original size:39 final size:39
Alignment explanation
Indices: 89987026--89987184 Score: 246
Period size: 39 Copynumber: 4.1 Consensus size: 39
89987016 AATTTTATTA
89987026 CCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTT
* * * * *
89987065 CCAGCACGAAGCCTGCGGGTCTTTGGCCTGGATATATTT
1 CCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTT
89987104 CCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTT
* * *
89987143 TCAGCACAAAGCCTGCGGGTCTTTAGCCCGGATATATTT
1 CCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTT
89987182 CCA
1 CCA
89987185 TACACATTTC
Statistics
Matches: 106, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 106 1.00
ACGTcount: A:0.23, C:0.29, G:0.24, T:0.24
Consensus pattern (39 bp):
CCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTT
Found at i:89987155 original size:78 final size:78
Alignment explanation
Indices: 89987021--89987184 Score: 283
Period size: 78 Copynumber: 2.1 Consensus size: 78
89987011 CCCGAAATTT
* *
89987021 TATTACCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGGGTC
1 TATTTCCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACAAAGCCTGCGGGTC
* *
89987086 TTTGGCCTGGATA
66 TTTAGCCCGGATA
*
89987099 TATTTCCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTTTCAGCACAAAGCCTGCGGGTC
1 TATTTCCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACAAAGCCTGCGGGTC
89987164 TTTAGCCCGGATA
66 TTTAGCCCGGATA
89987177 TATTTCCA
1 TATTTCCA
89987185 TACACATTTC
Statistics
Matches: 81, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
78 81 1.00
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (78 bp):
TATTTCCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACAAAGCCTGCGGGTC
TTTAGCCCGGATA
Found at i:89994119 original size:23 final size:23
Alignment explanation
Indices: 89994093--89994186 Score: 134
Period size: 23 Copynumber: 4.1 Consensus size: 23
89994083 AAGTTAGAAG
89994093 AGTGAAGAGACTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* * *
89994116 AGTGAAAAAACTTGAATATGAAT
1 AGTGAAGAGACTTGAATATGAAA
*
89994139 AGTGAAGAGACTTGAAAATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* *
89994162 AGTTAAGAGGCTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
89994185 AG
1 AG
89994187 ATACACACAT
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 61 1.00
ACGTcount: A:0.49, C:0.04, G:0.24, T:0.22
Consensus pattern (23 bp):
AGTGAAGAGACTTGAATATGAAA
Found at i:89998566 original size:23 final size:23
Alignment explanation
Indices: 89998540--89998633 Score: 134
Period size: 23 Copynumber: 4.1 Consensus size: 23
89998530 AAGTTAGAAG
89998540 AGTGAAGAGACTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* * *
89998563 AGTGAAAAAACTTGAATATGAAT
1 AGTGAAGAGACTTGAATATGAAA
*
89998586 AGTGAAGAGACTTGAAGATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* *
89998609 AGTTAAGAGGCTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
89998632 AG
1 AG
89998634 ATACACACAT
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 61 1.00
ACGTcount: A:0.48, C:0.04, G:0.26, T:0.22
Consensus pattern (23 bp):
AGTGAAGAGACTTGAATATGAAA
Found at i:90001138 original size:22 final size:22
Alignment explanation
Indices: 90001112--90001154 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
90001102 TTAAGGTAAA
*
90001112 ATCGAAAATATTCGATTAATTG
1 ATCGAAAAAATTCGATTAATTG
*
90001134 ATCGAAAAAATTCGGTTAATT
1 ATCGAAAAAATTCGATTAATT
90001155 AGTTGGTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.42, C:0.09, G:0.14, T:0.35
Consensus pattern (22 bp):
ATCGAAAAAATTCGATTAATTG
Found at i:90001420 original size:5 final size:6
Alignment explanation
Indices: 90001407--90001446 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
90001397 ATAATTTAAT
90001407 AAATAA AAATAA AAATCTAA AAAT-A AAATAA AAATAA AAA
1 AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATAA AAA
90001447 AACAAATGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
5 5 0.16
6 20 0.65
8 6 0.19
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:90001422 original size:31 final size:31
Alignment explanation
Indices: 90001384--90001446 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
90001374 CAACCCAGTC
* **
90001384 ATAAAAAT-TACAAATAATTTAATAAATAAAA
1 ATAAAAATCTAAAAATAAAATAA-AAATAAAA
90001415 ATAAAAATCTAAAAATAAAATAAAAATAAAA
1 ATAAAAATCTAAAAATAAAATAAAAATAAAA
90001446 A
1 A
90001447 AACAAATGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 17 0.61
32 11 0.39
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (31 bp):
ATAAAAATCTAAAAATAAAATAAAAATAAAA
Found at i:90001447 original size:19 final size:20
Alignment explanation
Indices: 90001407--90001448 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
90001397 ATAATTTAAT
**
90001407 AAATAAAAATAAAAATCTAA
1 AAATAAAAATAAAAATAAAA
90001427 AAAT-AAAATAAAAATAAAA
1 AAATAAAAATAAAAATAAAA
90001446 AAA
1 AAA
90001449 CAAATGATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.81, C:0.02, G:0.00, T:0.17
Consensus pattern (20 bp):
AAATAAAAATAAAAATAAAA
Found at i:90001490 original size:18 final size:18
Alignment explanation
Indices: 90001467--90001517 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
90001457 TTTATACAAA
*
90001467 TAATTCAGTTAATTCGAG
1 TAATTCGGTTAATTCGAG
* *
90001485 TAATTCGGGTAATTCGAT
1 TAATTCGGTTAATTCGAG
90001503 TAATTCGGTTAATTC
1 TAATTCGGTTAATTC
90001518 TATATTTATT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.29, C:0.12, G:0.18, T:0.41
Consensus pattern (18 bp):
TAATTCGGTTAATTCGAG
Found at i:90001789 original size:75 final size:75
Alignment explanation
Indices: 90001666--90001815 Score: 291
Period size: 75 Copynumber: 2.0 Consensus size: 75
90001656 GTTAACCGGT
*
90001666 CGGTTAACCGACTGAACACCCTTACTTGTATGATAATAACATTTTATAAAATTTTTATTCCTCAA
1 CGGTTAACCGACTGAACACCCATACTTGTATGATAATAACATTTTATAAAATTTTTATTCCTCAA
90001731 AATTTTCTAC
66 AATTTTCTAC
90001741 CGGTTAACCGACTGAACACCCATACTTGTATGATAATAACATTTTATAAAATTTTTATTCCTCAA
1 CGGTTAACCGACTGAACACCCATACTTGTATGATAATAACATTTTATAAAATTTTTATTCCTCAA
90001806 AATTTTCTAC
66 AATTTTCTAC
90001816 TTTCTTACTC
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
75 74 1.00
ACGTcount: A:0.34, C:0.20, G:0.08, T:0.38
Consensus pattern (75 bp):
CGGTTAACCGACTGAACACCCATACTTGTATGATAATAACATTTTATAAAATTTTTATTCCTCAA
AATTTTCTAC
Found at i:90003664 original size:46 final size:47
Alignment explanation
Indices: 90003485--90003748 Score: 192
Period size: 47 Copynumber: 5.7 Consensus size: 47
90003475 TTTGTATGCT
* * * * **
90003485 AGTGTAAGA-TATGTCTGGAACAT-GCATCAGCCACATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCTACAAGATGA-AGCC
* * ** * *
90003531 AGTGTAAGACCATGTTTGGGACATGGTATCGGC-ATTGAGACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCTA-CAAGATGA-AGCC
* *
90003579 AGTGTAAGA-AATGTCTGGGACATGTGC--CGGCCT-CGAGATGTAAGCC
1 AGTGTAAGACCATGTCTGGGACATG-GCATCGG-CTACAAGATG-AAGCC
* *
90003625 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACAAGATG-TGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCTACAAGATGAAGCC
* * **
90003669 AGTGTAAGACCATGTCTGGGGCATGGCATCGAGTTGA-TGGATG-AGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCG-GCT-ACAAGATGAAGCC
90003716 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
90003749 ATTATACCCT
Statistics
Matches: 175, Mismatches: 29, Indels: 28
0.75 0.12 0.12
Matches are distributed among these distances:
44 13 0.07
45 15 0.09
46 58 0.33
47 65 0.37
48 24 0.14
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCTACAAGATGAAGCC
Found at i:90008264 original size:126 final size:126
Alignment explanation
Indices: 90008071--90008377 Score: 472
Period size: 126 Copynumber: 2.4 Consensus size: 126
90008061 TATTTGGTCC
* * * ** *
90008071 AACGAAAAACCCAAACCCAACACGTTAGGGCATAATTTCTCGGATTTCCAAACATAGAACATTGC
1 AACGAAAAACCGAATCCCAGCACGTTAGGGCACGATTTCTCGAATTTCCAAACATAGAACATTGC
*
90008136 CTTGTTTTGAAGTTTTGAAAACACAGACGAAATTTTAAAGGGATATTTGGTTATTTAGACA
66 CTTGTTTTGAAGTTTTGAAAACACAGACGAAAGTTTAAAGGGATATTTGGTTATTTAGACA
* *
90008197 AAC-AGAAAATCGAATCCCAGCACGTTAGGGCACGATTTCTCGAATTTCTAAACATAGAACATTG
1 AACGA-AAAACCGAATCCCAGCACGTTAGGGCACGATTTCTCGAATTTCCAAACATAGAACATTG
* * * * *
90008261 CCTTGTTTTGAAGTTTTGAAGACACAGACGAGAGTTTAATGGGGTATTTGGTTATTTGGACA
65 CCTTGTTTTGAAGTTTTGAAAACACAGACGAAAGTTTAAAGGGATATTTGGTTATTTAGACA
90008323 AACGAAAAACCGAATCCCAGCACGTTAGGGCACGATTTCTCGAATTTCCAAACAT
1 AACGAAAAACCGAATCCCAGCACGTTAGGGCACGATTTCTCGAATTTCCAAACAT
90008378 CAAACAATAT
Statistics
Matches: 163, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
125 1 0.01
126 161 0.99
127 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.28
Consensus pattern (126 bp):
AACGAAAAACCGAATCCCAGCACGTTAGGGCACGATTTCTCGAATTTCCAAACATAGAACATTGC
CTTGTTTTGAAGTTTTGAAAACACAGACGAAAGTTTAAAGGGATATTTGGTTATTTAGACA
Found at i:90011840 original size:126 final size:126
Alignment explanation
Indices: 90011644--90011968 Score: 447
Period size: 126 Copynumber: 2.6 Consensus size: 126
90011634 TTATTTGTCC
* * * *
90011644 AACGAAAAATCGAAA-CCCAACATGTTAGGGCACAATTTCTCGGATTTTCAAACATAAAACATTG
1 AACGAAAAATC-AAATCCCAACACGTTAGGGCACAATTTCTCGAATTTCCAAACATAAAACATTA
*
90011708 CTTTGTTTAAAAGTTTTGAAAACACAGATGAAATTTTAAAGGGATATTTGGTTATTTGGACA
65 CCTTGTTTAAAAGTTTTGAAAACACAGATGAAATTTTAAAGGGATATTTGGTTATTTGGACA
* * *
90011770 AACGGAAAATCAAATCCCAGCACGTTAGGGCACAATTTCTCAAATTTCCAAACATAGAAA-ATTA
1 AACGAAAAATCAAATCCCAACACGTTAGGGCACAATTTCTCGAATTTCCAAACATA-AAACATTA
** * * *
90011834 CCTTGTTTTGAAGTTTTGAAAGCACGGATGAAATTTTAAAGGGGTATTTGGTTATTTGGACA
65 CCTTGTTTAAAAGTTTTGAAAACACAGATGAAATTTTAAAGGGATATTTGGTTATTTGGACA
** * * *
90011896 AACGAAAAATTGAATCCCAACACGTTAGGGCACGATTTCTCGAATTTCCAAACATCAAACATTGC
1 AACGAAAAATCAAATCCCAACACGTTAGGGCACAATTTCTCGAATTTCCAAACATAAAACATTAC
90011961 CTTTGTTT
66 C-TTGTTT
90011969 TGAAATTTTT
Statistics
Matches: 174, Mismatches: 21, Indels: 7
0.86 0.10 0.03
Matches are distributed among these distances:
125 6 0.03
126 159 0.91
127 9 0.05
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.30
Consensus pattern (126 bp):
AACGAAAAATCAAATCCCAACACGTTAGGGCACAATTTCTCGAATTTCCAAACATAAAACATTAC
CTTGTTTAAAAGTTTTGAAAACACAGATGAAATTTTAAAGGGATATTTGGTTATTTGGACA
Found at i:90022275 original size:25 final size:25
Alignment explanation
Indices: 90022247--90022328 Score: 87
Period size: 25 Copynumber: 3.3 Consensus size: 25
90022237 TAGCTCTTAT
* *
90022247 GAGCATCCTATTATATGGCTCTCAC
1 GAGCTTCCAATTATATGGCTCTCAC
*
90022272 GAGCTTCCCAA-TATTTGGCTCTCAC
1 GAGCTT-CCAATTATATGGCTCTCAC
**
90022297 GAGCTTTCCAATTA-ATGGCTCTCTT
1 GAGC-TTCCAATTATATGGCTCTCAC
90022322 GAGCTTC
1 GAGCTTC
90022329 TCGTTTATGG
Statistics
Matches: 48, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
24 3 0.06
25 38 0.79
26 7 0.15
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (25 bp):
GAGCTTCCAATTATATGGCTCTCAC
Found at i:90023952 original size:35 final size:35
Alignment explanation
Indices: 90023906--90023977 Score: 117
Period size: 35 Copynumber: 2.1 Consensus size: 35
90023896 CCCTACATAC
* *
90023906 CATGTGAGGATAAAGTCGACCCGCTCAACCCTACA
1 CATGTGAGGATAAAGTCGACCCACCCAACCCTACA
*
90023941 CATGTGGGGATAAAGTCGACCCACCCAACCCTACA
1 CATGTGAGGATAAAGTCGACCCACCCAACCCTACA
90023976 CA
1 CA
90023978 CCAAGTCATA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.32, C:0.33, G:0.19, T:0.15
Consensus pattern (35 bp):
CATGTGAGGATAAAGTCGACCCACCCAACCCTACA
Found at i:90024593 original size:16 final size:16
Alignment explanation
Indices: 90024572--90024610 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 16
90024562 AGAACCCATA
90024572 TTTCAGCTTTTC-ACCT
1 TTTCAGCTTTTCGA-CT
90024588 TTTCAGCTTTTCGACT
1 TTTCAGCTTTTCGACT
90024604 TTTCAGC
1 TTTCAGC
90024611 CTTTGTCATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 21 0.95
17 1 0.05
ACGTcount: A:0.13, C:0.28, G:0.10, T:0.49
Consensus pattern (16 bp):
TTTCAGCTTTTCGACT
Found at i:90032389 original size:43 final size:43
Alignment explanation
Indices: 90032320--90032508 Score: 351
Period size: 43 Copynumber: 4.4 Consensus size: 43
90032310 CGGGGTAAAT
*
90032320 CTAGCAGGCTTCGTGCCGGTGTTGTGTATTCGGGCCTTCGTGC
1 CTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGC
*
90032363 CTAGCAGGCTTCGTGCTGGTGATGTGTATTCGGGCCTTCGTGC
1 CTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGC
90032406 CTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGC
1 CTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGC
*
90032449 CTAGCAGGCTTTGTGCCGGTGATGTGTATTCGGGCCTTCGTGC
1 CTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGC
90032492 CTAGCAGGCTTCGTGCC
1 CTAGCAGGCTTCGTGCC
90032509 TAGCAGGCTT
Statistics
Matches: 141, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 141 1.00
ACGTcount: A:0.09, C:0.25, G:0.34, T:0.31
Consensus pattern (43 bp):
CTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGC
Found at i:90032505 original size:16 final size:16
Alignment explanation
Indices: 90032484--90032524 Score: 82
Period size: 16 Copynumber: 2.6 Consensus size: 16
90032474 GTATTCGGGC
90032484 CTTCGTGCCTAGCAGG
1 CTTCGTGCCTAGCAGG
90032500 CTTCGTGCCTAGCAGG
1 CTTCGTGCCTAGCAGG
90032516 CTTCGTGCC
1 CTTCGTGCC
90032525 GGTGATGTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.10, C:0.34, G:0.29, T:0.27
Consensus pattern (16 bp):
CTTCGTGCCTAGCAGG
Found at i:90032513 original size:59 final size:59
Alignment explanation
Indices: 90032441--90032567 Score: 236
Period size: 59 Copynumber: 2.2 Consensus size: 59
90032431 GTATTCGGGC
* *
90032441 CTTCGTGCCTAGCAGGCTTTGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGG
1 CTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAACAGG
90032500 CTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAACAGG
1 CTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAACAGG
90032559 CTTCGTGCC
1 CTTCGTGCC
90032568 GGTGATGTGT
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 66 1.00
ACGTcount: A:0.10, C:0.28, G:0.32, T:0.30
Consensus pattern (59 bp):
CTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAACAGG
Found at i:90032535 original size:102 final size:102
Alignment explanation
Indices: 90032398--90032610 Score: 408
Period size: 102 Copynumber: 2.1 Consensus size: 102
90032388 GTATTCGGGC
* *
90032398 CTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGT
1 CTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAACAGGCTTCGT
90032463 GCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGG
66 GCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGG
90032500 CTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAACAGGCTTCGT
1 CTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAACAGGCTTCGT
90032565 GCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGG
66 GCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGG
90032602 CTTCGTGCC
1 CTTCGTGCC
90032611 GGTAATGTGT
Statistics
Matches: 109, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
102 109 1.00
ACGTcount: A:0.10, C:0.27, G:0.33, T:0.30
Consensus pattern (102 bp):
CTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAACAGGCTTCGT
GCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGG
Found at i:90032548 original size:43 final size:43
Alignment explanation
Indices: 90032500--90032681 Score: 319
Period size: 43 Copynumber: 4.2 Consensus size: 43
90032490 GCCTAGCAGG
90032500 CTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGC
1 CTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGC
*
90032543 CTTCGTGCCTAACAGGCTTCGTGCCGGTGATGTGTATTCGGGC
1 CTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGC
*
90032586 CTTCGTGCCTAGCAGGCTTCGTGCCGGTAATGTGTATTCGGGC
1 CTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGC
* * *
90032629 CTTCGTGTCTAGCAGGCTTCGTACTGGTGATGTGTATTCGGGC
1 CTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGC
90032672 CTTCGTGCCT
1 CTTCGTGCCT
90032682 TCGTGCCTAG
Statistics
Matches: 131, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 131 1.00
ACGTcount: A:0.10, C:0.25, G:0.32, T:0.32
Consensus pattern (43 bp):
CTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGC
Found at i:90032619 original size:145 final size:145
Alignment explanation
Indices: 90032355--90032650 Score: 547
Period size: 145 Copynumber: 2.0 Consensus size: 145
90032345 GTATTCGGGC
* *
90032355 CTTCGTGCCTAGCAGGCTTCGTGCTGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGT
1 CTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAACAGGCTTCGT
* *
90032420 GCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCCGGTGATGTGTATTCGGGCC
66 GCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTAATGTGTATTCGGGCC
90032485 TTCGTGCCTAGCAGG
131 TTCGTGCCTAGCAGG
90032500 CTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAACAGGCTTCGT
1 CTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAACAGGCTTCGT
90032565 GCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTAATGTGTATTCGGGCC
66 GCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTAATGTGTATTCGGGCC
*
90032630 TTCGTGTCTAGCAGG
131 TTCGTGCCTAGCAGG
90032645 CTTCGT
1 CTTCGT
90032651 ACTGGTGATG
Statistics
Matches: 146, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
145 146 1.00
ACGTcount: A:0.10, C:0.25, G:0.33, T:0.31
Consensus pattern (145 bp):
CTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAACAGGCTTCGT
GCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTAATGTGTATTCGGGCC
TTCGTGCCTAGCAGG
Found at i:90032643 original size:188 final size:188
Alignment explanation
Indices: 90032320--90032681 Score: 652
Period size: 188 Copynumber: 1.9 Consensus size: 188
90032310 CGGGGTAAAT
* * *
90032320 CTAGCAGGCTTCGTGCCGGTGTTGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCTGGTGA
1 CTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAACAGGCTTCGTGCCGGTGA
*
90032385 TGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCC
66 TGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTAATGTGTATTCGGGCCTTCGTGCC
* *
90032450 TAGCAGGCTTTGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
131 TAGCAGGCTTCGTACCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
90032508 CTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAACAGGCTTCGTGCCGGTGA
1 CTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAACAGGCTTCGTGCCGGTGA
*
90032573 TGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTAATGTGTATTCGGGCCTTCGTGTC
66 TGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTAATGTGTATTCGGGCCTTCGTGCC
*
90032638 TAGCAGGCTTCGTACTGGTGATGTGTATTCGGGCCTTCGTGCCT
131 TAGCAGGCTTCGTACCGGTGATGTGTATTCGGGCCTTCGTGCCT
90032682 TCGTGCCTAG
Statistics
Matches: 166, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
188 166 1.00
ACGTcount: A:0.10, C:0.25, G:0.34, T:0.31
Consensus pattern (188 bp):
CTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAACAGGCTTCGTGCCGGTGA
TGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTAATGTGTATTCGGGCCTTCGTGCC
TAGCAGGCTTCGTACCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
Found at i:90032727 original size:45 final size:45
Alignment explanation
Indices: 90032672--90032790 Score: 148
Period size: 45 Copynumber: 2.6 Consensus size: 45
90032662 GTATTCGGGC
* * * *
90032672 CTTCGTGCCTTCGTGCCTAGCATGCTATGATGCCGGTGAAATACT
1 CTTCGAGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAATACT
* * * *
90032717 CTTCGGGCCTTTGAGCCTAGCAGGCTATAATGCTGGTGAGATACT
1 CTTCGAGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAATACT
* *
90032762 ATTCGAGCTTTCGAGCCTAGCAGGCTATA
1 CTTCGAGCCTTCGAGCCTAGCAGGCTATA
90032791 GTACCAGTGA
Statistics
Matches: 63, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 63 1.00
ACGTcount: A:0.20, C:0.24, G:0.26, T:0.29
Consensus pattern (45 bp):
CTTCGAGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAATACT
Found at i:90036799 original size:16 final size:16
Alignment explanation
Indices: 90036774--90036812 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
90036764 ACAACCCACG
*
90036774 TTTT-GGCTTTTCACC
1 TTTTCGGCTTTTCAAC
90036789 TTTTCGGCTTTTCAAC
1 TTTTCGGCTTTTCAAC
90036805 TTTTCGGC
1 TTTTCGGC
90036813 CTTTGTCATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 4 0.18
16 18 0.82
ACGTcount: A:0.08, C:0.26, G:0.15, T:0.51
Consensus pattern (16 bp):
TTTTCGGCTTTTCAAC
Found at i:90041808 original size:39 final size:39
Alignment explanation
Indices: 90041690--90041870 Score: 179
Period size: 40 Copynumber: 4.6 Consensus size: 39
90041680 GCTACTCGTT
* * *
90041690 CAAATGCCTTCGGGACATAGCCCGATTATAGTAACTCGTA
1 CAAATGCCTTCGGGACTTAGCCGGATT-TAGTAACTCGCA
*
90041730 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTT-AGCCGGATTTAGTAACTCGCA
* * *
90041770 CCAATGCCTTCGGG-CTTAGCACGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGC-CGGATTTAGTAACTCGCA
* * * * *
90041809 CAAATGCCTTC-GGATCTTAGTCCGAATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAG-CCGGATTTAGTAAC-TCGCA
90041850 CAAA-GCCTTCGGGACTTAGCC
1 CAAATGCCTTCGGGACTTAGCC
90041871 CGGACATCAT
Statistics
Matches: 118, Mismatches: 16, Indels: 15
0.79 0.11 0.10
Matches are distributed among these distances:
38 4 0.03
39 31 0.26
40 64 0.54
41 19 0.16
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCGGATTTAGTAACTCGCA
Found at i:90049193 original size:40 final size:40
Alignment explanation
Indices: 90049149--90049332 Score: 180
Period size: 40 Copynumber: 4.6 Consensus size: 40
90049139 GCTACTCGTT
* * *
90049149 CAAATGCCTTTGGGACATAGCCCGGTTATAGTAACTCGTA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
90049189 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* * *
90049229 CCAATGCCTTCGGG-CTTAGCCCGG-AATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * * * *
90049268 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
*
90049309 CCAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
90049333 ACATCATTCG
Statistics
Matches: 119, Mismatches: 17, Indels: 16
0.78 0.11 0.11
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 74 0.62
41 13 0.11
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:90049252 original size:79 final size:81
Alignment explanation
Indices: 90049151--90049333 Score: 214
Period size: 79 Copynumber: 2.3 Consensus size: 81
90049141 TACTCGTTCA
* * * *
90049151 AATGCCTTTGGGACATAGCCCGG-TTATAGTAACTCGTACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
90049214 ATTTAGTAAC-TCGCACC
64 ATATAGTAACTTAGCACC
* **
90049231 AATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
* *
90049295 ATGGTCACTTAGCACC
66 ATAGTAACTTAGCACC
90049311 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
90049334 CATCATTCGA
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.61
80 31 0.35
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
ATAGTAACTTAGCACC
Found at i:90052003 original size:20 final size:20
Alignment explanation
Indices: 90051962--90052001 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
90051952 GGCATGATAG
90051962 ATTCGACCATTATACAAAAAT
1 ATTCGACCATTATA-AAAAAT
90051983 ATTCGACCATTACTAAAAA
1 ATTCGACCATTA-TAAAAA
90052002 TAAAAGGAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.47, C:0.20, G:0.05, T:0.28
Consensus pattern (20 bp):
ATTCGACCATTATAAAAAAT
Found at i:90056544 original size:69 final size:69
Alignment explanation
Indices: 90056466--90056603 Score: 276
Period size: 69 Copynumber: 2.0 Consensus size: 69
90056456 TTTTGTCTTT
90056466 ATTTTTAGTCATCTTTTGATGTCTTGCAATAAATTCATAAAAATGATTTTTATCAATATAGTTTT
1 ATTTTTAGTCATCTTTTGATGTCTTGCAATAAATTCATAAAAATGATTTTTATCAATATAGTTTT
90056531 TTTC
66 TTTC
90056535 ATTTTTAGTCATCTTTTGATGTCTTGCAATAAATTCATAAAAATGATTTTTATCAATATAGTTTT
1 ATTTTTAGTCATCTTTTGATGTCTTGCAATAAATTCATAAAAATGATTTTTATCAATATAGTTTT
90056600 TTTC
66 TTTC
90056604 TTGGTATCTT
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 69 1.00
ACGTcount: A:0.30, C:0.10, G:0.09, T:0.51
Consensus pattern (69 bp):
ATTTTTAGTCATCTTTTGATGTCTTGCAATAAATTCATAAAAATGATTTTTATCAATATAGTTTT
TTTC
Found at i:90057129 original size:50 final size:50
Alignment explanation
Indices: 90057054--90057153 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
90057044 TTAAAATTTC
90057054 CTTGTTTTTGTGCATCTGATACAAGACCCCCTTCACCTATGGGTTCTTTT
1 CTTGTTTTTGTGCATCTGATACAAGACCCCCTTCACCTATGGGTTCTTTT
90057104 CTTGTTTTTGTGCATCTGATACAAGACCCCCTTCACCTATGGGTTCTTTT
1 CTTGTTTTTGTGCATCTGATACAAGACCCCCTTCACCTATGGGTTCTTTT
90057154 TCTTCTTGAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.16, C:0.26, G:0.16, T:0.42
Consensus pattern (50 bp):
CTTGTTTTTGTGCATCTGATACAAGACCCCCTTCACCTATGGGTTCTTTT
Found at i:90065470 original size:6 final size:6
Alignment explanation
Indices: 90065459--90065517 Score: 54
Period size: 6 Copynumber: 10.2 Consensus size: 6
90065449 GGGATCACTA
* *
90065459 ACTAAT ACTAAT -CTAAT ACTAAT A-GAAT A-GAAT ACTAAT -CTAAT
1 ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT
90065503 ACTCTAAT ACTAAT A
1 A--CTAAT ACTAAT A
90065518 GAATAGAAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
5 19 0.41
6 21 0.46
8 6 0.13
ACGTcount: A:0.49, C:0.15, G:0.03, T:0.32
Consensus pattern (6 bp):
ACTAAT
Found at i:90065531 original size:14 final size:14
Alignment explanation
Indices: 90065514--90065541 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
90065504 CTCTAATACT
90065514 AATAGAATAGAAAA
1 AATAGAATAGAAAA
90065528 AATAGAATAGAAAA
1 AATAGAATAGAAAA
90065542 TACTAATATA
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:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (14 bp):
AATAGAATAGAAAA
Found at i:90066051 original size:5 final size:5
Alignment explanation
Indices: 90066043--90066067 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
90066033 GATGGAAGGG
90066043 AATAA AATAA AATAA AATAA AATAA
1 AATAA AATAA AATAA AATAA AATAA
90066068 GAAATCAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AATAA
Found at i:90069410 original size:29 final size:29
Alignment explanation
Indices: 90069347--90069414 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
90069337 TAATCAACCG
90069347 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
90069376 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
90069405 CGCACACTTA
1 CGCACACTTA
90069415 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:90069527 original size:174 final size:174
Alignment explanation
Indices: 90069236--90069563 Score: 593
Period size: 174 Copynumber: 1.9 Consensus size: 174
90069226 AACTCAAGGT
* *
90069236 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
90069301 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
*
90069366 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAAATCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
*
90069410 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
90069475 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
*
90069540 ACTTTAAAATCGCACACTTAGTGC
131 ACTTTAAAATCACACACTTAGTGC
90069564 TGTACAATTT
Statistics
Matches: 147, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
174 147 1.00
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
ACTTTAAAATCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:90069555 original size:29 final size:30
Alignment explanation
Indices: 90069521--90069594 Score: 100
Period size: 29 Copynumber: 2.5 Consensus size: 30
90069511 TAATCAACCA
*
90069521 CGCACACTTAGTGCCATGTAC-TTTAAAAT
1 CGCACACTTAGTGCCATGTACATTTAAAAC
*
90069550 CGCACACTTAGTG-C-TGTACAATTTAAACC
1 CGCACACTTAGTGCCATGTAC-ATTTAAAAC
90069579 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
90069595 ATCTCATGAC
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.13
28 1 0.03
29 32 0.82
30 1 0.03
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (30 bp):
CGCACACTTAGTGCCATGTACATTTAAAAC
Found at i:90082366 original size:7 final size:7
Alignment explanation
Indices: 90082354--90082386 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
90082344 TGGAGCCTTA
90082354 ATTTAAT
1 ATTTAAT
90082361 ATTTAAT
1 ATTTAAT
90082368 ATTTAAT
1 ATTTAAT
90082375 ATTTAAT
1 ATTTAAT
90082382 ATTTA
1 ATTTA
90082387 TTTAATAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
ATTTAAT
Found at i:90105338 original size:24 final size:24
Alignment explanation
Indices: 90105280--90105339 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 24
90105270 ATTTAAGAAT
* *
90105280 ATATACATAAGAAATATATAACTA
1 ATATATATAAAAAATATATAACTA
*
90105304 ATGACAT-TAAAAAATATAT-ACATA
1 AT-ATATATAAAAAATATATAAC-TA
90105328 ATATATATAAAA
1 ATATATATAAAA
90105340 TACCTAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
23 5 0.17
24 22 0.76
25 2 0.07
ACGTcount: A:0.60, C:0.07, G:0.03, T:0.30
Consensus pattern (24 bp):
ATATATATAAAAAATATATAACTA
Found at i:90105850 original size:21 final size:21
Alignment explanation
Indices: 90105824--90105879 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 21
90105814 GGTTTCTTGG
90105824 TTTTTTTGGGGGGGGTTAGGT
1 TTTTTTTGGGGGGGGTTAGGT
*****
90105845 TTTTTTTTTTTTGGGTTAGGT
1 TTTTTTTGGGGGGGGTTAGGT
90105866 TTTTTTTGGGGGGG
1 TTTTTTTGGGGGGG
90105880 CTTAATGGGC
Statistics
Matches: 25, Mismatches: 10, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.04, C:0.00, G:0.39, T:0.57
Consensus pattern (21 bp):
TTTTTTTGGGGGGGGTTAGGT
Found at i:90107709 original size:15 final size:15
Alignment explanation
Indices: 90107689--90107738 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
90107679 ATTACATTTG
90107689 TAAAAAAAAATCCAA
1 TAAAAAAAAATCCAA
*
90107704 TAAAAAAAGA---AA
1 TAAAAAAAAATCCAA
* *
90107716 GACAAAAAAATCCAA
1 TAAAAAAAAATCCAA
90107731 TAAAAAAA
1 TAAAAAAA
90107739 GAAAGACAAA
Statistics
Matches: 26, Mismatches: 6, Indels: 6
0.68 0.16 0.16
Matches are distributed among these distances:
12 9 0.35
15 17 0.65
ACGTcount: A:0.76, C:0.10, G:0.04, T:0.10
Consensus pattern (15 bp):
TAAAAAAAAATCCAA
Found at i:90107730 original size:27 final size:27
Alignment explanation
Indices: 90107692--90107748 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
90107682 ACATTTGTAA
90107692 AAAAAAATCCAATAAAAAAAGAAAGAC
1 AAAAAAATCCAATAAAAAAAGAAAGAC
90107719 AAAAAAATCCAATAAAAAAAGAAAGAC
1 AAAAAAATCCAATAAAAAAAGAAAGAC
90107746 AAA
1 AAA
90107749 CTTACACATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.75, C:0.11, G:0.07, T:0.07
Consensus pattern (27 bp):
AAAAAAATCCAATAAAAAAAGAAAGAC
Found at i:90110222 original size:19 final size:19
Alignment explanation
Indices: 90110198--90110235 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
90110188 TTGAGATTGC
*
90110198 CAACCTATTTGCTTGAAAT
1 CAACCTATTTGCCTGAAAT
90110217 CAACCTATTTGCCTGAAAT
1 CAACCTATTTGCCTGAAAT
90110236 TATTCATTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.34
Consensus pattern (19 bp):
CAACCTATTTGCCTGAAAT
Found at i:90111666 original size:100 final size:100
Alignment explanation
Indices: 90111472--90111755 Score: 443
Period size: 100 Copynumber: 2.9 Consensus size: 100
90111462 GAGAAAATAA
* * * *
90111472 AATCTTGGGTCGCGAACAGTCCCATAA---TTTAAAAAAAAAAGCCTAATCTAATTCTTTAAAAA
1 AATCTTGGGTCGCGAACAGTCCCATAATTTTTTTAAAAAAAGAGCCTAATCTAATACTTAAAAAA
*
90111534 AAAGCCA-TTTTTTGGAAATTTAACCATTCTATAG
66 AAAGACATTTTTTTGGAAATTTAACCATTCTATAG
*
90111568 AATCTTGGGTCGTGAACAGTCCCATAATTTTTTTAAAAAAAGAGCCTAATCTAATACTTAAAAAA
1 AATCTTGGGTCGCGAACAGTCCCATAATTTTTTTAAAAAAAGAGCCTAATCTAATACTTAAAAAA
**
90111633 AAAGACATTTTTTTTAAAATTTAACCATTCTATAG
66 AAAGACATTTTTTTGGAAATTTAACCATTCTATAG
*
90111668 AATCTTGGGTCGCGAACAGTCCCATAAGTTTTTTT-TAAAAAGAGCCTAATCTAATACTTAAAAA
1 AATCTTGGGTCGCGAACAGTCCCATAA-TTTTTTTAAAAAAAGAGCCTAATCTAATACTTAAAAA
90111732 AAAAGACATTTTTTTGGAAATTTA
65 AAAAGACATTTTTTTGGAAATTTA
90111756 CCCACTCTTT
Statistics
Matches: 171, Mismatches: 12, Indels: 6
0.90 0.06 0.03
Matches are distributed among these distances:
96 26 0.15
99 37 0.22
100 101 0.59
101 7 0.04
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (100 bp):
AATCTTGGGTCGCGAACAGTCCCATAATTTTTTTAAAAAAAGAGCCTAATCTAATACTTAAAAAA
AAAGACATTTTTTTGGAAATTTAACCATTCTATAG
Found at i:90112727 original size:23 final size:24
Alignment explanation
Indices: 90112699--90112750 Score: 81
Period size: 23 Copynumber: 2.2 Consensus size: 24
90112689 TCACGCCAAC
90112699 AAAAATTAAAAATAAATA-TTTAA
1 AAAAATTAAAAATAAATATTTTAA
*
90112722 AAAAA-TAAAAATAAATATTTTTA
1 AAAAATTAAAAATAAATATTTTAA
90112745 AAAAAT
1 AAAAAT
90112751 ATTCATATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 12 0.46
23 14 0.54
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (24 bp):
AAAAATTAAAAATAAATATTTTAA
Found at i:90112730 original size:22 final size:23
Alignment explanation
Indices: 90112699--90112751 Score: 81
Period size: 22 Copynumber: 2.3 Consensus size: 23
90112689 TCACGCCAAC
*
90112699 AAAAATTAAAAATAAATA-TTTA
1 AAAAAATAAAAATAAATATTTTA
*
90112721 AAAAAATAAAAATAAATATTTTT
1 AAAAAATAAAAATAAATATTTTA
90112744 AAAAAATA
1 AAAAAATA
90112752 TTCATATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
22 17 0.61
23 11 0.39
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (23 bp):
AAAAAATAAAAATAAATATTTTA
Found at i:90112879 original size:20 final size:20
Alignment explanation
Indices: 90112844--90112897 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
90112834 GATATATTTC
*
90112844 AAAAAAAT-TTATAAATTTGT
1 AAAAAAATATTA-AAATTTAT
* *
90112864 AAAATATTATTAAAATTTAT
1 AAAAAAATATTAAAATTTAT
90112884 AAAAAAATATTAAA
1 AAAAAAATATTAAA
90112898 TAAAATTAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
20 25 0.89
21 3 0.11
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (20 bp):
AAAAAAATATTAAAATTTAT
Found at i:90112909 original size:24 final size:23
Alignment explanation
Indices: 90112864--90112925 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 23
90112854 ATAAATTTGT
* *
90112864 AAAATATTATTAAAATTTATAAA
1 AAAATATTAATAAAATTAATAAA
90112887 AAAATATTAAATAAAATTAATAAA
1 AAAATATT-AATAAAATTAATAAA
90112911 TTAAAA-ATTAATAAA
1 --AAAATATTAATAAA
90112926 TCCATTTAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
23 8 0.24
24 19 0.56
25 3 0.09
26 4 0.12
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (23 bp):
AAAATATTAATAAAATTAATAAA
Found at i:90114405 original size:29 final size:27
Alignment explanation
Indices: 90114365--90114422 Score: 71
Period size: 29 Copynumber: 2.1 Consensus size: 27
90114355 TTTGCTATGA
*
90114365 TTTTATTTAATTAAATAATTAATAAAC
1 TTTTATTTAATTAAATAATTAACAAAC
* *
90114392 TTTTAATTGTAATTTAATAGTTAACAAAC
1 TTTT-ATT-TAATTAAATAATTAACAAAC
90114421 TT
1 TT
90114423 GCTTTGATGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 4 0.15
28 3 0.12
29 19 0.73
ACGTcount: A:0.43, C:0.05, G:0.03, T:0.48
Consensus pattern (27 bp):
TTTTATTTAATTAAATAATTAACAAAC
Found at i:90115340 original size:20 final size:21
Alignment explanation
Indices: 90115299--90115340 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
90115289 TGAGGTACTT
*
90115299 ATAAAACAATTTTTTTGGTAA
1 ATAAAACAATTTTTTTGATAA
90115320 ATAAAAC-ATTTCTTTT-ATAA
1 ATAAAACAATTT-TTTTGATAA
90115340 A
1 A
90115341 ACAATGTTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.43
Consensus pattern (21 bp):
ATAAAACAATTTTTTTGATAA
Found at i:90115924 original size:23 final size:23
Alignment explanation
Indices: 90115898--90115988 Score: 128
Period size: 23 Copynumber: 4.0 Consensus size: 23
90115888 AAGTTAGAAG
90115898 AGTGAAGAGACTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* * *
90115921 AGTGAAAAAACTTGAATATGAAT
1 AGTGAAGAGACTTGAATATGAAA
*
90115944 AGTGAAGAGACTTGAAGATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* *
90115967 AGTTAAGAGGCTTGAATATGAA
1 AGTGAAGAGACTTGAATATGAA
90115989 GAGATACACA
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 58 1.00
ACGTcount: A:0.47, C:0.04, G:0.25, T:0.23
Consensus pattern (23 bp):
AGTGAAGAGACTTGAATATGAAA
Found at i:90119639 original size:23 final size:23
Alignment explanation
Indices: 90119613--90119706 Score: 134
Period size: 23 Copynumber: 4.1 Consensus size: 23
90119603 AAGTTAGAAG
90119613 AGTGAAGAGACTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* * *
90119636 AGTGAAAAAACTTGAATATGAAT
1 AGTGAAGAGACTTGAATATGAAA
*
90119659 AGTGAAGAGACTTGAAGATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* *
90119682 AGTTAAGAGGCTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
90119705 AG
1 AG
90119707 ATACACACAT
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 61 1.00
ACGTcount: A:0.48, C:0.04, G:0.26, T:0.22
Consensus pattern (23 bp):
AGTGAAGAGACTTGAATATGAAA
Found at i:90125392 original size:15 final size:15
Alignment explanation
Indices: 90125372--90125401 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
90125362 CTCCTTATCT
90125372 GATAGTGGTCGAAGA
1 GATAGTGGTCGAAGA
90125387 GATAGTGGTCGAAGA
1 GATAGTGGTCGAAGA
90125402 CTAAAAAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.07, G:0.40, T:0.20
Consensus pattern (15 bp):
GATAGTGGTCGAAGA
Found at i:90137837 original size:45 final size:45
Alignment explanation
Indices: 90137787--90137876 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 45
90137777 TCGATTTTCT
90137787 CATTTCATTTATTCACCCTATTAACAAAACTTGGATCTTGACGAA
1 CATTTCATTTATTCACCCTATTAACAAAACTTGGATCTTGACGAA
*
90137832 CATTTCATTTATTCACTCTATTAACAAAACTTGGATCTTGACGAA
1 CATTTCATTTATTCACCCTATTAACAAAACTTGGATCTTGACGAA
90137877 TACACGAATT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.09, T:0.37
Consensus pattern (45 bp):
CATTTCATTTATTCACCCTATTAACAAAACTTGGATCTTGACGAA
Found at i:90137911 original size:24 final size:23
Alignment explanation
Indices: 90137884--90137999 Score: 92
Period size: 23 Copynumber: 5.0 Consensus size: 23
90137874 GAATACACGA
*
90137884 ATTCTAACCAAACACACTAGAATG
1 ATTCT-ACCAAACACACCAGAATG
90137908 ATTCTACCAAACACACCAGAATG
1 ATTCTACCAAACACACCAGAATG
* * * **
90137931 A-TCCATCCAAACATACCAAAACA
1 ATTCTA-CCAAACACACCAGAATG
* * *
90137954 ATCCTCCCAAACACACCAAAAT-
1 ATTCTACCAAACACACCAGAATG
* *
90137976 AATCCACCCAAACACACCAGAATG
1 ATTCTA-CCAAACACACCAGAATG
90138000 GCACTAAGTG
Statistics
Matches: 72, Mismatches: 16, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
22 5 0.07
23 61 0.85
24 6 0.08
ACGTcount: A:0.47, C:0.34, G:0.05, T:0.15
Consensus pattern (23 bp):
ATTCTACCAAACACACCAGAATG
Found at i:90138195 original size:24 final size:23
Alignment explanation
Indices: 90138147--90138195 Score: 55
Period size: 24 Copynumber: 2.0 Consensus size: 23
90138137 TATTCAATTT
*
90138147 TCATATTTCAATTCCATCACTTTC
1 TCATATTTCAATTCAATCAC-TTC
90138171 TCATATTTTCAATTCAAATCA-TTC
1 TCATA-TTTCAATTC-AATCACTTC
90138195 T
1 T
90138196 TAATTTAATC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
24 9 0.41
25 9 0.41
26 4 0.18
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.47
Consensus pattern (23 bp):
TCATATTTCAATTCAATCACTTC
Found at i:90139341 original size:20 final size:22
Alignment explanation
Indices: 90139308--90139358 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 22
90139298 TATAATAACT
*
90139308 TAATTTAATAATATAT-TT-TA
1 TAATTAAATAATATATATTATA
*
90139328 TAATTAAATCATATATAATTATA
1 TAATTAAATAATATAT-ATTATA
90139351 TAATTAAA
1 TAATTAAA
90139359 ATCTAAAGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 14 0.54
22 2 0.08
23 10 0.38
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (22 bp):
TAATTAAATAATATATATTATA
Found at i:90145412 original size:25 final size:23
Alignment explanation
Indices: 90145357--90145418 Score: 88
Period size: 23 Copynumber: 2.7 Consensus size: 23
90145347 TGGTTAGAGG
* *
90145357 CCAAACACACGAAAATAATCCTC
1 CCAAACACACCAAAATAATCCAC
*
90145380 CCAAACACACCAGAATAATCCAC
1 CCAAACACACCAAAATAATCCAC
*
90145403 CCAAATACACCAAAAT
1 CCAAACACACCAAAAT
90145419 GGCAGTAAGT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.50, C:0.35, G:0.03, T:0.11
Consensus pattern (23 bp):
CCAAACACACCAAAATAATCCAC
Found at i:90145615 original size:24 final size:24
Alignment explanation
Indices: 90145567--90145621 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 24
90145557 TATTCAATTT
*
90145567 TCATA-TTTCAATTCCATCACTTTC
1 TCATATTTTCAATTCAATCAC-TTC
90145591 TCATATTTTCAATTCAAATCA-TTC
1 TCATATTTTCAATTC-AATCACTTC
90145615 TCA-ATTT
1 TCATATTT
90145622 AATCACAGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 4 0.14
24 11 0.39
25 9 0.32
26 4 0.14
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.47
Consensus pattern (24 bp):
TCATATTTTCAATTCAATCACTTC
Found at i:90146813 original size:20 final size:22
Alignment explanation
Indices: 90146780--90146830 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 22
90146770 TATAATAACT
*
90146780 TAATTTAATAATATAT-TT-TA
1 TAATTAAATAATATATATTATA
*
90146800 TAATTAAATCATATATAATTATA
1 TAATTAAATAATATAT-ATTATA
90146823 TAATTAAA
1 TAATTAAA
90146831 ATCTAAAGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 14 0.54
22 2 0.08
23 10 0.38
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (22 bp):
TAATTAAATAATATATATTATA
Found at i:90150844 original size:18 final size:18
Alignment explanation
Indices: 90150820--90150861 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
90150810 TTTATTTTTC
90150820 TATAAATAATTTTATGAAA
1 TATAAATAA-TTTATGAAA
*
90150839 -ATAAATTATTTATGAAA
1 TATAAATAATTTATGAAA
90150856 TATAAA
1 TATAAA
90150862 ATTTATTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (18 bp):
TATAAATAATTTATGAAA
Found at i:90150852 original size:17 final size:20
Alignment explanation
Indices: 90150830--90150871 Score: 63
Period size: 17 Copynumber: 2.2 Consensus size: 20
90150820 TATAAATAAT
90150830 TTTATGAAA-AT-AAA-TTA
1 TTTATGAAATATAAAATTTA
90150847 TTTATGAAATATAAAATTTA
1 TTTATGAAATATAAAATTTA
90150867 TTTAT
1 TTTAT
90150872 TTTATATCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.41
18 2 0.09
19 3 0.14
20 8 0.36
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (20 bp):
TTTATGAAATATAAAATTTA
Found at i:90155080 original size:43 final size:43
Alignment explanation
Indices: 90155019--90155104 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
90155009 ATTCTGAAAG
* *
90155019 AAAGAATCACGTATAAGAAGAAGCTAAAAACCAGAACATTTAT
1 AAAGAATCACGTATAAGAACAAGCCAAAAACCAGAACATTTAT
90155062 AAAGAATCACGTATAAGAACAAGCCAAAAACCAGAACATTTAT
1 AAAGAATCACGTATAAGAACAAGCCAAAAACCAGAACATTTAT
90155105 GCTATTACCG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.53, C:0.16, G:0.13, T:0.17
Consensus pattern (43 bp):
AAAGAATCACGTATAAGAACAAGCCAAAAACCAGAACATTTAT
Found at i:90163371 original size:44 final size:44
Alignment explanation
Indices: 90163321--90163407 Score: 156
Period size: 44 Copynumber: 2.0 Consensus size: 44
90163311 ATATTTGGGG
*
90163321 CATATAAACAAATGTACTACGCATTCTATCAAACATGTATTTTC
1 CATATAAACAAATGTAATACGCATTCTATCAAACATGTATTTTC
*
90163365 CATATAAGCAAATGTAATACGCATTCTATCAAACATGTATTTT
1 CATATAAACAAATGTAATACGCATTCTATCAAACATGTATTTT
90163408 GGGAAAAGGG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.39, C:0.18, G:0.08, T:0.34
Consensus pattern (44 bp):
CATATAAACAAATGTAATACGCATTCTATCAAACATGTATTTTC
Found at i:90169337 original size:20 final size:19
Alignment explanation
Indices: 90169308--90169362 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 19
90169298 GAAGATAGGG
*
90169308 GGACATGCCCGTGTGGCTT
1 GGACATGCCCGTGTGGCCT
*
90169327 AGGACACGCCCGTGTGGCCT
1 -GGACATGCCCGTGTGGCCT
90169347 GGAACATGCCCGTGTG
1 GG-ACATGCCCGTGTG
90169363 CTGCAGCCGT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
19 2 0.06
20 29 0.94
ACGTcount: A:0.15, C:0.29, G:0.36, T:0.20
Consensus pattern (19 bp):
GGACATGCCCGTGTGGCCT
Found at i:90169636 original size:21 final size:17
Alignment explanation
Indices: 90169594--90169637 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 17
90169584 TACCTAAAAA
90169594 ATTTCAACAAAACAATT
1 ATTTCAACAAAACAATT
90169611 ATTTCAAGCCAAAACAAGTAT
1 ATTTCAA--CAAAACAA-T-T
90169632 ATTTCA
1 ATTTCA
90169638 TTTTCCAATC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 7 0.30
19 8 0.35
20 1 0.04
21 7 0.30
ACGTcount: A:0.48, C:0.18, G:0.05, T:0.30
Consensus pattern (17 bp):
ATTTCAACAAAACAATT
Found at i:90170320 original size:52 final size:51
Alignment explanation
Indices: 90170164--90170323 Score: 144
Period size: 52 Copynumber: 3.1 Consensus size: 51
90170154 CGGATCACAT
* * * *
90170164 ATCATACCGATGCCAT-GTCCCAGATATGATCTTATACTGAATCATATTATTAC
1 ATCATACCGATGCCATAG-CCCAGCTATGGTCTTATAC-GAAACATA-TATCAC
* * * **
90170217 ATCACACCGATGCCATAGTCCAGCTATAGTCTTATACGAGAACGCGA-ATCAC
1 ATCATACCGATGCCATAGCCCAGCTATGGTCTTATACGA-AAC-ATATATCAC
** *
90170269 ATTGTACCGATGCCATAGCCCGGCTATGGTCTTATACAGAAACATATATCAC
1 ATCATACCGATGCCATAGCCCAGCTATGGTCTTATAC-GAAACATATATCAC
90170321 ATC
1 ATC
90170324 TCTTCCGTCA
Statistics
Matches: 84, Mismatches: 18, Indels: 11
0.74 0.16 0.10
Matches are distributed among these distances:
51 1 0.01
52 47 0.56
53 34 0.40
54 2 0.02
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.28
Consensus pattern (51 bp):
ATCATACCGATGCCATAGCCCAGCTATGGTCTTATACGAAACATATATCAC
Found at i:90176465 original size:40 final size:40
Alignment explanation
Indices: 90176382--90176602 Score: 232
Period size: 40 Copynumber: 5.5 Consensus size: 40
90176372 ACCCAAGTAT
** * *
90176382 CTTCGGGAT-TTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGG-TCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
90176420 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * *
90176460 CTTCGGGACTTATCCCGGATATAGTCGCTAACACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * * *
90176500 CTTCGGGTTTTGGCCCGGATATAGTAACTCGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
90176540 CTTCGGATCTTAGTCCGGATATAGTCACTTAGCACAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCAC-TAGCACAAATGC
*
90176581 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
90176603 CATTCGAATA
Statistics
Matches: 147, Mismatches: 32, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
37 1 0.01
38 11 0.07
39 15 0.10
40 92 0.63
41 28 0.19
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:90180153 original size:38 final size:38
Alignment explanation
Indices: 90180106--90180222 Score: 189
Period size: 38 Copynumber: 3.0 Consensus size: 38
90180096 AAACCCAAAC
*
90180106 ATAACACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
1 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
*
90180144 ATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
1 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
*
90180182 ATAATACCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGAT
1 ATAATACCAGCACGAAGCCTGCGGG-ATTTAA-CCCGGAT
90180222 A
1 A
90180223 CACATCAAAT
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
38 60 0.82
39 5 0.07
40 8 0.11
ACGTcount: A:0.30, C:0.27, G:0.24, T:0.19
Consensus pattern (38 bp):
ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
Found at i:90194262 original size:6 final size:6
Alignment explanation
Indices: 90194251--90194282 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
90194241 TTTACCCCAG
90194251 TTCCTC TTCCTC TTCCTC TTCCTC TTCCTC TT
1 TTCCTC TTCCTC TTCCTC TTCCTC TTCCTC TT
90194283 TCATATCCTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (6 bp):
TTCCTC
Found at i:90197304 original size:14 final size:15
Alignment explanation
Indices: 90197263--90197309 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
90197253 GAGATTCTTA
90197263 TTTGAATTTGTTTAC
1 TTTGAATTTGTTTAC
**
90197278 TTTGTCTTT-TTTA-
1 TTTGAATTTGTTTAC
90197291 TTTGAATTTGTTTAC
1 TTTGAATTTGTTTAC
90197306 TTTG
1 TTTG
90197310 TGTTTGATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
13 7 0.27
14 8 0.31
15 11 0.42
ACGTcount: A:0.15, C:0.06, G:0.13, T:0.66
Consensus pattern (15 bp):
TTTGAATTTGTTTAC
Found at i:90197315 original size:15 final size:15
Alignment explanation
Indices: 90197263--90197320 Score: 57
Period size: 15 Copynumber: 4.0 Consensus size: 15
90197253 GAGATTCTTA
*
90197263 TTTGAATTTGTTTAC
1 TTTGTATTTGTTTAC
*
90197278 TTTGTCTTT-TTTA-
1 TTTGTATTTGTTTAC
*
90197291 TTTGAATTTGTTTAC
1 TTTGTATTTGTTTAC
* *
90197306 TTTGTGTTTGATTAC
1 TTTGTATTTGTTTAC
90197321 AAAATAATAT
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
13 7 0.21
14 8 0.24
15 19 0.56
ACGTcount: A:0.16, C:0.07, G:0.14, T:0.64
Consensus pattern (15 bp):
TTTGTATTTGTTTAC
Found at i:90203310 original size:44 final size:44
Alignment explanation
Indices: 90203252--90203788 Score: 766
Period size: 44 Copynumber: 12.4 Consensus size: 44
90203242 CCCCGTCTAA
* * * * ****
90203252 TACAGAGACGCCAAATCTGTCATCTTTGATCTGCCCTCTGATAA
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* * **
90203296 TACAGAGACGCCAAATCCGTTATCTTCAATCTGCTCTCTACCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* * *
90203340 TACAGAGATGCCAAATCTGTTATATTTGATCTGCTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* *
90203384 TACAGAGACGCCAAATCCGTTATCTTCTATCTGCTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* *
90203428 TACAGAGACGCCAAATATGTTATCTTCGATCTGCTCTCCGCCAC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
90203472 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* *
90203516 TACAGAGATGCCAAATC----ATCTTCGATCTGCTCTCTGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* *
90203556 TACAGAGACGCCAAATATGTTATCTTCGATCTGCTCTCCACCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
*
90203600 TACAGAGACGCCAAATCTGTTATCTTTGATCTGCTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
*
90203644 TACAGAGATGCCAAATC----ATCTTCGATCTGCTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* *
90203684 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCTGTCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
90203728 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
*
90203772 TACAGAGATGCCAAATC
1 TACAGAGACGCCAAATC
90203789 ATCTTCGATG
Statistics
Matches: 440, Mismatches: 45, Indels: 16
0.88 0.09 0.03
Matches are distributed among these distances:
40 75 0.17
44 365 0.83
ACGTcount: A:0.23, C:0.32, G:0.17, T:0.28
Consensus pattern (44 bp):
TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
Found at i:90203603 original size:128 final size:128
Alignment explanation
Indices: 90203296--90203797 Score: 815
Period size: 128 Copynumber: 3.9 Consensus size: 128
90203286 CCTCTGATAA
** * * *
90203296 TACAGAGACGCCAAATCCGTTATCTTCAATCTGCTCTCTACCGCTACAGAGATGCCAAATCTGTT
1 TACAGAGACGCCAAATATGTTATCTTCGATCTGCTCTCCACCGCTACAGAGACGCCAAATCTGTT
* * * *
90203361 ATATTTGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCCGTTATCTTCTATCTGCTCTCCGCC
66 ATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAAT-C---ATCTTCGATCTGCTCTCCGCC
90203426 GC
127 GC
* *
90203428 TACAGAGACGCCAAATATGTTATCTTCGATCTGCTCTCCGCCACTACAGAGACGCCAAATCTGTT
1 TACAGAGACGCCAAATATGTTATCTTCGATCTGCTCTCCACCGCTACAGAGACGCCAAATCTGTT
*
90203493 ATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATCATCTTCGATCTGCTCTCTGCCGC
66 ATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATCATCTTCGATCTGCTCTCCGCCGC
90203556 TACAGAGACGCCAAATATGTTATCTTCGATCTGCTCTCCACCGCTACAGAGACGCCAAATCTGTT
1 TACAGAGACGCCAAATATGTTATCTTCGATCTGCTCTCCACCGCTACAGAGACGCCAAATCTGTT
*
90203621 ATCTTTGATCTGCTCTCCGCCGCTACAGAGATGCCAAATCATCTTCGATCTGCTCTCCGCCGC
66 ATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATCATCTTCGATCTGCTCTCCGCCGC
* ***
90203684 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCTGTCGCTACAGAGACGCCAAATCTGTT
1 TACAGAGACGCCAAATATGTTATCTTCGATCTGCTCTCCACCGCTACAGAGACGCCAAATCTGTT
90203749 ATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATCATCTTCGAT
66 ATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATCATCTTCGAT
90203798 GTAATGAACC
Statistics
Matches: 349, Mismatches: 21, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
128 254 0.73
131 1 0.00
132 94 0.27
ACGTcount: A:0.23, C:0.32, G:0.17, T:0.28
Consensus pattern (128 bp):
TACAGAGACGCCAAATATGTTATCTTCGATCTGCTCTCCACCGCTACAGAGACGCCAAATCTGTT
ATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATCATCTTCGATCTGCTCTCCGCCGC
Found at i:90213572 original size:44 final size:44
Alignment explanation
Indices: 90213517--90214413 Score: 1267
Period size: 44 Copynumber: 20.8 Consensus size: 44
90213507 GGACGTTACA
90213517 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATC
1 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATC
* *
90213561 TTTGATTTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATC
1 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATC
*
90213605 TTCGATCTGCTCTCCGCTGCTACAGAGACGCCAAATCTGTTATC
1 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATC
* *
90213649 TTCGATCTGCTCTCCGCCACTACAGAGATGCCAAATC----ATC
1 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATC
* * * *
90213689 TTCGATCTGCTCTCTGCCGCTACAGAGTCGCGAAATATGTTATC
1 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATC
* *
90213733 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTTTTATT
1 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATC
*
90213777 TTCGATCTGCTCTCCACCGCTACAGAGACGCCAAATCTGTTATC
1 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATC
*
90213821 TTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATC----ATC
1 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATC
* *
90213861 TTTGATCTGCTCTCTGCCGCTACAGAGACGCCAAATCTGTTATC
1 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATC
* *
90213905 TTAGATCTGCTCTCCGCCGCTACAGAGATGCCAAATC----ATC
1 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATC
90213945 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATC
1 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATC
* * *
90213989 TTCGATCTGCTCCCCACCGCTACAGAGATGCCAAATC----ATC
1 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATC
* * * * *
90214029 TTCGATCTGCTCTTCGCTGCTACAGATACGACAAATTTGTTATC
1 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATC
* * *
90214073 TTCGATCTGCTCACCGCCGCTACAGAGACGTCAAATCTGCTATC
1 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATC
*
90214117 TTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATC----ATC
1 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATC
*
90214157 TTCGATCTACTCTCCGCCGCTACAGAGACGCCAAATCTGTTATC
1 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATC
* * *
90214201 TTCGATCTACTCTCCGCCGCTACAGAGAAGCCAAATCTGCTATC
1 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATC
* *
90214245 TTCGATCTGCTCTCCGCCGCTATAGAGACGCTAAATCTGTTATC
1 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATC
* *
90214289 TTCGATCTACTCTCCGCCGCTACAGAGGCGCCAAATCTGTTATC
1 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATC
* * * * *
90214333 TTCAATCTGTTTTCCGCCGCTATAGAGACACCAAATCTGTTATC
1 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATC
*
90214377 TTCGATCTGCTCTCCGCTGCTACAGAGACGCCAAATC
1 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATC
90214414 ATTTTAGATA
Statistics
Matches: 753, Mismatches: 80, Indels: 40
0.86 0.09 0.05
Matches are distributed among these distances:
40 179 0.24
44 574 0.76
ACGTcount: A:0.22, C:0.32, G:0.17, T:0.28
Consensus pattern (44 bp):
TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATC
Found at i:90213738 original size:84 final size:85
Alignment explanation
Indices: 90213517--90214413 Score: 1207
Period size: 84 Copynumber: 10.4 Consensus size: 85
90213507 GGACGTTACA
* *
90213517 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTTGATTTGCTCTCCGCCGCT
1 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCT
90213582 ACAGAGACGCCAAATCTGTTATC
66 ACAGAGACGCCAAATC---TATC
* *
90213605 TTCGATCTGCTCTCCGCTGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCACT
1 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCT
*
90213670 ACAGAGATGCCAAATC-ATC
66 ACAGAGACGCCAAATCTATC
* * * *
90213689 TTCGATCTGCTCTCTGCCGCTACAGAGTCGCGAAATATGTTATCTTCGATCTGCTCTCCGCCGCT
1 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCT
*
90213754 ACAGAGACGCCAAATCTTTTATT
66 ACAGAGACGCCAAATC---TATC
*
90213777 TTCGATCTGCTCTCCACCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCT
1 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCT
*
90213842 ACAGAGATGCCAAATC-ATC
66 ACAGAGACGCCAAATCTATC
* * *
90213861 TTTGATCTGCTCTCTGCCGCTACAGAGACGCCAAATCTGTTATCTTAGATCTGCTCTCCGCCGCT
1 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCT
*
90213926 ACAGAGATGCCAAATC-ATC
66 ACAGAGACGCCAAATCTATC
* *
90213945 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCCCCACCGCT
1 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCT
*
90214010 ACAGAGATGCCAAATC-ATC
66 ACAGAGACGCCAAATCTATC
* * * * * *
90214029 TTCGATCTGCTCTTCGCTGCTACAGATACGACAAATTTGTTATCTTCGATCTGCTCACCGCCGCT
1 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCT
*
90214094 ACAGAGACGTCAAATCTGCTATC
66 ACAGAGACGCCAAA--T-CTATC
* *
90214117 TTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATC----ATCTTCGATCTACTCTCCGCCGCT
1 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCT
90214178 ACAGAGACGCCAAATCTGTTATC
66 ACAGAGACGCCAAATC---TATC
* * *
90214201 TTCGATCTACTCTCCGCCGCTACAGAGAAGCCAAATCTGCTATCTTCGATCTGCTCTCCGCCGCT
1 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCT
* *
90214266 ATAGAGACGCTAAATCTGTTATC
66 ACAGAGACGCCAAATC---TATC
* * * * *
90214289 TTCGATCTACTCTCCGCCGCTACAGAGGCGCCAAATCTGTTATCTTCAATCTGTTTTCCGCCGCT
1 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCT
* *
90214354 ATAGAGACACCAAATCTGTTATC
66 ACAGAGACGCCAAATC---TATC
*
90214377 TTCGATCTGCTCTCCGCTGCTACAGAGACGCCAAATC
1 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATC
90214414 ATTTTAGATA
Statistics
Matches: 731, Mismatches: 63, Indels: 30
0.89 0.08 0.04
Matches are distributed among these distances:
81 1 0.00
82 1 0.00
84 382 0.52
86 1 0.00
87 1 0.00
88 345 0.47
ACGTcount: A:0.22, C:0.32, G:0.17, T:0.28
Consensus pattern (85 bp):
TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCT
ACAGAGACGCCAAATCTATC
Found at i:90213749 original size:128 final size:129
Alignment explanation
Indices: 90213517--90214413 Score: 1174
Period size: 128 Copynumber: 6.9 Consensus size: 129
90213507 GGACGTTACA
* *
90213517 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTTGATTTGCTCTCCGCCGCT
1 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATC---TATCTTCGATCTGCTCTCCGCCGCT
*
90213582 ACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCTGCTACAGAGACGCCAAATCTGTTA
63 ACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTA
90213647 TC
128 TC
* * *
90213649 TTCGATCTGCTCTCCGCCACTACAGAGATGCCAAATC-ATCTTCGATCTGCTCTCTGCCGCTACA
1 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTATCTTCGATCTGCTCTCCGCCGCTACA
* * * * *
90213713 GAGTCGCGAAATATGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTTTTATT
66 GAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATC
*
90213777 TTCGATCTGCTCTCCACCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCT
1 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATC---TATCTTCGATCTGCTCTCCGCCGCT
* * *
90213842 ACAGAGATGCCAAATC----ATCTTTGATCTGCTCTCTGCCGCTACAGAGACGCCAAATCTGTTA
63 ACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTA
90213903 TC
128 TC
* *
90213905 TTAGATCTGCTCTCCGCCGCTACAGAGATGCCAAATC-ATCTTCGATCTGCTCTCCGCCGCTACA
1 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTATCTTCGATCTGCTCTCCGCCGCTACA
* * *
90213969 GAGACGCCAAATCTGTTATCTTCGATCTGCTCCCCACCGCTACAGAGATGCCAAATC----ATC
66 GAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATC
* * * * * *
90214029 TTCGATCTGCTCTTCGCTGCTACAGATACGACAAATTTGTTATCTTCGATCTGCTCACCGCCGCT
1 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAA--T-CTATCTTCGATCTGCTCTCCGCCGCT
* * *
90214094 ACAGAGACGTCAAATCTGCTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATC----A
63 ACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTA
90214155 TC
128 TC
* *
90214157 TTCGATCTACTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTACTCTCCGCCGCT
1 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATC---TATCTTCGATCTGCTCTCCGCCGCT
* * * *
90214222 ACAGAGAAGCCAAATCTGCTATCTTCGATCTGCTCTCCGCCGCTATAGAGACGCTAAATCTGTTA
63 ACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTA
90214287 TC
128 TC
* * * * *
90214289 TTCGATCTACTCTCCGCCGCTACAGAGGCGCCAAATCTGTTATCTTCAATCTGTTTTCCGCCGCT
1 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATC---TATCTTCGATCTGCTCTCCGCCGCT
* * *
90214354 ATAGAGACACCAAATCTGTTATCTTCGATCTGCTCTCCGCTGCTACAGAGACGCCAAATC
63 ACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATC
90214414 ATTTTAGATA
Statistics
Matches: 677, Mismatches: 69, Indels: 38
0.86 0.09 0.05
Matches are distributed among these distances:
124 71 0.10
126 2 0.00
128 418 0.62
132 186 0.27
ACGTcount: A:0.22, C:0.32, G:0.17, T:0.28
Consensus pattern (129 bp):
TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTATCTTCGATCTGCTCTCCGCCGCTACA
GAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATC
Found at i:90220213 original size:132 final size:132
Alignment explanation
Indices: 90219969--90220215 Score: 332
Period size: 132 Copynumber: 1.9 Consensus size: 132
90219959 TGGAAGATAC
* ** * * *
90219969 GAGTGAAATTCCAAAGAGACATTCGATTATTTTGAACAAACGGGAGATTGCAACCCATCACGATA
1 GAGTGAAATTCCAAAGAGACATTCGACTATTTTGAACAAACAAGAAATTGCAACCCAGCACAATA
* * ** *
90220034 GGGCACTATTCCCCGAATTGCCAAACATCGAACATTTCTTTCATTTTAAAAAGTTTTTAGAAAAT
66 GGGCACGATTCCCCAAATTGCCAAACATCGAACATCGCCTTCATTTTAAAAAGTTTTTAGAAAAT
90220099 GT
131 GT
** * * *
90220101 GAGTGAAATTCTGAAGAGATATTCGACTATTTTGAGCAAATAAGAAATTGCAACCCAGCACAATA
1 GAGTGAAATTCCAAAGAGACATTCGACTATTTTGAACAAACAAGAAATTGCAACCCAGCACAATA
* *
90220166 GGGCACGATTCCCCAAATTGCCAAACATCGAATATCGCCTTCGTTTTAAA
66 GGGCACGATTCCCCAAATTGCCAAACATCGAACATCGCCTTCATTTTAAA
90220216 GAACAACTAA
Statistics
Matches: 97, Mismatches: 18, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
132 97 1.00
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (132 bp):
GAGTGAAATTCCAAAGAGACATTCGACTATTTTGAACAAACAAGAAATTGCAACCCAGCACAATA
GGGCACGATTCCCCAAATTGCCAAACATCGAACATCGCCTTCATTTTAAAAAGTTTTTAGAAAAT
GT
Found at i:90221259 original size:16 final size:15
Alignment explanation
Indices: 90221233--90221272 Score: 62
Period size: 16 Copynumber: 2.6 Consensus size: 15
90221223 TGGTATCAAG
*
90221233 ATAAAAATAATAGTA
1 ATAAAAATAATAGAA
90221248 ATAAATAATAATAGAA
1 ATAAA-AATAATAGAA
90221264 ATAAAAATA
1 ATAAAAATA
90221273 CCAAGGACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.39
16 14 0.61
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.25
Consensus pattern (15 bp):
ATAAAAATAATAGAA
Found at i:90221336 original size:13 final size:13
Alignment explanation
Indices: 90221314--90221343 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
90221304 AATTAAATAT
*
90221314 AAAATGAATACAC
1 AAAATAAATACAC
90221327 AAAATAAATACAC
1 AAAATAAATACAC
90221340 AAAA
1 AAAA
90221344 ATGAAATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.70, C:0.13, G:0.03, T:0.13
Consensus pattern (13 bp):
AAAATAAATACAC
Found at i:90222825 original size:39 final size:39
Alignment explanation
Indices: 90222771--90222863 Score: 159
Period size: 39 Copynumber: 2.4 Consensus size: 39
90222761 GCATGATACT
*
90222771 TGGAAACATATCCGGACTTGAGGTCTGCAGGCTACGTGC
1 TGGAAACATATCCGGACTTGAGGTCCGCAGGCTACGTGC
*
90222810 TGGAAACATATCCGGACTTGAGGTCCGCAGGCTATGTGC
1 TGGAAACATATCCGGACTTGAGGTCCGCAGGCTACGTGC
*
90222849 TGGAAATATATCCGG
1 TGGAAACATATCCGG
90222864 GCTTAAAGTC
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 51 1.00
ACGTcount: A:0.25, C:0.22, G:0.30, T:0.24
Consensus pattern (39 bp):
TGGAAACATATCCGGACTTGAGGTCCGCAGGCTACGTGC
Found at i:90226251 original size:25 final size:25
Alignment explanation
Indices: 90226223--90226286 Score: 74
Period size: 25 Copynumber: 2.6 Consensus size: 25
90226213 ACGAGCACAT
90226223 TAACGGGAAGCTCTTCTAAGCCATA
1 TAACGGGAAGCTCTTCTAAGCCATA
* * * * *
90226248 TAACAGGAAGCTCATGTGAGCCATG
1 TAACGGGAAGCTCTTCTAAGCCATA
*
90226273 TAACGAGAAGCTCT
1 TAACGGGAAGCTCT
90226287 AAAGAGCCAT
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.33, C:0.22, G:0.23, T:0.22
Consensus pattern (25 bp):
TAACGGGAAGCTCTTCTAAGCCATA
Found at i:90236808 original size:17 final size:17
Alignment explanation
Indices: 90236786--90236820 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
90236776 GGAATGTATT
90236786 TCCAGTGGAGGAAACCA
1 TCCAGTGGAGGAAACCA
90236803 TCCAGTGGAGGAAACCA
1 TCCAGTGGAGGAAACCA
90236820 T
1 T
90236821 TTCTTCTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.23, G:0.29, T:0.14
Consensus pattern (17 bp):
TCCAGTGGAGGAAACCA
Found at i:90237073 original size:45 final size:45
Alignment explanation
Indices: 90237007--90237211 Score: 365
Period size: 45 Copynumber: 4.6 Consensus size: 45
90236997 TGTCCTGAAG
90237007 ACTAGGAAGGAGCCTGAGGATGGTGGGTTGGAGGGAGGAGTGCAT
1 ACTAGGAAGGAGCCTGAGGATGGTGGGTTGGAGGGAGGAGTGCAT
* * *
90237052 ATTAGGAAGGAACCTGAGGATGGTGGGTTGGGGGGAGGAGTGCAT
1 ACTAGGAAGGAGCCTGAGGATGGTGGGTTGGAGGGAGGAGTGCAT
90237097 ACTAGGAAGGAGCCTGAGGATGGTGGGTTGGAGGGAGGAGTGCAT
1 ACTAGGAAGGAGCCTGAGGATGGTGGGTTGGAGGGAGGAGTGCAT
*
90237142 ACAAGGAAGGAGCCTGAGGATGGTGGGTTGGAGGGAGGAGTGCAT
1 ACTAGGAAGGAGCCTGAGGATGGTGGGTTGGAGGGAGGAGTGCAT
*
90237187 ACTAGGAAGGAACCTGAGGATGGTG
1 ACTAGGAAGGAGCCTGAGGATGGTG
90237212 AGAACAGAAG
Statistics
Matches: 151, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 151 1.00
ACGTcount: A:0.26, C:0.09, G:0.48, T:0.18
Consensus pattern (45 bp):
ACTAGGAAGGAGCCTGAGGATGGTGGGTTGGAGGGAGGAGTGCAT
Found at i:90243387 original size:40 final size:40
Alignment explanation
Indices: 90243343--90243423 Score: 108
Period size: 40 Copynumber: 2.0 Consensus size: 40
90243333 TCAAATACAT
90243343 TTAAAACAAATATTAAAACAAGAAACAAATAAAAAATATA
1 TTAAAACAAATATTAAAACAAGAAACAAATAAAAAATATA
* * * * **
90243383 TTAAAACAATTCTTAAAACAATACACAAATTGAAAATATA
1 TTAAAACAAATATTAAAACAAGAAACAAATAAAAAATATA
90243423 T
1 T
90243424 AATAAAAATT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.63, C:0.10, G:0.02, T:0.25
Consensus pattern (40 bp):
TTAAAACAAATATTAAAACAAGAAACAAATAAAAAATATA
Found at i:90243459 original size:6 final size:6
Alignment explanation
Indices: 90243450--90243486 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
90243440 ATTAAAATTA
* *
90243450 AAATAT AAATAT AAATAT AAATAA AAATAA AAATAT A
1 AAATAT AAATAT AAATAT AAATAT AAATAT AAATAT A
90243487 TATTTATTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (6 bp):
AAATAT
Found at i:90244668 original size:23 final size:24
Alignment explanation
Indices: 90244640--90244721 Score: 80
Period size: 23 Copynumber: 3.5 Consensus size: 24
90244630 ATTTTCATAA
90244640 AAATATAATAATAAAATTAA-ATT
1 AAATATAATAATAAAATTAATATT
* * *
90244663 ATATATAATATTAATATTAATATT
1 AAATATAATAATAAAATTAATATT
*
90244687 AAATA-AAT-ATAATTATATAATATT
1 AAATATAATAATAA-AAT-TAATATT
*
90244711 AAATAAAATAA
1 AAATATAATAA
90244722 GAATCCCACC
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
22 3 0.06
23 23 0.47
24 19 0.39
25 3 0.06
26 1 0.02
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (24 bp):
AAATATAATAATAAAATTAATATT
Found at i:90244675 original size:17 final size:17
Alignment explanation
Indices: 90244650--90244714 Score: 55
Period size: 17 Copynumber: 3.7 Consensus size: 17
90244640 AAATATAATA
*
90244650 ATAAAATTAAATTATAT
1 ATAATATTAAATTATAT
90244667 ATAATATTAATATTA-AT
1 ATAATATTAA-ATTATAT
90244684 ATTAA-A-TAAATATAATTAT
1 A-TAATATTAAAT-T-A-TAT
90244703 ATAATATTAAAT
1 ATAATATTAAAT
90244715 AAAATAAGAA
Statistics
Matches: 39, Mismatches: 1, Indels: 13
0.74 0.02 0.25
Matches are distributed among these distances:
15 2 0.05
16 4 0.10
17 14 0.36
18 10 0.26
19 4 0.10
20 5 0.13
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
ATAATATTAAATTATAT
Found at i:90244677 original size:6 final size:6
Alignment explanation
Indices: 90244641--90244712 Score: 55
Period size: 6 Copynumber: 12.3 Consensus size: 6
90244631 TTTTCATAAA
* *
90244641 AATA-T AATAAT AAAATT AA-ATT -ATATAT AATATT AATATT AATATT
1 AATATT AATATT AATATT AATATT AATAT-T AATATT AATATT AATATT
*
90244687 AA-ATA AATA-T AATTATAT AATATT AA
1 AATATT AATATT AA-TAT-T AATATT AA
90244713 ATAAAATAAG
Statistics
Matches: 55, Mismatches: 4, Indels: 15
0.74 0.05 0.20
Matches are distributed among these distances:
4 1 0.02
5 15 0.27
6 29 0.53
7 7 0.13
8 3 0.05
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (6 bp):
AATATT
Found at i:90246572 original size:48 final size:48
Alignment explanation
Indices: 90246513--90246630 Score: 227
Period size: 48 Copynumber: 2.5 Consensus size: 48
90246503 TACAAACATC
90246513 AATTATTTACCCTATTAACAAATAATCTCATTTTCAAAATTTCATTTA
1 AATTATTTACCCTATTAACAAATAATCTCATTTTCAAAATTTCATTTA
*
90246561 AATTATTTACCCTATTAACAAATAATCTCATTTTCAAAATTTCATTTC
1 AATTATTTACCCTATTAACAAATAATCTCATTTTCAAAATTTCATTTA
90246609 AATTATTTACCCTATTAACAAA
1 AATTATTTACCCTATTAACAAA
90246631 GCTCGGACTA
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
48 69 1.00
ACGTcount: A:0.40, C:0.18, G:0.00, T:0.42
Consensus pattern (48 bp):
AATTATTTACCCTATTAACAAATAATCTCATTTTCAAAATTTCATTTA
Found at i:90248291 original size:27 final size:26
Alignment explanation
Indices: 90248227--90248291 Score: 60
Period size: 27 Copynumber: 2.4 Consensus size: 26
90248217 TTTATATATA
90248227 TAATAATATAATATAATATAATATACT
1 TAATAATA-AATATAATATAATATACT
* **
90248254 TAATTATTAAATA-AATATATATATTTT
1 TAA-TAATAAATATAATATA-ATATACT
90248281 TAATCAATAAA
1 TAAT-AATAAA
90248292 ATCTTTGATA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
26 7 0.23
27 20 0.65
28 4 0.13
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (26 bp):
TAATAATAAATATAATATAATATACT
Found at i:90248970 original size:11 final size:11
Alignment explanation
Indices: 90248911--90248969 Score: 82
Period size: 11 Copynumber: 5.4 Consensus size: 11
90248901 GCAGCAAAAT
90248911 AGCACCCAAAC
1 AGCACCCAAAC
*
90248922 AACACCCAAAC
1 AGCACCCAAAC
90248933 AGCACCCAAAC
1 AGCACCCAAAC
90248944 AGCACCCAAAC
1 AGCACCCAAAC
* * *
90248955 TGCAGCAAAAC
1 AGCACCCAAAC
90248966 AGCA
1 AGCA
90248970 GTGAGCTAGG
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 42 1.00
ACGTcount: A:0.47, C:0.41, G:0.10, T:0.02
Consensus pattern (11 bp):
AGCACCCAAAC
Found at i:90257772 original size:18 final size:17
Alignment explanation
Indices: 90257737--90257769 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
90257727 ACTCCCACAA
90257737 TTTTAAAAACATAAAAT
1 TTTTAAAAACATAAAAT
90257754 TTTTAAGAAAC-TAAAA
1 TTTTAA-AAACATAAAA
90257770 ATTACTTACC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.58, C:0.06, G:0.03, T:0.33
Consensus pattern (17 bp):
TTTTAAAAACATAAAAT
Found at i:90257924 original size:15 final size:14
Alignment explanation
Indices: 90257901--90257944 Score: 52
Period size: 15 Copynumber: 3.0 Consensus size: 14
90257891 ATATATATAC
90257901 TTTAATTAATTACAA
1 TTTAATTAATTA-AA
*
90257916 TTTATTTAATTAAA
1 TTTAATTAATTAAA
*
90257930 TTATAATTAACTAAA
1 TT-TAATTAATTAAA
90257945 CATCAATCTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 4 0.16
15 21 0.84
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (14 bp):
TTTAATTAATTAAA
Found at i:90259520 original size:37 final size:37
Alignment explanation
Indices: 90259468--90259559 Score: 130
Period size: 37 Copynumber: 2.5 Consensus size: 37
90259458 CAGCGCTTTA
* * * *
90259468 TAAATTTGACACCCAGTGTCTCATCGGTTAAATCGAAG
1 TAAA-TTGGCACCCAGTGTCTCATAGGTTAAACCAAAG
*
90259506 TAAATTGGTACCCAGTGTCTCATAGGTTAAACCAAAG
1 TAAATTGGCACCCAGTGTCTCATAGGTTAAACCAAAG
90259543 TAAATTGGCACCCAGTG
1 TAAATTGGCACCCAGTG
90259560 CTTCATCAAC
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
37 44 0.92
38 4 0.08
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.27
Consensus pattern (37 bp):
TAAATTGGCACCCAGTGTCTCATAGGTTAAACCAAAG
Found at i:90260526 original size:19 final size:20
Alignment explanation
Indices: 90260497--90260537 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
90260487 CGTCTTTCTC
90260497 CTTTCTTCTTTCATTTT-TTT
1 CTTTCTTCTTTC-TTTTCTTT
90260517 CTTT-TTCTTTCTTTTCTTT
1 CTTTCTTCTTTCTTTTCTTT
90260536 CT
1 CT
90260538 GGTTCGTATG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 4 0.20
19 12 0.60
20 4 0.20
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (20 bp):
CTTTCTTCTTTCTTTTCTTT
Found at i:90260531 original size:15 final size:15
Alignment explanation
Indices: 90260498--90260535 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
90260488 GTCTTTCTCC
90260498 TTTCTTCTTTCATTTT
1 TTTCTT-TTTCATTTT
90260514 TTTCTTTTTC-TTTCT
1 TTTCTTTTTCATTT-T
90260529 TTTCTTT
1 TTTCTTT
90260536 CTGGTTCGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 3 0.14
15 12 0.57
16 6 0.29
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTCTTTTTCATTTT
Found at i:90260618 original size:15 final size:15
Alignment explanation
Indices: 90260598--90260647 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
90260588 TACTTTTGTT
90260598 TTATTATTCATTAAA
1 TTATTATTCATTAAA
*
90260613 TTATTATT-A-TATA
1 TTATTATTCATTAAA
**
90260626 -TATTAAACATTAAA
1 TTATTATTCATTAAA
90260640 TTATTATT
1 TTATTATT
90260648 ATATAATATA
Statistics
Matches: 26, Mismatches: 6, Indels: 6
0.68 0.16 0.16
Matches are distributed among these distances:
12 5 0.19
13 4 0.15
14 4 0.15
15 13 0.50
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (15 bp):
TTATTATTCATTAAA
Found at i:90264788 original size:22 final size:24
Alignment explanation
Indices: 90264763--90264806 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
90264753 GATAAAGAAA
*
90264763 TGAAATAA-TA-TATGAGACAACT
1 TGAAATAACTAGTATGAAACAACT
*
90264785 TGAAGTAACTAGTATGAAACAA
1 TGAAATAACTAGTATGAAACAA
90264807 ATTAAAATGA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 7 0.39
23 2 0.11
24 9 0.50
ACGTcount: A:0.50, C:0.09, G:0.16, T:0.25
Consensus pattern (24 bp):
TGAAATAACTAGTATGAAACAACT
Found at i:90264934 original size:27 final size:27
Alignment explanation
Indices: 90264904--90264965 Score: 65
Period size: 26 Copynumber: 2.3 Consensus size: 27
90264894 TTAGATGAGT
* *
90264904 AATATATGTAAAAA-CACGTTTAAAATA
1 AATATATGCAAAAAGCA-ATTTAAAATA
*
90264931 AATAT-TACAAAAAGCAATTTAAAATA
1 AATATATGCAAAAAGCAATTTAAAATA
90264957 AATAGTATG
1 AATA-TATG
90264966 AAATAATTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
26 19 0.68
27 8 0.29
28 1 0.04
ACGTcount: A:0.56, C:0.06, G:0.08, T:0.29
Consensus pattern (27 bp):
AATATATGCAAAAAGCAATTTAAAATA
Found at i:90266270 original size:39 final size:40
Alignment explanation
Indices: 90266227--90266364 Score: 131
Period size: 39 Copynumber: 3.5 Consensus size: 40
90266217 CCGCTCGAAA
* * **
90266227 CCTGCGGGA-CTTTAGCCCGGACATATTTCCAGCACGTAG
1 CCTGCGGGACCTTAAGCCCGGACATAATTCCAGCACACAG
* *
90266266 CCTGC-GGACCTTAAGTCCGGATATAATTCCAGCACACAG
1 CCTGCGGGACCTTAAGCCCGGACATAATTCCAGCACACAG
* * * * *
90266305 CCTGC-GGACCCTAAGTCCGGATATAATTCCAGCACATAA
1 CCTGCGGGACCTTAAGCCCGGACATAATTCCAGCACACAG
* *
90266344 CCTGC-GGACCCTAAGTCCGGA
1 CCTGCGGGACCTTAAGCCCGGA
90266365 TATACATCAT
Statistics
Matches: 89, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
38 3 0.03
39 86 0.97
ACGTcount: A:0.25, C:0.32, G:0.22, T:0.20
Consensus pattern (40 bp):
CCTGCGGGACCTTAAGCCCGGACATAATTCCAGCACACAG
Found at i:90266365 original size:39 final size:39
Alignment explanation
Indices: 90266243--90266368 Score: 198
Period size: 39 Copynumber: 3.2 Consensus size: 39
90266233 GGACTTTAGC
* * * *
90266243 CCGGACATATTTCCAGCACGTAGCCTGCGGACCTTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
*
90266282 CCGGATATAATTCCAGCACACAGCCTGCGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
*
90266321 CCGGATATAATTCCAGCACATAACCTGCGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
90266360 CCGGATATA
1 CCGGATATA
90266369 CATCATTGAA
Statistics
Matches: 80, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 80 1.00
ACGTcount: A:0.28, C:0.31, G:0.21, T:0.21
Consensus pattern (39 bp):
CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
Found at i:90269256 original size:37 final size:37
Alignment explanation
Indices: 90269197--90269268 Score: 117
Period size: 37 Copynumber: 1.9 Consensus size: 37
90269187 AGCTCAGATG
*
90269197 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGAAGTCATCGGGTCTTACCCGGACA
* *
90269234 AAATCTCCACACGTAGTCATCGGGTCTTACTCGGA
1 AAATCTCCACACGAAGTCATCGGGTCTTACCCGGA
90269269 ATATATTTCC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGAAGTCATCGGGTCTTACCCGGACA
Found at i:90269470 original size:48 final size:48
Alignment explanation
Indices: 90269415--90270547 Score: 1881
Period size: 48 Copynumber: 23.1 Consensus size: 48
90269405 ACACATCGCC
*
90269415 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
90269463 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* * *
90269513 TATATATTTCACAGTAACCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
90269561 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
90269609 TACATATTTCACATTACATTAGCCATTCGGCTTTACCACATATACTTATCTCA
1 TACATATTT--C---ACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
90269662 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACTTATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
90269710 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
90269758 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACTTATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
* *
90269806 TACATATTTCACATTAGCCATTCGACTTTACCACATATACTTATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
90269854 TACATATTTCACATTAGCCATTC-GCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
90269901 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACTTATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
90269949 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACTTATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
90269997 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
90270045 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
90270093 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACTTATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
90270141 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACTTATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
90270189 TACATATTTCACATTAGCCATTCGGCTTTACTTCGGCTTTGCCACATATACTTATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTA-----------CCACATATACATATCTCA
90270248 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
90270296 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
90270344 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACTTATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
90270392 TACATATTTCACATTAGCCATTCGCCATTCGGCTTTACCACATATACTTATCTCA
1 TACATATTTCACATT----A---GCCATTCGGCTTTACCACATATACATATCTCA
*
90270447 TACATATTTCATATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
90270495 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
90270543 TACAT
1 TACAT
90270548 CAATTTCCGC
Statistics
Matches: 1038, Mismatches: 21, Indels: 52
0.93 0.02 0.05
Matches are distributed among these distances:
47 45 0.04
48 804 0.77
50 46 0.04
51 2 0.00
52 1 0.00
53 46 0.04
55 46 0.04
59 48 0.05
ACGTcount: A:0.30, C:0.27, G:0.06, T:0.37
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:90270234 original size:107 final size:106
Alignment explanation
Indices: 90270112--90270524 Score: 672
Period size: 103 Copynumber: 4.0 Consensus size: 106
90270102 CACATTAGCC
90270112 ATTCGGCTTTACCACATATACTTATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACAT
1 ATTCGGCTTTACCACATATACTTATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACAT
*
90270177 ATACTTATCTCATACATATTTCACATTAGCCATTCGGCTTT
66 ATACATATCTCATACATATTTCACATTAGCCATTCGGCTTT
*
90270218 ACTTCGGCTTTGCCACATATACTTATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACA
1 A-TTCGGCTTTACCACATATACTTATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACA
90270283 TATACATATCTCATACATATTTCACATTAG-----C--C---
65 TATACATATCTCATACATATTTCACATTAGCCATTCGGCTTT
*
90270315 ATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACAT
1 ATTCGGCTTTACCACATATACTTATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACAT
* *
90270380 ATACTTATCTCATACATATTTCACATTAGCCATTC-GC--C
66 ATACATATCTCATACATATTTCACATTAGCCATTCGGCTTT
*
90270418 ATTCGGCTTTACCACATATACTTATCTCATACATATTTCATATTAGCCATTCGGCTTTACCACAT
1 ATTCGGCTTTACCACATATACTTATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACAT
90270483 ATACATATCTCATACATATTTCACATTAGCCATTCGGCTTT
66 ATACATATCTCATACATATTTCACATTAGCCATTCGGCTTT
90270524 A
1 A
90270525 CCACATATAC
Statistics
Matches: 287, Mismatches: 9, Indels: 22
0.90 0.03 0.07
Matches are distributed among these distances:
96 90 0.31
97 1 0.00
100 1 0.00
101 1 0.00
102 2 0.01
103 97 0.34
104 2 0.01
106 2 0.01
107 91 0.32
ACGTcount: A:0.29, C:0.27, G:0.07, T:0.37
Consensus pattern (106 bp):
ATTCGGCTTTACCACATATACTTATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACAT
ATACATATCTCATACATATTTCACATTAGCCATTCGGCTTT
Found at i:90270272 original size:203 final size:199
Alignment explanation
Indices: 90269431--90270547 Score: 1944
Period size: 199 Copynumber: 5.7 Consensus size: 199
90269421 TTTCACACTA
*
90269431 GCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCA
1 GCCATTCGGCTTTACCACATATACTTATCTCATACATATTTCACATTAGCCATTCGGCTTTACCA
* * *
90269496 CATATACATATCTCATATATATATTTCACAGTAACCATTCGGCTTTACCACATATACATATCTCA
66 CATATACATATCTC--ATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
90269561 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTA-
129 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACTTATCTCATACATATTTCACATTAG
*
90269625 -CATTA
194 CCATTC
90269630 GCCATTCGGCTTTACCACATATACTTATCTCATACATATTTCACATTAGCCATTCGGCTTTACCA
1 GCCATTCGGCTTTACCACATATACTTATCTCATACATATTTCACATTAGCCATTCGGCTTTACCA
*
90269695 CATATACTTATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATA
66 CATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATA
90269760 CATATTTCACATTAGCCATTCGGCTTTACCACATATACTTATCTCATACATATTTCACATTAGCC
131 CATATTTCACATTAGCCATTCGGCTTTACCACATATACTTATCTCATACATATTTCACATTAGCC
90269825 ATTC
196 ATTC
90269829 G--A-----CTTTACCACATATACTTATCTCATACATATTTCACATTAGCCATTC-GCTTTACCA
1 GCCATTCGGCTTTACCACATATACTTATCTCATACATATTTCACATTAGCCATTCGGCTTTACCA
*
90269886 CATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACTTATCTCATA
66 CATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATA
90269951 CATATTTCACATTAGCCATTCGGCTTTACCACATATACTTATCTCATACATATTTCACATT----
131 CATATTTCACATTAGCCATTCGGCTTTACCACATATACTTATCTCATACATATTTCACATTAGCC
90270012 A---
196 ATTC
*
90270013 GCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCA
1 GCCATTCGGCTTTACCACATATACTTATCTCATACATATTTCACATTAGCCATTCGGCTTTACCA
*
90270078 CATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACTTATCTCATA
66 CATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATA
90270143 CATATTTCACATTAGCCATTCGGCTTTACCACATATACTTATCTCATACATATTTCACATTAGCC
131 CATATTTCACATTAGCCATTCGGCTTTACCACATATACTTATCTCATACATATTTCACATTAGCC
90270208 ATTC
196 ATTC
* *
90270212 GGCTTTACTTCGGCTTTGCCACATATACTTATCTCATACATATTTCACATTAGCCATTCGGCTTT
1 -GC--CA-TTCGGCTTTACCACATATACTTATCTCATACATATTTCACATTAGCCATTCGGCTTT
90270277 ACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
62 ACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
90270342 CATACATATTTCACATTAGCCATTCGGCTTTACCACATATACTTATCTCATACATATTTCACATT
127 CATACATATTTCACATTAGCCATTCGGCTTTACCACATATACTTATCTCATACATATTTCACATT
90270407 AGCCATTC
192 AGCCATTC
*
90270415 GCCATTCGGCTTTACCACATATACTTATCTCATACATATTTCATATTAGCCATTCGGCTTTACCA
1 GCCATTCGGCTTTACCACATATACTTATCTCATACATATTTCACATTAGCCATTCGGCTTTACCA
90270480 CATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATA
66 CATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATA
90270545 CAT
131 CAT
90270548 CAATTTCCGC
Statistics
Matches: 880, Mismatches: 17, Indels: 42
0.94 0.02 0.04
Matches are distributed among these distances:
184 1 0.00
186 1 0.00
187 1 0.00
191 178 0.20
192 181 0.21
196 1 0.00
197 110 0.12
199 209 0.24
200 3 0.00
202 3 0.00
203 192 0.22
ACGTcount: A:0.30, C:0.27, G:0.06, T:0.37
Consensus pattern (199 bp):
GCCATTCGGCTTTACCACATATACTTATCTCATACATATTTCACATTAGCCATTCGGCTTTACCA
CATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATA
CATATTTCACATTAGCCATTCGGCTTTACCACATATACTTATCTCATACATATTTCACATTAGCC
ATTC
Found at i:90270315 original size:155 final size:154
Alignment explanation
Indices: 90270065--90270525 Score: 735
Period size: 155 Copynumber: 3.0 Consensus size: 154
90270055 ACATTAGCCA
*
90270065 TTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATA
1 TTCGGCTTT-CCACATATACTTATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATA
*
90270130 TACTTATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACTTATCTCATACATA
65 TACTTATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATA
90270195 TTTCACATTAGCCATTCGGCTTTAC
130 TTTCACATTAGCCATTCGGCTTTAC
90270220 TTCGGCTTTGCCACATATACTTATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATA
1 TTCGGCTTT-CCACATATACTTATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATA
*
90270285 TACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATA
65 TACTTATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATA
90270350 TTTCACATTAGCCATTCGGCTTTA-
130 TTTCACATTAGCCATTCGGCTTTAC
90270374 ---------CCACATATACTTATCTCATACATATTTCACATTAGCCATTCGCCATTCGGCTTTAC
1 TTCGGCTTTCCACATATACTTATCTCATACATATTTCACATT----A---GCCATTCGGCTTTAC
*
90270430 CACATATACTTATCTCATACATATTTCATATTAGCCATTCGGCTTTACCACATATACATATCTCA
59 CACATATACTTATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
90270495 TACATATTTCACATTAGCCATTCGGCTTTAC
124 TACATATTTCACATTAGCCATTCGGCTTTAC
90270526 CACATATACA
Statistics
Matches: 292, Mismatches: 6, Indels: 19
0.92 0.02 0.06
Matches are distributed among these distances:
144 33 0.11
148 1 0.00
151 108 0.37
155 150 0.51
ACGTcount: A:0.29, C:0.27, G:0.07, T:0.37
Consensus pattern (154 bp):
TTCGGCTTTCCACATATACTTATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATAT
ACTTATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
TTCACATTAGCCATTCGGCTTTAC
Found at i:90277616 original size:39 final size:39
Alignment explanation
Indices: 90277573--90277716 Score: 209
Period size: 39 Copynumber: 3.7 Consensus size: 39
90277563 ACCCGCTCGA
* * * * *
90277573 AGCCTGCGGGA-CTTTAGCCCGGACATATTTCCAGCACGT
1 AGCCTGC-GGACCTTAAGTCCGGATATAATTCCAGCACAT
90277612 AGCCTGCGGACCTTAAGTCCGGATATAATTCCAGCACAT
1 AGCCTGCGGACCTTAAGTCCGGATATAATTCCAGCACAT
*
90277651 AGCCTGCGGACCCTAAGTCCGGATATAATTCCAGCACAT
1 AGCCTGCGGACCTTAAGTCCGGATATAATTCCAGCACAT
*
90277690 AGCCTGCGGACCCTAAGTCCGGATATA
1 AGCCTGCGGACCTTAAGTCCGGATATA
90277717 CATCACTGAA
Statistics
Matches: 98, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
38 3 0.03
39 95 0.97
ACGTcount: A:0.26, C:0.30, G:0.23, T:0.22
Consensus pattern (39 bp):
AGCCTGCGGACCTTAAGTCCGGATATAATTCCAGCACAT
Found at i:90288304 original size:4 final size:4
Alignment explanation
Indices: 90288295--90288327 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
90288285 AACTCAGCAA
90288295 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT A
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT A
90288328 ATGTTCATGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:90292150 original size:20 final size:20
Alignment explanation
Indices: 90292127--90292175 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
90292117 ATTTATTTGT
*
90292127 TAAAATAATAATTTTATAAA
1 TAAAATAATAATCTTATAAA
*
90292147 TAAAATCATAATCTTATAAA
1 TAAAATAATAATCTTATAAA
90292167 TAAAATAAT
1 TAAAATAAT
90292176 TTAAGGGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (20 bp):
TAAAATAATAATCTTATAAA
Found at i:90294854 original size:10 final size:10
Alignment explanation
Indices: 90294839--90294881 Score: 52
Period size: 10 Copynumber: 4.4 Consensus size: 10
90294829 CGGCCTAAAC
90294839 AAAACAAATA
1 AAAACAAATA
90294849 AAAACAAATA
1 AAAACAAATA
*
90294859 AAAA-AACTA
1 AAAACAAATA
* *
90294868 AAATCTAATA
1 AAAACAAATA
90294878 AAAA
1 AAAA
90294882 AAACAGAATG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
9 7 0.26
10 20 0.74
ACGTcount: A:0.77, C:0.09, G:0.00, T:0.14
Consensus pattern (10 bp):
AAAACAAATA
Found at i:90294869 original size:19 final size:19
Alignment explanation
Indices: 90294847--90294883 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
90294837 ACAAAACAAA
90294847 TAAAAACAAATAAAAAAAC
1 TAAAAACAAATAAAAAAAC
* *
90294866 TAAAATCTAATAAAAAAA
1 TAAAAACAAATAAAAAAA
90294884 ACAGAATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (19 bp):
TAAAAACAAATAAAAAAAC
Found at i:90295228 original size:15 final size:17
Alignment explanation
Indices: 90295198--90295231 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
90295188 TTTCTTAGCG
90295198 AATACGAAAAAGAAGAA
1 AATACGAAAAAGAAGAA
90295215 AATAC-AAAAA-AAGAA
1 AATACGAAAAAGAAGAA
90295230 AA
1 AA
90295232 CAACAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
16 5 0.29
17 5 0.29
ACGTcount: A:0.76, C:0.06, G:0.12, T:0.06
Consensus pattern (17 bp):
AATACGAAAAAGAAGAA
Found at i:90296158 original size:4 final size:4
Alignment explanation
Indices: 90296149--90296174 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
90296139 TATATATTAT
90296149 TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TT
90296175 ATTCCTTTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:90300411 original size:6 final size:6
Alignment explanation
Indices: 90300396--90300436 Score: 57
Period size: 6 Copynumber: 7.0 Consensus size: 6
90300386 ATGGAATTTT
* *
90300396 AAAT-A AAATAA AAATAA AAATAA AAAGAA AAAGAA AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
90300437 TAGTAAAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
5 4 0.12
6 29 0.88
ACGTcount: A:0.83, C:0.00, G:0.05, T:0.12
Consensus pattern (6 bp):
AAATAA
Found at i:90305068 original size:26 final size:26
Alignment explanation
Indices: 90305036--90305143 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
90305026 TGAAATGCCC
*
90305036 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
*
90305062 ATTATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
90305088 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
90305114 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
90305140 ATCA
1 ATCA
90305144 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:90309244 original size:17 final size:16
Alignment explanation
Indices: 90309224--90309279 Score: 87
Period size: 17 Copynumber: 3.4 Consensus size: 16
90309214 AATAAACAAA
90309224 AATAAAATTTAAATTGC
1 AATAAAA-TTAAATTGC
90309241 AATAAAATATAAATTGC
1 AATAAAAT-TAAATTGC
90309258 AATAAAA-TAAATTGC
1 AATAAAATTAAATTGC
90309273 AATAAAA
1 AATAAAA
90309280 AGTAATAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
15 15 0.39
16 1 0.03
17 22 0.58
ACGTcount: A:0.61, C:0.05, G:0.05, T:0.29
Consensus pattern (16 bp):
AATAAAATTAAATTGC
Found at i:90309269 original size:15 final size:15
Alignment explanation
Indices: 90309233--90309279 Score: 76
Period size: 15 Copynumber: 3.0 Consensus size: 15
90309223 AAATAAAATT
90309233 TAAATTGCAATAAAATA
1 TAAATTGCAAT-AAA-A
90309250 TAAATTGCAATAAAA
1 TAAATTGCAATAAAA
90309265 TAAATTGCAATAAAA
1 TAAATTGCAATAAAA
90309280 AGTAATAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
15 16 0.53
16 3 0.10
17 11 0.37
ACGTcount: A:0.60, C:0.06, G:0.06, T:0.28
Consensus pattern (15 bp):
TAAATTGCAATAAAA
Found at i:90311973 original size:23 final size:23
Alignment explanation
Indices: 90311940--90311986 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
90311930 TTTTAGAAGG
*
90311940 TAGAAATGGTCTCTTATCGAGTA
1 TAGAAAAGGTCTCTTATCGAGTA
90311963 TAGAAAAGGTCTCTTATCGAGTA
1 TAGAAAAGGTCTCTTATCGAGTA
90311986 T
1 T
90311987 TCTCTGAGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.34
Consensus pattern (23 bp):
TAGAAAAGGTCTCTTATCGAGTA
Done.