Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 184 of 240
Found at i:56698769 original size:31 final size:31
Alignment explanation
Indices: 56698733--56698793 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
56698723 TTCATTTAAT
56698733 GGCTTTTCAAATATATGAAAATTTTGAATAC
1 GGCTTTTCAAATATATGAAAATTTTGAATAC
56698764 GGCTTTTCAAATATATGAAAATTTTGAATA
1 GGCTTTTCAAATATATGAAAATTTTGAATA
56698794 TATTTTTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.39, C:0.08, G:0.13, T:0.39
Consensus pattern (31 bp):
GGCTTTTCAAATATATGAAAATTTTGAATAC
Found at i:56727619 original size:14 final size:15
Alignment explanation
Indices: 56727595--56727623 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
56727585 TTTTTCTGTT
56727595 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
56727610 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
56727624 AGTTTCGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:56729764 original size:23 final size:23
Alignment explanation
Indices: 56729737--56729907 Score: 114
Period size: 23 Copynumber: 7.3 Consensus size: 23
56729727 ATGAGTTGAA
56729737 CCAATTTGTTACAAATATGCTGT
1 CCAATTTGTTACAAATATGCTGT
* * * **
56729760 CCAATTTTGATGCTTAA-ATGCTAC
1 CCAA-TTTGTTAC-AAATATGCTGT
*
56729784 CCAATTTGTTACATATATGCTGT
1 CCAATTTGTTACAAATATGCTGT
* * * *
56729807 CCAATTTTGATGCTTAA-ATGCTGC
1 CCAA-TTTGTTAC-AAATATGCTGT
*
56729831 CCAATTTGTTACATATATGCTGT
1 CCAATTTGTTACAAATATGCTGT
* ** *
56729854 CCAATTTTGATGATTAA-ATGCTGC
1 CCAA-TTTG-TTACAAATATGCTGT
*
56729878 CCAATTTGTTACATATATGCTGT
1 CCAATTTGTTACAAATATGCTGT
*
56729901 CTAATTT
1 CCAATTT
56729908 TGATGCTTAA
Statistics
Matches: 107, Mismatches: 32, Indels: 18
0.68 0.20 0.11
Matches are distributed among these distances:
22 5 0.05
23 51 0.48
24 45 0.42
25 6 0.06
ACGTcount: A:0.27, C:0.18, G:0.13, T:0.41
Consensus pattern (23 bp):
CCAATTTGTTACAAATATGCTGT
Found at i:56729780 original size:24 final size:24
Alignment explanation
Indices: 56729753--56729931 Score: 166
Period size: 24 Copynumber: 7.6 Consensus size: 24
56729743 TGTTACAAAT
*
56729753 ATGCTGTCCAATTTTGATGCTTAA
1 ATGCTGCCCAATTTTGATGCTTAA
* * * * *
56729777 ATGCTACCCAA-TTTGTTACATAT
1 ATGCTGCCCAATTTTGATGCTTAA
*
56729800 ATGCTGTCCAATTTTGATGCTTAA
1 ATGCTGCCCAATTTTGATGCTTAA
* * * *
56729824 ATGCTGCCCAA-TTTGTTACATAT
1 ATGCTGCCCAATTTTGATGCTTAA
* *
56729847 ATGCTGTCCAATTTTGATGATTAA
1 ATGCTGCCCAATTTTGATGCTTAA
* * * *
56729871 ATGCTGCCCAA-TTTGTTACATAT
1 ATGCTGCCCAATTTTGATGCTTAA
* *
56729894 ATGCTGTCTAATTTTGATGCTTAA
1 ATGCTGCCCAATTTTGATGCTTAA
56729918 ATGCTGCCCAATTT
1 ATGCTGCCCAATTT
56729932 GTTGCATATA
Statistics
Matches: 115, Mismatches: 37, Indels: 6
0.73 0.23 0.04
Matches are distributed among these distances:
23 51 0.44
24 64 0.56
ACGTcount: A:0.26, C:0.18, G:0.15, T:0.41
Consensus pattern (24 bp):
ATGCTGCCCAATTTTGATGCTTAA
Found at i:56729967 original size:47 final size:47
Alignment explanation
Indices: 56729737--56729956 Score: 377
Period size: 47 Copynumber: 4.7 Consensus size: 47
56729727 ATGAGTTGAA
* *
56729737 CCAATTTGTTACAAATATGCTGTCCAATTTTGATGCTTAAATGCTAC
1 CCAATTTGTTACATATATGCTGTCCAATTTTGATGCTTAAATGCTGC
56729784 CCAATTTGTTACATATATGCTGTCCAATTTTGATGCTTAAATGCTGC
1 CCAATTTGTTACATATATGCTGTCCAATTTTGATGCTTAAATGCTGC
*
56729831 CCAATTTGTTACATATATGCTGTCCAATTTTGATGATTAAATGCTGC
1 CCAATTTGTTACATATATGCTGTCCAATTTTGATGCTTAAATGCTGC
*
56729878 CCAATTTGTTACATATATGCTGTCTAATTTTGATGCTTAAATGCTGC
1 CCAATTTGTTACATATATGCTGTCCAATTTTGATGCTTAAATGCTGC
* * *
56729925 CCAATTTGTTGCATATATGCTATCCAGTTTTG
1 CCAATTTGTTACATATATGCTGTCCAATTTTG
56729957 GTGTAAAAAT
Statistics
Matches: 164, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 164 1.00
ACGTcount: A:0.26, C:0.18, G:0.15, T:0.41
Consensus pattern (47 bp):
CCAATTTGTTACATATATGCTGTCCAATTTTGATGCTTAAATGCTGC
Found at i:56729988 original size:94 final size:94
Alignment explanation
Indices: 56729737--56729998 Score: 328
Period size: 94 Copynumber: 2.8 Consensus size: 94
56729727 ATGAGTTGAA
* * * * * **
56729737 CCAATTTGTTACAAATATGCTGTCCAATTTTGATGCTTAAATGCTACCCAATTTGTTACATATAT
1 CCAATTTGTTACATATATGCTATCCAATTTTGATGATAAAATGCTGCCCAAACTGTTACATATAT
56729802 GCTGTCCAATTTTGATGCTTAAATGCTGC
66 GCTGTCCAATTTTGATGCTTAAATGCTGC
* * **
56729831 CCAATTTGTTACATATATGCTGTCCAATTTTGATGATTAAATGCTGCCCAATTTGTTACATATAT
1 CCAATTTGTTACATATATGCTATCCAATTTTGATGATAAAATGCTGCCCAAACTGTTACATATAT
*
56729896 GCTGTCTAATTTTGATGCTTAAATGCTGC
66 GCTGTCCAATTTTGATGCTTAAATGCTGC
* * * * * **
56729925 CCAATTTGTTGCATATATGCTATCCAGTTTTGGTG-TAAAAATGTTGCTCAAACTGTTGTATATA
1 CCAATTTGTTACATATATGCTATCCAATTTTGATGAT-AAAATGCTGCCCAAACTGTTACATATA
*
56729989 TGCTGCCCAA
65 TGCTGTCCAA
56729999 ATTGATGTAT
Statistics
Matches: 150, Mismatches: 17, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
93 1 0.01
94 149 0.99
ACGTcount: A:0.27, C:0.18, G:0.15, T:0.40
Consensus pattern (94 bp):
CCAATTTGTTACATATATGCTATCCAATTTTGATGATAAAATGCTGCCCAAACTGTTACATATAT
GCTGTCCAATTTTGATGCTTAAATGCTGC
Found at i:56729991 original size:141 final size:141
Alignment explanation
Indices: 56729737--56729998 Score: 373
Period size: 141 Copynumber: 1.9 Consensus size: 141
56729727 ATGAGTTGAA
56729737 CCAATTTGTTACAAATATGCTGTCCAATTTTGATGCTTAAATGCTACCCAATTTGTTACATATAT
1 CCAATTTGTTACAAATATGCTGTCCAATTTTGATGCTTAAATGCTACCCAATTTGTTACATATAT
* * ** *
56729802 GCTGTCCAATTTTGATGCTTAAATGCTGCCCAATTTGTTACATATATGCTGTCCAATTTTGATGA
66 GCTATCCAATTTTGATGCTAAAATGCTGCCCAAACTGTTACATATATGCTGCCCAATTTTGATGA
56729867 TTAAATGCTGC
131 TTAAATGCTGC
* * * *
56729878 CCAATTTGTTACATATATGCTGTCTAATTTTGATGCTTAAATGCTGCCCAATTTGTTGCATATAT
1 CCAATTTGTTACAAATATGCTGTCCAATTTTGATGCTTAAATGCTACCCAATTTGTTACATATAT
* * * * **
56729943 GCTATCCAGTTTTGGTG-TAAAAATGTTGCTCAAACTGTTGTATATATGCTGCCCAA
66 GCTATCCAATTTTGATGCT-AAAATGCTGCCCAAACTGTTACATATATGCTGCCCAA
56729999 ATTGATGTAT
Statistics
Matches: 105, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
140 1 0.01
141 104 0.99
ACGTcount: A:0.27, C:0.18, G:0.15, T:0.40
Consensus pattern (141 bp):
CCAATTTGTTACAAATATGCTGTCCAATTTTGATGCTTAAATGCTACCCAATTTGTTACATATAT
GCTATCCAATTTTGATGCTAAAATGCTGCCCAAACTGTTACATATATGCTGCCCAATTTTGATGA
TTAAATGCTGC
Found at i:56729999 original size:23 final size:23
Alignment explanation
Indices: 56729973--56730022 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
56729963 AAATGTTGCT
*
56729973 CAAACTGTTGTATATATGCTGCC
1 CAAACTGATGTATATATGCTGCC
* * *
56729996 CAAATTGATGTATTTATGCTGTC
1 CAAACTGATGTATATATGCTGCC
56730019 CAAA
1 CAAA
56730023 TTTTGGTGTG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (23 bp):
CAAACTGATGTATATATGCTGCC
Found at i:56730023 original size:23 final size:23
Alignment explanation
Indices: 56729981--56730024 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
56729971 CTCAAACTGT
56729981 TGTATATATGCTGCCCAAATTGA
1 TGTATATATGCTGCCCAAATTGA
* *
56730004 TGTATTTATGCTGTCCAAATT
1 TGTATATATGCTGCCCAAATT
56730025 TTGGTGTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.41
Consensus pattern (23 bp):
TGTATATATGCTGCCCAAATTGA
Found at i:56730063 original size:71 final size:73
Alignment explanation
Indices: 56729915--56730094 Score: 192
Period size: 71 Copynumber: 2.5 Consensus size: 73
56729905 TTTTGATGCT
* * * * *
56729915 TAAATGCTGCCCAATTTGTTGCATATATGCTATCC-AGTTTTGGTGTAAAAATGTTGCTCAAACT
1 TAAATGCTGCCCAAATTGATGTATATATGCTGTCCAAATTTTGGTGTAAAAATGTTGCTCAAACT
56729979 GTTGTATA
66 GTTGTATA
* * *
56729987 T--ATGCTGCCCAAATTGATGTATTTATGCTGTCCAAATTTTGGTGTGAAAATGTTG-TCTAA-T
1 TAAATGCTGCCCAAATTGATGTATATATGCTGTCCAAATTTTGGTGTAAAAATGTTGCTCAAACT
56730048 -TTGGTATA
66 GTT-GTATA
** * * *
56730056 TAAATGCTGTTCAAATTTATGTATAAAAGCTGTCCAAAT
1 TAAATGCTGCCCAAATTGATGTATATATGCTGTCCAAAT
56730095 ATGGTAGATT
Statistics
Matches: 90, Mismatches: 14, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
68 2 0.02
69 7 0.08
70 31 0.34
71 49 0.54
72 1 0.01
ACGTcount: A:0.29, C:0.13, G:0.18, T:0.39
Consensus pattern (73 bp):
TAAATGCTGCCCAAATTGATGTATATATGCTGTCCAAATTTTGGTGTAAAAATGTTGCTCAAACT
GTTGTATA
Found at i:56736441 original size:25 final size:25
Alignment explanation
Indices: 56736413--56736466 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
56736403 CTTGTGATCA
56736413 TTTTTGAACCAA-TATTCTTTCAGTC
1 TTTTTGAA-CAATTATTCTTTCAGTC
* *
56736438 TTTTTGAATAATTATTCTTTCATTC
1 TTTTTGAACAATTATTCTTTCAGTC
56736463 TTTT
1 TTTT
56736467 GGATTTCCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 2 0.08
25 24 0.92
ACGTcount: A:0.22, C:0.15, G:0.06, T:0.57
Consensus pattern (25 bp):
TTTTTGAACAATTATTCTTTCAGTC
Found at i:56737603 original size:13 final size:13
Alignment explanation
Indices: 56737587--56737679 Score: 57
Period size: 13 Copynumber: 7.3 Consensus size: 13
56737577 AATCACAATC
*
56737587 AAAATCAAAAAAG
1 AAAATAAAAAAAG
* **
56737600 AAAAGAAAAATTG
1 AAAATAAAAAAAG
*
56737613 AAATTAAAAAAAG
1 AAAATAAAAAAAG
* *
56737626 -TAATAAAAAAAC
1 AAAATAAAAAAAG
* *
56737638 AAAATCAAAAAAT
1 AAAATAAAAAAAG
* *
56737651 AAAA-AAAAGAAC
1 AAAATAAAAAAAG
56737663 AAAA-AAAAGAAAG
1 AAAATAAAA-AAAG
56737676 AAAA
1 AAAA
56737680 AAAGAAGAAA
Statistics
Matches: 59, Mismatches: 19, Indels: 4
0.72 0.23 0.05
Matches are distributed among these distances:
12 22 0.37
13 37 0.63
ACGTcount: A:0.78, C:0.04, G:0.08, T:0.10
Consensus pattern (13 bp):
AAAATAAAAAAAG
Found at i:56737608 original size:12 final size:11
Alignment explanation
Indices: 56737593--56737691 Score: 65
Period size: 12 Copynumber: 8.3 Consensus size: 11
56737583 AATCAAAATC
56737593 AAAAAAGAAAA
1 AAAAAAGAAAA
*
56737604 GAAAAATTGAAATTA
1 -AAAAA-AGAAA--A
*
56737619 AAAAAAGTAATA
1 AAAAAAG-AAAA
*
56737631 AAAAAACAAAA
1 AAAAAAGAAAA
* *
56737642 TCAAAAA-ATAA
1 -AAAAAAGAAAA
56737653 AAAAAAGAACAA
1 AAAAAAGAA-AA
56737665 AAAAAAGAAAGA
1 AAAAAAGAAA-A
56737677 AAAAAAGAAGAA
1 AAAAAAGAA-AA
56737689 AAA
1 AAA
56737692 GTCAAAATCA
Statistics
Matches: 69, Mismatches: 9, Indels: 18
0.72 0.09 0.19
Matches are distributed among these distances:
10 5 0.07
11 8 0.12
12 42 0.61
13 6 0.09
14 7 0.10
15 1 0.01
ACGTcount: A:0.80, C:0.03, G:0.09, T:0.08
Consensus pattern (11 bp):
AAAAAAGAAAA
Found at i:56737654 original size:19 final size:19
Alignment explanation
Indices: 56737627--56737668 Score: 57
Period size: 21 Copynumber: 2.1 Consensus size: 19
56737617 TAAAAAAAGT
*
56737627 AATAAAAAAACAAAATCAAAA
1 AATAAAAAAA-AGAA-CAAAA
56737648 AATAAAAAAAAGAACAAAA
1 AATAAAAAAAAGAACAAAA
56737667 AA
1 AA
56737669 AAGAAAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 7 0.35
20 3 0.15
21 10 0.50
ACGTcount: A:0.83, C:0.07, G:0.02, T:0.07
Consensus pattern (19 bp):
AATAAAAAAAAGAACAAAA
Found at i:56737681 original size:33 final size:34
Alignment explanation
Indices: 56737613--56737693 Score: 85
Period size: 33 Copynumber: 2.4 Consensus size: 34
56737603 AGAAAAATTG
* * **
56737613 AAATTAAAAAAAGTAATAAAAAAACAAAATCAAA
1 AAATAAAAAAAAGTAACAAAAAAACAAAAGAAAA
56737647 AAATAAAAAAAAG-AACAAAAAAA-AGAAAGAAAA
1 AAATAAAAAAAAGTAACAAAAAAACA-AAAGAAAA
* *
56737680 AAAGAAGAAAAAGT
1 AAATAAAAAAAAGT
56737694 CAAAATCAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
32 1 0.03
33 26 0.67
34 12 0.31
ACGTcount: A:0.79, C:0.04, G:0.09, T:0.09
Consensus pattern (34 bp):
AAATAAAAAAAAGTAACAAAAAAACAAAAGAAAA
Found at i:56740000 original size:28 final size:28
Alignment explanation
Indices: 56739910--56740062 Score: 220
Period size: 28 Copynumber: 5.5 Consensus size: 28
56739900 ATATTAAGTC
*
56739910 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
56739937 CGCACACTTAGTGCTACATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
56739964 TGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
56739992 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
56740020 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
56740049 CGCACACTTAGTGC
1 CGCACACTTAGTGC
56740063 CAATCTCATG
Statistics
Matches: 115, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 46 0.40
28 50 0.43
29 19 0.17
ACGTcount: A:0.33, C:0.27, G:0.12, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:56740013 original size:55 final size:56
Alignment explanation
Indices: 56739910--56740062 Score: 220
Period size: 55 Copynumber: 2.8 Consensus size: 56
56739900 ATATTAAGTC
*
56739910 CGCACACTCAGTGCTATATAATC-AACTCGCACACTTAGTGCTACATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTACATAATCAAACT
* *
56739964 TGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTACATAATCAAACT
* * * *
56740020 CGCACACTTAGTGCTGTACAATTTAAACCCGCACACTTAGTGC
1 CGCACACTTAGTGCTATATAA-TCAAACTCGCACACTTAGTGC
56740063 CAATCTCATG
Statistics
Matches: 88, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
54 21 0.24
55 26 0.30
56 22 0.25
57 19 0.22
ACGTcount: A:0.33, C:0.27, G:0.12, T:0.27
Consensus pattern (56 bp):
CGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:56743304 original size:44 final size:44
Alignment explanation
Indices: 56743254--56744079 Score: 179
Period size: 44 Copynumber: 19.0 Consensus size: 44
56743244 CAATGAAATT
*
56743254 ACAGATCTTATCTCCCTAAGTCGTAGTGGAGCAGATCGAAGATG
1 ACAGATCTTATCTCCCTAAGTCGTAGTGGAGCAGATCGAAGATA
* ** **
56743298 GCAGATCTTATCTCCCTAAG-CAGTAGTGGAGCAGATTAAAGCCA
1 ACAGATCTTATCTCCCTAAGTC-GTAGTGGAGCAGATCGAAGATA
** * * * * ** * *
56743342 GTA-ATCCTATCTCTCTGAAGTTGCAGTGGAGTGGAT-TAAAATA
1 ACAGATCTTATCTCCCT-AAGTCGTAGTGGAGCAGATCGAAGATA
* * *** * * *
56743385 AAAGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCG--CAT-
1 ACAGATCTTATCTCCCT-AAGTCGTAGTGGAGCAGATCGAAGATA
* * *** * *
56743427 -CAGGTCTTATCTCCCTGAGGTTACAGCGGAGCAGACCGAAGA-A
1 ACAGATCTTATCTCCCT-AAGTCGTAGTGGAGCAGATCGAAGATA
* *
56743470 GCAGATCTTATCTCCCTAAG-CAGTAGTGGAGCAGATCGAAGATC
1 ACAGATCTTATCTCCCTAAGTC-GTAGTGGAGCAGATCGAAGATA
* * *
56743514 ACAAATCTTATCTCCCTAAG-CAGTAGTGGAACAGATTG-A-A-A
1 ACAGATCTTATCTCCCTAAGTC-GTAGTGGAGCAGATCGAAGATA
* * * * * *
56743555 CCAGTAATCCTATCTCCCTGAAGTTGTAGTGGAG-TGTAT-TAAAATA
1 ACAG--ATCTTATCTCCCT-AAGTCGTAGTGGAGCAG-ATCGAAGATA
* * * * * *
56743601 AAAGATCTTATCTCTCTGAAGTTGTAGTAGAGTAGATCG--CAT-
1 ACAGATCTTATCTCCCT-AAGTCGTAGTGGAGCAGATCGAAGATA
* * * * * * * *
56743643 A-AGGTCTTATCACTCTGAGGTTGTAGCGGAGCAGACCGAAGAATT
1 ACAGATCTTATCTCCCT-AAGTCGTAGTGGAGCAGATCGAAG-ATA
* *
56743688 ACAGATATTATCTCCCTAAG-CAGTAGTGGAGCAGATCGAAGATG
1 ACAGATCTTATCTCCCTAAGTC-GTAGTGGAGCAGATCGAAGATA
* * * * * * *
56743732 ACA-AGCCTTATCTCCCTGAG-CAGCAGTGGAGTAGGTTGAAGATT
1 ACAGA-TCTTATCTCCCTAAGTC-GTAGTGGAGCAGATCGAAGATA
** * * * * * * * * *
56743776 GTAGACCTTATCTCCTTGAG-CAGCAGTGGAGTAGGTTGGAGATT
1 ACAGATCTTATCTCCCTAAGTC-GTAGTGGAGCAGATCGAAGATA
** * * * * * * *
56743820 GTAGACCTTATCTCCCTTAG-CAGCT-GTGGAGTAGGTTGAAAATT
1 ACAGATCTTATCTCCCTAAGTC-G-TAGTGGAGCAGATCGAAGATA
* * *
56743864 ACAGATCTTATCTCCCTAAGTAGTAGTGAAGCAGATCGAAG-TCC
1 ACAGATCTTATCTCCCTAAGTCGTAGTGGAGCAGATCGAAGAT-A
* * * * * * * * * *
56743908 CCAG-CCTTGTCTCCCTGAG-CAGCAGTGGAGTAGGTTGAAAATT
1 ACAGATCTTATCTCCCTAAGTC-GTAGTGGAGCAGATCGAAGATA
* * *
56743951 ACAGATTTTATCTCCCTAAG-CAGTAGTGGACCAGATCGAAG-TCT
1 ACAGATCTTATCTCCCTAAGTC-GTAGTGGAGCAGATCGAAGAT-A
* * * * * * * * * *
56743995 CCAG-CCTTGTCTCCCTGAG-CAGCAGTGGAGTAGGTTGAAAATT
1 ACAGATCTTATCTCCCTAAGTC-GTAGTGGAGCAGATCGAAGATA
* *
56744038 ACAGATCTGATCTCCCTAAG-CAGTAGTGGAGTAGATCGAAGA
1 ACAGATCTTATCTCCCTAAGTC-GTAGTGGAGCAGATCGAAGA
56744080 CCACAGCCTT
Statistics
Matches: 593, Mismatches: 150, Indels: 78
0.72 0.18 0.10
Matches are distributed among these distances:
41 62 0.10
42 2 0.00
43 115 0.19
44 377 0.64
45 23 0.04
46 14 0.02
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (44 bp):
ACAGATCTTATCTCCCTAAGTCGTAGTGGAGCAGATCGAAGATA
Found at i:56743632 original size:216 final size:217
Alignment explanation
Indices: 56743253--56743761 Score: 790
Period size: 216 Copynumber: 2.3 Consensus size: 217
56743243 TCAATGAAAT
* *
56743253 TACAGATCTTATCTCCCTAAGTC-GTAGTGGAGCAGATCGAAGATGGCAGATCTTATCTCCCTAA
1 TACAGATCTTATCTCCCTAAG-CAGTAGTGGAGCAGATCGAAGATGACAAATCTTATCTCCCTAA
* *
56743317 GCAGTAGTGGAGCAGATTAAAGCCAGTAATCCTATCTCTCTGAAGTTGCAGTGGAGTGGATTAAA
65 GCAGTAGTGGAACAGATTAAAGCCAGTAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAA
* *
56743382 ATAAAAGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGG
130 ATAAAAGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATAAGGTCTTATCACCCTGAGG
56743447 TTACAGCGGAGCAGACCGAAGAA
195 TTACAGCGGAGCAGACCGAAGAA
* *
56743470 -GCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATCACAAATCTTATCTCCCTAAG
1 TACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGACAAATCTTATCTCCCTAAG
* *
56743534 CAGTAGTGGAACAGATTGAAA-CCAGTAATCCTATCTCCCTGAAGTTGTAGTGGAGTGTATTAAA
66 CAGTAGTGGAACAGATT-AAAGCCAGTAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAA
** *
56743598 ATAAAAGATCTTATCTCTCTGAAGTTGTAGTAGAGTAGATCGCATAAGGTCTTATCACTCTGAGG
130 ATAAAAGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATAAGGTCTTATCACCCTGAGG
**
56743663 TTGTAGCGGAGCAGACCGAAGAA
195 TTACAGCGGAGCAGACCGAAGAA
* ** *
56743686 TTACAGATATTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGACAAGCCTTATCTCCCTGA
1 -TACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGACAAATCTTATCTCCCTAA
*
56743751 GCAGCAGTGGA
65 GCAGTAGTGGA
56743762 GTAGGTTGAA
Statistics
Matches: 266, Mismatches: 22, Indels: 7
0.90 0.07 0.02
Matches are distributed among these distances:
215 1 0.00
216 195 0.73
217 3 0.01
218 67 0.25
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (217 bp):
TACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGACAAATCTTATCTCCCTAAG
CAGTAGTGGAACAGATTAAAGCCAGTAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAA
TAAAAGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATAAGGTCTTATCACCCTGAGGT
TACAGCGGAGCAGACCGAAGAA
Found at i:56743942 original size:87 final size:87
Alignment explanation
Indices: 56743684--56744135 Score: 546
Period size: 87 Copynumber: 5.2 Consensus size: 87
56743674 CAGACCGAAG
* ** * *
56743684 AATTACAGATATTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGACAAGCCTTATCTCCCT
1 AATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAG-TCCCCAGCCTTGTCTCCCT
56743749 GAGCAGCAGTGGAGTAGGTTGAA
65 GAGCAGCAGTGGAGTAGGTTGAA
* ** * * * * * * * * *** *
56743772 GATTGTAGACCTTATCTCCTTGAGCAGCAGTGGAGTAGGTTGGAGAT-TGTAGACCTTATCTCCC
1 AATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAG-TCCCCAG-CCTTGTCTCCC
* *
56743836 TTAGCAGCTGTGGAGTAGGTTGAA
64 TGAGCAGCAGTGGAGTAGGTTGAA
* *
56743860 AATTACAGATCTTATCTCCCTAAGTAGTAGTGAAGCAGATCGAAGTCCCCAGCCTTGTCTCCCTG
1 AATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGTCCCCAGCCTTGTCTCCCTG
56743925 AGCAGCAGTGGAGTAGGTTGAA
66 AGCAGCAGTGGAGTAGGTTGAA
* * *
56743947 AATTACAGATTTTATCTCCCTAAGCAGTAGTGGACCAGATCGAAGTCTCCAGCCTTGTCTCCCTG
1 AATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGTCCCCAGCCTTGTCTCCCTG
56744012 AGCAGCAGTGGAGTAGGTTGAA
66 AGCAGCAGTGGAGTAGGTTGAA
* * * * *
56744034 AATTACAGATCTGATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACCACAGCCTTGTCTCCATG
1 AATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGTCCCCAGCCTTGTCTCCCTG
* *
56744099 AGTAGCAGTAGAGTAGGTTGAA
66 AGCAGCAGTGGAGTAGGTTGAA
* *
56744121 AATAACAAATCTTAT
1 AATTACAGATCTTAT
56744136 ATTCCTGTAT
Statistics
Matches: 308, Mismatches: 54, Indels: 5
0.84 0.15 0.01
Matches are distributed among these distances:
87 206 0.67
88 102 0.33
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (87 bp):
AATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGTCCCCAGCCTTGTCTCCCTG
AGCAGCAGTGGAGTAGGTTGAA
Found at i:56744434 original size:50 final size:50
Alignment explanation
Indices: 56744292--56744424 Score: 162
Period size: 50 Copynumber: 2.7 Consensus size: 50
56744282 GTAGAGGAAC
* * *
56744292 AGATTGAAGCTACAACAG-CGAATTTTGCTTCCCCGACATTGCAATTAATA
1 AGATTGAAGCTACAA-AGACGAATCTTGTTTCCCCAACATTGCAATTAATA
* *
56744342 AGATTGAAGCTACAACGACGAATCTTGTTTCCCCAACATTGCAGTTAAATA
1 AGATTGAAGCTACAAAGACGAATCTTGTTTCCCCAACATTGCAATT-AATA
* **
56744393 A-ATTTAAGCTACAAAGGTGAATCTTGTTTCCC
1 AGATTGAAGCTACAAAGACGAATCTTGTTTCCC
56744425 TGGCATTGCA
Statistics
Matches: 72, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
49 1 0.01
50 66 0.92
51 5 0.07
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (50 bp):
AGATTGAAGCTACAAAGACGAATCTTGTTTCCCCAACATTGCAATTAATA
Found at i:56746232 original size:9 final size:9
Alignment explanation
Indices: 56746195--56746251 Score: 53
Period size: 9 Copynumber: 6.3 Consensus size: 9
56746185 TGGTATTATC
*
56746195 ATTATTATT
1 ATTACTATT
56746204 ATTACTACTT
1 ATTACTA-TT
*
56746214 -TTATTATT
1 ATTACTATT
*
56746222 ATTAATATT
1 ATTACTATT
56746231 ATTACTATT
1 ATTACTATT
* *
56746240 GTTGCTATT
1 ATTACTATT
56746249 ATT
1 ATT
56746252 GATAATATTA
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
8 2 0.05
9 35 0.90
10 2 0.05
ACGTcount: A:0.30, C:0.07, G:0.04, T:0.60
Consensus pattern (9 bp):
ATTACTATT
Found at i:56746248 original size:27 final size:27
Alignment explanation
Indices: 56746195--56746261 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 27
56746185 TGGTATTATC
* *
56746195 ATTATTATTATTACTACTTTTATTATT
1 ATTAATATTATTACTACTTTTACTATT
*
56746222 ATTAATATTATTACTA-TTGTTGCTATT
1 ATTAATATTATTACTACTT-TTACTATT
* *
56746249 ATTGATAATATTA
1 ATTAATATTATTA
56746262 GTCACTTATA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
26 2 0.06
27 32 0.94
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.57
Consensus pattern (27 bp):
ATTAATATTATTACTACTTTTACTATT
Found at i:56746251 original size:3 final size:3
Alignment explanation
Indices: 56746188--56746239 Score: 52
Period size: 3 Copynumber: 17.3 Consensus size: 3
56746178 ATTGTGTTGG
* * *
56746188 TAT TAT CAT TAT TAT TAT TAC TACT T-T TAT TAT TAT TAA TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT
*
56746233 TAC TAT T
1 TAT TAT T
56746240 GTTGCTATTA
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
2 2 0.05
3 36 0.92
4 1 0.03
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:56749512 original size:68 final size:67
Alignment explanation
Indices: 56749412--56749693 Score: 274
Period size: 68 Copynumber: 4.3 Consensus size: 67
56749402 AGGAGTTTGT
*
56749412 TAGGACATTAAACATGGGTTCATAATGTGTAAGACCGTAGCTC-GACTATGGCAACATATGGAGT
1 TAGGACATTAAACAT-GGTTCATAATGTGTAAGACCGTAGCTCAG-CTATGGCAACATATGGAAT
*
56749476 CTAC
64 CTGC
* ** * *
56749480 TAGGACATTAAACATAGGTTCATAATATGTAAGATTGTAGCTCAGCGATGACAACATATGGAATC
1 TAGGACATTAAACAT-GGTTCATAATGTGTAAGACCGTAGCTCAGCTATGGCAACATATGGAATC
56749545 --C
65 TGC
* ** * *
56749546 ---G--ATTAAACATGGCTTCATAATCTGTAAGGTCGTAGCTTAGCTATGGAAACATATGGAATC
1 TAGGACATTAAACATGG-TTCATAATGTGTAAGACCGTAGCTCAGCTATGGCAACATATGGAATC
56749606 TGC
65 TGC
* * ** * * * *
56749609 CAAGTTATTAAGCATGAGTTCATAATGTGTAAGACTGTAGCTCAGCTATGGCAACATATAGAGTC
1 TAGGACATTAAACATG-GTTCATAATGTGTAAGACCGTAGCTCAGCTATGGCAACATATGGAATC
56749674 TGC
65 TGC
*
56749677 TAGGACATTAAATATGG
1 TAGGACATTAAACATGG
56749694 GACCATATTG
Statistics
Matches: 175, Mismatches: 29, Indels: 21
0.78 0.13 0.09
Matches are distributed among these distances:
60 2 0.01
61 49 0.28
63 2 0.01
66 2 0.01
67 1 0.01
68 117 0.67
69 2 0.01
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.28
Consensus pattern (67 bp):
TAGGACATTAAACATGGTTCATAATGTGTAAGACCGTAGCTCAGCTATGGCAACATATGGAATCT
GC
Found at i:56749581 original size:61 final size:61
Alignment explanation
Indices: 56749486--56749605 Score: 163
Period size: 61 Copynumber: 2.0 Consensus size: 61
56749476 CTACTAGGAC
*
56749486 ATTAAACATAGGTTCATAATATGTAAGATTGTAGCTCAGCGAT-GACAACATATGGAATCCG
1 ATTAAACATAGGTTCATAATATGTAAGATCGTAGCTCAGCGATGGA-AACATATGGAATCCG
* * * *
56749547 ATTAAACAT-GGCTTCATAATCTGTAAGGTCGTAGCTTAGCTATGGAAACATATGGAATC
1 ATTAAACATAGG-TTCATAATATGTAAGATCGTAGCTCAGCGATGGAAACATATGGAATC
56749606 TGCCAAGTTA
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
60 2 0.04
61 48 0.92
62 2 0.04
ACGTcount: A:0.36, C:0.15, G:0.20, T:0.29
Consensus pattern (61 bp):
ATTAAACATAGGTTCATAATATGTAAGATCGTAGCTCAGCGATGGAAACATATGGAATCCG
Found at i:56749648 original size:129 final size:129
Alignment explanation
Indices: 56749418--56749667 Score: 315
Period size: 129 Copynumber: 1.9 Consensus size: 129
56749408 TTGTTAGGAC
* * * * * * *
56749418 ATTAAACATGGGTTCATAATGTGTAAGACCGTAGCTCGACTATGGCAACATATGGAGTCTACTAG
1 ATTAAACATGGCTTCATAATCTGTAAGACCGTAGCTAGACTATGGAAACATATGGAATCTACCAA
*
56749483 GACATTAAACATAGGTTCATAATATGTAAGATTGTAGCTCAGCGATGACAACATATGGAATCCG
66 GACATTAAACATAGGTTCATAATATGTAAGACTGTAGCTCAGCGATGACAACATATGGAATCCG
** *
56749547 ATTAAACATGGCTTCATAATCTGTAAGGTCGTAGCTTAG-CTATGGAAACATATGGAATCTGCCA
1 ATTAAACATGGCTTCATAATCTGTAAGACCGTAGC-TAGACTATGGAAACATATGGAATCTACCA
** * * * *
56749611 AGTTATTAAGCAT-GAGTTCATAATGTGTAAGACTGTAGCTCAGCTATGGCAACATAT
65 AGACATTAAACATAG-GTTCATAATATGTAAGACTGTAGCTCAGCGATGACAACATAT
56749668 AGAGTCTGCT
Statistics
Matches: 102, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
128 1 0.01
129 99 0.97
130 2 0.02
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (129 bp):
ATTAAACATGGCTTCATAATCTGTAAGACCGTAGCTAGACTATGGAAACATATGGAATCTACCAA
GACATTAAACATAGGTTCATAATATGTAAGACTGTAGCTCAGCGATGACAACATATGGAATCCG
Found at i:56754217 original size:26 final size:25
Alignment explanation
Indices: 56754076--56754240 Score: 132
Period size: 26 Copynumber: 6.4 Consensus size: 25
56754066 CGGGATGTAC
* * * *
56754076 TTTAGCAGGCCTTAAGTCGATGTTTG
1 TTTAGCAGGCTTTGAG-CGATGATTA
*
56754102 TTTAGCAGGCTTTGAGCCGATGTTTA
1 TTTAGCAGGCTTTGAG-CGATGATTA
* * *
56754128 TTTAACAGCCTTTGAGCAAGTGATTA
1 TTTAGCAGGCTTTGAGCGA-TGATTA
* ** *
56754154 TTTAGCAGGCCTTGAGCTGGCGCTTA
1 TTTAGCAGGCTTTGAGC-GATGATTA
*
56754180 TCTAGCAGGCTTTGAGTCGATGATTA
1 TTTAGCAGGCTTTGAG-CGATGATTA
* * *
56754206 TTTAGCAAGCTTTGAGCCAGTAATTA
1 TTTAGCAGGCTTTGAGCGA-TGATTA
56754232 TTTAGCAGG
1 TTTAGCAGG
56754241 TACTATGTAC
Statistics
Matches: 110, Mismatches: 25, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
25 4 0.04
26 105 0.95
27 1 0.01
ACGTcount: A:0.23, C:0.16, G:0.25, T:0.35
Consensus pattern (25 bp):
TTTAGCAGGCTTTGAGCGATGATTA
Found at i:56756805 original size:349 final size:349
Alignment explanation
Indices: 56756166--56756865 Score: 1391
Period size: 349 Copynumber: 2.0 Consensus size: 349
56756156 GTATTTATGG
56756166 CATGGAATTGAATTGTTTTGTTAAGTGAATTATGGTGCCAATGAATGGCATATTGGTTAAGCTTA
1 CATGGAATTGAATTGTTTTGTTAAGTGAATTATGGTGCCAATGAATGGCATATTGGTTAAGCTTA
56756231 TAGGATGATTGATTTAGCATGTTTTGGAGTGTGTTAGAACGTGTTTTAGTCATATGAATGTGTGT
66 TAGGATGATTGATTTAGCATGTTTTGGAGTGTGTTAGAACGTGTTTTAGTCATATGAATGTGTGT
56756296 GGAAATGGTTTGGTTTGGTGCCCGAGTAATTATGTTTGAATTGGCTTGCATTAGGGTTTATTTAG
131 GGAAATGGTTTGGTTTGGTGCCCGAGTAATTATGTTTGAATTGGCTTGCATTAGGGTTTATTTAG
56756361 GGAGCACACGGCCTGGGACACAAGCTGTCACATAGCTGTGTGCCACACATGGCCACACAACACAG
196 GGAGCACACGGCCTGGGACACAAGCTGTCACATAGCTGTGTGCCACACATGGCCACACAACACAG
56756426 CTGTGTGTCCATTAAATTTTAAGTGGAGGATGAACCACACGGTCACAGAGAGTTACACGGCATGG
261 CTGTGTGTCCATTAAATTTTAAGTGGAGGATGAACCACACGGTCACAGAGAGTTACACGGCATGG
56756491 CAACACGGCCATGTGACCCTATTT
326 CAACACGGCCATGTGACCCTATTT
56756515 CATGGAATTGAATTGTTTTGTTAAGTGAATTATGGTGCCAATGAATGGCATATTGGTTAAGCTTA
1 CATGGAATTGAATTGTTTTGTTAAGTGAATTATGGTGCCAATGAATGGCATATTGGTTAAGCTTA
56756580 TAGGATGATTGATTTAGCATGTTTTGGAGTGTGTTAGAACGTGTTTTAGTCATATGAATGTGTGT
66 TAGGATGATTGATTTAGCATGTTTTGGAGTGTGTTAGAACGTGTTTTAGTCATATGAATGTGTGT
56756645 GGAAATGGTTTGGTTTGGTGCCCGAGTAATTATGTTTGAATTGGCTTGCATTAGGGTTTATTTAG
131 GGAAATGGTTTGGTTTGGTGCCCGAGTAATTATGTTTGAATTGGCTTGCATTAGGGTTTATTTAG
*
56756710 GGAGCACACGGCCTGGGATACAAGCTGTCACATAGCTGTGTGCCACACATGGCCACACAACACAG
196 GGAGCACACGGCCTGGGACACAAGCTGTCACATAGCTGTGTGCCACACATGGCCACACAACACAG
56756775 CTGTGTGTCCATTAAATTTTAAGTGGAGGATGAACCACACGGTCACAGAGAGTTACACGGCATGG
261 CTGTGTGTCCATTAAATTTTAAGTGGAGGATGAACCACACGGTCACAGAGAGTTACACGGCATGG
56756840 CAACACGGCCATGTGACCCTATTT
326 CAACACGGCCATGTGACCCTATTT
56756864 CA
1 CA
56756866 AATACCCACA
Statistics
Matches: 350, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
349 350 1.00
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.32
Consensus pattern (349 bp):
CATGGAATTGAATTGTTTTGTTAAGTGAATTATGGTGCCAATGAATGGCATATTGGTTAAGCTTA
TAGGATGATTGATTTAGCATGTTTTGGAGTGTGTTAGAACGTGTTTTAGTCATATGAATGTGTGT
GGAAATGGTTTGGTTTGGTGCCCGAGTAATTATGTTTGAATTGGCTTGCATTAGGGTTTATTTAG
GGAGCACACGGCCTGGGACACAAGCTGTCACATAGCTGTGTGCCACACATGGCCACACAACACAG
CTGTGTGTCCATTAAATTTTAAGTGGAGGATGAACCACACGGTCACAGAGAGTTACACGGCATGG
CAACACGGCCATGTGACCCTATTT
Found at i:56760820 original size:8 final size:9
Alignment explanation
Indices: 56760802--56760918 Score: 62
Period size: 9 Copynumber: 12.7 Consensus size: 9
56760792 ATTGTTTTAG
56760802 AAAATTTTT
1 AAAATTTTT
56760811 AAAA-TTTT
1 AAAATTTTT
*
56760819 AAATTTCTTT
1 AAAATT-TTT
*
56760829 ATATATTTTTT
1 A-A-AATTTTT
*
56760840 AGAATTTTT
1 AAAATTTTT
** *
56760849 AAAAAATAT
1 AAAATTTTT
56760858 -AAA-TTTT
1 AAAATTTTT
*
56760865 AAAATTGTT
1 AAAATTTTT
56760874 ATAAATATTTT
1 A-AAAT-TTTT
56760885 -AAATTTTT
1 AAAATTTTT
56760893 AAAATTATTT
1 AAAATT-TTT
**
56760903 TGAATTTTT
1 AAAATTTTT
56760912 GAAAATT
1 -AAAATT
56760919 ATTTTGAATT
Statistics
Matches: 82, Mismatches: 15, Indels: 21
0.69 0.13 0.18
Matches are distributed among these distances:
7 2 0.02
8 17 0.21
9 32 0.39
10 19 0.23
11 8 0.10
12 4 0.05
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (9 bp):
AAAATTTTT
Found at i:56760846 original size:10 final size:9
Alignment explanation
Indices: 56760806--56760932 Score: 53
Period size: 9 Copynumber: 13.6 Consensus size: 9
56760796 TTTTAGAAAA
56760806 TTTTTAAA-
1 TTTTTAAAT
*
56760814 ATTTTAAAT
1 TTTTTAAAT
56760823 TTCTTTATATAT
1 TT-TTTA-A-AT
56760835 TTTTTAGAA-
1 TTTTTA-AAT
*
56760844 TTTTTAAAA
1 TTTTTAAAT
** *
56760853 AATATAAA-
1 TTTTTAAAT
*
56760861 TTTTAAAAT
1 TTTTTAAAT
*
56760870 TGTTATAAAT
1 T-TTTTAAAT
*
56760880 ATTTTAAAT
1 TTTTTAAAT
*
56760889 TTTTAAAAT
1 TTTTTAAAT
*
56760898 TATTTTGAAT
1 T-TTTTAAAT
*
56760908 TTTTGAAAAT
1 TTTT-TAAAT
*
56760918 TATTTTGAAT
1 T-TTTTAAAT
56760928 TTTTT
1 TTTTT
56760933 TTTATAATTT
Statistics
Matches: 87, Mismatches: 22, Indels: 19
0.68 0.17 0.15
Matches are distributed among these distances:
8 13 0.15
9 35 0.40
10 26 0.30
11 9 0.10
12 4 0.05
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.57
Consensus pattern (9 bp):
TTTTTAAAT
Found at i:56760901 original size:19 final size:19
Alignment explanation
Indices: 56760860--56760931 Score: 83
Period size: 20 Copynumber: 3.7 Consensus size: 19
56760850 AAAAATATAA
*
56760860 ATTTTAAAATTGTTATAAA-T
1 ATTTT-AAATTTTTA-AAATT
56760880 ATTTTAAATTTTTAAAATT
1 ATTTTAAATTTTTAAAATT
*
56760899 ATTTTGAATTTTTGAAAATT
1 ATTTTAAATTTTT-AAAATT
*
56760919 ATTTTGAATTTTT
1 ATTTTAAATTTTT
56760932 TTTTATAATT
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
18 3 0.06
19 21 0.44
20 24 0.50
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.57
Consensus pattern (19 bp):
ATTTTAAATTTTTAAAATT
Found at i:56760916 original size:20 final size:19
Alignment explanation
Indices: 56760879--56760931 Score: 88
Period size: 20 Copynumber: 2.7 Consensus size: 19
56760869 TTGTTATAAA
*
56760879 TATTTTAAATTTTTAAAAT
1 TATTTTGAATTTTTAAAAT
56760898 TATTTTGAATTTTTGAAAAT
1 TATTTTGAATTTTT-AAAAT
56760918 TATTTTGAATTTTT
1 TATTTTGAATTTTT
56760932 TTTTATAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 13 0.41
20 19 0.59
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (19 bp):
TATTTTGAATTTTTAAAAT
Found at i:56764444 original size:19 final size:19
Alignment explanation
Indices: 56764417--56764459 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
56764407 ATCGAAGACC
*
56764417 AATTCGGGACAAAACAT-AA
1 AATTTGGGACAAAAC-TGAA
56764436 AATTTGGGACAAAACTGAA
1 AATTTGGGACAAAACTGAA
56764455 AATTT
1 AATTT
56764460 TCAAATCAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 1 0.05
19 21 0.95
ACGTcount: A:0.49, C:0.12, G:0.16, T:0.23
Consensus pattern (19 bp):
AATTTGGGACAAAACTGAA
Found at i:56769807 original size:51 final size:51
Alignment explanation
Indices: 56769752--56770189 Score: 420
Period size: 51 Copynumber: 8.6 Consensus size: 51
56769742 TATCGAAGAA
** * * *
56769752 CACATGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATATA-TTATGGT
1 CACATGTGTAGTACTAAGTGAAGGCTACTATGTGAACCGATAAACTT-TGGT
* * * * *
56769803 CACATGTGTAGTACTAAGTAAAGGCTACAATGTGTACCGAGAAGCTTTGGT
1 CACATGTGTAGTACTAAGTGAAGGCTACTATGTGAACCGATAAACTTTGGT
* ** * * *
56769854 CACGTGTGTAGTACTGCGTGAAGGCTACTAAGTGAATCGATAAA-TGATGGT
1 CACATGTGTAGTACTAAGTGAAGGCTACTATGTGAACCGATAAACT-TTGGT
* * * *
56769905 CACATGTGTAGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
1 CACATGTGTAGTACTAAGTGAAGGCTACTATGTGAACCGATAAACTTTGGT
* * * * *
56769956 CACGTGTGTAGTAC-AGTGTGAAGGCTACTACGTGAATCGATAAA-TGATGGT
1 CACATGTGTAGTACTA-AGTGAAGGCTACTATGTGAACCGATAAACT-TTGGT
* * * *
56770007 CACATGTGTAGTACTAAGTGAAGGCTACGATGTGTACCGAGAAGCTTTGGT
1 CACATGTGTAGTACTAAGTGAAGGCTACTATGTGAACCGATAAACTTTGGT
** ** * * *
56770058 CATGTGTGTAGTACTGTGTGAAGGCTACTAAGTGAATCGATAAA-TGATGGT
1 CACATGTGTAGTACTAAGTGAAGGCTACTATGTGAACCGATAAACT-TTGGT
* *
56770109 CACATGTGTAGTACTAAGTGAAGGTTACTATGTGTACCGA-AAAGCTTTGGT
1 CACATGTGTAGTACTAAGTGAAGGCTACTATGTGAACCGATAAA-CTTTGGT
* *
56770160 CACGTGTGTAGTACTATGTGAAGGCTACTA
1 CACATGTGTAGTACTAAGTGAAGGCTACTA
56770190 CGTGTATAGA
Statistics
Matches: 305, Mismatches: 72, Indels: 20
0.77 0.18 0.05
Matches are distributed among these distances:
50 7 0.02
51 292 0.96
52 6 0.02
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (51 bp):
CACATGTGTAGTACTAAGTGAAGGCTACTATGTGAACCGATAAACTTTGGT
Found at i:56770232 original size:102 final size:102
Alignment explanation
Indices: 56769756--56770193 Score: 759
Period size: 102 Copynumber: 4.3 Consensus size: 102
56769746 GAAGAACACA
* *
56769756 TGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATATATTATGGTCACATGTGTAGTACTAAG
1 TGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTACTAAG
*
56769821 TAAAGGCTACAATGTGTACCGAGAAGCTTTGGTCACG
66 TGAAGGCTACAATGTGTACCGAGAAGCTTTGGTCACG
* *
56769858 TGTGTAGTACTGCGTGAAGGCTACTAAGTGAATCGATAAATGATGGTCACATGTGTAGTACTAAG
1 TGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTACTAAG
56769923 TGAAGGCTACAATGTGTACCGAGAAGCTTTGGTCACG
66 TGAAGGCTACAATGTGTACCGAGAAGCTTTGGTCACG
*
56769960 TGTGTAGTACAGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTACTAAG
1 TGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTACTAAG
* *
56770025 TGAAGGCTACGATGTGTACCGAGAAGCTTTGGTCATG
66 TGAAGGCTACAATGTGTACCGAGAAGCTTTGGTCACG
*
56770062 TGTGTAGTACTGTGTGAAGGCTACTAAGTGAATCGATAAATGATGGTCACATGTGTAGTACTAAG
1 TGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTACTAAG
* * *
56770127 TGAAGGTTACTATGTGTACCGAAAAGCTTTGGTCACG
66 TGAAGGCTACAATGTGTACCGAGAAGCTTTGGTCACG
*
56770164 TGTGTAGTACTATGTGAAGGCTACTACGTG
1 TGTGTAGTACTGTGTGAAGGCTACTACGTG
56770194 TATAGAATGA
Statistics
Matches: 318, Mismatches: 18, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
102 318 1.00
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (102 bp):
TGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTACTAAG
TGAAGGCTACAATGTGTACCGAGAAGCTTTGGTCACG
Found at i:56770460 original size:37 final size:38
Alignment explanation
Indices: 56770391--56770463 Score: 103
Period size: 37 Copynumber: 1.9 Consensus size: 38
56770381 ATATGTGGAA
* **
56770391 TTGAATTGAATATTGACTTGAAAATGGCAAAGTGAATT
1 TTGAATTGAATAGTGACTTGAAAATGAAAAAGTGAATT
*
56770429 TTGAATTGAATAGTGA-TTGAAAGTGAAAAAGTGAA
1 TTGAATTGAATAGTGACTTGAAAATGAAAAAGTGAA
56770464 ATTATGAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
37 16 0.52
38 15 0.48
ACGTcount: A:0.42, C:0.03, G:0.23, T:0.32
Consensus pattern (38 bp):
TTGAATTGAATAGTGACTTGAAAATGAAAAAGTGAATT
Found at i:56770737 original size:21 final size:21
Alignment explanation
Indices: 56770708--56770758 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
56770698 TGATTTTGGG
*
56770708 AAATCATTAAAAATTGTAAAA
1 AAATAATTAAAAATTGTAAAA
*
56770729 AAATAATTAAAAATTTTAAAA
1 AAATAATTAAAAATTGTAAAA
56770750 AAATAATTA
1 AAATAATTA
56770759 TGAGTTATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (21 bp):
AAATAATTAAAAATTGTAAAA
Found at i:56775252 original size:39 final size:39
Alignment explanation
Indices: 56775115--56775249 Score: 216
Period size: 39 Copynumber: 3.5 Consensus size: 39
56775105 ATTCACTTTT
* *
56775115 AAGCATATATCACATTACACATATAATCGCATAACATTC
1 AAGCATATATCACAATACACATATAATCACATAACATTC
*
56775154 AAGCATATATCACAATACACATATAACCACATAACATTC
1 AAGCATATATCACAATACACATATAATCACATAACATTC
* * *
56775193 AAGCATATATCACAACACTCATCTAATCACATAACATTC
1 AAGCATATATCACAATACACATATAATCACATAACATTC
56775232 AAGCATATATCACAATAC
1 AAGCATATATCACAATAC
56775250 TCAAAAACAT
Statistics
Matches: 88, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 88 1.00
ACGTcount: A:0.46, C:0.25, G:0.04, T:0.25
Consensus pattern (39 bp):
AAGCATATATCACAATACACATATAATCACATAACATTC
Found at i:56780078 original size:51 final size:49
Alignment explanation
Indices: 56780014--56780154 Score: 146
Period size: 45 Copynumber: 2.9 Consensus size: 49
56780004 ATCAGTAACG
* *
56780014 GTAACAATGTTCGACACACAAAGTGCCGAATCGGTAACGGTAACAATAACA
1 GTAACAGTATTCGACACACAAAGTGCCGAATC-GTAAC-GTAACAATAACA
** *
56780065 GTAACAGTATTCGACACACAAAGTATCGAATC---A-GTAACAGTAACA
1 GTAACAGTATTCGACACACAAAGTGCCGAATCGTAACGTAACAATAACA
* * *
56780110 GTAACAGTATTCAACACACAAAGTGCTGGATCTGTAACAGTAACA
1 GTAACAGTATTCGACACACAAAGTGCCGAATC-GTAAC-GTAACA
56780155 GTAGTCGGCA
Statistics
Matches: 74, Mismatches: 10, Indels: 12
0.77 0.10 0.12
Matches are distributed among these distances:
45 38 0.51
47 1 0.01
49 1 0.01
51 34 0.46
ACGTcount: A:0.42, C:0.21, G:0.18, T:0.20
Consensus pattern (49 bp):
GTAACAGTATTCGACACACAAAGTGCCGAATCGTAACGTAACAATAACA
Found at i:56780155 original size:45 final size:45
Alignment explanation
Indices: 56780053--56780157 Score: 149
Period size: 45 Copynumber: 2.3 Consensus size: 45
56780043 ATCGGTAACG
* *
56780053 GTAACAATAACAGTAACAGTATTCGACACACAAAGTATCGAATCA
1 GTAACAGTAACAGTAACAGTATTCAACACACAAAGTATCGAATCA
* * *
56780098 GTAACAGTAACAGTAACAGTATTCAACACACAAAGT-GCTGGATCT
1 GTAACAGTAACAGTAACAGTATTCAACACACAAAGTATC-GAATCA
56780143 GTAACAGTAACAGTA
1 GTAACAGTAACAGTA
56780158 GTCGGCACAT
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
44 1 0.02
45 53 0.98
ACGTcount: A:0.44, C:0.19, G:0.16, T:0.21
Consensus pattern (45 bp):
GTAACAGTAACAGTAACAGTATTCAACACACAAAGTATCGAATCA
Found at i:56780155 original size:51 final size:49
Alignment explanation
Indices: 56779995--56780157 Score: 174
Period size: 51 Copynumber: 3.3 Consensus size: 49
56779985 AAACACACCA
* * * *
56779995 GTAACAGTAATCAGTAACGGTAACAATGTTCGACACACAAAGTGCCGAATC
1 GTAACAGTAA-CAGTAACAGTAACAGTATTCGACACACAAAGTGCTG-ATC
* *
56780046 GGTAACGGTAACAATAACAGTAACAGTATTCGACACACAAA--G-T-ATC
1 -GTAACAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCTGATC
*
56780092 G-AATCAGTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCTGGATC
1 GTAA-CAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCT-GATC
56780142 TGTAACAGTAACAGTA
1 -GTAACAGTAACAGTA
56780158 GTCGGCACAT
Statistics
Matches: 94, Mismatches: 9, Indels: 17
0.78 0.08 0.14
Matches are distributed among these distances:
44 2 0.02
45 34 0.36
46 3 0.03
47 1 0.01
48 1 0.01
49 1 0.01
50 3 0.03
51 38 0.40
52 11 0.12
ACGTcount: A:0.42, C:0.20, G:0.18, T:0.20
Consensus pattern (49 bp):
GTAACAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCTGATC
Found at i:56780445 original size:39 final size:40
Alignment explanation
Indices: 56780361--56780446 Score: 104
Period size: 39 Copynumber: 2.2 Consensus size: 40
56780351 TTTATTACTT
* * * *
56780361 CAGTAATTTCATAATTCAATGCATTATACATAACAATATT
1 CAGTATTTTCATAATTCAATGCAGTATACAAAACAATATC
*
56780401 CAGTATTTTCATAATTCACT-CAGTACT-CAAAACAATATC
1 CAGTATTTTCATAATTCAATGCAGTA-TACAAAACAATATC
56780440 CAGTATT
1 CAGTATT
56780447 CCCTAATTCA
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
39 21 0.52
40 19 0.47
ACGTcount: A:0.40, C:0.19, G:0.06, T:0.36
Consensus pattern (40 bp):
CAGTATTTTCATAATTCAATGCAGTATACAAAACAATATC
Found at i:56780565 original size:18 final size:19
Alignment explanation
Indices: 56780526--56780566 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
56780516 ATATCAATCA
*
56780526 TCAATTTCAATATTCCAGT
1 TCAATTTCAATATTCCAAT
56780545 TCAA-TTCAATGATT-CAAT
1 TCAATTTCAAT-ATTCCAAT
56780563 TCAA
1 TCAA
56780567 ACCATTTCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.37, C:0.20, G:0.05, T:0.39
Consensus pattern (19 bp):
TCAATTTCAATATTCCAAT
Found at i:56780585 original size:26 final size:25
Alignment explanation
Indices: 56780556--56780605 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
56780546 CAATTCAATG
56780556 ATTCAATTCAAAC-CATTTCAATTTCT
1 ATTCAA-T-AAACACATTTCAATTTCT
*
56780582 ATTCAATAATCACATTTCAATTTC
1 ATTCAATAAACACATTTCAATTTC
56780606 ACTTTCTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 3 0.14
25 13 0.59
26 6 0.27
ACGTcount: A:0.36, C:0.22, G:0.00, T:0.42
Consensus pattern (25 bp):
ATTCAATAAACACATTTCAATTTCT
Found at i:56781397 original size:13 final size:13
Alignment explanation
Indices: 56781379--56781419 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
56781369 CTCAAACTTC
56781379 TCTTTTCTTTCTT
1 TCTTTTCTTTCTT
56781392 TCTTTTCTTTCTT
1 TCTTTTCTTTCTT
* *
56781405 TC-CTTCTTTCCT
1 TCTTTTCTTTCTT
56781417 TCT
1 TCT
56781420 CTGTTTCGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 10 0.40
13 15 0.60
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (13 bp):
TCTTTTCTTTCTT
Found at i:56781629 original size:8 final size:8
Alignment explanation
Indices: 56781618--56781680 Score: 74
Period size: 8 Copynumber: 7.8 Consensus size: 8
56781608 ATTTATTTAA
56781618 AATATAAT
1 AATATAAT
56781626 AATATAAT
1 AATATAAT
56781634 AATATAAT
1 AATATAAT
56781642 AATATAAT
1 AATATAAT
* *
56781650 -ATAATTTAC
1 AAT-A-TAAT
56781659 AATATAAT
1 AATATAAT
*
56781667 AAAATAAT
1 AATATAAT
56781675 AATATA
1 AATATA
56781681 CTTCAAAAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
7 2 0.04
8 39 0.85
9 3 0.07
10 2 0.04
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (8 bp):
AATATAAT
Found at i:56782612 original size:48 final size:48
Alignment explanation
Indices: 56782555--56782652 Score: 178
Period size: 48 Copynumber: 2.0 Consensus size: 48
56782545 TATTCACTTG
* *
56782555 TGACGTTCAAATTATGGTATTCCTTAATCCTAAGTGGATGGCAGGCTA
1 TGACGTTCAAATTATGGTATACCTTAATCCTAAGTGGATGACAGGCTA
56782603 TGACGTTCAAATTATGGTATACCTTAATCCTAAGTGGATGACAGGCTA
1 TGACGTTCAAATTATGGTATACCTTAATCCTAAGTGGATGACAGGCTA
56782651 TG
1 TG
56782653 TATGCATGAC
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (48 bp):
TGACGTTCAAATTATGGTATACCTTAATCCTAAGTGGATGACAGGCTA
Found at i:56788425 original size:29 final size:31
Alignment explanation
Indices: 56788360--56788425 Score: 73
Period size: 31 Copynumber: 2.2 Consensus size: 31
56788350 AAATGATCAT
* * *
56788360 TAAACTATTGACTTCATTCTATTTTGTTCAC
1 TAAACTATTAACTTCATTCGATTTAGTTCAC
* *
56788391 TCAACTATTAATTTC-TTCGATTTAG-TCAC
1 TAAACTATTAACTTCATTCGATTTAGTTCAC
56788420 TAAACT
1 TAAACT
56788426 TTTCAAAATC
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
29 9 0.31
30 8 0.28
31 12 0.41
ACGTcount: A:0.29, C:0.20, G:0.06, T:0.45
Consensus pattern (31 bp):
TAAACTATTAACTTCATTCGATTTAGTTCAC
Found at i:56789011 original size:12 final size:12
Alignment explanation
Indices: 56788994--56789019 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
56788984 CACCACTTAT
56788994 AATAATTGTTGA
1 AATAATTGTTGA
56789006 AATAATTGTTGA
1 AATAATTGTTGA
56789018 AA
1 AA
56789020 AACATGAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.00, G:0.15, T:0.38
Consensus pattern (12 bp):
AATAATTGTTGA
Found at i:56790341 original size:6 final size:6
Alignment explanation
Indices: 56790330--56790360 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
56790320 ATTACCAACA
*
56790330 ATAATT ATAATT ATAATT ATAATC ATAATT A
1 ATAATT ATAATT ATAATT ATAATT ATAATT A
56790361 ATATACTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (6 bp):
ATAATT
Found at i:56797273 original size:27 final size:26
Alignment explanation
Indices: 56797243--56797309 Score: 68
Period size: 27 Copynumber: 2.5 Consensus size: 26
56797233 AGATCACCAC
56797243 AAAGGCTTCTATTTCATAGATT-TCTAT
1 AAAGGCTTCTATTTC-TAGATTGTC-AT
56797270 AAAGGCTT-TCATTTTCTAGATTGTCAT
1 AAAGGCTTCT-A-TTTCTAGATTGTCAT
*
56797297 AAAGGTTTC-ATTT
1 AAAGGCTTCTATTT
56797310 TCTGGCGTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
25 3 0.09
26 2 0.06
27 24 0.69
28 6 0.17
ACGTcount: A:0.28, C:0.13, G:0.13, T:0.45
Consensus pattern (26 bp):
AAAGGCTTCTATTTCTAGATTGTCAT
Found at i:56797312 original size:26 final size:27
Alignment explanation
Indices: 56797254--56797312 Score: 86
Period size: 27 Copynumber: 2.2 Consensus size: 27
56797244 AAGGCTTCTA
56797254 TTTCATAGATTTCTATAAAGGCTTTCAT
1 TTTC-TAGATTTCTATAAAGGCTTTCAT
56797282 TTTCTAGATTGTC-ATAAAGG-TTTCAT
1 TTTCTAGATT-TCTATAAAGGCTTTCAT
56797308 TTTCT
1 TTTCT
56797313 GGCGTATTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
26 11 0.37
27 13 0.43
28 6 0.20
ACGTcount: A:0.25, C:0.14, G:0.12, T:0.49
Consensus pattern (27 bp):
TTTCTAGATTTCTATAAAGGCTTTCAT
Found at i:56802815 original size:39 final size:39
Alignment explanation
Indices: 56802745--56802917 Score: 159
Period size: 45 Copynumber: 4.2 Consensus size: 39
56802735 ATTTGCCGGC
* * *
56802745 TTACTGATTAGGCAC-TTATGTGCCGACTACTGTTACTG
1 TTACTGATTCGGCACTTTATGTGTCGAATACTGTTACTG
56802783 TTACTGATTCGGCACTTTATGTGTCGAATACTGTTACTG
1 TTACTGATTCGGCACTTTATGTGTCGAATACTGTTACTG
* *
56802822 TTACTGTTACCGACTCGGCACTTTGTGTGTCGAATACTGTTACTG
1 TTAC---T---GATTCGGCACTTTATGTGTCGAATACTGTTACTG
* * *
56802867 TTACTGTTATCGATTCGGCACTTTGTGTATCGAATACTGTTACCG
1 TTAC-----T-GATTCGGCACTTTATGTGTCGAATACTGTTACTG
56802912 TTACTG
1 TTACTG
56802918 TTACAGATTT
Statistics
Matches: 116, Mismatches: 10, Indels: 17
0.81 0.07 0.12
Matches are distributed among these distances:
38 14 0.12
39 26 0.22
40 1 0.01
42 1 0.01
45 72 0.62
47 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.21, T:0.39
Consensus pattern (39 bp):
TTACTGATTCGGCACTTTATGTGTCGAATACTGTTACTG
Found at i:56802840 original size:45 final size:45
Alignment explanation
Indices: 56802772--56802971 Score: 283
Period size: 45 Copynumber: 4.4 Consensus size: 45
56802762 ATGTGCCGAC
* *
56802772 TACTGTTACTGTTACTGATTCGGCACTTTATGTGTCGAATACTGT
1 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAATACTGT
*
56802817 TACTGTTACTGTTACCGACTCGGCACTTTGTGTGTCGAATACTGT
1 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAATACTGT
* *
56802862 TACTGTTACTGTTATCGATTCGGCACTTTGTGTATCGAATACTGT
1 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAATACTGT
* * ** *
56802907 TACCGTTACTGTTACAGATTTAGCACTTTGTGTGTTGAATACTGT
1 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAATACTGT
* * *
56802952 TACTGCTACCGTTACTGATT
1 TACTGTTACTGTTACCGATT
56802972 ACTGTATACT
Statistics
Matches: 138, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 138 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (45 bp):
TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAATACTGT
Found at i:56805042 original size:15 final size:15
Alignment explanation
Indices: 56805022--56805076 Score: 56
Period size: 15 Copynumber: 3.5 Consensus size: 15
56805012 CCTTAATTAA
56805022 TTAATTAAAACTTAT
1 TTAATTAAAACTTAT
**
56805037 TTAATTAATCCTTAAT
1 TTAATTAAAACTT-AT
* *
56805053 CATAATTAAATCTTAT
1 -TTAATTAAAACTTAT
56805069 TTAATTAA
1 TTAATTAA
56805077 TCATTAATTA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
15 18 0.56
16 4 0.12
17 10 0.31
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (15 bp):
TTAATTAAAACTTAT
Found at i:56805068 original size:32 final size:32
Alignment explanation
Indices: 56805023--56805093 Score: 106
Period size: 32 Copynumber: 2.2 Consensus size: 32
56805013 CTTAATTAAT
*
56805023 TAATTAAAACTTATTTAATTAATCCTTAATCA
1 TAATTAAAACTTATTTAATTAATCATTAATCA
* *
56805055 TAATTAAATCTTATTTAATTAATCATTAATTA
1 TAATTAAAACTTATTTAATTAATCATTAATCA
*
56805087 CAATTAA
1 TAATTAA
56805094 CCAAACTTAG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (32 bp):
TAATTAAAACTTATTTAATTAATCATTAATCA
Found at i:56807123 original size:45 final size:45
Alignment explanation
Indices: 56807099--56807268 Score: 250
Period size: 45 Copynumber: 3.8 Consensus size: 45
56807089 AACAAGATGT
* * *
56807099 CATAGTGTCTTTTAACTATGGTCTTATTCATTTTCGGTATAGTGC
1 CATAGTGTCTTTCAACTATGGTCTTATTTATTTTTGGTATAGTGC
56807144 CATAGTGTCTTTCAACTATGGTCTTATTTATTTTTGGTATAGTGC
1 CATAGTGTCTTTCAACTATGGTCTTATTTATTTTTGGTATAGTGC
* **
56807189 CATAGTGTCTTTCAAATATGGTCTTATTTATTTCCGGTATAGTGC
1 CATAGTGTCTTTCAACTATGGTCTTATTTATTTTTGGTATAGTGC
* * * *
56807234 CATAATGTCTTTCAACTAAGGTCTTAATCATTTTT
1 CATAGTGTCTTTCAACTATGGTCTTATTTATTTTT
56807269 CAAGCCAATT
Statistics
Matches: 112, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 112 1.00
ACGTcount: A:0.22, C:0.15, G:0.16, T:0.46
Consensus pattern (45 bp):
CATAGTGTCTTTCAACTATGGTCTTATTTATTTTTGGTATAGTGC
Found at i:56820780 original size:15 final size:15
Alignment explanation
Indices: 56820760--56820794 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
56820750 ATAATCTGAG
56820760 TGTCTCTTTAGTTCT
1 TGTCTCTTTAGTTCT
56820775 TGTCTCTTTAGTTCT
1 TGTCTCTTTAGTTCT
56820790 TGTCT
1 TGTCT
56820795 TGTTAAAGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.06, C:0.20, G:0.14, T:0.60
Consensus pattern (15 bp):
TGTCTCTTTAGTTCT
Found at i:56823012 original size:29 final size:29
Alignment explanation
Indices: 56822957--56823012 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
56822947 ACCATATATT
*
56822957 ACGTTTGTAGGTTTAGTATGCAGTGTATA
1 ACGTTTGTAGGTTTAGTATACAGTGTATA
*
56822986 ACGTTTGTAGGTATT-GTATACATTGTA
1 ACGTTTGTAGGT-TTAGTATACAGTGTA
56823013 CGTTATACAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 22 0.92
30 2 0.08
ACGTcount: A:0.25, C:0.07, G:0.25, T:0.43
Consensus pattern (29 bp):
ACGTTTGTAGGTTTAGTATACAGTGTATA
Found at i:56823799 original size:29 final size:30
Alignment explanation
Indices: 56823766--56823837 Score: 92
Period size: 31 Copynumber: 2.4 Consensus size: 30
56823756 AAATCAAAAT
* *
56823766 TTCATGTATAAAATTGCACA-AAATTAAAG
1 TTCATGTATAAAATTACACATAAACTAAAG
* *
56823795 TTCATGTATAAAATTATACATTAAACTAATG
1 TTCATGTATAAAATTACACA-TAAACTAAAG
56823826 TTCATGTATAAA
1 TTCATGTATAAA
56823838 TTTGAAATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
29 18 0.49
31 19 0.51
ACGTcount: A:0.46, C:0.10, G:0.08, T:0.36
Consensus pattern (30 bp):
TTCATGTATAAAATTACACATAAACTAAAG
Found at i:56827642 original size:3 final size:3
Alignment explanation
Indices: 56827628--56827697 Score: 122
Period size: 3 Copynumber: 23.3 Consensus size: 3
56827618 ATAGCAAACA
* *
56827628 AAG AAT AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAT AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
56827676 AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG A
56827698 CTTGTTTTTC
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.67, C:0.00, G:0.30, T:0.03
Consensus pattern (3 bp):
AAG
Found at i:56830884 original size:80 final size:80
Alignment explanation
Indices: 56830800--56831018 Score: 233
Period size: 80 Copynumber: 2.7 Consensus size: 80
56830790 ATCGATATTT
* *
56830800 AGCCTACTAAGCACTAAGCTTGATAGATTCACTGGCACAAAGCCTACTAGGCATAAAGCCCAATA
1 AGCCTACTAAGCACTAAGCTTGATAAATTCACTAGCACAAAGCCTACTAGGCATAAAGCCCAATA
* * **
56830865 AGTTCACCGGTACAA
66 ACTACACCGACACAA
** * * * * *
56830880 AGCCTGTTAATCATTAAGCTTGATAAATTCACTAGCACAAAGTCTGA-TAGGCACAAAGCCCGAT
1 AGCCTACTAAGCACTAAGCTTGATAAATTCACTAGCACAAAGCCT-ACTAGGCATAAAGCCCAAT
56830944 AACTACACCGACACAA
65 AACTACACCGACACAA
* * * * *** *
56830960 AACCTACTAGGCACTAAGCTTTATAAATTCACCAGCATGGAGCCTGCTAGGCATAAAGC
1 AGCCTACTAAGCACTAAGCTTGATAAATTCACTAGCACAAAGCCTACTAGGCATAAAGC
56831019 TTGCTAAGCA
Statistics
Matches: 110, Mismatches: 27, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
80 109 0.99
81 1 0.01
ACGTcount: A:0.37, C:0.26, G:0.17, T:0.21
Consensus pattern (80 bp):
AGCCTACTAAGCACTAAGCTTGATAAATTCACTAGCACAAAGCCTACTAGGCATAAAGCCCAATA
ACTACACCGACACAA
Found at i:56844369 original size:17 final size:17
Alignment explanation
Indices: 56844343--56844389 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
56844333 GTTAAATCAT
* *
56844343 CAATAATAAATCAAGAG
1 CAATACTAAATCAAAAG
56844360 CAATACTAAATGCAAAAG
1 CAATACTAAAT-CAAAAG
56844378 CAA-ACCTAAATC
1 CAATA-CTAAATC
56844390 CATAACCTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 12 0.46
18 14 0.54
ACGTcount: A:0.55, C:0.19, G:0.09, T:0.17
Consensus pattern (17 bp):
CAATACTAAATCAAAAG
Found at i:56846525 original size:21 final size:21
Alignment explanation
Indices: 56846501--56846541 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
56846491 ATTTTCTAAC
56846501 TTAATCTTA-ATTATTAATTAG
1 TTAATC-TAGATTATTAATTAG
*
56846522 TTAATCTAGATTGTTAATTA
1 TTAATCTAGATTATTAATTA
56846542 AATTTAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.37, C:0.05, G:0.07, T:0.51
Consensus pattern (21 bp):
TTAATCTAGATTATTAATTAG
Found at i:56847306 original size:23 final size:23
Alignment explanation
Indices: 56847256--56847306 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 23
56847246 TAAGAATATT
*
56847256 ATAAATTATAAAAATTAAATAAA
1 ATAAATTATAAAAAATAAATAAA
*
56847279 TTAAATTTATAAAAAATAAA-AAA
1 ATAAA-TTATAAAAAATAAATAAA
56847302 ATAAA
1 ATAAA
56847307 GTTAAAATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 11 0.46
24 13 0.54
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (23 bp):
ATAAATTATAAAAAATAAATAAA
Found at i:56847745 original size:30 final size:29
Alignment explanation
Indices: 56847709--56847799 Score: 102
Period size: 30 Copynumber: 3.2 Consensus size: 29
56847699 TTATCTAATT
56847709 TTTTTATTTTTATTTTAAATATATATTCTC
1 TTTTTATTTTTATTTTAAATATATATT-TC
*
56847739 TTTTTATTTTCA-TTT---TATATA-TTC
1 TTTTTATTTTTATTTTAAATATATATTTC
56847763 TTTTTATTTTTATTTTAAATTTATATATATTC
1 TTTTTATTTTTATTTTAAA--TATATAT-TTC
56847795 TTTTT
1 TTTTT
56847800 TTAAAGTTTT
Statistics
Matches: 51, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
24 13 0.25
25 4 0.08
26 6 0.12
29 3 0.06
30 17 0.33
32 8 0.16
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.70
Consensus pattern (29 bp):
TTTTTATTTTTATTTTAAATATATATTTC
Found at i:56847769 original size:13 final size:13
Alignment explanation
Indices: 56847728--56847769 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
56847718 TTATTTTAAA
56847728 TATATATTCTCTTT
1 TATATATTCT-TTT
* *
56847742 T-TATTTTCATTT
1 TATATATTCTTTT
56847754 TATATATTCTTTT
1 TATATATTCTTTT
56847767 TAT
1 TAT
56847770 TTTTATTTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
12 4 0.17
13 18 0.78
14 1 0.04
ACGTcount: A:0.21, C:0.10, G:0.00, T:0.69
Consensus pattern (13 bp):
TATATATTCTTTT
Found at i:56847777 original size:24 final size:24
Alignment explanation
Indices: 56847696--56847779 Score: 80
Period size: 24 Copynumber: 3.2 Consensus size: 24
56847686 ATTATTTGAA
*
56847696 ATTTTATCTAATT-TTTTTATTTTT
1 ATTTTATAT-ATTCTTTTTATTTTT
*
56847720 ATTTTAAATATATATTCTCTTTTTATTTTC
1 A-TTT---TATATA-T-TCTTTTTATTTTT
56847750 ATTTTATATATTCTTTTTATTTTT
1 ATTTTATATATTCTTTTTATTTTT
56847774 ATTTTA
1 ATTTTA
56847780 AATTTATATA
Statistics
Matches: 50, Mismatches: 3, Indels: 14
0.75 0.04 0.21
Matches are distributed among these distances:
24 19 0.38
25 4 0.08
26 6 0.12
27 1 0.02
28 5 0.10
29 4 0.08
30 11 0.22
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.70
Consensus pattern (24 bp):
ATTTTATATATTCTTTTTATTTTT
Found at i:56847795 original size:32 final size:30
Alignment explanation
Indices: 56847695--56847799 Score: 98
Period size: 32 Copynumber: 3.6 Consensus size: 30
56847685 AATTATTTGA
*
56847695 AATTTTATCTAATT-TTTTTATTTTTATTTT
1 AATTTTATAT-ATTCTTTTTATTTTTATTTT
* *
56847725 AA--ATATATATTC----TCTTTTTATTTT
1 AATTTTATATATTCTTTTTATTTTTATTTT
*
56847749 CATTTTATATATTCTTTTTATTTTTATTTT
1 AATTTTATATATTCTTTTTATTTTTATTTT
56847779 AAATTTATATATATTCTTTTT
1 -AATTT-TATATATTCTTTTT
56847800 TTAAAGTTTT
Statistics
Matches: 59, Mismatches: 7, Indels: 16
0.72 0.09 0.20
Matches are distributed among these distances:
24 12 0.20
26 9 0.15
27 3 0.05
28 4 0.07
30 13 0.22
31 4 0.07
32 14 0.24
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.69
Consensus pattern (30 bp):
AATTTTATATATTCTTTTTATTTTTATTTT
Found at i:56847801 original size:23 final size:23
Alignment explanation
Indices: 56847767--56847816 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 23
56847757 ATATTCTTTT
56847767 TATTTTTATTTTAAA-TTTATATA
1 TATTTTTATTTTAAAGTTT-TATA
56847790 TATTCTTT-TTTTAAAGTTTTATA
1 TATT-TTTATTTTAAAGTTTTATA
56847813 -ATTT
1 TATTT
56847817 ATATATTTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
21 1 0.04
22 3 0.12
23 15 0.60
24 6 0.24
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (23 bp):
TATTTTTATTTTAAAGTTTTATA
Found at i:56847816 original size:32 final size:31
Alignment explanation
Indices: 56847727--56847833 Score: 93
Period size: 32 Copynumber: 3.6 Consensus size: 31
56847717 TTTATTTTAA
* *
56847727 ATATATATTCTCTT-TTT--ATTTT-CATTT
1 ATATATATTCTTTTATTTAAATTTTAAATTT
**
56847754 -TATATATTCTTTTTATTTTTATTTTAAATTT
1 ATATATATTC-TTTTATTTAAATTTTAAATTT
56847785 ATATATATTCTTTT-TTTAAAGTTTTATAATTT
1 ATATATATTCTTTTATTTAAA-TTTTA-AATTT
*
56847817 ATATAT-TTCTTATATTT
1 ATATATATTCTTTTATTT
56847834 TTTGACAAAA
Statistics
Matches: 66, Mismatches: 5, Indels: 13
0.79 0.06 0.15
Matches are distributed among these distances:
26 9 0.14
27 3 0.05
28 3 0.05
30 9 0.14
31 19 0.29
32 23 0.35
ACGTcount: A:0.27, C:0.06, G:0.01, T:0.66
Consensus pattern (31 bp):
ATATATATTCTTTTATTTAAATTTTAAATTT
Found at i:56847822 original size:30 final size:31
Alignment explanation
Indices: 56847750--56847823 Score: 82
Period size: 31 Copynumber: 2.4 Consensus size: 31
56847740 TTTTATTTTC
**
56847750 ATTTTATATATTCTTTTTATTTTTATTTTAA
1 ATTTTATATATTCTTTTTATTTAAATTTTAA
56847781 ATTTATATATATTC-TTTT-TTTAAAGTTTTATA
1 ATTT-TATATATTCTTTTTATTTAAA-TTTTA-A
56847813 A-TTTATATATT
1 ATTTTATATATT
56847824 TCTTATATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
30 12 0.32
31 15 0.39
32 11 0.29
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (31 bp):
ATTTTATATATTCTTTTTATTTAAATTTTAA
Found at i:56848325 original size:59 final size:55
Alignment explanation
Indices: 56848214--56848341 Score: 159
Period size: 59 Copynumber: 2.3 Consensus size: 55
56848204 TACACTAATC
* *
56848214 GTCACCTAACTATTAGTATTTTTTTTGTGACTCAATTATGAAAAGTTACAAAATG
1 GTCACCTAACTATTAGTATTTTTTTTGTCACTCAACTATGAAAAGTTACAAAATG
* *
56848269 GTCACTTAACTATTAGTAAATTTATTTTTTGGTCACTCAACTATG-AAAGTTACAAAATT
1 GTCACCTAACTATTAGT--A-TT-TTTTTT-GTCACTCAACTATGAAAAGTTACAAAATG
*
56848328 GTCACCCAACTATT
1 GTCACCTAACTATT
56848342 CAATTTTATC
Statistics
Matches: 62, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
55 16 0.26
57 1 0.02
58 2 0.03
59 31 0.50
60 12 0.19
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.39
Consensus pattern (55 bp):
GTCACCTAACTATTAGTATTTTTTTTGTCACTCAACTATGAAAAGTTACAAAATG
Found at i:56848357 original size:60 final size:60
Alignment explanation
Indices: 56848230--56848362 Score: 148
Period size: 59 Copynumber: 2.2 Consensus size: 60
56848220 TAACTATTAG
* * * ** *
56848230 TATTTTTTTTGTGACTCAATTATGAAAAGTTACAAAATGGTCACTTAACTATTAGTAAATT
1 TATTTTTTTGGTCACTCAACTATGAAAAGTTACAAAATGGTCACCCAACTATTA-CAAATT
* *
56848291 TA-TTTTTTGGTCACTCAACTATG-AAAGTTACAAAATTGTCACCCAACTATT-CAATTT
1 TATTTTTTTGGTCACTCAACTATGAAAAGTTACAAAATGGTCACCCAACTATTACAAATT
56848348 TATCTTTTTT-GTCAC
1 TAT-TTTTTTGGTCAC
56848363 AAGAGGGGGT
Statistics
Matches: 62, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
57 6 0.10
58 5 0.08
59 31 0.50
60 18 0.29
61 2 0.03
ACGTcount: A:0.32, C:0.15, G:0.10, T:0.43
Consensus pattern (60 bp):
TATTTTTTTGGTCACTCAACTATGAAAAGTTACAAAATGGTCACCCAACTATTACAAATT
Found at i:56851788 original size:25 final size:24
Alignment explanation
Indices: 56851751--56851823 Score: 87
Period size: 25 Copynumber: 3.0 Consensus size: 24
56851741 CTCTCTCTCT
56851751 TGAGCCATATAACGAGAAGCTCATG
1 TGAGCCAT-TAACGAGAAGCTCATG
56851776 TGAGCCATGTAACG-GAAAGCTCATG
1 TGAGCCAT-TAACGAG-AAGCTCATG
*
56851801 AGAGCCATTAAC-AGGAAGCTCAT
1 TGAGCCATTAACGA-GAAGCTCAT
56851824 AAGAGGTATA
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
24 13 0.30
25 30 0.70
ACGTcount: A:0.36, C:0.21, G:0.25, T:0.19
Consensus pattern (24 bp):
TGAGCCATTAACGAGAAGCTCATG
Found at i:56851819 original size:24 final size:24
Alignment explanation
Indices: 56851752--56851945 Score: 124
Period size: 24 Copynumber: 7.8 Consensus size: 24
56851742 TCTCTCTCTT
* *
56851752 GAGCCATATAACGAGAAGCTCATGT
1 GAGCCAT-TAACGGGAAGCTCATGA
*
56851777 GAGCCATGTAACGGAAAGCTCATGA
1 GAGCCAT-TAACGGGAAGCTCATGA
* *
56851802 GAGCCATTAACAGGAAGCTCATAA
1 GAGCCATTAACGGGAAGCTCATGA
** *** * * *
56851826 GAGGTA-TAATCAAAAAGTTCAAGC
1 GAGCCATTAA-CGGGAAGCTCATGA
*
56851850 GAGCCATTATCGGGAAGCTGCA-GA
1 GAGCCATTAACGGGAAGCT-CATGA
*
56851874 GAGCCATTATCGGGAAGCTCCA-GA
1 GAGCCATTAACGGGAAGCT-CATGA
*
56851898 GAGCCATTAATTGGGAAGCTCATGAAA
1 GAGCCATTAA-CGGGAAGCTCATG--A
* *
56851925 GAGTCTTTAATCGGGAAGCTC
1 GAGCCATTAA-CGGGAAGCTC
56851946 CGAAAAGCCA
Statistics
Matches: 133, Mismatches: 29, Indels: 12
0.76 0.17 0.07
Matches are distributed among these distances:
23 3 0.02
24 70 0.53
25 41 0.31
27 19 0.14
ACGTcount: A:0.35, C:0.19, G:0.26, T:0.20
Consensus pattern (24 bp):
GAGCCATTAACGGGAAGCTCATGA
Found at i:56851952 original size:27 final size:26
Alignment explanation
Indices: 56851850--56851956 Score: 107
Period size: 24 Copynumber: 4.3 Consensus size: 26
56851840 AAGTTCAAGC
* *
56851850 GAGCCATT-ATCGGGAAGCTGC-AGA
1 GAGCCATTAATCGGGAAGCTCCGAAA
*
56851874 GAGCCATT-ATCGGGAAGCTCC-AGA
1 GAGCCATTAATCGGGAAGCTCCGAAA
* *
56851898 GAGCCATTAATTGGGAAGCTCATGAAA
1 GAGCCATTAATCGGGAAGCTC-CGAAA
* *
56851925 GAGTCTTTAATCGGGAAGCTCCGAAA
1 GAGCCATTAATCGGGAAGCTCCGAAA
56851951 -AGCCAT
1 GAGCCAT
56851957 ATATCAGGAC
Statistics
Matches: 70, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
24 31 0.44
25 15 0.21
26 4 0.06
27 20 0.29
ACGTcount: A:0.32, C:0.21, G:0.28, T:0.20
Consensus pattern (26 bp):
GAGCCATTAATCGGGAAGCTCCGAAA
Found at i:56875090 original size:8 final size:8
Alignment explanation
Indices: 56875079--56875123 Score: 69
Period size: 7 Copynumber: 6.0 Consensus size: 8
56875069 ATTTCTGGTC
56875079 TTAGGGTT
1 TTAGGGTT
56875087 TTAGGG-T
1 TTAGGGTT
56875094 TTAGGGTT
1 TTAGGGTT
56875102 TT-GGGTT
1 TTAGGGTT
56875109 TT-GGGTT
1 TTAGGGTT
56875116 TTAGGGTT
1 TTAGGGTT
56875124 AGTGAAAGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
7 21 0.60
8 14 0.40
ACGTcount: A:0.09, C:0.00, G:0.40, T:0.51
Consensus pattern (8 bp):
TTAGGGTT
Found at i:56875099 original size:15 final size:15
Alignment explanation
Indices: 56875079--56875123 Score: 74
Period size: 15 Copynumber: 3.1 Consensus size: 15
56875069 ATTTCTGGTC
56875079 TTAGGGTTTTAGGGT
1 TTAGGGTTTTAGGGT
56875094 TTAGGGTTTT-GGGT
1 TTAGGGTTTTAGGGT
*
56875108 TTTGGGTTTTAGGGT
1 TTAGGGTTTTAGGGT
56875123 T
1 T
56875124 AGTGAAAGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
14 13 0.46
15 15 0.54
ACGTcount: A:0.09, C:0.00, G:0.40, T:0.51
Consensus pattern (15 bp):
TTAGGGTTTTAGGGT
Found at i:56875108 original size:22 final size:22
Alignment explanation
Indices: 56875082--56875123 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
56875072 TCTGGTCTTA
56875082 GGGTTTTAGGG-TTTAGGGTTTT
1 GGGTTTT-GGGTTTTAGGGTTTT
56875104 GGGTTTTGGGTTTTAGGGTT
1 GGGTTTTGGGTTTTAGGGTT
56875124 AGTGAAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.07, C:0.00, G:0.43, T:0.50
Consensus pattern (22 bp):
GGGTTTTGGGTTTTAGGGTTTT
Found at i:56879521 original size:27 final size:27
Alignment explanation
Indices: 56879491--56879574 Score: 96
Period size: 27 Copynumber: 3.1 Consensus size: 27
56879481 AAAGGCATTC
*
56879491 CTTTTAGAGTTCGCCACTAATGTTATT
1 CTTTTAGAGTTCGCCACTAAGGTTATT
* * *
56879518 CTTTTAGGGTTCTCAACTAAGGTTATT
1 CTTTTAGAGTTCGCCACTAAGGTTATT
* * * *
56879545 CTTCTAGAGTTTGCCACAAAGGCTATT
1 CTTTTAGAGTTCGCCACTAAGGTTATT
56879572 CTT
1 CTT
56879575 AGTTGTCGTG
Statistics
Matches: 46, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.23, C:0.19, G:0.17, T:0.42
Consensus pattern (27 bp):
CTTTTAGAGTTCGCCACTAAGGTTATT
Found at i:56894938 original size:12 final size:12
Alignment explanation
Indices: 56894921--56894947 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
56894911 ACAAGGGATA
56894921 GTATACCATTTG
1 GTATACCATTTG
56894933 GTATACCATTTG
1 GTATACCATTTG
56894945 GTA
1 GTA
56894948 CCTAATATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.41
Consensus pattern (12 bp):
GTATACCATTTG
Found at i:56894997 original size:28 final size:27
Alignment explanation
Indices: 56894940--56894998 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 27
56894930 TTGGTATACC
*
56894940 ATTTGGTACCTAATATTTTAATATTTA
1 ATTTGGTACCTAATATTTTAATATTCA
*
56894967 ATTTGGTACTTGAATATTTTAATGA-TCA
1 ATTTGGTACCT-AATATTTTAAT-ATTCA
56894995 ATTT
1 ATTT
56894999 AGTATCTGAG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 10 0.36
28 17 0.61
29 1 0.04
ACGTcount: A:0.32, C:0.07, G:0.10, T:0.51
Consensus pattern (27 bp):
ATTTGGTACCTAATATTTTAATATTCA
Found at i:56905077 original size:22 final size:19
Alignment explanation
Indices: 56905052--56905093 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
56905042 TGATAATCAT
56905052 TAATATATAATTATATCTATTA
1 TAATATAT-ATTA-AT-TATTA
56905074 TAATATATATTAATTATTA
1 TAATATATATTAATTATTA
56905093 T
1 T
56905094 CAACTTTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 2 0.10
21 4 0.20
22 8 0.40
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (19 bp):
TAATATATATTAATTATTA
Found at i:56905153 original size:16 final size:17
Alignment explanation
Indices: 56905132--56905166 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
56905122 AAATTTGATC
56905132 ATATTT-TATTTAATAA
1 ATATTTATATTTAATAA
*
56905148 ATATTTATTTTTAATAA
1 ATATTTATATTTAATAA
56905165 AT
1 AT
56905167 TAATAGCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
ATATTTATATTTAATAA
Found at i:56905619 original size:22 final size:21
Alignment explanation
Indices: 56905589--56905629 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
56905579 GAGTTTCACA
*
56905589 ATGTCTAATTACAGTCTCTAAC
1 ATGTCTAA-TAAAGTCTCTAAC
*
56905611 ATGTGTAATAAAGTCTCTA
1 ATGTCTAATAAAGTCTCTA
56905630 CCAAGCCTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.34, C:0.17, G:0.12, T:0.37
Consensus pattern (21 bp):
ATGTCTAATAAAGTCTCTAAC
Found at i:56909899 original size:6 final size:6
Alignment explanation
Indices: 56909867--56909911 Score: 54
Period size: 6 Copynumber: 7.5 Consensus size: 6
56909857 TAAGTCTAAG
* * * *
56909867 AAAATA ACAATA AACATA AGAAGA AAAATA AAAATA AAAATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAA
56909912 CAAATAAACT
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.78, C:0.04, G:0.04, T:0.13
Consensus pattern (6 bp):
AAAATA
Found at i:56931913 original size:62 final size:61
Alignment explanation
Indices: 56931817--56931940 Score: 221
Period size: 62 Copynumber: 2.0 Consensus size: 61
56931807 TCAGAAAATG
*
56931817 ACCAATACAAAATAATTTAATACAAACTCAACCATTTCTGTCATGCACATGGCAGACAACA
1 ACCAATACAAAATAATTTAATACAAACACAACCATTTCTGTCATGCACATGGCAGACAACA
*
56931878 ACCAATACAAAAATAATTTAATACAAACACAACCATTTTTGTCATGCACATGGCAGACAACA
1 ACCAATAC-AAAATAATTTAATACAAACACAACCATTTCTGTCATGCACATGGCAGACAACA
56931940 A
1 A
56931941 TAGACAATAA
Statistics
Matches: 60, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
61 8 0.13
62 52 0.87
ACGTcount: A:0.46, C:0.23, G:0.08, T:0.23
Consensus pattern (61 bp):
ACCAATACAAAATAATTTAATACAAACACAACCATTTCTGTCATGCACATGGCAGACAACA
Found at i:56932205 original size:6 final size:6
Alignment explanation
Indices: 56932196--56932421 Score: 174
Period size: 6 Copynumber: 37.7 Consensus size: 6
56932186 AAATAACCTT
*
56932196 AAATCG AAATCG AAATCG AAATCG AAATCG AAATCG AAATCG AAATCA
1 AAATCG AAATCG AAATCG AAATCG AAATCG AAATCG AAATCG AAATCG
* * * *
56932244 AAATCG AAATCG AAATCG AAATCG AAATCA AAATCA AAATCA AAATCA
1 AAATCG AAATCG AAATCG AAATCG AAATCG AAATCG AAATCG AAATCG
* * * * * * *
56932292 AAATCA AAATCA AAATTG AAATC- AAAGTCA AAATCA AAATCAG TGAGT-G
1 AAATCG AAATCG AAATCG AAATCG AAA-TCG AAATCG AAATC-G -AAATCG
** * * * * * *
56932341 -TTTCA AAATTG AAATCA AAATCA AAATCG AAATCA AAAT-T AGAATC-
1 AAATCG AAATCG AAATCG AAATCG AAATCG AAATCG AAATCG A-AATCG
* *
56932387 ATAATCG AAATCA AAATTG AAATCG AAATCG AAAT
1 A-AATCG AAATCG AAATCG AAATCG AAATCG AAAT
56932422 AACCCTAAAT
Statistics
Matches: 185, Mismatches: 26, Indels: 18
0.81 0.11 0.08
Matches are distributed among these distances:
4 1 0.01
5 4 0.02
6 174 0.94
7 4 0.02
8 2 0.01
ACGTcount: A:0.55, C:0.14, G:0.11, T:0.20
Consensus pattern (6 bp):
AAATCG
Found at i:56932219 original size:18 final size:18
Alignment explanation
Indices: 56932196--56932421 Score: 196
Period size: 18 Copynumber: 12.9 Consensus size: 18
56932186 AAATAACCTT
*
56932196 AAATCGAAATCGAAATCG
1 AAATCGAAATCAAAATCG
*
56932214 AAATCGAAATCGAAATCG
1 AAATCGAAATCAAAATCG
56932232 AAATCGAAATCAAAATCG
1 AAATCGAAATCAAAATCG
*
56932250 AAATCGAAATCGAAATCG
1 AAATCGAAATCAAAATCG
* *
56932268 AAATCAAAATCAAAATCA
1 AAATCGAAATCAAAATCG
* *
56932286 AAATCAAAATCAAAATCA
1 AAATCGAAATCAAAATCG
* * *
56932304 AAATTGAAATCAAAGTCA
1 AAATCGAAATCAAAATCG
* *
56932322 AAATCAAAATC--AGT-G
1 AAATCGAAATCAAAATCG
* ** *
56932337 -AGT-G-TTTCAAAATTG
1 AAATCGAAATCAAAATCG
*
56932352 AAATCAAAATCAAAATCG
1 AAATCGAAATCAAAATCG
* * *
56932370 AAATCAAAATTAGAATC-
1 AAATCGAAATCAAAATCG
*
56932387 ATAATCGAAATCAAAATTG
1 A-AATCGAAATCAAAATCG
*
56932406 AAATCGAAATCGAAAT
1 AAATCGAAATCAAAAT
56932422 AACCCTAAAT
Statistics
Matches: 172, Mismatches: 28, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
12 2 0.01
14 4 0.02
15 1 0.01
16 5 0.03
17 1 0.01
18 158 0.92
19 1 0.01
ACGTcount: A:0.55, C:0.14, G:0.11, T:0.20
Consensus pattern (18 bp):
AAATCGAAATCAAAATCG
Found at i:56932447 original size:16 final size:16
Alignment explanation
Indices: 56932428--56932458 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
56932418 AAATAACCCT
56932428 AAATAACCCTAAATTG
1 AAATAACCCTAAATTG
56932444 AAATAACCCTAAATT
1 AAATAACCCTAAATT
56932459 CAAAAAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.19, G:0.03, T:0.26
Consensus pattern (16 bp):
AAATAACCCTAAATTG
Found at i:56933878 original size:50 final size:50
Alignment explanation
Indices: 56933753--56934050 Score: 353
Period size: 50 Copynumber: 5.8 Consensus size: 50
56933743 ATTTGGGTAA
* * * *
56933753 AGAGATCCCATGTAAGACTATGTCTGGGACATGGCATTGGCATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-C--CGAG---ATG
56933809 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* * *
56933859 AGAGGTCTCATATAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
56933909 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* ** * * * * *
56933959 AAAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATAGGCACCTATATT
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
** * * * *
56934009 AGAACTCTCATGTAAGACCATATCTGGGATATGGCTTTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
56934051 GTACAAGAAA
Statistics
Matches: 214, Mismatches: 28, Indels: 6
0.86 0.11 0.02
Matches are distributed among these distances:
50 171 0.80
53 3 0.01
55 1 0.00
56 39 0.18
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
Found at i:56940934 original size:22 final size:20
Alignment explanation
Indices: 56940898--56940946 Score: 53
Period size: 22 Copynumber: 2.4 Consensus size: 20
56940888 ATTTATCTTT
*
56940898 AATAAAAATAAATAAATAGTTG
1 AATAAAAAGAAATAAATA--TG
* *
56940920 AATAAAAAGATATAATTATG
1 AATAAAAAGAAATAAATATG
56940940 AATAAAA
1 AATAAAA
56940947 TCAAAATATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 9 0.38
22 15 0.62
ACGTcount: A:0.65, C:0.00, G:0.08, T:0.27
Consensus pattern (20 bp):
AATAAAAAGAAATAAATATG
Found at i:56940980 original size:19 final size:18
Alignment explanation
Indices: 56940904--56940983 Score: 55
Period size: 16 Copynumber: 4.6 Consensus size: 18
56940894 CTTTAATAAA
*
56940904 AATAAATAAAT-AGT-TG
1 AATAAATAAATAATTATG
*
56940920 AATAAAAAGATATAATTATG
1 AATAAATA-A-ATAATTATG
*
56940940 AATAAAATCAA-AA-TAT-
1 AAT-AAATAAATAATTATG
56940956 AA-AAATAAATAATTATG
1 AATAAATAAATAATTATG
56940973 AATGAAATAAA
1 AAT-AAATAAA
56940984 CAAATAAATG
Statistics
Matches: 49, Mismatches: 5, Indels: 17
0.69 0.07 0.24
Matches are distributed among these distances:
14 6 0.12
15 2 0.04
16 12 0.24
17 6 0.12
18 4 0.08
19 10 0.20
20 6 0.12
21 3 0.06
ACGTcount: A:0.64, C:0.01, G:0.07, T:0.28
Consensus pattern (18 bp):
AATAAATAAATAATTATG
Found at i:56940991 original size:33 final size:33
Alignment explanation
Indices: 56940920--56940991 Score: 92
Period size: 33 Copynumber: 2.2 Consensus size: 33
56940910 TAAATAGTTG
*
56940920 AATAAAAAGATATAATTATGAATAAAATCAAAA
1 AATAAAAAGAAATAATTATGAATAAAATCAAAA
* * *
56940953 TATAAAAATAAATAATTATGAATGAAAT-AAACA
1 AATAAAAAGAAATAATTATGAATAAAATCAAA-A
56940986 AATAAA
1 AATAAA
56940992 TGAATGAATG
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
32 3 0.09
33 30 0.91
ACGTcount: A:0.67, C:0.03, G:0.06, T:0.25
Consensus pattern (33 bp):
AATAAAAAGAAATAATTATGAATAAAATCAAAA
Found at i:56994137 original size:10 final size:11
Alignment explanation
Indices: 56994115--56994146 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
56994105 TGTTTATTGC
56994115 TTTTCATTCTT
1 TTTTCATTCTT
56994126 TTTTCATT-TT
1 TTTTCATTCTT
56994136 TTTTC-TTCTT
1 TTTTCATTCTT
56994146 T
1 T
56994147 AAACTACAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
9 2 0.10
10 10 0.50
11 8 0.40
ACGTcount: A:0.06, C:0.16, G:0.00, T:0.78
Consensus pattern (11 bp):
TTTTCATTCTT
Found at i:57005931 original size:24 final size:23
Alignment explanation
Indices: 57005895--57005942 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
57005885 TCATACTTCT
*
57005895 ATTTTTTTTTATAAATTTATATG
1 ATTTTTTGTTATAAATTTATATG
* *
57005918 ATTTATTTGTTATAATTTTGTATG
1 ATTT-TTTGTTATAAATTTATATG
57005942 A
1 A
57005943 ATTCTAATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 4 0.19
24 17 0.81
ACGTcount: A:0.29, C:0.00, G:0.08, T:0.62
Consensus pattern (23 bp):
ATTTTTTGTTATAAATTTATATG
Found at i:57012341 original size:10 final size:10
Alignment explanation
Indices: 57012328--57012389 Score: 79
Period size: 10 Copynumber: 6.0 Consensus size: 10
57012318 TTGTAATTTC
*
57012328 TAAATTTTTA
1 TAAATTTTAA
57012338 TAAAATTTTAA
1 T-AAATTTTAA
*
57012349 TAAATTTTTA
1 TAAATTTTAA
57012359 TAAAATTTTAA
1 T-AAATTTTAA
57012370 TAAATTTTAA
1 TAAATTTTAA
*
57012380 TAAAATTTAA
1 TAAATTTTAA
57012390 AAACTTTTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
10 28 0.61
11 18 0.39
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (10 bp):
TAAATTTTAA
Found at i:57012345 original size:11 final size:11
Alignment explanation
Indices: 57012329--57012387 Score: 86
Period size: 11 Copynumber: 5.5 Consensus size: 11
57012319 TGTAATTTCT
*
57012329 AAATTTTTATA
1 AAATTTTAATA
57012340 AAATTTTAAT-
1 AAATTTTAATA
*
57012350 AAATTTTTATA
1 AAATTTTAATA
57012361 AAATTTTAAT-
1 AAATTTTAATA
57012371 AAATTTTAATA
1 AAATTTTAATA
57012382 AAATTT
1 AAATTT
57012388 AAAAACTTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
10 19 0.44
11 24 0.56
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (11 bp):
AAATTTTAATA
Found at i:57012398 original size:21 final size:21
Alignment explanation
Indices: 57012328--57012387 Score: 111
Period size: 21 Copynumber: 2.9 Consensus size: 21
57012318 TTGTAATTTC
57012328 TAAATTTTTATAAAATTTTAA
1 TAAATTTTTATAAAATTTTAA
57012349 TAAATTTTTATAAAATTTTAA
1 TAAATTTTTATAAAATTTTAA
*
57012370 TAAATTTTAATAAAATTT
1 TAAATTTTTATAAAATTT
57012388 AAAAACTTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
TAAATTTTTATAAAATTTTAA
Found at i:57013028 original size:43 final size:42
Alignment explanation
Indices: 57012921--57013233 Score: 373
Period size: 42 Copynumber: 7.4 Consensus size: 42
57012911 ACGTCGCTAA
* *
57012921 CTTTTGCGGCGCTTACATAAAAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTT--AGAAAAAAACGCCGCTAAAGATCATGTT
*
57012965 TTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
* *
57013007 CTTTAGCGGCGCTTAGAAAAAAACACCGCTAGAGATCATGTT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
* *
57013049 CTTTAGCGGCGCTTAGAAACAAACGCTGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
57013091 CTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTA-GAAAAAAACGCCGCTAAAGATCATGTT
* ** * * *
57013134 CTTTAGCGGCGCTTTGGAGGAAAACACCTCTAAA-AGTAATGTT
1 CTTTAGCGGCGC-TTAGAAAAAAACGCCGCTAAAGA-TCATGTT
* **
57013177 CTATAGCGGCGCTT-GTTCAAAAACGCCGCTAAA-AGT-AGTGTT
1 CTTTAGCGGCGCTTAG-AAAAAAACGCCGCTAAAGA-TCA-TGTT
*
57013219 CTTTAGCGGTGCTTA
1 CTTTAGCGGCGCTTA
57013234 TTTCACAAAC
Statistics
Matches: 237, Mismatches: 26, Indels: 13
0.86 0.09 0.05
Matches are distributed among these distances:
41 2 0.01
42 153 0.65
43 68 0.29
44 14 0.06
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.27
Consensus pattern (42 bp):
CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
Found at i:57013689 original size:21 final size:21
Alignment explanation
Indices: 57013665--57013712 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
57013655 GCTTCTATTG
* *
57013665 CTGCTTCTCTCGCTGTAGCCT
1 CTGCTTCCCTCGCTGCAGCCT
* *
57013686 CTGCTCCCCTCGCTGCCGCCT
1 CTGCTTCCCTCGCTGCAGCCT
57013707 CTGCTT
1 CTGCTT
57013713 TAAGTTGCTG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.02, C:0.46, G:0.19, T:0.33
Consensus pattern (21 bp):
CTGCTTCCCTCGCTGCAGCCT
Found at i:57019105 original size:9 final size:9
Alignment explanation
Indices: 57019091--57019341 Score: 176
Period size: 9 Copynumber: 29.8 Consensus size: 9
57019081 AACTTATTTA
57019091 TTATGTAAG
1 TTATGTAAG
57019100 TTATGTAAG
1 TTATGTAAG
*
57019109 TTGTGTAAG
1 TTATGTAAG
57019118 TTATGTAAG
1 TTATGTAAG
*
57019127 CTATGTAAG
1 TTATGTAAG
*
57019136 TTGTGT-A-
1 TTATGTAAG
* *
57019143 TTATGCAAC
1 TTATGTAAG
57019152 TTATGTAAG
1 TTATGTAAG
*
57019161 TTGTGT-A-
1 TTATGTAAG
57019168 TTATGTAAG
1 TTATGTAAG
*
57019177 TTATGTCAG
1 TTATGTAAG
*
57019186 TTGTGT-A-
1 TTATGTAAG
* *
57019193 TTATGAAAC
1 TTATGTAAG
57019202 TTATGTAAG
1 TTATGTAAG
*
57019211 TTATGT--C
1 TTATGTAAG
*
57019218 TTTTGTAAG
1 TTATGTAAG
* *
57019227 TGATGTAAA
1 TTATGTAAG
*
57019236 ATATGT-A-
1 TTATGTAAG
57019243 TTATGTAAG
1 TTATGTAAG
*
57019252 TTATGTCAG
1 TTATGTAAG
*
57019261 TTGTGT-A-
1 TTATGTAAG
*
57019268 TTATGTAAA
1 TTATGTAAG
57019277 TTATGT-A-
1 TTATGTAAG
57019284 TTATGTAAG
1 TTATGTAAG
*
57019293 TTATGTAAT
1 TTATGTAAG
*
57019302 TTGTGT-A-
1 TTATGTAAG
*
57019309 TTATGTAAC
1 TTATGTAAG
* *
57019318 TTATTTAAT
1 TTATGTAAG
57019327 TTATGTAAG
1 TTATGTAAG
57019336 -TATGTA
1 TTATGTA
57019342 TTATTATGTA
Statistics
Matches: 190, Mismatches: 36, Indels: 33
0.73 0.14 0.13
Matches are distributed among these distances:
7 39 0.21
8 20 0.11
9 131 0.69
ACGTcount: A:0.30, C:0.03, G:0.20, T:0.47
Consensus pattern (9 bp):
TTATGTAAG
Found at i:57019156 original size:25 final size:25
Alignment explanation
Indices: 57019089--57019388 Score: 243
Period size: 25 Copynumber: 11.9 Consensus size: 25
57019079 ATAACTTATT
57019089 TATTATGTAAGTTATGTAAGTTGTG
1 TATTATGTAAGTTATGTAAGTTGTG
*
57019114 TAAGTTATGTAAGCTATGTAAGTTGTG
1 T-A-TTATGTAAGTTATGTAAGTTGTG
* *
57019141 TATTATGCAACTTATGTAAGTTGTG
1 TATTATGTAAGTTATGTAAGTTGTG
*
57019166 TATTATGTAAGTTATGTCAGTTGTG
1 TATTATGTAAGTTATGTAAGTTGTG
* * *
57019191 TATTATGAAACTTATGTAAGTTATG
1 TATTATGTAAGTTATGTAAGTTGTG
* * * ** *
57019216 TCTTTTGTAAGTGATGTAAAATATG
1 TATTATGTAAGTTATGTAAGTTGTG
*
57019241 TATTATGTAAGTTATGTCAGTTGTG
1 TATTATGTAAGTTATGTAAGTTGTG
* *
57019266 TATTATGTAAATTATGT-A-TTATG
1 TATTATGTAAGTTATGTAAGTTGTG
* * *
57019289 TAAGTTATGTAATTTGTGT-A-TTATG
1 T-A-TTATGTAAGTTATGTAAGTTGTG
* * *
57019314 TAACTTATTTAATTTATGTAAGTATGTAT
1 T-A-TTATGTAAGTTATGTAAGT-TGT-G
* * *
57019343 TATTATGTAATTTAT-TATGTAG-G
1 TATTATGTAAGTTATGTAAGTTGTG
*
57019366 ATATTATCTAAGTTATGTAAGTT
1 -TATTATGTAAGTTATGTAAGTT
57019389 TTTTTTTGGT
Statistics
Matches: 223, Mismatches: 42, Indels: 20
0.78 0.15 0.07
Matches are distributed among these distances:
23 5 0.02
24 15 0.07
25 156 0.70
26 7 0.03
27 36 0.16
28 3 0.01
29 1 0.00
ACGTcount: A:0.30, C:0.03, G:0.19, T:0.48
Consensus pattern (25 bp):
TATTATGTAAGTTATGTAAGTTGTG
Found at i:57019171 original size:16 final size:16
Alignment explanation
Indices: 57019152--57019299 Score: 106
Period size: 16 Copynumber: 9.0 Consensus size: 16
57019142 ATTATGCAAC
*
57019152 TTATGTAAGTTGTGTA
1 TTATGTAAGTTATGTA
57019168 TTATGTAAGTTATGTCA
1 TTATGTAAGTTATGT-A
* *
57019185 GTTGTGT-A-TTATGAAA
1 -TTATGTAAGTTATG-TA
*
57019201 CTTATGTAAGTTATGTC
1 -TTATGTAAGTTATGTA
* *
57019218 TTTTGTAAGTGATGTAAA
1 TTATGTAAGTTATGT--A
*
57019236 ATATGT-A-TTATGTAA
1 TTATGTAAGTTATGT-A
* *
57019251 GTTATGTCAGTTGTGTA
1 -TTATGTAAGTTATGTA
*
57019268 TTATGTAAATTATGTA
1 TTATGTAAGTTATGTA
57019284 TTATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
57019300 ATTTGTGTAT
Statistics
Matches: 103, Mismatches: 19, Indels: 20
0.73 0.13 0.14
Matches are distributed among these distances:
15 2 0.02
16 76 0.74
17 6 0.06
18 19 0.18
ACGTcount: A:0.30, C:0.03, G:0.20, T:0.47
Consensus pattern (16 bp):
TTATGTAAGTTATGTA
Found at i:57019181 original size:34 final size:36
Alignment explanation
Indices: 57019092--57019181 Score: 98
Period size: 34 Copynumber: 2.6 Consensus size: 36
57019082 ACTTATTTAT
* * *
57019092 TATGTAAGTTATGTAAGTTGTGTAAGTTATGTAAGC
1 TATGTAAGTTATGTAAGTTATGCAACTTATGTAAGC
* *
57019128 TATGTAAGTTGTGT-A-TTATGCAACTTATGTAAGT
1 TATGTAAGTTATGTAAGTTATGCAACTTATGTAAGC
*
57019162 TGTGT-A-TTATGTAAGTTATG
1 TATGTAAGTTATGTAAGTTATG
57019182 TCAGTTGTGT
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
32 5 0.11
33 2 0.04
34 24 0.53
35 1 0.02
36 13 0.29
ACGTcount: A:0.29, C:0.03, G:0.23, T:0.44
Consensus pattern (36 bp):
TATGTAAGTTATGTAAGTTATGCAACTTATGTAAGC
Found at i:57019197 original size:41 final size:41
Alignment explanation
Indices: 57019152--57019340 Score: 182
Period size: 41 Copynumber: 4.8 Consensus size: 41
57019142 ATTATGCAAC
* *
57019152 TTATGTAAGTTGTGTATTATGTAAGTTATGTCAGTTGTGTA
1 TTATGTAAATTATGTATTATGTAAGTTATGTCAGTTGTGTA
* *
57019193 TTATG--AA--A---CTTATGTAAGTTATGTC--TTTTGTAA
1 TTATGTAAATTATGTATTATGTAAGTTATGTCAGTTGTGT-A
* *
57019226 GTGATGTAAAATATGTATTATGTAAGTTATGTCAGTTGTGTA
1 -TTATGTAAATTATGTATTATGTAAGTTATGTCAGTTGTGTA
* *
57019268 TTATGTAAATTATGTATTATGTAAGTTATGTAATTTGTGTA
1 TTATGTAAATTATGTATTATGTAAGTTATGTCAGTTGTGTA
* *
57019309 TTATGTAACTTATTTAATTTATGTAAG-TATGT
1 TTATGTAAATTATGT-A-TTATGTAAGTTATGT
57019341 ATTATTATGT
Statistics
Matches: 122, Mismatches: 13, Indels: 25
0.76 0.08 0.16
Matches are distributed among these distances:
32 5 0.04
33 1 0.01
34 20 0.16
36 2 0.02
38 1 0.01
39 1 0.01
41 71 0.58
42 7 0.06
43 14 0.11
ACGTcount: A:0.30, C:0.03, G:0.19, T:0.49
Consensus pattern (41 bp):
TTATGTAAATTATGTATTATGTAAGTTATGTCAGTTGTGTA
Found at i:57019478 original size:94 final size:92
Alignment explanation
Indices: 57019276--57019446 Score: 247
Period size: 93 Copynumber: 1.8 Consensus size: 92
57019266 TATTATGTAA
*
57019276 ATTATGTATTATGTAAGTTATGTAATTTGTGTATTATGTAACTTATTTAATTTATGTAAGTATGT
1 ATTATGTATTATGTAAGTTATGTAATTTGTGTATCATGTAACTTATTTAATTTATGTAAGTATGT
57019341 ATTATTATGTAATTTATTATGTAGGAT
66 ATTATTATGTAATTTATTATGTAGGAT
* **
57019368 ATTATCTAAGTTATGTAAGTT-T-TTTTTTGGTGTATCATGTAACTTATTTAATTTATGTACAGT
1 ATTATGT-A-TTATGTAAGTTATGTAATTT-GTGTATCATGTAACTTATTTAATTTATGTA-AGT
*
57019431 ATGTGTTATTATGTAA
62 ATGTATTATTATGTAA
57019447 GTTCTTTATT
Statistics
Matches: 70, Mismatches: 5, Indels: 6
0.86 0.06 0.07
Matches are distributed among these distances:
92 10 0.14
93 31 0.44
94 29 0.41
ACGTcount: A:0.30, C:0.03, G:0.15, T:0.52
Consensus pattern (92 bp):
ATTATGTATTATGTAAGTTATGTAATTTGTGTATCATGTAACTTATTTAATTTATGTAAGTATGT
ATTATTATGTAATTTATTATGTAGGAT
Found at i:57019678 original size:15 final size:15
Alignment explanation
Indices: 57019658--57019690 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
57019648 ATAATTATTT
*
57019658 ATAAATTTAATAGTA
1 ATAAATTTAATACTA
57019673 ATAAATTTAATACTA
1 ATAAATTTAATACTA
57019688 ATA
1 ATA
57019691 TAGAAACCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (15 bp):
ATAAATTTAATACTA
Found at i:57021153 original size:22 final size:22
Alignment explanation
Indices: 57021119--57021171 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
57021109 ATAGGCCCCT
57021119 AACTTT-AACCCGTAACCTTTA
1 AACTTTAAACCCGTAACCTTTA
57021140 AACTTTAAACCCGTAACCTTTA
1 AACTTTAAACCCGTAACCTTTA
57021162 AACTTTAAAC
1 AACTTTAAAC
57021172 TCTTAAACCA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 6 0.19
22 25 0.81
ACGTcount: A:0.38, C:0.26, G:0.04, T:0.32
Consensus pattern (22 bp):
AACTTTAAACCCGTAACCTTTA
Found at i:57021177 original size:15 final size:14
Alignment explanation
Indices: 57021132--57021208 Score: 55
Period size: 15 Copynumber: 5.3 Consensus size: 14
57021122 TTTAACCCGT
57021132 AACCTTTAAACTTTA
1 AACC-TTAAACTTTA
* *
57021147 AACCCGTAACCTTTA
1 AA-CCTTAAACTTTA
*
57021162 AACTTTAAACTCTTA
1 AACCTTAAACT-TTA
* **
57021177 AACCATAAACTACA
1 AACCTTAAACTTTA
* *
57021191 AACCTTACACTCTA
1 AACCTTAAACTTTA
57021205 AACC
1 AACC
57021209 CGTAACCTTA
Statistics
Matches: 47, Mismatches: 13, Indels: 5
0.72 0.20 0.08
Matches are distributed among these distances:
14 21 0.45
15 24 0.51
16 2 0.04
ACGTcount: A:0.42, C:0.29, G:0.01, T:0.29
Consensus pattern (14 bp):
AACCTTAAACTTTA
Found at i:57021193 original size:29 final size:29
Alignment explanation
Indices: 57021135--57021208 Score: 71
Period size: 29 Copynumber: 2.6 Consensus size: 29
57021125 AACCCGTAAC
* * **
57021135 CTTTAAACT-TTAAACCCGTAACCTTTAAA
1 CTTTAAACTCTTAAA-CCATAAACTACAAA
57021164 CTTTAAACTCTTAAACCATAAACTACAAA
1 CTTTAAACTCTTAAACCATAAACTACAAA
* *
57021193 CCTTACACTC-TAAACC
1 CTTTAAACTCTTAAACC
57021209 CGTAACCTTA
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
28 6 0.16
29 27 0.71
30 5 0.13
ACGTcount: A:0.41, C:0.28, G:0.01, T:0.30
Consensus pattern (29 bp):
CTTTAAACTCTTAAACCATAAACTACAAA
Found at i:57022088 original size:77 final size:76
Alignment explanation
Indices: 57021976--57022121 Score: 177
Period size: 77 Copynumber: 1.9 Consensus size: 76
57021966 TTTTCTAGTA
** *
57021976 AGCGCCACTAATATAAGTATACATCAAAATTAAAACTACGCGTTTTAGTTAAGATATTTTTGCGG
1 AGCGCCACTAATATAAGTATACATCAAAACCAAAACGACGCGTTTTAGTTAAGATA-TTTTGCGG
57022041 CGTTTCAACGTC
65 CGTTTCAACGTC
* * ** * * *
57022053 AGCGCCACTAAT-TGAAGTATACATCGAGACCAAAACGGTGTGTTTTGGTTCAGATATTTTGCGG
1 AGCGCCACTAATAT-AAGTATACATCAAAACCAAAACGACGCGTTTTAGTTAAGATATTTTGCGG
57022117 CGTTT
65 CGTTT
57022122 TCATAGAAGC
Statistics
Matches: 58, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
76 14 0.24
77 44 0.76
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (76 bp):
AGCGCCACTAATATAAGTATACATCAAAACCAAAACGACGCGTTTTAGTTAAGATATTTTGCGGC
GTTTCAACGTC
Found at i:57022183 original size:266 final size:266
Alignment explanation
Indices: 57021766--57022572 Score: 1319
Period size: 266 Copynumber: 3.1 Consensus size: 266
57021756 GTATTTTGCT
*
57021766 TTTTTGCGGCGTTTTAACGTCAGCACCACTAATTGAAGTATACATCGAGACCAAAACGGTGCGTT
1 TTTTTGCGGCGTTTTAACGTCAGCGCCACTAATTGAAGTATACATCGAGACCAAAACGGTGCGTT
*
57021831 TTGGTTCAGATATTTTGCGGCATTTTCATATAAGCGCCACTAAATGTAACATAGCTTAAGACAAA
66 TTGGTTCAGATATTTTGCGGCGTTTTCATATAAGCGCCACTAAATGTAACATAGCTTAAGACAAA
*
57021896 ACACTGCGTTTTGTTAAGATACGTTGCGACGCTTGACCCAAAGCGCCGCTAAATCTATTCTTTAA
131 ACACTGCGTTTTGTTAAGATACGTTGCGGCGCTTGACCCAAAGCGCCGCTAAATCTATTCTTTAA
57021961 CGGCGTTTTCTAGTAAGCGCCACTAATATAAGTATACATCAAAATTAAAACTACGCGTTTTAGTT
196 CGGCGTTTTCTAGTAAGCGCCACTAATATAAGTATACATCAAAATTAAAACTACGCGTTTTAGTT
57022026 AAGATA
261 AAGATA
* *
57022032 TTTTTGCGGCGTTTCAACGTCAGCGCCACTAATTGAAGTATACATCGAGACCAAAACGGTGTGTT
1 TTTTTGCGGCGTTTTAACGTCAGCGCCACTAATTGAAGTATACATCGAGACCAAAACGGTGCGTT
*
57022097 TTGGTTCAGATATTTTGCGGCGTTTTCATAGAAGCGCCACTAAATGTAACATAGCTTAAGACAAA
66 TTGGTTCAGATATTTTGCGGCGTTTTCATATAAGCGCCACTAAATGTAACATAGCTTAAGACAAA
*
57022162 ACACTGCGTTTTGTTAAGATACTTTGCGGCGCTTGACCCAAAGCGCCGCTAAATCTATTCTTTAA
131 ACACTGCGTTTTGTTAAGATACGTTGCGGCGCTTGACCCAAAGCGCCGCTAAATCTATTCTTTAA
*
57022227 CTGCGTTTTCTAGTAAGCGCCAC-----TAA-TATA-ATCAAAATTAAAACTACGCGTTTTAGTT
196 CGGCGTTTTCTAGTAAGCGCCACTAATATAAGTATACATCAAAATTAAAACTACGCGTTTTAGTT
57022285 AAGATA
261 AAGATA
* *
57022291 TTTTTGTGGCGTTTTAACGTCAGCGCCACTAATTGAAGTATACATCAAGACCAAAACGGTGCGTT
1 TTTTTGCGGCGTTTTAACGTCAGCGCCACTAATTGAAGTATACATCGAGACCAAAACGGTGCGTT
* * * *
57022356 TTGGTTCAGATTTTTTGCGGCGTTTTCCTATAA-CACCCACTAAATGTAACATAGCTTAAGACCA
66 TTGGTTCAGATATTTTGCGGCGTTTTCATATAAGC-GCCACTAAATGTAACATAGCTTAAGACAA
* * * * * **
57022420 AACACTGCGTTTTGTTAAGATATGTTGCGGCGCTTTGGCTC-AATCGCCGATAAAGATATTCTTT
130 AACACTGCGTTTTGTTAAGATACGTTGCGGCGC-TTGACCCAAAGCGCCGCTAAATCTATTCTTT
57022484 AACGGCGTTTTCTAGTAAGCGCCACTAATATAAGTATACATCAAAATTAAAACTACGCGTTTTAG
194 AACGGCGTTTTCTAGTAAGCGCCACTAATATAAGTATACATCAAAATTAAAACTACGCGTTTTAG
*
57022549 TAAAGATA
259 TTAAGATA
*
57022557 -TTTTGCGGCGCTTTAA
1 TTTTTGCGGCGTTTTAA
57022573 ACGAAACGCC
Statistics
Matches: 503, Mismatches: 29, Indels: 19
0.91 0.05 0.03
Matches are distributed among these distances:
258 1 0.00
259 226 0.45
260 9 0.02
261 3 0.01
264 3 0.01
265 18 0.04
266 243 0.48
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.32
Consensus pattern (266 bp):
TTTTTGCGGCGTTTTAACGTCAGCGCCACTAATTGAAGTATACATCGAGACCAAAACGGTGCGTT
TTGGTTCAGATATTTTGCGGCGTTTTCATATAAGCGCCACTAAATGTAACATAGCTTAAGACAAA
ACACTGCGTTTTGTTAAGATACGTTGCGGCGCTTGACCCAAAGCGCCGCTAAATCTATTCTTTAA
CGGCGTTTTCTAGTAAGCGCCACTAATATAAGTATACATCAAAATTAAAACTACGCGTTTTAGTT
AAGATA
Found at i:57022696 original size:116 final size:115
Alignment explanation
Indices: 57022540--57022817 Score: 258
Period size: 113 Copynumber: 2.4 Consensus size: 115
57022530 TTAAAACTAC
* * * * * * *
57022540 GCGTTTTAGTAAAGATATTTTGCGGCGC-TTTAAACGAAACGCCGCTAATACGGTGCTTTAGCAG
1 GCGTTTTGGTTAAGATATTTTGCGGCGCATTT--GCAAAACGCCGCTAATAAGATACTTTAGCAG
57022604 CGCATATCAAAAAGCGCCACTAAATCTAGGATACATCAACACCAAAAACGAT
64 CGCATATCAAAAAGCGCCACTAAATCTAGGATACATCAACACCAAAAACGAT
*
57022656 GCGTTTTGGTTAAGATATTTTGCGGCGCATATTGCAAAACGCCG-T--TAAGATACTTTAGCGGC
1 GCGTTTTGGTTAAGATATTTTGCGGCGCAT-TTGCAAAACGCCGCTAATAAGATACTTTAGCAGC
** * **** * **
57022718 GTTTTTTTCGAAGCGCCACTAATTCTAGGATACATCAACACTGAAAACGAT
65 GCATATCAAAAAGCGCCACTAAATCTAGGATACATCAACACCAAAAACGAT
* * * ** * *
57022769 GCATTTTGGTTAGGAGAAATTACGGCGCATTGTTGTAAAACGCCGCTAA
1 GCGTTTTGGTTAAGATATTTTGCGGCGCA-T-TTGCAAAACGCCGCTAA
57022818 GACACTTTAG
Statistics
Matches: 130, Mismatches: 26, Indels: 11
0.78 0.16 0.07
Matches are distributed among these distances:
113 77 0.59
114 13 0.10
115 2 0.02
116 35 0.27
117 1 0.01
118 2 0.02
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.27
Consensus pattern (115 bp):
GCGTTTTGGTTAAGATATTTTGCGGCGCATTTGCAAAACGCCGCTAATAAGATACTTTAGCAGCG
CATATCAAAAAGCGCCACTAAATCTAGGATACATCAACACCAAAAACGAT
Found at i:57022758 original size:113 final size:114
Alignment explanation
Indices: 57022615--57022908 Score: 369
Period size: 113 Copynumber: 2.6 Consensus size: 114
57022605 GCATATCAAA
* * * *
57022615 AAGCGCCACTAAATCTAGGATACATCAACACCAAAAACGATGCGTTTTGGTTAAGATATTTTGCG
1 AAGCGCCACTAATTCTAGGATACATCAACACCGAAAACGATGCGTTTTGGTTAGGAGATTTTGCG
* *
57022680 GCGCA-TATTGCAAAACGCCGTTAAGATACTTTAGCGGCGT-TTTTTTCG
66 GCGCATTATTGCAAAACGCCGCTAAGACACTTTAGCGGCGTGTTTTTT-G
* * ** *
57022728 AAGCGCCACTAATTCTAGGATACATCAACACTGAAAACGATGCATTTTGGTTAGGAGAAATTACG
1 AAGCGCCACTAATTCTAGGATACATCAACACCGAAAACGATGCGTTTTGGTTAGGAGATTTTGCG
* *
57022793 GCGCATTGTTGTAAAACGCCGCTAAGACACTTTAGCGGCGTGTTTTTTG
66 GCGCATTATTGCAAAACGCCGCTAAGACACTTTAGCGGCGTGTTTTTTG
* * * * * * * *
57022842 AAGCGCCACTAATTATTGCATACATAAAGA-CGAAAATGTTGCGTTTTGGATAGGAGATTTTGCG
1 AAGCGCCACTAATTCTAGGATACATCAACACCGAAAACGATGCGTTTTGGTTAGGAGATTTTGCG
57022906 GCG
66 GCG
57022909 TGTGGTTGTA
Statistics
Matches: 153, Mismatches: 26, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
113 90 0.59
114 57 0.37
115 6 0.04
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (114 bp):
AAGCGCCACTAATTCTAGGATACATCAACACCGAAAACGATGCGTTTTGGTTAGGAGATTTTGCG
GCGCATTATTGCAAAACGCCGCTAAGACACTTTAGCGGCGTGTTTTTTG
Found at i:57023282 original size:11 final size:12
Alignment explanation
Indices: 57023266--57023298 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
57023256 GGACCCAAGA
57023266 TGAATTAATTT-
1 TGAATTAATTTG
*
57023277 TGAATTCATTTG
1 TGAATTAATTTG
57023289 TGAATTAATT
1 TGAATTAATT
57023299 CACTTGTGAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.33, C:0.03, G:0.12, T:0.52
Consensus pattern (12 bp):
TGAATTAATTTG
Found at i:57032381 original size:21 final size:21
Alignment explanation
Indices: 57032333--57032386 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
57032323 TAATTCTTTC
57032333 ATTTTTTATAATATATTAACA
1 ATTTTTTATAATATATTAACA
* *
57032354 ATATTTTATAATAT-TTAATA
1 ATTTTTTATAATATATTAACA
*
57032374 CTTTTTTTATAAT
1 -ATTTTTTATAAT
57032387 TCTAAGTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 5 0.18
21 23 0.82
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (21 bp):
ATTTTTTATAATATATTAACA
Found at i:57032417 original size:19 final size:20
Alignment explanation
Indices: 57032333--57032417 Score: 50
Period size: 21 Copynumber: 4.2 Consensus size: 20
57032323 TAATTCTTTC
*
57032333 ATTTTTTATAATATATTAACA
1 ATTTTTTATAATTTA-TAACA
* *
57032354 ATATTTTATAATATT-TAATA
1 ATTTTTTATAAT-TTATAACA
* * **
57032374 CTTTTTTTATAA-TTCTAAGT
1 -ATTTTTTATAATTTATAACA
*
57032394 TTTTTTTATAATTTATAA-A
1 ATTTTTTATAATTTATAACA
57032413 ATTTT
1 ATTTT
57032418 ATAATGGTTT
Statistics
Matches: 50, Mismatches: 10, Indels: 10
0.71 0.14 0.14
Matches are distributed among these distances:
19 17 0.34
20 12 0.24
21 20 0.40
22 1 0.02
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.59
Consensus pattern (20 bp):
ATTTTTTATAATTTATAACA
Done.