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 198 of 240
Found at i:60160952 original size:32 final size:32
Alignment explanation
Indices: 60160916--60160999 Score: 91
Period size: 33 Copynumber: 2.6 Consensus size: 32
60160906 AACGTTTTCG
*
60160916 GAAAATATTTTCAGGAAATC-TGCCAAACAACA
1 GAAAATATTTTCAGCAAATCAT-CCAAACAACA
* *
60160948 GAAAATATTTTACA-CAGATTCATCCAAACACCA
1 GAAAATATTTT-CAGCA-AATCATCCAAACAACA
*
60160981 GAAAATATTTTCAGTAAAT
1 GAAAATATTTTCAGCAAAT
60161000 TATTTTCCAG
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
32 16 0.37
33 26 0.60
34 1 0.02
ACGTcount: A:0.46, C:0.18, G:0.10, T:0.26
Consensus pattern (32 bp):
GAAAATATTTTCAGCAAATCATCCAAACAACA
Found at i:60161018 original size:20 final size:20
Alignment explanation
Indices: 60160993--60161032 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
60160983 AAATATTTTC
60160993 AGTAAATTATTTTCCAGAAA
1 AGTAAATTATTTTCCAGAAA
*
60161013 AGTAAATTATTTTCTAGAAA
1 AGTAAATTATTTTCCAGAAA
60161033 TTATTTTCCG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.45, C:0.07, G:0.10, T:0.38
Consensus pattern (20 bp):
AGTAAATTATTTTCCAGAAA
Found at i:60172585 original size:69 final size:69
Alignment explanation
Indices: 60172468--60173268 Score: 639
Period size: 69 Copynumber: 11.6 Consensus size: 69
60172458 ACTATCATAC
* * * * * * * *
60172468 TAAGGCTCGCAGGTGAAGAGTCGCAGCCTCCAACACAGTTAACAAGAGCAAAGCTTCCAGTTGTC
1 TAAGGCTCGAAGGTGAAGAGCCGCAACCTTCAACACAGTTAGCGAGAGCAAAGCTCCCAGCTGTC
60172533 ACAT
66 ACAT
* * * * * *
60172537 TAAGGCTCGAAGGTGAAGAGCCACAACATTCAACACAATGAGTGAGAGCAAAGCTCCCAACTGTC
1 TAAGGCTCGAAGGTGAAGAGCCGCAACCTTCAACACAGTTAGCGAGAGCAAAGCTCCCAGCTGTC
60172602 ACAT
66 ACAT
* * * * * *
60172606 TAAGGGTCGAAGGTGAAGAGCCGTAACCTTCAACATAATTAGCGACAGCAAAGCTCCCAACTGTC
1 TAAGGCTCGAAGGTGAAGAGCCGCAACCTTCAACACAGTTAGCGAGAGCAAAGCTCCCAGCTGTC
60172671 ACAT
66 ACAT
* * * * *
60172675 TAAGGTTC-ACAGGTGAAGAGTCGCAACC-TCTAACACAGTTAACGAAAGTAAAGCTCCCAGCTG
1 TAAGGCTCGA-AGGTGAAGAGCCGCAACCTTC-AACACAGTTAGCGAGAGCAAAGCTCCCAGCTG
*
60172738 CCACAT
64 TCACAT
** * * * * * * * *
60172744 TAAGAATCAAAGGTGAAGAGCCGCAACCTTCAACGCAATTAGCAAAAGCAGAGCTCTCAACTGTC
1 TAAGGCTCGAAGGTGAAGAGCCGCAACCTTCAACACAGTTAGCGAGAGCAAAGCTCCCAGCTGTC
60172809 ACAT
66 ACAT
* * * * ** *
60172813 TAAGGTTC-ACAGGTGAAAAGCCACATCC-TCTAACACAGTTAGTAAGAGCAAAGCTCCCAACTG
1 TAAGGCTCGA-AGGTGAAGAGCCGCAACCTTC-AACACAGTTAGCGAGAGCAAAGCTCCCAGCTG
60172876 TCACAT
64 TCACAT
* * * * * ** *** *
60172882 TAAGGCTCGCAGATAAAAAACATCAACCTTCAACACAGTTAATAAGAGTAAAGCTCCCAGCTGTC
1 TAAGGCTCGAAGGTGAAGAGCCGCAACCTTCAACACAGTTAGCGAGAGCAAAGCTCCCAGCTGTC
60172947 ACAT
66 ACAT
* ** * * *
60172951 TAAGACTC-ACAGGTGAAGAGTTGCAGCC-TCTAACATAGTTAGCGAGAGCAAAGCTCTCAGCTG
1 TAAGGCTCGA-AGGTGAAGAGCCGCAACCTTC-AACACAGTTAGCGAGAGCAAAGCTCCCAGCTG
* *
60173014 TCATAC
64 TCACAT
* * * * * * * * *
60173020 TAAGGCTCGTAGGTGAAGAGCTGCAGCCTCCAACACAGTTAGTGATAGTAAAGCTCCCAACTATC
1 TAAGGCTCGAAGGTGAAGAGCCGCAACCTTCAACACAGTTAGCGAGAGCAAAGCTCCCAGCTGTC
60173085 ACAT
66 ACAT
* ** * * ***
60173089 TAAGGCTCGCAA-GTGAAGAGTCGCAGTCTCCAACATAGTTAATAAGAGCAAAGCTCCCAGCTGT
1 TAAGGCTCG-AAGGTGAAGAGCCGCAACCTTCAACACAGTTAGCGAGAGCAAAGCTCCCAGCTGT
60173153 CACAT
65 CACAT
** * * * * *
60173158 TAAGGCTCGCAA-GTGAAGAGTTGTAGCCTTCAACACAATTAGCGAGAGCAAAGCTCCTAGCTGC
1 TAAGGCTCG-AAGGTGAAGAGCCGCAACCTTCAACACAGTTAGCGAGAGCAAAGCTCCCAGCTGT
60173222 CACAT
65 CACAT
* * * * *
60173227 TAAGGCTC-ACTGGTGAAGAGTCGTAGCCTCCAACACAGTTAG
1 TAAGGCTCGA-AGGTGAAGAGCCGCAACCTTCAACACAGTTAG
60173269 GGTGAGTTCA
Statistics
Matches: 594, Mismatches: 123, Indels: 30
0.80 0.16 0.04
Matches are distributed among these distances:
67 1 0.00
68 8 0.01
69 578 0.97
70 7 0.01
ACGTcount: A:0.35, C:0.25, G:0.21, T:0.20
Consensus pattern (69 bp):
TAAGGCTCGAAGGTGAAGAGCCGCAACCTTCAACACAGTTAGCGAGAGCAAAGCTCCCAGCTGTC
ACAT
Found at i:60172710 original size:138 final size:138
Alignment explanation
Indices: 60172468--60173268 Score: 737
Period size: 138 Copynumber: 5.8 Consensus size: 138
60172458 ACTATCATAC
* * * * * * * * * **
60172468 TAAGGCTCGCAGGTGAAGAGTCGCAGCCTCCAACACAGTTAACAAGAGCAAAGCTTCCAGTTGTC
1 TAAGGCTCGAAGGTGAAGAGCCGTAACCTTCAACACAATTAGCGAGAGCAAAGCTCCCAACTGTC
* * * * * *
60172533 ACATTAAGGCTCGA-AGGTGAAGAGCCACAACAT-TCAACACAATGAGTGAGAGCAAAGCTCCCA
66 ACATTAAGGCTC-ACAGGTGAAGAGTCGCAGCCTCT-AACACAGTTAGTGAGAGCAAAGCTCCCA
*
60172596 ACTGTCACAT
129 GCTGTCACAT
* * *
60172606 TAAGGGTCGAAGGTGAAGAGCCGTAACCTTCAACATAATTAGCGACAGCAAAGCTCCCAACTGTC
1 TAAGGCTCGAAGGTGAAGAGCCGTAACCTTCAACACAATTAGCGAGAGCAAAGCTCCCAACTGTC
* * ** * *
60172671 ACATTAAGGTTCACAGGTGAAGAGTCGCAACCTCTAACACAGTTAACGAAAGTAAAGCTCCCAGC
66 ACATTAAGGCTCACAGGTGAAGAGTCGCAGCCTCTAACACAGTTAGTGAGAGCAAAGCTCCCAGC
*
60172736 TGCCACAT
131 TGTCACAT
** * * * * * * *
60172744 TAAGAATCAAAGGTGAAGAGCCGCAACCTTCAACGCAATTAGCAAAAGCAGAGCTCTCAACTGTC
1 TAAGGCTCGAAGGTGAAGAGCCGTAACCTTCAACACAATTAGCGAGAGCAAAGCTCCCAACTGTC
* * * * * * *
60172809 ACATTAAGGTTCACAGGTGAAAAGCCACATCCTCTAACACAGTTAGTAAGAGCAAAGCTCCCAAC
66 ACATTAAGGCTCACAGGTGAAGAGTCGCAGCCTCTAACACAGTTAGTGAGAGCAAAGCTCCCAGC
60172874 TGTCACAT
131 TGTCACAT
* * * ** * * *** * *
60172882 TAAGGCTCGCAGAT-AAAAAACATCAACCTTCAACACAGTTAATAAGAGTAAAGCTCCCAGCTGT
1 TAAGGCTCGAAGGTGAAGAGCCGT-AACCTTCAACACAATTAGCGAGAGCAAAGCTCCCAACTGT
* * * * *
60172946 CACATTAAGACTCACAGGTGAAGAGTTGCAGCCTCTAACATAGTTAGCGAGAGCAAAGCTCTCAG
65 CACATTAAGGCTCACAGGTGAAGAGTCGCAGCCTCTAACACAGTTAGTGAGAGCAAAGCTCCCAG
* *
60173011 CTGTCATAC
130 CTGTCACAT
* * * * * * * * * *
60173020 TAAGGCTCGTAGGTGAAGAGCTGCAGCCTCCAACACAGTTAGTGATAGTAAAGCTCCCAACTATC
1 TAAGGCTCGAAGGTGAAGAGCCGTAACCTTCAACACAATTAGCGAGAGCAAAGCTCCCAACTGTC
* * * * * * *
60173085 ACATTAAGGCTCGCAAGTGAAGAGTCGCAGTCTCCAACATAGTTAATAAGAGCAAAGCTCCCAGC
66 ACATTAAGGCTCACAGGTGAAGAGTCGCAGCCTCTAACACAGTTAGTGAGAGCAAAGCTCCCAGC
60173150 TGTCACAT
131 TGTCACAT
** * * * *
60173158 TAAGGCTCGCAA-GTGAAGAGTTGTAGCCTTCAACACAATTAGCGAGAGCAAAGCTCCTAGCTGC
1 TAAGGCTCG-AAGGTGAAGAGCCGTAACCTTCAACACAATTAGCGAGAGCAAAGCTCCCAACTGT
* * *
60173222 CACATTAAGGCTCACTGGTGAAGAGTCGTAGCCTCCAACACAGTTAG
65 CACATTAAGGCTCACAGGTGAAGAGTCGCAGCCTCTAACACAGTTAG
60173269 GGTGAGTTCA
Statistics
Matches: 532, Mismatches: 126, Indels: 10
0.80 0.19 0.01
Matches are distributed among these distances:
137 5 0.01
138 522 0.98
139 5 0.01
ACGTcount: A:0.35, C:0.25, G:0.21, T:0.20
Consensus pattern (138 bp):
TAAGGCTCGAAGGTGAAGAGCCGTAACCTTCAACACAATTAGCGAGAGCAAAGCTCCCAACTGTC
ACATTAAGGCTCACAGGTGAAGAGTCGCAGCCTCTAACACAGTTAGTGAGAGCAAAGCTCCCAGC
TGTCACAT
Found at i:60172807 original size:207 final size:207
Alignment explanation
Indices: 60172452--60173268 Score: 822
Period size: 207 Copynumber: 3.9 Consensus size: 207
60172442 AAATTCCTAT
* * * *
60172452 CTCCCAACTATCATACTAAGGCTCGCAGGTGAAGAGTCGCAGCCTCCAACACAGTTAACAAGAGC
1 CTCCCAACTATCACATTAAGGCTCGCAGGTGAAGAGTCGCAACCTCCAACACAGTTAATAAGAGC
* * * * * * * *
60172517 AAAGCTTCCAGTTGTCACATTAAGGCTCGAAGGTGAAGAGCCACAACATTCAACACAATGAGTGA
66 AAAGCTCCCAGCTGTCACATTAAGACTCAAAGGTGAAGAGCCGCAACCTTCAACACAATTAGCGA
* * * * *
60172582 GAGCAAAGCTCCCAACTGTCACATTAAGGGTCGAAGGTGAAGAGCCGTAACCTTCAACATAATTA
131 GAGCAAAGCTCTCAACTGTCACATTAAGGCTCGAAGGTGAAGAGCCGCAACCTTCAACACAGTTA
*
60172647 GCGACAGCAAAG
196 GTGACAGCAAAG
* * * * *
60172659 CTCCCAACTGTCACATTAAGGTTCACAGGTGAAGAGTCGCAACCTCTAACACAGTTAACGAA-AG
1 CTCCCAACTATCACATTAAGGCTCGCAGGTGAAGAGTCGCAACCTCCAACACAGTTAA-TAAGAG
* * * * *
60172723 TAAAGCTCCCAGCTGCCACATTAAGAATCAAAGGTGAAGAGCCGCAACCTTCAACGCAATTAGCA
65 CAAAGCTCCCAGCTGTCACATTAAGACTCAAAGGTGAAGAGCCGCAACCTTCAACACAATTAGCG
* * * * * *
60172788 AAAGCAGAGCTCTCAACTGTCACATTAAGGTTC-ACAGGTGAAAAGCCACATCC-TCTAACACAG
130 AGAGCAAAGCTCTCAACTGTCACATTAAGGCTCGA-AGGTGAAGAGCCGCAACCTTC-AACACAG
* *
60172851 TTAGTAAGAGCAAAG
193 TTAGTGACAGCAAAG
* * * ** * *
60172866 CTCCCAACTGTCACATTAAGGCTCGCAGAT-AAAAAACATCAACCTTCAACACAGTTAATAAGAG
1 CTCCCAACTATCACATTAAGGCTCGCAGGTGAAGAGTC-GCAACCTCCAACACAGTTAATAAGAG
* * ** * * *
60172930 TAAAGCTCCCAGCTGTCACATTAAGACTCACAGGTGAAGAGTTGCAGCC-TCTAACATAGTTAGC
65 CAAAGCTCCCAGCTGTCACATTAAGACTCAAAGGTGAAGAGCCGCAACCTTC-AACACAATTAGC
* * * * * * *
60172994 GAGAGCAAAGCTCTCAGCTGTCATACTAAGGCTCGTAGGTGAAGAGCTGCAGCCTCCAACACAGT
129 GAGAGCAAAGCTCTCAACTGTCACATTAAGGCTCGAAGGTGAAGAGCCGCAACCTTCAACACAGT
* *
60173059 TAGTGATAGTAAAG
194 TAGTGACAGCAAAG
* ** *
60173073 CTCCCAACTATCACATTAAGGCTCGCAAGTGAAGAGTCGCAGTCTCCAACATAGTTAATAAGAGC
1 CTCCCAACTATCACATTAAGGCTCGCAGGTGAAGAGTCGCAACCTCCAACACAGTTAATAAGAGC
* * ** * *
60173138 AAAGCTCCCAGCTGTCACATTAAGGCTCGCAA-GTGAAGAGTTGTAGCCTTCAACACAATTAGCG
66 AAAGCTCCCAGCTGTCACATTAAGACTC-AAAGGTGAAGAGCCGCAACCTTCAACACAATTAGCG
* * * * * * *
60173202 AGAGCAAAGCTC-CTAGCTGCCACATTAAGGCTC-ACTGGTGAAGAGTCGTAGCCTCCAACACAG
130 AGAGCAAAGCTCTC-AACTGTCACATTAAGGCTCGA-AGGTGAAGAGCCGCAACCTTCAACACAG
60173265 TTAG
193 TTAG
60173269 GGTGAGTTCA
Statistics
Matches: 502, Mismatches: 95, Indels: 26
0.81 0.15 0.04
Matches are distributed among these distances:
206 12 0.02
207 480 0.96
208 10 0.02
ACGTcount: A:0.35, C:0.25, G:0.21, T:0.20
Consensus pattern (207 bp):
CTCCCAACTATCACATTAAGGCTCGCAGGTGAAGAGTCGCAACCTCCAACACAGTTAATAAGAGC
AAAGCTCCCAGCTGTCACATTAAGACTCAAAGGTGAAGAGCCGCAACCTTCAACACAATTAGCGA
GAGCAAAGCTCTCAACTGTCACATTAAGGCTCGAAGGTGAAGAGCCGCAACCTTCAACACAGTTA
GTGACAGCAAAG
Found at i:60175566 original size:26 final size:28
Alignment explanation
Indices: 60175527--60175581 Score: 78
Period size: 26 Copynumber: 2.0 Consensus size: 28
60175517 TGAACACTAT
*
60175527 AATTGATTTCTTTTAAATTTGA-GAAAA
1 AATTGATTCCTTTTAAATTTGATGAAAA
*
60175554 AATT-ATTCCTTTTAAGTTTGATGAAAA
1 AATTGATTCCTTTTAAATTTGATGAAAA
60175581 A
1 A
60175582 TTTAATTACA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 15 0.60
27 10 0.40
ACGTcount: A:0.40, C:0.05, G:0.11, T:0.44
Consensus pattern (28 bp):
AATTGATTCCTTTTAAATTTGATGAAAA
Found at i:60175789 original size:3 final size:3
Alignment explanation
Indices: 60175781--60175805 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
60175771 GCAATTATTT
60175781 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
60175806 GTTGTTGTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:60183578 original size:2 final size:2
Alignment explanation
Indices: 60183573--60183597 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
60183563 ACACACACAG
60183573 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
60183598 ATTTCTACTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:60203331 original size:18 final size:18
Alignment explanation
Indices: 60203296--60203335 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
60203286 TCAAAATGTT
*
60203296 TATAAAAATTCATTAAAA
1 TATAAAAATTCATAAAAA
60203314 TATAAAAATTC-TAAAAAA
1 TATAAAAATTCAT-AAAAA
60203332 TATA
1 TATA
60203336 TAAAGAAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 1 0.05
18 19 0.95
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (18 bp):
TATAAAAATTCATAAAAA
Found at i:60206123 original size:21 final size:22
Alignment explanation
Indices: 60206099--60206145 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
60206089 CTTTGCTCAA
*
60206099 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
60206120 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
60206142 ACTC
1 ACTC
60206146 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:60210838 original size:41 final size:41
Alignment explanation
Indices: 60210776--60210885 Score: 114
Period size: 41 Copynumber: 2.7 Consensus size: 41
60210766 AGGTGATTGG
* * * * * *
60210776 ACATTTCAGACTTTACA-TCTAGTAGGTTTGATGCTGGTGAA
1 ACATTTCGGACTTTA-AGTCTAGCAGGCTTAATACCGGTGAA
* *
60210817 ATATTTCGGACTTTATGTCTAGCAGGCTTAATACCGGTGAA
1 ACATTTCGGACTTTAAGTCTAGCAGGCTTAATACCGGTGAA
* *
60210858 ACAATTCGGACTATAAGTCTAGCAGGCT
1 ACATTTCGGACTTTAAGTCTAGCAGGCT
60210886 AAAAGCCGGT
Statistics
Matches: 56, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
41 56 1.00
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (41 bp):
ACATTTCGGACTTTAAGTCTAGCAGGCTTAATACCGGTGAA
Found at i:60210895 original size:41 final size:41
Alignment explanation
Indices: 60210811--60210896 Score: 111
Period size: 41 Copynumber: 2.1 Consensus size: 41
60210801 GTTTGATGCT
* * * * *
60210811 GGTGAAATATTTCGGACTTTATGTCTAGCAGGCTTAATACC
1 GGTGAAACAATTCGGACTATAAGTCTAGCAGGCTTAAAACC
60210852 GGTGAAACAATTCGGACTATAAGTCTAGCAGGC-TAAAAGCC
1 GGTGAAACAATTCGGACTATAAGTCTAGCAGGCTTAAAA-CC
60210893 GGTG
1 GGTG
60210897 TACTGAATCA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
40 4 0.10
41 35 0.90
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.27
Consensus pattern (41 bp):
GGTGAAACAATTCGGACTATAAGTCTAGCAGGCTTAAAACC
Found at i:60211926 original size:6 final size:6
Alignment explanation
Indices: 60211894--60211937 Score: 61
Period size: 6 Copynumber: 7.2 Consensus size: 6
60211884 ACAACACCTA
* *
60211894 AACAGT AATCAGT AACGGT AGCAGT AACAGT AACAGT AACAGT A
1 AACAGT AA-CAGT AACAGT AACAGT AACAGT AACAGT AACAGT A
60211938 TTCAACACAC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
6 27 0.82
7 6 0.18
ACGTcount: A:0.45, C:0.16, G:0.20, T:0.18
Consensus pattern (6 bp):
AACAGT
Found at i:60211991 original size:45 final size:45
Alignment explanation
Indices: 60211917--60212021 Score: 126
Period size: 45 Copynumber: 2.3 Consensus size: 45
60211907 AACGGTAGCA
*
60211917 GTAACAGTAACAGTAACAGTATTCAACACACAAAGTGTTGAATCT
1 GTAACAGTAACAGTAACAGTATTCAACACACAAAGTGTCGAATCT
**
60211962 GTAACAGTAA-AGGTAACTA-TATTTGACACACAAAGTGTCGAATC-
1 GTAACAGTAACA-GTAAC-AGTATTCAACACACAAAGTGTCGAATCT
*
60212006 GATAATAGTAACAGTA
1 G-TAACAGTAACAGTA
60212022 GTCGGCATAT
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
44 2 0.04
45 48 0.92
46 2 0.04
ACGTcount: A:0.43, C:0.15, G:0.17, T:0.25
Consensus pattern (45 bp):
GTAACAGTAACAGTAACAGTATTCAACACACAAAGTGTCGAATCT
Found at i:60213930 original size:31 final size:31
Alignment explanation
Indices: 60213833--60213938 Score: 99
Period size: 31 Copynumber: 3.4 Consensus size: 31
60213823 GGCATATGTA
* *
60213833 TATATGCATTCAGCTATTCATGTTTAAAGTG
1 TATATACATTCGGCTATTCATGTTTAAAGTG
** * * * *
60213864 TATATACATTTTGTTATT-ATATTTGTTATGTG
1 TATATACATTCGGCTATTCAT-GTT-TAAAGTG
60213896 TATA-AGCATTCGGCTATTCATGTTTAAAGTG
1 TATATA-CATTCGGCTATTCATGTTTAAAGTG
60213927 TATATACATTCG
1 TATATACATTCG
60213939 ATGATAATAT
Statistics
Matches: 57, Mismatches: 13, Indels: 10
0.71 0.16 0.12
Matches are distributed among these distances:
30 2 0.04
31 32 0.56
32 21 0.37
33 2 0.04
ACGTcount: A:0.28, C:0.10, G:0.15, T:0.46
Consensus pattern (31 bp):
TATATACATTCGGCTATTCATGTTTAAAGTG
Found at i:60213949 original size:63 final size:63
Alignment explanation
Indices: 60213827--60213954 Score: 186
Period size: 63 Copynumber: 2.0 Consensus size: 63
60213817 TTGCTAGGCA
* * * *
60213827 TATGTATATATGCATTCAGCTATTCATGTTTAAAGTGTATATACATTTTGTTATTATATTTGT
1 TATGTATATAAGCATTCAGCTATTCATGTTTAAAGTGTATATACATTTCGTGATAATATTTGT
* *
60213890 TATGTGTATAAGCATTCGGCTATTCATGTTTAAAGTGTATATACA-TTCGATGATAATATTTGT
1 TATGTATATAAGCATTCAGCTATTCATGTTTAAAGTGTATATACATTTCG-TGATAATATTTGT
60213953 TA
1 TA
60213955 AGCATATATG
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
62 3 0.05
63 55 0.95
ACGTcount: A:0.30, C:0.09, G:0.15, T:0.47
Consensus pattern (63 bp):
TATGTATATAAGCATTCAGCTATTCATGTTTAAAGTGTATATACATTTCGTGATAATATTTGT
Found at i:60214332 original size:28 final size:28
Alignment explanation
Indices: 60214292--60214347 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
60214282 TTTAGTTATG
60214292 CTATAGACTTACTAAGCTATAAAAGCTT
1 CTATAGACTTACTAAGCTATAAAAGCTT
60214320 CTATAGACTTACTAAGCTATAAAAGCTT
1 CTATAGACTTACTAAGCTATAAAAGCTT
60214348 ACTTTGTTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.32
Consensus pattern (28 bp):
CTATAGACTTACTAAGCTATAAAAGCTT
Found at i:60219491 original size:21 final size:21
Alignment explanation
Indices: 60219466--60219518 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
60219456 GCCCGTGAAA
60219466 ATTAGATTGATAATAGAA-CAG
1 ATTAGATTGATAATAGAATC-G
* * *
60219487 TTTAGATCGATAATCGAATCG
1 ATTAGATTGATAATAGAATCG
60219508 ATTAGATTGAT
1 ATTAGATTGAT
60219519 TTATCTTTTA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 25 0.96
22 1 0.04
ACGTcount: A:0.40, C:0.08, G:0.19, T:0.34
Consensus pattern (21 bp):
ATTAGATTGATAATAGAATCG
Found at i:60221397 original size:40 final size:40
Alignment explanation
Indices: 60221339--60221433 Score: 156
Period size: 40 Copynumber: 2.4 Consensus size: 40
60221329 ATCGTTAAAT
*
60221339 CAACCG-AACATACCAGACAGAAGCTCATAAGAGCTGATC
1 CAACCGAAACACACCAGACAGAAGCTCATAAGAGCTGATC
60221378 CAACCGAAACACACCAGACAGAAGCTCATAAGAGCTGATC
1 CAACCGAAACACACCAGACAGAAGCTCATAAGAGCTGATC
* *
60221418 CAACTGAAACGCACCA
1 CAACCGAAACACACCA
60221434 AACATAGAGT
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
39 6 0.12
40 46 0.88
ACGTcount: A:0.42, C:0.31, G:0.17, T:0.11
Consensus pattern (40 bp):
CAACCGAAACACACCAGACAGAAGCTCATAAGAGCTGATC
Found at i:60222068 original size:23 final size:21
Alignment explanation
Indices: 60222034--60222076 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 21
60222024 TAAAACTTAA
60222034 ACTTTTACACTAATAGCGATTG
1 ACTTTTACACTAATA-CGATTG
* *
60222056 ACTTTTTCAACTATTACGATT
1 ACTTTTAC-ACTAATACGATT
60222077 TAGTTCCTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.30, C:0.19, G:0.09, T:0.42
Consensus pattern (21 bp):
ACTTTTACACTAATACGATTG
Found at i:60222770 original size:14 final size:14
Alignment explanation
Indices: 60222753--60222782 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
60222743 CTATGATTTA
*
60222753 TTTATTATACCATG
1 TTTATTATAACATG
60222767 TTTATTATAACATG
1 TTTATTATAACATG
60222781 TT
1 TT
60222783 AAACATTTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.10, G:0.07, T:0.53
Consensus pattern (14 bp):
TTTATTATAACATG
Found at i:60231961 original size:18 final size:18
Alignment explanation
Indices: 60231930--60231969 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
60231920 TGCAAGGTGC
* *
60231930 GTATCTTAACCCTTATGT
1 GTATCCTAACCCTTATAT
*
60231948 GTATCCTAATCCTTATAT
1 GTATCCTAACCCTTATAT
60231966 GTAT
1 GTAT
60231970 ACTTTTTCCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.25, C:0.20, G:0.10, T:0.45
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:60232439 original size:60 final size:60
Alignment explanation
Indices: 60232346--60232464 Score: 220
Period size: 60 Copynumber: 2.0 Consensus size: 60
60232336 CATTGATTTA
60232346 TTTTTGAATATTTTTGTACAAATTATTTTTATATTGTTTCATTTAATAAAATAGAAGTTT
1 TTTTTGAATATTTTTGTACAAATTATTTTTATATTGTTTCATTTAATAAAATAGAAGTTT
* *
60232406 TTTTTGAATATTTTTGTATAAATTATTTTTATATTGTTTCATTTAATAAATTAGAAGTT
1 TTTTTGAATATTTTTGTACAAATTATTTTTATATTGTTTCATTTAATAAAATAGAAGTT
60232465 GTTGAAACCC
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 57 1.00
ACGTcount: A:0.33, C:0.03, G:0.08, T:0.56
Consensus pattern (60 bp):
TTTTTGAATATTTTTGTACAAATTATTTTTATATTGTTTCATTTAATAAAATAGAAGTTT
Found at i:60234492 original size:17 final size:18
Alignment explanation
Indices: 60234470--60234503 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
60234460 TTTTCTTTAT
*
60234470 CTCTGTTTCTG-TCTTTC
1 CTCTGTCTCTGTTCTTTC
60234487 CTCTGTCTCTGTTCTTT
1 CTCTGTCTCTGTTCTTT
60234504 TTGCAGGTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.00, C:0.29, G:0.12, T:0.59
Consensus pattern (18 bp):
CTCTGTCTCTGTTCTTTC
Found at i:60234631 original size:16 final size:18
Alignment explanation
Indices: 60234610--60234646 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
60234600 CAATGGGCAA
60234610 TTGGGC-TTTA-GGTTTT
1 TTGGGCTTTTAGGGTTTT
60234626 TTGGGCTTTTAGGGTTTT
1 TTGGGCTTTTAGGGTTTT
60234644 TTG
1 TTG
60234647 TATTTGTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 6 0.32
17 4 0.21
18 9 0.47
ACGTcount: A:0.05, C:0.05, G:0.32, T:0.57
Consensus pattern (18 bp):
TTGGGCTTTTAGGGTTTT
Found at i:60241770 original size:14 final size:14
Alignment explanation
Indices: 60241747--60241782 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
60241737 AACCCTAATC
* *
60241747 AAACCCAAAACTCA
1 AAACCTAAAACCCA
60241761 AAACCTAAAACCCA
1 AAACCTAAAACCCA
60241775 AAACCTAA
1 AAACCTAA
60241783 GACCTAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.58, C:0.33, G:0.00, T:0.08
Consensus pattern (14 bp):
AAACCTAAAACCCA
Found at i:60246103 original size:15 final size:14
Alignment explanation
Indices: 60246082--60246117 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
60246072 ATAATCCTTA
*
60246082 ATAATTATCTTAAT
1 ATAATTATCCTAAT
60246096 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
60246111 ATAATTA
1 ATAATTA
60246118 AAATAGAGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:60251691 original size:13 final size:13
Alignment explanation
Indices: 60251673--60251697 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
60251663 GAATTTGACA
60251673 GTAAAAACAATAT
1 GTAAAAACAATAT
60251686 GTAAAAACAATA
1 GTAAAAACAATA
60251698 GATTTCACGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.08, G:0.08, T:0.20
Consensus pattern (13 bp):
GTAAAAACAATAT
Found at i:60251868 original size:14 final size:14
Alignment explanation
Indices: 60251849--60251878 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
60251839 AAAGTAACTC
*
60251849 ATTCACTTTCTTGA
1 ATTCACTTTCTCGA
60251863 ATTCACTTTCTCGA
1 ATTCACTTTCTCGA
60251877 AT
1 AT
60251879 AGCCTTATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.23, C:0.23, G:0.07, T:0.47
Consensus pattern (14 bp):
ATTCACTTTCTCGA
Found at i:60252258 original size:14 final size:14
Alignment explanation
Indices: 60252241--60252268 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
60252231 CTCACATTTC
60252241 TTTTCTTTTCTCCA
1 TTTTCTTTTCTCCA
60252255 TTTTCTTTTCTCCA
1 TTTTCTTTTCTCCA
60252269 GATTTCTGCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.07, C:0.29, G:0.00, T:0.64
Consensus pattern (14 bp):
TTTTCTTTTCTCCA
Found at i:60252259 original size:19 final size:18
Alignment explanation
Indices: 60252221--60252265 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
60252211 TACGGTACGC
60252221 TTCTTTTC-TTCTCACAT
1 TTCTTTTCTTTCTCACAT
60252238 TTCTTTTCTTTTCTC-CATT
1 TTCTTTTC-TTTCTCACA-T
60252257 TTCTTTTCT
1 TTCTTTTCT
60252266 CCAGATTTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 8 0.32
18 3 0.12
19 14 0.56
ACGTcount: A:0.07, C:0.27, G:0.00, T:0.67
Consensus pattern (18 bp):
TTCTTTTCTTTCTCACAT
Found at i:60252838 original size:16 final size:16
Alignment explanation
Indices: 60252817--60252849 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
60252807 AAAAATTCAC
60252817 CTATTACGTCTCTATT
1 CTATTACGTCTCTATT
60252833 CTATTACGTCTCTATT
1 CTATTACGTCTCTATT
60252849 C
1 C
60252850 CAATACAGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.27, G:0.06, T:0.48
Consensus pattern (16 bp):
CTATTACGTCTCTATT
Found at i:60253944 original size:30 final size:32
Alignment explanation
Indices: 60253910--60253982 Score: 80
Period size: 30 Copynumber: 2.3 Consensus size: 32
60253900 TAAGGGTTAA
*
60253910 TTTCAATTTTTG-AATATTATTTAATATTT-T
1 TTTCAATTTTTGTAATATTAATTAATATTTAT
* *
60253940 TTTC-ATTTATGTAATTTTAATTAATATTTAT
1 TTTCAATTTTTGTAATATTAATTAATATTTAT
*
60253971 TTTATAATTTTT
1 TTT-CAATTTTT
60253983 TATAACAACT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
29 6 0.18
30 19 0.56
31 4 0.12
33 5 0.15
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (32 bp):
TTTCAATTTTTGTAATATTAATTAATATTTAT
Found at i:60256050 original size:59 final size:61
Alignment explanation
Indices: 60255922--60256090 Score: 190
Period size: 61 Copynumber: 2.8 Consensus size: 61
60255912 TAATTTTTTT
* * * *
60255922 AATATATTT-GTACAAACTATTTTTATATTATTT-C-ATTTAATAAAATAAAAGTTGTTTTG
1 AATATATTTAATACAAATTATTTTTATATT-TTTCCTATTTAATAAAATAAAAGTTGCTTTA
**
60255981 AATATATTTAA-ACAAATTATTTTTATATTTTATCCTATTTAATAAAATAGGAGTT-CTTTA
1 AATATATTTAATACAAATTATTTTTATATTTT-TCCTATTTAATAAAATAAAAGTTGCTTTA
60256041 AATAT-TTTAATAGTC-AATTATTTTTATATTTTGTCCTATTTAATAAAATA
1 AATATATTTAATA--CAAATTATTTTTATATTTT-TCCTATTTAATAAAATA
60256091 TTTTTTTTTT
Statistics
Matches: 96, Mismatches: 7, Indels: 12
0.83 0.06 0.10
Matches are distributed among these distances:
58 2 0.02
59 32 0.33
60 10 0.10
61 51 0.53
62 1 0.01
ACGTcount: A:0.39, C:0.06, G:0.05, T:0.50
Consensus pattern (61 bp):
AATATATTTAATACAAATTATTTTTATATTTTTCCTATTTAATAAAATAAAAGTTGCTTTA
Found at i:60259424 original size:22 final size:22
Alignment explanation
Indices: 60259396--60259445 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
60259386 AAAAAACATC
60259396 CATTTGGGAGCTTTTTTTAGTA
1 CATTTGGGAGCTTTTTTTAGTA
60259418 CATTTGGGAGCTTTTTTTAGTA
1 CATTTGGGAGCTTTTTTTAGTA
*
60259440 CTTTTG
1 CATTTG
60259446 CTAACAGTGC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.16, C:0.10, G:0.22, T:0.52
Consensus pattern (22 bp):
CATTTGGGAGCTTTTTTTAGTA
Found at i:60259577 original size:124 final size:124
Alignment explanation
Indices: 60259425--60259698 Score: 433
Period size: 124 Copynumber: 2.2 Consensus size: 124
60259415 GTACATTTGG
* *
60259425 GAGCTTTTTTTAGTACTTTTGCTAACAGTGCATCCTGCTTGAAGCGTTTTTGACCCTATTTTTTT
1 GAGC-TTTTTTAGTACTTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTTGACCCTATTTTTTC
* *
60259490 AGAATCATCTTCTC-AAATTATTTTTTTAGAAACTACTGTAGAAAAATAGCGTCCAGCTGA
65 AGAACCATCTTCTCAAAATTA-TTTTTTAGAAACTACTGTAGAAAAATAGCATCCAGCTGA
* *
60259550 GAGCTTTTTTAGTACTTTTGCTGACAGTGCATCTTGCTTGAAGCGTTTTTTACCCTATTTTTTCA
1 GAGCTTTTTTAGTACTTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTTGACCCTATTTTTTCA
* *
60259615 GAACCATCTTCTCAAAATTATTTTTTAGAAATTACTGTAGAAAAATAGCATCCAGCTGG
66 GAACCATCTTCTCAAAATTATTTTTTAGAAACTACTGTAGAAAAATAGCATCCAGCTGA
*
60259674 GAGCTTTTTTCAATACTTTTGCTGA
1 GAGCTTTTTT-AGTACTTTTGCTGA
60259699 GTGAACAAAA
Statistics
Matches: 138, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
124 115 0.83
125 23 0.17
ACGTcount: A:0.26, C:0.18, G:0.15, T:0.41
Consensus pattern (124 bp):
GAGCTTTTTTAGTACTTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTTGACCCTATTTTTTCA
GAACCATCTTCTCAAAATTATTTTTTAGAAACTACTGTAGAAAAATAGCATCCAGCTGA
Found at i:60259815 original size:28 final size:29
Alignment explanation
Indices: 60259784--60259838 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 29
60259774 ATCTTAAAAC
60259784 CCTAAACAGAAATTTA-TTTTTAAAAATT
1 CCTAAACAGAAATTTATTTTTTAAAAATT
***
60259812 CCTAAACCTTAATTTATTTTTTAAAAA
1 CCTAAACAGAAATTTATTTTTTAAAAA
60259839 CAATAAACCC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 13 0.57
29 10 0.43
ACGTcount: A:0.44, C:0.13, G:0.02, T:0.42
Consensus pattern (29 bp):
CCTAAACAGAAATTTATTTTTTAAAAATT
Found at i:60259862 original size:33 final size:34
Alignment explanation
Indices: 60259820--60259889 Score: 115
Period size: 34 Copynumber: 2.1 Consensus size: 34
60259810 TTCCTAAACC
60259820 TTAATTTA-TTTTTTAAAAACAATAAACCCTAAT
1 TTAATTTATTTTTTTAAAAACAATAAACCCTAAT
* *
60259853 TTAATTTATTTTTTTAAAAACCATAAACCTTAAT
1 TTAATTTATTTTTTTAAAAACAATAAACCCTAAT
60259887 TTA
1 TTA
60259890 TTTGCTCCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
33 8 0.24
34 26 0.76
ACGTcount: A:0.43, C:0.11, G:0.00, T:0.46
Consensus pattern (34 bp):
TTAATTTATTTTTTTAAAAACAATAAACCCTAAT
Found at i:60261520 original size:19 final size:18
Alignment explanation
Indices: 60261471--60261521 Score: 59
Period size: 17 Copynumber: 2.8 Consensus size: 18
60261461 TTAAGGTATG
60261471 ATTATATTAAAATATAATA
1 ATTA-ATTAAAATATAATA
* *
60261490 A-AAATTATAATATAATTA
1 ATTAATTAAAATATAA-TA
60261508 ATTAATTAAAATAT
1 ATTAATTAAAATAT
60261522 TTTTATAACT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
17 11 0.42
18 4 0.15
19 11 0.42
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
ATTAATTAAAATATAATA
Found at i:60261629 original size:19 final size:20
Alignment explanation
Indices: 60261584--60261629 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
60261574 AGAATTTAAT
60261584 ATAACAATAATAAATAGAATA
1 ATAA-AATAATAAATAGAATA
* *
60261605 AT-AAATAATTAATA-AATG
1 ATAAAATAATAAATAGAATA
60261623 ATAAAAT
1 ATAAAAT
60261630 TATTCTTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 5 0.23
19 14 0.64
20 1 0.05
21 2 0.09
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.28
Consensus pattern (20 bp):
ATAAAATAATAAATAGAATA
Found at i:60264057 original size:19 final size:19
Alignment explanation
Indices: 60264029--60264066 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
60264019 AATTTTTTAT
60264029 TTATAAAATTAAATAATAA
1 TTATAAAATTAAATAATAA
* *
60264048 TTATATAATTATATAATAA
1 TTATAAAATTAAATAATAA
60264067 AAATATATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
TTATAAAATTAAATAATAA
Found at i:60264059 original size:27 final size:27
Alignment explanation
Indices: 60264010--60264080 Score: 74
Period size: 27 Copynumber: 2.7 Consensus size: 27
60264000 ATTCATCTTT
* * * *
60264010 TTAATTAATAATTTTTTATTTATAAAA
1 TTAAATAATAATTATATAATTATAAAA
*
60264037 TTAAATAATAATTATATAATTATATAA
1 TTAAATAATAATTATATAATTATAAAA
60264064 -TAAA-AATATATTATATA
1 TTAAATAATA-ATTATATA
60264081 TATCATTATG
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
25 4 0.11
26 12 0.32
27 22 0.58
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (27 bp):
TTAAATAATAATTATATAATTATAAAA
Found at i:60264072 original size:19 final size:19
Alignment explanation
Indices: 60264035--60264080 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
60264025 TTATTTATAA
* **
60264035 AATTAAATAATAATTATAT
1 AATTATATAATAAAAATAT
60264054 AATTATATAATAAAAATAT
1 AATTATATAATAAAAATAT
60264073 -ATTATATA
1 AATTATATA
60264081 TATCATTATG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 8 0.33
19 16 0.67
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
AATTATATAATAAAAATAT
Found at i:60264082 original size:22 final size:22
Alignment explanation
Indices: 60264040--60264083 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
60264030 TATAAAATTA
*
60264040 AATAATAATTATATAATTATAT
1 AATAATAAATATATAATTATAT
*
60264062 AATAA-AAATATATTATATATAT
1 AATAATAAATATATAAT-TATAT
60264084 CATTATGTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
AATAATAAATATATAATTATAT
Found at i:60264667 original size:185 final size:187
Alignment explanation
Indices: 60264454--60264825 Score: 649
Period size: 185 Copynumber: 2.0 Consensus size: 187
60264444 TTGAAAAATA
* *
60264454 AATATTACACATATAAAAATTAAATTTACTAAAAATAATGATATTTATAATAATTATTTGATGTT
1 AATATTACACATATAAAAAATAAATTTACTAAAAATAATGATATTTATAATAATTATTCGATGTT
60264519 ATAAATAAAAGAATTATTAATTAAAAAT-AAAAAAATTGAAAACAATACATTTATTAATT-AAAA
66 ATAAATAAAAGAATTATTAATTAAAAATAAAAAAAATTGAAAACAATACATTTATTAATTAAAAA
*
60264582 AAAGCTTAAAATAACATGAAATAAAAATTACAAATGTGTTTAGAAAAGGAATTGGAC
131 AAAGCTTAAAACAACATGAAATAAAAATTACAAATGTGTTTAGAAAAGGAATTGGAC
*
60264639 AATATTACACATATAAAAAATAAATTTACTAAAAATAATGATATTTATAATAATTATTCGATTTT
1 AATATTACACATATAAAAAATAAATTTACTAAAAATAATGATATTTATAATAATTATTCGATGTT
* * *
60264704 ATAAATAAAAGAGTTATTAATTAAAAGTAAAAAAAATTGAAAACAATATATTTATTAATTAAAAA
66 ATAAATAAAAGAATTATTAATTAAAAATAAAAAAAATTGAAAACAATACATTTATTAATTAAAAA
* *
60264769 AAAGCTTAAAACAATATGAAATAAAAATTACAAATGTGTTTAGAAAATGAATTGGAC
131 AAAGCTTAAAACAACATGAAATAAAAATTACAAATGTGTTTAGAAAAGGAATTGGAC
60264826 CTAAGATTCA
Statistics
Matches: 176, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
185 88 0.50
186 30 0.17
187 58 0.33
ACGTcount: A:0.55, C:0.05, G:0.08, T:0.33
Consensus pattern (187 bp):
AATATTACACATATAAAAAATAAATTTACTAAAAATAATGATATTTATAATAATTATTCGATGTT
ATAAATAAAAGAATTATTAATTAAAAATAAAAAAAATTGAAAACAATACATTTATTAATTAAAAA
AAAGCTTAAAACAACATGAAATAAAAATTACAAATGTGTTTAGAAAAGGAATTGGAC
Found at i:60269599 original size:2 final size:2
Alignment explanation
Indices: 60269594--60269628 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
60269584 AATCTTTTTT
60269594 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
60269629 TTATATATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:60282174 original size:19 final size:18
Alignment explanation
Indices: 60282149--60282201 Score: 54
Period size: 19 Copynumber: 2.9 Consensus size: 18
60282139 TATATATACT
60282149 AAATAAATTAATAATAAA
1 AAATAAATTAATAATAAA
* *
60282167 ATAATAAAATAATATTTAAA
1 A-AATAAATTAATA-ATAAA
*
60282187 AATTAAATTAA-AATA
1 AAATAAATTAATAATA
60282202 TTAATAAACT
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
17 2 0.07
18 2 0.07
19 19 0.68
20 5 0.18
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
AAATAAATTAATAATAAA
Found at i:60282898 original size:59 final size:59
Alignment explanation
Indices: 60282778--60282891 Score: 210
Period size: 59 Copynumber: 1.9 Consensus size: 59
60282768 AACATAATTG
* *
60282778 GGGATTTTAATCTATGAGCTATTTCATACTTAAGAAAATTTTGAAAGATAACACAACTA
1 GGGATTTTAATCCACGAGCTATTTCATACTTAAGAAAATTTTGAAAGATAACACAACTA
60282837 GGGATTTTAATCCACGAGCTATTTCATACTTAAGAAAATTTTGAAAGATAACACA
1 GGGATTTTAATCCACGAGCTATTTCATACTTAAGAAAATTTTGAAAGATAACACA
60282892 GTTAGGGCTT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
59 53 1.00
ACGTcount: A:0.40, C:0.13, G:0.14, T:0.32
Consensus pattern (59 bp):
GGGATTTTAATCCACGAGCTATTTCATACTTAAGAAAATTTTGAAAGATAACACAACTA
Found at i:60283032 original size:69 final size:69
Alignment explanation
Indices: 60282913--60283098 Score: 248
Period size: 69 Copynumber: 2.7 Consensus size: 69
60282903 TCAACTTTCA
* * * * * **
60282913 CTAACTGTGTTGGAGGCTACGACTCTTCGCCTGCTAGCCTTAATACGATAGCTGGGAGTTTTGCT
1 CTAACTGTGTTGGAGGCTGCGACTCTTCGCCTGCAAGCCTTGATATGATAGCTGAGAGCATTGCT
60282978 -TCTG
66 CTC-G
* * *
60282982 CTAACTGTGTTGGAGGCTGCGACTTTTCACCTGCAAGCTTTGATATGATAGCTGAGAGCATTGCT
1 CTAACTGTGTTGGAGGCTGCGACTCTTCGCCTGCAAGCCTTGATATGATAGCTGAGAGCATTGCT
60283047 CTCG
66 CTCG
* *
60283051 CTAATTGTGTTGGAGGCTGCGACTCTTCGCCTGCGAGCCTTGATATGA
1 CTAACTGTGTTGGAGGCTGCGACTCTTCGCCTGCAAGCCTTGATATGA
60283099 CACAACTACT
Statistics
Matches: 101, Mismatches: 15, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
69 99 0.98
70 2 0.02
ACGTcount: A:0.18, C:0.23, G:0.27, T:0.32
Consensus pattern (69 bp):
CTAACTGTGTTGGAGGCTGCGACTCTTCGCCTGCAAGCCTTGATATGATAGCTGAGAGCATTGCT
CTCG
Found at i:60288710 original size:17 final size:17
Alignment explanation
Indices: 60288685--60288722 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
60288675 TGAATTTTGG
*
60288685 TTTTTTTTCTTTC-TCT
1 TTTTTTTTCCTTCTTCT
60288701 TTTTTCTTTCCTTCTTCT
1 TTTTT-TTTCCTTCTTCT
60288719 TTTT
1 TTTT
60288723 GTTGGGGCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 5 0.26
17 7 0.37
18 7 0.37
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTTTTTCCTTCTTCT
Found at i:60288959 original size:10 final size:10
Alignment explanation
Indices: 60288941--60288974 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
60288931 TTAGTATTCG
*
60288941 AAATTAAAAT
1 AAATAAAAAT
*
60288951 AAATAAAAAC
1 AAATAAAAAT
60288961 AAATAAAAAT
1 AAATAAAAAT
60288971 AAAT
1 AAAT
60288975 GTGAGTTACT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (10 bp):
AAATAAAAAT
Found at i:60300687 original size:104 final size:104
Alignment explanation
Indices: 60300538--60300751 Score: 365
Period size: 104 Copynumber: 2.1 Consensus size: 104
60300528 AAAAAGAAAA
* * * *
60300538 GAAAGCTTTTTCTAGTTTTATATTTTTATTCAATTGATTCGAGTCCACACTCGAAGAAGTTCGTG
1 GAAAACTTTTTCTAGTTCTATATTTTGATTCAATTGATTCAAGTCCACACTCGAAGAAGTTCGTG
*
60300603 GTACAAGAATAGAGTAGAAGATTGTTTGGGTGAAGGATG
66 GTACAAGAATAGAGTAGAAGATTGTTTGGGTGAAAGATG
60300642 GAAAACTTTTTCTAGTTCTATATTTTGATTCAATTGATTCAAGTCCACACTCGAAGAAGTTCGTG
1 GAAAACTTTTTCTAGTTCTATATTTTGATTCAATTGATTCAAGTCCACACTCGAAGAAGTTCGTG
* *
60300707 GTACAAGAATAGAGTAGAAGATTGTTTGGTTGAAAGCTG
66 GTACAAGAATAGAGTAGAAGATTGTTTGGGTGAAAGATG
60300746 GAAAAC
1 GAAAAC
60300752 ATCAATGATC
Statistics
Matches: 103, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
104 103 1.00
ACGTcount: A:0.32, C:0.12, G:0.22, T:0.34
Consensus pattern (104 bp):
GAAAACTTTTTCTAGTTCTATATTTTGATTCAATTGATTCAAGTCCACACTCGAAGAAGTTCGTG
GTACAAGAATAGAGTAGAAGATTGTTTGGGTGAAAGATG
Found at i:60303223 original size:14 final size:14
Alignment explanation
Indices: 60303204--60303244 Score: 57
Period size: 13 Copynumber: 3.0 Consensus size: 14
60303194 GGTGCTGTAG
*
60303204 CTTCTTCTTCTTTT
1 CTTCTTTTTCTTTT
60303218 CTTCTTTTTC-TTT
1 CTTCTTTTTCTTTT
*
60303231 CTTTTTTTTCTTTT
1 CTTCTTTTTCTTTT
60303245 TGCATGCTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 12 0.50
14 12 0.50
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (14 bp):
CTTCTTTTTCTTTT
Found at i:60303228 original size:9 final size:9
Alignment explanation
Indices: 60303208--60303245 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
60303198 CTGTAGCTTC
60303208 TTCTTC-TT
1 TTCTTCTTT
60303216 TTCTTCTTT
1 TTCTTCTTT
60303225 TTCTTTCTTT
1 TTC-TTCTTT
*
60303235 TTTTTCTTT
1 TTCTTCTTT
60303244 TT
1 TT
60303246 GCATGCTATC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
8 6 0.22
9 13 0.48
10 8 0.30
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (9 bp):
TTCTTCTTT
Found at i:60323268 original size:12 final size:12
Alignment explanation
Indices: 60323251--60323278 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
60323241 CAAGCAAAGT
60323251 AGAAAAAAAAAA
1 AGAAAAAAAAAA
60323263 AGAAAAAAAAAA
1 AGAAAAAAAAAA
60323275 AGAA
1 AGAA
60323279 TGAGGACTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (12 bp):
AGAAAAAAAAAA
Found at i:60328269 original size:17 final size:18
Alignment explanation
Indices: 60328233--60328270 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
60328223 ACTTACTAAG
* *
60328233 TCTTTTGCATCATCTTTC
1 TCTTTTGCAACATATTTC
60328251 TCTTTTGCAAC-TATTTC
1 TCTTTTGCAACATATTTC
60328268 TCT
1 TCT
60328271 CACCATAATG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.13, C:0.26, G:0.05, T:0.55
Consensus pattern (18 bp):
TCTTTTGCAACATATTTC
Found at i:60330139 original size:21 final size:22
Alignment explanation
Indices: 60330107--60330147 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
60330097 CTTTTTCTTC
60330107 TTCTTTTACTTTTT-CTTTTGT
1 TTCTTTTACTTTTTCCTTTTGT
60330128 TTCTGTTT-CTTTTTCCTTTT
1 TTCT-TTTACTTTTTCCTTTT
60330148 CTTTTACTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.02, C:0.17, G:0.05, T:0.76
Consensus pattern (22 bp):
TTCTTTTACTTTTTCCTTTTGT
Found at i:60338216 original size:16 final size:18
Alignment explanation
Indices: 60338195--60338227 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
60338185 CTAAACCCTA
60338195 AACCCT-AAAA-ATAAAG
1 AACCCTCAAAACATAAAG
60338211 AACCCTCAAAACATAAA
1 AACCCTCAAAACATAAA
60338228 CACAAAATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 4 0.27
18 5 0.33
ACGTcount: A:0.61, C:0.24, G:0.03, T:0.12
Consensus pattern (18 bp):
AACCCTCAAAACATAAAG
Found at i:60350942 original size:24 final size:24
Alignment explanation
Indices: 60350915--60350977 Score: 72
Period size: 25 Copynumber: 2.6 Consensus size: 24
60350905 CAGCTCGAAA
*
60350915 GAGCATCTCGTTATTAGCTCTCAT
1 GAGCATCTCGTTATTAGCTCTCAC
* *
60350939 GAGCATCTCGGTATTTGGCTCTCAC
1 GAGCATCTCGTTA-TTAGCTCTCAC
* *
60350964 GAGCTTCCCGTTAT
1 GAGCATCTCGTTAT
60350978 ATGCTTCTTC
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
24 13 0.41
25 19 0.59
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (24 bp):
GAGCATCTCGTTATTAGCTCTCAC
Found at i:60351197 original size:24 final size:25
Alignment explanation
Indices: 60351143--60351248 Score: 73
Period size: 25 Copynumber: 4.3 Consensus size: 25
60351133 TAGCTTTCCG
*
60351143 GAGCTTCCCGA-TATTGGGTCACT-T
1 GAGCTTCCCGATTA-TGGCTCACTAT
*
60351167 GAACTTCCCGATTATGGCTC-CTAT
1 GAGCTTCCCGATTATGGCTCACTAT
* *
60351191 GAGCTTCCCGTTATATAGCTCGA--AT
1 GAGCTTCCCGAT-TATGGCTC-ACTAT
*
60351216 GAGCTTCCTG-TTACATGGCTCAC-AT
1 GAGCTTCCCGATT--ATGGCTCACTAT
60351241 GAGCTTCC
1 GAGCTTCC
60351249 AGTTATATGG
Statistics
Matches: 67, Mismatches: 7, Indels: 15
0.75 0.08 0.17
Matches are distributed among these distances:
23 3 0.04
24 28 0.42
25 36 0.54
ACGTcount: A:0.20, C:0.27, G:0.21, T:0.32
Consensus pattern (25 bp):
GAGCTTCCCGATTATGGCTCACTAT
Found at i:60351243 original size:50 final size:52
Alignment explanation
Indices: 60351180--60351279 Score: 134
Period size: 50 Copynumber: 2.0 Consensus size: 52
60351170 CTTCCCGATT
* *
60351180 ATGGCTCCTATGAGCTTCCCGTTATATAGCTCGA-A-TGAGCTTCCTGTTAC
1 ATGGCTCCTATGAGCTTCCAGTTATATAGCTCGAGAGAGAGCTTCCTGTTAC
* *
60351230 ATGGCTCAC-ATGAGCTTCCAGTTATATGGCTTGAGAGAGAGCTTCCTGTT
1 ATGGCTC-CTATGAGCTTCCAGTTATATAGCTCGAGAGAGAGCTTCCTGTT
60351280 TATATACTCA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
50 29 0.67
51 2 0.05
52 12 0.28
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.33
Consensus pattern (52 bp):
ATGGCTCCTATGAGCTTCCAGTTATATAGCTCGAGAGAGAGCTTCCTGTTAC
Found at i:60351258 original size:25 final size:25
Alignment explanation
Indices: 60351179--60351260 Score: 96
Period size: 25 Copynumber: 3.3 Consensus size: 25
60351169 ACTTCCCGAT
*
60351179 TATGGCTC-CTATGAGCTTCCCGTTA
1 TATGGCTCAC-ATGAGCTTCCAGTTA
* *
60351204 TATAGCTCGA-ATGAGCTTCCTGTTA
1 TATGGCTC-ACATGAGCTTCCAGTTA
*
60351229 CATGGCTCACATGAGCTTCCAGTTA
1 TATGGCTCACATGAGCTTCCAGTTA
60351254 TATGGCT
1 TATGGCT
60351261 TGAGAGAGAG
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
24 1 0.02
25 47 0.98
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.34
Consensus pattern (25 bp):
TATGGCTCACATGAGCTTCCAGTTA
Found at i:60352492 original size:16 final size:16
Alignment explanation
Indices: 60352471--60352506 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
60352461 TTTGGTTCGT
60352471 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
60352487 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
60352503 TGTA
1 TGTA
60352507 ATAGCAAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:60352863 original size:120 final size:120
Alignment explanation
Indices: 60352725--60353298 Score: 1051
Period size: 120 Copynumber: 4.8 Consensus size: 120
60352715 TTAATCATAT
*
60352725 TTAAACATAATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATT
1 TTAAATAT-ATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATT
60352790 AATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTA
65 AATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTA
*
60352846 TTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTTTATTA
1 TTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATTA
60352911 ATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTA
66 ATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTA
*
60352966 TTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTTTATTA
1 TTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATTA
60353031 ATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTA
66 ATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTA
** * *
60353086 TTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCAACAAAGT
1 TTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTC-TTATATT
60353151 AATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTA
65 AATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTA
*
60353207 TTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTCATATTCTTATA-TA
1 TTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATTA
60353271 ATTTACTCAAATCATAATATATGATACT
66 ATTTACTCAAATCATAATATATGATACT
60353299 ATAATTAATA
Statistics
Matches: 441, Mismatches: 11, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
119 30 0.07
120 290 0.66
121 121 0.27
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (120 bp):
TTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATTA
ATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTA
Found at i:60352871 original size:18 final size:17
Alignment explanation
Indices: 60352850--60352884 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
60352840 TTATTATTAA
*
60352850 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
60352868 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
60352885 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:60352991 original size:18 final size:17
Alignment explanation
Indices: 60352970--60353004 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
60352960 TTATTATTAA
*
60352970 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
60352988 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
60353005 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:60353111 original size:18 final size:17
Alignment explanation
Indices: 60353090--60353124 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
60353080 TTATTATTAA
*
60353090 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
60353108 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
60353125 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:60353232 original size:18 final size:17
Alignment explanation
Indices: 60353211--60353245 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
60353201 TTATTATTAA
*
60353211 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
60353229 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
60353246 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:60353374 original size:26 final size:27
Alignment explanation
Indices: 60353299--60353380 Score: 87
Period size: 26 Copynumber: 3.0 Consensus size: 27
60353289 ATATGATACT
* *
60353299 ATAATTAATATTAAATATATTTTAATTA
1 ATAATTATTATTAAATATAATTTAA-TA
* *
60353327 A-AATATATGATTAAATACAATTTAA-A
1 ATAAT-TATTATTAAATATAATTTAATA
*
60353353 ATAATTATTATTAAATATAATTTCATA
1 ATAATTATTATTAAATATAATTTAATA
60353380 A
1 A
60353381 AATGTTCTTA
Statistics
Matches: 44, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
26 19 0.43
27 8 0.18
28 17 0.39
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.44
Consensus pattern (27 bp):
ATAATTATTATTAAATATAATTTAATA
Found at i:60353401 original size:102 final size:102
Alignment explanation
Indices: 60353197--60353383 Score: 247
Period size: 102 Copynumber: 1.8 Consensus size: 102
60353187 ATAAATTAAC
* * *
60353197 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTCATAT
1 ATAATTAATATTAAATATATTTTAATTAAAATATATAATTAAATAAAATTCTAAATAATTCATAT
** *
60353262 TCTTATATAATTTACTCAAATCATAATATATGATACT
66 TCAAATATAATTTACTAAAATCATAATATATGATACT
* *
60353299 ATAATTAATATTAAATATATTTTAATTAAAATATATGATTAAATACAATT-TAAAATAATT-ATT
1 ATAATTAATATTAAATATATTTTAATTAAAATATATAATTAAATAAAATTCT-AAATAATTCA-T
60353362 ATT-AAATATAATTT-CATAAAAT
64 ATTCAAATATAATTTAC-TAAAAT
60353384 GTTCTTATGA
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
100 1 0.01
101 16 0.22
102 57 0.77
ACGTcount: A:0.49, C:0.05, G:0.01, T:0.45
Consensus pattern (102 bp):
ATAATTAATATTAAATATATTTTAATTAAAATATATAATTAAATAAAATTCTAAATAATTCATAT
TCAAATATAATTTACTAAAATCATAATATATGATACT
Found at i:60356500 original size:51 final size:51
Alignment explanation
Indices: 60356424--60356526 Score: 197
Period size: 51 Copynumber: 2.0 Consensus size: 51
60356414 CTAAAATTAC
*
60356424 TTGTTGGTTTAATTTTATTTACCCTAAAAAACATTGTTGGTGTATGTATAA
1 TTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGTTGGTGTATGTATAA
60356475 TTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGTTGGTGTATGTATAA
1 TTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGTTGGTGTATGTATAA
60356526 T
1 T
60356527 CTTTTAATTT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.29, C:0.08, G:0.17, T:0.47
Consensus pattern (51 bp):
TTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGTTGGTGTATGTATAA
Found at i:60370409 original size:30 final size:30
Alignment explanation
Indices: 60370359--60370482 Score: 178
Period size: 30 Copynumber: 4.1 Consensus size: 30
60370349 TCCATATTTA
* *
60370359 TGGAAAATCAAATG-TATGGGTATCAAATAA
1 TGGAAAGTCAAA-GATATGGGTATCAAATAT
* *
60370389 TAGAAAGTTAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
60370419 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
60370449 TGGAAAGTCAAAGATATGGGTATCGAGATAT
1 TGGAAAGTCAAAGATATGGGTATC-AAATAT
60370480 TGG
1 TGG
60370483 CATAATAAAA
Statistics
Matches: 85, Mismatches: 7, Indels: 3
0.89 0.07 0.03
Matches are distributed among these distances:
29 1 0.01
30 76 0.89
31 8 0.09
ACGTcount: A:0.43, C:0.06, G:0.24, T:0.27
Consensus pattern (30 bp):
TGGAAAGTCAAAGATATGGGTATCAAATAT
Found at i:60370444 original size:15 final size:15
Alignment explanation
Indices: 60370398--60370472 Score: 64
Period size: 15 Copynumber: 5.0 Consensus size: 15
60370388 ATAGAAAGTT
60370398 AAAGATATGGGTATC
1 AAAGATATGGGTATC
* **
60370413 AAATAT-TGGAAAGTC
1 AAAGATATGGGTA-TC
60370428 AAAGATATGGGTATC
1 AAAGATATGGGTATC
* **
60370443 AAATAT-TGGAAAGTC
1 AAAGATATGGGTA-TC
60370458 AAAGATATGGGTATC
1 AAAGATATGGGTATC
60370473 GAGATATTGG
Statistics
Matches: 44, Mismatches: 12, Indels: 8
0.69 0.19 0.12
Matches are distributed among these distances:
14 8 0.18
15 28 0.64
16 8 0.18
ACGTcount: A:0.43, C:0.07, G:0.24, T:0.27
Consensus pattern (15 bp):
AAAGATATGGGTATC
Found at i:60375079 original size:15 final size:15
Alignment explanation
Indices: 60375059--60375166 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
60375049 TTTATGGAAA
60375059 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* * **
60375074 ATCAAATA-ATAGAA
1 ATCAAAGATATGGGT
60375088 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
60375104 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
60375118 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
60375134 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
60375148 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
60375164 ATC
1 ATC
60375167 GAGATATTGG
Statistics
Matches: 67, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
14 12 0.18
15 43 0.64
16 12 0.18
ACGTcount: A:0.44, C:0.07, G:0.22, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:60375096 original size:30 final size:30
Alignment explanation
Indices: 60375053--60375176 Score: 203
Period size: 30 Copynumber: 4.1 Consensus size: 30
60375043 TCCATATTTA
* *
60375053 TGGAAAATCAAAGATATGGGTATCAAATAA
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
60375083 TAGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
60375113 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
60375143 TGGAAAGTCAAAGATATGGGTATCGAGATAT
1 TGGAAAGTCAAAGATATGGGTATC-AAATAT
60375174 TGG
1 TGG
60375177 CATAATAAAA
Statistics
Matches: 88, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 80 0.91
31 8 0.09
ACGTcount: A:0.44, C:0.06, G:0.24, T:0.26
Consensus pattern (30 bp):
TGGAAAGTCAAAGATATGGGTATCAAATAT
Found at i:60392236 original size:36 final size:36
Alignment explanation
Indices: 60392177--60392248 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
60392167 CATAAAAGGT
* *
60392177 AACGAAAAATGGTCCTTCCGAGTGGCTTTCTTCAGC
1 AACGAAAAACGGTCATTCCGAGTGGCTTTCTTCAGC
*
60392213 AACGAAAAACGGTCATTCTGAGTGGCTTTCTTCAGC
1 AACGAAAAACGGTCATTCCGAGTGGCTTTCTTCAGC
60392249 TTTCTGTAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (36 bp):
AACGAAAAACGGTCATTCCGAGTGGCTTTCTTCAGC
Found at i:60399625 original size:101 final size:100
Alignment explanation
Indices: 60399450--60399632 Score: 276
Period size: 101 Copynumber: 1.8 Consensus size: 100
60399440 GATCCCGTAT
** * * *
60399450 AAGACCATAACTGGGTTATGACACTCTGAACGTAAGACCATGGTTGGACCATGGCAGTGTTTATA
1 AAGACCATAACCAGGTTATGACACTATGAACGTAAGACCATGGTTGGACCATGACAGAGTTTATA
60399515 TATAAGACCATAGCTGGGTTATGCCATTCTGATGAG
66 TATAAGACCATAG-TGGGTTATGCCATTCTGATGAG
** *
60399551 AAGACCATAACCAGGTTATGGTACTATGAACGTAAGACCATGGTTGGACCATGACAGAGTTTATG
1 AAGACCATAACCAGGTTATGACACTATGAACGTAAGACCATGGTTGGACCATGACAGAGTTTATA
*
60399616 TGTAAGACCATAGTGGG
66 TATAAGACCATAGTGGG
60399633 ACTATTGGCA
Statistics
Matches: 73, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
100 4 0.05
101 69 0.95
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (100 bp):
AAGACCATAACCAGGTTATGACACTATGAACGTAAGACCATGGTTGGACCATGACAGAGTTTATA
TATAAGACCATAGTGGGTTATGCCATTCTGATGAG
Found at i:60399681 original size:43 final size:42
Alignment explanation
Indices: 60399615--60399756 Score: 194
Period size: 43 Copynumber: 3.3 Consensus size: 42
60399605 CAGAGTTTAT
*
60399615 GTGTAAGACCATAGTGGGACTATTGGCATCGATTTGAGATTTC
1 GTGTAAGACCATAGTGGG-CTATTGGCATCGATATGAGATTTC
* *
60399658 GTGTAAGACCATAGCTGGGCTATTGACATCGATATGAGATTTT
1 GTGTAAGACCATAG-TGGGCTATTGGCATCGATATGAGATTTC
* *
60399701 GTGTAAGACCATAGATGGGCTAGTGGCATCGATACGAGATTTCC
1 GTGTAAGACCATAG-TGGGCTATTGGCATCGATATGAGATTT-C
*
60399745 ATGTAAGACCAT
1 GTGTAAGACCAT
60399757 GAATGGGACA
Statistics
Matches: 88, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
43 73 0.83
44 15 0.17
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (42 bp):
GTGTAAGACCATAGTGGGCTATTGGCATCGATATGAGATTTC
Found at i:60402230 original size:20 final size:20
Alignment explanation
Indices: 60402207--60402249 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
60402197 AACTATTTAA
** *
60402207 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
60402227 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
60402247 ATA
1 ATA
60402250 TTCTTATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:60409907 original size:43 final size:43
Alignment explanation
Indices: 60409860--60409983 Score: 153
Period size: 43 Copynumber: 2.9 Consensus size: 43
60409850 GTAATCTTGC
* *
60409860 ATCGATGCCAATAGCCCAGCCATGGTGTTACACGAAATCACAT
1 ATCGATGCCAATAGCCCAGACATGGTCTTACACGAAATCACAT
* *
60409903 ATCGATGCCAAT-GTCCCAGACATGGTCTTACACGAAGTCTCAT
1 ATCGATGCCAATAG-CCCAGACATGGTCTTACACGAAATCACAT
* * * *
60409946 ATCGATG-CAATATCCCAGATATGGCCTTACACGTAATC
1 ATCGATGCCAATAGCCCAGACATGGTCTTACACGAAATC
60409984 TCGGTAACCT
Statistics
Matches: 70, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
42 26 0.37
43 44 0.63
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (43 bp):
ATCGATGCCAATAGCCCAGACATGGTCTTACACGAAATCACAT
Found at i:60416173 original size:43 final size:43
Alignment explanation
Indices: 60416125--60416272 Score: 149
Period size: 43 Copynumber: 3.5 Consensus size: 43
60416115 TATCCCAGGT
* * * *
60416125 ATGGTCTTACATGTAATCTCGTATCGATGCCAATAGCCTAGCC
1 ATGGTCTTACACGTAATCTCATATCGATGCCAATAGCCCAGAC
* * *
60416168 ATGGTCCTACACGAAATCACATATCGATGCCAAT-GTCCCAGAC
1 ATGGTCTTACACGTAATCTCATATCGATGCCAATAG-CCCAGAC
* * * * *
60416211 ATGGCCTTACATG-AAGTCTCATATCAATGCC-ATATCCCAGAT
1 ATGGTCTTACACGTAA-TCTCATATCGATGCCAATAGCCCAGAC
60416253 ATGGTCTTACACGTAATCTC
1 ATGGTCTTACACGTAATCTC
60416273 GGTAACCCTA
Statistics
Matches: 85, Mismatches: 16, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
42 26 0.31
43 59 0.69
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (43 bp):
ATGGTCTTACACGTAATCTCATATCGATGCCAATAGCCCAGAC
Found at i:60421412 original size:22 final size:23
Alignment explanation
Indices: 60421382--60421424 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
60421372 AGTTTTCTAA
*
60421382 ATAATATTTTAATTTTAATTATC
1 ATAATATTTTAATGTTAATTATC
*
60421405 ATAA-ATTTTTATGTTAATTA
1 ATAATATTTTAATGTTAATTA
60421425 ATTAAATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (23 bp):
ATAATATTTTAATGTTAATTATC
Found at i:60429066 original size:29 final size:29
Alignment explanation
Indices: 60429034--60429091 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
60429024 CAAAGGAGAA
60429034 AGAAAAATTCTAAAAAGGTGGTCTTTTTT
1 AGAAAAATTCTAAAAAGGTGGTCTTTTTT
*
60429063 AGAAAAATTCTAAAAAGGTGGTTTTTTTT
1 AGAAAAATTCTAAAAAGGTGGTCTTTTTT
60429092 CTTACACTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.38, C:0.05, G:0.17, T:0.40
Consensus pattern (29 bp):
AGAAAAATTCTAAAAAGGTGGTCTTTTTT
Found at i:60436850 original size:16 final size:16
Alignment explanation
Indices: 60436831--60436874 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
60436821 AAACAAAAAC
*
60436831 AAAAAAAAAATGAAAG
1 AAAACAAAAATGAAAG
** *
60436847 AAAACAATGATGCAAG
1 AAAACAAAAATGAAAG
60436863 AAAACAAAAATG
1 AAAACAAAAATG
60436875 GGATATCACC
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.70, C:0.07, G:0.14, T:0.09
Consensus pattern (16 bp):
AAAACAAAAATGAAAG
Found at i:60446356 original size:14 final size:13
Alignment explanation
Indices: 60446290--60446356 Score: 52
Period size: 14 Copynumber: 5.2 Consensus size: 13
60446280 TTTATTAATA
60446290 ATTTAT-TATATT
1 ATTTATATATATT
*
60446302 ATTCATCATATATT
1 ATTTAT-ATATATT
*
60446316 ACTATTTTATA-ATT
1 A-T-TTATATATATT
60446330 ATTTATAT-T-TT
1 ATTTATATATATT
60446341 ATTTACTATATATT
1 ATTTA-TATATATT
60446355 AT
1 AT
60446357 GAATATATTA
Statistics
Matches: 43, Mismatches: 4, Indels: 14
0.70 0.07 0.23
Matches are distributed among these distances:
11 7 0.16
12 13 0.30
13 2 0.05
14 15 0.35
15 4 0.09
16 2 0.05
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (13 bp):
ATTTATATATATT
Found at i:60447017 original size:17 final size:17
Alignment explanation
Indices: 60446984--60447017 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
60446974 TGTTATTTTG
**
60446984 AATTTTAAATTTTTAAA
1 AATTTTAAATTAATAAA
60447001 AATTTTAAATTAATAAA
1 AATTTTAAATTAATAAA
60447018 GATAAAATTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
AATTTTAAATTAATAAA
Found at i:60460673 original size:20 final size:20
Alignment explanation
Indices: 60460613--60460675 Score: 69
Period size: 20 Copynumber: 3.2 Consensus size: 20
60460603 TCCTGGAGCT
60460613 ATTAAGCACATTAAACATGA
1 ATTAAGCACATTAAACATGA
** *
60460633 ATT-AGTTCA-TAATA-TTGA
1 ATTAAGCACATTAA-ACATGA
60460651 ATTAAGCACATTAAACATGA
1 ATTAAGCACATTAAACATGA
60460671 ATTAA
1 ATTAA
60460676 TAACTGGAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
18 9 0.27
19 10 0.30
20 14 0.42
ACGTcount: A:0.48, C:0.11, G:0.10, T:0.32
Consensus pattern (20 bp):
ATTAAGCACATTAAACATGA
Found at i:60465828 original size:3 final size:3
Alignment explanation
Indices: 60465822--60465852 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
60465812 ATATATATAT
60465822 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
60465853 TAAATAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:60470673 original size:14 final size:14
Alignment explanation
Indices: 60470654--60470683 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
60470644 AGTGAGAGAG
*
60470654 GAGAGAAGAGTTGT
1 GAGAGAAGAGATGT
60470668 GAGAGAAGAGATGT
1 GAGAGAAGAGATGT
60470682 GA
1 GA
60470684 ATAAGGGATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.43, T:0.17
Consensus pattern (14 bp):
GAGAGAAGAGATGT
Found at i:60471227 original size:20 final size:22
Alignment explanation
Indices: 60471202--60471249 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
60471192 CGAATCAGTC
60471202 AAAAATAA-T-CAAAATTCACT
1 AAAAATAATTGCAAAATTCACT
* *
60471222 AAAAATAATTGTAAAATTGACT
1 AAAAATAATTGCAAAATTCACT
60471244 AAAAAT
1 AAAAAT
60471250 TAACATGTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 8 0.33
21 1 0.04
22 15 0.62
ACGTcount: A:0.60, C:0.08, G:0.04, T:0.27
Consensus pattern (22 bp):
AAAAATAATTGCAAAATTCACT
Found at i:60471286 original size:19 final size:19
Alignment explanation
Indices: 60471264--60471305 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
60471254 ATGTTAAAGT
* *
60471264 TTTTAATACAATTTAATTA
1 TTTTAATAAAAATTAATTA
60471283 TTTT-ATAAAAATTAATTA
1 TTTTAATAAAAATTAATTA
60471301 TTTTA
1 TTTTA
60471306 TGACAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (19 bp):
TTTTAATAAAAATTAATTA
Found at i:60476488 original size:30 final size:30
Alignment explanation
Indices: 60476447--60476771 Score: 416
Period size: 30 Copynumber: 10.8 Consensus size: 30
60476437 ATGTATACAT
*
60476447 ATACAAATCAATTCGGTAATGTATATCCAA
1 ATACAAATCAATTCGGCAATGTATATCCAA
* *
60476477 ATACGAATCAATTCGGCAATGTATATCCAT
1 ATACAAATCAATTCGGCAATGTATATCCAA
* * *
60476507 ATACAAATCAATTCAGCAATGTATATCTAT
1 ATACAAATCAATTCGGCAATGTATATCCAA
* * *
60476537 ATACAAATCAATTAGGTAATGTATATCTAA
1 ATACAAATCAATTCGGCAATGTATATCCAA
* * * *
60476567 TTACAAATCAATTCAGCAATGTATATCTAT
1 ATACAAATCAATTCGGCAATGTATATCCAA
*
60476597 ATACAAATAAATTCGGCAATGTATATCCAA
1 ATACAAATCAATTCGGCAATGTATATCCAA
* **
60476627 ATACGAATCAATTCAACAATGTATATCCAA
1 ATACAAATCAATTCGGCAATGTATATCCAA
* * *
60476657 ATACGAATCAATTCGGTAATGTATATTCAA
1 ATACAAATCAATTCGGCAATGTATATCCAA
* *
60476687 ATACAAATCAATTCGGCAATGTATATCTAT
1 ATACAAATCAATTCGGCAATGTATATCCAA
* *
60476717 ATACAAATCAATTTGACAATGTATATCCAA
1 ATACAAATCAATTCGGCAATGTATATCCAA
**
60476747 ATATGAATCAATTCGGCAATGTATA
1 ATACAAATCAATTCGGCAATGTATA
60476772 AAACATATAC
Statistics
Matches: 254, Mismatches: 41, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 254 1.00
ACGTcount: A:0.43, C:0.16, G:0.10, T:0.31
Consensus pattern (30 bp):
ATACAAATCAATTCGGCAATGTATATCCAA
Found at i:60476555 original size:90 final size:90
Alignment explanation
Indices: 60476437--60476771 Score: 460
Period size: 90 Copynumber: 3.7 Consensus size: 90
60476427 ATCAATATAT
* **
60476437 ATGTATA-C-ATATACAAATCAATTCGGTAATGTATATCCAAATACGAATCAATTCGGCAATGTA
1 ATGTATATCTATATACAAATCAATTAGACAATGTATATCCAAATACGAATCAATTCGGCAATGTA
*
60476500 TATCCATATACAAATCAATTCAGCA
66 TATCCATATACAAATCAATTCGGCA
** * * * *
60476525 ATGTATATCTATATACAAATCAATTAGGTAATGTATATCTAATTACAAATCAATTCAGCAATGTA
1 ATGTATATCTATATACAAATCAATTAGACAATGTATATCCAAATACGAATCAATTCGGCAATGTA
* *
60476590 TATCTATATACAAATAAATTCGGCA
66 TATCCATATACAAATCAATTCGGCA
* * * *
60476615 ATGTATATCCAAATACGAATCAATTCA-ACAATGTATATCCAAATACGAATCAATTCGGTAATGT
1 ATGTATATCTATATACAAATCAATT-AGACAATGTATATCCAAATACGAATCAATTCGGCAATGT
* *
60476679 ATATTCAAATACAAATCAATTCGGCA
65 ATATCCATATACAAATCAATTCGGCA
* *
60476705 ATGTATATCTATATACAAATCAATTTGACAATGTATATCCAAATATGAATCAATTCGGCAATGTA
1 ATGTATATCTATATACAAATCAATTAGACAATGTATATCCAAATACGAATCAATTCGGCAATGTA
60476770 TA
66 TA
60476772 AAACATATAC
Statistics
Matches: 215, Mismatches: 28, Indels: 6
0.86 0.11 0.02
Matches are distributed among these distances:
88 7 0.03
89 1 0.00
90 206 0.96
91 1 0.00
ACGTcount: A:0.43, C:0.16, G:0.10, T:0.32
Consensus pattern (90 bp):
ATGTATATCTATATACAAATCAATTAGACAATGTATATCCAAATACGAATCAATTCGGCAATGTA
TATCCATATACAAATCAATTCGGCA
Found at i:60479437 original size:27 final size:29
Alignment explanation
Indices: 60479388--60479446 Score: 86
Period size: 27 Copynumber: 2.0 Consensus size: 29
60479378 ATAGCAGTGA
60479388 ATGAATGATCAAACTATGGTGGAGCAAATGG
1 ATGAATGATCAAACTA--GTGGAGCAAATGG
60479419 ATGAATGATC-AACTA-TGGAGCAAATGG
1 ATGAATGATCAAACTAGTGGAGCAAATGG
60479446 A
1 A
60479447 GTTTCAATCT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
27 13 0.46
30 5 0.18
31 10 0.36
ACGTcount: A:0.41, C:0.10, G:0.27, T:0.22
Consensus pattern (29 bp):
ATGAATGATCAAACTAGTGGAGCAAATGG
Found at i:60492669 original size:20 final size:22
Alignment explanation
Indices: 60492627--60492670 Score: 63
Period size: 24 Copynumber: 2.0 Consensus size: 22
60492617 AGTTATGATT
60492627 AATTAAATAAAACTAATGTAAAAA
1 AATTAAATAAAACTAA--TAAAAA
60492651 AATTAAATAAAACTAA-AAAA
1 AATTAAATAAAACTAATAAAA
60492671 GATTATTATG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 4 0.20
24 16 0.80
ACGTcount: A:0.70, C:0.05, G:0.02, T:0.23
Consensus pattern (22 bp):
AATTAAATAAAACTAATAAAAA
Found at i:60494891 original size:24 final size:24
Alignment explanation
Indices: 60494862--60494910 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
60494852 CTAATCATTA
*
60494862 TTATCACTT-CTCTTACTATTATTT
1 TTATCA-TTACTCATACTATTATTT
*
60494886 TTATCATTACTCATATTATTATTT
1 TTATCATTACTCATACTATTATTT
60494910 T
1 T
60494911 ATTTTTACTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 2 0.09
24 20 0.91
ACGTcount: A:0.24, C:0.16, G:0.00, T:0.59
Consensus pattern (24 bp):
TTATCATTACTCATACTATTATTT
Found at i:60494937 original size:3 final size:3
Alignment explanation
Indices: 60494931--60494975 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
60494921 CTGCTACTAC
60494931 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
60494976 CATCATCATC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:60503160 original size:54 final size:52
Alignment explanation
Indices: 60502992--60503277 Score: 175
Period size: 54 Copynumber: 5.4 Consensus size: 52
60502982 GGGGTGTTAA
** *
60502992 CCATTAGTGTTCCAGTACCCC-AAATTTTTTTAATCTGGAAAAAGGGTGTCGG
1 CCATTAGTGTTCCAACACCCCAAAATTTTTTTAATCT-TAAAAAGGGTGTCGG
* * * * **
60503044 TCATTAATGTCCCAACA-CCCAAAATTTTTTTTAATCTTAAAAAGGGGTGCCAA
1 CCATTAGTGTTCCAACACCCCAAAA-TTTTTTTAATCTTAAAAA-GGGTGTCGG
* * * *
60503097 CCATCAGTGTTCCAACACCCCAAAACTTTTTTTAGTCTATAAAAATGGTGTTGG
1 CCATTAGTGTTCCAACACCCCAAAA-TTTTTTTAATCT-TAAAAAGGGTGTCGG
* * * ** * *
60503151 CCATTAGTGTTCTAATACCTCAATTTTTTTTTTAAT-TTGGAAAAAGGGTGCCAG
1 CCATTAGTGTTCCAACACCCCAA-AATTTTTTTAATCTT--AAAAAGGGTGTCGG
* * * * ** ** * *
60503205 CCATCAATGTTCTAGCACCCCAAAATTTCTTAAAATTCGAAAAAAAGGTGTTGG
1 CCATTAGTGTTCCAACACCCCAAAATTT-TTTTAA-TCTTAAAAAGGGTGTCGG
60503259 CCATTAGTG-TCTCAACACC
1 CCATTAGTGTTC-CAACACC
60503278 TAAATTTATT
Statistics
Matches: 172, Mismatches: 50, Indels: 22
0.70 0.20 0.09
Matches are distributed among these distances:
51 3 0.02
52 21 0.12
53 37 0.22
54 104 0.60
55 7 0.04
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.33
Consensus pattern (52 bp):
CCATTAGTGTTCCAACACCCCAAAATTTTTTTAATCTTAAAAAGGGTGTCGG
Found at i:60503210 original size:108 final size:107
Alignment explanation
Indices: 60503030--60503323 Score: 292
Period size: 108 Copynumber: 2.7 Consensus size: 107
60503020 TTTAATCTGG
* * * * * * *
60503030 AAAAAGGGTGTCGGTCATTAATGTCCCAACACCCAAA-ATTTTTTTTAATCTT-AAAAAGGGGTG
1 AAAAAAGGTGTTGGCCATTAGTGTCTCAACACCTAAATTTTTTTTTTAAT-TTGAAAAA-GGGTG
** *
60503093 CCAACCATCAGTGTTCCAACACCCCAAAACTTT-TT-TTAGTCTA
64 CCAACCATCAGTGTTCCAACACCCCAAAA-TTTCTTAAAAGTCGA
* * *
60503136 TAAAAATGGTGTTGGCCATTAGTGT-TCTAATACCTCAATTTTTTTTTTAATTTGGAAAAAGGGT
1 -AAAAAAGGTGTTGGCCATTAGTGTCTC-AACACCTAAATTTTTTTTTTAATTT-GAAAAAGGGT
* * * * *
60503200 GCCAGCCATCAATGTTCTAGCACCCCAAAATTTCTTAAAATTCGA
63 GCCAACCATCAGTGTTCCAACACCCCAAAATTTCTTAAAAGTCGA
* *
60503245 AAAAAAGGTGTTGGCCATTAGTGTCTCAACACCTAAATTTATTTTTTATTTTAGAAAAAGGGATG
1 AAAAAAGGTGTTGGCCATTAGTGTCTCAACACCTAAATTTTTTTTTTAATTT-GAAAAAGGG-TG
*
60503310 CCAACCATTAGTGT
64 CCAACCATCAGTGT
60503324 CATGACAACC
Statistics
Matches: 153, Mismatches: 26, Indels: 14
0.79 0.13 0.07
Matches are distributed among these distances:
106 1 0.01
107 32 0.21
108 96 0.63
109 24 0.16
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (107 bp):
AAAAAAGGTGTTGGCCATTAGTGTCTCAACACCTAAATTTTTTTTTTAATTTGAAAAAGGGTGCC
AACCATCAGTGTTCCAACACCCCAAAATTTCTTAAAAGTCGA
Found at i:60505640 original size:18 final size:18
Alignment explanation
Indices: 60505607--60505641 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
60505597 GAATTTTGTG
*
60505607 TTTATTTTTTGAAGGTTC
1 TTTATTTTTTCAAGGTTC
*
60505625 TTTATTTTTTCTAGGTT
1 TTTATTTTTTCAAGGTT
60505642 TAGTTTTTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.14, C:0.06, G:0.14, T:0.66
Consensus pattern (18 bp):
TTTATTTTTTCAAGGTTC
Found at i:60518544 original size:17 final size:17
Alignment explanation
Indices: 60518524--60518556 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
60518514 AAATTTATAA
*
60518524 ATAAAATATTCAAAAAT
1 ATAAAACATTCAAAAAT
60518541 ATAAAACATTCAAAAA
1 ATAAAACATTCAAAAA
60518557 AAATTAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.67, C:0.09, G:0.00, T:0.24
Consensus pattern (17 bp):
ATAAAACATTCAAAAAT
Found at i:60533001 original size:9 final size:9
Alignment explanation
Indices: 60532969--60533002 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
60532959 TATTTTAATG
60532969 TTTTTAGTAT
1 TTTTTA-TAT
60532979 TTTTTATAT
1 TTTTTATAT
*
60532988 ATTTTATAT
1 TTTTTATAT
60532997 TTTTTA
1 TTTTTA
60533003 AAATAATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 16 0.73
10 6 0.27
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (9 bp):
TTTTTATAT
Found at i:60534079 original size:30 final size:30
Alignment explanation
Indices: 60534036--60534093 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
60534026 CACGGGCAGG
* * *
60534036 CACATGGGTGTGTGGCCAGCCCGTGTGGCT
1 CACACGGGCGTGTGCCCAGCCCGTGTGGCT
*
60534066 CACACGGGCGTGTGCCCAGGCCGTGTGG
1 CACACGGGCGTGTGCCCAGCCCGTGTGG
60534094 AAATGCCCAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.10, C:0.29, G:0.41, T:0.19
Consensus pattern (30 bp):
CACACGGGCGTGTGCCCAGCCCGTGTGGCT
Found at i:60536589 original size:14 final size:14
Alignment explanation
Indices: 60536570--60536602 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
60536560 TAATATAAAC
60536570 TCTAACACTACTCA
1 TCTAACACTACTCA
60536584 TCTAACACTACTCA
1 TCTAACACTACTCA
60536598 TCTAA
1 TCTAA
60536603 TTATATTCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.30
Consensus pattern (14 bp):
TCTAACACTACTCA
Found at i:60538164 original size:3 final size:3
Alignment explanation
Indices: 60538158--60538200 Score: 68
Period size: 3 Copynumber: 14.3 Consensus size: 3
60538148 TCTTGATGAA
* *
60538158 TTG TTG TTG TTG TTG TTG TTG TTA TTG TTG TTG TTG TTT TTG T
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG T
60538201 GTGTGTGAAG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.02, C:0.00, G:0.28, T:0.70
Consensus pattern (3 bp):
TTG
Found at i:60538762 original size:25 final size:26
Alignment explanation
Indices: 60538650--60538839 Score: 81
Period size: 25 Copynumber: 7.5 Consensus size: 26
60538640 TATTATTTGG
* *
60538650 AAAGCCTTTATGGCG-AGTTACCTGA
1 AAAGCCTATGTGGCGAAGTTACCTGA
* * * **
60538675 AAATCCTATATGGCGTA-TTATTTGA
1 AAAGCCTATGTGGCGAAGTTACCTGA
* * * *
60538700 AAATCCT-TAGTGGCGAATTTATCTGG
1 AAAGCCTAT-GTGGCGAAGTTACCTGA
* *
60538726 AAAGCATTTGTGGC-AAGTTACCTGA
1 AAAGCCTATGTGGCGAAGTTACCTGA
* * ** *
60538751 AAAGCCTATGTGGTGTA-TTATTTGG
1 AAAGCCTATGTGGCGAAGTTACCTGA
* * * *
60538776 GAAGCCT-TAGTGGTGAATTTATCT-A
1 AAAGCCTAT-GTGGCGAAGTTACCTGA
* *
60538801 GAAAGCCTTTGTGGC-AAGTTACCTAA
1 -AAAGCCTATGTGGCGAAGTTACCTGA
60538827 AAAGCCTATGTGG
1 AAAGCCTATGTGG
60538840 TGTATTATTT
Statistics
Matches: 126, Mismatches: 29, Indels: 20
0.72 0.17 0.11
Matches are distributed among these distances:
24 2 0.02
25 88 0.70
26 34 0.27
27 2 0.02
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.33
Consensus pattern (26 bp):
AAAGCCTATGTGGCGAAGTTACCTGA
Found at i:60538856 original size:25 final size:26
Alignment explanation
Indices: 60538751--60538858 Score: 71
Period size: 25 Copynumber: 4.3 Consensus size: 26
60538741 AGTTACCTGA
* * *
60538751 AAAGCCTATGTGGTGTA-TTATTTGG
1 AAAGCCTATGTGGTGAAGTTATCTAG
* *
60538776 GAAGCCT-TAGTGGTGAATTTATCTAG
1 AAAGCCTAT-GTGGTGAAGTTATCTAG
* * * *
60538802 AAAGCCTTTGTGG-CAAGTTACCTAA
1 AAAGCCTATGTGGTGAAGTTATCTAG
* *
60538827 AAAGCCTATGTGGTGTA-TTATTTAG
1 AAAGCCTATGTGGTGAAGTTATCTAG
*
60538852 GAAGCCT
1 AAAGCCT
60538859 TAATGGCGAA
Statistics
Matches: 63, Mismatches: 16, Indels: 8
0.72 0.18 0.09
Matches are distributed among these distances:
24 1 0.02
25 44 0.70
26 17 0.27
27 1 0.02
ACGTcount: A:0.28, C:0.13, G:0.25, T:0.34
Consensus pattern (26 bp):
AAAGCCTATGTGGTGAAGTTATCTAG
Found at i:60538984 original size:76 final size:75
Alignment explanation
Indices: 60538642--60538962 Score: 401
Period size: 76 Copynumber: 4.2 Consensus size: 75
60538632 ATCTGGCATA
* * * * * * ** *
60538642 TTATTTGGAAAGCCTTTATGGCGAGTTACCTGAAAATCCTATATGGCGTATTATTTGAAAATCCT
1 TTATCTGGAAAG-CTTTGTGGCAAGTTACCTAAAAAGCCTATGTGGCGTATTATTTGGGAAGCCT
60538707 TAGTGGCGAAT
65 TAGTGGCGAAT
* *
60538718 TTATCTGGAAAGCATTTGTGGCAAGTTACCTGAAAAGCCTATGTGGTGTATTATTTGGGAAGCCT
1 TTATCTGGAAAGC-TTTGTGGCAAGTTACCTAAAAAGCCTATGTGGCGTATTATTTGGGAAGCCT
*
60538783 TAGTGGTGAAT
65 TAGTGGCGAAT
* * *
60538794 TTATCTAGAAAGCCTTTGTGGCAAGTTACCTAAAAAGCCTATGTGGTGTATTATTTAGGAAGCCT
1 TTATCTGGAAAG-CTTTGTGGCAAGTTACCTAAAAAGCCTATGTGGCGTATTATTTGGGAAGCCT
*
60538859 TAATGGCGAAT
65 TAGTGGCGAAT
* * *
60538870 TTATCTGGCAAACCTTTGTGG-AGAGTTACCTAAAAAGCCAATGTGGCGTATTATTTGGGAGGCC
1 TTATCTGG-AAAGCTTTGTGGCA-AGTTACCTAAAAAGCCTATGTGGCGTATTATTTGGGAAGCC
* *
60538934 TTAGTGGCTAAG
64 TTAGTGGCGAAT
60538946 TTATCTGGAAAGCTTTG
1 TTATCTGGAAAGCTTTG
60538963 GTAGTAAGTC
Statistics
Matches: 216, Mismatches: 25, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
75 10 0.05
76 202 0.94
77 4 0.02
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.34
Consensus pattern (75 bp):
TTATCTGGAAAGCTTTGTGGCAAGTTACCTAAAAAGCCTATGTGGCGTATTATTTGGGAAGCCTT
AGTGGCGAAT
Found at i:60546908 original size:33 final size:34
Alignment explanation
Indices: 60546871--60546935 Score: 87
Period size: 33 Copynumber: 1.9 Consensus size: 34
60546861 AGATTGTAGA
* * *
60546871 TTTTAGAGTTTATGGT-TGGATTTATAATTTATG
1 TTTTAGAGTTTAGGGTCGGGATTTAAAATTTATG
*
60546904 TTTTAGGGTTTAGGGTCGGGATTTAAAATTTA
1 TTTTAGAGTTTAGGGTCGGGATTTAAAATTTA
60546936 AGAGGGTTTC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
33 14 0.52
34 13 0.48
ACGTcount: A:0.25, C:0.02, G:0.25, T:0.49
Consensus pattern (34 bp):
TTTTAGAGTTTAGGGTCGGGATTTAAAATTTATG
Found at i:60554252 original size:19 final size:21
Alignment explanation
Indices: 60554208--60554251 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 21
60554198 AGTTATGATT
60554208 AATTAAATAAAACTAATGTAAAA
1 AATTAAATAAAACTAA--TAAAA
60554231 AATTAAATAAAACTAA-AAAA
1 AATTAAATAAAACTAATAAAA
60554251 A
1 A
60554252 TAATATTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 5 0.24
23 16 0.76
ACGTcount: A:0.70, C:0.05, G:0.02, T:0.23
Consensus pattern (21 bp):
AATTAAATAAAACTAATAAAA
Found at i:60555491 original size:25 final size:23
Alignment explanation
Indices: 60555462--60555517 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 23
60555452 ATATTATCTT
60555462 ATATAAAAATAAATTTAAAAATATA
1 ATAT-AAAATAAA-TTAAAAATATA
*
60555487 ATATATAATAAATTAAAAATAT-
1 ATATAAAATAAATTAAAAATATA
60555509 AT-TAAAATA
1 ATATAAAATA
60555518 TGTTGTATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 6 0.21
22 2 0.07
23 10 0.34
24 7 0.24
25 4 0.14
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (23 bp):
ATATAAAATAAATTAAAAATATA
Found at i:60560926 original size:15 final size:15
Alignment explanation
Indices: 60560906--60560961 Score: 60
Period size: 15 Copynumber: 3.7 Consensus size: 15
60560896 CTTGATAAAC
60560906 TGAAAAATTAAGTGT
1 TGAAAAATTAAGTGT
* *
60560921 TGAAAAAATAGGTGT
1 TGAAAAATTAAGTGT
*
60560936 T-AAAAATTGAAGTAT
1 TGAAAAATT-AAGTGT
*
60560951 TGAAAATTTAA
1 TGAAAAATTAA
60560962 ATACTGAATT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
14 6 0.18
15 21 0.64
16 6 0.18
ACGTcount: A:0.50, C:0.00, G:0.18, T:0.32
Consensus pattern (15 bp):
TGAAAAATTAAGTGT
Found at i:60576144 original size:29 final size:29
Alignment explanation
Indices: 60576103--60576158 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
60576093 TGTTTACCTT
*
60576103 ATGTTACACTTTAGTCACTTATGTTTTAA
1 ATGTTACACTTTAGTCACTAATGTTTTAA
**
60576132 ATGTTACGTTTTAGTCACTAATGTTTT
1 ATGTTACACTTTAGTCACTAATGTTTT
60576159 TATTTTGTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.25, C:0.12, G:0.12, T:0.50
Consensus pattern (29 bp):
ATGTTACACTTTAGTCACTAATGTTTTAA
Found at i:60576319 original size:14 final size:16
Alignment explanation
Indices: 60576274--60576319 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
60576264 AATGGGATGA
*
60576274 AAATAGATTTTTAATT
1 AAATAAATTTTTAATT
60576290 AAATAAATTTAATTAATT
1 AAATAAATTT--TTAATT
60576308 -AA-AAATTTTTAA
1 AAATAAATTTTTAA
60576320 CCTAAACCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 4 0.15
16 15 0.56
17 2 0.07
18 6 0.22
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (16 bp):
AAATAAATTTTTAATT
Found at i:60590193 original size:15 final size:15
Alignment explanation
Indices: 60590175--60590207 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
60590165 AAAAAAGCTG
60590175 AAAGCAAAATAAAAT
1 AAAGCAAAATAAAAT
*
60590190 AAAGTAAAATAAAAT
1 AAAGCAAAATAAAAT
60590205 AAA
1 AAA
60590208 AGCTAACCTC
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:0.76, C:0.03, G:0.06, T:0.15
Consensus pattern (15 bp):
AAAGCAAAATAAAAT
Found at i:60593907 original size:11 final size:11
Alignment explanation
Indices: 60593893--60593933 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
60593883 TGTTTTCTCC
60593893 CTATTTTGCTA
1 CTATTTTGCTA
*
60593904 CTATTTTACTA
1 CTATTTTGCTA
* *
60593915 TTATGTTGCTA
1 CTATTTTGCTA
60593926 CTATTTTG
1 CTATTTTG
60593934 TTGTTGTTAT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.20, C:0.15, G:0.10, T:0.56
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:60594491 original size:118 final size:115
Alignment explanation
Indices: 60594357--60594720 Score: 420
Period size: 118 Copynumber: 3.2 Consensus size: 115
60594347 GACTAGTGTA
* * *
60594357 TTTAAAAAAAATTTGGGTGCAGGCCATGTAATGGCCGGCACCAAGTACAATTTTTGGCTCCCAAT
1 TTTAAAAAAAAATTGGGTGCTGGCCATGTAATGGCCGACACCAAGTACAATTTTTGGCTCCCAAT
* *
60594422 GCATTTTTTTATTTTATTTTGGAACACTGATGGTTGGCACCAATATATTTT
66 GCATTTTTTT-TTTTATTTTGGAACACTGATGGTTGGCACCAGTGTATTTT
* * *
60594473 TTTAAAAAAAAAAATTGGGTGCTGGCCAAGTAATGGTCGACACCAAGTACAATTTTCGGCTCCCA
1 TTT--AAAAAAAAATTGGGTGCTGGCCATGTAATGGCCGACACCAAGTACAATTTTTGGCTCCCA
* * **
60594538 ATGCA----TTTTTTTATTTTGGAACATTGATAGCCGGCACCAGTGTA---T
64 ATGCATTTTTTTTTTTATTTTGGAACACTGATGGTTGGCACCAGTGTATTTT
* * * * *
60594583 TTTAAAAAAAATTTGGGTGCTGGGCATGTAATGGCCGACACCAAGTATATTTTTTTGCCTCCCAA
1 TTTAAAAAAAAATTGGGTGCTGGCCATGTAATGGCCGACACCAAGTACA-ATTTTTGGCTCCCAA
* *
60594648 TGCAATTTTTTTTTTTTACTTTAGG-ACACTGATGGTTGGCATCAGTGTATTTT
65 TGC-A-TTTTTTTTTTTA-TTTTGGAACACTGATGGTTGGCACCAGTGTATTTT
**
60594701 TTTTTAAAAAAATTGGGTGC
1 TTTAAAAAAAAATTGGGTGC
60594721 CAGCCATTAC
Statistics
Matches: 206, Mismatches: 29, Indels: 24
0.80 0.11 0.09
Matches are distributed among these distances:
108 41 0.20
109 15 0.07
110 5 0.02
113 30 0.15
114 3 0.01
115 27 0.13
116 8 0.04
118 77 0.37
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.37
Consensus pattern (115 bp):
TTTAAAAAAAAATTGGGTGCTGGCCATGTAATGGCCGACACCAAGTACAATTTTTGGCTCCCAAT
GCATTTTTTTTTTTATTTTGGAACACTGATGGTTGGCACCAGTGTATTTT
Found at i:60595135 original size:191 final size:186
Alignment explanation
Indices: 60594886--60595252 Score: 486
Period size: 191 Copynumber: 1.9 Consensus size: 186
60594876 TGGTGCCGCC
* *
60594886 CCATCAGTGTTCCAAAATTAAAAAAAAAGGCATTGGGAGCCAAAAATTATACTTGGTGCCGGCCA
1 CCATCAATGTTCCAAAATTAAAAAAAAAGGCATTGGGAGCCAAAAATTATACTTGGTGCCAGCCA
* * *
60594951 TTACATGGCCAGCACCCAAAATTTTTTCTTTTTAAAAATACACTAGTGTTGGCTATCAGTGTTCC
66 TTACATGGCCAGCACCC--AA---TTT-TTTTT-AAAATACACTAGTGTCGACCATCAGTGTTCC
* * *
60595016 AAAATAAGAAAAA-TGTATTAGGAGCTAAAAATTGTACTTGGTGCCGGCCATACTGGTGACAG
124 AAAATAAAAAAAACTGCATTAGGAGCCAAAAATTGTACTTGGTGCCGGCCATACTGGTGACAG
* * ***
60595078 CCATCAATGTTCCAAAA-TAAATAAAAATGCATTGGGAGTTGAAAATTATACTTGGTGCCAGCCA
1 CCATCAATGTTCCAAAATTAAAAAAAAAGGCATTGGGAGCCAAAAATTATACTTGGTGCCAGCCA
* * *
60595142 TTACATGGCCAGTACCCAATTTTTTTTAAAATACACTGGTGTCGACCATTAGTGTTCCAAAATAA
66 TTACATGGCCAGCACCCAATTTTTTTTAAAATACACTAGTGTCGACCATCAGTGTTCCAAAATAA
* *
60595207 AAAAAACTTGCATTGGGAGCCAAAAATTGTACTTGGTGTCGGCCAT
131 AAAAAAC-TGCATTAGGAGCCAAAAATTGTACTTGGTGCCGGCCAT
60595253 TACAAGGCTA
Statistics
Matches: 155, Mismatches: 18, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
184 38 0.25
185 5 0.03
186 37 0.24
189 2 0.01
191 57 0.37
192 16 0.10
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (186 bp):
CCATCAATGTTCCAAAATTAAAAAAAAAGGCATTGGGAGCCAAAAATTATACTTGGTGCCAGCCA
TTACATGGCCAGCACCCAATTTTTTTTAAAATACACTAGTGTCGACCATCAGTGTTCCAAAATAA
AAAAAACTGCATTAGGAGCCAAAAATTGTACTTGGTGCCGGCCATACTGGTGACAG
Found at i:60595278 original size:110 final size:109
Alignment explanation
Indices: 60595085--60595285 Score: 269
Period size: 110 Copynumber: 1.8 Consensus size: 109
60595075 CAGCCATCAA
*** *
60595085 TGTTCCAAAATAAATAAAAATGCATTGGGAGTTGAAAATTATACTTGGTGCCAGCCATTACATGG
1 TGTTCCAAAATAAATAAAAATGCATTGGGAGCCAAAAATTATACTTGGTGCCAGCCATTACAAGG
* * *
60595150 CCAGTACCCAATTTTTTTTAAAATACACTGGTGTCGACCATTAG
66 CCAGAACCAAATTCTTTTTAAAATACACTGGTGTCGACCATTAG
* * *
60595194 TGTTCCAAAATAAA-AAAAACTTGCATTGGGAGCCAAAAATTGTACTTGGTGTCGGCCATTACAA
1 TGTTCCAAAATAAATAAAAA--TGCATTGGGAGCCAAAAATTATACTTGGTGCCAGCCATTACAA
* *
60595258 GGCTAGAACCAAATTCTTTTTTAAATAC
64 GGCCAGAACCAAATTCTTTTTAAAATAC
60595286 TGGTATTTTT
Statistics
Matches: 78, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
108 5 0.06
109 14 0.18
110 59 0.76
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.30
Consensus pattern (109 bp):
TGTTCCAAAATAAATAAAAATGCATTGGGAGCCAAAAATTATACTTGGTGCCAGCCATTACAAGG
CCAGAACCAAATTCTTTTTAAAATACACTGGTGTCGACCATTAG
Found at i:60600437 original size:128 final size:128
Alignment explanation
Indices: 60600240--60600484 Score: 346
Period size: 128 Copynumber: 1.9 Consensus size: 128
60600230 AGAGTCTAGT
* * * * * *
60600240 GAAATGTATCTGCCGAAGAAATGATTAAAGATTCTATCTCAAGTTATTCTACTATTTAAGAAAAG
1 GAAAGGTATCCGCCAAAGAAATGATTAAACATTCTACCTCAAGTTATTCTACTATTTAAGAAAAA
* **
60600305 GATATGATAAGTAAAGAGTAAGCCTGGTGAGGTTAACTGCTAAAGGTATAGTGTGCCTCTGGC
66 GATATGATAAGTAAAGAGTAAGCCTGATGAGGTTAACCACTAAAGGTATAGTGTGCCTCTGGC
* * * *
60600368 GAAAGGTATCCGCCAAAGAAATGATTAAACATTCTGCCTCAGGTTATTCTACTGTTTCAGAAAAA
1 GAAAGGTATCCGCCAAAGAAATGATTAAACATTCTACCTCAAGTTATTCTACTATTTAAGAAAAA
* * *
60600433 GATATGATAAGTAAATAGTAAGTCTGATGAGGTTAACCACTAAAGGTTTAGT
66 GATATGATAAGTAAAGAGTAAGCCTGATGAGGTTAACCACTAAAGGTATAGT
60600485 ACACCCAATT
Statistics
Matches: 101, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
128 101 1.00
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.29
Consensus pattern (128 bp):
GAAAGGTATCCGCCAAAGAAATGATTAAACATTCTACCTCAAGTTATTCTACTATTTAAGAAAAA
GATATGATAAGTAAAGAGTAAGCCTGATGAGGTTAACCACTAAAGGTATAGTGTGCCTCTGGC
Done.