Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 94 of 228
Found at i:27324733 original size:14 final size:14
Alignment explanation
Indices: 27324699--27324739 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
27324689 ACTAAGTAGA
*
27324699 AATATTTCAAAACT
1 AATATTTCAAAACC
27324713 AATATTTCAAAGACC
1 AATATTTCAAA-ACC
27324728 AA-ATTT-AAAACC
1 AATATTTCAAAACC
27324740 CATAATCCAC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
12 3 0.12
13 3 0.12
14 15 0.60
15 4 0.16
ACGTcount: A:0.51, C:0.17, G:0.02, T:0.29
Consensus pattern (14 bp):
AATATTTCAAAACC
Found at i:27338729 original size:51 final size:52
Alignment explanation
Indices: 27338674--27338867 Score: 204
Period size: 51 Copynumber: 3.8 Consensus size: 52
27338664 ATGTGAAAGT
* * *
27338674 GAAAG-TGATGGTCACGTATGTAGTACTATGTGTAGGCTACTACGTGTACCA
1 GAAAGATGATGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCG
* * *
27338725 GAAAGATAGATCG-CA--TGTGTAGTACTATGTGCAGGCTACTATGCGTACCG
1 GAAAGAT-GATGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCG
* * * *
27338775 GATAGCT--TCGATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCG
1 GAAAGATGAT-GGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCG
* * *
27338826 GATAG-TGATGGTCACATGTGTAGTACTATGTGTAGGCTACTA
1 GAAAGATGATGGTCACGTGTGTAGTACTATGTGCAGGCTACTA
27338868 TGTGAACCCG
Statistics
Matches: 119, Mismatches: 16, Indels: 16
0.79 0.11 0.11
Matches are distributed among these distances:
47 1 0.01
49 2 0.02
50 36 0.30
51 72 0.61
52 4 0.03
53 4 0.03
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (52 bp):
GAAAGATGATGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCG
Found at i:27338971 original size:42 final size:42
Alignment explanation
Indices: 27338874--27339083 Score: 173
Period size: 42 Copynumber: 5.0 Consensus size: 42
27338864 ACTATGTGAA
*
27338874 CCCGTATTATTGATTAT--AAGGTGGTTGTTAAGTGCTGATTC
1 CCCGTATCATTGATTATGAAAGG-GGTTGTTAAGTGCTGATTC
* * * * *
27338915 CACCGTTTCCTTGATTGTGAAAGGGCTTGTTATGTGCTGATTC
1 C-CCGTATCATTGATTATGAAAGGGGTTGTTAAGTGCTGATTC
* *
27338958 CCCGTATCATTGATTAT--AAGGTGGTTGCTAAGTGTTGATTC
1 CCCGTATCATTGATTATGAAAGG-GGTTGTTAAGTGCTGATTC
** * * *
27338999 GATCGTATCCTTGATTATGAAAGGGGTT-TCTATGTGATGATTC
1 -CCCGTATCATTGATTATGAAAGGGGTTGT-TAAGTGCTGATTC
* * *
27339042 CCCGTATCATTGATTAT--AAGGTCGTTGCTAAGTGTTGATTC
1 CCCGTATCATTGATTATGAAAGG-GGTTGTTAAGTGCTGATTC
27339083 C
1 C
27339084 ACCGGAATCC
Statistics
Matches: 133, Mismatches: 26, Indels: 20
0.74 0.15 0.11
Matches are distributed among these distances:
40 8 0.06
41 31 0.23
42 53 0.40
43 33 0.25
44 8 0.06
ACGTcount: A:0.21, C:0.15, G:0.24, T:0.40
Consensus pattern (42 bp):
CCCGTATCATTGATTATGAAAGGGGTTGTTAAGTGCTGATTC
Found at i:27339020 original size:84 final size:84
Alignment explanation
Indices: 27338874--27339087 Score: 322
Period size: 84 Copynumber: 2.5 Consensus size: 84
27338864 ACTATGTGAA
* * * * *
27338874 CCCGTATTATTGATTATAAGGTGGTTGTTAAGTGCTGATTCCACCGTTTCCTTGATTGTGAAAGG
1 CCCGTATCATTGATTATAAGGTGGTTGCTAAGTGTTGATTCCACCGTATCCTTGATTATGAAAGG
*
27338939 GCTTGT-TATGTGCTGATTC
66 GCTT-TCTATGTGATGATTC
* *
27338958 CCCGTATCATTGATTATAAGGTGGTTGCTAAGTGTTGATTCGATCGTATCCTTGATTATGAAAGG
1 CCCGTATCATTGATTATAAGGTGGTTGCTAAGTGTTGATTCCACCGTATCCTTGATTATGAAAGG
*
27339023 GGTTTCTATGTGATGATTC
66 GCTTTCTATGTGATGATTC
*
27339042 CCCGTATCATTGATTATAAGGTCGTTGCTAAGTGTTGATTCCACCG
1 CCCGTATCATTGATTATAAGGTGGTTGCTAAGTGTTGATTCCACCG
27339088 GAATCCTTTG
Statistics
Matches: 117, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
83 1 0.01
84 116 0.99
ACGTcount: A:0.21, C:0.16, G:0.24, T:0.39
Consensus pattern (84 bp):
CCCGTATCATTGATTATAAGGTGGTTGCTAAGTGTTGATTCCACCGTATCCTTGATTATGAAAGG
GCTTTCTATGTGATGATTC
Found at i:27343709 original size:53 final size:52
Alignment explanation
Indices: 27343626--27343837 Score: 189
Period size: 53 Copynumber: 4.0 Consensus size: 52
27343616 CCTCGATGGG
** *
27343626 AAAATTACTGAAATACCCTCAAAGGGTAAATTATTGAAATACCCCAAAAGGGTA
1 AAAATTACACAAATACCCT-AGAGGGTAAATTATTGAAATACCCC-AAAGGGTA
* * *
27343680 AAAATTAC-CAAATACCCCTAGAGGGTAAATTATTGAAATACCTTCGATGGGT-
1 AAAATTACACAAATA-CCCTAGAGGGTAAATTATTGAAATACC-CCAAAGGGTA
* * * *
27343732 -AAATTACAAAAATACCCTCGATGGGAAAATTACTGAAATACCCTCAAAGGGTA
1 AAAATTACACAAATACCCTAGA-GGGTAAATTATTGAAATACCC-CAAAGGGTA
* * ** *
27343785 AAATTTAC-CTGAATACCCCGGAGGGTAAATTATTGAAATACCCTCGAAGGGTA
1 AAAATTACAC-AAATACCCTAGAGGGTAAATTATTGAAATACCC-CAAAGGGTA
27343838 GAATGATCGT
Statistics
Matches: 130, Mismatches: 20, Indels: 17
0.78 0.12 0.10
Matches are distributed among these distances:
51 13 0.10
52 29 0.22
53 60 0.46
54 28 0.22
ACGTcount: A:0.42, C:0.18, G:0.17, T:0.24
Consensus pattern (52 bp):
AAAATTACACAAATACCCTAGAGGGTAAATTATTGAAATACCCCAAAGGGTA
Found at i:27343745 original size:79 final size:78
Alignment explanation
Indices: 27343597--27343748 Score: 180
Period size: 79 Copynumber: 1.9 Consensus size: 78
27343587 AGGCCGTATT
* * ***
27343597 GGGTAAATTTACAAAATACCCTCGATGGGAAAATTACTGAAATACCCTCAAAGGGTAAATTATTG
1 GGGTAAAATTACAAAATACCCTAGATGGGAAAATTACTGAAATACCCTCAAAGGGTAAATTACAA
27343662 AAATACCCCAAAA
66 AAATACCCCAAAA
* * * * * *
27343675 GGGTAAAAATTACCAAATACCCCTAGA-GGGTAAATTATTGAAATACCTTCGATGGGTAAATTAC
1 GGGT-AAAATTACAAAATA-CCCTAGATGGGAAAATTACTGAAATACCCTCAAAGGGTAAATTAC
27343739 AAAAATACCC
64 AAAAATACCC
27343749 TCGATGGGAA
Statistics
Matches: 61, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
78 4 0.07
79 51 0.84
80 6 0.10
ACGTcount: A:0.43, C:0.18, G:0.16, T:0.24
Consensus pattern (78 bp):
GGGTAAAATTACAAAATACCCTAGATGGGAAAATTACTGAAATACCCTCAAAGGGTAAATTACAA
AAATACCCCAAAA
Found at i:27343781 original size:105 final size:105
Alignment explanation
Indices: 27343610--27343837 Score: 316
Period size: 105 Copynumber: 2.2 Consensus size: 105
27343600 TAAATTTACA
* ** * *
27343610 AAATACCCTCGATGGGAAAATTACTGAAATACCCTCAAAGGGTAAATTATTGAAATACCCCAAAA
1 AAATACCCTCGATGGGTAAATTACAAAAATACCCTCAAAGGGAAAATTACTGAAATACCCCAAAA
27343675 GGGTAAAAATTACC-AAATACCCCTAGAGGGTAAATTATTG
66 GGGTAAAAATTACCTAAATACCCC-AGAGGGTAAATTATTG
* * *
27343715 AAATACCTTCGATGGGTAAATTACAAAAATACCCTCGATGGGAAAATTACTGAAATACCCTC-AA
1 AAATACCCTCGATGGGTAAATTACAAAAATACCCTCAAAGGGAAAATTACTGAAATACCC-CAAA
* * *
27343779 AGGGTAAAATTTACCTGAATACCCCGGAGGGTAAATTATTG
65 AGGGTAAAAATTACCTAAATACCCCAGAGGGTAAATTATTG
*
27343820 AAATACCCTCGAAGGGTA
1 AAATACCCTCGATGGGTA
27343838 GAATGATCGT
Statistics
Matches: 108, Mismatches: 13, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
105 99 0.92
106 9 0.08
ACGTcount: A:0.41, C:0.18, G:0.18, T:0.23
Consensus pattern (105 bp):
AAATACCCTCGATGGGTAAATTACAAAAATACCCTCAAAGGGAAAATTACTGAAATACCCCAAAA
GGGTAAAAATTACCTAAATACCCCAGAGGGTAAATTATTG
Found at i:27343789 original size:79 final size:79
Alignment explanation
Indices: 27343605--27343816 Score: 177
Period size: 79 Copynumber: 2.7 Consensus size: 79
27343595 TTGGGTAAAT
* * * ***
27343605 TTACAAAATACCCTCGATGGG-AAAATTACTGAAATACCCTCAAAGGGTAAATTATTGAAATACC
1 TTACCAAATACCCTCAAAGGGTAAAATTACTGAAATACCCTCAAAGGGTAAATTACAAAAATACC
27343669 CCAAAAGGGTAAAAA
66 CCAAAAGGG-AAAAA
* * * * *
27343684 TTACCAAATACCC-CTAGAGGGT-AAATTATTGAAATACCTTCGATGGGTAAATTACAAAAATAC
1 TTACCAAATACCCTC-AAAGGGTAAAATTACTGAAATACCCTCAAAGGGTAAATTACAAAAATAC
* *
27343747 CCTC-GATGGG-AAAA
65 CC-CAAAAGGGAAAAA
* **
27343761 TTACTGAAATACCCTCAAAGGGTAAAATTTACCTG-AATACCC-CGGAGGGTAAATTA
1 TTAC-CAAATACCCTCAAAGGGTAAAA-TTA-CTGAAATACCCTCAAAGGGTAAATTA
27343817 TTGAAATACC
Statistics
Matches: 106, Mismatches: 19, Indels: 16
0.75 0.13 0.11
Matches are distributed among these distances:
77 8 0.08
78 15 0.14
79 71 0.67
80 10 0.09
81 2 0.02
ACGTcount: A:0.42, C:0.18, G:0.17, T:0.24
Consensus pattern (79 bp):
TTACCAAATACCCTCAAAGGGTAAAATTACTGAAATACCCTCAAAGGGTAAATTACAAAAATACC
CCAAAAGGGAAAAA
Found at i:27343836 original size:26 final size:26
Alignment explanation
Indices: 27343597--27343837 Score: 206
Period size: 26 Copynumber: 9.2 Consensus size: 26
27343587 AGGCCGTATT
* *
27343597 GGGTAAATTTAC-AAAATACCCTCGAT
1 GGGTAAA-TTACTGAAATACCCTCGAA
* *
27343623 GGGAAAATTACTGAAATACCCTCAAA
1 GGGTAAATTACTGAAATACCCTCGAA
* *
27343649 GGGTAAATTATTGAAATACCC-CAAAA
1 GGGTAAATTACTGAAATACCCTC-GAA
* *
27343675 GGGTAAAAATTAC-CAAATACCC-CTAGA
1 GGGT--AAATTACTGAAATACCCTCGA-A
* * *
27343702 GGGTAAATTATTGAAATACCTTCGAT
1 GGGTAAATTACTGAAATACCCTCGAA
** *
27343728 GGGTAAATTACAAAAATACCCTCGAT
1 GGGTAAATTACTGAAATACCCTCGAA
* *
27343754 GGGAAAATTACTGAAATACCCTCAAA
1 GGGTAAATTACTGAAATACCCTCGAA
*
27343780 GGGTAAAATTTACCTG-AATACCC-CGGA
1 GGGT-AAA-TTA-CTGAAATACCCTCGAA
*
27343807 GGGTAAATTATTGAAATACCCTCGAA
1 GGGTAAATTACTGAAATACCCTCGAA
27343833 GGGTA
1 GGGTA
27343838 GAATGATCGT
Statistics
Matches: 175, Mismatches: 28, Indels: 24
0.77 0.12 0.11
Matches are distributed among these distances:
24 2 0.01
25 21 0.12
26 108 0.62
27 25 0.14
28 16 0.09
29 3 0.02
ACGTcount: A:0.41, C:0.18, G:0.18, T:0.24
Consensus pattern (26 bp):
GGGTAAATTACTGAAATACCCTCGAA
Found at i:27344549 original size:21 final size:22
Alignment explanation
Indices: 27344525--27344568 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
27344515 TTCAAATAAG
27344525 TTTTCACAACAAACAC-TATTT
1 TTTTCACAACAAACACGTATTT
**
27344546 TTTTCGTAACAAACACGTATTT
1 TTTTCACAACAAACACGTATTT
27344568 T
1 T
27344569 CAACTTCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.34, C:0.20, G:0.05, T:0.41
Consensus pattern (22 bp):
TTTTCACAACAAACACGTATTT
Found at i:27351430 original size:23 final size:23
Alignment explanation
Indices: 27351395--27351442 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
27351385 GGAGCGTCGA
*
27351395 CTGCCTTGCTTCTCTGCATATCT
1 CTGCCTTGCTTCTCTGAATATCT
*
27351418 CTGCCTT-CTTTCTTTGAATATCT
1 CTGCCTTGC-TTCTCTGAATATCT
27351441 CT
1 CT
27351443 TTGGCTGAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 1 0.05
23 21 0.95
ACGTcount: A:0.10, C:0.31, G:0.10, T:0.48
Consensus pattern (23 bp):
CTGCCTTGCTTCTCTGAATATCT
Found at i:27351977 original size:26 final size:26
Alignment explanation
Indices: 27351935--27352115 Score: 102
Period size: 26 Copynumber: 6.9 Consensus size: 26
27351925 TAGGCCGTAT
*
27351935 TGGGTAAATTA-TCGAAAAACCCTCGA
1 TGGGAAAATTACT-GAAAAACCCTCGA
* * *
27351961 TAGGAAAATTACTGAAATACCCCCAGA
1 TGGGAAAATTACTGAAAAACCCTC-GA
* * * *
27351988 -GGGTAAATTATTGAAATACCCTCAA
1 TGGGAAAATTACTGAAAAACCCTCGA
* * *
27352013 AGGGTAAAAATTACTGAAATACCCCTAGA
1 TGGG--AAAATTACTGAAA-AACCCTCGA
* * * *
27352042 -GGGTAAATTACTGAAATACTCTTGA
1 TGGGAAAATTACTGAAAAACCCTCGA
* * *
27352067 TGGGTAAATTTCT-AAAATACCCTCAA
1 TGGGAAAATTACTGAAAA-ACCCTCGA
27352093 TGGGAAAATTACT-AAAATACCCT
1 TGGGAAAATTACTGAAAA-ACCCT
27352116 TAAAGGGTAA
Statistics
Matches: 120, Mismatches: 27, Indels: 16
0.74 0.17 0.10
Matches are distributed among these distances:
25 9 0.08
26 89 0.74
27 3 0.03
28 14 0.12
29 5 0.04
ACGTcount: A:0.41, C:0.18, G:0.16, T:0.25
Consensus pattern (26 bp):
TGGGAAAATTACTGAAAAACCCTCGA
Found at i:27352073 original size:80 final size:80
Alignment explanation
Indices: 27351965--27352177 Score: 247
Period size: 80 Copynumber: 2.7 Consensus size: 80
27351955 CCTCGATAGG
* *
27351965 AAAATTACTGAAATACCCCCAGAGGGTAAATTATTGAAATACCCTCAAAGGGTAAAAATTACTGA
1 AAAATTACTGAAATA-CCCTAGAGGGTAAATTATTGAAATACCCTCAAAGGGTAAAAATTACTAA
*
27352030 AATACCCCTAGAGGGT
65 AATACCCCTAAAGGGT
* * * *
27352046 -AAATTACTGAAATACTCTTGATGGGTAAATT-TCTAAAATACCCTCAATGGG--AAAATTACTA
1 AAAATTACTGAAATACCCTAGA-GGGTAAATTAT-TGAAATACCCTCAAAGGGTAAAAATTACTA
*
27352107 AAATACCCTTAAAGGGT
64 AAATACCCCTAAAGGGT
* * *
27352124 AAAATTTACCTG-AATACCCTAGAGGGTATATTACTGAAATACCCTCGAAGGGTA
1 AAAA-TTA-CTGAAATACCCTAGAGGGTAAATTATTGAAATACCCTCAAAGGGTA
27352178 GAATGACCGT
Statistics
Matches: 109, Mismatches: 15, Indels: 16
0.78 0.11 0.11
Matches are distributed among these distances:
78 24 0.22
79 31 0.28
80 51 0.47
81 3 0.03
ACGTcount: A:0.40, C:0.17, G:0.16, T:0.26
Consensus pattern (80 bp):
AAAATTACTGAAATACCCTAGAGGGTAAATTATTGAAATACCCTCAAAGGGTAAAAATTACTAAA
ATACCCCTAAAGGGT
Found at i:27352121 original size:106 final size:105
Alignment explanation
Indices: 27351966--27352165 Score: 278
Period size: 106 Copynumber: 1.9 Consensus size: 105
27351956 CTCGATAGGA
* * * *
27351966 AAATTACTGAAATACCCCCAGAGGGTAAATTATTGAAATACCCTCAAAGGGTAAAAATTA-CTGA
1 AAATTACTAAAATACCCCCAGAGGGAAAATTACTAAAATACCCTCAAAGGGTAAAAATTACCTG-
27352030 AATACCCCTAGAGGGTAAATTACTGAAATACTCTTGATGGGT
65 AATA-CCCTAGAGGGTAAATTACTGAAATACTCTTGATGGGT
* * * *
27352072 AAATTTCTAAAATACCCTCA-ATGGGAAAATTACTAAAATACCCTTAAAGGGTAAAATTTACCTG
1 AAATTACTAAAATACCCCCAGA-GGGAAAATTACTAAAATACCCTCAAAGGGTAAAAATTACCTG
*
27352136 AATACCCTAGAGGGTATATTACTGAAATAC
65 AATACCCTAGAGGGTAAATTACTGAAATAC
27352166 CCTCGAAGGG
Statistics
Matches: 83, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
105 26 0.31
106 54 0.65
107 3 0.04
ACGTcount: A:0.41, C:0.17, G:0.15, T:0.27
Consensus pattern (105 bp):
AAATTACTAAAATACCCCCAGAGGGAAAATTACTAAAATACCCTCAAAGGGTAAAAATTACCTGA
ATACCCTAGAGGGTAAATTACTGAAATACTCTTGATGGGT
Found at i:27355937 original size:22 final size:22
Alignment explanation
Indices: 27355894--27355937 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
27355884 AAAAATAATC
* **
27355894 AAAATTAATAAAAATTTGATAT
1 AAAACTAATAAAAATTCAATAT
*
27355916 AAAACTAATTAAAATTCAATAT
1 AAAACTAATAAAAATTCAATAT
27355938 GTTCATAATT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (22 bp):
AAAACTAATAAAAATTCAATAT
Found at i:27361873 original size:15 final size:15
Alignment explanation
Indices: 27361849--27361884 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
27361839 TAAGAGAGTT
27361849 GAGA-GAGAGGATGA
1 GAGATGAGAGGATGA
27361863 GAGATGAGAGGATGA
1 GAGATGAGAGGATGA
*
27361878 GGGATGA
1 GAGATGA
27361885 TGAAAAAGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 4 0.20
15 16 0.80
ACGTcount: A:0.39, C:0.00, G:0.50, T:0.11
Consensus pattern (15 bp):
GAGATGAGAGGATGA
Found at i:27361876 original size:8 final size:8
Alignment explanation
Indices: 27361853--27361884 Score: 50
Period size: 7 Copynumber: 4.2 Consensus size: 8
27361843 AGAGTTGAGA
27361853 GAGAGGAT
1 GAGAGGAT
27361861 GAGA-GAT
1 GAGAGGAT
27361868 GAGAGGAT
1 GAGAGGAT
27361876 GAG-GGAT
1 GAGAGGAT
27361883 GA
1 GA
27361885 TGAAAAAGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
7 13 0.57
8 10 0.43
ACGTcount: A:0.38, C:0.00, G:0.50, T:0.12
Consensus pattern (8 bp):
GAGAGGAT
Found at i:27386915 original size:8 final size:8
Alignment explanation
Indices: 27386902--27386938 Score: 65
Period size: 8 Copynumber: 4.6 Consensus size: 8
27386892 AGTAATATCT
*
27386902 TTTTATAC
1 TTTTATAA
27386910 TTTTATAA
1 TTTTATAA
27386918 TTTTATAA
1 TTTTATAA
27386926 TTTTATAA
1 TTTTATAA
27386934 TTTTA
1 TTTTA
27386939 ATTTTAATCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (8 bp):
TTTTATAA
Found at i:27387288 original size:18 final size:18
Alignment explanation
Indices: 27387265--27387300 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
27387255 TAATTAACTT
27387265 GTAAATATTAAATAATAA
1 GTAAATATTAAATAATAA
27387283 GTAAATATTAAATAATAA
1 GTAAATATTAAATAATAA
27387301 TATTAACGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (18 bp):
GTAAATATTAAATAATAA
Found at i:27387405 original size:16 final size:16
Alignment explanation
Indices: 27387386--27387418 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
27387376 GATAGGTTTG
27387386 CCTATAATCCAAGACC
1 CCTATAATCCAAGACC
27387402 CCTATAATCCAAGACC
1 CCTATAATCCAAGACC
27387418 C
1 C
27387419 ATAAAGGTTA
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:0.36, C:0.39, G:0.06, T:0.18
Consensus pattern (16 bp):
CCTATAATCCAAGACC
Found at i:27390896 original size:17 final size:17
Alignment explanation
Indices: 27390870--27390903 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
27390860 TGAAAAAAAA
*
27390870 TTATATAAAAATTATAT
1 TTATAAAAAAATTATAT
27390887 TTATAAAAAAATTATAT
1 TTATAAAAAAATTATAT
27390904 CAAAATCAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TTATAAAAAAATTATAT
Found at i:27392044 original size:51 final size:50
Alignment explanation
Indices: 27391963--27392062 Score: 130
Period size: 51 Copynumber: 2.0 Consensus size: 50
27391953 TCAATTATTT
27391963 TCTCAATTTCCTCTCAAATTCCTTCCAAATTTCTCTCAAATCCATATTTAA
1 TCTCAATTTCCTCTCAAATTCCTT-CAAATTTCTCTCAAATCCATATTTAA
* * * *
27392014 TCTCAATTTGCTCTCAATTTTCTCTT-AAATTTCTCTTAAATCCCTATTT
1 TCTCAATTTCCTCTCAA-ATTC-CTTCAAATTTCTCTCAAATCCATATTT
27392063 TTAAATAATT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
51 37 0.86
52 3 0.07
53 3 0.07
ACGTcount: A:0.26, C:0.27, G:0.01, T:0.46
Consensus pattern (50 bp):
TCTCAATTTCCTCTCAAATTCCTTCAAATTTCTCTCAAATCCATATTTAA
Found at i:27394454 original size:22 final size:21
Alignment explanation
Indices: 27394438--27394563 Score: 66
Period size: 21 Copynumber: 5.7 Consensus size: 21
27394428 TTTAATTGAC
27394438 AAACCCTAAACCCTTAACTTAA
1 AAACCCT-AACCCTTAACTTAA
27394460 AAACCCTAACCCTAACCCTTAACTTAA
1 AAA--C----CCTAACCCTTAACTTAA
*
27394487 AAACCCTCTAACCCTAAATCTCT--
1 AAA-CC-CTAACCCTTAA-CT-TAA
* *
27394510 -AACCTTAA-CCTTAAACCCT-A
1 AAACCCTAACCCTT-AA-CTTAA
27394530 AA-CCCTAACCCTTAACTTAA
1 AAACCCTAACCCTTAACTTAA
27394550 AAACCCTAACCCTT
1 AAACCCTAACCCTT
27394564 GACTGGTACT
Statistics
Matches: 82, Mismatches: 7, Indels: 31
0.68 0.06 0.26
Matches are distributed among these distances:
19 6 0.07
20 16 0.20
21 18 0.22
22 6 0.07
23 10 0.12
24 3 0.04
25 1 0.01
26 2 0.02
27 17 0.21
28 3 0.04
ACGTcount: A:0.40, C:0.37, G:0.00, T:0.24
Consensus pattern (21 bp):
AAACCCTAACCCTTAACTTAA
Found at i:27394465 original size:15 final size:15
Alignment explanation
Indices: 27394445--27394498 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
27394435 GACAAACCCT
27394445 AAACCCTTAACTTAA
1 AAACCCTTAACTTAA
*
27394460 AAACCC-TAACCCT--
1 AAACCCTTAA-CTTAA
27394473 -AACCCTTAACTTAA
1 AAACCCTTAACTTAA
27394487 AAACCCTCTAAC
1 AAACCCT-TAAC
27394499 CCTAAATCTC
Statistics
Matches: 31, Mismatches: 2, Indels: 11
0.70 0.05 0.25
Matches are distributed among these distances:
12 7 0.23
13 3 0.10
14 3 0.10
15 14 0.45
16 4 0.13
ACGTcount: A:0.43, C:0.35, G:0.00, T:0.22
Consensus pattern (15 bp):
AAACCCTTAACTTAA
Found at i:27394476 original size:27 final size:27
Alignment explanation
Indices: 27394439--27394562 Score: 140
Period size: 27 Copynumber: 4.2 Consensus size: 27
27394429 TTAATTGACA
27394439 AACCCTAAACCCTTAACTTAAAAACCCT
1 AACCCT-AACCCTTAACTTAAAAACCCT
27394467 AACCCTAACCCTTAACTTAAAAACCCTCT
1 AACCCTAACCCTTAACTTAAAAA-CC-CT
**
27394496 AACCCTAAATCTCTAACCTTAACCTTAAACCCT
1 AACCCTAACCCT-TAA-CTTAA----AAACCCT
27394529 AAACCCTAACCCTTAACTTAAAAACCCT
1 -AACCCTAACCCTTAACTTAAAAACCCT
27394557 AACCCT
1 AACCCT
27394563 TGACTGGTAC
Statistics
Matches: 83, Mismatches: 4, Indels: 19
0.78 0.04 0.18
Matches are distributed among these distances:
27 23 0.28
28 15 0.18
29 12 0.14
30 3 0.04
31 5 0.06
32 5 0.06
33 5 0.06
34 12 0.14
35 3 0.04
ACGTcount: A:0.40, C:0.37, G:0.00, T:0.23
Consensus pattern (27 bp):
AACCCTAACCCTTAACTTAAAAACCCT
Found at i:27395819 original size:125 final size:126
Alignment explanation
Indices: 27395577--27396143 Score: 770
Period size: 125 Copynumber: 4.5 Consensus size: 126
27395567 CCCTAACATG
* * **
27395577 CTACTGTAGCAAAAGCGCGTCCACGTA-GGCGCGATATCATGAATTCTTCTGATAAAGCATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACG-AGGGCACGATTTCACAAATTCTTCTGATAAAGCATCCTG
* *
27395641 CTTGAAGCA-TTTTTATAATATTTGCTCAGAAACGTCAACTCAAAATTATTTTTTCCAGGAC
65 CTTGAAGCATTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCCAGGAC
* *
27395702 CTACTGTAGCAAAAGCGCGTCCACGAGGGCACGATTTCACAAATTCTTCTCATAAAGCATCTTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCACGATTTCACAAATTCTTCTGATAAAGCATCCTGC
* * *
27395767 TTGAAGCATTTTTTATACTATTTTCTCAGAAACGTCAACTCGAAATTA-TTTTTGCATGAC
66 TTGAAGCATTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCCAGGAC
* * * * *
27395827 CTACTATAGCAAAAGCGCGTACACGTGGGCGCAATTTCACAAATTCTTCTGATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCACGATTTCACAAATTCTTCTGATAAAGCATCCTGC
*
27395892 TTGAAGC-GTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCCAGGAC
66 TTGAAGCATTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCCAGGAC
* * * *
27395952 ATACTGTAGCAAAAGTGCGTCCACGAGGGCAAGATTTCACAAATTCTTCTCATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCACGATTTCACAAATTCTTCTGATAAAGCATCCTGC
* * * *
27396017 TTGAAGCGTGTTTTATACTATTTTCTCAGAAACGTCAACTCGAAATTA-TTTTTGCAGGAC
66 TTGAAGCATTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCCAGGAC
* * * * * * *
27396077 CTACTGTAACAAAAGCTCGTACACGTGGG-A-GTTACTTCAGAAATTCTTCTGATAAAGCATTCT
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCACG--ATTTCACAAATTCTTCTGATAAAGCATCCT
27396140 GCTT
64 GCTT
27396144 TGATTTTATC
Statistics
Matches: 391, Mismatches: 45, Indels: 12
0.87 0.10 0.03
Matches are distributed among these distances:
123 1 0.00
124 40 0.10
125 277 0.71
126 73 0.19
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.32
Consensus pattern (126 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCACGATTTCACAAATTCTTCTGATAAAGCATCCTGC
TTGAAGCATTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCCAGGAC
Found at i:27396033 original size:250 final size:250
Alignment explanation
Indices: 27395577--27396143 Score: 909
Period size: 250 Copynumber: 2.3 Consensus size: 250
27395567 CCCTAACATG
* * * * **
27395577 CTACTGTAGCAAAAGCGCGTCCACGTAGGCGCGATATCATGAATTCTTCTGATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTACACGTGGGCGCAATTTCACAAATTCTTCTGATAAAGCATCCTGC
*
27395642 TTGAAGCATTTTTATAATATTTGCTCAGAAACGTCAACTCAAAATTATTTTTTCCAGGACCTACT
66 TTGAAGCATTTTTATAATATTTGCTCAGAAACGTCAACTCAAAATTATTTTTTCCAGGACATACT
* *
27395707 GTAGCAAAAGCGCGTCCACGAGGGCACGATTTCACAAATTCTTCTCATAAAGCATCTTGCTTGAA
131 GTAGCAAAAGCGCGTCCACGAGGGCAAGATTTCACAAATTCTTCTCATAAAGCATCCTGCTTGAA
* *
27395772 GCATTTTTTATACTATTTTCTCAGAAACGTCAACTCGAAATTATTTTTGCATGAC
196 GCATGTTTTATACTATTTTCTCAGAAACGTCAACTCGAAATTATTTTTGCAGGAC
*
27395827 CTACTATAGCAAAAGCGCGTACACGTGGGCGCAATTTCACAAATTCTTCTGATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTACACGTGGGCGCAATTTCACAAATTCTTCTGATAAAGCATCCTGC
* * *
27395892 TTGAAGCGTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCCAGGACATACT
66 TTGAAGCATTTTTATAATATTTGCTCAGAAACGTCAACTCAAAATTATTTTTTCCAGGACATACT
*
27395957 GTAGCAAAAGTGCGTCCACGAGGGCAAGATTTCACAAATTCTTCTCATAAAGCATCCTGCTTGAA
131 GTAGCAAAAGCGCGTCCACGAGGGCAAGATTTCACAAATTCTTCTCATAAAGCATCCTGCTTGAA
*
27396022 GCGTGTTTTATACTATTTTCTCAGAAACGTCAACTCGAAATTATTTTTGCAGGAC
196 GCATGTTTTATACTATTTTCTCAGAAACGTCAACTCGAAATTATTTTTGCAGGAC
* * * ** * * *
27396077 CTACTGTAACAAAAGCTCGTACACGTGGGAGTTACTTCAGAAATTCTTCTGATAAAGCATTCTGC
1 CTACTGTAGCAAAAGCGCGTACACGTGGGCGCAATTTCACAAATTCTTCTGATAAAGCATCCTGC
27396142 TT
66 TT
27396144 TGATTTTATC
Statistics
Matches: 291, Mismatches: 26, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
250 291 1.00
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.32
Consensus pattern (250 bp):
CTACTGTAGCAAAAGCGCGTACACGTGGGCGCAATTTCACAAATTCTTCTGATAAAGCATCCTGC
TTGAAGCATTTTTATAATATTTGCTCAGAAACGTCAACTCAAAATTATTTTTTCCAGGACATACT
GTAGCAAAAGCGCGTCCACGAGGGCAAGATTTCACAAATTCTTCTCATAAAGCATCCTGCTTGAA
GCATGTTTTATACTATTTTCTCAGAAACGTCAACTCGAAATTATTTTTGCAGGAC
Found at i:27398730 original size:24 final size:24
Alignment explanation
Indices: 27398674--27398719 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
27398664 ATTTTACATC
*
27398674 AATAAAATTACCACAAATTTTTAA
1 AATAAAATTAACACAAATTTTTAA
27398698 AATAAAATTAACACAAATTTTT
1 AATAAAATTAACACAAATTTTT
27398720 TATGTCAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.35
Consensus pattern (24 bp):
AATAAAATTAACACAAATTTTTAA
Found at i:27399939 original size:26 final size:25
Alignment explanation
Indices: 27399909--27399958 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 25
27399899 TATACTTAGA
27399909 TTAGTT-TTAGTTTAATTTAATTAACC
1 TTAGTTATTAG-TTAA-TTAATTAACC
27399935 TTAGTTAGTTAGTTAATTAATTAA
1 TTAGTTA-TTAGTTAATTAATTAA
27399959 GGCATAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
26 14 0.64
27 4 0.18
28 4 0.18
ACGTcount: A:0.34, C:0.04, G:0.10, T:0.52
Consensus pattern (25 bp):
TTAGTTATTAGTTAATTAATTAACC
Found at i:27400656 original size:34 final size:35
Alignment explanation
Indices: 27400598--27400664 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
27400588 CAAACACCAG
*
27400598 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
* * *
27400633 AAAACATTTTCCCG-AAGTCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
27400665 TATTTTACTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 16 0.57
35 12 0.43
ACGTcount: A:0.43, C:0.15, G:0.10, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:27401077 original size:6 final size:6
Alignment explanation
Indices: 27401062--27401151 Score: 135
Period size: 6 Copynumber: 15.0 Consensus size: 6
27401052 AGTACCATTG
* * * *
27401062 ACATAT ACATAA ACATAC ACATAC ACATAT ACATAT ACATAC ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
*
27401110 ACATAT ACATAT ACATAT ACATAC ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
27401152 TTCAAACGTA
Statistics
Matches: 77, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 77 1.00
ACGTcount: A:0.51, C:0.21, G:0.00, T:0.28
Consensus pattern (6 bp):
ACATAT
Found at i:27405664 original size:30 final size:29
Alignment explanation
Indices: 27405628--27405693 Score: 73
Period size: 29 Copynumber: 2.2 Consensus size: 29
27405618 ACAATTCAAC
*
27405628 CTAAATT-TTGAAATATGAAAAGTAT-AGAGA
1 CTAAATTCCTGAAA-AT-AAAAGTATAAG-GA
*
27405658 CTAAATTCCTGAAAATAGAAGTATAAGGA
1 CTAAATTCCTGAAAATAAAAGTATAAGGA
27405687 CTAAATT
1 CTAAATT
27405694 ACTAATTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
29 16 0.50
30 11 0.34
31 5 0.16
ACGTcount: A:0.48, C:0.08, G:0.15, T:0.29
Consensus pattern (29 bp):
CTAAATTCCTGAAAATAAAAGTATAAGGA
Found at i:27409872 original size:16 final size:16
Alignment explanation
Indices: 27409851--27409897 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 16
27409841 ATATTTAAAC
27409851 ATATAATAAATTATTA
1 ATATAATAAATTATTA
**
27409867 ATATAATTTATTATT-
1 ATATAATAAATTATTA
*
27409882 -TTTAATAAATTATTA
1 ATATAATAAATTATTA
27409897 A
1 A
27409898 ATATTTAAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 4
0.73 0.15 0.12
Matches are distributed among these distances:
14 11 0.46
16 13 0.54
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
ATATAATAAATTATTA
Found at i:27410127 original size:15 final size:15
Alignment explanation
Indices: 27410109--27410141 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
27410099 GTTTCTGTAC
27410109 TTTTATTTTCAAGAA
1 TTTTATTTTCAAGAA
27410124 TTTTATTTTCAAGAA
1 TTTTATTTTCAAGAA
27410139 TTT
1 TTT
27410142 AGTCCCTCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.30, C:0.06, G:0.06, T:0.58
Consensus pattern (15 bp):
TTTTATTTTCAAGAA
Found at i:27410666 original size:17 final size:20
Alignment explanation
Indices: 27410629--27410676 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 20
27410619 ATTAGTTGAA
27410629 TTAATATTTTAATATATATT
1 TTAATATTTTAATATATATT
27410649 TTAAT-TTTT-ATA-ATATT
1 TTAATATTTTAATATATATT
*
27410666 TTAATAATTTA
1 TTAATATTTTA
27410677 TTCAATTGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 10 0.40
18 6 0.24
19 4 0.16
20 5 0.20
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
TTAATATTTTAATATATATT
Found at i:27415502 original size:24 final size:24
Alignment explanation
Indices: 27415470--27415518 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
27415460 AACGGGTATG
27415470 TAGCTATTCTATCAATTGAGGAGC
1 TAGCTATTCTATCAATTGAGGAGC
27415494 TAGCTATTCTATCAATTGAGGAGC
1 TAGCTATTCTATCAATTGAGGAGC
27415518 T
1 T
27415519 GACTCTGTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (24 bp):
TAGCTATTCTATCAATTGAGGAGC
Found at i:27419422 original size:17 final size:18
Alignment explanation
Indices: 27419400--27419436 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
27419390 AGGCCAATTT
27419400 GGGCGTATGGG-CCACAC
1 GGGCGTATGGGCCCACAC
*
27419417 GGGCGTTTGGGCCCACAC
1 GGGCGTATGGGCCCACAC
27419435 GG
1 GG
27419437 ACATGTGGGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.14, C:0.30, G:0.43, T:0.14
Consensus pattern (18 bp):
GGGCGTATGGGCCCACAC
Found at i:27421084 original size:44 final size:42
Alignment explanation
Indices: 27421015--27421119 Score: 122
Period size: 44 Copynumber: 2.5 Consensus size: 42
27421005 AGTTATCCCG
* * * *
27421015 TAAGACCACGTCTGGGACGTTGGCGTCGATTTGA-GATTTACGTA
1 TAAGACCATGTCTGGGACATCGGCGTCG-TAT-ACGATTT-CGTA
*
27421059 TAAGACCATGTCTGGGACATCGGCGTCGTATACGATTTCGTG
1 TAAGACCATGTCTGGGACATCGGCGTCGTATACGATTTCGTA
*
27421101 TAAGACCCTGTCTGGGACA
1 TAAGACCATGTCTGGGACA
27421120 GTGGCATTGA
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
42 22 0.41
43 7 0.13
44 25 0.46
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.28
Consensus pattern (42 bp):
TAAGACCATGTCTGGGACATCGGCGTCGTATACGATTTCGTA
Found at i:27423180 original size:150 final size:150
Alignment explanation
Indices: 27422958--27423258 Score: 566
Period size: 150 Copynumber: 2.0 Consensus size: 150
27422948 CAACTTATTG
27422958 TGGTGGTATATGCGTTTGGTATATGAAATGATACATACCTAGTTGTAATTTAAGAGATCGAATGT
1 TGGTGGTATATGCGTTTGGTATATGAAATGATACATACCTAGTTGTAATTTAAGAGATCGAATGT
27423023 CATATATTTGATAGCTATATGGTTTAAATCTTGTAAATATGAGACATGTGTAAATTGGTTTTGTT
66 CATATATTTGATAGCTATATGGTTTAAATCTTGTAAATATGAGACATGTGTAAATTGGTTTTGTT
*
27423088 GTATAACAACTTAGTTCGAA
131 GTATAAAAACTTAGTTCGAA
*
27423108 TGGTGGTATATGCGTTTGGTATATGAAATGATACATACCTAGTTTTAATTTAAGAGATCGAATGT
1 TGGTGGTATATGCGTTTGGTATATGAAATGATACATACCTAGTTGTAATTTAAGAGATCGAATGT
* *
27423173 CATATATTTGATAGCTGTATGGTTTAAATTTTGTAAATATGAGACATGTGTAAATTGGTTTTGTT
66 CATATATTTGATAGCTATATGGTTTAAATCTTGTAAATATGAGACATGTGTAAATTGGTTTTGTT
27423238 GTATAAAAACTTAGTTCGAA
131 GTATAAAAACTTAGTTCGAA
27423258 T
1 T
27423259 ATTTGGAATA
Statistics
Matches: 147, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
150 147 1.00
ACGTcount: A:0.32, C:0.07, G:0.21, T:0.40
Consensus pattern (150 bp):
TGGTGGTATATGCGTTTGGTATATGAAATGATACATACCTAGTTGTAATTTAAGAGATCGAATGT
CATATATTTGATAGCTATATGGTTTAAATCTTGTAAATATGAGACATGTGTAAATTGGTTTTGTT
GTATAAAAACTTAGTTCGAA
Found at i:27429297 original size:14 final size:14
Alignment explanation
Indices: 27429278--27429310 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
27429268 AAGCCCAAAA
27429278 CCAAATTCAGTGGC
1 CCAAATTCAGTGGC
27429292 CCAAATTCAGTGGC
1 CCAAATTCAGTGGC
27429306 CCAAA
1 CCAAA
27429311 CAAACATGGC
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:0.33, C:0.30, G:0.18, T:0.18
Consensus pattern (14 bp):
CCAAATTCAGTGGC
Found at i:27430817 original size:12 final size:12
Alignment explanation
Indices: 27430802--27430826 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
27430792 ATTTGTGCTT
27430802 TCATTTATATTA
1 TCATTTATATTA
27430814 TCATTTATATTA
1 TCATTTATATTA
27430826 T
1 T
27430827 GTTGCTCGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (12 bp):
TCATTTATATTA
Found at i:27431215 original size:98 final size:98
Alignment explanation
Indices: 27431091--27431280 Score: 326
Period size: 98 Copynumber: 1.9 Consensus size: 98
27431081 AATCATGAAG
* *
27431091 GAAATATTTCGAGTTTGAGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTCTTAAA
1 GAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTTAAA
27431156 TCTTGGATAAGTGGATGTTCTTTTAAATTAAAA
66 TCTTGGATAAGTGGATGTTCTTTTAAATTAAAA
* * *
27431189 GAAATATTCCGAGTTTGGGATTCTAAAGGGATCGTGCCCTAACGTATTGGGTGTGGTTTCTTAAA
1 GAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTTAAA
*
27431254 TCTTGGATGAGTGGATGTTCTTTTAAA
66 TCTTGGATAAGTGGATGTTCTTTTAAA
27431281 ATTTTTATAT
Statistics
Matches: 86, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
98 86 1.00
ACGTcount: A:0.27, C:0.11, G:0.24, T:0.38
Consensus pattern (98 bp):
GAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTTAAA
TCTTGGATAAGTGGATGTTCTTTTAAATTAAAA
Found at i:27442628 original size:44 final size:43
Alignment explanation
Indices: 27442553--27443025 Score: 268
Period size: 44 Copynumber: 10.8 Consensus size: 43
27442543 CCAAGCCTTG
* * * *
27442553 TCTCCCTAAGCAGTAGCGGAGGAGGTTGAAGATTATAGATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACTA-AGATCTTA
* * *
27442597 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACGAATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACTAAG-ATCTTA
* * * * *
27442641 TCTTTCC-AAG-A-TAGTGGGAAGTAGATTTAAGCCACTAAG-CCTTG
1 TC-TCCCTAAGCAGTAGT-GG-AGCAGATTGAAG--ACTAAGATCTTA
* * * *
27442685 TCTCCCTAAGCAATAGTGGAGGAGGTTGAAGATTATAGATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACTA-AGATCTTA
* * *
27442729 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACGAATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACTAAG-ATCTTA
* * * * * *
27442773 TCTTTCC-AAG-A-TAGTGGGAAGTAGATTTAAGCCACCAAG-CCTTG
1 TC-TCCCTAAGCAGTAGT-GG-AGCAGATTGAAG--ACTAAGATCTTA
* * * *
27442817 TCTCCCTAAGCAGTAGCGGAGAAGGTTGAAGATTATAGATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACTA-AGATCTTA
* * * ***
27442861 TCTCTCTAAGAAGTAGTGGAGCAGATCGAAGACGGCGAATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACTAAG-ATCTTA
* * * * *
27442905 TCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAGCCACCAAG-CCTTG
1 TC-TCCCTAAGCAGTAGT-GG-AGCAGATTGAAG--ACTAAGATCTTA
* * *
27442949 TCTCCCTAAGCAGTAGTGGAGGAGGTTGAAGATTATAGATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACTA-AGATCTTA
*
27442993 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAC
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGAC
27443026 GGCGAATCTT
Statistics
Matches: 319, Mismatches: 77, Indels: 66
0.69 0.17 0.14
Matches are distributed among these distances:
42 19 0.06
43 27 0.08
44 234 0.73
45 17 0.05
46 22 0.07
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (43 bp):
TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACTAAGATCTTA
Found at i:27443099 original size:132 final size:132
Alignment explanation
Indices: 27442479--27443063 Score: 1053
Period size: 132 Copynumber: 4.4 Consensus size: 132
27442469 CTGCATTGAC
* *
27442479 AGTGGAGCAGATCGAAAACGGCGAATCTTATCTTTCCAAGATAGTGGGAAACAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
*
27442544 CAAGCCTTGTCTCCCTAAGCAGTAGCGGAGGAGGTTGAAGATTATAGATCTTATCTCCCTAAGCA
66 CAAGCCTTGTCTCCCTAAGCAGTAGTGGAGGAGGTTGAAGATTATAGATCTTATCTCCCTAAGCA
27442609 GT
131 GT
* *
27442611 AGTGGAGCAGATCGAAGACGACGAATCTTATCTTTCCAAGATAGTGGGAAGTAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
* *
27442676 TAAGCCTTGTCTCCCTAAGCAATAGTGGAGGAGGTTGAAGATTATAGATCTTATCTCCCTAAGCA
66 CAAGCCTTGTCTCCCTAAGCAGTAGTGGAGGAGGTTGAAGATTATAGATCTTATCTCCCTAAGCA
27442741 GT
131 GT
* *
27442743 AGTGGAGCAGATCGAAGACGACGAATCTTATCTTTCCAAGATAGTGGGAAGTAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
* * * *
27442808 CAAGCCTTGTCTCCCTAAGCAGTAGCGGAGAAGGTTGAAGATTATAGATCTTATCTCTCTAAGAA
66 CAAGCCTTGTCTCCCTAAGCAGTAGTGGAGGAGGTTGAAGATTATAGATCTTATCTCCCTAAGCA
27442873 GT
131 GT
27442875 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
27442940 CAAGCCTTGTCTCCCTAAGCAGTAGTGGAGGAGGTTGAAGATTATAGATCTTATCTCCCTAAGCA
66 CAAGCCTTGTCTCCCTAAGCAGTAGTGGAGGAGGTTGAAGATTATAGATCTTATCTCCCTAAGCA
27443005 GT
131 GT
27443007 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATT
1 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATT
27443064 AAAGTTGACA
Statistics
Matches: 434, Mismatches: 19, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
132 434 1.00
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (132 bp):
AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
CAAGCCTTGTCTCCCTAAGCAGTAGTGGAGGAGGTTGAAGATTATAGATCTTATCTCCCTAAGCA
GT
Found at i:27443412 original size:14 final size:14
Alignment explanation
Indices: 27443393--27443425 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
27443383 AAGCCCAAAA
27443393 CCAAATTCAGTGGC
1 CCAAATTCAGTGGC
27443407 CCAAATTCAGTGGC
1 CCAAATTCAGTGGC
27443421 CCAAA
1 CCAAA
27443426 CAAACATGGC
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:0.33, C:0.30, G:0.18, T:0.18
Consensus pattern (14 bp):
CCAAATTCAGTGGC
Found at i:27443764 original size:18 final size:16
Alignment explanation
Indices: 27443718--27443768 Score: 68
Period size: 15 Copynumber: 3.1 Consensus size: 16
27443708 ATATTTGCGT
*
27443718 TTCTATTTGTTT-TTA
1 TTCTATTTTTTTATTA
27443733 TTCTATTTTTTTATTA
1 TTCTATTTTTTTATTA
27443749 TATCTATTTATTTTATTA
1 T-TCTATTT-TTTTATTA
27443767 TT
1 TT
27443769 TTTATAAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
15 11 0.34
16 4 0.12
17 8 0.25
18 9 0.28
ACGTcount: A:0.20, C:0.06, G:0.02, T:0.73
Consensus pattern (16 bp):
TTCTATTTTTTTATTA
Found at i:27444942 original size:12 final size:12
Alignment explanation
Indices: 27444927--27444951 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
27444917 ATTTGTGCTT
27444927 TCATTTATATTA
1 TCATTTATATTA
27444939 TCATTTATATTA
1 TCATTTATATTA
27444951 T
1 T
27444952 GTTGCTCGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (12 bp):
TCATTTATATTA
Found at i:27445335 original size:98 final size:98
Alignment explanation
Indices: 27445215--27445404 Score: 312
Period size: 98 Copynumber: 1.9 Consensus size: 98
27445205 AATCATGAAG
*
27445215 GAAATATTCCGAGTTTGAGATTCT-AAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTCTTAA
1 GAAATATTCCGAGTTTGAGATTCTAAAAGG-ATCGTGCCCTAACGTATTGGGTGTGATTTCTTAA
27445279 ATCTTGGATAAGTGGATGTTCTTTTAAATTAAAA
65 ATCTTGGATAAGTGGATGTTCTTTTAAATTAAAA
* *
27445313 GAAATATTCCGAGTTT-AGGATTCTAAAAGGATCGTGCCCTAGCGTATTGGGTGTGGTTTCTTAA
1 GAAATATTCCGAGTTTGA-GATTCTAAAAGGATCGTGCCCTAACGTATTGGGTGTGATTTCTTAA
*
27445377 ATCTTGGATGAGTGGATGTTCTTTTAAA
65 ATCTTGGATAAGTGGATGTTCTTTTAAA
27445405 ATTTTTATAT
Statistics
Matches: 86, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
97 1 0.01
98 80 0.93
99 5 0.06
ACGTcount: A:0.28, C:0.11, G:0.24, T:0.37
Consensus pattern (98 bp):
GAAATATTCCGAGTTTGAGATTCTAAAAGGATCGTGCCCTAACGTATTGGGTGTGATTTCTTAAA
TCTTGGATAAGTGGATGTTCTTTTAAATTAAAA
Found at i:27455838 original size:195 final size:185
Alignment explanation
Indices: 27455423--27455861 Score: 483
Period size: 195 Copynumber: 2.3 Consensus size: 185
27455413 TGAGTAAAGG
* ** *
27455423 ATTTGATCTTGCTCATGATTCCACTATGTGGTGAAATTGAGTTG-GACCACCATTT-CAATGTAT
1 ATTTGATCTCGCTCACCATTCCACTATGTGGTGAAATTGAGTTGTG-CCACCATTTGCAATATAT
* * * * *
27455486 GAATTTATTTAATTATGGTATTTATTTTTTTAAAATTTATTATATATAATGAATGTTTGATGTTT
65 GAATTTATATAATTATGATATTTATTTTTTAAAAATTTATTATATATAATGAATATTTGATATTT
* * * * * *
27455551 AATATGAATTTATCATGATTTTTTAATTGTTATGGTATTTTATAGTGAGGGTGAAGG
130 AATATGAATTTATCATAATTTTTTAA-TATTATGATATTTTAAACTGAGGGTGAAGA
* * *
27455608 ATTTGATCTCTCTTATCATTCCACTATGTGGTGAAATTGAGTTGTGCCACCATTTGCAATATATG
1 ATTTGATCTCGCTCACCATTCCACTATGTGGTGAAATTGAGTTGTGCCACCATTTGCAATATATG
*
27455673 ATATTT-TATAATTATGATATTTTATTTTTTAAAAATTTATTACATATGATGAATATTTAATATT
66 A-ATTTATATAATTATGATA-TTTATTTTTTAAAAATTTATT--ATAT-AT--A-A-TGAATATT
*
27455737 TTATAAAATTTAATATGAATTTATCATAATTTTTTAA-ATTATGATATTTTAAACTGAGGGTGAA
122 TGAT---ATTTAATATGAATTTATCATAATTTTTTAATATTATGATATTTTAAACTGAGGGTGAA
27455801 GA
184 GA
* * * * *
27455803 ATTTGAT-TGCGCTCACCATTCTATTATGCGGTGAAATTGAGTTGTACCACAATTTGCAA
1 ATTTGATCT-CGCTCACCATTCCACTATGTGGTGAAATTGAGTTGTGCCACCATTTGCAA
27455862 GGTAAGACAT
Statistics
Matches: 213, Mismatches: 26, Indels: 20
0.82 0.10 0.08
Matches are distributed among these distances:
185 49 0.23
186 21 0.10
187 24 0.11
189 4 0.02
190 2 0.01
192 1 0.00
193 1 0.00
194 10 0.05
195 73 0.34
197 28 0.13
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.45
Consensus pattern (185 bp):
ATTTGATCTCGCTCACCATTCCACTATGTGGTGAAATTGAGTTGTGCCACCATTTGCAATATATG
AATTTATATAATTATGATATTTATTTTTTAAAAATTTATTATATATAATGAATATTTGATATTTA
ATATGAATTTATCATAATTTTTTAATATTATGATATTTTAAACTGAGGGTGAAGA
Found at i:27456649 original size:30 final size:31
Alignment explanation
Indices: 27456597--27456663 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 31
27456587 TAAGCTTCCT
**
27456597 AAAT-TTTTTTAAAGTTTAAATTAAACTCCC
1 AAATATTTTTTAAAAATTAAATTAAACTCCC
**
27456627 AAATATTTTTTAAAAATT-AATTAGGCTCCC
1 AAATATTTTTTAAAAATTAAATTAAACTCCC
27456657 AAA-ATTT
1 AAATATTT
27456664 AATGTCGAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 4 0.12
30 17 0.53
31 11 0.34
ACGTcount: A:0.42, C:0.12, G:0.04, T:0.42
Consensus pattern (31 bp):
AAATATTTTTTAAAAATTAAATTAAACTCCC
Found at i:27463187 original size:27 final size:27
Alignment explanation
Indices: 27463121--27463188 Score: 100
Period size: 27 Copynumber: 2.5 Consensus size: 27
27463111 AAATCACTAC
* * * *
27463121 AAAGGTTTCCATATCTTGGATCGCCAT
1 AAAGGCTTCCATCTCTTAGAACGCCAT
27463148 AAAGGCTTCCATCTCTTAGAACGCCAT
1 AAAGGCTTCCATCTCTTAGAACGCCAT
27463175 AAAGGCTTCCATCT
1 AAAGGCTTCCATCT
27463189 TTGGCGTGTT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.29
Consensus pattern (27 bp):
AAAGGCTTCCATCTCTTAGAACGCCAT
Found at i:27466956 original size:26 final size:26
Alignment explanation
Indices: 27466927--27466976 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
27466917 GCTTTTTACA
27466927 ATTTTACCCTTGATAAAATTTTGATG
1 ATTTTACCCTTGATAAAATTTTGATG
* *
27466953 ATTTTGCCCTTGGTAAAATTTTGA
1 ATTTTACCCTTGATAAAATTTTGA
27466977 GAAAATAAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.28, C:0.12, G:0.14, T:0.46
Consensus pattern (26 bp):
ATTTTACCCTTGATAAAATTTTGATG
Found at i:27469354 original size:20 final size:20
Alignment explanation
Indices: 27469312--27469369 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 20
27469302 AACCCAATAG
**
27469312 GTATTGATATTTTTAGATGA
1 GTATTGATATTTTTAGAAAA
*
27469332 GTATTGATATTTTTATAAAA
1 GTATTGATATTTTTAGAAAA
* *
27469352 GTATGGATAATTTT-GAAA
1 GTATTGATATTTTTAGAAA
27469370 TGGTATCGAT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 3 0.09
20 29 0.91
ACGTcount: A:0.36, C:0.00, G:0.17, T:0.47
Consensus pattern (20 bp):
GTATTGATATTTTTAGAAAA
Found at i:27476381 original size:16 final size:16
Alignment explanation
Indices: 27476360--27476406 Score: 69
Period size: 16 Copynumber: 3.0 Consensus size: 16
27476350 TTATAGATTA
27476360 TTGGAAGCTTGATCGG
1 TTGGAAGCTTGATCGG
*
27476376 TTGGAAGCTCGATCGG
1 TTGGAAGCTTGATCGG
*
27476392 TTGGAATCTTG-TCGG
1 TTGGAAGCTTGATCGG
27476407 AGACCTATGA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
15 4 0.14
16 24 0.86
ACGTcount: A:0.17, C:0.15, G:0.36, T:0.32
Consensus pattern (16 bp):
TTGGAAGCTTGATCGG
Found at i:27492791 original size:40 final size:40
Alignment explanation
Indices: 27492694--27492914 Score: 214
Period size: 40 Copynumber: 5.5 Consensus size: 40
27492684 TTGAATGCTG
* * * * * *
27492694 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
27492734 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
27492774 TCTGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
** *
27492814 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTGAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
27492854 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
27492893 ACCGGGCTATGTCCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCA
27492915 CTTGAACGAG
Statistics
Matches: 155, Mismatches: 23, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
39 32 0.21
40 115 0.74
41 8 0.05
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:27492936 original size:79 final size:80
Alignment explanation
Indices: 27492772--27492951 Score: 188
Period size: 79 Copynumber: 2.3 Consensus size: 80
27492762 CGAGATACTA
* * * *
27492772 AATCTGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCAT
1 AATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
** ** *
27492837 TCGTGCGAGTTGTTG
66 TCGAACGAGGAGCTG
* * *
27492852 AATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCAC
1 AATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCA-
27492916 TT-GAACGAGGAGCT-
65 TTCGAACGAGGAGCTG
* *
27492930 ATATCC-GGTTAAATTCCGAAGG
1 A-ATCCGGGTTAAGTCCCGAAGG
27492952 TACGTGATTT
Statistics
Matches: 83, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
78 14 0.17
79 43 0.52
80 26 0.31
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (80 bp):
AATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
TCGAACGAGGAGCTG
Found at i:27497247 original size:23 final size:22
Alignment explanation
Indices: 27497204--27497249 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
27497194 ATTTTATTCA
*
27497204 ACTTTAACTTTTATTCAAAAAC
1 ACTTTAACTTTTATACAAAAAC
* *
27497226 ACTTTAATTTGTTATACCAAAAC
1 ACTTTAACTT-TTATACAAAAAC
27497249 A
1 A
27497250 TATTATTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.41, C:0.17, G:0.02, T:0.39
Consensus pattern (22 bp):
ACTTTAACTTTTATACAAAAAC
Found at i:27503716 original size:76 final size:76
Alignment explanation
Indices: 27503586--27503726 Score: 176
Period size: 76 Copynumber: 1.9 Consensus size: 76
27503576 AATGAGTGCT
* * *** * *
27503586 TGATATCATTGGTTTATTCGACTAGCGTTGGGCGCAAATCTTTGTTGGTATATCCAACTAGTGCT
1 TGATATCATTGGTTTATCCAACTAGAACTGGGCGCAAATCATTGTTGATATATCCAACTAGTGCT
27503651 AGGCACACATC
66 AGGCACACATC
* * *
27503662 TGATATCATTGGTTTATCCAACTAGAACTGGGTGCAAATCATTGTCT-ATTTATCCGACTAGTGC
1 TGATATCATTGGTTTATCCAACTAGAACTGGGCGCAAATCATTGT-TGATATATCCAACTAGTGC
27503726 T
65 T
27503727 GGGCGTAACT
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
76 53 0.98
77 1 0.02
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (76 bp):
TGATATCATTGGTTTATCCAACTAGAACTGGGCGCAAATCATTGTTGATATATCCAACTAGTGCT
AGGCACACATC
Found at i:27503759 original size:36 final size:36
Alignment explanation
Indices: 27503596--27503762 Score: 109
Period size: 36 Copynumber: 4.5 Consensus size: 36
27503586 TGATATCATT
* * * * * *
27503596 GGTTTATTCGACTAGCGTTGGGCGCAAATCTTTGTT
1 GGTTTATCCAACTAGTGCTGGGCGCAAATCATTGTC
* * * * * *
27503632 GGTATATCCAACTAGTGCTAGGCACACATCTGATATCATT
1 GGTTTATCCAACTAGTGCTGGGCGCAAATC--AT-T-GTC
** *
27503672 GGTTTATCCAACTAGAACTGGGTGCAAATCATTGTC
1 GGTTTATCCAACTAGTGCTGGGCGCAAATCATTGTC
** * * *
27503708 TATTTATCCGACTAGTGCTGGGCGTAACTCATTGTC
1 GGTTTATCCAACTAGTGCTGGGCGCAAATCATTGTC
*
27503744 GGTTTATCCTACTAGTGCT
1 GGTTTATCCAACTAGTGCT
27503763 AGGCACACAT
Statistics
Matches: 97, Mismatches: 30, Indels: 8
0.72 0.22 0.06
Matches are distributed among these distances:
36 67 0.69
37 1 0.01
38 3 0.03
39 1 0.01
40 25 0.26
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.35
Consensus pattern (36 bp):
GGTTTATCCAACTAGTGCTGGGCGCAAATCATTGTC
Found at i:27508147 original size:6 final size:6
Alignment explanation
Indices: 27508094--27508146 Score: 99
Period size: 6 Copynumber: 9.0 Consensus size: 6
27508084 AAAACAATTC
27508094 GATTTT GATTTT GATTTT GATTTT GATTTT GATTTT GATTTT GATTTT
1 GATTTT GATTTT GATTTT GATTTT GATTTT GATTTT GATTTT GATTTT
27508142 G-TTTT
1 GATTTT
27508147 TCTTAACCCA
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 4 0.09
6 43 0.91
ACGTcount: A:0.15, C:0.00, G:0.17, T:0.68
Consensus pattern (6 bp):
GATTTT
Found at i:27513932 original size:21 final size:21
Alignment explanation
Indices: 27513906--27513946 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
27513896 TAAGATTCAG
27513906 ATTATATTTTGCCCCATTTAT
1 ATTATATTTTGCCCCATTTAT
*
27513927 ATTATATTTTTCCCCATTTA
1 ATTATATTTTGCCCCATTTA
27513947 CTCAAAACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.24, C:0.20, G:0.02, T:0.54
Consensus pattern (21 bp):
ATTATATTTTGCCCCATTTAT
Found at i:27515409 original size:20 final size:20
Alignment explanation
Indices: 27515384--27515424 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
27515374 TCAGATTATT
*
27515384 TAATAATTATAAGATGGCAA
1 TAATAATTATAAGATGACAA
*
27515404 TAATAATTATAGGATGACAA
1 TAATAATTATAAGATGACAA
27515424 T
1 T
27515425 TAATTTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.49, C:0.05, G:0.15, T:0.32
Consensus pattern (20 bp):
TAATAATTATAAGATGACAA
Found at i:27518654 original size:163 final size:162
Alignment explanation
Indices: 27518469--27518802 Score: 614
Period size: 163 Copynumber: 2.0 Consensus size: 162
27518459 GAACAGTACA
27518469 TGAATAAGACAAAGATTACATGAAGACAACCTTAAAAATATGGTAAAATGTAAAATAGCGAGAAG
1 TGAATAAGACAAAGATTACATGAAGACAACCTTAAAAATATGGTAAAATGTAAAATAGCGAGAAG
27518534 AGTTTATGGTCAAAATGGTTGTTCAACTAAGTACAGAAAATCGGTAAATGATGTGCAGAAGGTTT
66 AGTTTATGGTCAAAATGGTTGTTCAACTAAGTACAGAAAATCGGTAAATGATGTGCAGAAGGTTT
27518599 AGATATTTAGAATTTTGAAAGAGTTACACAGT
131 AGATATTTAGAATTTTGAAAGAGTTACACAGT
* *
27518631 TGAATAAGACAAAAGATTACATGAAGACAACCTTAAAAATATGGTAAAATGTAAGATAGTGAGAA
1 TGAATAAGAC-AAAGATTACATGAAGACAACCTTAAAAATATGGTAAAATGTAAAATAGCGAGAA
* *
27518696 GAGTTTATGGTCAAAATGGTTGTTCAACTCAGTATAGAAAATCGGTAAATGATGTGCAGAAGGTT
65 GAGTTTATGGTCAAAATGGTTGTTCAACTAAGTACAGAAAATCGGTAAATGATGTGCAGAAGGTT
27518761 TAGATATTTAGAATTTTGAAAGAGTTACACAGT
130 TAGATATTTAGAATTTTGAAAGAGTTACACAGT
27518794 TGAACTAAG
1 TGAA-TAAG
27518803 TAAGATATAT
Statistics
Matches: 166, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
162 10 0.06
163 152 0.92
164 4 0.02
ACGTcount: A:0.43, C:0.08, G:0.21, T:0.28
Consensus pattern (162 bp):
TGAATAAGACAAAGATTACATGAAGACAACCTTAAAAATATGGTAAAATGTAAAATAGCGAGAAG
AGTTTATGGTCAAAATGGTTGTTCAACTAAGTACAGAAAATCGGTAAATGATGTGCAGAAGGTTT
AGATATTTAGAATTTTGAAAGAGTTACACAGT
Found at i:27520735 original size:101 final size:101
Alignment explanation
Indices: 27520603--27520786 Score: 264
Period size: 101 Copynumber: 1.8 Consensus size: 101
27520593 TTTGGTCTTA
* * * * *
27520603 GTTGAATATATGGCATTAGACCATTGAAAGAATTA-TGCATATCAGAA-TAAATGAGCACCTAAT
1 GTTGAATATATCGCATCAGACAACTGAAAGAATTATTG-ATATCA-AATTAAATGAGCACCTAAA
27520666 TCCCACTTATCCCAAGTTTTAGGGTGTCAGAAGCCTTG
64 TCCCACTTATCCCAAGTTTTAGGGTGTCAGAAGCCTTG
* * *
27520704 GTTGAATATATCGCATCAGAGAACTGAAAGAATTATTGGTATCAAATTAAATGAGCATCTAAATC
1 GTTGAATATATCGCATCAGACAACTGAAAGAATTATTGATATCAAATTAAATGAGCACCTAAATC
27520769 CCACTTATCCCAAGTTTT
66 CCACTTATCCCAAGTTTT
27520787 TGGGCTTCAT
Statistics
Matches: 73, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
100 2 0.03
101 69 0.95
102 2 0.03
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.30
Consensus pattern (101 bp):
GTTGAATATATCGCATCAGACAACTGAAAGAATTATTGATATCAAATTAAATGAGCACCTAAATC
CCACTTATCCCAAGTTTTAGGGTGTCAGAAGCCTTG
Found at i:27522118 original size:85 final size:83
Alignment explanation
Indices: 27521974--27522200 Score: 249
Period size: 85 Copynumber: 2.7 Consensus size: 83
27521964 TGAGCTTCGG
* * * * *
27521974 CACCACCGGCAACCTAGGACGTTGGATGTACGGGAGCCTCAAGCAGCATCAGCACCTTTGTGCTT
1 CACCATCGGCAACCTAGGACGTTGG-TGTGCGGGAG-CTCGAGCAGCATCGGCATCTTTGTGCTT
27522039 CGATGTGCCGGAGCCTC-GAA
64 CGATGTGCCGGAGCCTCAG-A
* *
27522059 CACCATCGGCAACTTAGAACGTTGGTGGTGCGGGAGCATCGAGCAGCATCGGCATCTTTGTGCTT
1 CACCATCGGCAACCTAGGACGTTGGT-GTGCGGGAGC-TCGAGCAGCATCGGCATCTTTGTGCTT
* * *
27522124 GGATGTGCGGGAGCTTCAGA
64 CGATGTGCCGGAGCCTCAGA
* * * * *
27522144 CACCATCAGCAACCTAGGACGTTTGATGTGTGGGAGTCTCGAGCAGGACCGGCATCT
1 CACCATCGGCAACCTAGGACG-TTGGTGTGCGGGAG-CTCGAGCAGCATCGGCATCT
27522201 CCGTGCCTTG
Statistics
Matches: 120, Mismatches: 17, Indels: 10
0.82 0.12 0.07
Matches are distributed among these distances:
84 2 0.02
85 112 0.93
86 6 0.05
ACGTcount: A:0.22, C:0.26, G:0.31, T:0.21
Consensus pattern (83 bp):
CACCATCGGCAACCTAGGACGTTGGTGTGCGGGAGCTCGAGCAGCATCGGCATCTTTGTGCTTCG
ATGTGCCGGAGCCTCAGA
Found at i:27526436 original size:131 final size:131
Alignment explanation
Indices: 27526199--27526463 Score: 449
Period size: 131 Copynumber: 2.0 Consensus size: 131
27526189 CTCAAAAATT
*
27526199 GGATAAAAAATCTGATACAATGATGAAATTAAAGATGAATACTCTAATGTATTGAGGAAAAAGCT
1 GGATAAAAAATCTGATACAATGATGAAATTAAAGATGAATACTCTAATGTATTGAGGAAAAAACT
* * * * * *
27526264 CTCCCAGAGTATGTATTTCTTAGAAATATGTACAACTATATATACATGCAGCATTGAATTAATTA
66 CTCCCAAAGTATATATTTCTTAGAAATATGTACAACAATATATACATGCAACATTGAATCAACTA
27526329 A
131 A
*
27526330 GGATAAAAAATCTGATACTATGATGAAATTAAAGATGAATACTCTAATGTATTGAGGAAAAAACT
1 GGATAAAAAATCTGATACAATGATGAAATTAAAGATGAATACTCTAATGTATTGAGGAAAAAACT
*
27526395 CTCTCAAAGTATATATTTCTTAGAAATATGTACAACAATATATACATGCAACATTGAATCAACTA
66 CTCCCAAAGTATATATTTCTTAGAAATATGTACAACAATATATACATGCAACATTGAATCAACTA
27526460 A
131 A
27526461 GGA
1 GGA
27526464 AAGAATATCT
Statistics
Matches: 125, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
131 125 1.00
ACGTcount: A:0.44, C:0.12, G:0.14, T:0.30
Consensus pattern (131 bp):
GGATAAAAAATCTGATACAATGATGAAATTAAAGATGAATACTCTAATGTATTGAGGAAAAAACT
CTCCCAAAGTATATATTTCTTAGAAATATGTACAACAATATATACATGCAACATTGAATCAACTA
A
Found at i:27534149 original size:75 final size:75
Alignment explanation
Indices: 27534060--27534689 Score: 645
Period size: 75 Copynumber: 8.4 Consensus size: 75
27534050 AACAAATTGC
* * * * * *
27534060 TAGAAAATCGAGGGTCGAGATATTAAATAAGCGGACCGTAAAAATATCACCTGTGAACGTAGGTC
1 TAGAAAACCAAGGGTCGCGATCTTAAATCAGCGGACCGTAAAAATATCAACTGTGAACGTAGGTC
*
27534125 AACGAGCTGT
66 AGCGAGCTGT
** * * *
27534135 TAGAAAACCAAGGGTCGCGATCTTAAATCAATGGACCATAAAAATATCAACTGTGAACATAGATC
1 TAGAAAACCAAGGGTCGCGATCTTAAATCAGCGGACCGTAAAAATATCAACTGTGAACGTAGGTC
*
27534200 AGCGAGTTGT
66 AGCGAGCTGT
* * * *
27534210 TAGAAAACCAAAGGTCGTGATCTTAAATCAGCGGACCGTAAAAATGTCAACTGTGAACATAGGTC
1 TAGAAAACCAAGGGTCGCGATCTTAAATCAGCGGACCGTAAAAATATCAACTGTGAACGTAGGTC
*
27534275 AACGAGCTGT
66 AGCGAGCTGT
** * * * * * *
27534285 TAGAAAACTGAGGGTCGTGATATTAAATCAGCGAACCATAAAAATATCAACAGTGAATGTAGGTC
1 TAGAAAACCAAGGGTCGCGATCTTAAATCAGCGGACCGTAAAAATATCAACTGTGAACGTAGGTC
** *
27534350 AATGAACTGT
66 AGCGAGCTGT
* * * * *
27534360 TAGAAAACCAAGGGTCGCAATCTTAAATCAGTGGACCATAAAAGTATC-ACTTGTGAATGTAGGT
1 TAGAAAACCAAGGGTCGCGATCTTAAATCAGCGGACCGTAAAAATATCAAC-TGTGAACGTAGGT
*
27534424 CAGCGACCTGT
65 CAGCGAGCTGT
* * * * **
27534435 TAGAAAATCGAA-GGTTGCGATCTTAAATCAGCGAACCCT-AAAATATCAGTTGTGAACGTAGGT
1 TAGAAAA-CCAAGGGTCGCGATCTTAAATCAGCGGACCGTAAAAATATCAACTGTGAACGTAGGT
* * *
27534498 TAGCAAGCTAT
65 CAGCGAGCTGT
* * * * * *
27534509 TAGAAAACCGAGGGTCGCGATCTTAAATCAGTGGACCGTAAAAGTATCAGCTGGGAATGTAGGTC
1 TAGAAAACCAAGGGTCGCGATCTTAAATCAGCGGACCGTAAAAATATCAACTGTGAACGTAGGTC
27534574 AGCGAGCTGT
66 AGCGAGCTGT
* * * * * * * * *
27534584 TAAAAAACCGATGGTCGTGATCTTAAATTAACAGACCGCAAAAATATCAACTGCGAACGTAGGTC
1 TAGAAAACCAAGGGTCGCGATCTTAAATCAGCGGACCGTAAAAATATCAACTGTGAACGTAGGTC
27534649 AGCGAGCTGT
66 AGCGAGCTGT
* * * * *
27534659 TAGAACACCGATGGTCACGATTTTAAATCAG
1 TAGAAAACCAAGGGTCGCGATCTTAAATCAG
27534690 TGGGACACAA
Statistics
Matches: 458, Mismatches: 92, Indels: 10
0.82 0.16 0.02
Matches are distributed among these distances:
73 2 0.00
74 58 0.13
75 395 0.86
76 3 0.01
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.23
Consensus pattern (75 bp):
TAGAAAACCAAGGGTCGCGATCTTAAATCAGCGGACCGTAAAAATATCAACTGTGAACGTAGGTC
AGCGAGCTGT
Found at i:27534459 original size:225 final size:224
Alignment explanation
Indices: 27534060--27534689 Score: 706
Period size: 224 Copynumber: 2.8 Consensus size: 224
27534050 AACAAATTGC
* * *
27534060 TAGAAAA-TCGAGGGTCGAGATATTAAATAAGCGGACCGTAAAAATATCACCTGTGAACGTAGGT
1 TAGAAAACT-GAGGGTCGAGATATTAAATCAGCGGACCGTAAAAATATCAACTGTGAATGTAGGT
27534124 CAACGAGCTGTTAGAAAACCAAGGGTCGCGATCTTAAATCAATGGACCATAAAAATATCAACTGT
65 CAACGAGCTGTTAGAAAACCAAGGGTCGCGATCTTAAATCAATGGACCATAAAAATATCAACTGT
** * * *
27534189 GAACATAGATCAGCGAGTTGTTAGAAAACCAAAGGTCGTGATCTTAAATCAGCGGACCGTAAAAA
130 GAACATAGATCAGCGACCTGTTAGAAAACCAAAGGTCGCGATCTTAAATCAGCGAACCCT-AAAA
* * *
27534254 TGTCAACTGTGAACATAGGTCAACGAGCTGT
194 TATCAACTGTGAACATAGGTCAACAAGCTAT
* * * *
27534285 TAGAAAACTGAGGGTCGTGATATTAAATCAGCGAACCATAAAAATATCAACAGTGAATGTAGGTC
1 TAGAAAACTGAGGGTCGAGATATTAAATCAGCGGACCGTAAAAATATCAACTGTGAATGTAGGTC
* * * * *
27534350 AATGAACTGTTAGAAAACCAAGGGTCGCAATCTTAAATCAGTGGACCATAAAAGTATC-ACTTGT
66 AACGAGCTGTTAGAAAACCAAGGGTCGCGATCTTAAATCAATGGACCATAAAAATATCAAC-TGT
** * * * *
27534414 GAATGTAGGTCAGCGACCTGTTAGAAAATCGAAGGTTGCGATCTTAAATCAGCGAACCCTAAAAT
130 GAACATAGATCAGCGACCTGTTAGAAAACCAAAGGTCGCGATCTTAAATCAGCGAACCCTAAAAT
** * * *
27534479 ATCAGTTGTGAACGTAGGTTAGCAAGCTAT
195 ATCAACTGTGAACATAGGTCAACAAGCTAT
* * * * * * *
27534509 TAGAAAACCGAGGGTCGCGATCTTAAATCAGTGGACCGTAAAAGTATCAGCTGGGAATGTAGGTC
1 TAGAAAACTGAGGGTCGAGATATTAAATCAGCGGACCGTAAAAATATCAACTGTGAATGTAGGTC
* * * * * * ** ** *
27534574 AGCGAGCTGTTAAAAAACCGATGGTCGTGATCTTAAATTAACAGACCGCAAAAATATCAACTGCG
66 AACGAGCTGTTAGAAAACCAAGGGTCGCGATCTTAAATCAATGGACCATAAAAATATCAACTGTG
* * * * * * * *
27534639 AACGTAGGTCAGCGAGCTGTTAGAACACCGATGGTCACGATTTTAAATCAG
131 AACATAGATCAGCGACCTGTTAGAAAACCAAAGGTCGCGATCTTAAATCAG
27534690 TGGGACACAA
Statistics
Matches: 337, Mismatches: 65, Indels: 7
0.82 0.16 0.02
Matches are distributed among these distances:
224 173 0.51
225 163 0.48
226 1 0.00
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.23
Consensus pattern (224 bp):
TAGAAAACTGAGGGTCGAGATATTAAATCAGCGGACCGTAAAAATATCAACTGTGAATGTAGGTC
AACGAGCTGTTAGAAAACCAAGGGTCGCGATCTTAAATCAATGGACCATAAAAATATCAACTGTG
AACATAGATCAGCGACCTGTTAGAAAACCAAAGGTCGCGATCTTAAATCAGCGAACCCTAAAATA
TCAACTGTGAACATAGGTCAACAAGCTAT
Found at i:27534763 original size:61 final size:61
Alignment explanation
Indices: 27534655--27534778 Score: 144
Period size: 61 Copynumber: 2.0 Consensus size: 61
27534645 GGTCAGCGAG
* * * ** **
27534655 CTGTTAGAACACCGATGGTCACGATTTTAAATCAGTGGGACACAAAAATATCAGTTGTGAA
1 CTGTTAGAAAACCAATGGTCACGATCTTAAATCAGTCAGACACAAAAATATCAACTGTGAA
*
27534716 CTGTTAGAAAACCAATGGTCGCGATCTTAAATCAG-CAGAC-CGTAAAAATATCAACTGTGAA
1 CTGTTAGAAAACCAATGGTCACGATCTTAAATCAGTCAGACAC--AAAAATATCAACTGTGAA
27534777 CT
1 CT
27534779 TAGGTCAACA
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
59 1 0.02
60 3 0.06
61 49 0.92
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (61 bp):
CTGTTAGAAAACCAATGGTCACGATCTTAAATCAGTCAGACACAAAAATATCAACTGTGAA
Found at i:27541290 original size:3 final size:3
Alignment explanation
Indices: 27541282--27541316 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
27541272 ATGAAACAGA
27541282 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
27541317 TAGAGAACTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:27541340 original size:5 final size:5
Alignment explanation
Indices: 27541330--27541358 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
27541320 AGAACTTGCA
27541330 ACAAT ACAAT ACAAT ACAAT ACAAT ACAA
1 ACAAT ACAAT ACAAT ACAAT ACAAT ACAA
27541359 AACCTAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.62, C:0.21, G:0.00, T:0.17
Consensus pattern (5 bp):
ACAAT
Found at i:27556597 original size:31 final size:31
Alignment explanation
Indices: 27556559--27556620 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
27556549 CTCCGCACCG
27556559 GGCATGTCACCTTGCCCTTGGCTTTCAAACT
1 GGCATGTCACCTTGCCCTTGGCTTTCAAACT
27556590 GGCATGTCACCTTGCCCTTGGCTTTCAAACT
1 GGCATGTCACCTTGCCCTTGGCTTTCAAACT
27556621 ATCTTTTTAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.16, C:0.32, G:0.19, T:0.32
Consensus pattern (31 bp):
GGCATGTCACCTTGCCCTTGGCTTTCAAACT
Found at i:27560742 original size:37 final size:37
Alignment explanation
Indices: 27560682--27560767 Score: 113
Period size: 37 Copynumber: 2.3 Consensus size: 37
27560672 TATTCAAACT
*
27560682 AAAACACGCCAATCGCTCGTAAGAGCTAATCC-ACCTG
1 AAAACACGCCAATCGCTCATAAGAGCTAATCCAACC-G
* *
27560719 ATAACACGCCAGAT-GCTCATAAGAGCTAGTCCAACCG
1 AAAACACGCCA-ATCGCTCATAAGAGCTAATCCAACCG
27560756 AAAACACGCCAA
1 AAAACACGCCAA
27560768 AACAGGGAGT
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
36 1 0.02
37 37 0.86
38 5 0.12
ACGTcount: A:0.38, C:0.31, G:0.16, T:0.14
Consensus pattern (37 bp):
AAAACACGCCAATCGCTCATAAGAGCTAATCCAACCG
Found at i:27563817 original size:20 final size:21
Alignment explanation
Indices: 27563771--27563818 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
27563761 GACATATATC
* * *
27563771 TTGATTTTATTTTATTCCAAT
1 TTGATTTGATTTTAATCCAAA
27563792 TTGATTTGATTTTAAT-CAAA
1 TTGATTTGATTTTAATCCAAA
27563812 TTGATTT
1 TTGATTT
27563819 AATTGCTCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 10 0.42
21 14 0.58
ACGTcount: A:0.27, C:0.06, G:0.08, T:0.58
Consensus pattern (21 bp):
TTGATTTGATTTTAATCCAAA
Found at i:27564262 original size:5 final size:5
Alignment explanation
Indices: 27564252--27564276 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
27564242 AATATAAATT
27564252 ATTTA ATTTA ATTTA ATTTA ATTTA
1 ATTTA ATTTA ATTTA ATTTA ATTTA
27564277 TATATAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATTTA
Found at i:27564262 original size:20 final size:21
Alignment explanation
Indices: 27564235--27564307 Score: 80
Period size: 20 Copynumber: 3.6 Consensus size: 21
27564225 TTCGTATCTA
*
27564235 ATATTTAAATATAAATTATTT
1 ATATTTAAATATAATTTATTT
*
27564256 A-ATTT-AATTTAATTTAATTT
1 ATATTTAAATATAATTT-ATTT
* *
27564276 ATATATAAATAT-TTTTATTT
1 ATATTTAAATATAATTTATTT
27564296 ATATTTAAATAT
1 ATATTTAAATAT
27564308 TTATTTGCTA
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
19 8 0.19
20 24 0.56
21 7 0.16
22 4 0.09
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
ATATTTAAATATAATTTATTT
Found at i:27566110 original size:15 final size:16
Alignment explanation
Indices: 27566070--27566105 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
27566060 TAAATTCTAA
27566070 TTTTAATTATCATAAT
1 TTTTAATTATCATAAT
27566086 TTTTAATTATCATAAT
1 TTTTAATTATCATAAT
27566102 TTTT
1 TTTT
27566106 CTTATATTTT
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:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTTAATTATCATAAT
Found at i:27567284 original size:31 final size:29
Alignment explanation
Indices: 27567242--27567317 Score: 82
Period size: 31 Copynumber: 2.5 Consensus size: 29
27567232 ACAAGCAAAA
*
27567242 AAATAATAAATAAGCATATATCTTA-ATTTTT
1 AAATAA-AAATAAGCATATAT-TTATA-TTAT
* *
27567273 AGATATAAAATAATCATATATTTATATTAT
1 AAATA-AAAATAAGCATATATTTATATTAT
27567303 AAATAAAAATAAGCA
1 AAATAAAAATAAGCA
27567318 CATAAACAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
29 9 0.24
30 10 0.26
31 18 0.47
32 1 0.03
ACGTcount: A:0.54, C:0.05, G:0.04, T:0.37
Consensus pattern (29 bp):
AAATAAAAATAAGCATATATTTATATTAT
Found at i:27571458 original size:346 final size:347
Alignment explanation
Indices: 27570771--27571819 Score: 2001
Period size: 346 Copynumber: 3.0 Consensus size: 347
27570761 ATGTTACAAT
27570771 CCAACAATTAATACAACATCAAAGTTAAAGAAAGATCAAAGCCACAATAGCAAAAAGAAAAGAAA
1 CCAA-AATTAATACAACATCAAAGTTAAAGAAAGATCAAAGCCACAATAGCAAAAAGAAAAGAAA
27570836 ACGAAAAGCAAAACAAAAAGGAGAAAATTGAAAAGGAAAAGAAAACCAATAATAAAAGAACGTTT
65 ACGAAAAGCAAAACAAAAAGGAGAAAATTGAAAAGGAAAAGAAAACCAATAATAAAAGAACGTTT
*
27570901 TAGTAAAGAGAGGGAAAAAGGAAATTTAGTTAATAGTAAAAAAAAGAAAAAATATACTTAACTAC
130 TAGTAAAGAGAGGGAAAAAGGAAATTTAGTTAATAGT-AAAAGAAGAAAAAATATACTTAACTAC
27570966 CACTCGGTGCAAAATATTCCTCATCGCTTGTGTAAAAACTCGAACACGGGACCATAGGTAATATG
194 CACTCGGTGCAAAATATTCCTCATCGCTTGTGTAAAAACTCGAACACGGGACCATAGGTAATATG
27571031 AAACTTAACTATTGAATTAGCAGGCTCATTCTTGAGCCAAATTAACACAGAAATAAACTTAAGTC
259 AAACTTAACTATTGAATTAGCAGGCTCATTCTTGAGCCAAATTAACACAGAAATAAACTTAAGTC
27571096 GAGGACTCAAGGATAGGGGTTCAA
324 GAGGACTCAAGGATAGGGGTTCAA
* *
27571120 ACAAAATTAATACAACATCAAAGTTAAATAAAGATCAAAGCCACAATAGCAAAAAGAAAAGAAAA
1 CCAAAATTAATACAACATCAAAGTTAAAGAAAGATCAAAGCCACAATAGCAAAAAGAAAAGAAAA
27571185 CGAAAAGCAAAACAAAAAGGAGAAAATTGAAAAGGAAAAGAAAACCAATAATAAAAGAACGTTTT
66 CGAAAAGCAAAACAAAAAGGAGAAAATTGAAAAGGAAAAGAAAACCAATAATAAAAGAACGTTTT
27571250 AGTAAAGAGAGGGAAAAAGGAAATTTAGTTAATAGTAAAAGAAG-AAAAATATACTTAACTACCA
131 AGTAAAGAGAGGGAAAAAGGAAATTTAGTTAATAGTAAAAGAAGAAAAAATATACTTAACTACCA
27571314 CTCGGTGCAAAATATTCCTCATCGCTTGTGTAAAAACTCGAACACGGGACCATAGGTAATATGAA
196 CTCGGTGCAAAATATTCCTCATCGCTTGTGTAAAAACTCGAACACGGGACCATAGGTAATATGAA
27571379 ACTTAACTATTGAATTAGCAGGCTCATTCTTGAGCCAAATTAACACAGAAATAAACTTAAGTCGA
261 ACTTAACTATTGAATTAGCAGGCTCATTCTTGAGCCAAATTAACACAGAAATAAACTTAAGTCGA
27571444 GGACTCAAGGATAGGGGTTCAA
326 GGACTCAAGGATAGGGGTTCAA
*
27571466 CCAAAATTAATTCAACATCAAAGTTAAAGAAAGATCAAAGCCACAATAGCAAAAAGAAAAGAAAA
1 CCAAAATTAATACAACATCAAAGTTAAAGAAAGATCAAAGCCACAATAGCAAAAAGAAAAGAAAA
27571531 CGAAAAGCAAAACAAAAAGGAGAAAATTGAAAAGGAAAAGAAAACCAATAATAAAAGAACGTTTT
66 CGAAAAGCAAAACAAAAAGGAGAAAATTGAAAAGGAAAAGAAAACCAATAATAAAAGAACGTTTT
27571596 AGTAAAGAGAGGGAAAAAGGAAATTTAGTTAATAGTAAAAGAAGAAAAAATATACTTAACTACCA
131 AGTAAAGAGAGGGAAAAAGGAAATTTAGTTAATAGTAAAAGAAGAAAAAATATACTTAACTACCA
* *
27571661 CTCGGTGCAAAATATTCCTCATCGCTTGTGTAAAAACTCGAACACAGGACCATAAGTAATATGAA
196 CTCGGTGCAAAATATTCCTCATCGCTTGTGTAAAAACTCGAACACGGGACCATAGGTAATATGAA
* *
27571726 ACTTAACCATTGAATTAGCAGGCTCATTCTTGAACCAAATTAACACAGAAATAAACTTAAGTCGA
261 ACTTAACTATTGAATTAGCAGGCTCATTCTTGAGCCAAATTAACACAGAAATAAACTTAAGTCGA
27571791 GGACTCAAGGATAGGGGTTCAA
326 GGACTCAAGGATAGGGGTTCAA
27571813 CCAAAAT
1 CCAAAAT
27571820 AAACAATAAA
Statistics
Matches: 689, Mismatches: 10, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
346 343 0.50
347 182 0.26
348 161 0.23
349 3 0.00
ACGTcount: A:0.50, C:0.14, G:0.17, T:0.19
Consensus pattern (347 bp):
CCAAAATTAATACAACATCAAAGTTAAAGAAAGATCAAAGCCACAATAGCAAAAAGAAAAGAAAA
CGAAAAGCAAAACAAAAAGGAGAAAATTGAAAAGGAAAAGAAAACCAATAATAAAAGAACGTTTT
AGTAAAGAGAGGGAAAAAGGAAATTTAGTTAATAGTAAAAGAAGAAAAAATATACTTAACTACCA
CTCGGTGCAAAATATTCCTCATCGCTTGTGTAAAAACTCGAACACGGGACCATAGGTAATATGAA
ACTTAACTATTGAATTAGCAGGCTCATTCTTGAGCCAAATTAACACAGAAATAAACTTAAGTCGA
GGACTCAAGGATAGGGGTTCAA
Found at i:27575408 original size:24 final size:24
Alignment explanation
Indices: 27575380--27575431 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
27575370 TTTCTAGAAG
* *
27575380 ATTTAGTATTTATGAATATAATAT
1 ATTTAGCATTTATGAACATAATAT
* *
27575404 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATGAACATAATAT
27575428 ATTT
1 ATTT
27575432 GACTTTGGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.08, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATGAACATAATAT
Found at i:27578046 original size:34 final size:35
Alignment explanation
Indices: 27577975--27578047 Score: 119
Period size: 35 Copynumber: 2.1 Consensus size: 35
27577965 CTCTATCTCC
*
27577975 AAAAATAGATCTAGAAGAGAAATTAAACCTTCAAA
1 AAAAATAGAACTAGAAGAGAAATTAAACCTTCAAA
* *
27578010 AAAAATAGAAGTAGAAGAGAAATTAAACCTCCAAA
1 AAAAATAGAACTAGAAGAGAAATTAAACCTTCAAA
27578045 AAA
1 AAA
27578048 GTATGCCGAG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.60, C:0.11, G:0.12, T:0.16
Consensus pattern (35 bp):
AAAAATAGAACTAGAAGAGAAATTAAACCTTCAAA
Found at i:27581450 original size:43 final size:43
Alignment explanation
Indices: 27581402--27581548 Score: 167
Period size: 43 Copynumber: 3.5 Consensus size: 43
27581392 ATACCCAGAT
*
27581402 ATGGTCTTACATGTAATCTCATATCGATGCCAATAGCCTAGCC
1 ATGGTCTTACATGTAATCTCATATCGATGCCAATAGCCTAGAC
* * * *
27581445 ATGGTCTTACATGAAATCACATATTGATGCCAAT-GTCCCAGAC
1 ATGGTCTTACATGTAATCTCATATCGATGCCAATAG-CCTAGAC
* * * *
27581488 ATGGTCTTACACG-ATTCTCATATCGATGCC-ATA-TCTCAGAT
1 ATGGTCTTACATGTAATCTCATATCGATGCCAATAGCCT-AGAC
27581529 ATGGTCTTACATGTAATCTC
1 ATGGTCTTACATGTAATCTC
27581549 GGTAACCCTA
Statistics
Matches: 86, Mismatches: 14, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
40 1 0.01
41 17 0.20
42 20 0.23
43 48 0.56
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.32
Consensus pattern (43 bp):
ATGGTCTTACATGTAATCTCATATCGATGCCAATAGCCTAGAC
Found at i:27587443 original size:50 final size:51
Alignment explanation
Indices: 27587328--27587463 Score: 195
Period size: 50 Copynumber: 2.7 Consensus size: 51
27587318 GATAATAACA
**
27587328 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCGG
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCATCTCATATCGG
* * *
27587379 TGCCCATGCCATGTCCCAGACATGGTCTTACGA-GGGA-CATCTCATCTCGG
1 TGCCAAAGCCATGTCCCAGACATGGTCTTAC-ATGGGATCATCTCATATCGG
*
27587429 TGCCAACGCCATGTCCCAGACATGGTCTTACATGG
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGG
27587464 ACCTCTTTAC
Statistics
Matches: 76, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
49 1 0.01
50 41 0.54
51 33 0.43
52 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (51 bp):
TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCATCTCATATCGG
Found at i:27597984 original size:61 final size:58
Alignment explanation
Indices: 27597875--27597990 Score: 160
Period size: 61 Copynumber: 1.9 Consensus size: 58
27597865 ATCACTTTAA
* *
27597875 TATTAAATTAATATAATACTTATCAAGATAAATATTAGATTAAATTTAATATTAAATC
1 TATTAAATTAATAGAATACTTATCAAGATAAATATTAAATTAAATTTAATATTAAATC
* * *
27597933 TATTAAATTAATAGAATATTTATCTACAATATAAATATTAAATTAAGTTTAATATTAA
1 TATTAAATTAATAGAATACTTA--T-CAAGATAAATATTAAATTAAATTTAATATTAA
27597991 GATCATCACT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
58 20 0.40
60 1 0.02
61 29 0.58
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.42
Consensus pattern (58 bp):
TATTAAATTAATAGAATACTTATCAAGATAAATATTAAATTAAATTTAATATTAAATC
Found at i:27598071 original size:17 final size:17
Alignment explanation
Indices: 27598036--27598068 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
27598026 TAAAGATAAG
*
27598036 TATTAAATTTAATTTAA
1 TATTAAATTTAATTAAA
27598053 TATTAAATTT-ATTAAA
1 TATTAAATTTAATTAAA
27598069 ATAATATTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TATTAAATTTAATTAAA
Found at i:27598414 original size:19 final size:19
Alignment explanation
Indices: 27598347--27598414 Score: 66
Period size: 19 Copynumber: 3.5 Consensus size: 19
27598337 CTCAATTCAA
*
27598347 CCAATTTTTGGATCTCA-GT
1 CCAA-TTTTCGATCTCAGGT
* * *
27598366 CTCAATTTTGGATTCTCGGGC
1 C-CAATTTTCGA-TCTCAGGT
27598387 CCAATTTTCGATCTCAGGT
1 CCAATTTTCGATCTCAGGT
27598406 CCAATTTTC
1 CCAATTTTC
27598415 AAGTTCAATT
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
19 23 0.56
20 16 0.39
21 2 0.05
ACGTcount: A:0.19, C:0.25, G:0.16, T:0.40
Consensus pattern (19 bp):
CCAATTTTCGATCTCAGGT
Found at i:27599937 original size:49 final size:49
Alignment explanation
Indices: 27599865--27599960 Score: 156
Period size: 49 Copynumber: 2.0 Consensus size: 49
27599855 TAGGCAATGA
* *
27599865 TAAACTTGGTCTTCCACTTTCTACACTATTATCACTATTTATACATTGC
1 TAAACTTAGTCTTCCACTGTCTACACTATTATCACTATTTATACATTGC
* *
27599914 TAAACTTAGTCTTCCACTGTCTACACTCTTATCACTATTTATCCATT
1 TAAACTTAGTCTTCCACTGTCTACACTATTATCACTATTTATACATT
27599961 CTTGAATGTC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 43 1.00
ACGTcount: A:0.26, C:0.26, G:0.05, T:0.43
Consensus pattern (49 bp):
TAAACTTAGTCTTCCACTGTCTACACTATTATCACTATTTATACATTGC
Found at i:27601263 original size:73 final size:73
Alignment explanation
Indices: 27601164--27601321 Score: 280
Period size: 73 Copynumber: 2.2 Consensus size: 73
27601154 CATTTGAATA
* *
27601164 CATCATCTCATGCAATGGCATGATTCATATCTTCGATCAATACTTGAATTCATTCAAGTTTCACA
1 CATCATCTCATACAACGGCATGATTCATATCTTCGATCAATACTTGAATTCATTCAAGTTTCACA
27601229 TCTCAATC
66 TCTCAATC
* *
27601237 CATCATCTCATACAACGGTATGATTCATATCTTTGATCAATACTTGAATTCATTCAAGTTTCACA
1 CATCATCTCATACAACGGCATGATTCATATCTTCGATCAATACTTGAATTCATTCAAGTTTCACA
27601302 TCTCAATC
66 TCTCAATC
27601310 CATCATCTCATA
1 CATCATCTCATA
27601322 TCTTATTTCT
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
73 81 1.00
ACGTcount: A:0.31, C:0.25, G:0.08, T:0.36
Consensus pattern (73 bp):
CATCATCTCATACAACGGCATGATTCATATCTTCGATCAATACTTGAATTCATTCAAGTTTCACA
TCTCAATC
Found at i:27602640 original size:15 final size:15
Alignment explanation
Indices: 27602620--27602652 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
27602610 TGTTTTCATT
*
27602620 TTATTATCTTTATTA
1 TTATTATCATTATTA
27602635 TTATTATCATTATTA
1 TTATTATCATTATTA
27602650 TTA
1 TTA
27602653 AAGTTACTTT
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:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (15 bp):
TTATTATCATTATTA
Found at i:27608772 original size:20 final size:21
Alignment explanation
Indices: 27608735--27608774 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
27608725 TTGTTTAATT
*
27608735 TTTTATTTTTAATTAATAAATA
1 TTTTATTTATAA-TAATAAATA
27608757 TTTTATTTATAA-AATAAA
1 TTTTATTTATAATAATAAA
27608775 ATAATAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
22 11 0.65
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
TTTTATTTATAATAATAAATA
Found at i:27608950 original size:16 final size:18
Alignment explanation
Indices: 27608919--27608951 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
27608909 TGAAAATTAA
27608919 ATATTATACATAAAAATT
1 ATATTATACATAAAAATT
27608937 ATATT-TAC-TAAAAAT
1 ATATTATACATAAAAAT
27608952 AATGATATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (18 bp):
ATATTATACATAAAAATT
Found at i:27610915 original size:12 final size:12
Alignment explanation
Indices: 27610895--27610930 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
27610885 TTTTTAATTA
*
27610895 ATTAATATTATT
1 ATTACTATTATT
27610907 ATTACTATTATT
1 ATTACTATTATT
*
27610919 ATTGCTATTATT
1 ATTACTATTATT
27610931 TATATATTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.33, C:0.06, G:0.03, T:0.58
Consensus pattern (12 bp):
ATTACTATTATT
Found at i:27611155 original size:9 final size:9
Alignment explanation
Indices: 27611128--27611183 Score: 55
Period size: 9 Copynumber: 6.3 Consensus size: 9
27611118 TATATTTTTA
27611128 TATTTTA-T
1 TATTTTATT
*
27611136 AATTTTATT
1 TATTTTATT
*
27611145 TATTTTCTT
1 TATTTTATT
27611154 TATTGTTA-T
1 TATT-TTATT
27611163 TATTATTATT
1 TATT-TTATT
27611173 TA-TTTATT
1 TATTTTATT
27611181 TAT
1 TAT
27611184 GTGCCTCTTA
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
8 13 0.33
9 21 0.54
10 5 0.13
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (9 bp):
TATTTTATT
Found at i:27618196 original size:3 final size:3
Alignment explanation
Indices: 27618190--27618244 Score: 55
Period size: 3 Copynumber: 19.0 Consensus size: 3
27618180 TCTTGTAAGC
*
27618190 TAA TAA TAA TAA -AA TAA TAA CTAA -ATC TAA TAA TAA T-A TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA -TAA TA-A TAA TAA TAA TAA TAA TAA
27618234 T-A TAA TAA TAA
1 TAA TAA TAA TAA
27618245 ATGAAAATAA
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
2 7 0.16
3 33 0.75
4 4 0.09
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:27618207 original size:11 final size:11
Alignment explanation
Indices: 27618191--27618299 Score: 69
Period size: 11 Copynumber: 9.2 Consensus size: 11
27618181 CTTGTAAGCT
27618191 AATAATAATAA
1 AATAATAATAA
27618202 AATAATAACTAA
1 AATAATAA-TAA
*
27618214 ATCTAATAATAA
1 A-ATAATAATAA
* *
27618226 TATAATAATAT
1 AATAATAATAA
27618237 AATAATAAATGAA
1 AATAAT-AAT-AA
*
27618250 AATAATGAACCAA
1 AATAAT-AA-TAA
27618263 TTAA-ATATAAT-A
1 --AATA-ATAATAA
27618275 AATATATAATAA
1 AATA-ATAATAA
*
27618287 AATAATAAGAA
1 AATAATAATAA
27618298 AA
1 AA
27618300 ATAAATGGAA
Statistics
Matches: 78, Mismatches: 10, Indels: 20
0.72 0.09 0.19
Matches are distributed among these distances:
10 2 0.03
11 36 0.46
12 16 0.21
13 17 0.22
14 3 0.04
15 4 0.05
ACGTcount: A:0.65, C:0.04, G:0.03, T:0.28
Consensus pattern (11 bp):
AATAATAATAA
Found at i:27618305 original size:37 final size:40
Alignment explanation
Indices: 27618224--27618305 Score: 91
Period size: 42 Copynumber: 2.1 Consensus size: 40
27618214 ATCTAATAAT
*
27618224 AATATAATAATATAATAATAAATGAAAATAATGAACCAATTA
1 AATATAATAATATAATAATAAA-GAAAATAATGAA-CAAATA
*
27618266 AATATAATAA-ATATATAATAAA-ATAATAA-GAA-AAATA
1 AATATAATAATATA-ATAATAAAGAAAATAATGAACAAATA
27618303 AAT
1 AAT
27618306 GGAAATGATC
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
37 7 0.19
39 3 0.08
40 6 0.16
41 3 0.08
42 18 0.49
ACGTcount: A:0.66, C:0.02, G:0.04, T:0.28
Consensus pattern (40 bp):
AATATAATAATATAATAATAAAGAAAATAATGAACAAATA
Found at i:27625479 original size:22 final size:22
Alignment explanation
Indices: 27625454--27625496 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
27625444 GCTTGTATGG
* *
27625454 GTTTAGCACTTCAGTGCTCTCA
1 GTTTAGAACTACAGTGCTCTCA
*
27625476 GTTTAGAACTACGGTGCTCTC
1 GTTTAGAACTACAGTGCTCTC
27625497 TGGTATGGTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.19, C:0.26, G:0.21, T:0.35
Consensus pattern (22 bp):
GTTTAGAACTACAGTGCTCTCA
Found at i:27627830 original size:2 final size:2
Alignment explanation
Indices: 27627823--27627847 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
27627813 TGCATATTTG
27627823 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
27627848 AAGCTTTCAT
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:27629054 original size:19 final size:19
Alignment explanation
Indices: 27629008--27629054 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
27628998 TGTAAACGTG
*
27629008 TCAAAATTAAAAGAAACTT
1 TCAAAATTAAAAGAAACTA
*
27629027 TAGAAAATTAAAAGAATA-TA
1 T-CAAAATTAAAAGAA-ACTA
27629047 TCAAAATT
1 TCAAAATT
27629055 TTGAAATTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 7 0.30
20 15 0.65
21 1 0.04
ACGTcount: A:0.60, C:0.06, G:0.06, T:0.28
Consensus pattern (19 bp):
TCAAAATTAAAAGAAACTA
Found at i:27630781 original size:53 final size:53
Alignment explanation
Indices: 27630718--27630825 Score: 155
Period size: 53 Copynumber: 2.0 Consensus size: 53
27630708 AAAAAAATAT
* *
27630718 TATTATTACTTATCAAAAAATAAATAGT-AAAAGACATGAAATTACCATTTAAA
1 TATTATTACTTATC-AAAAATAAACAGTAAAAAAACATGAAATTACCATTTAAA
* * *
27630771 TATTATTACTTATCAAAAATGAACATTAAAAAAATATGAAATTACCATTTAAA
1 TATTATTACTTATCAAAAATAAACAGTAAAAAAACATGAAATTACCATTTAAA
27630824 TA
1 TA
27630826 ATTAATTTTA
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
52 10 0.20
53 39 0.80
ACGTcount: A:0.53, C:0.09, G:0.05, T:0.33
Consensus pattern (53 bp):
TATTATTACTTATCAAAAATAAACAGTAAAAAAACATGAAATTACCATTTAAA
Found at i:27632875 original size:63 final size:63
Alignment explanation
Indices: 27632797--27632917 Score: 188
Period size: 63 Copynumber: 1.9 Consensus size: 63
27632787 TCACACGGCC
** *
27632797 TGGGCACACTTCCATGTCCTCTGTCAGTGTGGTTCTAAAACGTAAACAGAAAGTTACACAGCT
1 TGGGCACACACCCATGTCCTCTGCCAGTGTGGTTCTAAAACGTAAACAGAAAGTTACACAGCT
* * *
27632860 TGGGCACACACCCATGTCCTCTGCCTGTGTGGTTCTAAAGCGTAAACAGAGAGTTACA
1 TGGGCACACACCCATGTCCTCTGCCAGTGTGGTTCTAAAACGTAAACAGAAAGTTACA
27632918 TGGCCTGGAA
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
63 52 1.00
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.26
Consensus pattern (63 bp):
TGGGCACACACCCATGTCCTCTGCCAGTGTGGTTCTAAAACGTAAACAGAAAGTTACACAGCT
Found at i:27632941 original size:63 final size:63
Alignment explanation
Indices: 27632808--27632942 Score: 171
Period size: 63 Copynumber: 2.1 Consensus size: 63
27632798 GGGCACACTT
* * **
27632808 CCATGTCCTCTGTCAGTGTGGTTCTAAAACGTAAACAGAAAGTTACACAGCTTGGGCACACAC
1 CCATGTCCTCTGCCAGTGTGGTTCTAAAACGTAAACAGAAAGTTACACAGCCTGGAAACACAC
* * * ** *
27632871 CCATGTCCTCTGCCTGTGTGGTTCTAAAGCGTAAACAGAGAGTTACATGGCCTGGAAACACGC
1 CCATGTCCTCTGCCAGTGTGGTTCTAAAACGTAAACAGAAAGTTACACAGCCTGGAAACACAC
*
27632934 CCGTGTCCT
1 CCATGTCCT
27632943 TGCTCGAGTG
Statistics
Matches: 61, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
63 61 1.00
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (63 bp):
CCATGTCCTCTGCCAGTGTGGTTCTAAAACGTAAACAGAAAGTTACACAGCCTGGAAACACAC
Found at i:27635934 original size:15 final size:14
Alignment explanation
Indices: 27635910--27635945 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
27635900 ACTTTTTGTA
*
27635910 TTTTTAAATAATGT
1 TTTTTAAATAATAT
27635924 TTTTATAAATAATAT
1 TTTT-TAAATAATAT
27635939 TTTTTAA
1 TTTTTAA
27635946 TCATTATATA
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:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (14 bp):
TTTTTAAATAATAT
Found at i:27636104 original size:17 final size:17
Alignment explanation
Indices: 27636064--27636105 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
27636054 ATTATAAAGT
*
27636064 AGTTTAATATTATAGAA
1 AGTTAAATATTATAGAA
*
27636081 A-TATAAATATTATATAA
1 AGT-TAAATATTATAGAA
27636098 AGTTAAAT
1 AGTTAAAT
27636106 TGAATTGAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
16 1 0.05
17 19 0.90
18 1 0.05
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.40
Consensus pattern (17 bp):
AGTTAAATATTATAGAA
Found at i:27637417 original size:11 final size:11
Alignment explanation
Indices: 27637401--27637426 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
27637391 TATTTTTTTA
27637401 TTTTAAAATAT
1 TTTTAAAATAT
27637412 TTTTAAAATAT
1 TTTTAAAATAT
27637423 TTTT
1 TTTT
27637427 TTATTTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:27637453 original size:26 final size:26
Alignment explanation
Indices: 27637409--27637464 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 26
27637399 TATTTTAAAA
** * *
27637409 TATTTTTAAAATATTTTTTTATTTTT
1 TATTTTTAAAATAAATTTTTAGTGTT
27637435 TATTTTTAAAATAAATTTTTAGTGTT
1 TATTTTTAAAATAAATTTTTAGTGTT
27637461 TATT
1 TATT
27637465 AAAATAATGG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (26 bp):
TATTTTTAAAATAAATTTTTAGTGTT
Found at i:27641459 original size:21 final size:20
Alignment explanation
Indices: 27641429--27641476 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 20
27641419 TTCTAGATTC
* *
27641429 TATATATATTTGAATTTTATA
1 TATATTTATTTCAATTTT-TA
*
27641450 TATATTTATTTCTATTTTTA
1 TATATTTATTTCAATTTTTA
27641470 TATATTT
1 TATATTT
27641477 TTAGTGTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 9 0.38
21 15 0.62
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (20 bp):
TATATTTATTTCAATTTTTA
Found at i:27653535 original size:105 final size:105
Alignment explanation
Indices: 27653343--27653952 Score: 781
Period size: 105 Copynumber: 5.8 Consensus size: 105
27653333 TTATAAATGC
* * * *
27653343 TGATTTTTCAAAGGTTAGTTGATTTAAGATCACAACTTATTCATCTTTGAGTTAGCTGATTTAAT
1 TGATTTTACAAAGGTTAGTTGATTTAAGATCGCAACCTATTCATCTTTGAGTTAGCTGATTTAAG
* ***
27653408 ATCGCAACTTCTAAATTGCTCGATGACCTACGTTCACGGT
66 ATCGCAACTCCTAAACAACTCGATGACCTACGTTCACGGT
* * * *
27653448 CGAATTTACAAAGGTTAGATGATTTAAGATTGCAACCTATTCATCTTTGAGTTAGCTGATTTAAG
1 TGATTTTACAAAGGTTAGTTGATTTAAGATCGCAACCTATTCATCTTTGAGTTAGCTGATTTAAG
* *
27653513 ATCGCAACTTCTAAACAACTCGATGACCTACGTTTACGGT
66 ATCGCAACTCCTAAACAACTCGATGACCTACGTTCACGGT
* ** * *
27653553 TGATTTTACAAAGGTTAGTTGATTTAATATCGTGACATATTCATATTTGAGTTAGCTGATTTAAG
1 TGATTTTACAAAGGTTAGTTGATTTAAGATCGCAACCTATTCATCTTTGAGTTAGCTGATTTAAG
* * * * * *
27653618 ATCGCAAATCCTAAATAGCTCGACGACCTATGTTCACAGT
66 ATCGCAACTCCTAAACAACTCGATGACCTACGTTCACGGT
*
27653658 TGATTTTACAAAGGTTAGCTGATTTAAGATCGCAACCTATTCATCTTTGAGTTAGCTGATTTAAG
1 TGATTTTACAAAGGTTAGTTGATTTAAGATCGCAACCTATTCATCTTTGAGTTAGCTGATTTAAG
* * * * * *
27653723 ATCGCAGCTCCTAAACAGCTCGATGACCCATGTTCACAGC
66 ATCGCAACTCCTAAACAACTCGATGACCTACGTTCACGGT
* * * * *
27653763 TAATCTTACAAAGGTTAGTTGATTTAAGATCGCAACCTATCCATATTTGAGTTAGTTGATTTAAG
1 TGATTTTACAAAGGTTAGTTGATTTAAGATCGCAACCTATTCATCTTTGAGTTAGCTGATTTAAG
* * * *
27653828 ATCACAGCTCCTAAACAACTCGATAACCTACGTTCACGAT
66 ATCGCAACTCCTAAACAACTCGATGACCTACGTTCACGGT
* * *
27653868 TGATTTTACAAAGGTTAGTTGATTTAATATCGCAACCTATCCAT-TTCTAAGTTAGCTGATTTAA
1 TGATTTTACAAAGGTTAGTTGATTTAAGATCGCAACCTATTCATCTT-TGAGTTAGCTGATTTAA
* **
27653932 GATCGCGACTTTTAAACAACT
65 GATCGCAACTCCTAAACAACT
27653953 TGATAATCTG
Statistics
Matches: 439, Mismatches: 65, Indels: 2
0.87 0.13 0.00
Matches are distributed among these distances:
104 2 0.00
105 437 1.00
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35
Consensus pattern (105 bp):
TGATTTTACAAAGGTTAGTTGATTTAAGATCGCAACCTATTCATCTTTGAGTTAGCTGATTTAAG
ATCGCAACTCCTAAACAACTCGATGACCTACGTTCACGGT
Found at i:27653923 original size:315 final size:315
Alignment explanation
Indices: 27653343--27653937 Score: 897
Period size: 315 Copynumber: 1.9 Consensus size: 315
27653333 TTATAAATGC
* * * *
27653343 TGATTTTTCAAAGGTTAGTTGATTTAAGATCACAACTTATTCATCTTTGAGTTAGCTGATTTAAT
1 TGATTTTACAAAGGTTAGCTGATTTAAGATCACAACCTATTCATCTTTGAGTTAGCTGATTTAAG
* ** * *
27653408 ATCGCAACTTCTAAATTGCTCGATGACCTACGTTCACGGTCGAATTTACAAAGGTTAGATGATTT
66 ATCGCAACTCCTAAACAGCTCGATGACCCACGTTCACAGTCGAATTTACAAAGGTTAGATGATTT
* * * * * *
27653473 AAGATTGCAACCTATTCATCTTTGAGTTAGCTGATTTAAGATCGCAACTTCTAAACAACTCGATG
131 AAGATCGCAACCTATCCATATTTGAGTTAGCTGATTTAAGATCACAACTCCTAAACAACTCGATA
* * ** * *
27653538 ACCTACGTTTACGGTTGATTTTACAAAGGTTAGTTGATTTAATATCGTGACATATTCATATTTGA
196 ACCTACGTTCACGATTGATTTTACAAAGGTTAGTTGATTTAATATCGCAACATATCCATATTTAA
27653603 GTTAGCTGATTTAAGATCGCAAATCCTAAATAGCTCGACGACCTATGTTCACAGT
261 GTTAGCTGATTTAAGATCGCAAATCCTAAATAGCTCGACGACCTATGTTCACAGT
*
27653658 TGATTTTACAAAGGTTAGCTGATTTAAGATCGCAACCTATTCATCTTTGAGTTAGCTGATTTAAG
1 TGATTTTACAAAGGTTAGCTGATTTAAGATCACAACCTATTCATCTTTGAGTTAGCTGATTTAAG
* * * *
27653723 ATCGCAGCTCCTAAACAGCTCGATGACCCATGTTCACAG-CTAATCTTACAAAGGTTAGTTGATT
66 ATCGCAACTCCTAAACAGCTCGATGACCCACGTTCACAGTCGAAT-TTACAAAGGTTAGATGATT
* *
27653787 TAAGATCGCAACCTATCCATATTTGAGTTAGTTGATTTAAGATCACAGCTCCTAAACAACTCGAT
130 TAAGATCGCAACCTATCCATATTTGAGTTAGCTGATTTAAGATCACAACTCCTAAACAACTCGAT
*
27653852 AACCTACGTTCACGATTGATTTTACAAAGGTTAGTTGATTTAATATCGCAACCTATCCAT-TTCT
195 AACCTACGTTCACGATTGATTTTACAAAGGTTAGTTGATTTAATATCGCAACATATCCATATT-T
27653916 AAGTTAGCTGATTTAAGATCGC
259 AAGTTAGCTGATTTAAGATCGC
27653938 GACTTTTAAA
Statistics
Matches: 249, Mismatches: 29, Indels: 4
0.88 0.10 0.01
Matches are distributed among these distances:
314 6 0.02
315 243 0.98
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.35
Consensus pattern (315 bp):
TGATTTTACAAAGGTTAGCTGATTTAAGATCACAACCTATTCATCTTTGAGTTAGCTGATTTAAG
ATCGCAACTCCTAAACAGCTCGATGACCCACGTTCACAGTCGAATTTACAAAGGTTAGATGATTT
AAGATCGCAACCTATCCATATTTGAGTTAGCTGATTTAAGATCACAACTCCTAAACAACTCGATA
ACCTACGTTCACGATTGATTTTACAAAGGTTAGTTGATTTAATATCGCAACATATCCATATTTAA
GTTAGCTGATTTAAGATCGCAAATCCTAAATAGCTCGACGACCTATGTTCACAGT
Found at i:27661290 original size:9 final size:9
Alignment explanation
Indices: 27661271--27661334 Score: 85
Period size: 9 Copynumber: 7.2 Consensus size: 9
27661261 TCGGGTATTT
27661271 TTCGG-TAA
1 TTCGGTTAA
27661279 TTCGGTTAA
1 TTCGGTTAA
*
27661288 TTCGATTAA
1 TTCGGTTAA
27661297 TTCGGTTAA
1 TTCGGTTAA
*
27661306 TTCGGGTAA
1 TTCGGTTAA
*
27661315 TTCGGGTAA
1 TTCGGTTAA
*
27661324 TTCGGATAA
1 TTCGGTTAA
27661333 TT
1 TT
27661335 TTTAACCAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
8 5 0.10
9 46 0.90
ACGTcount: A:0.25, C:0.11, G:0.23, T:0.41
Consensus pattern (9 bp):
TTCGGTTAA
Found at i:27664504 original size:29 final size:30
Alignment explanation
Indices: 27664459--27664517 Score: 102
Period size: 29 Copynumber: 2.0 Consensus size: 30
27664449 GAATTTGATC
*
27664459 AAATCAAAATTTCATGTATAAAATTACACA
1 AAATCAAAATTACATGTATAAAATTACACA
27664489 AAATCAAAA-TACATGTATAAAATTACACA
1 AAATCAAAATTACATGTATAAAATTACACA
27664518 TTAAACTGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 19 0.68
30 9 0.32
ACGTcount: A:0.56, C:0.14, G:0.03, T:0.27
Consensus pattern (30 bp):
AAATCAAAATTACATGTATAAAATTACACA
Found at i:27665421 original size:27 final size:27
Alignment explanation
Indices: 27665391--27665487 Score: 83
Period size: 27 Copynumber: 3.6 Consensus size: 27
27665381 GTTAAAATTT
*
27665391 TAAAAAATTCAAAAAAAAATGAAAATA
1 TAAAAAATTCAAAAAAAAATCAAAATA
* * **
27665418 TAAAAAAATC-AAAAAAATTTTAAAT-
1 TAAAAAATTCAAAAAAAAATCAAAATA
** *
27665443 TTCAAAATTACAAAAAAAAATTCAAAAAA
1 TAAAAAATT-CAAAAAAAAA-TCAAAATA
27665472 T-AAAAATTCAAAAAAA
1 TAAAAAATTCAAAAAAA
27665488 GATATTGGCA
Statistics
Matches: 54, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
25 6 0.11
26 13 0.24
27 24 0.44
28 10 0.19
29 1 0.02
ACGTcount: A:0.71, C:0.06, G:0.01, T:0.22
Consensus pattern (27 bp):
TAAAAAATTCAAAAAAAAATCAAAATA
Found at i:27665478 original size:15 final size:14
Alignment explanation
Indices: 27665454--27665487 Score: 59
Period size: 15 Copynumber: 2.4 Consensus size: 14
27665444 TCAAAATTAC
27665454 AAAAAAAAATTCAA
1 AAAAAAAAATTCAA
27665468 AAAATAAAAATTCAA
1 AAAA-AAAAATTCAA
27665483 AAAAA
1 AAAAA
27665488 GATATTGGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.79, C:0.06, G:0.00, T:0.15
Consensus pattern (14 bp):
AAAAAAAAATTCAA
Found at i:27665749 original size:18 final size:18
Alignment explanation
Indices: 27665726--27665760 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
27665716 ATTTTTTAAT
27665726 TTTTTGAATTATTATAAA
1 TTTTTGAATTATTATAAA
*
27665744 TTTTTGAATTTTTATAA
1 TTTTTGAATTATTATAA
27665761 TATATATTCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (18 bp):
TTTTTGAATTATTATAAA
Found at i:27666453 original size:42 final size:42
Alignment explanation
Indices: 27666394--27666480 Score: 174
Period size: 42 Copynumber: 2.1 Consensus size: 42
27666384 AGAACACATA
27666394 GTTTACCATGCAATAAACATGGTAGAATTACTCGTTCATCTT
1 GTTTACCATGCAATAAACATGGTAGAATTACTCGTTCATCTT
27666436 GTTTACCATGCAATAAACATGGTAGAATTACTCGTTCATCTT
1 GTTTACCATGCAATAAACATGGTAGAATTACTCGTTCATCTT
27666478 GTT
1 GTT
27666481 ACAATTGAAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.37
Consensus pattern (42 bp):
GTTTACCATGCAATAAACATGGTAGAATTACTCGTTCATCTT
Found at i:27669889 original size:64 final size:64
Alignment explanation
Indices: 27669778--27669899 Score: 154
Period size: 64 Copynumber: 1.9 Consensus size: 64
27669768 ACAAAGAGCC
* * * * * ** * *
27669778 TATACCAGGACACTCATAAAGAGCTACGGTATGTCTGCAGTATATGCAGGATCCATACCGATCA
1 TATAACAGGACACTCACAAAGAGCTACGATATGACCGCAACACATGCAGGATCAATACCGATCA
*
27669842 TATAACAGGACGCTCACAAAGAGCTACGATATGACCGCAACACATGCAGGATCAATAC
1 TATAACAGGACACTCACAAAGAGCTACGATATGACCGCAACACATGCAGGATCAATAC
27669900 AGATTAGGAT
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
64 48 1.00
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.20
Consensus pattern (64 bp):
TATAACAGGACACTCACAAAGAGCTACGATATGACCGCAACACATGCAGGATCAATACCGATCA
Found at i:27680425 original size:26 final size:26
Alignment explanation
Indices: 27680385--27680457 Score: 76
Period size: 26 Copynumber: 2.8 Consensus size: 26
27680375 AACTTTCTCG
* *
27680385 AAATTTTATCGAGGGTAAAATCGTC-A
1 AAATTTTA-CAAGGGTAAAATCGCCAA
*
27680411 AAATTTTACCAAGGGTAAAATTGCCAA
1 AAATTTTA-CAAGGGTAAAATCGCCAA
* *
27680438 AAACTTTACTAGGGTAAAAT
1 AAATTTTACAAGGGTAAAAT
27680458 TGGGATGAGA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
26 32 0.80
27 8 0.20
ACGTcount: A:0.42, C:0.12, G:0.16, T:0.29
Consensus pattern (26 bp):
AAATTTTACAAGGGTAAAATCGCCAA
Found at i:27683159 original size:34 final size:34
Alignment explanation
Indices: 27683121--27683308 Score: 205
Period size: 34 Copynumber: 5.5 Consensus size: 34
27683111 TTACAGTGGT
* * * *
27683121 ATTTGGTGTGCTAGATAGATTAGTTAATACGAGC
1 ATTTGGTGTGCTGGATGGATTAGCTCATACGAGC
* * *
27683155 ATTTGGTATGTTGGATGGATTAGCTCATATGAGC
1 ATTTGGTGTGCTGGATGGATTAGCTCATACGAGC
* * *
27683189 ATTTGCTGTGCTAGATGAATTAGCTCATACGAGC
1 ATTTGGTGTGCTGGATGGATTAGCTCATACGAGC
* * * * *
27683223 ATTTGCTGTGCTGGATTGATTAGCTTATATGAAC
1 ATTTGGTGTGCTGGATGGATTAGCTCATACGAGC
* *
27683257 ATTTGGTGTGCTGGATGGATTAGCTCATACAAGA
1 ATTTGGTGTGCTGGATGGATTAGCTCATACGAGC
* *
27683291 ATCTGGTGTGTTGGATGG
1 ATTTGGTGTGCTGGATGG
27683309 TTAACTGTGT
Statistics
Matches: 126, Mismatches: 28, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 126 1.00
ACGTcount: A:0.24, C:0.11, G:0.28, T:0.36
Consensus pattern (34 bp):
ATTTGGTGTGCTGGATGGATTAGCTCATACGAGC
Found at i:27683204 original size:68 final size:67
Alignment explanation
Indices: 27683121--27683308 Score: 232
Period size: 68 Copynumber: 2.8 Consensus size: 67
27683111 TTACAGTGGT
* * *
27683121 ATTTGGTGTGCTAGATAGATTAGTTAATACGAGCATTTGGTATGTTGGATGGATTAGCTCATATG
1 ATTTGGTGTGCTAGAT-GATTAGCTCATACGAGCATTTGGTGTGTTGGATGGATTAGCTCATATG
*
27683186 AGC
65 AAC
* * * * *
27683189 ATTTGCTGTGCTAGATGAATTAGCTCATACGAGCATTTGCTGTGCTGGATTGATTAGCTTATATG
1 ATTTGGTGTGCTAGATG-ATTAGCTCATACGAGCATTTGGTGTGTTGGATGGATTAGCTCATATG
27683254 AAC
65 AAC
* * * *
27683257 ATTTGGTGTGCTGGATGGATTAGCTCATACAAGAATCTGGTGTGTTGGATGG
1 ATTTGGTGTGCTAGAT-GATTAGCTCATACGAGCATTTGGTGTGTTGGATGG
27683309 TTAACTGTGT
Statistics
Matches: 101, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
67 1 0.01
68 99 0.98
69 1 0.01
ACGTcount: A:0.24, C:0.11, G:0.28, T:0.36
Consensus pattern (67 bp):
ATTTGGTGTGCTAGATGATTAGCTCATACGAGCATTTGGTGTGTTGGATGGATTAGCTCATATGA
AC
Found at i:27691969 original size:41 final size:41
Alignment explanation
Indices: 27691924--27692003 Score: 99
Period size: 41 Copynumber: 2.0 Consensus size: 41
27691914 ATCAAGGCTT
* *
27691924 CATAAAAGCCATAAATATGCT-TAAGCAACACATTAAAGTCC
1 CATAAAAGCCAAAAATATGCTCCAAG-AACACATTAAAGTCC
* * *
27691965 CATAATAGCCAAAAATGTGCTCCAAGAGCACATTAAAGT
1 CATAAAAGCCAAAAATATGCTCCAAGAACACATTAAAGT
27692004 TCCTCAACAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
41 30 0.91
42 3 0.09
ACGTcount: A:0.45, C:0.21, G:0.12, T:0.21
Consensus pattern (41 bp):
CATAAAAGCCAAAAATATGCTCCAAGAACACATTAAAGTCC
Done.