Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
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: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 113 of 214
Found at i:34413766 original size:34 final size:34
Alignment explanation
Indices: 34413728--34413800 Score: 78
Period size: 34 Copynumber: 2.1 Consensus size: 34
34413718 TTGATTTACG
34413728 TATTTGACAACTTAAATATAAAT-T-ATTCTATTTA
1 TATTTGAC-A-TTAAATATAAATATGATTCTATTTA
* * * *
34413762 TATTTTACATTATATATAAATATGTTTTTATTTA
1 TATTTGACATTAAATATAAATATGATTCTATTTA
34413796 TATTT
1 TATTT
34413801 AAATATTTTG
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
32 11 0.33
33 2 0.06
34 20 0.61
ACGTcount: A:0.37, C:0.05, G:0.03, T:0.55
Consensus pattern (34 bp):
TATTTGACATTAAATATAAATATGATTCTATTTA
Found at i:34413981 original size:4 final size:4
Alignment explanation
Indices: 34413972--34413996 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
34413962 TATATCATGC
34413972 AAGA AAGA AAGA AAGA AAGA AAGA A
1 AAGA AAGA AAGA AAGA AAGA AAGA A
34413997 GATGGAATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:34419158 original size:25 final size:25
Alignment explanation
Indices: 34419123--34419174 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
34419113 TTCCGGGGTC
*
34419123 TGATATGAGCTTACAATAGCTCTTT
1 TGATATAAGCTTACAATAGCTCTTT
34419148 TGATATAAGCTTACAATAGCTCTTT
1 TGATATAAGCTTACAATAGCTCTTT
34419173 TG
1 TG
34419175 TTAACTTGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.40
Consensus pattern (25 bp):
TGATATAAGCTTACAATAGCTCTTT
Found at i:34421512 original size:85 final size:85
Alignment explanation
Indices: 34421368--34421581 Score: 376
Period size: 85 Copynumber: 2.5 Consensus size: 85
34421358 TAACCGTTAC
* *
34421368 ACGGTGGAATCAGCACTTAGCAACCACC-TTATAATCAATGATACGGGGAATCAGCACATAGCAA
1 ACGGTGGAATCAGCACTTAGCAACCACCTTTATATTCAATGATGCGGGGAATCAGCACATAGCAA
* *
34421432 CCCCTTTCACAGTCAAGGAT
66 CCCCCTTCACAATCAAGGAT
34421452 ACGGTGGAATCAGCACTTAGCAACCACCTTTATATTCAATGATGCGGGGAATCAGCACATAGCAA
1 ACGGTGGAATCAGCACTTAGCAACCACCTTTATATTCAATGATGCGGGGAATCAGCACATAGCAA
*
34421517 CCCCCTTCACAATTAAGGAT
66 CCCCCTTCACAATCAAGGAT
34421537 ACGGTGGAATCAGCACTTAGCAACCACCTTTATATTCAATGATGC
1 ACGGTGGAATCAGCACTTAGCAACCACCTTTATATTCAATGATGC
34421582 AGATTCACAT
Statistics
Matches: 124, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
84 28 0.23
85 96 0.77
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.22
Consensus pattern (85 bp):
ACGGTGGAATCAGCACTTAGCAACCACCTTTATATTCAATGATGCGGGGAATCAGCACATAGCAA
CCCCCTTCACAATCAAGGAT
Found at i:34421515 original size:42 final size:43
Alignment explanation
Indices: 34421368--34421579 Score: 272
Period size: 43 Copynumber: 5.0 Consensus size: 43
34421358 TAACCGTTAC
*
34421368 ACGGTGGAATCAGCACTTAGCAACCACC-TTATAATCAATGAT
1 ACGGTGGAATCAGCACTTAGCAACCACCTTTATATTCAATGAT
* * * *
34421410 ACGG-GGAATCAGCACATAGCAACC-CCTTTCACAGTCAAGGAT
1 ACGGTGGAATCAGCACTTAGCAACCACCTTT-ATATTCAATGAT
34421452 ACGGTGGAATCAGCACTTAGCAACCACCTTTATATTCAATGAT
1 ACGGTGGAATCAGCACTTAGCAACCACCTTTATATTCAATGAT
* * * * * *
34421495 GCGG-GGAATCAGCACATAGCAACCCCCTTCACAATT-AAGGAT
1 ACGGTGGAATCAGCACTTAGCAACCACCTTTA-TATTCAATGAT
34421537 ACGGTGGAATCAGCACTTAGCAACCACCTTTATATTCAATGAT
1 ACGGTGGAATCAGCACTTAGCAACCACCTTTATATTCAATGAT
34421580 GCAGATTCAC
Statistics
Matches: 143, Mismatches: 20, Indels: 13
0.81 0.11 0.07
Matches are distributed among these distances:
40 2 0.01
41 21 0.15
42 52 0.36
43 63 0.44
44 5 0.03
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.23
Consensus pattern (43 bp):
ACGGTGGAATCAGCACTTAGCAACCACCTTTATATTCAATGAT
Found at i:34421667 original size:51 final size:51
Alignment explanation
Indices: 34421591--34421882 Score: 294
Period size: 51 Copynumber: 5.8 Consensus size: 51
34421581 CAGATTCACA
* * *
34421591 TAGTAGCATGCACATAGTACTACACATGTGACCATCACTATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCCGGTACACG
* * *
34421642 TAGTAGCCTGCACATAGTACTACACACGTGATCGA--AGCTATCCGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATCA-CTATCCGGTACACG
*** *
34421693 TAGTAGCCTGCACATAGTACTACACATACGACCTATCA-T-TCTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACC-ATCACTATCCGGTACACG
* * * * *
34421743 TAGTAGCCTACACATAGTACTACACACGTGATCGA--AGCTATCCGATACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATCA-CTATCCGGTACACG
* * *
34421794 TAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TCTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACC-ATCACTATCCGGTACACG
* *
34421844 TAGTAGCCTACACATAGTACTACAAACGTGACCATCACT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
34421883 TTCACTTTCA
Statistics
Matches: 194, Mismatches: 34, Indels: 27
0.76 0.13 0.11
Matches are distributed among these distances:
48 1 0.01
49 4 0.02
50 77 0.40
51 108 0.56
52 2 0.01
53 2 0.01
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.24
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCCGGTACACG
Found at i:34421765 original size:101 final size:101
Alignment explanation
Indices: 34421589--34421874 Score: 475
Period size: 101 Copynumber: 2.8 Consensus size: 101
34421579 TGCAGATTCA
* * * * *
34421589 CATAGTAGCATGCACATAGTACTACACATGTGACC-ATCACTATCCGATACACGTAGTAGCCTGC
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TCTGGTACACGTAGTAGCCTAC
*
34421653 ACATAGTACTACACACGTGATCGAAGCTATCCGGTACG
64 ACATAGTACTACACACGTGATCGAAGCTATCCGATACG
*
34421691 CATAGTAGCCTGCACATAGTACTACACATACGACCTATCATTCTGGTACACGTAGTAGCCTACAC
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTCTGGTACACGTAGTAGCCTACAC
34421756 ATAGTACTACACACGTGATCGAAGCTATCCGATACG
66 ATAGTACTACACACGTGATCGAAGCTATCCGATACG
34421792 CATAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTCTGGTACACGTAGTAGCCTACAC
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTCTGGTACACGTAGTAGCCTACAC
*
34421857 ATAGTACTACAAACGTGA
66 ATAGTACTACACACGTGA
34421875 CCATCACTTT
Statistics
Matches: 174, Mismatches: 9, Indels: 3
0.94 0.05 0.02
Matches are distributed among these distances:
101 137 0.79
102 33 0.19
103 4 0.02
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.23
Consensus pattern (101 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTCTGGTACACGTAGTAGCCTACAC
ATAGTACTACACACGTGATCGAAGCTATCCGATACG
Found at i:34421904 original size:152 final size:151
Alignment explanation
Indices: 34421585--34421907 Score: 343
Period size: 152 Copynumber: 2.1 Consensus size: 151
34421575 ATGATGCAGA
* * * *
34421585 TTCACATAGTAGCATGCACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGTAGCC
1 TTCACATAGTAGCCTACACATAGTACTACACACGTGACCA-CACTATCCGATACACATAGTAGCC
* * * *
34421650 TGCACATAGTACTACACACGTGATCGAAGCTATCCGGTACGCATAGTAGCCTGCACATAGTACTA
65 TGCACATAGTACTACACACGCGATCCAAGCTATCCGGTACACATAGTAGCCTACACATAGTACTA
**
34421715 CACATACGACCTATCATTCTGG
130 CACATACGACCTATCATTCACG
* * * *
34421737 TACACGTAGTAGCCTACACATAGTACTACACACGTGATCGA-AGCTATCCGATACGCATAGTAGC
1 TTCACATAGTAGCCTACACATAGTACTACACACGTGA-CCACA-CTATCCGATACACATAGTAGC
* * * * *
34421801 CTGCACATAGTACTACACATGCGA-CCTATC-ATTCTGGTACACGTAGTAGCCTACACATAGTAC
64 CTGCACATAGTACTACACACGCGATCCAAGCTA-TCCGGTACACATAGTAGCCTACACATAGTAC
*
34421864 TACA-A-ACGTGACC-ATCACTTTCACT
128 TACACATAC--GACCTATCA--TTCACG
*
34421889 TTCACATAGTGGCCTACAC
1 TTCACATAGTAGCCTACAC
34421908 CCAGTCCATG
Statistics
Matches: 141, Mismatches: 23, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
149 2 0.01
150 6 0.04
151 39 0.28
152 92 0.65
153 2 0.01
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.24
Consensus pattern (151 bp):
TTCACATAGTAGCCTACACATAGTACTACACACGTGACCACACTATCCGATACACATAGTAGCCT
GCACATAGTACTACACACGCGATCCAAGCTATCCGGTACACATAGTAGCCTACACATAGTACTAC
ACATACGACCTATCATTCACG
Found at i:34438733 original size:14 final size:15
Alignment explanation
Indices: 34438707--34438736 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
34438697 CAATATAATA
34438707 AATAAATAAATATTT
1 AATAAATAAATATTT
34438722 AATAAA-AAATATTT
1 AATAAATAAATATTT
34438736 A
1 A
34438737 CGGGCTCGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
AATAAATAAATATTT
Found at i:34441926 original size:22 final size:22
Alignment explanation
Indices: 34441901--34441968 Score: 93
Period size: 22 Copynumber: 3.1 Consensus size: 22
34441891 GTGTGTTGGT
* *
34441901 AAAGTTGGGGGTTTCAAGGGGG
1 AAAGTTGGGGATATCAAGGGGG
*
34441923 AAAGTTGGGGATATCAGGGGGG
1 AAAGTTGGGGATATCAAGGGGG
*
34441945 AAAGTTGGGGATATC-AGGGAG
1 AAAGTTGGGGATATCAAGGGGG
34441966 AAA
1 AAA
34441969 ATTTATAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
21 7 0.17
22 34 0.83
ACGTcount: A:0.31, C:0.04, G:0.46, T:0.19
Consensus pattern (22 bp):
AAAGTTGGGGATATCAAGGGGG
Found at i:34442881 original size:14 final size:15
Alignment explanation
Indices: 34442864--34442930 Score: 54
Period size: 14 Copynumber: 4.7 Consensus size: 15
34442854 TCATAAATCA
34442864 TAAACCC-TAACCCT
1 TAAACCCATAACCCT
*
34442878 TAAACCCATGA-CCT
1 TAAACCCATAACCCT
* *
34442892 CT-AACCCTTAAACCT
1 -TAAACCCATAACCCT
*
34442907 TAAACCC-CAACCCT
1 TAAACCCATAACCCT
34442921 TAAA-CCATAA
1 TAAACCCATAA
34442931 ACCATGATCC
Statistics
Matches: 42, Mismatches: 6, Indels: 10
0.72 0.10 0.17
Matches are distributed among these distances:
13 2 0.05
14 29 0.69
15 11 0.26
ACGTcount: A:0.39, C:0.39, G:0.01, T:0.21
Consensus pattern (15 bp):
TAAACCCATAACCCT
Found at i:34442959 original size:15 final size:15
Alignment explanation
Indices: 34442939--34442967 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
34442929 AAACCATGAT
34442939 CCATAATCCCTAAAA
1 CCATAATCCCTAAAA
34442954 CCATAATCCCTAAA
1 CCATAATCCCTAAA
34442968 CCTTAAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.45, C:0.34, G:0.00, T:0.21
Consensus pattern (15 bp):
CCATAATCCCTAAAA
Found at i:34446069 original size:61 final size:58
Alignment explanation
Indices: 34445907--34446069 Score: 159
Period size: 61 Copynumber: 2.7 Consensus size: 58
34445897 AACGTGGGGG
*
34445907 GAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATA
1 GAATTATATATTTTTATTAAATTATATTTAATAATAATTA-TTTAAATTAAATTTTATA
* * * ** * * * *
34445966 GTATTATATATTATGATTTTAGTAAATTCATATAAGAA-TATTTAATATTAAGAATTTTATTA
1 GAATTATATATTTTTATTAAATTATATTTA-ATAATAATTATTTAA-ATT-A-AATTTTA-TA
*
34446028 -AATTATATATTTTTATTAAATTATATTTAATAATTATTATTT
1 GAATTATATATTTTTATTAAATTATATTTAATAATAATTATTT
34446070 TAAAATATTA
Statistics
Matches: 78, Mismatches: 20, Indels: 10
0.72 0.19 0.09
Matches are distributed among these distances:
58 5 0.06
59 27 0.35
60 12 0.15
61 32 0.41
62 2 0.03
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.54
Consensus pattern (58 bp):
GAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTAAATTAAATTTTATA
Found at i:34446075 original size:27 final size:28
Alignment explanation
Indices: 34446013--34446098 Score: 79
Period size: 28 Copynumber: 3.1 Consensus size: 28
34446003 ATATTTAATA
* *
34446013 TTAAGAATTTTATTAAATT-ATATATTTTT
1 TTAA-AATATTATTAAATTAAT-TATTATT
* *
34446042 ATTAAATTA-TATTTAA-TAATTATTATT
1 -TTAAAATATTATTAAATTAATTATTATT
*
34446069 TTAAAATATTATTAAATTATTTATTATT
1 TTAAAATATTATTAAATTAATTATTATT
34446097 TT
1 TT
34446099 TATTAATAAT
Statistics
Matches: 46, Mismatches: 7, Indels: 8
0.75 0.11 0.13
Matches are distributed among these distances:
26 7 0.15
27 13 0.28
28 20 0.43
29 2 0.04
30 4 0.09
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (28 bp):
TTAAAATATTATTAAATTAATTATTATT
Found at i:34446303 original size:46 final size:44
Alignment explanation
Indices: 34446212--34446305 Score: 134
Period size: 44 Copynumber: 2.1 Consensus size: 44
34446202 ATTACAACAT
* *
34446212 CATTCCATTCAACCAAACACAAGAATAGTATTACGCCTCTATTC
1 CATTCCATTCAACCAAACAAAAGAATACTATTACGCCTCTATTC
* *
34446256 CATTCCATTCAATCAAACAAAAGGATTACCTATTACGCCTCTATTC
1 CATTCCATTCAACCAAACAAAA-GAATA-CTATTACGCCTCTATTC
34446302 CATT
1 CATT
34446306 ACACCTCTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
44 20 0.45
45 4 0.09
46 20 0.45
ACGTcount: A:0.35, C:0.29, G:0.06, T:0.30
Consensus pattern (44 bp):
CATTCCATTCAACCAAACAAAAGAATACTATTACGCCTCTATTC
Found at i:34446312 original size:16 final size:16
Alignment explanation
Indices: 34446287--34446322 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
34446277 AGGATTACCT
*
34446287 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
34446303 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
34446319 ATTA
1 ATTA
34446323 TAGCGAACCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.25, C:0.33, G:0.03, T:0.39
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:34446591 original size:35 final size:36
Alignment explanation
Indices: 34446527--34446615 Score: 126
Period size: 35 Copynumber: 2.5 Consensus size: 36
34446517 ACCCCTGAAT
* *
34446527 CCCTAAACCTTAAATCCCTAGCTCTTAACCCTTAAC
1 CCCTAAACCTTAAATCCCTAACTCCTAACCCTTAAC
** *
34446563 GTCTAACCCTTAAA-CCCTAACTCCTAACCCTTAAC
1 CCCTAAACCTTAAATCCCTAACTCCTAACCCTTAAC
34446598 CCCTAAACCTTAAATCCC
1 CCCTAAACCTTAAATCCC
34446616 AACCCTTAAA
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
35 30 0.68
36 14 0.32
ACGTcount: A:0.31, C:0.40, G:0.02, T:0.26
Consensus pattern (36 bp):
CCCTAAACCTTAAATCCCTAACTCCTAACCCTTAAC
Found at i:34446597 original size:28 final size:28
Alignment explanation
Indices: 34446566--34446624 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
34446556 CCTTAACGTC
* * *
34446566 TAACCCTTAAACCCTAACTCCTAACCCT
1 TAACCCCTAAACCCTAAATCCCAACCCT
*
34446594 TAACCCCTAAACCTTAAATCCCAACCCT
1 TAACCCCTAAACCCTAAATCCCAACCCT
34446622 TAA
1 TAA
34446625 ACCATAATCC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.36, C:0.41, G:0.00, T:0.24
Consensus pattern (28 bp):
TAACCCCTAAACCCTAAATCCCAACCCT
Found at i:34446601 original size:21 final size:21
Alignment explanation
Indices: 34446550--34446603 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
34446540 ATCCCTAGCT
*
34446550 CTTAACCCTTAACGTCTAACC
1 CTTAACCCCTAACGTCTAACC
*
34446571 CTTAAACCCTAAC-TCCTAACC
1 CTTAACCCCTAACGT-CTAACC
34446592 CTTAACCCCTAA
1 CTTAACCCCTAA
34446604 ACCTTAAATC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 1 0.03
21 28 0.97
ACGTcount: A:0.31, C:0.41, G:0.02, T:0.26
Consensus pattern (21 bp):
CTTAACCCCTAACGTCTAACC
Found at i:34446602 original size:14 final size:14
Alignment explanation
Indices: 34446575--34446638 Score: 51
Period size: 14 Copynumber: 4.6 Consensus size: 14
34446565 CTAACCCTTA
*
34446575 AACCC-TAACTCCT
1 AACCCTTAACCCCT
34446588 AACCCTTAACCCCT
1 AACCCTTAACCCCT
* *
34446602 AAACCTTAAATCCC-
1 AACCCTT-AACCCCT
* *
34446616 AACCCTTAAACCAT
1 AACCCTTAACCCCT
*
34446630 AATCCTTAA
1 AACCCTTAA
34446639 TCCATAATCC
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
13 9 0.22
14 27 0.66
15 5 0.12
ACGTcount: A:0.38, C:0.39, G:0.00, T:0.23
Consensus pattern (14 bp):
AACCCTTAACCCCT
Found at i:34446619 original size:21 final size:21
Alignment explanation
Indices: 34446595--34446675 Score: 58
Period size: 21 Copynumber: 3.8 Consensus size: 21
34446585 CCTAACCCTT
34446595 AACCCCTAAACCTTAAATCCC
1 AACCCCTAAACCTTAAATCCC
* * *
34446616 AACCCTTAAACCAT-AATCCTT
1 AACCCCTAAACCTTAAATCC-C
* * * *
34446637 AATCCATAATCCCTAAAT-CC
1 AACCCCTAAACCTTAAATCCC
34446657 ATACTCCCTAAACCTTAAA
1 A-AC-CCCTAAACCTTAAA
34446676 ATATGAACTC
Statistics
Matches: 44, Mismatches: 12, Indels: 7
0.70 0.19 0.11
Matches are distributed among these distances:
20 6 0.14
21 24 0.55
22 14 0.32
ACGTcount: A:0.40, C:0.36, G:0.00, T:0.25
Consensus pattern (21 bp):
AACCCCTAAACCTTAAATCCC
Found at i:34446657 original size:15 final size:15
Alignment explanation
Indices: 34446622--34446668 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
34446612 TCCCAACCCT
34446622 TAAA-CCATAAT-CC
1 TAAATCCATAATCCC
*
34446635 TTAATCCATAATCCC
1 TAAATCCATAATCCC
*
34446650 TAAATCCATACTCCC
1 TAAATCCATAATCCC
34446665 TAAA
1 TAAA
34446669 CCTTAAAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
13 3 0.10
14 7 0.24
15 19 0.66
ACGTcount: A:0.40, C:0.32, G:0.00, T:0.28
Consensus pattern (15 bp):
TAAATCCATAATCCC
Found at i:34446877 original size:14 final size:14
Alignment explanation
Indices: 34446858--34446907 Score: 57
Period size: 14 Copynumber: 3.5 Consensus size: 14
34446848 AACCTTAAAT
34446858 CCCTAACTCTTAAC
1 CCCTAACTCTTAAC
34446872 CCCTAACGTC-TAAC
1 CCCTAAC-TCTTAAC
*
34446886 CCCTAAACACTTAAC
1 CCCT-AACTCTTAAC
*
34446901 CCTTAAC
1 CCCTAAC
34446908 CCCTAAACCT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
14 19 0.61
15 12 0.39
ACGTcount: A:0.32, C:0.42, G:0.02, T:0.24
Consensus pattern (14 bp):
CCCTAACTCTTAAC
Found at i:34446913 original size:29 final size:28
Alignment explanation
Indices: 34446858--34446913 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 28
34446848 AACCTTAAAT
* **
34446858 CCCTAACTCTTAACCCCTAACGTCTAAC
1 CCCTAACACTTAACCCCTAACCCCTAAC
*
34446886 CCCTAAACACTTAACCCTTAACCCCTAA
1 CCCT-AACACTTAACCCCTAACCCCTAA
34446914 ACCTTAAATC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 4 0.17
29 19 0.83
ACGTcount: A:0.32, C:0.43, G:0.02, T:0.23
Consensus pattern (28 bp):
CCCTAACACTTAACCCCTAACCCCTAAC
Found at i:34446964 original size:15 final size:15
Alignment explanation
Indices: 34446915--34446964 Score: 52
Period size: 14 Copynumber: 3.5 Consensus size: 15
34446905 AACCCCTAAA
34446915 CCTTAAATCCCA-AC-
1 CCTTAAAT-CCATACT
*
34446929 CCTTAAAT-CATAAT
1 CCTTAAATCCATACT
*
34446943 CCCTAAATCCATACT
1 CCTTAAATCCATACT
34446958 CCTTAAA
1 CCTTAAA
34446965 CCTTAAAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
12 2 0.07
13 1 0.03
14 15 0.52
15 11 0.38
ACGTcount: A:0.38, C:0.34, G:0.00, T:0.28
Consensus pattern (15 bp):
CCTTAAATCCATACT
Found at i:34447202 original size:23 final size:26
Alignment explanation
Indices: 34447175--34447229 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 26
34447165 TAAATAATAG
*
34447175 TATTTT-AATT-TTTCCATGTGT-TT
1 TATTTTAAATTATTTCCATGTGTCAT
*
34447198 TATTTTAAATTATTTCTATGTGTCAT
1 TATTTTAAATTATTTCCATGTGTCAT
34447224 TATTTT
1 TATTTT
34447230 TTTCTGAAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
23 6 0.22
24 4 0.15
25 10 0.37
26 7 0.26
ACGTcount: A:0.22, C:0.07, G:0.07, T:0.64
Consensus pattern (26 bp):
TATTTTAAATTATTTCCATGTGTCAT
Found at i:34447533 original size:123 final size:122
Alignment explanation
Indices: 34447314--34447672 Score: 447
Period size: 123 Copynumber: 2.9 Consensus size: 122
34447304 TAAAATGTTT
* *
34447314 TTAGCGGCGCTTTTTCAAAAATGT-CACTAAAGCCCCCAGCATTAGCGGCGCTTTTCCAAAAACT
1 TTAGCGGCGCTTTTTCAAAAAT-TCCACTAAAGCCCCCAACATTAGCGGCGCTTTT-CAAAAACG
* * ** *
34447378 CAGCTAAAACCCCCAGCATTAGCGGCGCTTTTTATAAAACGCTGCTAAAACACTGAGCA
64 CCGCTAAAACCCCGAGCATTAGCGGCGCTTTTTATAAAACGCTGCTAAAACACCAAACA
* *
34447437 TTAGCGGCGCTTTTTCAAAAATTCCACTAAAGCCCCCAATATTAGCGGCATCTTTTCAAAAACGC
1 TTAGCGGCGCTTTTTCAAAAATTCCACTAAAGCCCCCAACATTAGCGGC-GCTTTTCAAAAACGC
* * *
34447502 CGCTAAAACCCCGAGCATTAGCGGCGCTTTTTAAAAAATG-TCGTTAAAACACCAAACA
65 CGCTAAAACCCCGAGCATTAGCGGCGCTTTTTATAAAACGCT-GCTAAAACACCAAACA
** * * *
34447560 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAA-ACCCCAAGCATTAGCGGCGCATTTTCAAAAATG
1 TTAGCGGCGCTTTTTCAAAAATTCCACTAAAGCCCCCAA-CATTAGCGGCGC-TTTTCAAAAACG
* * *
34447624 CCGCTAAAGCCCCGAGCATTAGCGGCACTTTTT-TGAAAACGCCGCTAAA
64 CCGCTAAAACCCCGAGCATTAGCGGCGCTTTTTAT-AAAACGCTGCTAAA
34447673 GCCCCGAAAG
Statistics
Matches: 204, Mismatches: 25, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
122 9 0.04
123 190 0.93
124 5 0.02
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (122 bp):
TTAGCGGCGCTTTTTCAAAAATTCCACTAAAGCCCCCAACATTAGCGGCGCTTTTCAAAAACGCC
GCTAAAACCCCGAGCATTAGCGGCGCTTTTTATAAAACGCTGCTAAAACACCAAACA
Found at i:34447668 original size:41 final size:41
Alignment explanation
Indices: 34447314--34447679 Score: 385
Period size: 41 Copynumber: 8.9 Consensus size: 41
34447304 TAAAATGTTT
* * * * *
34447314 TTAGCGGCGCTTTTTCAAAAATGTCACTAAAGCCCCCAGCA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAACCCCGAGCA
* * * *
34447355 TTAGCGGCGCTTTTCCAAAAACTCAGCTAAAACCCCCAGCA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAACCCCGAGCA
* * *
34447396 TTAGCGGCGCTTTTT-ATAAAACGCTGCTAAAACACTGAGCA
1 TTAGCGGCGCTTTTTCA-AAAACGCCGCTAAAACCCCGAGCA
** * * * **
34447437 TTAGCGGCGCTTTTTCAAAAATTCCACTAAAGCCCCCAATA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAACCCCGAGCA
*
34447478 TTAGCGGC-ATCTTTTCAAAAACGCCGCTAAAACCCCGAGCA
1 TTAGCGGCGCT-TTTTCAAAAACGCCGCTAAAACCCCGAGCA
* * * * * * *
34447519 TTAGCGGCGCTTTTTAAAAAATGTCGTTAAAACACCAAACA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAACCCCGAGCA
*
34447560 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAACCCCAAGCA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAACCCCGAGCA
* * *
34447601 TTAGCGGCGCATTTTCAAAAATGCCGCTAAAGCCCCGAGCA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAACCCCGAGCA
* ** *
34447642 TTAGCGGCACTTTTTTGAAAACGCCGCTAAAGCCCCGA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAACCCCGA
34447680 AAGGTAAGAA
Statistics
Matches: 267, Mismatches: 54, Indels: 8
0.81 0.16 0.02
Matches are distributed among these distances:
40 2 0.01
41 263 0.99
42 2 0.01
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.23
Consensus pattern (41 bp):
TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAACCCCGAGCA
Found at i:34447850 original size:12 final size:12
Alignment explanation
Indices: 34447833--34447859 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
34447823 TTTTTTATCC
34447833 AAGTGCCGCTAA
1 AAGTGCCGCTAA
34447845 AAGTGCCGCTAA
1 AAGTGCCGCTAA
34447857 AAG
1 AAG
34447860 CTTATTTTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.37, C:0.22, G:0.26, T:0.15
Consensus pattern (12 bp):
AAGTGCCGCTAA
Found at i:34461920 original size:122 final size:124
Alignment explanation
Indices: 34461703--34462050 Score: 585
Period size: 122 Copynumber: 2.8 Consensus size: 124
34461693 TTATTTCGAG
* * *
34461703 TTGACGTTTCTG-GTCAAATTGTATAAAATCGCTTCTACCAAGATGCCATTTGAGAAGAAATTGT
1 TTGACGTTTCTGAG-CAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGT
34461767 GAAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAAT-A-TTTTT
65 GAAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTT
* * * *
34461825 TTGACGTTTCTGAGCAAATAGTATAAAATTGCTTCTACGAGGATGTTATTTGAGTAGAAATTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
34461890 AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTT
66 AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTT
*
34461949 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTTTACCAGGATGCTATTTGAGAAGAAATTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
*
34462014 AAATTGCGCCCTCGTGGACGCGATTTTGCTACAGTAG
66 AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAG
34462051 CAAGTTTGGG
Statistics
Matches: 210, Mismatches: 13, Indels: 4
0.93 0.06 0.02
Matches are distributed among these distances:
122 107 0.51
123 2 0.01
124 101 0.48
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (124 bp):
TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTT
Found at i:34465202 original size:53 final size:53
Alignment explanation
Indices: 34465140--34465249 Score: 220
Period size: 53 Copynumber: 2.1 Consensus size: 53
34465130 AGTTCCAGAT
34465140 AAAACATTTTACCAAATCTAACATTATGTAAAAGTATGTAAAATTATTAAGCC
1 AAAACATTTTACCAAATCTAACATTATGTAAAAGTATGTAAAATTATTAAGCC
34465193 AAAACATTTTACCAAATCTAACATTATGTAAAAGTATGTAAAATTATTAAGCC
1 AAAACATTTTACCAAATCTAACATTATGTAAAAGTATGTAAAATTATTAAGCC
34465246 AAAA
1 AAAA
34465250 AAATTTTGTT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 57 1.00
ACGTcount: A:0.49, C:0.13, G:0.07, T:0.31
Consensus pattern (53 bp):
AAAACATTTTACCAAATCTAACATTATGTAAAAGTATGTAAAATTATTAAGCC
Found at i:34465337 original size:35 final size:35
Alignment explanation
Indices: 34465295--34465468 Score: 149
Period size: 35 Copynumber: 5.1 Consensus size: 35
34465285 TGTAAAATTA
34465295 GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAG
34465330 GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAG
**
34465365 GGTT----TTTAATTAAGTTAGTTAATT--GTTAGTAAATTA-
1 GGTTAGGGTTT--TTAA-TTA---AATTAGGTTAG--GGTTAG
**
34465401 AATTAGGGTTTTTAATTAAATTA-G-T----TTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAG
34465430 GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAG
34465465 GGTT
1 GGTT
34465469 TTTAATTAAG
Statistics
Matches: 113, Mismatches: 6, Indels: 40
0.71 0.04 0.25
Matches are distributed among these distances:
28 3 0.03
29 21 0.19
30 1 0.01
31 4 0.04
33 4 0.04
34 8 0.07
35 53 0.47
36 2 0.02
37 10 0.09
38 4 0.04
40 3 0.03
ACGTcount: A:0.28, C:0.00, G:0.26, T:0.45
Consensus pattern (35 bp):
GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAG
Found at i:34465375 original size:24 final size:27
Alignment explanation
Indices: 34465324--34465583 Score: 141
Period size: 29 Copynumber: 10.0 Consensus size: 27
34465314 ATTAGGTTAG
34465324 GGTTAGGGTTAGGGTTTTTAATTAAATTA
1 GGTTAGGGTTAGGG-TTTT-ATTAAATTA
34465353 GGTTAGGGTTAGGG-TTT-TT-AATTA
1 GGTTAGGGTTAGGGTTTTATTAAATTA
* * *
34465377 AGTTA--GTTA--ATTGTTAGTAAATTA
1 GGTTAGGGTTAGGGTT-TTATTAAATTA
** *
34465401 AATTAGGGTT----TTTAATTAAATTA
1 GGTTAGGGTTAGGGTTTTATTAAATTA
*
34465424 GTTTAGGGTTAGGGTTTTTAATTAAATTA
1 GGTTAGGGTTAGGG-TTTT-ATTAAATTA
34465453 GGTTAGGGTTAGGG-TTT-TT-AATTA
1 GGTTAGGGTTAGGGTTTTATTAAATTA
* * *
34465477 AGTTA--GTTA--ATTGTTAGTAAAATTA
1 GGTTAGGGTTAGGGTT-TTA-TTAAATTA
** *
34465502 AATTAGGGTT----TTTAATTAAATTA
1 GGTTAGGGTTAGGGTTTTATTAAATTA
*
34465525 GTTTAGGGTTAGGGTTTTTAATTAAATTA
1 GGTTAGGGTTAGGG-TTTT-ATTAAATTA
34465554 GGTTAGGGTTAGGGTTTTTAATTAAATTA
1 GGTTAGGGTTAGGG-TTTT-ATTAAATTA
34465583 G
1 G
34465584 TTAATTGTTA
Statistics
Matches: 186, Mismatches: 20, Indels: 50
0.73 0.08 0.20
Matches are distributed among these distances:
21 2 0.01
22 12 0.06
23 33 0.18
24 32 0.17
25 15 0.08
26 3 0.02
27 9 0.05
28 6 0.03
29 74 0.40
ACGTcount: A:0.30, C:0.00, G:0.23, T:0.46
Consensus pattern (27 bp):
GGTTAGGGTTAGGGTTTTATTAAATTA
Found at i:34465393 original size:29 final size:29
Alignment explanation
Indices: 34465295--34465382 Score: 113
Period size: 29 Copynumber: 2.8 Consensus size: 29
34465285 TGTAAAATTA
34465295 GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAG
1 GGTTAGGGTTTTTAATT-AA--A--TTA-GGTTAG
34465330 GGTTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
34465359 GGTTAGGGTTTTTAATTAAGTTAG
1 GGTTAGGGTTTTTAATTAAATTAG
34465383 TTAATTGTTA
Statistics
Matches: 52, Mismatches: 1, Indels: 6
0.88 0.02 0.10
Matches are distributed among these distances:
29 29 0.56
30 3 0.06
32 1 0.02
34 2 0.04
35 17 0.33
ACGTcount: A:0.26, C:0.00, G:0.30, T:0.44
Consensus pattern (29 bp):
GGTTAGGGTTTTTAATTAAATTAGGTTAG
Found at i:34465435 original size:29 final size:29
Alignment explanation
Indices: 34465403--34465484 Score: 146
Period size: 29 Copynumber: 2.8 Consensus size: 29
34465393 GTAAATTAAA
34465403 TTAGGGTTTTTAATTAAATTAGTTTAGGG
1 TTAGGGTTTTTAATTAAATTAGTTTAGGG
*
34465432 TTAGGGTTTTTAATTAAATTAGGTTAGGG
1 TTAGGGTTTTTAATTAAATTAGTTTAGGG
*
34465461 TTAGGGTTTTTAATTAAGTTAGTT
1 TTAGGGTTTTTAATTAAATTAGTT
34465485 AATTGTTAGT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 50 1.00
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.49
Consensus pattern (29 bp):
TTAGGGTTTTTAATTAAATTAGTTTAGGG
Found at i:34465464 original size:71 final size:71
Alignment explanation
Indices: 34465332--34465464 Score: 214
Period size: 71 Copynumber: 1.9 Consensus size: 71
34465322 AGGGTTAGGG
* **
34465332 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGTTAATTGTTAGTAA
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGTTAAGGGTTAGTAA
34465397 ATTAAA
66 ATTAAA
*
34465403 TTAGGGTTTTTAATTAAATTAGTTTAGGGTTAGGGTTTTTAATTAAATTAGGTT-AGGGTTAG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTA-GTTAAGGGTTAG
34465465 GGTTTTTAAT
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
71 54 0.95
72 3 0.05
ACGTcount: A:0.30, C:0.00, G:0.23, T:0.47
Consensus pattern (71 bp):
TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGTTAAGGGTTAGTAA
ATTAAA
Found at i:34465565 original size:72 final size:72
Alignment explanation
Indices: 34465432--34465565 Score: 216
Period size: 72 Copynumber: 1.9 Consensus size: 72
34465422 TAGTTTAGGG
* **
34465432 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGTTAATTGTTAGTAA
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGTTAAGGGTTAGTAA
34465497 AATTAAA
66 AATTAAA
*
34465504 TTAGGGTTTTTAATTAAATTAGTTTAGGGTTAGGGTTTTTAATTAAATTAGGTT-AGGGTTAG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTA-GTTAAGGGTTAG
34465566 GGTTTTTAAT
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
72 54 0.95
73 3 0.05
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (72 bp):
TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGTTAAGGGTTAGTAA
AATTAAA
Found at i:34465567 original size:101 final size:101
Alignment explanation
Indices: 34465286--34465719 Score: 744
Period size: 101 Copynumber: 4.2 Consensus size: 101
34465276 ATCAAAATAT
**
34465286 GTAAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTAGGGTTTTTAATTAAAT
1 GTAAAATTAAATTAGGGTTTTTAATTAAATTA-G-T----TTAGGGTTAGGGTTTTTAATTAAAT
34465351 TAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGTTAATTGTTA
60 TAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGTTAATTGTTA
34465393 GT-AAATTAAATTAGGGTTTTTAATTAAATTAGTTTAGGGTTAGGGTTTTTAATTAAATTAGGTT
1 GTAAAATTAAATTAGGGTTTTTAATTAAATTAGTTTAGGGTTAGGGTTTTTAATTAAATTAGGTT
34465457 AGGGTTAGGGTTTTTAATTAAGTTAGTTAATTGTTA
66 AGGGTTAGGGTTTTTAATTAAGTTAGTTAATTGTTA
34465493 GTAAAATTAAATTAGGGTTTTTAATTAAATTAGTTTAGGGTTAGGGTTTTTAATTAAATTAGGTT
1 GTAAAATTAAATTAGGGTTTTTAATTAAATTAGTTTAGGGTTAGGGTTTTTAATTAAATTAGGTT
*
34465558 AGGGTTAGGGTTTTTAATTAAATTAGTTAATTGTTA
66 AGGGTTAGGGTTTTTAATTAAGTTAGTTAATTGTTA
* *
34465594 GTAAAATTAAATTAAGGTTTTTAATTAAATTAGATTAGGGTTAGGGTTTTTAATTAAATTAGGTT
1 GTAAAATTAAATTAGGGTTTTTAATTAAATTAGTTTAGGGTTAGGGTTTTTAATTAAATTAGGTT
34465659 AGGGTTAGGGTTTTTAATTAAGTTAGTTAATTGTGTTA
66 AGGGTTAGGGTTTTTAATTAAGTTAGTTAA-T-TGTTA
34465697 GTAAAATTAAATTAGGGTTTTTA
1 GTAAAATTAAATTAGGGTTTTTA
34465720 TGACATCAAA
Statistics
Matches: 317, Mismatches: 7, Indels: 10
0.95 0.02 0.03
Matches are distributed among these distances:
100 69 0.22
101 189 0.60
102 1 0.00
103 27 0.09
104 1 0.00
105 1 0.00
106 27 0.09
107 2 0.01
ACGTcount: A:0.32, C:0.00, G:0.22, T:0.46
Consensus pattern (101 bp):
GTAAAATTAAATTAGGGTTTTTAATTAAATTAGTTTAGGGTTAGGGTTTTTAATTAAATTAGGTT
AGGGTTAGGGTTTTTAATTAAGTTAGTTAATTGTTA
Found at i:34465594 original size:29 final size:28
Alignment explanation
Indices: 34465504--34465586 Score: 148
Period size: 29 Copynumber: 2.9 Consensus size: 28
34465494 TAAAATTAAA
34465504 TTAGGGTTTTTAATTAAATTAGTTTAGGG
1 TTAGGGTTTTTAATTAAATTAG-TTAGGG
34465533 TTAGGGTTTTTAATTAAATTAGGTTAGGG
1 TTAGGGTTTTTAATTAAATTA-GTTAGGG
34465562 TTAGGGTTTTTAATTAAATTAGTTA
1 TTAGGGTTTTTAATTAAATTAGTTA
34465587 ATTGTTAGTA
Statistics
Matches: 53, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
28 4 0.08
29 48 0.91
30 1 0.02
ACGTcount: A:0.29, C:0.00, G:0.23, T:0.48
Consensus pattern (28 bp):
TTAGGGTTTTTAATTAAATTAGTTAGGG
Found at i:34465594 original size:130 final size:130
Alignment explanation
Indices: 34465403--34465684 Score: 347
Period size: 130 Copynumber: 2.2 Consensus size: 130
34465393 GTAAATTAAA
* **
34465403 TTAGGGTTTTTAATTAAATTAGTTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAG-GG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGTAA
** * * * *
34465467 TTTTTAATTAA-GTTAGTTAATTGTTAGTAAAATTA-AATTAGGGTTTTTAATTAAATTAGTTTA
66 AATTAAATTAAGGTT-GTTAA-T-TAAATAAAATTAGAATTAGGGTTTTTAATTAAATTAGGTTA
34465530 GGG
128 GGG
**
34465533 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTA-GTTAATTGTTAGTA
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTT-AGGGTTAGTA
* * * **
34465597 AAATTAAATTAAGGTTTTTAATTAAATTAGATTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGG
65 AAATTAAATTAAGGTTGTTAATTAAATAAAATTAGAATTAGGGTTTTTAATTAAATTAGGTTAGG
34465662 G
130 G
*
34465663 TTAGGGTTTTTAATTAAGTTAG
1 TTAGGGTTTTTAATTAAATTAG
34465685 TTAATTGTGT
Statistics
Matches: 131, Mismatches: 17, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
129 11 0.08
130 105 0.80
131 12 0.09
132 3 0.02
ACGTcount: A:0.32, C:0.00, G:0.22, T:0.46
Consensus pattern (130 bp):
TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGTAA
AATTAAATTAAGGTTGTTAATTAAATAAAATTAGAATTAGGGTTTTTAATTAAATTAGGTTAGGG
Found at i:34465645 original size:29 final size:29
Alignment explanation
Indices: 34465609--34465684 Score: 134
Period size: 29 Copynumber: 2.6 Consensus size: 29
34465599 ATTAAATTAA
34465609 GGTTTTTAATTAAATTAGATTAGGGTTAG
1 GGTTTTTAATTAAATTAGATTAGGGTTAG
*
34465638 GGTTTTTAATTAAATTAGGTTAGGGTTAG
1 GGTTTTTAATTAAATTAGATTAGGGTTAG
*
34465667 GGTTTTTAATTAAGTTAG
1 GGTTTTTAATTAAATTAG
34465685 TTAATTGTGT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 45 1.00
ACGTcount: A:0.29, C:0.00, G:0.25, T:0.46
Consensus pattern (29 bp):
GGTTTTTAATTAAATTAGATTAGGGTTAG
Found at i:34466214 original size:18 final size:19
Alignment explanation
Indices: 34466179--34466214 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
34466169 CGGAAAAGGA
*
34466179 TACATATAAAGGGTTAGGG
1 TACATATAAAGGGCTAGGG
34466198 TACATAT-AAGGGCTAGG
1 TACATATAAAGGGCTAGG
34466215 AAACACACCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.36, C:0.08, G:0.31, T:0.25
Consensus pattern (19 bp):
TACATATAAAGGGCTAGGG
Found at i:34466875 original size:7 final size:7
Alignment explanation
Indices: 34466865--34466889 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
34466855 TTATATACAT
34466865 AATACTA
1 AATACTA
34466872 AATACTA
1 AATACTA
34466879 AATACTA
1 AATACTA
34466886 AATA
1 AATA
34466890 TCAATCGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:34467877 original size:21 final size:21
Alignment explanation
Indices: 34467823--34467884 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 21
34467813 CTTTTATAAC
*
34467823 AAATAATAAATTAATAATTATCTA
1 AAATAATAAA-TAA-AA-AATCTA
*
34467847 AAATATATAAATAAAAAATCTT
1 AAATA-ATAAATAAAAAATCTA
*
34467869 AAATAATAATTAAAAA
1 AAATAATAAATAAAAA
34467885 TTAAATTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
21 10 0.29
22 9 0.26
23 2 0.06
24 8 0.24
25 5 0.15
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (21 bp):
AAATAATAAATAAAAAATCTA
Found at i:34468000 original size:30 final size:31
Alignment explanation
Indices: 34467966--34468029 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
34467956 GCCATTGATG
34467966 AAAATAT-AAAAAATTTAAAATTATTTTAAA
1 AAAATATAAAAAAATTTAAAATTATTTTAAA
34467996 AAAATATAAAAAAATTTAAAATTATTTTAAA
1 AAAATATAAAAAAATTTAAAATTATTTTAAA
34468027 AAA
1 AAA
34468030 TAAAATTGAG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 7 0.21
31 26 0.79
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (31 bp):
AAAATATAAAAAAATTTAAAATTATTTTAAA
Found at i:34468022 original size:10 final size:10
Alignment explanation
Indices: 34467973--34468030 Score: 53
Period size: 10 Copynumber: 5.7 Consensus size: 10
34467963 ATGAAAATAT
34467973 AAAAAATTTA
1 AAAAAATTTA
* *
34467983 AAATTATTTTA
1 AAA-AAATTTA
*
34467994 AAAAAATATA
1 AAAAAATTTA
34468004 AAAAAATTTA
1 AAAAAATTTA
** *
34468014 AAATTATTTT
1 AAAAAATTTA
34468024 AAAAAAT
1 AAAAAAT
34468031 AAAATTGAGG
Statistics
Matches: 36, Mismatches: 11, Indels: 2
0.73 0.22 0.04
Matches are distributed among these distances:
10 28 0.78
11 8 0.22
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (10 bp):
AAAAAATTTA
Found at i:34468088 original size:51 final size:51
Alignment explanation
Indices: 34468032--34468143 Score: 179
Period size: 51 Copynumber: 2.2 Consensus size: 51
34468022 TTAAAAAATA
* * *
34468032 AAATTGAGGGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTCGAAGG
1 AAATTGAGAGGAAATTGAAATTAAATATGGATTTCAAAGAATTTTCGAAGG
* *
34468083 AAATTGAGAGGAAATTGAAATTAAATATGGGTTTCAAAGAATTTTGGAAGG
1 AAATTGAGAGGAAATTGAAATTAAATATGGATTTCAAAGAATTTTCGAAGG
34468134 AAATTGAGAG
1 AAATTGAGAG
34468144 AATTTTGGAA
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 56 1.00
ACGTcount: A:0.43, C:0.02, G:0.27, T:0.29
Consensus pattern (51 bp):
AAATTGAGAGGAAATTGAAATTAAATATGGATTTCAAAGAATTTTCGAAGG
Found at i:34468145 original size:22 final size:22
Alignment explanation
Indices: 34468120--34468165 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
34468110 TGGGTTTCAA
34468120 AGAATTTTGGAAGGAAATTGAG
1 AGAATTTTGGAAGGAAATTGAG
34468142 AGAATTTTGGAAGGAAATTGAG
1 AGAATTTTGGAAGGAAATTGAG
34468164 AG
1 AG
34468166 GATTAGAGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.41, C:0.00, G:0.33, T:0.26
Consensus pattern (22 bp):
AGAATTTTGGAAGGAAATTGAG
Found at i:34481066 original size:18 final size:18
Alignment explanation
Indices: 34481043--34481080 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
34481033 TTTAAAAATA
34481043 TATATAAATTAA-AATTTT
1 TATAT-AATTAATAATTTT
*
34481061 TATATATTTAATAATTTT
1 TATATAATTAATAATTTT
34481079 TA
1 TA
34481081 ATTTTTTGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
TATATAATTAATAATTTT
Found at i:34496557 original size:177 final size:177
Alignment explanation
Indices: 34496261--34496618 Score: 626
Period size: 177 Copynumber: 2.0 Consensus size: 177
34496251 CAAGTGATTG
* * *
34496261 GTGAGTGTTTGGAATCGCTGTTAGTAGACATGATTCATAGTGTTAATTGGGAGCTTAAGAATAGC
1 GTGAGTGTTTGGAATCACTGCTAGTAGACACGATTCATAGTGTTAATTGGGAGCTTAAGAATAGC
* *
34496326 CTAAACCCCTATCCTAAGTTCCAAGTGTAAGCTTTCTATTTCCCCTTGATTTATTTTGGTAAAAT
66 CTAAACCCCTATCCTAAGTTCCAAGTGTAAGATTTCTATTTCCCCTTGATTTATTTTGGCAAAAT
* * *
34496391 GTGTGATTATGTGAATAATTGTGGATTGAGTAATATGATGTGTTATT
131 GTGTGATTATGTGAATAATTGTGGACTGAGTAATATGATGCGATATT
*
34496438 GTGAGTGTTTGGAATCACTGCTAGTAGACACGATTCATAGTGTTAATTGGGAGCTTAGGAATAGC
1 GTGAGTGTTTGGAATCACTGCTAGTAGACACGATTCATAGTGTTAATTGGGAGCTTAAGAATAGC
*
34496503 CTAAACCCGTATCCTAAGTTCCAAGTGTAAGATTTCTATTTCCCCTTGATTTATTTTGGCAAAAT
66 CTAAACCCCTATCCTAAGTTCCAAGTGTAAGATTTCTATTTCCCCTTGATTTATTTTGGCAAAAT
34496568 GTGTGATTATGTGAATAATTGTGGACTGAGTAATATGATGCGATATT
131 GTGTGATTATGTGAATAATTGTGGACTGAGTAATATGATGCGATATT
34496615 GTGA
1 GTGA
34496619 CATGAGATGT
Statistics
Matches: 171, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
177 171 1.00
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.37
Consensus pattern (177 bp):
GTGAGTGTTTGGAATCACTGCTAGTAGACACGATTCATAGTGTTAATTGGGAGCTTAAGAATAGC
CTAAACCCCTATCCTAAGTTCCAAGTGTAAGATTTCTATTTCCCCTTGATTTATTTTGGCAAAAT
GTGTGATTATGTGAATAATTGTGGACTGAGTAATATGATGCGATATT
Found at i:34498719 original size:15 final size:15
Alignment explanation
Indices: 34498683--34498720 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
34498673 AATGCTTATT
*
34498683 TTGAAAATAATTAAA
1 TTGAAAATAATAAAA
34498698 TCT-AAAATAATAAAA
1 T-TGAAAATAATAAAA
34498713 TTGAAAAT
1 TTGAAAAT
34498721 GAAGCAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
14 1 0.05
15 18 0.90
16 1 0.05
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.32
Consensus pattern (15 bp):
TTGAAAATAATAAAA
Found at i:34499328 original size:20 final size:21
Alignment explanation
Indices: 34499288--34499328 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
34499278 AGACTAAATC
34499288 GGAAACTAATAAAACTTTTTA
1 GGAAACTAATAAAACTTTTTA
34499309 GGAAAC-AATGAAAA-TTTTTA
1 GGAAACTAAT-AAAACTTTTTA
34499329 AAATTTCAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.49, C:0.07, G:0.12, T:0.32
Consensus pattern (21 bp):
GGAAACTAATAAAACTTTTTA
Found at i:34502920 original size:15 final size:16
Alignment explanation
Indices: 34502891--34502920 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
34502881 CAAACATGCT
34502891 TTAACACATTATCAAA
1 TTAACACATTATCAAA
34502907 TTAACACA-TATCAA
1 TTAACACATTATCAA
34502921 CAAGGCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:34503399 original size:15 final size:16
Alignment explanation
Indices: 34503381--34503410 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
34503371 TTTCATTTTT
34503381 ATTTCA-TTACTTTCC
1 ATTTCATTTACTTTCC
34503396 ATTTCATTTACTTTC
1 ATTTCATTTACTTTC
34503411 TTTAACTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.20, C:0.23, G:0.00, T:0.57
Consensus pattern (16 bp):
ATTTCATTTACTTTCC
Found at i:34504355 original size:2 final size:2
Alignment explanation
Indices: 34504348--34504372 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
34504338 ACATAATAAC
34504348 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
34504373 GATTTCATCA
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:34510282 original size:21 final size:21
Alignment explanation
Indices: 34510258--34510300 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
34510248 TTTTTTCAGA
34510258 ACCATCTTCCAAGTTGGGTTG
1 ACCATCTTCCAAGTTGGGTTG
34510279 ACCATCTTCCAAGTTGGGTTG
1 ACCATCTTCCAAGTTGGGTTG
34510300 A
1 A
34510301 ATTGAATTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.33
Consensus pattern (21 bp):
ACCATCTTCCAAGTTGGGTTG
Found at i:34515074 original size:115 final size:114
Alignment explanation
Indices: 34514875--34515212 Score: 516
Period size: 115 Copynumber: 2.9 Consensus size: 114
34514865 AGCCTCGACA
34514875 TAAAGTGGTACTCGAGGAACTTTC-ATGAGTGGTAGAACAATCACCAAGTTCAATTCGTGAGAAA
1 TAAAGTGGTACTCGAGGAACTTTCGA-GAGTGGTAGAACAATCACCAAGTTCAATTC-TGAGAAA
* * * *
34514939 TTTGCAAAAAAACCTACAAACGATCAACAACATAGAGGAATACGCTCGAGG
64 GTTGTAGAAAAACCTACAAACGATCAACAACATAGAGGAATACGCTCAAGG
* * * *
34514990 TAAAGTGGTACTCGAGGAACTTTCGGGAGTGGTAGAACAATCACCAAGTTTAATTCTCAAAAAAG
1 TAAAGTGGTACTCGAGGAACTTTCGAGAGTGGTAGAACAATCACCAAGTTCAATTCT-GAGAAAG
* *
34515055 TTGTAGAAAAACCTGCAAACGATCAACAACATCGAGGAATACGCTCAAGG
65 TTGTAGAAAAACCTACAAACGATCAACAACATAGAGGAATACGCTCAAGG
*
34515105 TAAAGTGGTACTCGAGGAACTTTCGAGAGTGGTAGAACAATCACCAAGTTCAATCCTTGAGAAAG
1 TAAAGTGGTACTCGAGGAACTTTCGAGAGTGGTAGAACAATCACCAAGTTCAATTC-TGAGAAAG
* *
34515170 TTGTAGAAAAACCTACAAAAGATCAACAACATAGAAGAATACG
65 TTGTAGAAAAACCTACAAACGATCAACAACATAGAGGAATACG
34515213 TCGTAGTGGG
Statistics
Matches: 201, Mismatches: 19, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
114 1 0.00
115 199 0.99
116 1 0.00
ACGTcount: A:0.41, C:0.18, G:0.21, T:0.21
Consensus pattern (114 bp):
TAAAGTGGTACTCGAGGAACTTTCGAGAGTGGTAGAACAATCACCAAGTTCAATTCTGAGAAAGT
TGTAGAAAAACCTACAAACGATCAACAACATAGAGGAATACGCTCAAGG
Found at i:34516617 original size:45 final size:45
Alignment explanation
Indices: 34516553--34516724 Score: 208
Period size: 45 Copynumber: 3.9 Consensus size: 45
34516543 TACTGGGTAC
*
34516553 CATTGATTATAAAGGTGGTTGTTGTGTGCCGATTCCACCAAGTAT
1 CATTGATTATAAAGGTGGTTGTTGTGTGCTGATTCCACCAAGTAT
*
34516598 CATTGATTATAAAGGTGGTTGTTGTGTGCTGATTCCACCAGGTA-
1 CATTGATTATAAAGGTGGTTGTTGTGTGCTGATTCCACCAAGTAT
* * * *
34516642 CTATTGATTATGAAGGTGGCTT-TTATGTGTTGATTCCACTAAGTAT
1 C-ATTGATTATAAAGGTGG-TTGTTGTGTGCTGATTCCACCAAGTAT
* * * *
34516688 CATTGACTATAAGGGTGG-TGCTATGTGCTGA-TCCACC
1 CATTGATTATAAAGGTGGTTGTTGTGTGCTGATTCCACC
34516725 GTGTATCTGT
Statistics
Matches: 110, Mismatches: 13, Indels: 10
0.83 0.10 0.08
Matches are distributed among these distances:
43 6 0.05
44 10 0.09
45 91 0.83
46 3 0.03
ACGTcount: A:0.23, C:0.15, G:0.25, T:0.37
Consensus pattern (45 bp):
CATTGATTATAAAGGTGGTTGTTGTGTGCTGATTCCACCAAGTAT
Found at i:34516705 original size:90 final size:88
Alignment explanation
Indices: 34516548--34516724 Score: 230
Period size: 90 Copynumber: 2.0 Consensus size: 88
34516538 ACGTGTACTG
* *
34516548 GGTACCATTGATTATAAAGGTGGTTGTTGTGTGCCGATTCCACCAAGTATCATTGATTATAAAGG
1 GGTACCATTGATTATAAAGGTGGTTGTTATGTGCCGATTCCACCAAGTATCATTGACTATAAAGG
* *
34516613 TGGTTGTTGTGTGCTGATTCCACCA
66 TGG-TGCTATGTGCTGA-TCCACCA
* * ** * *
34516638 GGTACTATTGATTATGAAGGTGGCTT-TTATGTGTTGATTCCACTAAGTATCATTGACTATAAGG
1 GGTACCATTGATTATAAAGGTGG-TTGTTATGTGCCGATTCCACCAAGTATCATTGACTATAAAG
34516702 GTGGTGCTATGTGCTGATCCACC
65 GTGGTGCTATGTGCTGATCCACC
34516725 GTGTATCTGT
Statistics
Matches: 76, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
88 6 0.08
89 11 0.14
90 57 0.75
91 2 0.03
ACGTcount: A:0.23, C:0.15, G:0.25, T:0.36
Consensus pattern (88 bp):
GGTACCATTGATTATAAAGGTGGTTGTTATGTGCCGATTCCACCAAGTATCATTGACTATAAAGG
TGGTGCTATGTGCTGATCCACCA
Found at i:34520043 original size:15 final size:15
Alignment explanation
Indices: 34520025--34520053 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
34520015 TATTTTACTA
34520025 TTATGTCTTTTGTAT
1 TTATGTCTTTTGTAT
34520040 TTATGTCTTTTGTA
1 TTATGTCTTTTGTA
34520054 GTTTGCATGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.07, G:0.14, T:0.66
Consensus pattern (15 bp):
TTATGTCTTTTGTAT
Found at i:34531474 original size:20 final size:20
Alignment explanation
Indices: 34531438--34531475 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
34531428 ATGTCCACAT
*
34531438 TTCTGGCAGCTTGTCTGCAA
1 TTCTGGCAGCTTATCTGCAA
*
34531458 TTCTGGCAGTTTATCTGC
1 TTCTGGCAGCTTATCTGC
34531476 GTATTTGGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.24, G:0.24, T:0.39
Consensus pattern (20 bp):
TTCTGGCAGCTTATCTGCAA
Found at i:34541364 original size:19 final size:19
Alignment explanation
Indices: 34541340--34541379 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
34541330 AATAATGAGC
34541340 TAATTCCAACCAGGATGAT
1 TAATTCCAACCAGGATGAT
34541359 TAATTCCAACCAGGATGAT
1 TAATTCCAACCAGGATGAT
34541378 TA
1 TA
34541380 CAGGTTGGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.28
Consensus pattern (19 bp):
TAATTCCAACCAGGATGAT
Found at i:34544033 original size:16 final size:16
Alignment explanation
Indices: 34544014--34544055 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
34544004 ATTAGTAGTT
34544014 AATAAATAATTTCGTA
1 AATAAATAATTTCGTA
* *
34544030 AATAAATAAATTGGTA
1 AATAAATAATTTCGTA
34544046 AATAAATAAT
1 AATAAATAAT
34544056 AATAAACTCC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.57, C:0.02, G:0.07, T:0.33
Consensus pattern (16 bp):
AATAAATAATTTCGTA
Found at i:34545798 original size:6 final size:6
Alignment explanation
Indices: 34545787--34545828 Score: 59
Period size: 6 Copynumber: 6.8 Consensus size: 6
34545777 TTTTAGTTAG
34545787 TTATTT TTATTT TTACTTT TTATTT TTA-TT TTATTT ATTATT
1 TTATTT TTATTT TTA-TTT TTATTT TTATTT TTATTT -TTATT
34545829 CTATTTTTGT
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
5 5 0.15
6 17 0.52
7 11 0.33
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (6 bp):
TTATTT
Found at i:34545818 original size:12 final size:12
Alignment explanation
Indices: 34545787--34545828 Score: 59
Period size: 13 Copynumber: 3.4 Consensus size: 12
34545777 TTTTAGTTAG
34545787 TTATTTTTATTT
1 TTATTTTTATTT
34545799 TTACTTTTTATTT
1 TTA-TTTTTATTT
34545812 TTA-TTTTATTT
1 TTATTTTTATTT
34545823 ATTATT
1 -TTATT
34545829 CTATTTTTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
11 8 0.30
12 6 0.22
13 13 0.48
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (12 bp):
TTATTTTTATTT
Found at i:34546381 original size:299 final size:299
Alignment explanation
Indices: 34545843--34546443 Score: 1139
Period size: 299 Copynumber: 2.0 Consensus size: 299
34545833 TTTTGTTTCC
34545843 GCAAATAAACTTCAGATGCAATCAAGATGGGTTTTAATTTAATTTTTGGGTTTTTCTCTTATTAT
1 GCAAATAAACTTCAGATGCAATCAAGATGGGTTTTAATTTAATTTTTGGGTTTTTCTCTTATTAT
34545908 TTTCCTCTGATGAATGTTTTGAACAATGAGGACATTGCTCTGCTTAAGTTTGGGGGGATTGTGCC
66 TTTCCTCTGATGAATGTTTTGAACAATGAGGACATTGCTCTGCTTAAGTTTGGGGGGATTGTGCC
* *
34545973 TCAATTTTTTTGAGGAAGATGACTCTTGCATGAGGCAAGTAAGTAGAAAAGGTGCTCAACATCAA
131 TCAATTTTTTTGAGGAAGATGACTCTTGCATGAGGCAAGTAAGCAAAAAAGGTGCTCAACATCAA
34546038 TCAATTTTGTATGGCATGTTAGTCCGGATTCAGGTATGATCTTCTATTTACTTCAAGTATTTTTT
196 TCAATTTTGTATGGCATGTTAGTCCGGATTCAGGTATGATCTTCTATTTACTTCAAGTATTTTTT
34546103 ATGTTAAGTAAATCATGAAATGAATGTTAATTTTAATGA
261 ATGTTAAGTAAATCATGAAATGAATGTTAATTTTAATGA
* * *
34546142 GCAAATAAACTTCAGATGCAATCAATATTGGTTTTAATTTACTTTTTGGGTTTTTCTCTTATTAT
1 GCAAATAAACTTCAGATGCAATCAAGATGGGTTTTAATTTAATTTTTGGGTTTTTCTCTTATTAT
*
34546207 TTTCCTCTGATGAATGTTTTGAACAATGAGGACATTGTTCTGCTTAAGTTTGGGGGGATTGTGCC
66 TTTCCTCTGATGAATGTTTTGAACAATGAGGACATTGCTCTGCTTAAGTTTGGGGGGATTGTGCC
34546272 TCAATTTTTTTGAGGAAGATGACTCTTGCATGAGGCAAGTAAGCAAAAAAGGTGCTCAACATCAA
131 TCAATTTTTTTGAGGAAGATGACTCTTGCATGAGGCAAGTAAGCAAAAAAGGTGCTCAACATCAA
34546337 TCAATTTTGTATGGCATGTTAGTCCGGATTCAGGTATGATCTTCTATTTACTTCAAGTATTTTTT
196 TCAATTTTGTATGGCATGTTAGTCCGGATTCAGGTATGATCTTCTATTTACTTCAAGTATTTTTT
*
34546402 ATGTTAAGTAAATCATGAAATGAATGTTGATTTTAATGA
261 ATGTTAAGTAAATCATGAAATGAATGTTAATTTTAATGA
34546441 GCA
1 GCA
34546444 TGTATAGATT
Statistics
Matches: 295, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
299 295 1.00
ACGTcount: A:0.29, C:0.12, G:0.20, T:0.39
Consensus pattern (299 bp):
GCAAATAAACTTCAGATGCAATCAAGATGGGTTTTAATTTAATTTTTGGGTTTTTCTCTTATTAT
TTTCCTCTGATGAATGTTTTGAACAATGAGGACATTGCTCTGCTTAAGTTTGGGGGGATTGTGCC
TCAATTTTTTTGAGGAAGATGACTCTTGCATGAGGCAAGTAAGCAAAAAAGGTGCTCAACATCAA
TCAATTTTGTATGGCATGTTAGTCCGGATTCAGGTATGATCTTCTATTTACTTCAAGTATTTTTT
ATGTTAAGTAAATCATGAAATGAATGTTAATTTTAATGA
Found at i:34546877 original size:2 final size:2
Alignment explanation
Indices: 34546872--34546934 Score: 126
Period size: 2 Copynumber: 31.5 Consensus size: 2
34546862 CCTATGTGGA
34546872 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
34546914 AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG A
34546935 AGTATCAATG
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:34547174 original size:21 final size:21
Alignment explanation
Indices: 34547150--34547189 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
34547140 GTCTCATACA
34547150 TCAA-CATAAACATAGCATAAG
1 TCAATCATAAACAT-GCATAAG
*
34547171 TCAATCATATACATGCATA
1 TCAATCATAAACATGCATA
34547190 TCATCCCTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.47, C:0.20, G:0.07, T:0.25
Consensus pattern (21 bp):
TCAATCATAAACATGCATAAG
Found at i:34550336 original size:23 final size:22
Alignment explanation
Indices: 34550310--34550354 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
34550300 AAATTGTTTA
34550310 TTTA-CCATTTAAGTCCATTTAAT
1 TTTATCCA-TTAAG-CCATTTAAT
*
34550333 TTTATTCATTAAGCCATTTAAT
1 TTTATCCATTAAGCCATTTAAT
34550355 CATTCAAATC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 9 0.45
23 9 0.45
24 2 0.10
ACGTcount: A:0.31, C:0.16, G:0.04, T:0.49
Consensus pattern (22 bp):
TTTATCCATTAAGCCATTTAAT
Found at i:34551412 original size:68 final size:68
Alignment explanation
Indices: 34551303--34551439 Score: 247
Period size: 68 Copynumber: 2.0 Consensus size: 68
34551293 GGGCTTAGAC
*
34551303 AGAACAGCTTGAAGGATTCAGAACCTTTCACGTTGGGTTTCAAAGAAAACTTCATTCCAAACCCA
1 AGAACAGCTTGAAGGATTCAGAACCTATCACGTTGGGTTTCAAAGAAAACTTCATTCCAAACCCA
34551368 ATT
66 ATT
* *
34551371 AGAACAGCTTGAAGGATTCAGAACCTATCACGTTGGGTTTCAAAGCAAACTTCATTCCAGACCCA
1 AGAACAGCTTGAAGGATTCAGAACCTATCACGTTGGGTTTCAAAGAAAACTTCATTCCAAACCCA
34551436 ATT
66 ATT
34551439 A
1 A
34551440 CATGGATACT
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
68 66 1.00
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.26
Consensus pattern (68 bp):
AGAACAGCTTGAAGGATTCAGAACCTATCACGTTGGGTTTCAAAGAAAACTTCATTCCAAACCCA
ATT
Found at i:34555755 original size:24 final size:24
Alignment explanation
Indices: 34555723--34555769 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
34555713 TTGCAGATTG
*
34555723 AAAAAAAT-ATTAGTAAATTAATT
1 AAAAAAATAATTACTAAATTAATT
*
34555746 AAAAATAATAATTACTAATTTAAT
1 AAAAA-AATAATTACTAAATTAAT
34555770 CGAGTCACGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 5 0.25
24 3 0.15
25 12 0.60
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (24 bp):
AAAAAAATAATTACTAAATTAATT
Found at i:34568270 original size:15 final size:15
Alignment explanation
Indices: 34568250--34568281 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
34568240 AAAGAAATAA
34568250 TTTAATTTTTAAACT
1 TTTAATTTTTAAACT
34568265 TTTAATTTTTAAACT
1 TTTAATTTTTAAACT
34568280 TT
1 TT
34568282 GGTAAATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (15 bp):
TTTAATTTTTAAACT
Found at i:34569009 original size:37 final size:37
Alignment explanation
Indices: 34568958--34569030 Score: 103
Period size: 37 Copynumber: 2.0 Consensus size: 37
34568948 TATATAGGCT
* *
34568958 TATGCACATTGTGTGTCAGGATGCGCTTATGCGCCAA
1 TATGCACATTGTGTGCCAGGATGCACTTATGCGCCAA
*
34568995 TATGCAC-TTCGTGTGCCAGGATGCACTTATGTGCCA
1 TATGCACATT-GTGTGCCAGGATGCACTTATGCGCCA
34569031 GAATGCGCTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
36 2 0.06
37 30 0.94
ACGTcount: A:0.21, C:0.23, G:0.26, T:0.30
Consensus pattern (37 bp):
TATGCACATTGTGTGCCAGGATGCACTTATGCGCCAA
Found at i:34569029 original size:18 final size:18
Alignment explanation
Indices: 34568959--34569042 Score: 69
Period size: 18 Copynumber: 4.6 Consensus size: 18
34568949 ATATAGGCTT
* *
34568959 ATGCACATTGTGTGTCAGG
1 ATGCAC-TTATGTGCCAGG
* * **
34568978 ATGCGCTTATGCGCCAAT
1 ATGCACTTATGTGCCAGG
*
34568996 ATGCACTTCGTGTGCCAGG
1 ATGCACTT-ATGTGCCAGG
*
34569015 ATGCACTTATGTGCCAGA
1 ATGCACTTATGTGCCAGG
*
34569033 ATGCGCTTAT
1 ATGCACTTAT
34569043 ACGCCAATAT
Statistics
Matches: 50, Mismatches: 14, Indels: 3
0.75 0.21 0.04
Matches are distributed among these distances:
18 31 0.62
19 19 0.38
ACGTcount: A:0.21, C:0.23, G:0.26, T:0.30
Consensus pattern (18 bp):
ATGCACTTATGTGCCAGG
Found at i:34569048 original size:55 final size:56
Alignment explanation
Indices: 34568959--34569064 Score: 160
Period size: 55 Copynumber: 1.9 Consensus size: 56
34568949 ATATAGGCTT
* * * *
34568959 ATGCACATTGTGTGTCAGGATGCGCTTATGCGCCAATATGCACTTCGTGTGCCAGG
1 ATGCACATTATGTGCCAGAATGCGCTTATACGCCAATATGCACTTCGTGTGCCAGG
*
34569015 ATGCAC-TTATGTGCCAGAATGCGCTTATACGCCAATATGCATTTCGTGTG
1 ATGCACATTATGTGCCAGAATGCGCTTATACGCCAATATGCACTTCGTGTG
34569065 ACAATTTTCC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
55 39 0.87
56 6 0.13
ACGTcount: A:0.22, C:0.23, G:0.25, T:0.30
Consensus pattern (56 bp):
ATGCACATTATGTGCCAGAATGCGCTTATACGCCAATATGCACTTCGTGTGCCAGG
Found at i:34571120 original size:16 final size:19
Alignment explanation
Indices: 34571082--34571120 Score: 50
Period size: 16 Copynumber: 2.3 Consensus size: 19
34571072 TTTTTCCCTA
34571082 ATTAAGTAATTTTTAAATC
1 ATTAAGTAATTTTTAAATC
34571101 -TTAAGT-A-TTTTAAA-C
1 ATTAAGTAATTTTTAAATC
34571116 ATTAA
1 ATTAA
34571121 AGGGCTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 5
0.79 0.00 0.21
Matches are distributed among these distances:
15 1 0.05
16 11 0.58
17 1 0.05
18 6 0.32
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (19 bp):
ATTAAGTAATTTTTAAATC
Found at i:34571519 original size:75 final size:76
Alignment explanation
Indices: 34571368--34571542 Score: 228
Period size: 75 Copynumber: 2.3 Consensus size: 76
34571358 TAAACTCACA
** * *
34571368 TTAAATGTTACTTAAAACATTAAGGGGTTTTAAAGAAATAAAGAAACTCATAAATAACGGGAAAT
1 TTAAATGTTACTT-AAACATTAAGGACTTTTAAAGAAATAAAGAAACTCATAAATAACGAGAAAA
34571433 TTACTTAATTTC
65 TTACTTAATTTC
* * * * *
34571445 TTAAATGTTACATAAAGATTAAAGGACTTTTAAA-AAATTAAGTAACTCA-AAATAATGAGAAAA
1 TTAAATGTTACTTAAACATT-AAGGACTTTTAAAGAAATAAAGAAACTCATAAATAACGAGAAAA
34571508 TTACTTAATTTC
65 TTACTTAATTTC
34571520 TTAAATGTTACTTAAAACATTAA
1 TTAAATGTTACTT-AAACATTAA
34571543 AAATTCCTAA
Statistics
Matches: 85, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
75 37 0.44
76 25 0.29
77 23 0.27
ACGTcount: A:0.47, C:0.09, G:0.10, T:0.34
Consensus pattern (76 bp):
TTAAATGTTACTTAAACATTAAGGACTTTTAAAGAAATAAAGAAACTCATAAATAACGAGAAAAT
TACTTAATTTC
Found at i:34571576 original size:23 final size:24
Alignment explanation
Indices: 34571550--34571597 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
34571540 TAAAAATTCC
34571550 TAAATCTT-GCTAAATTACTTAAT
1 TAAATCTTGGCTAAATTACTTAAT
* *
34571573 TAAATCTTGGGTAATTTACTTAAT
1 TAAATCTTGGCTAAATTACTTAAT
34571597 T
1 T
34571598 TCTTAAATGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 8 0.36
24 14 0.64
ACGTcount: A:0.35, C:0.10, G:0.08, T:0.46
Consensus pattern (24 bp):
TAAATCTTGGCTAAATTACTTAAT
Found at i:34571750 original size:77 final size:77
Alignment explanation
Indices: 34571433--34571944 Score: 333
Period size: 77 Copynumber: 6.8 Consensus size: 77
34571423 AACGGGAAAT
* * * * * * **
34571433 TTACTTAATTTCTTAAATG-TTACATAAA-GATT-AAAGGACTTTTAAAAAATTAAGTAACTCAA
1 TTACTTAATTTCTTAAATGATTACTTAAATCATTAAAAGGA-TTTTAAGAAATCAAATAATTTTA
** * *
34571495 AATAATGAGAAAA
65 AATCTTGGGTAAA
* * ** *
34571508 TTACTTAATTTCTTAAATG-TTACTTAAAACATTAAAA--ATTCCTAA-ATCTTGCTAAATTACT
1 TTACTTAATTTCTTAAATGATTACTTAAATCATTAAAAGGATT-TTAAGA-AAT-C-AAA-TAAT
*
34571569 TAATTAAATCTTGGGTAAT
61 T--TTAAATCTTGGGTAAA
*
34571588 TTACTTAATTTCTTAAATGA-GACTTAAAAT-ATT-AAAGGATTTTTAA-AAAT-AAATTAATTT
1 TTACTTAATTTCTTAAATGATTACTT-AAATCATTAAAAGGA-TTTTAAGAAATCAAA-TAATTT
34571648 CTAAATCTTGGGTAAA
63 -TAAATCTTGGGTAAA
* * * *
34571664 TAACTTAATTTTTTAAA-GATTACTTAAATCATTAAAAGGCTTTTAAGAAATCAAATAATTCTTG
1 TTACTTAATTTCTTAAATGATTACTTAAATCATTAAAAGGATTTTAAGAAATCAAATAATT-TTA
*
34571728 AATCTTGGGAAAA
65 AATCTTGGGTAAA
* * ***
34571741 TTACTTAATTTCTTAAATG-TTACTTAAAACATTAAAAGGATTTAAAGAAATCACGGAATTTTTA
1 TTACTTAATTTCTTAAATGATTACTTAAATCATTAAAAGGATTTTAAGAAATCAAATAA-TTTTA
34571805 AATCTTGGGTAAA
65 AATCTTGGGTAAA
* * * * *
34571818 TTATTTAATTTCTTAAATG-TTGC------C----AAAGGAATTTAAAGAAATTAAGTAATTACT
1 TTACTTAATTTCTTAAATGATTACTTAAATCATTAAAAGG-ATTTTAAGAAATCAAATAATT--T
*
34571872 T-AATCAT-GGTAAA
63 TAAATCTTGGGTAAA
* * *
34571885 TTATTTAATTTCTTAAATG-TTACTTAAAACATTAAAGGGATTTTAAGAAATCAAATAATT
1 TTACTTAATTTCTTAAATGATTACTTAAATCATTAAAAGGATTTTAAGAAATCAAATAATT
34571945 CGAAAATCAA
Statistics
Matches: 351, Mismatches: 50, Indels: 71
0.74 0.11 0.15
Matches are distributed among these distances:
67 35 0.10
68 21 0.06
69 2 0.01
71 1 0.00
73 1 0.00
74 3 0.01
75 39 0.11
76 63 0.18
77 127 0.36
78 10 0.03
79 3 0.01
80 36 0.10
81 8 0.02
82 2 0.01
ACGTcount: A:0.43, C:0.09, G:0.10, T:0.39
Consensus pattern (77 bp):
TTACTTAATTTCTTAAATGATTACTTAAATCATTAAAAGGATTTTAAGAAATCAAATAATTTTAA
ATCTTGGGTAAA
Found at i:34572394 original size:17 final size:17
Alignment explanation
Indices: 34572364--34572497 Score: 89
Period size: 17 Copynumber: 7.9 Consensus size: 17
34572354 TTTATAATTA
*
34572364 TATTTTTAGAATATTTTT
1 TATTTTTA-TATATTTTT
34572382 TATTTTTATATATTTTT
1 TATTTTTATATATTTTT
** *
34572399 TAAATTTATA-A--TTA
1 TATTTTTATATATTTTT
*
34572413 TATTTTTAGAATATTTTT
1 TATTTTTA-TATATTTTT
*
34572431 TATTTGTATATATTTTT
1 TATTTTTATATATTTTT
**
34572448 TAAATTTAT-TATTTTAT
1 TATTTTTATATATTTT-T
* * *
34572465 T-TTTTGAAAATATTTATG
1 TATTTT-TATATATTT-TT
34572483 TATTTTTATATATTT
1 TATTTTTATATATTT
34572498 CTTTTAATTT
Statistics
Matches: 87, Mismatches: 20, Indels: 18
0.70 0.16 0.14
Matches are distributed among these distances:
14 8 0.09
15 1 0.01
16 10 0.11
17 33 0.38
18 30 0.34
19 5 0.06
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.66
Consensus pattern (17 bp):
TATTTTTATATATTTTT
Found at i:34572409 original size:49 final size:49
Alignment explanation
Indices: 34572348--34572508 Score: 232
Period size: 49 Copynumber: 3.2 Consensus size: 49
34572338 TAAATTTAAA
34572348 TTTAAATTTATAATTATATTTTTAGAATATTTTTTATTTTTATATATTT
1 TTTAAATTTATAATTATATTTTTAGAATATTTTTTATTTTTATATATTT
*
34572397 TTTAAATTTATAATTATATTTTTAGAATATTTTTTATTTGTATATATTT
1 TTTAAATTTATAATTATATTTTTAGAATATTTTTTATTTTTATATATTT
* * * *
34572446 TTTAAATTTATTATTTTATTTTTTGAAAATATTTATGTATTTTTATATATTT
1 TTTAAATTTATAATTATA-TTTTT-AGAATATTT-TTTATTTTTATATATTT
*
34572498 CTTTTAATTTA
1 -TTTAAATTTA
34572509 CTAGAATTAG
Statistics
Matches: 101, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
49 64 0.63
50 5 0.05
51 8 0.08
52 15 0.15
53 9 0.09
ACGTcount: A:0.32, C:0.01, G:0.03, T:0.65
Consensus pattern (49 bp):
TTTAAATTTATAATTATATTTTTAGAATATTTTTTATTTTTATATATTT
Found at i:34572413 original size:23 final size:23
Alignment explanation
Indices: 34572387--34572469 Score: 64
Period size: 21 Copynumber: 3.6 Consensus size: 23
34572377 TTTTTTATTT
34572387 TTATATATTTTTTAAATTTATAA
1 TTATATATTTTTTAAATTTATAA
** * *
34572410 TTATAT-TTTTAGAATATTTTTTATT
1 TTATATATTTTTTAA-A-TTTATA-A
*
34572435 TGTATATATTTTTTAAATTTATTA
1 T-TATATATTTTTTAAATTTATAA
34572459 TT-T-TATTTTTT
1 TTATATATTTTTT
34572470 GAAAATATTT
Statistics
Matches: 46, Mismatches: 9, Indels: 12
0.69 0.13 0.18
Matches are distributed among these distances:
21 8 0.17
22 7 0.15
23 8 0.17
24 6 0.13
25 5 0.11
26 6 0.13
27 6 0.13
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (23 bp):
TTATATATTTTTTAAATTTATAA
Found at i:34577853 original size:75 final size:77
Alignment explanation
Indices: 34577710--34577858 Score: 169
Period size: 75 Copynumber: 2.0 Consensus size: 77
34577700 TATTAATTTA
* * * * *
34577710 TTTTAAGAAATTAGGTAATTCTTAAATCATAGGAAAATTACATTAATTTTATAAAGGAAACTTAA
1 TTTTAAGAAATTAAGTAATTCCTAAATCATAGGAAAATAACATTAATTTTATAAACGAAACATAA
34577775 AACAATAAAGGT
66 AACAATAAAGGT
** * **
34577787 TTTTAAGAAA-TAAGTAATTCCTAAATTGT-GGATAAATAAC-TTAATTTTGTAAACGCTACATA
1 TTTTAAGAAATTAAGTAATTCCTAAATCATAGGA-AAATAACATTAATTTTATAAACGAAACATA
*
34577849 AAACATTAAA
65 AAACAATAAA
34577859 CGATTTTTCT
Statistics
Matches: 60, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
75 29 0.48
76 21 0.35
77 10 0.17
ACGTcount: A:0.47, C:0.08, G:0.11, T:0.34
Consensus pattern (77 bp):
TTTTAAGAAATTAAGTAATTCCTAAATCATAGGAAAATAACATTAATTTTATAAACGAAACATAA
AACAATAAAGGT
Found at i:34578081 original size:16 final size:16
Alignment explanation
Indices: 34578062--34578094 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
34578052 TAGTTTTATT
*
34578062 AATATTTAATTTTAAA
1 AATATTTAATATTAAA
34578078 AATATTTAATATTAAA
1 AATATTTAATATTAAA
34578094 A
1 A
34578095 TAATAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
AATATTTAATATTAAA
Found at i:34578361 original size:2 final size:2
Alignment explanation
Indices: 34578356--34578380 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
34578346 ATTTTTTTAA
34578356 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
34578381 AAAGCTTAAC
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:34580438 original size:69 final size:69
Alignment explanation
Indices: 34580321--34580543 Score: 299
Period size: 69 Copynumber: 3.3 Consensus size: 69
34580311 TTTTAAGCTA
* * *
34580321 TTAAAATTAA-TTTTTAA-AGAAAATAGTGAAGAAGTTAGCTATGAGAGTATTCTCTAGTGAATG
1 TTAAAATTAACTTTTTAATA-AAAATAGTGAAGAAGTAAGCTATGGGAGTATTCTCTAGAGAATG
34580384 TGGGG
65 TGGGG
* *
34580389 TTAAAATTAACTTTTTAATAAAAATAGTGAAGAAGTAAGCTAAGGGAGTATTCTCTAAAGAATGT
1 TTAAAATTAACTTTTTAATAAAAATAGTGAAGAAGTAAGCTATGGGAGTATTCTCTAGAGAATGT
34580454 GGGG
66 GGGG
* * * * **
34580458 TTAAAATTATCTTTTTAATAAAAATAGTGAAAAAGTGAGCTATGGGAGTATTATCTAGCCAATGT
1 TTAAAATTAACTTTTTAATAAAAATAGTGAAGAAGTAAGCTATGGGAGTATTCTCTAGAGAATGT
34580523 -GGG
66 GGGG
* *
34580526 ATAAAATTAACTGTTTAA
1 TTAAAATTAACTTTTTAA
34580544 GGAAAATAAT
Statistics
Matches: 137, Mismatches: 16, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
68 28 0.20
69 108 0.79
70 1 0.01
ACGTcount: A:0.40, C:0.06, G:0.21, T:0.33
Consensus pattern (69 bp):
TTAAAATTAACTTTTTAATAAAAATAGTGAAGAAGTAAGCTATGGGAGTATTCTCTAGAGAATGT
GGGG
Found at i:34591052 original size:20 final size:19
Alignment explanation
Indices: 34591024--34591093 Score: 61
Period size: 20 Copynumber: 3.6 Consensus size: 19
34591014 ATATTTAGCT
34591024 TTATATTTATTTATAATTAA
1 TTATATTTATTTATAATT-A
* ** *
34591044 TTATGTTTAAATAAAATTA
1 TTATATTTATTTATAATTA
*
34591063 TTAATATTTATTTATAAAT-
1 TT-ATATTTATTTATAATTA
34591082 TTATTATTTATT
1 TTA-TATTTATT
34591094 ATTATATTCA
Statistics
Matches: 39, Mismatches: 9, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
18 1 0.03
19 13 0.33
20 25 0.64
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (19 bp):
TTATATTTATTTATAATTA
Found at i:34591154 original size:24 final size:24
Alignment explanation
Indices: 34591127--34591173 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
34591117 CATATTATTA
* * *
34591127 TTTATCCATAGTATATAAAATATG
1 TTTATCAAAAGTAGATAAAATATG
*
34591151 TTTATTAAAAGTAGATAAAATAT
1 TTTATCAAAAGTAGATAAAATAT
34591174 TCACCTTTTC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.47, C:0.04, G:0.09, T:0.40
Consensus pattern (24 bp):
TTTATCAAAAGTAGATAAAATATG
Found at i:34592960 original size:11 final size:11
Alignment explanation
Indices: 34592946--34592971 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
34592936 ATTTTTTTAA
34592946 TTTTAAAATAT
1 TTTTAAAATAT
34592957 TTTTAAAATAT
1 TTTTAAAATAT
34592968 TTTT
1 TTTT
34592972 TTATTTTTAA
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:34592988 original size:23 final size:23
Alignment explanation
Indices: 34592961--34593011 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
34592951 AAATATTTTT
**
34592961 AAAATATTTTTTTATTT-TTAAA
1 AAAATATTTTGGTATTTATTAAA
34592983 ATAAAT-TTTTGGTATTTATTAAA
1 A-AAATATTTTGGTATTTATTAAA
34593006 AAAATA
1 AAAATA
34593012 GACCGGGCCG
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
22 14 0.58
23 10 0.42
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (23 bp):
AAAATATTTTGGTATTTATTAAA
Found at i:34592992 original size:22 final size:22
Alignment explanation
Indices: 34592954--34593010 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 22
34592944 AATTTTAAAA
*
34592954 TATTTTTAAAAT--ATTTTT-T
1 TATTTTTAAAATAAATTTTTGG
34592973 TATTTTTAAAATAAATTTTTGG
1 TATTTTTAAAATAAATTTTTGG
34592995 TATTTATTAAAA-AAAT
1 TATTT-TTAAAATAAAT
34593011 AGACCGGGCC
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
19 12 0.36
21 6 0.18
22 9 0.27
23 6 0.18
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (22 bp):
TATTTTTAAAATAAATTTTTGG
Found at i:34592999 original size:30 final size:30
Alignment explanation
Indices: 34592917--34592992 Score: 75
Period size: 30 Copynumber: 2.5 Consensus size: 30
34592907 TCGAATATAA
**
34592917 TAAATATATAATTTTTTTTATTTTTTTAATTT
1 TAAA-ATA-AATTTTTAATATTTTTTTAATTT
*
34592949 TAAAAT--ATTTTTAAAATATTTTTTTATTTT
1 TAAAATAAATTTTT--AATATTTTTTTAATTT
34592979 TAAAATAAATTTTT
1 TAAAATAAATTTTT
34592993 GGTATTTATT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
28 6 0.16
30 19 0.51
31 2 0.05
32 10 0.27
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (30 bp):
TAAAATAAATTTTTAATATTTTTTTAATTT
Found at i:34597410 original size:50 final size:49
Alignment explanation
Indices: 34597285--34597527 Score: 175
Period size: 50 Copynumber: 4.8 Consensus size: 49
34597275 GATATTAACA
* * * *
34597285 TGCCAAAGCCATGTTCCAGACATGGTCTTACATGGGATGTTTCTTGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAT-TTTCATAT-CGG
* * * * *
34597334 TGCAAATGCCATATCTCAGATATGGTCTTACATGAGAGTTTTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-TTTTCATATCGG
* ** * * *
34597384 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-TTTTCATATCGG
* * * * * **
34597434 TGTCAACGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATAACCTCAATAA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-TTTTCAT-A--TC---GG
34597490 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAT
34597528 CTCATTCCCT
Statistics
Matches: 151, Mismatches: 34, Indels: 12
0.77 0.17 0.06
Matches are distributed among these distances:
48 1 0.01
49 36 0.24
50 78 0.52
53 2 0.01
56 34 0.23
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (49 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATTTTCATATCGG
Found at i:34601898 original size:45 final size:45
Alignment explanation
Indices: 34601847--34601936 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
34601837 AACATTGCAA
34601847 AGATTGTATTGTCGATCATTTTTATTTAAGTTCTTATACAAGAAT
1 AGATTGTATTGTCGATCATTTTTATTTAAGTTCTTATACAAGAAT
34601892 AGATTGTATTGTCGATCATTTTTATTTAAGTTCTTATACAAGAAT
1 AGATTGTATTGTCGATCATTTTTATTTAAGTTCTTATACAAGAAT
34601937 TTCAACTTAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.47
Consensus pattern (45 bp):
AGATTGTATTGTCGATCATTTTTATTTAAGTTCTTATACAAGAAT
Found at i:34603763 original size:24 final size:25
Alignment explanation
Indices: 34603725--34603779 Score: 76
Period size: 24 Copynumber: 2.2 Consensus size: 25
34603715 CGGTTGGGAA
*
34603725 AGAAAAACTTAAGTTAGGGAATTGG
1 AGAAAAAATTAAGTTAGGGAATTGG
* *
34603750 GGAAAAAATT-AGTTAGGGATTTGG
1 AGAAAAAATTAAGTTAGGGAATTGG
34603774 AGAAAA
1 AGAAAA
34603780 TGATTTAGGG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
24 18 0.69
25 8 0.31
ACGTcount: A:0.45, C:0.02, G:0.29, T:0.24
Consensus pattern (25 bp):
AGAAAAAATTAAGTTAGGGAATTGG
Found at i:34604285 original size:20 final size:20
Alignment explanation
Indices: 34604262--34604303 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
34604252 TTAATTTATT
*
34604262 AATTTAAAT-TTTGGGGACTA
1 AATTGAAATATTT-GGGACTA
*
34604282 AATTGAAATATTTTGGACTA
1 AATTGAAATATTTGGGACTA
34604302 AA
1 AA
34604304 CTAAATAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 16 0.84
21 3 0.16
ACGTcount: A:0.40, C:0.05, G:0.17, T:0.38
Consensus pattern (20 bp):
AATTGAAATATTTGGGACTA
Found at i:34608611 original size:28 final size:28
Alignment explanation
Indices: 34608575--34608630 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
34608565 ATGAATTAAA
* *
34608575 CTAATTAAATTAATTAAACTAAAATAAC
1 CTAACTAAATTAAGTAAACTAAAATAAC
**
34608603 CTAACTAAATTAAGTAGTCTAAAATAAC
1 CTAACTAAATTAAGTAAACTAAAATAAC
34608631 TTATTGGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.54, C:0.12, G:0.04, T:0.30
Consensus pattern (28 bp):
CTAACTAAATTAAGTAAACTAAAATAAC
Found at i:34624522 original size:3 final size:3
Alignment explanation
Indices: 34624514--34624551 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
34624504 AGTGCATAAA
34624514 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
34624552 GATCTTTGTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.34, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:34628757 original size:27 final size:27
Alignment explanation
Indices: 34628697--34628868 Score: 238
Period size: 27 Copynumber: 6.4 Consensus size: 27
34628687 CCCTAAAATA
*
34628697 GGTAAAATAACCAAAATACCCC-ATAG
1 GGTAAAATGACCAAAATACCCCTATAG
34628723 GGTAAAATGACCAAAATACCCCTATAG
1 GGTAAAATGACCAAAATACCCCTATAG
*
34628750 GGTAAAATGATCAAAATACCCCTATAG
1 GGTAAAATGACCAAAATACCCCTATAG
* *
34628777 GGTAGAATGACCGAAATACCCCTATAG
1 GGTAAAATGACCAAAATACCCCTATAG
* * * *
34628804 GGTAGAATGAACAAAATACCCCCACAG
1 GGTAAAATGACCAAAATACCCCTATAG
* * *
34628831 GGTAAAATGACCGAAATACCTCAATAG
1 GGTAAAATGACCAAAATACCCCTATAG
34628858 GGTAAAATGAC
1 GGTAAAATGAC
34628869 TGTTATACCC
Statistics
Matches: 130, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
26 21 0.16
27 109 0.84
ACGTcount: A:0.44, C:0.21, G:0.17, T:0.17
Consensus pattern (27 bp):
GGTAAAATGACCAAAATACCCCTATAG
Found at i:34629402 original size:33 final size:34
Alignment explanation
Indices: 34629330--34629394 Score: 87
Period size: 33 Copynumber: 1.9 Consensus size: 34
34629320 TCATAGTATG
** *
34629330 ACTGATATCTATTACTGTTATGGGCCAAGGCCCC
1 ACTGATATCTATTACTGAAATGGGCAAAGGCCCC
*
34629364 ACTGATA-CTATTACTGAAATTGGCAAAGGCC
1 ACTGATATCTATTACTGAAATGGGCAAAGGCC
34629395 TTACTGATTA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
33 20 0.74
34 7 0.26
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (34 bp):
ACTGATATCTATTACTGAAATGGGCAAAGGCCCC
Found at i:34631435 original size:20 final size:21
Alignment explanation
Indices: 34631412--34631451 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
34631402 GGGTGAGAAG
34631412 AAAAAGTTTAGGGG-GAAAAT
1 AAAAAGTTTAGGGGAGAAAAT
*
34631432 AAAAAGTTTTGGGGAGAAAA
1 AAAAAGTTTAGGGGAGAAAA
34631452 AGTTTAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.50, C:0.00, G:0.30, T:0.20
Consensus pattern (21 bp):
AAAAAGTTTAGGGGAGAAAAT
Found at i:34631465 original size:23 final size:23
Alignment explanation
Indices: 34631438--34631481 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
34631428 AAATAAAAAG
34631438 TTTTGG-GGAGAAAAAGTTTAATA
1 TTTTGGAGG-GAAAAAGTTTAATA
*
34631461 TTTTGGAGGGAAAATGTTTAA
1 TTTTGGAGGGAAAAAGTTTAA
34631482 AAAATTAGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 17 0.89
24 2 0.11
ACGTcount: A:0.36, C:0.00, G:0.27, T:0.36
Consensus pattern (23 bp):
TTTTGGAGGGAAAAAGTTTAATA
Found at i:34631784 original size:9 final size:9
Alignment explanation
Indices: 34631766--34631802 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
34631756 TATAATTTTA
34631766 TATTCGAAT
1 TATTCGAAT
*
34631775 TATTCTAAT
1 TATTCGAAT
*
34631784 TATTCGAGT
1 TATTCGAAT
34631793 TATTCGAAT
1 TATTCGAAT
34631802 T
1 T
34631803 TGAAAACTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.30, C:0.11, G:0.11, T:0.49
Consensus pattern (9 bp):
TATTCGAAT
Found at i:34640758 original size:22 final size:23
Alignment explanation
Indices: 34640725--34640768 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
34640715 TCTATCGAAA
*
34640725 ATTATCAAAATTCATCAAAATTT
1 ATTATCAAAATTAATCAAAATTT
*
34640748 ATTAT-AAAATTAATTAAAATT
1 ATTATCAAAATTAATCAAAATT
34640769 CAACATGTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (23 bp):
ATTATCAAAATTAATCAAAATTT
Found at i:34643206 original size:138 final size:137
Alignment explanation
Indices: 34642958--34643212 Score: 305
Period size: 138 Copynumber: 1.9 Consensus size: 137
34642948 GAGCCATAAA
* * * ** *
34642958 TAGGTCTCCTCACACAAGTTAATGGTCGGAATGTAACTACACGATGCCACTTGCACAAGCTGATG
1 TAGGTCTCCTCACACAAGCTAATGGTCGGAATGTAACTACACAATACCACTCACACAAGCTAATG
* * * *
34643023 AGTATTTGCAAAAAATGTTGAAACTCAACCATCGGTAGGACATTCAGGACCAGCACCCTGAGCAT
66 AGTATTTGCAAAAAATGTAGAAACTCAACCATCGGTAGAAAATTCAAGACCAGCACCCTGAGCAT
34643088 GGTAACC
131 GGTAACC
* * * ***
34643095 TAGGTCTGCTGACACAAGCTGATGGTCGGAATGTAAGCTACACAATATTGCTCACACAAGCTAAT
1 TAGGTCTCCTCACACAAGCTAATGGTCGGAATGTAA-CTACACAATACCACTCACACAAGCTAAT
* * * *
34643160 GAGTATTTGTAATAAATGTCAG-ACCTCAGCCATCGGTAGAAAATTCAAGACCA
65 GAGTATTTGCAAAAAATGT-AGAAACTCAACCATCGGTAGAAAATTCAAGACCA
34643213 ACATCCAAAA
Statistics
Matches: 96, Mismatches: 20, Indels: 3
0.81 0.17 0.03
Matches are distributed among these distances:
137 32 0.33
138 63 0.66
139 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.24
Consensus pattern (137 bp):
TAGGTCTCCTCACACAAGCTAATGGTCGGAATGTAACTACACAATACCACTCACACAAGCTAATG
AGTATTTGCAAAAAATGTAGAAACTCAACCATCGGTAGAAAATTCAAGACCAGCACCCTGAGCAT
GGTAACC
Found at i:34655910 original size:17 final size:18
Alignment explanation
Indices: 34655888--34655923 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
34655878 AAGAAAAGCA
*
34655888 TAAAAATTAAAA-CAAAT
1 TAAAAATCAAAACCAAAT
34655905 TAAAAATCAAAACCAAAT
1 TAAAAATCAAAACCAAAT
34655923 T
1 T
34655924 CCTATGTTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.67, C:0.11, G:0.00, T:0.22
Consensus pattern (18 bp):
TAAAAATCAAAACCAAAT
Found at i:34670171 original size:27 final size:29
Alignment explanation
Indices: 34670111--34670171 Score: 81
Period size: 27 Copynumber: 2.1 Consensus size: 29
34670101 CATAGTTGTA
34670111 ACACCCCTAACCCATGCATAAACCGTTCAT
1 ACACCCCTAA-CCATGCATAAACCGTTCAT
* *
34670141 ACACCCCTAA-CAT-CATTAATCGTTCAT
1 ACACCCCTAACCATGCATAAACCGTTCAT
34670168 ACAC
1 ACAC
34670172 ATGTATATTG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 16 0.55
28 3 0.10
30 10 0.34
ACGTcount: A:0.34, C:0.38, G:0.05, T:0.23
Consensus pattern (29 bp):
ACACCCCTAACCATGCATAAACCGTTCAT
Found at i:34671414 original size:16 final size:16
Alignment explanation
Indices: 34671371--34671414 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
34671361 TGATAGGTCT
*
34671371 CCGA-CGAGCTTCCAG
1 CCGACCGAGCTTCCAA
* *
34671386 CCGACTGATCTTCCAA
1 CCGACCGAGCTTCCAA
34671402 CCGACCGAGCTTC
1 CCGACCGAGCTTC
34671415 TAAAAAATCT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
15 4 0.17
16 19 0.83
ACGTcount: A:0.20, C:0.41, G:0.20, T:0.18
Consensus pattern (16 bp):
CCGACCGAGCTTCCAA
Found at i:34678156 original size:26 final size:26
Alignment explanation
Indices: 34678104--34678158 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
34678094 GGATTATTTA
* **
34678104 GTTAGCCTTTATGACGTATCCTGTAT
1 GTTAGCCTTTATGACATATCCAATAT
*
34678130 GTTAGCCTTTATGACATATTCAATAT
1 GTTAGCCTTTATGACATATCCAATAT
34678156 GTT
1 GTT
34678159 TCCTTTGTGG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.44
Consensus pattern (26 bp):
GTTAGCCTTTATGACATATCCAATAT
Found at i:34679414 original size:23 final size:23
Alignment explanation
Indices: 34679392--34679437 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
34679382 TGTAAAGCCT
*
34679392 TTATGTTG-TATTCTATGATGCC
1 TTATGTGGATATTCTATGATGCC
34679414 -TATGTGGCATATTCTATGATGCC
1 TTATGTGG-ATATTCTATGATGCC
34679437 T
1 T
34679438 GTGGGGCATA
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
21 6 0.30
23 14 0.70
ACGTcount: A:0.20, C:0.15, G:0.20, T:0.46
Consensus pattern (23 bp):
TTATGTGGATATTCTATGATGCC
Found at i:34679445 original size:23 final size:23
Alignment explanation
Indices: 34679400--34679451 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
34679390 CTTTATGTTG
*
34679400 TATTCTATGATGCCTATGTGGCA
1 TATTCTATGATGCCTATGGGGCA
*
34679423 TATTCTATGATGCCTGTGGGGCA
1 TATTCTATGATGCCTATGGGGCA
34679446 TATTCT
1 TATTCT
34679452 GTAAAGCCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.19, C:0.17, G:0.23, T:0.40
Consensus pattern (23 bp):
TATTCTATGATGCCTATGGGGCA
Found at i:34681144 original size:20 final size:20
Alignment explanation
Indices: 34681119--34681166 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
34681109 TGCTATACAA
34681119 AGGCACTGTAATGTAAACAG
1 AGGCACTGTAATGTAAACAG
* * **
34681139 AGGCACCGTAGTGTAAATGG
1 AGGCACTGTAATGTAAACAG
34681159 AGGCACTG
1 AGGCACTG
34681167 AATTGCAAAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.33, C:0.17, G:0.31, T:0.19
Consensus pattern (20 bp):
AGGCACTGTAATGTAAACAG
Found at i:34685434 original size:6 final size:6
Alignment explanation
Indices: 34685418--34685456 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
34685408 TGATTTTCTC
* *
34685418 AAAATG GAAATG AAAATG ACAATG AAAATG AGAAATG AA
1 AAAATG AAAATG AAAATG AAAATG AAAATG A-AAATG AA
34685457 TTCATTTAGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
6 22 0.79
7 6 0.21
ACGTcount: A:0.62, C:0.03, G:0.21, T:0.15
Consensus pattern (6 bp):
AAAATG
Found at i:34687111 original size:23 final size:23
Alignment explanation
Indices: 34687085--34687160 Score: 116
Period size: 23 Copynumber: 3.3 Consensus size: 23
34687075 AGGGCATTAC
34687085 AGAATACGCCATAAAGGCATCAT
1 AGAATACGCCATAAAGGCATCAT
* *
34687108 AGAATACGCCACAAAGGCATCAC
1 AGAATACGCCATAAAGGCATCAT
* *
34687131 AGAATATGCCATAAAGGAATCAT
1 AGAATACGCCATAAAGGCATCAT
34687154 AGAATAC
1 AGAATAC
34687161 ACCACAGAGC
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.46, C:0.21, G:0.17, T:0.16
Consensus pattern (23 bp):
AGAATACGCCATAAAGGCATCAT
Found at i:34687133 original size:46 final size:46
Alignment explanation
Indices: 34687077--34687166 Score: 144
Period size: 46 Copynumber: 2.0 Consensus size: 46
34687067 TTGCCTCAAG
* * *
34687077 GGCATTACAGAATACGCCATAAAGGCATCATAGAATACGCCACAAA
1 GGCATCACAGAATACGCCATAAAGGAATCATAGAATACACCACAAA
*
34687123 GGCATCACAGAATATGCCATAAAGGAATCATAGAATACACCACA
1 GGCATCACAGAATACGCCATAAAGGAATCATAGAATACACCACA
34687167 GAGCGTGCCA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.44, C:0.23, G:0.17, T:0.16
Consensus pattern (46 bp):
GGCATCACAGAATACGCCATAAAGGAATCATAGAATACACCACAAA
Found at i:34692904 original size:31 final size:31
Alignment explanation
Indices: 34692869--34692931 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
34692859 CATAGTTTGA
*
34692869 AAATAACTAGATATTGCATTGTTGGCATTCT
1 AAATAACTAGACATTGCATTGTTGGCATTCT
34692900 AAATAACTAGACATTGCATTGTTGGCATTCT
1 AAATAACTAGACATTGCATTGTTGGCATTCT
34692931 A
1 A
34692932 TCTTTTGGCA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (31 bp):
AAATAACTAGACATTGCATTGTTGGCATTCT
Found at i:34695650 original size:20 final size:22
Alignment explanation
Indices: 34695612--34695651 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
34695602 ATGCAATATT
34695612 TAAAATGCTAACTAAAATGTCC
1 TAAAATGCTAACTAAAATGTCC
34695634 TAAAATGC-AAC-AAAATGT
1 TAAAATGCTAACTAAAATGT
34695652 ACTTAAGTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 3 0.17
22 8 0.44
ACGTcount: A:0.50, C:0.15, G:0.10, T:0.25
Consensus pattern (22 bp):
TAAAATGCTAACTAAAATGTCC
Found at i:34698995 original size:48 final size:49
Alignment explanation
Indices: 34698919--34699067 Score: 180
Period size: 48 Copynumber: 3.1 Consensus size: 49
34698909 AACAGATTTC
* * * *
34698919 TCGGTGGCCTGCACATAGTCCGTTCCACCCTTGTATCCTAACAAG-TTA
1 TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTGTCCTAACAAGAATA
* *
34698967 TTGGTGGCCTGCACACAGTCCATGCCACCCTTGTGTCAC-AAC-AGAATA
1 TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTGTC-CTAACAAGAATA
* * *
34699015 TCGGTGGCCTACACACAGTCCGTGCCACCCTTGTGTCATAAC-AGATTA
1 TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTGTCCTAACAAGAATA
34699063 TCGGT
1 TCGGT
34699068 ATGCATAGTA
Statistics
Matches: 87, Mismatches: 11, Indels: 6
0.84 0.11 0.06
Matches are distributed among these distances:
47 2 0.02
48 84 0.97
49 1 0.01
ACGTcount: A:0.22, C:0.31, G:0.21, T:0.26
Consensus pattern (49 bp):
TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTGTCCTAACAAGAATA
Found at i:34706557 original size:48 final size:48
Alignment explanation
Indices: 34706498--34706694 Score: 243
Period size: 48 Copynumber: 4.1 Consensus size: 48
34706488 AATAGATTTC
* * * * * *
34706498 TCGGTAGCCTGCACACAATCCGTACCACCTTTGTGTAATAACAGATTC
1 TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTGTCATAACAGATTA
* * * *
34706546 TCGGTGGCCTGCACATAGTCCGTTCCACCCTTGTATCCTAACA-AGTTA
1 TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTGTCATAACAGA-TTA
* * * * *
34706594 TTGGTGGCCTGTACATAGTCCGTGCCACCCTTGTGTCACAACAGAATA
1 TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTGTCATAACAGATTA
34706642 TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTGTCATAACAGATTA
1 TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTGTCATAACAGATTA
34706690 TCGGT
1 TCGGT
34706695 ACACATAGTA
Statistics
Matches: 126, Mismatches: 21, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
47 1 0.01
48 124 0.98
49 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.27
Consensus pattern (48 bp):
TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTGTCATAACAGATTA
Found at i:34711041 original size:6 final size:6
Alignment explanation
Indices: 34711030--34711127 Score: 62
Period size: 6 Copynumber: 16.8 Consensus size: 6
34711020 ATGAGAGAAA
* ** *
34711030 AAAATC AAAATC AAAATC AAAAAC AAAAAG AAAA-- AAAATC AAAGTC
1 AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC
** * * *
34711076 AAAAGAAA AAAATA AAAATC --AATC AAAACC AAAATC AAAGTC AAAAT-
1 -AAA-ATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC
34711123 AAAAT
1 AAAAT
34711128 ATGAAAAGAG
Statistics
Matches: 74, Mismatches: 12, Indels: 13
0.75 0.12 0.13
Matches are distributed among these distances:
4 8 0.11
5 5 0.07
6 55 0.74
7 6 0.08
ACGTcount: A:0.71, C:0.12, G:0.04, T:0.12
Consensus pattern (6 bp):
AAAATC
Done.