Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032253.1 Gossypioides kirkii chromosome KI_11
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: 55708359
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 168 of 182
Found at i:50915164 original size:14 final size:14
Alignment explanation
Indices: 50915145--50915182 Score: 76
Period size: 14 Copynumber: 2.7 Consensus size: 14
50915135 TTTTCACTAA
50915145 AAACATTGCAAGAG
1 AAACATTGCAAGAG
50915159 AAACATTGCAAGAG
1 AAACATTGCAAGAG
50915173 AAACATTGCA
1 AAACATTGCA
50915183 GAAATGGATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.50, C:0.16, G:0.18, T:0.16
Consensus pattern (14 bp):
AAACATTGCAAGAG
Found at i:50917919 original size:14 final size:13
Alignment explanation
Indices: 50917906--50917952 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
50917896 GAGCAATTTA
50917906 ATTTTTTTCTTTT
1 ATTTTTTTCTTTT
*
50917919 ATGTTTTTTAATTTT
1 AT-TTTTTT-CTTTT
*
50917934 CTTTTTTTC-TTT
1 ATTTTTTTCTTTT
50917946 ATTTTTT
1 ATTTTTT
50917953 ATTTTCCTCG
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
12 9 0.32
13 2 0.07
14 12 0.43
15 5 0.18
ACGTcount: A:0.11, C:0.06, G:0.02, T:0.81
Consensus pattern (13 bp):
ATTTTTTTCTTTT
Found at i:50917931 original size:28 final size:26
Alignment explanation
Indices: 50917900--50917952 Score: 70
Period size: 28 Copynumber: 2.0 Consensus size: 26
50917890 TATTTTGAGC
50917900 AATTTAATTTTTTTCTTTTATGTTTTTT
1 AATTTAATTTTTTTC-TTTAT-TTTTTT
**
50917928 AATTTTCTTTTTTTCTTTATTTTTT
1 AATTTAATTTTTTTCTTTATTTTTT
50917953 ATTTTCCTCG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 5 0.22
27 5 0.22
28 13 0.57
ACGTcount: A:0.15, C:0.06, G:0.02, T:0.77
Consensus pattern (26 bp):
AATTTAATTTTTTTCTTTATTTTTTT
Found at i:50917956 original size:24 final size:27
Alignment explanation
Indices: 50917907--50917958 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 27
50917897 AGCAATTTAA
50917907 TTTTTTTCTTTTATGTTTTTTAATTTTC
1 TTTTTTTCTTTTA-GTTTTTTAATTTTC
50917935 TTTTTTTC-TTTA-TTTTTT-ATTTTC
1 TTTTTTTCTTTTAGTTTTTTAATTTTC
50917959 CTCGGCTTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
24 6 0.25
25 6 0.25
27 4 0.17
28 8 0.33
ACGTcount: A:0.10, C:0.08, G:0.02, T:0.81
Consensus pattern (27 bp):
TTTTTTTCTTTTAGTTTTTTAATTTTC
Found at i:50917994 original size:23 final size:25
Alignment explanation
Indices: 50917949--50917995 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 25
50917939 TTTCTTTATT
*
50917949 TTTTATTTTCCTCGGCTTCTCCATC
1 TTTTATTTTCCTCGCCTTCTCCATC
*
50917974 TTTT-TTTTCCTC-CCTTGTCCAT
1 TTTTATTTTCCTCGCCTTCTCCAT
50917996 TTCTTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 8 0.40
25 4 0.20
ACGTcount: A:0.06, C:0.32, G:0.06, T:0.55
Consensus pattern (25 bp):
TTTTATTTTCCTCGCCTTCTCCATC
Found at i:50920389 original size:29 final size:30
Alignment explanation
Indices: 50920331--50920390 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
50920321 CAAGAATTGG
* *
50920331 ATCAAATCAAAATTTTATGTATAAAATTAC
1 ATCAAATCAAAATTTAATGTACAAAATTAC
* *
50920361 ATCAAATTAAAA-TTAATGTACATAATTAC
1 ATCAAATCAAAATTTAATGTACAAAATTAC
50920390 A
1 A
50920391 CATTAAATCA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 15 0.58
30 11 0.42
ACGTcount: A:0.52, C:0.10, G:0.03, T:0.35
Consensus pattern (30 bp):
ATCAAATCAAAATTTAATGTACAAAATTAC
Found at i:50924110 original size:18 final size:18
Alignment explanation
Indices: 50924078--50924116 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
50924068 GTTTAAAAAT
** *
50924078 TTTAATTAATTAAATTTA
1 TTTAATTAAAAAAATCTA
50924096 TTTAATTAAAAAAATCTA
1 TTTAATTAAAAAAATCTA
50924114 TTT
1 TTT
50924117 TCATCTCATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTAATTAAAAAAATCTA
Found at i:50936266 original size:18 final size:18
Alignment explanation
Indices: 50936243--50936297 Score: 65
Period size: 18 Copynumber: 3.0 Consensus size: 18
50936233 ATTTTTTTTG
*
50936243 AATAATATTTAATTAAAT
1 AATAATATTTAATTAAAA
*
50936261 AATAATATTTAAATAAAA
1 AATAATATTTAATTAAAA
* *
50936279 AATATAAATTTTATTAAAA
1 AATA-ATATTTAATTAAAA
50936298 TAGAAGGTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
18 20 0.65
19 11 0.35
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
AATAATATTTAATTAAAA
Found at i:50937234 original size:41 final size:41
Alignment explanation
Indices: 50937184--50937300 Score: 142
Period size: 41 Copynumber: 3.0 Consensus size: 41
50937174 CTCTATTCTC
*
50937184 TTTTTATTTTGTATTTAAGTTTTTAATATTAGTAAATATTT
1 TTTTTATTTTGTATTTAAGTATTTAATATTAGTAAATATTT
* *
50937225 TTTTTATTTTTTATTTCAGTATTTAATA-T--T-AATA---
1 TTTTTATTTTGTATTTAAGTATTTAATATTAGTAAATATTT
*
50937259 ATTTT-TTTTGTATTTAAGTATTTAATATTAGTAAATATTT
1 TTTTTATTTTGTATTTAAGTATTTAATATTAGTAAATATTT
50937299 TT
1 TT
50937301 ATCAATTGGT
Statistics
Matches: 62, Mismatches: 7, Indels: 15
0.74 0.08 0.18
Matches are distributed among these distances:
33 20 0.32
34 5 0.08
36 1 0.02
37 8 0.13
38 1 0.02
40 2 0.03
41 25 0.40
ACGTcount: A:0.30, C:0.01, G:0.06, T:0.63
Consensus pattern (41 bp):
TTTTTATTTTGTATTTAAGTATTTAATATTAGTAAATATTT
Found at i:50937300 original size:33 final size:32
Alignment explanation
Indices: 50937229--50937300 Score: 99
Period size: 33 Copynumber: 2.2 Consensus size: 32
50937219 ATATTTTTTT
* *
50937229 TATTTTTTATTTCAGTATTTAATATTAATAAT
1 TATTTTTTATTTAAGTATTTAATATTAATAAA
* *
50937261 TTTTTTTGTATTTAAGTATTTAATATTAGTAAA
1 TATTTTT-TATTTAAGTATTTAATATTAATAAA
50937294 TATTTTT
1 TATTTTT
50937301 ATCAATTGGT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 6 0.18
33 28 0.82
ACGTcount: A:0.32, C:0.01, G:0.06, T:0.61
Consensus pattern (32 bp):
TATTTTTTATTTAAGTATTTAATATTAATAAA
Found at i:50937854 original size:14 final size:15
Alignment explanation
Indices: 50937827--50937861 Score: 54
Period size: 14 Copynumber: 2.3 Consensus size: 15
50937817 ATCAAATATA
50937827 TTTTATAATTTTAATT
1 TTTTATAA-TTTAATT
50937843 TTTTATAA-TTAATT
1 TTTTATAATTTAATT
50937857 TTTTA
1 TTTTA
50937862 ATACTTAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 11 0.58
16 8 0.42
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTTATAATTTAATT
Found at i:50942852 original size:29 final size:28
Alignment explanation
Indices: 50942818--50942872 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
50942808 ACAAAACGAT
*
50942818 AACATAAGTGACTAAAATGTAACTTTTCA
1 AACATAAGTGACTAAAATATAA-TTTTCA
**
50942847 AACATATTTGACTAAAATATAATTTT
1 AACATAAGTGACTAAAATATAATTTT
50942873 AGGCAAATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 4 0.17
29 19 0.83
ACGTcount: A:0.45, C:0.11, G:0.07, T:0.36
Consensus pattern (28 bp):
AACATAAGTGACTAAAATATAATTTTCA
Found at i:50944645 original size:47 final size:47
Alignment explanation
Indices: 50944589--50944683 Score: 145
Period size: 47 Copynumber: 2.0 Consensus size: 47
50944579 TAAATATTAA
* * *
50944589 TTGAAAGTTGTCTATAATGTCGGCTAAGGAAATCTTTAAAAGCATCT
1 TTGAAAGTTGTCTATAATGTCGGCAAAGCAAATCTTTAAAAACATCT
* *
50944636 TTGAAAGTTGTCTTTTATGTCGGCAAAGCAAATCTTTAAAAACATCT
1 TTGAAAGTTGTCTATAATGTCGGCAAAGCAAATCTTTAAAAACATCT
50944683 T
1 T
50944684 CATTTAATTG
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.36
Consensus pattern (47 bp):
TTGAAAGTTGTCTATAATGTCGGCAAAGCAAATCTTTAAAAACATCT
Found at i:50956765 original size:16 final size:16
Alignment explanation
Indices: 50956744--50956781 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
50956734 TTGAATTGAT
*
50956744 TTTAAATTTATTTAAA
1 TTTAAATTTAGTTAAA
50956760 TTTAAATTTAGTTAAA
1 TTTAAATTTAGTTAAA
50956776 TTTAAA
1 TTTAAA
50956782 ATGATTTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (16 bp):
TTTAAATTTAGTTAAA
Found at i:50958767 original size:29 final size:29
Alignment explanation
Indices: 50958664--50959053 Score: 251
Period size: 29 Copynumber: 13.4 Consensus size: 29
50958654 CCCTAAATTG
*
50958664 TCCAAAAATTATATTTTGACCCTC-AAACT
1 TCCAAAAATTACATTTTGACCC-CGAAACT
*
50958693 TCTCCAAAATTACATTTTGA-CCCG-AACT
1 TC-CAAAAATTACATTTTGACCCCGAAACT
*
50958721 TCTAAAAATTACATTTTTGACCCCGAAACT
1 TCCAAAAATTACA-TTTTGACCCCGAAACT
*** * *
50958751 TTTGAAAATTACATTTTTACGCTC-AAACT
1 TCCAAAAATTACATTTTGAC-CCCGAAACT
* * ** *
50958780 TCTAAAAATTACATTTTTCACCTTGGAACT
1 TCCAAAAATTACA-TTTTGACCCCGAAACT
* * *
50958810 TCCATAAGTTACATTTTTACCTCCG-AACT
1 TCCAAAAATTACATTTTGACC-CCGAAACT
* * * * *
50958839 TTCGAAGATTCCATTTTGACCCCCAAACT
1 TCCAAAAATTACATTTTGACCCCGAAACT
* * *
50958868 TCCAAAAATTACATTTTCACACCTAAACT
1 TCCAAAAATTACATTTTGACCCCGAAACT
* * *
50958897 TCCAAAAATTCCATTTTTAACCCCAAAACT
1 TCCAAAAATTACA-TTTTGACCCCGAAACT
* * * **
50958927 TGCAAAAATTATATTTTTACCCTTAAACT
1 TCCAAAAATTACATTTTGACCCCGAAACT
*
50958956 TCCAAAAATT-CATTTTGACCCCAAAACT
1 TCCAAAAATTACATTTTGACCCCGAAACT
* * **
50958984 TGCAAAAATTATAATTTT-ACCCTTAAACTT
1 TCCAAAAATTA-CATTTTGACCCCGAAAC-T
** *
50959014 TTAAAAAATT-CATTTTTGA-CCCAAAAC-
1 TCCAAAAATTACA-TTTTGACCCCGAAACT
50959041 TCACAAAAATTAC
1 TC-CAAAAATTAC
50959054 CGTTTTACCC
Statistics
Matches: 283, Mismatches: 60, Indels: 36
0.75 0.16 0.09
Matches are distributed among these distances:
27 10 0.04
28 46 0.16
29 136 0.48
30 91 0.32
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.35
Consensus pattern (29 bp):
TCCAAAAATTACATTTTGACCCCGAAACT
Found at i:50958793 original size:59 final size:58
Alignment explanation
Indices: 50958667--50959112 Score: 302
Period size: 59 Copynumber: 7.7 Consensus size: 58
50958657 TAAATTGTCC
* * * *
50958667 AAAAATTATA-TTTTGACCCTC-AAACTTCTCCAAAATTACATTTTGACC-CGAACTTCT
1 AAAAATTACATTTTTGACCC-CAAAACTT-TCAAAAATTACATTTTTACCTCAAACTTCT
* **
50958724 AAAAATTACATTTTTGACCCCGAAACTTTTGAAAATTACATTTTTACGCTCAAACTTCT
1 AAAAATTACATTTTTGACCCCAAAACTTTCAAAAATTACATTTTTAC-CTCAAACTTCT
* **** * * * *
50958783 AAAAATTACATTTTTCACCTTGGAACTTCCATAAGTTACATTTTTACCTCCGAACTT-T
1 AAAAATTACATTTTTGACCCCAAAACTTTCAAAAATTACATTTTTACCT-CAAACTTCT
* * * * * * *
50958841 CGAAGATTCCA-TTTTGACCCCCAAACTTCCAAAAATTACATTTTCACAC-CTAAACTTCC
1 -AAAAATTACATTTTTGACCCCAAAACTTTCAAAAATTACATTTTTAC-CTC-AAACTTCT
* * * * * *
50958900 AAAAATTCCATTTTTAACCCCAAAACTTGCAAAAATTATATTTTTACCCTTAAACTTCC
1 AAAAATTACATTTTTGACCCCAAAACTTTCAAAAATTACATTTTTA-CCTCAAACTTCT
* * * * *
50958959 AAAAATT-CA-TTTTGACCCCAAAACTTGCAAAAATTATAATTTTACCCTTAAACTTTT
1 AAAAATTACATTTTTGACCCCAAAACTTTCAAAAATTACATTTTTA-CCTCAAACTTCT
** ** * *
50959016 AAAAAATT-CATTTTTGA-CCCAAAACTCACAAAAATTACCGTTTTACCCCCGAA-TGTCT
1 -AAAAATTACATTTTTGACCCCAAAACTTTCAAAAATTACATTTTTA-CCTCAAACT-TCT
* * * * *
50959074 AAAAACTCCATTTTTAACCCTAAAACTTTTAAAAATTAC
1 AAAAATTACATTTTTGACCCCAAAACTTTCAAAAATTAC
50959113 CATTCCACCC
Statistics
Matches: 317, Mismatches: 55, Indels: 32
0.78 0.14 0.08
Matches are distributed among these distances:
57 78 0.25
58 109 0.34
59 129 0.41
60 1 0.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.35
Consensus pattern (58 bp):
AAAAATTACATTTTTGACCCCAAAACTTTCAAAAATTACATTTTTACCTCAAACTTCT
Found at i:50958876 original size:117 final size:115
Alignment explanation
Indices: 50958667--50959063 Score: 306
Period size: 117 Copynumber: 3.4 Consensus size: 115
50958657 TAAATTGTCC
* * * * *
50958667 AAAAATT-ATATTTTGACCCTC-AAACTTCTCCAAAATTACATTTTGA-CC-CGAACTTCTAAAA
1 AAAAATTCAT-TTTTAACCC-CAAAACTTC-CAAAAATTACATTTTTACCCTCAAACTTCCAAAA
* *** *
50958728 ATTACATTTTTGACCCCGAAACTTTTGAAAATTACATTTTTACGCTCAAACTTCT
63 ATT-CA-TTTTGACCCCAAAACTTCCAAAAATTACATTTTTACACTCAAACTTCT
* **** * * * * * *
50958783 AAAAATTACATTTTTCACCTTGGAACTTCCATAAGTTACATTTTTA-CCTCCGAACTTTCGAAGA
1 AAAAATT-CATTTTTAACCCCAAAACTTCCAAAAATTACATTTTTACCCT-CAAACTTCCAAAAA
* * *
50958847 TTCCATTTTGACCCCCAAACTTCCAAAAATTACATTTTCACAC-CTAAACTTCC
64 TT-CATTTTGACCCCAAAACTTCCAAAAATTACATTTTTACACTC-AAACTTCT
* * *
50958900 AAAAATTCCATTTTTAACCCCAAAACTTGCAAAAATTATATTTTTACCCTTAAACTTCCAAAAAT
1 AAAAATT-CATTTTTAACCCCAAAACTTCCAAAAATTACATTTTTACCCTCAAACTTCCAAAAAT
* * * * * *
50958965 TCATTTTGACCCCAAAACTTGCAAAAATTATAATTTTACCCTTAAACTTTT
65 TCATTTTGACCCCAAAACTTCCAAAAATTACATTTTTACACTCAAACTTCT
* **
50959016 AAAAAATTCATTTTTGA-CCCAAAAC-TCACAAAAATTACCGTTTTACCC
1 -AAAAATTCATTTTTAACCCCAAAACTTC-CAAAAATTACATTTTTACCC
50959064 CCGAATGTCT
Statistics
Matches: 222, Mismatches: 49, Indels: 21
0.76 0.17 0.07
Matches are distributed among these distances:
114 1 0.00
115 25 0.11
116 71 0.32
117 106 0.48
118 19 0.09
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.35
Consensus pattern (115 bp):
AAAAATTCATTTTTAACCCCAAAACTTCCAAAAATTACATTTTTACCCTCAAACTTCCAAAAATT
CATTTTGACCCCAAAACTTCCAAAAATTACATTTTTACACTCAAACTTCT
Found at i:50959077 original size:58 final size:58
Alignment explanation
Indices: 50958848--50959296 Score: 193
Period size: 58 Copynumber: 7.7 Consensus size: 58
50958838 TTTCGAAGAT
* * * ** * *
50958848 TCCA-TTTTGACCCCCAAACTTCCAAAAATTA-CATTTTCACACCTAAACT-TCCAAAAAT
1 TCCATTTTTGA-CCCAAAACTTTCAAAAATTACCATTTT-ACCCCCGAA-TGTCTAAAAAC
* * * *** *
50958906 TCCATTTTTAACCCCAAAACTTGCAAAAATTA-TATTTTTACCCTTAAACT-TCCAAAAA-
1 TCCATTTTTGA-CCCAAAACTTTCAAAAATTACCA-TTTTACCCCCGAA-TGTCTAAAAAC
* * ** *** * *
50958964 TTCA-TTTTGACCCCAAAACTTGCAAAAATTATAATTTTACCCTTAAACT-TTTAAAAAA
1 TCCATTTTTGA-CCCAAAACTTTCAAAAATTACCATTTTACCCCCGAA-TGTCTAAAAAC
* ** *
50959022 TTCATTTTTGACCCAAAACTCACAAAAATTACCGTTTTACCCCCGAATGTCTAAAAAC
1 TCCATTTTTGACCCAAAACTTTCAAAAATTACCATTTTACCCCCGAATGTCTAAAAAC
* * ** * * *
50959080 TCCATTTTTAACCCTAAAACTTTTAAAAATTACCATTCCACCCCCAAAATGTC-CAAAAT
1 TCCATTTTTGACCC-AAAACTTTCAAAAATTACCATTTTACCCCC-GAATGTCTAAAAAC
* * * * * *
50959139 TTCA-TTTTGATCTCGAAACTTTCAAAAATTACTAATTTA-CCCCGAATGTCCAAAAAC
1 TCCATTTTTGA-CCCAAAACTTTCAAAAATTACCATTTTACCCCCGAATGTCTAAAAAC
* * *** * * * * **
50959196 TCCATTTTTGATCTCGATTTTTTTAAAAATTACTATTTTACCCCTGAATATCTAAAATG
1 TCCATTTTTGA-CCCAAAACTTTCAAAAATTACCATTTTACCCCCGAATGTCTAAAAAC
* ** **
50959255 T-CATTTTTAACCCCAAATTTTTCCGAAATTACCATTTTACCC
1 TCCATTTTTGA-CCCAAAACTTTCAAAAATTACCATTTTACCC
50959297 TCGGGTGTCC
Statistics
Matches: 315, Mismatches: 64, Indels: 24
0.78 0.16 0.06
Matches are distributed among these distances:
56 6 0.02
57 59 0.19
58 145 0.46
59 95 0.30
60 10 0.03
ACGTcount: A:0.37, C:0.25, G:0.04, T:0.35
Consensus pattern (58 bp):
TCCATTTTTGACCCAAAACTTTCAAAAATTACCATTTTACCCCCGAATGTCTAAAAAC
Found at i:50959123 original size:59 final size:56
Alignment explanation
Indices: 50959024--50959204 Score: 157
Period size: 59 Copynumber: 3.1 Consensus size: 56
50959014 TTAAAAAATT
* ** *
50959024 CATTTTTGACCCAAAACTCACAAAAATTACCGTTTTACCCCCGAATGTCTAAAAACTC
1 CATTTTTAACCCAAAACTTTCAAAAATTACC-ATTTACCCCCGAATGTC-AAAAACTC
* * * * * *
50959082 CATTTTTAACCCTAAAACTTTTAAAAATTACCATTCCACCCCCAAAATGTCCAAAATTT
1 CATTTTTAACCC-AAAACTTTCAAAAATTACCATT-TACCCCC-GAATGTCAAAAACTC
* * * * *
50959141 CATTTTGATCTCGAAACTTTCAAAAATTACTAATTTA-CCCCGAATGTCCAAAAACTC
1 CATTTTTAACCCAAAACTTTCAAAAATTAC-CATTTACCCCCGAATGT-CAAAAACTC
50959198 CATTTTT
1 CATTTTT
50959205 GATCTCGATT
Statistics
Matches: 96, Mismatches: 22, Indels: 11
0.74 0.17 0.09
Matches are distributed among these distances:
56 5 0.05
57 16 0.17
58 30 0.31
59 39 0.41
60 6 0.06
ACGTcount: A:0.36, C:0.27, G:0.05, T:0.32
Consensus pattern (56 bp):
CATTTTTAACCCAAAACTTTCAAAAATTACCATTTACCCCCGAATGTCAAAAACTC
Found at i:50964834 original size:15 final size:15
Alignment explanation
Indices: 50964814--50964846 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
50964804 TACAATTTCA
*
50964814 AAATTTCAAGAGTTT
1 AAATTTCAAGAGCTT
50964829 AAATTTCAAGAGCTT
1 AAATTTCAAGAGCTT
50964844 AAA
1 AAA
50964847 AGTTGCCGGA
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:0.45, C:0.09, G:0.12, T:0.33
Consensus pattern (15 bp):
AAATTTCAAGAGCTT
Found at i:50971524 original size:13 final size:12
Alignment explanation
Indices: 50971490--50971529 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
50971480 CATAAAATCT
*
50971490 TGCATATTTTAC
1 TGCATATTTTTC
*
50971502 TGCAGATTTTTC
1 TGCATATTTTTC
*
50971514 TGCATACTTTTC
1 TGCATATTTTTC
50971526 TGCA
1 TGCA
50971530 GAATTTGTGC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.20, C:0.20, G:0.12, T:0.47
Consensus pattern (12 bp):
TGCATATTTTTC
Found at i:50971544 original size:23 final size:25
Alignment explanation
Indices: 50971490--50971547 Score: 77
Period size: 23 Copynumber: 2.4 Consensus size: 25
50971480 CATAAAATCT
*
50971490 TGCATA-TTTTACTGCAGATTTTTC
1 TGCATACTTTTACTGCAGATATTTC
*
50971514 TGCATACTTTT-CTGCAGA-ATTTG
1 TGCATACTTTTACTGCAGATATTTC
50971537 TGCATACTTTT
1 TGCATACTTTT
50971548 GATAATGTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
23 14 0.45
24 13 0.42
25 4 0.13
ACGTcount: A:0.21, C:0.17, G:0.14, T:0.48
Consensus pattern (25 bp):
TGCATACTTTTACTGCAGATATTTC
Found at i:50972672 original size:12 final size:11
Alignment explanation
Indices: 50972657--50972690 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
50972647 CATAACTTCT
50972657 TGCATATCTTTC
1 TGCATA-CTTTC
50972669 TGCATACTTTTC
1 TGCATAC-TTTC
50972681 TGCATACTTT
1 TGCATACTTT
50972691 TGGTAATGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 4 0.19
12 17 0.81
ACGTcount: A:0.18, C:0.24, G:0.09, T:0.50
Consensus pattern (11 bp):
TGCATACTTTC
Found at i:50972691 original size:12 final size:12
Alignment explanation
Indices: 50972665--50972691 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
50972655 CTTGCATATC
50972665 TTTCTGCATACT
1 TTTCTGCATACT
50972677 TTTCTGCATACT
1 TTTCTGCATACT
50972689 TTT
1 TTT
50972692 GGTAATGTAT
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:0.15, C:0.22, G:0.07, T:0.56
Consensus pattern (12 bp):
TTTCTGCATACT
Found at i:50977583 original size:26 final size:24
Alignment explanation
Indices: 50977529--50977815 Score: 196
Period size: 26 Copynumber: 11.1 Consensus size: 24
50977519 CATTAGCTAT
* * *
50977529 TCACTGGCTCAAGGCCTACTATATAA
1 TCACCGGCTCAA-G-CTGCTATTTAA
* *
50977555 TCACCGGCTCGAAGCTTGATATTTTA
1 TCACCGGCTC-AAGC-TGCTATTTAA
** *
50977581 TCACTAGCTCAAGGCTGCTATATAA
1 TCACCGGCTCAA-GCTGCTATTTAA
50977606 TCACCGGCTCAAGACCTGCTATTTAA
1 TCACCGGCTCAAG--CTGCTATTTAA
**
50977632 TCACCGGCTCAAGGCCTGCTATACAA
1 TCACCGGCTCAA-G-CTGCTATTTAA
50977658 TCACCGGCTCAAGGCCTGCTATTTAA
1 TCACCGGCTCAA-G-CTGCTATTTAA
* * *
50977684 TCACCAGCTCAAGGCCTACTATATAA
1 TCACCGGCTCAA-G-CTGCTATTTAA
* *
50977710 TCACCGGCTGAAGGCCTACTATTTAA
1 TCACCGGCTCAA-G-CTGCTATTTAA
* * *
50977736 TTACTGGCTCAAGGACTGCTATATAA
1 TCACCGGCTCAA-G-CTGCTATTTAA
*
50977762 TCACCGGCTCAAGGCCTACTATTTAA
1 TCACCGGCTCAA-G-CTGCTATTTAA
* *
50977788 TCATCGACTCAAGGCCTGCTATTTAA
1 TCACCGGCTCAA-G-CTGCTATTTAA
50977814 TC
1 TC
50977816 TCCTTTATTC
Statistics
Matches: 218, Mismatches: 37, Indels: 12
0.82 0.14 0.04
Matches are distributed among these distances:
24 1 0.00
25 20 0.09
26 194 0.89
27 3 0.01
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.28
Consensus pattern (24 bp):
TCACCGGCTCAAGCTGCTATTTAA
Found at i:50977666 original size:52 final size:52
Alignment explanation
Indices: 50977529--50977815 Score: 371
Period size: 52 Copynumber: 5.5 Consensus size: 52
50977519 CATTAGCTAT
* * * * *
50977529 TCACTGGCTCAAGGCCTACTATATAATCACCGGCTCGAA-GCTTGATATTTTA
1 TCACCGGCTCAAGGCCTGCTATATAATCACCGGCTC-AAGGCCTGCTATTTAA
** *
50977581 TCACTAGCTCAAGG-CTGCTATATAATCACCGGCTCAAGACCTGCTATTTAA
1 TCACCGGCTCAAGGCCTGCTATATAATCACCGGCTCAAGGCCTGCTATTTAA
*
50977632 TCACCGGCTCAAGGCCTGCTATACAATCACCGGCTCAAGGCCTGCTATTTAA
1 TCACCGGCTCAAGGCCTGCTATATAATCACCGGCTCAAGGCCTGCTATTTAA
* * * *
50977684 TCACCAGCTCAAGGCCTACTATATAATCACCGGCTGAAGGCCTACTATTTAA
1 TCACCGGCTCAAGGCCTGCTATATAATCACCGGCTCAAGGCCTGCTATTTAA
* * * *
50977736 TTACTGGCTCAAGGACTGCTATATAATCACCGGCTCAAGGCCTACTATTTAA
1 TCACCGGCTCAAGGCCTGCTATATAATCACCGGCTCAAGGCCTGCTATTTAA
* * *
50977788 TCATCGACTCAAGGCCTGCTATTTAATC
1 TCACCGGCTCAAGGCCTGCTATATAATC
50977816 TCCTTTATTC
Statistics
Matches: 206, Mismatches: 27, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
50 2 0.01
51 41 0.20
52 163 0.79
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.28
Consensus pattern (52 bp):
TCACCGGCTCAAGGCCTGCTATATAATCACCGGCTCAAGGCCTGCTATTTAA
Found at i:50977711 original size:78 final size:77
Alignment explanation
Indices: 50977529--50977815 Score: 369
Period size: 78 Copynumber: 3.7 Consensus size: 77
50977519 CATTAGCTAT
* * * * *
50977529 TCACTGGCTCAAGGCCTACTATATAATCACCGGCTCGAA-GCTTGATATTTTATCACTAGCTCAA
1 TCACCGGCTCAAGGCCTACTATATAATCACCGGCTC-AAGGCCTGCTATTTAATCACTGGCTCAA
50977593 GGCTGCTATATAA
65 GGCTGCTATATAA
* * * ** *
50977606 TCACCGGCTCAAGACCTGCTATTTAATCACCGGCTCAAGGCCTGCTATACAATCACCGGCTCAAG
1 TCACCGGCTCAAGGCCTACTATATAATCACCGGCTCAAGGCCTGCTATTTAATCACTGGCTCAAG
*
50977671 GCCTGCTATTTAA
66 G-CTGCTATATAA
* * * *
50977684 TCACCAGCTCAAGGCCTACTATATAATCACCGGCTGAAGGCCTACTATTTAATTACTGGCTCAAG
1 TCACCGGCTCAAGGCCTACTATATAATCACCGGCTCAAGGCCTGCTATTTAATCACTGGCTCAAG
50977749 GACTGCTATATAA
66 G-CTGCTATATAA
* * *
50977762 TCACCGGCTCAAGGCCTACTATTTAATCATCGACTCAAGGCCTGCTATTTAATC
1 TCACCGGCTCAAGGCCTACTATATAATCACCGGCTCAAGGCCTGCTATTTAATC
50977816 TCCTTTATTC
Statistics
Matches: 177, Mismatches: 31, Indels: 3
0.84 0.15 0.01
Matches are distributed among these distances:
76 2 0.01
77 52 0.29
78 123 0.69
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.28
Consensus pattern (77 bp):
TCACCGGCTCAAGGCCTACTATATAATCACCGGCTCAAGGCCTGCTATTTAATCACTGGCTCAAG
GCTGCTATATAA
Found at i:50978907 original size:20 final size:21
Alignment explanation
Indices: 50978884--50978928 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
50978874 GCATCGATTC
*
50978884 TTTTCATAAAGG-ATCGATAA
1 TTTTCACAAAGGTATCGATAA
* *
50978904 TTTTCACCATGGTATCGATAA
1 TTTTCACAAAGGTATCGATAA
50978925 TTTT
1 TTTT
50978929 GGTCCAACAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.42
Consensus pattern (21 bp):
TTTTCACAAAGGTATCGATAA
Found at i:50984254 original size:58 final size:58
Alignment explanation
Indices: 50984189--50984308 Score: 222
Period size: 58 Copynumber: 2.1 Consensus size: 58
50984179 AAATAATAAG
* *
50984189 TTAAATTATGTCATTAGTCCTTGTACTTTACAAAAGTTTTGGATTTTATCTTAATACT
1 TTAAATTATGTCATTAGTCCTTGTACTTTACAAAAGTTGTGGATTTGATCTTAATACT
50984247 TTAAATTATGTCATTAGTCCTTGTACTTTACAAAAGTTGTGGATTTGATCTTAATACT
1 TTAAATTATGTCATTAGTCCTTGTACTTTACAAAAGTTGTGGATTTGATCTTAATACT
50984305 TTAA
1 TTAA
50984309 TTTGGTCATT
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 60 1.00
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.47
Consensus pattern (58 bp):
TTAAATTATGTCATTAGTCCTTGTACTTTACAAAAGTTGTGGATTTGATCTTAATACT
Found at i:50985506 original size:27 final size:27
Alignment explanation
Indices: 50985465--50985556 Score: 76
Period size: 27 Copynumber: 3.3 Consensus size: 27
50985455 TTGGATTTTA
* * *
50985465 AATTAAGTTTGAATTAATTTTAGATTT
1 AATTAAATTTAAATTAATTTTAAATTT
* *
50985492 ATTTAAATTTAAATTTATTTTAAATTT
1 AATTAAATTTAAATTAATTTTAAATTT
* * * * *
50985519 AAATACATTTAAAATAATTTGAAACTTAA
1 AATTAAATTTAAATTAATTTTAAA-TT-T
50985548 AATTAAATT
1 AATTAAATT
50985557 AATAATGTCC
Statistics
Matches: 49, Mismatches: 14, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
27 40 0.82
28 2 0.04
29 7 0.14
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (27 bp):
AATTAAATTTAAATTAATTTTAAATTT
Found at i:50985513 original size:17 final size:16
Alignment explanation
Indices: 50985478--50985522 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
50985468 TAAGTTTGAA
* *
50985478 TTAATTTTAGATTTAT
1 TTAAATTTAAATTTAT
50985494 TTAAATTTAAATTTATT
1 TTAAATTTAAATTTA-T
50985511 TTAAATTTAAAT
1 TTAAATTTAAAT
50985523 ACATTTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
16 13 0.50
17 13 0.50
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (16 bp):
TTAAATTTAAATTTAT
Found at i:50985528 original size:17 final size:17
Alignment explanation
Indices: 50985493--50985533 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
50985483 TTTAGATTTA
**
50985493 TTTAAATTTAAATTTAT
1 TTTAAATTTAAATACAT
50985510 TTTAAATTTAAATACAT
1 TTTAAATTTAAATACAT
*
50985527 TTAAAAT
1 TTTAAAT
50985534 AATTTGAAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.51
Consensus pattern (17 bp):
TTTAAATTTAAATACAT
Found at i:50986347 original size:16 final size:16
Alignment explanation
Indices: 50986324--50986363 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
50986314 TAAATAATGT
50986324 TAACAAATATTAATAA
1 TAACAAATATTAATAA
*
50986340 TAATAAATATTAATAA
1 TAACAAATATTAATAA
50986356 TAACAAAT
1 TAACAAAT
50986364 GTTTTAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (16 bp):
TAACAAATATTAATAA
Found at i:50987553 original size:30 final size:30
Alignment explanation
Indices: 50987488--50988094 Score: 176
Period size: 30 Copynumber: 20.7 Consensus size: 30
50987478 AGTCCCCAAG
50987488 CTTTCC-AAAATT-CCATTTTTGA-CCCTGAAA
1 CTTTCCAAAAATTACCA-TTTT-ACCCCT-AAA
*
50987518 C-TTCCAAAAATTACCCTTTTACCCCTAAA
1 CTTTCCAAAAATTACCATTTTACCCCTAAA
* **
50987547 CTTTCC-AAAATT-CCATTTTTA-ACCTCGA
1 CTTTCCAAAAATTACCA-TTTTACCCCTAAA
* *
50987575 -TTTCACCGAAAATTACCATTTTACCCCCAAA
1 CTTT--CCAAAAATTACCATTTTACCCCTAAA
* * **
50987606 CTTTCC-AAAA-TCCCATTTTTA-ACCTCGA
1 CTTTCCAAAAATTACCA-TTTTACCCCTAAA
* * **
50987634 -TTTCACCCAAAATTACCATTTCACCCCCGAA
1 CTTT--CCAAAAATTACCATTTTACCCCTAAA
* * *
50987665 CATTCC-AAAA-TCCCATTTTAACCCT--A
1 CTTTCCAAAAATTACCATTTTACCCCTAAA
* *
50987691 GTTTCACCAAAAATTACCATTTTA-CCCTCGAA
1 CTTT--CCAAAAATTACCATTTTACCCCT-AAA
* * **
50987723 CCTTCC-AAAATT-CCATTTTTTAACTTTGAAA
1 CTTTCCAAAAATTACCA--TTTTACCCCT-AAA
50987754 C-TTCCAAAAATTACCATTTTACCCCTAAA
1 CTTTCCAAAAATTACCATTTTACCCCTAAA
* *
50987783 -TCTTCC-AAAA-TCCCATTTTAACCCT-AA
1 CT-TTCCAAAAATTACCATTTTACCCCTAAA
*
50987810 -TTTCACCAAAAATTACCATTTTA-CCCTCGAA
1 CTTT--CCAAAAATTACCATTTTACCCCT-AAA
* * *
50987841 CATT-CTAAAA-T-CTCATTTTTAACCCC--GA
1 CTTTCCAAAAATTAC-CA-TTTT-ACCCCTAAA
*
50987869 -TTTCACCAAAAAATACCATTTTAACCCC-AAA
1 CTTT--CCAAAAATTACCATTTT-ACCCCTAAA
* *
50987900 CATTCC-AAAA-TCCCATTTTAAACCCC--AA
1 CTTTCCAAAAATTACCATTTT--ACCCCTAAA
*
50987928 -TTTCACCAAAAATTACCATTTTACCCCCAAA
1 CTTT--CCAAAAATTACCATTTTACCCCTAAA
* *
50987959 CCTTCC-AAAATT-CCATTTTTGACCCCAAAA
1 CTTTCCAAAAATTACCA-TTTT-ACCCCTAAA
* *
50987989 C-TTCTAAAAATTACCATTTTACCCTTAAA
1 CTTTCCAAAAATTACCATTTTACCCCTAAA
* * * **
50988018 CTTT-CTAAAA-TCCCATTTTTA-ACCTCGA
1 CTTTCCAAAAATTACCA-TTTTACCCCTAAA
* *
50988046 -TTTCACCAAAAA-TACCGTTTTACCCCCAAA
1 CTTT--CCAAAAATTACCATTTTACCCCTAAA
50988076 CTTTCC-AAAATT-CCATTTT
1 CTTTCCAAAAATTACCATTTT
50988095 TTGACCCTAA
Statistics
Matches: 437, Mismatches: 70, Indels: 142
0.67 0.11 0.22
Matches are distributed among these distances:
26 5 0.01
27 17 0.04
28 78 0.18
29 130 0.30
30 138 0.32
31 51 0.12
32 18 0.04
ACGTcount: A:0.34, C:0.31, G:0.02, T:0.33
Consensus pattern (30 bp):
CTTTCCAAAAATTACCATTTTACCCCTAAA
Found at i:50987557 original size:29 final size:28
Alignment explanation
Indices: 50987488--50988130 Score: 152
Period size: 29 Copynumber: 21.9 Consensus size: 28
50987478 AGTCCCCAAG
50987488 CTTTCCAAAATTCCATTTTTGACCCTGAAA
1 CTTTCCAAAATTCCATTTTT-ACCCT-AAA
*
50987518 C-TTCCAAAAATTACC-CTTTTACCCCTAAA
1 CTTTCC-AAAATT-CCATTTTTA-CCCTAAA
* **
50987547 CTTTCCAAAATTCCATTTTTAACCTCGA
1 CTTTCCAAAATTCCATTTTTACCCTAAA
*
50987575 -TTTCACCGAAAATTACCA-TTTTACCCCCAAA
1 CTTT--CC-AAAATT-CCATTTTTA-CCCTAAA
* * **
50987606 CTTTCCAAAATCCCATTTTTAACCTCGA
1 CTTTCCAAAATTCCATTTTTACCCTAAA
* **
50987634 -TTTCACCCAAAATTACCA-TTTCACCCCCGAA
1 CTTT---CCAAAATT-CCATTTTTA-CCCTAAA
* * *
50987665 CATTCCAAAATCCCATTTTAACCCT--A
1 CTTTCCAAAATTCCATTTTTACCCTAAA
* *
50987691 GTTTCACCAAAAATTACCA-TTTTACCCTCGAA
1 CTTT--CC-AAAATT-CCATTTTTACCCT-AAA
* **
50987723 CCTTCCAAAATTCCATTTTTTAACTTTGAAA
1 CTTTCCAAAATTCCA-TTTTT-ACCCT-AAA
50987754 C-TTCCAAAAATTACCA-TTTTACCCCTAAA
1 CTTTCC-AAAATT-CCATTTTTA-CCCTAAA
* *
50987783 -TCTTCCAAAATCCCATTTTAACCCT-AA
1 CT-TTCCAAAATTCCATTTTTACCCTAAA
*
50987810 -TTTCACCAAAAATTACCA-TTTTACCCTCGAA
1 CTTT--CC-AAAATT-CCATTTTTACCCT-AAA
* * **
50987841 CATTCTAAAA-TCTCATTTTTAACCC-CGA
1 CTTTCCAAAATTC-CATTTTT-ACCCTAAA
* * *
50987869 -TTTCACCAAAAAATACCATTTTAACCCCAAA
1 CTTT--CC--AAAATTCCATTTTTACCCTAAA
* * * *
50987900 CATTCCAAAATCCCATTTTAAACCC-CAA
1 CTTTCCAAAATTCCATTTT-TACCCTAAA
*
50987928 -TTTCACCAAAAATTACCA-TTTTACCCCCAAA
1 CTTT--CC-AAAATT-CCATTTTTA-CCCTAAA
* *
50987959 CCTTCCAAAATTCCATTTTTGACCCCAAAA
1 CTTTCCAAAATTCCATTTTT-A-CCCTAAA
*
50987989 C-TTCTAAAAATTACCA-TTTTACCCTTAAA
1 CTTTC-CAAAATT-CCATTTTTACCC-TAAA
* * * **
50988018 CTTTCTAAAATCCCATTTTTAACCTCGA
1 CTTTCCAAAATTCCATTTTTACCCTAAA
* * *
50988046 -TTTCACCAAAAATACC-GTTTTACCCCCAAA
1 CTTT--CC-AAAATTCCATTTTTA-CCCTAAA
50988076 CTTTCCAAAATTCCATTTTTTGACCCT-AA
1 CTTTCCAAAATTCCA-TTTTT-ACCCTAAA
*
50988105 -TTTCACCAAAAATTACATTTTTACCC
1 CTTT--CC-AAAATTCCATTTTTACCC
50988131 CCGAAAGTTA
Statistics
Matches: 458, Mismatches: 77, Indels: 157
0.66 0.11 0.23
Matches are distributed among these distances:
26 5 0.01
27 17 0.04
28 71 0.16
29 149 0.33
30 139 0.30
31 59 0.13
32 18 0.04
ACGTcount: A:0.34, C:0.30, G:0.02, T:0.33
Consensus pattern (28 bp):
CTTTCCAAAATTCCATTTTTACCCTAAA
Found at i:50988146 original size:59 final size:59
Alignment explanation
Indices: 50987481--50988132 Score: 650
Period size: 59 Copynumber: 11.1 Consensus size: 59
50987471 GCTCTCTAGT
* * * *
50987481 CCCCAAGCTTTCCAAAATTCCATTTTTGACCCTGAAACTT--CCAAAAATTACCCTTTTAC
1 CCCCAAACTTTCCAAAATTCCATTTTTAACCCT--AATTTCACCAAAAATTACCATTTTAC
* * *
50987540 CCCTAAACTTTCCAAAATTCCATTTTTAA-CCTCGATTTCACCGAAAATTACCATTTTAC
1 CCCCAAACTTTCCAAAATTCCATTTTTAACCCT-AATTTCACCAAAAATTACCATTTTAC
* * * *
50987599 CCCCAAACTTTCCAAAATCCCATTTTTAA-CCTCGATTTCACCCAAAATTACCATTTCAC
1 CCCCAAACTTTCCAAAATTCCATTTTTAACCCT-AATTTCACCAAAAATTACCATTTTAC
* * * *
50987658 CCCCGAACATTCCAAAATCCCA-TTTTAACCCTAGTTTCACCAAAAATTACCATTTTAC
1 CCCCAAACTTTCCAAAATTCCATTTTTAACCCTAATTTCACCAAAAATTACCATTTTAC
* * * ** *
50987716 CCTCGAACCTTCCAAAATTCCATTTTTTAACTTTGAAACTT--CCAAAAATTACCATTTTAC
1 CCCCAAACTTTCCAAAATTCCA-TTTTTAACCCT--AATTTCACCAAAAATTACCATTTTAC
* *
50987776 CCCTAAA-TCTTCCAAAATCCCA-TTTTAACCCTAATTTCACCAAAAATTACCATTTTAC
1 CCCCAAACT-TTCCAAAATTCCATTTTTAACCCTAATTTCACCAAAAATTACCATTTTAC
* * * * ** * *
50987834 CCTCGAACATTCTAAAA-TCTCATTTTTAACCCCGATTTCACCAAAAAATACCATTTTAA
1 CCCCAAACTTTCCAAAATTC-CATTTTTAACCCTAATTTCACCAAAAATTACCATTTTAC
* * * *
50987893 CCCCAAACATTCCAAAATCCCATTTTAAACCCCAATTTCACCAAAAATTACCATTTTAC
1 CCCCAAACTTTCCAAAATTCCATTTTTAACCCTAATTTCACCAAAAATTACCATTTTAC
* * * * *
50987952 CCCCAAACCTTCCAAAATTCCATTTTTGACCCCAAAACTT--CTAAAAATTACCATTTTAC
1 CCCCAAACTTTCCAAAATTCCATTTTT-AACCC-TAATTTCACCAAAAATTACCATTTTAC
** * * * *
50988011 CCTTAAACTTTCTAAAATCCCATTTTTAA-CCTCGATTTCACCAAAAA-TACCGTTTTAC
1 CCCCAAACTTTCCAAAATTCCATTTTTAACCCT-AATTTCACCAAAAATTACCATTTTAC
*
50988069 CCCCAAACTTTCCAAAATTCCATTTTTTGACCCTAATTTCACCAAAAATTA-CATTTTTAC
1 CCCCAAACTTTCCAAAATTCCA-TTTTTAACCCTAATTTCACCAAAAATTACCA-TTTTAC
50988129 CCCC
1 CCCC
50988133 GAAAGTTAAA
Statistics
Matches: 494, Mismatches: 76, Indels: 45
0.80 0.12 0.07
Matches are distributed among these distances:
56 4 0.01
57 9 0.02
58 119 0.24
59 292 0.59
60 63 0.13
61 4 0.01
62 3 0.01
ACGTcount: A:0.34, C:0.31, G:0.02, T:0.33
Consensus pattern (59 bp):
CCCCAAACTTTCCAAAATTCCATTTTTAACCCTAATTTCACCAAAAATTACCATTTTAC
Found at i:50988955 original size:153 final size:152
Alignment explanation
Indices: 50988647--50988977 Score: 436
Period size: 153 Copynumber: 2.2 Consensus size: 152
50988637 TTCTCAAAAC
* *
50988647 ATATATCTATATTACAAATAATTTTAAAGCGAGGCAATGTCCTGCCGTGTGAAAACTCCAAAAAA
1 ATATATCTATA-TACAAATAATTTTAAAACGAGACAATGTCCTGCCGTGTGAAAACTCCAAAAAA
* **
50988712 TCGTGCTTTAATGTGTTAAGTGTGATTTTCGTAATTCATGCTAATCGAATATCCTCTTCAAAAGT
65 TCGTGCTTTAACGTGTTAAGTGTGATTTTCGTAATTCATGAAAATCGAATATCCTCTTCAAAAGT
* *
50988777 TTCCGAAACATCCTTCAATTTTT
130 TTCCAAAACATCCTTCAATTCTT
** * * **
50988800 ATATATCTATATCACAAATAATTTTAAAACGAGACAATGTCCTTTCGTGTGAAAACTTCGAGGAA
1 ATATATCTATAT-ACAAATAATTTTAAAACGAGACAATGTCCTGCCGTGTGAAAACTCCAAAAAA
* *
50988865 TCGTGCTTTAACGTGTTAAGTGTGATTTTCGTAATTCATGAAAATCGGATATCCCTTTTCAAAAG
65 TCGTGCTTTAACGTGTTAAGTGTGATTTTCGTAATTCATGAAAATCGAATAT-CCTCTTCAAAAG
*
50988930 TTTTCAAAACA-CTCTTCAA-TCTT
129 TTTCCAAAACATC-CTTCAATTCTT
*
50988953 ATA-AT-TATATACAAAGTGATTTTAA
1 ATATATCTATATACAAA-TAATTTTAA
50988978 GACCAAAAGA
Statistics
Matches: 157, Mismatches: 17, Indels: 10
0.85 0.09 0.05
Matches are distributed among these distances:
150 5 0.03
151 13 0.08
152 3 0.02
153 110 0.70
154 26 0.17
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.36
Consensus pattern (152 bp):
ATATATCTATATACAAATAATTTTAAAACGAGACAATGTCCTGCCGTGTGAAAACTCCAAAAAAT
CGTGCTTTAACGTGTTAAGTGTGATTTTCGTAATTCATGAAAATCGAATATCCTCTTCAAAAGTT
TCCAAAACATCCTTCAATTCTT
Found at i:50990484 original size:146 final size:138
Alignment explanation
Indices: 50990168--50990599 Score: 422
Period size: 139 Copynumber: 3.0 Consensus size: 138
50990158 GAATCACTTT
* * * * * *
50990168 TATATTCAGTTTTCTTGCTACACAAGCAATTC-AAAACCATAAACAAAGGTATATCATTGTCTCC
1 TATATTCA-CTTTCTTACTACACAAGCAATTCGAAAACCATAAACAAAGGCATACCTTTTTCTCC
* * *
50990232 TTTTTTAAATGGTTTTTTTTTTATTCTTTGCCACTTTTTAAATTCTTCATTCAGTTCAAGTTAAA
65 TTTTTTAAATGG---TTTTTTT-TTCTTT-TCGCTTTTTAAATTCTTCATTCAATTCAAG-TAAA
* *
50990297 AAAAACCATTATATATATA
124 AGAAACC---ATA-CTATA
*
50990316 TATATATCCACTTTTTTAACTACACAAGCAATTCGAAAACCATGCATAAACAAAGGCATACCTTT
1 TATAT-T-CACTTTCTT-ACTACACAAGCAATTCGAAAA-C---CATAAACAAAGGCATACCTTT
* *
50990381 TTCTCCCTTTTTAAATGGTTTTCTTATTTCTTTATCGCTTTTTAAATTCTTCATTAAATTCAAGT
59 TTCTCCTTTTTTAAATGGTTTT-TT-TTTCTTT-TCGCTTTTTAAATTCTTCATTCAATTCAAGT
50990446 AAAAGAAACCATACTATA
121 AAAAGAAACCATACTATA
* *
50990464 TATATTCACTTGTCTTACTACACAAGCAAGTCG-AAACCATAAACAAAGACATACCTTTTCTCTC
1 TATATTCACTT-TCTTACTACACAAGCAATTCGAAAACCATAAACAAAGGCATACCTTTT-TCTC
* * * **
50990528 TTTTTTTAAATGGTTTTTTTTTGTTGTT-G-TTTTTAAAATTCTTCACTCAATTCAAGTTCAAGA
64 CTTTTTTAAATGGTTTTTTTTTCTT-TTCGCTTTTT-AAATTCTTCATTCAATTCAAGTAAAAGA
50990591 AACCATACT
127 AACCATACT
50990600 CTCTCTCCCT
Statistics
Matches: 245, Mismatches: 25, Indels: 37
0.80 0.08 0.12
Matches are distributed among these distances:
138 5 0.02
139 34 0.14
140 6 0.02
141 24 0.10
142 19 0.08
144 1 0.00
145 3 0.01
146 21 0.09
147 4 0.02
148 14 0.06
149 9 0.04
150 17 0.07
151 4 0.02
152 15 0.06
153 34 0.14
154 1 0.00
155 34 0.14
ACGTcount: A:0.33, C:0.18, G:0.08, T:0.41
Consensus pattern (138 bp):
TATATTCACTTTCTTACTACACAAGCAATTCGAAAACCATAAACAAAGGCATACCTTTTTCTCCT
TTTTTAAATGGTTTTTTTTTCTTTTCGCTTTTTAAATTCTTCATTCAATTCAAGTAAAAGAAACC
ATACTATA
Found at i:50992714 original size:22 final size:22
Alignment explanation
Indices: 50992689--50992758 Score: 81
Period size: 22 Copynumber: 3.2 Consensus size: 22
50992679 TATTTTAATA
50992689 ATTATATAATATTAATTGAGTT
1 ATTATATAATATTAATTGAGTT
* * *
50992711 ATTATAT-TTAATTAATT-AATA
1 ATTATATAAT-ATTAATTGAGTT
*
50992732 ATTATATAGTATTAATTGAGTT
1 ATTATATAATATTAATTGAGTT
50992754 ATTAT
1 ATTAT
50992759 TTTTAATTGT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
21 17 0.44
22 22 0.56
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.51
Consensus pattern (22 bp):
ATTATATAATATTAATTGAGTT
Found at i:50992735 original size:43 final size:43
Alignment explanation
Indices: 50992683--50992766 Score: 150
Period size: 43 Copynumber: 2.0 Consensus size: 43
50992673 TAATTATATT
50992683 TTAATAATTATATAATATTAATTGAGTTATTATATTTAATTAA
1 TTAATAATTATATAATATTAATTGAGTTATTATATTTAATTAA
* *
50992726 TTAATAATTATATAGTATTAATTGAGTTATTATTTTTAATT
1 TTAATAATTATATAATATTAATTGAGTTATTATATTTAATT
50992767 GTATCATCCA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (43 bp):
TTAATAATTATATAATATTAATTGAGTTATTATATTTAATTAA
Found at i:50994161 original size:41 final size:41
Alignment explanation
Indices: 50994111--50994193 Score: 130
Period size: 41 Copynumber: 2.0 Consensus size: 41
50994101 AGGAATTCTC
* *
50994111 TTTTTATTTTGTATTTAACTGTTTAATATTAGTAAATATTT
1 TTTTTATTTTGTATTTAACTATTTAATATTAATAAATATTT
* *
50994152 TTTTTATTTTTTATTTAAGTATTTAATATTAATAAATATTT
1 TTTTTATTTTGTATTTAACTATTTAATATTAATAAATATTT
50994193 T
1 T
50994194 ATCTTTTTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.31, C:0.01, G:0.05, T:0.63
Consensus pattern (41 bp):
TTTTTATTTTGTATTTAACTATTTAATATTAATAAATATTT
Found at i:50995655 original size:40 final size:39
Alignment explanation
Indices: 50995592--50995688 Score: 160
Period size: 40 Copynumber: 2.5 Consensus size: 39
50995582 ATATATAAAT
*
50995592 TTCTCATTCATATTTATGAATATACCTTTCTTGTTTGTA
1 TTCTCATTCATATCTATGAATATACCTTTCTTGTTTGTA
50995631 TTCTCATTCAATATCTATGAATATACCTTTCTTGTTTGTA
1 TTCTCATTC-ATATCTATGAATATACCTTTCTTGTTTGTA
*
50995671 TTCTCATTC-TATTTATGA
1 TTCTCATTCATATCTATGA
50995689 TTAATGTTAC
Statistics
Matches: 55, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
38 8 0.15
39 9 0.16
40 38 0.69
ACGTcount: A:0.24, C:0.16, G:0.07, T:0.53
Consensus pattern (39 bp):
TTCTCATTCATATCTATGAATATACCTTTCTTGTTTGTA
Found at i:50998616 original size:18 final size:20
Alignment explanation
Indices: 50998579--50998619 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
50998569 TTAAAAGATA
50998579 AAAATAATAATAATAACTAT
1 AAAATAATAATAATAACTAT
*
50998599 AAAATAA-AATTA-AACTAT
1 AAAATAATAATAATAACTAT
50998617 AAA
1 AAA
50998620 CTTTAAAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 9 0.45
19 4 0.20
20 7 0.35
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (20 bp):
AAAATAATAATAATAACTAT
Found at i:51000164 original size:9 final size:9
Alignment explanation
Indices: 51000150--51000188 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
51000140 ACAAATAATT
51000150 TAAAATATA
1 TAAAATATA
*
51000159 TAAAATATT
1 TAAAATATA
51000168 TAAAAT-T-
1 TAAAATATA
51000175 TAAAATATA
1 TAAAATATA
51000184 TAAAA
1 TAAAA
51000189 ATTCAAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
7 6 0.22
8 2 0.07
9 19 0.70
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (9 bp):
TAAAATATA
Found at i:51000170 original size:18 final size:16
Alignment explanation
Indices: 51000142--51000188 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 16
51000132 TTATATCAAC
51000142 AAATAATTTAAAATATATA
1 AAAT-ATTTAAAAT-T-TA
51000161 AAATATTTAAAATTTA
1 AAATATTTAAAATTTA
*
51000177 AAATATATAAAA
1 AAATATTTAAAA
51000189 ATTCAAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 13 0.48
17 1 0.04
18 9 0.33
19 4 0.15
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
AAATATTTAAAATTTA
Found at i:51000175 original size:25 final size:24
Alignment explanation
Indices: 51000146--51000196 Score: 84
Period size: 25 Copynumber: 2.1 Consensus size: 24
51000136 ATCAACAAAT
*
51000146 AATTTAAAATATATAAAATATTTAA
1 AATTTAAAATATATAAAA-ATTCAA
51000171 AATTTAAAATATATAAAAATTCAA
1 AATTTAAAATATATAAAAATTCAA
51000195 AA
1 AA
51000197 AAATTAATTG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
24 7 0.28
25 18 0.72
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (24 bp):
AATTTAAAATATATAAAAATTCAA
Found at i:51000197 original size:25 final size:26
Alignment explanation
Indices: 51000141--51000281 Score: 83
Period size: 25 Copynumber: 5.2 Consensus size: 26
51000131 GTTATATCAA
51000141 CAAATAATTTAAAATATATAAAATATT
1 CAAA-AATTTAAAATATATAAAATATT
*
51000168 -TAAAATTTAAAATATATAAAA-ATT
1 CAAAAATTTAAAATATATAAAATATT
* ** * *** *
51000192 CAAAAAAATTAATTGTCTTATGTGCTATATCAA
1 C-AAAAATTTAA----AATATATAAAATAT--T
51000225 CAAATAATTTAAAATATATAAAATATT
1 CAAA-AATTTAAAATATATAAAATATT
*
51000252 -TAAAATTTAAAATATATAAAA-ATT
1 CAAAAATTTAAAATATATAAAATATT
51000276 CAAAAA
1 CAAAAA
51000282 AATTAACATA
Statistics
Matches: 83, Mismatches: 20, Indels: 24
0.65 0.16 0.19
Matches are distributed among these distances:
24 6 0.07
25 40 0.48
26 12 0.14
29 8 0.10
30 5 0.06
31 2 0.02
32 3 0.04
33 7 0.08
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.35
Consensus pattern (26 bp):
CAAAAATTTAAAATATATAAAATATT
Found at i:51000248 original size:9 final size:9
Alignment explanation
Indices: 51000234--51000272 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
51000224 ACAAATAATT
51000234 TAAAATATA
1 TAAAATATA
*
51000243 TAAAATATT
1 TAAAATATA
51000252 TAAAAT-T-
1 TAAAATATA
51000259 TAAAATATA
1 TAAAATATA
51000268 TAAAA
1 TAAAA
51000273 ATTCAAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
7 6 0.22
8 2 0.07
9 19 0.70
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (9 bp):
TAAAATATA
Found at i:51000254 original size:18 final size:16
Alignment explanation
Indices: 51000226--51000272 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 16
51000216 CTATATCAAC
51000226 AAATAATTTAAAATATATA
1 AAAT-ATTTAAAAT-T-TA
51000245 AAATATTTAAAATTTA
1 AAATATTTAAAATTTA
*
51000261 AAATATATAAAA
1 AAATATTTAAAA
51000273 ATTCAAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 13 0.48
17 1 0.04
18 9 0.33
19 4 0.15
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
AAATATTTAAAATTTA
Found at i:51000261 original size:84 final size:84
Alignment explanation
Indices: 51000120--51000287 Score: 327
Period size: 84 Copynumber: 2.0 Consensus size: 84
51000110 ATGACACTAC
*
51000120 TTGTCTTATGTGTTATATCAACAAATAATTTAAAATATATAAAATATTTAAAATTTAAAATATAT
1 TTGTCTTATGTGCTATATCAACAAATAATTTAAAATATATAAAATATTTAAAATTTAAAATATAT
51000185 AAAAATTCAAAAAAATTAA
66 AAAAATTCAAAAAAATTAA
51000204 TTGTCTTATGTGCTATATCAACAAATAATTTAAAATATATAAAATATTTAAAATTTAAAATATAT
1 TTGTCTTATGTGCTATATCAACAAATAATTTAAAATATATAAAATATTTAAAATTTAAAATATAT
51000269 AAAAATTCAAAAAAATTAA
66 AAAAATTCAAAAAAATTAA
51000288 CATAAAGTAT
Statistics
Matches: 83, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
84 83 1.00
ACGTcount: A:0.54, C:0.05, G:0.04, T:0.38
Consensus pattern (84 bp):
TTGTCTTATGTGCTATATCAACAAATAATTTAAAATATATAAAATATTTAAAATTTAAAATATAT
AAAAATTCAAAAAAATTAA
Found at i:51000405 original size:33 final size:31
Alignment explanation
Indices: 51000368--51000438 Score: 72
Period size: 33 Copynumber: 2.2 Consensus size: 31
51000358 TAAAAAATAA
*
51000368 AAATTTAACACTTTTTT-AAAGGTTGATATGGTC
1 AAATTTAAC-CTTTTTTAAAAGGTTG--AGGGTC
** *
51000401 AAATTCGACTTTTTTTAAAAGGTTGAGGGTC
1 AAATTTAACCTTTTTTAAAAGGTTGAGGGTC
51000432 AAATTTA
1 AAATTTA
51000439 GTTGGAAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
31 10 0.32
32 6 0.19
33 15 0.48
ACGTcount: A:0.34, C:0.08, G:0.17, T:0.41
Consensus pattern (31 bp):
AAATTTAACCTTTTTTAAAAGGTTGAGGGTC
Found at i:51000741 original size:17 final size:17
Alignment explanation
Indices: 51000716--51000750 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
51000706 ATTGACTTAG
*
51000716 GTTACTAAATTTATTAA
1 GTTACTAAAGTTATTAA
*
51000733 GTTATTAAAGTTATTAA
1 GTTACTAAAGTTATTAA
51000750 G
1 G
51000751 CTAAGTGCTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.40, C:0.03, G:0.11, T:0.46
Consensus pattern (17 bp):
GTTACTAAAGTTATTAA
Found at i:51007174 original size:17 final size:17
Alignment explanation
Indices: 51007152--51007190 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
51007142 CTCCACCTTG
* *
51007152 ACAAGAATTCTCTACGA
1 ACAAGAACTCTCAACGA
51007169 ACAAGAACTCTCAACGA
1 ACAAGAACTCTCAACGA
51007186 ACAAG
1 ACAAG
51007191 TTCTCCACCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.46, C:0.26, G:0.13, T:0.15
Consensus pattern (17 bp):
ACAAGAACTCTCAACGA
Found at i:51017363 original size:31 final size:31
Alignment explanation
Indices: 51017301--51017383 Score: 103
Period size: 31 Copynumber: 2.6 Consensus size: 31
51017291 TCATGGAAGT
*
51017301 TGATTGTTTTGTCACTTTTCGCCAACATTAG
1 TGATTGTTTTGTCACTTTTCGACAACATTAG
* **
51017332 TGATTGTTTTGTCACTTTTCGATAATGTTAG
1 TGATTGTTTTGTCACTTTTCGACAACATTAG
* *
51017363 TGACTATTTTGTCACATTTTC
1 TGATTGTTTTGTCAC-TTTTC
51017384 AAAGTTGAGT
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
31 40 0.89
32 5 0.11
ACGTcount: A:0.19, C:0.16, G:0.16, T:0.49
Consensus pattern (31 bp):
TGATTGTTTTGTCACTTTTCGACAACATTAG
Found at i:51022311 original size:27 final size:27
Alignment explanation
Indices: 51022280--51022344 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 27
51022270 TAAAAAAATA
51022280 AAAGCTGGAAGAT-TCTTTTTAATGTTC
1 AAAGCTGGAAGATAT-TTTTTAATGTTC
51022307 AAAGCTGGAAGATATTTTTTAATGTTC
1 AAAGCTGGAAGATATTTTTTAATGTTC
* *
51022334 AGAGTTGGAAG
1 AAAGCTGGAAG
51022345 GGTGCCAAAC
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
27 34 0.97
28 1 0.03
ACGTcount: A:0.32, C:0.08, G:0.23, T:0.37
Consensus pattern (27 bp):
AAAGCTGGAAGATATTTTTTAATGTTC
Found at i:51023759 original size:20 final size:21
Alignment explanation
Indices: 51023715--51023759 Score: 51
Period size: 20 Copynumber: 2.2 Consensus size: 21
51023705 AAGAGATAAA
51023715 AAAATTAATAACTATAAAATT
1 AAAATTAATAACTATAAAATT
*
51023736 -AAATTAA-AAC-ATAAACTTT
1 AAAATTAATAACTATAAA-ATT
51023755 AAAAT
1 AAAAT
51023760 GCAATAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 5
0.78 0.04 0.19
Matches are distributed among these distances:
18 5 0.24
19 5 0.24
20 11 0.52
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.31
Consensus pattern (21 bp):
AAAATTAATAACTATAAAATT
Found at i:51023800 original size:20 final size:21
Alignment explanation
Indices: 51023763--51023805 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
51023753 TTAAAATGCA
*
51023763 ATAAAAATAATAATG-AAATT
1 ATAAAAATAATAAGGAAAATT
51023783 ATAAAACATAAT-AGGAAAATT
1 ATAAAA-ATAATAAGGAAAATT
51023804 AT
1 AT
51023806 TTAAACCATG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.63, C:0.02, G:0.07, T:0.28
Consensus pattern (21 bp):
ATAAAAATAATAAGGAAAATT
Found at i:51024443 original size:18 final size:17
Alignment explanation
Indices: 51024407--51024445 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
51024397 GTCAACAAAT
**
51024407 AATTTAAAAATATTTAA
1 AATTTAAAAATATAAAA
51024424 AATTTAAAAAATATAAAA
1 AATTT-AAAAATATAAAA
51024442 AATT
1 AATT
51024446 CATATAAATC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
AATTTAAAAATATAAAA
Found at i:51029462 original size:24 final size:24
Alignment explanation
Indices: 51029429--51029479 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
51029419 AGAAATAATC
* * *
51029429 TTTCAGTTAAACTTTGTTTATTTG
1 TTTCAATTAAACTCTGTTTAGTTG
51029453 TTTCAATTAAACTCTGTTTAGTTG
1 TTTCAATTAAACTCTGTTTAGTTG
51029477 TTT
1 TTT
51029480 GAGTCAAACT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.22, C:0.10, G:0.12, T:0.57
Consensus pattern (24 bp):
TTTCAATTAAACTCTGTTTAGTTG
Found at i:51029488 original size:24 final size:24
Alignment explanation
Indices: 51029437--51029491 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
51029427 TCTTTCAGTT
* * *
51029437 AAACTTTGTTTATTTGTTTCAATT
1 AAACTCTGTTTAGTTGTTTCAATC
* *
51029461 AAACTCTGTTTAGTTGTTTGAGTC
1 AAACTCTGTTTAGTTGTTTCAATC
51029485 AAACTCT
1 AAACTCT
51029492 TATTAGTCTA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.25, C:0.13, G:0.13, T:0.49
Consensus pattern (24 bp):
AAACTCTGTTTAGTTGTTTCAATC
Found at i:51031372 original size:16 final size:16
Alignment explanation
Indices: 51031349--51031420 Score: 117
Period size: 16 Copynumber: 4.5 Consensus size: 16
51031339 CGTTTGGTTC
51031349 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
*
51031365 GGTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
* *
51031381 GGTGTAATGGAATATA
1 GCTGTAATGGAATAGA
51031397 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
51031413 GCTGTAAT
1 GCTGTAAT
51031421 CAGTAATTCA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 52 1.00
ACGTcount: A:0.36, C:0.04, G:0.32, T:0.28
Consensus pattern (16 bp):
GCTGTAATGGAATAGA
Found at i:51031461 original size:46 final size:44
Alignment explanation
Indices: 51031402--51031495 Score: 127
Period size: 44 Copynumber: 2.1 Consensus size: 44
51031392 ATATAGCTGT
* *
51031402 AATGGAATAGAGCTGTAATCAGTAATTCAAT-TGTTTGGTTGATTGG
1 AATGGAATAGAGCTGTAAT-AAT-ATTC-ATGTGTTTGGTTGAATGG
*
51031448 AATGGAATAGAGCTGTAATAATATTCTTGTGTTTGGTTGAATGG
1 AATGGAATAGAGCTGTAATAATATTCATGTGTTTGGTTGAATGG
51031492 AATG
1 AATG
51031496 ATGCTATAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
43 1 0.02
44 22 0.50
45 2 0.05
46 19 0.43
ACGTcount: A:0.31, C:0.05, G:0.27, T:0.37
Consensus pattern (44 bp):
AATGGAATAGAGCTGTAATAATATTCATGTGTTTGGTTGAATGG
Found at i:51031660 original size:59 final size:58
Alignment explanation
Indices: 51031590--51031736 Score: 181
Period size: 58 Copynumber: 2.5 Consensus size: 58
51031580 AATTTTAATG
* * *
51031590 ATTATTATTAAATATAATTGAATAAAAATATTAAT-TTATTTAATTATATTTTTAACATA
1 ATTATTATTAAATATAATT-AATAAAAATAAT-ATGTAATTTAATAATATTTTTAACATA
* *
51031649 ATTATTATTAAATACAATTTAAT-AAAATAATATGTAATTTAATAATATTTTTAATATA
1 ATTATTATTAAATATAA-TTAATAAAAATAATATGTAATTTAATAATATTTTTAACATA
*
51031707 ATTATTATTAAAATATGAATTAGTAAAAAT
1 ATTATTATT-AAATAT-AATTAATAAAAAT
51031737 TATAATATAT
Statistics
Matches: 76, Mismatches: 7, Indels: 9
0.83 0.08 0.10
Matches are distributed among these distances:
57 2 0.03
58 37 0.49
59 28 0.37
60 9 0.12
ACGTcount: A:0.50, C:0.01, G:0.03, T:0.46
Consensus pattern (58 bp):
ATTATTATTAAATATAATTAATAAAAATAATATGTAATTTAATAATATTTTTAACATA
Found at i:51035346 original size:15 final size:14
Alignment explanation
Indices: 51035318--51035405 Score: 54
Period size: 15 Copynumber: 6.0 Consensus size: 14
51035308 TTAATTTATT
*
51035318 TAATTATATTTTAACA
1 TAATTAT-TATTAA-A
51035334 TAATTATTATTAAA
1 TAATTATTATTAAA
* *
51035348 TACAATT-TAATAAAA
1 T--AATTATTATTAAA
* *
51035363 TAATATATAATTTAA
1 TAAT-TATTATTAAA
*
51035378 TAA-TATTTTTAATA
1 TAATTATTATTAA-A
51035392 TAATTATTATTAAA
1 TAATTATTATTAAA
51035406 ATATGAATTA
Statistics
Matches: 57, Mismatches: 9, Indels: 14
0.71 0.11 0.17
Matches are distributed among these distances:
13 9 0.16
14 8 0.14
15 29 0.51
16 11 0.19
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (14 bp):
TAATTATTATTAAA
Found at i:51035347 original size:57 final size:58
Alignment explanation
Indices: 51035279--51035405 Score: 163
Period size: 58 Copynumber: 2.2 Consensus size: 58
51035269 TATTTTAATG
* *
51035279 ATTATTATTAAATATAATGTAA-AAAA-AAT-T-TAATTTATTTAATTATATTTTAACATA
1 ATTATTATTAAATACAATGTAATAAAATAATATATAATTTA-ATAA-TAT-TTTTAACATA
* *
51035336 ATTATTATTAAATACAATTTAATAAAATAATATATAATTTAATAATATTTTTAATATA
1 ATTATTATTAAATACAATGTAATAAAATAATATATAATTTAATAATATTTTTAACATA
51035394 ATTATTATTAAA
1 ATTATTATTAAA
51035406 ATATGAATTA
Statistics
Matches: 62, Mismatches: 4, Indels: 7
0.85 0.05 0.10
Matches are distributed among these distances:
57 20 0.32
58 25 0.40
59 6 0.10
60 4 0.06
61 7 0.11
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.47
Consensus pattern (58 bp):
ATTATTATTAAATACAATGTAATAAAATAATATATAATTTAATAATATTTTTAACATA
Found at i:51044012 original size:22 final size:22
Alignment explanation
Indices: 51043970--51044012 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
51043960 AGTTTAGATT
* *
51043970 AATTCATTATATAATTAAGTAA
1 AATTCATTAAATAATAAAGTAA
51043992 AATTC-TTAAATAATAATAGTA
1 AATTCATTAAATAATAA-AGTA
51044013 TGAATATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.40
Consensus pattern (22 bp):
AATTCATTAAATAATAAAGTAA
Found at i:51044033 original size:35 final size:35
Alignment explanation
Indices: 51043994--51044073 Score: 133
Period size: 35 Copynumber: 2.3 Consensus size: 35
51043984 TTAAGTAAAA
51043994 TTCTTAAATAATAATAGTATGAATATATTTTTTCT
1 TTCTTAAATAATAATAGTATGAATATATTTTTTCT
*
51044029 TTCTTCAATAATAATAGTATGAATATATTTTTTCT
1 TTCTTAAATAATAATAGTATGAATATATTTTTTCT
* *
51044064 TACTTGAATA
1 TTCTTAAATA
51044074 TAAAATTTAT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 42 1.00
ACGTcount: A:0.36, C:0.07, G:0.06, T:0.50
Consensus pattern (35 bp):
TTCTTAAATAATAATAGTATGAATATATTTTTTCT
Found at i:51048754 original size:149 final size:145
Alignment explanation
Indices: 51048494--51049002 Score: 527
Period size: 149 Copynumber: 3.5 Consensus size: 145
51048484 CGGAATCACT
* * *
51048494 TGTTTATATTCACTTTTCTTTCTACACAAGCAATTTGAAACCATAAACAAAGGTACAT-CATTTT
1 TGTTTATATTCACTTTTCTTGCTACACAAGCAATTCGAAACCATAAACAAA--AACATAC-TTTT
*
51048558 CTCTTTTTTTTAAATGGTTTTTTTTGTTCTTTACTGCTTTTTAAATTCTTCATTTAATTCAAGTT
63 -TC----TTTTAAATGG-TTTTTTTGTTCTTTACTGCTTTTTAAATTCTTCATTAAATTCAAGTT
51048623 CAAGAAATCATATATATATATATA
122 CAAGAAATCATATATATATATATA
*
51048647 TGTTTATATTCAC-TTTCTTGCTACACAAGTAATTCGAAACCATAAACAAAAACATACCTTTTTC
1 TGTTTATATTCACTTTTCTTGCTACACAAGCAATTCGAAACCATAAACAAAAACATA-CTTTTT-
* * *
51048711 CCCTTTTAAATGGTTTTCTTGCTTCTTTACCGCTTTTTAAATTCTTCATTAAATTCAAATTCAAG
64 --CTTTTAAATGGTTTTTTTG-TTCTTTACTGCTTTTTAAATTCTTCATTAAATTCAAGTTCAAG
51048776 AAATCATACTATATAT-T-TA
126 AAATCATA-TATATATATATA
* * * * *
51048795 TATATATATTCATTTTTCTTGCTACACAAGCAATTCGAAACCATAAACAAAAGCCTA-TTTTT-T
1 TGTTTATATTCACTTTTCTTGCTACACAAGCAATTCGAAACCATAAACAAAAACATACTTTTTCT
* * * * * *
51048858 TTT-AATGGTTTTTTTATTTCTTTATTGTTTTTTAAATTATTCATTCAATTCAAGTTCAA-AAAA
66 TTTAAATGGTTTTTTT-GTTCTTTACTGCTTTTTAAATTCTTCATTAAATTCAAGTTCAAGAAAT
* *
51048921 C-GATA-CTATATATA
130 CATATATATATATATA
* * * * * * * *
51048935 TGTTAATATTCACTTTTCTTACTACACAAACAA-ACTGAAATCATAAACAAAGACCTACTTTTTT
1 TGTTTATATTCACTTTTCTTGCTACACAAGCAATTC-GAAACCATAAACAAAAACATACTTTTTC
51048999 TTTT
65 TTTT
51049003 TTGTCACTTT
Statistics
Matches: 307, Mismatches: 35, Indels: 39
0.81 0.09 0.10
Matches are distributed among these distances:
138 3 0.01
139 4 0.01
140 48 0.16
141 9 0.03
142 51 0.17
143 4 0.01
147 5 0.02
148 19 0.06
149 99 0.32
150 12 0.04
151 4 0.01
152 35 0.11
153 14 0.05
ACGTcount: A:0.33, C:0.16, G:0.06, T:0.44
Consensus pattern (145 bp):
TGTTTATATTCACTTTTCTTGCTACACAAGCAATTCGAAACCATAAACAAAAACATACTTTTTCT
TTTAAATGGTTTTTTTGTTCTTTACTGCTTTTTAAATTCTTCATTAAATTCAAGTTCAAGAAATC
ATATATATATATATA
Found at i:51057891 original size:18 final size:19
Alignment explanation
Indices: 51057870--51057910 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 19
51057860 ATCTTAAAAG
51057870 ATAAAAATAATAA-T-AACT
1 ATAAAAATAA-AACTAAACT
51057888 AT-AAAATAAAACTAAACT
1 ATAAAAATAAAACTAAACT
51057906 ATAAA
1 ATAAA
51057911 CTTTAAAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
16 2 0.10
17 8 0.40
18 8 0.40
19 2 0.10
ACGTcount: A:0.68, C:0.07, G:0.00, T:0.24
Consensus pattern (19 bp):
ATAAAAATAAAACTAAACT
Found at i:51063218 original size:2 final size:2
Alignment explanation
Indices: 51063211--51063237 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
51063201 AATTAATTAG
51063211 AT 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 AT A
51063238 CACACACATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:51086514 original size:6 final size:6
Alignment explanation
Indices: 51086503--51086536 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
51086493 ATGGCTTTGC
* *
51086503 TTTGGT TTTGGT TTTGGT TTTGGA TTTGGC TTTG
1 TTTGGT TTTGGT TTTGGT TTTGGT TTTGGT TTTG
51086537 CATTTTGCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.03, C:0.03, G:0.32, T:0.62
Consensus pattern (6 bp):
TTTGGT
Found at i:51086520 original size:12 final size:12
Alignment explanation
Indices: 51086503--51086541 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
51086493 ATGGCTTTGC
*
51086503 TTTGGTTTTGGT
1 TTTGGTTTTGGA
51086515 TTTGGTTTTGGA
1 TTTGGTTTTGGA
* *
51086527 TTTGGCTTTGCA
1 TTTGGTTTTGGA
51086539 TTT
1 TTT
51086542 TGCTTTAAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.05, C:0.05, G:0.28, T:0.62
Consensus pattern (12 bp):
TTTGGTTTTGGA
Found at i:51091074 original size:31 final size:31
Alignment explanation
Indices: 51091036--51091096 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
51091026 TTGGTAACTA
51091036 AACTATTCGAA-AGTTTTCT-TTTAAGTCACTG
1 AACTATTC-AACAGTTTT-TATTTAAGTCACTG
51091067 AACTATTCAACAGTTTTTATTTAAGTCACT
1 AACTATTCAACAGTTTTTATTTAAGTCACT
51091097 AGGTTGTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
30 3 0.11
31 25 0.89
ACGTcount: A:0.31, C:0.16, G:0.10, T:0.43
Consensus pattern (31 bp):
AACTATTCAACAGTTTTTATTTAAGTCACTG
Found at i:51094569 original size:108 final size:108
Alignment explanation
Indices: 51094379--51094588 Score: 377
Period size: 108 Copynumber: 1.9 Consensus size: 108
51094369 TCAAGTCTAT
* *
51094379 TCAATTACCAAGTGAGGCATTTTGGGTGAATGGTGGTCGCCCTCCATTCTGGCTAACAATCTCCA
1 TCAATTACCAAGTGAGGCATTTTGGGTAAATGGTGGTCGCCCTCCATTCTAGCTAACAATCTCCA
*
51094444 TTACCACTGCTTGGAGAATTCAGTTCAGCTTCATCTTTAGGCC
66 TTACCACTGCTTCGAGAATTCAGTTCAGCTTCATCTTTAGGCC
51094487 TCAATTACCAAGTGAGGCATTTT-GGTCAAATGGTGGTCGCCCTCCATTCTAGCTAACAATCTCC
1 TCAATTACCAAGTGAGGCATTTTGGGT-AAATGGTGGTCGCCCTCCATTCTAGCTAACAATCTCC
51094551 ATTACCACTGCTTCGAGAATTCAGTTCAGCTTCATCTT
65 ATTACCACTGCTTCGAGAATTCAGTTCAGCTTCATCTT
51094589 CATCTTCAGG
Statistics
Matches: 98, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
107 3 0.03
108 95 0.97
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (108 bp):
TCAATTACCAAGTGAGGCATTTTGGGTAAATGGTGGTCGCCCTCCATTCTAGCTAACAATCTCCA
TTACCACTGCTTCGAGAATTCAGTTCAGCTTCATCTTTAGGCC
Found at i:51097425 original size:29 final size:28
Alignment explanation
Indices: 51097357--51097427 Score: 72
Period size: 29 Copynumber: 2.5 Consensus size: 28
51097347 ATATTCTTCA
*
51097357 TAAATTTAGAATTTAATTTATATATTTT
1 TAAATTTAAAATTTAATTTATATATTTT
** *
51097385 TATTTTTAAAAATTTAA-TTATTTATTTT
1 TAAATTT-AAAATTTAATTTATATATTTT
51097413 TCAAATTTCAAAATT
1 T-AAATTT-AAAATT
51097428 CAGGTTCAAT
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
28 16 0.47
29 18 0.53
ACGTcount: A:0.39, C:0.03, G:0.01, T:0.56
Consensus pattern (28 bp):
TAAATTTAAAATTTAATTTATATATTTT
Found at i:51097832 original size:22 final size:22
Alignment explanation
Indices: 51097789--51097840 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
51097779 ATTTTTTTAT
51097789 TTTAAAATATTACATCAATAAA
1 TTTAAAATATTACATCAATAAA
51097811 TTTAATAATATTA-A-CAATTAAA
1 TTTAA-AATATTACATCAA-TAAA
*
51097833 ATTAAAAT
1 TTTAAAAT
51097841 TTGAAATAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
21 6 0.22
22 14 0.52
23 7 0.26
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (22 bp):
TTTAAAATATTACATCAATAAA
Found at i:51097848 original size:28 final size:27
Alignment explanation
Indices: 51097829--51097902 Score: 80
Period size: 27 Copynumber: 2.7 Consensus size: 27
51097819 TATTAACAAT
51097829 TAAAATTAAAATTTGAAATAAAAAAAG
1 TAAAATTAAAATTTGAAATAAAAAAAG
* *
51097856 TAAAATTAAATTCTTGAAAATAAAAATA-
1 TAAAATTAAAAT-TTG-AAATAAAAAAAG
*
51097884 TAAAGATT-AAATTTTAAAT
1 TAAA-ATTAAAATTTGAAAT
51097903 TTGTGAAGAA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
26 4 0.10
27 13 0.32
28 10 0.25
29 13 0.32
ACGTcount: A:0.61, C:0.01, G:0.05, T:0.32
Consensus pattern (27 bp):
TAAAATTAAAATTTGAAATAAAAAAAG
Found at i:51097892 original size:29 final size:27
Alignment explanation
Indices: 51097829--51097902 Score: 89
Period size: 29 Copynumber: 2.7 Consensus size: 27
51097819 TATTAACAAT
*
51097829 TAAAATTAAAATTTGAAATAAAAAAAG
1 TAAAATTAAATTTTGAAATAAAAAAAG
*
51097856 TAAAATTAAATTCTTGAAAATAAAAATA-
1 TAAAATTAAATT-TTG-AAATAAAAAAAG
51097884 TAAAGATTAAATTTT-AAAT
1 TAAA-ATTAAATTTTGAAAT
51097903 TTGTGAAGAA
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
26 4 0.10
27 11 0.26
28 9 0.21
29 18 0.43
ACGTcount: A:0.61, C:0.01, G:0.05, T:0.32
Consensus pattern (27 bp):
TAAAATTAAATTTTGAAATAAAAAAAG
Found at i:51099690 original size:19 final size:20
Alignment explanation
Indices: 51099666--51099705 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
51099656 AATCGCGTTT
*
51099666 AAAAT-ATTATATATTTATA
1 AAAATAATTATATATTAATA
*
51099685 AAAATAATTATGTATTAATA
1 AAAATAATTATATATTAATA
51099705 A
1 A
51099706 TTAGAAAATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (20 bp):
AAAATAATTATATATTAATA
Found at i:51112933 original size:3 final size:3
Alignment explanation
Indices: 51112925--51112949 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
51112915 TTCAACAATG
51112925 ACA ACA ACA ACA ACA ACA ACA ACA A
1 ACA ACA ACA ACA ACA ACA ACA ACA A
51112950 TAAATTGCAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:51121709 original size:17 final size:17
Alignment explanation
Indices: 51121683--51121717 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
51121673 AATTATAAAA
51121683 TAATTATTTAAAATTAT
1 TAATTATTTAAAATTAT
* *
51121700 TAATTTTTTAAGATTAT
1 TAATTATTTAAAATTAT
51121717 T
1 T
51121718 TTCGTTAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (17 bp):
TAATTATTTAAAATTAT
Found at i:51123242 original size:24 final size:24
Alignment explanation
Indices: 51123215--51123260 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
51123205 TGCGATTGAA
51123215 AAAATT-ATATAATTTAAAATATAC
1 AAAATTAAT-TAATTTAAAATATAC
*
51123239 AAAATTAATTAATTTATAATAT
1 AAAATTAATTAATTTAAAATAT
51123261 TTTAAATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 18 0.90
25 2 0.10
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (24 bp):
AAAATTAATTAATTTAAAATATAC
Found at i:51123816 original size:20 final size:20
Alignment explanation
Indices: 51123775--51123817 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
51123765 TAATGGAATT
* *
51123775 TATATATTATATAAGTTGAA
1 TATATAATATATAAGTTAAA
51123795 TATATAATATTATAA-TTAAA
1 TATATAATA-TATAAGTTAAA
51123815 TAT
1 TAT
51123818 TAAAAAGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.47
Consensus pattern (20 bp):
TATATAATATATAAGTTAAA
Found at i:51128821 original size:58 final size:58
Alignment explanation
Indices: 51128752--51129006 Score: 334
Period size: 59 Copynumber: 4.4 Consensus size: 58
51128742 TTTAGATACC
* * *
51128752 CGGGGGCAAAATGGTAATTTTGGTGAAATCGGGGTTTAAAAATGGAATTTTGGGA-GTT
1 CGGGGGTAAAATGGTAATTTTGGTGAAATCGGGG-TTAAAAATGGAATTTTAGAAGGTT
* * *
51128810 CAGGGGTAAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAATGTT
1 CGGGGGTAAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGGTT
* *
51128868 TGGGGGTAAAATGGTAATTTTAGGTGAAACCGGGGTTAAAAATGGAATTTTAGAAGGTT
1 CGGGGGTAAAATGGTAATTTT-GGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGGTT
* * * * * *
51128927 TGGGGATAAAATGGTAATTTTTGGTGAAA-CTGGAGTTAAAAATGAAAATTTAGAAGATT
1 CGGGGGTAAAATGGTAA-TTTTGGTGAAATC-GGGGTTAAAAATGGAATTTTAGAAGGTT
51128986 CGGGGGTAAAATGGTAATTTT
1 CGGGGGTAAAATGGTAATTTT
51129007 TGAGAGTTCG
Statistics
Matches: 178, Mismatches: 15, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
57 19 0.11
58 59 0.33
59 96 0.54
60 4 0.02
ACGTcount: A:0.34, C:0.04, G:0.31, T:0.32
Consensus pattern (58 bp):
CGGGGGTAAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGGTT
Found at i:51128919 original size:30 final size:30
Alignment explanation
Indices: 51128759--51129243 Score: 206
Period size: 29 Copynumber: 16.5 Consensus size: 30
51128749 ACCCGGGGGC
51128759 AAAATGGTAATTTTGGTGAAATCGGGGTTTA
1 AAAATGGTAATTTTGGTGAAATCGGGG-TTA
**
51128790 AAAATGG-AATTTTGG-GAGTTCAGGGG-T-
1 AAAATGGTAATTTTGGTGAAATC-GGGGTTA
51128817 AAAATGGTAATTTTGGTGAAATCGGGGTTA
1 AAAATGGTAATTTTGGTGAAATCGGGGTTA
* * *
51128847 AAAATGG-AATTTT-G-GAATGTTTGGGGGT-
1 AAAATGGTAATTTTGGTGAA--ATCGGGGTTA
*
51128875 AAAATGGTAATTTTAGGTGAAACCGGGGTTA
1 AAAATGGTAATTTT-GGTGAAATCGGGGTTA
* * * *
51128906 AAAATGG-AATTTT--AGAAGGTTTGGGGAT-
1 AAAATGGTAATTTTGGTGAA--ATCGGGGTTA
*
51128934 AAAATGGTAATTTTTGGTGAAA-CTGGAGTTA
1 AAAATGGTAA-TTTTGGTGAAATC-GGGGTTA
** * ** * *
51128965 AAAATGAAAATTTAGAAG-ATTCGGGGGT-
1 AAAATGGTAATTTTGGTGAAATCGGGGTTA
* * ** *
51128993 AAAATGGTAATTTTTGAGAGTTCGGGGGT-
1 AAAATGGTAATTTTGGTGAAATCGGGGTTA
* * *
51129022 AAAATGGTAATTTTTGATGGAATCGGGGTCA
1 AAAATGGTAA-TTTTGGTGAAATCGGGGTTA
*
51129053 AAAATGG-AATTTT-G-GAAAGTTTAGGGG-T-
1 AAAATGGTAATTTTGGTGAAA---TCGGGGTTA
* **
51129081 AAGATGGTAATTTTTGGTGAAATTAGGGTT-
1 AAAATGGTAA-TTTTGGTGAAATCGGGGTTA
*
51129111 AAAATGG-AATTTT-G-GAAAGTTTAGGGG-T-
1 AAAATGGTAATTTTGGTGAAA---TCGGGGTTA
* * * *
51129139 AAAACGGTAATTTTTGGTGGAATCGGGATCA
1 AAAATGGTAA-TTTTGGTGAAATCGGGGTTA
* *
51129170 AAAATGG-AATTTT-G-GAAAGTTTGGGGGT-
1 AAAATGGTAATTTTGGTGAAA--TCGGGGTTA
* *
51129198 AAGATGGTAATTTTTGGTTAAATCGGGGTTA
1 AAAATGGTAA-TTTTGGTGAAATCGGGGTTA
51129229 AAAATGG-AATTTTGG
1 AAAATGGTAATTTTGG
51129244 AAGTTTTGGG
Statistics
Matches: 337, Mismatches: 69, Indels: 98
0.67 0.14 0.19
Matches are distributed among these distances:
26 4 0.01
27 20 0.06
28 65 0.19
29 96 0.28
30 91 0.27
31 45 0.13
32 16 0.05
ACGTcount: A:0.33, C:0.03, G:0.31, T:0.33
Consensus pattern (30 bp):
AAAATGGTAATTTTGGTGAAATCGGGGTTA
Found at i:51129048 original size:59 final size:58
Alignment explanation
Indices: 51128988--51129268 Score: 343
Period size: 59 Copynumber: 4.8 Consensus size: 58
51128978 AGAAGATTCG
* * ** * *
51128988 GGGGT-AAAATGGTAATTTTTGAGAGTTCGGGGGTAAAATGGTAATTTTTGATGGAATC
1 GGGGTAAAAATGG-AATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTTTGGTGAAATC
* *
51129046 GGGGTCAAAAATGGAATTTTGGAAAGTTTAGGGGTAAGATGGTAATTTTTGGTGAAATT
1 GGGGT-AAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTTTGGTGAAATC
* * * *
51129105 AGGGTTAAAATGGAATTTTGGAAAGTTTAGGGGTAAAACGGTAATTTTTGGTGGAATC
1 GGGGTAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTTTGGTGAAATC
* * * *
51129163 GGGATCAAAAATGGAATTTTGGAAAGTTTGGGGGTAAGATGGTAATTTTTGGTTAAATC
1 GGGGT-AAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTTTGGTGAAATC
*
51129222 GGGGTTAAAAATGGAATTTTGG-AAGTTTTGGGGTCAAAAT-GTAATTT
1 GGGG-TAAAAATGGAATTTTGGAAAGTTTAGGGGT-AAAATGGTAATTT
51129269 CTGGACTGTT
Statistics
Matches: 193, Mismatches: 25, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
58 74 0.38
59 111 0.58
60 8 0.04
ACGTcount: A:0.32, C:0.03, G:0.31, T:0.34
Consensus pattern (58 bp):
GGGGTAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTTTGGTGAAATC
Found at i:51129112 original size:147 final size:146
Alignment explanation
Indices: 51128838--51129154 Score: 383
Period size: 147 Copynumber: 2.2 Consensus size: 146
51128828 TTTGGTGAAA
* * * *
51128838 TCGGGGTTAAAAATGG-AATTTTGGAATGTTTGGGGGTAAAATGGTAATTTTAGGTGAAACCGGG
1 TCGGGGGT-AAAATGGTAATTTTTGAATGTTCGGGGGTAAAATGGTAATTTTAGATGAAACCGGG
* *
51128902 GTTAAAAATGGAATTTTAGAAGGTTTGGGGATAAAATGGTAATTTTTGGTGAAACTGGAGTTAAA
65 GTCAAAAATGGAATTTTAGAAAGTTTGGGGATAAAATGGTAATTTTTGGTGAAACTGGAGTT-AA
51128967 AATGAAAATTTAG-AAGAT
129 AATGAAAATTTAGAAAG-T
* * *
51128985 TCGGGGGTAAAATGGTAATTTTTGAGA-GTTCGGGGGTAAAATGGTAATTTTTGATGGAATCGGG
1 TCGGGGGTAAAATGGTAATTTTTGA-ATGTTCGGGGGTAAAATGGTAATTTTAGATGAAACCGGG
* * *
51129049 GTCAAAAATGGAATTTTGGAAAGTTTAGGGG-TAAGATGGTAATTTTTGGTGAAATTAGG-GTTA
65 GTCAAAAATGGAATTTTAGAAAGTTT-GGGGATAAAATGGTAATTTTTGGTGAAACT-GGAGTTA
* * *
51129112 AAATGGAATTTTGGAAAGT
128 AAATGAAAATTTAGAAAGT
** *
51129131 TTAGGGGTAAAACGGTAATTTTTG
1 TCGGGGGTAAAATGGTAATTTTTG
51129155 GTGGAATCGG
Statistics
Matches: 147, Mismatches: 18, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
146 41 0.28
147 99 0.67
148 7 0.05
ACGTcount: A:0.33, C:0.03, G:0.31, T:0.33
Consensus pattern (146 bp):
TCGGGGGTAAAATGGTAATTTTTGAATGTTCGGGGGTAAAATGGTAATTTTAGATGAAACCGGGG
TCAAAAATGGAATTTTAGAAAGTTTGGGGATAAAATGGTAATTTTTGGTGAAACTGGAGTTAAAA
TGAAAATTTAGAAAGT
Found at i:51129138 original size:117 final size:117
Alignment explanation
Indices: 51128992--51129268 Score: 405
Period size: 117 Copynumber: 2.4 Consensus size: 117
51128982 GATTCGGGGG
* * ** *
51128992 TAAAATGGTAATTTTTGAGAGTTCGGGGGTAAAATGGTAATTTTTGATGGAATCGGGGTCAAAAA
1 TAAAATGG-AATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTTTGATGGAATCGGGATCAAAAA
*
51129057 TGGAATTTTGGAAAGTTTAGGGGTAAGATGGTAATTTTTGGTGAAATTAGGGT
65 TGGAATTTTGGAAAGTTTAGGGGTAAGATGGTAATTTTTGGTGAAATCAGGGT
* *
51129110 TAAAATGGAATTTTGGAAAGTTTAGGGGTAAAACGGTAATTTTTGGTGGAATCGGGATCAAAAAT
1 TAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTTTGATGGAATCGGGATCAAAAAT
* * *
51129175 GGAATTTTGGAAAGTTTGGGGGTAAGATGGTAATTTTTGGTTAAATCGGGGT
66 GGAATTTTGGAAAGTTTAGGGGTAAGATGGTAATTTTTGGTGAAATCAGGGT
*
51129227 TAAAAATGGAATTTTGG-AAGTTTTGGGGTCAAAAT-GTAATTT
1 T-AAAATGGAATTTTGGAAAGTTTAGGGGT-AAAATGGTAATTT
51129269 CTGGACTGTT
Statistics
Matches: 144, Mismatches: 13, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
117 117 0.81
118 27 0.19
ACGTcount: A:0.32, C:0.03, G:0.30, T:0.35
Consensus pattern (117 bp):
TAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTTTGATGGAATCGGGATCAAAAAT
GGAATTTTGGAAAGTTTAGGGGTAAGATGGTAATTTTTGGTGAAATCAGGGT
Found at i:51129259 original size:88 final size:86
Alignment explanation
Indices: 51128753--51129273 Score: 270
Period size: 88 Copynumber: 5.9 Consensus size: 86
51128743 TTAGATACCC
* * *
51128753 GGGGGCAAAATGGTAA-TTTTGGTGAAATCGGGGTTTAAAAATGGAATTTTGGGAGTTCAGGGGT
1 GGGGGTAAAATGGTAATTTTTGGTGAAATCGGGG-TTAAAAATGGAATTTTGGAAGTTTAGGGGT
*
51128817 AAAATGGTAATTTTGGTGAAA--TC
65 AAAATGG-AATTTT-G-GAAAGTTT
* * * * **
51128840 GGGGTTAAAAATGG-AA-TTTT-G-GAATGTTTGGGGGT-AAAATGGTAATTTTAGGTGAA--AC
1 GGGGGT-AAAATGGTAATTTTTGGTGAA--ATCGGGGTTAAAAATGG-AATTTT--G-GAAGTTT
* * *
51128898 CGGGGTTAAAAATGGAATTTTAGAAGGTTT
59 AGGGG-T-AAAATGGAATTTTGGAAAGTTT
* * * * * **
51128928 GGGGATAAAATGGTAATTTTTGGTGAAA-CTGGAGTTAAAAATGAAAATTTAGAAGATTCGGGGG
1 GGGGGTAAAATGGTAATTTTTGGTGAAATC-GGGGTTAAAAATGGAATTTTGGAAG-TTTAGGGG
* * *
51128992 TAAAATGGTAATTTTTGAGAGTTC
64 TAAAATGG-AATTTTGGAAAGTTT
* * *
51129016 GGGGGTAAAATGGTAATTTTTGATGGAATCGGGGTCAAAAATGGAATTTTGGAAAGTTTAGGGGT
1 GGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGG-AAGTTTAGGGGT
*
51129081 AAGATGGTAATTTTTGGTGAAA--TT
65 AAAATGG-AA-TTTT-G-GAAAGTTT
* * * * ** ** *
51129105 AGGGTTAAAATGG-AA-TTTT-G-GAAAGTTTAGGGG-T-AAAACGGTAATTTTTGGTGGAATCG
1 GGGGGTAAAATGGTAATTTTTGGTGAAA---TCGGGGTTAAAAATGG-AA-TTTTGGAAGTTTAG
*
51129164 GGATCAAAAATGGAATTTTGGAAAGTTT
61 GGGT--AAAATGGAATTTTGGAAAGTTT
* * *
51129192 GGGGGTAAGATGGTAATTTTTGGTTAAATCGGGGTTAAAAATGGAATTTTGGAAGTTTTGGGGTC
1 GGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAGTTTAGGGGT-
*
51129257 AAAATGTAATTTCTGGA
65 AAAATGGAATTT-TGGA
51129274 CTGTTTAGGG
Statistics
Matches: 325, Mismatches: 67, Indels: 83
0.68 0.14 0.17
Matches are distributed among these distances:
85 17 0.05
86 21 0.06
87 73 0.22
88 131 0.40
89 60 0.18
90 14 0.04
91 9 0.03
ACGTcount: A:0.33, C:0.03, G:0.31, T:0.33
Consensus pattern (86 bp):
GGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAGTTTAGGGGTA
AAATGGAATTTTGGAAAGTTT
Found at i:51130264 original size:17 final size:16
Alignment explanation
Indices: 51130237--51130274 Score: 58
Period size: 17 Copynumber: 2.3 Consensus size: 16
51130227 TTAATGGTTG
*
51130237 ATATTATTAATTATTA
1 ATATTATTAATTATAA
51130253 ATATTAATTAATTATAA
1 ATATT-ATTAATTATAA
51130270 ATATT
1 ATATT
51130275 TAATACTGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 5 0.25
17 15 0.75
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
ATATTATTAATTATAA
Found at i:51131027 original size:18 final size:16
Alignment explanation
Indices: 51130986--51131097 Score: 80
Period size: 17 Copynumber: 6.4 Consensus size: 16
51130976 GTAATTGGAC
*
51130986 ATTTAAATTTATAATAA
1 ATTTAAATTTA-AACAA
*
51131003 TTTTAAATTTGAAAGCAA
1 ATTTAAATTT-AAA-CAA
* *
51131021 ATTTAAACTTAAATTAA
1 ATTTAAATTTAAA-CAA
*
51131038 ATTTAAATTTAAAAATAA
1 ATTTAAATTT--AAACAA
51131056 ATTTAAACTTTAGAACAA
1 ATTTAAA-TTTA-AACAA
* *
51131074 ATTTAATTTTAAGATAA
1 ATTTAAATTTAA-ACAA
51131091 ATTTAAA
1 ATTTAAA
51131098 ATGGGTTTGG
Statistics
Matches: 77, Mismatches: 11, Indels: 14
0.75 0.11 0.14
Matches are distributed among these distances:
16 1 0.01
17 39 0.51
18 31 0.40
19 6 0.08
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.41
Consensus pattern (16 bp):
ATTTAAATTTAAACAA
Found at i:51131043 original size:6 final size:6
Alignment explanation
Indices: 51131019--51131067 Score: 55
Period size: 6 Copynumber: 8.2 Consensus size: 6
51131009 ATTTGAAAGC
* **
51131019 AAATTT AAACTT AAA-TT AAATTT AAATTT AAAAAT AAATTT AAACTTT
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAA-TTT
51131067 A
1 A
51131068 GAACAAATTT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
5 5 0.14
6 27 0.75
7 4 0.11
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (6 bp):
AAATTT
Found at i:51131056 original size:23 final size:25
Alignment explanation
Indices: 51131019--51131067 Score: 66
Period size: 23 Copynumber: 2.0 Consensus size: 25
51131009 ATTTGAAAGC
**
51131019 AAATTTAAACTTAAA-TTAAA-TTT
1 AAATTTAAAAATAAATTTAAACTTT
51131042 AAATTTAAAAATAAATTTAAACTTT
1 AAATTTAAAAATAAATTTAAACTTT
51131067 A
1 A
51131068 GAACAAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 13 0.59
24 5 0.23
25 4 0.18
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (25 bp):
AAATTTAAAAATAAATTTAAACTTT
Found at i:51131091 original size:35 final size:35
Alignment explanation
Indices: 51130986--51131097 Score: 104
Period size: 35 Copynumber: 3.2 Consensus size: 35
51130976 GTAATTGGAC
* * * **
51130986 ATTTAAATTTATAAT-AATTTTAAATTTGAAAGCAA
1 ATTTAAACTTA-AATCAAATTTAAATTTAAAAATAA
*
51131021 ATTTAAACTTAAATTAAATTTAAATTTAAAAATAA
1 ATTTAAACTTAAATCAAATTTAAATTTAAAAATAA
* *
51131056 ATTTAAACTTTAGAA-CAAATTT-AATTTTAAGATAA
1 ATTTAAAC-TTA-AATCAAATTTAAATTTAAAAATAA
51131091 ATTTAAA
1 ATTTAAA
51131098 ATGGGTTTGG
Statistics
Matches: 66, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
34 3 0.05
35 52 0.79
36 9 0.14
37 2 0.03
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.41
Consensus pattern (35 bp):
ATTTAAACTTAAATCAAATTTAAATTTAAAAATAA
Found at i:51131934 original size:19 final size:20
Alignment explanation
Indices: 51131906--51131943 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
51131896 TTTTAAAAAT
51131906 ACTATCCATAT-TAATTTTA
1 ACTATCCATATATAATTTTA
*
51131925 ACTATTCATATATAATTTT
1 ACTATCCATATATAATTTT
51131944 TGTTTTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.37, C:0.13, G:0.00, T:0.50
Consensus pattern (20 bp):
ACTATCCATATATAATTTTA
Found at i:51133172 original size:11 final size:11
Alignment explanation
Indices: 51133158--51133191 Score: 59
Period size: 11 Copynumber: 3.0 Consensus size: 11
51133148 TATTTCTAAG
51133158 TTTAAATTTAA
1 TTTAAATTTAA
51133169 TTTAAATTTAAA
1 TTTAAATTT-AA
51133181 TTTAAATTTAA
1 TTTAAATTTAA
51133192 AATTCATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 11 0.50
12 11 0.50
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (11 bp):
TTTAAATTTAA
Found at i:51133180 original size:17 final size:17
Alignment explanation
Indices: 51133143--51133268 Score: 77
Period size: 17 Copynumber: 7.5 Consensus size: 17
51133133 ATTTGGTTTC
* *
51133143 AAATTTATTTCTAAGTTT
1 AAATTTAATT-TAAATTT
51133161 AAATTTAATTTAAATTT
1 AAATTTAATTTAAATTT
*
51133178 AAATTTAAATTTAAAATT
1 AAATTT-AATTTAAATTT
*
51133196 -CA-TT--TTTAAATTT
1 AAATTTAATTTAAATTT
*
51133209 AAATTT-GTTCTAAATTT
1 AAATTTAATT-TAAATTT
** *
51133226 AAATTTAGCTTAAATATG
1 AAATTTAATTTAAAT-TT
51133244 AAA--TAATTTTAAATTTT
1 AAATTTAA-TTTAAA-TTT
51133261 AAATTTAA
1 AAATTTAA
51133269 AAAACTAAAC
Statistics
Matches: 86, Mismatches: 11, Indels: 21
0.73 0.09 0.18
Matches are distributed among these distances:
13 8 0.09
14 1 0.01
15 2 0.02
16 6 0.07
17 40 0.47
18 26 0.30
19 3 0.03
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (17 bp):
AAATTTAATTTAAATTT
Found at i:51133269 original size:6 final size:6
Alignment explanation
Indices: 51133158--51133232 Score: 75
Period size: 6 Copynumber: 12.7 Consensus size: 6
51133148 TATTTCTAAG
* **
51133158 TTTAAA TTT-AA TTTAAA TTTAAA TTTAAA TTTAAAA TTCATT TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTT-AAA TTTAAA TTTAAA
*
51133206 TTTAAA TTT--G TTCTAAA TTTAAA TTTA
1 TTTAAA TTTAAA TT-TAAA TTTAAA TTTA
51133233 GCTTAAATAT
Statistics
Matches: 56, Mismatches: 8, Indels: 10
0.76 0.11 0.14
Matches are distributed among these distances:
4 2 0.04
5 6 0.11
6 41 0.73
7 7 0.12
ACGTcount: A:0.43, C:0.03, G:0.01, T:0.53
Consensus pattern (6 bp):
TTTAAA
Found at i:51134964 original size:30 final size:29
Alignment explanation
Indices: 51134917--51135060 Score: 140
Period size: 29 Copynumber: 5.0 Consensus size: 29
51134907 GCTCTCTAGT
*
51134917 CCCC-AAACTTTCCAAAATTCCATTTTTGA
1 CCCCAAAACTTTCCAAAATTCCAGTTTT-A
51134946 CCCCAAAAC-TTCCAAAAATTACC-GTTTTA
1 CCCCAAAACTTTCC-AAAATT-CCAGTTTTA
*
51134975 CCCTC-AAACTTTCCAAACTTCCA-TTTTAA
1 CCC-CAAAACTTTCCAAAATTCCAGTTTT-A
51135004 CCCCAAAAC-TTCCAAAAATTACC-GTTTTA
1 CCCCAAAACTTTCC-AAAATT-CCAGTTTTA
* *
51135033 CACCAAAACTTTCCAAAATTCCATTTTT
1 CCCCAAAACTTTCCAAAATTCCAGTTTT
51135061 GACCTTGATT
Statistics
Matches: 97, Mismatches: 5, Indels: 26
0.76 0.04 0.20
Matches are distributed among these distances:
28 13 0.13
29 53 0.55
30 29 0.30
31 2 0.02
ACGTcount: A:0.35, C:0.31, G:0.02, T:0.32
Consensus pattern (29 bp):
CCCCAAAACTTTCCAAAATTCCAGTTTTA
Found at i:51135024 original size:58 final size:58
Alignment explanation
Indices: 51134918--51135059 Score: 232
Period size: 58 Copynumber: 2.4 Consensus size: 58
51134908 CTCTCTAGTC
*
51134918 CCCAAACTTTCCAAAATTCCATTTTTGACCCCAAAACTTCCAAAAATTACCGTTTTAC-
1 CCCAAACTTTCCAAAATTCCA-TTTTAACCCCAAAACTTCCAAAAATTACCGTTTTACA
*
51134976 CCTCAAACTTTCCAAACTTCCATTTTAACCCCAAAACTTCCAAAAATTACCGTTTTACA
1 CC-CAAACTTTCCAAAATTCCATTTTAACCCCAAAACTTCCAAAAATTACCGTTTTACA
*
51135035 CCAAAACTTTCCAAAATTCCATTTT
1 CCCAAACTTTCCAAAATTCCATTTT
51135060 TGACCTTGAT
Statistics
Matches: 78, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
58 58 0.74
59 20 0.26
ACGTcount: A:0.35, C:0.31, G:0.02, T:0.32
Consensus pattern (58 bp):
CCCAAACTTTCCAAAATTCCATTTTAACCCCAAAACTTCCAAAAATTACCGTTTTACA
Found at i:51135125 original size:30 final size:29
Alignment explanation
Indices: 51134922--51135125 Score: 102
Period size: 29 Copynumber: 6.9 Consensus size: 29
51134912 CTAGTCCCCA
***
51134922 AACTTTCCAAAATTCCATTTTTGACCCCAA
1 AACTTTCCAAAATTCCATTTTT-ACCCTTG
* **
51134952 AAC-TTCCAAAAATTACC-GTTTTACCCTCA
1 AACTTTCC-AAAATT-CCATTTTTACCCTTG
* * ***
51134981 AACTTTCCAAACTTCCATTTTAACCCCAA
1 AACTTTCCAAAATTCCATTTTTACCCTTG
* **
51135010 AAC-TTCCAAAAATTACC-GTTTTACACC-AA
1 AACTTTCC-AAAATT-CCATTTTTAC-CCTTG
51135039 AACTTTCCAAAATTCCATTTTTGA-CCTTG
1 AACTTTCCAAAATTCCATTTTT-ACCCTTG
51135068 -A-TTTCACCAAAAATTACCA-TTTTACCCTTG
1 AACTTT--CC-AAAATT-CCATTTTTACCCTTG
*
51135098 AACTTTCCAAAATTCTATTTTTAACCCT
1 AACTTTCCAAAATTCCATTTTT-ACCCT
51135126 AAATTTTCCC
Statistics
Matches: 139, Mismatches: 15, Indels: 40
0.72 0.08 0.21
Matches are distributed among these distances:
27 3 0.02
28 13 0.09
29 66 0.47
30 48 0.35
31 6 0.04
32 3 0.02
ACGTcount: A:0.34, C:0.28, G:0.03, T:0.35
Consensus pattern (29 bp):
AACTTTCCAAAATTCCATTTTTACCCTTG
Found at i:51135154 original size:59 final size:59
Alignment explanation
Indices: 51134921--51135124 Score: 245
Period size: 59 Copynumber: 3.5 Consensus size: 59
51134911 TCTAGTCCCC
* *
51134921 AAACTTTCCAAAATTCCATTTTTGACCCCAAAACTTCCAAAAATTACCGTTTTACCCTC
1 AAACTTTCCAAAATTCCATTTTTAACCCCAAAACTTCCAAAAATTACCGTTTTACCCTA
*
51134980 AAACTTTCCAAACTTCCA-TTTTAACCCCAAAACTTCCAAAAATTACCGTTTTACACC-A
1 AAACTTTCCAAAATTCCATTTTTAACCCCAAAACTTCCAAAAATTACCGTTTTAC-CCTA
* *** * * *
51135038 AAACTTTCCAAAATTCCATTTTTGA--CCTTGATTTCACCAAAAATTACCATTTTACCCTT
1 AAACTTTCCAAAATTCCATTTTTAACCCCAAAACTT--CCAAAAATTACCGTTTTACCCTA
* *
51135097 GAACTTTCCAAAATTCTATTTTTAACCC
1 AAACTTTCCAAAATTCCATTTTTAACCC
51135125 TAAATTTTCC
Statistics
Matches: 124, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
57 5 0.04
58 54 0.44
59 64 0.52
61 1 0.01
ACGTcount: A:0.34, C:0.28, G:0.03, T:0.34
Consensus pattern (59 bp):
AAACTTTCCAAAATTCCATTTTTAACCCCAAAACTTCCAAAAATTACCGTTTTACCCTA
Found at i:51137116 original size:30 final size:33
Alignment explanation
Indices: 51137064--51137125 Score: 78
Period size: 30 Copynumber: 2.0 Consensus size: 33
51137054 TTCATAAATT
*
51137064 AAATAAATATTTATTTACTTAAA-TATAATTAAA
1 AAATAAATATTCATTTACTTAAATTA-AATTAAA
51137097 AAATAAAT-TTCA-TTA-TTAAATTAAATTAA
1 AAATAAATATTCATTTACTTAAATTAAATTAA
51137126 TTATAAAAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
30 11 0.41
31 5 0.19
32 3 0.11
33 8 0.30
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (33 bp):
AAATAAATATTCATTTACTTAAATTAAATTAAA
Found at i:51144139 original size:22 final size:21
Alignment explanation
Indices: 51144114--51144171 Score: 53
Period size: 22 Copynumber: 2.6 Consensus size: 21
51144104 CATAATAATG
*
51144114 AAATGACAGCAAAATAGTGAAA
1 AAAT-ACAGCAAAATAATGAAA
* *
51144136 AAATAGTAGCAAAATAATGGAA
1 AAATA-CAGCAAAATAATGAAA
*
51144158 AAATAACAACAAAA
1 AAAT-ACAGCAAAA
51144172 CAACAATTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
21 1 0.03
22 27 0.93
23 1 0.03
ACGTcount: A:0.64, C:0.09, G:0.14, T:0.14
Consensus pattern (21 bp):
AAATACAGCAAAATAATGAAA
Found at i:51148643 original size:26 final size:27
Alignment explanation
Indices: 51148593--51148643 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
51148583 AAAAGTTTGG
**
51148593 TTTTAATATTCAATTTAATTTTTGATT
1 TTTTAATATTCAATTTAATACTTGATT
51148620 TTTTAATATT-AATTTAATACTTGA
1 TTTTAATATTCAATTTAATACTTGA
51148644 GTTTAATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 12 0.55
27 10 0.45
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.59
Consensus pattern (27 bp):
TTTTAATATTCAATTTAATACTTGATT
Found at i:51148783 original size:21 final size:22
Alignment explanation
Indices: 51148727--51148783 Score: 55
Period size: 22 Copynumber: 2.6 Consensus size: 22
51148717 TACTCTAATG
*
51148727 AAAAAATATATAACTAAGATAA
1 AAAAAATATCTAACTAAGATAA
* *
51148749 AAAAATTCAGCTAA-TAA-ATAGA
1 AAAAAAT-ATCTAACTAAGATA-A
51148771 AAAAAATATCTAA
1 AAAAAATATCTAA
51148784 ATACCAAATT
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
21 8 0.29
22 16 0.57
23 4 0.14
ACGTcount: A:0.65, C:0.07, G:0.05, T:0.23
Consensus pattern (22 bp):
AAAAAATATCTAACTAAGATAA
Found at i:51149786 original size:138 final size:140
Alignment explanation
Indices: 51149531--51149789 Score: 348
Period size: 138 Copynumber: 1.9 Consensus size: 140
51149521 TTCTTCAGCT
* ** * * *
51149531 AATGTGCAATTAAAATTAATTTTTTGCTTTCTTAAGTTATATCTGAAAGTATCTATCTTTTTATA
1 AATGTGCAATTAAAATTAATTTTATAATTTCTTAAATAATATCTAAAAGTATCTATCTTTTTATA
* * *
51149596 TTATTAGTTAATTTGTAAATTAACAAAAATCAATTAAAGATGTTTATCAAAACTTTCATAGACTA
66 TTATTAATTAATTTGTAAATTAACAAAAATCAATTAAAAAGGTTTATCAAAACTTTCATAGACTA
51149661 CAAAAAATAA
131 CAAAAAATAA
51149671 AATGTG-AGATTAAAATTAA-TTTATAATTTCTTAAATAATATCTAAAAGTATCTAT-TTTTTAT
1 AATGTGCA-ATTAAAATTAATTTTATAATTTCTTAAATAATATCTAAAAGTATCTATCTTTTTAT
* * *
51149733 ATTATTAATTTATTTGTAAATTTTAA-AAAAA-CTATTAAAAAGGTTTATTAAAACTTT
65 ATTATTAATTAATTTGTAAA--TTAACAAAAATCAATTAAAAAGGTTTATCAAAACTTT
51149790 TTAGATCGAA
Statistics
Matches: 104, Mismatches: 12, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
138 47 0.45
139 36 0.35
140 21 0.20
ACGTcount: A:0.42, C:0.07, G:0.07, T:0.44
Consensus pattern (140 bp):
AATGTGCAATTAAAATTAATTTTATAATTTCTTAAATAATATCTAAAAGTATCTATCTTTTTATA
TTATTAATTAATTTGTAAATTAACAAAAATCAATTAAAAAGGTTTATCAAAACTTTCATAGACTA
CAAAAAATAA
Found at i:51150935 original size:16 final size:15
Alignment explanation
Indices: 51150900--51150943 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 15
51150890 TATGAATTTG
51150900 ATTTTAATATTTAATTTA
1 ATTTTAAT-TTT--TTTA
51150918 ATTTATAATTTTTTTA
1 ATTT-TAATTTTTTTA
51150934 ATTTTAATTT
1 ATTTTAATTT
51150944 GATACTTGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 6 0.24
16 8 0.32
18 7 0.28
19 4 0.16
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
ATTTTAATTTTTTTA
Found at i:51159530 original size:344 final size:340
Alignment explanation
Indices: 51158617--51159635 Score: 1906
Period size: 334 Copynumber: 3.0 Consensus size: 340
51158607 AATGTATAGG
* ** **
51158617 GGTAAGGTTGCTCATTTTTTTATTAGAGGGGGCAGAATATAATTCAACTTCTAATATACGAATCT
1 GGTAAGGTTGCTCATTTTTTTATTAGAGGTGATAGAATATAATTCAACTTCTAATGCACGAATCT
51158682 TCATAATACTTTTACCAAAAAAATATGGGCTTCAAGGATGGAAATGGGGTGGTCAACATGTTATC
66 TCATAATACTTTTACCAAAAAAATATGGGCTTCAAGGATGGAAATGGGGTGGTCAACATGTTATC
51158747 TTTAAGAGAGATTGACATTAGGGCTGTAAATGTAGATAGTGATCTATAATGTACTATTTGAAGAA
131 TTTAAGAGAGATTGACATTAGGGCTGTAAATGTAGATAGTGATCTATAATGTACTATTTGAAGAA
51158812 CATAAATAAATAGTTTGATTTCAGATATATATATATATATATATATATGAAATTTAGAATTATAA
196 CATAAATAAATAGTTTGATTTCAG----ATATATATATATATATATATGAAATTTAGAATTATAA
51158877 TTACAAATAATACATGTCTGAATTTAACTATATTAAAATCATAGTATAAAGCATAACTGAATTTA
257 TTACAAATAATACATGTCTGAATTTAACTATATTAAAATCATAGTATAAAGCATAACTGAATTTA
51158942 AAAAATCCGAATAAATTTA
322 AAAAATCCGAATAAATTTA
51158961 GGTAAGGTTGCTCATTTTTTTATTAGAGGTGATAGAATATAATTCAACTTCTAATGCACGAATCT
1 GGTAAGGTTGCTCATTTTTTTATTAGAGGTGATAGAATATAATTCAACTTCTAATGCACGAATCT
51159026 TCATAATACTTTTACCAAAAAAATATGGGCTTCAAGGATGGAAATGGGGTGGTCAACATGTTATC
66 TCATAATACTTTTACCAAAAAAATATGGGCTTCAAGGATGGAAATGGGGTGGTCAACATGTTATC
51159091 TTTAAGAGAGATTGACATTAGGGCTGTAAATGTAGATAGTGATCTATAATGTACTATTTGAAGAA
131 TTTAAGAGAGATTGACATTAGGGCTGTAAATGTAGATAGTGATCTATAATGTACTATTTGAAGAA
51159156 CATAAATAAATAGTTTGATTTCAG------ATATATATATATATGAAATTTAGAATTATAATTAC
196 CATAAATAAATAGTTTGATTTCAGATATATATATATATATATATGAAATTTAGAATTATAATTAC
51159215 AAATAATACATGTCTGAATTTAACTATATTAAAATCATAGTATAAAGCATAACTGAATTTAAAAA
261 AAATAATACATGTCTGAATTTAACTATATTAAAATCATAGTATAAAGCATAACTGAATTTAAAAA
51159280 ATCCGAATAAATTTA
326 ATCCGAATAAATTTA
51159295 GGTAAGGTTGCTCATTTTTTTATTAGAGGTGATAGAATATAATTCAACTTCTAATGCACGAATCT
1 GGTAAGGTTGCTCATTTTTTTATTAGAGGTGATAGAATATAATTCAACTTCTAATGCACGAATCT
51159360 TCATAATACTTTTACCAAAAAAATATGGGCTTCAAGGATGGAAATGGGGTGGTCAACATGTTATC
66 TCATAATACTTTTACCAAAAAAATATGGGCTTCAAGGATGGAAATGGGGTGGTCAACATGTTATC
51159425 TTTAAGAGAGATTGACATTAGGGCTGTAAATGTAGATAGTGATCTATAATGTACTATTTGAAGAA
131 TTTAAGAGAGATTGACATTAGGGCTGTAAATGTAGATAGTGATCTATAATGTACTATTTGAAGAA
51159490 CATAAATAAATAGTTTGATTTCAGATATATATATATATATATATGAAATTTAGAATTATAATTAC
196 CATAAATAAATAGTTTGATTTCAGATATATATATATATATATATGAAATTTAGAATTATAATTAC
*
51159555 AAATAATACATGTCTGAACTTAACTATATTAAAATCATAGTATAAAGCATAACTGAATTTAAAAA
261 AAATAATACATGTCTGAATTTAACTATATTAAAATCATAGTATAAAGCATAACTGAATTTAAAAA
51159620 ATCCGAATAAATTTA
326 ATCCGAATAAATTTA
51159635 G
1 G
51159636 ATCTAAATCA
Statistics
Matches: 663, Mismatches: 6, Indels: 16
0.97 0.01 0.02
Matches are distributed among these distances:
334 334 0.50
340 115 0.17
344 214 0.32
ACGTcount: A:0.40, C:0.10, G:0.16, T:0.35
Consensus pattern (340 bp):
GGTAAGGTTGCTCATTTTTTTATTAGAGGTGATAGAATATAATTCAACTTCTAATGCACGAATCT
TCATAATACTTTTACCAAAAAAATATGGGCTTCAAGGATGGAAATGGGGTGGTCAACATGTTATC
TTTAAGAGAGATTGACATTAGGGCTGTAAATGTAGATAGTGATCTATAATGTACTATTTGAAGAA
CATAAATAAATAGTTTGATTTCAGATATATATATATATATATATGAAATTTAGAATTATAATTAC
AAATAATACATGTCTGAATTTAACTATATTAAAATCATAGTATAAAGCATAACTGAATTTAAAAA
ATCCGAATAAATTTA
Found at i:51162769 original size:29 final size:30
Alignment explanation
Indices: 51162717--51162773 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
51162707 ATCTTTTTAG
* *
51162717 TTGATTCATTTTAATAGTACAGGGACTAAA
1 TTGATCCATTTTAATAATACAGGGACTAAA
*
51162747 TTGATCCA-TTTAATAATAGAGGGACTA
1 TTGATCCATTTTAATAATACAGGGACTA
51162774 CTATGACCCG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 17 0.71
30 7 0.29
ACGTcount: A:0.37, C:0.11, G:0.18, T:0.35
Consensus pattern (30 bp):
TTGATCCATTTTAATAATACAGGGACTAAA
Found at i:51170640 original size:10 final size:10
Alignment explanation
Indices: 51170625--51170677 Score: 51
Period size: 10 Copynumber: 5.6 Consensus size: 10
51170615 AAAAAATTTG
51170625 TTAAATATAT
1 TTAAATATAT
51170635 TTAAATATAT
1 TTAAATATAT
*
51170645 AT-AAT-TAT
1 TTAAATATAT
*
51170653 TCAAAT-T-T
1 TTAAATATAT
51170661 TATAAATATAT
1 T-TAAATATAT
51170672 TTAAAT
1 TTAAAT
51170678 CACAATAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
8 5 0.14
9 11 0.31
10 17 0.49
11 2 0.06
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (10 bp):
TTAAATATAT
Found at i:51172403 original size:15 final size:14
Alignment explanation
Indices: 51172377--51172410 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
51172367 CAATCCATTC
*
51172377 ATAAATAATAAATT
1 ATAAATAATAAATG
51172391 ATAAATAAATAAATG
1 ATAAAT-AATAAATG
51172406 ATAAA
1 ATAAA
51172411 ATTATATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (14 bp):
ATAAATAATAAATG
Found at i:51172826 original size:16 final size:18
Alignment explanation
Indices: 51172805--51172838 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
51172795 CTTTATTAAT
51172805 TTAAAA-TTTAAA-AAAA
1 TTAAAAGTTTAAATAAAA
51172821 TTAAAAGTTTAAATAAAA
1 TTAAAAGTTTAAATAAAA
51172839 AATTATTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 6 0.38
18 4 0.25
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (18 bp):
TTAAAAGTTTAAATAAAA
Found at i:51173588 original size:16 final size:18
Alignment explanation
Indices: 51173552--51173590 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 18
51173542 TTAAAAAATT
*
51173552 AATATGATTATATATAAA
1 AATATGATTAAATATAAA
51173570 AATAT-ATTAAATA-AAA
1 AATATGATTAAATATAAA
51173586 AATAT
1 AATAT
51173591 TAAATTCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 8 0.40
17 7 0.35
18 5 0.25
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (18 bp):
AATATGATTAAATATAAA
Found at i:51173590 original size:14 final size:15
Alignment explanation
Indices: 51173565--51173605 Score: 57
Period size: 14 Copynumber: 2.8 Consensus size: 15
51173555 ATGATTATAT
51173565 ATAAAAATATATTAA
1 ATAAAAATATATTAA
51173580 ATAAAAA-ATATTAA
1 ATAAAAATATATTAA
**
51173594 ATTCAAATATAT
1 ATAAAAATATAT
51173606 ATATTCTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.34
Consensus pattern (15 bp):
ATAAAAATATATTAA
Found at i:51189570 original size:30 final size:31
Alignment explanation
Indices: 51189512--51189570 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
51189502 GGGTGTCTGG
* *
51189512 TTTTTTGAAAGTTAGTAGGATTGATTTGTTA
1 TTTTTTGAAAGTTAGAAGGACTGATTTGTTA
* *
51189543 TTTTTTGAAAGTT-GAATGACTGTTTTGT
1 TTTTTTGAAAGTTAGAAGGACTGATTTGT
51189571 CATTGAGGTC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 11 0.46
31 13 0.54
ACGTcount: A:0.24, C:0.02, G:0.22, T:0.53
Consensus pattern (31 bp):
TTTTTTGAAAGTTAGAAGGACTGATTTGTTA
Found at i:51189585 original size:31 final size:31
Alignment explanation
Indices: 51189550--51189636 Score: 147
Period size: 31 Copynumber: 2.8 Consensus size: 31
51189540 TTATTTTTTG
* * *
51189550 AAAGTTGAATGACTGTTTTGTCATTGAGGTC
1 AAAGTTGAGTGATTGTTTTGTCATTGAGATC
51189581 AAAGTTGAGTGATTGTTTTGTCATTGAGATC
1 AAAGTTGAGTGATTGTTTTGTCATTGAGATC
51189612 AAAGTTGAGTGATTGTTTTGTCATT
1 AAAGTTGAGTGATTGTTTTGTCATT
51189637 TACCTTTATA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 53 1.00
ACGTcount: A:0.25, C:0.07, G:0.25, T:0.43
Consensus pattern (31 bp):
AAAGTTGAGTGATTGTTTTGTCATTGAGATC
Found at i:51190931 original size:28 final size:30
Alignment explanation
Indices: 51190865--51190938 Score: 89
Period size: 28 Copynumber: 2.5 Consensus size: 30
51190855 AGCTTATTTA
* *
51190865 TTTATAATTTTTAAATGATTAAATATAAAAT
1 TTTATCATTTTT-AATGAGTAAATATAAAAT
*
51190896 TTTATCATTTTTAA-GAGTAAA-ATATAAT
1 TTTATCATTTTTAATGAGTAAATATAAAAT
*
51190924 TTTATCATTATTAAT
1 TTTATCATTTTTAAT
51190939 TTAAAATTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
28 19 0.50
29 6 0.16
30 2 0.05
31 11 0.29
ACGTcount: A:0.43, C:0.03, G:0.04, T:0.50
Consensus pattern (30 bp):
TTTATCATTTTTAATGAGTAAATATAAAAT
Found at i:51192707 original size:25 final size:25
Alignment explanation
Indices: 51192679--51192734 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 25
51192669 TAAATTTAGT
51192679 TTTTAATTATTATATCTTTT-ATTAA
1 TTTTAATT-TTATATCTTTTAATTAA
* *
51192704 TTTT-ATTTTTTATTTTTTAATTAA
1 TTTTAATTTTATATCTTTTAATTAA
*
51192728 ATTTAAT
1 TTTTAAT
51192735 CCTTAACTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 9 0.35
24 11 0.42
25 6 0.23
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (25 bp):
TTTTAATTTTATATCTTTTAATTAA
Found at i:51194275 original size:19 final size:19
Alignment explanation
Indices: 51194240--51194290 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
51194230 TTTAACTTTA
*
51194240 AAAATTACAAAATAATTATT
1 AAAATTATAAAATAATT-TT
51194260 -AAATTATTAAAA-AATTTT
1 AAAATTA-TAAAATAATTTT
51194278 AAAATTATAAAAT
1 AAAATTATAAAAT
51194291 TTGAATTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
18 7 0.26
19 16 0.59
20 4 0.15
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (19 bp):
AAAATTATAAAATAATTTT
Done.