Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 154 of 175
Found at i:46508814 original size:48 final size:48
Alignment explanation
Indices: 46508736--46508837 Score: 116
Period size: 48 Copynumber: 2.1 Consensus size: 48
46508726 AATATTTACT
** *
46508736 AAATTAAAATTAATATAACATCAAAATTAAAACCCAAAGTTAAAACTTA
1 AAATTAAAAAAAATATAACATCAAAATTAAAACCCAAAGTTAAAAC-CA
* * ** *
46508785 AAATTAAAAAAAAT-TAACATCACAGTTAAAATTCAAATTTAAAACCA
1 AAATTAAAAAAAATATAACATCAAAATTAAAACCCAAAGTTAAAACCA
46508832 AAATTA
1 AAATTA
46508838 GCTTAAATTT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
47 7 0.16
48 26 0.58
49 12 0.27
ACGTcount: A:0.60, C:0.12, G:0.02, T:0.26
Consensus pattern (48 bp):
AAATTAAAAAAAATATAACATCAAAATTAAAACCCAAAGTTAAAACCA
Found at i:46521661 original size:294 final size:294
Alignment explanation
Indices: 46521132--46522011 Score: 1679
Period size: 294 Copynumber: 3.0 Consensus size: 294
46521122 ACCACCTATT
** *
46521132 TATACTAGTGGCTTTGAGCCAACTTTCCTAATTTAAAGTTACTATATATAGAAAGTGCATAAAAT
1 TATACTAGTGGCTTTGAGCCAACTTTCCTAATTTAAAGCCACTATACATAGAAAGTGCATAAAAT
46521197 TAGGGAAAAATATTCTCATGATCAAAATAAATCCCTACATAATCTCTTACTAAGTCAATCAGAAA
66 TAGGGAAAAATATTCTCATGATCAAAATAAATCCCTACATAATCTCTTACTAAGTCAATCAGAAA
46521262 ATTTCAGCCAATTACATCTTTTCGAAATTCCATTTCGACCCCCCTTCTTTTGCTTCTTCCTTCAA
131 ATTTCAGCCAATTACATCTTTTCGAAATTCCATTTCGACCCCCCTTCTTTTGCTTCTTCCTTCAA
* *
46521327 TTTAGTCCAATTGTTTTCTTTTTCTTCTATTTAGCCCCAAATTGCACCCCTGTATAAAATTCAAT
196 TCTAGTCCAATTGTTTCCTTTTTCTTCTATTTAGCCCCAAATTGCACCCCTGTATAAAATTCAAT
46521392 ATAAACACGGAAAAATCAGTGGTGCATTCTCAGG
261 ATAAACACGGAAAAATCAGTGGTGCATTCTCAGG
*
46521426 TATACTAGTGGCTTTGAGCCAACTTTTCTAATTTAAAGCCACTATACATAGAAAGTGCATAAAAT
1 TATACTAGTGGCTTTGAGCCAACTTTCCTAATTTAAAGCCACTATACATAGAAAGTGCATAAAAT
46521491 TAGGGAAAAATATTCTCATGATCAAAATAAATCCCTACATAATCTCTTACTAAGTCAATCAGAAA
66 TAGGGAAAAATATTCTCATGATCAAAATAAATCCCTACATAATCTCTTACTAAGTCAATCAGAAA
46521556 ATTTCAGCCAATTACATCTTTTCGAAATTCCATTTCGACCCCCCTTCTTTTGCTTCTTCCTTCAA
131 ATTTCAGCCAATTACATCTTTTCGAAATTCCATTTCGACCCCCCTTCTTTTGCTTCTTCCTTCAA
46521621 TCTAGTCCAATTGTTTCCTTTTTCTTCTATTTAGCCCCAAATTGCACCCCTGTATAAAATTCAAT
196 TCTAGTCCAATTGTTTCCTTTTTCTTCTATTTAGCCCCAAATTGCACCCCTGTATAAAATTCAAT
46521686 ATAAACACGGAAAAATCAGTGGTGCATTCTCAGG
261 ATAAACACGGAAAAATCAGTGGTGCATTCTCAGG
46521720 TATACTAGTGGCTTTGAGCCAACTTTCCTAATTTAAAGCCACTATACATAGAAAGTGCATAAAAT
1 TATACTAGTGGCTTTGAGCCAACTTTCCTAATTTAAAGCCACTATACATAGAAAGTGCATAAAAT
46521785 TAGGGAAAAATATTCTCATGATCAAAATAAATCCCTACATAATCTCTTACTAAGTCAATCAGAAA
66 TAGGGAAAAATATTCTCATGATCAAAATAAATCCCTACATAATCTCTTACTAAGTCAATCAGAAA
46521850 ATTTCAGCCAATTACATCTTTTCGAAATTCCATTTCGACCCCCCTTCTTTTGCTTCTTCCTTCAA
131 ATTTCAGCCAATTACATCTTTTCGAAATTCCATTTCGACCCCCCTTCTTTTGCTTCTTCCTTCAA
* *
46521915 TCTAGTCCAATTATTTCCTTTTTCTTCTATTTAGCCCCAAATTGCACCTCTGTATAAAATTCAAT
196 TCTAGTCCAATTGTTTCCTTTTTCTTCTATTTAGCCCCAAATTGCACCCCTGTATAAAATTCAAT
*
46521980 ATAAACATGGAAAAATCAGTGGTGCATTCTCA
261 ATAAACACGGAAAAATCAGTGGTGCATTCTCA
46522012 TAAATTGACC
Statistics
Matches: 576, Mismatches: 10, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
294 576 1.00
ACGTcount: A:0.33, C:0.22, G:0.11, T:0.35
Consensus pattern (294 bp):
TATACTAGTGGCTTTGAGCCAACTTTCCTAATTTAAAGCCACTATACATAGAAAGTGCATAAAAT
TAGGGAAAAATATTCTCATGATCAAAATAAATCCCTACATAATCTCTTACTAAGTCAATCAGAAA
ATTTCAGCCAATTACATCTTTTCGAAATTCCATTTCGACCCCCCTTCTTTTGCTTCTTCCTTCAA
TCTAGTCCAATTGTTTCCTTTTTCTTCTATTTAGCCCCAAATTGCACCCCTGTATAAAATTCAAT
ATAAACACGGAAAAATCAGTGGTGCATTCTCAGG
Found at i:46524865 original size:111 final size:111
Alignment explanation
Indices: 46524711--46524929 Score: 271
Period size: 111 Copynumber: 2.0 Consensus size: 111
46524701 ACATAATTCT
* * * * *
46524711 TATTATAAACATAAAAATAGGTTGAGCTTAAGCTTTGGATATTA-ATCTCGCACCCA-ATTTGTA
1 TATTATAAACATAAAAATAAGTTAAGCTTAAACTTTGAATATTAGA-CTCGCA-CCAGATTTATA
*
46524774 TTTTAAACAAGATTAAATTTTTGTTCAAGTCACTTCTCGAGCTTTATA
64 TTTTAAACAAGATTAAATTTTTGTTCAAGTCACTTCTCAAGCTTTATA
* * * *
46524822 TATTATAAACTTAAAAATAAGTTAAGCTTAAACTTTGAATATTAGACTTGTATCAGATTTATATT
1 TATTATAAACATAAAAATAAGTTAAGCTTAAACTTTGAATATTAGACTCGCACCAGATTTATATT
* * * * *
46524887 TTAAACGAGTTTAATTTTTTGTTTAAGTTACTTCTCAAGCTTT
66 TTAAACAAGATTAAATTTTTGTTCAAGTCACTTCTCAAGCTTT
46524930 TTTTTTATGT
Statistics
Matches: 91, Mismatches: 15, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
110 2 0.02
111 88 0.97
112 1 0.01
ACGTcount: A:0.35, C:0.12, G:0.11, T:0.42
Consensus pattern (111 bp):
TATTATAAACATAAAAATAAGTTAAGCTTAAACTTTGAATATTAGACTCGCACCAGATTTATATT
TTAAACAAGATTAAATTTTTGTTCAAGTCACTTCTCAAGCTTTATA
Found at i:46525581 original size:7 final size:7
Alignment explanation
Indices: 46525569--46525593 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
46525559 AAACAGTAGA
46525569 TTTTGCT
1 TTTTGCT
46525576 TTTTGCT
1 TTTTGCT
46525583 TTTTGCT
1 TTTTGCT
46525590 TTTT
1 TTTT
46525594 ATTCCATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.12, G:0.12, T:0.76
Consensus pattern (7 bp):
TTTTGCT
Found at i:46529000 original size:5 final size:5
Alignment explanation
Indices: 46528990--46529014 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
46528980 TTCTCATGTC
46528990 AAAAG AAAAG AAAAG AAAAG AAAAG
1 AAAAG AAAAG AAAAG AAAAG AAAAG
46529015 TGTCTAACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:46529460 original size:21 final size:21
Alignment explanation
Indices: 46529421--46529460 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
46529411 TTTACTAGTT
* * *
46529421 TCTTTTTTTTTTTACTTTTTA
1 TCTTATTTTTTATAATTTTTA
46529442 TCTTATTTTTTATAATTTT
1 TCTTATTTTTTATAATTTT
46529461 ATTAATAAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.15, C:0.07, G:0.00, T:0.78
Consensus pattern (21 bp):
TCTTATTTTTTATAATTTTTA
Found at i:46530162 original size:12 final size:12
Alignment explanation
Indices: 46530145--46530170 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
46530135 CACCATTTTA
46530145 ATATATATTGCT
1 ATATATATTGCT
46530157 ATATATATTGCT
1 ATATATATTGCT
46530169 AT
1 AT
46530171 TACAAGCTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.08, G:0.08, T:0.50
Consensus pattern (12 bp):
ATATATATTGCT
Found at i:46533742 original size:7 final size:7
Alignment explanation
Indices: 46533730--46533755 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
46533720 AAACAATTAT
46533730 TATATAA
1 TATATAA
46533737 TATATAA
1 TATATAA
46533744 TATATAA
1 TATATAA
46533751 TATAT
1 TATAT
46533756 GATAAAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (7 bp):
TATATAA
Found at i:46536138 original size:52 final size:51
Alignment explanation
Indices: 46536065--46536172 Score: 182
Period size: 52 Copynumber: 2.1 Consensus size: 51
46536055 TATTTTTTAG
*
46536065 ACTATTTTTAGGGTCTCGTAGACTCGTAATA-AGGGCTGTAAGAGTAAATTTT
1 ACTATTTTTAGGGTATCGTAGACTCGTAATAGA-GG-TGTAAGAGTAAATTTT
46536117 ACTATTTTTAGGGTATCGTAGACTCGTAATAGAGGTGTAAGAGTAAATTTT
1 ACTATTTTTAGGGTATCGTAGACTCGTAATAGAGGTGTAAGAGTAAATTTT
46536168 ACTAT
1 ACTAT
46536173 GAATTGGGGT
Statistics
Matches: 54, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
51 21 0.39
52 32 0.59
53 1 0.02
ACGTcount: A:0.31, C:0.10, G:0.22, T:0.37
Consensus pattern (51 bp):
ACTATTTTTAGGGTATCGTAGACTCGTAATAGAGGTGTAAGAGTAAATTTT
Found at i:46538008 original size:27 final size:28
Alignment explanation
Indices: 46537923--46538008 Score: 120
Period size: 28 Copynumber: 3.1 Consensus size: 28
46537913 GAATCCTACT
*
46537923 TATAAGATAGTCCTGACGGACTTCCACA
1 TATAAAATAGTCCTGACGGACTTCCACA
* * *
46537951 TATAAAATCGTCTTGATGGACTTCCACA
1 TATAAAATAGTCCTGACGGACTTCCACA
*
46537979 TATAAAATAGTCCTG-CGAACTTCCACA
1 TATAAAATAGTCCTGACGGACTTCCACA
46538006 TAT
1 TAT
46538009 TTTTTCATAA
Statistics
Matches: 50, Mismatches: 8, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
27 13 0.26
28 37 0.74
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.29
Consensus pattern (28 bp):
TATAAAATAGTCCTGACGGACTTCCACA
Found at i:46544971 original size:19 final size:18
Alignment explanation
Indices: 46544935--46544975 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
46544925 AGATTAAAGT
*
46544935 TTAATTAATTATGATTAA
1 TTAATTAATTAGGATTAA
*
46544953 GTTAATTAATTAGGTTTAA
1 -TTAATTAATTAGGATTAA
46544972 TTAA
1 TTAA
46544976 AATTAAGCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (18 bp):
TTAATTAATTAGGATTAA
Found at i:46546929 original size:28 final size:28
Alignment explanation
Indices: 46546889--46546944 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
46546879 AAAAACATGT
* *
46546889 TATAAAATTAAAAGAAATATAGAATGGA
1 TATAAAACTAAAAGAAATATAAAATGGA
46546917 TATAAAACTAAAAGAAATATAAAATGGA
1 TATAAAACTAAAAGAAATATAAAATGGA
46546945 CAAAAGAGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.62, C:0.02, G:0.12, T:0.23
Consensus pattern (28 bp):
TATAAAACTAAAAGAAATATAAAATGGA
Found at i:46556911 original size:19 final size:20
Alignment explanation
Indices: 46556887--46556935 Score: 66
Period size: 18 Copynumber: 2.5 Consensus size: 20
46556877 TGAGTTAGTA
*
46556887 ATTTATTTTATGTATTTTG-
1 ATTTATTTTATGTATATTGT
*
46556906 ATTTA-TTTATTTATATTGT
1 ATTTATTTTATGTATATTGT
46556925 ATTTATTTTAT
1 ATTTATTTTAT
46556936 TTTTTAATGT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 11 0.42
19 10 0.38
20 5 0.19
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.69
Consensus pattern (20 bp):
ATTTATTTTATGTATATTGT
Found at i:46556916 original size:14 final size:13
Alignment explanation
Indices: 46556888--46556941 Score: 56
Period size: 14 Copynumber: 3.9 Consensus size: 13
46556878 GAGTTAGTAA
*
46556888 TTTATTTTATGTAT
1 TTTA-TTTATTTAT
46556902 TTTGATTTATTTAT
1 TTT-ATTTATTTAT
46556916 TTATATTGTATTTAT
1 TT-TATT-TATTTAT
46556931 TTTATTT-TTTA
1 TTTATTTATTTA
46556942 ATGTTCATAT
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
12 4 0.11
13 1 0.03
14 20 0.56
15 11 0.31
ACGTcount: A:0.22, C:0.00, G:0.06, T:0.72
Consensus pattern (13 bp):
TTTATTTATTTAT
Found at i:46556932 original size:23 final size:25
Alignment explanation
Indices: 46556887--46556945 Score: 67
Period size: 23 Copynumber: 2.6 Consensus size: 25
46556877 TGAGTTAGTA
46556887 ATTTATTT-TATGTATTTTGA-TTT
1 ATTTATTTATATGTATTTTGATTTT
46556910 ATTTATTTATATTGTA-TTT-ATTTT
1 ATTTATTTATA-TGTATTTTGATTTT
46556934 ATTT-TTTA-ATGT
1 ATTTATTTATATGT
46556946 TCATATAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
21 3 0.09
22 1 0.03
23 13 0.39
24 12 0.36
25 4 0.12
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (25 bp):
ATTTATTTATATGTATTTTGATTTT
Found at i:46559081 original size:21 final size:20
Alignment explanation
Indices: 46559028--46559091 Score: 83
Period size: 20 Copynumber: 3.1 Consensus size: 20
46559018 CAGTTCAGCA
* *
46559028 CCCCTGATTGCACTCCAATG
1 CCCCTGATTGCACTCTAGTG
46559048 CCCCTGATTGCACTCTAGTG
1 CCCCTGATTGCACTCTAGTG
* *
46559068 CCTCTGATTTGCACTCTTGTG
1 CCCCTGA-TTGCACTCTAGTG
46559089 CCC
1 CCC
46559092 TTGTATGTAC
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
20 24 0.63
21 14 0.37
ACGTcount: A:0.14, C:0.38, G:0.17, T:0.31
Consensus pattern (20 bp):
CCCCTGATTGCACTCTAGTG
Found at i:46563809 original size:29 final size:29
Alignment explanation
Indices: 46563772--46563830 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
46563762 TACTAACAAT
* *
46563772 TTGAGCTAATTAATAACATTATAAAAATA
1 TTGAACTAATTAAGAACATTATAAAAATA
46563801 TTGAACTAATTAAGAACATTATAAAAATA
1 TTGAACTAATTAAGAACATTATAAAAATA
46563830 T
1 T
46563831 AGAGACCAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.53, C:0.07, G:0.07, T:0.34
Consensus pattern (29 bp):
TTGAACTAATTAAGAACATTATAAAAATA
Found at i:46565246 original size:30 final size:30
Alignment explanation
Indices: 46565171--46565233 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
46565161 GTACGAGTAA
* *
46565171 CCTAATATAAACTT-AGCTTGTGTGATCAAT
1 CCTAATATAAA-TTCAGCTTGTGTGAGCAAC
*
46565201 CTTAATATAAATTCAGCTTGTGTGAGCAAC
1 CCTAATATAAATTCAGCTTGTGTGAGCAAC
46565231 CCT
1 CCT
46565234 GATGTAATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 2 0.07
30 26 0.93
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.35
Consensus pattern (30 bp):
CCTAATATAAATTCAGCTTGTGTGAGCAAC
Found at i:46567200 original size:45 final size:46
Alignment explanation
Indices: 46567132--46567347 Score: 210
Period size: 45 Copynumber: 4.8 Consensus size: 46
46567122 ACCGTTACAC
* * *
46567132 GGTGG-ATCAGCACATAGC-ACCACCCTTATAATCAATTATATTC-
1 GGTGGAATCAACACATAGCAACCACCTTTATAATCAATGATATTCT
* * * ** *
46567175 GGTAGAATCATCATATAGCAACCACCTTTATTTTTAATGAT-TTCT
1 GGTGGAATCAACACATAGCAACCACCTTTATAATCAATGATATTCT
* * **
46567220 GGTGGAGTCAACACATAGCAGCCACCTTTATTTTCAATGAT-TTCT
1 GGTGGAATCAACACATAGCAACCACCTTTATAATCAATGATATTCT
* * * * *
46567265 GATGGAGTCAACACATAGCAACCACCTTTATAATCAATGGTA-CCC
1 GGTGGAATCAACACATAGCAACCACCTTTATAATCAATGATATTCT
* *
46567310 GGTGGAATTAGCACATAGCAACCACCTTTATAATCAAT
1 GGTGGAATCAACACATAGCAACCACCTTTATAATCAAT
46567348 TATACTCAAT
Statistics
Matches: 144, Mismatches: 25, Indels: 6
0.82 0.14 0.03
Matches are distributed among these distances:
43 4 0.03
44 14 0.10
45 126 0.88
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (46 bp):
GGTGGAATCAACACATAGCAACCACCTTTATAATCAATGATATTCT
Found at i:46570531 original size:30 final size:30
Alignment explanation
Indices: 46570475--46570547 Score: 76
Period size: 29 Copynumber: 2.4 Consensus size: 30
46570465 AATTTTCAAA
* * *
46570475 AAAAATTAAAAGGTACAATGAGAATTTTC-
1 AAAAATTTAAAGGTACAATAAAAATTTTCT
*
46570504 AAAAATTTAAAGGTTCTAATAAAAATTTTCT
1 AAAAATTTAAAGGTAC-AATAAAAATTTTCT
* *
46570535 GAAAATTTCAAGG
1 AAAAATTTAAAGG
46570548 GAGAAATTAA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
29 14 0.39
30 11 0.31
31 11 0.31
ACGTcount: A:0.49, C:0.07, G:0.12, T:0.32
Consensus pattern (30 bp):
AAAAATTTAAAGGTACAATAAAAATTTTCT
Found at i:46576659 original size:7 final size:7
Alignment explanation
Indices: 46576647--46576671 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
46576637 TTTGGCAAAA
46576647 ACATAAT
1 ACATAAT
46576654 ACATAAT
1 ACATAAT
46576661 ACATAAT
1 ACATAAT
46576668 ACAT
1 ACAT
46576672 TAAATTGCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (7 bp):
ACATAAT
Found at i:46584396 original size:9 final size:9
Alignment explanation
Indices: 46584382--46584430 Score: 89
Period size: 9 Copynumber: 5.4 Consensus size: 9
46584372 TTTAGTTAAA
46584382 AATTAACCG
1 AATTAACCG
46584391 AATTAACCG
1 AATTAACCG
*
46584400 AATTACCCG
1 AATTAACCG
46584409 AATTAACCG
1 AATTAACCG
46584418 AATTAACCG
1 AATTAACCG
46584427 AATT
1 AATT
46584431 GAATCACTAC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 38 1.00
ACGTcount: A:0.43, C:0.22, G:0.10, T:0.24
Consensus pattern (9 bp):
AATTAACCG
Found at i:46584481 original size:6 final size:6
Alignment explanation
Indices: 46584470--46584498 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
46584460 ACTTTTGGAC
46584470 TTTAGT TTTAGT TTTAGT TTTAGT TTTAG
1 TTTAGT TTTAGT TTTAGT TTTAGT TTTAG
46584499 AATTTTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.17, T:0.66
Consensus pattern (6 bp):
TTTAGT
Found at i:46584522 original size:20 final size:20
Alignment explanation
Indices: 46584470--46584511 Score: 61
Period size: 18 Copynumber: 2.2 Consensus size: 20
46584460 ACTTTTGGAC
46584470 TTTAGTTTTAG--TTTTAGT
1 TTTAGTTTTAGAATTTTAGT
*
46584488 TTTAGTTTTAGAATTTTATT
1 TTTAGTTTTAGAATTTTAGT
46584508 TTTA
1 TTTA
46584512 TTTATTAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 11 0.52
20 10 0.48
ACGTcount: A:0.21, C:0.00, G:0.12, T:0.67
Consensus pattern (20 bp):
TTTAGTTTTAGAATTTTAGT
Found at i:46584579 original size:18 final size:18
Alignment explanation
Indices: 46584539--46584582 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
46584529 AATTTTTATG
*
46584539 ATTGGGTTGGGTTAGGTA
1 ATTGGGTTGGGTTAGATA
46584557 ATTGGGTTGGGTT-GAATA
1 ATTGGGTTGGGTTAG-ATA
*
46584575 CTTGGGTT
1 ATTGGGTT
46584583 TGGATTGGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 1 0.04
18 22 0.96
ACGTcount: A:0.16, C:0.02, G:0.41, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTAGATA
Found at i:46584899 original size:27 final size:27
Alignment explanation
Indices: 46584869--46585279 Score: 416
Period size: 27 Copynumber: 15.2 Consensus size: 27
46584859 AACTTGCGAC
* *
46584869 AAATGATCGAAATACCCTTGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* * **
46584896 AAATTACTGAAATACCCTCGAAGGACA
1 AAATGACCGAAATACCCTCGAAGGGTA
*
46584923 AAATGACCGAAATAGCCTCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* * * *
46584950 AAATGACCAAAATACCCCCTAAGGATA
1 AAATGACCGAAATACCCTCGAAGGGTA
*
46584977 AAATGACCGAAATACCC-CAGAAAGGTA
1 AAATGACCGAAATACCCTC-GAAGGGTA
* *
46585004 AAATAACCAAAATACCCTCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
** * *
46585031 AAATGAGTGAAATACCCTCAAAAGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
** *
46585058 AAATGATTGAAATACCCTTGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
*
46585085 AAATAACCGAAATACCCTCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* * *
46585112 AAATAACTGAAATACTCGT-GAAGGGTA
1 AAATGACCGAAATAC-CCTCGAAGGGTA
* *
46585139 AAATGACAGAAATACCCTCAAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
** * **
46585166 AAATGATTGGAATACCCTTAAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* * *
46585193 AAATGATCGAAATGCCCCCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
46585220 AAATGACCGAAATA-CCTCCGAAGGGTA
1 AAATGACCGAAATACCCT-CGAAGGGTA
* * *
46585247 AAATAACTGAAATACCC-CCATAGGGTA
1 AAATGACCGAAATACCCTCGA-AGGGTA
46585274 AAATGA
1 AAATGA
46585280 TTTTTATACC
Statistics
Matches: 317, Mismatches: 60, Indels: 14
0.81 0.15 0.04
Matches are distributed among these distances:
26 7 0.02
27 305 0.96
28 5 0.02
ACGTcount: A:0.44, C:0.18, G:0.19, T:0.18
Consensus pattern (27 bp):
AAATGACCGAAATACCCTCGAAGGGTA
Found at i:46585058 original size:108 final size:107
Alignment explanation
Indices: 46584869--46585281 Score: 472
Period size: 108 Copynumber: 3.8 Consensus size: 107
46584859 AACTTGCGAC
* * * * ** *
46584869 AAATGATCGAAATACCCTTGAAGGGTAAAATTACTGAAATACCCTCGAAGGACAAAATGACCGAA
1 AAATGACCGAAATACCC-CGAAGGGTAAAATAACCGAAATACCCTCGAAGGGTAAAATGACTGAA
* * *** * *
46584934 ATAGCCTCGAAGGGTAAAATGACCAAAATACCCCCT-AAGGATA
65 ATACCCTCAAAGGGTAAAATGATTGAAATA-CCCTTAAAGGGTA
* * *
46584977 AAATGACCGAAATACCCCAGAAAGGTAAAATAACCAAAATACCCTCGAAGGGTAAAATGAGTGAA
1 AAATGACCGAAATACCCC-GAAGGGTAAAATAACCGAAATACCCTCGAAGGGTAAAATGACTGAA
* *
46585042 ATACCCTCAAAAGGTAAAATGATTGAAATACCCTTGAAGGGTA
65 ATACCCTCAAAGGGTAAAATGATTGAAATACCCTTAAAGGGTA
* * * *
46585085 AAATAACCGAAATACCCTCGAAGGGTAAAATAACTGAAATACTCGT-GAAGGGTAAAATGACAGA
1 AAATGACCGAAATACCC-CGAAGGGTAAAATAACCGAAATAC-CCTCGAAGGGTAAAATGACTGA
*
46585149 AATACCCTCAAAGGGTAAAATGATTGGAATACCCTTAAAGGGTA
64 AATACCCTCAAAGGGTAAAATGATTGAAATACCCTTAAAGGGTA
* * * *
46585193 AAATGATCGAAATGCCCCCGAAGGGTAAAATGACCGAAATA-CCTCCGAAGGGTAAAATAACTGA
1 AAATGACCGAAAT-ACCCCGAAGGGTAAAATAACCGAAATACCCT-CGAAGGGTAAAATGACTGA
* *
46585257 AATACCCCCATAGGGTAAAATGATT
64 AATACCCTCAAAGGGTAAAATGATT
46585282 TTTATACCCC
Statistics
Matches: 260, Mismatches: 38, Indels: 14
0.83 0.12 0.04
Matches are distributed among these distances:
106 2 0.01
107 4 0.02
108 248 0.95
109 6 0.02
ACGTcount: A:0.44, C:0.18, G:0.19, T:0.18
Consensus pattern (107 bp):
AAATGACCGAAATACCCCGAAGGGTAAAATAACCGAAATACCCTCGAAGGGTAAAATGACTGAAA
TACCCTCAAAGGGTAAAATGATTGAAATACCCTTAAAGGGTA
Found at i:46585696 original size:28 final size:28
Alignment explanation
Indices: 46585651--46585753 Score: 154
Period size: 28 Copynumber: 3.7 Consensus size: 28
46585641 ACTGTAATGT
* *
46585651 TACTATATTGGGCTAAGGCCTACACTGA
1 TACTGTATTGGGCTAAGGCCCACACTGA
*
46585679 TATTGTATTGGGCTAAGGCCCACACTGA
1 TACTGTATTGGGCTAAGGCCCACACTGA
46585707 TACTGTATTGGGCTAAGGCCCACACT-A
1 TACTGTATTGGGCTAAGGCCCACACTGA
*
46585734 CTACTGAATTGGGCTAAGGC
1 -TACTGTATTGGGCTAAGGC
46585754 ATTCATTATA
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
27 1 0.01
28 68 0.99
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.27
Consensus pattern (28 bp):
TACTGTATTGGGCTAAGGCCCACACTGA
Found at i:46587748 original size:23 final size:23
Alignment explanation
Indices: 46587714--46587950 Score: 206
Period size: 23 Copynumber: 10.2 Consensus size: 23
46587704 TGGACAACTC
* * *
46587714 TTATACATCAAATCGGTCAGCAT
1 TTATACACCAAATTGGACAGCAT
* *
46587737 TTATACACCAAAATTTGACGGCAT
1 TTATACACC-AAATTGGACAGCAT
* * * *
46587761 ATATATACAAAATTGGATAGCAT
1 TTATACACCAAATTGGACAGCAT
* *
46587784 TTATACACGAAATTGGGCAGCAT
1 TTATACACCAAATTGGACAGCAT
* *
46587807 ATATATACC-AATTGGACAGCAT
1 TTATACACCAAATTGGACAGCAT
* *
46587829 TTATACACGAAATTGGGCAGCAT
1 TTATACACCAAATTGGACAGCAT
* * *
46587852 ATATATACCAATTTGGACAGCAT
1 TTATACACCAAATTGGACAGCAT
* *
46587875 TTATGCACCAAAATTTGACAGCAT
1 TTATACACC-AAATTGGACAGCAT
* * *
46587899 ATATATACAAAATTGGACAGCAT
1 TTATACACCAAATTGGACAGCAT
* *
46587922 TTACACACCAAAATTTGACAGCAT
1 TTATACACC-AAATTGGACAGCAT
*
46587946 ATATA
1 TTATA
46587951 TATAATTGAT
Statistics
Matches: 164, Mismatches: 46, Indels: 7
0.76 0.21 0.03
Matches are distributed among these distances:
22 18 0.11
23 97 0.59
24 49 0.30
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.28
Consensus pattern (23 bp):
TTATACACCAAATTGGACAGCAT
Found at i:46587833 original size:45 final size:47
Alignment explanation
Indices: 46587731--46587952 Score: 306
Period size: 47 Copynumber: 4.8 Consensus size: 47
46587721 TCAAATCGGT
*
46587731 CAGCATTTATACACCAAAATTTGACGGCATATATATACAAAATTGGA
1 CAGCATTTATACACCAAAATTTGACAGCATATATATACAAAATTGGA
* * * * *
46587778 TAGCATTTATACA-CGAAATTGGGCAGCATATATATAC-CAATTGGA
1 CAGCATTTATACACCAAAATTTGACAGCATATATATACAAAATTGGA
* * * * *
46587823 CAGCATTTATACA-CGAAATTGGGCAGCATATATATACCAATTTGGA
1 CAGCATTTATACACCAAAATTTGACAGCATATATATACAAAATTGGA
*
46587869 CAGCATTTATGCACCAAAATTTGACAGCATATATATACAAAATTGGA
1 CAGCATTTATACACCAAAATTTGACAGCATATATATACAAAATTGGA
*
46587916 CAGCATTTACACACCAAAATTTGACAGCATATATATA
1 CAGCATTTATACACCAAAATTTGACAGCATATATATA
46587953 TAATTGATCT
Statistics
Matches: 156, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
45 43 0.28
46 38 0.24
47 75 0.48
ACGTcount: A:0.41, C:0.18, G:0.14, T:0.28
Consensus pattern (47 bp):
CAGCATTTATACACCAAAATTTGACAGCATATATATACAAAATTGGA
Found at i:46588596 original size:311 final size:311
Alignment explanation
Indices: 46588030--46588658 Score: 1204
Period size: 311 Copynumber: 2.0 Consensus size: 311
46588020 AATTTCATAT
46588030 ATCAAACATATATATATTTGGCATAAATTTTACTTAGGTCGAATACATAAGGAAACATTAGTATA
1 ATCAAACATATATATATTTGGCATAAATTTTACTTAGGTCGAATACATAAGGAAACATTAGTATA
*
46588095 TTCAACCTTTGCTTCAACACTAACAAAAAGAAACATCATTGGCCGAATATATATATACATTCACA
66 TTCAACCTCTGCTTCAACACTAACAAAAAGAAACATCATTGGCCGAATATATATATACATTCACA
46588160 TATACATACACATAATTCACATTAAAATATGATATTATATCATCAATTCATATATTCGACTTACC
131 TATACATACACATAATTCACATTAAAATATGATATTATATCATCAATTCATATATTCGACTTACC
* * *
46588225 ATATTTTTATAACTCGAATAAATACATACCTGAGCCTTTCTAATTTGATTTTTTATACTCGATCT
196 ATATTTTTATAACTCGAATAAATACATACCTGAGCCTTTCTAATCTGAATTTTCATACTCGATCT
46588290 TAATTTATTACAGCCCATTGAACCATTCGGAATTAAAAGGATACTCAGAAA
261 TAATTTATTACAGCCCATTGAACCATTCGGAATTAAAAGGATACTCAGAAA
46588341 ATCAAACATATATATATTTGGCATAAATTTTACTTAGGTCGAATACATAAGGAAACATTAGTATA
1 ATCAAACATATATATATTTGGCATAAATTTTACTTAGGTCGAATACATAAGGAAACATTAGTATA
*
46588406 TTCAACCTCTGCTTCAACACTAACAAAAAGAAACATCATTGGCCGAATATATATATACATTCACG
66 TTCAACCTCTGCTTCAACACTAACAAAAAGAAACATCATTGGCCGAATATATATATACATTCACA
46588471 TATACATACACATAATTCACATTAAAATATGATATTATATCATCAATTCATATATTCGACTTACC
131 TATACATACACATAATTCACATTAAAATATGATATTATATCATCAATTCATATATTCGACTTACC
*
46588536 ATATTTTTATAACTCGAATAAATATATACCTGAGCCTTTCTAATCTGAATTTTCATACTCGATCT
196 ATATTTTTATAACTCGAATAAATACATACCTGAGCCTTTCTAATCTGAATTTTCATACTCGATCT
46588601 TAATTTATTACAGCCCATTGAACCATTCGGAATTAAAAGGATACTCAGAAA
261 TAATTTATTACAGCCCATTGAACCATTCGGAATTAAAAGGATACTCAGAAA
46588652 ATCAAAC
1 ATCAAAC
46588659 GTTTCGTACA
Statistics
Matches: 312, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
311 312 1.00
ACGTcount: A:0.40, C:0.18, G:0.09, T:0.34
Consensus pattern (311 bp):
ATCAAACATATATATATTTGGCATAAATTTTACTTAGGTCGAATACATAAGGAAACATTAGTATA
TTCAACCTCTGCTTCAACACTAACAAAAAGAAACATCATTGGCCGAATATATATATACATTCACA
TATACATACACATAATTCACATTAAAATATGATATTATATCATCAATTCATATATTCGACTTACC
ATATTTTTATAACTCGAATAAATACATACCTGAGCCTTTCTAATCTGAATTTTCATACTCGATCT
TAATTTATTACAGCCCATTGAACCATTCGGAATTAAAAGGATACTCAGAAA
Found at i:46588768 original size:44 final size:43
Alignment explanation
Indices: 46588669--46588783 Score: 144
Period size: 44 Copynumber: 2.7 Consensus size: 43
46588659 GTTTCGTACA
* * * *
46588669 ATGCCATCGTCCCAAACATGGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAAACAGGGTCTTACACGTAATCACAAATCG
46588712 ATGCC-ACTGTCCCAAACAGGGTCTTACACGTAAATCACAAATCG
1 ATGCCAAC-GTCCCAAACAGGGTCTTACACGT-AATCACAAATCG
*
46588756 ATGCCAACGTCCCAGAC-GTGGTCTTACA
1 ATGCCAACGTCCCAAACAG-GGTCTTACA
46588784 TGACAACACA
Statistics
Matches: 63, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
42 1 0.02
43 27 0.43
44 33 0.52
45 2 0.03
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (43 bp):
ATGCCAACGTCCCAAACAGGGTCTTACACGTAATCACAAATCG
Found at i:46589120 original size:15 final size:15
Alignment explanation
Indices: 46589096--46589125 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
46589086 GTTATTGATC
46589096 TAAACACATTCAAAT
1 TAAACACATTCAAAT
*
46589111 TAAACTCATTCAAAT
1 TAAACACATTCAAAT
46589126 GTAATTCTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (15 bp):
TAAACACATTCAAAT
Found at i:46593999 original size:33 final size:33
Alignment explanation
Indices: 46593962--46594037 Score: 98
Period size: 33 Copynumber: 2.3 Consensus size: 33
46593952 ATTCTGATGA
* * *
46593962 TAAGACCATAACTGGGTTATGGCACTACAAATG
1 TAAGACCATAACAGGGTCATGGCAATACAAATG
* * *
46593995 TAAGACCATGACAGGGTCATGGCAATGCAAGTG
1 TAAGACCATAACAGGGTCATGGCAATACAAATG
46594028 TAAGACCATA
1 TAAGACCATA
46594038 GTTGAACTAT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.37, C:0.18, G:0.24, T:0.21
Consensus pattern (33 bp):
TAAGACCATAACAGGGTCATGGCAATACAAATG
Found at i:46596308 original size:22 final size:20
Alignment explanation
Indices: 46596272--46596330 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 20
46596262 GGCTCGGTCC
46596272 ATTT-TTTTAATAAATACCAAAA
1 ATTTATTTTAA-AAATA--AAAA
46596294 ATTTATTTTAAAAATTAAAAA
1 ATTTATTTTAAAAA-TAAAAA
**
46596315 AAGTATTTTAAAAATA
1 ATTTATTTTAAAAATA
46596331 TTTTAAAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 2 0.06
21 16 0.48
22 7 0.21
23 8 0.24
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.41
Consensus pattern (20 bp):
ATTTATTTTAAAAATAAAAA
Found at i:46596349 original size:10 final size:11
Alignment explanation
Indices: 46596312--46596429 Score: 87
Period size: 11 Copynumber: 11.4 Consensus size: 11
46596302 TAAAAATTAA
46596312 AAAAAGTATTTT
1 AAAAA-TATTTT
46596324 AAAAATATTTT
1 AAAAATATTTT
46596335 AAAAATA-TTT
1 AAAAATATTTT
*
46596345 -GAAA-A--TT
1 AAAAATATTTT
*
46596352 AAAAAAATTTT
1 AAAAATATTTT
46596363 AAAAAGTATTTT
1 AAAAA-TATTTT
46596375 AAAAATATTTT
1 AAAAATATTTT
46596386 --AAA-A--TT
1 AAAAATATTTT
* *
46596392 AGAAAATA-ATA
1 A-AAAATATTTT
46596403 AAAAAGTATTTT
1 AAAAA-TATTTT
46596415 AAAAATATTTT
1 AAAAATATTTT
46596426 AAAA
1 AAAA
46596430 TTAAAAAAAT
Statistics
Matches: 88, Mismatches: 6, Indels: 25
0.74 0.05 0.21
Matches are distributed among these distances:
6 2 0.02
7 2 0.02
8 5 0.06
9 10 0.11
10 8 0.09
11 40 0.45
12 21 0.24
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.37
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:46596355 original size:17 final size:17
Alignment explanation
Indices: 46596333--46596366 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
46596323 TAAAAATATT
*
46596333 TTAAAAATATTTGAAAA
1 TTAAAAAAATTTGAAAA
*
46596350 TTAAAAAAATTTTAAAA
1 TTAAAAAAATTTGAAAA
46596367 AGTATTTTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (17 bp):
TTAAAAAAATTTGAAAA
Found at i:46596367 original size:51 final size:49
Alignment explanation
Indices: 46596303--46596429 Score: 159
Period size: 51 Copynumber: 2.5 Consensus size: 49
46596293 AATTTATTTT
** *
46596303 AAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAAATATTTGAAAAT-TAA
1 AAAAATTTTAAAAAGTATTTTAAAAATATTTT--AAA-ATTAGAAAATATAA
46596354 AAAAATTTTAAAAAGTATTTTAAAAATATTTTAAAATTAGAAAATAATAA
1 AAAAATTTTAAAAAGTATTTTAAAAATATTTTAAAATTAGAAAAT-ATAA
46596404 AAAAGTATTTTAAAAA-TATTTTAAAA
1 AAAA--ATTTTAAAAAGTATTTTAAAA
46596430 TTAAAAAAAT
Statistics
Matches: 69, Mismatches: 3, Indels: 8
0.86 0.04 0.10
Matches are distributed among these distances:
48 9 0.13
49 3 0.04
50 7 0.10
51 40 0.58
52 10 0.14
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (49 bp):
AAAAATTTTAAAAAGTATTTTAAAAATATTTTAAAATTAGAAAATATAA
Found at i:46596373 original size:40 final size:40
Alignment explanation
Indices: 46596297--46596447 Score: 200
Period size: 40 Copynumber: 3.7 Consensus size: 40
46596287 ACCAAAAATT
*
46596297 TATTTTAAAAATTAAAAAAAGTATTTTAAAAA-TATTTTAAAAA
1 TATTTT-AAAATT-AAAAAA--ATTTAAAAAAGTATTTTAAAAA
* *
46596340 TATTTGAAAATTAAAAAAATTTTAAAAAGTATTTTAAAAA
1 TATTTTAAAATTAAAAAAATTTAAAAAAGTATTTTAAAAA
46596380 TATTTTAAAATTAGAAAATAA--TAAAAAAGTATTTTAAAAA
1 TATTTTAAAATTA-AAAA-AATTTAAAAAAGTATTTTAAAAA
46596420 TATTTTAAAATTAAAAAAATTTAAAAAA
1 TATTTTAAAATTAAAAAAATTTAAAAAA
46596448 TAAATATATT
Statistics
Matches: 100, Mismatches: 3, Indels: 13
0.86 0.03 0.11
Matches are distributed among these distances:
38 2 0.02
39 14 0.14
40 61 0.61
41 10 0.10
42 8 0.08
43 5 0.05
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (40 bp):
TATTTTAAAATTAAAAAAATTTAAAAAAGTATTTTAAAAA
Found at i:46596459 original size:17 final size:17
Alignment explanation
Indices: 46596414--46596459 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
46596404 AAAAGTATTT
* *
46596414 TAAAAATATTTTAAAAT
1 TAAAAATATTTAAAAAA
*
46596431 TAAAAAAATTTAAAAAA
1 TAAAAATATTTAAAAAA
*
46596448 TAAATATATTTA
1 TAAAAATATTTA
46596460 TTATATCGAG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
TAAAAATATTTAAAAAA
Found at i:46620868 original size:3 final size:3
Alignment explanation
Indices: 46620860--46620899 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
46620850 TGACTCTGTT
46620860 GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA G
1 GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA G
46620900 ATGAGGAAGG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.68, T:0.00
Consensus pattern (3 bp):
GGA
Found at i:46636691 original size:6 final size:6
Alignment explanation
Indices: 46636682--46636706 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
46636672 TTTAAATTTT
46636682 ATATTA ATATTA ATATTA ATATTA A
1 ATATTA ATATTA ATATTA ATATTA A
46636707 ATAAAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
ATATTA
Found at i:46637967 original size:31 final size:29
Alignment explanation
Indices: 46637929--46638003 Score: 87
Period size: 29 Copynumber: 2.5 Consensus size: 29
46637919 AACGGCTCAA
* *
46637929 TGACTAAAATGTTACAACGTGATAACATAAG
1 TGACTAAAATGTAAC-ACGTCA-AACATAAG
* **
46637960 TGACTAAAACGTAACATTTCAAACATAAG
1 TGACTAAAATGTAACACGTCAAACATAAG
46637989 TGACTAAAATGTAAC
1 TGACTAAAATGTAAC
46638004 CTGAGCCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
29 22 0.58
30 3 0.08
31 13 0.34
ACGTcount: A:0.47, C:0.15, G:0.13, T:0.25
Consensus pattern (29 bp):
TGACTAAAATGTAACACGTCAAACATAAG
Found at i:46638126 original size:23 final size:23
Alignment explanation
Indices: 46638065--46638128 Score: 69
Period size: 23 Copynumber: 2.7 Consensus size: 23
46638055 TAATATAAAA
*
46638065 TTTAAATTTATTATTATATATTT
1 TTTAAATTTATTATGATATATTT
*
46638088 TTTGAAA-ATATTTATGATATA-TT
1 TTT-AAATTTA-TTATGATATATTT
46638111 TTTAAATTTATATATGAT
1 TTTAAATTTAT-TATGAT
46638129 TTCATTTCAA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
22 4 0.12
23 18 0.53
24 12 0.35
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.58
Consensus pattern (23 bp):
TTTAAATTTATTATGATATATTT
Found at i:46640397 original size:21 final size:21
Alignment explanation
Indices: 46640335--46640425 Score: 65
Period size: 21 Copynumber: 4.3 Consensus size: 21
46640325 CCAGCTTTAT
* * *
46640335 TGAGCTTCAGTTTAACCTTTA
1 TGAGCTTCTGTTCAACCCTTA
* * * *
46640356 TGGGTTTCTGTTCAGCTCTTA
1 TGAGCTTCTGTTCAACCCTTA
*
46640377 TGAGCTTCCGTTCAACCCTTA
1 TGAGCTTCTGTTCAACCCTTA
* * * *
46640398 CGAGTTTCTGTTTAACACTTA
1 TGAGCTTCTGTTCAACCCTTA
*
46640419 TGTGCTT
1 TGAGCTT
46640426 TCGATTAGCC
Statistics
Matches: 50, Mismatches: 20, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
21 50 1.00
ACGTcount: A:0.18, C:0.22, G:0.18, T:0.43
Consensus pattern (21 bp):
TGAGCTTCTGTTCAACCCTTA
Found at i:46640405 original size:42 final size:42
Alignment explanation
Indices: 46640274--46640409 Score: 130
Period size: 42 Copynumber: 3.2 Consensus size: 42
46640264 AGCTCTCACA
* * ** * *
46640274 AGTTTCTGTTCAACTCATATGAATTTTCGTTCAACCCTAATG
1 AGTTTCTGTTCAGCTCTTATGAGCTTCCGTTCAACCCTTATG
* * * * * *
46640316 GGTTTCTATCCAGCT-TTATTGAGCTTCAGTTTAACCTTTATG
1 AGTTTCTGTTCAGCTCTTA-TGAGCTTCCGTTCAACCCTTATG
* *
46640358 GGTTTCTGTTCAGCTCTTATGAGCTTCCGTTCAACCCTTACG
1 AGTTTCTGTTCAGCTCTTATGAGCTTCCGTTCAACCCTTATG
46640400 AGTTTCTGTT
1 AGTTTCTGTT
46640410 TAACACTTAT
Statistics
Matches: 73, Mismatches: 19, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
41 2 0.03
42 68 0.93
43 3 0.04
ACGTcount: A:0.19, C:0.22, G:0.16, T:0.43
Consensus pattern (42 bp):
AGTTTCTGTTCAGCTCTTATGAGCTTCCGTTCAACCCTTATG
Found at i:46640419 original size:42 final size:42
Alignment explanation
Indices: 46640335--46640425 Score: 101
Period size: 42 Copynumber: 2.2 Consensus size: 42
46640325 CCAGCTTTAT
* * * * * *
46640335 TGAGCTTCAGTTTAACCTTTATGGGTTTCTGTTCAGCTCTTA
1 TGAGCTTCAGTTCAACCCTTACGAGTTTCTGTTCAACACTTA
* *
46640377 TGAGCTTCCGTTCAACCCTTACGAGTTTCTGTTTAACACTTA
1 TGAGCTTCAGTTCAACCCTTACGAGTTTCTGTTCAACACTTA
*
46640419 TGTGCTT
1 TGAGCTT
46640426 TCGATTAGCC
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.18, C:0.22, G:0.18, T:0.43
Consensus pattern (42 bp):
TGAGCTTCAGTTCAACCCTTACGAGTTTCTGTTCAACACTTA
Found at i:46645182 original size:14 final size:14
Alignment explanation
Indices: 46645142--46645175 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
46645132 AATATAATAG
46645142 TTAATTTT-AG-TT
1 TTAATTTTAAGTTT
46645154 TTAATTTTAAGTTT
1 TTAATTTTAAGTTT
46645168 TTAATTTT
1 TTAATTTT
46645176 TGGTTTTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 8 0.40
13 2 0.10
14 10 0.50
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (14 bp):
TTAATTTTAAGTTT
Found at i:46645496 original size:7 final size:7
Alignment explanation
Indices: 46645484--46645510 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
46645474 TTCTCATTTT
46645484 CTTCCTG
1 CTTCCTG
46645491 CTTCCTG
1 CTTCCTG
46645498 CTTCCTG
1 CTTCCTG
46645505 CTTCCT
1 CTTCCT
46645511 AAAATTATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.00, C:0.44, G:0.11, T:0.44
Consensus pattern (7 bp):
CTTCCTG
Found at i:46647542 original size:20 final size:19
Alignment explanation
Indices: 46647514--46647553 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
46647504 TAAAGTTTAC
46647514 TTTTAATA-TATAAATTATA
1 TTTTAATATTA-AAATTATA
46647533 TTTTAGATATTAAAATTATA
1 TTTTA-ATATTAAAATTATA
46647553 T
1 T
46647554 ATAAACTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.26
20 12 0.63
21 2 0.11
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (19 bp):
TTTTAATATTAAAATTATA
Found at i:46648258 original size:6 final size:6
Alignment explanation
Indices: 46648247--46648298 Score: 50
Period size: 6 Copynumber: 8.3 Consensus size: 6
46648237 AACCTCGAAC
* * * *
46648247 CTCAAA CTCAAA CTCAAA CTCAAAA TTTAAA CCCTAAA CTCAAA CCCAAA
1 CTCAAA CTCAAA CTCAAA CTC-AAA CTCAAA CTC-AAA CTCAAA CTCAAA
46648297 CT
1 CT
46648299 TAGGGTTTAA
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
6 27 0.75
7 9 0.25
ACGTcount: A:0.48, C:0.33, G:0.00, T:0.19
Consensus pattern (6 bp):
CTCAAA
Found at i:46648940 original size:11 final size:11
Alignment explanation
Indices: 46648924--46648954 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
46648914 TATATATATT
46648924 TAAAAATTATA
1 TAAAAATTATA
*
46648935 TAAAAATAATA
1 TAAAAATTATA
46648946 TAAAAATTA
1 TAAAAATTA
46648955 ATACGGGCGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
TAAAAATTATA
Found at i:46656491 original size:20 final size:20
Alignment explanation
Indices: 46656466--46656516 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
46656456 AATTAATAAG
*
46656466 CCTTAATTAATTAA-ACTAAA
1 CCTTAATTAACTAATACT-AA
46656486 CCTTAATTAACTAATACTAA
1 CCTTAATTAACTAATACTAA
*
46656506 GCTTAATTAAC
1 CCTTAATTAAC
46656517 AAAAAATTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 25 0.89
21 3 0.11
ACGTcount: A:0.45, C:0.18, G:0.02, T:0.35
Consensus pattern (20 bp):
CCTTAATTAACTAATACTAA
Found at i:46658437 original size:13 final size:13
Alignment explanation
Indices: 46658416--46658455 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
46658406 CTTAAATCAA
46658416 ACTTTTCAAAAGT
1 ACTTTTCAAAAGT
* **
46658429 ACTTCTCAAAAAC
1 ACTTTTCAAAAGT
46658442 ACTTTTCAAAAGT
1 ACTTTTCAAAAGT
46658455 A
1 A
46658456 TTGCTAAACT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.42, C:0.20, G:0.05, T:0.33
Consensus pattern (13 bp):
ACTTTTCAAAAGT
Found at i:46659474 original size:17 final size:18
Alignment explanation
Indices: 46659454--46659487 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
46659444 GGGAAACATT
46659454 TATTTTAATGT-TTTTAG
1 TATTTTAATGTATTTTAG
*
46659471 TATTTTTATGTATTTTA
1 TATTTTAATGTATTTTA
46659488 TATATATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.24, C:0.00, G:0.09, T:0.68
Consensus pattern (18 bp):
TATTTTAATGTATTTTAG
Found at i:46666847 original size:17 final size:16
Alignment explanation
Indices: 46666812--46666850 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
46666802 GATAAAAATG
46666812 AATTTTATTTTTATTA
1 AATTTTATTTTTATTA
46666828 AATTTATATGTTTT-TTA
1 AATTT-TAT-TTTTATTA
46666845 AATTTT
1 AATTTT
46666851 TATAATATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
16 6 0.29
17 11 0.52
18 4 0.19
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (16 bp):
AATTTTATTTTTATTA
Found at i:46682183 original size:18 final size:18
Alignment explanation
Indices: 46682149--46682186 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
46682139 AAATCCTAAT
46682149 TTCTCATTTCTTTCTTTC
1 TTCTCATTTCTTTCTTTC
46682167 TTCTC-TTTCTTTCCTTTC
1 TTCTCATTTCTTT-CTTTC
46682185 TT
1 TT
46682187 TTCTCCCTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.03, C:0.29, G:0.00, T:0.68
Consensus pattern (18 bp):
TTCTCATTTCTTTCTTTC
Found at i:46682261 original size:14 final size:14
Alignment explanation
Indices: 46682235--46682273 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
46682225 TTTTTCTTTT
46682235 CTTTATT-TATTTA
1 CTTTATTATATTTA
*
46682248 TTTTATTATATTTA
1 CTTTATTATATTTA
46682262 CTTTATTATATT
1 CTTTATTATATT
46682274 ATATATTTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 6 0.26
14 17 0.74
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (14 bp):
CTTTATTATATTTA
Found at i:46682268 original size:19 final size:18
Alignment explanation
Indices: 46682238--46682277 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
46682228 TTCTTTTCTT
*
46682238 TATTTATTTATTTTATTA
1 TATTTATTTATTATATTA
46682256 TATTTACTTTATTATATTA
1 TATTTA-TTTATTATATTA
46682275 TAT
1 TAT
46682278 ATTTACTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (18 bp):
TATTTATTTATTATATTA
Found at i:46682291 original size:19 final size:21
Alignment explanation
Indices: 46682254--46682293 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
46682244 TTTATTTTAT
*
46682254 TATATTTACTTTATTATATTA
1 TATATTTACTTTATAATATTA
46682275 TATATTTAC-TTA-AATATTA
1 TATATTTACTTTATAATATTA
46682294 AGTAATACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
20 3 0.17
21 9 0.50
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (21 bp):
TATATTTACTTTATAATATTA
Found at i:46683375 original size:27 final size:27
Alignment explanation
Indices: 46683323--46683375 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
46683313 CTGAATCAAT
* * **
46683323 AAAATTAAACTCCAATACAATTTTTAA
1 AAAATTAAAATCCAAAACAAAATTTAA
46683350 AAAATTAAAATCCAAAACAAAATTTA
1 AAAATTAAAATCCAAAACAAAATTTA
46683376 GAGAGAAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.58, C:0.13, G:0.00, T:0.28
Consensus pattern (27 bp):
AAAATTAAAATCCAAAACAAAATTTAA
Found at i:46684813 original size:98 final size:98
Alignment explanation
Indices: 46684644--46684838 Score: 345
Period size: 98 Copynumber: 2.0 Consensus size: 98
46684634 ATACAATAAA
*
46684644 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATC
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATC
46684709 CCTTTAGAATCCCAAACTCGGAATATTTCCTTT
66 CCTTTAGAATCCCAAACTCGGAATATTTCCTTT
* *
46684742 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATC
* *
46684807 TCTTTAGAATCTCAAACTCGGAATATTTCCTT
66 CCTTTAGAATCCCAAACTCGGAATATTTCCTT
46684839 CATGATTTTA
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 92 1.00
ACGTcount: A:0.36, C:0.25, G:0.11, T:0.28
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATC
CCTTTAGAATCCCAAACTCGGAATATTTCCTTT
Found at i:46685914 original size:19 final size:19
Alignment explanation
Indices: 46685890--46685943 Score: 108
Period size: 19 Copynumber: 2.8 Consensus size: 19
46685880 AATCATATAT
46685890 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
46685909 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
46685928 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
46685944 CTCAAAAATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 35 1.00
ACGTcount: A:0.35, C:0.17, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:46686333 original size:44 final size:44
Alignment explanation
Indices: 46686278--46686740 Score: 188
Period size: 44 Copynumber: 10.5 Consensus size: 44
46686268 AAAATCCACC
*
46686278 ATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGAA
1 ATCTTCAATCTACTCCACTACTGCTTAGGGAGATAAGATCTGAA
* * *
46686322 ATCTTCAATCTATTCCACTATTGCCTAGGGA-AGT-AGAAT-T-ACTA
1 ATCTTCAATCTACTCCACTACTGCTTAGGGAGA-TAAG-ATCTGA--A
* * ** * * *
46686366 GT-TTCAATGTACTCCACTGTAAC--CACAGGGAGGTAAAATC-CACA
1 ATCTTCAATCTACTCCAC--T-ACTGCTTAGGGAGATAAGATCTGA-A
*
46686410 ATCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAA
1 ATCTTCAATCTACTCCACTACTGCTTAGGGAGATAAGATCTGAA
* * ** *
46686454 ATCTTCAATCTATTCCACTGCTGCCCAGGGA-AGT-AGAAT-T-ACT
1 ATCTTCAATCTACTCCACTACTGCTTAGGGAGA-TAAG-ATCTGA-A
* * * ** * * * * **
46686497 AGCTTCAATGTACTCCACTA-TAACCAAATGGAGGTAAAATCCGCC
1 ATCTTCAATCTACTCCACTACT--GCTTAGGGAGATAAGATCTGAA
* * *
46686542 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTA
1 ATCTTCAATCTACTCCACTACTGCTTAGGGAGATAAGATCTGAA
* ** ** *
46686586 ATCTTCAATCTATTCCACTGTTGCCCAGGGA-AGT-AGAAT-T-ACT
1 ATCTTCAATCTACTCCACTACTGCTTAGGGAGA-TAAG-ATCTGA-A
* * * ** * * * **
46686629 AGCTTCAATGTACTCCACTA-TACCACAGGGAGGTAAAATCCGCT
1 ATCTTCAATCTACTCCACTACT-GCTTAGGGAGATAAGATCTGAA
* *
46686673 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAA
1 ATCTTCAATCTACTCCACTACTGCTTAGGGAGATAAGATCTGAA
* *
46686717 ATCTTCAATCTATTCCACTGCTGC
1 ATCTTCAATCTACTCCACTACTGC
46686741 CCAGAGAAGT
Statistics
Matches: 297, Mismatches: 88, Indels: 68
0.66 0.19 0.15
Matches are distributed among these distances:
42 6 0.02
43 68 0.23
44 186 0.63
45 35 0.12
46 2 0.01
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (44 bp):
ATCTTCAATCTACTCCACTACTGCTTAGGGAGATAAGATCTGAA
Found at i:46686414 original size:132 final size:132
Alignment explanation
Indices: 46686172--46687090 Score: 1382
Period size: 132 Copynumber: 7.0 Consensus size: 132
46686162 CTGCAACTGC
* * *
46686172 AGGGAGATAAGA-CTTACAATCTTCAACCTATTCCACTGCTGACCAGGG-AGATAGAATTACT-G
1 AGGGAGATAAGATCTGA-AATCTTCAATCTATTCCACTGCTGCCCAGGGAAG-TAGAATTACTAG
* * * *
46686234 ACTTCAATGTACTCCACTGTAACCACAGAGAGGTAAAATCCACCATCTTCGATCTACTCCACTAC
64 -CTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTAC
46686299 TGCTT
128 TGCTT
** * *
46686304 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTATTGCCTAGGGAAGTAGAATTACTAGTT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTAGCT
* * * *
46686369 TCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCACAATCTTCAATCTGCTCCACTACTGC
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
46686434 TT
131 TT
46686436 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTAGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTAGCT
* *
46686501 TCAATGTACTCCACTATAACCAAATGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
46686566 TT
131 TT
* *
46686568 AGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTAGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTAGCT
*
46686633 TCAATGTACTCCACTAT-ACCACAGGGAGGTAAAATCCGCTATCTTCGATCTGCTCCACTACTGC
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
46686697 TT
131 TT
* * *
46686699 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGAGAAGTAGAATTATTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTAGCT
* * ** *
46686764 TCAATGTACTCCTCTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGTTTCGCTGTCAA
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTG-CTC-CACT-AC
46686829 TGC--
128 TGCTT
* ** ** * *
46686832 AGGAAGGCAAGATCTGCTATCTTTAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTAGCT
*
46686897 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTACTCCACTACTGC
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
46686962 TT
131 TT
*
46686964 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTAGCT
* * *
46687029 TCAATGTACTCCACTATAACCACATGGAGGTAAAATCCGCCATCTTCAATCTGCTCGACTAC
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTAC
46687091 AAACGAGGAA
Statistics
Matches: 717, Mismatches: 61, Indels: 18
0.90 0.08 0.02
Matches are distributed among these distances:
130 4 0.01
131 124 0.17
132 467 0.65
133 116 0.16
134 2 0.00
135 4 0.01
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.28
Consensus pattern (132 bp):
AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTAGCT
TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
TT
Found at i:46687042 original size:43 final size:43
Alignment explanation
Indices: 46686856--46687043 Score: 107
Period size: 44 Copynumber: 4.3 Consensus size: 43
46686846 TGCTATCTTT
*
46686856 AATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTC
1 AATCTACTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTC
* * * * * ** ***
46686899 AATGTACTCCACT-ATAACCACAGGGAGGTAAAATCCGCCATCTTC
1 AATCTACTCCACTGCT-GCC-CAGGGAAGTAGAAT-TACTGGCTTC
* * ** *
46686944 GATCTACTCCACTACTGCTTAGGG-AGATA-AGA-T-CTGAAATCTTC
1 AATCTACTCCACTGCTGCCCAGGGAAG-TAGA-ATTACTG---GCTTC
*
46686988 AATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTC
1 AATCTACTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTC
*
46687031 AATGTACTCCACT
1 AATCTACTCCACT
46687044 ATAACCACAT
Statistics
Matches: 103, Mismatches: 29, Indels: 26
0.65 0.18 0.16
Matches are distributed among these distances:
41 1 0.01
42 1 0.01
43 30 0.29
44 46 0.45
45 21 0.20
46 4 0.04
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (43 bp):
AATCTACTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTC
Found at i:46688354 original size:13 final size:12
Alignment explanation
Indices: 46688338--46688371 Score: 50
Period size: 13 Copynumber: 2.7 Consensus size: 12
46688328 TTCACTTTCA
46688338 TTTTTTGTTTTTG
1 TTTTTT-TTTTTG
46688351 TTTTTATTTTTTG
1 TTTTT-TTTTTTG
46688364 TTTTTTTT
1 TTTTTTTT
46688372 AATCTGAACT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 3 0.15
13 16 0.80
14 1 0.05
ACGTcount: A:0.03, C:0.00, G:0.09, T:0.88
Consensus pattern (12 bp):
TTTTTTTTTTTG
Found at i:46692068 original size:98 final size:98
Alignment explanation
Indices: 46691899--46692093 Score: 345
Period size: 98 Copynumber: 2.0 Consensus size: 98
46691889 ATATAATAAA
*
46691899 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATC
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATC
*
46691964 CCTTTAGAATCCCATACTCGGAATATTTCCTTT
66 CCTTTAGAATCCCAAACTCGGAATATTTCCTTT
* *
46691997 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATC
*
46692062 CCTTTAGAATCTCAAACTCGGAATATTTCCTT
66 CCTTTAGAATCCCAAACTCGGAATATTTCCTT
46692094 CATGATTTTT
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 92 1.00
ACGTcount: A:0.36, C:0.25, G:0.11, T:0.28
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATC
CCTTTAGAATCCCAAACTCGGAATATTTCCTTT
Found at i:46693174 original size:19 final size:19
Alignment explanation
Indices: 46693150--46693241 Score: 157
Period size: 19 Copynumber: 4.8 Consensus size: 19
46693140 AATCATATAT
46693150 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
46693169 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
46693188 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
46693207 TCTAGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
46693226 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
46693242 CTCAAAAATT
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 67 1.00
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:46693197 original size:38 final size:38
Alignment explanation
Indices: 46693127--46693241 Score: 158
Period size: 38 Copynumber: 2.9 Consensus size: 38
46693117 AAATTAAATC
*
46693127 TCTAAGATTACAAAATCATATATTCTAAGATTGCATATCATA
1 TCTAAGATTAC-ATATC--ATA-TCTAAGATTGCATATCATA
*
46693169 TCTAAGATTATATATCATATCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATATCTAAGATTGCATATCATA
* *
46693207 TCTAGGATTGCATATCATATCTAAGATTGCATATC
1 TCTAAGATTACATATCATATCTAAGATTGCATATC
46693242 CTCAAAAATT
Statistics
Matches: 68, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
38 51 0.75
39 3 0.04
41 4 0.06
42 10 0.15
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.37
Consensus pattern (38 bp):
TCTAAGATTACATATCATATCTAAGATTGCATATCATA
Found at i:46695559 original size:23 final size:23
Alignment explanation
Indices: 46695533--46695608 Score: 134
Period size: 23 Copynumber: 3.3 Consensus size: 23
46695523 AATAGTGCCA
46695533 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
46695556 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
46695579 CACTGAGATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
46695602 CATTGAT
1 CACTGAT
46695609 CAATAACACT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 50 1.00
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.22
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:46695860 original size:18 final size:17
Alignment explanation
Indices: 46695834--46695872 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
46695824 ATTTTCCTTC
46695834 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
46695851 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
46695869 CACA
1 CACA
46695873 ATTTATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:46697071 original size:21 final size:21
Alignment explanation
Indices: 46697046--46697085 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
46697036 CCACCATGAG
* *
46697046 TAGTTAATTGGCCATGTCAGC
1 TAGTTAATGGGCCACGTCAGC
46697067 TAGTTAATGGGCCACGTCA
1 TAGTTAATGGGCCACGTCA
46697086 CTTGTCTCGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (21 bp):
TAGTTAATGGGCCACGTCAGC
Found at i:46711644 original size:18 final size:18
Alignment explanation
Indices: 46711621--46711659 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
46711611 ACGTTCTTCG
46711621 TCGGCAGAGTACTGGTTT
1 TCGGCAGAGTACTGGTTT
46711639 TCGGCAGAGTACTGGTTT
1 TCGGCAGAGTACTGGTTT
46711657 TCG
1 TCG
46711660 AGGGAAGCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.15, C:0.18, G:0.33, T:0.33
Consensus pattern (18 bp):
TCGGCAGAGTACTGGTTT
Found at i:46711763 original size:26 final size:26
Alignment explanation
Indices: 46711727--46711781 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
46711717 GGATGGGGCG
46711727 GTTCCTAGGCAAAAGGTGAGATACTT
1 GTTCCTAGGCAAAAGGTGAGATACTT
46711753 GTTCCTAGGCAAAAGGTGAGATACTT
1 GTTCCTAGGCAAAAGGTGAGATACTT
46711779 GTT
1 GTT
46711782 TAAGGAAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (26 bp):
GTTCCTAGGCAAAAGGTGAGATACTT
Found at i:46720747 original size:52 final size:48
Alignment explanation
Indices: 46720728--46721028 Score: 366
Period size: 46 Copynumber: 6.3 Consensus size: 48
46720718 TGACAAGTGG
* *
46720728 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
* **
46720774 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
* *
46720822 GTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC--
1 ----AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
46720872 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-A---A
* *
46720924 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
** *
46720970 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
46721016 AAAGTGATAAGTG
1 AAAGTGATAAGTG
46721029 GCTACACTTA
Statistics
Matches: 226, Mismatches: 17, Indels: 24
0.85 0.06 0.09
Matches are distributed among these distances:
46 141 0.62
52 85 0.38
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (48 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
Found at i:46720782 original size:98 final size:98
Alignment explanation
Indices: 46720662--46721017 Score: 640
Period size: 98 Copynumber: 3.6 Consensus size: 98
46720652 TTTGAGTACT
*
46720662 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
46720727 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
*
46720760 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
46720825 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
**
46720858 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
* *
46720923 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
46720956 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAA
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAA
46721018 AGTGATAAGT
Statistics
Matches: 249, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
98 249 1.00
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.29
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:46721036 original size:37 final size:37
Alignment explanation
Indices: 46720992--46721137 Score: 233
Period size: 37 Copynumber: 4.0 Consensus size: 37
46720982 GATAGCTTTA
*
46720992 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
46721029 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
* *
46721066 GCTACACTTATCTGATCAAAAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
46721103 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
46721138 ATCATACGTA
Statistics
Matches: 102, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
35 11 0.11
36 3 0.03
37 88 0.86
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:46726262 original size:16 final size:16
Alignment explanation
Indices: 46726241--46726308 Score: 102
Period size: 16 Copynumber: 4.2 Consensus size: 16
46726231 TTTGGTTCGC
46726241 TGTATTGGATTAGAGA
1 TGTATTGGATTAGAGA
46726257 TGTATTGGATTAGA-A
1 TGTATTGGATTAGAGA
*
46726272 GTGTATTGGATTAGAGG
1 -TGTATTGGATTAGAGA
*
46726289 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGA
46726305 TGTA
1 TGTA
46726309 ATAGCAAATC
Statistics
Matches: 49, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
15 1 0.02
16 48 0.98
ACGTcount: A:0.28, C:0.00, G:0.34, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGA
Found at i:46726280 original size:32 final size:32
Alignment explanation
Indices: 46726241--46726308 Score: 118
Period size: 32 Copynumber: 2.1 Consensus size: 32
46726231 TTTGGTTCGC
46726241 TGTATTGGATTAGAGATGTATTGGATTAGAAG
1 TGTATTGGATTAGAGATGTATTGGATTAGAAG
* *
46726273 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATTGGATTAGAGATGTATTGGATTAGAAG
46726305 TGTA
1 TGTA
46726309 ATAGCAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.28, C:0.00, G:0.34, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAGATGTATTGGATTAGAAG
Found at i:46735726 original size:16 final size:17
Alignment explanation
Indices: 46735705--46735754 Score: 57
Period size: 16 Copynumber: 2.9 Consensus size: 17
46735695 TTAAAATTGA
46735705 TATAAATTTATAAAA-T
1 TATAAATTTATAAAACT
* *
46735721 TATAAAATAATAATAACT
1 TATAAATTTATAA-AACT
46735739 TATAAATATTATAAAA
1 TATAAAT-TTATAAAA
46735755 ATAATAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
16 11 0.41
17 2 0.07
18 9 0.33
19 5 0.19
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (17 bp):
TATAAATTTATAAAACT
Found at i:46735772 original size:28 final size:26
Alignment explanation
Indices: 46735712--46735803 Score: 98
Period size: 28 Copynumber: 3.4 Consensus size: 26
46735702 TGATATAAAT
*
46735712 TTATAAAATTAT-AAAATAATAATAAC
1 TTATAAAATTATAAAAATAATAA-AAA
46735738 TTATAAATATTATAAAAATAATAAAAA
1 TTATAAA-ATTATAAAAATAATAAAAA
* *
46735765 TTAGT-AAATTTTAATAAATTATAAAAAA
1 TTA-TAAAATTATAA-AAATAAT-AAAAA
46735793 TTATAAAATTA
1 TTATAAAATTA
46735804 ATTTTATAAA
Statistics
Matches: 56, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
26 13 0.23
27 19 0.34
28 24 0.43
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.37
Consensus pattern (26 bp):
TTATAAAATTATAAAAATAATAAAAA
Found at i:46735828 original size:22 final size:23
Alignment explanation
Indices: 46735783--46735868 Score: 67
Period size: 24 Copynumber: 3.8 Consensus size: 23
46735773 TTTTAATAAA
46735783 TTATAAAAAATTATAAAATTAATT
1 TTATAAAAAATTATAAAA-TAATT
46735807 TTATAAAAACA-TATAAAA-AATT
1 TTATAAAAA-ATTATAAAATAATT
*
46735829 TTA-AAAACGAATCATAAAA-AA--
1 TTATAAAA--AATTATAAAATAATT
**
46735850 TTATTGAAAATTATAAAAT
1 TTATAAAAAATTATAAAAT
46735869 GATTAAAAGT
Statistics
Matches: 52, Mismatches: 4, Indels: 15
0.73 0.06 0.21
Matches are distributed among these distances:
20 9 0.17
21 7 0.13
22 10 0.19
23 9 0.17
24 16 0.31
25 1 0.02
ACGTcount: A:0.60, C:0.03, G:0.02, T:0.34
Consensus pattern (23 bp):
TTATAAAAAATTATAAAATAATT
Found at i:46735898 original size:11 final size:10
Alignment explanation
Indices: 46735770--46735929 Score: 87
Period size: 10 Copynumber: 15.4 Consensus size: 10
46735760 AAAAATTAGT
* *
46735770 AAATTTTAAT
1 AAATTATAAA
46735780 AAATTATAAA
1 AAATTATAAA
46735790 AAATTATAAA
1 AAATTATAAA
46735800 ATTAATTTTATAAA
1 A--AA--TTATAAA
46735814 AACA-TATAAA
1 AA-ATTATAAA
*
46735824 AAATTTTAAAA
1 AAATTAT-AAA
*
46735835 ACGAATCATAAA
1 A--AATTATAAA
**
46735847 AAATTATTGA
1 AAATTATAAA
46735857 AAATTAT--A
1 AAATTATAAA
* *
46735865 AAATGAT-TA
1 AAATTATAAA
* *
46735874 AAAGTATTAA
1 AAATTATAAA
46735884 AAATTAATAAA
1 AAATT-ATAAA
46735895 AAATTAT-AA
1 AAATTATAAA
46735904 AAATTATAAACA
1 AAATTAT-AA-A
*
46735916 AAATCATAAA
1 AAATTATAAA
46735926 AAAT
1 AAAT
46735930 GAATTGGACC
Statistics
Matches: 120, Mismatches: 15, Indels: 30
0.73 0.09 0.18
Matches are distributed among these distances:
8 7 0.06
9 16 0.13
10 54 0.45
11 16 0.13
12 14 0.12
13 5 0.04
14 8 0.07
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (10 bp):
AAATTATAAA
Found at i:46735911 original size:9 final size:9
Alignment explanation
Indices: 46735681--46735913 Score: 89
Period size: 9 Copynumber: 24.0 Consensus size: 9
46735671 ATAAAAAATT
*
46735681 AATTATTAA
1 AATTATAAA
* *
46735690 AATTGTTAA
1 AATTATAAA
*
46735699 AATTGATATA
1 AATT-ATAAA
46735709 AATT-TATAA
1 AATTATA-AA
46735718 AATTAT-AA
1 AATTATAAA
*
46735726 AATAATAATA
1 AATTATAA-A
*
46735736 ACTTATAAA
1 AATTATAAA
*
46735745 TATTATAAA
1 AATTATAAA
*
46735754 AATAATAAA
1 AATTATAAA
46735763 AATTAGT--A
1 AATTA-TAAA
*
46735771 AATTTTAATA
1 AATTATAA-A
46735781 AATTATAAAA
1 AATTAT-AAA
46735791 AATTATAAAA
1 AATTAT-AAA
46735801 TTAATTTTATAAA
1 --AA--TTATAAA
*
46735814 AACATATAAAA
1 AA-TTAT-AAA
*
46735825 AATTTTAAAAA
1 AA--TTATAAA
*
46735836 CGAATCATAAAA
1 --AATTAT-AAA
*
46735848 AATTATTGAA
1 AATTA-TAAA
46735858 AATTAT-AA
1 AATTATAAA
* *
46735866 AATGATTAA
1 AATTATAAA
*
46735875 AAGTATTAAA
1 AATTA-TAAA
46735885 AATTAATAAAA
1 AATT-AT-AAA
46735896 AATTATAAA
1 AATTATAAA
46735905 AATTATAAA
1 AATTATAAA
46735914 CAAAATCATA
Statistics
Matches: 171, Mismatches: 29, Indels: 48
0.69 0.12 0.19
Matches are distributed among these distances:
7 1 0.01
8 21 0.12
9 55 0.32
10 55 0.32
11 23 0.13
12 7 0.04
13 5 0.03
14 4 0.02
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (9 bp):
AATTATAAA
Found at i:46742553 original size:25 final size:23
Alignment explanation
Indices: 46742509--46742555 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
46742499 ATTATATATT
*
46742509 AAATATATATTTTATTTTTAATC
1 AAATATATATTTTATATTTAATC
46742532 AAATATATATTATATATATTTAAT
1 AAATATATATT-T-TATATTTAAT
46742556 TTGGGCCGGG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 11 0.52
24 1 0.05
25 9 0.43
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (23 bp):
AAATATATATTTTATATTTAATC
Found at i:46743071 original size:22 final size:22
Alignment explanation
Indices: 46743045--46743093 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
46743035 ATATCTAAAC
46743045 AATAACAGTAAAATAGTAGCAA
1 AATAACAGTAAAATAGTAGCAA
* * *
46743067 CATAATAGTGAAATAGTAGCAA
1 AATAACAGTAAAATAGTAGCAA
46743089 AATAA
1 AATAA
46743094 GAAGAAAACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.57, C:0.08, G:0.14, T:0.20
Consensus pattern (22 bp):
AATAACAGTAAAATAGTAGCAA
Found at i:46744511 original size:16 final size:16
Alignment explanation
Indices: 46744489--46744535 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
46744479 CACTGGAATA
46744489 GAATAGAGTTGTAATG
1 GAATAGAGTTGTAATG
* *
46744505 TAATAGAGATGTAATG
1 GAATAGAGTTGTAATG
46744521 GAATA-ACGTTGTAAT
1 GAATAGA-GTTGTAAT
46744536 CAGTAATCAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
15 1 0.04
16 25 0.96
ACGTcount: A:0.40, C:0.02, G:0.26, T:0.32
Consensus pattern (16 bp):
GAATAGAGTTGTAATG
Found at i:46745175 original size:3 final size:3
Alignment explanation
Indices: 46745167--46745195 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
46745157 TCTGACTCCA
46745167 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
46745196 AAATTTTATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:46748922 original size:6 final size:6
Alignment explanation
Indices: 46748911--46748938 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
46748901 TGTCAAAGAT
46748911 ATATAC ATATAC ATATAC ATATAC ATAT
1 ATATAC ATATAC ATATAC ATATAC ATAT
46748939 TTGGTCATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (6 bp):
ATATAC
Found at i:46750919 original size:7 final size:7
Alignment explanation
Indices: 46750907--46750933 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
46750897 AACAAAATGC
46750907 ATTTTAT
1 ATTTTAT
46750914 ATTTTAT
1 ATTTTAT
46750921 ATTTTAT
1 ATTTTAT
46750928 ATTTTA
1 ATTTTA
46750934 AAAATATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (7 bp):
ATTTTAT
Found at i:46753230 original size:18 final size:18
Alignment explanation
Indices: 46753207--46753241 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
46753197 ACTCTGTAAT
46753207 TAGTTTAAATTTAATTTC
1 TAGTTTAAATTTAATTTC
46753225 TAGTTTAAATTTAATTT
1 TAGTTTAAATTTAATTT
46753242 TTAAATTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.34, C:0.03, G:0.06, T:0.57
Consensus pattern (18 bp):
TAGTTTAAATTTAATTTC
Found at i:46753272 original size:23 final size:23
Alignment explanation
Indices: 46753246--46753320 Score: 96
Period size: 23 Copynumber: 3.3 Consensus size: 23
46753236 TAATTTTTAA
*
46753246 ATTTTGAATTATTTAGTGATAAT
1 ATTTAGAATTATTTAGTGATAAT
* * *
46753269 ATTTAGGATTGTTTAGCGATAAT
1 ATTTAGAATTATTTAGTGATAAT
* *
46753292 ATTTAGTATTTTTTAGTGATAAT
1 ATTTAGAATTATTTAGTGATAAT
46753315 ATTTAG
1 ATTTAG
46753321 GAAAAATCTA
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.32, C:0.01, G:0.16, T:0.51
Consensus pattern (23 bp):
ATTTAGAATTATTTAGTGATAAT
Found at i:46753273 original size:13 final size:13
Alignment explanation
Indices: 46753255--46753320 Score: 63
Period size: 13 Copynumber: 5.5 Consensus size: 13
46753245 AATTTTGAAT
46753255 TATTTAGTGATAA
1 TATTTAGTGATAA
46753268 TATTTAG-GAT--
1 TATTTAGTGATAA
* *
46753278 TGTTTAGCGATAA
1 TATTTAGTGATAA
46753291 TATTTAGT-AT--
1 TATTTAGTGATAA
*
46753301 TTTTTAGTGATAA
1 TATTTAGTGATAA
46753314 TATTTAG
1 TATTTAG
46753321 GAAAAATCTA
Statistics
Matches: 42, Mismatches: 5, Indels: 12
0.71 0.08 0.20
Matches are distributed among these distances:
10 13 0.31
11 5 0.12
12 5 0.12
13 19 0.45
ACGTcount: A:0.32, C:0.02, G:0.17, T:0.50
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:46755338 original size:227 final size:225
Alignment explanation
Indices: 46754936--46755532 Score: 867
Period size: 227 Copynumber: 2.6 Consensus size: 225
46754926 CCTGAAGAAC
* *
46754936 TAGTGGCGTTTCTAAAAAAACACCGTAAAAGAACATAATTAGTGGCGTTTA-TTGTAAGCGCCGC
1 TAGTGGCGTTTTTAAAAAAACACCGTAAAAGAACATAATTAGTGGCGTTTATTTGTATGCGCCGC
* * * *
46755000 AAAATACCTTAACCAAAACGCAGCG-TTGGTTCAATTGTATATTAGAATAAGTGGCATTTTTTTA
66 AAAATACCTTAACCAAAACGCAGCGTTTGGTTCAGTTGTATATTAGAAT-TGTGGC-GTTTTCTA
46755064 TAAAAACGCCGCTAAAGAATAGTATTAGCGGCGTTTAACAAAAAGCGCCGCAAATATCTTAAGGA
129 T-AAAACGCCGC-AAAGAATAGTATTAGCGGCGTTTAACAAAAAGCGCCGCAAATATCTTAAGGA
*
46755129 AAACGCACTGTTTTATCTTGAGGTAGATTAATAT
192 AAACGCACTGTTTCATCTTGAGGTAGATTAATAT
* * *
46755163 TAGTGGCGTTTTTAAAAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTTGGATGCGCCAC
1 TAGTGGCGTTTTTAAAAAAACACCGTAAAAGAACATAATTAGTGGCGTTTATTTGTATGCGCCGC
*
46755228 AAAATACCTTAACCAAAACGCAACGTTTGGTTCAGTTGTATATTAGACATTGTGGCGTTTTCTAT
66 AAAATACCTTAACCAAAACGCAGCGTTTGGTTCAGTTGTATATTAGA-ATTGTGGCGTTTTCTAT
* * ** *
46755293 AAAACGCCGCAGAAGAATAGTATTCGCGGCGTTT-TCGGTAAAGCGCCGCAAATATCTTAATGAA
130 AAAACGCCGCA-AAGAATAGTATTAGCGGCGTTTAAC-AAAAAGCGCCGCAAATATCTTAAGGAA
* *
46755357 AACGCACTGTTTCGTCTTGAGGTAGATTAGTAT
193 AACGCACTGTTTCATCTTGAGGTAGATTAATAT
* *
46755390 TAGTGGCGTTTTTAAAAAAACACCGTAAAAGAACATAATTAGTGGCGTTTATTTTTATTCGCCGC
1 TAGTGGCGTTTTTAAAAAAACACCGTAAAAGAACATAATTAGTGGCGTTTATTTGTATGCGCCGC
** ** * *
46755455 AAAATACCTTAACCAAAACGCAGCGTTTGGTTTTGAGGTATATTAGAATTAGTGGCGTTTACGAT
66 AAAATACCTTAACCAAAACGCAGCGTTTGGTTCAGTTGTATATTAGAATT-GTGGCGTTTTCTAT
46755520 AAAACGCCGCAAA
130 AAAACGCCGCAAA
46755533 CATCTTAACG
Statistics
Matches: 334, Mismatches: 30, Indels: 13
0.89 0.08 0.03
Matches are distributed among these distances:
226 7 0.02
227 259 0.78
228 41 0.12
229 25 0.07
230 2 0.01
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.29
Consensus pattern (225 bp):
TAGTGGCGTTTTTAAAAAAACACCGTAAAAGAACATAATTAGTGGCGTTTATTTGTATGCGCCGC
AAAATACCTTAACCAAAACGCAGCGTTTGGTTCAGTTGTATATTAGAATTGTGGCGTTTTCTATA
AAACGCCGCAAAGAATAGTATTAGCGGCGTTTAACAAAAAGCGCCGCAAATATCTTAAGGAAAAC
GCACTGTTTCATCTTGAGGTAGATTAATAT
Found at i:46755506 original size:114 final size:113
Alignment explanation
Indices: 46754931--46755514 Score: 499
Period size: 114 Copynumber: 5.1 Consensus size: 113
46754921 TAAAACCTGA
* * * *
46754931 AGAACTAGTGGCGTTTCTAAAAAAACACCGTAAAAGAACATAATTAGTGGCGTTTA-TTGTAAGC
1 AGAATTAGTGGCGTTTTTAAAAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTTGAAAGC
** *
46754995 GCCGCAAAATACCTTAACCAAAACGCAGCG-TTGG-TTCAATTGTATATT
66 GCCGCAAAATACCTTAACCAAAACGCA-CGTTTGGTTTTGA-GGTATATT
* * * * * ****
46755043 AGAATAAGTGGCATTTTTTTATAAAAACGCCGCT-AAAGAATAGT-ATTAGCGGCGTTTAACAAA
1 AGAATTAGTGGC--GTTTTTAAAAAAACGCCG-TAAAAGAACA-TAATTAGTGGCGTTTATTTGA
* ** ** * *
46755106 AAGCGCCGC-AAATATCTTAAGGAAAACGCACTGTTTTATCTTGAGGTAGATT
62 AAGCGCCGCAAAATACCTTAACCAAAACGCAC-GTTTGGTTTTGAGGTATATT
* *
46755158 A-ATATTAGTGGCGTTTTTAAAAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTTGGATG
1 AGA-ATTAGTGGCGTTTTTAAAAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTTGAAAG
* ** **
46755222 CGCCACAAAATACCTTAACCAAAACGCAACGTTTGGTTCAGTTGTATATT
65 CGCCGCAAAATACCTTAACCAAAACGC-ACGTTTGGTTTTGAGGTATATT
* * * * * * **
46755272 AGACATT-GTGGCGTTTTCT-ATAAAACGCCGCAGAAGAATAGT-ATTCGCGGCGTTT-TCGGTA
1 AGA-ATTAGTGGCGTTTT-TAAAAAAACGCCGTAAAAGAACA-TAATTAGTGGCGTTTATTTG-A
* ** * * *
46755333 AAGCGCCGC-AAATATCTTAATGAAAACGCACTGTTTCGTCTTGAGGTAGATT
62 AAGCGCCGCAAAATACCTTAACCAAAACGCAC-GTTTGGTTTTGAGGTATATT
* * ** **
46755385 AGTATTAGTGGCGTTTTTAAAAAAACACCGTAAAAGAACATAATTAGTGGCGTTTATTTTTATTC
1 AGAATTAGTGGCGTTTTTAAAAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTTGAAAGC
46755450 GCCGCAAAATACCTTAACCAAAACGCAGCGTTTGGTTTTGAGGTATATT
66 GCCGCAAAATACCTTAACCAAAACGCA-CGTTTGGTTTTGAGGTATATT
46755499 AGAATTAGTGGCGTTT
1 AGAATTAGTGGCGTTT
46755515 ACGATAAAAC
Statistics
Matches: 360, Mismatches: 88, Indels: 46
0.73 0.18 0.09
Matches are distributed among these distances:
112 19 0.05
113 122 0.34
114 180 0.50
115 37 0.10
116 2 0.01
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (113 bp):
AGAATTAGTGGCGTTTTTAAAAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTTGAAAGC
GCCGCAAAATACCTTAACCAAAACGCACGTTTGGTTTTGAGGTATATT
Found at i:46755564 original size:188 final size:188
Alignment explanation
Indices: 46755320--46755714 Score: 637
Period size: 188 Copynumber: 2.1 Consensus size: 188
46755310 TAGTATTCGC
* * * * *
46755320 GGCGTTTTCGGTAAAGCGCCGCAAATATCTTAATGAAAACGCACTGTTTCGTCTTGAGGTAGATT
1 GGCGTTTACGGTAAAACGCCGCAAACATCTTAACGAAAACGCACCGTTTCGTCTTGAGGTAGATT
* ** **
46755385 AGTATTAGTGGCGTTTTTAAAAAAACACCGTAAAAGAACATAATTAGTGGCGTTTATTTTTATTC
66 AATATTAGTGGCGTTTTTAAAAAAACACCGTAAAAGAACATAATTAGTGGCGTTTATTTGGAAGC
46755450 GCCGCAAAATACCTTAACCAAAACGCAGCGTTTGGTTTTGAGGTATATTAGAATTAGT
131 GCCGCAAAATACCTTAACCAAAACGCAGCGTTTGGTTTTGAGGTATATTAGAATTAGT
* *
46755508 GGCGTTTACGATAAAACGCCGCAAACATCTTAACGAAAACGCACCGTTTGGTCTTGAGGTAGATT
1 GGCGTTTACGGTAAAACGCCGCAAACATCTTAACGAAAACGCACCGTTTCGTCTTGAGGTAGATT
*
46755573 AATATTAGTGGCGTTTTTAAAAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTTGGAAGC
66 AATATTAGTGGCGTTTTTAAAAAAACACCGTAAAAGAACATAATTAGTGGCGTTTATTTGGAAGC
* * *
46755638 GCCGCAAAATGCCTTAACCAAAACGCAGTGTTTGGTTTTGATGTATATTAGAATTAGT
131 GCCGCAAAATACCTTAACCAAAACGCAGCGTTTGGTTTTGAGGTATATTAGAATTAGT
*
46755696 GGCGTTTATGGTAAAACGC
1 GGCGTTTACGGTAAAACGC
46755715 TGCTAAAGAA
Statistics
Matches: 189, Mismatches: 18, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
188 189 1.00
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.31
Consensus pattern (188 bp):
GGCGTTTACGGTAAAACGCCGCAAACATCTTAACGAAAACGCACCGTTTCGTCTTGAGGTAGATT
AATATTAGTGGCGTTTTTAAAAAAACACCGTAAAAGAACATAATTAGTGGCGTTTATTTGGAAGC
GCCGCAAAATACCTTAACCAAAACGCAGCGTTTGGTTTTGAGGTATATTAGAATTAGT
Found at i:46755565 original size:74 final size:74
Alignment explanation
Indices: 46755449--46755588 Score: 203
Period size: 74 Copynumber: 1.9 Consensus size: 74
46755439 TATTTTTATT
* * *
46755449 CGCCGCAAAATACCTTAACCAAAACGCAGCGTTTGGTTTTGAGGTATATTAGA-ATTAGTGGCGT
1 CGCCGCAAAATA-CTTAACCAAAACGCACCGTTTGGTCTTGAGGTAGATTA-ATATTAGTGGCGT
46755513 TTACGATAAAA
64 TTACGATAAAA
*
46755524 CGCCGCAAACAT-CTTAACGAAAACGCACCGTTTGGTCTTGAGGTAGATTAATATTAGTGGCGTT
1 CGCCGCAAA-ATACTTAACCAAAACGCACCGTTTGGTCTTGAGGTAGATTAATATTAGTGGCGTT
46755588 T
65 T
46755589 TTAAAAAAAC
Statistics
Matches: 59, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
73 1 0.02
74 47 0.80
75 9 0.15
76 2 0.03
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.29
Consensus pattern (74 bp):
CGCCGCAAAATACTTAACCAAAACGCACCGTTTGGTCTTGAGGTAGATTAATATTAGTGGCGTTT
ACGATAAAA
Found at i:46755598 original size:74 final size:74
Alignment explanation
Indices: 46755449--46755607 Score: 196
Period size: 74 Copynumber: 2.1 Consensus size: 74
46755439 TATTTTTATT
* * *
46755449 CGCCGCAAAATACCTTAACCAAAACGCAGCGTTTGGTTTTGAGGTATATTAGAATTAGTGGCGTT
1 CGCCGCAAAATA-CTTAACCAAAACGCACCGTTTGGTCTTGAGGTAGATTAGAATTAGTGGCGTT
* *
46755514 TACGATAAAA
65 TACAAAAAAA
*
46755524 CGCCGCAAACAT-CTTAACGAAAACGCACCGTTTGGTCTTGAGGTAGATTA-ATATTAGTGGCGT
1 CGCCGCAAA-ATACTTAACCAAAACGCACCGTTTGGTCTTGAGGTAGATTAGA-ATTAGTGGCGT
**
46755587 TTTTAAAAAAA
64 TTACAAAAAAA
*
46755598 CGCCGTAAAA
1 CGCCGCAAAA
46755608 GAACATAATT
Statistics
Matches: 73, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
73 2 0.03
74 60 0.82
75 9 0.12
76 2 0.03
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (74 bp):
CGCCGCAAAATACTTAACCAAAACGCACCGTTTGGTCTTGAGGTAGATTAGAATTAGTGGCGTTT
ACAAAAAAA
Found at i:46755723 original size:114 final size:113
Alignment explanation
Indices: 46755524--46755741 Score: 246
Period size: 114 Copynumber: 1.9 Consensus size: 113
46755514 TACGATAAAA
*
46755524 CGCCGCAAACATCTTAACGAAAACGCACCGTTTGGTCTTGAGGTAGATTAATATTAGTGGCGTTT
1 CGCCGCAAACATCTTAACCAAAACGCACCGTTTGGTCTTGAGGTAGATTAATATTAGTGGCGTTT
* *
46755589 TTAAAAAAACGCCGTAAAAGAACA-TAATTAGTGGCGTTTATTTGGAAG
66 ATAAAAAAACGCCGTAAAAGAACAGT-ATTAGCGGCGTTTATTTGGAAG
** * * *
46755637 CGCCGCAAA-ATGCCTTAACCAAAACGCAGTGTTTGGTTTTGATGTATATTAGA-ATTAGTGGCG
1 CGCCGCAAACAT--CTTAACCAAAACGCACCGTTTGGTCTTGAGGTAGATTA-ATATTAGTGGCG
*** * *
46755700 TTTATGGTAAAACGCTGCT-AAAGAATAGTATTAGCGGCGTTT
63 TTTATAAAAAAACGCCG-TAAAAGAACAGTATTAGCGGCGTTT
46755742 TCGGTAAAGC
Statistics
Matches: 87, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
112 2 0.02
113 9 0.10
114 73 0.84
115 3 0.03
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.30
Consensus pattern (113 bp):
CGCCGCAAACATCTTAACCAAAACGCACCGTTTGGTCTTGAGGTAGATTAATATTAGTGGCGTTT
ATAAAAAAACGCCGTAAAAGAACAGTATTAGCGGCGTTTATTTGGAAG
Found at i:46756116 original size:52 final size:52
Alignment explanation
Indices: 46756059--46756157 Score: 126
Period size: 52 Copynumber: 1.9 Consensus size: 52
46756049 GAGGTACAAT
* * * *
46756059 TTTAAGTTTTATAGATTATGGATTAGGGATTCTGGTTTAAGGGTTAATGTGA
1 TTTAAGGTTTATAGATTAGGGATTAGGGATTATGGGTTAAGGGTTAATGTGA
* * * *
46756111 TTTAAGGTTTATGGATTAGGGGTTAGGGGTTATGGGTTAGGGGTTAA
1 TTTAAGGTTTATAGATTAGGGATTAGGGATTATGGGTTAAGGGTTAA
46756158 GGGTTAGATG
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
52 39 1.00
ACGTcount: A:0.24, C:0.01, G:0.33, T:0.41
Consensus pattern (52 bp):
TTTAAGGTTTATAGATTAGGGATTAGGGATTATGGGTTAAGGGTTAATGTGA
Found at i:46756136 original size:7 final size:7
Alignment explanation
Indices: 46756126--46756164 Score: 60
Period size: 7 Copynumber: 5.6 Consensus size: 7
46756116 GGTTTATGGA
46756126 TTAGGGG
1 TTAGGGG
46756133 TTAGGGG
1 TTAGGGG
*
46756140 TTATGGG
1 TTAGGGG
46756147 TTAGGGG
1 TTAGGGG
*
46756154 TTAAGGG
1 TTAGGGG
46756161 TTAG
1 TTAG
46756165 ATGTTAAGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.18, C:0.00, G:0.49, T:0.33
Consensus pattern (7 bp):
TTAGGGG
Found at i:46756170 original size:14 final size:14
Alignment explanation
Indices: 46756130--46756177 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
46756120 TATGGATTAG
* *
46756130 GGGTTAGGGGTTAT
1 GGGTTAGAGGTTAA
*
46756144 GGGTTAGGGGTTAA
1 GGGTTAGAGGTTAA
*
46756158 GGGTTAGATGTTAA
1 GGGTTAGAGGTTAA
*
46756172 GAGTTA
1 GGGTTA
46756178 TGGTTTAGAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.23, C:0.00, G:0.44, T:0.33
Consensus pattern (14 bp):
GGGTTAGAGGTTAA
Found at i:46756170 original size:21 final size:21
Alignment explanation
Indices: 46756112--46756163 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
46756102 TTAATGTGAT
* *
46756112 TTAAGGTTTATGGATTAGGGG
1 TTAAGGGTTATGGGTTAGGGG
*
46756133 TTAGGGGTTATGGGTTAGGGG
1 TTAAGGGTTATGGGTTAGGGG
46756154 TTAAGGGTTA
1 TTAAGGGTTA
46756164 GATGTTAAGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.21, C:0.00, G:0.42, T:0.37
Consensus pattern (21 bp):
TTAAGGGTTATGGGTTAGGGG
Found at i:46756235 original size:7 final size:7
Alignment explanation
Indices: 46756223--46756319 Score: 88
Period size: 7 Copynumber: 13.9 Consensus size: 7
46756213 TAAATAAGTT
46756223 TTAGGGG
1 TTAGGGG
46756230 TTAGGGG
1 TTAGGGG
* *
46756237 TTAGAGA
1 TTAGGGG
* *
46756244 TCATGGG
1 TTAGGGG
*
46756251 TTAAGGGT
1 TT-AGGGG
46756259 TTA-GGG
1 TTAGGGG
*
46756265 TTAAGGG
1 TTAGGGG
*
46756272 TTAAGGG
1 TTAGGGG
*
46756279 TTAAGGG
1 TTAGGGG
*
46756286 TTAGGAG
1 TTAGGGG
*
46756293 TTAAGGG
1 TTAGGGG
46756300 TTAGGGG
1 TTAGGGG
46756307 TTAGGGG
1 TTAGGGG
46756314 TTAGGG
1 TTAGGG
46756320 ATTGGGTTAT
Statistics
Matches: 73, Mismatches: 15, Indels: 4
0.79 0.16 0.04
Matches are distributed among these distances:
6 5 0.07
7 63 0.86
8 5 0.07
ACGTcount: A:0.23, C:0.01, G:0.46, T:0.30
Consensus pattern (7 bp):
TTAGGGG
Found at i:46756265 original size:14 final size:13
Alignment explanation
Indices: 46756248--46756319 Score: 99
Period size: 14 Copynumber: 5.2 Consensus size: 13
46756238 TAGAGATCAT
46756248 GGGTTAAGGGTTTA
1 GGGTTAAGGG-TTA
46756262 GGGTTAAGGGTTAA
1 GGGTTAAGGGTT-A
46756276 GGGTTAAGGGTTA
1 GGGTTAAGGGTTA
46756289 GGAGTTAAGGGTTA
1 GG-GTTAAGGGTTA
*
46756303 GGGGTTAGGGGTTA
1 -GGGTTAAGGGTTA
46756317 GGG
1 GGG
46756320 ATTGGGTTAT
Statistics
Matches: 54, Mismatches: 1, Indels: 7
0.87 0.02 0.11
Matches are distributed among these distances:
13 8 0.15
14 44 0.81
15 2 0.04
ACGTcount: A:0.22, C:0.00, G:0.49, T:0.29
Consensus pattern (13 bp):
GGGTTAAGGGTTA
Found at i:46756272 original size:21 final size:21
Alignment explanation
Indices: 46756248--46756343 Score: 94
Period size: 21 Copynumber: 4.7 Consensus size: 21
46756238 TAGAGATCAT
46756248 GGGTTAAGGGTTTAGGGTTAA
1 GGGTTAAGGGTTTAGGGTTAA
*
46756269 GGGTTAAGGGTTAAGGGTT-A
1 GGGTTAAGGGTTTAGGGTTAA
*
46756289 GGAGTTAAGGG-TTAGGGGTTAG
1 GG-GTTAAGGGTTTA-GGGTTAA
* *
46756311 GGGTT-AGGGATT-GGGTTAT
1 GGGTTAAGGGTTTAGGGTTAA
*
46756330 GGTTTAA-GGTTTAG
1 GGGTTAAGGGTTTAG
46756344 ATTAATTAGT
Statistics
Matches: 63, Mismatches: 6, Indels: 13
0.77 0.07 0.16
Matches are distributed among these distances:
19 14 0.22
20 11 0.17
21 36 0.57
22 2 0.03
ACGTcount: A:0.22, C:0.00, G:0.45, T:0.33
Consensus pattern (21 bp):
GGGTTAAGGGTTTAGGGTTAA
Found at i:46756477 original size:95 final size:96
Alignment explanation
Indices: 46756286--46756474 Score: 220
Period size: 95 Copynumber: 2.0 Consensus size: 96
46756276 GGGTTAAGGG
* * * *
46756286 TTAGGAGTTAAGGGTTAGGGGTTAGGGGTTAGGGATTGGGTTATGGTTTAAGGTTTAGATTAATT
1 TTAGGAGTTAAGGGTTAGGGGTTAGGGGTTAGGGATCGGGTTAGGGATTAAGATTTAGATTAATT
* * * * *
46756351 AGTGTTTTTTATTTTATATATTAAATAAAGT
66 AGTCTTATTTAATTAACATATTAAATAAAGT
* * * * *
46756382 TTAGGGGTTAGGGGTTA-GGGTTATGGGTT-TGGAGTCGGGTTAGGGATTAAGATTTGGATTAAT
1 TTAGGAGTTAAGGGTTAGGGGTTAGGGGTTAGGGA-TCGGGTTAGGGATTAAGATTTAGATTAAT
46756445 TAGTACTTATTTAATTAACATATTAAATAA
65 TAGT-CTTATTTAATTAACATATTAAATAA
46756475 GTTCTTTATA
Statistics
Matches: 77, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
94 3 0.04
95 39 0.51
96 35 0.45
ACGTcount: A:0.28, C:0.02, G:0.29, T:0.41
Consensus pattern (96 bp):
TTAGGAGTTAAGGGTTAGGGGTTAGGGGTTAGGGATCGGGTTAGGGATTAAGATTTAGATTAATT
AGTCTTATTTAATTAACATATTAAATAAAGT
Found at i:46756564 original size:14 final size:14
Alignment explanation
Indices: 46756545--46756571 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
46756535 GATATGCAAT
46756545 ATATAATAATTTGA
1 ATATAATAATTTGA
46756559 ATATAATAATTTG
1 ATATAATAATTTG
46756572 GAATTGTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.44
Consensus pattern (14 bp):
ATATAATAATTTGA
Found at i:46756611 original size:20 final size:20
Alignment explanation
Indices: 46756573--46756613 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
46756563 AATAATTTGG
**
46756573 AATTGTAAAAATTGTAAAAA
1 AATTGTAAAAATTACAAAAA
*
46756593 AATTGTCAAAATTACAAAAA
1 AATTGTAAAAATTACAAAAA
46756613 A
1 A
46756614 TAAAATGAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.61, C:0.05, G:0.07, T:0.27
Consensus pattern (20 bp):
AATTGTAAAAATTACAAAAA
Found at i:46756655 original size:18 final size:18
Alignment explanation
Indices: 46756608--46756648 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
46756598 TCAAAATTAC
46756608 AAAAAATAAAATGAAAAT
1 AAAAAATAAAATGAAAAT
*
46756626 AAAAAATAAAAAG-AAAT
1 AAAAAATAAAATGAAAAT
46756643 AAAAAA
1 AAAAAA
46756649 ACTAAAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 10 0.45
18 12 0.55
ACGTcount: A:0.83, C:0.00, G:0.05, T:0.12
Consensus pattern (18 bp):
AAAAAATAAAATGAAAAT
Found at i:46757450 original size:198 final size:198
Alignment explanation
Indices: 46757104--46757495 Score: 608
Period size: 198 Copynumber: 2.0 Consensus size: 198
46757094 ATTCATTTTA
*
46757104 AGAAATTGTTTACGAAAACGGCACCGTTTTCTTATTTATCTTTAGTGGCGCTTTTAGTACACGCC
1 AGAAATTGTTTACGAAAACGGCACCGTTTTCTTATTTATCTTTAGTGGCGCTTTTAGTAAACGCC
* * * * ** *
46757169 GCAAAATTATTTTAATTTTTATGGAGACGATGCCGTTTTGTCTAAAACGCCATGAGTTTTAGTTT
66 GCAAAAATATTTTAATTTTTATGGAGACGATGCCGTTTTCTCTAAAACGCAATGACTTAGAGTTA
46757234 ACTAATCGGGGAACGACAGCGTTTGATCATATTACTAGTGGCGCTAGTATATAAACGCCGCAAAG
131 ACTAATCGGGGAACGACAGCGTTTGATCATATTACTAGTGGCGCTAGTATATAAACGCCGCAAAG
46757299 TAC
196 TAC
* * **
46757302 AGAAATTGTTTAGGAAAATGGCTTCGTTTTCTTATTTA-CTTTTAGTGGCGCTTTTAGTAAACGC
1 AGAAATTGTTTACGAAAACGGCACCGTTTTCTTATTTATC-TTTAGTGGCGCTTTTAGTAAACGC
*
46757366 CGCAAAAATGTTTTAATTTTTATGGAGACGATGCCGTTTTCTCTAAAACGCAATGACTTAGAGTT
65 CGCAAAAATATTTTAATTTTTATGGAGACGATGCCGTTTTCTCTAAAACGCAATGACTTAGAGTT
* * *
46757431 AACTGATC-GGGAGACGACAGCGTTTGATCATATTACTAGTGGCGCTGGTATATAAACGTCGCAA
130 AACTAATCGGGGA-ACGACAGCGTTTGATCATATTACTAGTGGCGCTAGTATATAAACGCCGCAA
46757495 A
194 A
46757496 TAGGTTAATT
Statistics
Matches: 176, Mismatches: 16, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
197 5 0.03
198 171 0.97
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.34
Consensus pattern (198 bp):
AGAAATTGTTTACGAAAACGGCACCGTTTTCTTATTTATCTTTAGTGGCGCTTTTAGTAAACGCC
GCAAAAATATTTTAATTTTTATGGAGACGATGCCGTTTTCTCTAAAACGCAATGACTTAGAGTTA
ACTAATCGGGGAACGACAGCGTTTGATCATATTACTAGTGGCGCTAGTATATAAACGCCGCAAAG
TAC
Found at i:46758010 original size:10 final size:10
Alignment explanation
Indices: 46757995--46758019 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
46757985 TCGAAAATTG
46757995 CAAAATTGTT
1 CAAAATTGTT
46758005 CAAAATTGTT
1 CAAAATTGTT
46758015 CAAAA
1 CAAAA
46758020 CCATGTCGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.12, G:0.08, T:0.32
Consensus pattern (10 bp):
CAAAATTGTT
Found at i:46758830 original size:7 final size:7
Alignment explanation
Indices: 46758818--46758897 Score: 88
Period size: 7 Copynumber: 11.3 Consensus size: 7
46758808 TGTTTCTTTA
46758818 TTTTCTG
1 TTTTCTG
46758825 TTTTCTG
1 TTTTCTG
46758832 TTTTCTG
1 TTTTCTG
*
46758839 TTTTTTG
1 TTTTCTG
** *
46758846 CATTATG
1 TTTTCTG
46758853 TTTTCTG
1 TTTTCTG
*
46758860 TTTTCTA
1 TTTTCTG
*
46758867 TTTTTTG
1 TTTTCTG
46758874 TTTTCTG
1 TTTTCTG
*
46758881 TTTTGCTA
1 TTTT-CTG
46758889 TTTTCTG
1 TTTTCTG
46758896 TT
1 TT
46758898 GAATGAAGTG
Statistics
Matches: 59, Mismatches: 13, Indels: 2
0.80 0.18 0.03
Matches are distributed among these distances:
7 53 0.90
8 6 0.10
ACGTcount: A:0.05, C:0.11, G:0.12, T:0.71
Consensus pattern (7 bp):
TTTTCTG
Found at i:46759374 original size:100 final size:100
Alignment explanation
Indices: 46759255--46760362 Score: 2013
Period size: 100 Copynumber: 11.1 Consensus size: 100
46759245 TTAATATTAA
*
46759255 AAATATATATATGTTAATATTTTTACAATATAATTTAACTTATTACTAATACATATATTGTTCGA
1 AAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGA
*
46759320 ATATAATTTTTTAAAATTTAAATATTACATGACTT
66 ATATAATTTTTTAAAATTTATATATTACATGACTT
46759355 AAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGA
1 AAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGA
* *
46759420 ATATAATTTTTCAAAATTTATATGTTACATGACTT
66 ATATAATTTTTTAAAATTTATATATTACATGACTT
46759455 AAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGA
1 AAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGA
46759520 ATATAATTTTTTAAAATTTATATATTACATGACTT
66 ATATAATTTTTTAAAATTTATATATTACATGACTT
46759555 AAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGA
1 AAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGA
* *
46759620 ATATAATTTTTTAAAATTTATATCTTATATGACTT
66 ATATAATTTTTTAAAATTTATATATTACATGACTT
46759655 AAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGA
1 AAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGA
* * *
46759720 ATATAATTTTTCAAAATTTATATGTTACATTACTT
66 ATATAATTTTTTAAAATTTATATATTACATGACTT
*
46759755 AAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCTA
1 AAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGA
46759820 ATATAATTTTTTAAAATTTATATATTACATGACTT
66 ATATAATTTTTTAAAATTTATATATTACATGACTT
46759855 AAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGA
1 AAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGA
46759920 ATATAATTTTTTAAAATTTATATATTACATGACTT
66 ATATAATTTTTTAAAATTTATATATTACATGACTT
46759955 AAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGA
1 AAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGA
* * *
46760020 ATATAATTTTTCAAAATTTATATGTTACATTACTT
66 ATATAATTTTTTAAAATTTATATATTACATGACTT
46760055 AAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGA
1 AAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGA
*
46760120 ATATACTTTTTTAAAATTTATATATTACATGACTT
66 ATATAATTTTTTAAAATTTATATATTACATGACTT
46760155 AAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGA
1 AAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGA
* * *
46760220 ATATAATTTTTCAAAATTTATATGTTACATTACTT
66 ATATAATTTTTTAAAATTTATATATTACATGACTT
46760255 -AA-ATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGA
1 AAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGA
** * *
46760318 ATATCGTTTTTCAAAATTTATATATTACATTACTT
66 ATATAATTTTTTAAAATTTATATATTACATGACTT
46760353 AAATATATAT
1 AAATATATAT
46760363 TTTTAAGTAT
Statistics
Matches: 975, Mismatches: 31, Indels: 4
0.97 0.03 0.00
Matches are distributed among these distances:
98 93 0.10
99 4 0.00
100 878 0.90
ACGTcount: A:0.40, C:0.08, G:0.04, T:0.49
Consensus pattern (100 bp):
AAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGA
ATATAATTTTTTAAAATTTATATATTACATGACTT
Found at i:46760096 original size:41 final size:41
Alignment explanation
Indices: 46760051--46760196 Score: 112
Period size: 47 Copynumber: 3.1 Consensus size: 41
46760041 ATGTTACATT
46760051 ACTTAAATATATATATGTTAATATTTTTACAATTTAATTTA
1 ACTTAAATATATATATGTTAATATTTTTACAATTTAATTTA
* *
46760092 ACTTATTACTAATACATATATTGTTCGAATATACTTTTTTAAAATTTATATATTACA
1 AC---TTA--AATATATATA-TGTT---A-ATA--TTTTTACAATTTA-AT-TT--A
46760149 TGACTTAAATATATATATGTTAATATTTTTACAATTTAATTTA
1 --ACTTAAATATATATATGTTAATATTTTTACAATTTAATTTA
46760192 ACTTA
1 ACTTA
46760197 TTACTAATAC
Statistics
Matches: 83, Mismatches: 4, Indels: 36
0.67 0.03 0.29
Matches are distributed among these distances:
41 7 0.08
43 1 0.01
44 3 0.04
45 2 0.02
46 11 0.13
47 16 0.19
49 3 0.04
50 2 0.02
51 3 0.04
53 16 0.19
54 11 0.13
55 2 0.02
56 3 0.04
57 1 0.01
59 2 0.02
ACGTcount: A:0.40, C:0.08, G:0.03, T:0.49
Consensus pattern (41 bp):
ACTTAAATATATATATGTTAATATTTTTACAATTTAATTTA
Found at i:46760622 original size:9 final size:9
Alignment explanation
Indices: 46760598--46760848 Score: 157
Period size: 9 Copynumber: 28.8 Consensus size: 9
46760588 TATGTACAAG
46760598 AACTTACAT
1 AACTTACAT
* *
46760607 AATTTACAC
1 AACTTACAT
*
46760616 AACTTACTT
1 AACTTACAT
*
46760625 AACCTACAT
1 AACTTACAT
46760634 AACTTACAT
1 AACTTACAT
46760643 AA--TACA-
1 AACTTACAT
46760649 AAGCTTACAT
1 AA-CTTACAT
* *
46760659 AACTAAAAT
1 AACTTACAT
* *
46760668 AGCTTACAC
1 AACTTACAT
46760677 AACTTACAT
1 AACTTACAT
46760686 AACTTACAT
1 AACTTACAT
*
46760695 AACTTACAG
1 AACTTACAT
* *
46760704 AAGTTATAT
1 AACTTACAT
*
46760713 AATACATA-AT
1 -A-ACTTACAT
46760723 AACTTAC--
1 AACTTACAT
46760730 AACTTACAT
1 AACTTACAT
*
46760739 AACATACAT
1 AACTTACAT
* **
46760748 TACTTTGAT
1 AACTTACAT
46760757 AACTTACAT
1 AACTTACAT
*
46760766 AAGTTACAT
1 AACTTACAT
*
46760775 AA--TACAC
1 AACTTACAT
46760782 AACTTACAT
1 AACTTACAT
** *
46760791 AGTTTACTT
1 AACTTACAT
*
46760800 AA--TACAA
1 AACTTACAT
46760807 AACTTACAT
1 AACTTACAT
46760816 AACTT--AT
1 AACTTACAT
*
46760823 ACACGTACAT
1 A-ACTTACAT
*
46760833 AACCTACAT
1 AACTTACAT
*
46760842 AATTTAC
1 AACTTAC
46760849 TTAATACATA
Statistics
Matches: 181, Mismatches: 45, Indels: 32
0.70 0.17 0.12
Matches are distributed among these distances:
6 2 0.01
7 25 0.14
8 7 0.04
9 136 0.75
10 8 0.04
11 3 0.02
ACGTcount: A:0.45, C:0.20, G:0.03, T:0.31
Consensus pattern (9 bp):
AACTTACAT
Found at i:46760791 original size:25 final size:25
Alignment explanation
Indices: 46760629--46760821 Score: 131
Period size: 25 Copynumber: 7.4 Consensus size: 25
46760619 TTACTTAACC
46760629 TACATAACTTACATAATACA-AAGCT
1 TACATAACTTACATAATACACAA-CT
* * *
46760654 TACATAACTAAAATAGCTTACACAACT
1 TACATAACTTACATA--ATACACAACT
* *
46760681 TACATAACTTACATAACTTACAGAAGT
1 TACATAACTTACATAA--TACACAACT
*
46760708 TATATAA--TACATAATAACTTACAACT
1 TACATAACTTACATAAT-AC--ACAACT
* * ** *
46760734 TACATAACATACATTACTTTGATAACT
1 TACATAACTTACA-TA-ATACACAACT
*
46760761 TACATAAGTTACATAATACACAACT
1 TACATAACTTACATAATACACAACT
** * *
46760786 TACATAGTTTACTTAATACAAAACT
1 TACATAACTTACATAATACACAACT
46760811 TACATAACTTA
1 TACATAACTTA
46760822 TACACGTACA
Statistics
Matches: 128, Mismatches: 28, Indels: 24
0.71 0.16 0.13
Matches are distributed among these distances:
23 1 0.01
24 2 0.02
25 56 0.44
26 12 0.09
27 48 0.38
28 6 0.05
29 2 0.02
30 1 0.01
ACGTcount: A:0.46, C:0.19, G:0.04, T:0.32
Consensus pattern (25 bp):
TACATAACTTACATAATACACAACT
Found at i:46760859 original size:25 final size:25
Alignment explanation
Indices: 46760755--46760859 Score: 106
Period size: 25 Copynumber: 4.2 Consensus size: 25
46760745 CATTACTTTG
* *
46760755 ATAACTTACATAAGTTACATAATAC
1 ATAACTTACATAATTTACTTAATAC
* *
46760780 ACAACTTACATAGTTTACTTAATAC
1 ATAACTTACATAATTTACTTAATAC
* *
46760805 AAAACTTACATAACTTATAC--ACGTAC
1 ATAACTTACATAA-TT-TACTTA-ATAC
*
46760831 ATAACCTACATAATTTACTTAATAC
1 ATAACTTACATAATTTACTTAATAC
46760856 ATAA
1 ATAA
46760860 ATATATATAT
Statistics
Matches: 65, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
24 3 0.05
25 42 0.65
26 17 0.26
27 3 0.05
ACGTcount: A:0.46, C:0.19, G:0.03, T:0.32
Consensus pattern (25 bp):
ATAACTTACATAATTTACTTAATAC
Found at i:46766415 original size:66 final size:65
Alignment explanation
Indices: 46766308--46766472 Score: 206
Period size: 66 Copynumber: 2.5 Consensus size: 65
46766298 GAGCAAATTA
* * * * *
46766308 CACAACTTAAAGCGGAGGCAACATCGAGAGAAGCTGAGGTTCAA-AAAAGATATGAAGAACTTCA
1 CACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAG-TATGAAGAACTCCA
46766372 G
65 G
* *
46766373 CTACAACTGAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACGAAAGTATGAAGAACTCCA
1 C-ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCA
46766438 G
65 G
* * *
46766439 CACCAGCTTAAAGCAGATGCGGCAGCAAGAGAAG
1 CA-CAACTTAAAGCAGATGCAGCAGCGAGAGAAG
46766473 TAGAGGCGGC
Statistics
Matches: 86, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
65 2 0.02
66 80 0.93
67 4 0.05
ACGTcount: A:0.41, C:0.19, G:0.27, T:0.13
Consensus pattern (65 bp):
CACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCAG
Done.