Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D02
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: 70731513
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1900000 characters in sequence are not A, C, G, or T
File 218 of 222
Found at i:68743992 original size:9 final size:9
Alignment explanation
Indices: 68743943--68743999 Score: 66
Period size: 9 Copynumber: 6.4 Consensus size: 9
68743933 GTAGTGCTTC
68743943 AATTCGGTT
1 AATTCGGTT
68743952 AATTCTGG-T
1 AATTC-GGTT
68743961 AA-TCTGGTT
1 AATTC-GGTT
68743970 AATTC-GTT
1 AATTCGGTT
*
68743978 AATTCGGGT
1 AATTCGGTT
68743987 AATTCGGTT
1 AATTCGGTT
68743996 AATT
1 AATT
68744000 TTTAACCAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
8 13 0.31
9 25 0.60
10 4 0.10
ACGTcount: A:0.25, C:0.11, G:0.21, T:0.44
Consensus pattern (9 bp):
AATTCGGTT
Found at i:68748875 original size:60 final size:60
Alignment explanation
Indices: 68748832--68748955 Score: 230
Period size: 60 Copynumber: 2.1 Consensus size: 60
68748822 ATATATAAAC
*
68748832 AATAGTATTAAGGATATACAATATAATATTAGAAACATGTATATAATAGTGTAAAAGAAA
1 AATAGTATTAAGGATATACAATATAATATTAGAAACATGTATATAATAGTATAAAAGAAA
*
68748892 AATAGTATTAAGGATATACAATATAATATTAGAAACATGTATATAATAGTGTAAAAGAAA
1 AATAGTATTAAGGATATACAATATAATATTAGAAACATGTATATAATAGTATAAAAGAAA
68748952 AATA
1 AATA
68748956 TGACAAGTAA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 64 1.00
ACGTcount: A:0.54, C:0.03, G:0.13, T:0.30
Consensus pattern (60 bp):
AATAGTATTAAGGATATACAATATAATATTAGAAACATGTATATAATAGTATAAAAGAAA
Found at i:68751142 original size:72 final size:72
Alignment explanation
Indices: 68750906--68751158 Score: 400
Period size: 73 Copynumber: 3.5 Consensus size: 72
68750896 ACATGTGAAC
* * *
68750906 TGAGGCTCAACTCACTTT-TCGCAATATGAGTTGATTTTTTTGACAACAGAAATTGAAATTGCCT
1 TGAGGCTCAACTCA-TTTCTCGCAATATGAGTTGA--ATTTTGAAAACAGAAATTGAAATTACCT
* *
68750970 CAGCGTGTCC
63 CAACGTGTCT
*
68750980 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCA
1 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAATTGAAATTACCTCA
68751045 ACGTGTCT
65 ACGTGTCT
68751053 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAA
1 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAA
*
68751118 TGTGTCT
66 CGTGTCT
68751125 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
1 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
68751159 TTCTTTCAAA
Statistics
Matches: 169, Mismatches: 8, Indels: 6
0.92 0.04 0.03
Matches are distributed among these distances:
72 68 0.40
73 71 0.42
74 30 0.18
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (72 bp):
TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAA
CGTGTCT
Found at i:68751240 original size:88 final size:87
Alignment explanation
Indices: 68751091--68751337 Score: 282
Period size: 88 Copynumber: 2.8 Consensus size: 87
68751081 AGTTGAATTT
* ** * **
68751091 TGAAAACAGAAATTGAAATTACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGT
1 TGAAAACAGAAATTGAAAATACCTCGGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
68751156 TGA-TTCTTTCAAAAACATAATAA
66 TGATTTCTTTCAAAAACA-AA-AA
* * *
68751179 TGAAAACAGAAATGGAAAATACCTCGGTGTGACCTAAGGCTCAACTCACCTCTCGCAATATGAGT
1 TGAAAACAGAAATTGAAAATACCTCGGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
* * *
68751244 TGATTTTTTTTGAAAAACAGAAA
66 TGA-TTTCTTTCAAAAACAAAAA
* **
68751267 TCAAAAGGC-TTAATTGAAAATACCTCGGCGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
1 TGAAAA--CAGAAATTGAAAATACCTC-G-GTGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
68751331 GAGTTGA
62 GAGTTGA
68751338 AATTAAAACA
Statistics
Matches: 135, Mismatches: 18, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
88 66 0.49
89 15 0.11
90 14 0.10
91 40 0.30
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.28
Consensus pattern (87 bp):
TGAAAACAGAAATTGAAAATACCTCGGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTCTTTCAAAAACAAAAA
Found at i:68751862 original size:77 final size:74
Alignment explanation
Indices: 68751559--68751896 Score: 457
Period size: 72 Copynumber: 4.5 Consensus size: 74
68751549 AGTGTGTAAT
* * *
68751559 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAACAGAAATTTAAAATACCT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCT
*
68751624 CAGCATGTGAAC
66 CAGC--GTG-TC
*
68751636 C-GAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCT
*
68751700 CAACGTGTC
66 CAGCGTGTC
* ** * *
68751709 TTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA--ATTTTGAAAACAGAAATTGAAATTACCT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCT
68751772 CAGCGTGTC
66 CAGCGTGTC
** * *
68751781 CTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTTAACAACAGAAATTGAAATTA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTTGAA-AACAGAAATTGAAAATA
68751846 CCTCAGCGTGTC
63 CCTCAGCGTGTC
*
68751858 CTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
68751897 GAAAAACAAA
Statistics
Matches: 236, Mismatches: 19, Indels: 14
0.88 0.07 0.05
Matches are distributed among these distances:
72 68 0.29
73 1 0.00
74 33 0.14
75 4 0.02
76 68 0.29
77 62 0.26
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (74 bp):
CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCT
CAGCGTGTC
Found at i:68751863 original size:149 final size:147
Alignment explanation
Indices: 68751559--68751914 Score: 459
Period size: 149 Copynumber: 2.4 Consensus size: 147
68751549 AGTGTGTAAT
* * * *
68751559 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAACAGAAATTTAAAATACCT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--ATTTTGAAAACAGAAATTGAAAATACCT
68751624 CAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTGAAAACAGAAAT
64 CAGCA-GTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTGAAAACAGAAAT
68751689 TGAAAATACCTCAACGTGTC
128 TGAAAATACCTCAACGTGTC
* ** *
68751709 TTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCA
* ** * *
68751774 GC-GTG-TCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTTAACAACAGAAA
66 GCAGTGAACC-GAGGCTCAACTCACCTCTCGCAATATAAGTTGA--TTTTTTTGAA-AACAGAAA
* *
68751837 TTGAAATTACCTCAGCGTGTC
127 TTGAAAATACCTCAACGTGTC
* *
68751858 CTGAGGCTCAACTCACCTCTAGCAATATGAGTTG-ATTTTGAAAAACAAAAATT-AAAA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTG-AAAACAGAAATTGAAAA
68751915 GGCTTAACTC
Statistics
Matches: 180, Mismatches: 21, Indels: 12
0.85 0.10 0.06
Matches are distributed among these distances:
145 2 0.01
146 33 0.18
148 46 0.26
149 68 0.38
150 31 0.17
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31
Consensus pattern (147 bp):
CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCA
GCAGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTGAAAACAGAAATTGA
AAATACCTCAACGTGTC
Found at i:68752062 original size:70 final size:70
Alignment explanation
Indices: 68751914--68752088 Score: 219
Period size: 70 Copynumber: 2.5 Consensus size: 70
68751904 AAAAATTAAA
* * * * **
68751914 AGGCTTAACTCACCTCTTGCAATATGAG-TCAATTTAAAACATAAACTAAAAATACCTCGGCGTG
1 AGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTAAAACAAAAACTAAAAATACCTCAACGTG
68751978 CCCCG
66 CCCCG
*
68751983 AGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTGAAAA-AAAAATTAAAAATACCTCAACGT
1 AGGCTCAACTCACCTCTTGCAATATGAGTTGATTTT-AAAACAAAAACTAAAAATACCTCAACGT
* **
68752047 GTCTTG
65 GCCCCG
* *
68752053 AGGCTCAACTCATCTCTCGCAATATGAGTTGATTTT
1 AGGCTCAACTCACCTCTTGCAATATGAGTTGATTTT
68752089 CCTTGAAAGC
Statistics
Matches: 92, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
69 27 0.29
70 61 0.66
71 4 0.04
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.29
Consensus pattern (70 bp):
AGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTAAAACAAAAACTAAAAATACCTCAACGTG
CCCCG
Found at i:68755937 original size:50 final size:50
Alignment explanation
Indices: 68755813--68756061 Score: 275
Period size: 50 Copynumber: 4.8 Consensus size: 50
68755803 GATAATAACA
* * ** * *
68755813 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
68755864 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * * *
68755914 TGCCAACGCCATGTCTCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
68755964 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
68756019 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
68756062 TTACCCAAAT
Statistics
Matches: 168, Mismatches: 23, Indels: 9
0.84 0.12 0.05
Matches are distributed among these distances:
49 1 0.01
50 90 0.54
51 33 0.20
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:68755990 original size:100 final size:104
Alignment explanation
Indices: 68755812--68756061 Score: 348
Period size: 100 Copynumber: 2.4 Consensus size: 104
68755802 TGATAATAAC
**
68755812 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
68755877 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* * *
68755914 -TGCCAACGCCATGTCTCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
68755977 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
68756019 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
68756062 TTACCCAAAT
Statistics
Matches: 131, Mismatches: 10, Indels: 10
0.87 0.07 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 35 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 39 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:68756177 original size:13 final size:13
Alignment explanation
Indices: 68756156--68756187 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
68756146 GCTTGGATCA
*
68756156 TCATCAAATAAAT
1 TCATAAAATAAAT
68756169 TCATAAAATAAAT
1 TCATAAAATAAAT
68756182 TCATAA
1 TCATAA
68756188 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:68756435 original size:30 final size:30
Alignment explanation
Indices: 68756401--68756458 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
68756391 CCTCGACTCT
*
68756401 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* * *
68756431 AACTTTTACATAATTATATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
68756459 AAGGCTCGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.22, G:0.03, T:0.43
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:68764961 original size:11 final size:11
Alignment explanation
Indices: 68764947--68764973 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
68764937 AATATTAAAA
68764947 ATATATATAAC
1 ATATATATAAC
68764958 ATATATATAAC
1 ATATATATAAC
68764969 ATATA
1 ATATA
68764974 CAATACGTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (11 bp):
ATATATATAAC
Found at i:68770930 original size:29 final size:30
Alignment explanation
Indices: 68770870--68770930 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
68770860 GGAGGGGAGG
* * **
68770870 GGAGTAAAAGTTTTGGGGGGAAAGTGGGAA
1 GGAGTAAAAGTTTTGAGGGAAAAGTGAAAA
68770900 GGAGTAAAAGTTTTGAGGGAAAAGT-AAAA
1 GGAGTAAAAGTTTTGAGGGAAAAGTGAAAA
68770929 GG
1 GG
68770931 TTTGGGAGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
29 4 0.15
30 23 0.85
ACGTcount: A:0.39, C:0.00, G:0.41, T:0.20
Consensus pattern (30 bp):
GGAGTAAAAGTTTTGAGGGAAAAGTGAAAA
Found at i:68775963 original size:21 final size:21
Alignment explanation
Indices: 68775939--68775978 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
68775929 TGTATATAAT
*
68775939 TGAATCAAAATTTATGTTTCA
1 TGAATCAAAATTTAAGTTTCA
* *
68775960 TGAATTATAATTTAAGTTT
1 TGAATCAAAATTTAAGTTT
68775979 TAAGTATATA
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:0.38, C:0.05, G:0.10, T:0.47
Consensus pattern (21 bp):
TGAATCAAAATTTAAGTTTCA
Found at i:68784518 original size:18 final size:18
Alignment explanation
Indices: 68784495--68784531 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
68784485 ATGTTAAATT
*
68784495 ACAAAAATTACAACAACA
1 ACAAAAATCACAACAACA
68784513 ACAAAAATCACAACAACA
1 ACAAAAATCACAACAACA
68784531 A
1 A
68784532 AAATGAAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.68, C:0.24, G:0.00, T:0.08
Consensus pattern (18 bp):
ACAAAAATCACAACAACA
Found at i:68784525 original size:15 final size:15
Alignment explanation
Indices: 68784507--68784535 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
68784497 AAAAATTACA
68784507 ACAACAACAAAAATC
1 ACAACAACAAAAATC
68784522 ACAACAACAAAAAT
1 ACAACAACAAAAAT
68784536 GAAGAACTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.69, C:0.24, G:0.00, T:0.07
Consensus pattern (15 bp):
ACAACAACAAAAATC
Found at i:68788070 original size:31 final size:30
Alignment explanation
Indices: 68788035--68788095 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
68788025 TAAAAGTTCG
*
68788035 AATTAAGCCTTCCAAAAGTTTTAAAAATTTT
1 AATTAAACCTT-CAAAAGTTTTAAAAATTTT
* * *
68788066 AATTAAACCTTCAGAATTTTTTAAAATTTT
1 AATTAAACCTTCAAAAGTTTTAAAAATTTT
68788096 CTCATCAATC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 16 0.62
31 10 0.38
ACGTcount: A:0.41, C:0.11, G:0.05, T:0.43
Consensus pattern (30 bp):
AATTAAACCTTCAAAAGTTTTAAAAATTTT
Found at i:68788591 original size:31 final size:31
Alignment explanation
Indices: 68788555--68788613 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
68788545 TTAATTTAAT
* *
68788555 CAATTTTAGTCCCTATACTTTTTGAATTAGC
1 CAATTTTAGTCCCCAGACTTTTTGAATTAGC
68788586 CAATTTTAGTCCCCAGACTTTTTGAATT
1 CAATTTTAGTCCCCAGACTTTTTGAATT
68788614 TTGAAGTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.25, C:0.20, G:0.10, T:0.44
Consensus pattern (31 bp):
CAATTTTAGTCCCCAGACTTTTTGAATTAGC
Found at i:68795991 original size:33 final size:34
Alignment explanation
Indices: 68795951--68796014 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 34
68795941 GGGCCGGGGA
* *
68795951 AAAAATCATAAG-CCTGGCCCGGCCCGGCCCGAG
1 AAAAATCATAAGCCCGGGCACGGCCCGGCCCGAG
68795984 AAAAATCATAAGCCCGGGCACGGCCCGGCCC
1 AAAAATCATAAGCCCGGGCACGGCCCGGCCC
68796015 ATTTTTTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
33 12 0.43
34 16 0.57
ACGTcount: A:0.28, C:0.38, G:0.27, T:0.08
Consensus pattern (34 bp):
AAAAATCATAAGCCCGGGCACGGCCCGGCCCGAG
Found at i:68796055 original size:21 final size:22
Alignment explanation
Indices: 68796026--68796146 Score: 68
Period size: 21 Copynumber: 5.3 Consensus size: 22
68796016 TTTTTTAAAT
***
68796026 AAATATTAAAATTTTATTTTAA
1 AAATATTAAAAAAGTATTTTAA
68796048 AAAT-TTAAAAAAGTATTTTAA
1 AAATATTAAAAAAGTATTTTAA
** **
68796069 AAATATTTTAAAATAAAAAAATTAAAA
1 AAATA--TT--AA-AAAAGTATTTTAA
*
68796096 AATATATTTTAAAAA-TATTTTAA
1 AA-ATA-TTAAAAAAGTATTTTAA
* *
68796119 AATTA-AAAAAAAGTATTTTAA
1 AAATATTAAAAAAGTATTTTAA
68796140 AAATATT
1 AAATATT
68796147 TTTAAAATTA
Statistics
Matches: 74, Mismatches: 16, Indels: 18
0.69 0.15 0.17
Matches are distributed among these distances:
20 5 0.07
21 30 0.41
22 6 0.08
23 7 0.09
24 6 0.08
25 1 0.01
26 2 0.03
27 14 0.19
28 3 0.04
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.40
Consensus pattern (22 bp):
AAATATTAAAAAAGTATTTTAA
Found at i:68796075 original size:11 final size:11
Alignment explanation
Indices: 68796040--68796154 Score: 70
Period size: 11 Copynumber: 11.1 Consensus size: 11
68796030 ATTAAAATTT
68796040 TATTTT-AAAA
1 TATTTTAAAAA
*
68796050 -ATTTAAAAAA
1 TATTTTAAAAA
68796060 GTATTTTAAAAA
1 -TATTTTAAAAA
68796072 TATTTT-AAAA
1 TATTTTAAAAA
68796082 TA----AAAAA
1 TATTTTAAAAA
**
68796089 -ATTAAAAAATA
1 TATTTTAAAA-A
68796100 TATTTTAAAAA
1 TATTTTAAAAA
68796111 TATTTT-AAAA
1 TATTTTAAAAA
***
68796121 T-TAAAAAAAA
1 TATTTTAAAAA
68796131 GTATTTTAAAAA
1 -TATTTTAAAAA
*
68796143 TATTTTTAAAA
1 TATTTTAAAAA
68796154 T
1 T
68796155 TAAAAAATTA
Statistics
Matches: 81, Mismatches: 11, Indels: 25
0.69 0.09 0.21
Matches are distributed among these distances:
6 1 0.01
7 4 0.05
9 5 0.06
10 23 0.28
11 26 0.32
12 22 0.27
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:68796103 original size:71 final size:70
Alignment explanation
Indices: 68796040--68796171 Score: 205
Period size: 71 Copynumber: 1.9 Consensus size: 70
68796030 ATTAAAATTT
*
68796040 TATTTTAAAAATT-TAAAAAAGTATTTTAAAAATA-TTTTAAAATAAAAAAATTAAAAAATATAT
1 TATTTT-AAAATTAAAAAAAAGTATTTTAAAAATATTTTTAAAATAAAAAAATTAAAAAA-ATA-
68796103 TTTAAAAA
63 TTTAAAAA
*
68796111 TATTTTAAAATTAAAAAAAAGTATTTTAAAAATATTTTTAAAATTAAAAAATTAAAAAAAT
1 TATTTTAAAATTAAAAAAAAGTATTTTAAAAATATTTTTAAAATAAAAAAATTAAAAAAAT
68796172 TAAATATATT
Statistics
Matches: 57, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
70 6 0.11
71 28 0.49
72 23 0.40
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (70 bp):
TATTTTAAAATTAAAAAAAAGTATTTTAAAAATATTTTTAAAATAAAAAAATTAAAAAAATATTT
AAAAA
Found at i:68796104 original size:39 final size:39
Alignment explanation
Indices: 68796046--68796129 Score: 134
Period size: 39 Copynumber: 2.2 Consensus size: 39
68796036 ATTTTATTTT
* *
68796046 AAAAATTTAAAAAAGTATTTTAAAAATATTTTAAAA-TA
1 AAAAAATTAAAAAAATATTTTAAAAATATTTTAAAATTA
68796084 AAAAAATTAAAAAATATATTTTAAAAATATTTTAAAATTA
1 AAAAAATTAAAAAA-ATATTTTAAAAATATTTTAAAATTA
68796124 AAAAAA
1 AAAAAA
68796130 AGTATTTTAA
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
38 13 0.31
39 21 0.50
40 8 0.19
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.35
Consensus pattern (39 bp):
AAAAAATTAAAAAAATATTTTAAAAATATTTTAAAATTA
Found at i:68796136 original size:32 final size:32
Alignment explanation
Indices: 68796086--68796161 Score: 127
Period size: 33 Copynumber: 2.4 Consensus size: 32
68796076 TTAAAATAAA
*
68796086 AAAATTAAAAAATATATTTTAAAAATA-TTTT
1 AAAATTAAAAAAAATATTTTAAAAATATTTTT
68796117 AAAATTAAAAAAAAGTATTTTAAAAATATTTTT
1 AAAATTAAAAAAAA-TATTTTAAAAATATTTTT
68796150 AAAATTAAAAAA
1 AAAATTAAAAAA
68796162 TTAAAAAAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
31 13 0.31
32 13 0.31
33 16 0.38
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (32 bp):
AAAATTAAAAAAAATATTTTAAAAATATTTTT
Found at i:68797154 original size:38 final size:38
Alignment explanation
Indices: 68797112--68797186 Score: 114
Period size: 38 Copynumber: 2.0 Consensus size: 38
68797102 TCATATTATC
* *
68797112 AAAATCAAACGCGATCAATACGAATCAAAATTTTAATT
1 AAAATCAAACGCAATAAATACGAATCAAAATTTTAATT
* *
68797150 AAAATTAAACGCAATAAATACGAATTAAAATTTTAAT
1 AAAATCAAACGCAATAAATACGAATCAAAATTTTAAT
68797187 CGATGCAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.53, C:0.12, G:0.07, T:0.28
Consensus pattern (38 bp):
AAAATCAAACGCAATAAATACGAATCAAAATTTTAATT
Found at i:68807512 original size:30 final size:32
Alignment explanation
Indices: 68807452--68807561 Score: 86
Period size: 31 Copynumber: 3.6 Consensus size: 32
68807442 TTAATATAAT
*
68807452 ATTTGGTATCTGAATTTTGGTTTTAATGTTCA
1 ATTTGGTACCTGAATTTTGGTTTTAATGTTCA
68807484 ATTTGGTACCT-AA-TTT-GTTTTCAATGTTCA
1 ATTTGGTACCTGAATTTTGGTTTT-AATGTTCA
* * ** * * * *
68807514 CTTTAGTATTTG-AGTTTAGCTTTAATGTTTA
1 ATTTGGTACCTGAATTTTGGTTTTAATGTTCA
*
68807545 ATTTGGTACAT-AATTTT
1 ATTTGGTACCTGAATTTT
68807562 TTCTTTATCT
Statistics
Matches: 61, Mismatches: 12, Indels: 11
0.73 0.14 0.13
Matches are distributed among these distances:
29 5 0.08
30 19 0.31
31 23 0.38
32 14 0.23
ACGTcount: A:0.24, C:0.08, G:0.15, T:0.53
Consensus pattern (32 bp):
ATTTGGTACCTGAATTTTGGTTTTAATGTTCA
Found at i:68819098 original size:9 final size:10
Alignment explanation
Indices: 68819069--68819095 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
68819059 TATATATTTA
68819069 TTTTAATTAT
1 TTTTAATTAT
68819079 TTTTAATTAT
1 TTTTAATTAT
68819089 TTTTAAT
1 TTTTAAT
68819096 ATTACCTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (10 bp):
TTTTAATTAT
Found at i:68819521 original size:29 final size:31
Alignment explanation
Indices: 68819474--68819533 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 31
68819464 AAATCGGGCC
*
68819474 AAATCAAAATTTCATGTATA-AAATTACACA
1 AAATCAAAAGTTCATGTATACAAATTACACA
*
68819504 AAATC-AAAGTTCTTGTATACAAATTACACA
1 AAATCAAAAGTTCATGTATACAAATTACACA
68819534 TTAAACTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 12 0.44
30 15 0.56
ACGTcount: A:0.50, C:0.15, G:0.05, T:0.30
Consensus pattern (31 bp):
AAATCAAAAGTTCATGTATACAAATTACACA
Found at i:68823584 original size:23 final size:22
Alignment explanation
Indices: 68823544--68823595 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 22
68823534 GGCGAAGTGT
*
68823544 AATTTTATAATTATTAATTTAA
1 AATTTTATAATTAGTAATTTAA
68823566 AATTTTATAAATTAGTAATTTAA
1 AATTTTAT-AATTAGTAATTTAA
68823589 AATTTTA
1 AATTTTA
68823596 GAGGGGACCA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
22 8 0.29
23 20 0.71
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (22 bp):
AATTTTATAATTAGTAATTTAA
Found at i:68844367 original size:31 final size:31
Alignment explanation
Indices: 68844321--68844384 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
68844311 TTACTATAAT
*
68844321 TTGGTCAATTCTAGTCTCTTTACTTTTCGAA
1 TTGGTCAATTCTAGTCTCTGTACTTTTCGAA
* * * *
68844352 TTGGTCGATTTTAGTCTCTGTATTTTTTGAA
1 TTGGTCAATTCTAGTCTCTGTACTTTTCGAA
68844383 TT
1 TT
68844385 TCAAAATTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.17, C:0.14, G:0.16, T:0.53
Consensus pattern (31 bp):
TTGGTCAATTCTAGTCTCTGTACTTTTCGAA
Found at i:68848009 original size:3 final size:3
Alignment explanation
Indices: 68848001--68848031 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
68847991 TTTTACGTTG
68848001 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
68848032 ACATGAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:68848239 original size:19 final size:21
Alignment explanation
Indices: 68848202--68848241 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
68848192 ATATACTTTC
68848202 TATTATATTTCTAAATTTTTA
1 TATTATATTTCTAAATTTTTA
*
68848223 TATTAT-TTT-TAATTTTTTA
1 TATTATATTTCTAAATTTTTA
68848242 ATTTATAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 9 0.50
20 3 0.17
21 6 0.33
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (21 bp):
TATTATATTTCTAAATTTTTA
Found at i:68853364 original size:26 final size:25
Alignment explanation
Indices: 68853316--68853364 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 25
68853306 GAGTAAACTG
*
68853316 ATTTTTTCTGTTAAAAATTACATCT
1 ATTTTTTCTGTTAAAAATAACATCT
68853341 ATTTTTAT-TGTTAAAAACTAACAT
1 ATTTTT-TCTGTTAAAAA-TAACAT
68853365 AATTGACAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 15 0.71
26 6 0.29
ACGTcount: A:0.37, C:0.10, G:0.04, T:0.49
Consensus pattern (25 bp):
ATTTTTTCTGTTAAAAATAACATCT
Found at i:68865831 original size:177 final size:174
Alignment explanation
Indices: 68865535--68865883 Score: 617
Period size: 177 Copynumber: 2.0 Consensus size: 174
68865525 AAATGATCCA
*
68865535 AAACAACAAAGAATCAAAGTACATCCAAACAAAATATCTACTTTGGCATTAAGGATACATAGCAA
1 AAACAACAAAGAATCAAAGTACATCCAAACAAAATATCTACTTTGACATTAAGGATACATAGCAA
68865600 TAGCATACAAACAGGGGTGAAACCAAGGGACAGGCAGGCCTTCGGTAAATGGAAAATTTGCATTT
66 TAGCATACAAACAGGGGTGAAACCAAGGGACAGGCAGGCCTTCGGTAAATGGAAAATTTGCATTT
68865665 TAGGCCCTCCCAAGAATTAAAATTTCAATTTAAGACCCTTTTAACAG
131 T-GGCCCTCCCAAGAATTAAAATTTCAATTTAAGA--CTTTTAACAG
* * *
68865712 AAACAACAAAGAATCAAAGTTCATCCAAACAAAATATCTACTTTTACATTAAGGATACGTAGCAA
1 AAACAACAAAGAATCAAAGTACATCCAAACAAAATATCTACTTTGACATTAAGGATACATAGCAA
* *
68865777 TAGCATACAAACAGGGGTGAAACCAAGGGACAGGCAGGCCTTTGGTAAATGGAAATTTTGCATTT
66 TAGCATACAAACAGGGGTGAAACCAAGGGACAGGCAGGCCTTCGGTAAATGGAAAATTTGCATTT
68865842 TGGCCCTCCCAAGAATTAAAATTTCAATTTAAGACTTTTAAC
131 TGGCCCTCCCAAGAATTAAAATTTCAATTTAAGACTTTTAAC
68865884 GCAAAATTCA
Statistics
Matches: 166, Mismatches: 6, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
174 8 0.05
176 33 0.20
177 125 0.75
ACGTcount: A:0.41, C:0.19, G:0.17, T:0.24
Consensus pattern (174 bp):
AAACAACAAAGAATCAAAGTACATCCAAACAAAATATCTACTTTGACATTAAGGATACATAGCAA
TAGCATACAAACAGGGGTGAAACCAAGGGACAGGCAGGCCTTCGGTAAATGGAAAATTTGCATTT
TGGCCCTCCCAAGAATTAAAATTTCAATTTAAGACTTTTAACAG
Found at i:68877852 original size:195 final size:192
Alignment explanation
Indices: 68877513--68877902 Score: 627
Period size: 195 Copynumber: 2.0 Consensus size: 192
68877503 CATCCAATCA
* *
68877513 AACAGCTGCAAAAAAATTATCCAAAACAACAAAGAATCAAAGTCCATTCAAACAAAATATCTACT
1 AACAGCAGCAAAAAAATTATCCAAAACAACAAAGAATCAAAGTCCATCCAAACAAAATATCTACT
68877578 TTGACATTAAGGATACATAGCAATAGCATACAAACAAGGGTGAAACCAAGGGACAGAAAGGCCTT
66 TTGACATTAAGGATACATAGCAATAGCATACAAACAAGGGTGAAACCAAGGGACAGAAAGGCCTT
68877643 CGGGAAATGGAAAATTTGCATTTTAGGCCCTCCCAAGAATTAAAATTTCAATTTAAGACCCTTTT
131 CGGGAAATGGAAAATTTGCATTTT-GGCCCTCCCAAGAATTAAAATTTCAATTTAAGA--CTTTT
* * * *
68877708 AACAGCAGCAAAAAATTTATTCGAAACAACAAAGAATCAAAGTTCATCCAAACAAAATATCTACT
1 AACAGCAGCAAAAAAATTATCCAAAACAACAAAGAATCAAAGTCCATCCAAACAAAATATCTACT
* * **
68877773 TTGACATTAAGGATACGTAGCAATAGCATACAAACAGGGGTGAAACCAAGGGACAGGCAGGCCTT
66 TTGACATTAAGGATACATAGCAATAGCATACAAACAAGGGTGAAACCAAGGGACAGAAAGGCCTT
* * * *
68877838 TGGTAAATGGAAAATTTGCATTTTGGTCCTCCCAATAATTAAAATTTCAATTTAAGACTTTT
131 CGGGAAATGGAAAATTTGCATTTTGGCCCTCCCAAGAATTAAAATTTCAATTTAAGACTTTT
68877900 AAC
1 AAC
68877903 GCAAAATTCA
Statistics
Matches: 181, Mismatches: 14, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
192 8 0.04
194 31 0.17
195 142 0.78
ACGTcount: A:0.43, C:0.18, G:0.15, T:0.24
Consensus pattern (192 bp):
AACAGCAGCAAAAAAATTATCCAAAACAACAAAGAATCAAAGTCCATCCAAACAAAATATCTACT
TTGACATTAAGGATACATAGCAATAGCATACAAACAAGGGTGAAACCAAGGGACAGAAAGGCCTT
CGGGAAATGGAAAATTTGCATTTTGGCCCTCCCAAGAATTAAAATTTCAATTTAAGACTTTT
Found at i:68886900 original size:20 final size:20
Alignment explanation
Indices: 68886875--68886912 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
68886865 CTATAAATAT
68886875 TTTTGAAATTTTGAAGATAG
1 TTTTGAAATTTTGAAGATAG
*
68886895 TTTTGAAATTTTGTAGAT
1 TTTTGAAATTTTGAAGAT
68886913 TTTATAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.18, T:0.50
Consensus pattern (20 bp):
TTTTGAAATTTTGAAGATAG
Found at i:68891752 original size:39 final size:39
Alignment explanation
Indices: 68891704--68891817 Score: 186
Period size: 39 Copynumber: 3.1 Consensus size: 39
68891694 TTCCGACTCT
68891704 TCACAACACTTCACCCTGATTGATACCACCACATCTTCC
1 TCACAACACTTCACCCTGATTGATACCACCACATCTTCC
68891743 TCACAACACTTCACCCTGATTGATACCACCACATCTTCC
1 TCACAACACTTCACCCTGATTGATACCACCACATCTTCC
68891782 TCACAACAC-T-----TGATTGATACCACCACATCTTCC
1 TCACAACACTTCACCCTGATTGATACCACCACATCTTCC
68891815 TCA
1 TCA
68891818 GTACTCTTTC
Statistics
Matches: 75, Mismatches: 0, Indels: 6
0.93 0.00 0.07
Matches are distributed among these distances:
33 26 0.35
38 1 0.01
39 48 0.64
ACGTcount: A:0.29, C:0.39, G:0.05, T:0.26
Consensus pattern (39 bp):
TCACAACACTTCACCCTGATTGATACCACCACATCTTCC
Found at i:68893992 original size:25 final size:25
Alignment explanation
Indices: 68893964--68894015 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
68893954 ATGTAAAGGC
* *
68893964 AAACAAAACCGTAACTAATAGTAAA
1 AAACAAAACCATAACTAAAAGTAAA
*
68893989 AAACAAAACCATATCTAAAAGTAAA
1 AAACAAAACCATAACTAAAAGTAAA
68894014 AA
1 AA
68894016 GTAAATTTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.63, C:0.15, G:0.06, T:0.15
Consensus pattern (25 bp):
AAACAAAACCATAACTAAAAGTAAA
Found at i:68897635 original size:23 final size:23
Alignment explanation
Indices: 68897609--68897677 Score: 94
Period size: 23 Copynumber: 3.2 Consensus size: 23
68897599 AGTGCCACAT
68897609 TGATATGTAGCCGAAGCTACCAC
1 TGATATGTAGCCGAAGCTACCAC
68897632 TGATATGTAGCC-ATAGCTACCAC
1 TGATATGTAGCCGA-AGCTACCAC
68897655 TGA-A---AGCCGAAGCTACCAC
1 TGATATGTAGCCGAAGCTACCAC
68897674 TGAT
1 TGAT
68897678 CAATAACACT
Statistics
Matches: 43, Mismatches: 0, Indels: 9
0.83 0.00 0.17
Matches are distributed among these distances:
19 16 0.37
20 1 0.02
22 2 0.05
23 24 0.56
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.22
Consensus pattern (23 bp):
TGATATGTAGCCGAAGCTACCAC
Found at i:68897937 original size:18 final size:17
Alignment explanation
Indices: 68897911--68897949 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
68897901 ATTTTCCTTC
68897911 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
68897928 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
68897946 CACA
1 CACA
68897950 ATTTATACAA
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:68910462 original size:21 final size:23
Alignment explanation
Indices: 68910436--68910483 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
68910426 ATGGATTCAT
68910436 AATTTA-AA-AAAAAAAACCCAA
1 AATTTAGAAGAAAAAAAACCCAA
*
68910457 AATTTAGAAGGAAAAAGAACCCAA
1 AATTTAGAA-GAAAAAAAACCCAA
68910481 AAT
1 AAT
68910484 AAAGGGAAGG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 6 0.26
22 2 0.09
24 15 0.65
ACGTcount: A:0.65, C:0.12, G:0.08, T:0.15
Consensus pattern (23 bp):
AATTTAGAAGAAAAAAAACCCAA
Found at i:68913038 original size:17 final size:18
Alignment explanation
Indices: 68913001--68913039 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
68912991 GGTAGTTAAA
68913001 AAATTAATTTTCAAAATT
1 AAATTAATTTTCAAAATT
* *
68913019 AAATTTATTTT-AATATT
1 AAATTAATTTTCAAAATT
68913036 AAAT
1 AAAT
68913040 AAATCTCCCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (18 bp):
AAATTAATTTTCAAAATT
Found at i:68927562 original size:19 final size:19
Alignment explanation
Indices: 68927540--68927586 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
68927530 TTTTACAACA
*
68927540 TTCATTTTTCTTTAAAGTT
1 TTCATTTTCCTTTAAAGTT
68927559 TTCATTTTCCTTTAAAGTT
1 TTCATTTTCCTTTAAAGTT
68927578 TTCATTTTC
1 TTCATTTTC
68927587 AATTATGTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.19, C:0.15, G:0.04, T:0.62
Consensus pattern (19 bp):
TTCATTTTCCTTTAAAGTT
Found at i:68933216 original size:33 final size:33
Alignment explanation
Indices: 68933176--68933246 Score: 133
Period size: 33 Copynumber: 2.2 Consensus size: 33
68933166 AGTTTATACC
68933176 TTTATAATTTTTAGAGAATTAAATAAAAATTTT
1 TTTATAATTTTTAGAGAATTAAATAAAAATTTT
68933209 TTTATAATTTTTAGAGAATTAAATAAAAATTTT
1 TTTATAATTTTTAGAGAATTAAATAAAAATTTT
*
68933242 ATTAT
1 TTTAT
68933247 TTAAGAGGTC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.49
Consensus pattern (33 bp):
TTTATAATTTTTAGAGAATTAAATAAAAATTTT
Found at i:68936524 original size:22 final size:20
Alignment explanation
Indices: 68936493--68936533 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
68936483 TAGTTTTTAA
68936493 TAATACAAATGGATGAAATTTT
1 TAATACAAAT-GAT-AAATTTT
*
68936515 TAATAGAAATGATAAATTT
1 TAATACAAATGATAAATTT
68936534 GCTTTTTGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 3 0.17
22 9 0.50
ACGTcount: A:0.49, C:0.02, G:0.12, T:0.37
Consensus pattern (20 bp):
TAATACAAATGATAAATTTT
Found at i:68939840 original size:31 final size:30
Alignment explanation
Indices: 68939802--68939878 Score: 93
Period size: 29 Copynumber: 2.5 Consensus size: 30
68939792 AATCTTAAAA
*
68939802 TTATACATAAATTTTGGCTTAGTGTGTAATT
1 TTATACATAAATTTTGGATT-GTGTGTAATT
* *
68939833 TTATACATAAACTTT-GATTTTGTGTAATT
1 TTATACATAAATTTTGGATTGTGTGTAATT
*
68939862 TTATATATGAAATTTTG
1 TTATACAT-AAATTTTG
68939879 ATTTGATCCA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
29 16 0.41
30 9 0.23
31 14 0.36
ACGTcount: A:0.31, C:0.05, G:0.13, T:0.51
Consensus pattern (30 bp):
TTATACATAAATTTTGGATTGTGTGTAATT
Found at i:68945102 original size:9 final size:9
Alignment explanation
Indices: 68945088--68945115 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
68945078 TTTTGTTACA
68945088 ACAATTAAT
1 ACAATTAAT
68945097 ACAATTAAT
1 ACAATTAAT
68945106 ACAATTAAT
1 ACAATTAAT
68945115 A
1 A
68945116 ATTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:68945137 original size:68 final size:68
Alignment explanation
Indices: 68945058--68945267 Score: 379
Period size: 68 Copynumber: 3.1 Consensus size: 68
68945048 TCAAGTTTGT
*
68945058 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
68945123 AAA
66 AAA
68945126 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
68945191 AAA
66 AAA
*
68945194 TTTACTAATCAAATGTTAGATTTTATTACAACAAGTAATACAATT-A-ACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
*
68945257 AAT
66 AAA
68945260 TTTACTAA
1 TTTACTAA
68945268 CAATTAATTT
Statistics
Matches: 139, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
66 27 0.19
67 1 0.01
68 111 0.80
ACGTcount: A:0.46, C:0.09, G:0.05, T:0.40
Consensus pattern (68 bp):
TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
AAA
Found at i:68945168 original size:9 final size:9
Alignment explanation
Indices: 68945156--68945183 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
68945146 TTTTATTACA
68945156 ACAATTAAT
1 ACAATTAAT
68945165 ACAATTAAT
1 ACAATTAAT
68945174 ACAATTAAT
1 ACAATTAAT
68945183 A
1 A
68945184 ATTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:68945277 original size:16 final size:16
Alignment explanation
Indices: 68945256--68945297 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
68945246 AATAATTTGA
*
68945256 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
68945272 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
68945288 TAGTTTTAAT
1 TAATTTTAAT
68945298 TTTATTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:68945281 original size:22 final size:23
Alignment explanation
Indices: 68945271--68945332 Score: 65
Period size: 23 Copynumber: 2.8 Consensus size: 23
68945261 TTACTAACAA
* * *
68945271 TTAATTTTA-ATAACAATTAGTT
1 TTAATTTTATATAAAAAATAATT
*
68945293 TTAATTTTATTTAAAAAATAATT
1 TTAATTTTATATAAAAAATAATT
*
68945316 TTAATTTTA-ATTAAAAA
1 TTAATTTTATATAAAAAA
68945333 CGGGTCGGGC
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
22 15 0.45
23 18 0.55
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (23 bp):
TTAATTTTATATAAAAAATAATT
Found at i:68952463 original size:29 final size:30
Alignment explanation
Indices: 68952429--68952501 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 30
68952419 ATGGGGACTA
* *
68952429 GATCAAATTAGTCCCTCTATTATT-AAAAG
1 GATCAAATTAGTCCCTATAATATTAAAAAG
* *
68952458 GATCAATTTAGTCCTTATAATATTAAAAAG
1 GATCAAATTAGTCCCTATAATATTAAAAAG
*
68952488 GATCAAATAAGTCC
1 GATCAAATTAGTCC
68952502 AAATTGTAAC
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
29 20 0.54
30 17 0.46
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.33
Consensus pattern (30 bp):
GATCAAATTAGTCCCTATAATATTAAAAAG
Found at i:68962196 original size:36 final size:34
Alignment explanation
Indices: 68962149--68962220 Score: 92
Period size: 35 Copynumber: 2.1 Consensus size: 34
68962139 CATTTTATTG
68962149 TTTTATAATT-AATTATAAATATAAAAATAATTTTA
1 TTTTATAATTAAATT-TAAATA-AAAAATAATTTTA
* *
68962184 TTTTAATAATTAAATTTAAATAAAAATTATTTTTA
1 TTTT-ATAATTAAATTTAAATAAAAAATAATTTTA
68962219 TT
1 TT
68962221 AAAATTTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
35 17 0.52
36 12 0.36
37 4 0.12
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (34 bp):
TTTTATAATTAAATTTAAATAAAAAATAATTTTA
Found at i:68963678 original size:18 final size:19
Alignment explanation
Indices: 68963647--68963683 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
68963637 AATTAGATTT
*
68963647 TTTATATTTTTATTCTTGA
1 TTTATATTTATATTCTTGA
68963666 TTTA-ATTTATATTCTTGA
1 TTTATATTTATATTCTTGA
68963684 GTCAGTAACG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.65
Consensus pattern (19 bp):
TTTATATTTATATTCTTGA
Found at i:68963939 original size:18 final size:18
Alignment explanation
Indices: 68963916--68963951 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
68963906 AATGATTTTC
*
68963916 TGTCTTAACCTATAATGA
1 TGTCTTAACCTAGAATGA
*
68963934 TGTCTTAATCTAGAATGA
1 TGTCTTAACCTAGAATGA
68963952 GATACTCCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (18 bp):
TGTCTTAACCTAGAATGA
Found at i:68967242 original size:3 final size:3
Alignment explanation
Indices: 68967236--68967267 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
68967226 AACCATATAC
*
68967236 TAT TAT TAT TAT TAT AAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
68967268 ACCTACAACC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:68986359 original size:32 final size:32
Alignment explanation
Indices: 68986318--68986378 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
68986308 GGGGTTAAGA
*
68986318 AATTTATAGCATTAAGGTCTCACTAATCTTGT
1 AATTTATAGCATTAAGGTCCCACTAATCTTGT
68986350 AATTTATAGCATTAAGGTCCCACTAATCT
1 AATTTATAGCATTAAGGTCCCACTAATCT
68986379 CATTTTTCTC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.33, C:0.18, G:0.11, T:0.38
Consensus pattern (32 bp):
AATTTATAGCATTAAGGTCCCACTAATCTTGT
Found at i:69001973 original size:2 final size:2
Alignment explanation
Indices: 69001961--69001992 Score: 55
Period size: 2 Copynumber: 15.5 Consensus size: 2
69001951 TAAAGTATCA
69001961 AT AT CAT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT A
69001993 AAGGGGTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 27 0.93
3 2 0.07
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:69002218 original size:81 final size:81
Alignment explanation
Indices: 69002124--69002373 Score: 374
Period size: 81 Copynumber: 3.1 Consensus size: 81
69002114 TGGAGCATGT
* * *
69002124 AGCATGTGCCTTCTTAATGGGACTTTATTAATTGGACCAACGCATGGAACTGCAAAAAAGTTGAA
1 AGCATGTGCCTTCTTAATGGGAGTTTATTAATTGGACCAACGCATGGAACTGCAAAAGAGTTGGA
*
69002189 ATCAACACAACATTAG
66 ATCAACACAACATTGG
* *
69002205 AGCATGTGCCTTCTTAATGGGAGTTTATTAATTGGACCAACACATGGAACTTCAAAAGAGTTGGA
1 AGCATGTGCCTTCTTAATGGGAGTTTATTAATTGGACCAACGCATGGAACTGCAAAAGAGTTGGA
*
69002270 ATCAACACAACAATGG
66 ATCAACACAACATTGG
* * * * *
69002286 CGCATGGGCCTTCTTAATGGGAGTTTATTAATTGGACCAACGCTTGGAATTGCAATAGAGTTGGA
1 AGCATGTGCCTTCTTAATGGGAGTTTATTAATTGGACCAACGCATGGAACTGCAAAAGAGTTGGA
*
69002351 ATCAACATAACATTGG
66 ATCAACACAACATTGG
*
69002367 AGTATGT
1 AGCATGT
69002374 AGCATCTGCC
Statistics
Matches: 150, Mismatches: 19, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 150 1.00
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.28
Consensus pattern (81 bp):
AGCATGTGCCTTCTTAATGGGAGTTTATTAATTGGACCAACGCATGGAACTGCAAAAGAGTTGGA
ATCAACACAACATTGG
Found at i:69002356 original size:162 final size:164
Alignment explanation
Indices: 69002068--69002373 Score: 438
Period size: 162 Copynumber: 1.9 Consensus size: 164
69002058 GCATGAAGTT
* *
69002068 TTGGACCAACCATGGAACTACAAAAGAGTTGGAATCAACACAACATTGGAGCATGTAGCATGTGC
1 TTGGACCAACCATGGAACTACAAAAGAGTTGGAATCAACACAACAATGGAGC----AGCATGGGC
69002133 CTTCTTAATGGGACTTTATTAATTGGACCAACGCATGGAACTGCAAAAAAGTTGAAATCAACACA
62 CTTCTTAATGGGACTTTATTAATTGGACCAACGCATGGAACTGCAAAAAAGTTGAAATCAACACA
69002198 ACATTAGAGCATGTGCCTTCTTAATGGGAGTTTATTAA
127 ACATTAGAGCATGTGCCTTCTTAATGGGAGTTTATTAA
*
69002236 TTGGACCAACACATGGAACTTCAAAAGAGTTGGAATCAACACAACAAT-G-GC-GCATGGGCCTT
1 TTGGACCAAC-CATGGAACTACAAAAGAGTTGGAATCAACACAACAATGGAGCAGCATGGGCCTT
* * * * * * *
69002298 CTTAATGGGAGTTTATTAATTGGACCAACGCTTGGAATTGCAATAGAGTTGGAATCAACATAACA
65 CTTAATGGGACTTTATTAATTGGACCAACGCATGGAACTGCAAAAAAGTTGAAATCAACACAACA
* *
69002363 TTGGAGTATGT
130 TTAGAGCATGT
69002374 AGCATCTGCC
Statistics
Matches: 125, Mismatches: 12, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
162 77 0.62
167 2 0.02
168 11 0.09
169 35 0.28
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.26
Consensus pattern (164 bp):
TTGGACCAACCATGGAACTACAAAAGAGTTGGAATCAACACAACAATGGAGCAGCATGGGCCTTC
TTAATGGGACTTTATTAATTGGACCAACGCATGGAACTGCAAAAAAGTTGAAATCAACACAACAT
TAGAGCATGTGCCTTCTTAATGGGAGTTTATTAA
Found at i:69017201 original size:25 final size:25
Alignment explanation
Indices: 69017160--69017243 Score: 105
Period size: 25 Copynumber: 3.4 Consensus size: 25
69017150 CCACAGTTCA
* *
69017160 CATGAGCTTCCTGTTATACAGCTCG
1 CATGAGCTTCCCGTTATTCAGCTCG
* *
69017185 CATGAGCTTCCCATTATTCAGCTTG
1 CATGAGCTTCCCGTTATTCAGCTCG
*
69017210 CATGAGCTTTCCGTTATTCAGCTCG
1 CATGAGCTTCCCGTTATTCAGCTCG
* *
69017235 AAAGAGCTT
1 CATGAGCTT
69017244 ACTGTTTACA
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 50 1.00
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.33
Consensus pattern (25 bp):
CATGAGCTTCCCGTTATTCAGCTCG
Found at i:69018860 original size:22 final size:21
Alignment explanation
Indices: 69018835--69018877 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
69018825 AAAATTTGAA
69018835 TTAAGAAAAAAAAACAGAAAAT
1 TTAA-AAAAAAAAACAGAAAAT
* *
69018857 TTAAAGAAAAAAAGAGAAAAT
1 TTAAAAAAAAAAACAGAAAAT
69018878 GATAACATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.72, C:0.02, G:0.12, T:0.14
Consensus pattern (21 bp):
TTAAAAAAAAAAACAGAAAAT
Found at i:69022290 original size:54 final size:54
Alignment explanation
Indices: 69022226--69022331 Score: 194
Period size: 54 Copynumber: 2.0 Consensus size: 54
69022216 ACGATGATCG
* *
69022226 GCAATATTTTTTAAACCGGATTGATAATTAAATCGATCAAATCATTAATTTACC
1 GCAATATTTTTTAAACCGGATCGATAATTAAATCGATCAAATCACTAATTTACC
69022280 GCAATATTTTTTAAACCGGATCGATAATTAAATCGATCAAATCACTAATTTA
1 GCAATATTTTTTAAACCGGATCGATAATTAAATCGATCAAATCACTAATTTA
69022332 TCGATCTGAT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.40, C:0.15, G:0.09, T:0.36
Consensus pattern (54 bp):
GCAATATTTTTTAAACCGGATCGATAATTAAATCGATCAAATCACTAATTTACC
Found at i:69022359 original size:29 final size:29
Alignment explanation
Indices: 69022325--69022381 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
69022315 ATCAAATCAC
*
69022325 TAATTTATCGATCTGATCAATCTGATAAT
1 TAATTTACCGATCTGATCAATCTGATAAT
69022354 TAATTTACCGATCTGATCAATCTGATAA
1 TAATTTACCGATCTGATCAATCTGATAA
69022382 AAAATTATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.39
Consensus pattern (29 bp):
TAATTTACCGATCTGATCAATCTGATAAT
Found at i:69028038 original size:11 final size:11
Alignment explanation
Indices: 69028006--69028030 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
69027996 ATAGAAACAG
69028006 AAAAATAATAT
1 AAAAATAATAT
69028017 AAAAATAATAT
1 AAAAATAATAT
69028028 AAA
1 AAA
69028031 TATGATATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (11 bp):
AAAAATAATAT
Found at i:69031065 original size:17 final size:17
Alignment explanation
Indices: 69031043--69031079 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
69031033 GTCATAAGAA
69031043 AAGAATCAAATCAAAGT
1 AAGAATCAAATCAAAGT
69031060 AAGAATCAAATCAAAGT
1 AAGAATCAAATCAAAGT
69031077 AAG
1 AAG
69031080 CACAAAGATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.59, C:0.11, G:0.14, T:0.16
Consensus pattern (17 bp):
AAGAATCAAATCAAAGT
Found at i:69032123 original size:28 final size:29
Alignment explanation
Indices: 69032063--69032135 Score: 87
Period size: 28 Copynumber: 2.5 Consensus size: 29
69032053 ATGTAATAAA
* *
69032063 AAATTATAAAAAAAATCAATAAAAATTATT
1 AAATTTTAATAAAAAT-AATAAAAATTATT
69032093 AAATTTTAATAAAAAT-ATAAAAA-TATCT
1 AAATTTTAATAAAAATAATAAAAATTAT-T
*
69032121 AAATTTTATTAAAAA
1 AAATTTTAATAAAAA
69032136 CTAGAAACTT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
27 3 0.08
28 22 0.56
30 14 0.36
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (29 bp):
AAATTTTAATAAAAATAATAAAAATTATT
Found at i:69032229 original size:21 final size:21
Alignment explanation
Indices: 69032203--69032267 Score: 71
Period size: 21 Copynumber: 3.0 Consensus size: 21
69032193 TAAATACGAA
*
69032203 TCTTTTACGAATTTTAT-ATTT
1 TCTTTTAC-ATTTTTATAATTT
69032224 TCTTTTACATTATTTATAATTT
1 TCTTTTACATT-TTTATAATTT
*
69032246 T-TTTTACTATTTTTATGATTT
1 TCTTTTAC-ATTTTTATAATTT
69032267 T
1 T
69032268 TATAAAGTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
20 2 0.05
21 29 0.74
22 8 0.21
ACGTcount: A:0.23, C:0.08, G:0.03, T:0.66
Consensus pattern (21 bp):
TCTTTTACATTTTTATAATTT
Found at i:69032540 original size:50 final size:50
Alignment explanation
Indices: 69032437--69032541 Score: 147
Period size: 50 Copynumber: 2.1 Consensus size: 50
69032427 ATTAATGATC
* * *
69032437 AAAAAATTTTTTTTATGCATTTTAATAATTTAAGTACACAATTAAGTGTA
1 AAAAAACTTTTTTGATGCATTTTAATAATTTAAGTACACAATTAAGTGAA
** * *
69032487 AAAAAACTTTTTTGATGCATTTTAATAATTTAAGTACGTACTTGAGTGAA
1 AAAAAACTTTTTTGATGCATTTTAATAATTTAAGTACACAATTAAGTGAA
69032537 AAAAA
1 AAAAA
69032542 TTAATGGGTT
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.43, C:0.07, G:0.10, T:0.40
Consensus pattern (50 bp):
AAAAAACTTTTTTGATGCATTTTAATAATTTAAGTACACAATTAAGTGAA
Found at i:69036542 original size:9 final size:9
Alignment explanation
Indices: 69036513--69036549 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
69036503 TGAGTTTTCG
69036513 AATTCGAAT
1 AATTCGAAT
*
69036522 AACTCGAAT
1 AATTCGAAT
69036531 AATTCGAAT
1 AATTCGAAT
*
69036540 AATTAGAAT
1 AATTCGAAT
69036549 A
1 A
69036550 TTAAACTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.49, C:0.11, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:69037048 original size:13 final size:12
Alignment explanation
Indices: 69037030--69037092 Score: 58
Period size: 12 Copynumber: 5.2 Consensus size: 12
69037020 AGTAATAATT
69037030 TTATTTATATATA
1 TTATTTATAT-TA
69037043 TTATTTATATTA
1 TTATTTATATTA
* *
69037055 TTAAATTAAATT-
1 TT-ATTTATATTA
*
69037067 TTATATTTTA-TA
1 TTAT-TTATATTA
69037079 TTATTTATATTA
1 TTATTTATATTA
69037091 TT
1 TT
69037093 GAATTGTTTA
Statistics
Matches: 40, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
11 6 0.15
12 17 0.43
13 17 0.43
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (12 bp):
TTATTTATATTA
Found at i:69037051 original size:9 final size:9
Alignment explanation
Indices: 69037029--69037092 Score: 55
Period size: 9 Copynumber: 7.2 Consensus size: 9
69037019 TAGTAATAAT
69037029 TTTAT-TTA
1 TTTATATTA
*
69037037 TATATATTA
1 TTTATATTA
69037046 TTTATATTA
1 TTTATATTA
*
69037055 -TTAAATTAAA
1 TTTATATT--A
69037065 TTT-TA-TA
1 TTTATATTA
69037072 TTTTATATTA
1 -TTTATATTA
69037082 TTTATATTA
1 TTTATATTA
69037091 TT
1 TT
69037093 GAATTGTTTA
Statistics
Matches: 45, Mismatches: 4, Indels: 13
0.73 0.06 0.21
Matches are distributed among these distances:
7 1 0.02
8 13 0.29
9 25 0.56
10 4 0.09
11 2 0.04
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (9 bp):
TTTATATTA
Found at i:69038477 original size:28 final size:30
Alignment explanation
Indices: 69038437--69038499 Score: 103
Period size: 29 Copynumber: 2.2 Consensus size: 30
69038427 ACAGTTATAA
*
69038437 AAAAATAATAAAAATTA-TTAAATTTTATT
1 AAAAATAATAAAAAATATTTAAATTTTATT
69038466 AAAAAT-ATAAAAAATATTTAAATTTTATT
1 AAAAATAATAAAAAATATTTAAATTTTATT
69038495 AAAAA
1 AAAAA
69038500 CTAGGAAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 9 0.28
29 23 0.72
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (30 bp):
AAAAATAATAAAAAATATTTAAATTTTATT
Found at i:69038611 original size:10 final size:10
Alignment explanation
Indices: 69038596--69038713 Score: 60
Period size: 10 Copynumber: 12.7 Consensus size: 10
69038586 TTCCTTTCAC
69038596 ATTTTTTATA
1 ATTTTTTATA
69038606 ATTTTTT-TA
1 ATTTTTTATA
* *
69038615 CTATTTTTATG
1 AT-TTTTTATA
69038626 A-TTTTTATA
1 ATTTTTTATA
**
69038635 AAATTTTATA
1 ATTTTTTATA
69038645 A--TTTT-TA
1 ATTTTTTATA
*
69038652 A-TTTTTA-C
1 ATTTTTTATA
69038660 ATTTTTCT-TA
1 ATTTTT-TATA
*
69038670 ATTTTTAAT-
1 ATTTTTTATA
*
69038679 A-TTTTAAT-
1 ATTTTTTATA
*
69038687 ATTTTTAATA
1 ATTTTTTATA
*
69038697 AATTTTTATA
1 ATTTTTTATA
69038707 ATTTTTT
1 ATTTTTT
69038714 TATTAAAAAA
Statistics
Matches: 86, Mismatches: 11, Indels: 22
0.72 0.09 0.18
Matches are distributed among these distances:
7 3 0.03
8 17 0.20
9 23 0.27
10 42 0.49
11 1 0.01
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.66
Consensus pattern (10 bp):
ATTTTTTATA
Found at i:69038621 original size:9 final size:8
Alignment explanation
Indices: 69038609--69038717 Score: 58
Period size: 9 Copynumber: 12.2 Consensus size: 8
69038599 TTTTATAATT
69038609 TTTTTACTA
1 TTTTTA-TA
69038618 TTTTTATGA
1 TTTTTAT-A
69038627 TTTTTATAAA
1 TTTTTAT--A
*
69038637 ATTTTATAA
1 TTTTTAT-A
69038646 TTTTTA-A
1 TTTTTATA
*
69038653 TTTTTACA
1 TTTTTATA
*
69038661 TTTTTCTTAA
1 TTTTT-AT-A
69038671 TTTTTAATA
1 TTTTT-ATA
*
69038680 TTTTAATA
1 TTTTTATA
69038688 TTTTTAATAAA
1 TTTTT-AT--A
69038699 TTTTTATAA
1 TTTTTAT-A
*
69038708 TTTTTTTA
1 TTTTTATA
69038716 TT
1 TT
69038718 AAAAAAGATT
Statistics
Matches: 82, Mismatches: 10, Indels: 17
0.75 0.09 0.16
Matches are distributed among these distances:
7 7 0.09
8 17 0.21
9 36 0.44
10 16 0.20
11 6 0.07
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (8 bp):
TTTTTATA
Found at i:69038623 original size:20 final size:19
Alignment explanation
Indices: 69038598--69038712 Score: 72
Period size: 19 Copynumber: 5.7 Consensus size: 19
69038588 CCTTTCACAT
* *
69038598 TTTTTATAATTTTTTTACTA
1 TTTTTATAATTTTTATA-AA
*
69038618 TTTTTATGATTTTTATAAA
1 TTTTTATAATTTTTATAAA
* *
69038637 ATTTTATAATTTTTAATTTTTACA
1 TTTTTATAATTTTT-A----TAAA
* *
69038661 TTTTTCTTAATTTTTA-ATA
1 TTTTT-ATAATTTTTATAAA
*
69038680 TTTTAAT-ATTTTTAATAAA
1 TTTTTATAATTTTT-ATAAA
69038699 TTTTTATAATTTTT
1 TTTTTATAATTTTT
69038713 TTATTAAAAA
Statistics
Matches: 73, Mismatches: 13, Indels: 18
0.70 0.12 0.17
Matches are distributed among these distances:
17 6 0.08
18 2 0.03
19 27 0.37
20 22 0.30
24 8 0.11
25 8 0.11
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (19 bp):
TTTTTATAATTTTTATAAA
Found at i:69038683 original size:18 final size:18
Alignment explanation
Indices: 69038628--69038696 Score: 56
Period size: 17 Copynumber: 4.0 Consensus size: 18
69038618 TTTTTATGAT
* *
69038628 TTTTATAAAATTTT-ATA
1 TTTTATTAATTTTTAATA
*
69038645 ATTT-TTAATTTTTACAT-
1 TTTTATTAATTTTTA-ATA
*
69038662 TTTTCTTAATTTTTAATA
1 TTTTATTAATTTTTAATA
*
69038680 TTTTAAT-ATTTTTAATA
1 TTTTATTAATTTTTAATA
69038697 AATTTTTATA
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
16 7 0.17
17 18 0.43
18 17 0.40
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (18 bp):
TTTTATTAATTTTTAATA
Found at i:69042341 original size:25 final size:25
Alignment explanation
Indices: 69042293--69042341 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
69042283 TAGCTGCGTC
**
69042293 AGTTTTTAACAGTAAAAATGAATTA
1 AGTTTTTAACAGTAAAAACCAATTA
69042318 AGTTTTTAACAG-AAAAGACCAATT
1 AGTTTTTAACAGTAAAA-ACCAATT
69042342 TGCTCTTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.47, C:0.08, G:0.12, T:0.33
Consensus pattern (25 bp):
AGTTTTTAACAGTAAAAACCAATTA
Found at i:69045186 original size:55 final size:55
Alignment explanation
Indices: 69045125--69045235 Score: 204
Period size: 55 Copynumber: 2.0 Consensus size: 55
69045115 GGTATCGGTT
*
69045125 TGCTACAGAGAATCATAATAATAAAGCACATAAATAATACAGTTTCTTATCGTAA
1 TGCTACAGAGAATCATAATAATAAAGCACATAAATAATACAGTTTCTTATCATAA
*
69045180 TGCTACAGAGAATCATAATAATAAAGCACGTAAATAATACAGTTTCTTATCATAA
1 TGCTACAGAGAATCATAATAATAAAGCACATAAATAATACAGTTTCTTATCATAA
69045235 T
1 T
69045236 AACCGTGATA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.45, C:0.14, G:0.11, T:0.30
Consensus pattern (55 bp):
TGCTACAGAGAATCATAATAATAAAGCACATAAATAATACAGTTTCTTATCATAA
Found at i:69048084 original size:16 final size:18
Alignment explanation
Indices: 69048045--69048078 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
69048035 AGTTTATATA
69048045 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
69048062 ATTTTTATATATTATGT
1 ATATTTATATATTATGT
69048079 AATTTAGAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:69048589 original size:5 final size:5
Alignment explanation
Indices: 69048579--69048607 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
69048569 ATTTATAATT
69048579 AATAA AATAA AATAA AATAA AATAA AATA
1 AATAA AATAA AATAA AATAA AATAA AATA
69048608 TTTCCAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AATAA
Found at i:69056235 original size:23 final size:24
Alignment explanation
Indices: 69056195--69056242 Score: 80
Period size: 23 Copynumber: 2.0 Consensus size: 24
69056185 CTTCATCATG
69056195 AGTGAAATAAAAAACCCCATAAAA
1 AGTGAAATAAAAAACCCCATAAAA
*
69056219 AGTGAAAT-TAAAACCCCATAAAA
1 AGTGAAATAAAAAACCCCATAAAA
69056242 A
1 A
69056243 CTTGTCATAG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 15 0.65
24 8 0.35
ACGTcount: A:0.60, C:0.17, G:0.08, T:0.15
Consensus pattern (24 bp):
AGTGAAATAAAAAACCCCATAAAA
Found at i:69069511 original size:24 final size:25
Alignment explanation
Indices: 69069461--69069513 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 25
69069451 ATTATTTTTT
* *
69069461 ATATATATTTTAGAATTTTTTAAAA
1 ATATAAATTTTAGAAATTTTTAAAA
*
69069486 ATATAAATTTT-GAAATTTTTATAA
1 ATATAAATTTTAGAAATTTTTAAAA
69069510 ATAT
1 ATAT
69069514 TTTGAATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 15 0.60
25 10 0.40
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (25 bp):
ATATAAATTTTAGAAATTTTTAAAA
Found at i:69069523 original size:19 final size:19
Alignment explanation
Indices: 69069492--69069563 Score: 92
Period size: 20 Copynumber: 3.7 Consensus size: 19
69069482 AAAAATATAA
69069492 ATTTTGAAATTTTTATAAA-T
1 ATTTTG-AATTTTTA-AAACT
* *
69069512 ATTTTGAATTTTAAAAATT
1 ATTTTGAATTTTTAAAACT
69069531 ATTTTGAATTTTTGAAAACT
1 ATTTTGAATTTTT-AAAACT
69069551 ATTTTGAATTTTT
1 ATTTTGAATTTTT
69069564 TTTGTAATTT
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
18 3 0.06
19 20 0.43
20 24 0.51
ACGTcount: A:0.36, C:0.01, G:0.07, T:0.56
Consensus pattern (19 bp):
ATTTTGAATTTTTAAAACT
Found at i:69069554 original size:39 final size:41
Alignment explanation
Indices: 69069456--69069562 Score: 123
Period size: 39 Copynumber: 2.6 Consensus size: 41
69069446 AAAATATTAT
*
69069456 TTTTTATATATATTTTAGAATTTTTTAAAAATATAAATTTTGAAA
1 TTTTTATAAATATTTT-GAA--TTTTAAAAATAT-AATTTTGAAA
69069501 TTTTTATAAATATTTTGAATTTTAAAAAT-T-ATTTTG-AA
1 TTTTTATAAATATTTTGAATTTTAAAAATATAATTTTGAAA
69069539 TTTTTGA-AAACTATTTTGAATTTT
1 TTTTT-ATAAA-TATTTTGAATTTT
69069563 TTTTGTAATT
Statistics
Matches: 59, Mismatches: 1, Indels: 10
0.84 0.01 0.14
Matches are distributed among these distances:
38 10 0.17
39 20 0.34
41 1 0.02
42 10 0.17
44 3 0.05
45 15 0.25
ACGTcount: A:0.38, C:0.01, G:0.06, T:0.55
Consensus pattern (41 bp):
TTTTTATAAATATTTTGAATTTTAAAAATATAATTTTGAAA
Found at i:69070387 original size:15 final size:16
Alignment explanation
Indices: 69070367--69070406 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
69070357 AATGATGTGA
69070367 ATTAAAATAT-AAAAT
1 ATTAAAATATCAAAAT
69070382 ATTAAAATATCAAAAT
1 ATTAAAATATCAAAAT
*
69070398 ATTAGAATA
1 ATTAAAATA
69070407 ATAATAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 10 0.43
16 13 0.57
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (16 bp):
ATTAAAATATCAAAAT
Found at i:69070389 original size:8 final size:8
Alignment explanation
Indices: 69070367--69070406 Score: 55
Period size: 8 Copynumber: 5.1 Consensus size: 8
69070357 AATGATGTGA
69070367 ATTAAAAT
1 ATTAAAAT
69070375 A-TAAAAT
1 ATTAAAAT
69070382 ATTAAAAT
1 ATTAAAAT
*
69070390 ATCAAAAT
1 ATTAAAAT
*
69070398 ATTAGAAT
1 ATTAAAAT
69070406 A
1 A
69070407 ATAATAATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
7 7 0.25
8 21 0.75
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (8 bp):
ATTAAAAT
Found at i:69070590 original size:25 final size:25
Alignment explanation
Indices: 69070562--69070610 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
69070552 CGTGATAATA
**
69070562 TTAAAAATATGTACATAATATAGTG
1 TTAAAAATACATACATAATATAGTG
*
69070587 TTAAAAATACATATATAATATAGT
1 TTAAAAATACATACATAATATAGT
69070611 TAAGATATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.51, C:0.04, G:0.08, T:0.37
Consensus pattern (25 bp):
TTAAAAATACATACATAATATAGTG
Found at i:69070679 original size:25 final size:25
Alignment explanation
Indices: 69070650--69070779 Score: 82
Period size: 23 Copynumber: 5.6 Consensus size: 25
69070640 AAAAATATAT
69070650 ATATATAAATAATATAATATTAAAG
1 ATATATAAATAATATAATATTAAAG
* * *
69070675 ATATATACATAAAATAGTA-TAAA-
1 ATATATAAATAATATAATATTAAAG
** *
69070698 ATATATATGTAATATAGA-ATTTAA-
1 ATATATAAATAATATA-ATATTAAAG
** *
69070722 A-ATATACCTAATAT-AT-TAAAAG
1 ATATATAAATAATATAATATTAAAG
*
69070744 A-ATATATATAATATAATATT-AAG
1 ATATATAAATAATATAATATTAAAG
*
69070767 AAATAT-AATAATA
1 ATATATAAATAATA
69070780 AAAAAAAGAG
Statistics
Matches: 82, Mismatches: 16, Indels: 16
0.72 0.14 0.14
Matches are distributed among these distances:
21 4 0.05
22 12 0.15
23 37 0.45
24 13 0.16
25 16 0.20
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.35
Consensus pattern (25 bp):
ATATATAAATAATATAATATTAAAG
Found at i:69071340 original size:30 final size:30
Alignment explanation
Indices: 69071306--69071424 Score: 211
Period size: 30 Copynumber: 4.0 Consensus size: 30
69071296 AATGGAGCAA
* *
69071306 GTGTGGCTAGTGGATTTGGTGGTGGAAGAG
1 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
69071336 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
1 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
*
69071366 GAGTGGCTAGTGGAGTTGGTGGTGGAAAAG
1 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
69071396 GTGTGGCTAGTGGAGTTGGTGGTGGAAAA
1 GTGTGGCTAGTGGAGTTGGTGGTGGAAAA
69071425 AGCTAAGATT
Statistics
Matches: 85, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 85 1.00
ACGTcount: A:0.20, C:0.03, G:0.50, T:0.27
Consensus pattern (30 bp):
GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
Found at i:69072332 original size:13 final size:14
Alignment explanation
Indices: 69072284--69072346 Score: 74
Period size: 14 Copynumber: 4.5 Consensus size: 14
69072274 GAGTTGATTT
* *
69072284 TTGAAAAATATAAA
1 TTGAAAAACAGAAA
69072298 TTGGAAAAACAGAAA
1 TT-GAAAAACAGAAA
*
69072313 TTGAAAAGCAGAAA
1 TTGAAAAACAGAAA
*
69072327 TT-AAAAACAGAAT
1 TTGAAAAACAGAAA
69072340 TTGAAAA
1 TTGAAAA
69072347 GACCTCAGCG
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
13 11 0.26
14 19 0.45
15 12 0.29
ACGTcount: A:0.60, C:0.05, G:0.14, T:0.21
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:69072402 original size:117 final size:117
Alignment explanation
Indices: 69072211--69072435 Score: 301
Period size: 117 Copynumber: 1.9 Consensus size: 117
69072201 ACTTAATTTG
* * * *
69072211 AAAAACAGATTTTGAAAATACCTCGACATGTGAACCCAAGGCTCAACTCACATCTCGCGATATGA
1 AAAAACAGAATTTGAAAAGACCTCGACATGTGAACCCAAGACTCAACTCACATCTCGCAATATGA
* * * *
69072276 GTTGATTTTTGAAAAATATAAATTGGAAAAACAGAAATTGAAAAGCAGAAATT
66 GTTGATTTTTGAAAAACAGAAATT-GAAAAACAAAAATGGAAAAGCAGAAATT
* * * *
69072329 AAAAACAGAATTTGAAAAGACCTC-AGCGTGTG-GCCCGAGACTCAACTCACCTCTCGCAATATG
1 AAAAACAGAATTTGAAAAGACCTCGA-CATGTGAACCCAAGACTCAACTCACATCTCGCAATATG
*
69072392 AGTTGATTTTTGAAAAGCAGAAATTGAAAAACAAAAATGGAAAA
65 AGTTGATTTTTGAAAAACAGAAATTGAAAAACAAAAATGGAAAA
69072436 CACCTCAGCG
Statistics
Matches: 93, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
116 17 0.18
117 49 0.53
118 27 0.29
ACGTcount: A:0.44, C:0.16, G:0.17, T:0.23
Consensus pattern (117 bp):
AAAAACAGAATTTGAAAAGACCTCGACATGTGAACCCAAGACTCAACTCACATCTCGCAATATGA
GTTGATTTTTGAAAAACAGAAATTGAAAAACAAAAATGGAAAAGCAGAAATT
Found at i:69072680 original size:14 final size:14
Alignment explanation
Indices: 69072644--69072694 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
69072634 AATTGATATT
* *
69072644 TTGAAAAATATAAA
1 TTGAAAAACAGAAA
69072658 TTGAAAAAAACAGAAA
1 TTG--AAAAACAGAAA
*
69072674 TTGAAAAGCAGAAA
1 TTGAAAAACAGAAA
69072688 TT-AAAAA
1 TTGAAAAA
69072695 GACCTCAGCA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
13 4 0.13
14 15 0.48
16 12 0.39
ACGTcount: A:0.65, C:0.04, G:0.12, T:0.20
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:69072706 original size:106 final size:102
Alignment explanation
Indices: 69072506--69072752 Score: 291
Period size: 106 Copynumber: 2.4 Consensus size: 102
69072496 AGAAATTAAA
* * * * **
69072506 AGGCTCAACTCACCTCTCTCAATATGAGTTGATTTTTGAAAAGTAAAAATTAAAAACAGAGTTTG
1 AGGCTCAACTCACCTCTCGCAATATAAATTGATTTTTGAAAAATAAAAATTAAAAACAGAAATTG
* * * *
69072571 AAAGACAGAATTTGAAAATACCTCGGCATGTGA-CTCG
66 AAAGACAGAAATTAAAAAGACCTCAGCATGTGAGC-CG
*
69072608 AGGCTCAACTCACCTCTCGCAATATAAATTGATATTTTGAAAAATATAAATTGAAAAAAACAGAA
1 AGGCTCAACTCACCTCTCGCAATATAAATTGAT-TTTTGAAAAATAAAAATT---AAAAACAGAA
69072673 ATTGAAA-AGCAGAAATTAAAAAGACCTCAGCATGTGAGCCG
62 ATTGAAAGA-CAGAAATTAAAAAGACCTCAGCATGTGAGCCG
* * * *
69072714 AGACTCAACTCACCTCTCGCAATATGAGTTAATTTTTGA
1 AGGCTCAACTCACCTCTCGCAATATAAATTGATTTTTGA
69072753 CAAACAGAAA
Statistics
Matches: 124, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
102 30 0.24
103 16 0.13
105 7 0.06
106 70 0.56
107 1 0.01
ACGTcount: A:0.40, C:0.17, G:0.16, T:0.26
Consensus pattern (102 bp):
AGGCTCAACTCACCTCTCGCAATATAAATTGATTTTTGAAAAATAAAAATTAAAAACAGAAATTG
AAAGACAGAAATTAAAAAGACCTCAGCATGTGAGCCG
Found at i:69072807 original size:73 final size:75
Alignment explanation
Indices: 69072711--69072918 Score: 303
Period size: 76 Copynumber: 2.8 Consensus size: 75
69072701 AGCATGTGAG
* * * *
69072711 CCGAGACTCAACTCACCTCTCGCAATATGAGTT-A-ATTTTTGACAAACAGAAATTGAAATTACC
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAACAGAAATTGAAAATACA
69072774 TCAGCGTGTC
66 TCAGCGTGTC
* * *
69072784 CCGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTTAAAAATAC
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAACAGAAA-TTGAAAATAC
69072849 ATCAGCGTGTC
65 ATCAGCGTGTC
* * *
69072860 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTACGAACAGAAATTGAA
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAACAGAAATTGAA
69072919 GAACAGAAAT
Statistics
Matches: 119, Mismatches: 13, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
73 31 0.26
74 1 0.01
75 20 0.17
76 67 0.56
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.30
Consensus pattern (75 bp):
CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAACAGAAATTGAAAATACA
TCAGCGTGTC
Found at i:69072874 original size:76 final size:74
Alignment explanation
Indices: 69072674--69072915 Score: 299
Period size: 76 Copynumber: 3.2 Consensus size: 74
69072664 AAAACAGAAA
* * * *
69072674 TTGAAAAGCAGAAATTAAAAAGACCTCAGCATGTGAGCCGAGACTCAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAAATTAAAAATACCTCAGC--GTG-TCCGAGGCTCAACTCACCTCTCGCAATAT
*
69072739 GAGTT-A-ATTT
63 GAGTTGATTTTT
* * * *
69072749 TTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTTTCGCAATATGA
1 TTGAAAAACAGAAATTAAAAATACCTCAGCGTGT-CCGAGGCTCAACTCACCTCTCGCAATATGA
69072814 GTTGATTTTT
65 GTTGATTTTT
*
69072824 TTGAAAAACAGAAATTTAAAAATACATCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAAACAGAAA-TTAAAAATACCTCAGCGTGTCC-GAGGCTCAACTCACCTCTCGCAATATG
69072889 AGTTGATTTTT
64 AGTTGATTTTT
* **
69072900 TTTACGAACAGAAATT
1 TTGAAAAACAGAAATT
69072916 GAAGAACAGA
Statistics
Matches: 145, Mismatches: 17, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
73 34 0.23
74 1 0.01
75 45 0.31
76 65 0.45
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.29
Consensus pattern (74 bp):
TTGAAAAACAGAAATTAAAAATACCTCAGCGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTT
Found at i:69072924 original size:14 final size:14
Alignment explanation
Indices: 69072905--69072932 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
69072895 TTTTTTTTAC
69072905 GAACAGAAATTGAA
1 GAACAGAAATTGAA
69072919 GAACAGAAATTGAA
1 GAACAGAAATTGAA
69072933 AAGACCTCAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.07, G:0.21, T:0.14
Consensus pattern (14 bp):
GAACAGAAATTGAA
Found at i:69073054 original size:73 final size:74
Alignment explanation
Indices: 69072914--69073082 Score: 214
Period size: 73 Copynumber: 2.3 Consensus size: 74
69072904 CGAACAGAAA
* * *
69072914 TTGAAGAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCATCTCTCGCAATAT
1 TTGAAAAACAGAAATTGAAAAGACCTCAGCA-GTGACCCGAGGCTCAACTCACCTCTCGCAATAT
69072979 GAGTTAATTT
65 GAGTTAATTT
* ** * * *
69072989 TTGACAAACAGAAATTGAAATTACCTCAGC-GTGTCCCGATGCTCAACTCACCTTTCGCAATATG
1 TTGAAAAACAGAAATTGAAAAGACCTCAGCAGTGACCCGAGGCTCAACTCACCTCTCGCAATATG
*
69073053 AGTTGATTT
66 AGTTAATTT
* *
69073062 TTGAAAAATATAAATTGAAAA
1 TTGAAAAACAGAAATTGAAAA
69073083 AACAGAAATT
Statistics
Matches: 80, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
73 54 0.68
75 26 0.32
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (74 bp):
TTGAAAAACAGAAATTGAAAAGACCTCAGCAGTGACCCGAGGCTCAACTCACCTCTCGCAATATG
AGTTAATTT
Found at i:69073111 original size:13 final size:14
Alignment explanation
Indices: 69073062--69073111 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
69073052 GAGTTGATTT
* *
69073062 TTGAAAAATATAAA
1 TTGAAAAACAGAAA
69073076 TTGAAAAAACAGAAA
1 TTG-AAAAACAGAAA
69073091 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
69073105 TT-AAAAA
1 TTGAAAAA
69073112 GACCTCAGCA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
13 5 0.15
14 16 0.48
15 12 0.36
ACGTcount: A:0.66, C:0.04, G:0.10, T:0.20
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:69073221 original size:78 final size:75
Alignment explanation
Indices: 69073091--69073332 Score: 325
Period size: 78 Copynumber: 3.2 Consensus size: 75
69073081 AAAACAGAAA
* * *
69073091 TTGAAAAACAGAAATT-AAAAAGACCTCAGCATGTGAGCCGAGACTCAACTCACCTCTCACAATA
1 TTGAAAAACAGAAATTGAAAAACACCTCAGCATGT-AGCC-AGGCTCAACTCACCTCTCGCAATA
69073155 TGAGTTGATTTTT
64 TGAGTTGA-TTTT
* * *
69073168 TTGACAAACAGAAATTGAAAAATACCTCAGCGTGTAAGCCAAGGCTCAACTCACCTCTCGCAATA
1 TTGAAAAACAGAAATTGAAAAACACCTCAGCATGT-AGCC-AGGCTCAACTCACCTCTCGCAATA
69073233 TGAGTTGATTTT
64 TGAGTTGATTTT
*
69073245 TTGAAAAATAGAAATTG-AAAACACCTCAGCATGT-G--AGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAAACAGAAATTGAAAAACACCTCAGCATGTAGCCAGGCTCAACTCACCTCTCGCAATATG
69073306 AGTTGA-TTT
66 AGTTGATTTT
*
69073315 TTGAAAAACATAAATTGA
1 TTGAAAAACAGAAATTGA
69073333 GCAGAAATTG
Statistics
Matches: 150, Mismatches: 13, Indels: 10
0.87 0.08 0.06
Matches are distributed among these distances:
70 18 0.12
71 32 0.21
74 1 0.01
76 15 0.10
77 34 0.23
78 50 0.33
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.26
Consensus pattern (75 bp):
TTGAAAAACAGAAATTGAAAAACACCTCAGCATGTAGCCAGGCTCAACTCACCTCTCGCAATATG
AGTTGATTTT
Found at i:69073299 original size:71 final size:71
Alignment explanation
Indices: 69073091--69073496 Score: 318
Period size: 71 Copynumber: 5.3 Consensus size: 71
69073081 AAAACAGAAA
* * *
69073091 TTGAAAAACAGAAATTAAAAAGACCTCAGCATGTGAGCCGAGACTCAACTCACCTCTCACAATAT
1 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTGA---G-G-CTCAACTCACCTCTCGCAATAT
69073156 GAGTTGATTTTT
61 GAGTTGA-TTTT
* *
69073168 TTGACAAACAGAAATTGAAAAATACCTCAGCGTGTAAGCCAAGGCTCAACTCACCTCTCGCAATA
1 TTGAAAAACAGAAATTG-AAAATACCTCAGCATGT--G---AGGCTCAACTCACCTCTCGCAATA
69073233 TGAGTTGATTTT
60 TGAGTTGATTTT
* *
69073245 TTGAAAAATAGAAATTGAAAACACCTCAGCATGTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTGAGGCTCAACTCACCTCTCGCAATATGAGTT
69073310 GA-TTT
66 GATTTT
** * *
69073315 TTGAAAAACATAAATTGAGCAGAAATTGAAAATACCTCAACGGGTCTTGAGGTTCAACTCACCTC
1 TTG------A-AAA---A-CAGAAATTGAAAATACCTC-A-GCAT-GTGAGGCTCAACTCACCTC
*
69073380 TTGCAATATGAGTTGATTTT
52 TCGCAATATGAGTTGATTTT
** * * * *
69073400 TTG---ATGATAAATTGAAAATACCTCAATGTGACT-TGAGGTTCAACTCACCTCTCACAATATG
1 TTGAAAAACAGAAATTGAAAATACCTC-A-G-CA-TGTGAGGCTCAACTCACCTCTCGCAATATG
69073461 AGTTGATTTT
62 AGTTGATTTT
69073471 TTGAATTAAAACAGAAATTGAAAATA
1 TTG-A--AAAACAGAAATTGAAAATA
69073497 GAAATGGAAA
Statistics
Matches: 274, Mismatches: 26, Indels: 58
0.77 0.07 0.16
Matches are distributed among these distances:
70 6 0.02
71 91 0.33
72 1 0.00
73 1 0.00
74 1 0.00
75 1 0.00
76 16 0.06
77 51 0.19
78 43 0.16
79 1 0.00
80 3 0.01
81 17 0.06
82 1 0.00
83 3 0.01
84 32 0.12
85 6 0.02
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (71 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCATGTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTT
Found at i:69073437 original size:155 final size:156
Alignment explanation
Indices: 69073213--69073565 Score: 441
Period size: 155 Copynumber: 2.2 Consensus size: 156
69073203 AAGCCAAGGC
69073213 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATAGAAATTGAAAACACCTCAGCATG
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATA-AAATTGAAAACACCTCAGCATG
* * *
69073278 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTG-A-AAAACATAAATTG-AGCAGAA
65 TGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTGAATAAAACAGAAATTGAAACAGAA
* * *
69073339 ATTGAAAATACCTCAACGGGTCTTGAGGT
130 ATGGAAAACACCTC-A-GCGTCTTGAGGT
* ** * *
69073368 TCAACTCACCTCTTGCAATATGAGTTGATTTTTTG-ATGAT-AAATTGAAAATACCTCAATGTGA
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATAAAATTGAAAACACCTC-A-G-CA
*
69073431 CT-TGAGGTTCAACTCACCTCTCACAATATGAGTTGATTTTTTGAATTAAAACAGAAATTGAAAA
63 -TGTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTGAA-TAAAACAGAAATTG-AAA
*
69073495 TAGAAATGGAAAACACCTCAGCGTCTTGAGGT
125 CAGAAATGGAAAACACCTCAGCGTCTTGAGGT
*
69073527 TCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAA
1 TCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAA
69073566 CACATAAATT
Statistics
Matches: 170, Mismatches: 16, Indels: 18
0.83 0.08 0.09
Matches are distributed among these distances:
152 15 0.09
153 1 0.01
154 4 0.02
155 67 0.39
156 7 0.04
157 1 0.01
159 49 0.29
160 8 0.05
161 18 0.11
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (156 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATAAAATTGAAAACACCTCAGCATGT
GAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTGAATAAAACAGAAATTGAAACAGAAA
TGGAAAACACCTCAGCGTCTTGAGGT
Found at i:69073962 original size:74 final size:73
Alignment explanation
Indices: 69073621--69073813 Score: 223
Period size: 72 Copynumber: 2.6 Consensus size: 73
69073611 CGACGTGTGG
* * * *
69073621 CCCGAGACT-AACTCACCTCTCGCAATATGAGTTGATTCTTTTAAAAAGCAAAAATTGAAAATAC
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT-TTTGAAAAA-CAGAAATTAAAAATAC
69073685 CTCAGCGTGT
64 CTCAGCGTGT
* *
69073695 CCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTG-ATAA-A-AAATTAAAAATAC
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTAAAAATAC
** *
69073757 CTCAATGTGA
64 CTCAGCGTGT
**
69073767 CTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA
69073814 TAAATTAAAA
Statistics
Matches: 103, Mismatches: 12, Indels: 11
0.82 0.10 0.09
Matches are distributed among these distances:
70 6 0.06
71 3 0.03
72 52 0.50
73 1 0.01
74 8 0.08
75 28 0.27
76 3 0.03
77 2 0.02
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.30
Consensus pattern (73 bp):
CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAATACCT
CAGCGTGT
Found at i:69073963 original size:74 final size:73
Alignment explanation
Indices: 69073621--69074191 Score: 413
Period size: 74 Copynumber: 7.5 Consensus size: 73
69073611 CGACGTGTGG
* * * *
69073621 CCCGAGACT-AACTCACCTCTCGCAATATGAGTTGATTCTTTTAAAAAGCAAAAATTGAAAATAC
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT-TTTGAAAAA-CAGAAATTAAAAATAC
69073685 CTCAGCGTGT
64 CTCAGCGTGT
* *
69073695 CCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTG-ATAA-A-AAATTAAAAATAC
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTAAAAATAC
** *
69073757 CTCAATGTGA
64 CTCAGCGTGT
** * *
69073767 CTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAA-ATAAATTAAAACACAAA
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT-AAA-A-ATA
** * * *
69073830 AAT-TGACAAT-A
63 CCTCAG-C-GTGT
* * * * * *** **
69073841 CCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAAT-ATGAGTTGATTTTTGAAAAACAGAAA
1 CC-C-GAG-G-CTC-A-ACTC-AC-C-TCTCGCAATATGA-GTT--GATTTTTGAAAAACAGAAA
69073905 TTTAAAAATACCTCAGCGTGT
54 -TTAAAAATACCTCAGCGTGT
* * ** * * *
69073926 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTACGAATAGAAATTGAAAAG
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA----TTTTTGAAAAACAGAAATTAAAAAT
*
69073991 ACCTCAGCATGTGA
62 ACCTCAGC--GTGT
* * * * *
69074005 GCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGACAAACAGAAATTGAAATTACCT
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAATACCT
69074070 CAGCGTGT
66 CAGCGTGT
*
69074078 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTTAAAAATACC
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA-TTAAAAATACC
*
69074143 TCAGAGTGT
65 TCAGCGTGT
* *
69074152 CCTGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTT
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
69074192 CCTTGAAAAG
Statistics
Matches: 389, Mismatches: 74, Indels: 68
0.73 0.14 0.13
Matches are distributed among these distances:
70 10 0.03
71 5 0.01
72 55 0.14
73 54 0.14
74 70 0.18
75 57 0.15
76 12 0.03
77 19 0.05
78 17 0.04
79 40 0.10
80 4 0.01
81 4 0.01
82 3 0.01
83 9 0.02
84 1 0.00
85 14 0.04
86 6 0.02
87 7 0.02
88 2 0.01
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (73 bp):
CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAATACCT
CAGCGTGT
Found at i:69082535 original size:15 final size:16
Alignment explanation
Indices: 69082515--69082554 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
69082505 AATGATGTGA
69082515 ATTAAAATAT-AAAAT
1 ATTAAAATATCAAAAT
69082530 ATTAAAATATCAAAAT
1 ATTAAAATATCAAAAT
*
69082546 ATTAGAATA
1 ATTAAAATA
69082555 ATAATAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 10 0.43
16 13 0.57
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (16 bp):
ATTAAAATATCAAAAT
Found at i:69082537 original size:8 final size:8
Alignment explanation
Indices: 69082515--69082554 Score: 55
Period size: 8 Copynumber: 5.1 Consensus size: 8
69082505 AATGATGTGA
69082515 ATTAAAAT
1 ATTAAAAT
69082523 A-TAAAAT
1 ATTAAAAT
69082530 ATTAAAAT
1 ATTAAAAT
*
69082538 ATCAAAAT
1 ATTAAAAT
*
69082546 ATTAGAAT
1 ATTAAAAT
69082554 A
1 A
69082555 ATAATAATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
7 7 0.25
8 21 0.75
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (8 bp):
ATTAAAAT
Found at i:69082771 original size:22 final size:24
Alignment explanation
Indices: 69082708--69082772 Score: 80
Period size: 25 Copynumber: 2.8 Consensus size: 24
69082698 CGTGATAATA
*
69082708 TTAAAAATATGTACATAATATAGTG
1 TTAAAAATATATACATAATATAG-G
*
69082733 TTAAAAATACATACATAATATA-G
1 TTAAAAATATATACATAATATAGG
*
69082756 TT-AAGATATATACATAA
1 TTAAAAATATATACATAA
69082773 GATAACATGT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
22 13 0.36
23 3 0.08
25 20 0.56
ACGTcount: A:0.52, C:0.06, G:0.08, T:0.34
Consensus pattern (24 bp):
TTAAAAATATATACATAATATAGG
Found at i:69082823 original size:25 final size:25
Alignment explanation
Indices: 69082795--69082928 Score: 77
Period size: 25 Copynumber: 5.6 Consensus size: 25
69082785 AAAAATATAT
69082795 ATATATAAATAATATAATATTAAAG
1 ATATATAAATAATATAATATTAAAG
* * * * *
69082820 ATATATACATAAAATAGTATAAAAT
1 ATATATAAATAATATAATATTAAAG
* *
69082845 ATATATATACGTAATATAGA-ATTTAA-
1 ATATATA-A-ATAATATA-ATATTAAAG
** *
69082871 A-ATATACCTAATAT-AT-TAAAAG
1 ATATATAAATAATATAATATTAAAG
*
69082893 A-ATATATATAATATAATATT-AAG
1 ATATATAAATAATATAATATTAAAG
*
69082916 AAATAT-AATAATA
1 ATATATAAATAATA
69082929 AAAAAAGAGA
Statistics
Matches: 82, Mismatches: 19, Indels: 18
0.69 0.16 0.15
Matches are distributed among these distances:
21 4 0.05
22 12 0.15
23 18 0.22
24 5 0.06
25 32 0.39
26 1 0.01
27 10 0.12
ACGTcount: A:0.57, C:0.03, G:0.04, T:0.35
Consensus pattern (25 bp):
ATATATAAATAATATAATATTAAAG
Found at i:69083487 original size:30 final size:30
Alignment explanation
Indices: 69083409--69083571 Score: 213
Period size: 30 Copynumber: 5.4 Consensus size: 30
69083399 TAGGTACAAG
* *
69083409 TGGTGGTGGAGCAA-GTGTGGTTAGTGGAGT
1 TGGTGGTGGA-AAAGGTGTGGCTAGTGGAGT
* ** * *
69083439 AGGTAATGGAGCAA-GTGTGGCTAGTGGATT
1 TGGTGGTGGA-AAAGGTGTGGCTAGTGGAGT
*
69083469 TGGTGGTGGAAGAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
*
69083499 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
69083529 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
69083559 TGGTGGTGGAAAA
1 TGGTGGTGGAAAA
69083572 AGCTAAGATT
Statistics
Matches: 118, Mismatches: 14, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
29 1 0.01
30 117 0.99
ACGTcount: A:0.21, C:0.04, G:0.48, T:0.26
Consensus pattern (30 bp):
TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
Found at i:69090630 original size:33 final size:33
Alignment explanation
Indices: 69090593--69090663 Score: 76
Period size: 33 Copynumber: 2.2 Consensus size: 33
69090583 CCCGAACCAT
69090593 GAACCCTAG-ACCCGAA-CCTAAACCA-TGAACCCC
1 GAACCCTAGCA-CCGAATCCTAAA-CATTGAA-CCC
* *
69090626 GAACCTTAGCATCGAATCCTAAACATTGAACCC
1 GAACCCTAGCACCGAATCCTAAACATTGAACCC
69090659 GAACC
1 GAACC
69090664 GCGAACCCCG
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
33 22 0.67
34 11 0.33
ACGTcount: A:0.37, C:0.37, G:0.13, T:0.14
Consensus pattern (33 bp):
GAACCCTAGCACCGAATCCTAAACATTGAACCC
Found at i:69094234 original size:4 final size:4
Alignment explanation
Indices: 69094227--69094272 Score: 69
Period size: 4 Copynumber: 12.0 Consensus size: 4
69094217 CCAAGGTAGG
*
69094227 TACA TACA TACA CACA TACA T--A TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
69094273 CTCTTTCATG
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
2 2 0.05
4 36 0.95
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (4 bp):
TACA
Found at i:69094253 original size:18 final size:18
Alignment explanation
Indices: 69094230--69094266 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
69094220 AGGTAGGTAC
69094230 ATACATACACACATACAT
1 ATACATACACACATACAT
*
69094248 ATACATACATACATACAT
1 ATACATACACACATACAT
69094266 A
1 A
69094267 CATACACTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.24
Consensus pattern (18 bp):
ATACATACACACATACAT
Found at i:69094255 original size:22 final size:22
Alignment explanation
Indices: 69094227--69094270 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
69094217 CCAAGGTAGG
69094227 TACATACATACACACATACATA
1 TACATACATACACACATACATA
*
69094249 TACATACATACATACATACATA
1 TACATACATACACACATACATA
69094271 CACTCTTTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (22 bp):
TACATACATACACACATACATA
Found at i:69095986 original size:21 final size:21
Alignment explanation
Indices: 69095940--69095979 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
69095930 AACGCTGTTG
*
69095940 TTTTGTTGTTATTTTTTCATA
1 TTTTGTTGTTATTTTCTCATA
*
69095961 TTTTGTTGTTGTTTTCTCA
1 TTTTGTTGTTATTTTCTCA
69095980 CTTTTTGCCA
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:0.10, C:0.07, G:0.12, T:0.70
Consensus pattern (21 bp):
TTTTGTTGTTATTTTCTCATA
Found at i:69104572 original size:31 final size:30
Alignment explanation
Indices: 69104505--69104561 Score: 82
Period size: 29 Copynumber: 1.9 Consensus size: 30
69104495 TTTAAACCAT
*
69104505 AATCAAATTTTCATGTATATAATTGCACGA
1 AATCAAAATTTCATGTATATAATTGCACGA
69104535 AATCAAAATTT-ATGTATCA-AATTGCAC
1 AATCAAAATTTCATGTAT-ATAATTGCAC
69104562 ATTAAATCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 14 0.56
30 11 0.44
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.35
Consensus pattern (30 bp):
AATCAAAATTTCATGTATATAATTGCACGA
Found at i:69108488 original size:8 final size:8
Alignment explanation
Indices: 69108475--69108500 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
69108465 TTAAAATTAA
69108475 TTCGAATT
1 TTCGAATT
69108483 TTCGAATT
1 TTCGAATT
69108491 TTCGAATT
1 TTCGAATT
69108499 TT
1 TT
69108501 TTCAACATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.23, C:0.12, G:0.12, T:0.54
Consensus pattern (8 bp):
TTCGAATT
Found at i:69108758 original size:16 final size:16
Alignment explanation
Indices: 69108727--69108759 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
69108717 ATGTATATTT
69108727 ATTTTAAAATGATATA
1 ATTTTAAAATGATATA
69108743 ATTTGTAAAATG-TATA
1 ATTT-TAAAATGATATA
69108759 A
1 A
69108760 AAATAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.42
Consensus pattern (16 bp):
ATTTTAAAATGATATA
Found at i:69112520 original size:86 final size:83
Alignment explanation
Indices: 69112280--69112584 Score: 330
Period size: 86 Copynumber: 3.6 Consensus size: 83
69112270 TTTAGATGTG
* *
69112280 TATGAAAGCATTGGTTTATGGTTGAAATAGGAGAAAAGGGTTGTTGGAAATGTTGATATTCGAAT
1 TATGAAA-CATTGG-TTATGGTTGAAATAGGAG-AAAGGGTTGTTGTAAATGTTGAGATTCGAAT
* * * *
69112345 CTTAGACTTACGAAAGT-TGTG
63 ATTGGACTTACGAAAATATG-A
* * * * * *
69112366 TATCAAACATTGGTTTTGGTTGAAATAAGAGAAAGGGGTTCTTGTAAATGTTGAGAGTCGAATGT
1 TATGAAACATTGGTTATGGTTGAAATAGGAGAAA-GGGTTGTTGTAAATGTTGAGATTCGAATAT
**
69112431 TGGACTTATTAAAATATGAA
65 TGGACTTACGAAAATATG-A
* * *
69112451 TATGACACATTAGTTATGATTGAAATAGGAGAAAGGGTTGGGTTGTAAATGTTGAGATTCGAATA
1 TATGAAACATTGGTTATGGTTGAAATAGGAGAAAGGGTT--GTTGTAAATGTTGAGATTCGAATA
*
69112516 TTGGATTTACGAAAAGCTAT-A
64 TTGGACTTACGAAAA--TATGA
69112537 TATGAAACATTGGTTATGGTTGAAATAGGAGAAAGGG--GTTGTAAATGT
1 TATGAAACATTGGTTATGGTTGAAATAGGAGAAAGGGTTGTTGTAAATGT
69112585 CAAAATTCTA
Statistics
Matches: 184, Mismatches: 29, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
82 11 0.06
83 3 0.02
84 57 0.31
85 36 0.20
86 74 0.40
88 3 0.02
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (83 bp):
TATGAAACATTGGTTATGGTTGAAATAGGAGAAAGGGTTGTTGTAAATGTTGAGATTCGAATATT
GGACTTACGAAAATATGA
Found at i:69112654 original size:24 final size:24
Alignment explanation
Indices: 69112627--69112674 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
69112617 ATATCAAGGG
69112627 TGGTTGATGAATCAATTGAGTTAA
1 TGGTTGATGAATCAATTGAGTTAA
69112651 TGGTTGATGAATCAATTGAGTTAA
1 TGGTTGATGAATCAATTGAGTTAA
69112675 GTCCCGAGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.04, G:0.25, T:0.38
Consensus pattern (24 bp):
TGGTTGATGAATCAATTGAGTTAA
Found at i:69115113 original size:4 final size:4
Alignment explanation
Indices: 69115104--69115192 Score: 119
Period size: 4 Copynumber: 22.8 Consensus size: 4
69115094 GCTAAGAAGG
* * *
69115104 TACA TACA TACA TACA TAC- -ACA TACC TACA TACA TGCA TACC TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* *
69115150 TACA TACA TACA TACA TACA TACA TACA TACG CACA TACA TAC
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TAC
69115193 GAATCCGAAG
Statistics
Matches: 73, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
2 2 0.03
4 71 0.97
ACGTcount: A:0.45, C:0.29, G:0.02, T:0.24
Consensus pattern (4 bp):
TACA
Done.