Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 195 of 240
Found at i:59287934 original size:46 final size:45
Alignment explanation
Indices: 59287867--59287955 Score: 169
Period size: 46 Copynumber: 2.0 Consensus size: 45
59287857 GTTAGGGTTA
59287867 GGTCTGTTTTGGTCTTGGGTTTGGGCTGGTTCAGATTGGGCTTTG
1 GGTCTGTTTTGGTCTTGGGTTTGGGCTGGTTCAGATTGGGCTTTG
59287912 GGTCTGTTTTGGGTCTTGGGTTTGGGCTGGTTCAGATTGGGCTT
1 GGTCTGTTTT-GGTCTTGGGTTTGGGCTGGTTCAGATTGGGCTT
59287956 GTACACAATC
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
45 10 0.23
46 33 0.77
ACGTcount: A:0.04, C:0.11, G:0.40, T:0.44
Consensus pattern (45 bp):
GGTCTGTTTTGGTCTTGGGTTTGGGCTGGTTCAGATTGGGCTTTG
Found at i:59290790 original size:17 final size:17
Alignment explanation
Indices: 59290755--59290800 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
59290745 TTCCACTTTG
*
59290755 TTCTTTTTTAATTTCTAT
1 TTCTTTTTT-ATTTATAT
*
59290773 TTCTTATTTATTTATAT
1 TTCTTTTTTATTTATAT
59290790 TT-TTTTTTATT
1 TTCTTTTTTATT
59290801 CTCAAATTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 8 0.32
17 9 0.36
18 8 0.32
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (17 bp):
TTCTTTTTTATTTATAT
Found at i:59293091 original size:34 final size:34
Alignment explanation
Indices: 59293003--59293098 Score: 84
Period size: 34 Copynumber: 2.8 Consensus size: 34
59292993 AATGTGTGCA
* * * **
59293003 AGCCTTATGTTGTGTGCGAGCCCATAAGACATGCG
1 AGCCCTATGTTGTGTG-AACCCCATGTGACATGCG
* * * * *
59293038 AACCCTATGCTATGCGAACCCCATGTGACATGTG
1 AGCCCTATGTTGTGTGAACCCCATGTGACATGCG
*
59293072 AGCCCTATGTTGTGTGAACCCTATGTG
1 AGCCCTATGTTGTGTGAACCCCATGTG
59293099 TATTGTGAGC
Statistics
Matches: 46, Mismatches: 15, Indels: 1
0.74 0.24 0.02
Matches are distributed among these distances:
34 35 0.76
35 11 0.24
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.27
Consensus pattern (34 bp):
AGCCCTATGTTGTGTGAACCCCATGTGACATGCG
Found at i:59295057 original size:40 final size:40
Alignment explanation
Indices: 59294951--59295059 Score: 166
Period size: 40 Copynumber: 2.7 Consensus size: 40
59294941 TGGTCCCCAG
*
59294951 GAAAACGCTTCCTTAAGGAAGCGCTTAGTCCACGTGGACA
1 GAAAACGCTTCCTTAAGGAAGCGCTTTGTCCACGTGGACA
* **
59294991 AAAAACGCTTCCCCAAGGAAGCGCTTTGTCCACGTGGACA
1 GAAAACGCTTCCTTAAGGAAGCGCTTTGTCCACGTGGACA
59295031 GAAAACGCTTCCTTGAA-GAAGCGCTTTGT
1 GAAAACGCTTCCTT-AAGGAAGCGCTTTGT
59295060 GTCCACGTAA
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
40 59 0.97
41 2 0.03
ACGTcount: A:0.29, C:0.26, G:0.24, T:0.21
Consensus pattern (40 bp):
GAAAACGCTTCCTTAAGGAAGCGCTTTGTCCACGTGGACA
Found at i:59295073 original size:19 final size:19
Alignment explanation
Indices: 59295049--59295086 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
59295039 TTCCTTGAAG
* *
59295049 AAGCGCTTTGTGTCCACGT
1 AAGCGCCTTCTGTCCACGT
59295068 AAGCGCCTTCTGTCCACGT
1 AAGCGCCTTCTGTCCACGT
59295087 GGAAAAAGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.16, C:0.32, G:0.24, T:0.29
Consensus pattern (19 bp):
AAGCGCCTTCTGTCCACGT
Found at i:59295387 original size:99 final size:97
Alignment explanation
Indices: 59295211--59295500 Score: 435
Period size: 96 Copynumber: 3.0 Consensus size: 97
59295201 AAATAATAGT
* *
59295211 TTAGGGTTTAGGGTTTCTT-AATTAAATTAATTATAAATTTT-AAAAAATTAGATTAGAGTTTAG
1 TTAGGGTTTAGGGTTACTTGAA-TAAATTAATTATAAATTTTAAAAAAATTAGATTAGGGTTTAG
* * *
59295274 AGTTTATGGTTTTTAAGGAAAAAATTAAATAAA
65 TGTTTAGGGTTTTTAAGGAAAAAATCAAATAAA
* *
59295307 TTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTTAAAAAAAATTAGATCAGGGTTTA
1 TTAGGGTTTAGGGTTACTTGAATAAATTAATTATAAA-TTTT-AAAAAAATTAGATTAGGGTTTA
59295372 GTGTTTAGGGTTTTTAAGGAAAAAATCAAATAAA
64 GTGTTTAGGGTTTTTAAGGAAAAAATCAAATAAA
* *
59295406 TTAGGGTTTA-AGTTACTTGAATAAATTAATTATAAATTTTAAAAAAATTAGATTGGGGTTTAGT
1 TTAGGGTTTAGGGTTACTTGAATAAATTAATTATAAATTTTAAAAAAATTAGATTAGGGTTTAGT
*
59295470 ATTTAGGGTTTTTAAGG-AAAAATCAAATAAA
66 GTTTAGGGTTTTTAAGGAAAAAATCAAATAAA
59295501 ACTAGTTGTT
Statistics
Matches: 178, Mismatches: 12, Indels: 9
0.89 0.06 0.05
Matches are distributed among these distances:
95 14 0.08
96 71 0.40
97 9 0.05
98 24 0.13
99 60 0.34
ACGTcount: A:0.41, C:0.02, G:0.17, T:0.39
Consensus pattern (97 bp):
TTAGGGTTTAGGGTTACTTGAATAAATTAATTATAAATTTTAAAAAAATTAGATTAGGGTTTAGT
GTTTAGGGTTTTTAAGGAAAAAATCAAATAAA
Found at i:59296068 original size:27 final size:27
Alignment explanation
Indices: 59296008--59296069 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
59295998 TTATTTAATG
*
59296008 GAATTTAACATAAATTTTAATATTTTA
1 GAATTTAACATAAATTTTAATATTGTA
* * *
59296035 GTATTTAATATATATTTTAA-ATTGTA
1 GAATTTAACATAAATTTTAATATTGTA
59296061 GAAGTTTAA
1 GAA-TTTAA
59296070 ATTCAAAATT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
26 7 0.24
27 22 0.76
ACGTcount: A:0.42, C:0.02, G:0.08, T:0.48
Consensus pattern (27 bp):
GAATTTAACATAAATTTTAATATTGTA
Found at i:59296157 original size:11 final size:11
Alignment explanation
Indices: 59296141--59296191 Score: 58
Period size: 11 Copynumber: 5.1 Consensus size: 11
59296131 GTTAGACTTA
59296141 ATAAATAATTT
1 ATAAATAATTT
59296152 ATAAATAATTT
1 ATAAATAATTT
59296163 ATAAAT--TTT
1 ATAAATAATTT
59296172 -T-AA-AATTT
1 ATAAATAATTT
*
59296180 ATAATTAATTT
1 ATAAATAATTT
59296191 A
1 A
59296192 ATTAAGAAAC
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
7 2 0.06
8 4 0.12
9 4 0.12
10 1 0.03
11 23 0.68
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (11 bp):
ATAAATAATTT
Found at i:59298209 original size:34 final size:34
Alignment explanation
Indices: 59298166--59298278 Score: 151
Period size: 34 Copynumber: 3.4 Consensus size: 34
59298156 CGAATCTCAG
* *
59298166 ATCAGAATGTCACATTACCAGAAACATATATCAA
1 ATCAGAATGTCATATTTCCAGAAACATATATCAA
*
59298200 ATCAGAATGTCATATTTCCAG--A-ATATACCAA
1 ATCAGAATGTCATATTTCCAGAAACATATATCAA
* * *
59298231 ATCAGAATGTCATATTTTCATAAACATATATCAT
1 ATCAGAATGTCATATTTCCAGAAACATATATCAA
59298265 ATCAGAATGTCATA
1 ATCAGAATGTCATA
59298279 CCATATCAAA
Statistics
Matches: 69, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
31 27 0.39
32 1 0.01
33 1 0.01
34 40 0.58
ACGTcount: A:0.43, C:0.18, G:0.09, T:0.30
Consensus pattern (34 bp):
ATCAGAATGTCATATTTCCAGAAACATATATCAA
Found at i:59300138 original size:22 final size:22
Alignment explanation
Indices: 59300097--59300138 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
59300087 AGAAACACGA
* *
59300097 TGATATTCGGGCTTTATGCCGG
1 TGATATTCAGGCTTCATGCCGG
*
59300119 TGATATTCAGGCTTCGTGCC
1 TGATATTCAGGCTTCATGCC
59300139 TAGCAAGCTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.14, C:0.21, G:0.29, T:0.36
Consensus pattern (22 bp):
TGATATTCAGGCTTCATGCCGG
Found at i:59300158 original size:38 final size:41
Alignment explanation
Indices: 59300107--59300190 Score: 111
Period size: 41 Copynumber: 2.1 Consensus size: 41
59300097 TGATATTCGG
* *
59300107 GCTTTATGCCGGTG-A-TAT-TCAGGCTTCGTGCCTAGCAA
1 GCTTTATGCCGGTGTATTATATCAAGCTCCGTGCCTAGCAA
* *
59300145 GCTTTATGTCGGTGTATTATATCAAGCTCCGTGCCTAGCAG
1 GCTTTATGCCGGTGTATTATATCAAGCTCCGTGCCTAGCAA
59300186 GCTTT
1 GCTTT
59300191 GTTCCGATGT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
38 13 0.33
39 1 0.03
40 3 0.08
41 22 0.56
ACGTcount: A:0.18, C:0.23, G:0.25, T:0.35
Consensus pattern (41 bp):
GCTTTATGCCGGTGTATTATATCAAGCTCCGTGCCTAGCAA
Found at i:59301975 original size:22 final size:22
Alignment explanation
Indices: 59301941--59301985 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
59301931 AAAAAATGGG
59301941 CTCACATGGCCTAC-CTGACCTA
1 CTCACATGGCCTACAC-GACCTA
* *
59301963 CTCATATGTCCTACACGACCTA
1 CTCACATGGCCTACACGACCTA
59301985 C
1 C
59301986 CAAAATTGCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 19 0.95
23 1 0.05
ACGTcount: A:0.24, C:0.40, G:0.11, T:0.24
Consensus pattern (22 bp):
CTCACATGGCCTACACGACCTA
Found at i:59303729 original size:19 final size:19
Alignment explanation
Indices: 59303700--59303754 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 19
59303690 CCAGGTTAAC
*
59303700 AAATAATTTAAAAATTATAA
1 AAAT-ATTTAAAAATTACAA
59303720 AAATATTTAAAAA-TACAA
1 AAATATTTAAAAATTACAA
59303738 AAAGT-TTGTAAAAATTA
1 AAA-TATT-TAAAAATTA
59303755 ACTTGAATTA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
18 9 0.29
19 16 0.52
20 6 0.19
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.33
Consensus pattern (19 bp):
AAATATTTAAAAATTACAA
Found at i:59304738 original size:4 final size:4
Alignment explanation
Indices: 59304722--59304779 Score: 98
Period size: 4 Copynumber: 14.5 Consensus size: 4
59304712 ACATATATTA
* *
59304722 ATGT ATTT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATTT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
59304770 ATGT ATGT AT
1 ATGT ATGT AT
59304780 AGGGAATGTT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 50 1.00
ACGTcount: A:0.26, C:0.00, G:0.21, T:0.53
Consensus pattern (4 bp):
ATGT
Found at i:59310457 original size:14 final size:14
Alignment explanation
Indices: 59310433--59310477 Score: 58
Period size: 13 Copynumber: 3.4 Consensus size: 14
59310423 ACTTTACTGT
59310433 TATAT-TGTATTTG
1 TATATATGTATTTG
59310446 TATATATGTATTTG
1 TATATATGTATTTG
* *
59310460 TAAATAT-TATTCG
1 TATATATGTATTTG
59310473 TATAT
1 TATAT
59310478 GTTGTAAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
13 14 0.50
14 14 0.50
ACGTcount: A:0.31, C:0.02, G:0.11, T:0.56
Consensus pattern (14 bp):
TATATATGTATTTG
Found at i:59310495 original size:25 final size:26
Alignment explanation
Indices: 59310467--59310515 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
59310457 TTGTAAATAT
*
59310467 TATTCGTAT-ATGTTGTAAATTAAAA
1 TATTCGTATCATATTGTAAATTAAAA
* *
59310492 TATTTGTATCATATTGTACATTAA
1 TATTCGTATCATATTGTAAATTAA
59310516 CTTTTTAACA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 8 0.40
26 12 0.60
ACGTcount: A:0.37, C:0.06, G:0.10, T:0.47
Consensus pattern (26 bp):
TATTCGTATCATATTGTAAATTAAAA
Found at i:59314505 original size:15 final size:17
Alignment explanation
Indices: 59314477--59314512 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
59314467 TTGAGTCATT
59314477 AAAAAATGATGAAA-TG
1 AAAAAATGATGAAAGTG
59314493 AAAAAATGA-GAAAGTG
1 AAAAAATGATGAAAGTG
59314509 AAAA
1 AAAA
59314513 GGAAAATGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 4 0.21
16 15 0.79
ACGTcount: A:0.67, C:0.00, G:0.19, T:0.14
Consensus pattern (17 bp):
AAAAAATGATGAAAGTG
Found at i:59314520 original size:20 final size:19
Alignment explanation
Indices: 59314495--59314533 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
59314485 ATGAAATGAA
*
59314495 AAAATGAGAAAGTGAAAAGG
1 AAAATGAAAAAGT-AAAAGG
59314515 AAAATGAAAAAGTAAAAGG
1 AAAATGAAAAAGTAAAAGG
59314534 GAGAGGCTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.64, C:0.00, G:0.26, T:0.10
Consensus pattern (19 bp):
AAAATGAAAAAGTAAAAGG
Found at i:59316011 original size:132 final size:131
Alignment explanation
Indices: 59315818--59317011 Score: 1720
Period size: 132 Copynumber: 9.1 Consensus size: 131
59315808 GTGGAGCAGG
* * * *
59315818 TTGAAGATTTTAGATCTTGTCTCTCC-AAGCAGTAGTGGAACAGATCAAATATGGTGAATTTTAC
1 TTGAAGATTTCAGATCTTGTCTC-CCTAAGCAGTAGTGGAGCAGATCAAAGATGGAG-ATTTTAC
*
59315882 CTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGCGGAAT
64 CTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGAAT
59315947 AGA
129 AGA
* *
59315950 TTGAAGATTTCAGATCTTGCCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGCAGATTTTACC
1 TTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGG-AGATTTTACC
* *
59316015 TCCCTGTGGTTACAGTGAAGTACATTGAAGCCAATAATTCTACTTCCCTGGGCAGCAGTGGAATA
65 TCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGAATA
59316080 GA
130 GA
*
59316082 TTGAAGATTTCAGATCTTGTCTCTCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTTACC
1 TTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGG-AGATTTTACC
* * * *
59316147 TCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCACTGGACAACAGCGGAATA
65 TCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGAATA
59316212 GA
130 GA
*
59316214 TTGAAGATTTCAGATCTTGTCTCCCCAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTTACC
1 TTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGG-AGATTTTACC
* * * *
59316279 TCCCTGAGGTTGCAGTGGAGTACATTGAAGCCAGTAATTCTA-TCTCCCTGGGTAGCGGTGGAAT
65 TCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACT-TCCCTGGGCAGCAGTGGAAT
59316343 AGA
129 AGA
* ** *
59316346 TTGAGGAAAAT-AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATAGTGA-ATTTTA
1 TTGAAG-ATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAT-G-GAGATTTTA
*
59316409 CCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGAAATTCTACTTCCCTGGGCAGCAGTGGAA
63 CCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGAA
59316474 TAGA
128 TAGA
* * * * * * *
59316478 TTGAAGATTTCAGATCTTGTCTCCTTCATCAGTGGCGGAGTAGATCAAAGATGGTGAATTTTACC
1 TTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGAG-ATTTTACC
* **
59316543 TCCTTGTGGTTACAACGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGAATA
65 TCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGAATA
59316608 GA
130 GA
*
59316610 TTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATTTTACC
1 TTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGAG-ATTTTACC
* * *
59316675 TCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTGATTCTACTTTCCTAGGCAGCAGTGGAATA
65 TCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGAATA
59316740 GA
130 GA
*
59316742 TTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATTTTACC
1 TTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGAG-ATTTTACC
* * * * *
59316807 TCCTTATGGTTACAGTGGAGTATATTGAAGCCAGTAATTCTA-TCTCCCT-TGCAGCAATGGAAT
65 TCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACT-TCCCTGGGCAGCAGTGGAAT
59316870 AGA
129 AGA
* * *
59316873 TTGAAGATTTCAGATCTTATCTCTCTAAGCAGTAGTGGAGTAGATCAAAGATAGTG-GATTTTAC
1 TTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAT-G-GAGATTTTAC
* * *
59316937 CTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTA-TCTCCCCGGTCGGCAGTGGAA
64 CTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACT-TCCCTGGGCAGCAGTGGAA
*
59317001 TCGA
128 TAGA
*
59317005 TCGAAGA
1 TTGAAGA
59317012 AAGAAGATCT
Statistics
Matches: 963, Mismatches: 85, Indels: 28
0.89 0.08 0.03
Matches are distributed among these distances:
130 1 0.00
131 124 0.13
132 830 0.86
133 7 0.01
134 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (131 bp):
TTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGAGATTTTACCT
CCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAG
A
Found at i:59317069 original size:44 final size:45
Alignment explanation
Indices: 59317003--59317100 Score: 126
Period size: 44 Copynumber: 2.2 Consensus size: 45
59316993 CAGTGGAATC
* ** * *
59317003 GATCGAAGAAAGAAGATCTTGTCTTCATGTATTGG-CGTGAAGTA
1 GATCGAAGAAAGAAGATATTGTCTTCACATACTGGTAGTGAAGTA
* *
59317047 GATCGAAGAAAGCAGATATTGTCTTCCCATACTGGTAGTGAAGTA
1 GATCGAAGAAAGAAGATATTGTCTTCACATACTGGTAGTGAAGTA
59317092 GATCGAAGA
1 GATCGAAGA
59317101 TACAAGTCTT
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 29 0.63
45 17 0.37
ACGTcount: A:0.34, C:0.13, G:0.27, T:0.27
Consensus pattern (45 bp):
GATCGAAGAAAGAAGATATTGTCTTCACATACTGGTAGTGAAGTA
Found at i:59319281 original size:14 final size:14
Alignment explanation
Indices: 59319257--59319302 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
59319247 ACTTTACTGT
59319257 TATAT-TGTATTTG
1 TATATATGTATTTG
59319270 TATATATGTATTTG
1 TATATATGTATTTG
* * *
59319284 TAAATATTTATTCG
1 TATATATGTATTTG
59319298 TATAT
1 TATAT
59319303 GTTGTAAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
13 5 0.18
14 23 0.82
ACGTcount: A:0.30, C:0.02, G:0.11, T:0.57
Consensus pattern (14 bp):
TATATATGTATTTG
Found at i:59324373 original size:3 final size:3
Alignment explanation
Indices: 59324362--59324441 Score: 151
Period size: 3 Copynumber: 26.7 Consensus size: 3
59324352 CTTCTTCTTT
*
59324362 TTA TCA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
59324410 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
59324442 TTCACGTACG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 75 1.00
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:59324542 original size:3 final size:3
Alignment explanation
Indices: 59324534--59324571 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
59324524 ATTTTATTTA
59324534 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-T TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
59324572 CTTCATAATT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:59324634 original size:18 final size:19
Alignment explanation
Indices: 59324598--59324635 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
59324588 TACATGTATA
* *
59324598 TACATATACATTTATATTT
1 TACATATACATATACATTT
59324617 TACA-ATACATATACATTT
1 TACATATACATATACATTT
59324635 T
1 T
59324636 CCTTATTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.39, C:0.13, G:0.00, T:0.47
Consensus pattern (19 bp):
TACATATACATATACATTT
Found at i:59329339 original size:25 final size:25
Alignment explanation
Indices: 59329310--59329360 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
59329300 AAATTCTAAG
59329310 ATGATATTTTTTATGCTAGGATCTT
1 ATGATATTTTTTATGCTAGGATCTT
59329335 ATGATATTTTTTATGCTAGGATCTT
1 ATGATATTTTTTATGCTAGGATCTT
59329360 A
1 A
59329361 CTTCGAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.25, C:0.08, G:0.16, T:0.51
Consensus pattern (25 bp):
ATGATATTTTTTATGCTAGGATCTT
Found at i:59338034 original size:6 final size:6
Alignment explanation
Indices: 59338006--59338078 Score: 51
Period size: 6 Copynumber: 12.2 Consensus size: 6
59337996 GATAGCAGTG
* * * * *
59338006 ATAATA TTAATA ATAA-A AGTAATA CTAATA ATAATA TTAGTA ATAACA
1 ATAATA ATAATA ATAATA A-TAATA ATAATA ATAATA ATAATA ATAATA
* *
59338054 AAAATA ATAGTA ATAA-A AGTAATA A
1 ATAATA ATAATA ATAATA A-TAATA A
59338079 AGATAATATT
Statistics
Matches: 49, Mismatches: 14, Indels: 7
0.70 0.20 0.10
Matches are distributed among these distances:
5 4 0.08
6 42 0.86
7 3 0.06
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (6 bp):
ATAATA
Found at i:59338036 original size:15 final size:15
Alignment explanation
Indices: 59338013--59338078 Score: 53
Period size: 15 Copynumber: 4.2 Consensus size: 15
59338003 GTGATAATAT
59338013 TAATAATAAAAGTAA
1 TAATAATAAAAGTAA
*
59338028 TACTAATAATAA-TATTA
1 TAATAATAA-AAGTA--A
* *
59338045 GTAATAACAAAAATAA
1 -TAATAATAAAAGTAA
*
59338061 TAGTAATAAAAGTAA
1 TAATAATAAAAGTAA
59338076 TAA
1 TAA
59338079 AGATAATATT
Statistics
Matches: 39, Mismatches: 7, Indels: 10
0.70 0.12 0.18
Matches are distributed among these distances:
15 24 0.62
16 3 0.08
17 3 0.08
18 9 0.23
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.29
Consensus pattern (15 bp):
TAATAATAAAAGTAA
Found at i:59338127 original size:15 final size:15
Alignment explanation
Indices: 59338109--59338164 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 15
59338099 TGATGACGTT
*
59338109 AATAATAATATTAAA
1 AATAATAATAATAAA
* *
59338124 AATAAAAATAACAAA
1 AATAATAATAATAAA
* *
59338139 ACTACTAATAATAAA
1 AATAATAATAATAAA
*
59338154 AATAATGATAA
1 AATAATAATAA
59338165 AATAGCAAAG
Statistics
Matches: 31, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
15 31 1.00
ACGTcount: A:0.68, C:0.05, G:0.02, T:0.25
Consensus pattern (15 bp):
AATAATAATAATAAA
Found at i:59342758 original size:20 final size:20
Alignment explanation
Indices: 59342727--59342778 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
59342717 GTTACTCGAA
59342727 TTCTAGTTTTAAATTTAGTCT
1 TTCTAGTTTT-AATTTAGTCT
*
59342748 TTCTA-TTTTAATTTAGTTAT
1 TTCTAGTTTTAATTTAG-TCT
*
59342768 TTTTAGTTTTA
1 TTCTAGTTTTA
59342779 TGTACTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 7 0.26
20 10 0.37
21 10 0.37
ACGTcount: A:0.23, C:0.06, G:0.08, T:0.63
Consensus pattern (20 bp):
TTCTAGTTTTAATTTAGTCT
Found at i:59345597 original size:20 final size:21
Alignment explanation
Indices: 59345569--59345613 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
59345559 CTACATGTTT
59345569 AAATCAAAT-TATATAAAATTA
1 AAATCAAATATAT-TAAAATTA
*
59345590 AAAT-AAATATATTAAATTTA
1 AAATCAAATATATTAAAATTA
59345610 AAAT
1 AAAT
59345614 TTCAGCATAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (21 bp):
AAATCAAATATATTAAAATTA
Found at i:59345858 original size:6 final size:6
Alignment explanation
Indices: 59345849--59345880 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
59345839 CATATATATA
59345849 TGGGGT TGGGGT TGGGGT TGGGGT TGGGGT TG
1 TGGGGT TGGGGT TGGGGT TGGGGT TGGGGT TG
59345881 CAATTTTACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.66, T:0.34
Consensus pattern (6 bp):
TGGGGT
Found at i:59350618 original size:26 final size:26
Alignment explanation
Indices: 59350566--59350618 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
59350556 CACTAATATC
* *
59350566 GCAGCATACCTGCCAGTAGTAATAAT
1 GCAGCAGACCTGCCAGTAGTAAGAAT
* *
59350592 GCAGCAGAGCTGCCAGTAGTCAGAAT
1 GCAGCAGACCTGCCAGTAGTAAGAAT
59350618 G
1 G
59350619 GCTAAGAGCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.32, C:0.23, G:0.26, T:0.19
Consensus pattern (26 bp):
GCAGCAGACCTGCCAGTAGTAAGAAT
Found at i:59350741 original size:32 final size:32
Alignment explanation
Indices: 59350688--59350902 Score: 161
Period size: 32 Copynumber: 6.7 Consensus size: 32
59350678 TACAGTAAAG
* * *
59350688 TGATTGGCATAAAGCCATCAGTAGCAATGATA
1 TGATCGGCACAAAGCCATCAGTAACAATGATA
* *** *
59350720 TGATCGGCACACAGCCATCAGTAATGGTAATA
1 TGATCGGCACAAAGCCATCAGTAACAATGATA
* * *
59350752 TGACCGGCACAAAGCCATCAGTAGCAGTGATA
1 TGATCGGCACAAAGCCATCAGTAACAATGATA
* * *
59350784 TGATTGGTACACAA-CCATCAGTAACAATGAAA
1 TGATCGGCACA-AAGCCATCAGTAACAATGATA
*** *
59350816 TGAT-GGACACACAA-CCATC-GATAATGGTAATA
1 TGATCGG-CACA-AAGCCATCAG-TAACAATGATA
**
59350848 TGATCGGCACAAAGCCATCAGTAACGGT-ACTA
1 TGATCGGCACAAAGCCATCAGTAACAATGA-TA
*
59350880 TGTTCGGCACAAAGCCATCAGTA
1 TGATCGGCACAAAGCCATCAGTA
59350903 GCATCGCAGC
Statistics
Matches: 148, Mismatches: 28, Indels: 14
0.78 0.15 0.07
Matches are distributed among these distances:
31 6 0.04
32 137 0.93
33 5 0.03
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.21
Consensus pattern (32 bp):
TGATCGGCACAAAGCCATCAGTAACAATGATA
Found at i:59350776 original size:64 final size:63
Alignment explanation
Indices: 59350693--59350905 Score: 202
Period size: 64 Copynumber: 3.3 Consensus size: 63
59350683 TAAAGTGATT
* *
59350693 GGCATAAAGCCATCAGTAGCAATGATATGATCGGCACACAGCCATCAGTAATGGTAATATGACC
1 GGCACAAAGCCATCAGTAGCAATGATATGATCGGCACACAGCCATCAGTAACGGTAATATGA-C
* * * * ** *
59350757 GGCACAAAGCCATCAGTAGCAGTGATATGATTGGTACACAACCATCAGTAACAATGAA-ATGAT
1 GGCACAAAGCCATCAGTAGCAATGATATGATCGGCACACAGCCATCAGTAACGGT-AATATGAC
* * *
59350820 GGACACACAA-CCATC-G-A-TAATGGTAATATGATCGGCACAAAGCCATCAGTAACGGTACTAT
1 GG-CACA-AAGCCATCAGTAGCAAT-G--ATATGATCGGCACACAGCCATCAGTAACGGTAATAT
*
59350881 GTTC
61 G-AC
59350885 GGCACAAAGCCATCAGTAGCA
1 GGCACAAAGCCATCAGTAGCA
59350906 TCGCAGCAAA
Statistics
Matches: 116, Mismatches: 21, Indels: 21
0.73 0.13 0.13
Matches are distributed among these distances:
61 2 0.02
62 2 0.02
63 6 0.05
64 97 0.84
65 7 0.06
66 1 0.01
67 1 0.01
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.20
Consensus pattern (63 bp):
GGCACAAAGCCATCAGTAGCAATGATATGATCGGCACACAGCCATCAGTAACGGTAATATGAC
Found at i:59350898 original size:96 final size:96
Alignment explanation
Indices: 59350688--59350902 Score: 278
Period size: 96 Copynumber: 2.2 Consensus size: 96
59350678 TACAGTAAAG
* * * *
59350688 TGATTGGCATAAAGCCATCAGTAGCAATGATATGATCGGCACACAGCCATCAGTAATGGTAATAT
1 TGATTGGCACAAAGCCATCAGTAACAATGAAATGATCGGCACACAACCATCAGTAATGGTAATAT
*
59350753 GACCGGCACAAAGCCATCAGTAGCAGTGATA
66 GACCGGCACAAAGCCATCAGTAACAGTGATA
*
59350784 TGATTGGTACACAA-CCATCAGTAACAATGAAATGAT-GGACACACAACCATC-GATAATGGTAA
1 TGATTGGCACA-AAGCCATCAGTAACAATGAAATGATCGG-CACACAACCATCAG-TAATGGTAA
* *
59350846 TATGATCGGCACAAAGCCATCAGTAACGGT-ACTA
63 TATGACCGGCACAAAGCCATCAGTAACAGTGA-TA
59350880 TG-TTCGGCACAAAGCCATCAGTA
1 TGATT-GGCACAAAGCCATCAGTA
59350903 GCATCGCAGC
Statistics
Matches: 104, Mismatches: 9, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
95 8 0.08
96 94 0.90
97 2 0.02
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.21
Consensus pattern (96 bp):
TGATTGGCACAAAGCCATCAGTAACAATGAAATGATCGGCACACAACCATCAGTAATGGTAATAT
GACCGGCACAAAGCCATCAGTAACAGTGATA
Found at i:59350990 original size:27 final size:27
Alignment explanation
Indices: 59350946--59351005 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 27
59350936 AACAAAGCTG
*
59350946 CCAGTAATAGTATATGTGGCCA-AACCA
1 CCAGTAACAGTATATGTGG-CAGAACCA
*
59350973 CCAGTAACAGTGAT-TGTGGCAGAGCCA
1 CCAGTAACAGT-ATATGTGGCAGAACCA
59351000 CCAGTA
1 CCAGTA
59351006 CAATACTTCC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 2 0.07
27 25 0.86
28 2 0.07
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.20
Consensus pattern (27 bp):
CCAGTAACAGTATATGTGGCAGAACCA
Found at i:59351145 original size:23 final size:23
Alignment explanation
Indices: 59351074--59351156 Score: 76
Period size: 24 Copynumber: 3.5 Consensus size: 23
59351064 CCATGCTCAG
* *
59351074 AATCAGTTATTCAAATCACAAACA
1 AATCAGTCATTTAAA-CACAAACA
**
59351098 AATCAGTCATACCAAACACAAACA
1 AATCAGTCAT-TTAAACACAAACA
* *
59351122 AATCAGTCATTTAACCACAGACA
1 AATCAGTCATTTAAACACAAACA
* *
59351145 AAACAATCATTT
1 AATCAGTCATTT
59351157 GACCTCGATG
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
23 19 0.38
24 27 0.54
25 4 0.08
ACGTcount: A:0.49, C:0.24, G:0.05, T:0.22
Consensus pattern (23 bp):
AATCAGTCATTTAAACACAAACA
Found at i:59351210 original size:26 final size:26
Alignment explanation
Indices: 59351192--59351346 Score: 130
Period size: 27 Copynumber: 5.8 Consensus size: 26
59351182 TTACCCACCA
*
59351192 GGGCATTACGGTCATTTTACCCTATAG
1 GGGCATTAC-GTCATTTTACCCTACAG
*
59351219 GGGTATTACGTCATTTTACCCTACAG
1 GGGCATTACGTCATTTTACCCTACAG
* *
59351245 GGGCATTACTGTCATTTTATCCTATAG
1 GGGCATTAC-GTCATTTTACCCTACAG
* * * * *
59351272 GGGTATTTCGGCATTCTACCCTACGG
1 GGGCATTACGTCATTTTACCCTACAG
* * * * *
59351298 GGGTATTTCGAACATTTTACCGTACGG
1 GGGCATTACG-TCATTTTACCCTACAG
* *
59351325 GGGTATTTCAGTCATTTTACCC
1 GGGCATTAC-GTCATTTTACCC
59351347 ATCGTGGGTA
Statistics
Matches: 108, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
26 46 0.43
27 61 0.56
28 1 0.01
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.35
Consensus pattern (26 bp):
GGGCATTACGTCATTTTACCCTACAG
Found at i:59351260 original size:53 final size:52
Alignment explanation
Indices: 59351192--59351388 Score: 175
Period size: 53 Copynumber: 3.7 Consensus size: 52
59351182 TTACCCACCA
*
59351192 GGGCATTACGGTCATTTTACCCTATAGGGGTATTACGTCATTTTACCCTACAG
1 GGGCATTAC-GTCATTTTACCCTATAGGGGTATTTCGTCATTTTACCCTACAG
* * * *
59351245 GGGCATTACTGTCATTTTATCCTATAGGGGTATTTCGGCATTCTACCCTACGG
1 GGGCATTAC-GTCATTTTACCCTATAGGGGTATTTCGTCATTTTACCCTACAG
* * * * **
59351298 GGGTATTTCGAACATTTTACCGTACGGGGGTATTTCAGTCATTTTACCC-ATC-G
1 GGGCATTACG-TCATTTTACCCTATAGGGGTATTTC-GTCATTTTACCCTA-CAG
* * *
59351351 TGGGTATTTCGATCATTTTACCC-ATCGAGGGTATTTCG
1 -GGGCATTACG-TCATTTTACCCTATAG-GGGTATTTCG
59351389 GTCTAGATAT
Statistics
Matches: 120, Mismatches: 19, Indels: 10
0.81 0.13 0.07
Matches are distributed among these distances:
52 1 0.01
53 79 0.66
54 40 0.33
ACGTcount: A:0.20, C:0.21, G:0.22, T:0.36
Consensus pattern (52 bp):
GGGCATTACGTCATTTTACCCTATAGGGGTATTTCGTCATTTTACCCTACAG
Found at i:59351268 original size:27 final size:26
Alignment explanation
Indices: 59351192--59351294 Score: 125
Period size: 26 Copynumber: 3.9 Consensus size: 26
59351182 TTACCCACCA
59351192 GGGCATTACGGTCATTTTACCCTATAG
1 GGGCATTAC-GTCATTTTACCCTATAG
* *
59351219 GGGTATTACGTCATTTTACCCTACAG
1 GGGCATTACGTCATTTTACCCTATAG
*
59351245 GGGCATTACTGTCATTTTATCCTATAG
1 GGGCATTAC-GTCATTTTACCCTATAG
* * * *
59351272 GGGTATTTCGGCATTCTACCCTA
1 GGGCATTACGTCATTTTACCCTA
59351295 CGGGGGTATT
Statistics
Matches: 65, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
26 35 0.54
27 30 0.46
ACGTcount: A:0.21, C:0.22, G:0.20, T:0.36
Consensus pattern (26 bp):
GGGCATTACGTCATTTTACCCTATAG
Found at i:59351323 original size:27 final size:26
Alignment explanation
Indices: 59351203--59351388 Score: 128
Period size: 27 Copynumber: 7.0 Consensus size: 26
59351193 GGCATTACGG
** *
59351203 TCATTTTACCCTATAGGGGTATTACG-
1 TCATTTTA-CCTACGGGGGTATTTCGA
* * *
59351229 TCATTTTACCCTACAGGGGCATTACTG-
1 TCATTTTA-CCTACGGGGGTATTTC-GA
**
59351256 TCATTTTATCCTATAGGGGTATTTCG-
1 TCATTTTA-CCTACGGGGGTATTTCGA
* *
59351282 GCATTCTACCCTACGGGGGTATTTCGA
1 TCATTTTA-CCTACGGGGGTATTTCGA
*
59351309 ACATTTTACCGTACGGGGGTATTTC-A
1 TCATTTTACC-TACGGGGGTATTTCGA
* *
59351335 GTCATTTTACCCATCGTGGGTATTTCGA
1 -TCATTTTACCTA-CGGGGGTATTTCGA
* *
59351363 TCATTTTACCCATCGAGGGTATTTCG
1 TCATTTTACCTA-CGGGGGTATTTCG
59351389 GTCTAGATAT
Statistics
Matches: 137, Mismatches: 17, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
26 49 0.36
27 87 0.64
28 1 0.01
ACGTcount: A:0.20, C:0.22, G:0.21, T:0.37
Consensus pattern (26 bp):
TCATTTTACCTACGGGGGTATTTCGA
Found at i:59351368 original size:54 final size:53
Alignment explanation
Indices: 59351271--59351389 Score: 143
Period size: 54 Copynumber: 2.2 Consensus size: 53
59351261 TTATCCTATA
59351271 GGGGTATTTCGGCATTCTACCCTACGGGGGTATTTCGAACATTTTACCGTACG
1 GGGGTATTTCGGCATTCTACCCTACGGGGGTATTTCGAACATTTTACCGTACG
* * * * *
59351324 GGGGTATTTCAGTCATTTTACCC-ATCGTGGGTATTTCGATCATTTTACC-CATCG
1 GGGGTATTTC-GGCATTCTACCCTA-CGGGGGTATTTCGAACATTTTACCGTA-CG
*
59351378 AGGGTATTTCGG
1 GGGGTATTTCGG
59351390 TCTAGATATC
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
53 13 0.23
54 43 0.77
ACGTcount: A:0.18, C:0.21, G:0.25, T:0.35
Consensus pattern (53 bp):
GGGGTATTTCGGCATTCTACCCTACGGGGGTATTTCGAACATTTTACCGTACG
Found at i:59351927 original size:20 final size:21
Alignment explanation
Indices: 59351904--59351943 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
59351894 AATTTTAAAA
59351904 TATTTTTAAAAT-AATTTTTT
1 TATTTTTAAAATAAATTTTTT
59351924 TATTTTTAAAATAAATTTTT
1 TATTTTTAAAATAAATTTTT
59351944 AGTGTTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
TATTTTTAAAATAAATTTTTT
Found at i:59351951 original size:20 final size:20
Alignment explanation
Indices: 59351908--59351951 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
59351898 TTAAAATATT
* *
59351908 TTTAAAATAATTTTTTTATT
1 TTTAAAATAATATTTTTATG
59351928 TTTAAAATAA-ATTTTTAGTG
1 TTTAAAATAATATTTTTA-TG
59351948 TTTA
1 TTTA
59351952 TTAAAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (20 bp):
TTTAAAATAATATTTTTATG
Found at i:59359865 original size:21 final size:19
Alignment explanation
Indices: 59359836--59359898 Score: 58
Period size: 21 Copynumber: 3.2 Consensus size: 19
59359826 ATTGTTGTTA
59359836 AAATTTATTATTAAAATAAT
1 AAATTTATTA-TAAAATAAT
* *
59359856 AAATTATATTAATACATTAAT
1 AAATT-TATT-ATAAAATAAT
59359877 -AATTTATTAT-AAATAATT
1 AAATTTATTATAAAATAA-T
59359895 AAAT
1 AAAT
59359899 GGATATATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 9
0.73 0.08 0.19
Matches are distributed among these distances:
17 4 0.11
18 3 0.09
19 7 0.20
20 9 0.26
21 11 0.31
22 1 0.03
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (19 bp):
AAATTTATTATAAAATAAT
Found at i:59361474 original size:7 final size:7
Alignment explanation
Indices: 59361462--59361523 Score: 63
Period size: 7 Copynumber: 8.6 Consensus size: 7
59361452 TATATAAAAT
59361462 AATAATA
1 AATAATA
59361469 AATAATA
1 AATAATA
59361476 AATAATA
1 AATAATA
59361483 AATATATA
1 AATA-ATA
* *
59361491 AATTATT
1 AATAATA
*
59361498 AATATTAA
1 AATAAT-A
59361506 AATAATA
1 AATAATA
59361513 TAAT-ATA
1 -AATAATA
59361520 AATA
1 AATA
59361524 TTTAAAAAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
6 3 0.07
7 28 0.62
8 14 0.31
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (7 bp):
AATAATA
Found at i:59361481 original size:14 final size:14
Alignment explanation
Indices: 59361462--59361523 Score: 63
Period size: 15 Copynumber: 4.3 Consensus size: 14
59361452 TATATAAAAT
59361462 AATAATAAATAATA
1 AATAATAAATAATA
59361476 AATAATAAATATATA
1 AATAATAAATA-ATA
* * *
59361491 AATTATTAATATTAA
1 AATAATAAATAAT-A
59361506 AATAATATAAT-ATA
1 AATAATA-AATAATA
59361520 AATA
1 AATA
59361524 TTTAAAAAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
14 17 0.44
15 19 0.49
16 3 0.08
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (14 bp):
AATAATAAATAATA
Found at i:59361523 original size:22 final size:22
Alignment explanation
Indices: 59361420--59361535 Score: 74
Period size: 23 Copynumber: 5.0 Consensus size: 22
59361410 AATACTACTC
* *
59361420 TAATATAAACATTAAAATAATGT
1 TAATATAAATATTAAAATAAT-A
* * *
59361443 TAAGATGACTATATAAAATAATAA
1 TAATATAAATAT-TAAAATAAT-A
*
59361467 TAAATAATAAATAAT-AAAT-ATA
1 T-AAT-ATAAATATTAAAATAATA
*
59361489 TAAATTATTAATATTAAAATAATA
1 T-AA-TATAAATATTAAAATAATA
*
59361513 TAATATAAATATTTAAAAAAATA
1 TAATATAAATA-TTAAAATAATA
59361536 AAAAAATAAT
Statistics
Matches: 72, Mismatches: 14, Indels: 14
0.72 0.14 0.14
Matches are distributed among these distances:
22 19 0.26
23 27 0.38
24 18 0.25
25 3 0.04
26 5 0.07
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (22 bp):
TAATATAAATATTAAAATAATA
Found at i:59364500 original size:54 final size:54
Alignment explanation
Indices: 59364386--59364491 Score: 167
Period size: 54 Copynumber: 2.0 Consensus size: 54
59364376 TCGAAGTTAG
* * *
59364386 GACACACAGTCGTGTCCCAGCTCGTGTCTCTACCCGTGTAACTCACTAACTTAA
1 GACACACAGTCATGTCCCAGCCCGTGTCTCTACCCGAGTAACTCACTAACTTAA
* *
59364440 GACACACAGTCATGTCCCAGCCCGTGTCTCTGCCCGAGTAACTCACTGACTT
1 GACACACAGTCATGTCCCAGCCCGTGTCTCTACCCGAGTAACTCACTAACTT
59364492 GGGTCACACG
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 47 1.00
ACGTcount: A:0.23, C:0.35, G:0.18, T:0.25
Consensus pattern (54 bp):
GACACACAGTCATGTCCCAGCCCGTGTCTCTACCCGAGTAACTCACTAACTTAA
Found at i:59373664 original size:22 final size:22
Alignment explanation
Indices: 59373630--59373671 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
59373620 GCCTAGCTGG
* * *
59373630 GAATAGAAGAAGAAGAAGAAGA
1 GAATAAAAAAAGAACAAGAAGA
59373652 GAATAAAAAAAGAACAAGAA
1 GAATAAAAAAAGAACAAGAA
59373672 AAACAATTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.69, C:0.02, G:0.24, T:0.05
Consensus pattern (22 bp):
GAATAAAAAAAGAACAAGAAGA
Found at i:59374798 original size:27 final size:29
Alignment explanation
Indices: 59374753--59374807 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 29
59374743 GATTGATTTG
* *
59374753 TTATTTTTTAATAACGTT-AGTGACTGAT
1 TTATTTTTTAATAAAGTTAAATGACTGAT
59374781 TTATTTTTTAA-AAAGTTAAATGACTGA
1 TTATTTTTTAATAAAGTTAAATGACTGA
59374808 ATTAAAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 5 0.21
28 19 0.79
ACGTcount: A:0.35, C:0.05, G:0.13, T:0.47
Consensus pattern (29 bp):
TTATTTTTTAATAAAGTTAAATGACTGAT
Found at i:59376044 original size:19 final size:19
Alignment explanation
Indices: 59376002--59376070 Score: 86
Period size: 20 Copynumber: 3.5 Consensus size: 19
59375992 ATTACAAAAT
*
59376002 AATTCAAAATAATTTTCAAA
1 AATTCAAAATAATTTT-TAA
59376022 AATTCAAAATAATTTTTAA
1 AATTCAAAATAATTTTTAA
*
59376041 AATTCAAAAT-ATTTATAA
1 AATTCAAAATAATTTTTAA
59376059 AAGTTCCAAAAT
1 AA-TT-CAAAAT
59376071 TTTCTAAAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
18 9 0.20
19 14 0.31
20 22 0.49
ACGTcount: A:0.54, C:0.09, G:0.01, T:0.36
Consensus pattern (19 bp):
AATTCAAAATAATTTTTAA
Found at i:59377395 original size:13 final size:13
Alignment explanation
Indices: 59377371--59377404 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
59377361 AATCGAGCCG
59377371 TAAATA-TTTTTA
1 TAAATATTTTTTA
59377383 TAAATATTTTTTA
1 TAAATATTTTTTA
59377396 TAAATATTT
1 TAAATATTT
59377405 ACAGAGTGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
TAAATATTTTTTA
Found at i:59378611 original size:19 final size:20
Alignment explanation
Indices: 59378576--59378613 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
59378566 GTTTTTTTTA
*
59378576 CTCTTTTTATTTTTTTTCTG
1 CTCTTTTTATTTCTTTTCTG
59378596 CTCTTTTT-TTTCTTTTCT
1 CTCTTTTTATTTCTTTTCT
59378614 TTCTTGCGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.03, C:0.18, G:0.03, T:0.76
Consensus pattern (20 bp):
CTCTTTTTATTTCTTTTCTG
Found at i:59379514 original size:16 final size:15
Alignment explanation
Indices: 59379490--59379539 Score: 57
Period size: 16 Copynumber: 3.3 Consensus size: 15
59379480 CCTTTCAAAC
*
59379490 TTTAGATTATCTATTA
1 TTTATATTAT-TATTA
*
59379506 TTTATATTAATATTA
1 TTTATATTATTATTA
59379521 TTTATCATTATTATT-
1 TTTAT-ATTATTATTA
59379536 TTTA
1 TTTA
59379540 AAAAACTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
15 14 0.47
16 16 0.53
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (15 bp):
TTTATATTATTATTA
Found at i:59379521 original size:15 final size:16
Alignment explanation
Indices: 59379501--59379539 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
59379491 TTAGATTATC
59379501 TATTATTTAT-ATTAA
1 TATTATTTATCATTAA
*
59379516 TATTATTTATCATTAT
1 TATTATTTATCATTAA
59379532 TATT-TTTA
1 TATTATTTA
59379540 AAAAACTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 14 0.64
16 8 0.36
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (16 bp):
TATTATTTATCATTAA
Found at i:59381247 original size:25 final size:25
Alignment explanation
Indices: 59381225--59381300 Score: 80
Period size: 27 Copynumber: 2.9 Consensus size: 25
59381215 ATCTCGATAT
59381225 ATGGCTCTTCAGAGCTTCCCGATTA
1 ATGGCTCTTCAGAGCTTCCCGATTA
* * *
59381250 AAGGCTCTTTCATGAGCTTTCCAATTA
1 ATGGCTC-TTCA-GAGCTTCCCGATTA
**
59381277 ATTGGCTCTTTGGAGCTTCCCGAT
1 A-TGGCTCTTCAGAGCTTCCCGAT
59381301 ATCAGCTCGC
Statistics
Matches: 40, Mismatches: 8, Indels: 5
0.75 0.15 0.09
Matches are distributed among these distances:
25 6 0.15
26 14 0.35
27 15 0.38
28 5 0.12
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.36
Consensus pattern (25 bp):
ATGGCTCTTCAGAGCTTCCCGATTA
Found at i:59381343 original size:24 final size:24
Alignment explanation
Indices: 59381289--59381343 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
59381279 TGGCTCTTTG
*
59381289 GAGCTTCCCGATATCAGCTCGCAT
1 GAGCTTCCCGATATCAGCACGCAT
* ** *
59381313 GAACTTCCCGATATTGGCACGTAT
1 GAGCTTCCCGATATCAGCACGCAT
59381337 GAGCTTC
1 GAGCTTC
59381344 TCGCTAATGG
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (24 bp):
GAGCTTCCCGATATCAGCACGCAT
Found at i:59381389 original size:25 final size:25
Alignment explanation
Indices: 59381361--59381418 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
59381351 TGGCTATTCG
* * *
59381361 GAGCTTCTCGTTACATGGCTCGCAA
1 GAGCTTCCCATTACATGGCTCGAAA
*
59381386 GAGCTTCCCATTATATGGCTCGAAA
1 GAGCTTCCCATTACATGGCTCGAAA
59381411 GAGCTTCC
1 GAGCTTCC
59381419 TATTTATATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.28
Consensus pattern (25 bp):
GAGCTTCCCATTACATGGCTCGAAA
Found at i:59383700 original size:50 final size:50
Alignment explanation
Indices: 59383634--59383751 Score: 128
Period size: 50 Copynumber: 2.4 Consensus size: 50
59383624 AAATTTCATA
* * * * * * *
59383634 TCCCAGATATGATCTTACATAAGACTTCCCATATCGGTGCCCATGCCATG
1 TCCCAGACATGGTCTTACAGAAGACCTCCCATATCGGTACCAACGCCATG
* ** * *
59383684 TCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTACCAACGCCATG
1 TCCCAGACATGGTCTTACAGAAGACCTCCCATATCGGTACCAACGCCATG
59383734 TCCCAGACATGGTCTTAC
1 TCCCAGACATGGTCTTAC
59383752 TTGGGACCTC
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
50 56 1.00
ACGTcount: A:0.23, C:0.32, G:0.19, T:0.25
Consensus pattern (50 bp):
TCCCAGACATGGTCTTACAGAAGACCTCCCATATCGGTACCAACGCCATG
Found at i:59387176 original size:15 final size:15
Alignment explanation
Indices: 59387156--59387186 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
59387146 ATGGAGAGAG
59387156 TATGAAAATATTTCT
1 TATGAAAATATTTCT
59387171 TATGAAAATATTTCT
1 TATGAAAATATTTCT
59387186 T
1 T
59387187 CATGCTTCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.48
Consensus pattern (15 bp):
TATGAAAATATTTCT
Found at i:59387938 original size:20 final size:20
Alignment explanation
Indices: 59387915--59387953 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
59387905 TATTTTATAC
59387915 TTTTAAAAATAATTTTTAAG
1 TTTTAAAAATAATTTTTAAG
* * *
59387935 TTTTTAATATATTTTTTAA
1 TTTTAAAAATAATTTTTAA
59387954 AATTTTTATA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (20 bp):
TTTTAAAAATAATTTTTAAG
Found at i:59390554 original size:29 final size:32
Alignment explanation
Indices: 59390522--59390611 Score: 84
Period size: 32 Copynumber: 3.0 Consensus size: 32
59390512 AAAACATTAA
59390522 TAATAATTTTTTTAA-TTTT-AAAATAA-TTT
1 TAATAATTTTTTTAATTTTTAAAAATAATTTT
* *
59390551 TAATGA--TCTTTAATTTTTAAAAATAATTTT
1 TAATAATTTTTTTAATTTTTAAAAATAATTTT
* * *
59390581 TAA-AATTTTTTTTAGTGTTTAAAAATTATTT
1 TAATAA-TTTTTTTAATTTTTAAAAATAATTT
59390612 AAATGCTGGT
Statistics
Matches: 48, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
27 6 0.12
28 4 0.08
29 13 0.27
30 6 0.12
32 19 0.40
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (32 bp):
TAATAATTTTTTTAATTTTTAAAAATAATTTT
Found at i:59390586 original size:12 final size:13
Alignment explanation
Indices: 59390561--59390585 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
59390551 TAATGATCTT
59390561 TAATTTTTAAAAA
1 TAATTTTTAAAAA
59390574 TAATTTTTAAAA
1 TAATTTTTAAAA
59390586 TTTTTTTTAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TAATTTTTAAAAA
Found at i:59397245 original size:17 final size:18
Alignment explanation
Indices: 59397206--59397245 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 18
59397196 TCTTTTTGTT
59397206 TATTATTTCTATAAATAG
1 TATTATTTCTATAAATAG
*
59397224 -A-TATTT-TATATATAG
1 TATTATTTCTATAAATAG
59397239 TATTATT
1 TATTATT
59397246 ATTTGATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 5
0.76 0.04 0.20
Matches are distributed among these distances:
15 8 0.42
16 6 0.32
17 5 0.26
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.55
Consensus pattern (18 bp):
TATTATTTCTATAAATAG
Found at i:59404178 original size:6 final size:6
Alignment explanation
Indices: 59404167--59404194 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
59404157 ATAGATAAGT
59404167 GTTGGG GTTGGG GTTGGG GTTGGG GTTG
1 GTTGGG GTTGGG GTTGGG GTTGGG GTTG
59404195 TGGTGGCTAT
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:0.00, C:0.00, G:0.64, T:0.36
Consensus pattern (6 bp):
GTTGGG
Found at i:59406560 original size:28 final size:28
Alignment explanation
Indices: 59406502--59406564 Score: 85
Period size: 27 Copynumber: 2.3 Consensus size: 28
59406492 GCTTCAAAGT
* * *
59406502 GAAAAAA-AAATTTGTGAGTTGAGGGAA
1 GAAAAAACAAAATTGTGAGTTAAGAGAA
59406529 -AAAAAACAAAATTGTGAGTTAAGAGAA
1 GAAAAAACAAAATTGTGAGTTAAGAGAA
59406556 GAAAAAACA
1 GAAAAAACA
59406565 GTGAGCTTGT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
26 6 0.19
27 17 0.55
28 8 0.26
ACGTcount: A:0.57, C:0.03, G:0.22, T:0.17
Consensus pattern (28 bp):
GAAAAAACAAAATTGTGAGTTAAGAGAA
Found at i:59411271 original size:23 final size:23
Alignment explanation
Indices: 59411245--59411294 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
59411235 CAAACGGTCG
59411245 TGTCTTGCGCACGACAATGCTCT
1 TGTCTTGCGCACGACAATGCTCT
* *
59411268 TGTCTTGCGCACGGCCATGCTCT
1 TGTCTTGCGCACGACAATGCTCT
59411291 TGTC
1 TGTC
59411295 AAACACACGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.12, C:0.32, G:0.24, T:0.32
Consensus pattern (23 bp):
TGTCTTGCGCACGACAATGCTCT
Found at i:59426256 original size:32 final size:32
Alignment explanation
Indices: 59426215--59426281 Score: 93
Period size: 32 Copynumber: 2.1 Consensus size: 32
59426205 ATTGATTGTC
59426215 GATTTGGGAGATTGAGGAAGTGGGGG-AG-AAAG
1 GATTTGGGAG-TTGA-GAAGTGGGGGTAGAAAAG
*
59426247 GATTTGGGAGTTTAGAAGTGGGGGTAGAAAAG
1 GATTTGGGAGTTGAGAAGTGGGGGTAGAAAAG
59426279 GAT
1 GAT
59426282 GATGTGGCGT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
30 10 0.31
31 5 0.16
32 17 0.53
ACGTcount: A:0.31, C:0.00, G:0.46, T:0.22
Consensus pattern (32 bp):
GATTTGGGAGTTGAGAAGTGGGGGTAGAAAAG
Found at i:59435411 original size:22 final size:22
Alignment explanation
Indices: 59435381--59435438 Score: 89
Period size: 22 Copynumber: 2.6 Consensus size: 22
59435371 ATTTCCTCTC
*
59435381 AATTCCTCTCAAATTCCTTCTAA
1 AATT-CTCTCAAATTCCTTCCAA
*
59435404 AATTCTCTCAATTTCCTTCCAA
1 AATTCTCTCAAATTCCTTCCAA
59435426 AATTCTCTCAAAT
1 AATTCTCTCAAAT
59435439 CTATATTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
22 28 0.88
23 4 0.12
ACGTcount: A:0.31, C:0.29, G:0.00, T:0.40
Consensus pattern (22 bp):
AATTCTCTCAAATTCCTTCCAA
Found at i:59435464 original size:50 final size:50
Alignment explanation
Indices: 59435403--59435522 Score: 188
Period size: 50 Copynumber: 2.4 Consensus size: 50
59435393 ATTCCTTCTA
* *
59435403 AAATT-CTCTCAATTTCCTTCCAAAATTCTCTCAAATCTATATTTAATTT
1 AAATTCCTCTCAATTTCCTTCAAAAATTCTCTCAAATCCATATTTAATTT
*
59435452 CAATTCCTCTCAATTTCCTTCAAAAATTCTCTCAAATCCATATTTAATTT
1 AAATTCCTCTCAATTTCCTTCAAAAATTCTCTCAAATCCATATTTAATTT
*
59435502 AAATTTCTTCTCAATTTCCTT
1 AAA-TTCCTCTCAATTTCCTT
59435523 TTTTAAAATA
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
49 4 0.06
50 44 0.69
51 16 0.25
ACGTcount: A:0.31, C:0.24, G:0.00, T:0.45
Consensus pattern (50 bp):
AAATTCCTCTCAATTTCCTTCAAAAATTCTCTCAAATCCATATTTAATTT
Found at i:59437052 original size:123 final size:126
Alignment explanation
Indices: 59436833--59437183 Score: 458
Period size: 126 Copynumber: 2.8 Consensus size: 126
59436823 CCCAAACATG
* * * * *
59436833 CTACTGTAGCAAAATCACGTCCACGAGGGCGCGATTTCACAAATTCTTCCCAAATAGCATCCTGG
1 CTACTGTAGCAAAAGCGCGTCCACGAGGCCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* *
59436898 TATAAGCGATTTTATATTATTTGCTCAGAAACGT-TAAAAAA-AATT-TAGATTAAAAGAC
66 TAGAAGCGATTTTATATTATTTGCTCAGAAACGTCAAAAAAATAATTATAGATTAAAAGAC
* *
59436956 CTACTGTAGCAAAAGCGCG-CTGACGAGGCCGCAATTTCACAAATTCTTCTCAAATAGCATCCTG
1 CTACTGTAGCAAAAGCGCGTC-CACGAGGCCGCGATTTCACAAATTCTTCTCAAATAGCATCCTG
* *** ****
59437020 CTAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATAATTATTTCTTCCGTGAC
65 CTAGAAGCGATTTTATATTATTTGCTCAGAAACGTCAAAAAAATAATTATAGATTAAAAGAC
* ** *
59437082 CTACTGTAGCAAAAGTGCGTCCACGAGGTTGCGATTTCACAAATTCTTCTCAAATACCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGCCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
**
59437147 TAGAAGCGATTTTATATTATTTTATCAGAAACGTCAA
66 TAGAAGCGATTTTATATTATTTGCTCAGAAACGTCAA
59437184 CTCGAAATTA
Statistics
Matches: 197, Mismatches: 26, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
122 1 0.01
123 88 0.45
124 6 0.03
125 4 0.02
126 97 0.49
127 1 0.01
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (126 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGCCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
TAGAAGCGATTTTATATTATTTGCTCAGAAACGTCAAAAAAATAATTATAGATTAAAAGAC
Found at i:59440319 original size:29 final size:28
Alignment explanation
Indices: 59440269--59440324 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 28
59440259 CGTTCAATAT
* * *
59440269 TTAAAAATATATTTTTTAAAAATTAATC
1 TTAAAAATAAATATTTTAAAAAATAATC
*
59440297 TTAAAATATAAATATTTTGAAAAATAAT
1 TTAAAA-ATAAATATTTTAAAAAATAAT
59440325 AAAATATAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 6 0.26
29 17 0.74
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (28 bp):
TTAAAAATAAATATTTTAAAAAATAATC
Found at i:59442724 original size:5 final size:5
Alignment explanation
Indices: 59442714--59442742 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
59442704 TATCACAAGA
59442714 AAAAG AAAAG AAAAG AAAA- AAAAG AAAAG
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG
59442743 GAAGAATGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 19 0.83
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:59442738 original size:14 final size:15
Alignment explanation
Indices: 59442714--59442742 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
59442704 TATCACAAGA
59442714 AAAAGAAAAGAAAAG
1 AAAAGAAAAGAAAAG
59442729 AAAA-AAAAGAAAAG
1 AAAAGAAAAGAAAAG
59442743 GAAGAATGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (15 bp):
AAAAGAAAAGAAAAG
Found at i:59444619 original size:25 final size:24
Alignment explanation
Indices: 59444591--59444652 Score: 65
Period size: 24 Copynumber: 2.6 Consensus size: 24
59444581 TCCTACCACT
**
59444591 TTTATCACAATAAATTTTCATTGCA
1 TTTATCACAATAAACATTCATTG-A
*
59444616 TTTAT-A-AATATAACATTCATTGG
1 TTTATCACAATA-AACATTCATTGA
59444639 TTTATCACAATAAA
1 TTTATCACAATAAA
59444653 AAATTAAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
23 9 0.29
24 13 0.42
25 9 0.29
ACGTcount: A:0.40, C:0.13, G:0.05, T:0.42
Consensus pattern (24 bp):
TTTATCACAATAAACATTCATTGA
Found at i:59452332 original size:19 final size:19
Alignment explanation
Indices: 59452281--59452325 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
59452271 TAACCCTTTT
* * *
59452281 TTTTAAAAAAATATATTAA
1 TTTTAAAAATATTTGTTAA
59452300 TTTTAAAAATATTTGTTAA
1 TTTTAAAAATATTTGTTAA
59452319 -TTTAAAA
1 TTTTAAAA
59452326 GTAATTTATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 7 0.30
19 16 0.70
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (19 bp):
TTTTAAAAATATTTGTTAA
Found at i:59466275 original size:22 final size:23
Alignment explanation
Indices: 59466243--59466289 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
59466233 TGTTTAGTGC
59466243 TTAGGGTTTGT-GTGTTTAGGGTT
1 TTAGGGTTTGTAGTG-TTAGGGTT
*
59466266 TTAGGG-TTGTAGTGTTAGTGTT
1 TTAGGGTTTGTAGTGTTAGGGTT
59466288 TT
1 TT
59466290 GTTAAAATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 13 0.59
23 9 0.41
ACGTcount: A:0.11, C:0.00, G:0.36, T:0.53
Consensus pattern (23 bp):
TTAGGGTTTGTAGTGTTAGGGTT
Found at i:59466349 original size:28 final size:27
Alignment explanation
Indices: 59466317--59466375 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 27
59466307 TTTTATTTAT
59466317 TTAAGGTTTAAGAATTTT-AAAAAATAAA
1 TTAAGGTTT-AGAATTTTAAAAAAAT-AA
*
59466345 TTAAGGTTTAGAGTTTTAAAAAAATAA
1 TTAAGGTTTAGAATTTTAAAAAAATAA
59466372 TTAA
1 TTAA
59466376 TTAAATTAGG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 13 0.45
28 16 0.55
ACGTcount: A:0.51, C:0.00, G:0.12, T:0.37
Consensus pattern (27 bp):
TTAAGGTTTAGAATTTTAAAAAAATAA
Found at i:59466373 original size:27 final size:28
Alignment explanation
Indices: 59466317--59466375 Score: 86
Period size: 27 Copynumber: 2.1 Consensus size: 28
59466307 TTTTATTTAT
59466317 TTAAGGTTTAAGAATTTTAAAAAATAAA
1 TTAAGGTTTAAGAATTTTAAAAAATAAA
*
59466345 TTAAGGTTT-AGAGTTTTAAAAAA-ATAA
1 TTAAGGTTTAAGAATTTTAAAAAATA-AA
59466372 TTAA
1 TTAA
59466376 TTAAATTAGG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
26 1 0.03
27 19 0.66
28 9 0.31
ACGTcount: A:0.51, C:0.00, G:0.12, T:0.37
Consensus pattern (28 bp):
TTAAGGTTTAAGAATTTTAAAAAATAAA
Found at i:59466381 original size:36 final size:36
Alignment explanation
Indices: 59466341--59466448 Score: 107
Period size: 36 Copynumber: 3.0 Consensus size: 36
59466331 TTTTAAAAAA
59466341 TAAATTAAGGTTTAGAGTTTTAAAAAAATAATTAAT
1 TAAATTAAGGTTTAGAGTTTTAAAAAAATAATTAAT
* *
59466377 TAAATT-AGGTTTTAGGGGTTTTAAATAAAT-A--AAT
1 TAAATTAAGG-TTTA-GAGTTTTAAAAAAATAATTAAT
* *
59466411 TAAATTAGGGTTTAGAATTTTTTTAAAAAAATAATTAA
1 TAAATTAAGGTTTAG-A--GTTTTAAAAAAATAATTAA
59466449 ATTAGAGTTT
Statistics
Matches: 57, Mismatches: 6, Indels: 15
0.73 0.08 0.19
Matches are distributed among these distances:
33 1 0.02
34 13 0.23
35 5 0.09
36 22 0.39
37 14 0.25
39 2 0.04
ACGTcount: A:0.46, C:0.00, G:0.13, T:0.41
Consensus pattern (36 bp):
TAAATTAAGGTTTAGAGTTTTAAAAAAATAATTAAT
Found at i:59466447 original size:35 final size:33
Alignment explanation
Indices: 59466364--59466479 Score: 117
Period size: 35 Copynumber: 3.4 Consensus size: 33
59466354 AGAGTTTTAA
***
59466364 AAAAATAATTAATTAAATTAG-GTTTTAGGGGTTTT
1 AAAAA-AA-TAATTAAATTAGAG-TTTAGTTTTTTT
* *
59466399 AAATAAATAAATTAAATTAGGGTTTAGAATTTTTTT
1 AAAAAAAT-AATTAAATTAGAGTTTAG--TTTTTTT
59466435 AAAAAAATAATTAAATTAGAGTTTAGTTTTTTT
1 AAAAAAATAATTAAATTAGAGTTTAGTTTTTTT
*
59466468 TAAAAAATAATT
1 AAAAAAATAATT
59466480 TTGTATTTAG
Statistics
Matches: 70, Mismatches: 7, Indels: 10
0.80 0.08 0.11
Matches are distributed among these distances:
33 19 0.27
34 18 0.26
35 22 0.31
36 11 0.16
ACGTcount: A:0.46, C:0.00, G:0.11, T:0.43
Consensus pattern (33 bp):
AAAAAAATAATTAAATTAGAGTTTAGTTTTTTT
Found at i:59466468 original size:36 final size:34
Alignment explanation
Indices: 59466395--59466479 Score: 118
Period size: 33 Copynumber: 2.5 Consensus size: 34
59466385 GTTTTAGGGG
* *
59466395 TTTTAAATAAATAAATTAAATTAGGGTTTAGAATTT
1 TTTTAAAAAAAT-AATTAAATTAGAGTTTAG-ATTT
59466431 TTTTAAAAAAATAATTAAATTAGAGTTTAG-TTT
1 TTTTAAAAAAATAATTAAATTAGAGTTTAGATTT
*
59466464 TTTTTAAAAAATAATT
1 TTTTAAAAAAATAATT
59466480 TTGTATTTAG
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
33 18 0.39
35 17 0.37
36 11 0.24
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (34 bp):
TTTTAAAAAAATAATTAAATTAGAGTTTAGATTT
Found at i:59466764 original size:126 final size:126
Alignment explanation
Indices: 59466539--59467059 Score: 765
Period size: 126 Copynumber: 4.1 Consensus size: 126
59466529 TTTGTTTTTG
* * * * * *
59466539 TTTTCTACAGTAGTTTCAGAAAAATTAATTTTGAGAAGATGGTTCTGAAAAGATAATGTCAAAAA
1 TTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAAA
* * * * *
59466604 CGCTTCAAGCAAAATGTACTGTTAGCAAAATTATTGAAAAAAGCTCCCACGTGGACGCTCT
66 CGCTTCAAGCAAGATGCACTGTCAGCAAAATTACTGAAAAAAACTCCCACGTGGACGCTCT
* *
59466665 TTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTTTAAAAAA
1 TTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAAA
* * * *
59466730 CGCTTCAAGCAGGATGCACTGTCAGTAAAATTA-TTAAAAAAGCTCCCACGTGGACGCTCT
66 CGCTTCAAGCAAGATGCACTGTCAGCAAAATTACTGAAAAAAACTCCCACGTGGACGCTCT
* * * *
59466790 TTTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAATACAGTTCTAAAAAAATAGTGTCAAAAA
1 TTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAAA
* *
59466855 CGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAACTCCCACGTGGACGCTAT
66 CGCTTCAAGCAAGATGCACTGTCAGCAAAATTACTGAAAAAAACTCCCACGTGGACGCTCT
*
59466916 TTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGATTCTGAAAAAATAGTGTCAAAAA
1 TTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAAA
* * * *
59466981 TGCTTCGAGCAAGATGCACTGTCAGTAAAATTACTGAAAAAAAAACTCTCACGTGGACGCTCT
66 CGCTTCAAGCAAGATGCACTGTCAGCAAAATTACTG--AAAAAAACTCCCACGTGGACGCTCT
59467044 TTTTCTACAGTAGTTC
1 TTTTCTACAGTAGTTC
59467060 TTGTTTGCCA
Statistics
Matches: 357, Mismatches: 35, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
125 117 0.33
126 201 0.56
128 39 0.11
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.29
Consensus pattern (126 bp):
TTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAAA
CGCTTCAAGCAAGATGCACTGTCAGCAAAATTACTGAAAAAAACTCCCACGTGGACGCTCT
Found at i:59466999 original size:251 final size:253
Alignment explanation
Indices: 59466539--59467062 Score: 793
Period size: 251 Copynumber: 2.1 Consensus size: 253
59466529 TTTGTTTTTG
* * ** * *
59466539 TTTTCTACAGTAGTT-TCAGAAAAATTAATTTTGAGAAGATGGTTCTGAAAAGATAATGTCAAAA
1 TTTTCTACAGTAGTTCT-TGAAAAAATAATTTTGAGAAGACAGTTCTAAAAAAATAATGTCAAAA
* * * * *
59466603 ACGCTTCAAGCAAAATGTACTGTTAGCAAAATTATTGAAAAAAGCTCCCACGTGGACGCTCTTTT
65 ACGCTTCAAGCAAAATGCACTGTCAGCAAAATTACTGAAAAAAACTCCCACGTGGACGCTATTTT
* *
59466668 TCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTTTAAAAAACGC
130 TCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGATTCTGAAAAAATAGTGTAAAAAACGC
* * *
59466733 TTCAAGCAGGATGCACTGTCAGTAAAATTA-T-TAAAAAAGCTCCCACGTGGACGCTCT
195 TTCAAGCAAGATGCACTGTCAGTAAAATTACTAAAAAAAAACTCCCACGTGGACGCTCT
* *
59466790 TTTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAATACAGTTCTAAAAAAATAGTGTCAAAAA
1 TTTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACAGTTCTAAAAAAATAATGTCAAAAA
**
59466855 CGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAACTCCCACGTGGACGCTATTTTT
66 CGCTTCAAGCAAAATGCACTGTCAGCAAAATTACTGAAAAAAACTCCCACGTGGACGCTATTTTT
* *
59466920 CTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGATTCTGAAAAAATAGTGTCAAAAATGCT
131 CTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGATTCTGAAAAAATAGTGTAAAAAACGCT
* *
59466985 TCGAGCAAGATGCACTGTCAGTAAAATTACTGAAAAAAAAACTCTCACGTGGACGCTCT
196 TCAAGCAAGATGCACTGTCAGTAAAATTACT-AAAAAAAAACTCCCACGTGGACGCTCT
59467044 TTTTCTACAGTAGTTCTTG
1 TTTTCTACAGTAGTTCTTG
59467063 TTTGCCATTA
Statistics
Matches: 245, Mismatches: 24, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
251 201 0.82
252 2 0.01
254 42 0.17
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (253 bp):
TTTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACAGTTCTAAAAAAATAATGTCAAAAA
CGCTTCAAGCAAAATGCACTGTCAGCAAAATTACTGAAAAAAACTCCCACGTGGACGCTATTTTT
CTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGATTCTGAAAAAATAGTGTAAAAAACGCT
TCAAGCAAGATGCACTGTCAGTAAAATTACTAAAAAAAAACTCCCACGTGGACGCTCT
Found at i:59470539 original size:18 final size:18
Alignment explanation
Indices: 59470516--59470552 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
59470506 GGAAAATGAA
*
59470516 ACATATAAGGGTTAGGAT
1 ACATATAAAGGTTAGGAT
59470534 ACATATAAAGGTTAGGAT
1 ACATATAAAGGTTAGGAT
59470552 A
1 A
59470553 TGCACCTAAC
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:0.43, C:0.05, G:0.24, T:0.27
Consensus pattern (18 bp):
ACATATAAAGGTTAGGAT
Found at i:59471145 original size:7 final size:7
Alignment explanation
Indices: 59471133--59471157 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
59471123 TATTAGTTAT
59471133 ATACACA
1 ATACACA
59471140 ATACACA
1 ATACACA
59471147 ATACACA
1 ATACACA
59471154 ATAC
1 ATAC
59471158 TAAATACTAA
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:0.28, G:0.00, T:0.16
Consensus pattern (7 bp):
ATACACA
Found at i:59472135 original size:25 final size:24
Alignment explanation
Indices: 59472098--59472149 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 24
59472088 ACTGTTATAA
* *
59472098 AAAATTATAAAAT-ATAAAATAATT
1 AAAATTACAAAATGAAAAAAT-ATT
59472122 AAAATTACATAAATGAAAAAATATT
1 AAAATTACA-AAATGAAAAAATATT
59472147 AAA
1 AAA
59472150 TAATATTCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 8 0.33
25 10 0.42
26 6 0.25
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (24 bp):
AAAATTACAAAATGAAAAAATATT
Found at i:59473096 original size:23 final size:23
Alignment explanation
Indices: 59473057--59473104 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
59473047 AGCCCCATTT
59473057 AAAACCCAAGATGCAAAAACTAA
1 AAAACCCAAGATGCAAAAACTAA
* *
59473080 AAAAGCCCAA-ATTCAAAACCTAA
1 AAAA-CCCAAGATGCAAAAACTAA
59473103 AA
1 AA
59473105 TAAACCCTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 17 0.77
24 5 0.23
ACGTcount: A:0.60, C:0.23, G:0.06, T:0.10
Consensus pattern (23 bp):
AAAACCCAAGATGCAAAAACTAA
Found at i:59473514 original size:10 final size:10
Alignment explanation
Indices: 59473499--59473526 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
59473489 TGATCAAAGA
59473499 AAGAAAATAG
1 AAGAAAATAG
59473509 AAGAAAATAG
1 AAGAAAATAG
59473519 AAGAAAAT
1 AAGAAAAT
59473527 GAGTGAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.71, C:0.00, G:0.18, T:0.11
Consensus pattern (10 bp):
AAGAAAATAG
Found at i:59485227 original size:40 final size:41
Alignment explanation
Indices: 59485183--59485322 Score: 121
Period size: 40 Copynumber: 3.5 Consensus size: 41
59485173 AACACACCAG
*
59485183 TTTGACACCCAGTGCCTCATCGGA-TAATTCGAAGTAATAA
1 TTTGACACCCAGTGCCTCATCGGACTAATCCGAAGTAATAA
* * *
59485223 TTTGACACCTAGTGTCTCATC-GACTAAACCGAAGT-A-AA
1 TTTGACACCCAGTGCCTCATCGGACTAATCCGAAGTAATAA
* * * * *
59485261 -TTGGCACCTAGTGCCTTAT-GGAATTAATCCGAAGTAGTAA
1 TTTGACACCCAGTGCCTCATCGG-ACTAATCCGAAGTAATAA
* **
59485301 ATTGACACCCAGTATCTCATCG
1 TTTGACACCCAGTGCCTCATCG
59485323 ACTCAAAGTC
Statistics
Matches: 78, Mismatches: 15, Indels: 12
0.74 0.14 0.11
Matches are distributed among these distances:
37 17 0.22
38 13 0.17
39 3 0.04
40 30 0.38
41 14 0.18
42 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (41 bp):
TTTGACACCCAGTGCCTCATCGGACTAATCCGAAGTAATAA
Found at i:59486199 original size:17 final size:17
Alignment explanation
Indices: 59486177--59486212 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
59486167 CCTGTTTTCG
59486177 TTTCTATGCTCTTTCTT
1 TTTCTATGCTCTTTCTT
* *
59486194 TTTCTATTCTTTTTCTT
1 TTTCTATGCTCTTTCTT
59486211 TT
1 TT
59486213 ATTTAATTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.06, C:0.19, G:0.03, T:0.72
Consensus pattern (17 bp):
TTTCTATGCTCTTTCTT
Found at i:59486203 original size:22 final size:20
Alignment explanation
Indices: 59486145--59486204 Score: 57
Period size: 22 Copynumber: 2.8 Consensus size: 20
59486135 ATTCTTTCTT
*
59486145 TTTCTTTTTCTTTCTTTCCC
1 TTTCTTTTTCTTTCTTGCCC
* *
59486165 TTCCTGTTTTCGTTTCTATGCTC
1 TTTCT-TTTTC-TTTCT-TGCCC
59486188 TTTCTTTTTCTATTCTT
1 TTTCTTTTTCT-TTCTT
59486205 TTTCTTTTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
20 4 0.12
21 7 0.22
22 14 0.44
23 7 0.22
ACGTcount: A:0.03, C:0.25, G:0.05, T:0.67
Consensus pattern (20 bp):
TTTCTTTTTCTTTCTTGCCC
Found at i:59488848 original size:17 final size:17
Alignment explanation
Indices: 59488826--59488859 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
59488816 TAGTAGGATA
59488826 GACTTCTAAATGCCTCC
1 GACTTCTAAATGCCTCC
59488843 GACTTCTAAATGCCTCC
1 GACTTCTAAATGCCTCC
59488860 ATTGACTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.35, G:0.12, T:0.29
Consensus pattern (17 bp):
GACTTCTAAATGCCTCC
Found at i:59491611 original size:50 final size:50
Alignment explanation
Indices: 59491546--59492022 Score: 368
Period size: 50 Copynumber: 9.5 Consensus size: 50
59491536 TTTGGAAAGT
* * *
59491546 AAGATTCGCCATTGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGC
1 AAGATTCACCGTTGTGGCTTTAATCTTTTCAACTGCAATGTCGGGGAAGC
* * * * *
59491596 AAGATTCACCGTTGTGGCTTTAATCTGCTTC-ACTGCACTATCTGGGAATGT
1 AAGATTCACCGTTGTGGCTTTAATCT-TTTCAACTGCAATGTCGGGGAA-GC
* ** * * *
59491647 AAGATTCGCTATTGTAGCTTTAATCTTTTGAACTGTAATGTCGGGGAAGC
1 AAGATTCACCGTTGTGGCTTTAATCTTTTCAACTGCAATGTCGGGGAAGC
* * * * * * *
59491697 AAGATTCACCGATGTGGCTTTAATCTGTTCCACTGC-ATCGCCTGGGAGGT
1 AAGATTCACCGTTGTGGCTTTAATCTTTTCAACTGCAAT-GTCGGGGAAGC
* ** * * *
59491747 AAGATTCGCTATTGTAGCTTTAATATTTTGAACTGCAATGTCGGGGAAGC
1 AAGATTCACCGTTGTGGCTTTAATCTTTTCAACTGCAATGTCGGGGAAGC
* * ** * ** * *
59491797 AATATTCACCGATGTGGCTTTAATCTGCTCCACTGC-ATCACTGGGGAGGT
1 AAGATTCACCGTTGTGGCTTTAATCTTTTCAACTGCAATGTC-GGGGAAGC
* * * * * *
59491847 AAGATTCGCTGTTGTAGCTTAAATCTTTTGAACTGCAATGTCGGGGAAAC
1 AAGATTCACCGTTGTGGCTTTAATCTTTTCAACTGCAATGTCGGGGAAGC
* * ** ** *** *
59491897 AAGATTCACCGATGTGGCTTTAATCTGTTCCGCTGCACCG-CTTAAGAAGT
1 AAGATTCACCGTTGTGGCTTTAATCTTTTCAACTGCAATGTC-GGGGAAGC
* * * *
59491947 AAGATTCACTGTTGTAGCTTTAATCTTTTTAATTGCAATGTCGGGGAAGC
1 AAGATTCACCGTTGTGGCTTTAATCTTTTCAACTGCAATGTCGGGGAAGC
*
59491997 AACATTCACCGTTGTGGCTTTAATCT
1 AAGATTCACCGTTGTGGCTTTAATCT
59492023 GTTCCACGGT
Statistics
Matches: 310, Mismatches: 108, Indels: 18
0.71 0.25 0.04
Matches are distributed among these distances:
49 6 0.02
50 260 0.84
51 44 0.14
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (50 bp):
AAGATTCACCGTTGTGGCTTTAATCTTTTCAACTGCAATGTCGGGGAAGC
Found at i:59491804 original size:100 final size:100
Alignment explanation
Indices: 59491544--59492143 Score: 700
Period size: 100 Copynumber: 6.1 Consensus size: 100
59491534 CATTTGGAAA
* * * *
59491544 GTAAGATTCGCCATTGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTT
1 GTAAGATTCGCTATTGTAGCTTTAATCTTTTGAACTGCAATGTCGGGGAAGCAAGATTCACCGAT
** *
59491609 GTGGCTTTAATCTGCTT-CACTGCA-CTATCTGGGAAT
66 GTGGCTTTAATCTG-TTCCACTGCATC-GCCTGGG-AG
*
59491645 GTAAGATTCGCTATTGTAGCTTTAATCTTTTGAACTGTAATGTCGGGGAAGCAAGATTCACCGAT
1 GTAAGATTCGCTATTGTAGCTTTAATCTTTTGAACTGCAATGTCGGGGAAGCAAGATTCACCGAT
59491710 GTGGCTTTAATCTGTTCCACTGCATCGCCTGGGAG
66 GTGGCTTTAATCTGTTCCACTGCATCGCCTGGGAG
* *
59491745 GTAAGATTCGCTATTGTAGCTTTAATATTTTGAACTGCAATGTCGGGGAAGCAATATTCACCGAT
1 GTAAGATTCGCTATTGTAGCTTTAATCTTTTGAACTGCAATGTCGGGGAAGCAAGATTCACCGAT
* *
59491810 GTGGCTTTAATCTGCTCCACTGCATC-ACTGGGGAG
66 GTGGCTTTAATCTGTTCCACTGCATCGCCT-GGGAG
* * *
59491845 GTAAGATTCGCTGTTGTAGCTTAAATCTTTTGAACTGCAATGTCGGGGAAACAAGATTCACCGAT
1 GTAAGATTCGCTATTGTAGCTTTAATCTTTTGAACTGCAATGTCGGGGAAGCAAGATTCACCGAT
* * * ** *
59491910 GTGGCTTTAATCTGTTCCGCTGCACCGCTTAAGAA
66 GTGGCTTTAATCTGTTCCACTGCATCGCCTGGGAG
* * * * * *
59491945 GTAAGATTCACTGTTGTAGCTTTAATCTTTTTAATTGCAATGTCGGGGAAGCAACATTCACCGTT
1 GTAAGATTCGCTATTGTAGCTTTAATCTTTTGAACTGCAATGTCGGGGAAGCAAGATTCACCGAT
* * * ** *
59492010 GTGGCTTTAATCTGTTCCACGGTATCCCCAAGGAA
66 GTGGCTTTAATCTGTTCCACTGCATCGCCTGGGAG
* *** * *
59492045 GTAGGATTCGCCGCTGTGGCTTTAA-----T---CTGCAATGTCGGGGAAGCAAGATTAACCGAT
1 GTAAGATTCGCTATTGTAGCTTTAATCTTTTGAACTGCAATGTCGGGGAAGCAAGATTCACCGAT
* * *
59492102 GTGGCTTTAATCTGTTCCACTACACCGCCTGGAAG
66 GTGGCTTTAATCTGTTCCACTGCATCGCCTGGGAG
*
59492137 ATAAGAT
1 GTAAGAT
59492144 CTGTAATTCT
Statistics
Matches: 434, Mismatches: 61, Indels: 17
0.85 0.12 0.03
Matches are distributed among these distances:
92 58 0.13
95 1 0.00
99 2 0.00
100 285 0.66
101 87 0.20
102 1 0.00
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (100 bp):
GTAAGATTCGCTATTGTAGCTTTAATCTTTTGAACTGCAATGTCGGGGAAGCAAGATTCACCGAT
GTGGCTTTAATCTGTTCCACTGCATCGCCTGGGAG
Found at i:59492412 original size:44 final size:43
Alignment explanation
Indices: 59492349--59492602 Score: 131
Period size: 44 Copynumber: 5.6 Consensus size: 43
59492339 GATCTACTCT
* *
59492349 ACTGTAA-CTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCC
1 ACTGTAATC-TCAGGGAGATAAGAT-CTTTACTTTAATCCGCTCC
* * * *
59492393 ACTGTAATCTCAGGGAGATAGGAT-TATTAGCTTCAATCTGCTCT
1 ACTGTAATCTCAGGGAGATAAGATCT-TTA-CTTTAATCCGCTCC
* **
59492437 GCTGTAATCTCAGGGAGATAAGAT-TTCTGGTTTCAATCTGATGCGATCTACTC
1 ACTGTAATCTCAGGGAGATAAGATCTT-TACTTT-AATC-----CG--CT-C-C
* * *
59492490 TACTGTAA-CTTCAGAGAGATAAAATCCTTTATTTTAATCCGCTCC
1 -ACTGTAATC-TCAGGGAGATAAGAT-CTTTACTTTAATCCGCTCC
* * * *
59492535 ACTGTAATCTCAGGGAGATAGGAT-TACTAGCTTCAATCTGCTCC
1 ACTGTAATCTCAGGGAGATAAGATCT-TTA-CTTTAATCCGCTCC
**
59492579 GTTGTAATCTCAGGGAGATAAGAT
1 ACTGTAATCTCAGGGAGATAAGAT
59492603 TTTTGGCTTC
Statistics
Matches: 161, Mismatches: 28, Indels: 42
0.70 0.12 0.18
Matches are distributed among these distances:
42 2 0.01
43 8 0.05
44 109 0.68
45 3 0.02
46 1 0.01
47 2 0.01
49 3 0.02
51 2 0.01
52 1 0.01
53 1 0.01
54 23 0.14
55 4 0.02
56 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (43 bp):
ACTGTAATCTCAGGGAGATAAGATCTTTACTTTAATCCGCTCC
Found at i:59492446 original size:142 final size:142
Alignment explanation
Indices: 59492190--59492618 Score: 759
Period size: 142 Copynumber: 3.0 Consensus size: 142
59492180 GAGATAAGAC
*
59492190 CTGATGCGATCTACGCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
* * *
59492255 TAATCCCAAGGAGATAGGATTACTAGCTTCAATCTGCTCTGCTGTAATCTCAGAGAGATAAGATT
66 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCTGCTGTAATCTCAGGGAGATAAGATT
*
59492320 TCTGGCTTCGAT
131 TCTGGCTTCAAT
59492332 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
*
59492397 TAATCTCAGGGAGATAGGATTATTAGCTTCAATCTGCTCTGCTGTAATCTCAGGGAGATAAGATT
66 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCTGCTGTAATCTCAGGGAGATAAGATT
*
59492462 TCTGGTTTCAAT
131 TCTGGCTTCAAT
*
59492474 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAAATCCTTTATTTTAATCCGCTCCACTG
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
* *
59492539 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGTTGTAATCTCAGGGAGATAAGATT
66 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCTGCTGTAATCTCAGGGAGATAAGATT
*
59492604 TTTGGCTTCAAT
131 TCTGGCTTCAAT
59492616 CTG
1 CTG
59492619 CTTCATTGTT
Statistics
Matches: 274, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
142 274 1.00
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (142 bp):
CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCTGCTGTAATCTCAGGGAGATAAGATT
TCTGGCTTCAAT
Found at i:59492612 original size:44 final size:44
Alignment explanation
Indices: 59492537--59492620 Score: 132
Period size: 44 Copynumber: 1.9 Consensus size: 44
59492527 TCCGCTCCAC
*
59492537 TGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGT
1 TGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCTGCTCCGT
** *
59492581 TGTAATCTCAGGGAGATAAGATTTTTGGCTTCAATCTGCT
1 TGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCTGCT
59492621 TCATTGTTGC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 36 1.00
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.35
Consensus pattern (44 bp):
TGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCTGCTCCGT
Found at i:59494723 original size:22 final size:21
Alignment explanation
Indices: 59494682--59494724 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
59494672 TCGCTTTGGC
*
59494682 CTCTCCTTTTTTTTTCTTTTT
1 CTCTCCTTTCTTTTTCTTTTT
* *
59494703 CTCTTCTTTCTTTTTCATTTT
1 CTCTCCTTTCTTTTTCTTTTT
59494724 C
1 C
59494725 ATTTTGACCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.02, C:0.26, G:0.00, T:0.72
Consensus pattern (21 bp):
CTCTCCTTTCTTTTTCTTTTT
Found at i:59500768 original size:11 final size:11
Alignment explanation
Indices: 59500749--59500779 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
59500739 ACAGATTCGT
*
59500749 AAAACAAAATA
1 AAAATAAAATA
59500760 AAAATAAAATA
1 AAAATAAAATA
59500771 AAAATAAAA
1 AAAATAAAA
59500780 AACGACGAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.84, C:0.03, G:0.00, T:0.13
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:59501177 original size:22 final size:22
Alignment explanation
Indices: 59501152--59501197 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
59501142 TTTTGGGCTA
59501152 GGTTGGGCTGGATTGGGTTTTG
1 GGTTGGGCTGGATTGGGTTTTG
59501174 GGTTGGGCTGGATTGGGTTTTG
1 GGTTGGGCTGGATTGGGTTTTG
59501196 GG
1 GG
59501198 CTAGGCTAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.04, C:0.04, G:0.52, T:0.39
Consensus pattern (22 bp):
GGTTGGGCTGGATTGGGTTTTG
Found at i:59501204 original size:22 final size:22
Alignment explanation
Indices: 59501157--59501204 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
59501147 GGCTAGGTTG
* *
59501157 GGCTGGATTGGGTTTTGGGTTG
1 GGCTGGATTGGGTTTTGGGCTA
59501179 GGCTGGATTGGGTTTTGGGCTA
1 GGCTGGATTGGGTTTTGGGCTA
59501201 GGCT
1 GGCT
59501205 AGTGTTTGGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.06, C:0.08, G:0.48, T:0.38
Consensus pattern (22 bp):
GGCTGGATTGGGTTTTGGGCTA
Found at i:59508867 original size:17 final size:19
Alignment explanation
Indices: 59508845--59508884 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
59508835 TCCTCCCTCA
59508845 TCTTTTCT-TTTCTTCTT-
1 TCTTTTCTGTTTCTTCTTC
59508862 TCTTTTCTGTTTCTTCTTC
1 TCTTTTCTGTTTCTTCTTC
59508881 TCTT
1 TCTT
59508885 GTTGCCAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 8 0.38
18 9 0.43
19 4 0.19
ACGTcount: A:0.00, C:0.25, G:0.03, T:0.72
Consensus pattern (19 bp):
TCTTTTCTGTTTCTTCTTC
Found at i:59509832 original size:27 final size:27
Alignment explanation
Indices: 59509794--59510126 Score: 414
Period size: 27 Copynumber: 12.3 Consensus size: 27
59509784 GCGACTCAAT
59509794 GGGTAAAATTACCGAAATACCCTCGAA
1 GGGTAAAATTACCGAAATACCCTCGAA
59509821 GGGTAAAATTACCGAAATACCCTCGAA
1 GGGTAAAATTACCGAAATACCCTCGAA
* ** *
59509848 AGGTAAAATTGTCGAAATACCTTCGAA
1 GGGTAAAATTACCGAAATACCCTCGAA
* * * *
59509875 GGGTAAAATTATCAAAATGCCCTCAAA
1 GGGTAAAATTACCGAAATACCCTCGAA
* *
59509902 GGGTAAAATTACCAAAATACCCTTGAA
1 GGGTAAAATTACCGAAATACCCTCGAA
** **
59509929 GGGTAAAATTATTGAAATACCCTTAAA
1 GGGTAAAATTACCGAAATACCCTCGAA
* *
59509956 GGGTAAAATTACTGAAATACCCTTGAA
1 GGGTAAAATTACCGAAATACCCTCGAA
* *
59509983 GGGTAAAATTATCGAAATACCCTTGAA
1 GGGTAAAATTACCGAAATACCCTCGAA
* *
59510010 GTGTAAAATTACCAAAATACCCTCGAA
1 GGGTAAAATTACCGAAATACCCTCGAA
** *
59510037 GGGTAAAATTATTGAAATACCCTCAAA
1 GGGTAAAATTACCGAAATACCCTCGAA
* *
59510064 GGGTAAAATTACCGAAATACCCCCAAA
1 GGGTAAAATTACCGAAATACCCTCGAA
* * *
59510091 GGATAAAATTTCTGAAATACCCTCGAA
1 GGGTAAAATTACCGAAATACCCTCGAA
59510118 GGGTAAAAT
1 GGGTAAAAT
59510127 AACTGTTATA
Statistics
Matches: 266, Mismatches: 40, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 266 1.00
ACGTcount: A:0.43, C:0.18, G:0.17, T:0.23
Consensus pattern (27 bp):
GGGTAAAATTACCGAAATACCCTCGAA
Found at i:59510338 original size:26 final size:26
Alignment explanation
Indices: 59510303--59510370 Score: 91
Period size: 26 Copynumber: 2.6 Consensus size: 26
59510293 TTGCCACATA
59510303 TACTGTTACTGGCAGCCTTGCTGCGT
1 TACTGTTACTGGCAGCCTTGCTGCGT
* *
59510329 TACTGTTACTGGCAGCTTTGCTGTGT
1 TACTGTTACTGGCAGCCTTGCTGCGT
* * *
59510355 CATTATTACTGGCAGC
1 TACTGTTACTGGCAGC
59510371 TCTACTGCGA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.15, C:0.24, G:0.25, T:0.37
Consensus pattern (26 bp):
TACTGTTACTGGCAGCCTTGCTGCGT
Found at i:59510526 original size:30 final size:31
Alignment explanation
Indices: 59510485--59510545 Score: 90
Period size: 30 Copynumber: 2.0 Consensus size: 31
59510475 ACTGTATTGG
*
59510485 ACTGATTACTGTATTGGGC-TAGGGCCCACTC
1 ACTGATTACTGTATCGGGCTTA-GGCCCACTC
59510516 ACTG-TTACTGTATCGGGCTTAGGCCCACTC
1 ACTGATTACTGTATCGGGCTTAGGCCCACTC
59510546 CGTACTGTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 22 0.79
31 6 0.21
ACGTcount: A:0.18, C:0.28, G:0.25, T:0.30
Consensus pattern (31 bp):
ACTGATTACTGTATCGGGCTTAGGCCCACTC
Found at i:59510558 original size:33 final size:30
Alignment explanation
Indices: 59510485--59510575 Score: 94
Period size: 33 Copynumber: 2.9 Consensus size: 30
59510475 ACTGTATTGG
*
59510485 ACTGATTACTGTATTGGGC-TAGGGCCCACTC
1 ACTG-TTACTGTATAGGGCTTA-GGCCCACTC
*
59510516 ACTGTTACTGTATCGGGCTTAGGCCCACTCC
1 ACTGTTACTGTATAGGGCTTAGGCCCACT-C
* *
59510547 GTACTGTTACTGAATAGGGCTCAGGCCCA
1 --ACTGTTACTGTATAGGGCTTAGGCCCA
59510576 GACTGTTACT
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
30 21 0.40
31 7 0.13
33 24 0.46
ACGTcount: A:0.20, C:0.27, G:0.25, T:0.27
Consensus pattern (30 bp):
ACTGTTACTGTATAGGGCTTAGGCCCACTC
Found at i:59513436 original size:155 final size:155
Alignment explanation
Indices: 59513170--59513581 Score: 531
Period size: 155 Copynumber: 2.7 Consensus size: 155
59513160 ATTGGTATGA
* * * * * *
59513170 CCGAAGTAAAAATTATGTCCAGCACTCTTCAAAACATAGTCAAAGTAA-CAATTGACACCCAGTG
1 CCGAAGTAAAAATTGTGTCCAGCACTCATCGACACATAGTCGAAGTAACCATTTGACACCCAGTG
* * * * *
59513234 CGTCATCAAAACGTTCGAAGTAATTAGTTTGCACCCCGGGATCATTGGTATAACCGGAGTAAATG
66 CCTCATCGAAACGTCCGAAGTAATTAGTTTGCACCCAGGGATCATTGGTATAACCGAAGTAAATG
* * * *
59513299 TTGTGCCCAGCATTCATCGGAACTT
131 TTGTGCCCAACACTCATCGAAACGT
*
59513324 CCGAAGTAAAAATTGTGTCCAGCACTCATCGACACGTAGTCGAAGTAACCATTTGACACCCAGTG
1 CCGAAGTAAAAATTGTGTCCAGCACTCATCGACACATAGTCGAAGTAACCATTTGACACCCAGTG
* * *
59513389 CCTCATCGAAACGTCCGAAGTAATTAGTTTGCACCCAGTGCTTATTGGTATAACCGAAGTAAATG
66 CCTCATCGAAACGTCCGAAGTAATTAGTTTGCACCCAGGGATCATTGGTATAACCGAAGTAAATG
59513454 TTGTGCCCAACACTCATCGAAACGT
131 TTGTGCCCAACACTCATCGAAACGT
* * * * * *
59513479 CTGATGTAAAAATTGT-TCCCAGAACTCATCGACACATAGTCGAAGTCACCATTAGGCACCCAGT
1 CCGAAGTAAAAATTGTGT-CCAGCACTCATCGACACATAGTCGAAGTAACCATTTGACACCCAGT
* * * * *
59513543 GCCTCATTGGAACATCCGAAGTAATTAATTTGCGCCCAG
65 GCCTCATCGAAACGTCCGAAGTAATTAGTTTGCACCCAG
59513582 CTCTCATCAA
Statistics
Matches: 225, Mismatches: 31, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
154 43 0.19
155 182 0.81
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (155 bp):
CCGAAGTAAAAATTGTGTCCAGCACTCATCGACACATAGTCGAAGTAACCATTTGACACCCAGTG
CCTCATCGAAACGTCCGAAGTAATTAGTTTGCACCCAGGGATCATTGGTATAACCGAAGTAAATG
TTGTGCCCAACACTCATCGAAACGT
Found at i:59513694 original size:9 final size:9
Alignment explanation
Indices: 59513680--59513720 Score: 57
Period size: 9 Copynumber: 4.6 Consensus size: 9
59513670 TCTATCGATC
59513680 TCAATATCA
1 TCAATATCA
59513689 TCAATATCA
1 TCAATATCA
59513698 TCAAT-TCA
1 TCAATATCA
*
59513706 TCACTCATCA
1 TCAAT-ATCA
59513716 TCAAT
1 TCAAT
59513721 TAAATTTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
8 7 0.25
9 14 0.50
10 7 0.25
ACGTcount: A:0.39, C:0.27, G:0.00, T:0.34
Consensus pattern (9 bp):
TCAATATCA
Found at i:59517570 original size:15 final size:16
Alignment explanation
Indices: 59517550--59517579 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
59517540 TTAGTTTAGG
59517550 TTTTCATTTT-TTTTC
1 TTTTCATTTTGTTTTC
59517565 TTTTCATTTTGTTTT
1 TTTTCATTTTGTTTT
59517580 TGTTGTAGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.07, C:0.10, G:0.03, T:0.80
Consensus pattern (16 bp):
TTTTCATTTTGTTTTC
Found at i:59519248 original size:11 final size:11
Alignment explanation
Indices: 59519208--59519241 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
59519198 CAATGCATAT
59519208 AACTAATTCA-
1 AACTAATTCAC
59519218 AACTTAATTCAC
1 AAC-TAATTCAC
59519230 AACTAATTCAC
1 AACTAATTCAC
59519241 A
1 A
59519242 TACAATTTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 3 0.14
11 16 0.73
12 3 0.14
ACGTcount: A:0.47, C:0.24, G:0.00, T:0.29
Consensus pattern (11 bp):
AACTAATTCAC
Found at i:59529709 original size:37 final size:37
Alignment explanation
Indices: 59529641--59529767 Score: 166
Period size: 37 Copynumber: 3.4 Consensus size: 37
59529631 ATCCAGCTGA
* * * * *
59529641 AACAAGCCAAATGCTCATAATAGCTAATCCAACTGAT
1 AACACGCCAAGTGCTCATAAGAGTTAATCCAACCGAT
* * *
59529678 AACACGCCAAGTTCTCGTAAGA-TCTATTCCAACCGAT
1 AACACGCCAAGTGCTCATAAGAGT-TAATCCAACCGAT
59529715 AACACGCCAAGTGCTCATAAGAGTTAATCCAACCGAT
1 AACACGCCAAGTGCTCATAAGAGTTAATCCAACCGAT
59529752 AACACGCCAAGTGCTC
1 AACACGCCAAGTGCTC
59529768 CGAAGAGCTA
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
37 76 0.99
38 1 0.01
ACGTcount: A:0.37, C:0.28, G:0.14, T:0.20
Consensus pattern (37 bp):
AACACGCCAAGTGCTCATAAGAGTTAATCCAACCGAT
Found at i:59529774 original size:37 final size:38
Alignment explanation
Indices: 59529665--59529801 Score: 145
Period size: 37 Copynumber: 3.6 Consensus size: 38
59529655 TCATAATAGC
* * *
59529665 TAATCCAACTGATAACACGCCAAGTTCT-CGTAAGA-TC
1 TAATCCAACCGATAACACGCCAAGTGCTCCG-AAGAGTA
* **
59529702 TATTCCAACCGATAACACGCCAAGTGCTCATAAGAGT-
1 TAATCCAACCGATAACACGCCAAGTGCTCCGAAGAGTA
59529739 TAATCCAACCGATAACACGCCAAGTGCTCCGAAGAGCTA
1 TAATCCAACCGATAACACGCCAAGTGCTCCGAAGAG-TA
* *
59529778 TACATCCACCCCTATAACACGCCA
1 TA-ATCCA-ACCGATAACACGCCA
59529802 GGACAAGATA
Statistics
Matches: 84, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
37 62 0.74
38 2 0.02
39 2 0.02
40 5 0.06
41 13 0.15
ACGTcount: A:0.35, C:0.31, G:0.14, T:0.20
Consensus pattern (38 bp):
TAATCCAACCGATAACACGCCAAGTGCTCCGAAGAGTA
Found at i:59542824 original size:10 final size:10
Alignment explanation
Indices: 59542809--59542842 Score: 50
Period size: 10 Copynumber: 3.2 Consensus size: 10
59542799 AAAGAGAAAG
59542809 AAAAAAATAA
1 AAAAAAATAA
59542819 AAAAAAATAA
1 AAAAAAATAA
59542829 AAAATAAATGAA
1 AAAA-AAAT-AA
59542841 AA
1 AA
59542843 TGAAATATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 14 0.64
11 4 0.18
12 4 0.18
ACGTcount: A:0.85, C:0.00, G:0.03, T:0.12
Consensus pattern (10 bp):
AAAAAAATAA
Found at i:59545860 original size:14 final size:14
Alignment explanation
Indices: 59545827--59545865 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
59545817 TAATAATGTT
59545827 ATAATTTATAATAC
1 ATAATTTATAATAC
* **
59545841 AAAATTTATAATGG
1 ATAATTTATAATAC
59545855 ATAATTTATAA
1 ATAATTTATAA
59545866 ATGAAAACAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.41
Consensus pattern (14 bp):
ATAATTTATAATAC
Found at i:59550611 original size:26 final size:25
Alignment explanation
Indices: 59550573--59550626 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 25
59550563 TGGAGGAAGT
59550573 ATACTGTACTGGCAGCTTTGCTGCG
1 ATACTGTACTGGCAGCTTTGCTGCG
*
59550598 ATACTGTTACTGGCAGCTTTGCTGTG
1 ATACTG-TACTGGCAGCTTTGCTGCG
59550624 ATA
1 ATA
59550627 TTGGTGTGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
25 6 0.22
26 21 0.78
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (25 bp):
ATACTGTACTGGCAGCTTTGCTGCG
Found at i:59550780 original size:33 final size:33
Alignment explanation
Indices: 59550723--59550785 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
59550713 TGCATTATTG
*
59550723 CACTGTACTGATATTGTATTGGGCTAAGGCCCA
1 CACTGTACTGATACTGTATTGGGCTAAGGCCCA
* *
59550756 CACTGTACTGTTACTG-ATTAGGGCTCAGGC
1 CACTGTACTGATACTGTATT-GGGCTAAGGC
59550786 TCAGACTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
32 3 0.12
33 23 0.88
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.30
Consensus pattern (33 bp):
CACTGTACTGATACTGTATTGGGCTAAGGCCCA
Found at i:59555082 original size:22 final size:22
Alignment explanation
Indices: 59555037--59555082 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
59555027 TGATATAGAC
* *
59555037 TTAATAGATGCAGGAAAATCTT
1 TTAATAGATGAAAGAAAATCTT
59555059 TTAATAGATGAAAAGAAAAT-TT
1 TTAATAGATG-AAAGAAAATCTT
59555081 TT
1 TT
59555083 GAACTACTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.46, C:0.04, G:0.15, T:0.35
Consensus pattern (22 bp):
TTAATAGATGAAAGAAAATCTT
Found at i:59561250 original size:19 final size:19
Alignment explanation
Indices: 59561226--59561264 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
59561216 CAAACTGAGA
59561226 TCTACAATATGATGATGCC
1 TCTACAATATGATGATGCC
59561245 TCTACAATATGATGATGCC
1 TCTACAATATGATGATGCC
59561264 T
1 T
59561265 ATTTGTACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.33
Consensus pattern (19 bp):
TCTACAATATGATGATGCC
Done.