Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 276 of 290
Found at i:95350766 original size:26 final size:26
Alignment explanation
Indices: 95350703--95350767 Score: 67
Period size: 26 Copynumber: 2.5 Consensus size: 26
95350693 TTTAGCCTTT
* * *
95350703 ATACCGATTACTGGCAGCTTTGTTGCG
1 ATACCGA-TATTGCCAGCTTTGCTGCG
* *
95350730 GTACCGTTATTGCCAGCTTTGCTGCG
1 ATACCGATATTGCCAGCTTTGCTGCG
*
95350756 ATACTGATATTG
1 ATACCGATATTG
95350768 GTGTGTCTGG
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
26 25 0.83
27 5 0.17
ACGTcount: A:0.18, C:0.22, G:0.25, T:0.35
Consensus pattern (26 bp):
ATACCGATATTGCCAGCTTTGCTGCG
Found at i:95351525 original size:42 final size:42
Alignment explanation
Indices: 95351443--95351563 Score: 154
Period size: 42 Copynumber: 2.8 Consensus size: 42
95351433 GGGTGTGACA
95351443 ACATTGGCATCG-ACTTATGATTTACATGTAAGACCATGTCTGGG
1 ACATTGGCATCGTA-TT-TGATTT-CATGTAAGACCATGTCTGGG
*
95351487 ACATTGGCATCGTATTTGATTTCATGTAAGACCCTGTCTGGG
1 ACATTGGCATCGTATTTGATTTCATGTAAGACCATGTCTGGG
* * * *
95351529 ATAGTGGCATTGATATTTGATTGCATGTAAGACCA
1 ACATTGGCATCG-TATTTGATTTCATGTAAGACCA
95351564 CTTCTACGAC
Statistics
Matches: 69, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
42 28 0.41
43 26 0.38
44 14 0.20
45 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (42 bp):
ACATTGGCATCGTATTTGATTTCATGTAAGACCATGTCTGGG
Found at i:95351580 original size:43 final size:43
Alignment explanation
Indices: 95351467--95351585 Score: 138
Period size: 43 Copynumber: 2.8 Consensus size: 43
95351457 TTATGATTTA
* * *
95351467 CATGTAAGACCA-TGTCTGGGACATTGGCATCGTATTTGATTT
1 CATGTAAGACCACTGTCTGGGACGTTGGCATTGTATTTGATTG
*
95351509 CATGTAAGACC-CTGTCTGGGATAG-TGGCATTGATATTTGATTG
1 CATGTAAGACCACTGTCTGGGA-CGTTGGCATTG-TATTTGATTG
**
95351552 CATGTAAGACCACT-TCTACGACGTTGGCATTGTA
1 CATGTAAGACCACTGTCTGGGACGTTGGCATTGTA
95351586 CTAGCTTTCT
Statistics
Matches: 65, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
42 30 0.46
43 33 0.51
44 2 0.03
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (43 bp):
CATGTAAGACCACTGTCTGGGACGTTGGCATTGTATTTGATTG
Found at i:95353326 original size:14 final size:14
Alignment explanation
Indices: 95353307--95353334 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
95353297 ATCGGCTACA
95353307 AGTGGCCATTATGG
1 AGTGGCCATTATGG
95353321 AGTGGCCATTATGG
1 AGTGGCCATTATGG
95353335 CCTTCTATCA
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:0.21, C:0.14, G:0.36, T:0.29
Consensus pattern (14 bp):
AGTGGCCATTATGG
Found at i:95357918 original size:54 final size:53
Alignment explanation
Indices: 95357785--95358259 Score: 510
Period size: 54 Copynumber: 8.8 Consensus size: 53
95357775 TAATAAAGAG
*
95357785 AAATTACTGAAATACCCTCGATTTGTAAAATTATCGAAATATCCTCGATTATG--
1 AAATTA-TGAAATACCCTCGATTTGTAAAATTATCGAAATACCCTCGATT-TGTA
* *
95357838 AAATTACTGAAATACCCTCAATTTGTAAAATTATCGAAATACCCTCGATTTGTG
1 AAATTA-TGAAATACCCTCGATTTGTAAAATTATCGAAATACCCTCGATTTGTA
* * * * * *
95357892 AAATTATAGAAACACCCTCAATTTGTAAAATTATCAAAATACCATTGATTTGTG
1 AAATTAT-GAAATACCCTCGATTTGTAAAATTATCGAAATACCCTCGATTTGTA
* * * *
95357946 TAATTATTGAAACACCCTTGATTTGTAAAATTATCGAAATACCCTCGATTTTTA
1 AAATTA-TGAAATACCCTCGATTTGTAAAATTATCGAAATACCCTCGATTTGTA
* *
95358000 AAATTACTGAAATACCCTCGA-TTGTGAAATTATCGAAATACCCTCGATTTGAA
1 AAATTA-TGAAATACCCTCGATTTGTAAAATTATCGAAATACCCTCGATTTGTA
* * * * * * *
95358053 AAATTACCGACATAGCCTTGATTTGTGAAATTATCGAAACACCCTCAATTTGTA
1 AAATTA-TGAAATACCCTCGATTTGTAAAATTATCGAAATACCCTCGATTTGTA
* * *
95358107 AAATTATCAAAACACCCTCGATTTGTAAAATTA-CTAAAATACCCTCGATTTGTA
1 AAATTAT-GAAATACCCTCGATTTGTAAAATTATC-GAAATACCCTCGATTTGTA
* * * * *
95358161 AAATTACCGAAATAACCTCAATTTGTAAAATTACCGAAATACCCTCAATTTGTA
1 AAATTA-TGAAATACCCTCGATTTGTAAAATTATCGAAATACCCTCGATTTGTA
** *
95358215 AAATTACCAAAAAACCC-CTGATTTGTAAAATTATCGAAATACCCT
1 AAATTA-TGAAATACCCTC-GATTTGTAAAATTATCGAAATACCCT
95358260 TGTAGTGTAA
Statistics
Matches: 362, Mismatches: 50, Indels: 19
0.84 0.12 0.04
Matches are distributed among these distances:
52 2 0.01
53 97 0.27
54 261 0.72
55 2 0.01
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (53 bp):
AAATTATGAAATACCCTCGATTTGTAAAATTATCGAAATACCCTCGATTTGTA
Found at i:95358268 original size:27 final size:27
Alignment explanation
Indices: 95357785--95358284 Score: 458
Period size: 27 Copynumber: 18.6 Consensus size: 27
95357775 TAATAAAGAG
*
95357785 AAATTA-CTGAAATACCCTCGATTTGTA
1 AAATTATC-GAAATACCCTTGATTTGTA
* *
95357812 AAATTATCGAAATATCCTCGATTATG--
1 AAATTATCGAAATACCCTTGATT-TGTA
**
95357838 AAATTA-CTGAAATACCCTCAATTTGTA
1 AAATTATC-GAAATACCCTTGATTTGTA
* *
95357865 AAATTATCGAAATACCCTCGATTTGTG
1 AAATTATCGAAATACCCTTGATTTGTA
* * **
95357892 AAATTATAGAAACACCCTCAATTTGTA
1 AAATTATCGAAATACCCTTGATTTGTA
* * *
95357919 AAATTATCAAAATACCATTGATTTGTG
1 AAATTATCGAAATACCCTTGATTTGTA
* * *
95357946 TAATTATTGAAACACCCTTGATTTGTA
1 AAATTATCGAAATACCCTTGATTTGTA
* *
95357973 AAATTATCGAAATACCCTCGATTTTTA
1 AAATTATCGAAATACCCTTGATTTGTA
* *
95358000 AAATTA-CTGAAATACCCTCGA-TTGTG
1 AAATTATC-GAAATACCCTTGATTTGTA
* *
95358026 AAATTATCGAAATACCCTCGATTTGAA
1 AAATTATCGAAATACCCTTGATTTGTA
* * * *
95358053 AAATTACCGACATAGCCTTGATTTGTG
1 AAATTATCGAAATACCCTTGATTTGTA
* **
95358080 AAATTATCGAAACACCCTCAATTTGTA
1 AAATTATCGAAATACCCTTGATTTGTA
* * *
95358107 AAATTATCAAAACACCCTCGATTTGTA
1 AAATTATCGAAATACCCTTGATTTGTA
* *
95358134 AAATTA-CTAAAATACCCTCGATTTGTA
1 AAATTATC-GAAATACCCTTGATTTGTA
* * **
95358161 AAATTACCGAAATAACCTCAATTTGTA
1 AAATTATCGAAATACCCTTGATTTGTA
* **
95358188 AAATTACCGAAATACCCTCAATTTGTA
1 AAATTATCGAAATACCCTTGATTTGTA
* * * *
95358215 AAATTACCAAAAAACCCCTGATTTGTA
1 AAATTATCGAAATACCCTTGATTTGTA
*
95358242 AAATTATCGAAATACCCTTG-TAGTGTA
1 AAATTATCGAAATACCCTTGAT-TTGTA
*
95358269 AAATTACCGAAATACC
1 AAATTATCGAAATACC
95358285 TTTGTAGTGT
Statistics
Matches: 399, Mismatches: 62, Indels: 24
0.82 0.13 0.05
Matches are distributed among these distances:
25 3 0.01
26 44 0.11
27 347 0.87
28 5 0.01
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (27 bp):
AAATTATCGAAATACCCTTGATTTGTA
Found at i:95358284 original size:81 final size:81
Alignment explanation
Indices: 95357785--95358259 Score: 532
Period size: 81 Copynumber: 5.9 Consensus size: 81
95357775 TAATAAAGAG
* *
95357785 AAATTA-CTGAAATACCCTCGATTTGTAAAATTATCGAAATATCCTCGATTATG--AAATTA-CT
1 AAATTATC-GAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATT-TGTAAAATTATC-
95357846 GAAATACCCTCAATTTGTA
63 GAAATACCCTCAATTTGTA
* ** * * *
95357865 AAATTATCGAAATACCCTCGATTTGTGAAATTATAGAAACACCCTCAATTTGTAAAATTATCAAA
1 AAATTATCGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTATCGAA
* ** *
95357930 ATACCATTGATTTGTG
66 ATACCCTCAATTTGTA
* * * * * *
95357946 TAATTATTGAAACACCCTTGATTTGTAAAATTATCGAAATACCCTCGATTTTTAAAATTA-CTGA
1 AAATTATCGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTATC-GA
* *
95358010 AATACCCTCGA-TTGTG
65 AATACCCTCAATTTGTA
* * * * *
95358026 AAATTATCGAAATACCCTCGATTTGAAAAATTACCGACATAGCCTTGATTTGTGAAATTATCGAA
1 AAATTATCGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTATCGAA
*
95358091 ACACCCTCAATTTGTA
66 ATACCCTCAATTTGTA
* * ** *
95358107 AAATTATCAAAACACCCTCGATTTGTAAAATTACTAAAATACCCTCGATTTGTAAAATTACCGAA
1 AAATTATCGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTATCGAA
*
95358172 ATAACCTCAATTTGTA
66 ATACCCTCAATTTGTA
* * * *
95358188 AAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAAAACCC-CTGATTTGTAAAATTATCGA
1 AAATTATCGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTC-GATTTGTAAAATTATCGA
95358252 AATACCCT
65 AATACCCT
95358260 TGTAGTGTAA
Statistics
Matches: 331, Mismatches: 56, Indels: 15
0.82 0.14 0.04
Matches are distributed among these distances:
79 2 0.01
80 110 0.33
81 218 0.66
82 1 0.00
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (81 bp):
AAATTATCGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTATCGAA
ATACCCTCAATTTGTA
Found at i:95361585 original size:38 final size:38
Alignment explanation
Indices: 95361517--95361720 Score: 264
Period size: 38 Copynumber: 5.4 Consensus size: 38
95361507 AAAGGCTCGA
* * * *
95361517 ATATAGTACCAGCACTAGGCCTACGGGATTTAACCCGG
1 ATATAATACCAGCACAAAGCCTGCGGGATTTAACCCGG
* *
95361555 ATACAATACCAGCACAAAGCCTGCGTGATTTAACCCGG
1 ATATAATACCAGCACAAAGCCTGCGGGATTTAACCCGG
* * * *
95361593 ATATATTACCAGCACGAAGCCTGCGGGATTTATCCTGG
1 ATATAATACCAGCACAAAGCCTGCGGGATTTAACCCGG
* *
95361631 ATATAATACCAGCACGAAGCCTGCGGAATTTAACCCGG
1 ATATAATACCAGCACAAAGCCTGCGGGATTTAACCCGG
* * *
95361669 ATATATTACCAGCACAAAGCCTGCGGGATTTATCCTGG
1 ATATAATACCAGCACAAAGCCTGCGGGATTTAACCCGG
*
95361707 ATATAATTCCAGCA
1 ATATAATACCAGCA
95361721 TATAGCCTAC
Statistics
Matches: 143, Mismatches: 23, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 143 1.00
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.23
Consensus pattern (38 bp):
ATATAATACCAGCACAAAGCCTGCGGGATTTAACCCGG
Found at i:95361643 original size:76 final size:76
Alignment explanation
Indices: 95361517--95361720 Score: 302
Period size: 76 Copynumber: 2.7 Consensus size: 76
95361507 AAAGGCTCGA
* * * * * * *
95361517 ATATAGTACCAGCACTAGGCCTACGGGATTTAACCCGGATACAATACCAGCACAAAGCCTGCGTG
1 ATATATTACCAGCACAAAGCCTGCGGGATTTATCCTGGATATAATACCAGCACAAAGCCTGCG-G
95361582 -ATTTAACCCGG
65 AATTTAACCCGG
* *
95361593 ATATATTACCAGCACGAAGCCTGCGGGATTTATCCTGGATATAATACCAGCACGAAGCCTGCGGA
1 ATATATTACCAGCACAAAGCCTGCGGGATTTATCCTGGATATAATACCAGCACAAAGCCTGCGGA
95361658 ATTTAACCCGG
66 ATTTAACCCGG
*
95361669 ATATATTACCAGCACAAAGCCTGCGGGATTTATCCTGGATATAATTCCAGCA
1 ATATATTACCAGCACAAAGCCTGCGGGATTTATCCTGGATATAATACCAGCA
95361721 TATAGCCTAC
Statistics
Matches: 117, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
75 1 0.01
76 116 0.99
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.23
Consensus pattern (76 bp):
ATATATTACCAGCACAAAGCCTGCGGGATTTATCCTGGATATAATACCAGCACAAAGCCTGCGGA
ATTTAACCCGG
Found at i:95361728 original size:114 final size:114
Alignment explanation
Indices: 95361517--95361733 Score: 294
Period size: 114 Copynumber: 1.9 Consensus size: 114
95361507 AAAGGCTCGA
* * * * *
95361517 ATATAGTACCAGCACTAGGCCTACGGGATTTAACCCGGATACAATACCAGCACAAAGCCTGCGTG
1 ATATAATACCAGCACGAAGCCTACGGAATTTAACCCGGATACAATACCAGCACAAAGCCTGCGGG
*
95361582 ATTTAACCCGGATATATTACCAGCACGAAGCCTGCGGGATTTATCCTGG
66 ATTTAACCCGGATATATTACCAGCACGAAGCCTACGGGATTTATCCTGG
* * *
95361631 ATATAATACCAGCACGAAGCCTGCGGAATTTAACCCGGATATATTACCAGCACAAAGCCTGCGGG
1 ATATAATACCAGCACGAAGCCTACGGAATTTAACCCGGATACAATACCAGCACAAAGCCTGCGGG
* * *
95361696 ATTTATCCTGGATATAATT-CCAGCA-TATAGCCTACGGG
66 ATTTAACCCGGATAT-ATTACCAGCACGA-AGCCTACGGG
95361734 TCTTTAAGCC
Statistics
Matches: 89, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
113 1 0.01
114 85 0.96
115 3 0.03
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.23
Consensus pattern (114 bp):
ATATAATACCAGCACGAAGCCTACGGAATTTAACCCGGATACAATACCAGCACAAAGCCTGCGGG
ATTTAACCCGGATATATTACCAGCACGAAGCCTACGGGATTTATCCTGG
Found at i:95366279 original size:221 final size:222
Alignment explanation
Indices: 95365896--95366338 Score: 861
Period size: 221 Copynumber: 2.0 Consensus size: 222
95365886 ACACTAGCAC
95365896 TCACTGGGTTGTGCCGATGCCTATCCCAGATAGGTCTTACGCTTAGCATAAGTTAAGCTGATGCC
1 TCACTGGGTTGTGCCGATGCCTATCCCAGATAGGTCTTACGCTTAGCATAAGTTAAGCTGATGCC
95365961 ACGTCCCCGATGGGTCTTACACTAGTTCATCTGTCTCATGTATTGCCACGGTCCAACCATGGTCT
66 ACGTCCCCGATGGGTCTTACACTAGTTCATCTGTCTCATGTATTGCCACGGTCCAACCATGGTCT
95366026 TTTCCGTCAATTCATTAGTGAACGATCGTACTCATTCCCTTTCAATTCCGTCATATCAC-AATAT
131 TTTCCGTCAATTCATTAGTGAACGATCGTACTCATTCCCTTTCAATTCCGTCATATCACAAATAT
*
95366090 ATCACAATCAGTTCAATAGCATTTTCG
196 ATCACAATCAGTTCAATAGCATATTCG
95366117 TCACTGGGTTGTGCCGATGCCTATCCCAGATAGGTCTTACGCTTAGCATAAGTTAAGCTGATGCC
1 TCACTGGGTTGTGCCGATGCCTATCCCAGATAGGTCTTACGCTTAGCATAAGTTAAGCTGATGCC
*
95366182 ACGTCCCCGATGGGTCTTACACTAGTTCATCTGTCTCATGTATTGCCACGGTCCAATCATGGTCT
66 ACGTCCCCGATGGGTCTTACACTAGTTCATCTGTCTCATGTATTGCCACGGTCCAACCATGGTCT
95366247 TTTCCGTCAATTCATTAGTGAACGATCGTACTCATTCCCTTTCAATTCCGTCATATCACAAATAT
131 TTTCCGTCAATTCATTAGTGAACGATCGTACTCATTCCCTTTCAATTCCGTCATATCACAAATAT
95366312 ATCACAATCAGTTCAATAGCATATTCG
196 ATCACAATCAGTTCAATAGCATATTCG
95366339 GATCAATTTA
Statistics
Matches: 219, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
221 188 0.86
222 31 0.14
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.33
Consensus pattern (222 bp):
TCACTGGGTTGTGCCGATGCCTATCCCAGATAGGTCTTACGCTTAGCATAAGTTAAGCTGATGCC
ACGTCCCCGATGGGTCTTACACTAGTTCATCTGTCTCATGTATTGCCACGGTCCAACCATGGTCT
TTTCCGTCAATTCATTAGTGAACGATCGTACTCATTCCCTTTCAATTCCGTCATATCACAAATAT
ATCACAATCAGTTCAATAGCATATTCG
Found at i:95366888 original size:38 final size:38
Alignment explanation
Indices: 95366837--95366909 Score: 146
Period size: 38 Copynumber: 1.9 Consensus size: 38
95366827 AAGTAACTGG
95366837 AGCCAACATAAGTCAATTTACATAGCCAAAACACTACT
1 AGCCAACATAAGTCAATTTACATAGCCAAAACACTACT
95366875 AGCCAACATAAGTCAATTTACATAGCCAAAACACT
1 AGCCAACATAAGTCAATTTACATAGCCAAAACACT
95366910 TTATCAATAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.45, C:0.26, G:0.08, T:0.21
Consensus pattern (38 bp):
AGCCAACATAAGTCAATTTACATAGCCAAAACACTACT
Found at i:95367044 original size:241 final size:241
Alignment explanation
Indices: 95366621--95367085 Score: 878
Period size: 241 Copynumber: 1.9 Consensus size: 241
95366611 CTTACAAGGC
*
95366621 CCAAAACATCACTAGCCAACATAAGTCAATTTACATATCCAAAACACTTTATCAATACAAGCCAC
1 CCAAAACATCACTAGCCAACATAAGTCAATTTACATAGCCAAAACACTTTATCAATACAAGCCAC
95366686 CACCTTTCGCTAACTTATAGTATCACATACTCAACATTTAAAACCCTATACATGCCATAGACTCG
66 CACCTTTCGCTAACTTATAGTATCACATACTCAACATTTAAAACCCTATACATGCCATAGACTCG
* *
95366751 AAATACTAGGATTTACTTACACCAATAGCGTGAGCTCGATAGTGTGATAATATCTCCGGCGAACT
131 AAATACTAGGATTTACTTACACCAATAGCGTGAGCTCGACAGTGTGATAATATCTCCGGCAAACT
95366816 CCAATCCGAGCAAGTAACTGGAGCCAACATAAGTCAATTTACATAG
196 CCAATCCGAGCAAGTAACTGGAGCCAACATAAGTCAATTTACATAG
95366862 CCAAAACA-CTACTAGCCAACATAAGTCAATTTACATAGCCAAAACACTTTATCAATACAAGCCA
1 CCAAAACATC-ACTAGCCAACATAAGTCAATTTACATAGCCAAAACACTTTATCAATACAAGCCA
95366926 CCACCTTTCGCTAACTTATAGTATCACATACTCAACATTTAAAACCCTATACATGCCATAGACTC
65 CCACCTTTCGCTAACTTATAGTATCACATACTCAACATTTAAAACCCTATACATGCCATAGACTC
95366991 GAAATACTAGGATTTACTTACACCAATAGCGTGAGCTCGACAGTGTGATAATATCTCCGGCAAAC
130 GAAATACTAGGATTTACTTACACCAATAGCGTGAGCTCGACAGTGTGATAATATCTCCGGCAAAC
*
95367056 TCCTATCCGAGCAAGTAACTGGAGCCAACA
195 TCCAATCCGAGCAAGTAACTGGAGCCAACA
95367086 ATCTATAAAA
Statistics
Matches: 219, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
240 1 0.00
241 218 1.00
ACGTcount: A:0.37, C:0.26, G:0.12, T:0.24
Consensus pattern (241 bp):
CCAAAACATCACTAGCCAACATAAGTCAATTTACATAGCCAAAACACTTTATCAATACAAGCCAC
CACCTTTCGCTAACTTATAGTATCACATACTCAACATTTAAAACCCTATACATGCCATAGACTCG
AAATACTAGGATTTACTTACACCAATAGCGTGAGCTCGACAGTGTGATAATATCTCCGGCAAACT
CCAATCCGAGCAAGTAACTGGAGCCAACATAAGTCAATTTACATAG
Found at i:95368092 original size:38 final size:38
Alignment explanation
Indices: 95367952--95368084 Score: 212
Period size: 38 Copynumber: 3.5 Consensus size: 38
95367942 GGCTCAAAGG
* * * *
95367952 CCCGAATATAATACCAGCACTAGGCCTACGGGATTTAA
1 CCCGGATATAATACCAGCACAAAGCCTGCGGGATTTAA
95367990 CCCGGATATAATACCAGCACAAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACAAAGCCTGCGGGATTTAA
* *
95368028 CCCGGATATATTACCAGCGCAAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACAAAGCCTGCGGGATTTAA
95368066 CCCGGATATAATACCAGCA
1 CCCGGATATAATACCAGCA
95368085 TATAGCCTAC
Statistics
Matches: 87, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 87 1.00
ACGTcount: A:0.33, C:0.27, G:0.20, T:0.20
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACAAAGCCTGCGGGATTTAA
Found at i:95375772 original size:15 final size:15
Alignment explanation
Indices: 95375725--95375780 Score: 71
Period size: 15 Copynumber: 3.7 Consensus size: 15
95375715 CAAGAAAACT
95375725 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
*
95375740 -AGATAGAA-AAACCCA
1 GA-ATA-AAGAAATCCA
95375755 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
95375770 GAATAAAGAAA
1 GAATAAAGAAA
95375781 CCCAATATAC
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
14 3 0.09
15 29 0.83
16 3 0.09
ACGTcount: A:0.62, C:0.12, G:0.14, T:0.11
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:95378802 original size:50 final size:49
Alignment explanation
Indices: 95378697--95378824 Score: 177
Period size: 50 Copynumber: 2.6 Consensus size: 49
95378687 GGTACGGATT
* * * * *
95378697 GTAGACTGCACTTAGTACTACACATGCGACCAACAGTCTAGTACACGTA
1 GTAGCCTGAACTTAGTACTACACACGTGACCAACAGTCTAATACACGTA
*
95378746 GTAGCCTGAACTTAGTACTACACACGTGACCTCACCA-TCTAATACACGTA
1 GTAGCCTGAACTTAGTACTACACACGTGA-C-CAACAGTCTAATACACGTA
95378796 GTAGCCTGAACTTAGTACTACACACGTGA
1 GTAGCCTGAACTTAGTACTACACACGTGA
95378825 TCATAGTTTT
Statistics
Matches: 71, Mismatches: 6, Indels: 3
0.89 0.08 0.04
Matches are distributed among these distances:
49 25 0.35
50 42 0.59
51 4 0.06
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.23
Consensus pattern (49 bp):
GTAGCCTGAACTTAGTACTACACACGTGACCAACAGTCTAATACACGTA
Found at i:95382371 original size:43 final size:44
Alignment explanation
Indices: 95382311--95382445 Score: 129
Period size: 43 Copynumber: 3.1 Consensus size: 44
95382301 TCTGGGATAT
* * *
95382311 TGGCATCGACT-TATGATTTACGTGTAAAACCATGTTTAGGA-TG
1 TGGCATCGA-TATTTGATTTACATGTAAGACCATGTTTAGGACTG
* * *
95382354 TTGGCATC-ATATTTGATTT-CATGTAAGACCTTGTATGGGACTG
1 -TGGCATCGATATTTGATTTACATGTAAGACCATGTTTAGGACTG
* *
95382397 TGGCATCGATATTTGA-TTACATGTAAGACCACGTTTGGGACAT-
1 TGGCATCGATATTTGATTTACATGTAAGACCATGTTTAGGAC-TG
95382440 TGGCAT
1 TGGCAT
95382446 TGTACGAGCT
Statistics
Matches: 77, Mismatches: 9, Indels: 11
0.79 0.09 0.11
Matches are distributed among these distances:
42 26 0.34
43 43 0.56
44 8 0.10
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.36
Consensus pattern (44 bp):
TGGCATCGATATTTGATTTACATGTAAGACCATGTTTAGGACTG
Found at i:95392799 original size:47 final size:47
Alignment explanation
Indices: 95392745--95392962 Score: 400
Period size: 47 Copynumber: 4.6 Consensus size: 47
95392735 ATTCTTATTA
* * *
95392745 TTTCACATTCATCACATCAGCCATTAGGCTTTATCGCATATATACAC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
95392792 TTTCACATTCATCACATCGGCCATTAGGCCTTATCTCATATATACAC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
95392839 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
95392886 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
95392933 TTTCACATTCATCACATCGGCCATTAGGCC
1 TTTCACATTCATCACATCGGCCATTAGGCC
95392963 ATACTATCAT
Statistics
Matches: 167, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 167 1.00
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
Found at i:95396691 original size:40 final size:40
Alignment explanation
Indices: 95396659--95396890 Score: 365
Period size: 40 Copynumber: 5.8 Consensus size: 40
95396649 CCAGCATGAT
* * * * *
95396659 TGCTCTTCGGGACCTAGCCCGGACATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
** * *
95396699 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
95396739 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
95396779 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
95396819 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
95396859 TGCTCTTCGGGACTTAGCCCGGATACATCACT
1 TGCTCTTCGGGACTTAGCCCGGATACATCACT
95396891 CTTAATTCTC
Statistics
Matches: 177, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 177 1.00
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.23
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:95398295 original size:8 final size:8
Alignment explanation
Indices: 95398278--95398322 Score: 54
Period size: 8 Copynumber: 5.6 Consensus size: 8
95398268 TTGCAGTCCA
*
95398278 CTTTTCGG
1 CTTTTTGG
95398286 CTTTTTGG
1 CTTTTTGG
*
95398294 CTTTTTGC
1 CTTTTTGG
*
95398302 CTTTTCGG
1 CTTTTTGG
*
95398310 CTTTTTAG
1 CTTTTTGG
95398318 CTTTT
1 CTTTT
95398323 GTCGTTCCCC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
8 31 1.00
ACGTcount: A:0.02, C:0.20, G:0.18, T:0.60
Consensus pattern (8 bp):
CTTTTTGG
Found at i:95401567 original size:29 final size:29
Alignment explanation
Indices: 95401525--95401582 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
95401515 AGATTCATTT
95401525 ACTTACAATGTTTCCTTTATAAGAAACTA
1 ACTTACAATGTTTCCTTTATAAGAAACTA
95401554 ACTTACAATGTTTCCTTTATAAGAAACTA
1 ACTTACAATGTTTCCTTTATAAGAAACTA
95401583 CACTCAATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.38, C:0.17, G:0.07, T:0.38
Consensus pattern (29 bp):
ACTTACAATGTTTCCTTTATAAGAAACTA
Found at i:95406577 original size:30 final size:30
Alignment explanation
Indices: 95406542--95406627 Score: 75
Period size: 30 Copynumber: 2.9 Consensus size: 30
95406532 TAGAAATGGT
*
95406542 AAGAAAACCAAGATAAAGAAATCCAAAATG
1 AAGAAAACCAAGATAAAGAAATCCAAAATA
* * * *
95406572 CAG-AAACCTAGAATAAAGAGATTCAAAATA
1 AAGAAAACCAAG-ATAAAGAAATCCAAAATA
* * * *
95406602 AAGAGATCTAAGATAGAGAAATCCAA
1 AAGAAAACCAAGATAAAGAAATCCAA
95406628 GTTACAATAC
Statistics
Matches: 41, Mismatches: 13, Indels: 4
0.71 0.22 0.07
Matches are distributed among these distances:
29 7 0.17
30 30 0.73
31 4 0.10
ACGTcount: A:0.58, C:0.13, G:0.15, T:0.14
Consensus pattern (30 bp):
AAGAAAACCAAGATAAAGAAATCCAAAATA
Found at i:95415641 original size:20 final size:21
Alignment explanation
Indices: 95415616--95415655 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
95415606 CTCTTTGTGT
*
95415616 ATTCAGTATTA-AAAAAAAAA
1 ATTCAGAATTAGAAAAAAAAA
95415636 ATTCAGAATTAGAAAAAAAA
1 ATTCAGAATTAGAAAAAAAA
95415656 GTGAAGTGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.65, C:0.05, G:0.07, T:0.23
Consensus pattern (21 bp):
ATTCAGAATTAGAAAAAAAAA
Found at i:95417701 original size:15 final size:14
Alignment explanation
Indices: 95417665--95417719 Score: 65
Period size: 15 Copynumber: 3.8 Consensus size: 14
95417655 TCTATTGATC
95417665 GAGAAAAAGAAAAA
1 GAGAAAAAGAAAAA
*
95417679 GAGAAAAACAAAAA
1 GAGAAAAAGAAAAA
*
95417693 GAGTGAAAAGAAAAA
1 GAG-AAAAAGAAAAA
*
95417708 GAAAGAAAAGAA
1 GAGA-AAAAGAA
95417720 TGAGGAGAGT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
14 16 0.47
15 18 0.53
ACGTcount: A:0.75, C:0.02, G:0.22, T:0.02
Consensus pattern (14 bp):
GAGAAAAAGAAAAA
Found at i:95422062 original size:15 final size:14
Alignment explanation
Indices: 95422026--95422080 Score: 65
Period size: 15 Copynumber: 3.8 Consensus size: 14
95422016 TCTATTGATC
95422026 GAGAAAAAGAAAAA
1 GAGAAAAAGAAAAA
*
95422040 GAGAAAAACAAAAA
1 GAGAAAAAGAAAAA
*
95422054 GAGTGAAAAGAAAAA
1 GAG-AAAAAGAAAAA
*
95422069 GAAAGAAAAGAA
1 GAGA-AAAAGAA
95422081 TGAGGAGAGT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
14 16 0.47
15 18 0.53
ACGTcount: A:0.75, C:0.02, G:0.22, T:0.02
Consensus pattern (14 bp):
GAGAAAAAGAAAAA
Found at i:95441762 original size:16 final size:15
Alignment explanation
Indices: 95441741--95441772 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
95441731 GATACTGAAG
95441741 TAGCTTCGGCTATAAA
1 TAGCTTCGGCTA-AAA
95441757 TAGCTTCGGCTAAAA
1 TAGCTTCGGCTAAAA
95441772 T
1 T
95441773 CATTTTAGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (15 bp):
TAGCTTCGGCTAAAA
Found at i:95444819 original size:27 final size:27
Alignment explanation
Indices: 95444799--95445106 Score: 326
Period size: 27 Copynumber: 11.6 Consensus size: 27
95444789 ACATACGAGT
95444799 AAAACAATCATTTTACCACATAAGGGC
1 AAAACAATCATTTTACCACATAAGGGC
* ** *
95444826 AAAACAGTCCCTTTACCTCATAAGGGC
1 AAAACAATCATTTTACCACATAAGGGC
*
95444853 AAAACAATCATTTTACC-CTATAAGGGG
1 AAAACAATCATTTTACCAC-ATAAGGGC
* *
95444880 AAAA-AAGTCATTTTACCCCATAAGGAC
1 AAAACAA-TCATTTTACCACATAAGGGC
* * *
95444907 AAAACAGTCATTTTACCTCATAAGGGT
1 AAAACAATCATTTTACCACATAAGGGC
* *
95444934 AAAAAAATCATTTTACCCCATAAGGGC
1 AAAACAATCATTTTACCACATAAGGGC
*
95444961 AAAACATTCATTTTA-CACCAT-A----
1 AAAACAATCATTTTACCA-CATAAGGGC
* *
95444983 AAAACATTCATTTTACCACATAAAGGC
1 AAAACAATCATTTTACCACATAAGGGC
* *
95445010 AAAACAGTCATTTTACCCCATAAGGGC
1 AAAACAATCATTTTACCACATAAGGGC
* *
95445037 ATAACAATCATTTTACCTCATAAGGGC
1 AAAACAATCATTTTACCACATAAGGGC
*
95445064 AAAACAATCATTTTACCTCCATAAGGGC
1 AAAACAATCATTTTACC-ACATAAGGGC
* *
95445092 AAAATAGTCATTTTA
1 AAAACAATCATTTTA
95445107 TCGATTAAGG
Statistics
Matches: 238, Mismatches: 31, Indels: 23
0.82 0.11 0.08
Matches are distributed among these distances:
22 18 0.08
23 3 0.01
26 5 0.02
27 188 0.79
28 24 0.10
ACGTcount: A:0.41, C:0.22, G:0.11, T:0.26
Consensus pattern (27 bp):
AAAACAATCATTTTACCACATAAGGGC
Found at i:95444986 original size:22 final size:22
Alignment explanation
Indices: 95444961--95445006 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
95444951 CCATAAGGGC
95444961 AAAACATTCATTTTA-CACCATA
1 AAAACATTCATTTTACCA-CATA
95444983 AAAACATTCATTTTACCACATA
1 AAAACATTCATTTTACCACATA
95445005 AA
1 AA
95445007 GGCAAAACAG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 21 0.91
23 2 0.09
ACGTcount: A:0.48, C:0.22, G:0.00, T:0.30
Consensus pattern (22 bp):
AAAACATTCATTTTACCACATA
Found at i:95445474 original size:47 final size:47
Alignment explanation
Indices: 95445400--95445494 Score: 145
Period size: 47 Copynumber: 2.0 Consensus size: 47
95445390 AACGGCCCAA
* * *
95445400 AACGGCCTCGGCCCATGAAATCTCTCATGGATGGCCTCAACGTTCTT
1 AACGGCCTCGACCCATGAAATCGCTCATGGATGGACTCAACGTTCTT
* *
95445447 AACGGGCTCGACCCATGAAATCGCTCATGGATGGACTCAATGTTCTT
1 AACGGCCTCGACCCATGAAATCGCTCATGGATGGACTCAACGTTCTT
95445494 A
1 A
95445495 CACCCATGTT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.25
Consensus pattern (47 bp):
AACGGCCTCGACCCATGAAATCGCTCATGGATGGACTCAACGTTCTT
Found at i:95450717 original size:85 final size:84
Alignment explanation
Indices: 95450574--95450780 Score: 292
Period size: 85 Copynumber: 2.5 Consensus size: 84
95450564 CGTGTGATGG
* * * *
95450574 ACACGGCCTAGCACATGGGCGTGTGCCTTGGACGTGTGACATTTTAGGGGTGCTGATGTCAGAAA
1 ACACGGGCTAGGACACGGGCGTGTGCC-TGGCCGTGTGACATTTTAGGGGTGCTGATGTCAGAAA
* *
95450639 TAGAATGTCCATGTTTTTGT
65 CAGAATGTCAATGTTTTTGT
*
95450659 ACACGGGCTAGGACACGGGCGTGTGCCTGGGCCGTGTGACATTTT-GGGGATGCTGATGTTAGAA
1 ACACGGGCTAGGACACGGGCGTGTGCCT-GGCCGTGTGACATTTTAGGGG-TGCTGATGTCAGAA
95450723 ACAGAATGTCAATGTTTTTGT
64 ACAGAATGTCAATGTTTTTGT
* *
95450744 ACACGGGCTAAGACACGGGCGTGT-CATGGCCGTGTGA
1 ACACGGGCTAGGACACGGGCGTGTGCCTGGCCGTGTGA
95450781 GCGACACAAG
Statistics
Matches: 111, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
83 10 0.09
84 7 0.06
85 94 0.85
ACGTcount: A:0.21, C:0.18, G:0.33, T:0.27
Consensus pattern (84 bp):
ACACGGGCTAGGACACGGGCGTGTGCCTGGCCGTGTGACATTTTAGGGGTGCTGATGTCAGAAAC
AGAATGTCAATGTTTTTGT
Found at i:95458272 original size:49 final size:50
Alignment explanation
Indices: 95458200--95458424 Score: 269
Period size: 49 Copynumber: 4.5 Consensus size: 50
95458190 TGAGGTCACG
95458200 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTCGCA
* * * * * *
95458249 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCA-ATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT-AGGTCGCA
** * ** *
95458300 TGTGTAGTACTAAGTGCAGGCTGTTACGTGTATCAGATGGTTAGGT-GACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTCG-CA
* *
95458350 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT-GGTCGTA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTCGCA
95458399 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
95458425 TGAATACCAG
Statistics
Matches: 146, Mismatches: 24, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
49 67 0.46
50 44 0.30
51 35 0.24
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTCGCA
Found at i:95460661 original size:46 final size:46
Alignment explanation
Indices: 95460514--95460666 Score: 148
Period size: 46 Copynumber: 3.3 Consensus size: 46
95460504 ATTGTGAGCT
* * * * *
95460514 AGTGTAAGACATGTCTGGGACAAGCATCAACCAC-ATTATGTGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGA-GATGTAAGCC
* * * * * *
95460560 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACG-AGTGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCTCGAGATGTA-AGCC
*
95460608 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATGTAAACC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATGTAAGCC
95460654 AGTGTAAGACATG
1 AGTGTAAGACATG
95460667 CATCGGCTAC
Statistics
Matches: 84, Mismatches: 18, Indels: 10
0.75 0.16 0.09
Matches are distributed among these distances:
46 36 0.43
47 28 0.33
48 19 0.23
49 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATGTAAGCC
Found at i:95462471 original size:93 final size:93
Alignment explanation
Indices: 95462359--95462529 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
95462349 GCCCATAAGT
* *
95462359 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
95462424 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
95462452 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
95462517 CGAGTTCGGATGC
66 CGAGTTCGGATGC
95462530 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:95462526 original size:46 final size:46
Alignment explanation
Indices: 95462351--95462526 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
95462341 TGTAACCCGC
* * *
95462351 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
95462397 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
95462447 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
95462490 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
95462527 TGCTCAACCA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 64 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:95464718 original size:21 final size:22
Alignment explanation
Indices: 95464679--95464719 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
95464669 TCGAATTAGT
*
95464679 CACACGGGCGTGTTGCCCCTCC
1 CACACAGGCGTGTTGCCCCTCC
95464701 CACACAGGCGTG-TGCCCCT
1 CACACAGGCGTGTTGCCCCT
95464720 ATATTCAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.12, C:0.44, G:0.27, T:0.17
Consensus pattern (22 bp):
CACACAGGCGTGTTGCCCCTCC
Found at i:95465349 original size:43 final size:43
Alignment explanation
Indices: 95465302--95465419 Score: 195
Period size: 43 Copynumber: 2.8 Consensus size: 43
95465292 TTATATAACG
95465302 ATGCCAATGTCCCTGACATGGTCTTACATGTAAACACAATACA
1 ATGCCAATGTCCCTGACATGGTCTTACATGTAAACACAATACA
* *
95465345 ATGCCAATGTCCCAGACATGGTCTTACGTGTAAACACAATACA
1 ATGCCAATGTCCCTGACATGGTCTTACATGTAAACACAATACA
95465388 ATGCCAATGTCCCT-AGCATGGTCTTACA-GTAA
1 ATGCCAATGTCCCTGA-CATGGTCTTACATGTAA
95465420 TCTCATCTTG
Statistics
Matches: 70, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
42 5 0.07
43 65 0.93
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.25
Consensus pattern (43 bp):
ATGCCAATGTCCCTGACATGGTCTTACATGTAAACACAATACA
Found at i:95481436 original size:47 final size:47
Alignment explanation
Indices: 95481373--95481674 Score: 435
Period size: 47 Copynumber: 6.4 Consensus size: 47
95481363 CCCTTCGGGA
* *
95481373 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * * * * *
95481420 CTTATCACATATATACACCTTCACATCCATCACATCGGCCTTTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * * *
95481467 CTTATCTCATATATACACTTTCACATTCATCACGTTGGTCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
95481514 CTTATCACATATATACACTTTCACATTCATCACA-TGAGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTG-GCCATTCGGC
95481561 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
95481608 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
95481657 CTTATCACATATACACAC
1 CTTATCACATATATACAC
95481675 CTTGTACATC
Statistics
Matches: 228, Mismatches: 23, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
46 2 0.01
47 179 0.79
48 2 0.01
49 45 0.20
ACGTcount: A:0.28, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:95484783 original size:41 final size:41
Alignment explanation
Indices: 95484721--95484869 Score: 167
Period size: 41 Copynumber: 3.7 Consensus size: 41
95484711 TCGGGGTTTA
* *
95484721 AATCTGAGCTTTGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
* * *
95484762 AATCCGAGCTTGGTCTTGAAGGGCTTTTAAG-TAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
* * * * * * * *
95484802 AA-CCGAACCTAGTTTCGAAGGGCCTTCGGGCCAATGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
95484842 AATCCGAGCTTGGTCTCGAAGGGCTTTT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTT
95484870 TGAGTCAGCG
Statistics
Matches: 84, Mismatches: 22, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
39 19 0.23
40 19 0.23
41 46 0.55
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.31
Consensus pattern (41 bp):
AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
Found at i:95487582 original size:27 final size:26
Alignment explanation
Indices: 95487510--95487620 Score: 141
Period size: 27 Copynumber: 4.1 Consensus size: 26
95487500 ATGGAGGAAG
95487510 TGTTCTGGTGGCTATGCCACAAATATC
1 TGTTCTGGTGGCTATGCCAC-AATATC
*
95487537 TGTTTCTAGTGGCTATGCCACGAATATC
1 TG-TTCTGGTGGCTATGCCAC-AATATC
*
95487565 TGTTCTGGTGGCTCTGCCACAATATC
1 TGTTCTGGTGGCTATGCCACAATATC
* * *
95487591 TGTATCTGGTGACTCTGTCACAATATC
1 TGT-TCTGGTGGCTATGCCACAATATC
95487618 TGT
1 TGT
95487621 ACTAGCAGCC
Statistics
Matches: 76, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
26 9 0.12
27 42 0.55
28 25 0.33
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.36
Consensus pattern (26 bp):
TGTTCTGGTGGCTATGCCACAATATC
Found at i:95496092 original size:29 final size:29
Alignment explanation
Indices: 95496058--95496117 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
95496048 TTAATATAAG
95496058 ACTGATAACTGTTATTTTAATTGAATTCA
1 ACTGATAACTGTTATTTTAATTGAATTCA
95496087 ACTGATAACTGTTATTTTAATTGAATTCA
1 ACTGATAACTGTTATTTTAATTGAATTCA
95496116 AC
1 AC
95496118 CAACTGTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.35, C:0.12, G:0.10, T:0.43
Consensus pattern (29 bp):
ACTGATAACTGTTATTTTAATTGAATTCA
Found at i:95497210 original size:21 final size:21
Alignment explanation
Indices: 95497167--95497217 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
95497157 CATATAATGG
* *
95497167 TGTTTACACTCACCATGATCA
1 TGTTTACACTCAACATGAACA
* *
95497188 TGTTTACACTTAACATTAACA
1 TGTTTACACTCAACATGAACA
*
95497209 TGTTCACAC
1 TGTTTACAC
95497218 ACAAATATTA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.31, C:0.25, G:0.08, T:0.35
Consensus pattern (21 bp):
TGTTTACACTCAACATGAACA
Found at i:95500101 original size:81 final size:81
Alignment explanation
Indices: 95499985--95500133 Score: 244
Period size: 81 Copynumber: 1.8 Consensus size: 81
95499975 TTTTGCACTT
**
95499985 ATAGGGTAAAATGACCGAAATACCCTCATAGGGTAAAATGACTGAAATACCCCTATAGGGTAAAA
1 ATAGGGTAAAATGACCGAAATACCCTCATAGGGTAAAATGACTGAAATACCCCTATAAAGTAAAA
95500050 TGATCGAAAAACCCTA
66 TGATCGAAAAACCCTA
* * * *
95500066 ATAGGGTAAATTGTCCGAAATACCCTCATAGGGTAAAATGTCTGAAATACCCCTGTAAAGTAAAA
1 ATAGGGTAAAATGACCGAAATACCCTCATAGGGTAAAATGACTGAAATACCCCTATAAAGTAAAA
95500131 TGA
66 TGA
95500134 CTGTAATACC
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 62 1.00
ACGTcount: A:0.42, C:0.17, G:0.19, T:0.22
Consensus pattern (81 bp):
ATAGGGTAAAATGACCGAAATACCCTCATAGGGTAAAATGACTGAAATACCCCTATAAAGTAAAA
TGATCGAAAAACCCTA
Found at i:95500155 original size:27 final size:27
Alignment explanation
Indices: 95499982--95500160 Score: 189
Period size: 27 Copynumber: 6.6 Consensus size: 27
95499972 CTATTTTGCA
*
95499982 CTTATAGGGTAAAATGACCGAAATACC
1 CTTATAGGGTAAAATGACTGAAATACC
*
95500009 CTCATAGGGTAAAATGACTGAAATACC
1 CTTATAGGGTAAAATGACTGAAATACC
* *
95500036 CCTATAGGGTAAAATGA-TCGAAAAACC
1 CTTATAGGGTAAAATGACT-GAAATACC
* * * *
95500063 CTAATAGGGTAAATTGTCCGAAATACC
1 CTTATAGGGTAAAATGACTGAAATACC
* *
95500090 CTCATAGGGTAAAATGTCTGAAATACC
1 CTTATAGGGTAAAATGACTGAAATACC
* * ** *
95500117 CCTGTAAAGTAAAATGACTGTAATACC
1 CTTATAGGGTAAAATGACTGAAATACC
* *
95500144 TTTATAAGGTAAAATGA
1 CTTATAGGGTAAAATGA
95500161 TAGATTTGTT
Statistics
Matches: 125, Mismatches: 25, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
26 1 0.01
27 124 0.99
ACGTcount: A:0.41, C:0.17, G:0.18, T:0.25
Consensus pattern (27 bp):
CTTATAGGGTAAAATGACTGAAATACC
Found at i:95500155 original size:81 final size:81
Alignment explanation
Indices: 95499982--95500160 Score: 243
Period size: 81 Copynumber: 2.2 Consensus size: 81
95499972 CTATTTTGCA
**
95499982 CTTATAGGGTAAAATGACCGAAATACCCTCATAGGGTAAAATGACTGAAATACCCCTATAGGGTA
1 CTTATAGGGTAAAATGACCGAAATACCCTCATAGGGTAAAATGACTGAAATACCCCTATAAAGTA
95500047 AAATGATCGAAAAACC
66 AAATGATCGAAAAACC
* * * * *
95500063 CTAATAGGGTAAATTGTCCGAAATACCCTCATAGGGTAAAATGTCTGAAATACCCCTGTAAAGTA
1 CTTATAGGGTAAAATGACCGAAATACCCTCATAGGGTAAAATGACTGAAATACCCCTATAAAGTA
* *
95500128 AAATGA-CTGTAATACC
66 AAATGATC-GAAAAACC
* *
95500144 TTTATAAGGTAAAATGA
1 CTTATAGGGTAAAATGA
95500161 TAGATTTGTT
Statistics
Matches: 83, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
80 1 0.01
81 82 0.99
ACGTcount: A:0.41, C:0.17, G:0.18, T:0.25
Consensus pattern (81 bp):
CTTATAGGGTAAAATGACCGAAATACCCTCATAGGGTAAAATGACTGAAATACCCCTATAAAGTA
AAATGATCGAAAAACC
Found at i:95500513 original size:18 final size:18
Alignment explanation
Indices: 95500490--95500566 Score: 75
Period size: 18 Copynumber: 4.3 Consensus size: 18
95500480 TCTACTTGCA
95500490 TACTGCACTGATTACTGT
1 TACTGCACTGATTACTGT
* *
95500508 TACTGCATTGATCA-TGGT
1 TACTGCACTGATTACT-GT
* * *
95500526 TGCTACACTGATTACTAT
1 TACTGCACTGATTACTGT
* *
95500544 TATTGCACTGATTAATGT
1 TACTGCACTGATTACTGT
95500562 TACTG
1 TACTG
95500567 AAATGGGCTA
Statistics
Matches: 44, Mismatches: 13, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
17 1 0.02
18 42 0.95
19 1 0.02
ACGTcount: A:0.25, C:0.18, G:0.17, T:0.40
Consensus pattern (18 bp):
TACTGCACTGATTACTGT
Found at i:95503779 original size:27 final size:27
Alignment explanation
Indices: 95503761--95503958 Score: 249
Period size: 27 Copynumber: 7.3 Consensus size: 27
95503751 CTTATAGGGC
*
95503761 AAAATGACCAAAATACCCTCATAAGGT
1 AAAATGACCGAAATACCCTCATAAGGT
* *
95503788 AAAAATGATCGAAATACCC-CTATTAGGT
1 -AAAATGACCGAAATACCCTC-ATAAGGT
95503816 AAAATGACCGAAATACCCTCATAAGGT
1 AAAATGACCGAAATACCCTCATAAGGT
*
95503843 AAAATGACCGAAATACCCTCATAGGGT
1 AAAATGACCGAAATACCCTCATAAGGT
* *
95503870 AAAATGACCAAAATACCCCCATAAGGT
1 AAAATGACCGAAATACCCTCATAAGGT
* *
95503897 AGAATGACCGAAATACTCCT-GTAAGGT
1 AAAATGACCGAAATAC-CCTCATAAGGT
* *
95503924 AAAATGA-CTATAATACCCTTATAAGGT
1 AAAATGACCGA-AATACCCTCATAAGGT
95503951 AAAATGAC
1 AAAATGAC
95503959 ATATTTGTTC
Statistics
Matches: 148, Mismatches: 16, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
26 5 0.03
27 118 0.80
28 25 0.17
ACGTcount: A:0.44, C:0.20, G:0.15, T:0.21
Consensus pattern (27 bp):
AAAATGACCGAAATACCCTCATAAGGT
Found at i:95504390 original size:34 final size:34
Alignment explanation
Indices: 95504352--95504446 Score: 136
Period size: 34 Copynumber: 2.8 Consensus size: 34
95504342 CACTGATTAA
* *
95504352 TGTTACTAAAATGGGCTAAAGCCCAGACCGCTAC
1 TGTTACTGAAATGGGCTAAGGCCCAGACCGCTAC
**
95504386 TGTTACTGAAATGGGCTAAGGCCCAGATTGCTAC
1 TGTTACTGAAATGGGCTAAGGCCCAGACCGCTAC
* *
95504420 TGTTACTGATATGGGCTTAGGCCCAGA
1 TGTTACTGAAATGGGCTAAGGCCCAGA
95504447 ATGTATTCAC
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 55 1.00
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.25
Consensus pattern (34 bp):
TGTTACTGAAATGGGCTAAGGCCCAGACCGCTAC
Found at i:95508582 original size:46 final size:46
Alignment explanation
Indices: 95508527--95508743 Score: 407
Period size: 46 Copynumber: 4.7 Consensus size: 46
95508517 GATTGAGCAT
*
95508527 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
95508573 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
95508619 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGC
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
95508665 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGC
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
95508711 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
95508744 GGGGCGGGTT
Statistics
Matches: 168, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 168 1.00
ACGTcount: A:0.20, C:0.25, G:0.29, T:0.26
Consensus pattern (46 bp):
CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:95510544 original size:40 final size:40
Alignment explanation
Indices: 95510490--95510845 Score: 633
Period size: 40 Copynumber: 8.9 Consensus size: 40
95510480 AGTTAAATTA
95510490 TTGAT-TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
95510529 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
95510569 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
95510609 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
95510649 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
*
95510689 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAA
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
95510729 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
* *
95510769 TTGATATATCCGGGCTAAGGCCCGAAGGCATTCGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
* ** * *
95510809 TTGCTATGCCCGGGTTAAGACCCGAAGGCAATTGTGC
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGC
95510846 TTGTGGTAAT
Statistics
Matches: 305, Mismatches: 11, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
39 5 0.02
40 300 0.98
ACGTcount: A:0.24, C:0.21, G:0.30, T:0.25
Consensus pattern (40 bp):
TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
Found at i:95517499 original size:23 final size:22
Alignment explanation
Indices: 95517447--95517499 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
95517437 TCCTCGTCTT
*
95517447 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
95517469 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
95517492 TTTCTTTT
1 TTTCTTTT
95517500 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:95526491 original size:41 final size:40
Alignment explanation
Indices: 95526454--95526645 Score: 206
Period size: 41 Copynumber: 4.7 Consensus size: 40
95526444 TTAGGGGTGC
95526454 CAAAGTACAAACAGGGTCACATATGTGCAATTCAGGGGTAT
1 CAAAGTACAAACAGGG-CACATATGTGCAATTCAGGGGTAT
** * * **
95526495 TGAAGTACAAA-AGGGCACGTATGTGTAATTCAGATGTAT
1 CAAAGTACAAACAGGGCACATATGTGCAATTCAGGGGTAT
* * * *
95526534 CGAAGTACAAATAGGGGCACGTATGTGCAATTTAGGGGTAT
1 CAAAGTACAAACA-GGGCACATATGTGCAATTCAGGGGTAT
* * *
95526575 TAAAGTACAAACAGGGGCACTTATGTGCAATTCAGGGGTAC
1 CAAAGTACAAACA-GGGCACATATGTGCAATTCAGGGGTAT
* *
95526616 CTAAGTACAAACAATGGCACATATGTGCAA
1 CAAAGTACAAAC-AGGGCACATATGTGCAA
95526646 AATAGGGAGA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 30 0.24
40 5 0.04
41 91 0.72
42 1 0.01
ACGTcount: A:0.36, C:0.15, G:0.26, T:0.23
Consensus pattern (40 bp):
CAAAGTACAAACAGGGCACATATGTGCAATTCAGGGGTAT
Found at i:95526560 original size:80 final size:82
Alignment explanation
Indices: 95526456--95526645 Score: 249
Period size: 82 Copynumber: 2.3 Consensus size: 82
95526446 AGGGGTGCCA
* *
95526456 AAGTACAAACAGGGTCACATATGTGCAATTCAGGGGTATTGAAGTACAAA-A-GGGCACGTATGT
1 AAGTACAAACAGGGGCACATATGTGCAATTCAGGGGTATTAAAGTACAAACAGGGGCACGTATGT
* * *
95526519 GTAATTCAGATGTATCG
66 GCAATTCAGAGGTACCG
* * * *
95526536 AAGTACAAATAGGGGCACGTATGTGCAATTTAGGGGTATTAAAGTACAAACAGGGGCACTTATGT
1 AAGTACAAACAGGGGCACATATGTGCAATTCAGGGGTATTAAAGTACAAACAGGGGCACGTATGT
* *
95526601 GCAATTCAGGGGTACCT
66 GCAATTCAGAGGTACCG
**
95526618 AAGTACAAACAATGGCACATATGTGCAA
1 AAGTACAAACAGGGGCACATATGTGCAA
95526646 AATAGGGAGA
Statistics
Matches: 93, Mismatches: 15, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
80 45 0.48
81 1 0.01
82 47 0.51
ACGTcount: A:0.36, C:0.15, G:0.26, T:0.24
Consensus pattern (82 bp):
AAGTACAAACAGGGGCACATATGTGCAATTCAGGGGTATTAAAGTACAAACAGGGGCACGTATGT
GCAATTCAGAGGTACCG
Found at i:95526612 original size:21 final size:21
Alignment explanation
Indices: 95526546--95526612 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
95526536 AAGTACAAAT
* *
95526546 AGGGGCACGTATGTGCAATTT
1 AGGGGCACTTATGTGCAATTC
* * * *
95526567 AGGGGTA-TTAAAGTACAA-AC
1 AGGGGCACTT-ATGTGCAATTC
95526587 AGGGGCACTTATGTGCAATTC
1 AGGGGCACTTATGTGCAATTC
95526608 AGGGG
1 AGGGG
95526613 TACCTAAGTA
Statistics
Matches: 33, Mismatches: 10, Indels: 6
0.67 0.20 0.12
Matches are distributed among these distances:
20 13 0.39
21 20 0.61
ACGTcount: A:0.30, C:0.13, G:0.33, T:0.24
Consensus pattern (21 bp):
AGGGGCACTTATGTGCAATTC
Found at i:95545852 original size:45 final size:45
Alignment explanation
Indices: 95545788--95545899 Score: 170
Period size: 45 Copynumber: 2.5 Consensus size: 45
95545778 TAGGATTCCA
95545788 ATATGTGTTTTCGTGTAAGACCACATCTGGGACATTGGCATCGAG
1 ATATGTGTTTTCGTGTAAGACCACATCTGGGACATTGGCATCGAG
* * *
95545833 ATATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGAT
1 ATATGTGTTTTCGTGTAAGACCACATCTGGGACATTGGCATCGAG
* * *
95545878 ATATGTGGTTACATGTAAGACC
1 ATATGTGTTTTCGTGTAAGACC
95545900 CTAGGACATC
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 61 1.00
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (45 bp):
ATATGTGTTTTCGTGTAAGACCACATCTGGGACATTGGCATCGAG
Found at i:95574713 original size:18 final size:18
Alignment explanation
Indices: 95574690--95574729 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
95574680 TGTTTAATTA
95574690 TAAGAAGTATTGAAATGG
1 TAAGAAGTATTGAAATGG
95574708 TAAGAAGTATTGAAATGG
1 TAAGAAGTATTGAAATGG
95574726 TAAG
1 TAAG
95574730 TACTTAGATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.45, C:0.00, G:0.28, T:0.28
Consensus pattern (18 bp):
TAAGAAGTATTGAAATGG
Found at i:95575667 original size:19 final size:19
Alignment explanation
Indices: 95575631--95575669 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
95575621 TTTTCATCAT
* *
95575631 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
95575650 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
95575669 A
1 A
95575670 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:95576173 original size:55 final size:56
Alignment explanation
Indices: 95576108--95576222 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
95576098 AGCATGGCTG
* *
95576108 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * *
95576164 CCAGA-ACAGATATATGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
95576219 CCAG
1 CCAG
95576223 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.56
56 22 0.42
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (56 bp):
CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:95576185 original size:27 final size:27
Alignment explanation
Indices: 95576133--95576222 Score: 119
Period size: 27 Copynumber: 3.2 Consensus size: 27
95576123 GTGACAGAGT
95576133 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGTGC
* *
95576162 CACCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGTGC
95576189 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
95576217 CACCAG
1 CACCAG
95576223 GACGCTTCCT
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 24 0.44
28 24 0.44
29 7 0.13
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:95576375 original size:28 final size:28
Alignment explanation
Indices: 95576328--95576392 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
95576318 AAATTAACCC
*
95576328 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
*
95576356 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
95576384 TAGGGGTAT
1 TAGGGGTAT
95576393 TCTAGTAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.31, C:0.08, G:0.28, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCATACA
Found at i:95583540 original size:19 final size:19
Alignment explanation
Indices: 95583504--95583542 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
95583494 TTTTCATCAT
* *
95583504 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
95583523 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
95583542 A
1 A
95583543 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:95584046 original size:55 final size:56
Alignment explanation
Indices: 95583981--95584095 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
95583971 AGCATGGCTG
* *
95583981 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * *
95584037 CCAGA-ACAGATATATGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
95584092 CCAG
1 CCAG
95584096 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.56
56 22 0.42
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (56 bp):
CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:95584058 original size:27 final size:27
Alignment explanation
Indices: 95584006--95584095 Score: 119
Period size: 27 Copynumber: 3.2 Consensus size: 27
95583996 GTGACAGAGT
95584006 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGTGC
* *
95584035 CACCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGTGC
95584062 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
95584090 CACCAG
1 CACCAG
95584096 GACGCTTCCT
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 24 0.44
28 24 0.44
29 7 0.13
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:95584248 original size:28 final size:28
Alignment explanation
Indices: 95584201--95584265 Score: 87
Period size: 28 Copynumber: 2.3 Consensus size: 28
95584191 AAATTAACTC
*
95584201 TAGGGGTATAGAGGTCATTTTGCATACA
1 TAGGGGTATAGAGGTAATTTTGCATACA
*
95584229 TAGGGGTATA-ATGGTAATTTTGCATTCA
1 TAGGGGTATAGA-GGTAATTTTGCATACA
*
95584257 AAGGGGTAT
1 TAGGGGTAT
95584266 TCAAGTAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
27 1 0.03
28 32 0.97
ACGTcount: A:0.29, C:0.08, G:0.29, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAGAGGTAATTTTGCATACA
Found at i:95584528 original size:8 final size:8
Alignment explanation
Indices: 95584512--95584543 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
95584502 CCCAAAATAC
95584512 CGGCTTTT
1 CGGCTTTT
*
95584520 CGGCATTT
1 CGGCTTTT
95584528 CGGCTTTT
1 CGGCTTTT
95584536 CGGCTTTT
1 CGGCTTTT
95584544 GCCGATCTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.03, C:0.25, G:0.25, T:0.47
Consensus pattern (8 bp):
CGGCTTTT
Found at i:95585351 original size:12 final size:13
Alignment explanation
Indices: 95585332--95585364 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
95585322 AGGTTCGGCT
95585332 ATGGAGAAGGAAG
1 ATGGAGAAGGAAG
*
95585345 A-GGAGAAGGTAG
1 ATGGAGAAGGAAG
95585357 ATGGAGAA
1 ATGGAGAA
95585365 AAAGAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.45, C:0.00, G:0.45, T:0.09
Consensus pattern (13 bp):
ATGGAGAAGGAAG
Found at i:95591408 original size:19 final size:19
Alignment explanation
Indices: 95591372--95591410 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
95591362 TTTTCATCAT
* *
95591372 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
95591391 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
95591410 A
1 A
95591411 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:95591961 original size:28 final size:26
Alignment explanation
Indices: 95591874--95591963 Score: 81
Period size: 28 Copynumber: 3.2 Consensus size: 26
95591864 GTGACAGAGT
95591874 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATATTTT-TGGCA-TGC
* *** *
95591903 CACCAGAATAGATATACGTGGCAGGGC
1 CACCAGAACAGATATTTTTGGCA-TGC
95591930 CACCAGAACAGATAATTTTTGGCATAGC
1 CACCAGAACAGAT-ATTTTTGGCAT-GC
95591958 CACCAG
1 CACCAG
95591964 GACGCTTCCT
Statistics
Matches: 49, Mismatches: 10, Indels: 5
0.77 0.16 0.08
Matches are distributed among these distances:
27 20 0.41
28 22 0.45
29 7 0.14
ACGTcount: A:0.32, C:0.23, G:0.23, T:0.21
Consensus pattern (26 bp):
CACCAGAACAGATATTTTTGGCATGC
Found at i:95592116 original size:28 final size:28
Alignment explanation
Indices: 95592069--95592133 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
95592059 AAATTAACCC
* *
95592069 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTACATACA
*
95592097 TAGGGGTATAATGGTAATTTTACATACA
1 TAGGGGTATAAAGGTAATTTTACATACA
95592125 TAGGGGTAT
1 TAGGGGTAT
95592134 TCTAGTAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.08, G:0.26, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTACATACA
Found at i:95594090 original size:90 final size:90
Alignment explanation
Indices: 95593937--95594244 Score: 616
Period size: 90 Copynumber: 3.4 Consensus size: 90
95593927 ACTAAGCCAC
95593937 CTTTAAAATTTTACTTTTGTTTGGGGTTTTCTTATTTTACTTTTAATCTTTAAGCTATTTAATAT
1 CTTTAAAATTTTACTTTTGTTTGGGGTTTTCTTATTTTACTTTTAATCTTTAAGCTATTTAATAT
95594002 TAGGTATTGTTATGTTATAAGGCCT
66 TAGGTATTGTTATGTTATAAGGCCT
95594027 CTTTAAAATTTTACTTTTGTTTGGGGTTTTCTTATTTTACTTTTAATCTTTAAGCTATTTAATAT
1 CTTTAAAATTTTACTTTTGTTTGGGGTTTTCTTATTTTACTTTTAATCTTTAAGCTATTTAATAT
95594092 TAGGTATTGTTATGTTATAAGGCCT
66 TAGGTATTGTTATGTTATAAGGCCT
95594117 CTTTAAAATTTTACTTTTGTTTGGGGTTTTCTTATTTTACTTTTAATCTTTAAGCTATTTAATAT
1 CTTTAAAATTTTACTTTTGTTTGGGGTTTTCTTATTTTACTTTTAATCTTTAAGCTATTTAATAT
95594182 TAGGTATTGTTATGTTATAAGGCCT
66 TAGGTATTGTTATGTTATAAGGCCT
95594207 CTTTAAAATTTTACTTTTGTTTGGGGTTTTCTTATTTT
1 CTTTAAAATTTTACTTTTGTTTGGGGTTTTCTTATTTT
95594245 GATTTATACC
Statistics
Matches: 218, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
90 218 1.00
ACGTcount: A:0.22, C:0.09, G:0.13, T:0.56
Consensus pattern (90 bp):
CTTTAAAATTTTACTTTTGTTTGGGGTTTTCTTATTTTACTTTTAATCTTTAAGCTATTTAATAT
TAGGTATTGTTATGTTATAAGGCCT
Found at i:95603077 original size:76 final size:77
Alignment explanation
Indices: 95602950--95603105 Score: 287
Period size: 76 Copynumber: 2.0 Consensus size: 77
95602940 GTATAATCTA
*
95602950 AAAACCTCTGAAATGTACAACTCAACAAGTCTATTAAAAAAGAAACCTGTACGTATAGATAAATA
1 AAAACCTCTGAAATGTACAACTCAACAAGTCTATTAAAAAAGAAACCTGTACGTAGAGATAAATA
*
95603015 TGTAGACTTTTT
66 TGTAGACCTTTT
95603027 AAAA-CTCTGAAATGTACAACTCAACAAGTCTATTAAAAAAGAAACCTGTACGTAGAGATAAATA
1 AAAACCTCTGAAATGTACAACTCAACAAGTCTATTAAAAAAGAAACCTGTACGTAGAGATAAATA
95603091 TGTAGACCTTTT
66 TGTAGACCTTTT
95603103 AAA
1 AAA
95603106 CATTCAACAG
Statistics
Matches: 77, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
76 73 0.95
77 4 0.05
ACGTcount: A:0.46, C:0.15, G:0.12, T:0.27
Consensus pattern (77 bp):
AAAACCTCTGAAATGTACAACTCAACAAGTCTATTAAAAAAGAAACCTGTACGTAGAGATAAATA
TGTAGACCTTTT
Found at i:95605142 original size:29 final size:28
Alignment explanation
Indices: 95605106--95605183 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
95605096 TCATGAGATT
95605106 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
95605136 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
95605163 TGGCACTAAGTGTGCGTGGTT
1 -GGCACTAAGTGTGCG-GGTT
95605184 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:95605401 original size:174 final size:174
Alignment explanation
Indices: 95605136--95605497 Score: 688
Period size: 174 Copynumber: 2.1 Consensus size: 174
95605126 AAATTGTACA
95605136 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
95605201 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGA
* *
95605266 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAGATGCATG
131 TCTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
*
95605310 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
*
95605375 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTATCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGA
95605440 TCTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TCTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
95605484 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
95605498 CGGTTGATTA
Statistics
Matches: 183, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 183 1.00
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.30
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGA
TCTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:95605581 original size:145 final size:145
Alignment explanation
Indices: 95605335--95605608 Score: 494
Period size: 145 Copynumber: 1.9 Consensus size: 145
95605325 GTTTAAAGTA
*
95605335 CATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCT
1 CATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCT
* * *
95605400 ATAAATTATTTACATTAAGGGTGCGACCTTATCGAGTCGATCTTGGACAGCGGAAAAGGTAAGTG
66 ATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAATCTTGGACAGCGGAAAAGGTAAGTG
95605465 TGCGAACTTGAAATG
131 TGCGAACTTGAAATG
95605480 CATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCT
1 CATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCT
* *
95605545 ATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAATTTTGGACAGCGGAAAAGGTAAGT
66 ATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAATCTTGGACAGCGGAAAAGGTAAGT
95605609 ACCTTGAGTT
Statistics
Matches: 123, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
145 123 1.00
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (145 bp):
CATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCT
ATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAATCTTGGACAGCGGAAAAGGTAAGTG
TGCGAACTTGAAATG
Found at i:95611291 original size:85 final size:86
Alignment explanation
Indices: 95611140--95611352 Score: 268
Period size: 85 Copynumber: 2.5 Consensus size: 86
95611130 TGTATATAGA
* *
95611140 CATTGATATGTGATTACGTGTAAGACCATGTCTGGGACGTTGGCATCGATATGTGATTACATGTA
1 CATTGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGCCATCGATATGTGATTACATGTA
* * *
95611205 AGACCATGTCTGGGAC-TTGG
66 AGACCATGTCTAGAACAGTGG
* * * * *
95611225 CATTGATATGTGATTACGTCTAAGACTACGTCTGGGATGTTGCCATCTATATGTGTTTACGA-GT
1 CATTGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGCCATCGATATGTGATTAC-ATGT
*
95611289 AAGACCCTGTCTAGAACAGTGG
65 AAGACCATGTCTAGAACAGTGG
** * *
95611311 CATTGATATAAGATTACATGTAAGACCACGTCAGGGACGTTG
1 CATTGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTG
95611353 GCATTGTACC
Statistics
Matches: 108, Mismatches: 18, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
85 69 0.64
86 39 0.36
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (86 bp):
CATTGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGCCATCGATATGTGATTACATGTA
AGACCATGTCTAGAACAGTGG
Found at i:95611357 original size:43 final size:43
Alignment explanation
Indices: 95611140--95611358 Score: 232
Period size: 43 Copynumber: 5.1 Consensus size: 43
95611130 TGTATATAGA
* *
95611140 CATTGATATGTGATTACGTGTAAGACCATGTCTGGGACGTTGG
1 CATTGATATGTGATTACATGTAAGACCACGTCTGGGACGTTGG
* *
95611183 CATCGATATGTGATTACATGTAAGACCATGTCTGGGAC-TTGG
1 CATTGATATGTGATTACATGTAAGACCACGTCTGGGACGTTGG
* * * * *
95611225 CATTGATATGTGATTACGTCTAAGACTACGTCTGGGATGTTGC
1 CATTGATATGTGATTACATGTAAGACCACGTCTGGGACGTTGG
* * *
95611268 CATCT-ATATGTGTTTACGA-GTAAGACC-CTGTCTAGAACAG-TGG
1 CAT-TGATATGTGATTAC-ATGTAAGACCAC-GTCTGGGAC-GTTGG
** *
95611311 CATTGATATAAGATTACATGTAAGACCACGTCAGGGACGTTGG
1 CATTGATATGTGATTACATGTAAGACCACGTCTGGGACGTTGG
95611354 CATTG
1 CATTG
95611359 TACCATATAT
Statistics
Matches: 144, Mismatches: 23, Indels: 18
0.78 0.12 0.10
Matches are distributed among these distances:
42 40 0.28
43 101 0.70
44 3 0.02
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.31
Consensus pattern (43 bp):
CATTGATATGTGATTACATGTAAGACCACGTCTGGGACGTTGG
Found at i:95614640 original size:43 final size:42
Alignment explanation
Indices: 95614590--95614737 Score: 165
Period size: 43 Copynumber: 3.5 Consensus size: 42
95614580 CCCAGATGTT
* * * *
95614590 GTCTTACATGTTATCACATACCGATGCCACTGTCCCAGACAAG
1 GTCTTACACGTAATCACATA-CGATGCCAATGTCCCAGACATG
* *
95614633 GTCTTACACGAAATCGA-TTAACGATGCCAATGTCCCAGACATG
1 GTCTTACACGTAATC-ACAT-ACGATGCCAATGTCCCAGACATG
95614676 GTCTTACACGTAATCACAATAC-ACTGCCAATGTCCCAGACATG
1 GTCTTACACGTAATCAC-ATACGA-TGCCAATGTCCCAGACATG
**
95614719 GTCTTACATTTAATCACAT
1 GTCTTACACGTAATCACAT
95614738 CTTGCTAACC
Statistics
Matches: 90, Mismatches: 10, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
42 4 0.04
43 83 0.92
44 3 0.03
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (42 bp):
GTCTTACACGTAATCACATACGATGCCAATGTCCCAGACATG
Found at i:95616813 original size:31 final size:31
Alignment explanation
Indices: 95616770--95616853 Score: 143
Period size: 31 Copynumber: 2.7 Consensus size: 31
95616760 TTAGTCTTGA
95616770 CATAT-ACTGGGCCGAAGCCTTTCCATAAAT
1 CATATCACTGGGCCGAAGCCTTTCCATAAAT
* *
95616800 CATATCACTGGGCCAAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTCCATAAAT
95616831 CATATCACTGGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
95616854 ACTGTAAACG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
30 5 0.10
31 45 0.90
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTCCATAAAT
Found at i:95616924 original size:42 final size:42
Alignment explanation
Indices: 95616877--95616968 Score: 157
Period size: 42 Copynumber: 2.2 Consensus size: 42
95616867 TGACCCTTAG
*
95616877 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATACAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATACAA
*
95616919 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATACAA
*
95616961 GCCAATTT
1 GCCCATTT
95616969 GGGGAGACTA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.32
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGTAATGTCAATGAATGTATACAA
Found at i:95617151 original size:25 final size:25
Alignment explanation
Indices: 95617116--95617185 Score: 90
Period size: 25 Copynumber: 2.8 Consensus size: 25
95617106 CTCTTTTAAT
95617116 AACTGGGGCAAAGCCC-TTTCTGATA
1 AACTGGGGCAAAGCCCTTTTC-GATA
* *
95617141 AATTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
95617166 AACTGGGGCAGAA-CCCTTTT
1 AACTGGGGCA-AAGCCCTTTT
95617186 AGCACTTCCT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
25 34 0.85
26 6 0.15
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:95617239 original size:16 final size:16
Alignment explanation
Indices: 95617218--95617248 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
95617208 CCCATATCCC
*
95617218 ATGCAATATGTCATGT
1 ATGCAAAATGTCATGT
95617234 ATGCAAAATGTCATG
1 ATGCAAAATGTCATG
95617249 CCCATATTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.32
Consensus pattern (16 bp):
ATGCAAAATGTCATGT
Found at i:95618014 original size:27 final size:28
Alignment explanation
Indices: 95617983--95618051 Score: 83
Period size: 27 Copynumber: 2.6 Consensus size: 28
95617973 TACGGAACAT
*
95617983 AAGGGCATATT-C-GTCATTTTACCATAC
1 AAGGGC-TATTACGGTCACTTTACCATAC
*
95618010 AAGGG-TATTACGGTCACTTTACCCTAC
1 AAGGGCTATTACGGTCACTTTACCATAC
95618037 AAGGGCT-TTACGGTC
1 AAGGGCTATTACGGTC
95618052 TTTTTACCTA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
25 4 0.11
26 1 0.03
27 31 0.84
28 1 0.03
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.30
Consensus pattern (28 bp):
AAGGGCTATTACGGTCACTTTACCATAC
Found at i:95618057 original size:27 final size:27
Alignment explanation
Indices: 95617995--95618059 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
95617985 GGGCATATTC
95617995 GTCATTTTACCATACAAGGGTATTACG
1 GTCATTTTACCATACAAGGGTATTACG
* *
95618022 GTCACTTTACCCTACAAGGGCT-TTACG
1 GTCATTTTACCATACAAGGG-TATTACG
*
95618049 GTCTTTTTACC
1 GTCATTTTACC
95618060 TATTAGGGGT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 32 0.97
28 1 0.03
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAAGGGTATTACG
Found at i:95619541 original size:46 final size:46
Alignment explanation
Indices: 95619440--95619527 Score: 122
Period size: 46 Copynumber: 1.9 Consensus size: 46
95619430 TGTAACCCGC
* * * *
95619440 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCCCAT
* *
95619486 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTC
95619528 AACCATCCTA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 37 1.00
ACGTcount: A:0.27, C:0.31, G:0.23, T:0.19
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCCCAT
Found at i:95620895 original size:27 final size:27
Alignment explanation
Indices: 95620860--95620997 Score: 197
Period size: 27 Copynumber: 5.1 Consensus size: 27
95620850 AGTCAAGGGT
* *
95620860 ATTTTACAAA-TTGAGGGTATTTCGGTA
1 ATTTTACAAACTAG-GGGTATTTTGGTA
* * * *
95620887 ATTTCACAAAATAGTGGTATTTCGGTA
1 ATTTTACAAACTAGGGGTATTTTGGTA
95620914 ATTTTACAAACTAGGGGTATTTTGGTA
1 ATTTTACAAACTAGGGGTATTTTGGTA
95620941 ATTTTACAAACTAGGGGTATTTTGGTA
1 ATTTTACAAACTAGGGGTATTTTGGTA
*
95620968 ATTTTGCAAACTAGGGGTATTTTGGTA
1 ATTTTACAAACTAGGGGTATTTTGGTA
95620995 ATT
1 ATT
95620998 CTATCCTACA
Statistics
Matches: 102, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 100 0.98
28 2 0.02
ACGTcount: A:0.30, C:0.08, G:0.22, T:0.41
Consensus pattern (27 bp):
ATTTTACAAACTAGGGGTATTTTGGTA
Found at i:95621011 original size:81 final size:81
Alignment explanation
Indices: 95620860--95621039 Score: 186
Period size: 81 Copynumber: 2.2 Consensus size: 81
95620850 AGTCAAGGGT
* * *
95620860 ATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAAATAGTGGTATTTCGGTAATTTTACAAAC
1 ATTTTACAAATAGAGGGTATTTCGGTAATTTCACAAAATAGGGGTATTTCGGTAATTCTACAAAC
* **
95620925 TAGGGGTATTTTGGTA
66 TAGGGGCATTTCAGTA
* ** * * **
95620941 ATTTTACAAACTAG-GGGTATTTTGGTAATTTTGCAAACTAGGGGTATTTTGGTAATTCTATCCT
1 ATTTTACAAA-TAGAGGGTATTTCGGTAATTTCACAAAATAGGGGTATTTCGGTAATTCTA-CAA
95621005 AC-AGGGGCATTTCAGTA
64 ACTAGGGGCATTTCAGTA
* *
95621022 ATTTCAC-AATCGAGGGTA
1 ATTTTACAAATAGAGGGTA
95621040 AAACAGTAAT
Statistics
Matches: 81, Mismatches: 15, Indels: 7
0.79 0.15 0.07
Matches are distributed among these distances:
79 2 0.02
80 7 0.09
81 67 0.83
82 5 0.06
ACGTcount: A:0.29, C:0.11, G:0.22, T:0.38
Consensus pattern (81 bp):
ATTTTACAAATAGAGGGTATTTCGGTAATTTCACAAAATAGGGGTATTTCGGTAATTCTACAAAC
TAGGGGCATTTCAGTA
Found at i:95621023 original size:54 final size:54
Alignment explanation
Indices: 95620860--95621030 Score: 177
Period size: 54 Copynumber: 3.2 Consensus size: 54
95620850 AGTCAAGGGT
* * * * *
95620860 ATTTTACAAA-TTGAGGGTATTTCGGTAATT-TCACAAAATAGTGGTATTTCGGTA
1 ATTTTACAAACTAG-GGGTATTTTGGTAATTCT-ACAAACTAGGGGCATTTCGGTA
* * *
95620914 ATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTA
1 ATTTTACAAACTAGGGGTATTTTGGTAATTCTACAAACTAGGGGCATTTCGGTA
* ** *
95620968 ATTTTGCAAACTAGGGGTATTTTGGTAATTCTATCCTAC-AGGGGCATTTCAGTA
1 ATTTTACAAACTAGGGGTATTTTGGTAATTCTA-CAAACTAGGGGCATTTCGGTA
*
95621022 ATTTCACAA
1 ATTTTACAA
95621031 TCGAGGGTAA
Statistics
Matches: 100, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
54 94 0.94
55 6 0.06
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (54 bp):
ATTTTACAAACTAGGGGTATTTTGGTAATTCTACAAACTAGGGGCATTTCGGTA
Found at i:95621063 original size:27 final size:27
Alignment explanation
Indices: 95621029--95621224 Score: 216
Period size: 27 Copynumber: 7.3 Consensus size: 27
95621019 GTAATTTCAC
*
95621029 AATCGAGGGTAAAACAGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
*
95621056 AAGT-GAGGGTAAAATGGTAATTTTGTA
1 AA-TCGAGGGTAAAACGGTAATTTTGTA
* * *
95621083 AATCGAGGGCAAAACGATAATTCTGT-
1 AATCGAGGGTAAAACGGTAATTTTGTA
* ** * * *
95621109 AATCAAGGGTAAAATAGAAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
*
95621136 AATTGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* *
95621163 AATCGAGGGTGAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* **
95621190 AATCGAGGGTAAAATGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTTTGTA
95621217 AATCGAGG
1 AATCGAGG
95621225 ACATTTCAGT
Statistics
Matches: 138, Mismatches: 28, Indels: 6
0.80 0.16 0.03
Matches are distributed among these distances:
26 20 0.14
27 117 0.85
28 1 0.01
ACGTcount: A:0.40, C:0.08, G:0.24, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTTTGTA
Found at i:95621093 original size:80 final size:80
Alignment explanation
Indices: 95621027--95621203 Score: 212
Period size: 80 Copynumber: 2.2 Consensus size: 80
95621017 CAGTAATTTC
* * * * *
95621027 ACAATCGAGGGTAAAACAGTAATTTTGTAAAGTGAGGGTAAAATGGTAATTTTGTAAATCGAGGG
1 ACAATCAAGGGTAAAACAGAAATTCTATAAAGTGAGGGTAAAACGGTAATTTTGTAAATCGAGGG
95621092 CAAAACGATAATTCT
66 CAAAACGATAATTCT
** * *
95621107 GTAATCAAGGGTAAAATAGAAATTCTATAAATTGAGGGTAAAACGGTAATTTTGTAAATCGAGGG
1 ACAATCAAGGGTAAAACAGAAATTCTATAAAGTGAGGGTAAAACGGTAATTTTGTAAATCGAGGG
** *
95621172 TGAAACGGTAATTCTGT
66 CAAAACGATAATTC--T
*
95621189 A-AATCGAGGGTAAAA
1 ACAATCAAGGGTAAAA
95621204 TGGTAATTTT
Statistics
Matches: 81, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
80 67 0.83
81 13 0.16
82 1 0.01
ACGTcount: A:0.41, C:0.08, G:0.24, T:0.27
Consensus pattern (80 bp):
ACAATCAAGGGTAAAACAGAAATTCTATAAAGTGAGGGTAAAACGGTAATTTTGTAAATCGAGGG
CAAAACGATAATTCT
Found at i:95623296 original size:27 final size:27
Alignment explanation
Indices: 95623266--95623404 Score: 172
Period size: 27 Copynumber: 5.1 Consensus size: 27
95623256 CCTGAATCGA
* *
95623266 TAAAATGAGTATTTTTCCCTTATGAAG
1 TAAAATGACTATTTTTCCCTTATGAGG
*
95623293 TAAAATGACTATTTTGCCCTTATGAGG
1 TAAAATGACTATTTTTCCCTTATGAGG
* * * *
95623320 TGAAATGACTGTTTTGCCCTTATGTGG
1 TAAAATGACTATTTTTCCCTTATGAGG
* * *
95623347 TAAAATGACAATTTTTCCCCTATGCGG
1 TAAAATGACTATTTTTCCCTTATGAGG
95623374 TAAAATGA-TAATTTTTCCCTTATGAGG
1 TAAAATGACT-ATTTTTCCCTTATGAGG
95623401 TAAA
1 TAAA
95623405 TGATTCTTTT
Statistics
Matches: 96, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
27 96 1.00
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.38
Consensus pattern (27 bp):
TAAAATGACTATTTTTCCCTTATGAGG
Found at i:95623350 original size:54 final size:53
Alignment explanation
Indices: 95623266--95623423 Score: 174
Period size: 54 Copynumber: 2.9 Consensus size: 53
95623256 CCTGAATCGA
*
95623266 TAAAATGAGTATTTTTCCCTTATGAAGTAAAATGACTATTTTGCCCTTATGAGG
1 TAAAATGA-TATTTTTCCCTTATGAGGTAAAATGACTATTTTGCCCTTATGAGG
* * * * * * * *
95623320 TGAAATGACTGTTTTGCCCTTATGTGGTAAAATGACAATTTTTCCCCTATGCGG
1 TAAAATGA-TATTTTTCCCTTATGAGGTAAAATGACTATTTTGCCCTTATGAGG
* * *
95623374 TAAAATGATAATTTTTCCCTTATGAGGT-AAATGATTCTTTTGCTCTTATG
1 TAAAATGAT-ATTTTTCCCTTATGAGGTAAAATGACTATTTTGCCCTTATG
95623424 TGGTTCAATG
Statistics
Matches: 83, Mismatches: 20, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
53 17 0.20
54 66 0.80
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.41
Consensus pattern (53 bp):
TAAAATGATATTTTTCCCTTATGAGGTAAAATGACTATTTTGCCCTTATGAGG
Found at i:95623401 original size:81 final size:80
Alignment explanation
Indices: 95623266--95623427 Score: 218
Period size: 81 Copynumber: 2.0 Consensus size: 80
95623256 CCTGAATCGA
** * *
95623266 TAAAATGAGTATTTTTCCCTTATGAAGTAAAATGACTATTTTGCCCTTATGAGGTGAAATGACTG
1 TAAAATGACAATTTTTCCCCTATGAAGTAAAATGACTATTTTGCCCTTATGAGGT-AAATGACTC
95623331 TTTTGCCCTTATGTGG
65 TTTTGCCCTTATGTGG
** * *
95623347 TAAAATGACAATTTTTCCCCTATGCGGTAAAATGA-TAATTTTTCCCTTATGAGGTAAATGATTC
1 TAAAATGACAATTTTTCCCCTATGAAGTAAAATGACT-ATTTTGCCCTTATGAGGTAAATGACTC
*
95623411 TTTTGCTCTTATGTGG
65 TTTTGCCCTTATGTGG
95623427 T
1 T
95623428 TCAATGACTA
Statistics
Matches: 71, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
80 24 0.34
81 47 0.66
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.41
Consensus pattern (80 bp):
TAAAATGACAATTTTTCCCCTATGAAGTAAAATGACTATTTTGCCCTTATGAGGTAAATGACTCT
TTTGCCCTTATGTGG
Found at i:95623456 original size:80 final size:80
Alignment explanation
Indices: 95623292--95623462 Score: 175
Period size: 80 Copynumber: 2.1 Consensus size: 80
95623282 CCCTTATGAA
*
95623292 GTAAAATGACTATTTTGCCCTTATGAGGTGAAATGACTGTTTTGCCCTTATGTGGTAAAATGACA
1 GTAAAATGA-TATTTTGCCCTTATGAGGTGAAATGACTCTTTTGCCCTTATGTGGTAAAATGACA
** * **
95623357 ATTTTTCCCCTATGCG
65 ATAATGCCCCTACACG
* * * **
95623373 GTAAAATGATAATTTTTCCCTTATGAGGT-AAATGATTCTTTTGCTCTTATGTGGTTCAATGACT
1 GTAAAATGAT-ATTTTGCCCTTATGAGGTGAAATGACTCTTTTGCCCTTATGTGGTAAAATGAC-
* *
95623437 AA-AATGCCCTTACATG
64 AATAATGCCCCTACACG
*
95623453 GTAAATTGAT
1 GTAAAATGAT
95623463 TGTTTTACCC
Statistics
Matches: 74, Mismatches: 14, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
80 46 0.62
81 28 0.38
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.39
Consensus pattern (80 bp):
GTAAAATGATATTTTGCCCTTATGAGGTGAAATGACTCTTTTGCCCTTATGTGGTAAAATGACAA
TAATGCCCCTACACG
Found at i:95623855 original size:18 final size:18
Alignment explanation
Indices: 95623832--95623893 Score: 70
Period size: 18 Copynumber: 3.4 Consensus size: 18
95623822 GTTTAAACTG
*
95623832 TTACTGCACTGATTACTA
1 TTACTGCACTAATTACTA
*
95623850 TTACTGCACTAATTACTG
1 TTACTGCACTAATTACTA
** * *
95623868 TTACTGCTTTATTTACTG
1 TTACTGCACTAATTACTA
95623886 TTACTGCA
1 TTACTGCA
95623894 ATGGGCTAAG
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 38 1.00
ACGTcount: A:0.24, C:0.21, G:0.11, T:0.44
Consensus pattern (18 bp):
TTACTGCACTAATTACTA
Found at i:95628580 original size:939 final size:939
Alignment explanation
Indices: 95626586--95628569 Score: 3718
Period size: 939 Copynumber: 2.1 Consensus size: 939
95626576 AACACTCAAT
* * * * * *
95626586 ACCACCCATGTGACCTAGCCA-ATTTATCTCGTAGCTCTCTTGTCTACATGGTGTATACATGGTA
1 ACCACGCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGTATACATAGTA
95626650 TCACCCATGCGACCTAGCTACATCATAATGTCTTGTAGCTCTTTATTACACATTAAAATTTCTCC
66 TCACCCATGCGACCTAGCTACATCATAATGTCTTGTAGCTCTTTATTACACATTAAAATTTCTCC
95626715 TGTTTCACATTCTGACAGTTCTGACCTCTCTTCACTAAAAATTAATTATCTCACAGTACAGAACT
131 TGTTTCACATTCTGACAGTTCTGACCTCTCTTCACTAAAAATTAATTATCTCACAGTACAGAACT
95626780 CGGATAATGTTCTTGTCGATTTATCTTGAAAATAGACTCATTATAGATTTTAAAAATATAAGTTT
196 CGGATAATGTTCTTGTCGATTTATCTTGAAAATAGACTCATTATAGATTTTAAAAATATAAGTTT
95626845 AATCCTCTAATTATGTTTATCAAAATTTTTGTGATTTTCTAAAGTTAGAACAGGGGATCACGTAA
261 AATCCTCTAATTATGTTTATCAAAATTTTTGTGATTTTCTAAAGTTAGAACAGGGGATCACGTAA
95626910 TCATTCTGAACTAGTCTCACAAAAACATAAATATCTCAAAATATAGAACTTCTTTTCTTTATCTG
326 TCATTCTGAACTAGTCTCACAAAAACATAAATATCTCAAAATATAGAACTTCTTTTCTTTATCTG
* *
95626975 TTTCTTTTATATGAAAATAGACTCATTAAGATTTAATTTGATATCTTATTAAGTCTCTGATTCAA
391 TTTCTTTTATATGAAAATAGACTCATTAAGATTTAATTTAATATCTCATTAAGTCTCTGATTCAA
* *
95627040 TTTCTACTATTTTTGGTGATTTTTCAAAATCACGTCACTGCTACTGTCCAAAACAGTTTTATTGC
456 TTTCTACTAGTTTTGGTGATTTTTCAAAATCACGTCACTACTACTGTCCAAAACAGTTTTATTGC
*
95627105 TAATTCACTCTTTCACACTTTCTTTGTATTAACCTCATTTTAACATACATATCACAAATCATTTT
521 TAATTCACTATTTCACACTTTCTTTGTATTAACCTCATTTTAACATACATATCACAAATCATTTT
95627170 CACAACATTTCATACATCACAAGTATAGACCCATGATCACAAGGTCACCATAAAATCACCCTCAT
586 CACAACATTTCATACATCACAAGTATAGACCCATGATCACAAGGTCACCATAAAATCACCCTCAT
*
95627235 TTATAACTTACTTGTTTATAACCTTACCACATCCTGGTCACTTAATGAACATATCATTCACATAA
651 TTATAACTTACTTGTTTATAACCTTACCACATCCTGGTCACTTAATGAAAATATCATTCACATAA
95627300 CCAAGTTCCTGCACTTATTCATCACAAAACTCACAAAGCAATACATTGAGAGTCTCCAGTTGAAC
716 CCAAGTTCCTGCACTTATTCATCACAAAACTCACAAAGCAATACATTGAGAGTCTCCAGTTGAAC
*
95627365 ACTTCGGATCAATCCTCGATACTTGGTGGTTTCAGCACATAGCTCCACCCATCATATAGTTCGAC
781 ACTTCGGATCAATCCTCGATACTTGGTGGTTTCAGCACATAGCTCCACCCATCATAGAGTTCGAC
*
95627430 TCTCTTGTACACATGGTGAACACTCAGTACCACCCGTGTGACCTAGCCAATTTATCTCGTAGCTC
846 TCTCTTGTACACATGGTGAACACTCAGTACCACCCATGTGACCTAGCCAATTTATCTCGTAGCTC
95627495 TCTTGTCTACATGGTGTCCTTCACCTGGA
911 TCTTGTCTACATGGTGTCCTTCACCTGGA
95627524 ACCACGCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGTATACATAGTA
1 ACCACGCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGTATACATAGTA
95627589 TCACCCATGCGACCTAGCTACATCATAATGTCTTGTAGCTCTTTATTACACATTAAAATTTCTCC
66 TCACCCATGCGACCTAGCTACATCATAATGTCTTGTAGCTCTTTATTACACATTAAAATTTCTCC
95627654 TGTTTCACATTCTGACAGTTCTGACCTCTCTTCACTAAAAATTAATTATCTCACAGTACAGAACT
131 TGTTTCACATTCTGACAGTTCTGACCTCTCTTCACTAAAAATTAATTATCTCACAGTACAGAACT
95627719 CGGATAATGTTCTTGTCGATTTATCTTGAAAATAGACTCATTATAGATTTTAAAAATATAAGTTT
196 CGGATAATGTTCTTGTCGATTTATCTTGAAAATAGACTCATTATAGATTTTAAAAATATAAGTTT
95627784 AATCCTCTAATTATGTTTATCAAAATTTTTGTGATTTTCTAAAGTTAGAACAGGGGATCACGTAA
261 AATCCTCTAATTATGTTTATCAAAATTTTTGTGATTTTCTAAAGTTAGAACAGGGGATCACGTAA
95627849 TCATTCTGAACTAGTCTCACAAAAACATAAATATCTCAAAATATAGAACTTCTTTTCTTTATCTG
326 TCATTCTGAACTAGTCTCACAAAAACATAAATATCTCAAAATATAGAACTTCTTTTCTTTATCTG
* *
95627914 TTTCTTTTATATGAAAATAGACTCATTAAGTTTTAATTTAATATCTCATTCAGTCTCTGATTCAA
391 TTTCTTTTATATGAAAATAGACTCATTAAGATTTAATTTAATATCTCATTAAGTCTCTGATTCAA
*
95627979 TTTCTACTAGTTTTGGTGATTTTTCAAAATCATGTCACTACTACTGTCCAAAACAGTTTTATTGC
456 TTTCTACTAGTTTTGGTGATTTTTCAAAATCACGTCACTACTACTGTCCAAAACAGTTTTATTGC
*
95628044 TAATTCACTATTTCACACTTTTTTTGTATTAACCTCATTTTAACATACATATCACAAATCATTTT
521 TAATTCACTATTTCACACTTTCTTTGTATTAACCTCATTTTAACATACATATCACAAATCATTTT
* *
95628109 CACCACATTTCATACATCACAAGTATAGGCCCATGATCACAAGGTCACCATAAAATCACCCTCAT
586 CACAACATTTCATACATCACAAGTATAGACCCATGATCACAAGGTCACCATAAAATCACCCTCAT
95628174 TTATAACTTACTTGTTTATAACCTTACCACATCCTGGTCACTTAATGAAAATATCATTCACATAA
651 TTATAACTTACTTGTTTATAACCTTACCACATCCTGGTCACTTAATGAAAATATCATTCACATAA
95628239 CCAAGTTCCTGCACTTATTCATCACAAAACTCACAAAGCAATACATTGAGAGTCTCCAGTTGAAC
716 CCAAGTTCCTGCACTTATTCATCACAAAACTCACAAAGCAATACATTGAGAGTCTCCAGTTGAAC
* *
95628304 ACTTCGGATCAATCCTCGATACTTGGTGGTTTCAGCACATAGCTCCACCCATCGTAGAGTTCGGC
781 ACTTCGGATCAATCCTCGATACTTGGTGGTTTCAGCACATAGCTCCACCCATCATAGAGTTCGAC
*
95628369 TCTCTTGTACACATGGTGAACACTCAGTACCACCCATGTGACCTAGCCAATTTATCTCGTAGTTC
846 TCTCTTGTACACATGGTGAACACTCAGTACCACCCATGTGACCTAGCCAATTTATCTCGTAGCTC
*
95628434 TTTTGTCTACATGGTGTCCTTCACCTGGA
911 TCTTGTCTACATGGTGTCCTTCACCTGGA
* * *
95628463 GCCACGCATGCGACCTAGCTACATATATCCTGTAGCTCTCTTGTCTACATGGTGTACACATAGTA
1 ACCACGCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGTATACATAGTA
95628528 TCACCCATGCGACCTAGCTACATCATAATGTCTTGTAGCTCT
66 TCACCCATGCGACCTAGCTACATCATAATGTCTTGTAGCTCT
95628570 CTTGTACACA
Statistics
Matches: 1018, Mismatches: 27, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
938 18 0.02
939 1000 0.98
ACGTcount: A:0.30, C:0.23, G:0.12, T:0.35
Consensus pattern (939 bp):
ACCACGCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGTATACATAGTA
TCACCCATGCGACCTAGCTACATCATAATGTCTTGTAGCTCTTTATTACACATTAAAATTTCTCC
TGTTTCACATTCTGACAGTTCTGACCTCTCTTCACTAAAAATTAATTATCTCACAGTACAGAACT
CGGATAATGTTCTTGTCGATTTATCTTGAAAATAGACTCATTATAGATTTTAAAAATATAAGTTT
AATCCTCTAATTATGTTTATCAAAATTTTTGTGATTTTCTAAAGTTAGAACAGGGGATCACGTAA
TCATTCTGAACTAGTCTCACAAAAACATAAATATCTCAAAATATAGAACTTCTTTTCTTTATCTG
TTTCTTTTATATGAAAATAGACTCATTAAGATTTAATTTAATATCTCATTAAGTCTCTGATTCAA
TTTCTACTAGTTTTGGTGATTTTTCAAAATCACGTCACTACTACTGTCCAAAACAGTTTTATTGC
TAATTCACTATTTCACACTTTCTTTGTATTAACCTCATTTTAACATACATATCACAAATCATTTT
CACAACATTTCATACATCACAAGTATAGACCCATGATCACAAGGTCACCATAAAATCACCCTCAT
TTATAACTTACTTGTTTATAACCTTACCACATCCTGGTCACTTAATGAAAATATCATTCACATAA
CCAAGTTCCTGCACTTATTCATCACAAAACTCACAAAGCAATACATTGAGAGTCTCCAGTTGAAC
ACTTCGGATCAATCCTCGATACTTGGTGGTTTCAGCACATAGCTCCACCCATCATAGAGTTCGAC
TCTCTTGTACACATGGTGAACACTCAGTACCACCCATGTGACCTAGCCAATTTATCTCGTAGCTC
TCTTGTCTACATGGTGTCCTTCACCTGGA
Found at i:95634635 original size:39 final size:40
Alignment explanation
Indices: 95634592--95634719 Score: 159
Period size: 40 Copynumber: 3.2 Consensus size: 40
95634582 CTCGTTCAAG
* * *
95634592 TGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AA
1 TGCCTTCGGGACATAACCCGGATTTAGTAACTCGCACAAA
* ** *
95634631 TGCCTTCGGGACATAACCCGGATTCAACAACTCGCACGAA
1 TGCCTTCGGGACATAACCCGGATTTAGTAACTCGCACAAA
* *
95634671 TGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAA
1 TGCCTTCGGGACATAACCCGGATTTAGTAACTCGCACAAA
*
95634711 GGCCTTCGG
1 TGCCTTCGG
95634720 ATCTTAGTCC
Statistics
Matches: 75, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
39 31 0.41
40 44 0.59
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.23
Consensus pattern (40 bp):
TGCCTTCGGGACATAACCCGGATTTAGTAACTCGCACAAA
Found at i:95634688 original size:40 final size:39
Alignment explanation
Indices: 95634592--95634694 Score: 134
Period size: 39 Copynumber: 2.6 Consensus size: 39
95634582 CTCGTTCAAG
* * * **
95634592 TGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAA
1 TGCCTTCGGGACATAACCCGGATTCAACAACTCACACAA
*
95634631 TGCCTTCGGGACATAACCCGGATTCAACAACTCGCACGAA
1 TGCCTTCGGGACATAACCCGGATTCAACAACTCACAC-AA
*
95634671 TGCCTTCGGGACTTAACCCGGATT
1 TGCCTTCGGGACATAACCCGGATT
95634695 TAGTATCTCG
Statistics
Matches: 56, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
39 31 0.55
40 25 0.45
ACGTcount: A:0.25, C:0.30, G:0.21, T:0.23
Consensus pattern (39 bp):
TGCCTTCGGGACATAACCCGGATTCAACAACTCACACAA
Found at i:95634781 original size:41 final size:41
Alignment explanation
Indices: 95634704--95634781 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
95634694 TTAGTATCTC
* * *
95634704 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
95634745 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
95634782 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:95635108 original size:51 final size:50
Alignment explanation
Indices: 95635033--95635134 Score: 195
Period size: 51 Copynumber: 2.0 Consensus size: 50
95635023 AATAAATTGA
95635033 TTTCATCATTTAGGCATCAAAAGATGAACACAAGGCACTTAGCCCATATT
1 TTTCATCATTTAGGCATCAAAAGATGAACACAAGGCACTTAGCCCATATT
95635083 TTTCATCATTTTAGGCATCAAAAGATGAACACAAGGCACTTAGCCCATATT
1 TTTCATCA-TTTAGGCATCAAAAGATGAACACAAGGCACTTAGCCCATATT
95635134 T
1 T
95635135 ATACATTAGA
Statistics
Matches: 51, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
50 8 0.16
51 43 0.84
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (50 bp):
TTTCATCATTTAGGCATCAAAAGATGAACACAAGGCACTTAGCCCATATT
Found at i:95636377 original size:46 final size:47
Alignment explanation
Indices: 95636246--95636504 Score: 216
Period size: 46 Copynumber: 5.5 Consensus size: 47
95636236 AAGTCAATGC
**
95636246 CATGTCCCAGACATGGTCTTACACAAGCTCTCGCA-CATCCGT--GCCGATG
1 CATGTCCCAGACAT-GTCTTACACTGGCTCT--CATC-T-CGTAGGCCGATG
* * *
95636295 CCATGTCCCAAACATGGTCTTACACT-G-ACACATCTCGTA-GCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTCTCATCTCGTAGGCCGATG
* *
95636341 CATGTCCTAGACATGTCTTACACTGGCT-TACCTCTCG-AGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTCT-CATCTCGTAGGCCGATG
* * * * *
95636387 CATGTCCTAGACATGTCTTACACTAGCTCTCGTCTC-AATGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTCTCATCTCGTAGGCCGATG
*
95636433 CCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GT-GGCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTCTCAT-CTCGTAGGCCGATG
*
95636481 CATTTCCCAGACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
95636505 AGCGCACAAA
Statistics
Matches: 178, Mismatches: 19, Indels: 28
0.79 0.08 0.12
Matches are distributed among these distances:
44 10 0.06
45 17 0.10
46 73 0.41
47 28 0.16
48 25 0.14
49 2 0.01
50 23 0.13
ACGTcount: A:0.22, C:0.32, G:0.19, T:0.27
Consensus pattern (47 bp):
CATGTCCCAGACATGTCTTACACTGGCTCTCATCTCGTAGGCCGATG
Found at i:95636455 original size:94 final size:92
Alignment explanation
Indices: 95636194--95636507 Score: 248
Period size: 94 Copynumber: 3.3 Consensus size: 92
95636184 GTATAATGCA
* * * *
95636194 GATGACATGCCCCAGACATGGTCTTACACT-G-GCTCGTCCATCAA-GTCAATGCCATGTCCCAG
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCGT-C-TCAATGCCGATG-CATGTCCCAG
** ** **
95636256 ACATGGTCTTACACAAGCTCTCGCACATCCGTGCC
61 ACAT-GTCTTACACTGGCTCTCATA-ATGAG-GCC
* * * * * *
95636291 GATGCCATGTCCCAAACATGGTCTTACACT-G-ACACATCTC-GTAGCCGATGCATGTCCTAGAC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCGTCTCAAT-GCCGATGCATGTCCCAGAC
* *
95636353 ATGTCTTACACTGGCT-TACCT-CTCGAGGCC
63 ATGTCTTACACTGGCTCT-CATAAT-GAGGCC
*
95636383 GATGCATGTCCTAGACATGTCTTACACTAGCTCTCGTCTCAATGCCGATGCCATGTCCCAGACAT
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGCCGATG-CATGTCCCAGACAT
*
95636448 GGTCTTACACTGGCTCTCATAATGTGGCC
65 -GTCTTACACTGGCTCTCATAATGAGGCC
*
95636477 GATGCATTTCCCAGACATGTCTTACACTAGC
1 GATGCATGTCCCAGACATGTCTTACACTAGC
95636508 GCACAAATGA
Statistics
Matches: 177, Mismatches: 29, Indels: 25
0.77 0.13 0.11
Matches are distributed among these distances:
90 10 0.06
91 13 0.07
92 21 0.12
93 16 0.09
94 63 0.36
95 17 0.10
96 6 0.03
97 31 0.18
ACGTcount: A:0.23, C:0.32, G:0.19, T:0.26
Consensus pattern (92 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGCCGATGCATGTCCCAGACATG
TCTTACACTGGCTCTCATAATGAGGCC
Found at i:95636495 original size:140 final size:141
Alignment explanation
Indices: 95636246--95636504 Score: 355
Period size: 140 Copynumber: 1.8 Consensus size: 141
95636236 AAGTCAATGC
**
95636246 CATGTCCCAGACATGGTCTTACACAAGCTCTCGCACATCCGTGCCGATGCCATGTCCCAAACATG
1 CATGTCCCAGACATGGTCTTACACAAGCTCTCGCACATCAATGCCGATGCCATGTCCCAAACATG
*
95636311 GTCTTACACTGACACATCTCGTAGCCGATGCATGTCCTAGACATGTCTTACACTGGCTTACCTCT
66 GTCTTACACTGACACATCTCGTAGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACCTCT
95636376 CGAGGCCGATG
131 CGAGGCCGATG
* * * *
95636387 CATGTCCTAGACAT-GTCTTACACTAGCTCTCG-TC-TCAATGCCGATGCCATGTCCCAGACATG
1 CATGTCCCAGACATGGTCTTACACAAGCTCTCGCACATCAATGCCGATGCCATGTCCCAAACATG
* * * * *
95636449 GTCTTACACTGGCTC-TCATAATGTGGCCGATGCATTTCCCAGACATGTCTTACACT
66 GTCTTACACTGACACATC-T--CGTAGCCGATGCATGTCCCAGACATGTCTTACACT
95636505 AGCGCACAAA
Statistics
Matches: 103, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
137 2 0.02
138 39 0.38
139 1 0.01
140 48 0.47
141 13 0.13
ACGTcount: A:0.22, C:0.32, G:0.19, T:0.27
Consensus pattern (141 bp):
CATGTCCCAGACATGGTCTTACACAAGCTCTCGCACATCAATGCCGATGCCATGTCCCAAACATG
GTCTTACACTGACACATCTCGTAGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACCTCT
CGAGGCCGATG
Found at i:95637231 original size:13 final size:13
Alignment explanation
Indices: 95637213--95637237 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
95637203 CTAAAAGTGC
95637213 AAAAATCATCAAG
1 AAAAATCATCAAG
95637226 AAAAATCATCAA
1 AAAAATCATCAA
95637238 AACACTTGTA
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:0.64, C:0.16, G:0.04, T:0.16
Consensus pattern (13 bp):
AAAAATCATCAAG
Found at i:95643894 original size:46 final size:46
Alignment explanation
Indices: 95643838--95644005 Score: 167
Period size: 46 Copynumber: 3.6 Consensus size: 46
95643828 TCTCGTAGCA
*
95643838 GATGCATGTCCCAGACATGTCTTACACTGGCT-TACCTCTTGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCT-CATCTTGAGGCC
* * * * ** *
95643884 GATGCATGTCCTACACATGTCTTACACTAGCTCTCGTCTCAATGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTTGAGGCC
* * ** *
95643930 GATGCCATGTCTCAGACATGGTCTTACACTGTCTCTCATAATGTGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATCTTGAGGCC
* *
95643978 AATGCATGTCCTAGACATGTCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
95644006 AGCACACAAA
Statistics
Matches: 97, Mismatches: 22, Indels: 6
0.78 0.18 0.05
Matches are distributed among these distances:
46 51 0.53
47 24 0.25
48 22 0.23
ACGTcount: A:0.22, C:0.29, G:0.18, T:0.30
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTTGAGGCC
Found at i:95643957 original size:94 final size:92
Alignment explanation
Indices: 95643838--95644008 Score: 236
Period size: 94 Copynumber: 1.8 Consensus size: 92
95643828 TCTCGTAGCA
* ** *
95643838 GATGCATGTCCCAGACATGTCTTACACTGGCT-TACCTCTTGAGGCCGATGCATGTCCTACACAT
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCT-CATAATGAGGCCAATGCATGTCCTACACAT
95643902 GTCTTACACTAGCTCTCGTCTCAATGCC
65 GTCTTACACTAGCTCTCGTCTCAATGCC
* * * *
95643930 GATGCCATGTCTCAGACATGGTCTTACACTGTCTCTCATAATGTGGCCAATGCATGTCCTAGACA
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATAATGAGGCCAATGCATGTCCTACACA
95643995 TGTCTTACACTAGC
64 TGTCTTACACTAGC
95644009 ACACAAATGA
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
92 4 0.06
93 13 0.19
94 50 0.74
95 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.19, T:0.30
Consensus pattern (92 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATAATGAGGCCAATGCATGTCCTACACATG
TCTTACACTAGCTCTCGTCTCAATGCC
Found at i:95643966 original size:48 final size:47
Alignment explanation
Indices: 95643592--95643966 Score: 200
Period size: 46 Copynumber: 7.9 Consensus size: 47
95643582 CATAGGGTAT
* * *
95643592 AATGCCGATGCCATATCTCAGACATGGTCTTACACTG-GCTCGTCCATC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGCTCTCGT-C-TC
* * * * ***
95643640 AA-GTCGATGCCATGTCCCAAACATGGCCTTACACTGACTATCAAAATC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTG-CTCTC-GTCTC
* * * *
95643688 GAGGCCGACGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGCACATC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACT-GCTCTCG-TC-TC
** * * * *
95643738 CGTGCCAATGCCATGTCCCAGACATTGTCTTACACTAACAC-C-TCT-
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACT-GCTCTCGTCTC
* * * * *
95643783 ATATGTGCAGATGCCATGT-CCTGAACATGGTCTTACACTG-ACACATCTC
1 A-A--TGCCGATGCCATGTCCCAG-ACATGGTCTTACACTGCTCTCGTCTC
* * * *
95643832 -GTAGCAGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TACCTCTT
1 AAT-GCCGATGCCATGTCCCAGACATGGTCTTACACT-GCTCT-CGTCTC
* * * *
95643878 GAGGCCGATG-CATGTCCTACACAT-GTCTTACACTAGCTCTCGTCTC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACT-GCTCTCGTCTC
*
95643924 AATGCCGATGCCATGTCTCAGACATGGTCTTACACTGTCTCTC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTG-CTCTC
95643967 ATAATGTGGC
Statistics
Matches: 250, Mismatches: 53, Indels: 48
0.71 0.15 0.14
Matches are distributed among these distances:
44 10 0.04
45 11 0.04
46 60 0.24
47 47 0.19
48 49 0.20
49 37 0.15
50 36 0.14
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (47 bp):
AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGCTCTCGTCTC
Found at i:95644729 original size:13 final size:13
Alignment explanation
Indices: 95644711--95644735 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
95644701 CTAAAAGTGC
95644711 AAAAATCATCAAG
1 AAAAATCATCAAG
95644724 AAAAATCATCAA
1 AAAAATCATCAA
95644736 AATCTCTTTC
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:0.64, C:0.16, G:0.04, T:0.16
Consensus pattern (13 bp):
AAAAATCATCAAG
Found at i:95645425 original size:23 final size:23
Alignment explanation
Indices: 95645399--95645458 Score: 56
Period size: 22 Copynumber: 2.7 Consensus size: 23
95645389 AATAATTTCT
*
95645399 TCATTTCTTCTTCATTTCCTTCC
1 TCATTTCTTCTTCATTTCCGTCC
* *
95645422 TCATCTTC-ACTGC-TTTCCGTCC
1 TCAT-TTCTTCTTCATTTCCGTCC
95645444 -CATTTCTTC-TCATTT
1 TCATTTCTTCTTCATTT
95645459 TATTCACTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 8
0.69 0.12 0.19
Matches are distributed among these distances:
20 4 0.14
21 7 0.24
22 8 0.28
23 7 0.24
24 3 0.10
ACGTcount: A:0.10, C:0.35, G:0.03, T:0.52
Consensus pattern (23 bp):
TCATTTCTTCTTCATTTCCGTCC
Found at i:95646957 original size:56 final size:56
Alignment explanation
Indices: 95646871--95647046 Score: 334
Period size: 56 Copynumber: 3.1 Consensus size: 56
95646861 ACAAGGGATG
*
95646871 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATCAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
95646927 ATGGGCAAAACATGTCATCAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATCAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
95646983 ATGGGCAAAACATGTCATCAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATCAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
95647039 ATGGGCAA
1 ATGGGCAA
95647047 TAAACTAATA
Statistics
Matches: 118, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 118 1.00
ACGTcount: A:0.45, C:0.10, G:0.22, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATCAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:95647081 original size:112 final size:112
Alignment explanation
Indices: 95646871--95647086 Score: 251
Period size: 112 Copynumber: 1.9 Consensus size: 112
95646861 ACAAGGGATG
*
95646871 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGCATGGGCAAA
1 ATGGGCAAAACATGTCATCAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGCATGGGCAAA
* * * ** ** *** *
95646936 ACATGTCATCAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
66 ACATCTAATCAAAAATGAAGTGAGAAAACAAAAAAAAAATAAGAAGC
*
95646983 ATGGGCAAAACATGTCATCAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGCATGGGCAAT
1 ATGGGCAAAACATGTCATCAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGCATGGGCAA-
95647048 AA-A-CTAAT-AAGAAATGGAAG-GAAGAAAACAAAAAAAAAA
65 AACATCTAATCAA-AAAT-GAAGTG-AGAAAACAAAAAAAAAA
95647087 AANNNNNNNN
Statistics
Matches: 87, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
110 2 0.02
111 7 0.08
112 76 0.87
113 2 0.02
ACGTcount: A:0.50, C:0.09, G:0.20, T:0.20
Consensus pattern (112 bp):
ATGGGCAAAACATGTCATCAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGCATGGGCAAA
ACATCTAATCAAAAATGAAGTGAGAAAACAAAAAAAAAATAAGAAGC
Found at i:95653660 original size:56 final size:56
Alignment explanation
Indices: 95653574--95653917 Score: 688
Period size: 56 Copynumber: 6.1 Consensus size: 56
95653564 ACAAGGGATG
95653574 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
95653630 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
95653686 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
95653742 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
95653798 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
95653854 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
95653910 ATGGGCAA
1 ATGGGCAA
95653918 TAAACTAATA
Statistics
Matches: 288, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 288 1.00
ACGTcount: A:0.44, C:0.09, G:0.24, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
Found at i:95663939 original size:19 final size:19
Alignment explanation
Indices: 95663917--95663972 Score: 52
Period size: 19 Copynumber: 3.3 Consensus size: 19
95663907 AGTAAAATTT
95663917 TGGAGGGAAAATAAATGGG
1 TGGAGGGAAAATAAATGGG
* *
95663936 TGGA-GTAAAAT---T--T
1 TGGAGGGAAAATAAATGGG
95663949 TGGAGGGAAAATAAATGGG
1 TGGAGGGAAAATAAATGGG
95663968 TGGAG
1 TGGAG
95663973 TAAAAAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 12
0.63 0.09 0.28
Matches are distributed among these distances:
13 4 0.15
14 6 0.22
15 1 0.04
17 1 0.04
18 6 0.22
19 9 0.33
ACGTcount: A:0.39, C:0.00, G:0.39, T:0.21
Consensus pattern (19 bp):
TGGAGGGAAAATAAATGGG
Found at i:95663943 original size:32 final size:32
Alignment explanation
Indices: 95663907--95663977 Score: 142
Period size: 32 Copynumber: 2.2 Consensus size: 32
95663897 GGGTTAAGGA
95663907 AGTAAAATTTTGGAGGGAAAATAAATGGGTGG
1 AGTAAAATTTTGGAGGGAAAATAAATGGGTGG
95663939 AGTAAAATTTTGGAGGGAAAATAAATGGGTGG
1 AGTAAAATTTTGGAGGGAAAATAAATGGGTGG
95663971 AGTAAAA
1 AGTAAAA
95663978 AAAAATTAGG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.44, C:0.00, G:0.32, T:0.24
Consensus pattern (32 bp):
AGTAAAATTTTGGAGGGAAAATAAATGGGTGG
Found at i:95664049 original size:18 final size:18
Alignment explanation
Indices: 95664026--95664091 Score: 56
Period size: 18 Copynumber: 4.0 Consensus size: 18
95664016 TGGGATACGA
95664026 GGGGAATAAAAGTTTTGG
1 GGGGAATAAAAGTTTTGG
95664044 GGGGAAT----G---TGG
1 GGGGAATAAAAGTTTTGG
*
95664055 GAGGGAATAAAAGTTTTAG
1 G-GGGAATAAAAGTTTTGG
*
95664074 AGGGAATAAAAGTTTTGG
1 GGGGAATAAAAGTTTTGG
95664092 AGGAAAGTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 16
0.66 0.05 0.29
Matches are distributed among these distances:
11 4 0.11
12 6 0.16
14 1 0.03
16 1 0.03
18 23 0.62
19 2 0.05
ACGTcount: A:0.35, C:0.00, G:0.39, T:0.26
Consensus pattern (18 bp):
GGGGAATAAAAGTTTTGG
Found at i:95664094 original size:18 final size:18
Alignment explanation
Indices: 95664054--95664094 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
95664044 GGGGAATGTG
95664054 GGAGGGAATAAAAGTTTT
1 GGAGGGAATAAAAGTTTT
*
95664072 AGAGGGAATAAAAGTTTT
1 GGAGGGAATAAAAGTTTT
95664090 GGAGG
1 GGAGG
95664095 AAAGTAAAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.39, C:0.00, G:0.37, T:0.24
Consensus pattern (18 bp):
GGAGGGAATAAAAGTTTT
Found at i:95664103 original size:18 final size:18
Alignment explanation
Indices: 95664055--95664102 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
95664045 GGGAATGTGG
*
95664055 GAGGGAATAAAAGTTTTA
1 GAGGAAATAAAAGTTTTA
* *
95664073 GAGGGAATAAAAGTTTTG
1 GAGGAAATAAAAGTTTTA
95664091 GAGGAAAGTAAA
1 GAGGAAA-TAAA
95664103 GAAATTTGGG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
18 23 0.85
19 4 0.15
ACGTcount: A:0.46, C:0.00, G:0.31, T:0.23
Consensus pattern (18 bp):
GAGGAAATAAAAGTTTTA
Found at i:95667271 original size:16 final size:17
Alignment explanation
Indices: 95667250--95667282 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
95667240 AATAATTCTG
*
95667250 AATTCATTTGT-AAATT
1 AATTCACTTGTGAAATT
95667266 AATTCACTTGTGAAATT
1 AATTCACTTGTGAAATT
95667283 CATGGTGTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.36, C:0.09, G:0.09, T:0.45
Consensus pattern (17 bp):
AATTCACTTGTGAAATT
Found at i:95673398 original size:43 final size:43
Alignment explanation
Indices: 95673350--95673466 Score: 146
Period size: 43 Copynumber: 2.7 Consensus size: 43
95673340 AGTGAATGTG
*
95673350 ATGGAATGGATTTAGCCCAAACAGGTAATCCATTGATCTCAGT
1 ATGGAATGGATTTAGCCCAAACGGGTAATCCATTGATCTCAGT
* *
95673393 ATGGAATGGATTTAGCCCGGAA-GGGTAATCCATTGATTTCAGT
1 ATGGAATGGATTTAGCCC-AAACGGGTAATCCATTGATCTCAGT
** * * *
95673436 ATATAAAGAATTTAGCCCATACGGGTAATCC
1 ATGGAATGGATTTAGCCCAAACGGGTAATCC
95673467 CGAGTTGAAC
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
42 1 0.02
43 60 0.95
44 2 0.03
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.28
Consensus pattern (43 bp):
ATGGAATGGATTTAGCCCAAACGGGTAATCCATTGATCTCAGT
Found at i:95673608 original size:146 final size:144
Alignment explanation
Indices: 95673300--95673612 Score: 380
Period size: 146 Copynumber: 2.2 Consensus size: 144
95673290 TGTAAAATAC
* * * *
95673300 GATTTAGCCTGGATGGGTAATCCCGAGTTAAACTCTCTCAAGTGAATGTGATGGAATGGATTTAG
1 GATTTAGCCCGGATGGGTAATCCCGAGTTAAACTCTCTCAAGTAAATATGATAGAATGGATTTAG
* **
95673365 CCCAAACAGGTAATCCATTGATCTCAGTATGGAATGGATTTAGCCCGGAAGGGTAATCCATTGAT
66 CCCAAACAGGTAATCCATTGATCTCAGTATGGAAAGGATTTAGCCCGGAAGGGTAATCCATCAAT
*
95673430 TTCAGTATATAAAG
131 CTCAGTATATAAAG
* ** * *
95673444 AATTTAGCCCATACGGGTAATCCCGAGTTGAACTTCCTCTCGAA-TAAATATGATAGAATGGATT
1 GATTTAGCCCGGATGGGTAATCCCGAGTTAAAC-T-CTCTC-AAGTAAATATGATAGAATGGATT
* * * * * *
95673508 TAGCCCAAACGGGTAATCCATTGGT-TTA-TATTGTAAAGGATTTAGCCTGGGACGGGTAATCCA
63 TAGCCCAAACAGGTAATCCATTGATCTCAGTA-TGGAAAGGATTTAGCC-CGGAAGGGTAATCCA
*
95673571 TCAATCTCTGTATATAAAG
126 TCAATCTCAGTATATAAAG
95673590 GATTTAGCCCGGATGGGTAATCC
1 GATTTAGCCCGGATGGGTAATCC
95673613 TAATTGACTA
Statistics
Matches: 140, Mismatches: 24, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
144 29 0.21
145 17 0.12
146 92 0.66
147 2 0.01
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.29
Consensus pattern (144 bp):
GATTTAGCCCGGATGGGTAATCCCGAGTTAAACTCTCTCAAGTAAATATGATAGAATGGATTTAG
CCCAAACAGGTAATCCATTGATCTCAGTATGGAAAGGATTTAGCCCGGAAGGGTAATCCATCAAT
CTCAGTATATAAAG
Found at i:95678408 original size:18 final size:18
Alignment explanation
Indices: 95678385--95678438 Score: 108
Period size: 18 Copynumber: 3.0 Consensus size: 18
95678375 TGAGACAGAG
95678385 TCAGAATGAATTCGGATT
1 TCAGAATGAATTCGGATT
95678403 TCAGAATGAATTCGGATT
1 TCAGAATGAATTCGGATT
95678421 TCAGAATGAATTCGGATT
1 TCAGAATGAATTCGGATT
95678439 CCCCTATTCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.33, C:0.11, G:0.22, T:0.33
Consensus pattern (18 bp):
TCAGAATGAATTCGGATT
Found at i:95686153 original size:29 final size:30
Alignment explanation
Indices: 95686100--95686172 Score: 78
Period size: 31 Copynumber: 2.4 Consensus size: 30
95686090 GTTTCATATA
* *
95686100 ATATATAATATATACGTATAGGG-GTTGTATT
1 ATATATAATATATACGCATAGGGTGGT-TA-T
*
95686131 ATATATAATATATAGGCAT-GGGTGGTTAT
1 ATATATAATATATACGCATAGGGTGGTTAT
*
95686160 ACATATAATATAT
1 ATATATAATATAT
95686173 TATGTGTGTG
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
29 13 0.35
30 5 0.14
31 19 0.51
ACGTcount: A:0.38, C:0.04, G:0.18, T:0.40
Consensus pattern (30 bp):
ATATATAATATATACGCATAGGGTGGTTAT
Done.