Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 106 of 425
Found at i:30859089 original size:93 final size:93
Alignment explanation
Indices: 30858977--30859147 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
30858967 GCCCATAAGT
* *
30858977 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
30859042 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
30859070 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
30859135 CGAGTTCGGATGC
66 CGAGTTCGGATGC
30859148 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:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:30859163 original size:46 final size:46
Alignment explanation
Indices: 30858969--30859149 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
30858959 TGTAACCCGC
* * *
30858969 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
30859015 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
30859065 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
30859108 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTC
30859150 AACCATCCTA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 72 0.62
47 32 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:30861097 original size:26 final size:26
Alignment explanation
Indices: 30861061--30861112 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
30861051 TCAGATGATG
30861061 CTCCTGTCTATTTCCCTTGAAAATAT
1 CTCCTGTCTATTTCCCTTGAAAATAT
30861087 CTCCTGTCTATTTCCCTTGAAAATAT
1 CTCCTGTCTATTTCCCTTGAAAATAT
30861113 ACTCATTAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.23, C:0.27, G:0.08, T:0.42
Consensus pattern (26 bp):
CTCCTGTCTATTTCCCTTGAAAATAT
Found at i:30863934 original size:15 final size:14
Alignment explanation
Indices: 30863909--30863943 Score: 61
Period size: 15 Copynumber: 2.4 Consensus size: 14
30863899 TTGACATTTG
30863909 TATTTTTTTTATAA
1 TATTTTTTTTATAA
30863923 TATTTATTTTTATAA
1 TATTT-TTTTTATAA
30863938 TATTTT
1 TATTTT
30863944 ACTATATCCC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 6 0.30
15 14 0.70
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (14 bp):
TATTTTTTTTATAA
Found at i:30866107 original size:19 final size:20
Alignment explanation
Indices: 30866072--30866113 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 20
30866062 ATTTAAACAT
30866072 TCAATTCACACAAAATT-AA
1 TCAATTCACACAAAATTCAA
*
30866091 TCAATTCATA-AACAATTCAA
1 TCAATTCACACAA-AATTCAA
30866111 TCA
1 TCA
30866114 CAATTAAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 2 0.10
19 13 0.65
20 5 0.25
ACGTcount: A:0.50, C:0.21, G:0.00, T:0.29
Consensus pattern (20 bp):
TCAATTCACACAAAATTCAA
Found at i:30867829 original size:46 final size:45
Alignment explanation
Indices: 30867776--30867951 Score: 203
Period size: 46 Copynumber: 3.8 Consensus size: 45
30867766 TGTTTGGGCA
30867776 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *** * *
30867822 TCTGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
30867869 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
30867915 GCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
30867952 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 68 0.62
47 31 0.28
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:30867931 original size:93 final size:93
Alignment explanation
Indices: 30867772--30867943 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
30867762 AGGATGTTTG
* * *
30867772 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGGCCGAACTCGTTGAG
30867837 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
30867865 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGGCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGGCCGAACTCGTTGAG
30867930 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
30867944 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.20, G:0.31, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGGCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:30872083 original size:29 final size:29
Alignment explanation
Indices: 30872041--30872098 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
30872031 TTATCGGTAC
30872041 ACAAATTTTGTTTCTGAACATTAAACAAT
1 ACAAATTTTGTTTCTGAACATTAAACAAT
30872070 ACAAATTTTGTTTCTGAACATTAAACAAT
1 ACAAATTTTGTTTCTGAACATTAAACAAT
30872099 CATCGGCTCC
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:0.41, C:0.14, G:0.07, T:0.38
Consensus pattern (29 bp):
ACAAATTTTGTTTCTGAACATTAAACAAT
Found at i:30888733 original size:93 final size:93
Alignment explanation
Indices: 30888616--30888792 Score: 270
Period size: 93 Copynumber: 1.9 Consensus size: 93
30888606 ATCTAGGGCT
* *
30888616 ATGCTATGTCCTAGACAGGTCTTACACT-GACTT-C-TATGCATCGAGGCTGATGCCATGTCTCA
1 ATGCCATGTCCTAGACAGGTCTTACACTAG-CTTGCATAT-C-TCGAGGCCGATGCCATGTCTCA
30888678 GACAGGTCTTACACTGACACACCTCAAGTCG
63 GACAGGTCTTACACTGACACACCTCAAGTCG
* *
30888709 ATGCCATGTCCTAGATAGGTCTTACACTAGCTTGCATATCTTGAGGCCGATGCCATGTCTCAGAC
1 ATGCCATGTCCTAGACAGGTCTTACACTAGCTTGCATATCTCGAGGCCGATGCCATGTCTCAGAC
30888774 AGGTCTTACACTGACACAC
66 AGGTCTTACACTGACACAC
30888793 ACATCACCCA
Statistics
Matches: 77, Mismatches: 4, Indels: 6
0.89 0.05 0.07
Matches are distributed among these distances:
93 71 0.92
94 3 0.04
95 3 0.04
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (93 bp):
ATGCCATGTCCTAGACAGGTCTTACACTAGCTTGCATATCTCGAGGCCGATGCCATGTCTCAGAC
AGGTCTTACACTGACACACCTCAAGTCG
Found at i:30891774 original size:30 final size:30
Alignment explanation
Indices: 30891738--30891798 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
30891728 GAAAGACTAA
30891738 AATGAATAAATTTCAATTCATGTTCAATTG
1 AATGAATAAATTTCAATTCATGTTCAATTG
30891768 AATGAATAAATTTCAATTCATGTTCAATTG
1 AATGAATAAATTTCAATTCATGTTCAATTG
30891798 A
1 A
30891799 TGTGTTTCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.39
Consensus pattern (30 bp):
AATGAATAAATTTCAATTCATGTTCAATTG
Found at i:30893801 original size:22 final size:22
Alignment explanation
Indices: 30893747--30893802 Score: 103
Period size: 22 Copynumber: 2.5 Consensus size: 22
30893737 CTTCAATGTT
*
30893747 GTGACACCCACGCTTTGGTGTC
1 GTGACACCCATGCTTTGGTGTC
30893769 GTGACACCCATGCTTTGGTGTC
1 GTGACACCCATGCTTTGGTGTC
30893791 GTGACACCCATG
1 GTGACACCCATG
30893803 GTAGTTGGCT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.16, C:0.30, G:0.27, T:0.27
Consensus pattern (22 bp):
GTGACACCCATGCTTTGGTGTC
Found at i:30894065 original size:32 final size:32
Alignment explanation
Indices: 30894001--30894065 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
30893991 CCAAATTCTA
* *
30894001 TATGTGTTTTTAGATTAGTAGACATTTGTTGT
1 TATGTGTTTTCAGATTAGTAGACATTTATTGT
**
30894033 TATGTGTTTTCAGATTAGTAGATGTTTATTGT
1 TATGTGTTTTCAGATTAGTAGACATTTATTGT
30894065 T
1 T
30894066 CTCGGGTTTC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.22, C:0.03, G:0.22, T:0.54
Consensus pattern (32 bp):
TATGTGTTTTCAGATTAGTAGACATTTATTGT
Found at i:30897040 original size:57 final size:57
Alignment explanation
Indices: 30896899--30897027 Score: 240
Period size: 57 Copynumber: 2.3 Consensus size: 57
30896889 GGAACACACT
*
30896899 CTTAATTAGGATTACTAGTCCAAGCTAAATCCTTTATATAACGAAAGCTCAAAAGAG
1 CTTAATTAGGATTACTAGTCCAGGCTAAATCCTTTATATAACGAAAGCTCAAAAGAG
*
30896956 CTCAATTAGGATTACTAGTCCAGGCTAAATCCTTTATATAACGAAAGCTCAAAAGAG
1 CTTAATTAGGATTACTAGTCCAGGCTAAATCCTTTATATAACGAAAGCTCAAAAGAG
30897013 CTTAATTAGGATTAC
1 CTTAATTAGGATTAC
30897028 CGGTCCTGGC
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
57 69 1.00
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.29
Consensus pattern (57 bp):
CTTAATTAGGATTACTAGTCCAGGCTAAATCCTTTATATAACGAAAGCTCAAAAGAG
Found at i:30898172 original size:16 final size:18
Alignment explanation
Indices: 30898146--30898180 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
30898136 GGACTTCTAG
30898146 ATTTGAATTC-TATAGCT
1 ATTTGAATTCTTATAGCT
30898163 ATTT-AATTCTTATAGCT
1 ATTTGAATTCTTATAGCT
30898180 A
1 A
30898181 CTAGAATTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.31, C:0.11, G:0.09, T:0.49
Consensus pattern (18 bp):
ATTTGAATTCTTATAGCT
Found at i:30901838 original size:40 final size:42
Alignment explanation
Indices: 30901792--30901882 Score: 123
Period size: 40 Copynumber: 2.2 Consensus size: 42
30901782 AAATCTTGTC
**
30901792 ATTATAATTTTAAGGTA-ATCTTCTATTAATTT-AAAAATAG
1 ATTATAATTTTAAAATATATCTTCTATTAATTTAAAAAATAG
*
30901832 ATTATAATTTTAAAATATTATTTTCTATTAATTTAAAAAATAG
1 ATTATAATTTTAAAATA-TATCTTCTATTAATTTAAAAAATAG
30901875 ATATATAA
1 AT-TATAA
30901883 ATATATTTTG
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
40 15 0.34
42 14 0.32
43 10 0.23
44 5 0.11
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.46
Consensus pattern (42 bp):
ATTATAATTTTAAAATATATCTTCTATTAATTTAAAAAATAG
Found at i:30901980 original size:2 final size:2
Alignment explanation
Indices: 30901973--30902012 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
30901963 AGACCCTGTA
30901973 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
30902013 GAAAAATATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:30913162 original size:29 final size:29
Alignment explanation
Indices: 30913129--30913289 Score: 259
Period size: 29 Copynumber: 5.6 Consensus size: 29
30913119 GTGACGAGAT
30913129 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
30913158 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
30913187 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
30913216 TGGCACTAAGTGTGCGTGCTGGAAATATT
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
** *
30913245 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* **
30913274 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
30913290 AGTTCGGAGG
Statistics
Matches: 123, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 123 1.00
ACGTcount: A:0.27, C:0.15, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:30924083 original size:29 final size:29
Alignment explanation
Indices: 30924050--30924210 Score: 259
Period size: 29 Copynumber: 5.6 Consensus size: 29
30924040 GTGACGAGAT
30924050 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
30924079 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
30924108 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
30924137 TGGCACTAAGTGTGCGTGCTGGAAATATT
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
** *
30924166 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* **
30924195 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
30924211 AGTTCGGAGG
Statistics
Matches: 123, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 123 1.00
ACGTcount: A:0.27, C:0.15, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:30935925 original size:20 final size:20
Alignment explanation
Indices: 30935892--30935946 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
30935882 ACATCAAAAC
* * *
30935892 TAAAAAGATGTAAAAAGTTA
1 TAAAAATATTTAAAAACTTA
*
30935912 TAAAAATATTT-AAAACTTG
1 TAAAAATATTTAAAAACTTA
30935931 TAAAAAATATTTAAAA
1 T-AAAAATATTTAAAA
30935947 CTGTTAAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 7 0.24
20 19 0.66
21 3 0.10
ACGTcount: A:0.60, C:0.02, G:0.07, T:0.31
Consensus pattern (20 bp):
TAAAAATATTTAAAAACTTA
Found at i:30935954 original size:20 final size:20
Alignment explanation
Indices: 30935908--30935954 Score: 69
Period size: 20 Copynumber: 2.3 Consensus size: 20
30935898 GATGTAAAAA
30935908 GTTATAAAAATATTTAAAACT
1 GTTA-AAAAATATTTAAAACT
30935929 -TGTAAAAAATATTTAAAACT
1 GT-TAAAAAATATTTAAAACT
30935949 GTTAAA
1 GTTAAA
30935955 TTTATAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
20 21 0.88
21 3 0.12
ACGTcount: A:0.53, C:0.04, G:0.06, T:0.36
Consensus pattern (20 bp):
GTTAAAAAATATTTAAAACT
Found at i:30935995 original size:31 final size:29
Alignment explanation
Indices: 30935932--30935995 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 29
30935922 TAAAACTTGT
*
30935932 AAAAAATATTTAAAACTGTTAAATTTATA
1 AAAAAATATTTAAAACTGTTAAATTTACA
*
30935961 AAAAAATATTTTAAAA-TTTATATAATTTACA
1 AAAAAATA-TTTAAAACTGT-TA-AATTTACA
30935992 AAAA
1 AAAA
30935996 TATAAAGCTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 10 0.33
30 9 0.30
31 11 0.37
ACGTcount: A:0.58, C:0.03, G:0.02, T:0.38
Consensus pattern (29 bp):
AAAAAATATTTAAAACTGTTAAATTTACA
Found at i:30936115 original size:18 final size:17
Alignment explanation
Indices: 30936094--30936130 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
30936084 AAGTTTTATG
*
30936094 TATTTTTAAATATTTTTA
1 TATTTTT-AATAATTTTA
30936112 TATTTTTAATAATTTTA
1 TATTTTTAATAATTTTA
30936129 TA
1 TA
30936131 ATATTCTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TATTTTTAATAATTTTA
Found at i:30939122 original size:16 final size:17
Alignment explanation
Indices: 30939097--30939135 Score: 62
Period size: 16 Copynumber: 2.3 Consensus size: 17
30939087 ATTTTATACT
30939097 TTTTTAAATAATTTTAA
1 TTTTTAAATAATTTTAA
30939114 TTTTT-AATAATTTTAA
1 TTTTTAAATAATTTTAA
30939130 TATTTT
1 T-TTTT
30939136 TAAAATTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 12 0.57
17 9 0.43
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TTTTTAAATAATTTTAA
Found at i:30939129 original size:9 final size:9
Alignment explanation
Indices: 30939098--30939143 Score: 53
Period size: 9 Copynumber: 5.3 Consensus size: 9
30939088 TTTTATACTT
30939098 TTTTAAATAA
1 TTTT-AATAA
30939108 TTTTAAT--
1 TTTTAATAA
30939115 TTTTAATAA
1 TTTTAATAA
*
30939124 TTTTAATAT
1 TTTTAATAA
30939133 TTTTAA-AA
1 TTTTAATAA
30939141 TTT
1 TTT
30939144 AAAAAATTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
7 7 0.22
8 4 0.12
9 17 0.53
10 4 0.12
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (9 bp):
TTTTAATAA
Found at i:30939145 original size:16 final size:18
Alignment explanation
Indices: 30939097--30939143 Score: 64
Period size: 17 Copynumber: 2.7 Consensus size: 18
30939087 ATTTTATACT
30939097 TTTTTAAATAATTTT-A-A
1 TTTTT-AATAATTTTAATA
30939114 TTTTTAATAATTTTAATA
1 TTTTTAATAATTTTAATA
30939132 TTTTTAA-AATTT
1 TTTTTAATAATTT
30939144 AAAAAATTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
16 9 0.32
17 11 0.39
18 8 0.29
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TTTTTAATAATTTTAATA
Found at i:30946756 original size:42 final size:41
Alignment explanation
Indices: 30946696--30946844 Score: 174
Period size: 42 Copynumber: 3.5 Consensus size: 41
30946686 AGTTTATGTT
* * * *
30946696 TAAGACCATATCTTGGATATGGCATCAATATGAGACTTCGTG
1 TAAGACCATATCTGGGATATGGCATCGATAAGAGA-TTCATG
*
30946738 TAAGACCATATCTGGGATATGGTATCGATAAGAGATTTCATG
1 TAAGACCATATCTGGGATATGGCATCGATAAGAGA-TTCATG
* *
30946780 TAAGACCATAGT-TGGGCTATTGGCATCGATACGAGATTACATG
1 TAAGACCATA-TCTGGGATA-TGGCATCGATAAGAGATT-CATG
*
30946823 TAAGACCATATTTGGGATATGG
1 TAAGACCATATCTGGGATATGG
30946845 TATTGGTATG
Statistics
Matches: 93, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
42 58 0.62
43 35 0.38
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (41 bp):
TAAGACCATATCTGGGATATGGCATCGATAAGAGATTCATG
Found at i:30953896 original size:40 final size:40
Alignment explanation
Indices: 30953810--30953903 Score: 111
Period size: 40 Copynumber: 2.4 Consensus size: 40
30953800 CGATTAAGTT
* * *
30953810 TGGCACTTAGTGTGCGTTTTGAGATAGCTTCGGCTATATA
1 TGGCACTTAGTGTGCGATTGGAGATAACTTCGGCTATATA
*
30953850 TAGCACTTAGTGTGCGAATTGGA-ATAACTTCGGCTATA-A
1 TGGCACTTAGTGTGCG-ATTGGAGATAACTTCGGCTATATA
*
30953889 GTGGCACTAAGTGTG
1 -TGGCACTTAGTGTG
30953904 TGGTACTGAG
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
39 1 0.02
40 41 0.89
41 4 0.09
ACGTcount: A:0.24, C:0.15, G:0.28, T:0.33
Consensus pattern (40 bp):
TGGCACTTAGTGTGCGATTGGAGATAACTTCGGCTATATA
Found at i:30956384 original size:45 final size:44
Alignment explanation
Indices: 30956321--30956536 Score: 177
Period size: 45 Copynumber: 4.7 Consensus size: 44
30956311 TATCTGTGCT
*
30956321 GATGCCATGTCCCAGACATGGTCTTACACTGGCACATCTCGTAGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCACATCTCGTAGCC
* * * *
30956367 GATGCATGTCCCAGACATGTCTTACATTAGC-TATGTCTTGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCACATCTCGT-A-GCC
*
30956412 GATGCATGTCCCAGACATGTCTTACACTAGCACTCATCTCAATA-CC
1 GATGCATGTCCCAGACATGTCTTACACTAGCA--CATCTC-GTAGCC
* * * * * * *
30956458 GATGCCATGTTCTAGACATGGTCTTACACTGGCTC-TCATAATGTGGTC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCACATC-T--CGTAGCC
*
30956506 AATGCATGTCCCAGACATGTCTTACACTAGC
1 GATGCATGTCCCAGACATGTCTTACACTAGC
30956537 TCACACGAGT
Statistics
Matches: 137, Mismatches: 21, Indels: 24
0.75 0.12 0.13
Matches are distributed among these distances:
43 5 0.04
44 12 0.09
45 49 0.36
46 24 0.18
47 25 0.18
48 21 0.15
49 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.28
Consensus pattern (44 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCACATCTCGTAGCC
Found at i:30968516 original size:58 final size:57
Alignment explanation
Indices: 30968444--30968554 Score: 159
Period size: 58 Copynumber: 1.9 Consensus size: 57
30968434 TGAATGTGAC
* * *
30968444 TGGGCCTAACGGGCCACATAAATCTGATTTGGGCCTAATGGGCCATAAACAGGTGATT
1 TGGGCCTAACGGGCCACATAAATATGA-TTGGACCTAATGGGCCAGAAACAGGTGATT
* * *
30968502 TGGGCCTAATGGGCCACATAAATATGATTGGACTTAATGGGCCAGATACAGGT
1 TGGGCCTAACGGGCCACATAAATATGATTGGACCTAATGGGCCAGAAACAGGT
30968555 ATGCGAATTT
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
57 22 0.47
58 25 0.53
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (57 bp):
TGGGCCTAACGGGCCACATAAATATGATTGGACCTAATGGGCCAGAAACAGGTGATT
Found at i:30968541 original size:28 final size:29
Alignment explanation
Indices: 30968444--30968545 Score: 120
Period size: 29 Copynumber: 3.6 Consensus size: 29
30968434 TGAATGTGAC
* *
30968444 TGGGCCTAACGGGCCACATAAATCTGATT
1 TGGGCCTAATGGGCCACATAAATATGATT
*
30968473 TGGGCCTAATGGG-C-CATAAACAGGTGATT
1 TGGGCCTAATGGGCCACATAAATA--TGATT
30968502 TGGGCCTAATGGGCCACATAAATATGA-T
1 TGGGCCTAATGGGCCACATAAATATGATT
* *
30968530 TGGACTTAATGGGCCA
1 TGGGCCTAATGGGCCA
30968546 GATACAGGTA
Statistics
Matches: 63, Mismatches: 6, Indels: 9
0.81 0.08 0.12
Matches are distributed among these distances:
27 6 0.10
28 16 0.25
29 33 0.52
30 1 0.02
31 7 0.11
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (29 bp):
TGGGCCTAATGGGCCACATAAATATGATT
Found at i:30971262 original size:28 final size:28
Alignment explanation
Indices: 30971217--30971313 Score: 169
Period size: 28 Copynumber: 3.5 Consensus size: 28
30971207 TTTAAAACCC
* *
30971217 TAGGGGT-ATATCGATAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
30971244 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
30971272 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
30971300 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
30971314 TGATCTACGC
Statistics
Matches: 67, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
27 7 0.10
28 60 0.90
ACGTcount: A:0.20, C:0.10, G:0.26, T:0.44
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:30972955 original size:20 final size:20
Alignment explanation
Indices: 30972932--30972969 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
30972922 CACCTCCAAA
*
30972932 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
30972952 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
30972970 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:30979244 original size:28 final size:28
Alignment explanation
Indices: 30979195--30979290 Score: 167
Period size: 28 Copynumber: 3.5 Consensus size: 28
30979185 TTTAAAACCC
* *
30979195 TAGGGGT-ATATCGATAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
30979222 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
30979250 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
30979278 TAGGGGTAATTTC
1 TAGGGGTAATTTC
30979291 ATGATCTACG
Statistics
Matches: 66, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
27 7 0.11
28 59 0.89
ACGTcount: A:0.20, C:0.10, G:0.25, T:0.45
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:30980930 original size:20 final size:20
Alignment explanation
Indices: 30980907--30980944 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
30980897 CACCTCCAAA
*
30980907 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
30980927 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
30980945 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:30986609 original size:40 final size:40
Alignment explanation
Indices: 30986565--30986703 Score: 116
Period size: 41 Copynumber: 3.4 Consensus size: 40
30986555 TTATAGTGAT
* *
30986565 TCGCACAATTGCCTTCGAAAATTTACCCGAATTTAGTAAC
1 TCGCACAAATGCCTTCGAAAATTAACCCGAATTTAGTAAC
* ** * * *
30986605 TCGCACGAATGCCTTCGGGACTTAACCCGATTTTGGTAAC
1 TCGCACAAATGCCTTCGAAAATTAACCCGAATTTAGTAAC
** * ** *
30986645 TCGCACAAAATGCCTTCGGGACTTAACCCGGTTTTAGTCAC
1 TCGCAC-AAATGCCTTCGAAAATTAACCCGAATTTAGTAAC
* *
30986686 TTAGCACAAAAGCCTTCG
1 -TCGCACAAATGCCTTCG
30986704 GGACTTAGCC
Statistics
Matches: 83, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
40 38 0.46
41 40 0.48
42 5 0.06
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.27
Consensus pattern (40 bp):
TCGCACAAATGCCTTCGAAAATTAACCCGAATTTAGTAAC
Found at i:30986669 original size:41 final size:41
Alignment explanation
Indices: 30986589--30986715 Score: 168
Period size: 41 Copynumber: 3.1 Consensus size: 41
30986579 TCGAAAATTT
* *
30986589 ACCCGAATTTAGTAACTCGCAC-GAATGCCTTCGGGACTTA
1 ACCCGATTTTAGTAACTCGCACAAAATGCCTTCGGGACTTA
*
30986629 ACCCGATTTTGGTAACTCGCACAAAATGCCTTCGGGACTTA
1 ACCCGATTTTAGTAACTCGCACAAAATGCCTTCGGGACTTA
* * *
30986670 ACCCGGTTTTAGTCACTTAGCACAAAA-GCCTTCGGGACTTA
1 ACCCGATTTTAGTAAC-TCGCACAAAATGCCTTCGGGACTTA
*
30986711 GCCCG
1 ACCCG
30986716 GATACCATTC
Statistics
Matches: 77, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
40 20 0.26
41 48 0.62
42 9 0.12
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.25
Consensus pattern (41 bp):
ACCCGATTTTAGTAACTCGCACAAAATGCCTTCGGGACTTA
Found at i:30991641 original size:27 final size:28
Alignment explanation
Indices: 30991623--30991719 Score: 171
Period size: 27 Copynumber: 3.5 Consensus size: 28
30991613 ATAGTGAGTC
30991623 CGCACACTTAGTGCTATATAATCA-ACT
1 CGCACACTTAGTGCTATATAATCAGACT
30991650 CGCACACTTAGTGCTATATAATCAG-CT
1 CGCACACTTAGTGCTATATAATCAGACT
*
30991677 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAGACT
30991705 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
30991720 GTACAAATTT
Statistics
Matches: 67, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
27 50 0.75
28 17 0.25
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAGACT
Found at i:30999845 original size:39 final size:39
Alignment explanation
Indices: 30999791--30999953 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
30999781 TGTGAATGAA
30999791 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
30999830 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
** *
30999869 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
30999908 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
30999948 TGTGCG
1 TGTGCG
30999954 GGTTACCATA
Statistics
Matches: 116, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
39 99 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.25
Consensus pattern (39 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:30999969 original size:40 final size:39
Alignment explanation
Indices: 30999791--30999983 Score: 251
Period size: 39 Copynumber: 4.9 Consensus size: 39
30999781 TGTGAATGAA
* *
30999791 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
30999830 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
30999869 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
30999908 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
30999948 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGG
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGG
30999984 TGTTTTGAAC
Statistics
Matches: 139, Mismatches: 14, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 99 0.71
40 40 0.29
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:31002884 original size:27 final size:28
Alignment explanation
Indices: 31002866--31002962 Score: 171
Period size: 27 Copynumber: 3.5 Consensus size: 28
31002856 ATAGTGAGTC
31002866 CGCACACTTAGTGCTATATAATCA-ACT
1 CGCACACTTAGTGCTATATAATCAGACT
31002893 CGCACACTTAGTGCTATATAATCAG-CT
1 CGCACACTTAGTGCTATATAATCAGACT
*
31002920 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAGACT
31002948 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
31002963 GTACAAATTT
Statistics
Matches: 67, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
27 50 0.75
28 17 0.25
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAGACT
Found at i:31005276 original size:5 final size:5
Alignment explanation
Indices: 31005266--31005333 Score: 54
Period size: 6 Copynumber: 13.4 Consensus size: 5
31005256 CTTTTTAGTC
31005266 TTATT TTA-T TTA-T TTATT TTATTT TTATTT TTATT TTCATT TTCATT
1 TTATT TTATT TTATT TTATT TTA-TT TTA-TT TTATT TT-ATT TT-ATT
*
31005313 TCAATT TTA-- TTATT TTATT TT
1 T-TATT TTATT TTATT TTATT TT
31005334 GAAAGACATA
Statistics
Matches: 55, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
3 3 0.05
4 8 0.15
5 19 0.35
6 25 0.45
ACGTcount: A:0.21, C:0.04, G:0.00, T:0.75
Consensus pattern (5 bp):
TTATT
Found at i:31008807 original size:24 final size:24
Alignment explanation
Indices: 31008780--31008834 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
31008770 CCAAAATGCT
31008780 GAAAAGCTGAAAAGTCGAAAAGAC
1 GAAAAGCTGAAAAGTCGAAAAGAC
*
31008804 GAAAAGCTGAAAAGTCGAAAAGCC
1 GAAAAGCTGAAAAGTCGAAAAGAC
31008828 GAAAAGC
1 GAAAAGC
31008835 CAAAAGTTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.53, C:0.15, G:0.25, T:0.07
Consensus pattern (24 bp):
GAAAAGCTGAAAAGTCGAAAAGAC
Found at i:31008835 original size:8 final size:8
Alignment explanation
Indices: 31008757--31008840 Score: 73
Period size: 8 Copynumber: 10.6 Consensus size: 8
31008747 ATGAATTGAC
31008757 AAAAGCCG
1 AAAAGCCG
**
31008765 AATTGCC-
1 AAAAGCCG
*
31008772 AAAATGCTG
1 AAAA-GCCG
*
31008781 AAAAGCTG
1 AAAAGCCG
*
31008789 AAAAGTCG
1 AAAAGCCG
*
31008797 AAAAGACG
1 AAAAGCCG
*
31008805 AAAAGCTG
1 AAAAGCCG
*
31008813 AAAAGTCG
1 AAAAGCCG
31008821 AAAAGCCG
1 AAAAGCCG
31008829 AAAAGCC-
1 AAAAGCCG
31008836 AAAAG
1 AAAAG
31008841 TTTGGCTACA
Statistics
Matches: 61, Mismatches: 13, Indels: 5
0.77 0.16 0.06
Matches are distributed among these distances:
7 7 0.11
8 50 0.82
9 4 0.07
ACGTcount: A:0.51, C:0.17, G:0.23, T:0.10
Consensus pattern (8 bp):
AAAAGCCG
Found at i:31009164 original size:28 final size:29
Alignment explanation
Indices: 31009050--31009164 Score: 128
Period size: 29 Copynumber: 4.0 Consensus size: 29
31009040 GTGAACATGA
* *
31009050 ATATGAATGTGA-CTGGGCCTAACGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
31009078 ATATAAATGTGATTTGGGCCTAATGGGGC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
31009107 ATAT-ACAGGTGATTTGGGCCTAATGTGCC
1 ATATGA-ATGTGATTTGGGCCTAATGGGCC
* *
31009136 ATATGAATATGA-TTGGGCTTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
31009164 A
1 A
31009165 GATACAGGTA
Statistics
Matches: 73, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
28 27 0.37
29 45 0.62
30 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.30, T:0.29
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:31009173 original size:57 final size:58
Alignment explanation
Indices: 31009063--31009173 Score: 152
Period size: 57 Copynumber: 1.9 Consensus size: 58
31009053 TGAATGTGAC
* * *
31009063 TGGGCCTAACGGGCCATATAAATGTGATTTGGGCCTAATGGGGCATATACAGGTGATT
1 TGGGCCTAACGGGCCATATAAATATGATTTGGGCCTAATGGGCCAGATACAGGTGATT
* * * *
31009121 TGGGCCTAATGTGCCATATGAATATGA-TTGGGCTTAATGGGCCAGATACAGGT
1 TGGGCCTAACGGGCCATATAAATATGATTTGGGCCTAATGGGCCAGATACAGGT
31009174 ATGTGAATTT
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
57 23 0.50
58 23 0.50
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (58 bp):
TGGGCCTAACGGGCCATATAAATATGATTTGGGCCTAATGGGCCAGATACAGGTGATT
Found at i:31012853 original size:29 final size:29
Alignment explanation
Indices: 31012820--31012919 Score: 112
Period size: 29 Copynumber: 3.5 Consensus size: 29
31012810 TGAATGTGAC
* *
31012820 TGGGCATAACGGGCCATATAAATATTATT
1 TGGGCATAATGGGCCATATAAATATGATT
* * **
31012849 TGGGCCTAATGGGCCATATACAGGTGATT
1 TGGGCATAATGGGCCATATAAATATGATT
* *
31012878 TGGGCGTAATGGGCCATATGAATATGA-T
1 TGGGCATAATGGGCCATATAAATATGATT
*
31012906 TGGGCTTAATGGGC
1 TGGGCATAATGGGC
31012920 TAGATATAGG
Statistics
Matches: 59, Mismatches: 12, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
28 14 0.24
29 45 0.76
ACGTcount: A:0.27, C:0.14, G:0.30, T:0.29
Consensus pattern (29 bp):
TGGGCATAATGGGCCATATAAATATGATT
Found at i:31014555 original size:46 final size:46
Alignment explanation
Indices: 31014505--31014630 Score: 216
Period size: 46 Copynumber: 2.7 Consensus size: 46
31014495 TGGTTGAGCA
* *
31014505 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
31014551 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
* *
31014597 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
31014631 GGGGCGGTTA
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
Found at i:31039448 original size:47 final size:48
Alignment explanation
Indices: 31039335--31039465 Score: 157
Period size: 48 Copynumber: 2.8 Consensus size: 48
31039325 GGGCCAGACA
* *
31039335 TCGATGCCATGTCCCATACATGGT-TTACACAAG-TCTAGTATATGTG
1 TCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTAGTATATGTG
*
31039381 TGCAGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCA-TA-ATGTGG
1 T-C-GATGCCATGTCCCAGACATGGTCTTACACTAGCTCT-AGTATATGT-G
31039431 TCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTC
1 TCGATGCCATGTCCCAGACATGGTCTTACACTAGCTC
31039466 ACACGAGTGA
Statistics
Matches: 75, Mismatches: 4, Indels: 12
0.82 0.04 0.13
Matches are distributed among these distances:
46 15 0.20
47 15 0.20
48 25 0.33
49 12 0.16
50 7 0.09
51 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.30
Consensus pattern (48 bp):
TCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTAGTATATGTG
Found at i:31045602 original size:40 final size:40
Alignment explanation
Indices: 31045457--31045622 Score: 235
Period size: 40 Copynumber: 4.2 Consensus size: 40
31045447 CAATTGAATG
*
31045457 ATATCCGGGTTAAGACCCGAAGGCAATT-GTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
31045497 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
* * * * *
31045537 ATATCCGGGCTAATACTCGAAGGCATTTGTGCGAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
** *
31045577 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
31045617 ATATCC
1 ATATCC
31045623 AGTTGTATCC
Statistics
Matches: 114, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
39 3 0.03
40 111 0.97
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
Found at i:31048659 original size:25 final size:25
Alignment explanation
Indices: 31048621--31048673 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
31048611 TCATTAGGGT
*
31048621 TACTGATTTATAGCTCGTGAGAGCA
1 TACTGATATATAGCTCGTGAGAGCA
* *
31048646 TACTGATATGTAGCTTGTGAGAGCA
1 TACTGATATATAGCTCGTGAGAGCA
31048671 TAC
1 TAC
31048674 CGATTCACAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (25 bp):
TACTGATATATAGCTCGTGAGAGCA
Found at i:31051997 original size:13 final size:13
Alignment explanation
Indices: 31051979--31052009 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
31051969 GGAATTTATA
31051979 TTTTTTGTTTTGG
1 TTTTTTGTTTTGG
*
31051992 TTTTTTTTTTTGG
1 TTTTTTGTTTTGG
31052005 TTTTT
1 TTTTT
31052010 GGGTTTTTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (13 bp):
TTTTTTGTTTTGG
Found at i:31052340 original size:45 final size:44
Alignment explanation
Indices: 31052186--31052389 Score: 171
Period size: 43 Copynumber: 4.7 Consensus size: 44
31052176 CTTATTCCAA
* * * * *
31052186 TCCACTGCATCTTTAGGG-GTATAGGAATT-TAATTTTAATCTAC
1 TCCACTGCAACTTTAGGGAG-ATAAGATTTCTAACTTCAATCTAC
* ** *
31052229 TCTACTGCAACTTTAGGGAGATAAGATTAGTAACTT-AATCTGC
1 TCCACTGCAACTTTAGGGAGATAAGATTTCTAACTTCAATCTAC
*** * * *
31052272 TATTCTGCAACTTTAGAGAGATAAGATTTACTATCTTCGATCTAC
1 TCCACTGCAACTTTAGGGAGATAAGATTT-CTAACTTCAATCTAC
* * * * *
31052317 TCCATTGCAACTTCAGGGGGATAAGCTTTGTAACTTCAATCTAC
1 TCCACTGCAACTTTAGGGAGATAAGATTTCTAACTTCAATCTAC
* *
31052361 TCCACTACAACTTTAGGGAGACAAGATTT
1 TCCACTGCAACTTTAGGGAGATAAGATTT
31052390 GTAATTTGCA
Statistics
Matches: 125, Mismatches: 32, Indels: 7
0.76 0.20 0.04
Matches are distributed among these distances:
43 53 0.42
44 46 0.37
45 26 0.21
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (44 bp):
TCCACTGCAACTTTAGGGAGATAAGATTTCTAACTTCAATCTAC
Found at i:31052372 original size:44 final size:44
Alignment explanation
Indices: 31052222--31052393 Score: 130
Period size: 44 Copynumber: 3.9 Consensus size: 44
31052212 ATTTAATTTT
* * * * *
31052222 AATCTACTCTACTGCAACTTTAGGGAGATAAGATTAGTAACTT-
1 AATCTACTCCACTACAACTTCAGGGAGACAAGATTTGTAACTTC
* *** * * * * * *
31052265 AATCTGCTATTCTGCAACTTTAGAGAGATAAGATTTACTATCTTC
1 AATCTACTCCACTACAACTTCAGGGAGACAAGATTT-GTAACTTC
* * * * * *
31052310 GATCTACTCCATTGCAACTTCAGGGGGATAAGCTTTGTAACTTC
1 AATCTACTCCACTACAACTTCAGGGAGACAAGATTTGTAACTTC
*
31052354 AATCTACTCCACTACAACTTTAGGGAGACAAGATTTGTAA
1 AATCTACTCCACTACAACTTCAGGGAGACAAGATTTGTAA
31052394 TTTGCATTCT
Statistics
Matches: 101, Mismatches: 26, Indels: 3
0.78 0.20 0.02
Matches are distributed among these distances:
43 31 0.31
44 44 0.44
45 26 0.26
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (44 bp):
AATCTACTCCACTACAACTTCAGGGAGACAAGATTTGTAACTTC
Found at i:31052556 original size:96 final size:97
Alignment explanation
Indices: 31052351--31052576 Score: 231
Period size: 96 Copynumber: 2.3 Consensus size: 97
31052341 GCTTTGTAAC
* * * * * * * * * * *
31052351 TTCAATCTACTCCACTACAACTTTAGGGAGACAAGATTTGTAATTTGCATTCTTTAATCTGTTCC
1 TTCAGTCTGCTCCACTGCAACTTCAAGGAGATATGACTTGTAATTTGCATGCTTTAATATGCTCC
** *
31052416 ACTGTAACTTTAGGGAAATAAGATTCGCTATA
66 ACTACAACTTTAGAGAAATAAGATTCGCTATA
* *
31052448 TTCAGTCTGCTCCACTGTAACTTCAAGGAGATATGACTTGTAATTTGCA-GCTTTAATATGCTCT
1 TTCAGTCTGCTCCACTGCAACTTCAAGGAGATATGACTTGTAATTTGCATGCTTTAATATGCTCC
* * *
31052512 ACTACAACTTTAGAGAGATAAGATTTTG-TATC
66 ACTACAACTTTAGAGAAATAAGA-TTCGCTATA
* * *
31052544 TTTAGTTTGCTCCACTGCAACTTCAGGGAGATA
1 TTCAGTCTGCTCCACTGCAACTTCAAGGAGATA
31052577 ATGTAACACC
Statistics
Matches: 105, Mismatches: 23, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
96 62 0.59
97 43 0.41
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.36
Consensus pattern (97 bp):
TTCAGTCTGCTCCACTGCAACTTCAAGGAGATATGACTTGTAATTTGCATGCTTTAATATGCTCC
ACTACAACTTTAGAGAAATAAGATTCGCTATA
Found at i:31054063 original size:28 final size:27
Alignment explanation
Indices: 31053997--31054066 Score: 104
Period size: 27 Copynumber: 2.6 Consensus size: 27
31053987 ATAGTGAGTC
*
31053997 CGCACACTTAGTGCTATATAATCAGCT
1 CGCACACTTAGTGCTATATAATCAACT
* *
31054024 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATC-AACT
31054052 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
31054067 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:31054139 original size:42 final size:42
Alignment explanation
Indices: 31054075--31054180 Score: 194
Period size: 42 Copynumber: 2.5 Consensus size: 42
31054065 CTGTACAAAT
* *
31054075 TTTAAACCCGCACACTTAGTGCCGATCTTGTCACCGTGTCCA
1 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
31054117 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
1 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
31054159 TTTATACCCGCACACTTAGTGC
1 TTTATACCCGCACACTTAGTGC
31054181 TGAGACCAAT
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 62 1.00
ACGTcount: A:0.22, C:0.33, G:0.15, T:0.30
Consensus pattern (42 bp):
TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
Found at i:31061508 original size:40 final size:39
Alignment explanation
Indices: 31061463--31061670 Score: 209
Period size: 40 Copynumber: 5.2 Consensus size: 39
31061453 CGGAATACAA
*
31061463 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
31061503 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
31061543 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
31061583 CCGGATTTAGTCACTAGCATAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
* * * * *
31061623 CCGGATTTAACTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
31061663 CCGGATAT
1 CCGGATAT
31061671 CATTTAATTG
Statistics
Matches: 142, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
39 1 0.01
40 141 0.99
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:31061610 original size:80 final size:81
Alignment explanation
Indices: 31061463--31061668 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 81
31061453 CGGAATACAA
* * * *
31061463 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
*
31061527 GCCTTCGGGTATTAGC
66 GCCTTCGGGTATTAAC
* * *
31061543 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTTAG-TC-ACTAGCATAAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGA-TTAGAACGACTAGCACAAA
*
31061606 TGCCTTCGGGTCTTAAC
65 TGCCTTCGGGTATTAAC
* * ** * *
31061623 CCGGATTTAACTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
31061669 ATCATTTAAT
Statistics
Matches: 109, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
79 1 0.01
80 104 0.95
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (81 bp):
CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCCTTCGGGTATTAAC
Found at i:31069491 original size:40 final size:39
Alignment explanation
Indices: 31069446--31069653 Score: 209
Period size: 40 Copynumber: 5.2 Consensus size: 39
31069436 CGGAATACAA
*
31069446 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
31069486 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
31069526 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
31069566 CCGGATTTAGTCACTAGCATAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
* * * * *
31069606 CCGGATTTAACTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
31069646 CCGGATAT
1 CCGGATAT
31069654 CATTTAATTG
Statistics
Matches: 142, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
39 1 0.01
40 141 0.99
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:31069593 original size:80 final size:81
Alignment explanation
Indices: 31069446--31069651 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 81
31069436 CGGAATACAA
* * * *
31069446 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
*
31069510 GCCTTCGGGTATTAGC
66 GCCTTCGGGTATTAAC
* * *
31069526 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTTAG-TC-ACTAGCATAAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGA-TTAGAACGACTAGCACAAA
*
31069589 TGCCTTCGGGTCTTAAC
65 TGCCTTCGGGTATTAAC
* * ** * *
31069606 CCGGATTTAACTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
31069652 ATCATTTAAT
Statistics
Matches: 109, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
79 1 0.01
80 104 0.95
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (81 bp):
CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCCTTCGGGTATTAAC
Found at i:31073391 original size:42 final size:42
Alignment explanation
Indices: 31073342--31073450 Score: 200
Period size: 42 Copynumber: 2.6 Consensus size: 42
31073332 AGTATTGGTC
31073342 TCGGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGA
1 TCGGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGA
*
31073384 TTGGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGA
1 TCGGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGA
*
31073426 TCGGCACTAAGTGTGCGGGTTTAAA
1 TCGGCACTAAGTGTGCGGGTATAAA
31073451 ATTTGTACAG
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 64 1.00
ACGTcount: A:0.29, C:0.16, G:0.33, T:0.22
Consensus pattern (42 bp):
TCGGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGA
Found at i:31073539 original size:27 final size:27
Alignment explanation
Indices: 31073482--31073540 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
31073472 GGAATTTGAT
* * *
31073482 TATATAGCACTATGTGTGCGAGCTGAT
1 TATATAGCACTAAGTGTGCGAGCTCAC
31073509 TATATAGCACTAAGTGTGCG-GACTCAC
1 TATATAGCACTAAGTGTGCGAG-CTCAC
31073536 TATAT
1 TATAT
31073541 GCTTTTGCAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 27 0.96
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (27 bp):
TATATAGCACTAAGTGTGCGAGCTCAC
Found at i:31075309 original size:96 final size:96
Alignment explanation
Indices: 31075204--31075377 Score: 231
Period size: 96 Copynumber: 1.8 Consensus size: 96
31075194 AATTTGCAAT
* * * *
31075204 CTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCGTCAATCTGTTCCACTACA
1 CTTTAATCTGCTCCACTGCAACTTCAGAGAAATAAGATTTGCTATCGTCAATCGGCTCCACTACA
31075269 ACTTCAAGGAGATAGGACTCGTAAGTTTTAG
66 ACTTCAAGGAGATAGGACTCGTAAGTTTTAG
* * * * ** * *
31075300 CTTTCATCTGCTCTACTGCAACTTTAGAGAGATAAGATTTGCTATTTTCAATCGGCTCTACTGCA
1 CTTTAATCTGCTCCACTGCAACTTCAGAGAAATAAGATTTGCTATCGTCAATCGGCTCCACTACA
*
31075365 ACTTCAGGGAGAT
66 ACTTCAAGGAGAT
31075378 TAGATTTGTT
Statistics
Matches: 65, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
96 65 1.00
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (96 bp):
CTTTAATCTGCTCCACTGCAACTTCAGAGAAATAAGATTTGCTATCGTCAATCGGCTCCACTACA
ACTTCAAGGAGATAGGACTCGTAAGTTTTAG
Found at i:31075364 original size:45 final size:44
Alignment explanation
Indices: 31075301--31075424 Score: 131
Period size: 45 Copynumber: 2.8 Consensus size: 44
31075291 AAGTTTTAGC
* *
31075301 TTTCATCTGCTCTACTGCAACTTTAGAGAGATAAGATTTGCTAT
1 TTTCATCGGCTCTACTGCAACTTCAGAGAGATAAGATTTGCTAT
* * *
31075345 TTTCAATCGGCTCTACTGCAACTTCAGGGAGATTAGATTTGTTAT
1 TTTC-ATCGGCTCTACTGCAACTTCAGAGAGATAAGATTTGCTAT
* * ** * *
31075390 TTTTAACTTACTCCACTGCAACTTCAGAAAGATAA
1 TTTCATC-GGCTCTACTGCAACTTCAGAGAGATAA
31075425 TGTTTGTGAC
Statistics
Matches: 65, Mismatches: 13, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
44 6 0.09
45 59 0.91
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.36
Consensus pattern (44 bp):
TTTCATCGGCTCTACTGCAACTTCAGAGAGATAAGATTTGCTAT
Found at i:31075394 original size:96 final size:95
Alignment explanation
Indices: 31075163--31075394 Score: 230
Period size: 96 Copynumber: 2.4 Consensus size: 95
31075153 TTTAATTTGT
* * ** * *
31075163 TCTACTACAACTTTAGGGAGACAAGATTTGTAATTTGCAATCTTTAATCTGTTCCACTGCAACTT
1 TCTACTACAACTTCAGGGAGA-TAGATTTGTAATTT-TTAGCTTTAATCTGCTCCACTGCAACTT
* * *
31075228 CAGGGAAATAAGATTTGCTATCGTCAATCTGT
64 CAGAGAAATAAGATTTGCTATCGTCAATCGGC
* * * * * * * *
31075260 TCCACTACAACTTCAAGGAGATAGGACTCGTAAGTTTTAGCTTTCATCTGCTCTACTGCAACTTT
1 TCTACTACAACTTCAGGGAGATA-GATTTGTAATTTTTAGCTTTAATCTGCTCCACTGCAACTTC
* **
31075325 AGAGAGATAAGATTTGCTATTTTCAATCGGC
65 AGAGAAATAAGATTTGCTATCGTCAATCGGC
* *
31075356 TCTACTGCAACTTCAGGGAGATTAGATTTGTTATTTTTA
1 TCTACTACAACTTCAGGGAGA-TAGATTTGTAATTTTTA
31075395 ACTTACTCCA
Statistics
Matches: 106, Mismatches: 27, Indels: 5
0.77 0.20 0.04
Matches are distributed among these distances:
96 77 0.73
97 29 0.27
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.36
Consensus pattern (95 bp):
TCTACTACAACTTCAGGGAGATAGATTTGTAATTTTTAGCTTTAATCTGCTCCACTGCAACTTCA
GAGAAATAAGATTTGCTATCGTCAATCGGC
Found at i:31090915 original size:58 final size:58
Alignment explanation
Indices: 31090851--31090966 Score: 223
Period size: 58 Copynumber: 2.0 Consensus size: 58
31090841 ATGATTTTCC
*
31090851 CTTAGAATTGGTGAATTTGATGCTCCTAATGCCTTAATTTCATGTTTTATACTTAGGT
1 CTTAGAATTGGTGAATTTGATCCTCCTAATGCCTTAATTTCATGTTTTATACTTAGGT
31090909 CTTAGAATTGGTGAATTTGATCCTCCTAATGCCTTAATTTCATGTTTTATACTTAGGT
1 CTTAGAATTGGTGAATTTGATCCTCCTAATGCCTTAATTTCATGTTTTATACTTAGGT
31090967 GAGCATAGAA
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.24, C:0.15, G:0.16, T:0.45
Consensus pattern (58 bp):
CTTAGAATTGGTGAATTTGATCCTCCTAATGCCTTAATTTCATGTTTTATACTTAGGT
Found at i:31095586 original size:26 final size:26
Alignment explanation
Indices: 31095550--31095600 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
31095540 CACTTACTAC
*
31095550 TACTGGCAGCTACGCTGCGTTATTGT
1 TACTGGCAGCTACGCTGCGATATTGT
* **
31095576 TACTGGTAGCTTTGCTGCGATATTG
1 TACTGGCAGCTACGCTGCGATATTG
31095601 GTGTGCTGGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.16, C:0.20, G:0.27, T:0.37
Consensus pattern (26 bp):
TACTGGCAGCTACGCTGCGATATTGT
Found at i:31095847 original size:32 final size:32
Alignment explanation
Indices: 31095806--31095872 Score: 116
Period size: 32 Copynumber: 2.1 Consensus size: 32
31095796 TACTGCATAG
*
31095806 ACTATTTTCTATAGTCTGATAACGGATTACAC
1 ACTATTTTCTACAGTCTGATAACGGATTACAC
*
31095838 ACTATTTTCTACAGTCTGATAAGGGATTACAC
1 ACTATTTTCTACAGTCTGATAACGGATTACAC
31095870 ACT
1 ACT
31095873 GAGTTTTCGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.36
Consensus pattern (32 bp):
ACTATTTTCTACAGTCTGATAACGGATTACAC
Found at i:31100919 original size:40 final size:40
Alignment explanation
Indices: 31100869--31101056 Score: 222
Period size: 40 Copynumber: 4.7 Consensus size: 40
31100859 GCTACTAGCT
* *
31100869 CAAATGCCTTCGGGACATAGCCCGGTTAGAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
31100909 CAATTGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
31100949 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* * * * * *
31100989 TAAATGCCTTCGGAACTT-GCCCGG-AACTAGTCACTAGCG
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
**
31101028 CAGTTGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
31101057 CATCCAAATA
Statistics
Matches: 128, Mismatches: 15, Indels: 10
0.84 0.10 0.07
Matches are distributed among these distances:
39 29 0.23
40 96 0.75
41 3 0.02
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:31101052 original size:79 final size:80
Alignment explanation
Indices: 31100862--31101055 Score: 248
Period size: 80 Copynumber: 2.4 Consensus size: 80
31100852 GGATATAGCT
* * * *
31100862 ACTAGCTCAAATGCCTTCGGGACATAGCCCGGTTAGAGTAACTCGCACAATTGCCTTCGGGACTT
1 ACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTAGAGTAACTCGCACAAATGCCTTCGGAACTT
**
31100927 AGCCCGGATTTAGTA
66 AGCCCGGAACTAGTA
* * *
31100942 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCATAAATGCCTTCGGAACT
1 ACTAGCACAAATGCCTTCGGGACTTAGCCCGG-TTAGAGTAACTCGCACAAATGCCTTCGGAACT
*
31101006 T-GCCCGGAACTAGTC
65 TAGCCCGGAACTAGTA
* **
31101021 ACTAGCGCAGTTGCCTTCGGGACTTAGCCCGGTTA
1 ACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTA
31101056 TCATCCAAAT
Statistics
Matches: 98, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
78 2 0.02
79 39 0.40
80 55 0.56
81 2 0.02
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (80 bp):
ACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTAGAGTAACTCGCACAAATGCCTTCGGAACTT
AGCCCGGAACTAGTA
Found at i:31109048 original size:39 final size:40
Alignment explanation
Indices: 31108938--31109165 Score: 322
Period size: 39 Copynumber: 5.8 Consensus size: 40
31108928 GGATATAGCT
* * *
31108938 ACTCGCTCAAATGCCTTCGGGACATAGCCCGG-TTAGAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-TAGTA
*
31108978 ACTCGCACAATTGCCTTCGGGACTTAG-CCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
31109017 ACT-GCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
31109056 ACTCGCACAAATGCCTTCGGGACTTAG-CCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
** *
31109095 ACTCGCACAAATGCCTTCGGGACTT-GCCCGGAACTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* * *
31109134 ACTAGCGCAGATGCCTTCGGGACTTAGCCCGG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
31109166 TTATCATCCA
Statistics
Matches: 172, Mismatches: 11, Indels: 10
0.89 0.06 0.05
Matches are distributed among these distances:
38 23 0.13
39 94 0.55
40 55 0.32
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:31112672 original size:93 final size:93
Alignment explanation
Indices: 31112560--31112731 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
31112550 GCCCATAAGT
* *
31112560 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
31112625 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
31112653 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
31112718 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
31112732 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:31112727 original size:46 final size:46
Alignment explanation
Indices: 31112552--31112727 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
31112542 TGTAACCCGC
* * *
31112552 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
31112598 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
31112648 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
31112691 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
31112728 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:31115153 original size:30 final size:30
Alignment explanation
Indices: 31115109--31115197 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
31115099 CAAAGATAAC
31115109 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
31115138 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
31115168 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
31115198 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:31115157 original size:15 final size:15
Alignment explanation
Indices: 31115109--31115188 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
31115099 CAAAGATAAC
*
31115109 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
31115123 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
31115138 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
31115153 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
31115168 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
31115183 AAGAAA
1 AAGAAA
31115189 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:31115197 original size:15 final size:15
Alignment explanation
Indices: 31115120--31115197 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
31115110 AGAAAACCGA
31115120 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
31115135 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
31115149 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
31115164 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
31115180 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
31115195 ATA
1 ATA
31115198 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:31118263 original size:93 final size:93
Alignment explanation
Indices: 31118151--31118322 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
31118141 GCCCATAAGT
* *
31118151 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
31118216 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
31118244 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
31118309 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
31118323 CAAATATCCA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:31118318 original size:46 final size:46
Alignment explanation
Indices: 31118143--31118318 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
31118133 TGTAACCCGC
* * *
31118143 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
31118189 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
31118239 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
31118282 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
31118319 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:31124372 original size:46 final size:47
Alignment explanation
Indices: 31124226--31124396 Score: 170
Period size: 46 Copynumber: 3.7 Consensus size: 47
31124216 TTTGTATTCT
* * **
31124226 AGTGTAACG-CATGTCTGGGACATGCATCGGCCACATTATG-AGAGCC
1 AGTGTAA-GACATGTCTAGGACATGCATCGGCCTCAAGATGTAGAGCC
* * * * ** * *
31124272 AATATAAGACCATGTCTAGGACATGGCATCGACATTTAGA-CTAGAGCT
1 AGTGTAAGA-CATGTCTAGGACAT-GCATCGGCCTCAAGATGTAGAGCC
31124320 AGTGTAAGACATGTCTAGGACATGCATCGGCCTCAAGATGTA-AGCC
1 AGTGTAAGACATGTCTAGGACATGCATCGGCCTCAAGATGTAGAGCC
*
31124366 AGTGTAAGACATGTCTGGGACATGCATCGGC
1 AGTGTAAGACATGTCTAGGACATGCATCGGC
31124397 TGCGAGATGT
Statistics
Matches: 99, Mismatches: 21, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
45 1 0.01
46 49 0.49
47 29 0.29
48 20 0.20
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACATGTCTAGGACATGCATCGGCCTCAAGATGTAGAGCC
Found at i:31124405 original size:46 final size:44
Alignment explanation
Indices: 31124226--31124489 Score: 158
Period size: 46 Copynumber: 5.7 Consensus size: 44
31124216 TTTGTATTCT
* *
31124226 AGTGTAACG-CATGTCTGGGACATGCATCGGCCACATTATGA-GAGCC
1 AGTGTAA-GACATGTCTGGGACATGCATCGGCCTCA--A-GATGTGCC
* * * * * ** * *
31124272 AATATAAGACCATGTCTAGGACATGGCATCGACATTTAGACTAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCAAGA-T-GTGCC
*
31124320 AGTGTAAGACATGTCTAGGACATGCATCGGCCTCAAGATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATGT--GCC
* *
31124366 AGTGTAAGACATGTCTGGGACATGCATCGG-CTGCGAGATGTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CAAGATGTGCC
* * * * *
31124410 AGTGCAAGACCATGTTTGGGACATGGCATTGACACGT-ATAGAGGTGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-C-TCA-AGATGTGCC
*
31124458 AGTGTAAGACCATGTATGGGACATGGCATCGG
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGG
31124490 TACGGATATG
Statistics
Matches: 172, Mismatches: 31, Indels: 28
0.74 0.13 0.12
Matches are distributed among these distances:
44 11 0.06
45 19 0.11
46 60 0.35
47 27 0.16
48 54 0.31
49 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATGTGCC
Found at i:31124572 original size:49 final size:49
Alignment explanation
Indices: 31124320--31124682 Score: 228
Period size: 49 Copynumber: 7.6 Consensus size: 49
31124310 GACTAGAGCT
* * * *
31124320 AGTGTAAGA-CATGTCTAGGACAT-GCATCGGCCTCAAGATGT--A-AGCC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCCTC--GATTTCGATAGTC
* **
31124366 AGTGTAAGA-CATGTCTGGGACAT-GCATCGG-CTGCGAGAT-G-T-GTC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCCT-CGATTTCGATAGTC
* * * * * * *
31124410 AGTGCAAGACCATGTTTGGGACATGGCAT-TGACACG-TATAGAGGT-GCC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCCTCGATTTCGA--TAGTC
* *
31124458 AGTGTAAGACCATGTATGGGACATGGCATCGG--TACGGATATGT-GAGAG-C
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCCT-C-GAT-T-TCGATAGTC
* *
31124507 TAGTATAAGACCATGTTTGGGACATGGCGTCGGCCTCGATTTCGATAGTC
1 -AGTGTAAGACCATGTTTGGGACATGGCATCGGCCTCGATTTCGATAGTC
*
31124557 AGTGTAAGACCATGTTTGGGACATGGCGTCGGCCTCGATTTCGATAGTC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCCTCGATTTCGATAGTC
* * * ** * * *
31124606 AATGTAAGACCATGTCTGGGAAATGGCATC-TACTTGA--TGGATGAGCC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCCTCGATTTCGAT-AGTC
*
31124653 AGTGTAAGACCATGTTTAGGACATGGCATC
1 AGTGTAAGACCATGTTTGGGACATGGCATC
31124683 AACATTATAC
Statistics
Matches: 260, Mismatches: 34, Indels: 45
0.77 0.10 0.13
Matches are distributed among these distances:
44 15 0.06
45 19 0.07
46 39 0.15
47 29 0.11
48 36 0.14
49 82 0.32
50 35 0.13
51 3 0.01
52 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.25
Consensus pattern (49 bp):
AGTGTAAGACCATGTTTGGGACATGGCATCGGCCTCGATTTCGATAGTC
Found at i:31127578 original size:19 final size:19
Alignment explanation
Indices: 31127554--31127595 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
31127544 AACTATCGAG
31127554 CACATTGCTCATAAAATTC
1 CACATTGCTCATAAAATTC
31127573 CACATTGCTCATAAAATTC
1 CACATTGCTCATAAAATTC
31127592 CACA
1 CACA
31127596 AACATATACC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.38, C:0.29, G:0.05, T:0.29
Consensus pattern (19 bp):
CACATTGCTCATAAAATTC
Found at i:31127859 original size:50 final size:50
Alignment explanation
Indices: 31127745--31128020 Score: 270
Period size: 50 Copynumber: 5.5 Consensus size: 50
31127735 GGTAAGCATG
* * *
31127745 GTAGCCTGCACTTAGTACTACACA-ATCGACC-AACAATC-CAGTACACGTA
1 GTAGCCTGCACTTAGTACTACACACGT-GACCTAACCATCTGA-TACACGTA
*
31127794 GTAGCCTGCACTTAGTACTACACACATGACCTAACCATCTGATACACGTA
1 GTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTA
* *** ** * * * *
31127844 GTAGCCTGCACTTAGTACTACATACGTGATGGAAGTTATCAGGTACGCATA
1 GTAGCCTGCACTTAGTACTACACACGTGACCTAA-CCATCTGATACACGTA
* * * * * *
31127895 GTAGCCTGCACTTTGTACTACACATGCGACCTAACTACCTGGTACACGTA
1 GTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTA
* * *
31127945 GTAGCCTGCACTTAGTACTACACACGTGACCTAAAACCATCTTAAACACATA
1 GTAGCCTGCACTTAGTACTACACACGTGACCT--AACCATCTGATACACGTA
*
31127997 GTAGCCTGCACATAGTACTACACA
1 GTAGCCTGCACTTAGTACTACACA
31128021 TGTGTTCTCA
Statistics
Matches: 186, Mismatches: 35, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
49 28 0.15
50 85 0.46
51 38 0.20
52 35 0.19
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.24
Consensus pattern (50 bp):
GTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTA
Found at i:31127941 original size:101 final size:101
Alignment explanation
Indices: 31127792--31127973 Score: 292
Period size: 101 Copynumber: 1.8 Consensus size: 101
31127782 CCAGTACACG
* *
31127792 TAGTAGCCTGCACTTAGTACTACACACATGACCTAACCATCTGATACACGTAGTAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACACACGACCTAACCACCTGATACACGTAGTAGCCTGCACTT
*
31127857 AGTACTACATACGTGATGGAAGTTATCAGGTACGCA
66 AGTACTACACACGTGATGGAAGTTATCAGGTACGCA
* ** * *
31127893 TAGTAGCCTGCACTTTGTACTACACATGCGACCTAACTACCTGGTACACGTAGTAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACACACGACCTAACCACCTGATACACGTAGTAGCCTGCACTT
31127958 AGTACTACACACGTGA
66 AGTACTACACACGTGA
31127974 CCTAAAACCA
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
101 73 1.00
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (101 bp):
TAGTAGCCTGCACTTAGTACTACACACACGACCTAACCACCTGATACACGTAGTAGCCTGCACTT
AGTACTACACACGTGATGGAAGTTATCAGGTACGCA
Found at i:31127977 original size:151 final size:151
Alignment explanation
Indices: 31127724--31128018 Score: 425
Period size: 150 Copynumber: 1.9 Consensus size: 151
31127714 TCCTTGTAAC
* *
31127724 GGAAGCTATCTGGTAAGCATGGTAGCCTGCACTTAGTACTACACAATCGACCAACAATCCAGTAC
1 GGAAGCTATCAGGTAAGCATAGTAGCCTGCACTTAGTACTACACAATCGACCAACAATCCAGTAC
* *
31127789 ACGTAGTAGCCTGCACTTAGTACTACACACATGACCT-AACCATCTGATACACGTAGTAGCCTGC
66 ACGTAGTAGCCTGCACTTAGTACTACACACATGACCTAAACCATCTGAAACACATAGTAGCCTGC
*
31127853 ACTTAGTACTACATACGTGAT
131 ACATAGTACTACATACGTGAT
* * * * *
31127874 GGAAGTTATCAGGTACGCATAGTAGCCTGCACTTTGTACTACAC-ATGCGACCTAACTA-CCTGG
1 GGAAGCTATCAGGTAAGCATAGTAGCCTGCACTTAGTACTACACAAT-CGACC-AACAATCC-AG
* *
31127937 TACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAAACCATCTTAAACACATAGTAGC
63 TACACGTAGTAGCCTGCACTTAGTACTACACACATGACCT-AAACCATCTGAAACACATAGTAGC
31128002 CTGCACATAGTACTACA
127 CTGCACATAGTACTACA
31128019 CATGTGTTCT
Statistics
Matches: 128, Mismatches: 12, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
149 2 0.02
150 46 0.36
151 44 0.34
153 36 0.28
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.24
Consensus pattern (151 bp):
GGAAGCTATCAGGTAAGCATAGTAGCCTGCACTTAGTACTACACAATCGACCAACAATCCAGTAC
ACGTAGTAGCCTGCACTTAGTACTACACACATGACCTAAACCATCTGAAACACATAGTAGCCTGC
ACATAGTACTACATACGTGAT
Found at i:31134508 original size:19 final size:20
Alignment explanation
Indices: 31134477--31134530 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
31134467 GGTCTTTTTG
* *
31134477 TGAAATTTAATGCATATG-A
1 TGAAATGTAATGCAAATGCA
*
31134496 TGCAATGTAATGCAAATGCA
1 TGAAATGTAATGCAAATGCA
31134516 TGAAATG-AATGCAAA
1 TGAAATGTAATGCAAA
31134531 AAGAGGCATT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 23 0.77
20 7 0.23
ACGTcount: A:0.44, C:0.09, G:0.19, T:0.28
Consensus pattern (20 bp):
TGAAATGTAATGCAAATGCA
Found at i:31138386 original size:40 final size:40
Alignment explanation
Indices: 31138283--31138469 Score: 236
Period size: 40 Copynumber: 4.7 Consensus size: 40
31138273 TGATAACCGA
* * * *
31138283 GCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTTCGG
1 GCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATA-TCCGG
*
31138323 GCTAAG-CCCGAAGGCAATT-GTGCGAGTTATTATATCCGG
1 GCTAAGTCCCGAAGGC-ATTCGTGCGAGTTACTATATCCGG
*
31138362 GCTAAGTCTCGAAGGCATTCGTGCGAGTTACTATATCCGG
1 GCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATATCCGG
* * *
31138402 GCTATGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGG
1 GCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATATCCGG
* *
31138442 GCTATGTCCCGAAGGCATTCGAGCGAGT
1 GCTAAGTCCCGAAGGCATTCGTGCGAGT
31138470 AGCTATGTCC
Statistics
Matches: 131, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
39 32 0.24
40 99 0.76
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
GCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATATCCGG
Found at i:31144557 original size:29 final size:30
Alignment explanation
Indices: 31144515--31144639 Score: 161
Period size: 29 Copynumber: 4.3 Consensus size: 30
31144505 GAAAGCATGT
31144515 ATATGAATGTGATTTGGGCCTAAT-GGTCC
1 ATATGAATGTGATTTGGGCCTAATAGGTCC
*
31144544 ATATGAATGTGATTTGGGCCTAATGGGT-C
1 ATATGAATGTGATTTGGGCCTAATAGGTCC
*
31144573 ATACGAATGTGATTTGGGCCTAATAGG-CC
1 ATATGAATGTGATTTGGGCCTAATAGGTCC
* * *
31144602 ATATGAATGAGA-TTGGGCCTAGT-GGGCC
1 ATATGAATGTGATTTGGGCCTAATAGGTCC
*
31144630 ATATGCATGT
1 ATATGAATGT
31144640 ATGTAGACTT
Statistics
Matches: 86, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.02
28 20 0.23
29 61 0.71
30 3 0.03
ACGTcount: A:0.26, C:0.14, G:0.30, T:0.31
Consensus pattern (30 bp):
ATATGAATGTGATTTGGGCCTAATAGGTCC
Found at i:31145862 original size:15 final size:16
Alignment explanation
Indices: 31145836--31145865 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
31145826 TGTTACAGAA
31145836 TTTATATTTTTTTGGT
1 TTTATATTTTTTTGGT
31145852 TTTAT-TTTTTTTGG
1 TTTATATTTTTTTGG
31145866 GGTTTTTAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.10, C:0.00, G:0.13, T:0.77
Consensus pattern (16 bp):
TTTATATTTTTTTGGT
Found at i:31147642 original size:41 final size:40
Alignment explanation
Indices: 31147463--31147642 Score: 164
Period size: 40 Copynumber: 4.5 Consensus size: 40
31147453 GCTCGATTGT
* * * * **
31147463 CTTCGGGACATT-GCCCGGTTATAGTGATTCGCACAATTGC
1 CTTCGGGAC-TTAACCCGGTTTTAGTAACTCGCACAAAAGC
* * * * * *
31147503 CTTCGGGAATTTACCTGGATTTAGTAACTCGCACGAATGC
1 CTTCGGGACTTAACCCGGTTTTAGTAACTCGCACAAAAGC
* * *
31147543 CTTTGGGACTTAACTCGGTTTTGGTAACTCGCACAAAATGC
1 CTTCGGGACTTAACCCGGTTTTAGTAACTCGCACAAAA-GC
* *
31147584 CTTCGGGACTTAACCCGGTTTTAGTCACTTAGCACAAAAGC
1 CTTCGGGACTTAACCCGGTTTTAGTAAC-TCGCACAAAAGC
*
31147625 CTTCGGGACTTAGCCCGG
1 CTTCGGGACTTAACCCGG
31147643 ATACCATTCG
Statistics
Matches: 113, Mismatches: 24, Indels: 5
0.80 0.17 0.04
Matches are distributed among these distances:
39 2 0.02
40 57 0.50
41 45 0.40
42 9 0.08
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.29
Consensus pattern (40 bp):
CTTCGGGACTTAACCCGGTTTTAGTAACTCGCACAAAAGC
Found at i:31160600 original size:42 final size:41
Alignment explanation
Indices: 31160487--31160611 Score: 133
Period size: 43 Copynumber: 2.9 Consensus size: 41
31160477 GTAAAGCTCG
* * *
31160487 TACAATGCCAACGTCCCAGATATGGTCTTACATGTAATCAAA
1 TACAATGCC-ATGTCCCAGACATGGTCTTACATGAAATCAAA
* * * * *
31160529 TATCGATGTCACTGTCCTAGACAGGGTCTTACATGAAATTAAA
1 TA-CAATGCCA-TGTCCCAGACATGGTCTTACATGAAATCAAA
31160572 TACAATGCCGATGTCCCAGACATGGTCTTACATGTAAATC
1 TACAATGCC-ATGTCCCAGACATGGTCTTACATG-AAATC
31160612 TCAGATCGAT
Statistics
Matches: 66, Mismatches: 13, Indels: 7
0.77 0.15 0.08
Matches are distributed among these distances:
42 29 0.44
43 37 0.56
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (41 bp):
TACAATGCCATGTCCCAGACATGGTCTTACATGAAATCAAA
Found at i:31163528 original size:34 final size:34
Alignment explanation
Indices: 31163485--31163552 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
31163475 ATGATGCATC
*
31163485 ACTATAGATCACAAATTCTTCACCCAATTTTGGT
1 ACTATAGATCACAAATTCTTCACCCAATTCTGGT
*
31163519 ACTATAGATCACAAATTCTTTACCCAATTCTGGT
1 ACTATAGATCACAAATTCTTCACCCAATTCTGGT
31163553 TGTACTAACA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.32, C:0.24, G:0.09, T:0.35
Consensus pattern (34 bp):
ACTATAGATCACAAATTCTTCACCCAATTCTGGT
Found at i:31167958 original size:43 final size:43
Alignment explanation
Indices: 31167910--31168066 Score: 140
Period size: 43 Copynumber: 3.7 Consensus size: 43
31167900 AGCTCGTACA
* * *
31167910 ATGCCAACATCCCAGATATGGTCTTACATGTAATCAAATATCG
1 ATGCCAACGTCCCAAACATGGTCTTACATGTAATCAAATATCG
* *** *
31167953 ATGCC-ACTGTCCCAAACAGGGTCTTACACAAAATTAAATAT-G
1 ATGCCAAC-GTCCCAAACATGGTCTTACATGTAATCAAATATCG
* * * * *
31167995 ATGTCGATGTCCCAGACATGGTCTTACATGTAAATCTCAAT-TCG
1 ATGCCAACGTCCCAAACATGGTCTTACATGT-AATC-AAATATCG
*
31168039 ATGCCAACGTCCCAAACGTGGTCTTACA
1 ATGCCAACGTCCCAAACATGGTCTTACA
31168067 CGAAAACACA
Statistics
Matches: 87, Mismatches: 22, Indels: 9
0.74 0.19 0.08
Matches are distributed among these distances:
42 25 0.29
43 35 0.40
44 27 0.31
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (43 bp):
ATGCCAACGTCCCAAACATGGTCTTACATGTAATCAAATATCG
Found at i:31177745 original size:29 final size:29
Alignment explanation
Indices: 31177712--31177769 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
31177702 GAATAGTGTT
31177712 AGGTTTTAATTCAAAAGTATTTGCAGCTA
1 AGGTTTTAATTCAAAAGTATTTGCAGCTA
31177741 AGGTTTTAATTCAAAAGTATTTGCAGCTA
1 AGGTTTTAATTCAAAAGTATTTGCAGCTA
31177770 CAGCAGGTCT
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:0.34, C:0.10, G:0.17, T:0.38
Consensus pattern (29 bp):
AGGTTTTAATTCAAAAGTATTTGCAGCTA
Found at i:31184759 original size:41 final size:41
Alignment explanation
Indices: 31184701--31184848 Score: 194
Period size: 41 Copynumber: 3.6 Consensus size: 41
31184691 GAGCTTGGTC
31184701 TCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTT
1 TCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTT
* * *
31184742 TCGAAGGGCTTTAGAGCCAGTG-TCATAACCGGACTTAGTT
1 TCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTT
* * * *
31184782 TCGAAGGGCCTTTGAGCCAGTGGTCTAAT--CCGAGCTTGGTC
1 TCGAAGGGCTTTTGAGCCAGT-G-CTAATAACCGAACTTAGTT
31184823 TCGAAGGGCTTTTGAGCCAGTGCTAA
1 TCGAAGGGCTTTTGAGCCAGTGCTAA
31184849 GAATCGGGCT
Statistics
Matches: 93, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
39 4 0.04
40 36 0.39
41 50 0.54
43 3 0.03
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (41 bp):
TCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTT
Found at i:31186615 original size:17 final size:19
Alignment explanation
Indices: 31186589--31186625 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
31186579 TGTAAAACCC
31186589 ATGAGTATGAACT-TTGGT
1 ATGAGTATGAACTCTTGGT
31186607 ATGAG-ATGAACTCTTGGT
1 ATGAGTATGAACTCTTGGT
31186625 A
1 A
31186626 AGAATGCTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.30, C:0.08, G:0.27, T:0.35
Consensus pattern (19 bp):
ATGAGTATGAACTCTTGGT
Found at i:31190624 original size:21 final size:20
Alignment explanation
Indices: 31190600--31190641 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
31190590 TGCCTTGGAC
31190600 TAAATTGA-GTTTAAATTGTAT
1 TAAATTGATG-TTAAATT-TAT
31190621 TAAATTGATGTTAAATTTAT
1 TAAATTGATGTTAAATTTAT
31190641 T
1 T
31190642 TGTATAGTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 4 0.20
21 15 0.75
22 1 0.05
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (20 bp):
TAAATTGATGTTAAATTTAT
Found at i:31193225 original size:38 final size:38
Alignment explanation
Indices: 31193143--31193337 Score: 230
Period size: 38 Copynumber: 5.0 Consensus size: 38
31193133 AAACCCAAAC
* ** * * *
31193143 ATAACACCAGCACGAAGCCTATGGGACATTAAACTCAGAT
1 ATAATACCAGCACGAAGCCTGCGGG--ATTTAACCCGGAT
* *
31193183 ATAATACCAGCACTAGGCCTGCGGGATTTAACCCGGAT
1 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
*
31193221 ATAATACCAGCACGAAGCTTGCGGGATTTAACCCGGAT
1 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
*
31193259 ATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
1 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
* *
31193297 ATAATTCCAGCA-TATAGCCTGCGGGTATTTAAGCCCGGAT
1 ATAATACCAGCACGA-AGCCTGCGGG-ATTTAA-CCCGGAT
31193337 A
1 A
31193338 CACATCAAAT
Statistics
Matches: 136, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
37 1 0.01
38 101 0.74
39 6 0.04
40 28 0.21
ACGTcount: A:0.32, C:0.25, G:0.22, T:0.22
Consensus pattern (38 bp):
ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
Found at i:31198540 original size:40 final size:40
Alignment explanation
Indices: 31198457--31198609 Score: 143
Period size: 40 Copynumber: 3.8 Consensus size: 40
31198447 TCGAATGATG
* *
31198457 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTGACCAAA
* **
31198497 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTCCCAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTGACCAAA
* **
31198537 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCT-ATTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGACCA-AA
* * *
31198578 -CCGGGCTATGTCCCGAAGGCTTTTGAGCGAGT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
31198610 CGCTATATCC
Statistics
Matches: 94, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
39 2 0.02
40 81 0.86
41 11 0.12
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACCAAA
Found at i:31203122 original size:42 final size:42
Alignment explanation
Indices: 31203050--31203164 Score: 131
Period size: 42 Copynumber: 2.7 Consensus size: 42
31203040 AGCATACGGG
* * * *
31203050 TAGAGACACGAGTGTTTGTCTTAGCTGTGTGCGCTACACGGCC
1 TAGA-ACACGGGTGTGTGTCTTAGCCGTGTGCGCTACACAGCC
* *
31203093 TAGAACACGGGTGTGTGTCTCAGCCGTGTGTGCTACACAGCC
1 TAGAACACGGGTGTGTGTCTTAGCCGTGTGCGCTACACAGCC
* * * *
31203135 CAGAACATGGGCGTGTGTCTTGGCCGTGTG
1 TAGAACACGGGTGTGTGTCTTAGCCGTGTG
31203165 AAACCTGCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
42 57 0.93
43 4 0.07
ACGTcount: A:0.17, C:0.23, G:0.33, T:0.26
Consensus pattern (42 bp):
TAGAACACGGGTGTGTGTCTTAGCCGTGTGCGCTACACAGCC
Found at i:31216022 original size:26 final size:26
Alignment explanation
Indices: 31215993--31216100 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
31215983 TGGTACAAAT
31215993 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
31216019 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
31216045 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
31216071 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
31216097 TGAT
1 TGAT
31216101 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:31220505 original size:17 final size:17
Alignment explanation
Indices: 31220479--31220522 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
31220469 TTTTGAGACC
*
31220479 ATTTAATTTTCAATTTA
1 ATTTTATTTTCAATTTA
* *
31220496 ATTTTCTTTTCATTTTA
1 ATTTTATTTTCAATTTA
*
31220513 TTTTTATTTT
1 ATTTTATTTT
31220523 AGCATTTCTT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (17 bp):
ATTTTATTTTCAATTTA
Found at i:31227144 original size:42 final size:42
Alignment explanation
Indices: 31226991--31227153 Score: 152
Period size: 42 Copynumber: 3.9 Consensus size: 42
31226981 TACCACACCA
* * * *
31226991 ATGCCATATCCCAGATATGGTCTTACATG-GGATCTCGTATCA
1 ATGCCATATCCCAGATATGGTCTTACACGAAG-TCTCATATCG
* * * * *
31227033 ATGCTAATAGCCCAGCTATGGTCTTACACGAAATCTGATATCG
1 ATGC-CATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
* * *
31227076 ATGCCATACCCCAGAAATGGACTTACACGAAGTCTCATAAT-G
1 ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCAT-ATCG
*
31227118 ATGCCATATCCCAGATATGGTTTTACAC-ATAGTCTC
1 ATGCCATATCCCAGATATGGTCTTACACGA-AGTCTC
31227154 GGTAACCCTA
Statistics
Matches: 97, Mismatches: 20, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
41 1 0.01
42 62 0.64
43 34 0.35
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
Found at i:31229434 original size:53 final size:53
Alignment explanation
Indices: 31229376--31229484 Score: 200
Period size: 53 Copynumber: 2.1 Consensus size: 53
31229366 CCCATACGAC
*
31229376 ATCTTTCTTTTTTGGAGTCAAAGGTAAACCTATTACAAAATCCATCTAATCCT
1 ATCTTTCTTTTTTGGAGTCAAAGGTAAACCCATTACAAAATCCATCTAATCCT
*
31229429 ATCTTTCTTTTTTGGAGTCTAAGGTAAACCCATTACAAAATCCATCTAATCCT
1 ATCTTTCTTTTTTGGAGTCAAAGGTAAACCCATTACAAAATCCATCTAATCCT
31229482 ATC
1 ATC
31229485 CCATTTCCAC
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.31, C:0.22, G:0.09, T:0.38
Consensus pattern (53 bp):
ATCTTTCTTTTTTGGAGTCAAAGGTAAACCCATTACAAAATCCATCTAATCCT
Found at i:31231897 original size:45 final size:45
Alignment explanation
Indices: 31231832--31231959 Score: 143
Period size: 45 Copynumber: 2.8 Consensus size: 45
31231822 ATATCTGTGT
*
31231832 CGATGCCATGTCCCAGACATGGTCTTAAACT-G-ACACATCTCATAAC
1 CGATG-CATGTCCCAGACAT-GTCTTAAACTAGTACACATCTC-GAAC
* * ** *
31231878 CGATGCATGTCCCAAACATGTCTTATACTAGTTTACATCTCGAGC
1 CGATGCATGTCCCAGACATGTCTTAAACTAGTACACATCTCGAAC
* *
31231923 CGATGCATGTCCCAGACATGTCTTACACTAGCACACA
1 CGATGCATGTCCCAGACATGTCTTAAACTAGTACACA
31231960 CACATCACCT
Statistics
Matches: 69, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
44 9 0.13
45 48 0.70
46 12 0.17
ACGTcount: A:0.29, C:0.30, G:0.16, T:0.26
Consensus pattern (45 bp):
CGATGCATGTCCCAGACATGTCTTAAACTAGTACACATCTCGAAC
Found at i:31243441 original size:15 final size:15
Alignment explanation
Indices: 31243421--31243454 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
31243411 AGTATATACA
*
31243421 CACAACCAATTCAAC
1 CACAACCAAGTCAAC
*
31243436 CACAACCAAGTCATC
1 CACAACCAAGTCAAC
31243451 CACA
1 CACA
31243455 CATCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.44, C:0.41, G:0.03, T:0.12
Consensus pattern (15 bp):
CACAACCAAGTCAAC
Found at i:31244232 original size:43 final size:42
Alignment explanation
Indices: 31244170--31244291 Score: 154
Period size: 43 Copynumber: 2.9 Consensus size: 42
31244160 TACCATACCA
** *
31244170 ATGCCATATCCCAGATATGGTCTTACATGGGATCTCATATTG
1 ATGCCATATCCCAGATATGGTCTTACATGAAATCTCATATCG
* * * **
31244212 ATGCCAATAGCCCAGCTATGGTCTTCCAAAAAATCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACATGAAATCTCATATCG
*
31244255 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCA
1 ATGCCATATCCCAGATATGGTCTTACATGAAATCTCA
31244292 ACTAACCCTA
Statistics
Matches: 65, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
42 31 0.48
43 34 0.52
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.30
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACATGAAATCTCATATCG
Found at i:31247030 original size:42 final size:42
Alignment explanation
Indices: 31246898--31247057 Score: 126
Period size: 42 Copynumber: 3.8 Consensus size: 42
31246888 CACACCAATA
*** **
31246898 CCATATCCCAAATATGGTCTTACA-TGGGATCTTGTATCGATG
1 CCATATCCCAAATATGGTCTTACACAAAG-TCTCATATCGATG
* * ** * *
31246940 CCAATAGCCTAGCTATGGTCTTACACAAAATCTCATATCGGTG
1 CC-ATATCCCAAATATGGTCTTACACAAAGTCTCATATCGATG
* *
31246983 CCATATCCCAGATATTGTCTTACACAAAGTCTCATAAT-GATG
1 CCATATCCCAAATATGGTCTTACACAAAGTCTCAT-ATCGATG
* * * *
31247025 GCATATCCCAAATATGGTTTTACGCATAGTCTC
1 CCATATCCCAAATATGGTCTTACACAAAGTCTC
31247058 GGTAACCCTA
Statistics
Matches: 92, Mismatches: 23, Indels: 6
0.76 0.19 0.05
Matches are distributed among these distances:
42 60 0.65
43 32 0.35
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (42 bp):
CCATATCCCAAATATGGTCTTACACAAAGTCTCATATCGATG
Found at i:31259928 original size:40 final size:38
Alignment explanation
Indices: 31259871--31260021 Score: 133
Period size: 40 Copynumber: 3.8 Consensus size: 38
31259861 TCGAATGATG
* * *
31259871 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATA
1 TCCGGACTAA-TCCCGAAGGCTTTGTGC-AAGTTACTAAA
* * *
31259911 TCCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAA
1 TCCGGACTA--ATCCCGAAGGC-TTTGTGCAAGTTACTAAA
*
31259951 TCCGGGCTAATCCCGAAGGCTTTGTGCAAGTTACTAAA
1 TCCGGACTAATCCCGAAGGCTTTGTGCAAGTTACTAAA
* ** *
31259989 CCCGGGTTAAGTCCCGAAGGCATTCGTGCAAGT
1 TCCGGACTAA-TCCCGAAGGC-TTTGTGCAAGT
31260022 CGCTATAACC
Statistics
Matches: 92, Mismatches: 13, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
38 25 0.27
39 18 0.20
40 41 0.45
41 7 0.08
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (38 bp):
TCCGGACTAATCCCGAAGGCTTTGTGCAAGTTACTAAA
Found at i:31268071 original size:40 final size:40
Alignment explanation
Indices: 31267909--31268110 Score: 148
Period size: 40 Copynumber: 5.1 Consensus size: 40
31267899 CGAATGATGT
*
31267909 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-AAGTCG-CTATAA
* * * * ***
31267949 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATA-AA
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCAAGTCGCTATAA
**
31267988 TCCGGGCTAA-TCCCGAAGGC-TTTGTGCAAGTTACTA-AA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
* *
31268026 CCCGGGTTAAGTCCCGAAGGCATTCGTGCAAGTCGCTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
** * * * *
31268067 CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCGTTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
31268107 CCGG
1 CCGG
31268111 TTAAATTCCG
Statistics
Matches: 129, Mismatches: 25, Indels: 16
0.76 0.15 0.09
Matches are distributed among these distances:
38 24 0.19
39 19 0.15
40 77 0.60
41 9 0.07
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
Found at i:31268073 original size:78 final size:79
Alignment explanation
Indices: 31267908--31268059 Score: 200
Period size: 78 Copynumber: 1.9 Consensus size: 79
31267898 TCGAATGATG
* * *
31267908 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTC
1 TCCGGGCTAA-TCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
* *
31267973 GTGCGAGTTAATAAA
65 GTGCAAGTCAATAAA
* **
31267988 TCCGGGCTAATCCCGAAGGCTTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCATTC
1 TCCGGGCTAATCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCATTC
31268051 GTGCAAGTC
65 GTGCAAGTC
31268060 GCTATAACCG
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
77 1 0.02
78 35 0.56
79 17 0.27
80 10 0.16
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (79 bp):
TCCGGGCTAATCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTCG
TGCAAGTCAATAAA
Found at i:31274228 original size:31 final size:31
Alignment explanation
Indices: 31274190--31274250 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
31274180 CAGTATATTA
31274190 CATTATTCATATCACTAGGCCGAAGCCTTTT
1 CATTATTCATATCACTAGGCCGAAGCCTTTT
* *
31274221 CATTATTCATATCATTGGGCCGAAGCCTTT
1 CATTATTCATATCACTAGGCCGAAGCCTTT
31274251 ACTGTAACAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.36
Consensus pattern (31 bp):
CATTATTCATATCACTAGGCCGAAGCCTTTT
Found at i:31274485 original size:25 final size:25
Alignment explanation
Indices: 31274457--31274542 Score: 113
Period size: 26 Copynumber: 3.4 Consensus size: 25
31274447 CTGGAGGCCT
*
31274457 AGCCTCTTTTAAT-AACTGGGGCAAA
1 AGCC-CTTTTGATAAACTGGGGCAAA
31274482 AGCCCTTTTTGATAAACTGGGGCAAA
1 AGCCC-TTTTGATAAACTGGGGCAAA
*
31274508 AGCCCTTTTCGGTAAACTGGGGC-AA
1 AGCCCTTTT-GATAAACTGGGGCAAA
31274533 AGCCCTTTTG
1 AGCCCTTTTG
31274543 CACTTCCTCC
Statistics
Matches: 56, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
24 2 0.04
25 25 0.45
26 29 0.52
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (25 bp):
AGCCCTTTTGATAAACTGGGGCAAA
Found at i:31274506 original size:26 final size:26
Alignment explanation
Indices: 31274470--31274541 Score: 119
Period size: 26 Copynumber: 2.8 Consensus size: 26
31274460 CTCTTTTAAT
*
31274470 AACTGGGGCAAAAGCCCTTTTTGATA
1 AACTGGGGCAAAAGCCCTTTTCGATA
*
31274496 AACTGGGGCAAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAAGCCCTTTTCGATA
31274522 AACTGGGGC-AAAGCCCTTTT
1 AACTGGGGCAAAAGCCCTTTT
31274542 GCACTTCCTC
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
25 11 0.25
26 33 0.75
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (26 bp):
AACTGGGGCAAAAGCCCTTTTCGATA
Found at i:31279522 original size:17 final size:17
Alignment explanation
Indices: 31279500--31279533 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
31279490 GCTAGACTGA
*
31279500 TGTTTCTTCAAGCGATC
1 TGTTTCTTCAAGAGATC
31279517 TGTTTCTTCAAGAGATC
1 TGTTTCTTCAAGAGATC
31279534 CGAAAAGCTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.21, C:0.21, G:0.18, T:0.41
Consensus pattern (17 bp):
TGTTTCTTCAAGAGATC
Found at i:31282212 original size:46 final size:45
Alignment explanation
Indices: 31282155--31282376 Score: 171
Period size: 46 Copynumber: 4.8 Consensus size: 45
31282145 ATTTGAGTGT
* * * *
31282155 GAGCTAGTGTAAGACATGTTTGTGACATGCATCGACCACATTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGACCACA-GATGA
* * *
31282201 GAGCCAGTGTAAGAGCATGTCTGGGACATGGCATCG-GCATTAAGACGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGACCA--CAGATGA
* * * * *
31282249 GAGCTAGTGTAACACATGTTTGTGACATGCATC-AGCCTCGAGATGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGA-CCAC-AGATG-A
* *
31282296 -AGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGACCAC-AGATGA
* * *
31282341 TAGTCAGTGTAAGATCATGTCTAGGACATGGCATCG
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCG
31282377 GCATCTTACC
Statistics
Matches: 140, Mismatches: 24, Indels: 22
0.75 0.13 0.12
Matches are distributed among these distances:
45 1 0.01
46 70 0.50
47 41 0.29
48 27 0.19
49 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.24
Consensus pattern (45 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGACCACAGATGA
Found at i:31283344 original size:28 final size:28
Alignment explanation
Indices: 31283312--31283367 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
31283302 ACATGGGCTA
* *
31283312 GGACATGGGC-GTGTCGTGGCCATGTGAG
1 GGACACGGGCAGTGTC-TAGCCATGTGAG
31283340 GGACACGGGCATGTGTCTAGCCATGTGA
1 GGACACGGGCA-GTGTCTAGCCATGTGA
31283368 AAACCCTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 9 0.38
29 10 0.42
30 5 0.21
ACGTcount: A:0.18, C:0.20, G:0.41, T:0.21
Consensus pattern (28 bp):
GGACACGGGCAGTGTCTAGCCATGTGAG
Found at i:31285737 original size:13 final size:13
Alignment explanation
Indices: 31285715--31285747 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
31285705 AAGGGTTTGT
31285715 TTAT-TAAACTAA
1 TTATCTAAACTAA
31285727 TTATCTAAACTAA
1 TTATCTAAACTAA
*
31285740 TTAACTAA
1 TTATCTAA
31285748 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:31288678 original size:20 final size:19
Alignment explanation
Indices: 31288655--31288706 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
31288645 TATGTCTTTC
*
31288655 AAAATAAAATAATAAAATTG
1 AAAAGAAAATAA-AAAATTG
*
31288675 AAAAGAAAATAAAAAA-TA
1 AAAAGAAAATAAAAAATTG
31288693 AAAAGAAGAATAAA
1 AAAAGAA-AATAAA
31288707 GATAAAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 8 0.28
19 10 0.34
20 11 0.38
ACGTcount: A:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (19 bp):
AAAAGAAAATAAAAAATTG
Found at i:31288711 original size:18 final size:18
Alignment explanation
Indices: 31288675--31288727 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
31288665 AATAAAATTG
*
31288675 AAAAGAA-AATAAAAAATA
1 AAAAGAAGAAT-AAAGATA
31288693 AAAAGAAGAATAAAGATA
1 AAAAGAAGAATAAAGATA
*
31288711 AAAATAAGAATATAAGA
1 AAAAGAAGAATA-AAGA
31288728 GGATTCAATG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
18 24 0.77
19 7 0.23
ACGTcount: A:0.75, C:0.00, G:0.11, T:0.13
Consensus pattern (18 bp):
AAAAGAAGAATAAAGATA
Done.