Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032248.1 Gossypioides kirkii chromosome KI_06
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: 60359545
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 900 characters in sequence are not A, C, G, or T
File 81 of 193
Found at i:26745137 original size:80 final size:80
Alignment explanation
Indices: 26744877--26745146 Score: 326
Period size: 81 Copynumber: 3.4 Consensus size: 80
26744867 TACGATACTA
* * * * *
26744877 CTCACACAAGCTATCAGGAAACTGCAACATATGCAAGATCCCAGCCATCGTTACGATCCATAATA
1 CTCACACAAGCTATCAAGAAACTGCAACATATGCAAGAT-CCAGCCATTGATACGGTCCATATTA
*
26744942 CCCACTCACGATGCTG
65 CCCACTCACAATGCTG
* * *
26744958 CTCACACAAGCTGTCAAAAAACTGCAACATATGCAGGATCCTAGCCATTGATACGGTCCATATTA
1 CTCACACAAGCTATCAAGAAACTGCAACATATGCAAGATCC-AGCCATTGATACGGTCCATATTA
* *
26745023 CCCAGTCACAATGTTG
65 CCCACTCACAATGCTG
* * * ** * *
26745039 CTCACACAAGTTAACAAGAATCCACAACATATGCAAGATCTCAGCCATTG-TAGGGTCCATGTTA
1 CTCACACAAGCTATCAAGAAACTGCAACATATGCAAGATC-CAGCCATTGATACGGTCCATATTA
26745103 CCCACTCACAATGCTG
65 CCCACTCACAATGCTG
* *
26745119 CTCACCCAAGCTATCAAGAAATTGCAAC
1 CTCACACAAGCTATCAAGAAACTGCAAC
26745147 GTAGTAGGAT
Statistics
Matches: 157, Mismatches: 30, Indels: 5
0.82 0.16 0.03
Matches are distributed among these distances:
80 49 0.31
81 107 0.68
82 1 0.01
ACGTcount: A:0.34, C:0.30, G:0.15, T:0.21
Consensus pattern (80 bp):
CTCACACAAGCTATCAAGAAACTGCAACATATGCAAGATCCAGCCATTGATACGGTCCATATTAC
CCACTCACAATGCTG
Found at i:26748326 original size:17 final size:15
Alignment explanation
Indices: 26748306--26748351 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 15
26748296 TTATTCCAAT
26748306 TAACAGTTCATAACACA
1 TAACAGTTCATAA-A-A
26748323 TAACAGTTCATGCAAAA
1 TAACAGTTCAT--AAAA
26748340 TAACAGTTCATA
1 TAACAGTTCATA
26748352 CTCCATCATA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
15 1 0.04
17 23 0.85
18 1 0.04
19 2 0.07
ACGTcount: A:0.46, C:0.20, G:0.09, T:0.26
Consensus pattern (15 bp):
TAACAGTTCATAAAA
Found at i:26751096 original size:36 final size:36
Alignment explanation
Indices: 26751049--26751211 Score: 111
Period size: 36 Copynumber: 4.4 Consensus size: 36
26751039 TTGATGTTGC
26751049 CGGTTTATCCGACTAGTGCTAGGAGCAAATCT-TTGT
1 CGGTTTATCCGACTAGTGCTAGGA-CAAATCTATTGT
* *
26751085 CGGTTTATCCGATTAGTGCTGGGTACACAAT-TGATGTTGT
1 CGGTTTATCCGACTAGTGCTAGG-ACA-AATCT-A--TTGT
* * * * * *
26751125 CGGTTTATCAGACTAGCGTTGGGTGCAAATCT-TT-A
1 CGGTTTATCCGACTAGTGCTAGG-ACAAATCTATTGT
* * * *
26751160 CTGGTTTATACAACTAGTGC-ATGACACATCTATTGT
1 C-GGTTTATCCGACTAGTGCTAGGACAAATCTATTGT
26751196 CGGTTTATCCGACTAG
1 CGGTTTATCCGACTAG
26751212 CACTGAACAC
Statistics
Matches: 97, Mismatches: 20, Indels: 21
0.70 0.14 0.15
Matches are distributed among these distances:
34 6 0.06
35 17 0.18
36 40 0.41
37 4 0.04
39 3 0.03
40 27 0.28
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.35
Consensus pattern (36 bp):
CGGTTTATCCGACTAGTGCTAGGACAAATCTATTGT
Found at i:26751131 original size:76 final size:76
Alignment explanation
Indices: 26751005--26751158 Score: 191
Period size: 76 Copynumber: 2.0 Consensus size: 76
26750995 TGTATGTAAA
* * ** * * *
26751005 TTGTCAGTTTATCCTACTAGTGTTGGGTTTACATTTGATGTTGCCGGTTTATCCGACTAGTGCTA
1 TTGTCAGTTTATCCGACTAGTGCTGGGTACACAATTGATGTTGCCGGTTTATCAGACTAGCGCTA
26751070 GGAGCAAATCT
66 GGAGCAAATCT
* * * * *
26751081 TTGTCGGTTTATCCGATTAGTGCTGGGTACACAATTGATGTTGTCGGTTTATCAGACTAGCGTTG
1 TTGTCAGTTTATCCGACTAGTGCTGGGTACACAATTGATGTTGCCGGTTTATCAGACTAGCGCTA
*
26751146 GGTGCAAATCT
66 GGAGCAAATCT
26751157 TT
1 TT
26751159 ACTGGTTTAT
Statistics
Matches: 65, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
76 65 1.00
ACGTcount: A:0.19, C:0.16, G:0.25, T:0.39
Consensus pattern (76 bp):
TTGTCAGTTTATCCGACTAGTGCTGGGTACACAATTGATGTTGCCGGTTTATCAGACTAGCGCTA
GGAGCAAATCT
Found at i:26751132 original size:40 final size:40
Alignment explanation
Indices: 26751005--26751140 Score: 129
Period size: 40 Copynumber: 3.5 Consensus size: 40
26750995 TGTATGTAAA
* * * ** *
26751005 TTGTCAGTTTATCCTACTAGTGTTGGGTTTACATTTGATG
1 TTGTCGGTTTATCCGACTAGTGCTGGGTACACAATTGATG
* * *
26751045 TTGCCGGTTTATCCGACTAGTGCTAGG-AGCA-AA-T-CT-
1 TTGTCGGTTTATCCGACTAGTGCTGGGTA-CACAATTGATG
*
26751081 TTGTCGGTTTATCCGATTAGTGCTGGGTACACAATTGATG
1 TTGTCGGTTTATCCGACTAGTGCTGGGTACACAATTGATG
*
26751121 TTGTCGGTTTATCAGACTAG
1 TTGTCGGTTTATCCGACTAG
26751141 CGTTGGGTGC
Statistics
Matches: 75, Mismatches: 15, Indels: 12
0.74 0.15 0.12
Matches are distributed among these distances:
36 26 0.35
37 4 0.05
38 2 0.03
39 2 0.03
40 41 0.55
ACGTcount: A:0.20, C:0.16, G:0.25, T:0.39
Consensus pattern (40 bp):
TTGTCGGTTTATCCGACTAGTGCTGGGTACACAATTGATG
Found at i:26751166 original size:76 final size:76
Alignment explanation
Indices: 26751011--26751179 Score: 187
Period size: 76 Copynumber: 2.2 Consensus size: 76
26751001 TAAATTGTCA
* * ** * * *
26751011 GTTTATCCTACTAGTGTTGGGTTTACATTTGATGTTGCCGGTTTATCCGACTAGTGCTAGGAGCA
1 GTTTATCCGACTAGTGCTGGGTACACAATTGATGTTGCCGGTTTATCAGACTAGCGCTAGGAGCA
*
26751076 AATCTTTGTCG
66 AATCTTTCTCG
* * * * *
26751087 GTTTATCCGATTAGTGCTGGGTACACAATTGATGTTGTCGGTTTATCAGACTAGCGTTGGGTGCA
1 GTTTATCCGACTAGTGCTGGGTACACAATTGATGTTGCCGGTTTATCAGACTAGCGCTAGGAGCA
26751152 AATCTTTACT-G
66 AATCTTT-CTCG
* *
26751163 GTTTATACAACTAGTGC
1 GTTTATCCGACTAGTGC
26751180 ATGACACATC
Statistics
Matches: 76, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
76 75 0.99
77 1 0.01
ACGTcount: A:0.21, C:0.17, G:0.25, T:0.38
Consensus pattern (76 bp):
GTTTATCCGACTAGTGCTGGGTACACAATTGATGTTGCCGGTTTATCAGACTAGCGCTAGGAGCA
AATCTTTCTCG
Found at i:26762229 original size:18 final size:18
Alignment explanation
Indices: 26762206--26762244 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
26762196 ATTAGATATT
* *
26762206 TTAAATTTATTGGAATAA
1 TTAAATTCATGGGAATAA
*
26762224 TTAAATTCATGGGAATTA
1 TTAAATTCATGGGAATAA
26762242 TTA
1 TTA
26762245 TCTAGATCAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.41, C:0.03, G:0.13, T:0.44
Consensus pattern (18 bp):
TTAAATTCATGGGAATAA
Found at i:26762909 original size:24 final size:24
Alignment explanation
Indices: 26762882--26763383 Score: 313
Period size: 24 Copynumber: 20.9 Consensus size: 24
26762872 AACGTGTATA
* *
26762882 TATATAAGTTGACGAGTGTAAACG
1 TATATAAGCTGACGAGCGTAAACG
* *
26762906 TATATAAGCTGACAAGCGTAAACA
1 TATATAAGCTGACGAGCGTAAACG
* ** *
26762930 TGTGCAAGCTGACGAGCGTAAACA
1 TATATAAGCTGACGAGCGTAAACG
*
26762954 TATATAAGCTGACGAGCGTAAGCG
1 TATATAAGCTGACGAGCGTAAACG
* * * *
26762978 TGTACAAGCTGATGAGCTTAAACG
1 TATATAAGCTGACGAGCGTAAACG
* ** *
26763002 TGTGCAAGCTGACGAGCGTAAACT
1 TATATAAGCTGACGAGCGTAAACG
* * * *
26763026 TATATAAGCTAACAAGTGTAAATG
1 TATATAAGCTGACGAGCGTAAACG
* ** * * *
26763050 TGTGCAAGCTGATGAGCGTTAATG
1 TATATAAGCTGACGAGCGTAAACG
* * * *
26763074 TATATAAGTTGGCAAGCATAAACG
1 TATATAAGCTGACGAGCGTAAACG
* ** * *
26763098 TGTGCAAGCTGACAAGCGTAAACA
1 TATATAAGCTGACGAGCGTAAACG
* * * *
26763122 TATAAAAGATGACGAGCATAAATG
1 TATATAAGCTGACGAGCGTAAACG
* ** * * *
26763146 TGTGCAAGTTGACAAGCGTAAACC
1 TATATAAGCTGACGAGCGTAAACG
* *
26763170 TATATAAGATGACGAGCGTAAACT
1 TATATAAGCTGACGAGCGTAAACG
* ** *
26763194 TGTGCAAGCTAACGAGCGTAAACG
1 TATATAAGCTGACGAGCGTAAACG
* *
26763218 TATATAAGCTGACAAGCATAAACG
1 TATATAAGCTGACGAGCGTAAACG
* * * *
26763242 TGTGTAAGCTAACGAGCATAAACG
1 TATATAAGCTGACGAGCGTAAACG
* ** *
26763266 TGTGCAAGCTAACGAGCGTAAACG
1 TATATAAGCTGACGAGCGTAAACG
* * * *
26763290 TGT-TCAAGTTGATGAGCGTAAATG
1 TATAT-AAGCTGACGAGCGTAAACG
* *
26763314 TATTTAAGCTGATGAGCGTAAACG
1 TATATAAGCTGACGAGCGTAAACG
* ** * *
26763338 TGTGCAAGCTGACGAGCATAAATG
1 TATATAAGCTGACGAGCGTAAACG
* *
26763362 TATATAAGTTGATGAGCGTAAA
1 TATATAAGCTGACGAGCGTAAA
26763384 TGCGTGCAAG
Statistics
Matches: 361, Mismatches: 115, Indels: 4
0.75 0.24 0.01
Matches are distributed among these distances:
24 360 1.00
25 1 0.00
ACGTcount: A:0.37, C:0.15, G:0.25, T:0.23
Consensus pattern (24 bp):
TATATAAGCTGACGAGCGTAAACG
Found at i:26763360 original size:48 final size:48
Alignment explanation
Indices: 26762882--26763408 Score: 469
Period size: 48 Copynumber: 11.0 Consensus size: 48
26762872 AACGTGTATA
* * * ** * *
26762882 TATATAAGTTGACGAGTGTAAACGTATATAAGCTGACAAGCGTAAACA
1 TATATAAGCTGACGAGCGTAAACGTGTGCAAGCTGACGAGCGTAAACG
* ** * * ** *
26762930 TGTGCAAGCTGACGAGCGTAAACATATATAAGCTGACGAGCGTAAGCG
1 TATATAAGCTGACGAGCGTAAACGTGTGCAAGCTGACGAGCGTAAACG
* * * * *
26762978 TGTACAAGCTGATGAGCTTAAACGTGTGCAAGCTGACGAGCGTAAACT
1 TATATAAGCTGACGAGCGTAAACGTGTGCAAGCTGACGAGCGTAAACG
* * * * * * *
26763026 TATATAAGCTAACAAGTGTAAATGTGTGCAAGCTGATGAGCGTTAATG
1 TATATAAGCTGACGAGCGTAAACGTGTGCAAGCTGACGAGCGTAAACG
* * * * * *
26763074 TATATAAGTTGGCAAGCATAAACGTGTGCAAGCTGACAAGCGTAAACA
1 TATATAAGCTGACGAGCGTAAACGTGTGCAAGCTGACGAGCGTAAACG
* * * * * * *
26763122 TATAAAAGATGACGAGCATAAATGTGTGCAAGTTGACAAGCGTAAACC
1 TATATAAGCTGACGAGCGTAAACGTGTGCAAGCTGACGAGCGTAAACG
* * *
26763170 TATATAAGATGACGAGCGTAAACTTGTGCAAGCTAACGAGCGTAAACG
1 TATATAAGCTGACGAGCGTAAACGTGTGCAAGCTGACGAGCGTAAACG
* * * * *
26763218 TATATAAGCTGACAAGCATAAACGTGTGTAAGCTAACGAGCATAAACG
1 TATATAAGCTGACGAGCGTAAACGTGTGCAAGCTGACGAGCGTAAACG
* ** * * * * *
26763266 TGTGCAAGCTAACGAGCGTAAACGTGTTCAAGTTGATGAGCGTAAATG
1 TATATAAGCTGACGAGCGTAAACGTGTGCAAGCTGACGAGCGTAAACG
* * * *
26763314 TATTTAAGCTGATGAGCGTAAACGTGTGCAAGCTGACGAGCATAAATG
1 TATATAAGCTGACGAGCGTAAACGTGTGCAAGCTGACGAGCGTAAACG
* * * * *
26763362 TATATAAGTTGATGAGCGTAAATGCGTGCAAGCTGACGAACGTAAAC
1 TATATAAGCTGACGAGCGTAAACGTGTGCAAGCTGACGAGCGTAAAC
26763409 AAAATGAATT
Statistics
Matches: 388, Mismatches: 91, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
48 388 1.00
ACGTcount: A:0.37, C:0.15, G:0.25, T:0.23
Consensus pattern (48 bp):
TATATAAGCTGACGAGCGTAAACGTGTGCAAGCTGACGAGCGTAAACG
Found at i:26763385 original size:72 final size:72
Alignment explanation
Indices: 26762882--26763383 Score: 394
Period size: 72 Copynumber: 7.0 Consensus size: 72
26762872 AACGTGTATA
* * * ** * * * ** *
26762882 TATATAAGTTGACGAGTGTAAACGTATATAAGCTGACAAGCGTAAACATGTGCAAGCTGACGAGC
1 TATATAAGCTGACGAGCGTAAACGTGTGCAAGCTGACGAGCGTAAACGTATATAAGTTGACGAGC
*
26762947 GTAAACA
66 GTAAACG
* * * * * ** *
26762954 TATATAAGCTGACGAGCGTAAGCGTGTACAAGCTGATGAGCTTAAACGTGTGCAAGCTGACGAGC
1 TATATAAGCTGACGAGCGTAAACGTGTGCAAGCTGACGAGCGTAAACGTATATAAGTTGACGAGC
*
26763019 GTAAACT
66 GTAAACG
* * * * * * * * *
26763026 TATATAAGCTAACAAGTGTAAATGTGTGCAAGCTGATGAGCGTTAATGTATATAAGTTGGCAAGC
1 TATATAAGCTGACGAGCGTAAACGTGTGCAAGCTGACGAGCGTAAACGTATATAAGTTGACGAGC
*
26763091 ATAAACG
66 GTAAACG
* ** * * * ** * * * * ** *
26763098 TGTGCAAGCTGACAAGCGTAAACATATAAAAGATGACGAGCATAAATGTGTGCAAGTTGACAAGC
1 TATATAAGCTGACGAGCGTAAACGTGTGCAAGCTGACGAGCGTAAACGTATATAAGTTGACGAGC
*
26763163 GTAAACC
66 GTAAACG
* * * * *
26763170 TATATAAGATGACGAGCGTAAACTTGTGCAAGCTAACGAGCGTAAACGTATATAAGCTGACAAGC
1 TATATAAGCTGACGAGCGTAAACGTGTGCAAGCTGACGAGCGTAAACGTATATAAGTTGACGAGC
*
26763235 ATAAACG
66 GTAAACG
* * * * * * *
26763242 TGTGTAAGCTAACGAGCATAAACGTGTGCAAGCTAACGAGCGTAAACGTGT-TCAAGTTGATGAG
1 TATATAAGCTGACGAGCGTAAACGTGTGCAAGCTGACGAGCGTAAACGTATAT-AAGTTGACGAG
*
26763306 CGTAAATG
65 CGTAAACG
* * * * *
26763314 TATTTAAGCTGATGAGCGTAAACGTGTGCAAGCTGACGAGCATAAATGTATATAAGTTGATGAGC
1 TATATAAGCTGACGAGCGTAAACGTGTGCAAGCTGACGAGCGTAAACGTATATAAGTTGACGAGC
26763379 GTAAA
66 GTAAA
26763384 TGCGTGCAAG
Statistics
Matches: 341, Mismatches: 87, Indels: 4
0.79 0.20 0.01
Matches are distributed among these distances:
71 1 0.00
72 339 0.99
73 1 0.00
ACGTcount: A:0.37, C:0.15, G:0.25, T:0.23
Consensus pattern (72 bp):
TATATAAGCTGACGAGCGTAAACGTGTGCAAGCTGACGAGCGTAAACGTATATAAGTTGACGAGC
GTAAACG
Found at i:26765616 original size:15 final size:16
Alignment explanation
Indices: 26765591--26765620 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
26765581 AATGAAAGAG
26765591 GAAGATATTATTATAC
1 GAAGATATTATTATAC
26765607 GAAG-TATTATTATA
1 GAAGATATTATTATA
26765621 AGGATTTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.43, C:0.03, G:0.13, T:0.40
Consensus pattern (16 bp):
GAAGATATTATTATAC
Found at i:26765766 original size:25 final size:25
Alignment explanation
Indices: 26765738--26765797 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
26765728 TCTTAGCGCG
26765738 CTCTCAGATTATTAACACGTTAGTA
1 CTCTCAGATTATTAACACGTTAGTA
* *
26765763 CTCTCTA-ATTATTAGCACGTTAGTG
1 CTCTC-AGATTATTAACACGTTAGTA
*
26765788 CTCTCTGATT
1 CTCTCAGATT
26765798 TGCACGTTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 29 0.97
26 1 0.03
ACGTcount: A:0.25, C:0.22, G:0.13, T:0.40
Consensus pattern (25 bp):
CTCTCAGATTATTAACACGTTAGTA
Found at i:26765768 original size:27 final size:25
Alignment explanation
Indices: 26765745--26765793 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
26765735 GCGCTCTCAG
26765745 ATTATTAACACGTTAGTACTCTCTA
1 ATTATTAACACGTTAGTACTCTCTA
* *
26765770 ATTATTAGCACGTTAGTGCTCTCT
1 ATTATTAACACGTTAGTACTCTCT
26765794 GATTTGCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.27, C:0.20, G:0.12, T:0.41
Consensus pattern (25 bp):
ATTATTAACACGTTAGTACTCTCTA
Found at i:26765805 original size:22 final size:22
Alignment explanation
Indices: 26765753--26765820 Score: 75
Period size: 22 Copynumber: 3.0 Consensus size: 22
26765743 AGATTATTAA
*
26765753 CACGTTAGTACTCTCTAATTATTAG
1 CACGTTAGTGCTCTCT-A-T-TTAG
26765778 CACGTTAGTGCTCTCTGATTT-G
1 CACGTTAGTGCTCTCT-ATTTAG
*
26765800 CACGTTTGTGCTCTCTATTTA
1 CACGTTAGTGCTCTCTATTTA
26765821 TCCACTTCGG
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
21 4 0.10
22 16 0.41
23 2 0.05
24 1 0.03
25 16 0.41
ACGTcount: A:0.19, C:0.22, G:0.16, T:0.43
Consensus pattern (22 bp):
CACGTTAGTGCTCTCTATTTAG
Found at i:26790508 original size:29 final size:29
Alignment explanation
Indices: 26790476--26790534 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
26790466 AAAAAATGCA
26790476 TACAACTAACTACAGAAAAGGAAACTAAC
1 TACAACTAACTACAGAAAAGGAAACTAAC
*
26790505 TACAACTAACTACAGAAAAGTAAACTAAC
1 TACAACTAACTACAGAAAAGGAAACTAAC
26790534 T
1 T
26790535 CATTGTGTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.54, C:0.20, G:0.08, T:0.17
Consensus pattern (29 bp):
TACAACTAACTACAGAAAAGGAAACTAAC
Found at i:26803135 original size:24 final size:24
Alignment explanation
Indices: 26803038--26803145 Score: 119
Period size: 24 Copynumber: 4.5 Consensus size: 24
26803028 ACTGAGTCTT
*
26803038 CTAGA-AATTTAGCTCATACGAGC
1 CTAGATAAGTTAGCTCATACGAGC
* *
26803061 CTAGACAAAATTAGCTCATACGAGC
1 CTAGA-TAAGTTAGCTCATACGAGC
* * * *
26803086 CCAAATAGGTTAGCTCCTACGAGC
1 CTAGATAAGTTAGCTCATACGAGC
*
26803110 CTAGATAAGTTAGCTCATTCGAGC
1 CTAGATAAGTTAGCTCATACGAGC
26803134 CTAGATAGAGTT
1 CTAGATA-AGTT
26803146 TAACCAGTAT
Statistics
Matches: 70, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
23 5 0.07
24 41 0.59
25 24 0.34
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.25
Consensus pattern (24 bp):
CTAGATAAGTTAGCTCATACGAGC
Found at i:26812130 original size:21 final size:21
Alignment explanation
Indices: 26812105--26812207 Score: 100
Period size: 21 Copynumber: 4.8 Consensus size: 21
26812095 CCTGTAACTT
*
26812105 CTACTGATACAAGTATCTTAA
1 CTACTGATACAAGCATCTTAA
26812126 CTACTGATACAAGCATCTTAA
1 CTACTGATACAAGCATCTTAA
* * **
26812147 CTACCGAAACAAGCATACACAGAA
1 CTACTGATACAAGCAT---CTTAA
*
26812171 CTA-TCGATATAAGCATCTTAA
1 CTACT-GATACAAGCATCTTAA
*
26812192 CTACCGATACAAGCAT
1 CTACTGATACAAGCAT
26812208 ACACAGAACT
Statistics
Matches: 65, Mismatches: 12, Indels: 10
0.75 0.14 0.11
Matches are distributed among these distances:
21 50 0.77
24 15 0.23
ACGTcount: A:0.41, C:0.24, G:0.11, T:0.24
Consensus pattern (21 bp):
CTACTGATACAAGCATCTTAA
Found at i:26812173 original size:45 final size:45
Alignment explanation
Indices: 26812131--26812225 Score: 172
Period size: 45 Copynumber: 2.1 Consensus size: 45
26812121 CTTAACTACT
26812131 GATACAAGCATCTTAACTACCGAAACAAGCATACACAGAACTATC
1 GATACAAGCATCTTAACTACCGAAACAAGCATACACAGAACTATC
* *
26812176 GATATAAGCATCTTAACTACCGATACAAGCATACACAGAACTATC
1 GATACAAGCATCTTAACTACCGAAACAAGCATACACAGAACTATC
26812221 GATAC
1 GATAC
26812226 CTACTATGCA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.43, C:0.25, G:0.12, T:0.20
Consensus pattern (45 bp):
GATACAAGCATCTTAACTACCGAAACAAGCATACACAGAACTATC
Found at i:26812184 original size:24 final size:24
Alignment explanation
Indices: 26812145--26812225 Score: 87
Period size: 24 Copynumber: 3.5 Consensus size: 24
26812135 CAAGCATCTT
* *
26812145 AACTACCGAAACAAGCATACACAG
1 AACTATCGATACAAGCATACACAG
* **
26812169 AACTATCGATATAAGCAT---CTT
1 AACTATCGATACAAGCATACACAG
*
26812190 AACTACCGATACAAGCATACACAG
1 AACTATCGATACAAGCATACACAG
26812214 AACTATCGATAC
1 AACTATCGATAC
26812226 CTACTATGCA
Statistics
Matches: 44, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
21 17 0.39
24 27 0.61
ACGTcount: A:0.44, C:0.26, G:0.11, T:0.19
Consensus pattern (24 bp):
AACTATCGATACAAGCATACACAG
Found at i:26815848 original size:21 final size:22
Alignment explanation
Indices: 26815808--26815853 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
26815798 AAAAATTCAA
*
26815808 AAACAAAAGAAAAATTAGT-AG
1 AAACAAAAGAAAAATGAGTAAG
**
26815829 AAACAAAAGAATCATGAGTAAG
1 AAACAAAAGAAAAATGAGTAAG
26815851 AAA
1 AAA
26815854 ACATGTGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.65, C:0.07, G:0.15, T:0.13
Consensus pattern (22 bp):
AAACAAAAGAAAAATGAGTAAG
Found at i:26817491 original size:27 final size:26
Alignment explanation
Indices: 26817467--26817519 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
26817457 GGGTGGGATG
26817467 AGAGAGGAGTAAAAGTTTTGGGGGAA
1 AGAGAGGAGTAAAAGTTTTGGGGGAA
* * *
26817493 AGTGCGGAGTAAAAGTTTTGGGAGAA
1 AGAGAGGAGTAAAAGTTTTGGGGGAA
26817519 A
1 A
26817520 AGTAAAAATG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.38, C:0.02, G:0.40, T:0.21
Consensus pattern (26 bp):
AGAGAGGAGTAAAAGTTTTGGGGGAA
Found at i:26819803 original size:20 final size:21
Alignment explanation
Indices: 26819778--26819817 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
26819768 TGCATTTTTA
*
26819778 GCATTTT-TAACTTAGTGATT
1 GCATTTTCTAACTCAGTGATT
26819798 GCATTTTCTAACTCAGTGAT
1 GCATTTTCTAACTCAGTGAT
26819818 GCTCGATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.25, C:0.15, G:0.15, T:0.45
Consensus pattern (21 bp):
GCATTTTCTAACTCAGTGATT
Found at i:26822696 original size:15 final size:15
Alignment explanation
Indices: 26822676--26822704 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
26822666 GACACTGAGA
26822676 ATCCAAATCAAAAGG
1 ATCCAAATCAAAAGG
26822691 ATCCAAATCAAAAG
1 ATCCAAATCAAAAG
26822705 CGGAAGGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.21, G:0.10, T:0.14
Consensus pattern (15 bp):
ATCCAAATCAAAAGG
Found at i:26826842 original size:27 final size:27
Alignment explanation
Indices: 26826804--26826898 Score: 136
Period size: 27 Copynumber: 3.5 Consensus size: 27
26826794 AGAAGTAATT
*
26826804 TGATTTTGGCTCGAAAAAGCATTATTC
1 TGATTCTGGCTCGAAAAAGCATTATTC
* *
26826831 TGATTCTGGCTCGAAATAGCGTTATTC
1 TGATTCTGGCTCGAAAAAGCATTATTC
* *
26826858 TGATTATGGCTCGAAAGAGCATTATTC
1 TGATTCTGGCTCGAAAAAGCATTATTC
26826885 TGATTCTGGGCTCG
1 TGATTCT-GGCTCG
26826899 TAAGAGCTAA
Statistics
Matches: 60, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
27 54 0.90
28 6 0.10
ACGTcount: A:0.24, C:0.17, G:0.23, T:0.36
Consensus pattern (27 bp):
TGATTCTGGCTCGAAAAAGCATTATTC
Found at i:26826919 original size:24 final size:24
Alignment explanation
Indices: 26826887--26827002 Score: 124
Period size: 24 Copynumber: 4.5 Consensus size: 24
26826877 CATTATTCTG
*
26826887 ATTCTGGGCTCGTAAGAGCTAATC
1 ATTCTGGGCTCGTAAGAGCTAACC
26826911 ATTCTGGGCTCGTAAGAGCTAACC
1 ATTCTGGGCTCGTAAGAGCTAACC
*
26826935 ATTCTGGGCTTGTAAGAGCTAAGAGCTAACC
1 ATTCTGGGC---T---CG-TAAGAGCTAACC
* * *
26826966 ACTCTGGTCTCGTAAGAGTTAACC
1 ATTCTGGGCTCGTAAGAGCTAACC
26826990 ATTCTGGGCTCGT
1 ATTCTGGGCTCGT
26827003 GTGGGCTAAG
Statistics
Matches: 77, Mismatches: 8, Indels: 14
0.78 0.08 0.14
Matches are distributed among these distances:
24 54 0.70
25 1 0.01
27 1 0.01
28 1 0.01
30 1 0.01
31 19 0.25
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.28
Consensus pattern (24 bp):
ATTCTGGGCTCGTAAGAGCTAACC
Found at i:26826961 original size:31 final size:31
Alignment explanation
Indices: 26826923--26826983 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
26826913 TCTGGGCTCG
* *
26826923 TAAGAGCTAACCATTCTGGGCTTGTAAGAGC
1 TAAGAGCTAACCACTCTGGGCTCGTAAGAGC
*
26826954 TAAGAGCTAACCACTCTGGTCTCGTAAGAG
1 TAAGAGCTAACCACTCTGGGCTCGTAAGAG
26826984 TTAACCATTC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.25
Consensus pattern (31 bp):
TAAGAGCTAACCACTCTGGGCTCGTAAGAGC
Found at i:26827012 original size:55 final size:55
Alignment explanation
Indices: 26826899--26827002 Score: 163
Period size: 55 Copynumber: 1.9 Consensus size: 55
26826889 TCTGGGCTCG
* * *
26826899 TAAGAGCTAATCATTCTGGGCTCGTAAGAGCTAACCATTCTGGGCTTGTAAGAGC
1 TAAGAGCTAACCACTCTGGGCTCGTAAGAGCTAACCATTCTGGGCTCGTAAGAGC
* *
26826954 TAAGAGCTAACCACTCTGGTCTCGTAAGAGTTAACCATTCTGGGCTCGT
1 TAAGAGCTAACCACTCTGGGCTCGTAAGAGCTAACCATTCTGGGCTCGT
26827003 GTGGGCTAAG
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
55 44 1.00
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (55 bp):
TAAGAGCTAACCACTCTGGGCTCGTAAGAGCTAACCATTCTGGGCTCGTAAGAGC
Found at i:26830655 original size:41 final size:42
Alignment explanation
Indices: 26830583--26830715 Score: 119
Period size: 41 Copynumber: 3.2 Consensus size: 42
26830573 ATGCTATCAT
* *
26830583 GAGTCTTCCTATAAACATATTCTCATTCTCATCTT-GAGACAC
1 GAGTCTTCCTATAAACATATCCTCATGCTCAT-TTCGAGACAC
* * *
26830625 GAGTCTTCCT-TTAATATATCCTCATGCTCATTTCGAGTCAC
1 GAGTCTTCCTATAAACATATCCTCATGCTCATTTCGAGACAC
* * ** * *
26830666 GAGTCTTCC-ATTCATACAAATTTTCATGCTCAATCCGAGACAC
1 GAGTCTTCCTA-T-AAACATATCCTCATGCTCATTTCGAGACAC
26830709 GAGTCTT
1 GAGTCTT
26830716 TCATTTATAC
Statistics
Matches: 73, Mismatches: 14, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
40 2 0.03
41 32 0.44
42 11 0.15
43 28 0.38
ACGTcount: A:0.26, C:0.26, G:0.12, T:0.35
Consensus pattern (42 bp):
GAGTCTTCCTATAAACATATCCTCATGCTCATTTCGAGACAC
Found at i:26832176 original size:21 final size:22
Alignment explanation
Indices: 26832152--26832197 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
26832142 AAAAAATCAT
26832152 AAACAAAAGAAAAATGAGT-AG
1 AAACAAAAGAAAAATGAGTAAG
**
26832173 AAACAAAAGAATCATGAGTAAG
1 AAACAAAAGAAAAATGAGTAAG
26832195 AAA
1 AAA
26832198 ACATGTGAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.65, C:0.07, G:0.17, T:0.11
Consensus pattern (22 bp):
AAACAAAAGAAAAATGAGTAAG
Found at i:26835402 original size:9 final size:9
Alignment explanation
Indices: 26835388--26835412 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
26835378 TGATTGGAGG
26835388 AAAACCCTT
1 AAAACCCTT
26835397 AAAACCCTT
1 AAAACCCTT
26835406 AAAACCC
1 AAAACCC
26835413 AACAATTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.48, C:0.36, G:0.00, T:0.16
Consensus pattern (9 bp):
AAAACCCTT
Found at i:26837717 original size:16 final size:16
Alignment explanation
Indices: 26837696--26837726 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
26837686 ATGATTTTTG
*
26837696 TGTTAAAGGACTAAAA
1 TGTTAAAGGAATAAAA
26837712 TGTTAAAGGAATAAA
1 TGTTAAAGGAATAAA
26837727 TTTGTAAGGA
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:0.52, C:0.03, G:0.19, T:0.26
Consensus pattern (16 bp):
TGTTAAAGGAATAAAA
Found at i:26840636 original size:2 final size:2
Alignment explanation
Indices: 26840629--26840654 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
26840619 GAAAACAATT
26840629 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
26840655 ATTGACTACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:26842881 original size:16 final size:16
Alignment explanation
Indices: 26842860--26842891 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
26842850 GATGATTTTT
*
26842860 ATGTTAAAGGACTAAA
1 ATGTTAAAGGAATAAA
26842876 ATGTTAAAGGAATAAA
1 ATGTTAAAGGAATAAA
26842892 TTTGTAAGGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.03, G:0.19, T:0.25
Consensus pattern (16 bp):
ATGTTAAAGGAATAAA
Found at i:26843709 original size:195 final size:194
Alignment explanation
Indices: 26843363--26843809 Score: 539
Period size: 196 Copynumber: 2.3 Consensus size: 194
26843353 GAAACTGACG
* * * * *
26843363 CGATGGATGAGGTACCGCATATGTTGTGAGTCCTCGACAACTCGTGTGAGTAGCATCGTAAGTCA
1 CGATGGTTGAGGTACCGCATATGTTGTGAGTTCTTGACAGCTCGTGTGAGAAGCATCGTAAGTCA
*
26843428 AGAAATGAGAAATGAATCCAAGAATGGATTACAGGCCCTACGATGGTTGGGATTTATACATAAGT
66 AGAAATGAGAAATGAATCCAAGAATGGATTACAGGACCTACGATGGTTGGGATTTATACATAAGT
* * * * *
26843493 GCATATTCTCGACAACTCGTGTGAGCAGCATCATTA-GGGAAACCGTTATA-TGCATAGATATCG
131 GCATATTCTCGACAACTCGTGTGAGCAACATCATTAGGGGAAA--GTT-TACAG-ATAGACACCA
*
26843556 TAT
192 TAC
* *
26843559 CGATGGTTGAGGTACCGCATATGTTGTGAGTTCTTGACAGCTCGTGTGAGCAGCATCGTGAGTCG
1 CGATGGTTGAGGTACCGCATATGTTGTGAGTTCTTGACAGCTCGTGTGAGAAGCATCGTAAGTC-
* * * * * *
26843624 AA-AAA-GATATATGAAATCCTAG-ATGGATTATAGGACCTACGATGGTTGGGATTTATGCTTGA
65 AAGAAATGAGAAATG-AATCCAAGAATGGATTACAGGACCTACGATGGTTGGGATTTATACAT-A
* * *
26843686 A-TGCATATTCTCGACAGCTCGTGTGAGCAACATCGTTAGGGGATAGTTTACAGATAGACACCAT
128 AGTGCATATTCTCGACAACTCGTGTGAGCAACATCATTAGGGGAAAGTTTACAGATAGACACCAT
26843750 AC
193 AC
* **
26843752 CGATGGTTGGGGTACCGCATATGTTGCAAG-TCTTCGACAGCTCGTGTGAGAAGCATCG
1 CGATGGTTGAGGTACCGCATATGTTGTGAGTTCTT-GACAGCTCGTGTGAGAAGCATCG
26843810 GGTACTGGTA
Statistics
Matches: 219, Mismatches: 26, Indels: 15
0.84 0.10 0.06
Matches are distributed among these distances:
192 4 0.02
193 60 0.27
194 4 0.02
195 74 0.34
196 75 0.34
197 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.27
Consensus pattern (194 bp):
CGATGGTTGAGGTACCGCATATGTTGTGAGTTCTTGACAGCTCGTGTGAGAAGCATCGTAAGTCA
AGAAATGAGAAATGAATCCAAGAATGGATTACAGGACCTACGATGGTTGGGATTTATACATAAGT
GCATATTCTCGACAACTCGTGTGAGCAACATCATTAGGGGAAAGTTTACAGATAGACACCATAC
Found at i:26845377 original size:23 final size:22
Alignment explanation
Indices: 26845346--26845389 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
26845336 AAAGAAATAA
*
26845346 AATTAACCCAATTTAATTAATT
1 AATTAACCCAAATTAATTAATT
*
26845368 AATTCAACCCAAATTATTTAAT
1 AATT-AACCCAAATTAATTAAT
26845390 GAAATATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.45, C:0.16, G:0.00, T:0.39
Consensus pattern (22 bp):
AATTAACCCAAATTAATTAATT
Found at i:26856225 original size:23 final size:22
Alignment explanation
Indices: 26856194--26856237 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
26856184 AAAGAAATAA
*
26856194 AATTAACCCAATTTAATTAATT
1 AATTAACCCAAATTAATTAATT
*
26856216 AATTCAACCCAAATTATTTAAT
1 AATT-AACCCAAATTAATTAAT
26856238 GAAATATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.45, C:0.16, G:0.00, T:0.39
Consensus pattern (22 bp):
AATTAACCCAAATTAATTAATT
Found at i:26860201 original size:13 final size:13
Alignment explanation
Indices: 26860183--26860207 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
26860173 ATTCACTTTA
26860183 CTCTCTGGAGTTG
1 CTCTCTGGAGTTG
26860196 CTCTCTGGAGTT
1 CTCTCTGGAGTT
26860208 TTTAGTATCG
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:0.08, C:0.24, G:0.28, T:0.40
Consensus pattern (13 bp):
CTCTCTGGAGTTG
Found at i:26863494 original size:19 final size:19
Alignment explanation
Indices: 26863470--26863506 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
26863460 GTCCAAGTGC
* *
26863470 ATAATTAGTATTACACCAA
1 ATAATTAATACTACACCAA
26863489 ATAATTAATACTACACCA
1 ATAATTAATACTACACCA
26863507 CATTAAAGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.49, C:0.19, G:0.03, T:0.30
Consensus pattern (19 bp):
ATAATTAATACTACACCAA
Found at i:26865885 original size:46 final size:46
Alignment explanation
Indices: 26865810--26866030 Score: 219
Period size: 46 Copynumber: 4.8 Consensus size: 46
26865800 TCTTGCCCAA
* * **
26865810 GTTCCCAGCTCCTGTATATGTGATGGACTGGAGAATACGAATTTAG
1 GTTCCCAACTCCTGTATATGTTACAGACTGGAGAATACGAATTTAG
* * * *
26865856 GTTCCCAGCTCCTGTATATGTTACAGACTGAAGAATAGGGATTTAG
1 GTTCCCAACTCCTGTATATGTTACAGACTGGAGAATACGAATTTAG
* * * * * * *
26865902 GTTCTCAACTCTTGTATGTGTTACGGATTGGAGAATA-TAGATGTAG
1 GTTCCCAACTCCTGTATATGTTACAGACTGGAGAATACGA-ATTTAG
* * * *
26865948 GTTCCCAACTCCTGCATACGTTGCAGACTAGAGAATACGAATTTAG
1 GTTCCCAACTCCTGTATATGTTACAGACTGGAGAATACGAATTTAG
* * * *
26865994 GTTCCCAATTCCTGCATATGTTGCAGATTGGAGAATA
1 GTTCCCAACTCCTGTATATGTTACAGACTGGAGAATA
26866031 TGGAATATTA
Statistics
Matches: 142, Mismatches: 31, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
46 141 0.99
47 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.31
Consensus pattern (46 bp):
GTTCCCAACTCCTGTATATGTTACAGACTGGAGAATACGAATTTAG
Found at i:26875966 original size:3 final size:3
Alignment explanation
Indices: 26875958--26875988 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
26875948 CTCAGAAAAC
*
26875958 ACA ACA ACA ACA ACA AAA ACA ACA ACA ACA A
1 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA A
26875989 TCACATACAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.71, C:0.29, G:0.00, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:26877185 original size:21 final size:21
Alignment explanation
Indices: 26877161--26877205 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
26877151 ACACATCATG
*
26877161 TAAAAGA-TTTTGCATGACATA
1 TAAAAGAGTTTT-CATAACATA
26877182 TAAAAGAGTTTTCATAACATA
1 TAAAAGAGTTTTCATAACATA
26877203 TAA
1 TAA
26877206 CTAGCTCGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.47, C:0.09, G:0.11, T:0.33
Consensus pattern (21 bp):
TAAAAGAGTTTTCATAACATA
Found at i:26886885 original size:17 final size:17
Alignment explanation
Indices: 26886859--26886897 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
26886849 TTAGCATTCT
26886859 TGCA-TTTTATTGT-GCC
1 TGCATTTTTATTGTCG-C
26886875 TGCATTTTTATTGTCGC
1 TGCATTTTTATTGTCGC
26886892 TGCATT
1 TGCATT
26886898 CTTTTTGGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.19
17 16 0.76
18 1 0.05
ACGTcount: A:0.13, C:0.18, G:0.18, T:0.51
Consensus pattern (17 bp):
TGCATTTTTATTGTCGC
Found at i:26890777 original size:340 final size:340
Alignment explanation
Indices: 26890157--26890837 Score: 1317
Period size: 340 Copynumber: 2.0 Consensus size: 340
26890147 TATATCAACA
26890157 TAGAATAACATCAAACAAAAACACACAGCAAATATGTAGCACGAATAGAAACACACCTTAAGCGA
1 TAGAATAACATCAAACAAAAACACACAGCAAATATGTAGCACGAATAGAAACACACCTTAAGCGA
26890222 GTAAAAGCTTTAACATCAAGAAGAAAGTCTCCCACGCTTAGATCTATCTTCGGATCTAGCTGAAT
66 GTAAAAGCTTTAACATCAAGAAGAAAGTCTCCCACGCTTAGATCTATCTTCGGATCTAGCTGAAT
26890287 TAGAACCTACAAGAATAAATCCTTCATTAAATCTATTACTATGCCACCTACTAAACACAATGCTA
131 TAGAACCTACAAGAATAAATCCTTCATTAAATCTATTACTATGCCACCTACTAAACACAATGCTA
26890352 AACCGAATACTACTCACGTGCAGCACTCGTAACAAGTGCAAGAGCAACCTACACAGGTGGAGGAG
196 AACCGAATACTACTCACGTGCAGCACTCGTAACAAGTGCAAGAGCAACCTACACAGGTGGAGGAG
26890417 GAGGTAACCCTTCAGCCTTAGAATTGTGATCACCTATACACATAATAATCTCAAGTCAAATCCAA
261 GAGGTAACCCTTCAGCCTTAGAATTGTGATCACCTATACACATAATAATCTCAAGTCAAATCCAA
26890482 AATTCAACCTTCTTG
326 AATTCAACCTTCTTG
26890497 TAGAATAACATCAAACAAAAACACACAGCAAATATGTAGCACGAATAGAAACACACCTTAAGCGA
1 TAGAATAACATCAAACAAAAACACACAGCAAATATGTAGCACGAATAGAAACACACCTTAAGCGA
* *
26890562 GTAAAAGCTTTAACATCATGGAGAAAGTCTCCCACGCTTAGATCTATCTTCGGATCTAGCTGAAT
66 GTAAAAGCTTTAACATCAAGAAGAAAGTCTCCCACGCTTAGATCTATCTTCGGATCTAGCTGAAT
* *
26890627 TAGAACCTACAAGAATAAATCTTTCATTAAATCTATTACTATGCCACCTACTAAACACAATGTTA
131 TAGAACCTACAAGAATAAATCCTTCATTAAATCTATTACTATGCCACCTACTAAACACAATGCTA
26890692 AACCGAATACTACTCACGTGCAGCACTCGTAACAAGTGCAAGAGCAACCTACACAGGTGGAGGAG
196 AACCGAATACTACTCACGTGCAGCACTCGTAACAAGTGCAAGAGCAACCTACACAGGTGGAGGAG
*
26890757 GAGGTAACTCTTCAGCCTTAGAATTGTGATCACCTATACACATAATAATCTCAAGTCAAATCCAA
261 GAGGTAACCCTTCAGCCTTAGAATTGTGATCACCTATACACATAATAATCTCAAGTCAAATCCAA
26890822 AATTCAACCTTCTTG
326 AATTCAACCTTCTTG
26890837 T
1 T
26890838 GAGTTATTAA
Statistics
Matches: 336, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
340 336 1.00
ACGTcount: A:0.39, C:0.23, G:0.14, T:0.23
Consensus pattern (340 bp):
TAGAATAACATCAAACAAAAACACACAGCAAATATGTAGCACGAATAGAAACACACCTTAAGCGA
GTAAAAGCTTTAACATCAAGAAGAAAGTCTCCCACGCTTAGATCTATCTTCGGATCTAGCTGAAT
TAGAACCTACAAGAATAAATCCTTCATTAAATCTATTACTATGCCACCTACTAAACACAATGCTA
AACCGAATACTACTCACGTGCAGCACTCGTAACAAGTGCAAGAGCAACCTACACAGGTGGAGGAG
GAGGTAACCCTTCAGCCTTAGAATTGTGATCACCTATACACATAATAATCTCAAGTCAAATCCAA
AATTCAACCTTCTTG
Found at i:26891980 original size:30 final size:30
Alignment explanation
Indices: 26891939--26892019 Score: 99
Period size: 30 Copynumber: 2.7 Consensus size: 30
26891929 GAATGTCATT
*
26891939 AAAATTCCAATTTAGTCCTTAAAATCCACC
1 AAAATTACAATTTAGTCCTTAAAATCCACC
* * * * *
26891969 GAACTTACAATTTAGTCCTTAAATTTCACT
1 AAAATTACAATTTAGTCCTTAAAATCCACC
*
26891999 AAAATTACAATTTAATCCTTA
1 AAAATTACAATTTAGTCCTTA
26892020 TACCAAAATT
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.40, C:0.21, G:0.04, T:0.36
Consensus pattern (30 bp):
AAAATTACAATTTAGTCCTTAAAATCCACC
Found at i:26897951 original size:25 final size:25
Alignment explanation
Indices: 26897917--26897971 Score: 101
Period size: 25 Copynumber: 2.2 Consensus size: 25
26897907 GCTCTGATCA
26897917 CTTCCCGTATCCATTTGTACATTGT
1 CTTCCCGTATCCATTTGTACATTGT
26897942 CTTCCCGTATCCATTTGTACATTGT
1 CTTCCCGTATCCATTTGTACATTGT
*
26897967 ATTCC
1 CTTCC
26897972 TTTGGAGAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.16, C:0.29, G:0.11, T:0.44
Consensus pattern (25 bp):
CTTCCCGTATCCATTTGTACATTGT
Found at i:26898788 original size:57 final size:55
Alignment explanation
Indices: 26898726--26898853 Score: 168
Period size: 57 Copynumber: 2.3 Consensus size: 55
26898716 TAGAAAGCAG
*
26898726 TATGTTTAAATCGATTATTATGTTGGAATATTATTT-CTTTCGAATCGATTGTATTTA
1 TATGTTTAAATCGATTATTATATTGGAATATTATTTACTTTC-AATCGATTG--TTTA
* * *
26898783 TATGTTTAAATAGATTGTTATATTGGAATATTATTTATTTTCAATCGATTGTTTA
1 TATGTTTAAATCGATTATTATATTGGAATATTATTTACTTTCAATCGATTGTTTA
* *
26898838 TATCTTTAAACCGATT
1 TATGTTTAAATCGATT
26898854 GTTACGTAAC
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
55 17 0.27
57 42 0.67
58 4 0.06
ACGTcount: A:0.30, C:0.07, G:0.12, T:0.51
Consensus pattern (55 bp):
TATGTTTAAATCGATTATTATATTGGAATATTATTTACTTTCAATCGATTGTTTA
Found at i:26903125 original size:59 final size:58
Alignment explanation
Indices: 26903004--26903167 Score: 240
Period size: 58 Copynumber: 2.8 Consensus size: 58
26902994 TTAATATAAC
* * *
26903004 ATTTGGTATCTGAACTTGACATTTTTTCCTAATTTGGTACCTAAACTTTTTTGGCTCA
1 ATTTGGTACCTGAACTTGACATTTTTTCCTAATTTGGTACCTAAACTTTTTTGACCCA
* *
26903062 ATTTGGTACCTGAACTTGACATTTTTTCCTAATTTGGTATCTAAATTTTTTTTGACCCA
1 ATTTGGTACCTGAACTTGACATTTTTTCCTAATTTGGTACCTAAA-CTTTTTTGACCCA
* * *
26903121 ATTTGGTACTTAAACTTGAC-TTTTTTCCTAATTTGGTACTTAAACTT
1 ATTTGGTACCTGAACTTGACATTTTTTCCTAATTTGGTACCTAAACTT
26903168 GACATTTTTC
Statistics
Matches: 95, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
57 2 0.02
58 65 0.68
59 28 0.29
ACGTcount: A:0.24, C:0.16, G:0.12, T:0.48
Consensus pattern (58 bp):
ATTTGGTACCTGAACTTGACATTTTTTCCTAATTTGGTACCTAAACTTTTTTGACCCA
Found at i:26903156 original size:30 final size:30
Alignment explanation
Indices: 26903016--26903189 Score: 159
Period size: 30 Copynumber: 5.9 Consensus size: 30
26903006 TTGGTATCTG
*
26903016 AACTTGACATTTTTTCCTAATTTGGTACCTA
1 AACTTGAC-TTTTTTCCTAATTTGGTACTTA
** * *
26903047 AAC-T---TTTTTGGCTCAATTTGGTACCTG
1 AACTTGACTTTTTTCCT-AATTTGGTACTTA
26903074 AACTTGACATTTTTTCCTAATTTGGTA-TCTA
1 AACTTGAC-TTTTTTCCTAATTTGGTACT-TA
*
26903105 AA-TT---TTTTTTGACCCAATTTGGTACTTA
1 AACTTGACTTTTTT--CCTAATTTGGTACTTA
26903133 AACTTGACTTTTTTCCTAATTTGGTACTTA
1 AACTTGACTTTTTTCCTAATTTGGTACTTA
* *
26903163 AACTTGACATTTTTCCTAATCTGGTAC
1 AACTTGACTTTTTTCCTAATTTGGTAC
26903190 ATAAGATTTT
Statistics
Matches: 118, Mismatches: 11, Indels: 29
0.75 0.07 0.18
Matches are distributed among these distances:
26 13 0.11
27 15 0.13
28 16 0.14
29 3 0.03
30 43 0.36
31 15 0.13
32 13 0.11
ACGTcount: A:0.24, C:0.18, G:0.11, T:0.47
Consensus pattern (30 bp):
AACTTGACTTTTTTCCTAATTTGGTACTTA
Found at i:26903902 original size:32 final size:31
Alignment explanation
Indices: 26903856--26903924 Score: 75
Period size: 32 Copynumber: 2.2 Consensus size: 31
26903846 GGACCCCAAA
* * *
26903856 AAGTTTAAGTACCAACTTAAAAAAAAAATGT
1 AAGTTTAAGCACCAAATTAAAAAAAAAATAT
* **
26903887 CAAGTTTAGGCACCAAATTAGGAAAAAAATAT
1 -AAGTTTAAGCACCAAATTAAAAAAAAAATAT
26903919 AAGTTT
1 AAGTTT
26903925 TAGTATCAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
31 6 0.19
32 25 0.81
ACGTcount: A:0.51, C:0.10, G:0.13, T:0.26
Consensus pattern (31 bp):
AAGTTTAAGCACCAAATTAAAAAAAAAATAT
Found at i:26903923 original size:91 final size:92
Alignment explanation
Indices: 26903807--26903973 Score: 214
Period size: 91 Copynumber: 1.8 Consensus size: 92
26903797 ATTGTCAATT
* * * *
26903807 ACCAAATTAGGAAAAAGAGTCAAGTTCAT-GTAACAAATTGGACCC-CAAAAAGTTTAAGTACCA
1 ACCAAATTAGGAAAAAGAATCAAGTT-ATAGTAACAAATTGGACCCAAAAAAAATTTAAATACCA
*
26903870 ACTTAAAAAAAAAATGTCAAGTTTAGGC
65 AATTAAAAAAAAAATGTCAAGTTTAGGC
* * *
26903898 ACCAAATTAGGAAAAA-AATATAAGTTTTAGTATCAAATTGGACCCAAAAAAAATTTAAATACCA
1 ACCAAATTAGGAAAAAGAAT-CAAGTTATAGTAACAAATTGGACCCAAAAAAAATTTAAATACCA
*
26903962 AATTAAGAAAAA
65 AATTAAAAAAAA
26903974 GTATCAAGTT
Statistics
Matches: 64, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
90 3 0.05
91 36 0.56
92 25 0.39
ACGTcount: A:0.51, C:0.13, G:0.13, T:0.23
Consensus pattern (92 bp):
ACCAAATTAGGAAAAAGAATCAAGTTATAGTAACAAATTGGACCCAAAAAAAATTTAAATACCAA
ATTAAAAAAAAAATGTCAAGTTTAGGC
Found at i:26904454 original size:13 final size:13
Alignment explanation
Indices: 26904436--26904474 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
26904426 AATTGCTATT
26904436 AACTGACAATAAC
1 AACTGACAATAAC
26904449 AACTGACAATAAC
1 AACTGACAATAAC
*
26904462 AACTAACAATAAC
1 AACTGACAATAAC
26904475 TGTTAATAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.56, C:0.23, G:0.05, T:0.15
Consensus pattern (13 bp):
AACTGACAATAAC
Found at i:26910422 original size:30 final size:31
Alignment explanation
Indices: 26910369--26910444 Score: 86
Period size: 30 Copynumber: 2.5 Consensus size: 31
26910359 TTTATTATTT
* *
26910369 AATAATTTAT-ATCTTTATAATTTTTAAAA-
1 AATAAATTATAATTTTTATAATTTTTAAAAG
*
26910398 AATTAAATTA-AATTTTTATTATTTTTAAAAG
1 AA-TAAATTATAATTTTTATAATTTTTAAAAG
*
26910429 GATAAATTATAATTTT
1 AATAAATTATAATTTT
26910445 ACAACTTAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
29 2 0.05
30 30 0.77
31 7 0.18
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (31 bp):
AATAAATTATAATTTTTATAATTTTTAAAAG
Found at i:26910889 original size:6 final size:7
Alignment explanation
Indices: 26910874--26910901 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
26910864 CCAAGCACCC
26910874 AAAAGAA
1 AAAAGAA
26910881 AAAAGAA
1 AAAAGAA
26910888 AAAAGAA
1 AAAAGAA
26910895 AAAAGAA
1 AAAAGAA
26910902 CGAAAACCGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (7 bp):
AAAAGAA
Found at i:26915234 original size:22 final size:23
Alignment explanation
Indices: 26915206--26915256 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
26915196 AATTTTGTCA
26915206 ATTTTAACTTG-TAT-TAAAAAAT
1 ATTTTAACTTGTTATAT-AAAAAT
* *
26915228 ATTTTAATTTGTTATATCAAAAT
1 ATTTTAACTTGTTATATAAAAAT
26915251 ATTTTA
1 ATTTTA
26915257 TCAAATAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 10 0.40
23 14 0.56
24 1 0.04
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.51
Consensus pattern (23 bp):
ATTTTAACTTGTTATATAAAAAT
Found at i:26920164 original size:28 final size:28
Alignment explanation
Indices: 26920132--26920186 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
26920122 AAATGAGCAT
26920132 CATGACCTTTGGGTCAAC-AGTGAGTAAG
1 CATGACCTTTGGGTCAACAAG-GAGTAAG
26920160 CATGACCTTTGGGTCAACAAGGAGTAA
1 CATGACCTTTGGGTCAACAAGGAGTAA
26920187 ATGAAATATC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
28 24 0.92
29 2 0.08
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.24
Consensus pattern (28 bp):
CATGACCTTTGGGTCAACAAGGAGTAAG
Found at i:26941815 original size:3 final size:3
Alignment explanation
Indices: 26941807--26941831 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
26941797 CCATCTCTTC
26941807 TCA TCA TCA TCA TCA TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA T
26941832 TGGAATCTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.36
Consensus pattern (3 bp):
TCA
Found at i:26945719 original size:168 final size:169
Alignment explanation
Indices: 26945400--26945743 Score: 530
Period size: 168 Copynumber: 2.0 Consensus size: 169
26945390 ATCAAAATGC
*
26945400 AATCCAAAAAACCTCTATAATACTTTAACCTACAAATGCGCTAGAAACCTACCCCATCCCTCCCC
1 AATCCAAAAAACCTCTATAATACTTTAACCTACAAATGCGCTAGAAAACTACCCCATCCCT----
26945465 CCCCCCCCTTTATTTAAGGAGTATCAATACTATGATATGTCTCTTAGTACAGTAGTTAACAACTT
62 ---CCCCCTTTATTTAAGGAGTATCAATACTATGATATGTCTCTTAGTACAGTAGTTAACAACTT
*
26945530 GTTTGCTGGTAAAAATCACAACTCACTAATTACCCCAGTTAAGAGGT
124 GTTTGCTGGTAAAAATCACAACTCACTAATTA-CCCACTTAAGAGGT
*
26945577 AATCCAAAAAACCTCTATAATACTTTTACCTACAAATGCGCTAGAAAACTACCCCATCCCT-CCC
1 AATCCAAAAAACCTCTATAATACTTTAACCTACAAATGCGCTAGAAAACTACCCCATCCCTCCCC
* * * *
26945641 CTTT-TTTTAGGAGTATTAATATTGTGATATGTCTCTTAGTACAGTAGTTAACAACTTGTTTGCT
66 CTTTATTTAAGGAGTATCAATACTATGATATGTCTCTTAGTACAGTAGTTAACAACTTGTTTGCT
*
26945705 GGTAAAAATCACAACTCACTAGTTACCCACTTAAGAGGT
131 GGTAAAAATCACAACTCACTAATTACCCACTTAAGAGGT
26945744 CAAGTGACGT
Statistics
Matches: 159, Mismatches: 8, Indels: 10
0.90 0.05 0.06
Matches are distributed among these distances:
167 13 0.08
168 80 0.50
169 7 0.04
177 59 0.37
ACGTcount: A:0.33, C:0.25, G:0.11, T:0.30
Consensus pattern (169 bp):
AATCCAAAAAACCTCTATAATACTTTAACCTACAAATGCGCTAGAAAACTACCCCATCCCTCCCC
CTTTATTTAAGGAGTATCAATACTATGATATGTCTCTTAGTACAGTAGTTAACAACTTGTTTGCT
GGTAAAAATCACAACTCACTAATTACCCACTTAAGAGGT
Found at i:26945912 original size:28 final size:28
Alignment explanation
Indices: 26945857--26945912 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
26945847 ATTACTTTAA
* *
26945857 AAATAAAATATCAATTATATGTTTTTCC
1 AAATAAAATATCAATTATATGCTCTTCC
*
26945885 AAATAAAATATCAATTATGTGCTCTTCC
1 AAATAAAATATCAATTATATGCTCTTCC
26945913 CTCTCCACTC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.41, C:0.14, G:0.05, T:0.39
Consensus pattern (28 bp):
AAATAAAATATCAATTATATGCTCTTCC
Found at i:26956551 original size:22 final size:22
Alignment explanation
Indices: 26956525--26956599 Score: 123
Period size: 22 Copynumber: 3.4 Consensus size: 22
26956515 AGCACGTATT
* * *
26956525 GTGCTCTCCGTTTAGCACATTT
1 GTGCTCTCCGTCTAGCACCTTG
26956547 GTGCTCTCCGTCTAGCACCTTG
1 GTGCTCTCCGTCTAGCACCTTG
26956569 GTGCTCTCCGTCTAGCACCTTG
1 GTGCTCTCCGTCTAGCACCTTG
26956591 GTGCTCTCC
1 GTGCTCTCC
26956600 ATTCATTAGT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 50 1.00
ACGTcount: A:0.09, C:0.35, G:0.21, T:0.35
Consensus pattern (22 bp):
GTGCTCTCCGTCTAGCACCTTG
Found at i:26961052 original size:29 final size:29
Alignment explanation
Indices: 26961010--26961067 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
26961000 TCTGCTTGGG
* *
26961010 TCATGTTCGATGTATTACCAATCTAGTTA
1 TCATGTCCGATGTACTACCAATCTAGTTA
*
26961039 TCATGTCCGATGTACTACCAGTCTAGTTA
1 TCATGTCCGATGTACTACCAATCTAGTTA
26961068 ATCACATCTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.38
Consensus pattern (29 bp):
TCATGTCCGATGTACTACCAATCTAGTTA
Found at i:26963479 original size:32 final size:32
Alignment explanation
Indices: 26963438--26963501 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
26963428 TCTTTGGAAG
26963438 ATAGAATTTCTTTAACTATAGCATGATAATGC
1 ATAGAATTTCTTTAACTATAGCATGATAATGC
26963470 ATAGAATTTCTTTAACTATAGCATGATAATGC
1 ATAGAATTTCTTTAACTATAGCATGATAATGC
26963502 CTACCACAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (32 bp):
ATAGAATTTCTTTAACTATAGCATGATAATGC
Found at i:26966071 original size:28 final size:28
Alignment explanation
Indices: 26966031--26966084 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
26966021 GATATCCGAT
*
26966031 TTACTCCTTGTTGACCCAAAAGTCATTC
1 TTACTCCCTGTTGACCCAAAAGTCATTC
*
26966059 TTACTCCCTGTTGACCCAAAGGTCAT
1 TTACTCCCTGTTGACCCAAAAGTCAT
26966085 ACCTGTTACC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.24, C:0.30, G:0.13, T:0.33
Consensus pattern (28 bp):
TTACTCCCTGTTGACCCAAAAGTCATTC
Found at i:26968600 original size:21 final size:21
Alignment explanation
Indices: 26968576--26968626 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
26968566 TGAAACAGTA
*
26968576 CTACCGATATA-TGTGAGACTT
1 CTACCGATACATTGT-AGACTT
* *
26968597 CTACCGAAACATTGTATACTT
1 CTACCGATACATTGTAGACTT
26968618 CTACCGATA
1 CTACCGATA
26968627 ATAAAAGCTC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 22 0.88
22 3 0.12
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (21 bp):
CTACCGATACATTGTAGACTT
Found at i:26977802 original size:163 final size:163
Alignment explanation
Indices: 26977528--26977829 Score: 416
Period size: 163 Copynumber: 1.9 Consensus size: 163
26977518 ATAGAGAACG
* * *
26977528 AAAAAATGAAAAATAAATAAAATTTAAAAAATTTAAATAGAAGCCCTTTTTCAGACTCAGGATGA
1 AAAAAATGAAAAATAAATAAAATTTAAAAAATTTAAATAGAAACCCTTTTTCAGAATCAGGAAGA
* *
26977593 CCCATATCGCCACTAAAGAATAACTTCCTATTGGTTCTCAACACTTTGATTTGACGTTTGTTCCA
66 CCCATATCGCCACTAAAGAAGAACTTCCTACTGGTTCTCAACACTTTGATTTGACGTTTGTTCCA
26977658 CTTTTGATGGATATAAACCAGTAATGAACAAAT
131 CTTTTGATGGATATAAACCAGTAATGAACAAAT
* * *
26977691 AAAAAAT-AAAGAA-AATTAAAA-TTAAAACAATTTAAAATAGAAACCCTTTTTCATAAT-TGGA
1 AAAAAATGAAA-AATAAATAAAATTTAAAA-AATTT-AAATAGAAACCCTTTTTCAGAATCAGG-
* * * *
26977752 AAGATCCATATCGCCA-TCGAAGAAGAACTTCCTGCTGGTTCTCGACACTTTGATTTGACGTTTG
62 AAGACCCATATCGCCACT-AAAGAAGAACTTCCTACTGGTTCTCAACACTTTGATTTGACGTTTG
26977816 TTCCACTTTTGATG
126 TTCCACTTTTGATG
26977830 TATCTGAACC
Statistics
Matches: 122, Mismatches: 12, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
161 6 0.05
162 18 0.15
163 98 0.80
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.31
Consensus pattern (163 bp):
AAAAAATGAAAAATAAATAAAATTTAAAAAATTTAAATAGAAACCCTTTTTCAGAATCAGGAAGA
CCCATATCGCCACTAAAGAAGAACTTCCTACTGGTTCTCAACACTTTGATTTGACGTTTGTTCCA
CTTTTGATGGATATAAACCAGTAATGAACAAAT
Found at i:26979503 original size:41 final size:41
Alignment explanation
Indices: 26979448--26979551 Score: 190
Period size: 41 Copynumber: 2.5 Consensus size: 41
26979438 AACTCGATAT
26979448 TTAAATGGAAGACTCATGTCTCGGGATGAGAATGAGATTATA
1 TTAAA-GGAAGACTCATGTCTCGGGATGAGAATGAGATTATA
*
26979490 TTAAAGGAAGACTCATATCTCGGGATGAGAATGAGATTATA
1 TTAAAGGAAGACTCATGTCTCGGGATGAGAATGAGATTATA
26979531 TTAAAGGAAGACTCATGTCTC
1 TTAAAGGAAGACTCATGTCTC
26979552 AAAATAAGCG
Statistics
Matches: 60, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
41 55 0.92
42 5 0.08
ACGTcount: A:0.37, C:0.12, G:0.24, T:0.28
Consensus pattern (41 bp):
TTAAAGGAAGACTCATGTCTCGGGATGAGAATGAGATTATA
Found at i:26979635 original size:40 final size:40
Alignment explanation
Indices: 26979577--26979673 Score: 149
Period size: 40 Copynumber: 2.4 Consensus size: 40
26979567 TTTGTTTTTA
* * *
26979577 AAAAGGAAGGCTTATGACTTGATAGAGTATAAGAGTGATT
1 AAAAGGAAGACTTATGACTCGATAGAGCATAAGAGTGATT
* *
26979617 AAAAGGAAGACTTGTGACTCGATAGAGCATAAGATTGATT
1 AAAAGGAAGACTTATGACTCGATAGAGCATAAGAGTGATT
26979657 AAAAGGAAGACTTATGA
1 AAAAGGAAGACTTATGA
26979674 ACCTATGAAG
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 51 1.00
ACGTcount: A:0.42, C:0.07, G:0.26, T:0.25
Consensus pattern (40 bp):
AAAAGGAAGACTTATGACTCGATAGAGCATAAGAGTGATT
Found at i:26988192 original size:25 final size:26
Alignment explanation
Indices: 26988157--26988211 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 26
26988147 AACATGCCTC
*
26988157 AAGGACTTCCCAAATAAATCGCCATA
1 AAGGACTTCCCAAATAAATCGCCACA
*
26988183 AAGG-CTTCCCAAGTAAATCGCCACA
1 AAGGACTTCCCAAATAAATCGCCACA
26988208 AAGG
1 AAGG
26988212 TTTTACAGGT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
25 23 0.85
26 4 0.15
ACGTcount: A:0.40, C:0.27, G:0.16, T:0.16
Consensus pattern (26 bp):
AAGGACTTCCCAAATAAATCGCCACA
Found at i:26988256 original size:50 final size:50
Alignment explanation
Indices: 26988178--26988316 Score: 197
Period size: 50 Copynumber: 2.8 Consensus size: 50
26988168 AAATAAATCG
* *
26988178 CCATAAAGGCTTCCCAAGTAAATCGCCACAAAGGTTTTACAGGTGACTCA
1 CCATAAAGGCTTCCCAAGTAAATTGCCACAAAGGATTTACAGGTGACTCA
* * * * *
26988228 CCGTAAAGGTTTCCTAAGTAAATTGCCACAAAGGCTTTACAGGTGACTCG
1 CCATAAAGGCTTCCCAAGTAAATTGCCACAAAGGATTTACAGGTGACTCA
* *
26988278 CTATAAAGGCTTCCCAAGTAAATTACCACAAAGGATTTA
1 CCATAAAGGCTTCCCAAGTAAATTGCCACAAAGGATTTA
26988317 AATAAGTCGT
Statistics
Matches: 77, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 77 1.00
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.24
Consensus pattern (50 bp):
CCATAAAGGCTTCCCAAGTAAATTGCCACAAAGGATTTACAGGTGACTCA
Found at i:26991370 original size:16 final size:16
Alignment explanation
Indices: 26991349--26991380 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
26991339 TAATTGTGAG
26991349 AAAGAATTGTATGAAA
1 AAAGAATTGTATGAAA
26991365 AAAGAATTGTATGAAA
1 AAAGAATTGTATGAAA
26991381 CTGTAATTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.19, T:0.25
Consensus pattern (16 bp):
AAAGAATTGTATGAAA
Found at i:26998688 original size:785 final size:783
Alignment explanation
Indices: 26996978--26998950 Score: 3420
Period size: 784 Copynumber: 2.5 Consensus size: 783
26996968 ATATAAATTG
* **
26996978 ATATTTGTTTAATAGGACATAACAAGTATCTTTTATAAAATTATAAAATAATTGATTGAATAAAA
1 ATATTTATTTAATAGGACATAACAAGTATCTTTTATAAAATTATAAAATAATTGGCTGAATAAAA
* * * * * * * *
26997043 AATTTGGTCACTAACATTTACATATTTTATCAAAATGACTTTAATTGTACTTTT-GAGTTTTTTT
66 AATTTGATCACTAAGATTTTCATGTTTTGTCAAAACGACCTTAATTGTATTTTTGGA-TTTTTTT
*
26997107 TTACCATTAACCTTTATTTTTTTTCAAATTGTTTTTTAATAGATTTGATGAATAACTATTAATTT
130 TAACCATTAA----TA-TTTTTTTCAAATTGTTTTTTAATAGATTTGATGAATAACTATTAATTT
*
26997172 AAAGAAAATAAACATAATTATTCAAAAAAAGATTTCAAAATAAATGCACACATTCTGTACTTTCG
190 AAAGAAAATAAACATAATTATTCAAAAAAAG-TTTCAAAATAAATGCACACATTCTGTATTTTCG
*
26997237 GTTTAATTTATTAATTATCTTTTTGAAACCTCTCAATAAATAAACGTATGGATCCATTTTCAAAC
254 GTTTAATTTATTAATTATCTTTTTGAAACCTCTCAATAAATAAACGTATGGATCCATTTTGAAAC
26997302 CTTTTTTTTTAGATAATTATGCTGATTTTCTTTAAATTAAGACTTTTTTTTTAAATTTCATGTAT
319 CTTTTTTTTTAGATAATTATGCTGATTTTCTTTAAATTAAGAC-TTTTTTTT-AATTTCATGTAT
26997367 GATTTATTTATTTTATTATTTTTAACATTTAATTATCTTATTGGATTACTTAAGTAATAAATTAC
382 GATTTATTTATTTTATTATTTTTAACATTTAATTATCTTATTGGATTACTTAAGTAATAAATTAC
26997432 ATCTCATTAAAAATATTTCACATCATCCCGTTAATTTTTTTAACAGTACTTTGATCAAATCTGTT
447 ATCTCATTAAAAATATTTCACATCATCCCGTTAATTTTTTTAACAGTACTTTGATCAAATCTGTT
* *
26997497 AAAAAAATATTGAAAAAAAAATAAAAGTTGATGGAAAAAAATAAAAAATACAATTATGACTATTT
512 AAAAAAATATTGAAAAAAAAATAAAAGTTAATGGAAAAAAATAAAAAATACAATTACGACTATTT
*
26997562 TGAAAAATATGTAAATATAAATGATCAAATTTTTTATTAAGCCTAAAATAGTTGGATAAATAATT
577 TGAAAAATATGTAAATATAAATGATCAAATTTTTTATTAAACCTAAAATAGTTGGATAAATAATT
26997627 AAAGTATTTAAATTACTTGAAATATTAAAATGAAGGCTTTACCTATAATATCTAAATTTTTTTCA
642 AAAGTATTTAAATTACTTGAAATATTAAAATGAAGGCTTTACCTATAATATCTAAATTTTTTTCA
26997692 TTTTAGTATTTAAATATTTTTTATAAAGATTGGTATCTAATATTTTTCATTTTTAGTATTTTAAT
707 TTTTAGTATTTAAATATTTTTTATAAAGATTGGTATCTAATATTTTTCATTTTTAGTATTTTAAT
26997757 TTTAGTATTTAA
772 TTTAGTATTTAA
* *
26997769 ATATTTATTTAATAGGACATAACAAGTATATTTTATAAAATTATAAAATAATTGGCTGAATCAAA
1 ATATTTATTTAATAGGACATAACAAGTATCTTTTATAAAATTATAAAATAATTGGCTGAATAAAA
* *
26997834 AATTTGATCACTAAGATTTTTATGTTTTGTCAAAACGATCTTAATTGTATTTTTGGATCTTTTTT
66 AATTTGATCACTAAGATTTTCATGTTTTGTCAAAACGACCTTAATTGTATTTTTGGAT-TTTTTT
26997899 TAACCATTAATATTTTTTTCAAATTGTTTTTTAATAGATTTGATGAATAACTATTAATTTAAAGA
130 TAACCATTAATATTTTTTTCAAATTGTTTTTTAATAGATTTGATGAATAACTATTAATTTAAAGA
26997964 AAATAAACATAATTATTCAAAAAAATGTTTCAAAATAAATGCACACATTCTGTATTTTCGGTTTA
195 AAATAAACATAATTATTCAAAAAAA-GTTTCAAAATAAATGCACACATTCTGTATTTTCGGTTTA
26998029 ATTTATTAATTATCTTTTTGAAACCTCTCAATAAATAAACGTATGGATCCATTTTGAAACCTTTT
259 ATTTATTAATTATCTTTTTGAAACCTCTCAATAAATAAACGTATGGATCCATTTTGAAACCTTTT
26998094 TTTTTAGATAATTATGCTGATTTTCTTTAAATTAAGACTTTTTTTTAATTTCATGTATGATTTAT
324 TTTTTAGATAATTATGCTGATTTTCTTTAAATTAAGACTTTTTTTTAATTTCATGTATGATTTAT
26998159 TTATTTTATTATTTTTAACATTTAATTATCTTATTGGATTACTTAAGTAATAAATTACATCTCAT
389 TTATTTTATTATTTTTAACATTTAATTATCTTATTGGATTACTTAAGTAATAAATTACATCTCAT
26998224 TAAAAATATTTCACATCATCCCGTTAATTTTTTTAACAGTACTTTGATCAAATCTGTTAAAAAAA
454 TAAAAATATTTCACATCATCCCGTTAATTTTTTTAACAGTACTTTGATCAAATCTGTTAAAAAAA
26998289 TATTG-AAAAAAAATAAAAGTTAATGGAAAAAAATAAAAAATACAATTACGACTATTTTGAAAAA
519 TATTGAAAAAAAAATAAAAGTTAATGGAAAAAAATAAAAAATACAATTACGACTATTTTGAAAAA
* *
26998353 TATGTAAATGTAAATGATTAAATTTTTTATTAAACCTAAAATAGTTGGATAAATAATTAAAGTAT
584 TATGTAAATATAAATGATCAAATTTTTTATTAAACCTAAAATAGTTGGATAAATAATTAAAGTAT
26998418 TTAAATTACTTGAAATATTAAAATGAAGGCTTTACCTATAATATCTAAATTTTTTTCATTTTAGT
649 TTAAATTACTTGAAATATTAAAATGAAGGCTTTACCTATAATATCTAAATTTTTTTCATTTTAGT
26998483 ATTTAAATATTTTTTTATAAAGATTGGTATCTAATATTTTTCATTTTTTAGTATTTTAATTTTAG
714 ATTTAAATA-TTTTTTATAAAGATTGGTATCTAATATTTTTCA-TTTTTAGTATTTTAATTTTAG
26998548 TATTTAA
777 TATTTAA
26998555 ATATTTATTTAATAGGACATAACAAGTATCTTTTATAAAATTATAAAATAATTGGCTGAATAAAA
1 ATATTTATTTAATAGGACATAACAAGTATCTTTTATAAAATTATAAAATAATTGGCTGAATAAAA
26998620 AATTTGATCACTAAGATTTTCATGTTTTGTCAAAACGACCTTAATTGTATTTTTGGATTTTTTTT
66 AATTTGATCACTAAGATTTTCATGTTTTGTCAAAACGACCTTAATTGTATTTTTGGATTTTTTTT
*
26998685 AACCATTAATATTTTTTTCAAATTGTTTTTTTAATAGATTTGATGAATAACTCTTAATTTAAAGA
131 AACCATTAATATTTTTTTCAAATTG-TTTTTTAATAGATTTGATGAATAACTATTAATTTAAAGA
* *** *
26998750 AAATAAACATAATTATCTAAAAAAAAGTTTC-AAA-AAATGCACACATTCTGTATTTTTTATTTG
195 AAATAAACATAATTAT-TCAAAAAAAGTTTCAAAATAAATGCACACATTCTGTATTTTCGGTTTA
* * * *
26998813 ATTTATTAATTATCTTTTTGAAACCTCTCAATAAATAAATGCATGCATTCATTTTGAAA-C--TT
259 ATTTATTAATTATCTTTTTGAAACCTCTCAATAAATAAACGTATGGATCCATTTTGAAACCTTTT
* * *
26998875 TTTTTATATAACTATGCTGATTTTCTTTAAATTAAGAATTATTTTTTAATTTCATGTATGATTTA
324 TTTTTAGATAATTATGCTGATTTTCTTTAAATTAAGACTT-TTTTTTAATTTCATGTATGATTTA
*
26998940 ATTATTTTATT
388 TTTATTTTATT
26998951 GGGTTGCTTA
Statistics
Matches: 1133, Mismatches: 41, Indels: 25
0.94 0.03 0.02
Matches are distributed among these distances:
781 39 0.03
782 34 0.03
783 1 0.00
784 273 0.24
785 222 0.20
786 214 0.19
787 225 0.20
788 3 0.00
791 105 0.09
792 17 0.02
ACGTcount: A:0.39, C:0.09, G:0.08, T:0.45
Consensus pattern (783 bp):
ATATTTATTTAATAGGACATAACAAGTATCTTTTATAAAATTATAAAATAATTGGCTGAATAAAA
AATTTGATCACTAAGATTTTCATGTTTTGTCAAAACGACCTTAATTGTATTTTTGGATTTTTTTT
AACCATTAATATTTTTTTCAAATTGTTTTTTAATAGATTTGATGAATAACTATTAATTTAAAGAA
AATAAACATAATTATTCAAAAAAAGTTTCAAAATAAATGCACACATTCTGTATTTTCGGTTTAAT
TTATTAATTATCTTTTTGAAACCTCTCAATAAATAAACGTATGGATCCATTTTGAAACCTTTTTT
TTTAGATAATTATGCTGATTTTCTTTAAATTAAGACTTTTTTTTAATTTCATGTATGATTTATTT
ATTTTATTATTTTTAACATTTAATTATCTTATTGGATTACTTAAGTAATAAATTACATCTCATTA
AAAATATTTCACATCATCCCGTTAATTTTTTTAACAGTACTTTGATCAAATCTGTTAAAAAAATA
TTGAAAAAAAAATAAAAGTTAATGGAAAAAAATAAAAAATACAATTACGACTATTTTGAAAAATA
TGTAAATATAAATGATCAAATTTTTTATTAAACCTAAAATAGTTGGATAAATAATTAAAGTATTT
AAATTACTTGAAATATTAAAATGAAGGCTTTACCTATAATATCTAAATTTTTTTCATTTTAGTAT
TTAAATATTTTTTATAAAGATTGGTATCTAATATTTTTCATTTTTAGTATTTTAATTTTAGTATT
TAA
Found at i:26999329 original size:2 final size:2
Alignment explanation
Indices: 26999324--26999382 Score: 111
Period size: 2 Copynumber: 30.0 Consensus size: 2
26999314 CAAAAAAGTA
26999324 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
26999365 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
26999383 TCTTTTTATT
Statistics
Matches: 56, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 55 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:27007030 original size:15 final size:15
Alignment explanation
Indices: 27007005--27007039 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
27006995 TTAAAGCGTG
27007005 GTGGTAATGTTTTGA
1 GTGGTAATGTTTTGA
* *
27007020 TTGGTAGTGTTTTGA
1 GTGGTAATGTTTTGA
27007035 GTGGT
1 GTGGT
27007040 TGAACCTTAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.14, C:0.00, G:0.37, T:0.49
Consensus pattern (15 bp):
GTGGTAATGTTTTGA
Found at i:27021174 original size:23 final size:25
Alignment explanation
Indices: 27021141--27021187 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
27021131 GCAAAAGAAC
27021141 AAAATGAAAT-A-TATAAAACCTAAG
1 AAAATGAAATAATTA-AAAACCTAAG
27021165 AAAAT-AAATAATTAAAAACCTAA
1 AAAATGAAATAATTAAAAACCTAA
27021188 ATCTAATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 4 0.19
24 15 0.71
25 2 0.10
ACGTcount: A:0.66, C:0.09, G:0.04, T:0.21
Consensus pattern (25 bp):
AAAATGAAATAATTAAAAACCTAAG
Found at i:27044326 original size:7 final size:7
Alignment explanation
Indices: 27044314--27044344 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
27044304 AATGAAGAAG
27044314 ATTCTTC
1 ATTCTTC
27044321 ATTCTTC
1 ATTCTTC
27044328 ATTCTTC
1 ATTCTTC
27044335 ATTCTTC
1 ATTCTTC
27044342 ATT
1 ATT
27044345 TTTCTCTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.16, C:0.26, G:0.00, T:0.58
Consensus pattern (7 bp):
ATTCTTC
Found at i:27048465 original size:3 final size:3
Alignment explanation
Indices: 27048416--27048445 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
27048406 GAACCAACAA
27048416 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
27048446 TAAGATCATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
CAT
Found at i:27050029 original size:15 final size:16
Alignment explanation
Indices: 27050004--27050033 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
27049994 AAGTCAATGT
27050004 ATTTTTAAAATATTTA
1 ATTTTTAAAATATTTA
27050020 ATTTTT-AAATATTT
1 ATTTTTAAAATATTT
27050034 TTTTTATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
ATTTTTAAAATATTTA
Found at i:27051590 original size:26 final size:25
Alignment explanation
Indices: 27051554--27051640 Score: 68
Period size: 26 Copynumber: 3.3 Consensus size: 25
27051544 CTGAACTTGA
27051554 TTTTTTT-TAATTTGGTATTTAAAT
1 TTTTTTTCTAATTTGGTATTTAAAT
* *
27051578 TTTTTTATCTAATTTGATATTTGAACTT
1 TTTTTT-TCTAATTTGGTATTT-AA-AT
** *
27051606 GATTTTTTTCTTAATTTGGTACCTAAAC
1 --TTTTTTTC-TAATTTGGTATTTAAAT
27051634 TTTTTTT
1 TTTTTTT
27051641 GAGACCCAAT
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
24 6 0.12
25 1 0.02
26 19 0.39
27 2 0.04
28 1 0.02
29 4 0.08
30 16 0.33
ACGTcount: A:0.23, C:0.07, G:0.08, T:0.62
Consensus pattern (25 bp):
TTTTTTTCTAATTTGGTATTTAAAT
Found at i:27051603 original size:54 final size:57
Alignment explanation
Indices: 27051535--27051702 Score: 155
Period size: 61 Copynumber: 2.9 Consensus size: 57
27051525 TTAATATAAT
**
27051535 ATTTGACATCTGAACTTGA-TTTTTT-TTAATTTGGTATTTAAA-TTTTTTTATCTA
1 ATTTGACATCTGAACTTGATTTTTTTCTTAATTTGGTACCTAAACTTTTTTTATCTA
* * * *
27051589 ATTTGATATTTGAACTTGATTTTTTTCTTAATTTGGTACCTAAACTTTTTTTGAGACCCA
1 ATTTGACATCTGAACTTGATTTTTTTCTTAATTTGGTACCTAAACTTTTTTT---ATCTA
** * * **
27051649 ATTTGGTATCTAAACTTGGCA-TTTTTTCCTAATTTGGTACCTAAGTTTTTTTTA
1 ATTTGACATCTGAACTT-G-ATTTTTTTCTTAATTTGGTACCTAAACTTTTTTTA
27051703 GATTCGATTT
Statistics
Matches: 94, Mismatches: 12, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
54 17 0.18
55 6 0.06
56 15 0.16
57 7 0.07
58 1 0.01
60 17 0.18
61 30 0.32
62 1 0.01
ACGTcount: A:0.24, C:0.11, G:0.11, T:0.53
Consensus pattern (57 bp):
ATTTGACATCTGAACTTGATTTTTTTCTTAATTTGGTACCTAAACTTTTTTTATCTA
Found at i:27051635 original size:30 final size:30
Alignment explanation
Indices: 27051542--27051692 Score: 95
Period size: 30 Copynumber: 5.2 Consensus size: 30
27051532 AATATTTGAC
*
27051542 ATCTGAACTTGATTTTTTT--TAATTTGGT
1 ATCTAAACTTGATTTTTTTCCTAATTTGGT
* * *
27051570 ATTTAAA-TT--TTTTTAT-CTAATTTGAT
1 ATCTAAACTTGATTTTTTTCCTAATTTGGT
* * *
27051596 ATTTGAACTTGATTTTTTTCTTAATTTGGT
1 ATCTAAACTTGATTTTTTTCCTAATTTGGT
* ** *
27051626 ACCTAAACTT--TTTTTGAGACCCAATTTGGT
1 ATCTAAACTTGATTTTT--TTCCTAATTTGGT
27051656 ATCTAAACTTGGCA-TTTTTTCCTAATTTGGT
1 ATCTAAACTT-G-ATTTTTTTCCTAATTTGGT
*
27051687 ACCTAA
1 ATCTAA
27051693 GTTTTTTTTA
Statistics
Matches: 92, Mismatches: 20, Indels: 19
0.70 0.15 0.15
Matches are distributed among these distances:
25 6 0.07
26 14 0.15
27 4 0.04
28 10 0.11
29 6 0.07
30 33 0.36
31 15 0.16
33 4 0.04
ACGTcount: A:0.25, C:0.12, G:0.11, T:0.52
Consensus pattern (30 bp):
ATCTAAACTTGATTTTTTTCCTAATTTGGT
Found at i:27051639 original size:56 final size:54
Alignment explanation
Indices: 27051535--27051639 Score: 147
Period size: 56 Copynumber: 1.9 Consensus size: 54
27051525 TTAATATAAT
** *
27051535 ATTTGACATCTGAACTTGATTTTTTTTAATTTGGTATTTAAATTTTTTTATCTA
1 ATTTGACATCTGAACTTGATTTTTTTTAATTTGGTACCTAAACTTTTTTATCTA
* *
27051589 ATTTGATATTTGAACTTGATTTTTTTCTTAATTTGGTACCTAAACTTTTTT
1 ATTTGACATCTGAACTTGA-TTTTTT-TTAATTTGGTACCTAAACTTTTTT
27051640 TGAGACCCAA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
54 17 0.39
55 6 0.14
56 21 0.48
ACGTcount: A:0.25, C:0.09, G:0.10, T:0.57
Consensus pattern (54 bp):
ATTTGACATCTGAACTTGATTTTTTTTAATTTGGTACCTAAACTTTTTTATCTA
Found at i:27056572 original size:102 final size:103
Alignment explanation
Indices: 27056388--27056580 Score: 246
Period size: 102 Copynumber: 1.9 Consensus size: 103
27056378 GCTATAAACA
* * **
27056388 AAAGGATCCGATGACTAACTGTCATCGTGAGTAAATGAAACCTTTACAGATTAAAGGTCTGATGA
1 AAAGGATCCGATGACTAACTGTCATCGTGAGTAAATGAAACCATGACAGATTAAAGGTCCAATGA
27056453 CTAGGTGTCATCATGAGTAAATGAATCTTTTACGGATT
66 CTAGGTGTCATCATGAGTAAATGAATCTTTTACGGATT
* ** * **
27056491 AAAGG-TCCGATGATTAGGTGTCATCGTGAGTAAATGAATCCATGATGGATTAAAGGTCCAATGA
1 AAAGGATCCGATGACTAACTGTCATCGTGAGTAAATGAAACCATGACAGATTAAAGGTCCAATGA
* * *
27056555 CTCA-GTGTTATCGTGAGTATATGAAT
66 CT-AGGTGTCATCATGAGTAAATGAAT
27056581 TCCTATACGG
Statistics
Matches: 76, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
102 70 0.92
103 6 0.08
ACGTcount: A:0.33, C:0.13, G:0.23, T:0.30
Consensus pattern (103 bp):
AAAGGATCCGATGACTAACTGTCATCGTGAGTAAATGAAACCATGACAGATTAAAGGTCCAATGA
CTAGGTGTCATCATGAGTAAATGAATCTTTTACGGATT
Found at i:27056580 original size:51 final size:51
Alignment explanation
Indices: 27056388--27056626 Score: 221
Period size: 51 Copynumber: 4.6 Consensus size: 51
27056378 GCTATAAACA
** * * * *
27056388 AAAGGATCCGATGACTAACTGTCATCGTGAGTAAATGAAACCTTTACAGATT
1 AAAGG-TCCGATGACTAGGTGTCATCGTGAGTAAATGAATCCATGACGGATT
* * ** *
27056440 AAAGGTCTGATGACTAGGTGTCATCATGAGTAAATGAATCTTTTACGGATT
1 AAAGGTCCGATGACTAGGTGTCATCGTGAGTAAATGAATCCATGACGGATT
* *
27056491 AAAGGTCCGATGATTAGGTGTCATCGTGAGTAAATGAATCCATGATGGATT
1 AAAGGTCCGATGACTAGGTGTCATCGTGAGTAAATGAATCCATGACGGATT
* * * **
27056542 AAAGGTCCAATGACTCA-GTGTTATCGTGAGTATATGAATTCCTAT-ACGGAAC
1 AAAGGTCCGATGACT-AGGTGTCATCGTGAGTAAATGAA-TCC-ATGACGGATT
* ** *
27056594 AAGAGGTCCAATGACTATATGTCATCATGAGTA
1 AA-AGGTCCGATGACTAGGTGTCATCGTGAGTA
27056627 TTAAATGAAA
Statistics
Matches: 158, Mismatches: 24, Indels: 9
0.83 0.13 0.05
Matches are distributed among these distances:
51 115 0.73
52 16 0.10
53 27 0.17
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (51 bp):
AAAGGTCCGATGACTAGGTGTCATCGTGAGTAAATGAATCCATGACGGATT
Found at i:27056667 original size:59 final size:62
Alignment explanation
Indices: 27056575--27056693 Score: 154
Period size: 60 Copynumber: 2.0 Consensus size: 62
27056565 TCGTGAGTAT
* *
27056575 ATGAATTCCTATACGGAACAAGAGGTCCAATGACTATATGTC-ATCATGAGTATTAAATGAA
1 ATGAATTCCAATACGGAACAAGAGGTCCAATGACTATATGTCAATCATGAGTAATAAATGAA
* * * * *
27056636 ATGAATTCCAATGC-GAACAAG-GGTCCGATGACTTTGTGTCAATCGTGAGTAATAAATG
1 ATGAATTCCAATACGGAACAAGAGGTCCAATGACTATATGTCAATCATGAGTAATAAATG
27056694 CGAGTGAAAA
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
59 16 0.32
60 22 0.44
61 12 0.24
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.28
Consensus pattern (62 bp):
ATGAATTCCAATACGGAACAAGAGGTCCAATGACTATATGTCAATCATGAGTAATAAATGAA
Found at i:27064565 original size:26 final size:27
Alignment explanation
Indices: 27064512--27064583 Score: 78
Period size: 26 Copynumber: 2.7 Consensus size: 27
27064502 TATGTTTTCA
* *
27064512 TTTATTATATTATTT-ATTTATTATAAT
1 TTTA-TATATTTTTTAATTTATTAGAAT
27064539 TTTATATATTTTTTAATTTA-TAGAAT
1 TTTATATATTTTTTAATTTATTAGAAT
*
27064565 TTTA-ATTTTTTTTGAATTT
1 TTTATATATTTTTT-AATTT
27064584 TTAAAATGAT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
25 8 0.20
26 23 0.57
27 9 0.22
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (27 bp):
TTTATATATTTTTTAATTTATTAGAAT
Found at i:27074645 original size:9 final size:9
Alignment explanation
Indices: 27074619--27074652 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
27074609 ATAGTTAAGT
*
27074619 GCAGTTATT
1 GCAGTTATA
27074628 GCAGTTATA
1 GCAGTTATA
27074637 GCAGTTATA
1 GCAGTTATA
*
27074646 GTAGTTA
1 GCAGTTA
27074653 AAGTGTATAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.29, C:0.09, G:0.24, T:0.38
Consensus pattern (9 bp):
GCAGTTATA
Found at i:27075197 original size:13 final size:14
Alignment explanation
Indices: 27075179--27075207 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
27075169 GTTTGACAAT
27075179 TTTTTTAAAA-TTA
1 TTTTTTAAAAGTTA
27075192 TTTTTTAAAAGTTA
1 TTTTTTAAAAGTTA
27075206 TT
1 TT
27075208 ATTAGTGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (14 bp):
TTTTTTAAAAGTTA
Found at i:27075475 original size:23 final size:23
Alignment explanation
Indices: 27075448--27075498 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
27075438 CAATTTAAAC
*
27075448 AAATACTCATATTGATATAAT-TA
1 AAATAATCATATT-ATATAATATA
*
27075471 AAATAATCATATTTTATAATATA
1 AAATAATCATATTATATAATATA
27075494 AAATA
1 AAATA
27075499 TTTATTATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 6 0.24
23 19 0.76
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.39
Consensus pattern (23 bp):
AAATAATCATATTATATAATATA
Found at i:27081620 original size:70 final size:71
Alignment explanation
Indices: 27081499--27081632 Score: 207
Period size: 70 Copynumber: 1.9 Consensus size: 71
27081489 AATTTCATTT
* * * *
27081499 ATGTTTATTTGATAATCAACTCTGTTACAAAACACAGTTTGTTATAGGCAACCCTCAGATTTTTT
1 ATGTTTATTTGACAATAAACTCTG-TACAAAACACAATTTATTATAGGCAACCCTCAGATTTTTT
27081564 TTCCTTC
65 TTCCTTC
*
27081571 ATGTTTATTTGACAATAAACTCTG-ACAAAACATAATTTATTATAGGCAACCCTCAGATTTTT
1 ATGTTTATTTGACAATAAACTCTGTACAAAACACAATTTATTATAGGCAACCCTCAGATTTTT
27081633 CTTGTTTCAC
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
70 35 0.61
72 22 0.39
ACGTcount: A:0.32, C:0.18, G:0.10, T:0.40
Consensus pattern (71 bp):
ATGTTTATTTGACAATAAACTCTGTACAAAACACAATTTATTATAGGCAACCCTCAGATTTTTTT
TCCTTC
Found at i:27087883 original size:30 final size:30
Alignment explanation
Indices: 27087843--27088037 Score: 195
Period size: 29 Copynumber: 6.6 Consensus size: 30
27087833 CAGAGAATTC
* *
27087843 GGGGTTAAAATGTAATTTTAGAGAAGTTTA
1 GGGGTCAAAATGTAATTTTAGAAAAGTTTA
* * *
27087873 GGGGTCAAAATGCAATTTTGGAAAGGTTT-
1 GGGGTCAAAATGTAATTTTAGAAAAGTTTA
* * *
27087902 GGGTGTTAAAATGTGATTTTGGAAAAGTTTA
1 GGG-GTCAAAATGTAATTTTAGAAAAGTTTA
* * * *
27087933 GGGTTCAAAATAT-ATTTTTGAAAAATTTA
1 GGGGTCAAAATGTAATTTTAGAAAAGTTTA
27087962 -GGGTCAAAATGTAATTTTA-AAAAGTTTA
1 GGGGTCAAAATGTAATTTTAGAAAAGTTTA
* *
27087990 AGAGTCAAAATGTAATTTT-GAAAAGATTTA
1 GGGGTCAAAATGTAATTTTAGAAAAG-TTTA
*
27088020 -GGGTCAAAATATAATTTT
1 GGGGTCAAAATGTAATTTT
27088038 TAAATAAAAC
Statistics
Matches: 138, Mismatches: 21, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
28 18 0.13
29 60 0.43
30 57 0.41
31 3 0.02
ACGTcount: A:0.38, C:0.03, G:0.22, T:0.36
Consensus pattern (30 bp):
GGGGTCAAAATGTAATTTTAGAAAAGTTTA
Found at i:27087956 original size:29 final size:28
Alignment explanation
Indices: 27087844--27088038 Score: 165
Period size: 30 Copynumber: 6.6 Consensus size: 28
27087834 AGAGAATTCG
* * *
27087844 GGGTTAAAATGTAATTTTAGAGAAGTTTA
1 GGGTCAAAATGT-ATTTTTGAAAAGTTTA
* * * *
27087873 GGGGTCAAAATGCAATTTTGGAAAGGTTTG
1 -GGGTCAAAATG-TATTTTTGAAAAGTTTA
* *
27087903 GGTGTTAAAATGTGATTTTGGAAAAGTTTA
1 GG-GTCAAAATGT-ATTTTTGAAAAGTTTA
* *
27087933 GGGTTCAAAATATATTTTTGAAAAATTTA
1 GGG-TCAAAATGTATTTTTGAAAAGTTTA
* *
27087962 GGGTCAAAATGTAATTTTAAAAAGTTTAA
1 GGGTCAAAATGTATTTTTGAAAAGTTT-A
* *
27087991 GAGTCAAAATGTAATTTTGAAAAGATTTA
1 GGGTCAAAATGTATTTTTGAAAAG-TTTA
*
27088020 GGGTCAAAATATAATTTTT
1 GGGTCAAAATGT-ATTTTT
27088039 AAATAAAACA
Statistics
Matches: 135, Mismatches: 23, Indels: 14
0.78 0.13 0.08
Matches are distributed among these distances:
28 20 0.15
29 54 0.40
30 61 0.45
ACGTcount: A:0.38, C:0.03, G:0.22, T:0.37
Consensus pattern (28 bp):
GGGTCAAAATGTATTTTTGAAAAGTTTA
Found at i:27092940 original size:30 final size:30
Alignment explanation
Indices: 27092904--27092983 Score: 151
Period size: 30 Copynumber: 2.7 Consensus size: 30
27092894 TCGAATGATT
*
27092904 TGTATCATCAATTTCTTCTGGTTCACTGAG
1 TGTATCATCAATTTCTTCTGGTTCACTAAG
27092934 TGTATCATCAATTTCTTCTGGTTCACTAAG
1 TGTATCATCAATTTCTTCTGGTTCACTAAG
27092964 TGTATCATCAATTTCTTCTG
1 TGTATCATCAATTTCTTCTG
27092984 TGTAAGACAA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 49 1.00
ACGTcount: A:0.21, C:0.20, G:0.14, T:0.45
Consensus pattern (30 bp):
TGTATCATCAATTTCTTCTGGTTCACTAAG
Found at i:27096742 original size:28 final size:28
Alignment explanation
Indices: 27096702--27096756 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
27096692 TTGGTAACAG
27096702 GCATGACCTTTGGGTCAACAGGAAGTAA
1 GCATGACCTTTGGGTCAACAGGAAGTAA
* *
27096730 GCATGACCTTTGGGTTAACAGGGAGTA
1 GCATGACCTTTGGGTCAACAGGAAGTA
27096757 TATCGGATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.29, C:0.16, G:0.31, T:0.24
Consensus pattern (28 bp):
GCATGACCTTTGGGTCAACAGGAAGTAA
Found at i:27103651 original size:187 final size:185
Alignment explanation
Indices: 27103338--27103689 Score: 593
Period size: 187 Copynumber: 1.9 Consensus size: 185
27103328 TCCTTTCTGC
*
27103338 TGTGTTAGGCGGCATTATAATTTTTTTTTATTTTTTTCTTGTCAAACCTTTTAAAAAAAAAAAAA
1 TGTGTTAGGCGGCACTATAATTTTTTTTTATTTTTTTCTTGTCAAACCTTTTAAAAAAAAAAAAA
* *
27103403 GTTCATTAGTGTCGTTAATATGTCAGACGCACTTAAAGTTACTATAGTAAACACTCCATTTTTTG
66 GTTCATTAGTATCGTTAATATGTCAGACGCACTTAAAGTTACTATAGCAAACACTCCATTTTTTG
*
27103468 TAATTAATCTGTTTCTAACCTTATTTTTATATTTAGCAAACACTGCTATTGTCAA
131 TAATTAATCTGTTCCTAACCTTATTTTTATATTTAGCAAACACTGCTATTGTCAA
*
27103523 TGTGTTAGGCGGCACTATAATTTTTTTTTTTCATTTTTTTTCTTGTCAAA-CTTTT-TAAAAAAA
1 TGTGTTAGGCGGCACTATAA--TTTTTTTTT-A-TTTTTTTCTTGTCAAACCTTTTAAAAAAAAA
27103586 AAAA-TTCATTAGTATCGTTAATATGTCAGACGACACTTAAAGTTACTATAGCAAACACTCCATT
62 AAAAGTTCATTAGTATCGTTAATATGTCAGACG-CACTTAAAGTTACTATAGCAAACACTCCATT
27103650 TTTTGTAATTAATCTGTTCCTAACCTTATTTTTATATTTA
126 TTTTGTAATTAATCTGTTCCTAACCTTATTTTTATATTTA
27103690 ATTAATTTTT
Statistics
Matches: 157, Mismatches: 5, Indels: 8
0.92 0.03 0.05
Matches are distributed among these distances:
185 19 0.12
186 27 0.17
187 89 0.57
188 6 0.04
189 16 0.10
ACGTcount: A:0.31, C:0.14, G:0.11, T:0.44
Consensus pattern (185 bp):
TGTGTTAGGCGGCACTATAATTTTTTTTTATTTTTTTCTTGTCAAACCTTTTAAAAAAAAAAAAA
GTTCATTAGTATCGTTAATATGTCAGACGCACTTAAAGTTACTATAGCAAACACTCCATTTTTTG
TAATTAATCTGTTCCTAACCTTATTTTTATATTTAGCAAACACTGCTATTGTCAA
Found at i:27104924 original size:28 final size:30
Alignment explanation
Indices: 27104851--27104958 Score: 114
Period size: 30 Copynumber: 3.6 Consensus size: 30
27104841 TTAATATAAT
27104851 ATTTGGTACTTAAACTTGATATTTGTTCTTA
1 ATTTGGTACTTAAACTTGATATTTGTTC-TA
* * *
27104882 ATTTGGTATTTAAACTT-TTTTTTGTTC-A
1 ATTTGGTACTTAAACTTGATATTTGTTCTA
* * *
27104910 ATTTGGTACTCAAACTTGACACTT-TTCTTA
1 ATTTGGTACTTAAACTTGATATTTGTTC-TA
*
27104940 ATTTGGTACCTAAACTTGA
1 ATTTGGTACTTAAACTTGA
27104959 CACTTTTTTT
Statistics
Matches: 63, Mismatches: 11, Indels: 7
0.78 0.14 0.09
Matches are distributed among these distances:
28 19 0.30
29 2 0.03
30 26 0.41
31 16 0.25
ACGTcount: A:0.26, C:0.13, G:0.12, T:0.49
Consensus pattern (30 bp):
ATTTGGTACTTAAACTTGATATTTGTTCTA
Found at i:27105297 original size:31 final size:31
Alignment explanation
Indices: 27105222--27105297 Score: 116
Period size: 31 Copynumber: 2.5 Consensus size: 31
27105212 AAAAAGATTG
* *
27105222 GGTATCAAATTAGAAAAAAATGTCAAGTTCA
1 GGTACCAAATTAGGAAAAAATGTCAAGTTCA
* *
27105253 AGTACCAAATTAGGAAAAAATGTTAAGTTCA
1 GGTACCAAATTAGGAAAAAATGTCAAGTTCA
27105284 GGTACCAAATTAGG
1 GGTACCAAATTAGG
27105298 TCAAAAAAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.46, C:0.11, G:0.18, T:0.25
Consensus pattern (31 bp):
GGTACCAAATTAGGAAAAAATGTCAAGTTCA
Found at i:27105457 original size:26 final size:26
Alignment explanation
Indices: 27105428--27105480 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
27105418 GTTGATTACG
*
27105428 AAAAAAAAATTCAAAATCCAATTTAA
1 AAAAAAAAACTCAAAATCCAATTTAA
27105454 AAAAAAAAACTCAAAATCCAATTTAA
1 AAAAAAAAACTCAAAATCCAATTTAA
27105480 A
1 A
27105481 TTTAATTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.66, C:0.13, G:0.00, T:0.21
Consensus pattern (26 bp):
AAAAAAAAACTCAAAATCCAATTTAA
Found at i:27107558 original size:21 final size:21
Alignment explanation
Indices: 27107532--27107573 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
27107522 ACTTGTGGTA
27107532 TATACAAATATTGACCAAATT
1 TATACAAATATTGACCAAATT
*
27107553 TATACAATTATTGACCAAATT
1 TATACAAATATTGACCAAATT
27107574 CATCTGTAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.45, C:0.14, G:0.05, T:0.36
Consensus pattern (21 bp):
TATACAAATATTGACCAAATT
Found at i:27115194 original size:44 final size:43
Alignment explanation
Indices: 27115131--27115323 Score: 236
Period size: 44 Copynumber: 4.5 Consensus size: 43
27115121 CTTGATGATG
*
27115131 AAATTACTATGTTTGTTCCACGTTTTCTTTAATACATCTCATTT
1 AAATTACTATGTTTGTTCCAAGTTTT-TTTAATACATCTCATTT
*
27115175 AAATTACTATGTTTGTTCCAAGTTTGTTTTAATACGTCTCATTT
1 AAATTACTATGTTTGTTCCAAGTTT-TTTTAATACATCTCATTT
* * *
27115219 AAATTACTATGTTTGTTCCAAGATTGTTTTGATATATCTCATTT
1 AAATTACTATGTTTGTTCCAAG-TTTTTTTAATACATCTCATTT
** *
27115263 AAATTACTATGTTTGTTTAAAATTTGTTTTAAT--A----ATTT
1 AAATTACTATGTTTGTTCCAAGTTT-TTTTAATACATCTCATTT
27115301 AAATTACTATGTTTGTTCCAAGT
1 AAATTACTATGTTTGTTCCAAGT
27115324 CGGGATATAA
Statistics
Matches: 132, Mismatches: 14, Indels: 12
0.84 0.09 0.08
Matches are distributed among these distances:
38 24 0.18
42 1 0.01
43 2 0.02
44 102 0.77
45 3 0.02
ACGTcount: A:0.28, C:0.12, G:0.10, T:0.50
Consensus pattern (43 bp):
AAATTACTATGTTTGTTCCAAGTTTTTTTAATACATCTCATTT
Found at i:27117598 original size:25 final size:27
Alignment explanation
Indices: 27117568--27117625 Score: 84
Period size: 25 Copynumber: 2.2 Consensus size: 27
27117558 ACATTAAACT
*
27117568 AAACAAAATAATAT-ATAATAA-TTAA
1 AAACAAAATAATATAAAAATAATTTAA
*
27117593 AAACAAAATAATTTAAAAATAATTTAA
1 AAACAAAATAATATAAAAATAATTTAA
27117620 AAACAA
1 AAACAA
27117626 CAAAACAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 13 0.45
26 6 0.21
27 10 0.34
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.26
Consensus pattern (27 bp):
AAACAAAATAATATAAAAATAATTTAA
Found at i:27117621 original size:10 final size:11
Alignment explanation
Indices: 27117597--27117622 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
27117587 AATTAAAAAC
27117597 AAAATAATTTA
1 AAAATAATTTA
27117608 AAAATAATTTA
1 AAAATAATTTA
27117619 AAAA
1 AAAA
27117623 CAACAAAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (11 bp):
AAAATAATTTA
Found at i:27117937 original size:145 final size:145
Alignment explanation
Indices: 27117768--27118128 Score: 464
Period size: 146 Copynumber: 2.5 Consensus size: 145
27117758 AAATTTTTTT
* * *
27117768 ATAACAATAAACATTAAACTAAACAAATAATTTATAAGAATCACTAAC-AAATAACTTTAAATTA
1 ATAAC-ATAAAAATTAAACTAAACAAATAATTTATAATAATTACTAACAAAATAACTTTAAATTA
*
27117832 AATTAAAAACAAGACAACAAAACAATTTATCTTACCTTT-C-T-TTACGTTTAATCTACTCTACC
65 AATT---AA-AA-ACAACAAAACAATTTATCTTACCTTTACTTCTTACCTTTAATCTACTCTACC
* ** *
27117894 AAA-TAAAAAAATTATAATAA
125 AAACAAAAAAAAAAATAACAA
*
27117914 ATAACATAAAAATTAAATTAAACAAATAATTTATAATAATTACTAACAAAATAACTTTAAATTAA
1 ATAACATAAAAATTAAACTAAACAAATAATTTATAATAATTACTAACAAAATAACTTTAAATTAA
* * * *
27117979 ATT-AAAACAACAAAACAATTTATCTTTCCTTTAGCTTTCTTCCCTTTAATCTACTTTACTAAAC
66 ATTAAAAACAACAAAACAATTTATCTTACCTTTA-C-TTCTTACCTTTAATCTACTCTACCAAAC
27118043 AAAAAAAAAAATAACAA
129 AAAAAAAAAAATAACAA
* * *
27118060 ATCACATAAATATTAAACTAAACAAATAATTTATAATAATTACTAACAAAATAAATTTAAATTAA
1 ATAACATAAAAATTAAACTAAACAAATAATTTATAATAATTACTAACAAAATAACTTTAAATTAA
27118125 ATTA
66 ATTA
27118129 TTATTTTTTT
Statistics
Matches: 190, Mismatches: 17, Indels: 15
0.86 0.08 0.07
Matches are distributed among these distances:
140 25 0.13
141 2 0.01
142 2 0.01
144 1 0.01
145 58 0.31
146 102 0.54
ACGTcount: A:0.53, C:0.14, G:0.01, T:0.32
Consensus pattern (145 bp):
ATAACATAAAAATTAAACTAAACAAATAATTTATAATAATTACTAACAAAATAACTTTAAATTAA
ATTAAAAACAACAAAACAATTTATCTTACCTTTACTTCTTACCTTTAATCTACTCTACCAAACAA
AAAAAAAAATAACAA
Found at i:27117942 original size:20 final size:21
Alignment explanation
Indices: 27117900--27117942 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
27117890 TACCAAATAA
*
27117900 AAAAATTATAATAAATAACAT
1 AAAAATTATAATAAACAACAT
27117921 AAAAATTA-AATTAAACAA-AT
1 AAAAATTATAA-TAAACAACAT
27117941 AA
1 AA
27117943 TTTATAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.26
Consensus pattern (21 bp):
AAAAATTATAATAAACAACAT
Found at i:27124171 original size:6 final size:6
Alignment explanation
Indices: 27124152--27124195 Score: 74
Period size: 6 Copynumber: 7.7 Consensus size: 6
27124142 TACCTCTCTT
27124152 TCCTTC -CCTT- TCCTTC TCCTTC TCCTTC TCCTTC TCCTTC TCCT
1 TCCTTC TCCTTC TCCTTC TCCTTC TCCTTC TCCTTC TCCTTC TCCT
27124196 CTACTCTTCT
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
5 8 0.22
6 28 0.78
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (6 bp):
TCCTTC
Found at i:27130649 original size:26 final size:26
Alignment explanation
Indices: 27130586--27130777 Score: 149
Period size: 26 Copynumber: 7.4 Consensus size: 26
27130576 TAAGAGCATT
* * * *
27130586 ATTCTCTCTGGGTTTGAATTAGCGT-T
1 ATTCTGTCTGGGCTTGAATGAGC-TAA
*
27130612 ATTCTGTCTGGGCTTGAATGAGTTAA
1 ATTCTGTCTGGGCTTGAATGAGCTAA
* * * *
27130638 ATTTTATTTGGGCTAGTAA-GAGCTAA
1 ATTCTGTCTGGGCTTG-AATGAGCTAA
* * * *
27130664 ACTCTGTCTAGGCTCGAATGAACTAA
1 ATTCTGTCTGGGCTTGAATGAGCTAA
* * *
27130690 ATTTTGTTTGGGCTTGAATGAGTTAA
1 ATTCTGTCTGGGCTTGAATGAGCTAA
*
27130716 ATTCTGTCTGGGCTCT-AATGAGATAA
1 ATTCTGTCTGGGCT-TGAATGAGCTAA
* *
27130742 ATTCTATCTGGGATCT-AATGAGCTAA
1 ATTCTGTCTGGGCT-TGAATGAGCTAA
27130768 ATTCTGTCTG
1 ATTCTGTCTG
27130778 AACTCATTAG
Statistics
Matches: 131, Mismatches: 31, Indels: 8
0.77 0.18 0.05
Matches are distributed among these distances:
25 3 0.02
26 125 0.95
27 3 0.02
ACGTcount: A:0.25, C:0.14, G:0.23, T:0.39
Consensus pattern (26 bp):
ATTCTGTCTGGGCTTGAATGAGCTAA
Found at i:27130683 original size:52 final size:52
Alignment explanation
Indices: 27130612--27130777 Score: 185
Period size: 52 Copynumber: 3.2 Consensus size: 52
27130602 AATTAGCGTT
* *
27130612 ATTCTGTCTGGGCTTGAATGAGTTAAATTTTATTTGGGCTAGTAA-GAGCTAA
1 ATTCTGTCTGGGCTCGAATGAGATAAATTTTATTTGGGCT-GTAATGAGCTAA
* * * *
27130664 ACTCTGTCTAGGCTCGAATGA-ACTAAATTTTGTTTGGGCT-TGAATGAGTTAA
1 ATTCTGTCTGGGCTCGAATGAGA-TAAATTTTATTTGGGCTGT-AATGAGCTAA
* * * * *
27130716 ATTCTGTCTGGGCTCTAATGAGATAAATTCTATCTGGGATCTAATGAGCTAA
1 ATTCTGTCTGGGCTCGAATGAGATAAATTTTATTTGGGCTGTAATGAGCTAA
27130768 ATTCTGTCTG
1 ATTCTGTCTG
27130778 AACTCATTAG
Statistics
Matches: 95, Mismatches: 14, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
50 1 0.01
51 2 0.02
52 90 0.95
53 2 0.02
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.37
Consensus pattern (52 bp):
ATTCTGTCTGGGCTCGAATGAGATAAATTTTATTTGGGCTGTAATGAGCTAA
Found at i:27130762 original size:78 final size:78
Alignment explanation
Indices: 27130620--27130770 Score: 187
Period size: 78 Copynumber: 1.9 Consensus size: 78
27130610 TTATTCTGTC
* * * * * *
27130620 TGGGCTTGAATGAGTTAAATTTTATTTGGGCTAGTAAGAGCTAAACTCTGTCTAGGCTCGAATGA
1 TGGGCTTGAATGAGTTAAATTCTATCTGGGCTACTAAGAGATAAACTCTATCTAGGATCGAATGA
27130685 ACTAAATTTTGTT
66 ACTAAATTTTGTT
* * * *
27130698 TGGGCTTGAATGAGTTAAATTCTGTCTGGGCT-CTAATGAGATAAATTCTATCTGGGATCTAATG
1 TGGGCTTGAATGAGTTAAATTCTATCTGGGCTACTAA-GAGATAAACTCTATCTAGGATCGAATG
*
27130762 AGCTAAATT
65 AACTAAATT
27130771 CTGTCTGAAC
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
77 3 0.05
78 58 0.95
ACGTcount: A:0.28, C:0.12, G:0.23, T:0.36
Consensus pattern (78 bp):
TGGGCTTGAATGAGTTAAATTCTATCTGGGCTACTAAGAGATAAACTCTATCTAGGATCGAATGA
ACTAAATTTTGTT
Found at i:27130804 original size:52 final size:53
Alignment explanation
Indices: 27130706--27130822 Score: 123
Period size: 52 Copynumber: 2.2 Consensus size: 53
27130696 TTTGGGCTTG
* ** *
27130706 AATGAGTTAAATTCTGTCTGGGCTCTAATGAGATAAATTCTATCTGGGATC-T
1 AATGAGCTAAATTCTGTCTGAACTCTAATGAGATAAACTCTATCTGGGATCGT
* * * *
27130758 AATGAGCTAAATTCTGTCTGAACTC-ATTAGAGTTAAACTCTGTCTGGGCTCGT
1 AATGAGCTAAATTCTGTCTGAACTCTAAT-GAGATAAACTCTATCTGGGATCGT
*
27130811 -ATGAGCAAAATT
1 AATGAGCTAAATT
27130823 TCTAGAAGAC
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
51 2 0.04
52 51 0.94
53 1 0.02
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.34
Consensus pattern (53 bp):
AATGAGCTAAATTCTGTCTGAACTCTAATGAGATAAACTCTATCTGGGATCGT
Found at i:27137218 original size:20 final size:20
Alignment explanation
Indices: 27137165--27137211 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
27137155 TTGGCCTGAG
** *
27137165 ACTTCTACCTGTAGAACTTC
1 ACTTCTACCCATACAACTTC
27137185 ACTTCTACCCATACAACTTC
1 ACTTCTACCCATACAACTTC
*
27137205 AGTTCTA
1 ACTTCTA
27137212 TCGATACCCG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.28, C:0.32, G:0.06, T:0.34
Consensus pattern (20 bp):
ACTTCTACCCATACAACTTC
Found at i:27139836 original size:18 final size:17
Alignment explanation
Indices: 27139803--27139837 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
27139793 TGAATTGGAT
*
27139803 AAATGATATTTGAATTG
1 AAATGATATATGAATTG
27139820 AAATGATTATATGAATTG
1 AAATGA-TATATGAATTG
27139838 GTAATATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.43, C:0.00, G:0.17, T:0.40
Consensus pattern (17 bp):
AAATGATATATGAATTG
Found at i:27142577 original size:14 final size:14
Alignment explanation
Indices: 27142558--27142585 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
27142548 GATTTAATAA
27142558 AAGGAAACTATTAG
1 AAGGAAACTATTAG
27142572 AAGGAAACTATTAG
1 AAGGAAACTATTAG
27142586 GGGTAAAACT
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:0.50, C:0.07, G:0.21, T:0.21
Consensus pattern (14 bp):
AAGGAAACTATTAG
Found at i:27143743 original size:21 final size:23
Alignment explanation
Indices: 27143704--27143759 Score: 62
Period size: 21 Copynumber: 2.5 Consensus size: 23
27143694 ACTTGAGTTA
* *
27143704 TATCGGTAGTTGAATTATA-A-G
1 TATCGGTAGTTTAAGTATAGATG
*
27143725 TATCGGTAGTTTTAGTATAGATG
1 TATCGGTAGTTTAAGTATAGATG
*
27143748 TATCCGTAGTTT
1 TATCGGTAGTTT
27143760 GTATGCTTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 16 0.55
22 1 0.03
23 12 0.41
ACGTcount: A:0.27, C:0.07, G:0.23, T:0.43
Consensus pattern (23 bp):
TATCGGTAGTTTAAGTATAGATG
Found at i:27143843 original size:21 final size:19
Alignment explanation
Indices: 27143817--27143869 Score: 61
Period size: 21 Copynumber: 2.6 Consensus size: 19
27143807 AAAATTTTTG
27143817 GTATCGGTAGATGCATGACTT
1 GTATCGGTAGAT-CAT-ACTT
27143838 GTATCGGTAGAAATCATACTT
1 GTATCGGTAG--ATCATACTT
*
27143859 GTATCAGTAGA
1 GTATCGGTAGA
27143870 GCTAGCACAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
19 1 0.03
21 23 0.79
22 3 0.10
23 2 0.07
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.32
Consensus pattern (19 bp):
GTATCGGTAGATCATACTT
Found at i:27144525 original size:37 final size:37
Alignment explanation
Indices: 27144484--27144566 Score: 157
Period size: 37 Copynumber: 2.2 Consensus size: 37
27144474 TATAGCTATA
27144484 TCAAAACGATGTCGTTTTGAACCTAACTCAATAAGCT
1 TCAAAACGATGTCGTTTTGAACCTAACTCAATAAGCT
*
27144521 TCAAAACGATGTCGTTTTGAACCTAACTCAATAGGCT
1 TCAAAACGATGTCGTTTTGAACCTAACTCAATAAGCT
27144558 TCAAAACGA
1 TCAAAACGA
27144567 CGTCATATTG
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 45 1.00
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.28
Consensus pattern (37 bp):
TCAAAACGATGTCGTTTTGAACCTAACTCAATAAGCT
Found at i:27146885 original size:27 final size:26
Alignment explanation
Indices: 27146855--27146906 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
27146845 TTAAACAAAG
*
27146855 TCCTAAACAATATTTACATATTAATTA
1 TCCTAAACAATATTTA-AAATTAATTA
*
27146882 TCCTATACAATATTTAAAATTAATT
1 TCCTAAACAATATTTAAAATTAATT
27146907 TAAAACCCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 8 0.35
27 15 0.65
ACGTcount: A:0.44, C:0.13, G:0.00, T:0.42
Consensus pattern (26 bp):
TCCTAAACAATATTTAAAATTAATTA
Found at i:27148088 original size:151 final size:146
Alignment explanation
Indices: 27147779--27148360 Score: 691
Period size: 147 Copynumber: 3.9 Consensus size: 146
27147769 TCTTACTTTA
* * * * *
27147779 TTTAAAAATTTAAACTTTTTCTTTAAAATTATTAAAAAACAAATTTTTATTTTTTAAAAATCTAA
1 TTTAAAAATTTAAACTTTTTCTTTAAAATAACTAAAAAATAGATTTTTA-TTTTTAAAAATATAA
* * * * *
27147844 ACTTTCTTTCTTTTTTAATGAAAATCACTACTTTAGTTAAAAATCCAAA-CTTTATTTTGAAATA
65 ACTTTCTTTC-TTTTTAAAGAAAATCACTACTTTACTTAAAAATCTAAATTTTTATTTCGAAATA
*
27147908 GTTAAAAAAATCAAAAATTTG
129 GTTAAAAAAAT---AAATTTC
* * *
27147929 TTTAAAAATTTAAAATTTTTCTTTAAAATCACTAAAAAATAGATTTTTATCTTTTTTAAAAATCT
1 TTTAAAAATTTAAACTTTTTCTTTAAAATAACTAAAAAATAGATTTTTA---TTTTTAAAAATAT
*
27147994 AAACTTTCTTTCTTTTTAATGAAAATCACTACTTTACTTAAAAATCTAAATTTTTATTTCGAAAT
63 AAACTTTCTTTCTTTTTAAAGAAAATCACTACTTTACTTAAAAATCTAAATTTTTATTTCGAAAT
* *
27148059 AGTTAAAAAAATTAATTTT
128 AGTTAAAAAAATAAATTTC
* *
27148078 TTTAAAAAAATTTAAGCTTTTTCTTTAAAATAACTAAAAACAT--ATTTTTATTTTTAAAAAAAT
1 TTT--AAAAATTTAAACTTTTTCTTTAAAATAACTAAAAA-ATAGATTTTTATTTTTAAAAATAT
* * *
27148141 AAACTTTCTCTT-TTTTTAAAGAAAATCACTATTTTACTTAAAAATATAAACTTTTATTTCGAAA
63 AAACTTTCT-TTCTTTTTAAAGAAAATCACTACTTTACTTAAAAATCTAAATTTTTATTTCGAAA
27148205 TAGTTAAAAAAATCAAAACTTTGC
127 TAGTTAAAAAAAT--AAA-TTT-C
27148229 -TT--AAATTTAAACTTTTT-TTTAAAATAACTAAAAAATAGATTTTTATTTTTAAAAATATAAA
1 TTTAAAAATTTAAACTTTTTCTTTAAAATAACTAAAAAATAGATTTTTATTTTTAAAAATATAAA
* * * * *
27148290 CTTTC--TC-TTTTAAAGAAAATCTCTATTTTACTTAAAAATCAAAATTTTTATTTCAAAATTAT
66 CTTTCTTTCTTTTTAAAGAAAATCACTACTTTACTTAAAAATCTAAATTTTTATTTCGAAA-TAG
27148352 TTAAAAAAA
130 TTAAAAAAA
27148361 ACCAAAACTT
Statistics
Matches: 387, Mismatches: 30, Indels: 36
0.85 0.07 0.08
Matches are distributed among these distances:
143 47 0.12
144 13 0.03
145 17 0.04
146 41 0.11
147 81 0.21
148 2 0.01
149 10 0.03
150 56 0.14
151 68 0.18
152 52 0.13
ACGTcount: A:0.44, C:0.09, G:0.03, T:0.44
Consensus pattern (146 bp):
TTTAAAAATTTAAACTTTTTCTTTAAAATAACTAAAAAATAGATTTTTATTTTTAAAAATATAAA
CTTTCTTTCTTTTTAAAGAAAATCACTACTTTACTTAAAAATCTAAATTTTTATTTCGAAATAGT
TAAAAAAATAAATTTC
Found at i:27148098 original size:19 final size:18
Alignment explanation
Indices: 27148061--27148099 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
27148051 TTCGAAATAG
**
27148061 TTAAAAAAATTAATTTTT
1 TTAAAAAAATTAAGCTTT
27148079 TTAAAAAAATTTAAGCTTT
1 TTAAAAAAA-TTAAGCTTT
27148098 TT
1 TT
27148100 CTTTAAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (18 bp):
TTAAAAAAATTAAGCTTT
Found at i:27148878 original size:42 final size:42
Alignment explanation
Indices: 27148824--27149535 Score: 863
Period size: 42 Copynumber: 16.9 Consensus size: 42
27148814 AAAAAATAAA
* * * *
27148824 TAAATGGACCTCTACACATAGGCCTATAAATGCAATGAACAG
1 TAAATGGACCTCCACACCTAGGCCTCTAAATGCAATGAAAAG
* * * * *
27148866 TGAATGGACCTCTATACCT-GAGCCTCTAAATGCGATGGAAAG
1 TAAATGGACCTCCACACCTAG-GCCTCTAAATGCAATGAAAAG
* * * * * *
27148908 TAAATAGACCTCCACACCTGGGTCTTTAAGTGCGATGAAAAG
1 TAAATGGACCTCCACACCTAGGCCTCTAAATGCAATGAAAAG
* * * * *
27148950 TAAATGGATCTCTACGCCTAGGCCTCTAAATACGATGAAAAG
1 TAAATGGACCTCCACACCTAGGCCTCTAAATGCAATGAAAAG
* * * * *
27148992 TAAATGGACCTCTATACTTGGGCCTCTGAAATGCAATGAAAAT
1 TAAATGGACCTCCACACCTAGGCCTCT-AAATGCAATGAAAAG
* * *
27149035 TAAATGGGCCTCCACACTTAGGCTTCTAAATGCAATGAAAAG
1 TAAATGGACCTCCACACCTAGGCCTCTAAATGCAATGAAAAG
* *
27149077 TAAATGAACCTCTACACCTAGGCCTCTAAATGCAATGAAAAG
1 TAAATGGACCTCCACACCTAGGCCTCTAAATGCAATGAAAAG
* *
27149119 TAAATGGACCTCCACACTTGGGCCTCTAAATGCAATGAAAAG
1 TAAATGGACCTCCACACCTAGGCCTCTAAATGCAATGAAAAG
* * *
27149161 TAAATGGGCCTCCACACCTAGGCCTTTAAAGGCAATGAAAAG
1 TAAATGGACCTCCACACCTAGGCCTCTAAATGCAATGAAAAG
27149203 TAAATGGACCTCCACACCT-GAGCCTCTAAATGCAATGAAAAG
1 TAAATGGACCTCCACACCTAG-GCCTCTAAATGCAATGAAAAG
* * **
27149245 TAAATAGACCTCCACACCTGGGATTCTAAATGCAATGAAAAG
1 TAAATGGACCTCCACACCTAGGCCTCTAAATGCAATGAAAAG
* *
27149287 TAAATGGGCCTCCACACCTGGGCCTCTAAATGCAATGAAAAG
1 TAAATGGACCTCCACACCTAGGCCTCTAAATGCAATGAAAAG
* * *
27149329 TAAATAGACCCCCACACCTGGGCCTCTAAATGCAATGAAAAG
1 TAAATGGACCTCCACACCTAGGCCTCTAAATGCAATGAAAAG
*
27149371 TAAAT-GAGCCTCCACACTTAGGCCTCTAAATGCAATGAAAAG
1 TAAATGGA-CCTCCACACCTAGGCCTCTAAATGCAATGAAAAG
* * *
27149413 TAAATGGACCTCTACACCTAGGCCTTTAAATGCAAAGAAAAG
1 TAAATGGACCTCCACACCTAGGCCTCTAAATGCAATGAAAAG
* * *
27149455 TAAATGGGCCTCCACACCTGGGCCTCTAAATGCAATGAAAAA
1 TAAATGGACCTCCACACCTAGGCCTCTAAATGCAATGAAAAG
* * * * *
27149497 TAAATGGGCCTCCATAACTGGGCCTTTAAATGCAATGAA
1 TAAATGGACCTCCACACCTAGGCCTCTAAATGCAATGAA
27149536 TGCTTTCCTC
Statistics
Matches: 582, Mismatches: 81, Indels: 14
0.86 0.12 0.02
Matches are distributed among these distances:
41 4 0.01
42 540 0.93
43 38 0.07
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.22
Consensus pattern (42 bp):
TAAATGGACCTCCACACCTAGGCCTCTAAATGCAATGAAAAG
Found at i:27149976 original size:6 final size:7
Alignment explanation
Indices: 27149960--27149996 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
27149950 TTTGTTGTTT
27149960 TTTTC-C
1 TTTTCTC
*
27149966 TTTTTTC
1 TTTTCTC
27149973 TTTT-TC
1 TTTTCTC
27149979 TTTTCTC
1 TTTTCTC
27149986 TTTTCTC
1 TTTTCTC
27149993 TTTT
1 TTTT
27149997 GTGTTCTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
6 10 0.36
7 18 0.64
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (7 bp):
TTTTCTC
Found at i:27149982 original size:19 final size:19
Alignment explanation
Indices: 27149937--27150012 Score: 75
Period size: 19 Copynumber: 3.9 Consensus size: 19
27149927 GCTCTCTCTA
*
27149937 TTTTTTCTTCTTTTTTGTTGT
1 TTTTTTC-TCTTTTTTCTT-T
27149958 TTTTTTC-CTTTTTTCTTT
1 TTTTTTCTCTTTTTTCTTT
*
27149976 TTCTTTTCTCTTTTCTCTTT
1 TT-TTTTCTCTTTTTTCTTT
* *
27149996 TGTGTTCT-TTTTTTCTT
1 TTTTTTCTCTTTTTTCTT
27150013 GATTTAAACA
Statistics
Matches: 48, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
18 11 0.23
19 19 0.40
20 11 0.23
21 7 0.15
ACGTcount: A:0.00, C:0.16, G:0.05, T:0.79
Consensus pattern (19 bp):
TTTTTTCTCTTTTTTCTTT
Found at i:27151781 original size:23 final size:23
Alignment explanation
Indices: 27151747--27151791 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
27151737 ATATCCAAAA
* *
27151747 CCAACCCAAT-AACTTTTTAAAC
1 CCAAACCAATAAACCTTTTAAAC
27151769 CCAAACCATATAAACCTTTTAAA
1 CCAAACCA-ATAAACCTTTTAAA
27151792 AACCTTTAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 7 0.37
23 2 0.11
24 10 0.53
ACGTcount: A:0.44, C:0.29, G:0.00, T:0.27
Consensus pattern (23 bp):
CCAAACCAATAAACCTTTTAAAC
Done.