Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032251.1 Gossypioides kirkii chromosome KI_09
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: 38743931
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2800 characters in sequence are not A, C, G, or T
File 90 of 144
Found at i:20969315 original size:29 final size:29
Alignment explanation
Indices: 20969136--20969417 Score: 142
Period size: 29 Copynumber: 9.7 Consensus size: 29
20969126 GCCTCCAAAC
* *
20969136 TTCCAAAAATTA-CATTTTTACCCCCAAA
1 TTCCAAAAATTACCATTTTTACCCTCGAA
* *
20969164 TATCCAAAAAAT-CCATTTTTGATCC-C-AA
1 T-TCCAAAAATTACCATTTTT-ACCCTCGAA
* * *
20969192 TTTTTCTAAAAATTAGCA-TTTTACCCCCGAA
1 ---TTCCAAAAATTACCATTTTTACCCTCGAA
*
20969223 TGTCCAAAAATT-CTATTTTTGACCC-CGAAA
1 T-TCCAAAAATTACCATTTTT-ACCCTCG-AA
**
20969253 TTCCAAAAATTA-CATTTTTACCCCTAAAA
1 TTCCAAAAATTACCATTTTTA-CCCTCGAA
*
20969282 TTCCAAAAATTACCA-TTTTACCCTCGGA
1 TTCCAAAAATTACCATTTTTACCCTCGAA
* * *
20969310 TGTCCAAAAATT-CTATTTTTGATCCT-GATTT
1 T-TCCAAAAATTACCATTTTT-ACCCTCGA--A
*
20969341 TTCTAAAAATTACCA-TTTTACCCTCGAA
1 TTCCAAAAATTACCATTTTTACCCTCGAA
* * * *
20969369 TTTCTAAAATT-TCATTTTTAACCC-CAAA
1 TTCCAAAAATTACCATTTTT-ACCCTCGAA
*
20969397 TTTTCCTAAAATTACCATTTT
1 --TTCCAAAAATTACCATTTT
20969418 GCCCTTGAGA
Statistics
Matches: 195, Mismatches: 30, Indels: 55
0.70 0.11 0.20
Matches are distributed among these distances:
27 2 0.01
28 29 0.15
29 96 0.49
30 54 0.28
31 14 0.07
ACGTcount: A:0.34, C:0.23, G:0.04, T:0.38
Consensus pattern (29 bp):
TTCCAAAAATTACCATTTTTACCCTCGAA
Found at i:20969316 original size:58 final size:58
Alignment explanation
Indices: 20969254--20969445 Score: 176
Period size: 58 Copynumber: 3.3 Consensus size: 58
20969244 ACCCCGAAAT
*
20969254 TCCAAAAATTACATTTTT-ACCCCTAAAATTCCAAAAATTACCATTTTACCCTCGGATG
1 TCCAAAAATT-CATTTTTAACCCCTAAATTTCCAAAAATTACCATTTTACCCTCGGATG
* * ** * * *
20969312 TCCAAAAATTCTATTTTTGA-TCCTGATTTTTCTAAAAATTACCATTTTACCCTCGAATT
1 TCCAAAAATTC-ATTTTTAACCCCT-AAATTTCCAAAAATTACCATTTTACCCTCGGATG
* * * * *
20969371 TCTAAAATTTCATTTTTAACCCC-AAATTTTCCTAAAATTACCATTTTGCCCTTGAGA-G
1 TCCAAAAATTCATTTTTAACCCCTAAA-TTTCCAAAAATTACCATTTTACCCTCG-GATG
*
20969429 TCCAAAATTTCCATTTT
1 TCCAAAAATT-CATTTT
20969446 GCCCTCGGGC
Statistics
Matches: 107, Mismatches: 20, Indels: 13
0.76 0.14 0.09
Matches are distributed among these distances:
57 2 0.02
58 58 0.54
59 47 0.44
ACGTcount: A:0.32, C:0.23, G:0.05, T:0.40
Consensus pattern (58 bp):
TCCAAAAATTCATTTTTAACCCCTAAATTTCCAAAAATTACCATTTTACCCTCGGATG
Found at i:20969355 original size:59 final size:59
Alignment explanation
Indices: 20969258--20969445 Score: 181
Period size: 59 Copynumber: 3.2 Consensus size: 59
20969248 CGAAATTCCA
* *
20969258 AAAATTACATTTTT-ACCCCTAAA-ATTCC-AAAAATTACCATTTTACCCTCGGATGTCC
1 AAAATTTCATTTTTAACCCC-AAATTTTCCTAAAAATTACCATTTTACCCTCGGATGTCC
* * * ** * * * *
20969315 AAAAATTCTATTTTTGA-TCCTGATTTTTCTAAAAATTACCATTTTACCCTCGAATTTCT
1 AAAATTTC-ATTTTTAACCCCAAATTTTCCTAAAAATTACCATTTTACCCTCGGATGTCC
* *
20969374 AAAATTTCATTTTTAACCCCAAATTTTCCT-AAAATTACCATTTTGCCCTTGAGA-GTCC
1 AAAATTTCATTTTTAACCCCAAATTTTCCTAAAAATTACCATTTTACCCTCG-GATGTCC
20969432 AAAATTTCCATTTT
1 AAAATTT-CATTTT
20969446 GCCCTCGGGC
Statistics
Matches: 103, Mismatches: 21, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
57 7 0.07
58 46 0.45
59 50 0.49
ACGTcount: A:0.32, C:0.22, G:0.05, T:0.40
Consensus pattern (59 bp):
AAAATTTCATTTTTAACCCCAAATTTTCCTAAAAATTACCATTTTACCCTCGGATGTCC
Found at i:20969378 original size:87 final size:87
Alignment explanation
Indices: 20969083--20969379 Score: 241
Period size: 87 Copynumber: 3.4 Consensus size: 87
20969073 AAACTTTTTC
* * * * * *
20969083 AAAATTACAATTTTA-ACCTCAAAACTTCTAAAAATTA-CATTTTGCCTCCAAACT-TCCAAAAA
1 AAAATTACATTTTTACCCCT-AAAATTTCT-AAAATTACCATTTTACCCCCGAA-TGTCCAAAAA
*
20969145 TTAC-ATTTTT-ACCCCCAAATATCCA
63 TT-CTATTTTTGACCCCGAAAT-TCCA
* * * ** *
20969170 AAAAATCCATTTTTGATCCC-AATTTTTCTAAAAATTAGCATTTTACCCCCGAATGTCCAAAAAT
1 AAAATTACATTTTT-ACCCCTAAAATTTCT-AAAATTACCATTTTACCCCCGAATGTCCAAAAAT
20969234 TCTATTTTTGACCCCGAAATTCCA
64 TCTATTTTTGACCCCGAAATTCCA
* * * *
20969258 AAAATTACATTTTTACCCCTAAAATTCCAAAAATTACCATTTTACCCTCGGATGTCCAAAAATTC
1 AAAATTACATTTTTACCCCTAAAATTTCTAAAATTACCATTTTACCCCCGAATGTCCAAAAATTC
* * ** *
20969323 TATTTTTGATCCTGATTTTTCTA
66 TATTTTTGACCCCGA-AATTCCA
**
20969346 AAAATTACCA-TTTTA-CCCTCGAATTTCTAAAATT
1 AAAATTA-CATTTTTACCCCTAAAATTTCTAAAATT
20969380 TCATTTTTAA
Statistics
Matches: 171, Mismatches: 30, Indels: 18
0.78 0.14 0.08
Matches are distributed among these distances:
87 92 0.54
88 66 0.39
89 13 0.08
ACGTcount: A:0.36, C:0.23, G:0.04, T:0.36
Consensus pattern (87 bp):
AAAATTACATTTTTACCCCTAAAATTTCTAAAATTACCATTTTACCCCCGAATGTCCAAAAATTC
TATTTTTGACCCCGAAATTCCA
Found at i:20969388 original size:87 final size:87
Alignment explanation
Indices: 20969083--20969331 Score: 249
Period size: 87 Copynumber: 2.9 Consensus size: 87
20969073 AAACTTTTTC
* * * * * *
20969083 AAAATTACAATTTTA-ACCTCAAAACTTCTAAAAATTA-CATTTTGCCTCCAAACT-TCCAAAAA
1 AAAATTACATTTTTACCCCT-AAAA-TTCCAAAAATTACCATTTTACCCCCGAA-TGTCCAAAAA
*
20969145 TTAC-ATTTTT-ACCCCCAAATATCCA
63 TT-CTATTTTTGACCCCGAAAT-TCCA
* * * ** * *
20969170 AAAAATCCATTTTTGATCCC-AATTTTTCTAAAAATTAGCATTTTACCCCCGAATGTCCAAAAAT
1 AAAATTACATTTTT-ACCCCTAA-AATTCCAAAAATTACCATTTTACCCCCGAATGTCCAAAAAT
20969234 TCTATTTTTGACCCCGAAATTCCA
64 TCTATTTTTGACCCCGAAATTCCA
* *
20969258 AAAATTACATTTTTACCCCTAAAATTCCAAAAATTACCATTTTACCCTCGGATGTCCAAAAATTC
1 AAAATTACATTTTTACCCCTAAAATTCCAAAAATTACCATTTTACCCCCGAATGTCCAAAAATTC
20969323 TATTTTTGA
66 TATTTTTGA
20969332 TCCTGATTTT
Statistics
Matches: 135, Mismatches: 19, Indels: 16
0.79 0.11 0.09
Matches are distributed among these distances:
87 77 0.57
88 47 0.35
89 11 0.08
ACGTcount: A:0.37, C:0.24, G:0.04, T:0.35
Consensus pattern (87 bp):
AAAATTACATTTTTACCCCTAAAATTCCAAAAATTACCATTTTACCCCCGAATGTCCAAAAATTC
TATTTTTGACCCCGAAATTCCA
Found at i:20981134 original size:92 final size:92
Alignment explanation
Indices: 20980977--20981666 Score: 1137
Period size: 92 Copynumber: 7.5 Consensus size: 92
20980967 ATGAAAATAA
*
20980977 CAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGTTTCAAACATCAATTCCTATCC
1 CAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATCC
20981042 TCTTGAAGTTGTAGTAAAGTTGGATAG
66 TCTTGAAGTTGTAGTAAAGTTGGATAG
* * *
20981069 CAAGTCTTTATCTCTCTAAAGTTGTAGCAAGAGCAAGATGAAACTTCAAACATCAATTCCTATCC
1 CAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATCC
*
20981134 TCTTGAAGTTGTAGTAAAGCTGGATAG
66 TCTTGAAGTTGTAGTAAAGTTGGATAG
* *
20981161 CAAGTCTTTATCTCTCTGAAGTTTTAGTAAGAGCAAGATGAAGTTTCAAACATCAATTCCTATCC
1 CAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATCC
*
20981226 TCTTGAAGGTGTAGTAAAGTTGGATAG
66 TCTTGAAGTTGTAGTAAAGTTGGATAG
* * *
20981253 CAAGTCTTTATCTCTCTGAAGTTTTAGTAAGAGCAAGATGAAACTTCAAACATCAACTCCTATCC
1 CAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATCC
20981318 TCTTGAAGTTGTAGTAAAGTTGGATAG
66 TCTTGAAGTTGTAGTAAAGTTGGATAG
* * *
20981345 CAAGTCTTTATCTCTCTGAAGTTATAGTAAAAGCAAGATGAAGCTTCAAACATCAATCCCTATCC
1 CAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATCC
*
20981410 TCTTGAAGTTATAGTAAAGTTGGATAG
66 TCTTGAAGTTGTAGTAAAGTTGGATAG
* * * * *
20981437 CAAGTCTTTATCTCTCTGTAGTTGTAGTAAGAGTAAGATGAAGCTTCAAACGTTAATCCCTATCC
1 CAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATCC
20981502 TCTTGAAGTTGTAGTAAAGTTGGATAG
66 TCTTGAAGTTGTAGTAAAGTTGGATAG
* *
20981529 CAAGTCTTTATCTCTCTGAAGATGTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCTTATCC
1 CAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATCC
* *
20981594 TCTTGAAGTTGCAGTAAAGTTGGATAA
66 TCTTGAAGTTGTAGTAAAGTTGGATAG
*
20981621 CAAGTCTTTATCTCTCTCTGAAGTTGTGGTAAGAGCAAGATGAAGC
1 CAAGTCTTTA--TCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGC
20981667 CTCGACATCA
Statistics
Matches: 556, Mismatches: 40, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
92 524 0.94
94 32 0.06
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (92 bp):
CAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATCC
TCTTGAAGTTGTAGTAAAGTTGGATAG
Found at i:20981978 original size:6 final size:6
Alignment explanation
Indices: 20981967--20982038 Score: 66
Period size: 6 Copynumber: 13.0 Consensus size: 6
20981957 TAAATTGATT
* **
20981967 TTTAAA TTTAAA TTT-AT TTTAAA TTTAAA TTT-GC TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
20982013 TTT-AA -TTAAA TTTGAA -TT-AA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
20982039 ACTTAATATT
Statistics
Matches: 53, Mismatches: 7, Indels: 12
0.74 0.10 0.17
Matches are distributed among these distances:
4 4 0.08
5 15 0.28
6 34 0.64
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (6 bp):
TTTAAA
Found at i:20981985 original size:28 final size:31
Alignment explanation
Indices: 20981945--20982024 Score: 85
Period size: 34 Copynumber: 2.6 Consensus size: 31
20981935 TAAAATTAGG
* *
20981945 TTTAAATTGATTTAAATT-GA-TT-TTTAAA
1 TTTAAATTTATTTAAATTAAATTTCTTTAAA
20981973 TTTAAATTTATTTTAAATTTAAATTTGCTTTAAA
1 TTTAAATTTA-TTTAAA-TTAAATTT-CTTTAAA
*
20982007 TTTAAATTTAATTAAATT
1 TTTAAATTTATTTAAATT
20982025 TGAATTAATT
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
28 9 0.21
29 6 0.14
30 2 0.05
31 1 0.02
32 4 0.09
33 5 0.12
34 16 0.37
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.55
Consensus pattern (31 bp):
TTTAAATTTATTTAAATTAAATTTCTTTAAA
Found at i:20981988 original size:17 final size:17
Alignment explanation
Indices: 20981954--20982035 Score: 94
Period size: 17 Copynumber: 4.8 Consensus size: 17
20981944 GTTTAAATTG
*
20981954 ATTTAAATTGATTTTTAA
1 ATTTAAATTTA-TTTTAA
20981972 ATTTAAATTTATTTTAA
1 ATTTAAATTTATTTTAA
**
20981989 ATTTAAATTTGCTTTAA
1 ATTTAAATTTATTTTAA
*
20982006 ATTTAAATTTA-ATTAA
1 ATTTAAATTTATTTTAA
* *
20982022 ATTTGAATTAATTT
1 ATTTAAATTTATTT
20982036 AAAACTTAAT
Statistics
Matches: 55, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
16 13 0.24
17 32 0.58
18 10 0.18
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.55
Consensus pattern (17 bp):
ATTTAAATTTATTTTAA
Found at i:20982019 original size:11 final size:12
Alignment explanation
Indices: 20981967--20982038 Score: 66
Period size: 11 Copynumber: 6.5 Consensus size: 12
20981957 TAAATTGATT
20981967 TTTAAATTTAAA
1 TTTAAATTTAAA
*
20981979 TTT-ATTTTAAA
1 TTTAAATTTAAA
**
20981990 TTTAAATTT-GC
1 TTTAAATTTAAA
20982001 TTTAAATTTAAA
1 TTTAAATTTAAA
20982013 TTT-AA-TTAAA
1 TTTAAATTTAAA
*
20982023 TTTGAA-TT-AA
1 TTTAAATTTAAA
20982033 TTTAAA
1 TTTAAA
20982039 ACTTAATATT
Statistics
Matches: 50, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
10 15 0.30
11 25 0.50
12 10 0.20
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (12 bp):
TTTAAATTTAAA
Found at i:20982044 original size:27 final size:27
Alignment explanation
Indices: 20981991--20982045 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
20981981 TATTTTAAAT
** *
20981991 TTAAATTTGCTTTAAATTTAAATTTAA
1 TTAAATTTGAATTAAATTTAAACTTAA
20982018 TTAAATTTGAATT-AATTTAAAACTTAA
1 TTAAATTTGAATTAAATTT-AAACTTAA
20982045 T
1 T
20982046 ATTAAAAGCC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 5 0.21
27 19 0.79
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.49
Consensus pattern (27 bp):
TTAAATTTGAATTAAATTTAAACTTAA
Found at i:20983962 original size:30 final size:29
Alignment explanation
Indices: 20983926--20984071 Score: 130
Period size: 29 Copynumber: 4.9 Consensus size: 29
20983916 CCCTAAAAGT
* * *
20983926 CCCTGAACTATCCAAAAATTATATTTTGAC
1 CCCTAAACT-TCCAAAAATTACATTTTTAC
* * * * *
20983956 CCCTGAACTTTTCTAAACTTACGATTTTAAC
1 CCCTAAAC-TTCCAAAAATTAC-ATTTTTAC
* * *
20983987 CTCAAAACTTCTAAAAATTACATTTTTAC
1 CCCTAAACTTCCAAAAATTACATTTTTAC
*
20984016 CCCTAAACTTACAAAAATTACATTTTTAC
1 CCCTAAACTTCCAAAAATTACATTTTTAC
* *
20984045 CCCCAAAATTCCAAAAATTATCATTTT
1 CCCTAAACTTCCAAAAATTA-CATTTT
20984072 ACCTCTGGAT
Statistics
Matches: 93, Mismatches: 20, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
29 49 0.53
30 31 0.33
31 13 0.14
ACGTcount: A:0.38, C:0.24, G:0.03, T:0.36
Consensus pattern (29 bp):
CCCTAAACTTCCAAAAATTACATTTTTAC
Found at i:20984184 original size:57 final size:58
Alignment explanation
Indices: 20984027--20984190 Score: 142
Period size: 57 Copynumber: 2.8 Consensus size: 58
20984017 CCTAAACTTA
* * *
20984027 CAAAAATTACATTTTTACCCCCAAAATTCCAAAAATTATCATTTTA-CCTCTGGATGTC
1 CAAAAATT-CATTTTTAACTCCAAAATTCCAAAAATTACCATTTTACCCTCTGGATGTC
* * * *** *
20984085 C--AATTTCCGTTTTTGA-TCCTGATTTTTCTAAAAATTACCATTTTACCCTC-GGATGTC
1 CAAAAATT-CATTTTTAACTCC--AAAATTCCAAAAATTACCATTTTACCCTCTGGATGTC
20984142 CAAAAATTCTATTTTTAACTCCAAAATTCCAAAAATTA-CATTTTTACCC
1 CAAAAATTC-ATTTTTAACTCCAAAATTCCAAAAATTACCA-TTTTACCC
20984191 CTAAAATTCT
Statistics
Matches: 80, Mismatches: 18, Indels: 16
0.70 0.16 0.14
Matches are distributed among these distances:
55 2 0.03
56 10 0.12
57 29 0.36
58 26 0.32
59 10 0.12
60 3 0.04
ACGTcount: A:0.33, C:0.23, G:0.05, T:0.38
Consensus pattern (58 bp):
CAAAAATTCATTTTTAACTCCAAAATTCCAAAAATTACCATTTTACCCTCTGGATGTC
Found at i:20984234 original size:28 final size:29
Alignment explanation
Indices: 20983990--20984252 Score: 109
Period size: 29 Copynumber: 9.1 Consensus size: 29
20983980 TTTTAACCTC
20983990 AAAACTTCTAAAAATTACATTTTTACCCCT
1 AAAA-TTCTAAAAATTACATTTTTACCCCT
* *
20984020 AAACTTAC-AAAAATTACATTTTTACCCCC
1 AAAATT-CTAAAAATTACATTTTTACCCCT
* *
20984049 AAAATTCCAAAAATTATCA-TTTTACCTCT
1 AAAATTCTAAAAATTA-CATTTTTACCCCT
** * * * * *
20984078 -GGATGTC--CAATTTCCGTTTTTGA-TCCT
1 AAAAT-TCTAAAAATTACATTTTT-ACCCCT
***
20984105 GATTTTTCTAAAAATTACCA-TTTTA-CCCT
1 -AAAATTCTAAAAATTA-CATTTTTACCCCT
*** * *
20984134 CGGATGTCCAAAAATT-CTATTTTTAACTCC-
1 AAAAT-TCTAAAAATTAC-ATTTTT-ACCCCT
*
20984164 AAAATTCCAAAAATTACATTTTTACCCCT
1 AAAATTCTAAAAATTACATTTTTACCCCT
*
20984193 AAAATTCTAAAAATTACCA-TTTTACCCTT
1 AAAATTCTAAAAATTA-CATTTTTACCCCT
* * ** *
20984222 AGATTTCT-AAAATTTTATTTTTAACCCT
1 AAAATTCTAAAAATTACATTTTTACCCCT
20984250 AAA
1 AAA
20984253 TTTTCCCAGA
Statistics
Matches: 173, Mismatches: 40, Indels: 42
0.68 0.16 0.16
Matches are distributed among these distances:
26 1 0.01
27 12 0.07
28 28 0.16
29 109 0.63
30 20 0.12
31 3 0.02
ACGTcount: A:0.36, C:0.22, G:0.04, T:0.39
Consensus pattern (29 bp):
AAAATTCTAAAAATTACATTTTTACCCCT
Found at i:20984266 original size:87 final size:88
Alignment explanation
Indices: 20984110--20984273 Score: 217
Period size: 87 Copynumber: 1.9 Consensus size: 88
20984100 ATCCTGATTT
*
20984110 TTCTAAAAATTACCATTTTACCCTCGGATGTCCAAAAATTCTATTTTTAACTCCAAAATTCCAAA
1 TTCTAAAAATTACCATTTTACCCTCAGATGTCCAAAAATTCTATTTTTAACTCCAAAATTCCAAA
20984175 AATTA-CATTTTTACCCCTAAAA
66 AATTACCATTTTTACCCCTAAAA
* * * * * *
20984197 TTCTAAAAATTACCATTTTACCCTTAGAT-TTCTAAAATTTTATTTTTAAC-CCTAAATTTTCCC
1 TTCTAAAAATTACCATTTTACCCTCAGATGTCCAAAAATTCTATTTTTAACTCC-AAA-ATTCCA
*
20984260 AGAATTACCATTTT
64 AAAATTACCATTTT
20984274 GCCCTCGAGA
Statistics
Matches: 66, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
85 2 0.03
86 21 0.32
87 37 0.56
88 6 0.09
ACGTcount: A:0.35, C:0.21, G:0.03, T:0.40
Consensus pattern (88 bp):
TTCTAAAAATTACCATTTTACCCTCAGATGTCCAAAAATTCTATTTTTAACTCCAAAATTCCAAA
AATTACCATTTTTACCCCTAAAA
Found at i:20988445 original size:2 final size:2
Alignment explanation
Indices: 20988438--20988463 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
20988428 CAAAATTGCC
20988438 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
20988464 GAAATTAAAA
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):
AT
Found at i:20990615 original size:71 final size:71
Alignment explanation
Indices: 20990501--20990639 Score: 197
Period size: 71 Copynumber: 2.0 Consensus size: 71
20990491 ACTTCTATTG
* * * * * *
20990501 ATACAACCATGACTTCTCTCGGTAAAACAAACTCCAGAAAGCAAAGAAGTTGTGGCCTGGGATTT
1 ATACAACCAAGACTTATATCGGTAAAACAAACTCCAGAAAGCAAAGAAGTTATGGCCTAGGAGTT
20990566 CTACAT
66 CTACAT
* * *
20990572 ATACAACCAAGACTTATATTGGTAAAACAAACTCCGGAGAGCAAAGAAGTTATGGCCTAGGAGTT
1 ATACAACCAAGACTTATATCGGTAAAACAAACTCCAGAAAGCAAAGAAGTTATGGCCTAGGAGTT
20990637 CTA
66 CTA
20990640 ACGATACCTA
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
71 59 1.00
ACGTcount: A:0.37, C:0.20, G:0.19, T:0.23
Consensus pattern (71 bp):
ATACAACCAAGACTTATATCGGTAAAACAAACTCCAGAAAGCAAAGAAGTTATGGCCTAGGAGTT
CTACAT
Found at i:20995814 original size:82 final size:83
Alignment explanation
Indices: 20995710--20995938 Score: 424
Period size: 84 Copynumber: 2.7 Consensus size: 83
20995700 AAATTGTACA
*
20995710 TTTTATACATATATACTATTTTATATATATACAATCTTATATCCACATTT-TATATATATATACT
1 TTTT-TACATATATACTGTTTTATATATATACAATCTTATATCCACATTTATATATATATATACT
20995774 ATTTTATATTTACACATTG
65 ATTTTATATTTACACATTG
20995793 TTTTTACATATATACTGTTTTATATATATACAATCTTATATCCACATTTTATATATATATATACT
1 TTTTTACATATATACTGTTTTATATATATACAATCTTATATCCACA-TTTATATATATATATACT
20995858 ATTTTATATTTACACATTG
65 ATTTTATATTTACACATTG
20995877 TTTTTACATATATACTGTTTTATATATATACAATCTTATATCCACATTTATATATATATATA
1 TTTTTACATATATACTGTTTTATATATATACAATCTTATATCCACATTTATATATATATATA
20995939 TATATATATA
Statistics
Matches: 143, Mismatches: 1, Indels: 4
0.97 0.01 0.03
Matches are distributed among these distances:
82 41 0.29
83 23 0.16
84 79 0.55
ACGTcount: A:0.36, C:0.12, G:0.02, T:0.51
Consensus pattern (83 bp):
TTTTTACATATATACTGTTTTATATATATACAATCTTATATCCACATTTATATATATATATACTA
TTTTATATTTACACATTG
Found at i:20995840 original size:49 final size:50
Alignment explanation
Indices: 20995762--20995866 Score: 124
Period size: 49 Copynumber: 2.1 Consensus size: 50
20995752 CCACATTTTA
* * * *
20995762 TATATATATACTATTTTATATTTACACATTGTT-TTTACATATATACTGTTT
1 TATATATATACAATCTTATA-TTACACATT-TTATATACATATATACTATTT
* *
20995813 TATATATATACAATCTTATA-TCCACATTTTATATATATATATACTATTT
1 TATATATATACAATCTTATATTACACATTTTATATACATATATACTATTT
20995862 TATAT
1 TATAT
20995867 TTACACATTG
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
48 2 0.04
49 27 0.57
51 18 0.38
ACGTcount: A:0.35, C:0.10, G:0.02, T:0.52
Consensus pattern (50 bp):
TATATATATACAATCTTATATTACACATTTTATATACATATATACTATTT
Found at i:20995874 original size:35 final size:34
Alignment explanation
Indices: 20995808--20995901 Score: 95
Period size: 35 Copynumber: 2.8 Consensus size: 34
20995798 ACATATATAC
* * *
20995808 TGTTT-TATATATATACAATCTTATA-TCCACAT
1 TGTTTATATATATATACTATTTTATATTACACAT
20995840 T-TTATATATATATATACTATTTTATATTTACACAT
1 TGTT-TATATATATATACTATTTTATA-TTACACAT
* * *
20995875 TGTTTTTACATATATACTGTTTTATAT
1 TGTTTATATATATATACTATTTTATAT
20995902 ATATACAATC
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
31 2 0.04
32 2 0.04
33 18 0.35
34 1 0.02
35 26 0.51
36 2 0.04
ACGTcount: A:0.33, C:0.11, G:0.03, T:0.53
Consensus pattern (34 bp):
TGTTTATATATATATACTATTTTATATTACACAT
Found at i:20995932 original size:2 final size:2
Alignment explanation
Indices: 20995925--20995968 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
20995915 TATCCACATT
* *
20995925 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA CA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
20995967 TA
1 TA
20995969 CTATTTTATA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (2 bp):
TA
Found at i:20996040 original size:113 final size:113
Alignment explanation
Indices: 20995849--20996062 Score: 290
Period size: 113 Copynumber: 1.9 Consensus size: 113
20995839 TTTTATATAT
*
20995849 ATATATACTATTTTATATTTACACATTGTTTTTACATATATACTGTTTTATATATATACAATCTT
1 ATATATACTATTTTATATTTACACATTGTTTTTACATATATACTG-TATATATATATACAATCTT
* *
20995914 ATATCCACATTTATATATA-TATATATATATATATATATATATATACAC
65 ATATCCACATTTATATAAACCATATATATATATATATATATATATACAC
* * *
20995962 ATATATACTATTTTATATTTACACATTGTTTTTACATATATACTG-ATATATATATATATTGTTA
1 ATATATACTATTTTATATTTACACATTGTTTTTACATATATACTGTATATATATATACAATCTTA
* * *
20996026 TA-CAATTCCTTTTATATAAACCATTTATATATATATA
66 TATCCA---CATTTATATAAACCATATATATATATATA
20996063 CATTTCTGAC
Statistics
Matches: 88, Mismatches: 9, Indels: 7
0.85 0.09 0.07
Matches are distributed among these distances:
110 2 0.02
111 17 0.19
113 55 0.62
114 14 0.16
ACGTcount: A:0.38, C:0.10, G:0.02, T:0.49
Consensus pattern (113 bp):
ATATATACTATTTTATATTTACACATTGTTTTTACATATATACTGTATATATATATACAATCTTA
TATCCACATTTATATAAACCATATATATATATATATATATATATACAC
Found at i:21001344 original size:96 final size:95
Alignment explanation
Indices: 21001176--21001348 Score: 231
Period size: 96 Copynumber: 1.8 Consensus size: 95
21001166 AAAATTGAAG
* * *** * * * *
21001176 AAGGATATTTGATTATTTCGATTTGAAGAAAGGTTGCACCTAGTGAGTTAAGGCGCAAATTTTCA
1 AAGGATATTCGATTATTTCGATTCGAAGAAAAAATGCACCTAGTAAGTTAAGACACAAAATTTCA
21001241 TAACCGAAGATAAGGAGACATTGCCTCAATT
66 TAACCGAA-ATAAGGAGACATTGCCTCAATT
21001272 AAGGATATTCGATTATTTCGATTCGAAGAAAAAATGCACCTAGTAAGTTAAGACACAAAATTTCG
1 AAGGATATTCGATTATTTCGATTCGAAGAAAAAATGCACCTAGTAAGTTAAGACACAAAATTTC-
*
21001337 A-ACCCGAAATAA
65 ATAACCGAAATAA
21001349 AAGAATATTG
Statistics
Matches: 66, Mismatches: 10, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
95 4 0.06
96 61 0.92
97 1 0.02
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (95 bp):
AAGGATATTCGATTATTTCGATTCGAAGAAAAAATGCACCTAGTAAGTTAAGACACAAAATTTCA
TAACCGAAATAAGGAGACATTGCCTCAATT
Found at i:21001797 original size:29 final size:29
Alignment explanation
Indices: 21001747--21001904 Score: 115
Period size: 29 Copynumber: 5.4 Consensus size: 29
21001737 AAACTGGTAA
* * *
21001747 TTTTGGGAGTTTCAAAGACAAAAATGGAAT
1 TTTTGGAAGTTT-AAGGTCAAAAATGGAAT
*
21001777 TTTTGGAAGTTTAAGGTC-AAAATGAAAT
1 TTTTGGAAGTTTAAGGTCAAAAATGGAAT
* * *
21001805 TTTTGGAAGTTTTAGGGT-TAAAATTGAAT
1 TTTTGGAAG-TTTAAGGTCAAAAATGGAAT
* * *
21001834 TTTTGAAAGTTTCTAGG-CAAAAATGTAAT
1 TTTTGGAAGTTT-AAGGTCAAAAATGGAAT
* * * * *
21001863 TTTTAGAAGTTTAGGGGCAAAAAAAGTAAT
1 TTTTGGAAGTTTAAGGTC-AAAAATGGAAT
*
21001893 TTTTTGAAGTTT
1 TTTTGGAAGTTT
21001905 TGGGGTCAAA
Statistics
Matches: 103, Mismatches: 19, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
28 23 0.22
29 48 0.47
30 32 0.31
ACGTcount: A:0.37, C:0.04, G:0.22, T:0.38
Consensus pattern (29 bp):
TTTTGGAAGTTTAAGGTCAAAAATGGAAT
Found at i:21001836 original size:57 final size:57
Alignment explanation
Indices: 21001767--21001878 Score: 147
Period size: 57 Copynumber: 2.0 Consensus size: 57
21001757 TTCAAAGACA
* *
21001767 AAAATGGAATTTTTGGAAGTTT-AAGGTC-AAAATGAAATTTTTGGAAGTTTTAGGGTT
1 AAAATGGAATTTTTGAAAGTTTCAAGG-CAAAAATGAAATTTTTAGAAG-TTTAGGGTT
* * *
21001824 AAAATTGAATTTTTGAAAGTTTCTAGGCAAAAATGTAATTTTTAGAAGTTTAGGG
1 AAAATGGAATTTTTGAAAGTTTCAAGGCAAAAATGAAATTTTTAGAAGTTTAGGG
21001879 GCAAAAAAAG
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
57 28 0.58
58 20 0.42
ACGTcount: A:0.37, C:0.03, G:0.22, T:0.38
Consensus pattern (57 bp):
AAAATGGAATTTTTGAAAGTTTCAAGGCAAAAATGAAATTTTTAGAAGTTTAGGGTT
Found at i:21001916 original size:29 final size:30
Alignment explanation
Indices: 21001765--21001969 Score: 165
Period size: 30 Copynumber: 7.0 Consensus size: 30
21001755 GTTTCAAAGA
* *
21001765 CAAAAATGGAATTTTTGGAAG-TTTAAGGT
1 CAAAAATGTAATTTTTGGAAGTTTTAGGGT
*
21001794 C-AAAATGAAATTTTTGGAAGTTTTAGGGT
1 CAAAAATGTAATTTTTGGAAGTTTTAGGGT
* * *
21001823 TAAAATTG-AATTTTTGAAAGTTTCTA-GG-
1 CAAAAATGTAATTTTTGGAAGTTT-TAGGGT
* *
21001851 CAAAAATGTAATTTTTAGAAG-TTTAGGGG
1 CAAAAATGTAATTTTTGGAAGTTTTAGGGT
* * *
21001880 CAAAAAAAGTAATTTTTTGAAGTTTTGGGGT
1 C-AAAAATGTAATTTTTGGAAGTTTTAGGGT
* * **
21001911 CAAAAATATAATTTTGGAGAAGTTCGAGGGT
1 CAAAAATGTAATTTTTG-GAAGTTTTAGGGT
* *
21001942 C-AAAATATAATTTATGGATAG-TTTAGGG
1 CAAAAATGTAATTTTTGGA-AGTTTTAGGG
21001970 ACTTTCAAGA
Statistics
Matches: 142, Mismatches: 24, Indels: 20
0.76 0.13 0.11
Matches are distributed among these distances:
27 2 0.01
28 28 0.20
29 42 0.30
30 52 0.37
31 18 0.13
ACGTcount: A:0.37, C:0.04, G:0.23, T:0.36
Consensus pattern (30 bp):
CAAAAATGTAATTTTTGGAAGTTTTAGGGT
Found at i:21003646 original size:17 final size:17
Alignment explanation
Indices: 21003626--21003697 Score: 99
Period size: 17 Copynumber: 4.2 Consensus size: 17
21003616 TTTTAATATT
* * *
21003626 AAATAATTTTTAATTCA
1 AAATAAATTTAAATTTA
21003643 AAATAAATTTAAATTTA
1 AAATAAATTTAAATTTA
21003660 AAATAAATTTAAATTTA
1 AAATAAATTTAAATTTA
**
21003677 AAATAAATTCGAATTTA
1 AAATAAATTTAAATTTA
21003694 AAAT
1 AAAT
21003698 TAAAAGTTGG
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 50 1.00
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (17 bp):
AAATAAATTTAAATTTA
Found at i:21003657 original size:6 final size:6
Alignment explanation
Indices: 21003646--21003701 Score: 53
Period size: 6 Copynumber: 9.7 Consensus size: 6
21003636 TAATTCAAAA
* * **
21003646 TAAATT TAAATT TAAA-A TAAATT TAAATT TAAA-A TAAATT CGAATT
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT
*
21003692 TAAAAT TAAA
1 TAAATT TAAA
21003702 AGTTGGATTT
Statistics
Matches: 39, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
5 8 0.21
6 31 0.79
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (6 bp):
TAAATT
Found at i:21005709 original size:16 final size:15
Alignment explanation
Indices: 21005680--21005713 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
21005670 GTCAACTTAT
*
21005680 AATATAAAATTAAAA
1 AATATAAAAATAAAA
21005695 AATATTAAAAATAAAA
1 AATA-TAAAAATAAAA
21005711 AAT
1 AAT
21005714 TGAAAACTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (15 bp):
AATATAAAAATAAAA
Found at i:21006411 original size:10 final size:10
Alignment explanation
Indices: 21006397--21006467 Score: 69
Period size: 10 Copynumber: 7.3 Consensus size: 10
21006387 TATTAAAAAT
21006397 ATTATATAAA
1 ATTATATAAA
*
21006407 CTTATA-AAA
1 ATTATATAAA
21006416 ATTATATAAA
1 ATTATATAAA
*
21006426 ATTATAAAAA
1 ATTATATAAA
*
21006436 ATTCATA-AAT
1 ATT-ATATAAA
21006446 ATT-TATAAA
1 ATTATATAAA
21006455 TATTATA-AAA
1 -ATTATATAAA
21006465 ATT
1 ATT
21006468 GTAAAATTTT
Statistics
Matches: 51, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
8 2 0.04
9 13 0.25
10 31 0.61
11 5 0.10
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (10 bp):
ATTATATAAA
Found at i:21006419 original size:19 final size:19
Alignment explanation
Indices: 21006388--21006510 Score: 94
Period size: 19 Copynumber: 6.5 Consensus size: 19
21006378 ATTAAAAAAT
21006388 ATTA-AAAATATTATATAAA
1 ATTATAAAA-ATTATATAAA
*
21006407 CTTATAAAAATTATATAAA
1 ATTATAAAAATTATATAAA
21006426 ATTATAAAAAATTCATA-AATA
1 ATTAT-AAAAATT-ATATAA-A
* *
21006447 TTTATAAATATTATA-AAA
1 ATTATAAAAATTATATAAA
* * *
21006465 ATTGTAAAATTTTTA-ATAA
1 ATTATAAAAATTATATA-AA
*
21006484 ATTATAAAAATAATA-AAA
1 ATTATAAAAATTATATAAA
*
21006502 ATAATAAAA
1 ATTATAAAA
21006511 GTACAAAGCA
Statistics
Matches: 85, Mismatches: 14, Indels: 11
0.77 0.13 0.10
Matches are distributed among these distances:
18 22 0.26
19 36 0.42
20 19 0.22
21 8 0.09
ACGTcount: A:0.61, C:0.02, G:0.01, T:0.37
Consensus pattern (19 bp):
ATTATAAAAATTATATAAA
Found at i:21006545 original size:9 final size:9
Alignment explanation
Indices: 21006371--21006546 Score: 74
Period size: 9 Copynumber: 18.7 Consensus size: 9
21006361 CATTTTTCTC
21006371 ATAAAATATT
1 ATAAAAT-TT
*
21006381 AAAAAATATT
1 ATAAAAT-TT
21006391 A-AAAATATT
1 ATAAAAT-TT
*
21006400 ATATAAACTT
1 ATA-AAATTT
21006410 ATAAAAATTAT
1 AT-AAAATT-T
21006421 ATAAAATTAT
1 ATAAAATT-T
* *
21006431 AAAAAATTC
1 ATAAAATTT
21006440 ATAAATATTT
1 ATAAA-ATTT
21006450 AT-AAATATT
1 ATAAAAT-TT
*
21006459 ATAAAAATT
1 ATAAAATTT
*
21006468 GTAAAATTT
1 ATAAAATTT
* *
21006477 TTAATAAATT
1 ATAA-AATTT
* *
21006487 ATAAAAATA
1 ATAAAATTT
* *
21006496 ATAAAAATA
1 ATAAAATTT
*
21006505 ATAAAA-GT
1 ATAAAATTT
*
21006513 ACAAAGCATTT
1 ATAAA--ATTT
21006524 A-AAAATATT
1 ATAAAAT-TT
21006533 -TAAAATTT
1 ATAAAATTT
21006541 ATAAAA
1 ATAAAA
21006547 ATTCCATAAT
Statistics
Matches: 134, Mismatches: 18, Indels: 29
0.74 0.10 0.16
Matches are distributed among these distances:
8 10 0.07
9 62 0.46
10 53 0.40
11 9 0.07
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (9 bp):
ATAAAATTT
Found at i:21006547 original size:19 final size:19
Alignment explanation
Indices: 21006373--21006548 Score: 91
Period size: 19 Copynumber: 9.3 Consensus size: 19
21006363 TTTTTCTCAT
*
21006373 AAAATA-TTAAAAAATATTA
1 AAAATATTTAAAAATTA-TA
*
21006392 AAAATATTATATAAACTTATA
1 AAAATATT-TA-AAAATTATA
*
21006413 AAAAT-TATATAAAATTATA
1 AAAATATTTA-AAAATTATA
*
21006432 AAAA-ATTCATAAATATT-TA
1 AAAATATT--TAAAAATTATA
* *
21006451 TAAATATTATAAAAATTGT-
1 AAAATATT-TAAAAATTATA
*
21006470 AAAATTTTTAATAAATTATA
1 AAAATATTTAA-AAATTATA
* *
21006490 AAAATA-ATAAAAATAATA
1 AAAATATTTAAAAATTATA
* * *
21006508 AAAGTA--CAAAGCATT-TA
1 AAAATATTTAAA-AATTATA
*
21006525 AAAATATTTAAAATTTATA
1 AAAATATTTAAAAATTATA
21006544 AAAAT
1 AAAAT
21006549 TCCATAATAA
Statistics
Matches: 121, Mismatches: 22, Indels: 28
0.71 0.13 0.16
Matches are distributed among these distances:
17 10 0.08
18 19 0.16
19 60 0.50
20 16 0.13
21 11 0.09
22 5 0.04
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (19 bp):
AAAATATTTAAAAATTATA
Found at i:21006574 original size:19 final size:18
Alignment explanation
Indices: 21006374--21006581 Score: 80
Period size: 19 Copynumber: 10.9 Consensus size: 18
21006364 TTTTCTCATA
* * *
21006374 AAATATTAAAAAATATTAA
1 AAATATTATAAAA-CTTAT
21006393 AAATATTATATAAACTTAT
1 AAATATTATA-AAACTTAT
* *
21006412 AAAAATTATATAAAATTAT
1 AAATATTATA-AAACTTAT
* *
21006431 AAAAAATTCATAAATATTTAT
1 -AAATATT-ATAAA-ACTTAT
* *
21006452 AAATATTATAAAAATTGT
1 AAATATTATAAAACTTAT
* *
21006470 AAA-ATTTTTAATAAATTAT
1 AAATA-TTATAA-AACTTAT
* * * *
21006489 AAAAATAATAAAAATAAT
1 AAATATTATAAAACTTAT
* * * *
21006507 AAA-AGTACAAAGCATTTAA
1 AAATATTATAAA--ACTTAT
*
21006526 AAATATT-TAAAATTTAT
1 AAATATTATAAAACTTAT
*
21006543 AAAAATTCCATAATAACTTAT
1 AAATATT--ATAA-AACTTAT
21006564 AAATATTATAAAAACTTA
1 AAATATTAT-AAAACTTA
21006582 GGGGAAAGCA
Statistics
Matches: 148, Mismatches: 26, Indels: 30
0.73 0.13 0.15
Matches are distributed among these distances:
17 17 0.11
18 21 0.14
19 64 0.43
20 26 0.18
21 20 0.14
ACGTcount: A:0.59, C:0.04, G:0.01, T:0.36
Consensus pattern (18 bp):
AAATATTATAAAACTTAT
Found at i:21006753 original size:29 final size:28
Alignment explanation
Indices: 21006703--21006792 Score: 67
Period size: 29 Copynumber: 3.1 Consensus size: 28
21006693 ATTTTAAGTG
*
21006703 TTTATAA-TACTTATTAACTTTTTTATAAT
1 TTTATAATTA-TTA-TAAATTTTTTATAAT
**
21006732 TTTATAAGTCTA-TATAAATTTTAAATAAGT
1 TTTATAA-T-TATTATAAATTTTTTATAA-T
* *
21006762 TTTATTATTATTATAACTTGTTTTATAAT
1 TTTATAATTATTATAAATT-TTTTATAAT
21006791 TT
1 TT
21006793 ATTAGAATTT
Statistics
Matches: 48, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
28 2 0.04
29 29 0.60
30 15 0.31
32 2 0.04
ACGTcount: A:0.36, C:0.04, G:0.03, T:0.57
Consensus pattern (28 bp):
TTTATAATTATTATAAATTTTTTATAAT
Found at i:21006823 original size:30 final size:30
Alignment explanation
Indices: 21006782--21006849 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
21006772 TTATAACTTG
*
21006782 TTTTATAATTTA-TTAGAATTTTTTATAGGT
1 TTTTATAATTTATTTAGAA-TTTTTATAAGT
* *
21006812 TTTTATGATTTATTTATAATTTTTATAAGT
1 TTTTATAATTTATTTAGAATTTTTATAAGT
*
21006842 TTATATAA
1 TTTTATAA
21006850 ATTCTATGAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
30 27 0.84
31 5 0.16
ACGTcount: A:0.32, C:0.00, G:0.07, T:0.60
Consensus pattern (30 bp):
TTTTATAATTTATTTAGAATTTTTATAAGT
Found at i:21006828 original size:21 final size:19
Alignment explanation
Indices: 21006782--21006877 Score: 79
Period size: 19 Copynumber: 4.9 Consensus size: 19
21006772 TTATAACTTG
21006782 TTTTATAATTTATTA-GAATT
1 TTTTATAATTT-TTATG-ATT
*
21006802 TTTTATAGGTTTTTATGATT
1 TTTTATA-ATTTTTATGATT
* *
21006822 TATTTATAATTTTTATAAGT
1 T-TTTATAATTTTTATGATT
* * *
21006842 TTATATAAATTCTATGATT
1 TTTTATAATTTTTATGATT
21006861 TTTT-TATATTTTTATGA
1 TTTTATA-ATTTTTATGA
21006878 AAGAAAATAA
Statistics
Matches: 60, Mismatches: 12, Indels: 9
0.74 0.15 0.11
Matches are distributed among these distances:
18 2 0.03
19 24 0.40
20 24 0.40
21 10 0.17
ACGTcount: A:0.30, C:0.01, G:0.07, T:0.61
Consensus pattern (19 bp):
TTTTATAATTTTTATGATT
Found at i:21006834 original size:20 final size:20
Alignment explanation
Indices: 21006783--21006877 Score: 74
Period size: 20 Copynumber: 4.8 Consensus size: 20
21006773 TATAACTTGT
21006783 TTTATAATTTATTA-GAATTT-
1 TTTATAATTT-TTATG-ATTTA
*
21006803 TTTATAGGTTTTTATGATTTA
1 TTTATA-ATTTTTATGATTTA
*
21006824 TTTATAATTTTTATAAGTTTA
1 TTTATAATTTTTATGA-TTTA
* * *
21006845 --TATAAATTCTATGATTTT
1 TTTATAATTTTTATGATTTA
21006863 TTTAT-ATTTTTATGA
1 TTTATAATTTTTATGA
21006878 AAGAAAATAA
Statistics
Matches: 60, Mismatches: 9, Indels: 13
0.73 0.11 0.16
Matches are distributed among these distances:
18 3 0.05
19 19 0.32
20 24 0.40
21 14 0.23
ACGTcount: A:0.31, C:0.01, G:0.07, T:0.61
Consensus pattern (20 bp):
TTTATAATTTTTATGATTTA
Found at i:21008552 original size:93 final size:93
Alignment explanation
Indices: 21008393--21008577 Score: 361
Period size: 93 Copynumber: 2.0 Consensus size: 93
21008383 TAACGACAAT
21008393 ATACTCACAACGTTAGGGAAAAAAGAAGAAGCATATATGTTTTCCCAAAAATGTAATACTGTAAC
1 ATACTCACAACGTTAGGGAAAAAAGAAGAAGCATATATGTTTTCCCAAAAATGTAATACTGTAAC
21008458 TTTTCTCTTCTTTTCTTTTTGGAAGAAA
66 TTTTCTCTTCTTTTCTTTTTGGAAGAAA
*
21008486 ATACTCACAACGTTAGGGAAAAAAGAAGAAGCATATATGTTTTCCCAAAAATGTAATATTGTAAC
1 ATACTCACAACGTTAGGGAAAAAAGAAGAAGCATATATGTTTTCCCAAAAATGTAATACTGTAAC
21008551 TTTTCTCTTCTTTTCTTTTTGGAAGAA
66 TTTTCTCTTCTTTTCTTTTTGGAAGAA
21008578 GAACGATAAG
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 91 1.00
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.35
Consensus pattern (93 bp):
ATACTCACAACGTTAGGGAAAAAAGAAGAAGCATATATGTTTTCCCAAAAATGTAATACTGTAAC
TTTTCTCTTCTTTTCTTTTTGGAAGAAA
Found at i:21014917 original size:21 final size:20
Alignment explanation
Indices: 21014893--21014941 Score: 73
Period size: 19 Copynumber: 2.5 Consensus size: 20
21014883 AAAAAATCAT
*
21014893 TAAAAATATTATATAAACTTA
1 TAAAAA-ATTATATAAAATTA
21014914 T-AAAAATTATATAAAATTA
1 TAAAAAATTATATAAAATTA
21014933 TAAAAAATT
1 TAAAAAATT
21014942 CATAATTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 14 0.54
20 11 0.42
21 1 0.04
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (20 bp):
TAAAAAATTATATAAAATTA
Found at i:21014938 original size:9 final size:9
Alignment explanation
Indices: 21014872--21015052 Score: 80
Period size: 10 Copynumber: 19.0 Consensus size: 9
21014862 CATTTTTCTC
21014872 ATAAAATATT
1 ATAAAA-ATT
* *
21014882 AAAAAAATC
1 ATAAAAATT
21014891 ATTAAAAATATT
1 A-T-AAAA-ATT
*
21014903 ATATAAACTT
1 ATA-AAAATT
21014913 ATAAAAATT
1 ATAAAAATT
21014922 ATATAAAATT
1 ATA-AAAATT
21014932 ATAAAAAATT
1 AT-AAAAATT
* *
21014942 CATAATTATTT
1 -ATAA-AAATT
*
21014953 ATAAATATT
1 ATAAAAATT
21014962 ATAAAAATT
1 ATAAAAATT
** *
21014971 GCAAAATTT
1 ATAAAAATT
*
21014980 TTAATAAATT
1 ATAA-AAATT
21014990 AT-AAAATT
1 ATAAAAATT
*
21014998 AATAAAAATA
1 -ATAAAAATT
*
21015008 AT-AAAAGT
1 ATAAAAATT
* *
21015016 ACAAAGCATT
1 ATAAA-AATT
21015026 -TAAAAATAT
1 ATAAAAAT-T
* *
21015035 TTAAAATTT
1 ATAAAAATT
21015044 ATAAAAATT
1 ATAAAAATT
21015053 CCATAATAAA
Statistics
Matches: 126, Mismatches: 30, Indels: 31
0.67 0.16 0.17
Matches are distributed among these distances:
8 12 0.10
9 48 0.38
10 49 0.39
11 14 0.11
12 3 0.02
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.36
Consensus pattern (9 bp):
ATAAAAATT
Found at i:21014987 original size:30 final size:28
Alignment explanation
Indices: 21014916--21014995 Score: 87
Period size: 29 Copynumber: 2.9 Consensus size: 28
21014906 TAAACTTATA
21014916 AAAATTA--TATAAAATTATAAAAAATTC
1 AAAATTATTTATAAAATTAT-AAAAATTC
*
21014943 ATAATTATTTATAAATATTATAAAAATTGC
1 AAAATTATTTATAAA-ATTATAAAAATT-C
21014973 AAAATT-TTTA-ATAAATTATAAAA
1 AAAATTATTTATA-AAATTATAAAA
21014996 TTAATAAAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 9
0.81 0.04 0.16
Matches are distributed among these distances:
27 6 0.13
28 10 0.22
29 19 0.41
30 11 0.24
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (28 bp):
AAAATTATTTATAAAATTATAAAAATTC
Found at i:21015253 original size:9 final size:9
Alignment explanation
Indices: 21015239--21015263 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
21015229 CCATAATAAC
21015239 TTATAAATA
1 TTATAAATA
21015248 TTATAAATA
1 TTATAAATA
21015257 TTATAAA
1 TTATAAA
21015264 AACTTAGGAG
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (9 bp):
TTATAAATA
Found at i:21015496 original size:22 final size:20
Alignment explanation
Indices: 21015461--21015525 Score: 62
Period size: 19 Copynumber: 3.2 Consensus size: 20
21015451 TTTAAATATG
*
21015461 TTTTATTATTATTATAACTTA
1 TTTTATAATTATTATAA-TTA
*
21015482 TTTTATAATTTATTAGAATT-
1 TTTTATAA-TTATTATAATTA
*
21015502 TTTTA-AAGTTATTATTATTA
1 TTTTATAA-TTATTATAATTA
21015522 TTTT
1 TTTT
21015526 TTATACGATC
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
19 11 0.30
20 9 0.24
21 9 0.24
22 8 0.22
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.63
Consensus pattern (20 bp):
TTTTATAATTATTATAATTA
Found at i:21018731 original size:20 final size:20
Alignment explanation
Indices: 21018706--21018747 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
21018696 TATCCTCAAA
21018706 ATGCATCCTATTAACAAAAT
1 ATGCATCCTATTAACAAAAT
21018726 ATGCATCCTATTAACAAAAT
1 ATGCATCCTATTAACAAAAT
21018746 AT
1 AT
21018748 TCTAATATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.45, C:0.19, G:0.05, T:0.31
Consensus pattern (20 bp):
ATGCATCCTATTAACAAAAT
Found at i:21020855 original size:17 final size:17
Alignment explanation
Indices: 21020833--21020935 Score: 134
Period size: 17 Copynumber: 6.0 Consensus size: 17
21020823 TTTGGATTGT
*
21020833 TTTTAAATTTTAATTTA
1 TTTTAAATTTAAATTTA
*
21020850 TTTTAAGTTTAAATTTA
1 TTTTAAATTTAAATTTA
*
21020867 TTTTAAATTTAAACTTA
1 TTTTAAATTTAAATTTA
* * *
21020884 CTTTGAGTTTAAATTTA
1 TTTTAAATTTAAATTTA
21020901 TTTTAAAATTTAAATTTA
1 TTTT-AAATTTAAATTTA
*
21020919 TTTTAAATTAAAATTTA
1 TTTTAAATTTAAATTTA
21020936 ATTAAAAGTG
Statistics
Matches: 73, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
17 58 0.79
18 15 0.21
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.56
Consensus pattern (17 bp):
TTTTAAATTTAAATTTA
Found at i:21020860 original size:6 final size:6
Alignment explanation
Indices: 21020834--21020936 Score: 63
Period size: 6 Copynumber: 17.8 Consensus size: 6
21020824 TTGGATTGTT
* * * *
21020834 TTTAAA TTTTAA TTT-AT TTTAAG TTTAAA TTT-AT TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * * * * *
21020880 CTT-AC TTTGAG TTTAAA TTT-AT TTTAAAA TTTAAA TTT-AT TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTT-AAA TTTAAA TTTAAA TTTAAA
*
21020926 TTAAAA TTTAA
1 TTTAAA TTTAA
21020937 TTAAAAGTGT
Statistics
Matches: 73, Mismatches: 18, Indels: 12
0.71 0.17 0.12
Matches are distributed among these distances:
5 19 0.26
6 50 0.68
7 4 0.05
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (6 bp):
TTTAAA
Found at i:21020871 original size:11 final size:11
Alignment explanation
Indices: 21020857--21020927 Score: 53
Period size: 11 Copynumber: 6.7 Consensus size: 11
21020847 TTATTTTAAG
21020857 TTTAAATTTAT
1 TTTAAATTTAT
*
21020868 TTTAAATTTAAA
1 TTTAAATTT-AT
* * *
21020880 CTT-ACTTTGAG
1 TTTAAATTT-AT
21020891 TTTAAATTTAT
1 TTTAAATTTAT
21020902 TTTAAA---A-
1 TTTAAATTTAT
21020909 TTTAAATTTAT
1 TTTAAATTTAT
21020920 TTTAAATT
1 TTTAAATT
21020928 AAAATTTAAT
Statistics
Matches: 46, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
7 6 0.13
8 1 0.02
10 1 0.02
11 31 0.67
12 7 0.15
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (11 bp):
TTTAAATTTAT
Found at i:21020923 original size:23 final size:23
Alignment explanation
Indices: 21020834--21020936 Score: 64
Period size: 23 Copynumber: 4.2 Consensus size: 23
21020824 TTGGATTGTT
* *
21020834 TTTAAATTTTAATTT-ATTTTAAG
1 TTTAAA-TTTAATTTAATTTAAAA
*
21020857 TTTAAATTTATTTTAAATTTAAACTTA
1 TTTAAATTTAATTT-AATTTAAA---A
* * *
21020884 CTTTGAGTTTAAATTTATTTTAAAA
1 -TTTAAATTT-AATTTAATTTAAAA
* *
21020909 TTTAAATTTATTTTAAATTAAAA
1 TTTAAATTTAATTTAATTTAAAA
21020932 TTTAA
1 TTTAA
21020937 TTAAAAGTGT
Statistics
Matches: 61, Mismatches: 12, Indels: 14
0.70 0.14 0.16
Matches are distributed among these distances:
22 7 0.11
23 22 0.36
24 13 0.21
25 1 0.02
28 14 0.23
29 4 0.07
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (23 bp):
TTTAAATTTAATTTAATTTAAAA
Found at i:21021640 original size:3 final size:3
Alignment explanation
Indices: 21021632--21021713 Score: 65
Period size: 3 Copynumber: 26.0 Consensus size: 3
21021622 TAAATAACAT
* * * * *
21021632 TAA TAA TAA TAT TAA TAG CAT TAA TAA TAA TAGT TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA
* *
21021678 TAA CTATT TAA TAAA TAA TAA TAA TAT TAA TAA TAA
1 TAA -TA-A TAA T-AA TAA TAA TAA TAA TAA TAA TAA
21021714 ATAGTAGTAA
Statistics
Matches: 62, Mismatches: 13, Indels: 8
0.75 0.16 0.10
Matches are distributed among these distances:
3 53 0.85
4 9 0.15
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:21021670 original size:13 final size:12
Alignment explanation
Indices: 21021619--21021764 Score: 86
Period size: 13 Copynumber: 11.8 Consensus size: 12
21021609 TTAATTACAG
*
21021619 TAATAAATAACAT
1 TAAT-AATAATAT
21021632 TAATAATAATAT
1 TAATAATAATAT
*
21021644 TAATAGCATTAATAA
1 TAATA--A-TAATAT
* *
21021659 TAATAGTTAATAA
1 TAATA-ATAATAT
21021672 TAATAATAACTAT
1 TAATAATAA-TAT
21021685 T--TAATAA-A-
1 TAATAATAATAT
21021693 TAATAATAATAT
1 TAATAATAATAT
*
21021705 TAATAATAAATAG
1 TAATAAT-AATAT
* *
21021718 TAGTAATAAATAG
1 TAATAAT-AATAT
* *
21021731 CATTAATAAGTAT
1 TAATAATAA-TAT
21021744 TAATAA-AAGTAT
1 TAATAATAA-TAT
21021756 TAATAATAA
1 TAATAATAA
21021765 AATGAATAAA
Statistics
Matches: 109, Mismatches: 13, Indels: 22
0.76 0.09 0.15
Matches are distributed among these distances:
8 1 0.01
9 1 0.01
10 6 0.06
11 7 0.06
12 36 0.33
13 47 0.43
14 1 0.01
15 10 0.09
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.36
Consensus pattern (12 bp):
TAATAATAATAT
Found at i:21022993 original size:89 final size:90
Alignment explanation
Indices: 21022839--21023010 Score: 240
Period size: 89 Copynumber: 1.9 Consensus size: 90
21022829 AAAGGTCCCT
* * * * *
21022839 AAACTTTCCAAAAATTACATTTTAACCCTTAAACTTTCCAAAAATTACATTTTGACCTTCGAACT
1 AAACTTTCCAAAAATTACATTTCAACCCCTAAACTTTCCAAAAATTACATTTTAACCCTCAAACT
21022904 TTCCAAAAATTA-CATTTCGACCCC
66 TTCCAAAAATTACCATTTCGACCCC
* * *
21022928 AAACTTTCTAAAAATTACATTTCAACCCCTAAACTTTCCTAAAATTATATTTTAACCC-CTAAAC
1 AAACTTTCCAAAAATTACATTTCAACCCCTAAACTTTCCAAAAATTACATTTTAACCCTC-AAAC
*
21022992 TTTCTAAAAATTACCATTT
65 TTTCCAAAAATTACCATTT
21023011 TACCCCTCGA
Statistics
Matches: 72, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
88 1 0.01
89 66 0.92
90 5 0.07
ACGTcount: A:0.38, C:0.24, G:0.02, T:0.35
Consensus pattern (90 bp):
AAACTTTCCAAAAATTACATTTCAACCCCTAAACTTTCCAAAAATTACATTTTAACCCTCAAACT
TTCCAAAAATTACCATTTCGACCCC
Found at i:21023031 original size:30 final size:29
Alignment explanation
Indices: 21022997--21023358 Score: 266
Period size: 30 Copynumber: 12.5 Consensus size: 29
21022987 TAAACTTTCT
21022997 AAAAATTACCATTTTACCCCTCGAGTGTCC
1 AAAAATTACCATTTTACCCC-CGAGTGTCC
** * *
21023027 AAAAATT-TTATTTTTTCCCCCGAACT-TCAC
1 AAAAATTACCA-TTTTACCCCCG-AGTGTC-C
*** *
21023057 AAAAATTA-CATTTTTATCCCAAAACT-TCC
1 AAAAATTACCA-TTTTA-CCCCCGAGTGTCC
* *
21023086 -AAAATTTCCATTTTTACCCCC-ATATGTCC
1 AAAAATTACCA-TTTTACCCCCGA-GTGTCC
**
21023115 AAAAATTACCATTTTTTCCCCGAGTGTCC
1 AAAAATTACCATTTTACCCCCGAGTGTCC
*
21023144 AAAAATTACCATTTTTATCCCCGAGTGTCC
1 AAAAATTACCA-TTTTACCCCCGAGTGTCC
* *
21023174 AAAAATCACCATTTTGCTCCCCG-GATGTCC
1 AAAAATTACCATTTTAC-CCCCGAG-TGTCC
* *
21023204 AAAAATTA-CATTTCACCCCCAAGTGTCC
1 AAAAATTACCATTTTACCCCCGAGTGTCC
* * *
21023232 AAAAATTACTAATTTTATCCCCGAGTGTCT
1 AAAAATTAC-CATTTTACCCCCGAGTGTCC
* * *
21023262 AAAAATTACCATTTTGCCCTCGAAGTGTTC
1 AAAAATTACCATTTTACCCCCG-AGTGTCC
*
21023292 -AAAATAACCATTTTACCCCCGA--GTCC
1 AAAAATTACCATTTTACCCCCGAGTGTCC
* * *
21023318 -AAAATTACCATTTTA-CCTCGGGTATCC
1 AAAAATTACCATTTTACCCCCGAGTGTCC
21023345 AAAAATTA-CATTTT
1 AAAAATTACCATTTT
21023359 CGACTCCATT
Statistics
Matches: 268, Mismatches: 44, Indels: 43
0.75 0.12 0.12
Matches are distributed among these distances:
25 4 0.01
26 17 0.06
27 10 0.04
28 35 0.13
29 80 0.30
30 119 0.44
31 3 0.01
ACGTcount: A:0.32, C:0.27, G:0.08, T:0.33
Consensus pattern (29 bp):
AAAAATTACCATTTTACCCCCGAGTGTCC
Found at i:21023070 original size:29 final size:31
Alignment explanation
Indices: 21022840--21023331 Score: 245
Period size: 30 Copynumber: 16.7 Consensus size: 31
21022830 AAGGTCCCTA
* * ***
21022840 AACTTTCCAAAAATTA-CATTTTAACCCTTA
1 AACTGTCCAAAAATTACCATTTTTACCCCCG
* * **
21022870 AACTTTCCAAAAATTA-CATTTTGACCTTCG
1 AACTGTCCAAAAATTACCATTTTTACCCCCG
* ** *
21022900 AACTTTCCAAAAATTA-CATTTCGA-CCCCA
1 AACTGTCCAAAAATTACCATTTTTACCCCCG
* * ** **
21022929 AACTTTCTAAAAATTA-CATTTCAACCCCTA
1 AACTGTCCAAAAATTACCATTTTTACCCCCG
* * * * **
21022959 AACTTTCCTAAAATTA-TATTTTAACCCCTA
1 AACTGTCCAAAAATTACCATTTTTACCCCCG
* *
21022989 AACTTTCTAAAAATTACCA-TTTTACCCCTCG
1 AACTGTCCAAAAATTACCATTTTTACCCC-CG
* ** *
21023020 -AGTGTCCAAAAATT-TTATTTTTTCCCCCG
1 AACTGTCCAAAAATTACCATTTTTACCCCCG
* **
21023049 AACT-TCACAAAAATTA-CATTTTTATCCCAA
1 AACTGTC-CAAAAATTACCATTTTTACCCCCG
*
21023079 AACT-TCC-AAAATTTCCATTTTTACCCCC-
1 AACTGTCCAAAAATTACCATTTTTACCCCCG
*
21023107 ATA-TGTCCAAAAATTACCATTTTT-TCCCCG
1 A-ACTGTCCAAAAATTACCATTTTTACCCCCG
* *
21023137 -AGTGTCCAAAAATTACCATTTTTATCCCCG
1 AACTGTCCAAAAATTACCATTTTTACCCCCG
* * *
21023167 -AGTGTCCAAAAATCACCA-TTTTGCTCCCCG
1 AACTGTCCAAAAATTACCATTTTTAC-CCCCG
* *
21023197 GA-TGTCCAAAAATTA-CA-TTTCACCCCC-
1 AACTGTCCAAAAATTACCATTTTTACCCCCG
* * * *
21023224 AAGTGTCCAAAAATTACTAATTTTATCCCCG
1 AACTGTCCAAAAATTACCATTTTTACCCCCG
* * * *
21023255 -AGTGTCTAAAAATTACCA-TTTTGCCCTCG
1 AACTGTCCAAAAATTACCATTTTTACCCCCG
* * *
21023284 AAGTGTTC-AAAATAACCA-TTTTACCCCCG
1 AACTGTCCAAAAATTACCATTTTTACCCCCG
21023313 -A--GTCC-AAAATTACCATTTT
1 AACTGTCCAAAAATTACCATTTT
21023332 ACCTCGGGTA
Statistics
Matches: 380, Mismatches: 60, Indels: 47
0.78 0.12 0.10
Matches are distributed among these distances:
26 12 0.03
27 4 0.01
28 27 0.07
29 107 0.28
30 228 0.60
31 2 0.01
ACGTcount: A:0.34, C:0.27, G:0.06, T:0.34
Consensus pattern (31 bp):
AACTGTCCAAAAATTACCATTTTTACCCCCG
Found at i:21023175 original size:88 final size:88
Alignment explanation
Indices: 21022998--21023276 Score: 259
Period size: 88 Copynumber: 3.2 Consensus size: 88
21022988 AAACTTTCTA
** *
21022998 AAAATTACCA-TTTTAC-CCCTC-GAGTGTCCAAAAATTTTATTTTTTCCCCCGAACT-TCACAA
1 AAAATTACCATTTTTACTCCC-CAGA-TGTCCAAAAATTACATTTTTT-CCCCG-AGTGTC-CAA
** *
21023059 AAATTA-CATTTTTATCCCAAAACT-TCC
61 AAATTACCATTTTTATCCC-CGAGTGTCC
* *
21023086 AAAATTTCCATTTTTAC-CCCCATATGTCCAAAAATTACCATTTTTTCCCCGAGTGTCCAAAAAT
1 AAAATTACCATTTTTACTCCCCAGATGTCCAAAAATTA-CATTTTTTCCCCGAGTGTCCAAAAAT
21023150 TACCATTTTTATCCCCGAGTGTCC
65 TACCATTTTTATCCCCGAGTGTCC
* * * *** *
21023174 AAAAATCACCA-TTTTGCTCCCCGGATGTCCAAAAATTACATTTCACCCCCAAGTGTCCAAAAAT
1 -AAAATTACCATTTTTACTCCCCAGATGTCCAAAAATTACATTTTTTCCCCGAGTGTCCAAAAAT
* * *
21023238 TACTAATTTTATCCCCGAGTGTCTA
65 TACCATTTTTATCCCCGAGTGTC-C
21023263 AAAATTACCATTTT
1 AAAATTACCATTTT
21023277 GCCCTCGAAG
Statistics
Matches: 160, Mismatches: 21, Indels: 19
0.80 0.10 0.09
Matches are distributed among these distances:
87 13 0.08
88 101 0.63
89 46 0.29
ACGTcount: A:0.32, C:0.27, G:0.07, T:0.34
Consensus pattern (88 bp):
AAAATTACCATTTTTACTCCCCAGATGTCCAAAAATTACATTTTTTCCCCGAGTGTCCAAAAATT
ACCATTTTTATCCCCGAGTGTCC
Found at i:21023277 original size:88 final size:89
Alignment explanation
Indices: 21023109--21023358 Score: 266
Period size: 88 Copynumber: 2.9 Consensus size: 89
21023099 TTACCCCCAT
*** * *
21023109 ATGTCCAAAAATTACCATTTTTTCCCCGAGTGTCCAAAAATTACCATTTTTATCCCCGAGTGTCC
1 ATGTCCAAAAATTACCATTTCACCCCCAAGTGTCCAAAAATTACCAATTTTATCCCCGAGTGTCC
21023174 AAAAATCACCATTTTGCTCCCCGG
66 AAAAATCACCATTTTGCTCCCCGG
* *
21023198 ATGTCCAAAAATTA-CATTTCACCCCCAAGTGTCCAAAAATTACTAATTTTATCCCCGAGTGTCT
1 ATGTCCAAAAATTACCATTTCACCCCCAAGTGTCCAAAAATTACCAATTTTATCCCCGAGTGTCC
* * *
21023262 AAAAATTACCATTTTGC-CCTCGA
66 AAAAATCACCATTTTGCTCCCCGG
* * * * * * *
21023285 AGTGTTC-AAAATAACCATTTTACCCCC--GAGTCC-AAAATTACC-ATTTTA-CCTCGGGTATC
1 A-TGTCCAAAAATTACCATTTCACCCCCAAGTGTCCAAAAATTACCAATTTTATCCCCGAGTGTC
*
21023344 CAAAAATTA-CATTTT
65 CAAAAATCACCATTTT
21023359 CGACTCCATT
Statistics
Matches: 140, Mismatches: 19, Indels: 11
0.82 0.11 0.06
Matches are distributed among these distances:
82 6 0.04
83 16 0.11
84 6 0.04
85 8 0.06
86 5 0.04
87 11 0.08
88 74 0.53
89 14 0.10
ACGTcount: A:0.32, C:0.27, G:0.10, T:0.32
Consensus pattern (89 bp):
ATGTCCAAAAATTACCATTTCACCCCCAAGTGTCCAAAAATTACCAATTTTATCCCCGAGTGTCC
AAAAATCACCATTTTGCTCCCCGG
Found at i:21023305 original size:58 final size:58
Alignment explanation
Indices: 21022997--21023358 Score: 277
Period size: 58 Copynumber: 6.3 Consensus size: 58
21022987 TAAACTTTCT
* ** * *
21022997 AAAAATTACCATTTTACCCCTCGAGTGTCCAAAAATTTTA-TTTTTTCCCCCGAACT-TCAC
1 AAAAATTACCATTTTATCCC-CGAGTGTCCAAAAA--TTACCATTTTACCCCGAAGTGTC-C
** * * *
21023057 AAAAATTA-CATTTTTATCCCAAAACT-TCC-AAAATTTCCATTTTTACCCCCATA-TGTCC
1 AAAAATTACCA-TTTTATCCC-CGAGTGTCCAAAAATTACCA-TTTTACCCCGA-AGTGTCC
*
21023115 AAAAATTACCATTTTTTCCCCGAGTGTCCAAAAATTACCATTTTTATCCCCG-AGTGTCC
1 AAAAATTACCATTTTATCCCCGAGTGTCCAAAAATTACCA-TTTTA-CCCCGAAGTGTCC
* * * *
21023174 AAAAATCACCATTTTGCTCCCCG-GATGTCCAAAAATTA-CATTTCACCCCCAAGTGTCC
1 AAAAATTACCATTTT-ATCCCCGAG-TGTCCAAAAATTACCATTTTACCCCGAAGTGTCC
* * * *
21023232 AAAAATTACTAATTTTATCCCCGAGTGTCTAAAAATTACCATTTTGCCCTCGAAGTGTTC
1 AAAAATTAC-CATTTTATCCCCGAGTGTCCAAAAATTACCATTTTACCC-CGAAGTGTCC
* * * * *
21023292 -AAAATAACCATTTTACCCCCGA--GTCC-AAAATTACCATTTTACCTCG-GGTATCC
1 AAAAATTACCATTTTATCCCCGAGTGTCCAAAAATTACCATTTTACCCCGAAGTGTCC
21023345 AAAAATTA-CATTTT
1 AAAAATTACCATTTT
21023359 CGACTCCATT
Statistics
Matches: 246, Mismatches: 38, Indels: 43
0.75 0.12 0.13
Matches are distributed among these distances:
53 10 0.04
54 8 0.03
55 16 0.07
56 5 0.02
57 6 0.02
58 84 0.34
59 68 0.28
60 49 0.20
ACGTcount: A:0.32, C:0.27, G:0.08, T:0.33
Consensus pattern (58 bp):
AAAAATTACCATTTTATCCCCGAGTGTCCAAAAATTACCATTTTACCCCGAAGTGTCC
Found at i:21027600 original size:16 final size:16
Alignment explanation
Indices: 21027575--21027609 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
21027565 ATTTTAAAAT
*
21027575 AAAAAGGAAAAAAAGG
1 AAAAAAGAAAAAAAGG
*
21027591 AAAAAAGAAAGAAAGG
1 AAAAAAGAAAAAAAGG
21027607 AAA
1 AAA
21027610 GAAAAAGTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (16 bp):
AAAAAAGAAAAAAAGG
Found at i:21028494 original size:22 final size:22
Alignment explanation
Indices: 21028468--21028533 Score: 73
Period size: 22 Copynumber: 3.0 Consensus size: 22
21028458 TTAATGAACA
21028468 AAGAAAAAAGAAAAAAAAGAAG
1 AAGAAAAAAGAAAAAAAAGAAG
*
21028490 AAGAAAAAAGCAAAAGAAA-AAG
1 AAGAAAAAAG-AAAAAAAAGAAG
*
21028512 AA-AAAAACAGGAAAAACAAGAA
1 AAGAAAAA-A-GAAAAAAAAGAA
21028534 TAAAAACAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
21 5 0.14
22 22 0.59
23 10 0.27
ACGTcount: A:0.79, C:0.05, G:0.17, T:0.00
Consensus pattern (22 bp):
AAGAAAAAAGAAAAAAAAGAAG
Found at i:21028498 original size:13 final size:13
Alignment explanation
Indices: 21028471--21028510 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
21028461 ATGAACAAAG
21028471 AAAA-AAGAA-AA
1 AAAAGAAGAAGAA
21028482 AAAAGAAGAAGAA
1 AAAAGAAGAAGAA
21028495 AAAAGCAA-AAGAA
1 AAAAG-AAGAAGAA
21028508 AAA
1 AAA
21028511 GAAAAAAACA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
11 4 0.15
12 5 0.19
13 15 0.58
14 2 0.08
ACGTcount: A:0.82, C:0.03, G:0.15, T:0.00
Consensus pattern (13 bp):
AAAAGAAGAAGAA
Found at i:21028516 original size:6 final size:6
Alignment explanation
Indices: 21028467--21028516 Score: 50
Period size: 6 Copynumber: 8.5 Consensus size: 6
21028457 TTTAATGAAC
* * *
21028467 AAAGAA AAA-AG AAA-AA AAAGAA GAAGAAA AAAGCA AAAGAA AAAGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAG-AA AAAGAA AAAGAA AAAGAA
21028514 AAA
1 AAA
21028517 AACAGGAAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
5 8 0.22
6 23 0.64
7 5 0.14
ACGTcount: A:0.82, C:0.02, G:0.16, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:21028556 original size:12 final size:11
Alignment explanation
Indices: 21028471--21028557 Score: 59
Period size: 11 Copynumber: 7.4 Consensus size: 11
21028461 ATGAACAAAG
21028471 AAAAAAGAAAA
1 AAAAAAGAAAA
*
21028482 AAAAGAAG-AAG
1 AAAA-AAGAAAA
21028493 AAAAAAGCAAAA
1 AAAAAAG-AAAA
*
21028505 GAAAAAGAAAA
1 AAAAAAGAAAA
* *
21028516 AAACAGGAAAA
1 AAAAAAGAAAA
*
21028527 ACAAGAATAAAAACA
1 A-AA-AA-AGAAA-A
21028542 AAAAATAGAAAA
1 AAAAA-AGAAAA
21028554 AAAA
1 AAAA
21028558 GAGAGGTCCA
Statistics
Matches: 59, Mismatches: 10, Indels: 13
0.72 0.12 0.16
Matches are distributed among these distances:
10 3 0.05
11 23 0.39
12 18 0.31
13 8 0.14
14 5 0.08
15 2 0.03
ACGTcount: A:0.80, C:0.05, G:0.13, T:0.02
Consensus pattern (11 bp):
AAAAAAGAAAA
Found at i:21029448 original size:49 final size:49
Alignment explanation
Indices: 21029329--21029647 Score: 283
Period size: 49 Copynumber: 6.5 Consensus size: 49
21029319 AAAATTTGAA
* ** * * * *
21029329 GGGAAAGGTTAAGATCGCAACGGCGAACCCGATACCTTAGCAGAT-ATTAT
1 GGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCAT-GAAGATGA-AAT
* * * *
21029379 TGG-AAGGATTGAGGCCGCAACGGCAAATCCGGTTCCATGAAGATGAAAT
1 GGGAAAGG-TTGAGGCCGCAACGGCGAACCCGGTACCATGAAGATGAAAT
*
21029428 GGGAAAGGTTGAGGCTGCAACGGCGAACCCGGTACCATGAAGATTTG-AA-
1 GGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCATGAAGA--TGAAAT
* * * * * * *
21029477 GGGAAAGGTTAAGGCAGCAACGTCGAACCCGATACCTTAGCAGAT-ATTAT
1 GGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCAT-GAAGATGA-AAT
* * * *
21029527 GGG-AAGGATTGAGGCCGCAACGGCAAATCAGGTTCCATGAAGATGAAAT
1 GGGAAAGG-TTGAGGCCGCAACGGCGAACCCGGTACCATGAAGATGAAAT
* *
21029576 GGGAAAGGTTGAGGCCGCAACGGTGAACCCGGTACCATGAAGATTTAAA-
1 GGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCATGAAGA-TGAAAT
21029625 GGGAAAGGTTGAGGCCGCAACGG
1 GGGAAAGGTTGAGGCCGCAACGG
21029648 TAAACCCGAT
Statistics
Matches: 216, Mismatches: 40, Indels: 27
0.76 0.14 0.10
Matches are distributed among these distances:
48 1 0.00
49 145 0.67
50 68 0.31
51 2 0.01
ACGTcount: A:0.33, C:0.18, G:0.32, T:0.17
Consensus pattern (49 bp):
GGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCATGAAGATGAAAT
Found at i:21029583 original size:148 final size:146
Alignment explanation
Indices: 21029315--21029782 Score: 670
Period size: 148 Copynumber: 3.2 Consensus size: 146
21029305 CTGAGAAAAA
* * *
21029315 CATGAAAATTTGAAGGGAAAGGTTAAGATCGCAACGGCGAACCCGATACCTTAGCAGATATTATT
1 CATGAAAATTTGAAGGGAAAGGTTAAG-GCGCAACGTCGAACCCGATACCTTAGCAGATATTATG
21029380 GGAAGGATTGAGGCCGCAACGGCAAATCCGGTTCCATGAAGATGAAATGGGAAAGGTTGAGGCTG
65 GGAAGGATTGAGGCCGCAACGGCAAAT-CGGTTCCATGAAGATGAAATGGGAAAGGTTGAGGCTG
*
21029445 CAACGGCGAACCCGGTAC
129 CAACGGTGAACCCGGTAC
*
21029463 CATGAAGATTTGAAGGGAAAGGTTAAGGCAGCAACGTCGAACCCGATACCTTAGCAGATATTATG
1 CATGAAAATTTGAAGGGAAAGGTTAAGGC-GCAACGTCGAACCCGATACCTTAGCAGATATTATG
*
21029528 GGAAGGATTGAGGCCGCAACGGCAAATCAGGTTCCATGAAGATGAAATGGGAAAGGTTGAGGCCG
65 GGAAGGATTGAGGCCGCAACGGCAAATC-GGTTCCATGAAGATGAAATGGGAAAGGTTGAGGCTG
21029593 CAACGGTGAACCCGGTAC
129 CAACGGTGAACCCGGTAC
* * * *
21029611 CATGAAGATTTAAAGGGAAAGGTTGAGGCCGCAACGGT-AAACCCGATACCTTAGCAGATATTAT
1 CATGAAAATTTGAAGGGAAAGGTTAAGG-CGCAAC-GTCGAACCCGATACCTTAGCAGATATTAT
* * * * ** * * *
21029675 GGGAAGGACTAAGGCCGCAATGGTAAATTCGGTTCTGTGAGGAAGAAATGAGAAAGGTTGAGG-T
64 GGGAAGGATTGAGGCCGCAACGGCAAA-TCGGTTCCATGAAGATGAAATGGGAAAGGTTGAGGCT
*
21029739 CGCAACGGTGAATCCGGTAC
128 -GCAACGGTGAACCCGGTAC
21029759 CATGAAAATTTGAAGGGAAAGGTT
1 CATGAAAATTTGAAGGGAAAGGTT
21029783 TAAGTCATAA
Statistics
Matches: 292, Mismatches: 22, Indels: 12
0.90 0.07 0.04
Matches are distributed among these distances:
147 2 0.01
148 285 0.98
149 5 0.02
ACGTcount: A:0.34, C:0.17, G:0.31, T:0.19
Consensus pattern (146 bp):
CATGAAAATTTGAAGGGAAAGGTTAAGGCGCAACGTCGAACCCGATACCTTAGCAGATATTATGG
GAAGGATTGAGGCCGCAACGGCAAATCGGTTCCATGAAGATGAAATGGGAAAGGTTGAGGCTGCA
ACGGTGAACCCGGTAC
Found at i:21029648 original size:49 final size:49
Alignment explanation
Indices: 21029315--21029782 Score: 272
Period size: 49 Copynumber: 9.5 Consensus size: 49
21029305 CTGAGAAAAA
* * * ** * *
21029315 CATGAAAATTTGAAGGGAAAGGTTAAGATCGCAACGGCGAACCCGATAC
1 CATGAAGATTTAAAGGGAAAGGTTGAGGCCGCAACGGTGAACCCGGTAC
* * ** ** * *
21029364 CTTAGCAGATATT-ATTGG-AAGGATTGAGGCCGCAACGGCAAATCCGGTTC
1 CAT-GAAGAT-TTAAAGGGAAAGG-TTGAGGCCGCAACGGTGAACCCGGTAC
* * *
21029414 CATGAAGA-TGAAATGGGAAAGGTTGAGGCTGCAACGGCGAACCCGGTAC
1 CATGAAGATTTAAA-GGGAAAGGTTGAGGCCGCAACGGTGAACCCGGTAC
* * * *
21029463 CATGAAGATTTGAAGGGAAAGGTTAAGGCAGCAAC-GTCGAACCCGATAC
1 CATGAAGATTTAAAGGGAAAGGTTGAGGCCGCAACGGT-GAACCCGGTAC
* * * ** * * *
21029512 CTTAGCAGATATT-ATGGG-AAGGATTGAGGCCGCAACGGCAAATCAGGTTC
1 CAT-GAAGAT-TTAAAGGGAAAGG-TTGAGGCCGCAACGGTGAACCCGGTAC
*
21029562 CATGAAGA-TGAAATGGGAAAGGTTGAGGCCGCAACGGTGAACCCGGTAC
1 CATGAAGATTTAAA-GGGAAAGGTTGAGGCCGCAACGGTGAACCCGGTAC
* *
21029611 CATGAAGATTTAAAGGGAAAGGTTGAGGCCGCAACGGTAAACCCGATAC
1 CATGAAGATTTAAAGGGAAAGGTTGAGGCCGCAACGGTGAACCCGGTAC
* * * * * * * ** *
21029660 CTTAGCAGATATT-ATGGG-AAGGACTAAGGCCGCAATGGTAAATTCGGTTC
1 CAT-GAAGAT-TTAAAGGGAAAGG-TTGAGGCCGCAACGGTGAACCCGGTAC
** * ** * * *
21029710 TGTGAGGA-AGAAATGAGAAAGGTTGAGGTCGCAACGGTGAATCCGGTAC
1 CATGAAGATTTAAA-GGGAAAGGTTGAGGCCGCAACGGTGAACCCGGTAC
* *
21029759 CATGAAAATTTGAAGGGAAAGGTT
1 CATGAAGATTTAAAGGGAAAGGTT
21029783 TAAGTCATAA
Statistics
Matches: 313, Mismatches: 83, Indels: 46
0.71 0.19 0.10
Matches are distributed among these distances:
47 2 0.01
48 4 0.01
49 192 0.61
50 108 0.35
51 7 0.02
ACGTcount: A:0.34, C:0.17, G:0.31, T:0.19
Consensus pattern (49 bp):
CATGAAGATTTAAAGGGAAAGGTTGAGGCCGCAACGGTGAACCCGGTAC
Found at i:21029677 original size:99 final size:98
Alignment explanation
Indices: 21029315--21029679 Score: 303
Period size: 99 Copynumber: 3.7 Consensus size: 98
21029305 CTGAGAAAAA
* * * ** * * * *
21029315 CATGAAAATTTGAAGGGAAAGGTTAAGATCGCAACGGCGAACCCGATACCTTAGCAGATATTATT
1 CATGAAGATTTAAAGGGAAAGGTTGAGGCCGCAACGGCAAACCCGATACCAT-GAAGATATTATG
** * *
21029380 GG-AAGGATTGAGGCCGCAACGGCAAATCCGGTTC
65 GGAAAGG-TTGAGGCCGCAACGGTGAACCCGGTAC
* * * * *
21029414 CATGAAGA-TGAAATGGGAAAGGTTGAGGCTGCAACGGCGAACCCGGTACCATGAAGAT-TTGAA
1 CATGAAGATTTAAA-GGGAAAGGTTGAGGCCGCAACGGCAAACCCGATACCATGAAGATATT-AT
* * *
21029477 GGGAAAGGTTAAGGCAGCAAC-GTCGAACCCGATAC
64 GGGAAAGGTTGAGGCCGCAACGGT-GAACCCGGTAC
* * * * * * * *
21029512 CTTAGCAGATATT-ATGGG-AAGGATTGAGGCCGCAACGGCAAATCAGGTTCCATGAAGATGA-A
1 CAT-GAAGAT-TTAAAGGGAAAGG-TTGAGGCCGCAACGGCAAACCCGATACCATGAAGAT-ATT
21029574 ATGGGAAAGGTTGAGGCCGCAACGGTGAACCCGGTAC
62 ATGGGAAAGGTTGAGGCCGCAACGGTGAACCCGGTAC
* * *
21029611 CATGAAGATTTAAAGGGAAAGGTTGAGGCCGCAACGGTAAACCCGATACCTTAGCAGATATTATG
1 CATGAAGATTTAAAGGGAAAGGTTGAGGCCGCAACGGCAAACCCGATACCAT-GAAGATATTATG
21029676 GGAA
65 GGAA
21029680 GGACTAAGGC
Statistics
Matches: 207, Mismatches: 44, Indels: 30
0.74 0.16 0.11
Matches are distributed among these distances:
97 5 0.02
98 69 0.33
99 129 0.62
100 3 0.01
101 1 0.00
ACGTcount: A:0.34, C:0.18, G:0.30, T:0.18
Consensus pattern (98 bp):
CATGAAGATTTAAAGGGAAAGGTTGAGGCCGCAACGGCAAACCCGATACCATGAAGATATTATGG
GAAAGGTTGAGGCCGCAACGGTGAACCCGGTAC
Found at i:21029878 original size:148 final size:148
Alignment explanation
Indices: 21029315--21029949 Score: 649
Period size: 148 Copynumber: 4.3 Consensus size: 148
21029305 CTGAGAAAAA
* *
21029315 CATGAAAATTTGAAGGGAAAGG-TTAAGATCGCAACGGCGAACCCGATACCTTAGCAGATATTAT
1 CATGAAGATTTGAAGGGAAAGGTTTAAG-TCGCAACGACGAACCCGATACCTTAGCAGATATTAT
* * *
21029379 TGGAAGGATTGAGGCCGCAACGGCAAATCCGGTTCCATGAAGATGAAATGGGAAAGGTTGAGG-C
65 GGGAAGGATTGAAGCCGCAACGGCAAATCCAGTTCCATGAAGATGAAATGGGAAAGGTTGAGGTC
21029443 TGCAACGGCGAACCCGGTAC
130 -GCAACGGCGAACCCGGTAC
* *
21029463 CATGAAGATTTGAAGGGAAAGG-TTAAGGCAGCAACGTCGAACCCGATACCTTAGCAGATATTAT
1 CATGAAGATTTGAAGGGAAAGGTTTAAGTC-GCAACGACGAACCCGATACCTTAGCAGATATTAT
* *
21029527 GGGAAGGATTGAGGCCGCAACGGCAAAT-CAGGTTCCATGAAGATGAAATGGGAAAGGTTGAGGC
65 GGGAAGGATTGAAGCCGCAACGGCAAATCCA-GTTCCATGAAGATGAAATGGGAAAGGTTGAGGT
*
21029591 CGCAACGGTGAACCCGGTAC
129 CGCAACGGCGAACCCGGTAC
* * * * ***
21029611 CATGAAGATTTAAAGGGAAAGGTTGAGGCCGCAACGGTAAACCCGATACCTTAGCAGATATTATG
1 CATGAAGATTTGAAGGGAAAGGTTTAAGTCGCAACGACGAACCCGATACCTTAGCAGATATTATG
* * * * * ** * * *
21029676 GGAAGGACT-AAGGCCGCAATGGTAAATTCGGTTCTGTGAGGAAGAAATGAGAAAGGTTGAGGTC
66 GGAAGGATTGAA-GCCGCAACGGCAAATCCAGTTCCATGAAGATGAAATGGGAAAGGTTGAGGTC
* *
21029740 GCAACGGTGAATCCGGTAC
130 GCAACGGCGAACCCGGTAC
* ** * *
21029759 CATGAAAATTTGAAGGGAAAGGTTTAAGTCATAACGACGAACCTTG-T-CCTCTAGAAGATATTA
1 CATGAAGATTTGAAGGGAAAGGTTTAAGTCGCAACGACGAACC-CGATACCT-TAGCAGATATTA
* * * * * * * * * *
21029822 AGGGAAAGATTTAAGCCGTAACGGCGAATCCAGTACCATG-AGAAT-ATGATGGGAAAGATTTAA
64 TGGGAAGGATTGAAGCCGCAACGGCAAATCCAGTTCCATGAAG-ATGA-AATGGGAAAGGTTGAG
* * * * **
21029885 GTCGTAATGACGAATCTAGTAC
127 GTCGCAACGGCGAACCCGGTAC
* * *
21029907 CACGAAGATTTGAAGGGAAAGGTTTAAGTCGCAATGACAAACC
1 CATGAAGATTTGAAGGGAAAGGTTTAAGTCGCAACGACGAACC
21029950 TTGTACCTTA
Statistics
Matches: 408, Mismatches: 68, Indels: 22
0.82 0.14 0.04
Matches are distributed among these distances:
147 8 0.02
148 391 0.96
149 9 0.02
ACGTcount: A:0.35, C:0.17, G:0.29, T:0.20
Consensus pattern (148 bp):
CATGAAGATTTGAAGGGAAAGGTTTAAGTCGCAACGACGAACCCGATACCTTAGCAGATATTATG
GGAAGGATTGAAGCCGCAACGGCAAATCCAGTTCCATGAAGATGAAATGGGAAAGGTTGAGGTCG
CAACGGCGAACCCGGTAC
Found at i:21029878 original size:296 final size:296
Alignment explanation
Indices: 21029315--21029862 Score: 719
Period size: 296 Copynumber: 1.9 Consensus size: 296
21029305 CTGAGAAAAA
* * * *
21029315 CATGAAAATTTGAAGGGAAAGGTTAAGATCGCAACGGCGAACCCGATACCTTAGCAGATATTATT
1 CATGAAAATTTAAAGGGAAAGGTTAAGACCGCAACGGCAAACCCGATACCTTAGCAGATATTATG
* * * *
21029380 GGAAGGATTGAGGCCGCAACGGCAAATCCGGTTCCATGAAGATGAAATGGGAAAGGTTGAGGCTG
66 GGAAGGACTAAGGCCGCAACGGCAAATCCGGTTCCATGAAGAAGAAATGAGAAAGGTTGAGGCTG
* *
21029445 CAACGGCGAACCCGGTACCATGAAGATTTGAAGGGAAAGGTTAAGGCAGCAACGTCGAACCCGAT
131 CAACGGCGAACCCGGTACCATGAAAATTTGAAGGGAAAGGTTAAGGCAGCAACGACGAACCCGAT
* * * * *
21029510 ACCTTAGCAGATATTATGGGAAGGATTGAGGCCGCAACGGCAAATCAGGTTCCATGAAGATGAAA
196 ACCTTAGAAGATATTAAGGGAAAGATTGAAGCCGCAACGGCAAATCAGGTACCATGAAGATGAAA
21029575 TGGGAAAGGTTGAGGCCGCAACGGTGAACCCGGTAC
261 TGGGAAAGGTTGAGGCCGCAACGGTGAACCCGGTAC
* * * *
21029611 CATGAAGATTTAAAGGGAAAGGTTGAGGCCGCAACGGTAAACCCGATACCTTAGCAGATATTATG
1 CATGAAAATTTAAAGGGAAAGGTTAAGACCGCAACGGCAAACCCGATACCTTAGCAGATATTATG
* * * ** *
21029676 GGAAGGACTAAGGCCGCAATGGTAAATTCGGTTCTGTGAGGAAGAAATGAGAAAGGTTGAGG-TC
66 GGAAGGACTAAGGCCGCAACGGCAAATCCGGTTCCATGAAGAAGAAATGAGAAAGGTTGAGGCT-
* * * * *
21029740 GCAACGGTGAATCCGGTACCATGAAAATTTGAAGGGAAAGGTTTAAGTCA-TAACGACGAACCTT
130 GCAACGGCGAACCCGGTACCATGAAAATTTGAAGGGAAAGG-TTAAGGCAGCAACGACGAACC-C
* * *
21029804 G-T-CCTCTAGAAGATATTAAGGGAAAGATTTAAGCCGTAACGGCGAATCCA-GTACCATGA
193 GATACCT-TAGAAGATATTAAGGGAAAGATTGAAGCCGCAACGGCAAAT-CAGGTACCATGA
21029863 GAATATGATG
Statistics
Matches: 214, Mismatches: 33, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
295 4 0.02
296 200 0.93
297 10 0.05
ACGTcount: A:0.34, C:0.17, G:0.29, T:0.20
Consensus pattern (296 bp):
CATGAAAATTTAAAGGGAAAGGTTAAGACCGCAACGGCAAACCCGATACCTTAGCAGATATTATG
GGAAGGACTAAGGCCGCAACGGCAAATCCGGTTCCATGAAGAAGAAATGAGAAAGGTTGAGGCTG
CAACGGCGAACCCGGTACCATGAAAATTTGAAGGGAAAGGTTAAGGCAGCAACGACGAACCCGAT
ACCTTAGAAGATATTAAGGGAAAGATTGAAGCCGCAACGGCAAATCAGGTACCATGAAGATGAAA
TGGGAAAGGTTGAGGCCGCAACGGTGAACCCGGTAC
Found at i:21029882 original size:49 final size:49
Alignment explanation
Indices: 21029812--21030473 Score: 472
Period size: 49 Copynumber: 13.5 Consensus size: 49
21029802 TTGTCCTCTA
* * * * *
21029812 GAAGATATTAAGGGAAAGATTTAAGCCGTAACGGCGAATCCAGTACCAT
1 GAAGACATGAAGGGAAAGATTTAAGCCGCAATGGCGAATCCAGTACCAC
* * * * * *
21029861 G-AGAATATGATGGGAAAGATTTAAGTCGTAATGACGAATCTAGTACCAC
1 GAAG-ACATGAAGGGAAAGATTTAAGCCGCAATGGCGAATCCAGTACCAC
** * * * * *
21029910 GAAGATTTGAAGGGAAAGGTTTAAGTCGCAATGAC-AAACCTTGTACCTTA-
1 GAAGACATGAAGGGAAAGATTTAAGCCGCAATGGCGAATCC-AGTACC--AC
* * * * * * *
21029960 GAA-ACATGAAGGGAAAGGTGTAAGTCACAACGGCGAA-CCTTGTACCTC
1 GAAGACATGAAGGGAAAGATTTAAGCCGCAATGGCGAATCC-AGTACCAC
* * * * *
21030008 -AAAAGCATAAAGGAAAAGATTTAAGCCGCAACGGCGAATCTAGTACCAC
1 GAAGA-CATGAAGGGAAAGATTTAAGCCGCAATGGCGAATCCAGTACCAC
* *
21030057 GAAGACATGAAGGGAAAGATTTAAGCTGCAATGGCGAATCTAGTACCAC
1 GAAGACATGAAGGGAAAGATTTAAGCCGCAATGGCGAATCCAGTACCAC
* * * ** * *
21030106 GAAGATATGAAGGGAAAGGTTTAAGTCGCAACAGCGAA-CCTTGTACCTC
1 GAAGACATGAAGGGAAAGATTTAAGCCGCAATGGCGAATCC-AGTACCAC
* * *
21030155 AAAAACATGAAGGGAAAGATTTAAACCGCAATGGCGAATCCAGTACCAC
1 GAAGACATGAAGGGAAAGATTTAAGCCGCAATGGCGAATCCAGTACCAC
* * * **
21030204 GAAGACATGAAGGGAAAGATTTAAGCCGTAATGACGAATCTAGTACCGT
1 GAAGACATGAAGGGAAAGATTTAAGCCGCAATGGCGAATCCAGTACCAC
* * * *
21030253 GAAGATATGGAGGGAAA-AGTTTAAGTCGCAATGGCGAA-CCTTGTATCTCA-
1 GAAGACATGAAGGGAAAGA-TTTAAGCCGCAATGGCGAATCC-AGTA-C-CAC
* * * * *
21030303 GAA-ACATGAAGGGAAATATTGAAGCCACAACGGCGAATCTAGTACCAC
1 GAAGACATGAAGGGAAAGATTTAAGCCGCAATGGCGAATCCAGTACCAC
* ** * *
21030351 GAAGACATAAAGGGAAATG-TTTAAGTTGCAATGGTGAA-CCTTA-TACCTC
1 GAAGACATGAAGGGAAA-GATTTAAGCCGCAATGGCGAATCC--AGTACCAC
** * *
21030400 -AGAGACATGAAGGGAAAGATTTAAGCTACAACGGCGAATCTAGTACCAC
1 GA-AGACATGAAGGGAAAGATTTAAGCCGCAATGGCGAATCCAGTACCAC
** *
21030449 GAAGACACAAAGGGAAAGGTTTAAG
1 GAAGACATGAAGGGAAAGATTTAAG
21030474 TCTTAATGGT
Statistics
Matches: 486, Mismatches: 98, Indels: 58
0.76 0.15 0.09
Matches are distributed among these distances:
47 4 0.01
48 17 0.03
49 441 0.91
50 22 0.05
51 2 0.00
ACGTcount: A:0.39, C:0.17, G:0.25, T:0.19
Consensus pattern (49 bp):
GAAGACATGAAGGGAAAGATTTAAGCCGCAATGGCGAATCCAGTACCAC
Found at i:21030049 original size:147 final size:147
Alignment explanation
Indices: 21029769--21030473 Score: 699
Period size: 147 Copynumber: 4.8 Consensus size: 147
21029759 CATGAAAATT
** * * *
21029769 TGAAGGGAAAGGTTTAAGTCATAACGACGAACCTTGT-CCTCTAGAAGATATTAAGGGAAAGATT
1 TGAAGGGAAAGGTTTAAGTCGCAATGACGAACCTTGTACCT-TAGAAGATATGAAGGGAAAGGTT
* * * * * * * * * * *
21029833 TAAGCCGTAACGGCGAATCC-AGTACCATGAGAATATGATGGGAAAGATTTAAGTCGTAATGACG
65 TAAGTCGCAACGGCGAA-CCTTGTACC-TCAAAACATGAAGGGAAAGATTTAAGCCGCAACGGCG
**
21029897 AATCTAGTACCACGAAGATT
128 AATCTAGTACCACGAAGACA
* * *
21029917 TGAAGGGAAAGGTTTAAGTCGCAATGACAAACCTTGTACCTTAGAA-ACATGAAGGGAAAGGTGT
1 TGAAGGGAAAGGTTTAAGTCGCAATGACGAACCTTGTACCTTAGAAGATATGAAGGGAAAGGTTT
* * *
21029981 AAGTCACAACGGCGAACCTTGTACCTCAAAAGCATAAAGGAAAAGATTTAAGCCGCAACGGCGAA
66 AAGTCGCAACGGCGAACCTTGTACCTCAAAA-CATGAAGGGAAAGATTTAAGCCGCAACGGCGAA
21030046 TCTAGTACCACGAAGACA
130 TCTAGTACCACGAAGACA
* * * *
21030064 TGAAGGGAAAGATTTAAG-CTGCAATGGCGAATCTAGTACC--ACGAAGATATGAAGGGAAAGGT
1 TGAAGGGAAAGGTTTAAGTC-GCAATGACGAACCTTGTACCTTA-GAAGATATGAAGGGAAAGGT
* * *
21030126 TTAAGTCGCAACAGCGAACCTTGTACCTCAAAAACATGAAGGGAAAGATTTAAACCGCAATGGCG
64 TTAAGTCGCAACGGCGAACCTTGTACCTC-AAAACATGAAGGGAAAGATTTAAGCCGCAACGGCG
*
21030191 AATCCAGTACCACGAAGACA
128 AATCTAGTACCACGAAGACA
* * * * * * * *
21030211 TGAAGGGAAAGATTTAAGCCGTAATGACGAATCTAGTACCGT-GAAGATATGGAGGGAAAAGTTT
1 TGAAGGGAAAGGTTTAAGTCGCAATGACGAACCTTGTACCTTAGAAGATATGAAGGGAAAGGTTT
* * * * *
21030275 AAGTCGCAATGGCGAACCTTGTATCTCAGAAACATGAAGGGAAATATTGAAGCCACAACGGCGAA
66 AAGTCGCAACGGCGAACCTTGTACCTCA-AAACATGAAGGGAAAGATTTAAGCCGCAACGGCGAA
21030340 TCTAGTACCACGAAGACA
130 TCTAGTACCACGAAGACA
* * * ** * * * *
21030358 TAAAGGGAAATGTTTAAGTTGCAATGGTGAACCTTATACCTCAG-AGACATGAAGGGAAAGATTT
1 TGAAGGGAAAGGTTTAAGTCGCAATGACGAACCTTGTACCTTAGAAGATATGAAGGGAAAGGTTT
* * * * * ** *
21030422 AAG-CTACAACGGCGAATCTAGTACCACGAAGACACAAAGGGAAAGGTTTAAG
66 AAGTC-GCAACGGCGAACCTTGTACCTC-AAAACATGAAGGGAAAGATTTAAG
21030474 TCTTAATGGT
Statistics
Matches: 463, Mismatches: 80, Indels: 29
0.81 0.14 0.05
Matches are distributed among these distances:
145 1 0.00
146 12 0.03
147 402 0.87
148 45 0.10
149 3 0.01
ACGTcount: A:0.39, C:0.17, G:0.25, T:0.20
Consensus pattern (147 bp):
TGAAGGGAAAGGTTTAAGTCGCAATGACGAACCTTGTACCTTAGAAGATATGAAGGGAAAGGTTT
AAGTCGCAACGGCGAACCTTGTACCTCAAAACATGAAGGGAAAGATTTAAGCCGCAACGGCGAAT
CTAGTACCACGAAGACA
Found at i:21030482 original size:98 final size:98
Alignment explanation
Indices: 21029769--21030545 Score: 589
Period size: 98 Copynumber: 7.9 Consensus size: 98
21029759 CATGAAAATT
* * * * *
21029769 TGAAGGGAAAGGTTTAAGTCAT-AACGACGAACCTTGT-CCTCTAGAAGATATTAAGGGAAAGAT
1 TGAAGGGAAAGGTTTAAGTC-TCAATGGCGAACCTTATACCTC-AG-AGACATGAAGGGAAAGAT
* * * *
21029832 TTAAGCCGTAACGGCGAATCCAGTACCATG-AGAATA
63 TTAAGCCGCAACGGCGAATCTAGTACCACGAAG-ACA
* * * * * ** *
21029868 TGATGGGAAAGATTTAAGTCGT-AATGACGAATC-TAGTACCAC-GAAGATTTGAAGGGAAAGGT
1 TGAAGGGAAAGGTTTAAGTC-TCAATGGCGAACCTTA-TACCTCAG-AGACATGAAGGGAAAGAT
* * * * * *
21029930 TTAAGTCGCAATGACAAACCTTGTACCTTA-GAA-ACA
63 TTAAGCCGCAACGGCGAATCTAGTACC--ACGAAGACA
* * * * * * *
21029966 TGAAGGGAAAGGTGTAAGTCACAACGGCGAACCTTGTACCTCA-AAAGCATAAAGGAAAAGATTT
1 TGAAGGGAAAGGTTTAAGTCTCAATGGCGAACCTTATACCTCAGAGA-CATGAAGGGAAAGATTT
21030030 AAGCCGCAACGGCGAATCTAGTACCACGAAGACA
65 AAGCCGCAACGGCGAATCTAGTACCACGAAGACA
* * * * *
21030064 TGAAGGGAAAGATTTAAG-CTGCAATGGCGAATC-TAGTACCAC-GAAGATATGAAGGGAAAGGT
1 TGAAGGGAAAGGTTTAAGTCT-CAATGGCGAACCTTA-TACCTCAG-AGACATGAAGGGAAAGAT
* * * * * * *
21030126 TTAAGTCGCAACAGCGAACCTTGTACCTCAAAAACA
63 TTAAGCCGCAACGGCGAATCTAGTACCACGAAGACA
* ** * *
21030162 TGAAGGGAAAGATTTAAACCGCAATGGCGAATCC--AGTACCAC-GAAGACATGAAGGGAAAGAT
1 TGAAGGGAAAGGTTTAAGTCTCAATGGCGAA-CCTTA-TACCTCAG-AGACATGAAGGGAAAGAT
* * * ** *
21030224 TTAAGCCGTAATGACGAATCTAGTACCGTGAAGATA
63 TTAAGCCGCAACGGCGAATCTAGTACCACGAAGACA
* * * * * * * *
21030260 TGGAGGGAAAAGTTTAAGTCGCAATGGCGAACCTTGTATCTCAGAAACATGAAGGGAAATATTGA
1 TGAAGGGAAAGGTTTAAGTCTCAATGGCGAACCTTATACCTCAGAGACATGAAGGGAAAGATTTA
*
21030325 AGCCACAACGGCGAATCTAGTACCACGAAGACA
66 AGCCGCAACGGCGAATCTAGTACCACGAAGACA
* * *
21030358 TAAAGGGAAATGTTTAAGT-TGCAATGGTGAACCTTATACCTCAGAGACATGAAGGGAAAGATTT
1 TGAAGGGAAAGGTTTAAGTCT-CAATGGCGAACCTTATACCTCAGAGACATGAAGGGAAAGATTT
**
21030422 AAGCTACAACGGCGAATCTAGTACCACGAAGACA
65 AAGCCGCAACGGCGAATCTAGTACCACGAAGACA
** * * * * * *
21030456 CAAAGGGAAAGGTTTAAGTCTTAATGGTGAACCTTATACCTTAGA-AGCATGAAAGGAAAAACTT
1 TGAAGGGAAAGGTTTAAGTCTCAATGGCGAACCTTATACCTCAGAGA-CATGAAGGGAAAGATTT
*
21030520 AAGCCGCAACGGCGAATTTAGTACCA
65 AAGCCGCAACGGCGAATCTAGTACCA
21030546 TGCAGATTGA
Statistics
Matches: 540, Mismatches: 115, Indels: 47
0.77 0.16 0.07
Matches are distributed among these distances:
96 1 0.00
97 10 0.02
98 487 0.90
99 37 0.07
100 5 0.01
ACGTcount: A:0.39, C:0.17, G:0.24, T:0.20
Consensus pattern (98 bp):
TGAAGGGAAAGGTTTAAGTCTCAATGGCGAACCTTATACCTCAGAGACATGAAGGGAAAGATTTA
AGCCGCAACGGCGAATCTAGTACCACGAAGACA
Found at i:21030699 original size:28 final size:28
Alignment explanation
Indices: 21030636--21030743 Score: 128
Period size: 28 Copynumber: 3.9 Consensus size: 28
21030626 GATACAGGTC
* * **
21030636 AAGCTCTACCTGAGCTAT-AAGAGGTCA
1 AAGCTCTACCCGAGCTATAAATAAATCA
*
21030663 AAGCTCTACCCAAGCTATAAATAAATCA
1 AAGCTCTACCCGAGCTATAAATAAATCA
** * *
21030691 AAGCTCTACTTGAGTTATAAACAAATCA
1 AAGCTCTACCCGAGCTATAAATAAATCA
21030719 AAGCTCTACCCGAGCTATAAATAAA
1 AAGCTCTACCCGAGCTATAAATAAA
21030744 GTATCGCTCT
Statistics
Matches: 66, Mismatches: 14, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
27 16 0.24
28 50 0.76
ACGTcount: A:0.42, C:0.22, G:0.13, T:0.23
Consensus pattern (28 bp):
AAGCTCTACCCGAGCTATAAATAAATCA
Found at i:21034557 original size:169 final size:172
Alignment explanation
Indices: 21034248--21034572 Score: 414
Period size: 169 Copynumber: 1.9 Consensus size: 172
21034238 GAGAGTAAAA
*
21034248 TTTTGAGGGAAAGTAAATAGGGAGAGTAAAATTTTGGAGGGAAAATAATAAAAAAATTGGGAGGA
1 TTTTGAGGGAAAATAAATAGGGAGAGTAAAATTTTGGAGGGAAAATAATAAAAAAATTGGGAGGA
* * * * ****
21034313 GGGAATGGGTTTAGGGTAGATGGAGGGTTGGATGGGAGGGGTGTAAAAGTTTTAGGAGGAAAGTG
66 GGAAATGAGTTTAGGGTAGATGGAGGGATGAATGGGAGAAAAGTAAAAGTTTTAGGAGGAAAGTG
* *
21034378 AGAGAGAGTAAAAGTTTTGGGAGGAAAATAAAGAGTTTTAAGGG
131 AGAAAGAGTAAAAATTTT--GAGGAAAATAAAGAGTTTTAAGGG
* * *
21034422 TTTTG-GGGAAAATAAAT-GGGGGTGTAAAATTTTGGAGGGAAAATATTAAAAAAATT-GG-GG-
1 TTTTGAGGGAAAATAAATAGGGAGAGTAAAATTTTGGAGGGAAAATAATAAAAAAATTGGGAGGA
*
21034482 GGAAATGAGTTTGGGGTAGATGG-GGGATGAAATGGGAGAAAAGTAAAAGTTTTGAGG-GGAAAG
66 GGAAATGAGTTTAGGGTAGATGGAGGGATG-AATGGGAGAAAAGTAAAAGTTTT-AGGAGGAAAG
21034545 T-AGGAAAGAGTAAAAATTTTGAGGAAAA
129 TGA-GAAAGAGTAAAAATTTTGAGGAAAA
21034573 AGTAAAAGGG
Statistics
Matches: 133, Mismatches: 15, Indels: 13
0.83 0.09 0.08
Matches are distributed among these distances:
167 8 0.06
168 6 0.05
169 60 0.45
170 5 0.04
171 2 0.02
172 36 0.27
173 11 0.08
174 5 0.04
ACGTcount: A:0.39, C:0.00, G:0.37, T:0.24
Consensus pattern (172 bp):
TTTTGAGGGAAAATAAATAGGGAGAGTAAAATTTTGGAGGGAAAATAATAAAAAAATTGGGAGGA
GGAAATGAGTTTAGGGTAGATGGAGGGATGAATGGGAGAAAAGTAAAAGTTTTAGGAGGAAAGTG
AGAAAGAGTAAAAATTTTGAGGAAAATAAAGAGTTTTAAGGG
Found at i:21034575 original size:30 final size:29
Alignment explanation
Indices: 21034519--21034576 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 29
21034509 TGAAATGGGA
* **
21034519 GAAAAGTAAAAGTTTTGAGGGGAAAGTAG
1 GAAAAGTAAAAATTTTGAGGAAAAAGTAG
21034548 GAAAGAGTAAAAATTTTGAGGAAAAAGTA
1 GAAA-AGTAAAAATTTTGAGGAAAAAGTA
21034577 AAAGGGTTCG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 4 0.16
30 21 0.84
ACGTcount: A:0.50, C:0.00, G:0.29, T:0.21
Consensus pattern (29 bp):
GAAAAGTAAAAATTTTGAGGAAAAAGTAG
Found at i:21039985 original size:20 final size:21
Alignment explanation
Indices: 21039960--21040002 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
21039950 GGAGGAGAGT
* *
21039960 GGGAAAGACTA-AAAGTTTTG
1 GGGAAAGAATACAAAGGTTTG
21039980 GGGAAAGAATACAAAGGTTTG
1 GGGAAAGAATACAAAGGTTTG
21040001 GG
1 GG
21040003 AGTTTGGGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.40, C:0.05, G:0.35, T:0.21
Consensus pattern (21 bp):
GGGAAAGAATACAAAGGTTTG
Found at i:21042803 original size:14 final size:15
Alignment explanation
Indices: 21042774--21042807 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
21042764 GAAGACAGAG
21042774 ACAAA-AGCAAAGAA
1 ACAAATAGCAAAGAA
21042788 ACAAATAGCAAA-AA
1 ACAAATAGCAAAGAA
21042802 ACAAAT
1 ACAAAT
21042808 CACCATGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 13 0.68
15 6 0.32
ACGTcount: A:0.71, C:0.15, G:0.09, T:0.06
Consensus pattern (15 bp):
ACAAATAGCAAAGAA
Found at i:21043648 original size:21 final size:21
Alignment explanation
Indices: 21043622--21043669 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
21043612 AACTAACAAA
**
21043622 AAGTACCAAAGTACTTATTAG
1 AAGTACCAAAGTACTTAACAG
21043643 AAGTACCAAAGTACTTAACAG
1 AAGTACCAAAGTACTTAACAG
21043664 AAGTAC
1 AAGTAC
21043670 ATAACTGCTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.46, C:0.17, G:0.15, T:0.23
Consensus pattern (21 bp):
AAGTACCAAAGTACTTAACAG
Found at i:21043715 original size:23 final size:23
Alignment explanation
Indices: 21043689--21043742 Score: 90
Period size: 23 Copynumber: 2.3 Consensus size: 23
21043679 GGGGAAACAA
**
21043689 AAGCACACACAGTTTTGAACAGT
1 AAGCACACACAGTGCTGAACAGT
21043712 AAGCACACACAGTGCTGAACAGT
1 AAGCACACACAGTGCTGAACAGT
21043735 AAGCACAC
1 AAGCACAC
21043743 TAGCGTTCCT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.41, C:0.26, G:0.19, T:0.15
Consensus pattern (23 bp):
AAGCACACACAGTGCTGAACAGT
Found at i:21046402 original size:30 final size:31
Alignment explanation
Indices: 21046359--21046417 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
21046349 CAGTTTTTTT
*
21046359 AATTAAACCCCTTTTATTTTTTTATTTTTCA
1 AATTAAACCCCTTTTATTTTATTATTTTTCA
* *
21046390 AATTAAA-TCCTTTTATTTTATTCTTTTT
1 AATTAAACCCCTTTTATTTTATTATTTTT
21046418 GAAAATTTCC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 18 0.72
31 7 0.28
ACGTcount: A:0.25, C:0.14, G:0.00, T:0.61
Consensus pattern (31 bp):
AATTAAACCCCTTTTATTTTATTATTTTTCA
Found at i:21046424 original size:31 final size:31
Alignment explanation
Indices: 21046359--21046424 Score: 80
Period size: 30 Copynumber: 2.1 Consensus size: 31
21046349 CAGTTTTTTT
* *
21046359 AATTAAACCCCTTTTATTTTTTTATTTTTCA
1 AATTAAACCCCTTTTATTTTATTATTTTTAA
* *
21046390 AATTAAA-TCCTTTTATTTTATTCTTTTTGAA
1 AATTAAACCCCTTTTATTTTATTATTTTT-AA
21046421 AATT
1 AATT
21046425 TCCCTTTACA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 18 0.60
31 12 0.40
ACGTcount: A:0.29, C:0.12, G:0.02, T:0.58
Consensus pattern (31 bp):
AATTAAACCCCTTTTATTTTATTATTTTTAA
Found at i:21050433 original size:21 final size:21
Alignment explanation
Indices: 21050409--21050457 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
21050399 CCTATGACAG
* *
21050409 TTCTACCGATACAAGTAAAGC
1 TTCTACCGAAACAAATAAAGC
* *
21050430 TTCTACCGAAACAAATTATGC
1 TTCTACCGAAACAAATAAAGC
21050451 TTCTACC
1 TTCTACC
21050458 AGTACTAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.35, C:0.27, G:0.10, T:0.29
Consensus pattern (21 bp):
TTCTACCGAAACAAATAAAGC
Found at i:21054457 original size:22 final size:21
Alignment explanation
Indices: 21054398--21054462 Score: 67
Period size: 22 Copynumber: 3.0 Consensus size: 21
21054388 TTTATCCAAA
* *
21054398 AAAAAGAAAAAAAAAGGAAGAC
1 AAAAAGAAAAAAAGA-GAAAAC
*
21054420 AAAAAGGAAAATAAGAGAAAAC
1 AAAAA-GAAAAAAAGAGAAAAC
*
21054442 AAGAAAGAAAAAAAGAAAAAA
1 AA-AAAGAAAAAAAGAGAAAA
21054463 GGAAAGGTTG
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
22 25 0.69
23 11 0.31
ACGTcount: A:0.78, C:0.03, G:0.17, T:0.02
Consensus pattern (21 bp):
AAAAAGAAAAAAAGAGAAAAC
Found at i:21055349 original size:49 final size:49
Alignment explanation
Indices: 21055290--21056050 Score: 562
Period size: 49 Copynumber: 15.6 Consensus size: 49
21055280 CCTGAAAACA
* * *
21055290 TGAAGGGAAAGATTGAAGTCGAAATGGCAAATCTTGTACCCTAGAGATG
1 TGAAGGGAAAGATTGAAGCCGCAATGGCGAATCTTGTACCCTAGAGATG
* * * * * *
21055339 TGAAGGGAAAGATTGAACCCGCAATGGTGATTCTTATACCTTAGATATG
1 TGAAGGGAAAGATTGAAGCCGCAATGGCGAATCTTGTACCCTAGAGATG
* * * * * *
21055388 TGACGGGAAAGGTTGAAGCCGCAACGACGAATCTTGTACCCTAAAGATA
1 TGAAGGGAAAGATTGAAGCCGCAATGGCGAATCTTGTACCCTAGAGATG
* * * * * * *
21055437 TGGAGGGAAAGATTGAAGCCGCAACGACAAACCTTGTACCTTAGAGATA
1 TGAAGGGAAAGATTGAAGCCGCAATGGCGAATCTTGTACCCTAGAGATG
* * * * ** * * *
21055486 TGATGAGAAAGATTGAAGTCGTAACAGCGAATCTTGCACCTTAAAGATG
1 TGAAGGGAAAGATTGAAGCCGCAATGGCGAATCTTGTACCCTAGAGATG
* * *
21055535 TG-ATGGAAAGATTGAAGCCGCAATGACGAATCTTGTACCCTAGAGATA
1 TGAAGGGAAAGATTGAAGCCGCAATGGCGAATCTTGTACCCTAGAGATG
* * * * * * * * *
21055583 TGGAGGGAAAGGTTGAAGTCGAAACGGTGAACCTTATACCATAGAGATG
1 TGAAGGGAAAGATTGAAGCCGCAATGGCGAATCTTGTACCCTAGAGATG
* * * *
21055632 T-AGAGGGAAAGGTTGAAGCCGCAATGGTGAACCTTGTACCTTAGAGATG
1 TGA-AGGGAAAGATTGAAGCCGCAATGGCGAATCTTGTACCCTAGAGATG
* * * * *
21055681 TGATGGGAATA-ATTAAAGCCGCAACGGCGAATCTTGTACCCTAGATATA
1 TGAAGGGAA-AGATTGAAGCCGCAATGGCGAATCTTGTACCCTAGAGATG
* * * * * ** * *
21055730 TGGAGGGAACTG-TTAAAGTCGCGATAACGAA-CGTTATCCCCTAGAGATG
1 TGAAGGGAA-AGATTGAAGCCGCAATGGCGAATC-TTGTACCCTAGAGATG
* * * * * *
21055779 TGGAGGGAAAGGTTGAAGCCGCAACGGCGAACCTTATACCTTAGAGATG
1 TGAAGGGAAAGATTGAAGCCGCAATGGCGAATCTTGTACCCTAGAGATG
* * * * * * *
21055828 TTATGAGAAAGATTGAAGCTGCAATGACGAATCTTATACCCTAAAGATG
1 TGAAGGGAAAGATTGAAGCCGCAATGGCGAATCTTGTACCCTAGAGATG
* * * * * * *
21055877 TGAAGGGAAAGAATAAAGCTGCAATGGCAAACCTCGTACCTTAGAGATG
1 TGAAGGGAAAGATTGAAGCCGCAATGGCGAATCTTGTACCCTAGAGATG
* * * * * * * *
21055926 TGATGGGAAAGAATGAAGCGGCAACGACGAATCTTATAACCTAGAGATA
1 TGAAGGGAAAGATTGAAGCCGCAATGGCGAATCTTGTACCCTAGAGATG
* ** * * * *
21055975 TGGAGGGAAAGATTGAAGCCATAACT-GCAAACCTTATACCTTAGAGATG
1 TGAAGGGAAAGATTGAAGCCGCAA-TGGCGAATCTTGTACCCTAGAGATG
*
21056024 TGAAGGGAAAGATTAAAGCCGCAATGG
1 TGAAGGGAAAGATTGAAGCCGCAATGG
21056051 TAAATTTTAT
Statistics
Matches: 550, Mismatches: 152, Indels: 20
0.76 0.21 0.03
Matches are distributed among these distances:
48 39 0.07
49 508 0.92
50 3 0.01
ACGTcount: A:0.35, C:0.16, G:0.27, T:0.22
Consensus pattern (49 bp):
TGAAGGGAAAGATTGAAGCCGCAATGGCGAATCTTGTACCCTAGAGATG
Found at i:21057068 original size:4 final size:4
Alignment explanation
Indices: 21057059--21057131 Score: 110
Period size: 4 Copynumber: 18.0 Consensus size: 4
21057049 TTGCGATTTT
*
21057059 CATA CATA CATA CATA CATA CATA CATG CATA CATA CATA CAATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA C-ATA CATA
* *
21057108 CAAA CATA CATA TATA CATA CATA
1 CATA CATA CATA CATA CATA CATA
21057132 TATTTTTCTC
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
4 58 0.94
5 4 0.06
ACGTcount: A:0.51, C:0.23, G:0.01, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:21058099 original size:30 final size:31
Alignment explanation
Indices: 21058049--21058120 Score: 94
Period size: 30 Copynumber: 2.4 Consensus size: 31
21058039 TTTATGCAAT
*
21058049 TTTTTTAAATTAAACCCCTTTTATTTT-TTC
1 TTTTTCAAATTAAACCCCTTTTATTTTATTC
*
21058079 ATTTTTCAAATTAAA-TCCTTTTATTTTATTC
1 -TTTTTCAAATTAAACCCCTTTTATTTTATTC
*
21058110 TTTTTGAAATT
1 TTTTTCAAATT
21058121 TTCCCTTTAC
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
30 21 0.57
31 16 0.43
ACGTcount: A:0.26, C:0.12, G:0.01, T:0.60
Consensus pattern (31 bp):
TTTTTCAAATTAAACCCCTTTTATTTTATTC
Found at i:21069712 original size:27 final size:25
Alignment explanation
Indices: 21069647--21069747 Score: 121
Period size: 25 Copynumber: 4.0 Consensus size: 25
21069637 ATAATATGAT
21069647 TCTGGCTCGTAAGAGTGTAATTCTG
1 TCTGGCTCGTAAGAGTGTAATTCTG
* *
21069672 TCTGGCTCGTAAGAGCGCAATTCTG
1 TCTGGCTCGTAAGAGTGTAATTCTG
**
21069697 ATTCTGGCTCACAAGAGTGTAATTCTG
1 --TCTGGCTCGTAAGAGTGTAATTCTG
* **
21069724 TCTGGCTTGTAAGAGAATAATTCT
1 TCTGGCTCGTAAGAGTGTAATTCT
21069748 AATTCTAGCT
Statistics
Matches: 63, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
25 42 0.67
27 21 0.33
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.34
Consensus pattern (25 bp):
TCTGGCTCGTAAGAGTGTAATTCTG
Found at i:21069721 original size:52 final size:52
Alignment explanation
Indices: 21069643--21069791 Score: 174
Period size: 52 Copynumber: 2.9 Consensus size: 52
21069633 GAAAATAATA
* *
21069643 TGATTCTGGCTCGTAAGAGTGTAATTCTGTCTGGCTCGTAAGAGCGCAATTC
1 TGATTCTGGCTCATAAGAGTGTAATTCTGTCTGGCTCGTAAGAGCACAATTC
* * * *
21069695 TGATTCTGGCTCACAAGAGTGTAATTCTGTCTGGCTTGTAAGAGAATAATTC
1 TGATTCTGGCTCATAAGAGTGTAATTCTGTCTGGCTCGTAAGAGCACAATTC
* * * * * *
21069747 TAATTCTAGCTCATAA-AATCATAATTTTGTCTAGCTCGTAAGAGC
1 TGATTCTGGCTCATAAGAGT-GTAATTCTGTCTGGCTCGTAAGAGC
21069792 TAAACTCTAT
Statistics
Matches: 81, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
51 2 0.02
52 79 0.98
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.34
Consensus pattern (52 bp):
TGATTCTGGCTCATAAGAGTGTAATTCTGTCTGGCTCGTAAGAGCACAATTC
Found at i:21070868 original size:21 final size:22
Alignment explanation
Indices: 21070842--21070971 Score: 93
Period size: 23 Copynumber: 5.6 Consensus size: 22
21070832 ATACAGAAAA
*
21070842 AACAGAGAGTAC-CAAAGTACT
1 AACAGAGAGCACACAAAGTACT
* **
21070863 AACAGAGAGCACA-TAAGTGTT
1 AACAGAGAGCACACAAAGTACT
* *
21070884 GGGCAACAGAGAGCACACACAGTGCT
1 ----AACAGAGAGCACACAAAGTACT
*
21070910 AAACAGAGAGTACACAAAGTACT
1 -AACAGAGAGCACACAAAGTACT
*
21070933 AATCAGAGAGCACACATAGTACTAAT
1 AA-CAGAGAGCACACAAAGTAC---T
21070959 AACAGAGAGCACA
1 AACAGAGAGCACA
21070972 AGACGTGCTA
Statistics
Matches: 86, Mismatches: 13, Indels: 16
0.75 0.11 0.14
Matches are distributed among these distances:
21 16 0.19
22 2 0.02
23 36 0.42
25 24 0.28
26 8 0.09
ACGTcount: A:0.45, C:0.20, G:0.22, T:0.13
Consensus pattern (22 bp):
AACAGAGAGCACACAAAGTACT
Found at i:21070914 original size:23 final size:23
Alignment explanation
Indices: 21070888--21070971 Score: 105
Period size: 23 Copynumber: 3.6 Consensus size: 23
21070878 AGTGTTGGGC
* *
21070888 AACAGAGAGCACACACAGTGCTA
1 AACAGAGAGCACACAAAGTACTA
*
21070911 AACAGAGAGTACACAAAGTACTA
1 AACAGAGAGCACACAAAGTACTA
* *
21070934 ATCAGAGAGCACACATAGTACTAA
1 AACAGAGAGCACACAAAGTACT-A
21070958 TAACAGAGAGCACA
1 -AACAGAGAGCACA
21070972 AGACGTGCTA
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
23 39 0.75
24 1 0.02
25 12 0.23
ACGTcount: A:0.48, C:0.21, G:0.19, T:0.12
Consensus pattern (23 bp):
AACAGAGAGCACACAAAGTACTA
Found at i:21070963 original size:71 final size:69
Alignment explanation
Indices: 21070841--21070991 Score: 180
Period size: 71 Copynumber: 2.2 Consensus size: 69
21070831 TATACAGAAA
* ** **
21070841 AAACAGAGAGTACCAAAGTACTAACAGAGAGCACATAAGTGTTGGGCAACAGAGAGCAC-ACACA
1 AAACAGAGAGTACCAAAGTACTAACAGAGAGCACACAAGTACTGAACAACAGAGAGCACAACAC-
21070905 GTGCT
65 GTGCT
* *
21070910 AAACAGAGAGTACACAAAGTACTAATCAGAGAGCACACATAGTACT-AATAACAGAGAGCACAAG
1 AAACAGAGAGTAC-CAAAGTACTAA-CAGAGAGCACACA-AGTACTGAACAACAGAGAGCACAAC
21070974 ACGTGCT
63 ACGTGCT
*
21070981 AAACAGTGAGT
1 AAACAGAGAGT
21070992 GCGCTAGTGT
Statistics
Matches: 70, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
69 13 0.19
70 11 0.16
71 39 0.56
72 7 0.10
ACGTcount: A:0.44, C:0.19, G:0.23, T:0.14
Consensus pattern (69 bp):
AAACAGAGAGTACCAAAGTACTAACAGAGAGCACACAAGTACTGAACAACAGAGAGCACAACACG
TGCT
Found at i:21070985 original size:23 final size:21
Alignment explanation
Indices: 21070841--21070986 Score: 87
Period size: 23 Copynumber: 6.3 Consensus size: 21
21070831 TATACAGAAA
*
21070841 AAACAGAGAGTACCAAAGTACT
1 AAACAGAGAGCA-CAAAGTACT
**
21070863 -AACAGAGAGCACATAAGTGTT
1 AAACAGAGAGCACA-AAGTACT
* *
21070884 GGGCAACAGAGAGCACACACAGTGCT
1 ---AAACAGAGAGCACA-A-AGTACT
21070910 AAACAGAGAGTACACAAAGTACT
1 AAACAGAGAG--CACAAAGTACT
*
21070933 AATCAGAGAGCACACATAGTACT
1 AAACAGAGAGCACA-A-AGTACT
*
21070956 AATAACAGAGAGCACAAGACGTGCT
1 -A-AACAGAGAGCACAA-A-GTACT
21070981 AAACAG
1 AAACAG
21070987 TGAGTGCGCT
Statistics
Matches: 100, Mismatches: 11, Indels: 25
0.74 0.08 0.18
Matches are distributed among these distances:
20 2 0.02
21 19 0.19
22 1 0.01
23 34 0.34
24 5 0.05
25 34 0.34
26 5 0.05
ACGTcount: A:0.45, C:0.20, G:0.22, T:0.13
Consensus pattern (21 bp):
AAACAGAGAGCACAAAGTACT
Found at i:21087997 original size:28 final size:28
Alignment explanation
Indices: 21087956--21088115 Score: 143
Period size: 28 Copynumber: 5.6 Consensus size: 28
21087946 TTTGGGGTCA
*
21087956 AAAATGGAATTTTTGGATA-TTCGGGGGT
1 AAAATGGTATTTTTGGA-AGTTCGGGGGT
* *
21087984 AAAATGGTGATTTTTGAAAAGTTC-AGGGT
1 AAAATGGT-ATTTTTG-GAAGTTCGGGGGT
*
21088013 CAAAAATGATATTTTTGGATA-TTCGGGGGT
1 --AAAATGGTATTTTTGGA-AGTTCGGGGGT
21088043 AAAATGGTATTTTTGGAAGTTCGGGGG-
1 AAAATGGTATTTTTGGAAGTTCGGGGGT
* * *
21088070 GAAAT-GTAATTTTGGAAGTTTGGGGGT
1 AAAATGGTATTTTTGGAAGTTCGGGGGT
21088097 AAAAAT-GTAATTTTTGGAA
1 -AAAATGGT-ATTTTTGGAA
21088116 AGTTTAGGGT
Statistics
Matches: 109, Mismatches: 12, Indels: 21
0.77 0.08 0.15
Matches are distributed among these distances:
26 19 0.17
27 5 0.05
28 37 0.34
29 25 0.23
30 16 0.15
31 7 0.06
ACGTcount: A:0.31, C:0.03, G:0.30, T:0.36
Consensus pattern (28 bp):
AAAATGGTATTTTTGGAAGTTCGGGGGT
Found at i:21088125 original size:29 final size:29
Alignment explanation
Indices: 21087925--21088258 Score: 194
Period size: 29 Copynumber: 11.5 Consensus size: 29
21087915 CTTCGAGGCT
* *
21087925 AAAATGGTAATTTTT-GAAGGATTTGGGGTCA
1 AAAAT-GTAATTTTTGGAAAG-TTTAGGGT-A
* * **
21087956 AAAATGGAATTTTTGGATA-TTCGGGGGT-
1 AAAATGTAATTTTTGGAAAGTT-TAGGGTA
* * *
21087984 AAAATGGTGATTTTTGAAAAGTTCAGGGTCA
1 AAAAT-GTAATTTTTGGAAAGTTTAGGGT-A
* **
21088015 AAAATG-ATATTTTTGGATA-TTCGGGGGT-
1 AAAATGTA-ATTTTTGGAAAGTT-TAGGGTA
* **
21088043 AAAATGGT-ATTTTTGG-AAG-TTCGGGGG
1 AAAAT-GTAATTTTTGGAAAGTTTAGGGTA
* *
21088070 GAAATGTAA-TTTTGG-AAGTTTGGGGGTA
1 AAAATGTAATTTTTGGAAAGTTT-AGGGTA
21088098 AAAATGTAATTTTTGGAAAGTTTAGGGTTA
1 AAAATGTAATTTTTGGAAAGTTTAGGG-TA
* *
21088128 AAAATGTAATTTTAGG-GAGTTTGAGGGTA
1 AAAATGTAATTTTTGGAAAGTTT-AGGGTA
* *
21088157 AAAATGTAATTTTTGGAAAGTTTGGGGTC
1 AAAATGTAATTTTTGGAAAGTTTAGGGTA
* **
21088186 AAGATGTAA-TTTTACAAAGTTTAAGGGTA
1 AAAATGTAATTTTTGGAAAGTTT-AGGGTA
* *
21088215 AAAATGTAATTTTTGTG-AA-TTCGAGGGTC
1 AAAATGTAATTTTTG-GAAAGTT-TAGGGTA
21088244 AAAATGTAATTTTTG
1 AAAATGTAATTTTTG
21088259 AAAACTTCAG
Statistics
Matches: 238, Mismatches: 41, Indels: 50
0.72 0.12 0.15
Matches are distributed among these distances:
26 14 0.06
27 9 0.04
28 40 0.17
29 96 0.40
30 67 0.28
31 12 0.05
ACGTcount: A:0.33, C:0.03, G:0.28, T:0.37
Consensus pattern (29 bp):
AAAATGTAATTTTTGGAAAGTTTAGGGTA
Found at i:21088158 original size:59 final size:58
Alignment explanation
Indices: 21087925--21088256 Score: 247
Period size: 59 Copynumber: 5.7 Consensus size: 58
21087915 CTTCGAGGCT
* * * * *
21087925 AAAATGGTAATTTTT-GAAGGATTTGGGGTCAAAAATGGAATTTTTGGATA-TTCGGGGGT-
1 AAAAT-GTAATTTTTGGAAAG-TTTGGGGT-AAAAATGTAATTTTAGGA-AGTTTGAGGGTA
* * ** * * *
21087984 AAAATGGTGATTTTTGAAAAGTTCAGGGTCAAAAATG-ATATTTTTGGATA-TTCGGGGGT-
1 AAAAT-GTAATTTTTGGAAAGTTTGGGGT-AAAAATGTA-ATTTTAGGA-AGTTTGAGGGTA
* ** *
21088043 AAAATGGT-ATTTTTGG-AAGTTCGGGG-GGAAATGTAATTTT-GGAAGTTTGGGGGTA
1 AAAAT-GTAATTTTTGGAAAGTTTGGGGTAAAAATGTAATTTTAGGAAGTTTGAGGGTA
* *
21088098 AAAATGTAATTTTTGGAAAGTTTAGGGTTAAAAATGTAATTTTAGGGAGTTTGAGGGTA
1 AAAATGTAATTTTTGGAAAGTTT-GGGGTAAAAATGTAATTTTAGGAAGTTTGAGGGTA
* * ** *
21088157 AAAATGTAATTTTTGGAAAGTTTGGGGTCAAGATGTAATTTTACAAAGTTTAAGGGTA
1 AAAATGTAATTTTTGGAAAGTTTGGGGTAAAAATGTAATTTTAGGAAGTTTGAGGGTA
* *
21088215 AAAATGTAATTTTTGTG-AA-TTCGAGGGTCAAAATGTAATTTT
1 AAAATGTAATTTTTG-GAAAGTTTG-GGGTAAAAATGTAATTTT
21088257 TGAAAACTTC
Statistics
Matches: 236, Mismatches: 25, Indels: 25
0.83 0.09 0.09
Matches are distributed among these distances:
53 1 0.00
54 13 0.06
55 23 0.10
56 6 0.03
57 15 0.06
58 82 0.35
59 93 0.39
60 3 0.01
ACGTcount: A:0.33, C:0.03, G:0.28, T:0.36
Consensus pattern (58 bp):
AAAATGTAATTTTTGGAAAGTTTGGGGTAAAAATGTAATTTTAGGAAGTTTGAGGGTA
Found at i:21088220 original size:87 final size:88
Alignment explanation
Indices: 21088071--21088258 Score: 249
Period size: 87 Copynumber: 2.2 Consensus size: 88
21088061 GTTCGGGGGG
**
21088071 AAATGTAA-TTTTGGAAGTTTGGGGGTAAAAATGTAATTTTTGGAAAGTTTAGGGTTAAAAATGT
1 AAATGTAATTTTTGGAAGTTTGGGGGTAAAAATGTAATTTTTACAAAGTTTAGGGTTAAAAATGT
* *
21088135 AATTTTAGGGAGTTTGAGGGTAA
66 AATTTTAGGGAATTCGAGGGTAA
* *
21088158 AAATGTAATTTTTGGAAAGTTT-GGGGTCAAGATGTAA-TTTTACAAAGTTTAAGGG-TAAAAAT
1 AAATGTAATTTTTGG-AAGTTTGGGGGTAAAAATGTAATTTTTACAAAGTTT-AGGGTTAAAAAT
* * *
21088220 GTAATTTTTGTGAATTCGAGGGTCA
64 GTAATTTTAGGGAATTCGAGGGTAA
21088245 AAATGTAATTTTTG
1 AAATGTAATTTTTG
21088259 AAAACTTCAG
Statistics
Matches: 89, Mismatches: 9, Indels: 6
0.86 0.09 0.06
Matches are distributed among these distances:
87 60 0.67
88 23 0.26
89 6 0.07
ACGTcount: A:0.35, C:0.02, G:0.26, T:0.38
Consensus pattern (88 bp):
AAATGTAATTTTTGGAAGTTTGGGGGTAAAAATGTAATTTTTACAAAGTTTAGGGTTAAAAATGT
AATTTTAGGGAATTCGAGGGTAA
Found at i:21092726 original size:83 final size:83
Alignment explanation
Indices: 21092554--21092719 Score: 218
Period size: 83 Copynumber: 2.0 Consensus size: 83
21092544 GAATAAAAAT
* * *
21092554 TTAAATCGAATAAATCTGTTTCGTGATTTATTCCCGCCGTTTAACAGATTTCATTATATTTTGAT
1 TTAAATTGAATAAATCTGTTTCGGGATTTATTCCCGCCGTTCAACAGATTT-ATTATATTTTGAT
*
21092619 TTTGTTTCCAAAACAAGAA
65 TTGGTTTCCAAAACAAGAA
* *
21092638 -TAAATTGAATAAATCTTTTTCGGGATTTATTCCCGCTGTTCAACAGA-TT-TTAT-TTTT-ATT
1 TTAAATTGAATAAATCTGTTTCGGGATTTATTCCCGCCGTTCAACAGATTTATTATATTTTGATT
21092698 TGGTTTCC-AAACAAAGAA
66 TGGTTTCCAAAAC-AAGAA
21092716 TTAA
1 TTAA
21092720 TTAAATTCTG
Statistics
Matches: 74, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
77 4 0.05
78 15 0.20
79 7 0.09
80 4 0.05
82 2 0.03
83 42 0.57
ACGTcount: A:0.31, C:0.14, G:0.12, T:0.42
Consensus pattern (83 bp):
TTAAATTGAATAAATCTGTTTCGGGATTTATTCCCGCCGTTCAACAGATTTATTATATTTTGATT
TGGTTTCCAAAACAAGAA
Found at i:21094349 original size:30 final size:29
Alignment explanation
Indices: 21094309--21094416 Score: 137
Period size: 30 Copynumber: 3.7 Consensus size: 29
21094299 AAATCATCCC
*
21094309 ACAACTACTTGAAAATGTGGGGGGTATCAT
1 ACAACCACTTGAAAATGTGGGGGGTATC-T
21094339 ACAACCACTTGAAAATGTGGGGGGTATGCT
1 ACAACCACTTGAAAATGTGGGGGGTAT-CT
* * *
21094369 ACAACCACTTGAAAATGTGGAAGTGT-CCT
1 ACAACCACTTGAAAATGTGG-GGGGTATCT
*
21094398 ATAACCACTTGAAAATGTG
1 ACAACCACTTGAAAATGTG
21094417 AGGCACCTTG
Statistics
Matches: 71, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
29 20 0.28
30 47 0.66
31 4 0.06
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.25
Consensus pattern (29 bp):
ACAACCACTTGAAAATGTGGGGGGTATCT
Found at i:21095883 original size:19 final size:19
Alignment explanation
Indices: 21095859--21095897 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
21095849 TTTTATTTTG
21095859 TTTTTCACTCT-TGAAATTT
1 TTTTTCACTCTCT-AAATTT
*
21095878 TTTTTCTCTCTCTAAATTT
1 TTTTTCACTCTCTAAATTT
21095897 T
1 T
21095898 CCAACGTTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 17 0.94
20 1 0.06
ACGTcount: A:0.18, C:0.18, G:0.03, T:0.62
Consensus pattern (19 bp):
TTTTTCACTCTCTAAATTT
Found at i:21100911 original size:22 final size:22
Alignment explanation
Indices: 21100885--21100954 Score: 85
Period size: 22 Copynumber: 3.3 Consensus size: 22
21100875 GAATTGGATG
21100885 AATTAAGTGTGAAATTGATAGA
1 AATTAAGTGTGAAATTGATAGA
*
21100907 AATTAAGT-CG-AATTAGAT-G-
1 AATTAAGTGTGAAATT-GATAGA
*
21100926 AATTAAGTGTGAAATTAATAGA
1 AATTAAGTGTGAAATTGATAGA
21100948 AATTAAG
1 AATTAAG
21100955 ACTAGATTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
19 8 0.20
20 8 0.20
21 9 0.22
22 15 0.38
ACGTcount: A:0.47, C:0.01, G:0.20, T:0.31
Consensus pattern (22 bp):
AATTAAGTGTGAAATTGATAGA
Found at i:21100926 original size:41 final size:41
Alignment explanation
Indices: 21100875--21100954 Score: 142
Period size: 41 Copynumber: 2.0 Consensus size: 41
21100865 ACATTGTTGA
* *
21100875 GAATTGGATGAATTAAGTGTGAAATTGATAGAAATTAAGTC
1 GAATTAGATGAATTAAGTGTGAAATTAATAGAAATTAAGTC
21100916 GAATTAGATGAATTAAGTGTGAAATTAATAGAAATTAAG
1 GAATTAGATGAATTAAGTGTGAAATTAATAGAAATTAAG
21100955 ACTAGATTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.45, C:0.01, G:0.23, T:0.31
Consensus pattern (41 bp):
GAATTAGATGAATTAAGTGTGAAATTAATAGAAATTAAGTC
Found at i:21101166 original size:26 final size:26
Alignment explanation
Indices: 21101115--21101166 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
21101105 TATTAGCACC
* *
21101115 ATATTTTAATTATCAAAATAATTTAT
1 ATATGTTAATTATCAAAATAAGTTAT
* *
21101141 ATATGTTAATTATCTAAATTAGTTAT
1 ATATGTTAATTATCAAAATAAGTTAT
21101167 TATTTTGAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.50
Consensus pattern (26 bp):
ATATGTTAATTATCAAAATAAGTTAT
Found at i:21110766 original size:29 final size:29
Alignment explanation
Indices: 21110733--21110791 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
21110723 TCCACCTTGA
* * *
21110733 CACGAATTCTCAATGAACAAGTTCTTCAC
1 CACGAACTCTCAACGAACAAGTTCTCCAC
21110762 CACGAACTCTCAACGAACAAGTTCTCCAC
1 CACGAACTCTCAACGAACAAGTTCTCCAC
21110791 C
1 C
21110792 TCTTCCACGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.34, C:0.34, G:0.10, T:0.22
Consensus pattern (29 bp):
CACGAACTCTCAACGAACAAGTTCTCCAC
Found at i:21111116 original size:16 final size:16
Alignment explanation
Indices: 21111095--21111125 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
21111085 TTCACTATTA
*
21111095 TGTCTTTTATATTTTT
1 TGTCTTTCATATTTTT
21111111 TGTCTTTCATATTTT
1 TGTCTTTCATATTTT
21111126 GCATGCATAG
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:0.13, C:0.10, G:0.06, T:0.71
Consensus pattern (16 bp):
TGTCTTTCATATTTTT
Found at i:21112429 original size:37 final size:35
Alignment explanation
Indices: 21112366--21112434 Score: 86
Period size: 37 Copynumber: 1.9 Consensus size: 35
21112356 ATTCCAAAAA
21112366 TAATATTATTTTAATAGTTTAATATTAAATTTAATT
1 TAATATTATTTTAATAGTTTAATATT-AATTTAATT
* *
21112402 TAATACTTATTTTAATCGTATT-TTATTAATTTA
1 TAATA-TTATTTTAATAGT-TTAATATTAATTTA
21112435 TTATTAAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
36 11 0.38
37 16 0.55
38 2 0.07
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (35 bp):
TAATATTATTTTAATAGTTTAATATTAATTTAATT
Found at i:21115043 original size:21 final size:21
Alignment explanation
Indices: 21114995--21115043 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
21114985 AGAGTTTTTA
*
21114995 GTATCGATAGAAGCATGACAT
1 GTATCGGTAGAAGCATGACAT
* *
21115016 GTTTCGGTAGAAGTCAT-ACTT
1 GTATCGGTAGAAG-CATGACAT
21115037 GTATCGG
1 GTATCGG
21115044 CAATATTGTC
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 20 0.87
22 3 0.13
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.31
Consensus pattern (21 bp):
GTATCGGTAGAAGCATGACAT
Found at i:21123621 original size:3 final size:3
Alignment explanation
Indices: 21123610--21123649 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
21123600 ACCACCACCA
*
21123610 TCT TTT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
21123650 TGATGTTGGC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (3 bp):
TCT
Found at i:21126807 original size:20 final size:19
Alignment explanation
Indices: 21126778--21126820 Score: 50
Period size: 22 Copynumber: 2.1 Consensus size: 19
21126768 AACAGAAGAG
*
21126778 AAAGAAAATAAAAAGAAAGTTA
1 AAAGAATAT-AAAA-AAA-TTA
21126800 AAAGAATATAAAAAAATTA
1 AAAGAATATAAAAAAATTA
21126819 AA
1 AA
21126821 TTACTTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 5 0.25
20 3 0.15
21 4 0.20
22 8 0.40
ACGTcount: A:0.74, C:0.00, G:0.09, T:0.16
Consensus pattern (19 bp):
AAAGAATATAAAAAAATTA
Found at i:21129736 original size:30 final size:30
Alignment explanation
Indices: 21129702--21129762 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
21129692 ACAAAAACAA
*
21129702 ATAACTTAGCATATATATGCAAATGAAGTC
1 ATAACTTAGCATACATATGCAAATGAAGTC
* *
21129732 ATAACTTAGCATGCGTATGCAAATGAAGTC
1 ATAACTTAGCATACATATGCAAATGAAGTC
21129762 A
1 A
21129763 ACATTGAGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.28
Consensus pattern (30 bp):
ATAACTTAGCATACATATGCAAATGAAGTC
Found at i:21131062 original size:16 final size:18
Alignment explanation
Indices: 21131043--21131082 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 18
21131033 TAAATGATTT
21131043 TTTTATTAA-TTTTT-AA
1 TTTTATTAACTTTTTGAA
*
21131059 TTTT-TAAACTTTTTGAA
1 TTTTATTAACTTTTTGAA
21131076 TTTTATT
1 TTTTATT
21131083 TAACAATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 4
0.76 0.08 0.16
Matches are distributed among these distances:
15 3 0.16
16 9 0.47
17 6 0.32
18 1 0.05
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.68
Consensus pattern (18 bp):
TTTTATTAACTTTTTGAA
Found at i:21131335 original size:26 final size:26
Alignment explanation
Indices: 21131297--21131447 Score: 185
Period size: 26 Copynumber: 5.8 Consensus size: 26
21131287 AAGATAGTCA
* * *
21131297 AATCAATTAGTCAAATTAGTTAATAG
1 AATCAGTTGGTCAAATCAGTTAATAG
*
21131323 AATCAGTTGGTCAAATTAGTTAATAG
1 AATCAGTTGGTCAAATCAGTTAATAG
* * *
21131349 AATCAATTGGTCAAATTAATTAATAG
1 AATCAGTTGGTCAAATCAGTTAATAG
* * *
21131375 AATTAGTTGATTAAATCAGTTAATAG
1 AATCAGTTGGTCAAATCAGTTAATAG
* *
21131401 AATAAGTTGGTCAAATCAATTAATAG
1 AATCAGTTGGTCAAATCAGTTAATAG
*
21131427 AATCAGTTGATCAAATCAGTT
1 AATCAGTTGGTCAAATCAGTT
21131448 TGTAACACCT
Statistics
Matches: 108, Mismatches: 17, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 108 1.00
ACGTcount: A:0.43, C:0.08, G:0.15, T:0.34
Consensus pattern (26 bp):
AATCAGTTGGTCAAATCAGTTAATAG
Found at i:21131362 original size:52 final size:52
Alignment explanation
Indices: 21131297--21131447 Score: 223
Period size: 52 Copynumber: 2.9 Consensus size: 52
21131287 AAGATAGTCA
* * * *
21131297 AATCAATTAGTCAAATTAGTTAATAGAATCAGTTGGTCAAATTAGTTAATAG
1 AATCAATTGGTCAAATTAATTAATAGAATCAGTTGATCAAATCAGTTAATAG
* *
21131349 AATCAATTGGTCAAATTAATTAATAGAATTAGTTGATTAAATCAGTTAATAG
1 AATCAATTGGTCAAATTAATTAATAGAATCAGTTGATCAAATCAGTTAATAG
*
21131401 AAT-AAGTTGGTCAAATCAATTAATAGAATCAGTTGATCAAATCAGTT
1 AATCAA-TTGGTCAAATTAATTAATAGAATCAGTTGATCAAATCAGTT
21131448 TGTAACACCT
Statistics
Matches: 89, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
51 2 0.02
52 87 0.98
ACGTcount: A:0.43, C:0.08, G:0.15, T:0.34
Consensus pattern (52 bp):
AATCAATTGGTCAAATTAATTAATAGAATCAGTTGATCAAATCAGTTAATAG
Found at i:21141021 original size:21 final size:21
Alignment explanation
Indices: 21140990--21141041 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
21140980 ATTTTTTAGA
* * *
21140990 ATCGATAGAAGCATGATTTGT
1 ATCGGTAGAAGCATCACTTGT
* *
21141011 TTCGGTAGAAGCTTCACTTGT
1 ATCGGTAGAAGCATCACTTGT
21141032 ATCGGTAGAA
1 ATCGGTAGAA
21141042 CTGTCATAAG
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.29, C:0.13, G:0.25, T:0.33
Consensus pattern (21 bp):
ATCGGTAGAAGCATCACTTGT
Found at i:21146213 original size:31 final size:30
Alignment explanation
Indices: 21146136--21146263 Score: 116
Period size: 31 Copynumber: 4.2 Consensus size: 30
21146126 TTAATGTCCT
* * *
21146136 TTAAAATTTATGAAGATTTTAATTAGGCCC
1 TTAAAATTTTTGAAAATTTTAATTAAGCCC
* * * *
21146166 TGAAAA-TTTTGTAAATTATCATTAAGCCTC
1 TTAAAATTTTTGAAAATTTTAATTAAGCC-C
* *
21146196 TTAAAATTTTTGAAAATTTTAACTAAGCCT
1 TTAAAATTTTTGAAAATTTTAATTAAGCCC
*
21146226 TTCAAAATTTTTAAAAATTCTT-ATTAAGCCC
1 TT-AAAATTTTTGAAAATT-TTAATTAAGCCC
21146257 TCTAAAA
1 T-TAAAA
21146264 GTAAAAAAAT
Statistics
Matches: 77, Mismatches: 16, Indels: 9
0.75 0.16 0.09
Matches are distributed among these distances:
29 16 0.21
30 13 0.17
31 45 0.58
32 3 0.04
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.41
Consensus pattern (30 bp):
TTAAAATTTTTGAAAATTTTAATTAAGCCC
Found at i:21148764 original size:32 final size:35
Alignment explanation
Indices: 21148725--21148791 Score: 95
Period size: 32 Copynumber: 2.0 Consensus size: 35
21148715 TTCATTTTTA
*
21148725 AAAATAATTATAAT-ATT-TA-ATTTAAAATTAAT
1 AAAATAATTATAATAATTATACATTTAAAAATAAT
*
21148757 AAAATAATTGTAATAATTATACATTTAAAAATAAT
1 AAAATAATTATAATAATTATACATTTAAAAATAAT
21148792 TATAAATTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
32 13 0.43
33 3 0.10
34 2 0.07
35 12 0.40
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.40
Consensus pattern (35 bp):
AAAATAATTATAATAATTATACATTTAAAAATAAT
Found at i:21155132 original size:20 final size:19
Alignment explanation
Indices: 21155102--21155166 Score: 69
Period size: 19 Copynumber: 3.3 Consensus size: 19
21155092 ATTACAAAAA
*
21155102 AAAATTAATTTTCAAAAATTG
1 AAAA-TAATTTT-AAAAATTC
*
21155123 AAAATAATTTTTAAAATTC
1 AAAATAATTTTAAAAATTC
21155142 AAAAT-ATTTATAAAAATTC
1 AAAATAATTT-TAAAAATTC
21155161 TAAAAT
1 -AAAAT
21155167 TTGTATTTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
18 4 0.10
19 19 0.49
20 12 0.31
21 4 0.10
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.38
Consensus pattern (19 bp):
AAAATAATTTTAAAAATTC
Found at i:21155432 original size:23 final size:23
Alignment explanation
Indices: 21155388--21155433 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
21155378 TTGTAACAAG
* *
21155388 ATTTTAATTTAACATTATTAATT
1 ATTTTAATTTAACATAAATAATT
21155411 ATTTTAATTTAAC-TCAAATAATT
1 ATTTTAATTTAACAT-AAATAATT
21155434 TCACTCGATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 1 0.05
23 19 0.95
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (23 bp):
ATTTTAATTTAACATAAATAATT
Found at i:21158710 original size:22 final size:22
Alignment explanation
Indices: 21158685--21158752 Score: 82
Period size: 22 Copynumber: 3.0 Consensus size: 22
21158675 TGCACTAATG
*
21158685 AACGGAGAGAACAAAGGTGCTA
1 AACGGAGAGAACAAACGTGCTA
* *
21158707 AACGGAAAGCACAAACGTGCTA
1 AACGGAGAGAACAAACGTGCTA
* *
21158729 AACGGAGAGCACTAAACGTACTA
1 AACGGAGAGAAC-AAACGTGCTA
21158752 A
1 A
21158753 TAAACGAATA
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
22 30 0.75
23 10 0.25
ACGTcount: A:0.46, C:0.19, G:0.25, T:0.10
Consensus pattern (22 bp):
AACGGAGAGAACAAACGTGCTA
Found at i:21163029 original size:21 final size:21
Alignment explanation
Indices: 21163003--21163046 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
21162993 CTAATTTAAT
21163003 TTTTATTAGTTC-TTTATTTTA
1 TTTTATTA-TTCGTTTATTTTA
21163024 TTTTATTATTCGTTTATTTTA
1 TTTTATTATTCGTTTATTTTA
21163045 TT
1 TT
21163047 AATTTTAATC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 3 0.14
21 19 0.86
ACGTcount: A:0.18, C:0.05, G:0.05, T:0.73
Consensus pattern (21 bp):
TTTTATTATTCGTTTATTTTA
Found at i:21165699 original size:23 final size:22
Alignment explanation
Indices: 21165654--21165723 Score: 61
Period size: 23 Copynumber: 2.9 Consensus size: 22
21165644 TTACTTTAGC
21165654 CAAAAAGAGAGAAAT-AGTGAAAAA
1 CAAAAAGA-A-AAATGAGT-AAAAA
21165678 TCAAAAAGAAAAATGAGTAAAAA
1 -CAAAAAGAAAAATGAGTAAAAA
21165701 CAAAAGAGGAAAATCATGAGTAA
1 CAAAA-A-GAAAA--ATGAGTAA
21165724 GAAAGTATAT
Statistics
Matches: 40, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
22 5 0.12
23 10 0.25
24 9 0.22
25 8 0.20
26 8 0.20
ACGTcount: A:0.64, C:0.06, G:0.19, T:0.11
Consensus pattern (22 bp):
CAAAAAGAAAAATGAGTAAAAA
Found at i:21175018 original size:19 final size:19
Alignment explanation
Indices: 21174984--21175022 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
21174974 CTTACAACTA
21174984 AACGTGACCTTAAATAAGTT
1 AACGTGACCTTAAAT-AGTT
*
21175004 AACGT-ACCTTTAATAGTT
1 AACGTGACCTTAAATAGTT
21175022 A
1 A
21175023 TTGAGCTCAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 8 0.44
20 5 0.28
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.33
Consensus pattern (19 bp):
AACGTGACCTTAAATAGTT
Done.