Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 40 of 345
Found at i:11414250 original size:52 final size:54
Alignment explanation
Indices: 11414131--11414243 Score: 212
Period size: 54 Copynumber: 2.1 Consensus size: 54
11414121 ATGGTAAGGG
11414131 TTAATTTTAATTTTTGAATATTATTTAATATTTTTTTCATTTATGTAATTTTAA
1 TTAATTTTAATTTTTGAATATTATTTAATATTTTTTTCATTTATGTAATTTTAA
11414185 TTAATTTTAATTTTTGAATATTATTTAATA-TTTTTT-ATTTATGTAATTTTAA
1 TTAATTTTAATTTTTGAATATTATTTAATATTTTTTTCATTTATGTAATTTTAA
11414237 TTAATTT
1 TTAATTT
11414244 GTATTTTATA
Statistics
Matches: 59, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
52 23 0.39
53 6 0.10
54 30 0.51
ACGTcount: A:0.32, C:0.01, G:0.04, T:0.64
Consensus pattern (54 bp):
TTAATTTTAATTTTTGAATATTATTTAATATTTTTTTCATTTATGTAATTTTAA
Found at i:11415004 original size:15 final size:15
Alignment explanation
Indices: 11414984--11415013 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
11414974 TAACGAGGTA
11414984 AATTTTTTATTTGAT
1 AATTTTTTATTTGAT
11414999 AATTTTTTATTTGAT
1 AATTTTTTATTTGAT
11415014 TTTATAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (15 bp):
AATTTTTTATTTGAT
Found at i:11417926 original size:14 final size:14
Alignment explanation
Indices: 11417907--11417938 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
11417897 AGGTCATTTA
11417907 GCCCAACCAAACTG
1 GCCCAACCAAACTG
11417921 GCCCAACCAAACTG
1 GCCCAACCAAACTG
11417935 GCCC
1 GCCC
11417939 GGTGATTAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.31, C:0.47, G:0.16, T:0.06
Consensus pattern (14 bp):
GCCCAACCAAACTG
Found at i:11423022 original size:14 final size:14
Alignment explanation
Indices: 11423003--11423034 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
11422993 AGGTCATTTA
11423003 GCCCAACCAAACTG
1 GCCCAACCAAACTG
11423017 GCCCAACCAAACTG
1 GCCCAACCAAACTG
11423031 GCCC
1 GCCC
11423035 GGTGATTGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.31, C:0.47, G:0.16, T:0.06
Consensus pattern (14 bp):
GCCCAACCAAACTG
Found at i:11424977 original size:35 final size:34
Alignment explanation
Indices: 11424916--11425014 Score: 92
Period size: 35 Copynumber: 2.8 Consensus size: 34
11424906 TATATCTGAG
* * *
11424916 TATACAATTTCAATATAAGTTCACATGTAATCGAA
1 TATACAAATTCAATATAACTT-ACATGTAACCGAA
* *
11424951 TACTA-AAATTCAATATAACCTTACATGCAGCCGAA
1 TA-TACAAATTCAATATAA-CTTACATGTAACCGAA
* *
11424986 TATACAAGTTCAATAGAAGCTTACATGTA
1 TATACAAATTCAATATAA-CTTACATGTA
11425015 CTTACCTATG
Statistics
Matches: 52, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
34 2 0.04
35 46 0.88
36 4 0.08
ACGTcount: A:0.42, C:0.17, G:0.10, T:0.30
Consensus pattern (34 bp):
TATACAAATTCAATATAACTTACATGTAACCGAA
Found at i:11425711 original size:24 final size:24
Alignment explanation
Indices: 11425679--11425728 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
11425669 ATGGGTAAAT
*
11425679 TACCATTTTACCCTTAATATTTCA
1 TACCATTTTACCCCTAATATTTCA
11425703 TACCATTTTACCCCTAATATTTCA
1 TACCATTTTACCCCTAATATTTCA
11425727 TA
1 TA
11425729 GTTTTACAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.30, C:0.26, G:0.00, T:0.44
Consensus pattern (24 bp):
TACCATTTTACCCCTAATATTTCA
Found at i:11431107 original size:81 final size:81
Alignment explanation
Indices: 11430970--11431131 Score: 315
Period size: 81 Copynumber: 2.0 Consensus size: 81
11430960 CTGACAAGGT
11430970 CACCTAATCCAATACTCTCTCCTTCTAACAACCCTATGAATAGCTCACCCCATACTAGCATGTCT
1 CACCTAATCCAATACTCTCTCCTTCTAACAACCCTATGAATAGCTCACCCCATACTAGCATGTCT
11431035 AATCTGTCCCCTCACC
66 AATCTGTCCCCTCACC
*
11431051 CACCTAATCCAATACTCTCTCCTTCTAACAACCCTATGAATAGCTCACCCCGTACTAGCATGTCT
1 CACCTAATCCAATACTCTCTCCTTCTAACAACCCTATGAATAGCTCACCCCATACTAGCATGTCT
11431116 AATCTGTCCCCTCACC
66 AATCTGTCCCCTCACC
11431132 TACCCCTACT
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
81 80 1.00
ACGTcount: A:0.27, C:0.40, G:0.07, T:0.27
Consensus pattern (81 bp):
CACCTAATCCAATACTCTCTCCTTCTAACAACCCTATGAATAGCTCACCCCATACTAGCATGTCT
AATCTGTCCCCTCACC
Found at i:11432848 original size:8 final size:8
Alignment explanation
Indices: 11432835--11432874 Score: 53
Period size: 8 Copynumber: 4.8 Consensus size: 8
11432825 AATAAAGGTG
11432835 GTTAGTCT
1 GTTAGTCT
11432843 GTTAGTCT
1 GTTAGTCT
*
11432851 GTTAGCTACA
1 GTTAG-T-CT
11432861 GTTAGTCT
1 GTTAGTCT
11432869 GTTAGT
1 GTTAGT
11432875 TAATATCTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
8 20 0.71
9 2 0.07
10 6 0.21
ACGTcount: A:0.17, C:0.12, G:0.25, T:0.45
Consensus pattern (8 bp):
GTTAGTCT
Found at i:11433347 original size:34 final size:33
Alignment explanation
Indices: 11433309--11433425 Score: 126
Period size: 34 Copynumber: 3.4 Consensus size: 33
11433299 AAACACTAAT
* *
11433309 CCCTAATTTGATTTATTTATTTAAAACCCTTAAA
1 CCCTAATTT-ATTTATTTATTTAAAAACCATAAA
*
11433343 CCCTAATTTACTTAATTTATTTAAAAACCATAAA
1 CCCTAATTTA-TTTATTTATTTAAAAACCATAAA
* * *
11433377 CCCTAATTTAATTATTTTTTATAAAATAACACTAAA
1 CCCTAATTTATTTATTTATT-TAAAA-ACCA-TAAA
*
11433413 TCCTAATTTATTT
1 CCCTAATTTATTT
11433426 TTAAAATCCA
Statistics
Matches: 70, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
33 8 0.11
34 44 0.63
35 3 0.04
36 15 0.21
ACGTcount: A:0.39, C:0.16, G:0.01, T:0.44
Consensus pattern (33 bp):
CCCTAATTTATTTATTTATTTAAAAACCATAAA
Found at i:11433515 original size:33 final size:35
Alignment explanation
Indices: 11433439--11433516 Score: 106
Period size: 34 Copynumber: 2.3 Consensus size: 35
11433429 AAATCCACTA
*
11433439 AAACCTTAAATCCTAACTTATTTTAACAAAAACAT
1 AAACCTTAAATCCTAAATTATTTTAACAAAAACAT
* * *
11433474 AAACCTTAAA-CCTAAATTATTTTAGCAAAACCCT
1 AAACCTTAAATCCTAAATTATTTTAACAAAAACAT
11433508 AAA-CTTAAA
1 AAACCTTAAA
11433517 AACCCAAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
33 6 0.15
34 23 0.59
35 10 0.26
ACGTcount: A:0.49, C:0.21, G:0.01, T:0.29
Consensus pattern (35 bp):
AAACCTTAAATCCTAAATTATTTTAACAAAAACAT
Found at i:11434592 original size:19 final size:20
Alignment explanation
Indices: 11434568--11434610 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
11434558 ATTTCATTAA
11434568 TTTAAATAATGTT-AATT-TT
1 TTTAAA-AATGTTAAATTATT
*
11434587 TTTAAAAATTTTAAATTATT
1 TTTAAAAATGTTAAATTATT
11434607 TTTA
1 TTTA
11434611 TTGTGTCAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 5 0.24
19 10 0.48
20 6 0.29
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (20 bp):
TTTAAAAATGTTAAATTATT
Found at i:11435168 original size:17 final size:17
Alignment explanation
Indices: 11435146--11435178 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
11435136 TGTGAACGGG
11435146 TAAAGATTGCATCCTAC
1 TAAAGATTGCATCCTAC
*
11435163 TAAAGATTGTATCCTA
1 TAAAGATTGCATCCTA
11435179 GTATCACACG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.33
Consensus pattern (17 bp):
TAAAGATTGCATCCTAC
Found at i:11435924 original size:32 final size:32
Alignment explanation
Indices: 11435875--11435954 Score: 110
Period size: 32 Copynumber: 2.5 Consensus size: 32
11435865 CATTTAATAA
11435875 GTTTGCATATTTAATTATGACTTGCATTATAT
1 GTTTGCATATTTAATTATGACTTGCATTATAT
* * *
11435907 GTTTGCATCTTTGATTATGACTTGCATTATGT
1 GTTTGCATATTTAATTATGACTTGCATTATAT
11435939 GTTCTGC--ATTTAATTA
1 GTT-TGCATATTTAATTA
11435955 AGTCATGCAT
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
31 7 0.17
32 32 0.76
33 3 0.07
ACGTcount: A:0.24, C:0.11, G:0.15, T:0.50
Consensus pattern (32 bp):
GTTTGCATATTTAATTATGACTTGCATTATAT
Found at i:11436102 original size:49 final size:48
Alignment explanation
Indices: 11435996--11436102 Score: 119
Period size: 49 Copynumber: 2.2 Consensus size: 48
11435986 AATGTATGTG
*
11435996 TTTTAATTATGTCATGTATTAAGTAGCTTCTATGTCAATTAAGTTGCA
1 TTTTAATTATGTCATGTATTAAGTAACTTCTATGTCAATTAAGTTGCA
* * * *
11436044 TATTAAATTATGTCATGTATTATGTAACTCATTTAT-TC-ATTTAGTTTGCA
1 T-TTTAATTATGTCATGTATTAAGTAACT--TCTATGTCAATTAAG-TTGCA
11436094 TTTTAATTA
1 TTTTAATTA
11436103 AACCATGCAT
Statistics
Matches: 49, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
48 1 0.02
49 36 0.73
50 8 0.16
51 4 0.08
ACGTcount: A:0.30, C:0.09, G:0.11, T:0.50
Consensus pattern (48 bp):
TTTTAATTATGTCATGTATTAAGTAACTTCTATGTCAATTAAGTTGCA
Found at i:11437375 original size:5 final size:5
Alignment explanation
Indices: 11437365--11437400 Score: 58
Period size: 5 Copynumber: 7.6 Consensus size: 5
11437355 AAATAGAAAG
11437365 ATTTT ATTTT A--TT ATTTT ATTTT ATTTT ATTTT ATT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATT
11437401 AATTTAGGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
3 3 0.10
5 26 0.90
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (5 bp):
ATTTT
Found at i:11437406 original size:18 final size:18
Alignment explanation
Indices: 11437367--11437406 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
11437357 ATAGAAAGAT
*
11437367 TTTATTTTATTATTTTAT
1 TTTATTTTATTATTTTAA
11437385 TTTATTTTATT-TTATTAA
1 TTTATTTTATTATT-TTAA
11437403 TTTA
1 TTTA
11437407 GGTTAAGCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 2 0.10
18 18 0.90
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (18 bp):
TTTATTTTATTATTTTAA
Found at i:11440704 original size:39 final size:39
Alignment explanation
Indices: 11440649--11440794 Score: 220
Period size: 39 Copynumber: 3.7 Consensus size: 39
11440639 TTCCAACCCA
* * *
11440649 AATGCCTTCGGAACTTAGCCTGGATATAACATCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAATATCAGCACG
* * *
11440688 AATGCCTTTGGGACTTAGCCCAGATATAATATCAGTACG
1 AATGCCTTCGGGACTTAGCCCGGATATAATATCAGCACG
* *
11440727 AATGCCTTCGGGACTTAGCCCGGATATAATACCAGCAGG
1 AATGCCTTCGGGACTTAGCCCGGATATAATATCAGCACG
11440766 AATGCCTTCGGGACTTAGCCCGGATATAA
1 AATGCCTTCGGGACTTAGCCCGGATATAA
11440795 ATCTCACACA
Statistics
Matches: 96, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 96 1.00
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.24
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCGGATATAATATCAGCACG
Found at i:11443614 original size:14 final size:13
Alignment explanation
Indices: 11443585--11443629 Score: 51
Period size: 12 Copynumber: 3.6 Consensus size: 13
11443575 AGTGGGTAGA
11443585 AATAATATT-A-T
1 AATAATATTAAGT
11443596 AATAATATTAAAGT
1 AATAATATT-AAGT
*
11443610 TATAATA-TAAGT
1 AATAATATTAAGT
11443622 AATAATAT
1 AATAATAT
11443630 GTATATATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
11 9 0.32
12 10 0.36
13 2 0.07
14 7 0.25
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (13 bp):
AATAATATTAAGT
Found at i:11444904 original size:100 final size:100
Alignment explanation
Indices: 11444731--11444923 Score: 226
Period size: 100 Copynumber: 1.9 Consensus size: 100
11444721 ATCTTGTATT
* * *
11444731 TATTCGGCCACATAGGTATGTACATATGTGAAGTTATATTGGATCTTGAATATTCGACCATGAAG
1 TATTCGGCCACATAGGTAAGTACATAGGTGAAGTTAAATTGGATCTTGAATATTCGACCATGAAG
11444796 GTATGCACAAAAGTGATATTATATTTGAATTTGTA
66 GTATGCACAAAAGTGATATTATATTTGAATTTGTA
* * * * * * * **
11444831 TATTCGGCCATAT-GAGTAAGTACTTAGGTGATGTTAAATTTGATCTTGCATATTTGGCCATTTA
1 TATTCGGCCACATAG-GTAAGTACATAGGTGAAGTTAAATTGGATCTTGAATATTCGACCATGAA
*** *
11444895 GGTATGCACATTTGTGATATTATCTTTGA
65 GGTATGCACAAAAGTGATATTATATTTGA
11444924 TTCTCTATAA
Statistics
Matches: 76, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
99 1 0.01
100 75 0.99
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (100 bp):
TATTCGGCCACATAGGTAAGTACATAGGTGAAGTTAAATTGGATCTTGAATATTCGACCATGAAG
GTATGCACAAAAGTGATATTATATTTGAATTTGTA
Found at i:11444946 original size:100 final size:100
Alignment explanation
Indices: 11444758--11444947 Score: 220
Period size: 100 Copynumber: 1.9 Consensus size: 100
11444748 ATGTACATAT
*
11444758 GTGAAGTTATATTGGATCTTGAATATTCGACCATGAAGGTATGCACAAAAGTGATATTATATTTG
1 GTGAAGTTAAATTGGATCTTGAATATTCGACCATGAAGGTATGCACAAAAGTGATATTATATTTG
* * * *
11444823 AATTTGTATATTCGGCCATATGAGTAAGTACTTAG
66 AATTTCTATAATCGACCAAATGAGTAAGTACTTAG
* * * * * ** *** *
11444858 GTGATGTTAAATTTGATCTTGCATATTTGGCCATTTAGGTATGCACATTTGTGATATTATCTTTG
1 GTGAAGTTAAATTGGATCTTGAATATTCGACCATGAAGGTATGCACAAAAGTGATATTATATTTG
11444923 -ATTCTCTATAATCGACCAAATGAGT
66 AATT-TCTATAATCGACCAAATGAGT
11444948 GATGTTGGCT
Statistics
Matches: 73, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
99 3 0.04
100 70 0.96
ACGTcount: A:0.30, C:0.12, G:0.19, T:0.39
Consensus pattern (100 bp):
GTGAAGTTAAATTGGATCTTGAATATTCGACCATGAAGGTATGCACAAAAGTGATATTATATTTG
AATTTCTATAATCGACCAAATGAGTAAGTACTTAG
Found at i:11454097 original size:35 final size:35
Alignment explanation
Indices: 11454048--11454117 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 35
11454038 AACTTTTCTG
11454048 CAAGAACATCCAAGTGCACAAGATGGAAAAATTAA
1 CAAGAACATCCAAGTGCACAAGATGGAAAAATTAA
* * *
11454083 CAAGAACATTCAAGTGCACGAGATGGAAAACTTAA
1 CAAGAACATCCAAGTGCACAAGATGGAAAAATTAA
11454118 GTCTCAATGA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.49, C:0.17, G:0.19, T:0.16
Consensus pattern (35 bp):
CAAGAACATCCAAGTGCACAAGATGGAAAAATTAA
Found at i:11455549 original size:5 final size:5
Alignment explanation
Indices: 11455535--11455577 Score: 77
Period size: 5 Copynumber: 8.6 Consensus size: 5
11455525 AAATAGAAAG
*
11455535 ATTTT ATTTT GTTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATT
11455578 AATTTAGGTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
5 36 1.00
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (5 bp):
ATTTT
Found at i:11455881 original size:16 final size:17
Alignment explanation
Indices: 11455851--11455882 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
11455841 AAGCATGAAC
11455851 AATTTCATGCTTAGCTA
1 AATTTCATGCTTAGCTA
11455868 AATTTCAT-CTTAGCT
1 AATTTCATGCTTAGCT
11455883 TTAGGCCGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.28, C:0.19, G:0.09, T:0.44
Consensus pattern (17 bp):
AATTTCATGCTTAGCTA
Found at i:11458644 original size:28 final size:28
Alignment explanation
Indices: 11458597--11458661 Score: 105
Period size: 28 Copynumber: 2.3 Consensus size: 28
11458587 AAAGTAACCC
*
11458597 TAGGGGTATAGAGGTCATTTTGCATACA
1 TAGGGGTATAGAGGTAATTTTGCATACA
11458625 TAGGGGTATA-ATGGTAATTTTGCATACA
1 TAGGGGTATAGA-GGTAATTTTGCATACA
11458653 TAGGGGTAT
1 TAGGGGTAT
11458662 TCTAGCACAT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 1 0.03
28 34 0.97
ACGTcount: A:0.29, C:0.08, G:0.29, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAGAGGTAATTTTGCATACA
Found at i:11458906 original size:8 final size:8
Alignment explanation
Indices: 11458880--11458909 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
11458870 TAAAATACTA
11458880 GCTTTTCG
1 GCTTTTCG
*
11458888 GCATTTCG
1 GCTTTTCG
11458896 GCTTTTCG
1 GCTTTTCG
11458904 GCTTTT
1 GCTTTT
11458910 ACCGATCTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.03, C:0.23, G:0.23, T:0.50
Consensus pattern (8 bp):
GCTTTTCG
Found at i:11466287 original size:28 final size:26
Alignment explanation
Indices: 11466245--11466334 Score: 74
Period size: 28 Copynumber: 3.2 Consensus size: 26
11466235 GTGACAGAGT
*
11466245 CACCAGATATAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAG-GC
**
11466274 CATCC-GAACAGATATACGTGGCAAGGC
1 CA-CCAGAACAGATATTTGTGGC-AGGC
*
11466301 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGAT-ATTTGTGGCA-GGC
11466329 CACCAG
1 CACCAG
11466335 GACGCTTCCT
Statistics
Matches: 50, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
26 2 0.04
27 19 0.38
28 23 0.46
29 4 0.08
30 2 0.04
ACGTcount: A:0.32, C:0.23, G:0.23, T:0.21
Consensus pattern (26 bp):
CACCAGAACAGATATTTGTGGCAGGC
Found at i:11466487 original size:28 final size:28
Alignment explanation
Indices: 11466440--11466504 Score: 105
Period size: 28 Copynumber: 2.3 Consensus size: 28
11466430 AAATTAACCT
*
11466440 TAGGGGTATAGAGGTCATTTTGCATACA
1 TAGGGGTATAGAGGTAATTTTGCATACA
11466468 TAGGGGTATA-ATGGTAATTTTGCATACA
1 TAGGGGTATAGA-GGTAATTTTGCATACA
11466496 TAGGGGTAT
1 TAGGGGTAT
11466505 TCTAGTACAT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 1 0.03
28 34 0.97
ACGTcount: A:0.29, C:0.08, G:0.29, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAGAGGTAATTTTGCATACA
Found at i:11466744 original size:16 final size:15
Alignment explanation
Indices: 11466723--11466753 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
11466713 CAAATTACCA
11466723 GCTTTTCGACATTTTG
1 GCTTTTCGAC-TTTTG
11466739 GCTTTTCGACTTTTG
1 GCTTTTCGACTTTTG
11466754 CCGATCTAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.10, C:0.19, G:0.19, T:0.52
Consensus pattern (15 bp):
GCTTTTCGACTTTTG
Found at i:11471369 original size:15 final size:15
Alignment explanation
Indices: 11471349--11471381 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
11471339 TTGACATGTG
11471349 TATCTTTTTTTGAAA
1 TATCTTTTTTTGAAA
*
11471364 TATCTTTTTTTTAAA
1 TATCTTTTTTTGAAA
11471379 TAT
1 TAT
11471382 TTTGCTATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.27, C:0.06, G:0.03, T:0.64
Consensus pattern (15 bp):
TATCTTTTTTTGAAA
Found at i:11472225 original size:24 final size:24
Alignment explanation
Indices: 11472186--11472232 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
11472176 AAAAGAAGAA
11472186 ATTCAAGAATAAAAATAAATAAAG
1 ATTCAAGAATAAAAATAAATAAAG
11472210 ATTCAA-AATAATAAATAAATAAA
1 ATTCAAGAATAA-AAATAAATAAA
11472233 TAAAATGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 5 0.23
24 17 0.77
ACGTcount: A:0.68, C:0.04, G:0.04, T:0.23
Consensus pattern (24 bp):
ATTCAAGAATAAAAATAAATAAAG
Found at i:11477557 original size:21 final size:21
Alignment explanation
Indices: 11477519--11477559 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
11477509 TTGCCTAAGA
*
11477519 TGTGAATTGGACTGAATTGAG
1 TGTGAATTGGACTAAATTGAG
* *
11477540 TGTGAATTGTATTAAATTGA
1 TGTGAATTGGACTAAATTGA
11477560 TGCTAAATTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.32, C:0.02, G:0.27, T:0.39
Consensus pattern (21 bp):
TGTGAATTGGACTAAATTGAG
Found at i:11479869 original size:26 final size:24
Alignment explanation
Indices: 11479839--11479887 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
11479829 AATAAAAAAT
*
11479839 TTTAAAAATATAATAAATCAAATATA
1 TTTAAAAACATAA-AAA-CAAATATA
11479865 TTTAAAAACATAAAAACAAATAT
1 TTTAAAAACATAAAAACAAATAT
11479888 TAAAACAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.32
25 3 0.14
26 12 0.55
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (24 bp):
TTTAAAAACATAAAAACAAATATA
Found at i:11485678 original size:25 final size:25
Alignment explanation
Indices: 11485620--11485681 Score: 97
Period size: 25 Copynumber: 2.5 Consensus size: 25
11485610 GGCTCGCATG
* *
11485620 AGCTTCCCATTATGCAACCCGGATA
1 AGCTTCCCGTTATACAACCCGGATA
*
11485645 AGCTTCCCGTTATACAACCTGGATA
1 AGCTTCCCGTTATACAACCCGGATA
11485670 AGCTTCCCGTTA
1 AGCTTCCCGTTA
11485682 CATGGCTCAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (25 bp):
AGCTTCCCGTTATACAACCCGGATA
Found at i:11485714 original size:25 final size:25
Alignment explanation
Indices: 11485667--11485714 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
11485657 TACAACCTGG
* *
11485667 ATAAGCTTCCCGTTACATGGCTCAT
1 ATAAGCTTACCGTTACATAGCTCAT
* *
11485692 ATAAGCTTACTGTTATATAGCTC
1 ATAAGCTTACCGTTACATAGCTC
11485715 GAGAAAGGGC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.35
Consensus pattern (25 bp):
ATAAGCTTACCGTTACATAGCTCAT
Found at i:11486483 original size:15 final size:15
Alignment explanation
Indices: 11486463--11486493 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
11486453 CTATCATCTT
11486463 TAACTGCTAACAGAC
1 TAACTGCTAACAGAC
11486478 TAACTGCTAACAGAC
1 TAACTGCTAACAGAC
11486493 T
1 T
11486494 TACAACGGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.26, G:0.13, T:0.23
Consensus pattern (15 bp):
TAACTGCTAACAGAC
Found at i:11486527 original size:20 final size:20
Alignment explanation
Indices: 11486502--11486543 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
11486492 CTTACAACGG
*
11486502 TACAACGGTTTTGACTATAT
1 TACAACGGCTTTGACTATAT
*
11486522 TACAACTGCTTTGACTATAT
1 TACAACGGCTTTGACTATAT
11486542 TA
1 TA
11486544 ACTCTAACAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.40
Consensus pattern (20 bp):
TACAACGGCTTTGACTATAT
Found at i:11489944 original size:18 final size:18
Alignment explanation
Indices: 11489911--11489945 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
11489901 ACCAGCAGAT
* *
11489911 GGCATACTGACTTGTTGG
1 GGCATACTAACCTGTTGG
11489929 GGCATACTAACCTGTTG
1 GGCATACTAACCTGTTG
11489946 TGGAGAGTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.20, C:0.20, G:0.29, T:0.31
Consensus pattern (18 bp):
GGCATACTAACCTGTTGG
Found at i:11491203 original size:15 final size:15
Alignment explanation
Indices: 11491183--11491213 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
11491173 CTATCATCTT
11491183 TAACTGCTAACAGAC
1 TAACTGCTAACAGAC
11491198 TAACTGCTAACAGAC
1 TAACTGCTAACAGAC
11491213 T
1 T
11491214 TACAACGGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.26, G:0.13, T:0.23
Consensus pattern (15 bp):
TAACTGCTAACAGAC
Found at i:11491247 original size:20 final size:20
Alignment explanation
Indices: 11491222--11491263 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
11491212 CTTACAACGG
*
11491222 TACAACGGTTTTGACTATAT
1 TACAACGGCTTTGACTATAT
*
11491242 TACAACTGCTTTGACTATAT
1 TACAACGGCTTTGACTATAT
11491262 TA
1 TA
11491264 ACTCTAACTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.40
Consensus pattern (20 bp):
TACAACGGCTTTGACTATAT
Found at i:11491660 original size:27 final size:30
Alignment explanation
Indices: 11491594--11491678 Score: 93
Period size: 32 Copynumber: 2.8 Consensus size: 30
11491584 ATATATTTAA
*
11491594 ACCACAATTAAAATTTCATATATATAAATAT
1 ACCA-AATTAAAATTTCATATATACAAATAT
11491625 ACCAAATTAAAATTT-ATATATACAAATTACAT
1 ACCAAATTAAAATTTCATATATACAAA-T--AT
**
11491657 ATTAAATTAAAA-TTCATATATA
1 ACCAAATTAAAATTTCATATATA
11491679 ATTTTAAAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
29 10 0.21
30 12 0.26
31 6 0.13
32 19 0.40
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.36
Consensus pattern (30 bp):
ACCAAATTAAAATTTCATATATACAAATAT
Found at i:11495328 original size:44 final size:44
Alignment explanation
Indices: 11495265--11495354 Score: 180
Period size: 44 Copynumber: 2.0 Consensus size: 44
11495255 ATGTAAGCGG
11495265 AATCGCTATGAAACAAAAAACACCAAAGCAGATCTCAGACGTAA
1 AATCGCTATGAAACAAAAAACACCAAAGCAGATCTCAGACGTAA
11495309 AATCGCTATGAAACAAAAAACACCAAAGCAGATCTCAGACGTAA
1 AATCGCTATGAAACAAAAAACACCAAAGCAGATCTCAGACGTAA
11495353 AA
1 AA
11495355 AGGTTTAAAC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.51, C:0.22, G:0.13, T:0.13
Consensus pattern (44 bp):
AATCGCTATGAAACAAAAAACACCAAAGCAGATCTCAGACGTAA
Found at i:11496421 original size:17 final size:16
Alignment explanation
Indices: 11496399--11496435 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
11496389 ATATGTTTTC
11496399 TTTTTTATTCTTTTATT
1 TTTTTTATTC-TTTATT
*
11496416 TTTTTTGTTCTTTATT
1 TTTTTTATTCTTTATT
11496432 TTTT
1 TTTT
11496436 GTCTTTTTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.08, C:0.05, G:0.03, T:0.84
Consensus pattern (16 bp):
TTTTTTATTCTTTATT
Found at i:11496586 original size:19 final size:20
Alignment explanation
Indices: 11496555--11496594 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
11496545 ATAATTCACA
*
11496555 AAATAATATTTAAAATATAT
1 AAATAATATTTAAAAAATAT
11496575 AAATAA-ATTTAAAAAATAT
1 AAATAATATTTAAAAAATAT
11496594 A
1 A
11496595 TTCAAGGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (20 bp):
AAATAATATTTAAAAAATAT
Found at i:11498374 original size:15 final size:15
Alignment explanation
Indices: 11498356--11498387 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
11498346 TATTAGGGTT
11498356 AGATTTATAGTAAAA
1 AGATTTATAGTAAAA
11498371 AGATTTATAGTAAAA
1 AGATTTATAGTAAAA
11498386 AG
1 AG
11498388 TGAAAAATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.16, T:0.31
Consensus pattern (15 bp):
AGATTTATAGTAAAA
Found at i:11499883 original size:21 final size:21
Alignment explanation
Indices: 11499858--11499903 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
11499848 TGATAATTAA
11499858 CCAAATCAATTATCCATCTAG
1 CCAAATCAATTATCCATCTAG
11499879 CCAAATCAATTATCCATCTAG
1 CCAAATCAATTATCCATCTAG
11499900 CCAA
1 CCAA
11499904 TAAATGAACC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.39, C:0.30, G:0.04, T:0.26
Consensus pattern (21 bp):
CCAAATCAATTATCCATCTAG
Found at i:11500570 original size:43 final size:43
Alignment explanation
Indices: 11500502--11500628 Score: 123
Period size: 43 Copynumber: 3.0 Consensus size: 43
11500492 ATATATCTCG
* * * *
11500502 TACAATGCC-ATATCTCATATATGGTCTTACATGTTACCAC-A
1 TACAATGCCAATATCCCAGACATGGTCTTACATGTAACCACAA
* * * * *
11500543 TATCGATGCCAATGTCCCAGACATGGTCTTGCACGTAATCACAA
1 TA-CAATGCCAATATCCCAGACATGGTCTTACATGTAACCACAA
* * *
11500587 TACAATGCCAATATTCCAGACATGGCCTTACATGTAATCACA
1 TACAATGCCAATATCCCAGACATGGTCTTACATGTAACCACA
11500629 TCTCGGCAAT
Statistics
Matches: 68, Mismatches: 15, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
41 2 0.03
42 6 0.09
43 57 0.84
44 3 0.04
ACGTcount: A:0.32, C:0.26, G:0.13, T:0.28
Consensus pattern (43 bp):
TACAATGCCAATATCCCAGACATGGTCTTACATGTAACCACAA
Found at i:11507336 original size:18 final size:19
Alignment explanation
Indices: 11507303--11507341 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
11507293 AAAAAGGACT
11507303 AAATTGAATAAGAGA-TAA
1 AAATTGAATAAGAGATTAA
* *
11507321 AAATTGAATTATAGATTAA
1 AAATTGAATAAGAGATTAA
11507340 AA
1 AA
11507342 GAAAGTATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.59, C:0.00, G:0.13, T:0.28
Consensus pattern (19 bp):
AAATTGAATAAGAGATTAA
Found at i:11508667 original size:17 final size:18
Alignment explanation
Indices: 11508645--11508680 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
11508635 TAGATGAGTT
11508645 AATTAGGAT-TAAATTGG
1 AATTAGGATATAAATTGG
*
11508662 AATTAGGGTATAAATTGG
1 AATTAGGATATAAATTGG
11508680 A
1 A
11508681 TAGAAATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.42, C:0.00, G:0.25, T:0.33
Consensus pattern (18 bp):
AATTAGGATATAAATTGG
Found at i:11516213 original size:25 final size:25
Alignment explanation
Indices: 11516157--11516216 Score: 84
Period size: 25 Copynumber: 2.4 Consensus size: 25
11516147 CTCGCATGAA
* * *
11516157 CTTCCCATTATGCAGCCCGGATAAG
1 CTTCCCGTTATACAACCCGGATAAG
*
11516182 CTTCCCGTTATACAACCTGGATAAG
1 CTTCCCGTTATACAACCCGGATAAG
11516207 CTTCCCGTTA
1 CTTCCCGTTA
11516217 CATGGCTCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.23, C:0.32, G:0.17, T:0.28
Consensus pattern (25 bp):
CTTCCCGTTATACAACCCGGATAAG
Found at i:11516249 original size:25 final size:25
Alignment explanation
Indices: 11516202--11516249 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
11516192 TACAACCTGG
* *
11516202 ATAAGCTTCCCGTTACATGGCTCAT
1 ATAAGCTTACCGTTACATAGCTCAT
* *
11516227 ATAAGCTTACTGTTATATAGCTC
1 ATAAGCTTACCGTTACATAGCTC
11516250 GAGAAAGGGC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.35
Consensus pattern (25 bp):
ATAAGCTTACCGTTACATAGCTCAT
Found at i:11518731 original size:96 final size:96
Alignment explanation
Indices: 11518563--11518832 Score: 294
Period size: 96 Copynumber: 2.8 Consensus size: 96
11518553 TATGTGTGCT
* * * *
11518563 AGTGTAAGACCATGTCTAGGACATGGCATCGGCCA-CAATATGAGAGCCAGTGTAAAACCATGTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CATCGATATGTGAGCTAGTGTAAAACCATGTT
* *
11518627 TGGAACATGGCATCGACAATGTAATGAGAGCC
65 AGGAACATGGCATCGACAATGTAACGAGAGCC
* * * *
11518659 AGTGTAAGACCATGTCTGGGACATTGCATCGGCATTGATATGTGCGCTAGTGTAAAACTATGTCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGATATGTGAGCTAGTGTAAAACCATGT-T
* * * * *
11518724 AGG-ACATGTCATCGGCATTGTGACGAGAGCT
65 AGGAACATGGCATCGACAATGTAACGAGAGCC
* * * * * *
11518755 AGTGTAAGACCATGTTTGGGACATGGTATCGGCCTCGACATGTGAGCTAGTGCAAGACCATGTTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGATATGTGAGCTAGTGTAAAACCATG-TT
*
11518820 A-GAACTTGGCATC
65 AGGAACATGGCATC
11518833 AGCAATTCAC
Statistics
Matches: 143, Mismatches: 27, Indels: 8
0.80 0.15 0.04
Matches are distributed among these distances:
95 3 0.02
96 136 0.95
97 4 0.03
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (96 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGATATGTGAGCTAGTGTAAAACCATGTTA
GGAACATGGCATCGACAATGTAACGAGAGCC
Found at i:11518819 original size:48 final size:48
Alignment explanation
Indices: 11518550--11518817 Score: 238
Period size: 48 Copynumber: 5.6 Consensus size: 48
11518540 GACATTTGAG
* * *
11518550 CGATATGTGTGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCCA-
1 CGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGG-CAT
* * * * * *
11518598 CAATATGAGAGCCAGTGTAAAACCATGTTTGGAACATGGCATCGACAAT
1 CGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-AT
* *
11518647 -G-TAATGAGAGCCAGTGTAAGACCATGTCTGGGACATTGCATCGGCAT
1 CGAT-ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
* * * * * * *
11518694 TGATATGTGCGCTAGTGTAAAACTATGTCTAGGACATGTCATCGGCAT
1 CGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
* * * * *
11518742 TG-TGACGAGAGCTAGTGTAAGACCATGTTTGGGACATGGTATCGGCCT
1 CGAT-ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
* * *
11518790 CGACATGTGAGCTAGTGCAAGACCATGT
1 CGATATGAGAGCTAGTGTAAGACCATGT
11518818 TTAGAACTTG
Statistics
Matches: 175, Mismatches: 38, Indels: 14
0.77 0.17 0.06
Matches are distributed among these distances:
47 5 0.03
48 169 0.97
49 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (48 bp):
CGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
Found at i:11518832 original size:144 final size:144
Alignment explanation
Indices: 11518551--11518832 Score: 320
Period size: 144 Copynumber: 2.0 Consensus size: 144
11518541 ACATTTGAGC
* * *
11518551 GATATGTGTGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCCACAATATGAGAGCCAGTGT
1 GATATGTGCGCTAGTGTAAAACCATGTCTAGGACATGGCATCGGCCACAATACGAGAGCCAGTGT
* * *
11518616 AAAACCATGTTTGGAACATGGCATCGACAATGTAATGAGAGCCAGTGTAAGACCATGTCTGGGAC
66 AAAACCATGTTTGGAACATGGCATCGACAATGTAATGAGAGCCAGTGCAAGACCATGTCTAGAAC
11518681 ATTGCATCGGCATT
131 ATTGCATCGGCATT
* * *** *
11518695 GATATGTGCGCTAGTGTAAAACTATGTCTAGGACATGTCATCGG-CATTGTGACGAGAGCTAGTG
1 GATATGTGCGCTAGTGTAAAACCATGTCTAGGACATGGCATCGGCCACAAT-ACGAGAGCCAGTG
* * * * * * * *
11518759 TAAGACCATGTTTGGGACATGGTATCGGC-CTCG-ACATGTGAGCTAGTGCAAGACCATGTTTAG
65 TAAAACCATGTTTGGAACATGGCATCGACAAT-GTA-ATGAGAGCCAGTGCAAGACCATGTCTAG
11518822 AAC-TTGGCATC
128 AACATT-GCATC
11518833 AGCAATTCAC
Statistics
Matches: 114, Mismatches: 20, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
143 7 0.06
144 107 0.94
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (144 bp):
GATATGTGCGCTAGTGTAAAACCATGTCTAGGACATGGCATCGGCCACAATACGAGAGCCAGTGT
AAAACCATGTTTGGAACATGGCATCGACAATGTAATGAGAGCCAGTGCAAGACCATGTCTAGAAC
ATTGCATCGGCATT
Found at i:11520723 original size:29 final size:29
Alignment explanation
Indices: 11520682--11520767 Score: 86
Period size: 29 Copynumber: 3.0 Consensus size: 29
11520672 AATCCATCTC
*
11520682 GTCAAAATAATTTTTTCAGAACACATCA-T
1 GTCAAAATTATTTTTTCAGAACACAT-ATT
* * * * *
11520711 GTTAAATTTATTTTTTTAAAACCCATATT
1 GTCAAAATTATTTTTTCAGAACACATATT
*
11520740 GTCAAAATTATTTTTCCAGAACA-ATATT
1 GTCAAAATTATTTTTTCAGAACACATATT
11520768 TAACAATTAA
Statistics
Matches: 44, Mismatches: 12, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
28 6 0.14
29 38 0.86
ACGTcount: A:0.38, C:0.14, G:0.06, T:0.42
Consensus pattern (29 bp):
GTCAAAATTATTTTTTCAGAACACATATT
Found at i:11522887 original size:18 final size:18
Alignment explanation
Indices: 11522864--11522904 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
11522854 CTCAATTCAA
11522864 GTTGCACGAACTTACTTC
1 GTTGCACGAACTTACTTC
11522882 GTTGCACGAACTTACTTC
1 GTTGCACGAACTTACTTC
11522900 GTTGC
1 GTTGC
11522905 TTATTCGTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.20, C:0.27, G:0.20, T:0.34
Consensus pattern (18 bp):
GTTGCACGAACTTACTTC
Found at i:11523631 original size:51 final size:51
Alignment explanation
Indices: 11523555--11523723 Score: 230
Period size: 51 Copynumber: 3.3 Consensus size: 51
11523545 CTCAAACTTC
* * * * *
11523555 CTTCATACTTCATCCGAAATTATTACCTTGTTACTCTAACTTCAACAAGAG
1 CTTCATATTTCATCCGAAATAATTACTTTGTTGCTCTAGCTTCAACAAGAG
* * * *
11523606 CTTCATATTTCATCCGGAATAATTACTTTGTTGCTCTAGCTTTAATAAAAG
1 CTTCATATTTCATCCGAAATAATTACTTTGTTGCTCTAGCTTCAACAAGAG
* *
11523657 CTTCATATTTCATCCGAAAAAATTACTTTGCTGCTCTAGCTTCAACAAGAG
1 CTTCATATTTCATCCGAAATAATTACTTTGTTGCTCTAGCTTCAACAAGAG
*
11523708 CTTCATATTTTATCCG
1 CTTCATATTTCATCCG
11523724 GAAAACTTAG
Statistics
Matches: 102, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 102 1.00
ACGTcount: A:0.30, C:0.22, G:0.10, T:0.38
Consensus pattern (51 bp):
CTTCATATTTCATCCGAAATAATTACTTTGTTGCTCTAGCTTCAACAAGAG
Found at i:11525012 original size:29 final size:30
Alignment explanation
Indices: 11524947--11525023 Score: 77
Period size: 32 Copynumber: 2.5 Consensus size: 30
11524937 ACTTAATAAA
* *
11524947 TAATAATAATAAAATAATAAAATATCTTAT
1 TAATATTAATAAAATAATAAAATATCTAAT
**
11524977 TAAAATATTAATAAAATAAT-ATTTATCTAAT
1 T--AATATTAATAAAATAATAAAATATCTAAT
11525008 TAATAATT-ATAAAATA
1 TAAT-ATTAATAAAATA
11525024 TCATCAACAT
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
29 11 0.28
30 4 0.10
31 9 0.22
32 16 0.40
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (30 bp):
TAATATTAATAAAATAATAAAATATCTAAT
Found at i:11525289 original size:30 final size:31
Alignment explanation
Indices: 11525222--11525280 Score: 102
Period size: 30 Copynumber: 1.9 Consensus size: 31
11525212 CACCCTTAAA
*
11525222 ATATTTACACTATTAGTCCTTCAAATTTTTC
1 ATATTTACACTATTAGCCCTTCAAATTTTTC
11525253 ATATTTACACT-TTAGCCCTTCAAATTTT
1 ATATTTACACTATTAGCCCTTCAAATTTT
11525281 GAGTATTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 16 0.59
31 11 0.41
ACGTcount: A:0.29, C:0.20, G:0.03, T:0.47
Consensus pattern (31 bp):
ATATTTACACTATTAGCCCTTCAAATTTTTC
Found at i:11526349 original size:26 final size:26
Alignment explanation
Indices: 11526320--11526428 Score: 173
Period size: 26 Copynumber: 4.2 Consensus size: 26
11526310 TGGTACAAAT
11526320 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
11526346 TGATAATGGATTAGGTAAATATTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
11526372 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
11526398 TGATAATGTGTTAAGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
11526424 TGATA
1 TGATA
11526429 GGCATTTCAT
Statistics
Matches: 75, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.34, C:0.06, G:0.23, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:11527941 original size:26 final size:26
Alignment explanation
Indices: 11527912--11527964 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
11527902 TTTACAGTTT
*
11527912 TACCCCTAGGTTATAAATT-ACCGAAA
1 TACCCCTAGGGT-TAAATTGACCGAAA
*
11527938 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGTTAAATTGACCGAAA
11527964 T
1 T
11527965 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 6 0.25
26 18 0.75
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.28
Consensus pattern (26 bp):
TACCCCTAGGGTTAAATTGACCGAAA
Found at i:11530331 original size:25 final size:25
Alignment explanation
Indices: 11530282--11530353 Score: 78
Period size: 25 Copynumber: 3.0 Consensus size: 25
11530272 TTATAAATTG
* *
11530282 TAATATATATTTATTATTAGA-ATAT
1 TAATATATATTTTTTAATA-ATATAT
11530307 TAATATATATTTTTTAATAATATAT
1 TAATATATATTTTTTAATAATATAT
* *
11530332 TAAGA-ATATTATTTAA-AATATA
1 TAATATATATTTTTTAATAATATA
11530354 AAATTATTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
23 6 0.14
24 11 0.26
25 25 0.60
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (25 bp):
TAATATATATTTTTTAATAATATAT
Found at i:11533922 original size:15 final size:15
Alignment explanation
Indices: 11533902--11533934 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
11533892 ATTATTGGTT
11533902 TTGTTAATTTGTTAG
1 TTGTTAATTTGTTAG
*
11533917 TTGTTAGTTTGTTAG
1 TTGTTAATTTGTTAG
11533932 TTG
1 TTG
11533935 GTATTGTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.15, C:0.00, G:0.24, T:0.61
Consensus pattern (15 bp):
TTGTTAATTTGTTAG
Found at i:11533931 original size:8 final size:8
Alignment explanation
Indices: 11533901--11533933 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
11533891 AATTATTGGT
*
11533901 TTTGTTAA
1 TTTGTTAG
11533909 TTTGTTAG
1 TTTGTTAG
11533917 -TTGTTAG
1 TTTGTTAG
11533924 TTTGTTAG
1 TTTGTTAG
11533932 TT
1 TT
11533934 GGTATTGTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
7 7 0.30
8 16 0.70
ACGTcount: A:0.15, C:0.00, G:0.21, T:0.64
Consensus pattern (8 bp):
TTTGTTAG
Found at i:11534335 original size:131 final size:130
Alignment explanation
Indices: 11534098--11534411 Score: 427
Period size: 131 Copynumber: 2.4 Consensus size: 130
11534088 TTATTTGAAG
* * *
11534098 ATTCTTTAAAACGAAGGCAATGTTCAATGTTTGGCAATTTGGGGAGTCGTGCCCTATCATGCTGG
1 ATTCTTTAAAACGAAGGCAATGTTCAATGTTTGGCAATTCGGGGAATCATGCCCTATCATGCTGG
* * * *
11534163 GTTGTAATTTCCCGTTTGTTCAAAATAATCGAGTATTCCTTTGGAATTTCACTCATGTCTTTAAA
66 GTTGTAATTTCCCGTTTGTTCAAAATAATCAAATATCCCTTTAGAATTTCACTCATGT-TTTAAA
11534228 A
130 A
* * * * *
11534229 ATTCTTTAAAACGAAAGAAATGTTCGATGTTTGGCAATTCGGGGAATCATGTCCTATCGTGCTGG
1 ATTCTTTAAAACGAAGGCAATGTTCAATGTTTGGCAATTCGGGGAATCATGCCCTATCATGCTGG
* **
11534294 GTTGTAATTTCCTGTTTGTTCAAAATAATCAAATATCCCTTTAGAATTTCACTCATGTTTTCTAA
66 GTTGTAATTTCCCGTTTGTTCAAAATAATCAAATATCCCTTTAGAATTTCACTCATGTTTTAAAA
* * * *
11534359 ATTC--TAAAAC-AAGGCAATGTTCAATGTCTAGAAATTCGGGGAATCGTGCCCTA
1 ATTCTTTAAAACGAAGGCAATGTTCAATGTTTGGCAATTCGGGGAATCATGCCCTA
11534412 CTACGCTGGG
Statistics
Matches: 160, Mismatches: 23, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
127 35 0.22
128 6 0.04
130 9 0.06
131 110 0.69
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (130 bp):
ATTCTTTAAAACGAAGGCAATGTTCAATGTTTGGCAATTCGGGGAATCATGCCCTATCATGCTGG
GTTGTAATTTCCCGTTTGTTCAAAATAATCAAATATCCCTTTAGAATTTCACTCATGTTTTAAAA
Found at i:11536832 original size:3 final size:3
Alignment explanation
Indices: 11536820--11536859 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
11536810 CAAAACTAGG
11536820 ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
11536860 TTTATTGGAA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:11564817 original size:13 final size:13
Alignment explanation
Indices: 11564799--11564828 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
11564789 ATAAACAGTA
11564799 AAAGAATTATATC
1 AAAGAATTATATC
11564812 AAAGAATTATATC
1 AAAGAATTATATC
11564825 AAAG
1 AAAG
11564829 GAGGAGTAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.57, C:0.07, G:0.10, T:0.27
Consensus pattern (13 bp):
AAAGAATTATATC
Found at i:11571277 original size:31 final size:31
Alignment explanation
Indices: 11571239--11571308 Score: 113
Period size: 31 Copynumber: 2.3 Consensus size: 31
11571229 TTTTGCCCAC
11571239 TTTAGTCCATAACGTTATCAGACATTCTCAA
1 TTTAGTCCATAACGTTATCAGACATTCTCAA
* *
11571270 TTTAGTCCCTAATGTTATCAGACATTCTCAA
1 TTTAGTCCATAACGTTATCAGACATTCTCAA
*
11571301 TTCAGTCC
1 TTTAGTCC
11571309 TTTGGATGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.29, C:0.24, G:0.10, T:0.37
Consensus pattern (31 bp):
TTTAGTCCATAACGTTATCAGACATTCTCAA
Found at i:11571409 original size:21 final size:22
Alignment explanation
Indices: 11571385--11571440 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
11571375 AAAAACCCTT
*
11571385 AAAAATCTT-TAAAAATTGGAA
1 AAAAATCTTATAAAAATAGGAA
* *
11571406 AAAAAACTTATTAAAATAGGAA
1 AAAAATCTTATAAAAATAGGAA
11571428 AAAAA--TTATAAAA
1 AAAAATCTTATAAAA
11571441 TTACAATAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 7 0.23
21 8 0.27
22 15 0.50
ACGTcount: A:0.64, C:0.04, G:0.07, T:0.25
Consensus pattern (22 bp):
AAAAATCTTATAAAAATAGGAA
Found at i:11571820 original size:19 final size:17
Alignment explanation
Indices: 11571797--11571850 Score: 56
Period size: 19 Copynumber: 3.0 Consensus size: 17
11571787 TGTTTTTAAA
11571797 AATTTTAGTAAATTTTTT
1 AATTTTA-TAAATTTTTT
*
11571815 ATATTTTATATACTTTTTGT
1 A-ATTTTATA-AATTTTT-T
11571835 AATTTTAT-AATTTTTT
1 AATTTTATAAATTTTTT
11571851 TCTCTATTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
16 1 0.03
17 6 0.19
18 3 0.10
19 19 0.61
20 2 0.06
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.65
Consensus pattern (17 bp):
AATTTTATAAATTTTTT
Found at i:11572738 original size:18 final size:19
Alignment explanation
Indices: 11572709--11572745 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
11572699 TCAAATACAT
11572709 TTAAAACAAAAAATAAATA
1 TTAAAACAAAAAATAAATA
11572728 TTAAAAC-AAAAATAAATA
1 TTAAAACAAAAAATAAATA
11572746 AATAATGGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.22
Consensus pattern (19 bp):
TTAAAACAAAAAATAAATA
Found at i:11572744 original size:22 final size:20
Alignment explanation
Indices: 11572696--11572749 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 20
11572686 AAAATATAAT
*
11572696 AAATCAAATACAT-TTAAAAC
1 AAAT-AAATAAATATTAAAAC
11572716 AAA-AAATAAATATTAAAAC
1 AAATAAATAAATATTAAAAC
11572735 AAAAATAAATAAATA
1 --AAATAAATAAATA
11572750 ATGGGACTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
18 7 0.24
19 7 0.24
20 3 0.10
21 3 0.10
22 9 0.31
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.22
Consensus pattern (20 bp):
AAATAAATAAATATTAAAAC
Found at i:11573322 original size:19 final size:19
Alignment explanation
Indices: 11573298--11573363 Score: 60
Period size: 20 Copynumber: 3.3 Consensus size: 19
11573288 AATATTTTTT
*
11573298 TTAAAAATTACAAAAATTA
1 TTAAAAATTACAAAAAATA
* * *
11573317 TTAAAAAATAGAGAAAAAAA
1 TTAAAAATTACA-AAAAATA
*
11573337 TTATAAAATTACAAAAAGTA
1 TTA-AAAATTACAAAAAATA
11573357 TATAAAA
1 T-TAAAA
11573364 TATAAAAAAA
Statistics
Matches: 36, Mismatches: 8, Indels: 5
0.73 0.16 0.10
Matches are distributed among these distances:
19 10 0.28
20 17 0.47
21 9 0.25
ACGTcount: A:0.67, C:0.03, G:0.05, T:0.26
Consensus pattern (19 bp):
TTAAAAATTACAAAAAATA
Found at i:11573382 original size:20 final size:18
Alignment explanation
Indices: 11573330--11573383 Score: 56
Period size: 19 Copynumber: 2.9 Consensus size: 18
11573320 AAAAATAGAG
11573330 AAAAAAA-TTATAAAATT
1 AAAAAAATTTATAAAATT
* *
11573347 ACAAAAAGTATATAAAATAT
1 A-AAAAAATTTATAAAAT-T
11573367 AAAAAAATTTACTAAAA
1 AAAAAAATTTA-TAAAA
11573384 ACTTTTTAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
17 1 0.03
18 5 0.17
19 16 0.55
20 7 0.24
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.26
Consensus pattern (18 bp):
AAAAAAATTTATAAAATT
Found at i:11574009 original size:20 final size:20
Alignment explanation
Indices: 11573963--11574008 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
11573953 TAAATTTTAG
*
11573963 TATTTTTATAATGTTTATTG
1 TATTTTTATAATGTTTATTC
*
11573983 TAATTTTATAAT-TTTATTC
1 TATTTTTATAATGTTTATTC
11574002 TATTTTT
1 TATTTTT
11574009 TTACTAATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 12 0.52
20 11 0.48
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.67
Consensus pattern (20 bp):
TATTTTTATAATGTTTATTC
Found at i:11575382 original size:66 final size:65
Alignment explanation
Indices: 11575297--11575430 Score: 171
Period size: 66 Copynumber: 2.0 Consensus size: 65
11575287 ATTCTGAAAC
* * * *
11575297 TGTAGCTGGAGTTCGTCATATTTTCTGCTT-GCCTCTACTTCTCTCGCTGCTTCCTCCGCTTTAA
1 TGTAGCTAGAGTTCGTCATATTTTCT--TTAGCCTCTACTTCTCTCGATGCTGCCTCCACTTTAA
11575361 GT
64 GT
* * *
11575363 TGTAGCTAGAGTTCTTCATATTTTCTTTGAGCCTCTGCTTCTCTCGATGCTGGCTCCACTTTAAG
1 TGTAGCTAGAGTTCGTCATATTTTCTTT-AGCCTCTACTTCTCTCGATGCTGCCTCCACTTTAAG
11575428 T
65 T
11575429 TG
1 TG
11575431 AGAAATTTGC
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
64 2 0.03
66 57 0.97
ACGTcount: A:0.13, C:0.26, G:0.19, T:0.43
Consensus pattern (65 bp):
TGTAGCTAGAGTTCGTCATATTTTCTTTAGCCTCTACTTCTCTCGATGCTGCCTCCACTTTAAGT
Found at i:11588474 original size:13 final size:13
Alignment explanation
Indices: 11588452--11588484 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
11588442 AAGGGTTTGT
11588452 TTAT-TAAACTAA
1 TTATCTAAACTAA
11588464 TTATCTAAACTAA
1 TTATCTAAACTAA
*
11588477 TTAACTAA
1 TTATCTAA
11588485 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:11594684 original size:55 final size:53
Alignment explanation
Indices: 11594597--11594850 Score: 259
Period size: 55 Copynumber: 4.8 Consensus size: 53
11594587 ATTAGGGTTT
* *
11594597 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGC-ATTGGTAA-GTTTCTAAGGC
* * * * *
11594652 AAGGAAATCATGTAATACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTT--TCTAAGGC
* * * *
11594707 AAAGG-TCCCATGTAAGACCATGACAAGGCATGGCATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTTC-TAAGGC
*
11594760 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTTCTAAGGC
* * * * *
11594809 AAGGATACCACGTAAGACCATGACAAGTCATCGCAATGGTAA
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAA
11594851 AATACCCGTG
Statistics
Matches: 168, Mismatches: 25, Indels: 18
0.80 0.12 0.09
Matches are distributed among these distances:
49 38 0.23
52 7 0.04
53 42 0.25
54 11 0.07
55 66 0.39
56 4 0.02
ACGTcount: A:0.37, C:0.18, G:0.24, T:0.22
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTTCTAAGGC
Found at i:11594803 original size:108 final size:110
Alignment explanation
Indices: 11594604--11594804 Score: 309
Period size: 108 Copynumber: 1.8 Consensus size: 110
11594594 TTTAAGGATA
* * *
11594604 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAATA
1 CCATGTAAGACCATGACAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
*
11594669 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* *
11594714 CCATGTAAGACCATGACAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGACAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAG
*
11594776 ACCATGTCAAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
11594805 TCAAAAGGAT
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
107 3 0.04
108 47 0.57
109 7 0.08
110 26 0.31
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (110 bp):
CCATGTAAGACCATGACAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:11594946 original size:23 final size:24
Alignment explanation
Indices: 11594920--11594964 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
11594910 AATGTAAGGT
*
11594920 AAGGTAAGACGAGTT-ATGCTAAA
1 AAGGTAAGACAAGTTCATGCTAAA
11594943 AAGGTAAGACAAGTTCATGCTA
1 AAGGTAAGACAAGTTCATGCTA
11594965 GAAGAGCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.42, C:0.11, G:0.24, T:0.22
Consensus pattern (24 bp):
AAGGTAAGACAAGTTCATGCTAAA
Found at i:11596991 original size:4 final size:4
Alignment explanation
Indices: 11596984--11597017 Score: 50
Period size: 4 Copynumber: 8.2 Consensus size: 4
11596974 TTGCTTGTAC
*
11596984 ATAA ATAA ATAA ATAAA ATGA ATAA ATAA ATAA A
1 ATAA ATAA ATAA AT-AA ATAA ATAA ATAA ATAA A
11597018 GGCTCAAGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:11597575 original size:191 final size:190
Alignment explanation
Indices: 11597245--11597621 Score: 664
Period size: 191 Copynumber: 2.0 Consensus size: 190
11597235 ACCATGTCTT
11597245 AAAAAAAATTCTTTTTAATTAATAATGCCTTGCAAATTTTGGATTCAAACTCAATTTAGTGAAAT
1 AAAAAAAATTCTTTTTAATTAATAATGCCTTGCAAATTTTGGATTCAAACTCAATTTAGTGAAAT
* * *
11597310 TGTTTAGTTTACATATTCCAATTTTACGACACTTGTTGATTAAACTATATATTCTGAGCATTTGT
66 AGTTTAGTTTACATATTCCAATTTTACGACACTTGTTGATTAAACTATATAATCTGAGAATTTGT
*
11597375 TTATTTTTGCCTATGATGTTTGCGTTGATTATGGATGTGGAAAAGAGGCTCGATTTATTC
131 TTATTTTTGCCTATGATGTTTGCGTTAATTATGGATGTGGAAAAGAGGCTCGATTTATTC
* *
11597435 AAAAAATAATTCTTTTTAATTAATAATGTCTTGCAAATTTTGGATTCAAACTCAATTTGGTGAAA
1 AAAAAA-AATTCTTTTTAATTAATAATGCCTTGCAAATTTTGGATTCAAACTCAATTTAGTGAAA
** *
11597500 TAGTTTAGTTTACATATTCCAATTTTGTGATACTTGTTGATTAAACTATATAATCTGAGAATTTG
65 TAGTTTAGTTTACATATTCCAATTTTACGACACTTGTTGATTAAACTATATAATCTGAGAATTTG
11597565 TTTATTTTTGCCTATGATGTTTGCGTTAATTATGGATGTGGAAAAGAGGCTCGATTT
130 TTTATTTTTGCCTATGATGTTTGCGTTAATTATGGATGTGGAAAAGAGGCTCGATTT
11597622 GTAATAAATT
Statistics
Matches: 177, Mismatches: 9, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
190 6 0.03
191 171 0.97
ACGTcount: A:0.31, C:0.10, G:0.16, T:0.43
Consensus pattern (190 bp):
AAAAAAAATTCTTTTTAATTAATAATGCCTTGCAAATTTTGGATTCAAACTCAATTTAGTGAAAT
AGTTTAGTTTACATATTCCAATTTTACGACACTTGTTGATTAAACTATATAATCTGAGAATTTGT
TTATTTTTGCCTATGATGTTTGCGTTAATTATGGATGTGGAAAAGAGGCTCGATTTATTC
Found at i:11597944 original size:6 final size:6
Alignment explanation
Indices: 11597933--11597974 Score: 59
Period size: 6 Copynumber: 7.0 Consensus size: 6
11597923 CAAAAATAGA
*
11597933 ATTTTT ATTTTT ATTTTT ATTTATT A-TTTT ATTTTG ATTTTT
1 ATTTTT ATTTTT ATTTTT ATTT-TT ATTTTT ATTTTT ATTTTT
11597975 TGTTAATTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
5 3 0.09
6 26 0.81
7 3 0.09
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (6 bp):
ATTTTT
Found at i:11600192 original size:40 final size:40
Alignment explanation
Indices: 11600108--11600332 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
11600098 TTGAATGATG
* * * *
11600108 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
11600148 TCCGGACTAAGAT-CCGAAGGCATTTGTGGGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
11600188 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
11600227 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
11600267 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
11600308 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
11600333 AACGAGGAGC
Statistics
Matches: 163, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
39 33 0.20
40 121 0.74
41 9 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:11600350 original size:80 final size:80
Alignment explanation
Indices: 11600108--11600365 Score: 233
Period size: 80 Copynumber: 3.2 Consensus size: 80
11600098 TTGAATGATG
* * * * * * *
11600108 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGCTAAG-TCCCGAAGGCAT
*** *
11600171 TTGTGGGAGAT-ACTAAT
64 TTGAACGAG-TGACTAAA
* *
11600188 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
** *
11600252 GTGCGAGTTACTAAA
66 GAACGAGTGACTAAA
* *
11600267 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATT
*
11600331 TGAACGAG-GAGCTATA
65 TGAACGAGTGA-CTAAA
* *
11600347 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
11600366 TACGTGATTT
Statistics
Matches: 153, Mismatches: 19, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.01
79 73 0.48
80 76 0.50
81 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
GAACGAGTGACTAAA
Found at i:11600354 original size:119 final size:119
Alignment explanation
Indices: 11600108--11600365 Score: 274
Period size: 119 Copynumber: 2.2 Consensus size: 119
11600098 TTGAATGATG
* *
11600108 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* * ** *
11600173 GTGGGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAAA
* * * **
11600227 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * *
11600290 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTGA-CTAAA
* *
11600347 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
11600366 TACGTGATTT
Statistics
Matches: 116, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
118 3 0.03
119 82 0.71
120 31 0.27
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAAA
Found at i:11606963 original size:35 final size:34
Alignment explanation
Indices: 11606911--11606976 Score: 89
Period size: 35 Copynumber: 1.9 Consensus size: 34
11606901 CTATGAAAAT
*
11606911 TTTAACTTTAAAATTAAATATAA-AAATTAATGAA
1 TTTAAATTTAAAATTAAA-ATAATAAATTAATGAA
*
11606945 TTTAAATTTAGAATTTAAAATAATAAATTAAT
1 TTTAAATTTA-AAATTAAAATAATAAATTAAT
11606977 AACACAATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
34 13 0.46
35 15 0.54
ACGTcount: A:0.55, C:0.02, G:0.03, T:0.41
Consensus pattern (34 bp):
TTTAAATTTAAAATTAAAATAATAAATTAATGAA
Found at i:11610279 original size:25 final size:25
Alignment explanation
Indices: 11610233--11610280 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
11610223 TACATTTGTA
*
11610233 ATATTTATATTTAATTGGTAAGTAG
1 ATATTTATATTTAATTAGTAAGTAG
*
11610258 ATATTTATTATTT-ATTATTAAGT
1 ATATTTA-TATTTAATTAGTAAGT
11610281 TAAAAGATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 15 0.75
26 5 0.25
ACGTcount: A:0.35, C:0.00, G:0.10, T:0.54
Consensus pattern (25 bp):
ATATTTATATTTAATTAGTAAGTAG
Found at i:11610319 original size:31 final size:29
Alignment explanation
Indices: 11610256--11610325 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 29
11610246 ATTGGTAAGT
*
11610256 AGATATTTATTATTTATTATTAAGTTAAA
1 AGATATTTATTATTAATTATTAAGTTAAA
*
11610285 AGATATTTATTAATTAAATTATTATA-TTATA
1 AGATATTTATT-ATT-AATTATTA-AGTTAAA
*
11610316 AGATTTTTAT
1 AGATATTTAT
11610326 ATGATAAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
29 11 0.31
30 3 0.09
31 20 0.57
32 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (29 bp):
AGATATTTATTATTAATTATTAAGTTAAA
Found at i:11610607 original size:2 final size:2
Alignment explanation
Indices: 11610600--11610636 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
11610590 TTATAAACTA
*
11610600 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AG AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11610637 AATGTCATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (2 bp):
AT
Found at i:11611077 original size:22 final size:24
Alignment explanation
Indices: 11611049--11611092 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
11611039 TATGGCAAGA
11611049 AATTAAG-TAGAAAAG-AAGTATG
1 AATTAAGTTAGAAAAGTAAGTATG
11611071 AATTAAGTTAGAAAAGTAAGTA
1 AATTAAGTTAGAAAAGTAAGTA
11611093 AACTTAGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 8 0.40
24 5 0.25
ACGTcount: A:0.55, C:0.00, G:0.20, T:0.25
Consensus pattern (24 bp):
AATTAAGTTAGAAAAGTAAGTATG
Found at i:11613104 original size:25 final size:25
Alignment explanation
Indices: 11613044--11613105 Score: 70
Period size: 25 Copynumber: 2.5 Consensus size: 25
11613034 TTACACCTCG
* *
11613044 ATGCAACAGAGGAGTGTTGACGGCG
1 ATGCAGCAGAGGAGTGTTGACGGCA
* * *
11613069 ATGCGGAAGAGGAGTGTTGATGGCA
1 ATGCAGCAGAGGAGTGTTGACGGCA
*
11613094 ATGTAGCAGAGG
1 ATGCAGCAGAGG
11613106 GGACAATTGA
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.29, C:0.11, G:0.42, T:0.18
Consensus pattern (25 bp):
ATGCAGCAGAGGAGTGTTGACGGCA
Found at i:11613905 original size:112 final size:113
Alignment explanation
Indices: 11613765--11613991 Score: 420
Period size: 114 Copynumber: 2.0 Consensus size: 113
11613755 TAAGATGTTT
11613765 GGGCATAACATGAATCATTTGAAGATGGATAAGAAATCTA-GAGAGGATCTATCACTCAAAGTGA
1 GGGCATAACATGAATCATTTGAAGATGGATAAGAAATCTAGGAGAGGATCTATCACTCAAAGTGA
*
11613829 TACTATAAACATATCTCATTTGTCATGGTTAATTTGATCAATACTTTG
66 TACTATAAACATATCTCATTTGCCATGGTTAATTTGATCAATACTTTG
*
11613877 GGGCATAACATGAATCATTTGAAGATGGATAAGTAATCTAGGGAGAGGATCTATCACTCAAAGTG
1 GGGCATAACATGAATCATTTGAAGATGGATAAGAAATCTA-GGAGAGGATCTATCACTCAAAGTG
11613942 ATACTATAAACATATCTCATTTGCCATGGTTAATTTGATCAATACTTTG
65 ATACTATAAACATATCTCATTTGCCATGGTTAATTTGATCAATACTTTG
11613991 G
1 G
11613992 TTTATAACAT
Statistics
Matches: 111, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
112 39 0.35
114 72 0.65
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (113 bp):
GGGCATAACATGAATCATTTGAAGATGGATAAGAAATCTAGGAGAGGATCTATCACTCAAAGTGA
TACTATAAACATATCTCATTTGCCATGGTTAATTTGATCAATACTTTG
Found at i:11614073 original size:98 final size:98
Alignment explanation
Indices: 11613904--11614087 Score: 323
Period size: 98 Copynumber: 1.9 Consensus size: 98
11613894 TTTGAAGATG
* *
11613904 GATAAGTAATCTAGGGAGAGGATCTATCACTCAAAGTGATACTATAAACATATCTCATTTGCCAT
1 GATAAGTAATCTAGAGAGAGGATCTATCACTCAAAGTGATACTATAAACATATCTCATTCGCCAT
*
11613969 GGTTAATTTGATCAATACTTTGGTTTATAACAT
66 GGTTAATTTCATCAATACTTTGGTTTATAACAT
*
11614002 GATAAGTAATCTAGAGAGAGGATCTATCACTCAAAGTGATACTATAAACATATCTCATTCGCTAT
1 GATAAGTAATCTAGAGAGAGGATCTATCACTCAAAGTGATACTATAAACATATCTCATTCGCCAT
*
11614067 GGTTAATTTCATGAATACTTT
66 GGTTAATTTCATCAATACTTT
11614088 AACTAGAGCA
Statistics
Matches: 81, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 81 1.00
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (98 bp):
GATAAGTAATCTAGAGAGAGGATCTATCACTCAAAGTGATACTATAAACATATCTCATTCGCCAT
GGTTAATTTCATCAATACTTTGGTTTATAACAT
Found at i:11615420 original size:20 final size:20
Alignment explanation
Indices: 11615397--11615436 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
11615387 ATATATATTT
11615397 TACAAAAT-GGTTGAATATGG
1 TACAAAATGGGTT-AATATGG
*
11615417 TACAAAGTGGGTTAATATGG
1 TACAAAATGGGTTAATATGG
11615437 GCCTGTAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.38, C:0.05, G:0.28, T:0.30
Consensus pattern (20 bp):
TACAAAATGGGTTAATATGG
Found at i:11625539 original size:16 final size:16
Alignment explanation
Indices: 11625518--11625586 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
11625508 TTTGGTTCGC
11625518 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
11625534 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
11625550 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
11625567 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
11625583 TGTA
1 TGTA
11625587 ATAGCTAATC
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:11625564 original size:33 final size:32
Alignment explanation
Indices: 11625518--11625586 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
11625508 TTTGGTTCGC
11625518 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
11625550 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGTGTATTGGATTAGAGG
11625583 TGTA
1 TGTA
11625587 ATAGCTAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 6 0.17
33 30 0.83
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAGGTGTATTGGATTAGAGG
Found at i:11625651 original size:44 final size:45
Alignment explanation
Indices: 11625567--11625657 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
11625557 GGATTAGAGG
* * *
11625567 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
11625612 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
11625656 TG
1 TG
11625658 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:11625909 original size:157 final size:157
Alignment explanation
Indices: 11625709--11626025 Score: 555
Period size: 157 Copynumber: 2.0 Consensus size: 157
11625699 TAGAATACCC
*
11625709 TTAGCATAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
* * * *
11625774 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAATA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAA-A
11625839 ATATATAATTTAATAAAATTCTT-ATAA
130 ATATATAATTTAATAAAATTCTTAATAA
* *
11625866 TTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
11625931 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
11625996 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
11626023 TTA
1 TTA
11626026 ATATTCTTAT
Statistics
Matches: 152, Mismatches: 7, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
156 24 0.16
157 128 0.84
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (157 bp):
TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
TATATAATTTAATAAAATTCTTAATAA
Found at i:11625996 original size:16 final size:16
Alignment explanation
Indices: 11625959--11626000 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
11625949 TTAATCATAT
*
11625959 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
11625975 TT-AAATATATTATAA
1 TTAAAATATATTATAA
11625990 TTAAAATATAT
1 TTAAAATATAT
11626001 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:11626007 original size:14 final size:15
Alignment explanation
Indices: 11625968--11626009 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
11625958 TTTAAACATA
*
11625968 ATTATTATTAAATAT
1 ATTATAATTAAATAT
11625983 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
11625997 A-TATAATTTAATA
1 ATTATAATTAAATA
11626010 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:11626096 original size:120 final size:119
Alignment explanation
Indices: 11625962--11626252 Score: 496
Period size: 120 Copynumber: 2.4 Consensus size: 119
11625952 ATCATATTTA
11625962 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
11626027 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAAGT-
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAA-A-AAAGTG
11626082 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
**
11626147 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAAAATTTG
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAAAAAGTG
* * *
11626201 AA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
11626253 TAAAATAATT
Statistics
Matches: 164, Mismatches: 6, Indels: 4
0.94 0.03 0.02
Matches are distributed among these distances:
118 50 0.30
119 3 0.02
120 111 0.68
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (119 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAAAAAGTG
Found at i:11626127 original size:14 final size:15
Alignment explanation
Indices: 11626088--11626129 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
11626078 AAGTAACATA
*
11626088 ATTATTATTAAATAT
1 ATTATAATTAAATAT
11626103 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
11626117 A-TATAATTTAATA
1 ATTATAATTAAATA
11626130 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:11645579 original size:18 final size:18
Alignment explanation
Indices: 11645558--11645840 Score: 115
Period size: 18 Copynumber: 15.3 Consensus size: 18
11645548 GAACAATTAT
11645558 TTATTCAGTAACAGTCAG
1 TTATTCAGTAACAGTCAG
* * *
11645576 TTATTCGGTAACAATCAA
1 TTATTCAGTAACAGTCAG
* * **
11645594 TTATTCAATAATAACCAG
1 TTATTCAGTAACAGTCAG
* *
11645612 TTATTTAGTATCGATCAATTGATCGG
1 TTATTCAGTA---A-C-A--G-TCAG
* *
11645638 TTATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAG
*
11645656 TTATTCAGTAA-AATCAG
1 TTATTCAGTAACAGTCAG
* * * *
11645673 ATATTTAGTAACAATTAAG
1 TTATTCAGTAAC-AGTCAG
*
11645692 TTATTCAATAACAGTCA-
1 TTATTCAGTAACAGTCAG
** * *
11645709 TTCATTCAGCGACAATCGG
1 TT-ATTCAGTAACAGTCAG
* *
11645728 TTATTCAGTAA-TGATCAA
1 TTATTCAGTAACAG-TCAG
* *
11645746 TTATTCAGTAATATTCAG
1 TTATTCAGTAACAGTCAG
*
11645764 TTATTCAGTAATAGTCTA-
1 TTATTCAGTAACAGTC-AG
* * * *
11645782 ATATCCAGTAACAATCAA
1 TTATTCAGTAACAGTCAG
* * *
11645800 TTATCCGGTAACAGTCAA
1 TTATTCAGTAACAGTCAG
* *
11645818 TTATTCAGTAATAATCAG
1 TTATTCAGTAACAGTCAG
11645836 TTATT
1 TTATT
11645841 TTATACCTTT
Statistics
Matches: 192, Mismatches: 57, Indels: 32
0.68 0.20 0.11
Matches are distributed among these distances:
17 16 0.08
18 144 0.75
19 17 0.09
21 2 0.01
22 1 0.01
23 2 0.01
26 10 0.05
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAG
Found at i:11645598 original size:36 final size:36
Alignment explanation
Indices: 11645545--11645840 Score: 170
Period size: 36 Copynumber: 8.0 Consensus size: 36
11645535 TCATTAACAC
* * *
11645545 TCAG-AACAATTATTTATTCAGTAACAGTCAGTTAT
1 TCAGTAACAATCAATTATTCAGTAACAATCAGTTAT
* * * *
11645580 TCGGTAACAATCAATTATTCAATAATAACCAGTTAT
1 TCAGTAACAATCAATTATTCAGTAACAATCAGTTAT
* * * * *
11645616 TTAGTATCGATCAATTGATCGGTTATCCAGTAACAGTCAATTAT
1 TCAGTAACAATCAATT-A-----T-T-CAGTAACAATCAGTTAT
* *
11645660 TCAGTAA-AATCAGA-TATTTAGTAACAATTAAGTTAT
1 TCAGTAACAATCA-ATTATTCAGTAACAA-TCAGTTAT
* * ** *
11645696 TCAATAACAGTC-ATTCATTCAGCGACAATCGGTTAT
1 TCAGTAACAATCAATT-ATTCAGTAACAATCAGTTAT
** * *
11645732 TCAGTAATGATCAATTATTCAGTAATATTCAGTTAT
1 TCAGTAACAATCAATTATTCAGTAACAATCAGTTAT
* * * *
11645768 TCAGTAATAGTCTAA-TATCCAGTAACAATCAATTAT
1 TCAGTAACAATC-AATTATTCAGTAACAATCAGTTAT
* * * *
11645804 CCGGTAACAGTCAATTATTCAGTAATAATCAGTTAT
1 TCAGTAACAATCAATTATTCAGTAACAATCAGTTAT
11645840 T
1 T
11645841 TTATACCTTT
Statistics
Matches: 192, Mismatches: 52, Indels: 33
0.69 0.19 0.12
Matches are distributed among these distances:
35 13 0.07
36 134 0.70
37 19 0.10
42 2 0.01
43 6 0.03
44 18 0.09
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (36 bp):
TCAGTAACAATCAATTATTCAGTAACAATCAGTTAT
Found at i:11645704 original size:54 final size:54
Alignment explanation
Indices: 11645638--11645840 Score: 187
Period size: 54 Copynumber: 3.8 Consensus size: 54
11645628 AATTGATCGG
* *
11645638 TTATCCAGTAACAGTCAATTATTCAGTAA-AATCAGATATTTAGTAACAATTAA
1 TTATCCAGTAACAGTCAATTATTCAGTAATAATCAGATATTCAGTAACAATCAA
* * ** * * * **
11645691 GTTATTCAATAACAGTC-ATTCATTCAGCGACAATCGGTTATTCAGTAATGATCAA
1 -TTATCCAGTAACAGTCAATT-ATTCAGTAATAATCAGATATTCAGTAACAATCAA
* * * * * *
11645746 TTATTCAGTAATATTCAGTTATTCAGTAATAGTCTA-ATATCCAGTAACAATCAA
1 TTATCCAGTAACAGTCAATTATTCAGTAATAATC-AGATATTCAGTAACAATCAA
* *
11645800 TTATCCGGTAACAGTCAATTATTCAGTAATAATCAGTTATT
1 TTATCCAGTAACAGTCAATTATTCAGTAATAATCAGATATT
11645841 TTATACCTTT
Statistics
Matches: 113, Mismatches: 31, Indels: 10
0.73 0.20 0.06
Matches are distributed among these distances:
53 4 0.04
54 89 0.79
55 20 0.18
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.35
Consensus pattern (54 bp):
TTATCCAGTAACAGTCAATTATTCAGTAATAATCAGATATTCAGTAACAATCAA
Found at i:11646076 original size:45 final size:45
Alignment explanation
Indices: 11646004--11646112 Score: 155
Period size: 45 Copynumber: 2.4 Consensus size: 45
11645994 ACAAATCTGG
* *
11646004 AACAGTAACAATAACAGTATTCAACACACAAAGTGCTGAATCAAT
1 AACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAATCAAT
* * **
11646049 AACGGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCGGT
1 AACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAATCAAT
*
11646094 AACAGTAACGGTAACAGTA
1 AACAGTAACAGTAACAGTA
11646113 ACAGTAGTCG
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 56 1.00
ACGTcount: A:0.44, C:0.20, G:0.17, T:0.18
Consensus pattern (45 bp):
AACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAATCAAT
Found at i:11646107 original size:12 final size:12
Alignment explanation
Indices: 11646090--11646114 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11646080 AGTGCCGAAT
11646090 CGGTAACAGTAA
1 CGGTAACAGTAA
11646102 CGGTAACAGTAA
1 CGGTAACAGTAA
11646114 C
1 C
11646115 AGTAGTCGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTAACAGTAA
Found at i:11647722 original size:14 final size:14
Alignment explanation
Indices: 11647700--11647732 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
11647690 ACCCCCAATT
11647700 TTTCCTTTTTTTTC
1 TTTCCTTTTTTTTC
11647714 TTT-CTTTTTTTT-
1 TTTCCTTTTTTTTC
11647726 TTTCCTT
1 TTTCCTT
11647733 CTTTCCTTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 3 0.17
13 12 0.67
14 3 0.17
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (14 bp):
TTTCCTTTTTTTTC
Found at i:11647726 original size:16 final size:16
Alignment explanation
Indices: 11647705--11647736 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
11647695 CAATTTTTCC
*
11647705 TTTTTTTTCTTTCTTT
1 TTTTTTTTCCTTCTTT
11647721 TTTTTTTTCCTTCTTT
1 TTTTTTTTCCTTCTTT
11647737 CCTTCCCTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (16 bp):
TTTTTTTTCCTTCTTT
Found at i:11652008 original size:21 final size:21
Alignment explanation
Indices: 11651984--11652035 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
11651974 TTTTTCCTAA
* *
11651984 AATGTGAATTGGATTGAATTG
1 AATGTAAATTGGATTAAATTG
*
11652005 AATGTAAATTGTATTAAATTG
1 AATGTAAATTGGATTAAATTG
11652026 -ATGTTAAATT
1 AATG-TAAATT
11652036 CATTCGTATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 3 0.11
21 24 0.89
ACGTcount: A:0.38, C:0.00, G:0.19, T:0.42
Consensus pattern (21 bp):
AATGTAAATTGGATTAAATTG
Found at i:11652188 original size:22 final size:23
Alignment explanation
Indices: 11652162--11652217 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 23
11652152 TGTGTATATT
*
11652162 TATATGTTTGAATTGGAT-ACTG
1 TATATGTTTGAATTGGATAAATG
*
11652184 TATATG--TGAATTGTATAAATG
1 TATATGTTTGAATTGGATAAATG
11652205 TCATATGTTTGAA
1 T-ATATGTTTGAA
11652218 ATTGATCACA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
20 9 0.32
21 4 0.14
22 11 0.39
24 4 0.14
ACGTcount: A:0.32, C:0.04, G:0.20, T:0.45
Consensus pattern (23 bp):
TATATGTTTGAATTGGATAAATG
Found at i:11652543 original size:26 final size:25
Alignment explanation
Indices: 11652487--11652560 Score: 87
Period size: 25 Copynumber: 2.9 Consensus size: 25
11652477 GTCCCTTTAT
*
11652487 AGGCTCTTTGGAACTTTCC-GATTAA
1 AGGCTCTTTGGAGC-TTCCTGATTAA
*
11652512 AAGCTCTTTGTGAGCTTCCTGATTAA
1 AGGCTCTTTG-GAGCTTCCTGATTAA
* *
11652538 TGGCTCTCTGGAGCTTCCTGATT
1 AGGCTCTTTGGAGCTTCCTGATT
11652561 GGCTCGCTTG
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
25 26 0.62
26 16 0.38
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.38
Consensus pattern (25 bp):
AGGCTCTTTGGAGCTTCCTGATTAA
Found at i:11652661 original size:24 final size:24
Alignment explanation
Indices: 11652522--11652700 Score: 108
Period size: 25 Copynumber: 7.4 Consensus size: 24
11652512 AAGCTCTTTG
11652522 TGAGCTTCCTGATTAATGGCTCTC-
1 TGAGCTTCCTGATT-ATGGCTCTCA
* *
11652546 TGGAGCTTCCTGA-T-TGGCTCGCT
1 T-GAGCTTCCTGATTATGGCTCTCA
* * *
11652569 TGAACTT-TTCGATATATGGCTATC-
1 TGAGCTTCCT-GAT-TATGGCTCTCA
11652593 TGGAGCTTCCTGATTAATGGCTCTTCA
1 T-GAGCTTCCTGATT-ATGGCTC-TCA
11652620 -GAGCTATCC-G-TTATTGGCT-TGCA
1 TGAGCT-TCCTGATTA-TGGCTCT-CA
*
11652643 TGAGCTTCCTGATTATGGCTCTTA
1 TGAGCTTCCTGATTATGGCTCTCA
* *
11652667 TGAGCTTCCTG-TTACAAGGCTCACA
1 TGAGCTTCCTGATT--ATGGCTCTCA
11652692 TGAGCTTCC
1 TGAGCTTCC
11652701 CGTTACAAGG
Statistics
Matches: 123, Mismatches: 12, Indels: 39
0.71 0.07 0.22
Matches are distributed among these distances:
21 1 0.01
22 15 0.12
23 9 0.07
24 35 0.28
25 57 0.46
26 6 0.05
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.36
Consensus pattern (24 bp):
TGAGCTTCCTGATTATGGCTCTCA
Found at i:11652694 original size:25 final size:25
Alignment explanation
Indices: 11652666--11652739 Score: 121
Period size: 25 Copynumber: 3.0 Consensus size: 25
11652656 TATGGCTCTT
*
11652666 ATGAGCTTCCTGTTACAAGGCTCAC
1 ATGAGCTTCCCGTTACAAGGCTCAC
11652691 ATGAGCTTCCCGTTACAAGGCTCAC
1 ATGAGCTTCCCGTTACAAGGCTCAC
* *
11652716 ATGAGCTTCCCGTTATATGGCTCA
1 ATGAGCTTCCCGTTACAAGGCTCA
11652740 AGAGAAAGCT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 46 1.00
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.28
Consensus pattern (25 bp):
ATGAGCTTCCCGTTACAAGGCTCAC
Found at i:11652694 original size:49 final size:49
Alignment explanation
Indices: 11652595--11652700 Score: 128
Period size: 49 Copynumber: 2.2 Consensus size: 49
11652585 TGGCTATCTG
** **
11652595 GAGCTTCCTGATTAATGGCTCTTCAGAGCTATCCGTTATTGGCTTGCAT
1 GAGCTTCCTGATTAATGGCTCTTCAGAGCTATCCGTTAAAGGCTCACAT
11652644 GAGCTTCCTGATT-ATGGCTCTT-ATGAGCT-TCCTGTTACAAGGCTCACAT
1 GAGCTTCCTGATTAATGGCTCTTCA-GAGCTATCC-GTTA-AAGGCTCACAT
11652693 GAGCTTCC
1 GAGCTTCC
11652701 CGTTACAAGG
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
47 4 0.08
48 18 0.36
49 28 0.56
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.35
Consensus pattern (49 bp):
GAGCTTCCTGATTAATGGCTCTTCAGAGCTATCCGTTAAAGGCTCACAT
Found at i:11654590 original size:14 final size:15
Alignment explanation
Indices: 11654571--11654612 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
11654561 CTGTTTCTGA
11654571 TTGTATATTTGATG-
1 TTGTATATTTGATGC
11654585 TTGTATATTTGCATGC
1 TTGTATATTTG-ATGC
11654601 TTG-AT-TTTGATG
1 TTGTATATTTGATG
11654613 GGTTACACAC
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
13 3 0.12
14 15 0.58
15 5 0.19
16 3 0.12
ACGTcount: A:0.19, C:0.05, G:0.21, T:0.55
Consensus pattern (15 bp):
TTGTATATTTGATGC
Found at i:11656927 original size:47 final size:47
Alignment explanation
Indices: 11656859--11656984 Score: 148
Period size: 47 Copynumber: 2.7 Consensus size: 47
11656849 CTTTACATAA
* *
11656859 TGATGCCATAGCCCA-ACTATGGTCTTACAC-GTAATCACATATCTCAC
1 TGATGCCATATCCCAGA-TATGGTCTTACACAGTAAT-ACATATCACAC
* * * *
11656906 TGATGTCATATCCCAGATATGGTCTTATACAGTAGTATATATCACAC
1 TGATGCCATATCCCAGATATGGTCTTACACAGTAATACATATCACAC
* *
11656953 CGATGCCATATCCCAGATATGGTCTTATACAG
1 TGATGCCATATCCCAGATATGGTCTTACACAG
11656985 AAATCACTTG
Statistics
Matches: 69, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
47 64 0.93
48 5 0.07
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (47 bp):
TGATGCCATATCCCAGATATGGTCTTACACAGTAATACATATCACAC
Found at i:11657000 original size:7 final size:7
Alignment explanation
Indices: 11656988--11657030 Score: 86
Period size: 7 Copynumber: 6.1 Consensus size: 7
11656978 TATACAGAAA
11656988 TCACTTG
1 TCACTTG
11656995 TCACTTG
1 TCACTTG
11657002 TCACTTG
1 TCACTTG
11657009 TCACTTG
1 TCACTTG
11657016 TCACTTG
1 TCACTTG
11657023 TCACTTG
1 TCACTTG
11657030 T
1 T
11657031 AGCCAAAGCT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 36 1.00
ACGTcount: A:0.14, C:0.28, G:0.14, T:0.44
Consensus pattern (7 bp):
TCACTTG
Found at i:11657073 original size:31 final size:31
Alignment explanation
Indices: 11657036--11657204 Score: 266
Period size: 31 Copynumber: 5.5 Consensus size: 31
11657026 CTTGTAGCCA
*
11657036 AAGCTACCACTATTCACTGATCAGGTAGCTG
1 AAGCTACCACTTTTCACTGATCAGGTAGCTG
** * *
11657067 GTGCTACCATTTTTCACTGATCAGGTAGCAG
1 AAGCTACCACTTTTCACTGATCAGGTAGCTG
* *
11657098 AAGCTACCACTTTTCACTGATTAGGTAGCAG
1 AAGCTACCACTTTTCACTGATCAGGTAGCTG
11657129 AAGCTACCACTTTTCACTGATCAGGTAGCTG
1 AAGCTACCACTTTTCACTGATCAGGTAGCTG
*
11657160 AAACTACCACTTTTCACTGATCAGGTAGCTG
1 AAGCTACCACTTTTCACTGATCAGGTAGCTG
11657191 AAGCTACCACTTTT
1 AAGCTACCACTTTT
11657205 TAGTTGTCAT
Statistics
Matches: 125, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 125 1.00
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (31 bp):
AAGCTACCACTTTTCACTGATCAGGTAGCTG
Found at i:11657290 original size:50 final size:50
Alignment explanation
Indices: 11657224--11657360 Score: 238
Period size: 50 Copynumber: 2.7 Consensus size: 50
11657214 TTTGCCATTG
11657224 ATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTA
1 ATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTA
* * * *
11657274 ATCAGATAAGTGTAGCCGAAGTTATTACTTATCACTTTCATTTGTCCTTG
1 ATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTA
11657324 ATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTT
1 ATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTT
11657361 GTTTCCATGG
Statistics
Matches: 81, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 81 1.00
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.35
Consensus pattern (50 bp):
ATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTA
Done.