Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 59 of 438
Found at i:15381553 original size:26 final size:26
Alignment explanation
Indices: 15381522--15381628 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
15381512 TGAAATGCCC
15381522 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
15381548 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
15381574 ATCATGGAACATTTACCT-AACCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
15381599 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
15381625 ATCA
1 ATCA
15381629 ATTTGTACCA
Statistics
Matches: 74, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
25 23 0.31
26 51 0.69
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:15381615 original size:51 final size:52
Alignment explanation
Indices: 15381522--15381628 Score: 180
Period size: 51 Copynumber: 2.1 Consensus size: 52
15381512 TGAAATGCCC
15381522 ATCATGGAACATTTACCTAAACCATTATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATTATCATGAAACATTTACCTAACCCATT
* * *
15381574 ATCATGGAACATTTACCT-AACCATTATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATTATCATGAAACATTTACCTAACCCATT
15381625 ATCA
1 ATCA
15381629 ATTTGTACCA
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
51 34 0.65
52 18 0.35
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.33
Consensus pattern (52 bp):
ATCATGGAACATTTACCTAAACCATTATCATGAAACATTTACCTAACCCATT
Found at i:15383265 original size:72 final size:72
Alignment explanation
Indices: 15383176--15383343 Score: 205
Period size: 72 Copynumber: 2.3 Consensus size: 72
15383166 TATGTAATGT
* ** *
15383176 GGGCCCGGGTACTGACTTTGTGTATAAACCCATGAGTAACTCGCTGAGCGAGCA-TATCATGTTA
1 GGGCTCGGGTACTGACTTTGTGTATAAACCCATGAGTAACTCAATGAGCGAGCATTA-CATGATA
*
15383240 ATGCTTTG
65 ATGCTTTA
** * *
15383248 GGGCTCGGGTACTGACTTTGTGTATAAACCTGTGAGTAGCTCAATGAGCGGGCATTACATGATAA
1 GGGCTCGGGTACTGACTTTGTGTATAAACCCATGAGTAACTCAATGAGCGAGCATTACATGATAA
15383313 TGCTTTA
66 TGCTTTA
* *
15383320 GGG-TCTGGGTGCTAACTTTGTGTA
1 GGGCTC-GGGTACTGACTTTGTGTA
15383344 CCCAGACCCA
Statistics
Matches: 83, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
71 2 0.02
72 79 0.95
73 2 0.02
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.31
Consensus pattern (72 bp):
GGGCTCGGGTACTGACTTTGTGTATAAACCCATGAGTAACTCAATGAGCGAGCATTACATGATAA
TGCTTTA
Found at i:15385840 original size:2 final size:2
Alignment explanation
Indices: 15385835--15385876 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
15385825 TGTGTGTGTG
15385835 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15385877 AGAGTCAAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:15389097 original size:28 final size:28
Alignment explanation
Indices: 15389032--15389103 Score: 101
Period size: 28 Copynumber: 2.5 Consensus size: 28
15389022 ATAGTGAATC
* *
15389032 CGCACACTTAGTGCTATATGTATTCAACT
1 CGCACACTTAGTGCTACA-GTAATCAACT
15389061 CGCACACTTAGTGCTACA-TAATCGAACT
1 CGCACACTTAGTGCTACAGTAATC-AACT
15389089 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
15389104 GTACAATTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
27 4 0.10
28 19 0.47
29 17 0.43
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTACAGTAATCAACT
Found at i:15393325 original size:72 final size:72
Alignment explanation
Indices: 15393243--15393496 Score: 384
Period size: 72 Copynumber: 3.5 Consensus size: 72
15393233 TATGTAATGT
*
15393243 GGGTCTGGGTACTGACTTTGTGTATAAACCCGTGAGTAACTCGCTGAGCAAGCATATCATGTTAA
1 GGGTCCGGGTACTGACTTTGTGTATAAACCCGTGAGTAACTCGCTGAGCAAGCATATCATGTTAA
15393308 TGCTTTG
66 TGCTTTG
*
15393315 GGGTCCGGGTACTGACTTTGTGTATAAACCCGTGAGTAACTAGCTGAGCAAGCATATCATGTTAA
1 GGGTCCGGGTACTGACTTTGTGTATAAACCCGTGAGTAACTCGCTGAGCAAGCATATCATGTTAA
15393380 TGCTTTG
66 TGCTTTG
* ** * *
15393387 GGGTCCGGGTACTGACTTTGTGTATAAACCCGTGAGTAGCTCAATGAGCAGGCAT-TACATGATA
1 GGGTCCGGGTACTGACTTTGTGTATAAACCCGTGAGTAACTCGCTGAGCAAGCATAT-CATGTTA
15393451 ATGCTTTG
65 ATGCTTTG
* * * * *
15393459 GGGTCTGAGTGCTGACTTTGTGTACAAATCCGTGAGTA
1 GGGTCCGGGTACTGACTTTGTGTATAAACCCGTGAGTA
15393497 GCTCAAATGC
Statistics
Matches: 168, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
71 1 0.01
72 167 0.99
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.31
Consensus pattern (72 bp):
GGGTCCGGGTACTGACTTTGTGTATAAACCCGTGAGTAACTCGCTGAGCAAGCATATCATGTTAA
TGCTTTG
Found at i:15408437 original size:2 final size:2
Alignment explanation
Indices: 15408430--15408462 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
15408420 GTGGAACTTG
15408430 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
15408463 GTAAACTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:15412174 original size:20 final size:20
Alignment explanation
Indices: 15412138--15412175 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
15412128 TTAAAAATTA
*
15412138 AAATATTAAAATCATATATT
1 AAATATTAAAATAATATATT
15412158 AAAT-TTAAACATAATATA
1 AAATATTAAA-ATAATATA
15412176 AAGACCAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (20 bp):
AAATATTAAAATAATATATT
Found at i:15412986 original size:24 final size:24
Alignment explanation
Indices: 15412959--15413007 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
15412949 TATTCAGGTG
* *
15412959 TAAATTTTGGTTAGTACCAGTTGA
1 TAAATTTTGGCTAGTACCACTTGA
*
15412983 TAAATTTTGGCTAGTATCACTTGA
1 TAAATTTTGGCTAGTACCACTTGA
15413007 T
1 T
15413008 TTTACCCGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.29, C:0.10, G:0.18, T:0.43
Consensus pattern (24 bp):
TAAATTTTGGCTAGTACCACTTGA
Found at i:15413998 original size:30 final size:30
Alignment explanation
Indices: 15413962--15414025 Score: 78
Period size: 30 Copynumber: 2.1 Consensus size: 30
15413952 TATTATACTT
15413962 AAATAAGC-CTTTAAATTTTAA-TTAGCACTC
1 AAATAAGCTC-TTAAATTTTAAGTTA-CACTC
* *
15413992 AAATAAGTTCTTAAATTTTAAGTTACATTC
1 AAATAAGCTCTTAAATTTTAAGTTACACTC
15414022 AAAT
1 AAAT
15414026 TATAAGTTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
30 26 0.87
31 4 0.13
ACGTcount: A:0.42, C:0.12, G:0.06, T:0.39
Consensus pattern (30 bp):
AAATAAGCTCTTAAATTTTAAGTTACACTC
Found at i:15414045 original size:33 final size:33
Alignment explanation
Indices: 15413994--15414060 Score: 82
Period size: 33 Copynumber: 2.0 Consensus size: 33
15413984 TAGCACTCAA
*
15413994 ATAAGTTCTTAAATTTTAAGTTACATTCAAATT
1 ATAAGTTCTTAAATTTTAAGTTACATCCAAATT
* * *
15414027 ATAAGTTGTT-AATCTTTAATTTGCATCCAAATT
1 ATAAGTTCTTAAAT-TTTAAGTTACATCCAAATT
15414060 A
1 A
15414061 GGAGTATTCA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
32 3 0.10
33 26 0.90
ACGTcount: A:0.37, C:0.10, G:0.07, T:0.45
Consensus pattern (33 bp):
ATAAGTTCTTAAATTTTAAGTTACATCCAAATT
Found at i:15424875 original size:39 final size:39
Alignment explanation
Indices: 15424830--15424986 Score: 269
Period size: 39 Copynumber: 4.0 Consensus size: 39
15424820 TTCAAGACAT
15424830 TGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGC
1 TGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGC
**
15424869 TGGAAATGTATCCGGGCTAACTTCCCGCAGGCTTCGTGC
1 TGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGC
*
15424908 TGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGT
1 TGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGC
* *
15424947 TAGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTTGTGC
1 TGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGC
15424986 T
1 T
15424987 CGTAATATAA
Statistics
Matches: 110, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 110 1.00
ACGTcount: A:0.20, C:0.25, G:0.29, T:0.25
Consensus pattern (39 bp):
TGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGC
Found at i:15429268 original size:35 final size:35
Alignment explanation
Indices: 15429224--15429390 Score: 201
Period size: 35 Copynumber: 4.6 Consensus size: 35
15429214 TCCTTATTGA
** *
15429224 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
15429259 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
15429299 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
15429334 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
15429369 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
15429391 CTTTGCCATG
Statistics
Matches: 117, Mismatches: 10, Indels: 10
0.85 0.07 0.07
Matches are distributed among these distances:
35 87 0.74
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:15429307 original size:75 final size:73
Alignment explanation
Indices: 15429219--15429390 Score: 226
Period size: 75 Copynumber: 2.4 Consensus size: 73
15429209 GATTTTCCTT
** * * **
15429219 ATTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
15429283 TCAGTATGG
65 TCAGTATGG
*
15429292 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
15429357 CTCAGTATGG
64 CTCAGTATGG
15429367 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
15429391 CTTTGCCATG
Statistics
Matches: 89, Mismatches: 7, Indels: 9
0.85 0.07 0.09
Matches are distributed among these distances:
70 21 0.24
73 3 0.03
74 7 0.08
75 58 0.65
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:15433009 original size:41 final size:41
Alignment explanation
Indices: 15432974--15433158 Score: 300
Period size: 41 Copynumber: 4.5 Consensus size: 41
15432964 TAGCGGCATT
* * *
15432974 TTTTGTTAAAACACCGCTAAAAA-TAGAGCATTAGCGGCGC
1 TTTTGGTAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGC
* *
15433014 TTTTGGTAAAACCCCGCTAAAAACCAGAGCATTAGCGGCTC
1 TTTTGGTAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGC
15433055 TTTTGGTAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGC
1 TTTTGGTAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGC
15433096 TTTTGGTAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGC
1 TTTTGGTAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGC
* *
15433137 TTTCGATAAAACGCCGCTAAAA
1 TTTTGGTAAAACGCCGCTAAAA
15433159 GTCATATAAT
Statistics
Matches: 136, Mismatches: 8, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
40 21 0.15
41 115 0.85
ACGTcount: A:0.34, C:0.24, G:0.21, T:0.22
Consensus pattern (41 bp):
TTTTGGTAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGC
Found at i:15433084 original size:82 final size:81
Alignment explanation
Indices: 15432949--15433158 Score: 303
Period size: 82 Copynumber: 2.6 Consensus size: 81
15432939 ACAAAAATTA
* * * * * * *
15432949 TAAAAAACGGAGCAATAGCGGCATTTTTTGTTAAAACACCGCTAAAAATAGAGCATTAGCGGCGC
1 TAAAAACCAGAGCATTAGCGGC-TCTTTTGATAAAACGCCGCTAAAAACAGAGCATTAGCGGCGC
15433014 TTTTGGTAAAACCCCGC
65 TTTTGGTAAAACCCCGC
*
15433031 TAAAAACCAGAGCATTAGCGGCTCTTTTGGTAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGC
1 TAAAAACCAGAGCATTAGCGGCTCTTTTGATAAAACGCCGCTAAAAA-CAGAGCATTAGCGGCGC
*
15433096 TTTTGGTAAAACGCCGC
65 TTTTGGTAAAACCCCGC
* *
15433113 TAAAAACCAGAGCATTAGCGGCGCTTTCGATAAAACGCCGCTAAAA
1 TAAAAACCAGAGCATTAGCGGCTCTTTTGATAAAACGCCGCTAAAA
15433159 GTCATATAAT
Statistics
Matches: 116, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
81 22 0.19
82 94 0.81
ACGTcount: A:0.35, C:0.23, G:0.21, T:0.21
Consensus pattern (81 bp):
TAAAAACCAGAGCATTAGCGGCTCTTTTGATAAAACGCCGCTAAAAACAGAGCATTAGCGGCGCT
TTTGGTAAAACCCCGC
Found at i:15433654 original size:7 final size:7
Alignment explanation
Indices: 15433644--15433673 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
15433634 AGATTTAAGT
15433644 GTTAGGG
1 GTTAGGG
15433651 GTTAGGG
1 GTTAGGG
15433658 GTTAGGG
1 GTTAGGG
*
15433665 GTTAAGG
1 GTTAGGG
15433672 GT
1 GT
15433674 GAGGAGTTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.17, C:0.00, G:0.53, T:0.30
Consensus pattern (7 bp):
GTTAGGG
Found at i:15433663 original size:14 final size:14
Alignment explanation
Indices: 15433638--15433673 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
15433628 GGTTTAAGAT
*
15433638 TTAAGTGTTAGGGG
1 TTAAGGGTTAGGGG
*
15433652 TTAGGGGTTAGGGG
1 TTAAGGGTTAGGGG
15433666 TTAAGGGT
1 TTAAGGGT
15433674 GAGGAGTTCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.19, C:0.00, G:0.47, T:0.33
Consensus pattern (14 bp):
TTAAGGGTTAGGGG
Found at i:15433908 original size:22 final size:22
Alignment explanation
Indices: 15433883--15433925 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
15433873 GAGTTATTAT
*
15433883 TTTAAGGTTTATAGA-TTATGGG
1 TTTAAGGATTAT-GATTTATGGG
*
15433905 TTTAGGGATTATGATTTATGG
1 TTTAAGGATTATGATTTATGG
15433926 TTATGTAAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 2 0.11
22 16 0.89
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.47
Consensus pattern (22 bp):
TTTAAGGATTATGATTTATGGG
Found at i:15434506 original size:8 final size:8
Alignment explanation
Indices: 15434490--15434567 Score: 65
Period size: 7 Copynumber: 9.8 Consensus size: 8
15434480 TTTATATGAT
*
15434490 AATTTAAA
1 AATTAAAA
15434498 AATTAAAA
1 AATTAAAA
15434506 AATCTTCAAAA
1 AA--TT-AAAA
*
15434517 AAATAAAA
1 AATTAAAA
15434525 AA-TAAAA
1 AATTAAAA
15434532 AA-TAAAA
1 AATTAAAA
15434539 AA-TAAAA
1 AATTAAAA
15434546 AA-TAAAA
1 AATTAAAA
15434553 AACTTAAAA
1 AA-TTAAAA
*
15434562 ATTTAA
1 AATTAA
15434568 TATTTAATAT
Statistics
Matches: 62, Mismatches: 3, Indels: 10
0.83 0.04 0.13
Matches are distributed among these distances:
7 28 0.45
8 19 0.31
9 7 0.11
10 2 0.03
11 6 0.10
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.23
Consensus pattern (8 bp):
AATTAAAA
Found at i:15434524 original size:7 final size:7
Alignment explanation
Indices: 15434514--15434554 Score: 82
Period size: 7 Copynumber: 5.9 Consensus size: 7
15434504 AAAATCTTCA
15434514 AAAAAAT
1 AAAAAAT
15434521 AAAAAAT
1 AAAAAAT
15434528 AAAAAAT
1 AAAAAAT
15434535 AAAAAAT
1 AAAAAAT
15434542 AAAAAAT
1 AAAAAAT
15434549 AAAAAA
1 AAAAAA
15434555 CTTAAAAATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 34 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAAAT
Found at i:15434538 original size:21 final size:22
Alignment explanation
Indices: 15434514--15434563 Score: 84
Period size: 21 Copynumber: 2.3 Consensus size: 22
15434504 AAAATCTTCA
15434514 AAAAAATAAAAAATAAAAAA-T
1 AAAAAATAAAAAATAAAAAACT
15434535 AAAAAATAAAAAATAAAAAACT
1 AAAAAATAAAAAATAAAAAACT
*
15434557 TAAAAAT
1 AAAAAAT
15434564 TTAATATTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
21 20 0.74
22 7 0.26
ACGTcount: A:0.82, C:0.02, G:0.00, T:0.16
Consensus pattern (22 bp):
AAAAAATAAAAAATAAAAAACT
Found at i:15435171 original size:16 final size:16
Alignment explanation
Indices: 15435150--15435180 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
15435140 CAAGATCACT
15435150 TATCTGCAGTCTGTTA
1 TATCTGCAGTCTGTTA
15435166 TATCTGCAGTCTGTT
1 TATCTGCAGTCTGTT
15435181 TTTCCCAGCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.16, C:0.19, G:0.19, T:0.45
Consensus pattern (16 bp):
TATCTGCAGTCTGTTA
Found at i:15437604 original size:9 final size:9
Alignment explanation
Indices: 15437587--15437616 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
15437577 ACTATTTGTT
*
15437587 ATTTTCCGA
1 ATTTACCGA
15437596 ATTTACCGA
1 ATTTACCGA
15437605 ATTTACCGA
1 ATTTACCGA
15437614 ATT
1 ATT
15437617 GTTTTCCTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.30, C:0.20, G:0.10, T:0.40
Consensus pattern (9 bp):
ATTTACCGA
Found at i:15439954 original size:18 final size:19
Alignment explanation
Indices: 15439910--15439957 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 19
15439900 ATAAAATATT
* *
15439910 AAATAAATTTTATATTTTA
1 AAATTAATTTTATAGTTTA
* *
15439929 TAACTAATTTTA-AGTTTA
1 AAATTAATTTTATAGTTTA
15439947 AAATTAATTTT
1 AAATTAATTTT
15439958 TATTATATCA
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
18 14 0.61
19 9 0.39
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (19 bp):
AAATTAATTTTATAGTTTA
Found at i:15442972 original size:17 final size:18
Alignment explanation
Indices: 15442945--15442978 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
15442935 TGAGTATGTT
15442945 TTTTCTAAATTAATTTTG
1 TTTTCTAAATTAATTTTG
15442963 TTTT-TAAATTAATTTT
1 TTTTCTAAATTAATTTT
15442979 TATAAATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (18 bp):
TTTTCTAAATTAATTTTG
Found at i:15443483 original size:26 final size:26
Alignment explanation
Indices: 15443450--15443585 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
15443440 TGATACAAAT
*
15443450 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
* * * *
15443476 TGACAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
15443502 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
15443528 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
15443554 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
15443580 TGATAA
1 TGATAA
15443586 GAATTACATG
Statistics
Matches: 103, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 103 1.00
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:15446724 original size:12 final size:12
Alignment explanation
Indices: 15446707--15446737 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
15446697 TACTCGGGAA
15446707 GAGGCCGTGGTC
1 GAGGCCGTGGTC
15446719 GAGGCCGTGGTC
1 GAGGCCGTGGTC
15446731 GAGGCCG
1 GAGGCCG
15446738 AGGTAGTACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.10, C:0.26, G:0.52, T:0.13
Consensus pattern (12 bp):
GAGGCCGTGGTC
Found at i:15451616 original size:26 final size:26
Alignment explanation
Indices: 15451550--15451681 Score: 191
Period size: 26 Copynumber: 5.2 Consensus size: 26
15451540 TGATACAAAT
15451550 TGATAAT-GGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
15451575 TGACAAT--ATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
15451599 TGATAATGGGTTAGGTAAATGTT-CA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
15451624 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
15451650 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
15451676 TGATAA
1 TGATAA
15451682 GAATTCATGT
Statistics
Matches: 98, Mismatches: 6, Indels: 5
0.90 0.06 0.05
Matches are distributed among these distances:
24 21 0.21
25 31 0.32
26 46 0.47
ACGTcount: A:0.34, C:0.06, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:15451653 original size:51 final size:49
Alignment explanation
Indices: 15451550--15451681 Score: 185
Period size: 51 Copynumber: 2.6 Consensus size: 49
15451540 TGATACAAAT
*
15451550 TGATAAT-GGTTAGGTAAATGTTCCATGACAATATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTT-CATGATAATATTAGGTAAATATTCCA
* * *
15451599 TGATAATGGGTTAGGTAAATGTTCATGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCATGATAAT--ATTAGGTAAATATTCCA
15451650 TGATAATGGGTTAGGTAAATGTTTCATGATAA
1 TGATAATGGGTTAGGTAAATG-TTCATGATAA
15451682 GAATTCATGT
Statistics
Matches: 75, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
49 15 0.20
50 15 0.20
51 35 0.47
52 10 0.13
ACGTcount: A:0.34, C:0.06, G:0.23, T:0.36
Consensus pattern (49 bp):
TGATAATGGGTTAGGTAAATGTTCATGATAATATTAGGTAAATATTCCA
Found at i:15454817 original size:12 final size:12
Alignment explanation
Indices: 15454800--15454830 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
15454790 ACTCGGGGTA
15454800 GAGGCCGTGGTC
1 GAGGCCGTGGTC
15454812 GAGGCCGTGGTC
1 GAGGCCGTGGTC
15454824 GAGGCCG
1 GAGGCCG
15454831 AGGTAGTACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.10, C:0.26, G:0.52, T:0.13
Consensus pattern (12 bp):
GAGGCCGTGGTC
Found at i:15455794 original size:19 final size:19
Alignment explanation
Indices: 15455761--15455801 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
15455751 AAAACCTCAA
*
15455761 TTTCTCCCTTTTTTCTTTC
1 TTTCTCCCTTTTTTCCTTC
15455780 TTTC-CCCTTTCTTTCCTTC
1 TTTCTCCCTTT-TTTCCTTC
15455799 TTT
1 TTT
15455802 TCTTCTCTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (19 bp):
TTTCTCCCTTTTTTCCTTC
Found at i:15455851 original size:19 final size:19
Alignment explanation
Indices: 15455824--15455878 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
15455814 TCGTTTCATA
*
15455824 TTCTGTTTCTTTGTTTCTT
1 TTCTATTTCTTTGTTTCTT
*
15455843 TTCTATTTCTTTATTTCTT
1 TTCTATTTCTTTGTTTCTT
15455862 TT-TATTTCATTTGTTTC
1 TTCTATTTC-TTTGTTTC
15455879 ATTTGCTTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
18 6 0.19
19 26 0.81
ACGTcount: A:0.07, C:0.15, G:0.05, T:0.73
Consensus pattern (19 bp):
TTCTATTTCTTTGTTTCTT
Found at i:15455922 original size:21 final size:21
Alignment explanation
Indices: 15455892--15455932 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
15455882 TGCTTTATAA
*
15455892 TAATATTATAATAATATAATT
1 TAATAATATAATAATATAATT
* *
15455913 TAATAATATACTTATATAAT
1 TAATAATATAATAATATAAT
15455933 AAGTAAACAT
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:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (21 bp):
TAATAATATAATAATATAATT
Found at i:15455931 original size:13 final size:13
Alignment explanation
Indices: 15455888--15455933 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
15455878 CATTTGCTTT
15455888 ATAATAATATTATA
1 ATAAT-ATATTATA
15455902 ATAATATAATT-TA
1 ATAATAT-ATTATA
15455915 ATAATATACTTAT-
1 ATAATATA-TTATA
15455928 ATAATA
1 ATAATA
15455934 AGTAAACATA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
12 1 0.03
13 19 0.66
14 9 0.31
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.43
Consensus pattern (13 bp):
ATAATATATTATA
Found at i:15456863 original size:62 final size:62
Alignment explanation
Indices: 15456766--15456891 Score: 225
Period size: 62 Copynumber: 2.0 Consensus size: 62
15456756 CTCGACACTG
15456766 GAGTCCAGTTCTTGCCTAAACATGTTGCAAATGTTGAACTTGAGCATGCTACAGGTCCTGTT
1 GAGTCCAGTTCTTGCCTAAACATGTTGCAAATGTTGAACTTGAGCATGCTACAGGTCCTGTT
* * *
15456828 GAGTCTAGTTCTTGCCTAAGCATGTTGCAAATGTTGAACTTGAGCATGTTACAGGTCCTGTT
1 GAGTCCAGTTCTTGCCTAAACATGTTGCAAATGTTGAACTTGAGCATGCTACAGGTCCTGTT
15456890 GA
1 GA
15456892 TGTTGTAAAA
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 61 1.00
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (62 bp):
GAGTCCAGTTCTTGCCTAAACATGTTGCAAATGTTGAACTTGAGCATGCTACAGGTCCTGTT
Found at i:15458074 original size:14 final size:13
Alignment explanation
Indices: 15458050--15458080 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
15458040 ACCAAAATTT
15458050 GAAAGAAAAGAAA
1 GAAAGAAAAGAAA
15458063 GAAAGAAAAAGAAA
1 GAAAG-AAAAGAAA
15458077 GAAA
1 GAAA
15458081 AGGGAAAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.29
14 12 0.71
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (13 bp):
GAAAGAAAAGAAA
Found at i:15460405 original size:11 final size:11
Alignment explanation
Indices: 15460391--15460443 Score: 54
Period size: 11 Copynumber: 4.9 Consensus size: 11
15460381 AAATAAATAT
15460391 TATTTTATTAA
1 TATTTTATTAA
*
15460402 TATTTTAATAA
1 TATTTTATTAA
* * *
15460413 GATATT-TTAT
1 TATTTTATTAA
*
15460423 TATTTTATTAT
1 TATTTTATTAA
15460434 TATTTTATTA
1 TATTTTATTA
15460444 GCATATAAAG
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
10 6 0.18
11 28 0.82
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:15460409 original size:27 final size:29
Alignment explanation
Indices: 15460361--15460426 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 29
15460351 GATATTTTGA
*
15460361 TATTTTATTATTATTTAATTAAATAA-ATAT
1 TATTTTATTAATATTT-ATT-AATAAGATAT
15460391 TATTTTATTAATA-TT-TTAATAAGATAT
1 TATTTTATTAATATTTATTAATAAGATAT
15460418 T-TTATTATT
1 TATT-TTATT
15460427 TTATTATTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
26 7 0.21
27 12 0.36
29 2 0.06
30 12 0.36
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (29 bp):
TATTTTATTAATATTTATTAATAAGATAT
Found at i:15462346 original size:46 final size:46
Alignment explanation
Indices: 15462279--15462443 Score: 195
Period size: 46 Copynumber: 3.6 Consensus size: 46
15462269 GCTCTCTGAA
* * * *
15462279 ATGAAATGTGTAAGACCATGGTTGAAAGCTACCAGGGTAGCATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCAGGGCAACATGAC
* *
15462325 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCAGGGCAACATGAC
* ** * *
15462371 ATGAAAAGAATAAGACCATGGTTGAAAGATACCATGACAACATGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCAGGGCAACATGAC
** * *
15462417 AAAAAATGAGTAAGACCATAGTTGAAA
1 ATGAAATGTGTAAGACCATGGTTGAAA
15462444 CACACTATGG
Statistics
Matches: 103, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 103 1.00
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (46 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCAGGGCAACATGAC
Found at i:15465376 original size:21 final size:21
Alignment explanation
Indices: 15465350--15465391 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
15465340 TATATGCCGA
15465350 GATTGAAATAAAATAAAAATC
1 GATTGAAATAAAATAAAAATC
15465371 GATTGAAATAAAATAAAAATC
1 GATTGAAATAAAATAAAAATC
15465392 TACTTATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.62, C:0.05, G:0.10, T:0.24
Consensus pattern (21 bp):
GATTGAAATAAAATAAAAATC
Found at i:15465741 original size:18 final size:18
Alignment explanation
Indices: 15465718--15465775 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
15465708 AATGCAAAGA
15465718 TTAATAAAAGTAAATAAT
1 TTAATAAAAGTAAATAAT
* *
15465736 TTAATAATATGT--ATAAA
1 TTAATAA-AAGTAAATAAT
* *
15465753 TTAGTAAAAATAAATAAT
1 TTAATAAAAGTAAATAAT
15465771 TTAAT
1 TTAAT
15465776 CATTTATATG
Statistics
Matches: 30, Mismatches: 7, Indels: 6
0.70 0.16 0.14
Matches are distributed among these distances:
16 2 0.07
17 10 0.33
18 15 0.50
19 3 0.10
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (18 bp):
TTAATAAAAGTAAATAAT
Found at i:15469065 original size:3 final size:3
Alignment explanation
Indices: 15469057--15469088 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
15469047 GGAAAAGCCA
15469057 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
15469089 AAGAGTGATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:15469186 original size:17 final size:16
Alignment explanation
Indices: 15469164--15469195 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
15469154 AAAGATTTTG
15469164 TAAATATATGTTAAATA
1 TAAATATAT-TTAAATA
15469181 TAAATATATTTAAAT
1 TAAATATATTTAAAT
15469196 TTTTTAAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (16 bp):
TAAATATATTTAAATA
Found at i:15470736 original size:31 final size:31
Alignment explanation
Indices: 15470701--15470763 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
15470691 GCAATAAGAA
15470701 AGAACCAGTATATTGATTCATTGTGCTTACT
1 AGAACCAGTATATTGATTCATTGTGCTTACT
15470732 AGAACCAGTATATTGATTCATTGTGCTTACT
1 AGAACCAGTATATTGATTCATTGTGCTTACT
15470763 A
1 A
15470764 AGAGGAACTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.38
Consensus pattern (31 bp):
AGAACCAGTATATTGATTCATTGTGCTTACT
Found at i:15472706 original size:6 final size:6
Alignment explanation
Indices: 15472695--15472726 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
15472685 TGACACTTTT
15472695 AAATTA AAATTA AAATTA AAATTA AAATTA AA
1 AAATTA AAATTA AAATTA AAATTA AAATTA AA
15472727 TTATAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
AAATTA
Found at i:15473549 original size:31 final size:31
Alignment explanation
Indices: 15473513--15473573 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
15473503 GTTACAAAAT
* *
15473513 AGTCATTGAATTATTCGAAAGTTTTTATTTA
1 AGTCATTAAACTATTCGAAAGTTTTTATTTA
* *
15473544 AGTCATTAAACTATTTGAAATTTTTTATTT
1 AGTCATTAAACTATTCGAAAGTTTTTATTT
15473574 GAATCACTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.33, C:0.07, G:0.10, T:0.51
Consensus pattern (31 bp):
AGTCATTAAACTATTCGAAAGTTTTTATTTA
Found at i:15475211 original size:28 final size:28
Alignment explanation
Indices: 15475179--15475232 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
15475169 TCTATATAAA
*
15475179 TAATTTTATTTTAATAATAATACAAATT
1 TAATTTTAATTTAATAATAATACAAATT
* *
15475207 TAATTTTAATTTGATACTAATACAAA
1 TAATTTTAATTTAATAATAATACAAA
15475233 ATTTCACCTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (28 bp):
TAATTTTAATTTAATAATAATACAAATT
Found at i:15479816 original size:10 final size:9
Alignment explanation
Indices: 15479796--15479820 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
15479786 TAAAACAAAT
15479796 AAAAGAAAA
1 AAAAGAAAA
15479805 AAAAGAAAA
1 AAAAGAAAA
15479814 AAAAGAA
1 AAAAGAA
15479821 CAAGTTGAAA
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:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (9 bp):
AAAAGAAAA
Found at i:15485847 original size:16 final size:17
Alignment explanation
Indices: 15485826--15485886 Score: 52
Period size: 17 Copynumber: 3.4 Consensus size: 17
15485816 TTATACTTAA
15485826 TAATAT-AATAAAATAT
1 TAATATAAATAAAATAT
15485842 TAATATAAATAAATATAATT
1 TAATATAAATAAA-AT-A-T
* *
15485862 TACTATTTCAATAAAATAT
1 TA--ATATAAATAAAATAT
15485881 TAATAT
1 TAATAT
15485887 CATAATTTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 11
0.72 0.06 0.22
Matches are distributed among these distances:
16 6 0.17
17 9 0.25
18 2 0.06
19 4 0.11
20 4 0.11
21 2 0.06
22 9 0.25
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (17 bp):
TAATATAAATAAAATAT
Found at i:15485891 original size:16 final size:16
Alignment explanation
Indices: 15485826--15485891 Score: 51
Period size: 16 Copynumber: 3.7 Consensus size: 16
15485816 TTATACTTAA
15485826 TAATATAATAAAATAT
1 TAATATAATAAAATAT
15485842 TAATATAAATAAATATAATT
1 TAATAT-AATAAA-AT-A-T
*
15485862 TACTATTTCAATAAAATAT
1 TA--ATAT-AATAAAATAT
*
15485881 TAATATCATAA
1 TAATATAATAA
15485892 TTTTATTTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 12
0.71 0.07 0.21
Matches are distributed among these distances:
16 10 0.25
17 9 0.22
18 2 0.05
19 4 0.10
20 4 0.10
21 2 0.05
22 9 0.22
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (16 bp):
TAATATAATAAAATAT
Found at i:15497796 original size:37 final size:37
Alignment explanation
Indices: 15497755--15497836 Score: 110
Period size: 37 Copynumber: 2.2 Consensus size: 37
15497745 ACTTTTAAGC
*
15497755 TTATATTTCAATCAAGTTAGAGTGGTTTAGAGTGTTT
1 TTATAGTTCAATCAAGTTAGAGTGGTTTAGAGTGTTT
*** * *
15497792 TTATAGTTGTTTTAATTTAGAGTGGTTTAGAGTGTTT
1 TTATAGTTCAATCAAGTTAGAGTGGTTTAGAGTGTTT
15497829 TTATAGTT
1 TTATAGTT
15497837 GTTTTAATTA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.24, C:0.02, G:0.22, T:0.51
Consensus pattern (37 bp):
TTATAGTTCAATCAAGTTAGAGTGGTTTAGAGTGTTT
Found at i:15497837 original size:37 final size:37
Alignment explanation
Indices: 15497771--15497845 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
15497761 TTCAATCAAG
15497771 TTAGAGTGGTTTAGAGTGTTTTTATAGTTGTTTTAAT
1 TTAGAGTGGTTTAGAGTGTTTTTATAGTTGTTTTAAT
15497808 TTAGAGTGGTTTAGAGTGTTTTTATAGTTGTTTTAAT
1 TTAGAGTGGTTTAGAGTGTTTTTATAGTTGTTTTAAT
15497845 T
1 T
15497846 ATGTTTATAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.21, C:0.00, G:0.24, T:0.55
Consensus pattern (37 bp):
TTAGAGTGGTTTAGAGTGTTTTTATAGTTGTTTTAAT
Found at i:15499826 original size:31 final size:31
Alignment explanation
Indices: 15499768--15499826 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 31
15499758 TAGTGAAAAC
* * * * *
15499768 CATCATTTTCGGGCAATTCGGGGTGGTAAGT
1 CATCATTGTCAGGCAATCCAGGATGGTAAGT
15499799 CATCATTGTCAGGCAATCCAGGATGGTA
1 CATCATTGTCAGGCAATCCAGGATGGTA
15499827 GAATTGAATG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 23 1.00
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.29
Consensus pattern (31 bp):
CATCATTGTCAGGCAATCCAGGATGGTAAGT
Found at i:15499896 original size:76 final size:76
Alignment explanation
Indices: 15499762--15499949 Score: 209
Period size: 76 Copynumber: 2.5 Consensus size: 76
15499752 AATGAATAGT
*** * ** * **
15499762 GAAAACCATCATTTTCGGGCAATTCGGGGTGGTAAGTCATCATTGTCAGGCAATCCAGGATGGTA
1 GAAAACCATCATAGCCGGGCAATCCAAGGTGGTAAGTCATCATTGTCAGGCAACCCAGGATGACA
15499827 GAATTGAATGA
66 GAATTGAATGA
* * * *
15499838 GAAAACCATCGTAGCCGGGCAATCCGAA-GTGGTAAGTCATTATTG-CTGAGCAACCCAGGGTGA
1 GAAAACCATCATAGCCGGGCAATCC-AAGGTGGTAAGTCATCATTGTCAG-GCAACCCAGGATGA
**
15499901 CATTATTGAATGA
64 CAGAATTGAATGA
15499914 GAAAACCATCATAGCCGGGCAATCCAAGGTGGTAAG
1 GAAAACCATCATAGCCGGGCAATCCAAGGTGGTAAG
15499950 CCGTCGTTGC
Statistics
Matches: 93, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
75 4 0.04
76 89 0.96
ACGTcount: A:0.32, C:0.19, G:0.27, T:0.22
Consensus pattern (76 bp):
GAAAACCATCATAGCCGGGCAATCCAAGGTGGTAAGTCATCATTGTCAGGCAACCCAGGATGACA
GAATTGAATGA
Found at i:15500230 original size:24 final size:24
Alignment explanation
Indices: 15500199--15500246 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
15500189 TTTCAGATTT
15500199 ATAGGAATATTGTTGAGTGATATA
1 ATAGGAATATTGTTGAGTGATATA
15500223 ATAGGAATATTGTTGAGTGATATA
1 ATAGGAATATTGTTGAGTGATATA
15500247 CTTGTCATAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.00, G:0.25, T:0.38
Consensus pattern (24 bp):
ATAGGAATATTGTTGAGTGATATA
Found at i:15509459 original size:26 final size:26
Alignment explanation
Indices: 15509429--15509489 Score: 95
Period size: 26 Copynumber: 2.3 Consensus size: 26
15509419 ATTTAAACTC
15509429 CACTATTCACCCATCACACCCCCATT
1 CACTATTCACCCATCACACCCCCATT
* * *
15509455 CACTATTCACCTATCACACCTCCTTT
1 CACTATTCACCCATCACACCCCCATT
15509481 CACTATTCA
1 CACTATTCA
15509490 TCCTTCCTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.26, C:0.44, G:0.00, T:0.30
Consensus pattern (26 bp):
CACTATTCACCCATCACACCCCCATT
Found at i:15509774 original size:3 final size:3
Alignment explanation
Indices: 15509768--15509818 Score: 75
Period size: 3 Copynumber: 17.0 Consensus size: 3
15509758 TTTAATTTTT
* * *
15509768 TTA TTA TTA CTA TTA TTA ATC TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
15509816 TTA
1 TTA
15509819 CTCTTATTTC
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:15509781 original size:9 final size:9
Alignment explanation
Indices: 15509769--15509837 Score: 56
Period size: 9 Copynumber: 8.1 Consensus size: 9
15509759 TTAATTTTTT
15509769 TATTATTAC
1 TATTATTAC
15509778 TATTATTA-
1 TATTATTAC
* *
15509786 -A-TCTTAT
1 TATTATTAC
*
15509793 TATTATTAT
1 TATTATTAC
*
15509802 TATTATTAT
1 TATTATTAC
15509811 TATTATTAC
1 TATTATTAC
* *
15509820 TCTTATTTC
1 TATTATTAC
15509829 T-TTATTAC
1 TATTATTAC
15509837 T
1 T
15509838 GTTCTATCTT
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
6 4 0.08
7 1 0.02
8 8 0.16
9 38 0.75
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.62
Consensus pattern (9 bp):
TATTATTAC
Found at i:15509825 original size:12 final size:11
Alignment explanation
Indices: 15509768--15509826 Score: 54
Period size: 12 Copynumber: 5.5 Consensus size: 11
15509758 TTTAATTTTT
15509768 TTATTATTA-C
1 TTATTATTATC
15509778 -TATTATTAATC
1 TTATTATT-ATC
15509789 TTATTATTA--
1 TTATTATTATC
*
15509798 TTATTATTATTA
1 TTATTATTA-TC
15509810 TTATTATTACTC
1 TTATTATTA-TC
15509822 TTATT
1 TTATT
15509827 TCTTTATTAC
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
9 16 0.39
10 1 0.02
11 2 0.05
12 22 0.54
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.63
Consensus pattern (11 bp):
TTATTATTATC
Found at i:15512877 original size:46 final size:46
Alignment explanation
Indices: 15512810--15512984 Score: 201
Period size: 46 Copynumber: 3.8 Consensus size: 46
15512800 TATTTGGGCA
*
15512810 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
*** * * ** *
15512856 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGC-AAACG
* *
15512903 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
15512949 CCCGAGCTCGTTGAGTTGAGT-CGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
15512985 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 20, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
45 15 0.14
46 56 0.53
47 35 0.33
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:15512965 original size:93 final size:92
Alignment explanation
Indices: 15512806--15512976 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 92
15512796 AGGATATTTG
* *
15512806 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAG
15512871 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGT-CGAGTTCGAGAGATGTAACTA
* * *
15512899 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAG
15512964 TTGAGTCGAGTTC
66 TTGAGTCGAGTTC
15512977 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
92 7 0.10
93 66 0.90
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.27
Consensus pattern (92 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAG
TTGAGTCGAGTTCGAGAGATGTAACTA
Found at i:15515904 original size:15 final size:15
Alignment explanation
Indices: 15515884--15515952 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
15515874 GTATCTTGGG
15515884 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
15515899 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
15515914 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
15515929 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
15515944 TTTCTTTAT
1 TTTCTTTAT
15515953 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:15515967 original size:45 final size:45
Alignment explanation
Indices: 15515880--15515964 Score: 127
Period size: 45 Copynumber: 1.9 Consensus size: 45
15515870 TATCGTATCT
*
15515880 TGGGTTTCTTTATCCTGGATCTCTTTATTCTGGATTTCTTTATTC
1 TGGGTTTCTCTATCCTGGATCTCTTTATTCTGGATTTCTTTATTC
* * *
15515925 TGGGTTTCTCTATCTTGGATTTCTTTATTC-GGTTTTCTTT
1 TGGGTTTCTCTATCCTGGATCTCTTTATTCTGGATTTCTTT
15515965 TATCTTTGTT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 9 0.25
45 27 0.75
ACGTcount: A:0.09, C:0.16, G:0.16, T:0.58
Consensus pattern (45 bp):
TGGGTTTCTCTATCCTGGATCTCTTTATTCTGGATTTCTTTATTC
Found at i:15515969 original size:30 final size:30
Alignment explanation
Indices: 15515875--15515970 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
15515865 CATAGTATCG
* * *
15515875 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTT
* *
15515905 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTT
*
15515935 TATCTTGGATTTCTTTATTC-GGTTTTCTTT
1 TATCTTGGATTTCTTTATTCTGGATTTC-TT
15515965 TATCTT
1 TATCTT
15515971 TGTTCCATAA
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
29 7 0.12
30 48 0.86
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.15, T:0.58
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTT
Found at i:15522225 original size:20 final size:20
Alignment explanation
Indices: 15522200--15522247 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
15522190 TCCAATATAT
15522200 TAATTCAGGTTTTGATGTGC
1 TAATTCAGGTTTTGATGTGC
15522220 TAATTCAGGTTTTGATGTGC
1 TAATTCAGGTTTTGATGTGC
*
15522240 TTATTCAG
1 TAATTCAG
15522248 TGGAGCAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.21, C:0.10, G:0.23, T:0.46
Consensus pattern (20 bp):
TAATTCAGGTTTTGATGTGC
Found at i:15524630 original size:2 final size:2
Alignment explanation
Indices: 15524623--15524653 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
15524613 CGTATAATTT
15524623 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
15524654 TTAGAAGAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:15536557 original size:40 final size:40
Alignment explanation
Indices: 15536472--15536622 Score: 141
Period size: 40 Copynumber: 3.8 Consensus size: 40
15536462 AATTGAATGA
* * * *
15536472 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
15536512 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
15536553 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
15536592 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
15536623 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 12, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 80 0.87
41 3 0.03
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.22
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:15536606 original size:80 final size:80
Alignment explanation
Indices: 15536473--15536622 Score: 205
Period size: 80 Copynumber: 1.9 Consensus size: 80
15536463 ATTGAATGAT
* *
15536473 ATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCAAT
1 ATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAAT
15536538 TGTGCTAGTGGCTAC
66 TGTGCTAGTGGCTAC
* * * *
15536553 ATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATTCTATCCGGGCTAAGACCCGAAGGCA
1 ATCCGGGCTAAGACCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGGCA
*
15536616 TTTGTGC
64 ATTGTGC
15536623 ACATGGTTAT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
79 4 0.07
80 57 0.93
ACGTcount: A:0.27, C:0.25, G:0.27, T:0.21
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAAT
TGTGCTAGTGGCTAC
Found at i:15536636 original size:40 final size:40
Alignment explanation
Indices: 15536471--15536638 Score: 139
Period size: 40 Copynumber: 4.2 Consensus size: 40
15536461 AAATTGAATG
* * *
15536471 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAA--ATT
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCGAATGGTT
* * * * *
15536511 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGGTT
* * **
15536551 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGGTT
*
15536591 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGGTT
15536631 ATATCCGG
1 ATATCCGG
15536639 TTATATTCCG
Statistics
Matches: 99, Mismatches: 24, Indels: 10
0.74 0.18 0.08
Matches are distributed among these distances:
37 2 0.02
38 3 0.03
39 4 0.04
40 90 0.91
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGGTT
Found at i:15536637 original size:80 final size:80
Alignment explanation
Indices: 15536471--15536638 Score: 198
Period size: 80 Copynumber: 2.1 Consensus size: 80
15536461 AAATTGAATG
* *
15536471 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
*
15536536 ATTGTGCTAGTGGCT
66 ATTGTGCTAATGGCT
* * * * *
15536551 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATTCTATCCGGGCTAAGACCCGAAGG
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGG
* *
15536614 CATTTGTGC-ACATGGTT
64 CAATTGTGCTA-ATGGCT
15536631 ATATCCGG
1 ATATCCGG
15536639 TTATATTCCG
Statistics
Matches: 74, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
79 5 0.07
80 69 0.93
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.23
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
ATTGTGCTAATGGCT
Found at i:15539428 original size:64 final size:64
Alignment explanation
Indices: 15539323--15539443 Score: 161
Period size: 64 Copynumber: 1.9 Consensus size: 64
15539313 GCCTATATCG
* * * **
15539323 GGATGCTCATAAAGAGCTGTGGCATGTCCGCAATATGTGCAAGATCAATACCGATCATATAACA
1 GGATGCTCACAAAGAGCTATGGCATGTCCGCAACACATGCAAGATCAATACCGATCATATAACA
* * * *
15539387 GGATGCTCACAAAGAGTTATTGTATGTCCGCAACACATGCAAGATCAATACTGATCA
1 GGATGCTCACAAAGAGCTATGGCATGTCCGCAACACATGCAAGATCAATACCGATCA
15539444 GGATGCTCGC
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
64 48 1.00
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.24
Consensus pattern (64 bp):
GGATGCTCACAAAGAGCTATGGCATGTCCGCAACACATGCAAGATCAATACCGATCATATAACA
Found at i:15541742 original size:79 final size:80
Alignment explanation
Indices: 15541659--15541842 Score: 221
Period size: 80 Copynumber: 2.3 Consensus size: 80
15541649 CCGCACCAAG
* * *
15541659 GCCTTCGGGACTTAACCCGGATATCG-CAACTCGCACAATTGCCTTCGGG-CTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATATCGTC-ACTAGCACAATTGCCTTCGGGTCTTAACCCGGATAT
* * *
15541722 CACAATTTGCACAAAT
65 AACAACTAGCACAAAT
* * *
15541738 GCCTTCGGGTCTTAGCCCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAACCCGGATATA
1 GCCTTCGGGACTTAGCCCGGATATCGTCACTAGCACAATTGCCTTCGGGTCTTAACCCGGATATA
** *
15541803 ATTACTAGCATAAAT
66 ACAACTAGCACAAAT
15541818 GTCC-TCGGGACTTAGCCCGGATATC
1 G-CCTTCGGGACTTAGCCCGGATATC
15541843 ATTCAATTGC
Statistics
Matches: 87, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
79 42 0.48
80 43 0.49
81 2 0.02
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (80 bp):
GCCTTCGGGACTTAGCCCGGATATCGTCACTAGCACAATTGCCTTCGGGTCTTAACCCGGATATA
ACAACTAGCACAAAT
Found at i:15541810 original size:40 final size:40
Alignment explanation
Indices: 15541614--15541841 Score: 174
Period size: 40 Copynumber: 5.7 Consensus size: 40
15541604 GCTACTCGTT
* * * *** **
15541614 CAAACGCCTTCGGGACATAGCCCGGTTATGGTAACCCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAACAACTAGCA
* * * ** *
15541654 CCAAGGCCTTCGGGACTTAACCCGGATATCGCAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAACAACTAGCA
* * * *
15541694 CAATTGCCTTCGGG-CTTAGCCCGGATATCACAATTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAACAACTAGCA
* * *
15541733 CAAATGCCTTCGGGTCTTAGCCCGGATGTAGTC-ACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATA-ACAACTAGCA
* * * **
15541773 CAATTGCCTTCGGGTCTTAACCCGGATATAATTACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAACAACTAGCA
*
15541813 TAAATGTCC-TCGGGACTTAGCCCGGATAT
1 CAAATG-CCTTCGGGACTTAGCCCGGATAT
15541842 CATTCAATTG
Statistics
Matches: 154, Mismatches: 30, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
39 34 0.22
40 117 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAACAACTAGCA
Found at i:15543799 original size:9 final size:9
Alignment explanation
Indices: 15543785--15543811 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
15543775 GATCATGGTT
15543785 TTTCTTTGA
1 TTTCTTTGA
15543794 TTTCTTTGA
1 TTTCTTTGA
15543803 TTTCTTTGA
1 TTTCTTTGA
15543812 AGCTGATGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.11, C:0.11, G:0.11, T:0.67
Consensus pattern (9 bp):
TTTCTTTGA
Found at i:15545909 original size:21 final size:19
Alignment explanation
Indices: 15545873--15545911 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
15545863 TAAATTTTCC
*
15545873 TTTTCTTTTTCTTTCCCTT
1 TTTTCTTTTTCATTCCCTT
15545892 TTTTCCTTCTTTCATTCCCT
1 TTTT-CTT-TTTCATTCCCT
15545912 GCTATTCGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 3 0.18
21 10 0.59
ACGTcount: A:0.03, C:0.31, G:0.00, T:0.67
Consensus pattern (19 bp):
TTTTCTTTTTCATTCCCTT
Found at i:15546033 original size:17 final size:18
Alignment explanation
Indices: 15546013--15546054 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
15546003 TATAATATAA
15546013 TATAATATAATTTAC-TT
1 TATAATATAATTTACTTT
* *
15546030 TATATTATTATTTACTTT
1 TATAATATAATTTACTTT
15546048 TATAATA
1 TATAATA
15546055 AGTAAATACA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
17 13 0.62
18 8 0.38
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (18 bp):
TATAATATAATTTACTTT
Found at i:15552110 original size:2 final size:2
Alignment explanation
Indices: 15552103--15552134 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
15552093 TAAGCAATTC
*
15552103 AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15552135 TTCATATCAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:15567935 original size:17 final size:18
Alignment explanation
Indices: 15567915--15567950 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
15567905 TAATCTTGTT
15567915 TTAATAAATTAATA-GCA
1 TTAATAAATTAATATGCA
*
15567932 TTAATAATTTAATATGCA
1 TTAATAAATTAATATGCA
15567950 T
1 T
15567951 ATATTTGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.42
Consensus pattern (18 bp):
TTAATAAATTAATATGCA
Found at i:15569051 original size:33 final size:33
Alignment explanation
Indices: 15569009--15569075 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
15568999 TGTCGAAGAG
*
15569009 AATATCTGACACCATTCGCAAAGGTATGGTTCT
1 AATATCTGACACCACTCGCAAAGGTATGGTTCT
15569042 AATATCTGACACCACTCGCAAAGGTATGGTTCT
1 AATATCTGACACCACTCGCAAAGGTATGGTTCT
15569075 A
1 A
15569076 TTTCATTCGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.28
Consensus pattern (33 bp):
AATATCTGACACCACTCGCAAAGGTATGGTTCT
Found at i:15579788 original size:18 final size:18
Alignment explanation
Indices: 15579765--15579805 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
15579755 CTACATCCAT
*
15579765 CTCCACCTCCATCGCCAC
1 CTCCACCTCCACCGCCAC
* *
15579783 CTCCACCTCTACCTCCAC
1 CTCCACCTCCACCGCCAC
15579801 CTCCA
1 CTCCA
15579806 TCTTAATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.17, C:0.61, G:0.02, T:0.20
Consensus pattern (18 bp):
CTCCACCTCCACCGCCAC
Found at i:15579796 original size:12 final size:12
Alignment explanation
Indices: 15579760--15579805 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
15579750 CATCTCTACA
*
15579760 TCCATCTCCACC
1 TCCACCTCCACC
* *
15579772 TCCATCGCCACC
1 TCCACCTCCACC
*
15579784 TCCACCTCTACC
1 TCCACCTCCACC
15579796 TCCACCTCCA
1 TCCACCTCCA
15579806 TCTTAATTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.17, C:0.59, G:0.02, T:0.22
Consensus pattern (12 bp):
TCCACCTCCACC
Found at i:15585644 original size:2 final size:2
Alignment explanation
Indices: 15585637--15585666 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
15585627 CCAACTGTTA
15585637 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15585667 TACTTTTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15589982 original size:53 final size:54
Alignment explanation
Indices: 15589853--15590107 Score: 265
Period size: 55 Copynumber: 4.8 Consensus size: 54
15589843 ACACGGGTAC
* * * *
15589853 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTATCC-T---TT-TGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* * *
15589902 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTAGCCTTGCCTTATG-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* * * *
15589955 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTAT-GAAA
* * * *
15590010 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTA-GAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* *
15590063 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACACGGTATCCTT
1 -CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATCCTT
15590108 AAACCCTAAT
Statistics
Matches: 172, Mismatches: 23, Indels: 16
0.82 0.11 0.08
Matches are distributed among these distances:
49 37 0.22
50 1 0.01
52 2 0.01
53 49 0.28
54 10 0.06
55 71 0.41
56 2 0.01
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.35
Consensus pattern (54 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
Found at i:15590044 original size:108 final size:110
Alignment explanation
Indices: 15589900--15590097 Score: 312
Period size: 108 Copynumber: 1.8 Consensus size: 110
15589890 ATCCTTTTGA
* *
15589900 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTAGCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATAGCCTTGCCTTA-GAAACCTCACCAA
15589963 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* ** *
15590008 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATAGCCTTGCCTTAGAAACCTCACCAAT
15590073 TGCCATGCCTTGGCATGGTCTTACA
66 TGCCATGCCTTGGCATGGTCTTACA
15590098 CGGTATCCTT
Statistics
Matches: 81, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
107 1 0.01
108 48 0.59
109 7 0.09
110 25 0.31
ACGTcount: A:0.23, C:0.26, G:0.18, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATAGCCTTGCCTTAGAAACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:15597148 original size:16 final size:16
Alignment explanation
Indices: 15597129--15597159 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15597119 CTTCTTCACT
15597129 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
15597145 TACTTACTTACTTAA
1 TACTCACTTACTTAA
15597160 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:15597165 original size:20 final size:20
Alignment explanation
Indices: 15597126--15597165 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
15597116 AAACTTCTTC
* *
15597126 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
15597146 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
15597166 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:15597480 original size:53 final size:54
Alignment explanation
Indices: 15597351--15597605 Score: 265
Period size: 55 Copynumber: 4.8 Consensus size: 54
15597341 ACACGGGTAC
* * * *
15597351 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTATCC-T---TT-TGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* * *
15597400 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTAGCCTTGCCTTATG-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* * * *
15597453 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTAT-GAAA
* * * *
15597508 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTA-GAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* *
15597561 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACACGGTATCCTT
1 -CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATCCTT
15597606 AAACCCTAAT
Statistics
Matches: 172, Mismatches: 23, Indels: 16
0.82 0.11 0.08
Matches are distributed among these distances:
49 37 0.22
50 1 0.01
52 2 0.01
53 49 0.28
54 10 0.06
55 71 0.41
56 2 0.01
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.35
Consensus pattern (54 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
Found at i:15597542 original size:108 final size:110
Alignment explanation
Indices: 15597398--15597595 Score: 312
Period size: 108 Copynumber: 1.8 Consensus size: 110
15597388 ATCCTTTTGA
* *
15597398 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTAGCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATAGCCTTGCCTTA-GAAACCTCACCAA
15597461 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* ** *
15597506 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATAGCCTTGCCTTAGAAACCTCACCAAT
15597571 TGCCATGCCTTGGCATGGTCTTACA
66 TGCCATGCCTTGGCATGGTCTTACA
15597596 CGGTATCCTT
Statistics
Matches: 81, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
107 1 0.01
108 48 0.59
109 7 0.09
110 25 0.31
ACGTcount: A:0.23, C:0.26, G:0.18, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATAGCCTTGCCTTAGAAACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:15606919 original size:11 final size:10
Alignment explanation
Indices: 15606894--15606918 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
15606884 TAAGAATATG
15606894 AAAAAGAAAA
1 AAAAAGAAAA
15606904 AAAAAGAAAA
1 AAAAAGAAAA
15606914 AAAAA
1 AAAAA
15606919 ATGTTCATCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (10 bp):
AAAAAGAAAA
Found at i:15607003 original size:59 final size:59
Alignment explanation
Indices: 15606905--15607018 Score: 151
Period size: 59 Copynumber: 1.9 Consensus size: 59
15606895 AAAAGAAAAA
15606905 AAAAGAAAAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCG-AATGTACTAAGGAAAG
1 AAAAGAAAAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCGAAAT-TACTAAGGAAAG
** ***
15606964 AAAAGAAAAAAAATTTGTTCATCCTT-TCTCATCTTCTTGGCCGAAATTACTAAGG
1 AAAAGAAAAAAAAAATGTTCATCCTTCTC-CATAGGCTTGGCCGAAATTACTAAGG
15607019 GAAAAGGGGG
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
58 2 0.04
59 43 0.90
60 3 0.06
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (59 bp):
AAAAGAAAAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCGAAATTACTAAGGAAAG
Found at i:15608280 original size:40 final size:40
Alignment explanation
Indices: 15608214--15608380 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
15608204 AAATTGAATG
* * *
15608214 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
15608253 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
15608293 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
15608333 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
15608373 ATATCCGG
1 ATATCCGG
15608381 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:15622047 original size:26 final size:26
Alignment explanation
Indices: 15622011--15622169 Score: 243
Period size: 26 Copynumber: 6.2 Consensus size: 26
15622001 TGATACAAAT
*
15622011 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
15622037 TGATAATAGGTTA--TAAGTGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
15622061 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
15622087 TGATAATAGGTTAGGT-AATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
15622112 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
15622138 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
15622164 TGATAA
1 TGATAA
15622170 GAATTTCATG
Statistics
Matches: 125, Mismatches: 5, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
24 22 0.18
25 24 0.19
26 79 0.63
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:15622130 original size:51 final size:51
Alignment explanation
Indices: 15622011--15622169 Score: 250
Period size: 51 Copynumber: 3.1 Consensus size: 51
15622001 TGATACAAAT
15622011 TGATAATAGGTTAGGTAAATGTTTCATGATAATAGGTTA--TAAGTGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCATGATAATAGGTTAGGTAA-TGTTCCA
*
15622061 TGATAATAGGTTAGGTAAATGTTCCATGATAATAGGTTAGGTAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCATGATAATAGGTTAGGTAATGTTCCA
* * *
15622112 TGATAATGGGTTAGGTAAATGTTTCATGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCATGATAATAGGTTAGGT-AATGTTCCA
15622164 TGATAA
1 TGATAA
15622170 GAATTTCATG
Statistics
Matches: 101, Mismatches: 5, Indels: 4
0.92 0.05 0.04
Matches are distributed among these distances:
50 38 0.38
51 46 0.46
52 17 0.17
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.37
Consensus pattern (51 bp):
TGATAATAGGTTAGGTAAATGTTTCATGATAATAGGTTAGGTAATGTTCCA
Found at i:15627930 original size:26 final size:25
Alignment explanation
Indices: 15627841--15627997 Score: 239
Period size: 25 Copynumber: 6.2 Consensus size: 25
15627831 TGATACAAAT
15627841 TGATAATAGGTTAGGTAAATGTTCA
1 TGATAATAGGTTAGGTAAATGTTCA
*
15627866 TGATAATAGGTTA-GTAAGTGTTCA
1 TGATAATAGGTTAGGTAAATGTTCA
15627890 TGATAATAGG-TAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTT-CA
15627915 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTT-CA
*
15627941 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATG-TTCA
15627967 TGATAAT-GGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATG-TTCA
15627992 TGATAA
1 TGATAA
15627998 GAATTTCATG
Statistics
Matches: 125, Mismatches: 3, Indels: 8
0.92 0.02 0.06
Matches are distributed among these distances:
23 2 0.02
24 28 0.22
25 49 0.39
26 44 0.35
27 2 0.02
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.36
Consensus pattern (25 bp):
TGATAATAGGTTAGGTAAATGTTCA
Found at i:15627994 original size:77 final size:74
Alignment explanation
Indices: 15627841--15627997 Score: 244
Period size: 77 Copynumber: 2.1 Consensus size: 74
15627831 TGATACAAAT
*
15627841 TGATAATAGGTTAGGTAAATGTTCATGATAATAGGTTAGTAAGTGTTCATGATAATAGGTAGGTA
1 TGATAATAGGTTAGGTAAATGTTCATGATAATAGGTTAGTAAATGTTCATGATAATAGGTAGGTA
15627906 AATGTTCCA
66 AATGTTCCA
*
15627915 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTTCATGATAAT-GGTTA
1 TGATAATAGGTTAGGTAAATGTT-CATGATAATAGGTTA-GTAAATG-TTCATGATAATAGG-TA
*
15627979 GGTAAATGTTTCA
62 GGTAAATGTTCCA
15627992 TGATAA
1 TGATAA
15627998 GAATTTCATG
Statistics
Matches: 76, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
74 23 0.30
75 14 0.18
76 8 0.11
77 31 0.41
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.36
Consensus pattern (74 bp):
TGATAATAGGTTAGGTAAATGTTCATGATAATAGGTTAGTAAATGTTCATGATAATAGGTAGGTA
AATGTTCCA
Found at i:15630872 original size:10 final size:11
Alignment explanation
Indices: 15630852--15630886 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
15630842 AAATAATATT
15630852 TAAATATTTTA
1 TAAATATTTTA
15630863 TAAA-ATTTTA
1 TAAATATTTTA
*
15630873 AAAATATTTTA
1 TAAATATTTTA
15630884 TAA
1 TAA
15630887 TCAGTTGGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 9 0.43
11 12 0.57
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (11 bp):
TAAATATTTTA
Found at i:15634704 original size:27 final size:27
Alignment explanation
Indices: 15634656--15634814 Score: 168
Period size: 27 Copynumber: 5.9 Consensus size: 27
15634646 GCGAGGCTGC
* *
15634656 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
15634683 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
15634709 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
15634736 CAGATAATTGTAGCATAGCCACCAG--A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
15634762 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
15634789 TAGATAAATTGTGGCATAGCCACCAG
1 CAGAT--ATTGTGGCAGAGCCACCAG
15634815 GACGCTTCCT
Statistics
Matches: 114, Mismatches: 8, Indels: 19
0.81 0.06 0.13
Matches are distributed among these distances:
25 2 0.02
26 28 0.25
27 63 0.55
28 19 0.17
29 2 0.02
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:15634746 original size:54 final size:53
Alignment explanation
Indices: 15634674--15634814 Score: 221
Period size: 54 Copynumber: 2.6 Consensus size: 53
15634664 GTGACGAAGT
*
15634674 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAG-ACAGATATATGTGGCAGAGC
*
15634728 CACCAGATCAGATAATTGTAGCATAGCCACCAGACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGACAGATATATGTGGCAGAGC
*
15634781 CACCAGATTAGATAAATTGTGGCATAGCCACCAG
1 CACCAGATCAGAT-AATTGTGGCATAGCCACCAG
15634815 GACGCTTCCT
Statistics
Matches: 81, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
53 37 0.46
54 44 0.54
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.18
Consensus pattern (53 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGACAGATATATGTGGCAGAGC
Found at i:15636450 original size:26 final size:26
Alignment explanation
Indices: 15636409--15636485 Score: 147
Period size: 26 Copynumber: 3.0 Consensus size: 26
15636399 ATTCCCACCG
15636409 TGGAACA-TTACCTAACCCATTATCA
1 TGGAACATTTACCTAACCCATTATCA
15636434 TGGAACATTTACCTAACCCATTATCA
1 TGGAACATTTACCTAACCCATTATCA
15636460 TGGAACATTTACCTAACCCATTATCA
1 TGGAACATTTACCTAACCCATTATCA
15636486 ATTTGTATCA
Statistics
Matches: 51, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
25 7 0.14
26 44 0.86
ACGTcount: A:0.35, C:0.27, G:0.08, T:0.30
Consensus pattern (26 bp):
TGGAACATTTACCTAACCCATTATCA
Found at i:15637010 original size:59 final size:57
Alignment explanation
Indices: 15636895--15637017 Score: 156
Period size: 59 Copynumber: 2.1 Consensus size: 57
15636885 CATTTTCAAG
* * * *
15636895 TCATTTTCATTTGGAGAAAACCACATTCGTTTTCAAGTGTTCCCGATTTCTCCATTT
1 TCATTTTCATTTGGAGAAAACAAAATTCATTTTCAAATGTTCCCGATTTCTCCATTT
* * * *
15636952 TCATTTTCATTTGGGAGCAAAATAAAATTCATTTTCAAATGTTTCCTATTTTTCCATTT
1 TCATTTTCATTT-GGAG-AAAACAAAATTCATTTTCAAATGTTCCCGATTTCTCCATTT
15637011 TCATTTT
1 TCATTTT
15637018 GGAGAAAACC
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
57 12 0.21
58 4 0.07
59 40 0.71
ACGTcount: A:0.25, C:0.19, G:0.10, T:0.46
Consensus pattern (57 bp):
TCATTTTCATTTGGAGAAAACAAAATTCATTTTCAAATGTTCCCGATTTCTCCATTT
Found at i:15637063 original size:52 final size:52
Alignment explanation
Indices: 15636949--15637047 Score: 137
Period size: 52 Copynumber: 1.9 Consensus size: 52
15636939 GATTTCTCCA
* * *
15636949 TTTTCATTTTCATTTGGGAGCAAAATAAAATTCATTTTCAAATGTTTCCTAT
1 TTTTCATTTTCATTTGGGAGCAAAACAAAATCCATTTCCAAATGTTTCCTAT
* *
15637001 TTTTCCATTTTCATTTTGGAG-AAAACCAAATCCATTTCCAAATGTTT
1 TTTT-CATTTTCATTTGGGAGCAAAACAAAATCCATTTCCAAATGTTT
15637048 TTCATTTATT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
52 26 0.63
53 15 0.37
ACGTcount: A:0.30, C:0.16, G:0.09, T:0.44
Consensus pattern (52 bp):
TTTTCATTTTCATTTGGGAGCAAAACAAAATCCATTTCCAAATGTTTCCTAT
Found at i:15637826 original size:16 final size:16
Alignment explanation
Indices: 15637807--15637840 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
15637797 ATATTAGTCT
15637807 TTCAATAAACTAGTTA
1 TTCAATAAACTAGTTA
15637823 TTCAATAAACTAGTTA
1 TTCAATAAACTAGTTA
15637839 TT
1 TT
15637841 GAAGTTGCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.41, C:0.12, G:0.06, T:0.41
Consensus pattern (16 bp):
TTCAATAAACTAGTTA
Found at i:15640652 original size:12 final size:12
Alignment explanation
Indices: 15640635--15640660 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
15640625 CTATTGAGTC
15640635 TAGGTCAACAAT
1 TAGGTCAACAAT
15640647 TAGGTCAACAAT
1 TAGGTCAACAAT
15640659 TA
1 TA
15640661 TGGATGAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.27
Consensus pattern (12 bp):
TAGGTCAACAAT
Found at i:15640756 original size:24 final size:24
Alignment explanation
Indices: 15640724--15640773 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
15640714 TCCCAATGGA
15640724 AATTAAGGATGAAATTCTTTGCCT
1 AATTAAGGATGAAATTCTTTGCCT
15640748 AATTAAGGATGAAATTCTTTGCCT
1 AATTAAGGATGAAATTCTTTGCCT
15640772 AA
1 AA
15640774 GTATTTGATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (24 bp):
AATTAAGGATGAAATTCTTTGCCT
Found at i:15656666 original size:42 final size:42
Alignment explanation
Indices: 15656595--15656676 Score: 130
Period size: 42 Copynumber: 2.0 Consensus size: 42
15656585 AACTCTGGGG
*
15656595 ACTTTTACCCATACATCTTGTACGATGTATCGATATAAGTCC
1 ACTTCTACCCATACATCTTGTACGATGTATCGATATAAGTCC
*
15656637 ACTTCTACCCATACATCTTGTGA-GCTGTATCGATATAAGT
1 ACTTCTACCCATACATCTTGT-ACGATGTATCGATATAAGT
15656677 TTATTTCCAA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
42 36 0.97
43 1 0.03
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.35
Consensus pattern (42 bp):
ACTTCTACCCATACATCTTGTACGATGTATCGATATAAGTCC
Found at i:15658283 original size:33 final size:31
Alignment explanation
Indices: 15658205--15658289 Score: 89
Period size: 34 Copynumber: 2.6 Consensus size: 31
15658195 TGATAAATTT
* *
15658205 AAAAATATATAAAAATAAAAAAATGTTATTC
1 AAAAAAATATAATAATAAAAAAATGTTATTC
* * *
15658236 ACAAGAAATAATAATATATAAAAATAATTTTTTTC
1 A-AAAAAAT-ATAATA-ATAAAAA-AATGTTATTC
15658271 AAAAAAATATAATAATAAA
1 AAAAAAATATAATAATAAA
15658290 TTTAAATTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
31 1 0.02
32 10 0.23
33 11 0.25
34 13 0.30
35 9 0.20
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.31
Consensus pattern (31 bp):
AAAAAAATATAATAATAAAAAAATGTTATTC
Found at i:15658376 original size:27 final size:27
Alignment explanation
Indices: 15658346--15658403 Score: 91
Period size: 27 Copynumber: 2.1 Consensus size: 27
15658336 TTTCCTTCTG
15658346 CCTCCCCC-ACCGTCCCCTCTCCCTTTC
1 CCTCCCCCGACCGT-CCCTCTCCCTTTC
*
15658373 CCTCCCCCGATCGTCCCTCTCCCTTTC
1 CCTCCCCCGACCGTCCCTCTCCCTTTC
15658400 CCTC
1 CCTC
15658404 TCTTTTGTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
27 25 0.86
28 4 0.14
ACGTcount: A:0.03, C:0.64, G:0.05, T:0.28
Consensus pattern (27 bp):
CCTCCCCCGACCGTCCCTCTCCCTTTC
Found at i:15663062 original size:25 final size:25
Alignment explanation
Indices: 15663034--15663081 Score: 80
Period size: 25 Copynumber: 1.9 Consensus size: 25
15663024 TTTTCTTTTC
15663034 TTTT-CTTTTCATTTTTAGATTAGGT
1 TTTTGCTTTTC-TTTTTAGATTAGGT
15663059 TTTTGCTTTTCTTTTTAGATTAG
1 TTTTGCTTTTCTTTTTAGATTAG
15663082 ATTCTATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 16 0.73
26 6 0.27
ACGTcount: A:0.15, C:0.08, G:0.12, T:0.65
Consensus pattern (25 bp):
TTTTGCTTTTCTTTTTAGATTAGGT
Found at i:15666042 original size:18 final size:18
Alignment explanation
Indices: 15666019--15666056 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
15666009 TATTTAATCA
15666019 AAGCAATCATCCTAGCTT
1 AAGCAATCATCCTAGCTT
15666037 AAGCAATCATCCTAGCTT
1 AAGCAATCATCCTAGCTT
15666055 AA
1 AA
15666057 ATAAAATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.37, C:0.26, G:0.11, T:0.26
Consensus pattern (18 bp):
AAGCAATCATCCTAGCTT
Found at i:15669336 original size:48 final size:47
Alignment explanation
Indices: 15669258--15669353 Score: 156
Period size: 48 Copynumber: 2.0 Consensus size: 47
15669248 CATGATTAAG
* *
15669258 TAAATTGCAAATTATCAGAATGAAGGTTCTGGAAAAAAATTGCAATTA
1 TAAATTGCAAATTATCAGAATAAAGCTTCTGG-AAAAAATTGCAATTA
*
15669306 TAAATTGCAAATTATCAGAATAAAGCTTCTGGACAAAATTGCAATTA
1 TAAATTGCAAATTATCAGAATAAAGCTTCTGGAAAAAATTGCAATTA
15669353 T
1 T
15669354 TCAAGCCTAA
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
47 15 0.33
48 30 0.67
ACGTcount: A:0.45, C:0.10, G:0.15, T:0.30
Consensus pattern (47 bp):
TAAATTGCAAATTATCAGAATAAAGCTTCTGGAAAAAATTGCAATTA
Found at i:15669537 original size:13 final size:13
Alignment explanation
Indices: 15669519--15669553 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
15669509 TTTGTTCAAC
15669519 TAAAGAATTTTAT
1 TAAAGAATTTTAT
*
15669532 TAAAGAATTTTCT
1 TAAAGAATTTTAT
*
15669545 TAAAAAATT
1 TAAAGAATT
15669554 AATTTAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.49, C:0.03, G:0.06, T:0.43
Consensus pattern (13 bp):
TAAAGAATTTTAT
Found at i:15678134 original size:19 final size:20
Alignment explanation
Indices: 15678090--15678135 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
15678080 GTGTCTAATT
*
15678090 GCTTTAGACTTTGATTTTGG
1 GCTTTGGACTTTGATTTTGG
* *
15678110 AC-TTGGACTTT-CTTTTGG
1 GCTTTGGACTTTGATTTTGG
15678128 GCTTTGGA
1 GCTTTGGA
15678136 TTTATTGTGG
Statistics
Matches: 21, Mismatches: 4, Indels: 3
0.75 0.14 0.11
Matches are distributed among these distances:
18 7 0.33
19 13 0.62
20 1 0.05
ACGTcount: A:0.13, C:0.13, G:0.26, T:0.48
Consensus pattern (20 bp):
GCTTTGGACTTTGATTTTGG
Found at i:15678896 original size:15 final size:15
Alignment explanation
Indices: 15678878--15678926 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
15678868 GATACTAAAA
15678878 ACTATAGATACCGAT
1 ACTATAGATACCGAT
*
15678893 ACTATAG-T---GAAA
1 ACTATAGATACCG-AT
15678905 ACTATAGATACCGAT
1 ACTATAGATACCGAT
15678920 ACTATAG
1 ACTATAG
15678927 TGATGAAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 10
0.69 0.05 0.26
Matches are distributed among these distances:
11 1 0.04
12 8 0.30
13 1 0.04
14 1 0.04
15 15 0.56
16 1 0.04
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.27
Consensus pattern (15 bp):
ACTATAGATACCGAT
Found at i:15678908 original size:27 final size:27
Alignment explanation
Indices: 15678875--15678929 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
15678865 TTAGATACTA
15678875 AAAACTATAGATACCGATACTATAGTG
1 AAAACTATAGATACCGATACTATAGTG
15678902 AAAACTATAGATACCGATACTATAGTG
1 AAAACTATAGATACCGATACTATAGTG
15678929 A
1 A
15678930 TGAAACTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.45, C:0.15, G:0.15, T:0.25
Consensus pattern (27 bp):
AAAACTATAGATACCGATACTATAGTG
Found at i:15680300 original size:50 final size:50
Alignment explanation
Indices: 15680236--15680337 Score: 195
Period size: 50 Copynumber: 2.0 Consensus size: 50
15680226 CGCAGCTAGA
15680236 TACAAAGAGGATTGCGACACCATTTATGTCATAGCTGGTACTTTTACTAT
1 TACAAAGAGGATTGCGACACCATTTATGTCATAGCTGGTACTTTTACTAT
*
15680286 TACAGAGAGGATTGCGACACCATTTATGTCATAGCTGGTACTTTTACTAT
1 TACAAAGAGGATTGCGACACCATTTATGTCATAGCTGGTACTTTTACTAT
15680336 TA
1 TA
15680338 ATTATGTACC
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (50 bp):
TACAAAGAGGATTGCGACACCATTTATGTCATAGCTGGTACTTTTACTAT
Found at i:15687741 original size:2 final size:2
Alignment explanation
Indices: 15687734--15687776 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
15687724 ACGCTATTGA
15687734 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15687776 A
1 A
15687777 ACTTGGTTCA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:15688841 original size:5 final size:5
Alignment explanation
Indices: 15688831--15688857 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
15688821 TTTATCAACT
15688831 TTTTA TTTTA TTTTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TT
15688858 GAATTTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:15688863 original size:15 final size:15
Alignment explanation
Indices: 15688831--15688864 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
15688821 TTTATCAACT
**
15688831 TTTTATTTTATTTTA
1 TTTTATTTTATTGAA
15688846 TTTTATTTTATTGAA
1 TTTTATTTTATTGAA
15688861 TTTT
1 TTTT
15688865 TTATATTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (15 bp):
TTTTATTTTATTGAA
Found at i:15698016 original size:13 final size:13
Alignment explanation
Indices: 15697998--15698023 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15697988 ATTTTAACTG
15697998 TTTTCATTTCTAT
1 TTTTCATTTCTAT
15698011 TTTTCATTTCTAT
1 TTTTCATTTCTAT
15698024 AGATAATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTTCATTTCTAT
Done.