Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D02
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: 70731513
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1900000 characters in sequence are not A, C, G, or T
File 69 of 222
Found at i:21177549 original size:30 final size:29
Alignment explanation
Indices: 21177515--21177589 Score: 71
Period size: 30 Copynumber: 2.5 Consensus size: 29
21177505 AGAAACAAAT
*
21177515 AGAGCAGAACAAAACA-AGATGGAACAGAGC
1 AGAGCA-AACAAAACAGA-ACGGAACAGAGC
**
21177545 AGAGCAATACTGAACAGAACGGAACAGAGC
1 AGAGCAA-ACAAAACAGAACGGAACAGAGC
*
21177575 AGAACATAACAAAAC
1 AGAGCA-AACAAAAC
21177590 GGAGCATAGT
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
29 1 0.03
30 33 0.92
31 2 0.06
ACGTcount: A:0.53, C:0.19, G:0.23, T:0.05
Consensus pattern (29 bp):
AGAGCAAACAAAACAGAACGGAACAGAGC
Found at i:21177585 original size:25 final size:25
Alignment explanation
Indices: 21177497--21177610 Score: 68
Period size: 25 Copynumber: 4.4 Consensus size: 25
21177487 AACAAAGAAA
* *
21177497 AACAGAACAGAAAC-AAATAGAGCAG
1 AACAGAACA-AAACGGAACAGAGCAG
* * *
21177522 AACAAAACAAGATGGAACAGAGCAGAG
1 AACAGAACAAAACGGAACAGAGC--AG
* *
21177549 CAATACTGAACAGAACGGAACAGAGCAG
1 --A-ACAGAACAAAACGGAACAGAGCAG
* * * *
21177577 AACATAACAAAACGGAGCATAGTAG
1 AACAGAACAAAACGGAACAGAGCAG
21177602 AACAGAACA
1 AACAGAACA
21177611 TGTATGTTTA
Statistics
Matches: 66, Mismatches: 17, Indels: 12
0.69 0.18 0.13
Matches are distributed among these distances:
24 2 0.03
25 41 0.62
26 1 0.02
27 2 0.03
28 2 0.03
29 1 0.02
30 17 0.26
ACGTcount: A:0.54, C:0.18, G:0.22, T:0.06
Consensus pattern (25 bp):
AACAGAACAAAACGGAACAGAGCAG
Found at i:21184066 original size:19 final size:19
Alignment explanation
Indices: 21184039--21184100 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 19
21184029 TCTTTTTCTT
*
21184039 TTTCAATTTTTTTCTCTCA
1 TTTCTATTTTTTTCTCTCA
21184058 TTTCTATTTTTCTTCTCTCAA
1 TTTCTATTTTT-TTCTCTC-A
*
21184079 ATTCT-TTTAGTTTTCTCTCA
1 TTTCTATTT--TTTTCTCTCA
21184099 TT
1 TT
21184101 ATCAACTCTT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
19 10 0.28
20 12 0.33
21 12 0.33
22 2 0.06
ACGTcount: A:0.15, C:0.21, G:0.02, T:0.63
Consensus pattern (19 bp):
TTTCTATTTTTTTCTCTCA
Found at i:21184073 original size:20 final size:19
Alignment explanation
Indices: 21184039--21184077 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
21184029 TCTTTTTCTT
21184039 TTTCAATTTTTTTCTCTCA
1 TTTCAATTTTTTTCTCTCA
*
21184058 TTTCTATTTTTCTTCTCTCA
1 TTTCAATTTTT-TTCTCTCA
21184078 AATTCTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.13, C:0.23, G:0.00, T:0.64
Consensus pattern (19 bp):
TTTCAATTTTTTTCTCTCA
Found at i:21184586 original size:47 final size:47
Alignment explanation
Indices: 21184532--21184668 Score: 238
Period size: 47 Copynumber: 2.9 Consensus size: 47
21184522 CTTGAAGTTT
* *
21184532 AGAATCTGAATGCTCTTCTTAAAACATGATTTATTGAAAAGATGTTC
1 AGAATCTGAAAGCTCTTCTTGAAACATGATTTATTGAAAAGATGTTC
*
21184579 AGAATCTGAAAACTCTTCTTGAAACATGATTTATTGAAAAGATGTTC
1 AGAATCTGAAAGCTCTTCTTGAAACATGATTTATTGAAAAGATGTTC
*
21184626 AGAATTTGAAAGCTCTTCTTGAAACATGATTTATTGAAAAGAT
1 AGAATCTGAAAGCTCTTCTTGAAACATGATTTATTGAAAAGAT
21184669 TGAAAAACAA
Statistics
Matches: 85, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 85 1.00
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (47 bp):
AGAATCTGAAAGCTCTTCTTGAAACATGATTTATTGAAAAGATGTTC
Found at i:21184978 original size:18 final size:18
Alignment explanation
Indices: 21184952--21184987 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
21184942 TTAAAAAAAA
*
21184952 TTTTGATCGAAAGATTTC
1 TTTTAATCGAAAGATTTC
21184970 TTTTAATCGAAAGATTTC
1 TTTTAATCGAAAGATTTC
21184988 ATTAGTGCGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.11, G:0.14, T:0.44
Consensus pattern (18 bp):
TTTTAATCGAAAGATTTC
Found at i:21185128 original size:18 final size:18
Alignment explanation
Indices: 21185105--21185144 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
21185095 TCATATTTTT
*
21185105 TTTCAAATTTTTTTAATA
1 TTTCAAATTTTTTAAATA
21185123 TTTCAAATTTTTTAAATA
1 TTTCAAATTTTTTAAATA
21185141 TTTC
1 TTTC
21185145 GAAACTTCCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTCAAATTTTTTAAATA
Found at i:21189503 original size:42 final size:42
Alignment explanation
Indices: 21189388--21189519 Score: 131
Period size: 42 Copynumber: 3.1 Consensus size: 42
21189378 TCAGAAAGCT
* * * * *
21189388 AGTACAATGCCAACATCCTAGACGTGCTCTTACATGTAATTA
1 AGTACGATGCCAACATCCCAGACGTGGTCTTACATGAAATCA
* **** *
21189430 AATATCGATGCC-ACTATCCCAGAAAAAGTCTTACACGAAATCA
1 AGTA-CGATGCCAAC-ATCCCAGACGTGGTCTTACATGAAATCA
*
21189473 AGTACGATGCCAACATCCCAGACGTGGTCTTACATAAAATCA
1 AGTACGATGCCAACATCCCAGACGTGGTCTTACATGAAATCA
21189515 AGTAC
1 AGTAC
21189520 TTTTCTGATG
Statistics
Matches: 69, Mismatches: 18, Indels: 6
0.74 0.19 0.06
Matches are distributed among these distances:
42 39 0.57
43 30 0.43
ACGTcount: A:0.37, C:0.25, G:0.14, T:0.23
Consensus pattern (42 bp):
AGTACGATGCCAACATCCCAGACGTGGTCTTACATGAAATCA
Found at i:21190979 original size:22 final size:22
Alignment explanation
Indices: 21190935--21190979 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
21190925 AATCAGAATC
*
21190935 CTACTCAACCAGCCTCTATACT
1 CTACTCAACCAGCCTCTACACT
*
21190957 CTACTCCATCCAGCC-CTACACT
1 CTACT-CAACCAGCCTCTACACT
21190979 C
1 C
21190980 CATGTGAGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.24, C:0.47, G:0.04, T:0.24
Consensus pattern (22 bp):
CTACTCAACCAGCCTCTACACT
Found at i:21191158 original size:20 final size:21
Alignment explanation
Indices: 21191108--21191158 Score: 54
Period size: 20 Copynumber: 2.5 Consensus size: 21
21191098 ACCCATCCCC
* *
21191108 ATGCAATATGTCATGCATCGT
1 ATGCAATATATCATACATCGT
21191129 AT-C-ATAATATCATACAT-GT
1 ATGCAAT-ATATCATACATCGT
21191148 ATGCAATATAT
1 ATGCAATATAT
21191159 ATAAAATGGC
Statistics
Matches: 25, Mismatches: 2, Indels: 7
0.74 0.06 0.21
Matches are distributed among these distances:
19 6 0.24
20 15 0.60
21 4 0.16
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (21 bp):
ATGCAATATATCATACATCGT
Found at i:21201734 original size:39 final size:39
Alignment explanation
Indices: 21201691--21201766 Score: 116
Period size: 39 Copynumber: 1.9 Consensus size: 39
21201681 TCTTTAATTA
* *
21201691 TCTTTAATTATGTTATAATTTGAACATCATTAGTATGAG
1 TCTTTAATTATGTCATAATTTGAACATCATTAATATGAG
* *
21201730 TCTTTAATTATGTCATAGTTTGAATATCATTAATATG
1 TCTTTAATTATGTCATAATTTGAACATCATTAATATG
21201767 TGTTCTGCAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.33, C:0.08, G:0.12, T:0.47
Consensus pattern (39 bp):
TCTTTAATTATGTCATAATTTGAACATCATTAATATGAG
Found at i:21201845 original size:50 final size:52
Alignment explanation
Indices: 21201791--21201905 Score: 162
Period size: 52 Copynumber: 2.2 Consensus size: 52
21201781 TAAAATCATT
* *
21201791 CATTATGTAACTCTCATGTAAGTT-AAGTTTGCATCA-TAAATTATGACATG
1 CATTATGTAACTCCCATGTAAGTTAAAGTTTGCATCATTAAATTAAGACATG
* * *
21201841 CATTATGTAACTCCCATGTTAGTTAAAGTTTGTATCATTAAATTAAGTCATG
1 CATTATGTAACTCCCATGTAAGTTAAAGTTTGCATCATTAAATTAAGACATG
*
21201893 CATTAAGTAACTC
1 CATTATGTAACTC
21201906 ATTTGTTCAT
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
50 22 0.39
51 11 0.19
52 24 0.42
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.38
Consensus pattern (52 bp):
CATTATGTAACTCCCATGTAAGTTAAAGTTTGCATCATTAAATTAAGACATG
Found at i:21201903 original size:52 final size:50
Alignment explanation
Indices: 21201786--21201905 Score: 159
Period size: 50 Copynumber: 2.4 Consensus size: 50
21201776 TTTAATAAAA
* * *
21201786 TCATTCATTATGTAACTCTCATGTAAGTTAAGTTTGCATCATAAATTATG
1 TCATGCATTATGTAACTCCCATGTAAGTTAAGTTTGCATCATAAATTAAG
* * *
21201836 ACATGCATTATGTAACTCCCATGTTAGTTAAAGTTTGTATCATTAAATTAAG
1 TCATGCATTATGTAACTCCCATGTAAGTT-AAGTTTGCATCA-TAAATTAAG
*
21201888 TCATGCATTAAGTAACTC
1 TCATGCATTATGTAACTC
21201906 ATTTGTTCAT
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
50 25 0.42
51 11 0.18
52 24 0.40
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.39
Consensus pattern (50 bp):
TCATGCATTATGTAACTCCCATGTAAGTTAAGTTTGCATCATAAATTAAG
Found at i:21205291 original size:39 final size:39
Alignment explanation
Indices: 21205247--21205427 Score: 197
Period size: 39 Copynumber: 4.6 Consensus size: 39
21205237 AGCTACTCTT
*
21205247 CAAATGCCTTCGGGCATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGTTATAGTAACTCGCA
* *
21205286 CAAATGCCTTCGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGG-TTATAGTAACTCGCA
* *
21205325 CCAATGCCTTCGGGCTTAGCCCGG-AATTAGTAACTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGTTA-TAGTAACTCGCA
* * * * * *
21205364 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGG-GCTTAGCCCGGTTATAGTAAC-TCGCA
*
21205405 CAAA-GCCTTCGGACTTAGCCCGG
1 CAAATGCCTTCGGGCTTAGCCCGG
21205428 ACATCATTCG
Statistics
Matches: 120, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
39 87 0.73
40 24 0.20
41 9 0.08
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGTTATAGTAACTCGCA
Found at i:21205345 original size:78 final size:79
Alignment explanation
Indices: 21205249--21205428 Score: 231
Period size: 78 Copynumber: 2.3 Consensus size: 79
21205239 CTACTCTTCA
* *
21205249 AATGCCTTCGGGCATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGA-CTTAACCCGGAT
1 AATGCCTTCGGGCTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
* *
21205312 TTAGTAAC-TCGCACC
65 ATAGTAACTTAGCA-C
**
21205327 AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATA
1 AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGATA
* *
21205392 TGGTCACTTAGCAC
66 TAGTAACTTAGCAC
* *
21205406 AAAGCCTTCGGACTTAGCCCGGA
1 AATGCCTTCGGGCTTAGCCCGGA
21205429 CATCATTCGA
Statistics
Matches: 89, Mismatches: 10, Indels: 5
0.86 0.10 0.05
Matches are distributed among these distances:
78 47 0.53
79 38 0.43
80 4 0.04
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (79 bp):
AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGATA
TAGTAACTTAGCAC
Found at i:21213131 original size:79 final size:81
Alignment explanation
Indices: 21212963--21213147 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
21212953 GCTACTCGTT
* *
21212963 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* *
21213027 GATTTAGTAACTCGCAC
65 GATATAGTAACTAGCAC
* **
21213044 CAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCG
1 CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
* *
21213106 GATATGGTCACTTAGCA-
65 GATATAGTAAC-TAGCAC
*
21213123 CAAAGCCTTTGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
21213148 CATCATTCGA
Statistics
Matches: 89, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
78 3 0.03
79 58 0.65
80 25 0.28
81 3 0.03
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTAGCAC
Found at i:21213147 original size:40 final size:40
Alignment explanation
Indices: 21212944--21213147 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
21212934 CGGAATTTAA
** *
21212944 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
21212984 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
21213024 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
21213063 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * * *
21213103 CCGGATATGGTCACTTAGCACAAA-GCCTTTGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
21213143 CCGGA
1 CCGGA
21213148 CATCATTCGA
Statistics
Matches: 140, Mismatches: 17, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 93 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:21234505 original size:43 final size:43
Alignment explanation
Indices: 21234453--21234544 Score: 123
Period size: 43 Copynumber: 2.1 Consensus size: 43
21234443 GACACGCGCG
* * *
21234453 TGTGCCTCAATCGTGTGTGATACACGGCTAAG-CGACACGGCCA
1 TGTGTCTCAACCGTGTGTGACACACGGC-AAGCCGACACGGCCA
**
21234496 TGTGTCTCAACCGTGTGTGACACACGGCCCGCCGACACGGCCA
1 TGTGTCTCAACCGTGTGTGACACACGGCAAGCCGACACGGCCA
21234539 TGTGTC
1 TGTGTC
21234545 CCCTGTAGCT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
42 1 0.02
43 42 0.98
ACGTcount: A:0.20, C:0.32, G:0.28, T:0.21
Consensus pattern (43 bp):
TGTGTCTCAACCGTGTGTGACACACGGCAAGCCGACACGGCCA
Found at i:21236098 original size:48 final size:48
Alignment explanation
Indices: 21235986--21236118 Score: 137
Period size: 48 Copynumber: 2.8 Consensus size: 48
21235976 ACATTTGGGT
* * * * *
21235986 GATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC
1 GATATGAGAGCTAGTGTAAGACCATGTCTGGAACATGGCATCAGCAAC
* * * *
21236034 GATATGAGAGCCAGTGTAAGACCGTGTTTGGAACATGGCATCAGCAAT
1 GATATGAGAGCTAGTGTAAGACCATGTCTGGAACATGGCATCAGCAAC
21236082 G-TAATGCA-AGCTAGTGTAAGACCATGTCTAGG-ACATG
1 GAT-ATG-AGAGCTAGTGTAAGACCATGTCT-GGAACATG
21236119 TTTGGAACAT
Statistics
Matches: 70, Mismatches: 12, Indels: 6
0.80 0.14 0.07
Matches are distributed among these distances:
47 1 0.01
48 66 0.94
49 3 0.04
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (48 bp):
GATATGAGAGCTAGTGTAAGACCATGTCTGGAACATGGCATCAGCAAC
Found at i:21237620 original size:1 final size:1
Alignment explanation
Indices: 21237523--21237606 Score: 168
Period size: 1 Copynumber: 84.0 Consensus size: 1
21237513 TAACAGACTT
21237523 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
21237588 AAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAA
21237607 CAGACTTTTA
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 83 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:21238989 original size:40 final size:40
Alignment explanation
Indices: 21238935--21239208 Score: 458
Period size: 40 Copynumber: 6.8 Consensus size: 40
21238925 ATTACCACAA
* ** *
21238935 GCACAATTGCCTTCGGGTCTTAGCCCGGGCATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
21238975 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
21239015 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
21239055 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
21239095 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
21239135 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
21239175 GCACAAATGCCTTCGGGTTTTAGCCCGGATATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAT
21239209 ATACAAATGC
Statistics
Matches: 219, Mismatches: 15, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 219 1.00
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.25
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:21242007 original size:48 final size:48
Alignment explanation
Indices: 21241952--21242057 Score: 137
Period size: 48 Copynumber: 2.2 Consensus size: 48
21241942 TTGTCTTTTC
*
21241952 TTTCTTTTTCAATTT-TCTCT-TTTTCCTCACA-CTTTTGTTCAATCTCAA
1 TTTCTTTTTCAATTTCTCTCTCTTTT--TCACATCCTTT-TTCAATCTCAA
* *
21242000 TTTCTTTTTCGATTTCTTTCTCTTTTTCACATCCTTTTTCAATCTCAA
1 TTTCTTTTTCAATTTCTCTCTCTTTTTCACATCCTTTTTCAATCTCAA
21242048 TTTCTTTTTC
1 TTTCTTTTTC
21242058 CATGACACTC
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
48 40 0.77
49 8 0.15
50 4 0.08
ACGTcount: A:0.14, C:0.25, G:0.02, T:0.59
Consensus pattern (48 bp):
TTTCTTTTTCAATTTCTCTCTCTTTTTCACATCCTTTTTCAATCTCAA
Found at i:21243107 original size:14 final size:14
Alignment explanation
Indices: 21243088--21243122 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
21243078 TATACTTCGA
21243088 TTTTTTTTTGAATT
1 TTTTTTTTTGAATT
21243102 TTTTTTTTTGAATT
1 TTTTTTTTTGAATT
21243116 TTTTTTT
1 TTTTTTT
21243123 CAAATTTCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.11, C:0.00, G:0.06, T:0.83
Consensus pattern (14 bp):
TTTTTTTTTGAATT
Found at i:21243128 original size:13 final size:13
Alignment explanation
Indices: 21243087--21243129 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
21243077 ATATACTTCG
*
21243087 ATTTTTTTTTGAA
1 ATTTTTTTTTCAA
* **
21243100 TTTTTTTTTTTGA
1 ATTTTTTTTTCAA
21243113 ATTTTTTTTTCAA
1 ATTTTTTTTTCAA
21243126 ATTT
1 ATTT
21243130 CCTCTTCTTT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.19, C:0.02, G:0.05, T:0.74
Consensus pattern (13 bp):
ATTTTTTTTTCAA
Found at i:21244675 original size:30 final size:31
Alignment explanation
Indices: 21244618--21244676 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 31
21244608 AGAAAGAAAG
* ***
21244618 AAGGAGCTGAAAGTAAGCTCGGTTGAGCTCA
1 AAGGAGCTGAAAGCAAGCTCAAATGAGCTCA
21244649 AAGGAGCTGAAA-CAAGCTCAAATGAGCT
1 AAGGAGCTGAAAGCAAGCTCAAATGAGCT
21244677 GAGTTGAGCT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 12 0.50
31 12 0.50
ACGTcount: A:0.37, C:0.17, G:0.29, T:0.17
Consensus pattern (31 bp):
AAGGAGCTGAAAGCAAGCTCAAATGAGCTCA
Found at i:21244686 original size:20 final size:20
Alignment explanation
Indices: 21244639--21244686 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
21244629 AGTAAGCTCG
21244639 GTTGAGCTCAAAGGAGCTGA
1 GTTGAGCTCAAAGGAGCTGA
**** *
21244659 AACAAGCTCAAATGAGCTGA
1 GTTGAGCTCAAAGGAGCTGA
21244679 GTTGAGCT
1 GTTGAGCT
21244687 GGACGGTGCT
Statistics
Matches: 19, Mismatches: 9, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (20 bp):
GTTGAGCTCAAAGGAGCTGA
Found at i:21248213 original size:31 final size:31
Alignment explanation
Indices: 21248178--21248239 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
21248168 ATGGAGGACA
21248178 TCGTAGAGGTGAAGTTGCTATGTTGTTTCTT
1 TCGTAGAGGTGAAGTTGCTATGTTGTTTCTT
21248209 TCGTAGAGGTGAAGTTGCTATGTTGTTTCTT
1 TCGTAGAGGTGAAGTTGCTATGTTGTTTCTT
21248240 GACTTCTTGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.16, C:0.10, G:0.29, T:0.45
Consensus pattern (31 bp):
TCGTAGAGGTGAAGTTGCTATGTTGTTTCTT
Found at i:21248668 original size:22 final size:20
Alignment explanation
Indices: 21248612--21248668 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 20
21248602 TCAAATATAT
21248612 ATAAACATTAAATATATAAAA
1 ATAAA-ATTAAATATATAAAA
21248633 ATAGAAA-TAAATATATAAAA
1 ATA-AAATTAAATATATAAAA
*
21248653 ATTTAAAATTATATAT
1 A--TAAAATTAAATAT
21248669 TCTAAAAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
20 14 0.45
21 7 0.23
22 10 0.32
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (20 bp):
ATAAAATTAAATATATAAAA
Found at i:21249792 original size:31 final size:32
Alignment explanation
Indices: 21249754--21249845 Score: 150
Period size: 32 Copynumber: 2.9 Consensus size: 32
21249744 CTCTTATCTT
21249754 TATAAATTCACTAACCTTGTGAGGTTT-TCTG
1 TATAAATTCACTAACCTTGTGAGGTTTGTCTG
*
21249785 TATAAATTCACTAACCTTGTGAGGTTTGTCTT
1 TATAAATTCACTAACCTTGTGAGGTTTGTCTG
* *
21249817 TATAAATTTACTAACCTTGTGAGGCTTGT
1 TATAAATTCACTAACCTTGTGAGGTTTGT
21249846 GGTGTGTATA
Statistics
Matches: 57, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
31 27 0.47
32 30 0.53
ACGTcount: A:0.26, C:0.15, G:0.16, T:0.42
Consensus pattern (32 bp):
TATAAATTCACTAACCTTGTGAGGTTTGTCTG
Found at i:21249830 original size:32 final size:32
Alignment explanation
Indices: 21249750--21249845 Score: 158
Period size: 31 Copynumber: 3.0 Consensus size: 32
21249740 AATACTCTTA
21249750 TCTTTATAAATTCACTAACCTTGTGAGGTTT-
1 TCTTTATAAATTCACTAACCTTGTGAGGTTTG
*
21249781 TCTGTATAAATTCACTAACCTTGTGAGGTTTG
1 TCTTTATAAATTCACTAACCTTGTGAGGTTTG
* *
21249813 TCTTTATAAATTTACTAACCTTGTGAGGCTTG
1 TCTTTATAAATTCACTAACCTTGTGAGGTTTG
21249845 T
1 T
21249846 GGTGTGTATA
Statistics
Matches: 60, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
31 30 0.50
32 30 0.50
ACGTcount: A:0.25, C:0.16, G:0.16, T:0.44
Consensus pattern (32 bp):
TCTTTATAAATTCACTAACCTTGTGAGGTTTG
Found at i:21257340 original size:20 final size:22
Alignment explanation
Indices: 21257302--21257341 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
21257292 TTTGTTATCG
21257302 TTTTTAAGAAAGATATCGATTA
1 TTTTTAAGAAAGATATCGATTA
21257324 TTTTTAA-AAAG-TATCGAT
1 TTTTTAAGAAAGATATCGAT
21257342 ACCAAAAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 4 0.22
22 7 0.39
ACGTcount: A:0.40, C:0.05, G:0.12, T:0.42
Consensus pattern (22 bp):
TTTTTAAGAAAGATATCGATTA
Found at i:21258906 original size:35 final size:37
Alignment explanation
Indices: 21258867--21258955 Score: 110
Period size: 40 Copynumber: 2.4 Consensus size: 37
21258857 TTGCTAATAT
*
21258867 TCTAATCTAGTC-C-CTGTATTATACTTAATAATTTA
1 TCTAATCTAATCACACTGTATTATACTTAATAATTTA
*
21258902 TCTAATTTAATCACTAAACTGTATTATACTTAATAATTTA
1 TCTAATCTAATCAC---ACTGTATTATACTTAATAATTTA
*
21258942 TCTAATTTAATCAC
1 TCTAATCTAATCAC
21258956 TAAATAATTT
Statistics
Matches: 47, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
35 10 0.21
36 1 0.02
40 36 0.77
ACGTcount: A:0.36, C:0.16, G:0.03, T:0.45
Consensus pattern (37 bp):
TCTAATCTAATCACACTGTATTATACTTAATAATTTA
Found at i:21258913 original size:40 final size:40
Alignment explanation
Indices: 21258880--21258959 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
21258870 AATCTAGTCC
21258880 CTGTATTATACTTAATAATTTATCTAATTTAATCACTAAA
1 CTGTATTATACTTAATAATTTATCTAATTTAATCACTAAA
21258920 CTGTATTATACTTAATAATTTATCTAATTTAATCACTAAA
1 CTGTATTATACTTAATAATTTATCTAATTTAATCACTAAA
21258960 TAATTTTACT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.40, C:0.12, G:0.03, T:0.45
Consensus pattern (40 bp):
CTGTATTATACTTAATAATTTATCTAATTTAATCACTAAA
Found at i:21260925 original size:29 final size:31
Alignment explanation
Indices: 21260851--21260925 Score: 73
Period size: 29 Copynumber: 2.5 Consensus size: 31
21260841 AACGGCTTAG
* * *
21260851 TGACTAAAATATTACAATGTGATAACATAAG
1 TGACTAAAATATAACAATGTCATAACATAAA
* ** *
21260882 TGATTAAAACGTAAC-ATTTCA-AACATAAA
1 TGACTAAAATATAACAATGTCATAACATAAA
21260911 TGACTAAAATATAAC
1 TGACTAAAATATAAC
21260926 CTGAGCAAAA
Statistics
Matches: 34, Mismatches: 10, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
29 19 0.56
30 4 0.12
31 11 0.32
ACGTcount: A:0.51, C:0.12, G:0.09, T:0.28
Consensus pattern (31 bp):
TGACTAAAATATAACAATGTCATAACATAAA
Found at i:21261254 original size:24 final size:23
Alignment explanation
Indices: 21261206--21261255 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
21261196 TAAATTCATA
21261206 ATATTAAATATTAAAAATAGTTTT
1 ATATTAAATATTAAAAATAG-TTT
*
21261230 ATATTAATATATATTAAAATA-TTT
1 ATATTAA-ATAT-TAAAAATAGTTT
21261254 AT
1 AT
21261256 TTTTATTCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
24 12 0.52
25 4 0.17
26 7 0.30
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (23 bp):
ATATTAAATATTAAAAATAGTTT
Found at i:21264307 original size:30 final size:31
Alignment explanation
Indices: 21264263--21264322 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
21264253 GCTAGGGTAA
* *
21264263 TTTGGGTAACGAAGTATAGTTTTGGTACCAC
1 TTTGGGTAACGAAGTATAATTTAGGTACCAC
*
21264294 TTTGGGT-ACGAAGTTTAATTTAGGTACCA
1 TTTGGGTAACGAAGTATAATTTAGGTACCA
21264323 TTTATAAACA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 19 0.73
31 7 0.27
ACGTcount: A:0.27, C:0.12, G:0.25, T:0.37
Consensus pattern (31 bp):
TTTGGGTAACGAAGTATAATTTAGGTACCAC
Found at i:21267199 original size:21 final size:21
Alignment explanation
Indices: 21267173--21267214 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
21267163 CTCAGAGTAG
21267173 GATCATCAAATTTTTGTTGCT
1 GATCATCAAATTTTTGTTGCT
21267194 GATCATCAAATTTTTGTTGCT
1 GATCATCAAATTTTTGTTGCT
21267215 TTCGTTGTAG
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:0.24, C:0.14, G:0.14, T:0.48
Consensus pattern (21 bp):
GATCATCAAATTTTTGTTGCT
Found at i:21277294 original size:16 final size:16
Alignment explanation
Indices: 21277273--21277303 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
21277263 AGGCAAGTTA
21277273 AAGAAATTCAGAAATG
1 AAGAAATTCAGAAATG
21277289 AAGAAATTCAGAAAT
1 AAGAAATTCAGAAAT
21277304 CAAGCCAATG
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:0.58, C:0.06, G:0.16, T:0.19
Consensus pattern (16 bp):
AAGAAATTCAGAAATG
Found at i:21284019 original size:21 final size:21
Alignment explanation
Indices: 21283995--21284040 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
21283985 TCATTGCTCA
21283995 ACACATATTTACCAAATCATT
1 ACACATATTTACCAAATCATT
21284016 ACACATATTTACCAAATCATT
1 ACACATATTTACCAAATCATT
21284037 ACAC
1 ACAC
21284041 GACAAATTCT
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:0.43, C:0.26, G:0.00, T:0.30
Consensus pattern (21 bp):
ACACATATTTACCAAATCATT
Found at i:21301666 original size:12 final size:12
Alignment explanation
Indices: 21301649--21301689 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
21301639 AATAAGCTCA
*
21301649 TTTATTGGCTTG
1 TTTATTGACTTG
*
21301661 TTTATTGACTCG
1 TTTATTGACTTG
21301673 TTTA-TGACTTG
1 TTTATTGACTTG
21301684 TTTATT
1 TTTATT
21301690 TATTAATGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
11 10 0.40
12 15 0.60
ACGTcount: A:0.15, C:0.10, G:0.17, T:0.59
Consensus pattern (12 bp):
TTTATTGACTTG
Found at i:21303083 original size:23 final size:23
Alignment explanation
Indices: 21303034--21303083 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
21303024 GAAATATATA
* *
21303034 TAAATGAACATGTGCATGAACGT
1 TAAATGAACATGTGCAAGAACGC
* *
21303057 TAAATGAACATGTTCAAGAATGC
1 TAAATGAACATGTGCAAGAACGC
21303080 TAAA
1 TAAA
21303084 CGAATCGAGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.44, C:0.12, G:0.18, T:0.26
Consensus pattern (23 bp):
TAAATGAACATGTGCAAGAACGC
Found at i:21307825 original size:19 final size:21
Alignment explanation
Indices: 21307801--21307847 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
21307791 TTAAGTATAA
*
21307801 TATAAAT-T-TCAAATATTGT
1 TATAAATATCTCAAATATTAT
21307820 TATAAATATCTCAAATATTAT
1 TATAAATATCTCAAATATTAT
21307841 TATAAAT
1 TATAAAT
21307848 GTATAATAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 7 0.28
20 1 0.04
21 17 0.68
ACGTcount: A:0.47, C:0.06, G:0.02, T:0.45
Consensus pattern (21 bp):
TATAAATATCTCAAATATTAT
Found at i:21309885 original size:3 final size:3
Alignment explanation
Indices: 21309877--21309906 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
21309867 CATTGAAAAT
21309877 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
21309907 GTTGCTTTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:21318299 original size:12 final size:12
Alignment explanation
Indices: 21318282--21318320 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
21318272 ATGAGTTTTT
21318282 TAAGTAAGCAAG
1 TAAGTAAGCAAG
*
21318294 TAAGTAAACAAG
1 TAAGTAAGCAAG
* *
21318306 TAAGTGAGTAAG
1 TAAGTAAGCAAG
21318318 TAA
1 TAA
21318321 TGAAGCGAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.51, C:0.05, G:0.23, T:0.21
Consensus pattern (12 bp):
TAAGTAAGCAAG
Found at i:21319992 original size:25 final size:25
Alignment explanation
Indices: 21319940--21319994 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
21319930 GACTCACCAT
* *
21319940 AGCTCATATGAGCTTATTGATTTAC
1 AGCTCATATGAGCTTACTAATTTAC
*
21319965 AGCTCCTATGAGCTTACTAATATT-C
1 AGCTCATATGAGCTTACTAAT-TTAC
21319990 AGCTC
1 AGCTC
21319995 GAAGGAGCTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 24 0.92
26 2 0.08
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.36
Consensus pattern (25 bp):
AGCTCATATGAGCTTACTAATTTAC
Found at i:21326195 original size:16 final size:17
Alignment explanation
Indices: 21326174--21326206 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
21326164 CACATTGAAG
21326174 TGTTTTC-TGAAAACCA
1 TGTTTTCATGAAAACCA
21326190 TGTTTTCATTGAAAACC
1 TGTTTTCA-TGAAAACC
21326207 CTTCTTGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
18 8 0.53
ACGTcount: A:0.30, C:0.18, G:0.12, T:0.39
Consensus pattern (17 bp):
TGTTTTCATGAAAACCA
Found at i:21326774 original size:28 final size:29
Alignment explanation
Indices: 21326709--21326774 Score: 68
Period size: 28 Copynumber: 2.4 Consensus size: 29
21326699 TTTAACAGTA
* *
21326709 ACAG-TATC-GTGTGGGCCTTAGCCCAAT
1 ACAGATATCAGTGGGGGCCTAAGCCCAAT
* *
21326736 ACAGA-AACAGTGGGGGCCTAAGCCTAAT
1 ACAGATATCAGTGGGGGCCTAAGCCCAAT
21326764 ACA-ATATCAGT
1 ACAGATATCAGT
21326775 ATGGTGCAAG
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
27 7 0.23
28 24 0.77
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.21
Consensus pattern (29 bp):
ACAGATATCAGTGGGGGCCTAAGCCCAAT
Found at i:21326995 original size:32 final size:32
Alignment explanation
Indices: 21326948--21327140 Score: 127
Period size: 32 Copynumber: 6.0 Consensus size: 32
21326938 AGCTATAAGT
* *
21326948 ACAGTTATATGATTGGAAAAAAGCCATTAGTA
1 ACAGTAATATGATTGGAAAAAAGCCATCAGTA
* * * * *
21326980 GCAGTGATATGATTGGCACACAGCCATCAGTA
1 ACAGTAATATGATTGGAAAAAAGCCATCAGTA
* * * * *
21327012 ACGGTAATATGA-TCGACACAAAGCCATTAGCA
1 ACAGTAATATGATTGGA-AAAAAGCCATCAGTA
** *
21327044 ACAGTAATATGATCAGCAAAAAGCCATCAGTA
1 ACAGTAATATGATTGGAAAAAAGCCATCAGTA
** * * *
21327076 ATGGTAATATGATCGGCACAAAGCCATCAGTA
1 ACAGTAATATGATTGGAAAAAAGCCATCAGTA
** * * * * *
21327108 ATGGTATTATGATCGGTATAAAGCCATTAGTA
1 ACAGTAATATGATTGGAAAAAAGCCATCAGTA
21327140 A
1 A
21327141 TGTTATTATG
Statistics
Matches: 130, Mismatches: 29, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
31 2 0.02
32 127 0.98
33 1 0.01
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.24
Consensus pattern (32 bp):
ACAGTAATATGATTGGAAAAAAGCCATCAGTA
Found at i:21327119 original size:96 final size:96
Alignment explanation
Indices: 21326986--21327203 Score: 276
Period size: 96 Copynumber: 2.3 Consensus size: 96
21326976 AGTAGCAGTG
* *
21326986 ATATGATTGGCACACAGCCATCAGTAACGGTAATATGATCGACACAAAGCCATTAGCAACAG-TA
1 ATATGATCGGCACAAAGCCATCAGTAACGGTAATATGATCGACACAAAGCCATTAGCAA-AGTTA
* *
21327050 ATATGATCAGCAAAAAGCCATCAGTAATGGTA
65 ATATGATCAGCAAAAAGCCATCAATAACGGTA
* * ** * * * *
21327082 ATATGATCGGCACAAAGCCATCAGTAATGGTATTATGATCGGTATAAAGCCATTAGTAATGTTAT
1 ATATGATCGGCACAAAGCCATCAGTAACGGTAATATGATCGACACAAAGCCATTAGCAAAGTTAA
* *
21327147 TATGGTCAGCACAAAGCCATCAATAACGGTA
66 TATGATCAGCAAAAAGCCATCAATAACGGTA
* *
21327178 ATATAACCGGCACAAAGCCATCAGTA
1 ATATGATCGGCACAAAGCCATCAGTA
21327204 GCATCGCAGC
Statistics
Matches: 105, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
95 1 0.01
96 104 0.99
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.23
Consensus pattern (96 bp):
ATATGATCGGCACAAAGCCATCAGTAACGGTAATATGATCGACACAAAGCCATTAGCAAAGTTAA
TATGATCAGCAAAAAGCCATCAATAACGGTA
Found at i:21327141 original size:32 final size:32
Alignment explanation
Indices: 21326986--21327203 Score: 238
Period size: 32 Copynumber: 6.8 Consensus size: 32
21326976 AGTAGCAGTG
* * *
21326986 ATATGATTGGCACACAGCCATCAGTAACGGTA
1 ATATGATCGGCACAAAGCCATCAGTAATGGTA
* * * **
21327018 ATATGATCGACACAAAGCCATTAGCAACAGTA
1 ATATGATCGGCACAAAGCCATCAGTAATGGTA
* *
21327050 ATATGATCAGCAAAAAGCCATCAGTAATGGTA
1 ATATGATCGGCACAAAGCCATCAGTAATGGTA
21327082 ATATGATCGGCACAAAGCCATCAGTAATGGTA
1 ATATGATCGGCACAAAGCCATCAGTAATGGTA
* * * * *
21327114 TTATGATCGGTATAAAGCCATTAGTAATGTTA
1 ATATGATCGGCACAAAGCCATCAGTAATGGTA
* * * * *
21327146 TTATGGTCAGCACAAAGCCATCAATAACGGTA
1 ATATGATCGGCACAAAGCCATCAGTAATGGTA
* *
21327178 ATATAACCGGCACAAAGCCATCAGTA
1 ATATGATCGGCACAAAGCCATCAGTA
21327204 GCATCGCAGC
Statistics
Matches: 152, Mismatches: 34, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
32 152 1.00
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.23
Consensus pattern (32 bp):
ATATGATCGGCACAAAGCCATCAGTAATGGTA
Found at i:21327376 original size:24 final size:23
Alignment explanation
Indices: 21327349--21327430 Score: 92
Period size: 24 Copynumber: 3.5 Consensus size: 23
21327339 CCATGCTCAG
21327349 AATCAGTCATTCAAATTACAGACA
1 AATCAGTCATTCAAA-TACAGACA
* *
21327373 AATCAGTCATACCAAATATAGACA
1 AATCAGTCAT-TCAAATACAGACA
* **
21327397 AATCAGTCATTTAACCACAGACA
1 AATCAGTCATTCAAATACAGACA
*
21327420 AATCAATCATT
1 AATCAGTCATT
21327431 TGACCTCGAG
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
23 18 0.37
24 27 0.55
25 4 0.08
ACGTcount: A:0.46, C:0.22, G:0.07, T:0.24
Consensus pattern (23 bp):
AATCAGTCATTCAAATACAGACA
Found at i:21327502 original size:26 final size:26
Alignment explanation
Indices: 21327451--21327588 Score: 163
Period size: 27 Copynumber: 5.3 Consensus size: 26
21327441 GGGAAAAATA
21327451 GTCATTTACCC-ACCA-GGGCATTACG
1 GTCATTTACCCTA-CAGGGGCATTACG
21327476 GTCATTTACCCTACAGGGGCATTACG
1 GTCATTTACCCTACAGGGGCATTACG
* *
21327502 GTCATTTACCCTACAAGGGTATTACG
1 GTCATTTACCCTACAGGGGCATTACG
* *
21327528 GTCATTTTACCTTACAGGGGCATTATG
1 GTCA-TTTACCCTACAGGGGCATTACG
* * *
21327555 GTCATTTTACCTTAAAGGGGTATTACG
1 GTCA-TTTACCCTACAGGGGCATTACG
*
21327582 ATCATTT
1 GTCATTT
21327589 TACAACCTTT
Statistics
Matches: 100, Mismatches: 10, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
25 13 0.13
26 42 0.42
27 45 0.45
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (26 bp):
GTCATTTACCCTACAGGGGCATTACG
Found at i:21327536 original size:27 final size:26
Alignment explanation
Indices: 21327451--21327588 Score: 154
Period size: 26 Copynumber: 5.3 Consensus size: 26
21327441 GGGAAAAATA
*
21327451 GTCATTTACCC-ACCAGGGCATTACG
1 GTCATTTACCCTACAAGGGCATTACG
*
21327476 GTCATTTACCCTACAGGGGCATTACG
1 GTCATTTACCCTACAAGGGCATTACG
*
21327502 GTCATTTACCCTACAAGGGTATTACG
1 GTCATTTACCCTACAAGGGCATTACG
* * *
21327528 GTCATTTTACCTTACAGGGGCATTATG
1 GTCA-TTTACCCTACAAGGGCATTACG
* *
21327555 GTCATTTTACCTTA-AAGGGGTATTACG
1 GTCA-TTTACCCTACAA-GGGCATTACG
*
21327582 ATCATTT
1 GTCATTT
21327589 TACAACCTTT
Statistics
Matches: 98, Mismatches: 12, Indels: 5
0.85 0.10 0.04
Matches are distributed among these distances:
25 11 0.11
26 44 0.45
27 43 0.44
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (26 bp):
GTCATTTACCCTACAAGGGCATTACG
Found at i:21327546 original size:53 final size:53
Alignment explanation
Indices: 21327451--21327591 Score: 189
Period size: 54 Copynumber: 2.7 Consensus size: 53
21327441 GGGAAAAATA
* *
21327451 GTCATTTACCC-ACCAGGGCATTACGGTCA-TTTACCCTACAGGGGCATTACG
1 GTCATTTACCCTACAAGGGTATTACGGTCATTTTACCCTACAGGGGCATTACG
* *
21327502 GTCATTTACCCTACAAGGGTATTACGGTCATTTTACCTTACAGGGGCATTATG
1 GTCATTTACCCTACAAGGGTATTACGGTCATTTTACCCTACAGGGGCATTACG
* *
21327555 GTCATTTTACCTTA-AAGGGGTATTACGATCATTTTAC
1 GTCA-TTTACCCTACAA-GGGTATTACGGTCATTTTAC
21327592 AACCTTTCTG
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
51 11 0.14
52 16 0.20
53 26 0.32
54 27 0.34
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.33
Consensus pattern (53 bp):
GTCATTTACCCTACAAGGGTATTACGGTCATTTTACCCTACAGGGGCATTACG
Found at i:21331411 original size:12 final size:12
Alignment explanation
Indices: 21331394--21331424 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
21331384 CTTCAGTTTT
21331394 CACACGGCCTAG
1 CACACGGCCTAG
*
21331406 CACACGGCCTGG
1 CACACGGCCTAG
21331418 CACACGG
1 CACACGG
21331425 GTGTCTGAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.23, C:0.42, G:0.29, T:0.06
Consensus pattern (12 bp):
CACACGGCCTAG
Found at i:21333345 original size:56 final size:56
Alignment explanation
Indices: 21333255--21333411 Score: 242
Period size: 56 Copynumber: 2.8 Consensus size: 56
21333245 AGTAGTTACG
* *
21333255 TAGGAATCACATTGCTAAAAGATAATATCTCATAATAATCTCCTATAATATCCCAT
1 TAGGAATCAAATTGCTAAAAGATAATATCTCATAATAATATCCTATAATATCCCAT
* * *
21333311 TAGGAATCAAATTGCTAAGAGATAATATCCCATAATAATATCCTATAATATCCTAT
1 TAGGAATCAAATTGCTAAAAGATAATATCTCATAATAATATCCTATAATATCCCAT
** *
21333367 TACAAATCAAATTGCTAAAAGATAATGTCTCATAATAATATCCTA
1 TAGGAATCAAATTGCTAAAAGATAATATCTCATAATAATATCCTA
21333412 ATAGTGCACA
Statistics
Matches: 91, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
56 91 1.00
ACGTcount: A:0.43, C:0.17, G:0.08, T:0.32
Consensus pattern (56 bp):
TAGGAATCAAATTGCTAAAAGATAATATCTCATAATAATATCCTATAATATCCCAT
Found at i:21334811 original size:15 final size:15
Alignment explanation
Indices: 21334791--21334829 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
21334781 AAAAATGGGT
21334791 AAGAGGGATTTTTAC
1 AAGAGGGATTTTTAC
*
21334806 AAGA-GGATTTTTAG
1 AAGAGGGATTTTTAC
21334820 AAG-GGGATTT
1 AAGAGGGATTT
21334830 GGGAAAGCAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 18 0.82
15 4 0.18
ACGTcount: A:0.33, C:0.03, G:0.31, T:0.33
Consensus pattern (15 bp):
AAGAGGGATTTTTAC
Found at i:21352456 original size:14 final size:13
Alignment explanation
Indices: 21352437--21352466 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
21352427 TGAAAATTTA
21352437 AAACTAATTAATAT
1 AAACTAATTAA-AT
21352451 AAACTAATTAAAT
1 AAACTAATTAAAT
21352464 AAA
1 AAA
21352467 AGCTTTAATC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (13 bp):
AAACTAATTAAAT
Found at i:21356246 original size:9 final size:9
Alignment explanation
Indices: 21356232--21356262 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
21356222 TATAGTTTGA
21356232 TATTCGAGT
1 TATTCGAGT
*
21356241 TATTCGAAT
1 TATTCGAGT
21356250 TATTCGAGT
1 TATTCGAGT
21356259 TATT
1 TATT
21356263 TGAATTCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.10, G:0.16, T:0.48
Consensus pattern (9 bp):
TATTCGAGT
Found at i:21356255 original size:18 final size:18
Alignment explanation
Indices: 21356232--21356268 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
21356222 TATAGTTTGA
21356232 TATTCGAGTTATTCGAAT
1 TATTCGAGTTATTCGAAT
*
21356250 TATTCGAGTTATTTGAAT
1 TATTCGAGTTATTCGAAT
21356268 T
1 T
21356269 CAAAAACTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.27, C:0.08, G:0.16, T:0.49
Consensus pattern (18 bp):
TATTCGAGTTATTCGAAT
Found at i:21356735 original size:21 final size:21
Alignment explanation
Indices: 21356709--21356748 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
21356699 AAAACCTTGC
21356709 TGTTTTGCTGCTATTTTTCTA
1 TGTTTTGCTGCTATTTTTCTA
* *
21356730 TGTTTTGCTGTTGTTTTTC
1 TGTTTTGCTGCTATTTTTC
21356749 CAACTTTTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.05, C:0.12, G:0.17, T:0.65
Consensus pattern (21 bp):
TGTTTTGCTGCTATTTTTCTA
Found at i:21360378 original size:32 final size:32
Alignment explanation
Indices: 21360337--21360397 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
21360327 AGTGTCAAGG
*
21360337 ACTTGAAGCTAGTTTAGTCCTTGTTACTAAGA
1 ACTTGAAGCTAGTTTAATCCTTGTTACTAAGA
21360369 ACTTGAAGCTAGTTTAATCCTTGTTACTA
1 ACTTGAAGCTAGTTTAATCCTTGTTACTA
21360398 CTCTATGCCT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.39
Consensus pattern (32 bp):
ACTTGAAGCTAGTTTAATCCTTGTTACTAAGA
Found at i:21360461 original size:11 final size:11
Alignment explanation
Indices: 21360445--21360471 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
21360435 GGAAATGTTC
21360445 TGTTTAGGAAA
1 TGTTTAGGAAA
21360456 TGTTTAGGAAA
1 TGTTTAGGAAA
21360467 TGTTT
1 TGTTT
21360472 CCCTATACCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.26, T:0.44
Consensus pattern (11 bp):
TGTTTAGGAAA
Found at i:21362303 original size:6 final size:6
Alignment explanation
Indices: 21362292--21362316 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
21362282 TAGGTTTCCA
21362292 AAAATG AAAATG AAAATG AAAATG A
1 AAAATG AAAATG AAAATG AAAATG A
21362317 TCCATTTGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (6 bp):
AAAATG
Found at i:21366791 original size:41 final size:41
Alignment explanation
Indices: 21366734--21366811 Score: 120
Period size: 41 Copynumber: 1.9 Consensus size: 41
21366724 TCGAGCTCTG
* *
21366734 TGCCTAGCAGGTTTCATGCTGGTGTATGAGATCAGGCTTGA
1 TGCCTAGCAGGCTTCATGCCGGTGTATGAGATCAGGCTTGA
* *
21366775 TGCCTAGCAGGCTTCATGCCGGTGTATTATATCAGGC
1 TGCCTAGCAGGCTTCATGCCGGTGTATGAGATCAGGC
21366812 CTCGATCTTG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.19, C:0.21, G:0.29, T:0.31
Consensus pattern (41 bp):
TGCCTAGCAGGCTTCATGCCGGTGTATGAGATCAGGCTTGA
Found at i:21368493 original size:131 final size:131
Alignment explanation
Indices: 21368259--21368496 Score: 361
Period size: 131 Copynumber: 1.8 Consensus size: 131
21368249 CGGCAATGCG
* * *
21368259 ACATGGCCGTTTGTCCCCTGTAGGTTTGAAAGGCTGCATTTCAAGGGTTACACGGCCTAGCACAT
1 ACATGGCCGTGTGTCCCCTGTAGGTTTGAAAGGCTGCATTTCAAGGGTTACACAGCCTAGCACAC
* * *
21368324 GGGCGTCTGGCTTGGCTGTGTGACCCAAGTAAGAGAGTTACACGAACACGGGCTGGGACACATGA
66 GAGCATCTGGCTTGGCTGTGTAACCCAAGTAAGAGAGTTACACGAACACGGGCTGGGACACATGA
21368389 C
131 C
* * *
21368390 ACATGGCCGTGTGTCCCCTGTAGGTTTTAAAGGTTGCATTTCAAGTGTTACACAGCCTAGCACAC
1 ACATGGCCGTGTGTCCCCTGTAGGTTTGAAAGGCTGCATTTCAAGGGTTACACAGCCTAGCACAC
* *
21368455 GAGCATCTGGCTTGGTTGTGTAACCCATGTCAA-AGAGTTACA
66 GAGCATCTGGCTTGGCTGTGTAACCCAAGT-AAGAGAGTTACA
21368497 AGGGCACGGA
Statistics
Matches: 95, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
131 93 0.98
132 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (131 bp):
ACATGGCCGTGTGTCCCCTGTAGGTTTGAAAGGCTGCATTTCAAGGGTTACACAGCCTAGCACAC
GAGCATCTGGCTTGGCTGTGTAACCCAAGTAAGAGAGTTACACGAACACGGGCTGGGACACATGA
C
Found at i:21372732 original size:25 final size:26
Alignment explanation
Indices: 21372684--21372732 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
21372674 ACATATTTTC
21372684 TCAAAATTTTACCAAGGGCAAAATCG
1 TCAAAATTTTACCAAGGGCAAAATCG
*
21372710 TCAAAATTTTACC-AGGGTAAAAT
1 TCAAAATTTTACCAAGGGCAAAAT
21372733 TATCCAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.27
Consensus pattern (26 bp):
TCAAAATTTTACCAAGGGCAAAATCG
Found at i:21372746 original size:25 final size:26
Alignment explanation
Indices: 21372684--21372744 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 26
21372674 ACATATTTTC
*
21372684 TCAAAATTTTACCAAGGGCAAAATCG
1 TCAAAATTTTACCAAGGGCAAAATCA
* *
21372710 TCAAAATTTTACC-AGGGTAAAATTA
1 TCAAAATTTTACCAAGGGCAAAATCA
21372735 TCCAAAATTT
1 T-CAAAATTT
21372745 ACTGGGGGTA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
25 10 0.32
26 21 0.68
ACGTcount: A:0.43, C:0.16, G:0.11, T:0.30
Consensus pattern (26 bp):
TCAAAATTTTACCAAGGGCAAAATCA
Found at i:21376806 original size:20 final size:20
Alignment explanation
Indices: 21376781--21376861 Score: 83
Period size: 20 Copynumber: 4.0 Consensus size: 20
21376771 TTGTACGGGA
*
21376781 TTGCACTTCGGTGCCTCTGT
1 TTGCACTTTGGTGCCTCTGT
* *
21376801 TTGCACATTT-GTGTCTTTGT
1 TTGCAC-TTTGGTGCCTCTGT
*
21376821 TTGCACTTTGGTGCCTCTAT
1 TTGCACTTTGGTGCCTCTGT
*
21376841 TATGCATCTTTGATGCCTCTG
1 T-TGCA-CTTTGGTGCCTCTG
21376862 GTGTGGTGCA
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
19 3 0.06
20 28 0.57
21 6 0.12
22 12 0.24
ACGTcount: A:0.10, C:0.23, G:0.21, T:0.46
Consensus pattern (20 bp):
TTGCACTTTGGTGCCTCTGT
Found at i:21386167 original size:25 final size:25
Alignment explanation
Indices: 21386132--21386191 Score: 111
Period size: 25 Copynumber: 2.4 Consensus size: 25
21386122 ACACCATTCC
*
21386132 TTTAGTCTAGGTTCTCTGTGTAAAA
1 TTTAGTTTAGGTTCTCTGTGTAAAA
21386157 TTTAGTTTAGGTTCTCTGTGTAAAA
1 TTTAGTTTAGGTTCTCTGTGTAAAA
21386182 TTTAGTTTAG
1 TTTAGTTTAG
21386192 TAGTTTATTC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.23, C:0.08, G:0.20, T:0.48
Consensus pattern (25 bp):
TTTAGTTTAGGTTCTCTGTGTAAAA
Found at i:21406780 original size:98 final size:98
Alignment explanation
Indices: 21406567--21406783 Score: 222
Period size: 98 Copynumber: 2.2 Consensus size: 98
21406557 CTAAGCCTCC
** * * * ** * *
21406567 CCCCATACGACTAGGAGCAAGGTCACTATTCTTACCTTTCGTAAGCTTCCCCAATGTGTTTGGGA
1 CCCCATACCTCTAGGAGTAGGGTCACTATTCTTACCTTTCGTAAGCCTCCCCAATACGTATAGGA
*
21406632 GCAAGGCCAAATTTATTACATTCCATAAGTCGT
66 GCAAGGCCAAATTTATTACATTCCATAAGTCCT
* * * * * *
21406665 CCCCATTCGTTTGGGAGTAGGGTCATTATTTTTACCTTTCGTAAGCCTCCTTCC-ATACGTATAG
1 CCCCATACCTCTAGGAGTAGGGTCACTATTCTTACCTTTCGTAAGCCTCC--CCAATACGTATAG
* * *
21406729 GAGCAAGGCCAAATTTATTACCTTTCGTAAG-CCT
64 GAGCAAGGCCAAATTTATTACATTCCATAAGTCCT
*
21406763 CTCCATACCTCTAGGAGTAGG
1 CCCCATACCTCTAGGAGTAGG
21406784 TGATCTGTCA
Statistics
Matches: 95, Mismatches: 22, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
98 59 0.62
99 34 0.36
100 2 0.02
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.31
Consensus pattern (98 bp):
CCCCATACCTCTAGGAGTAGGGTCACTATTCTTACCTTTCGTAAGCCTCCCCAATACGTATAGGA
GCAAGGCCAAATTTATTACATTCCATAAGTCCT
Found at i:21416216 original size:18 final size:18
Alignment explanation
Indices: 21416195--21416230 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
21416185 TATTTGTTGT
21416195 ACTA-AAAAATTAAACTGA
1 ACTAGAAAAA-TAAACTGA
21416213 ACTAGAAAAATAAACTGA
1 ACTAGAAAAATAAACTGA
21416231 TGAGTCCTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.61, C:0.11, G:0.08, T:0.19
Consensus pattern (18 bp):
ACTAGAAAAATAAACTGA
Found at i:21418613 original size:13 final size:13
Alignment explanation
Indices: 21418595--21418620 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
21418585 TATGTTTTTG
21418595 GAATCCCAGTGTT
1 GAATCCCAGTGTT
21418608 GAATCCCAGTGTT
1 GAATCCCAGTGTT
21418621 AAGTACTACT
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:0.23, C:0.23, G:0.23, T:0.31
Consensus pattern (13 bp):
GAATCCCAGTGTT
Found at i:21418940 original size:19 final size:20
Alignment explanation
Indices: 21418916--21418956 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
21418906 GAATTTAGGC
*
21418916 AAATATTGAATA-AAAATTG
1 AAATATTCAATATAAAATTG
*
21418935 AAATATTCAATATGAAATTG
1 AAATATTCAATATAAAATTG
21418955 AA
1 AA
21418957 TTGTGTGGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.56, C:0.02, G:0.10, T:0.32
Consensus pattern (20 bp):
AAATATTCAATATAAAATTG
Found at i:21428243 original size:21 final size:23
Alignment explanation
Indices: 21428206--21428270 Score: 73
Period size: 23 Copynumber: 3.0 Consensus size: 23
21428196 CCTGATCAAT
* *
21428206 ATACGACACA-TAAGTGCCTG-G
1 ATACGACACACAAAGTGCCTGAA
21428227 A-ACGACACACAAAGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
* *
21428249 ATACGACACATAAAGTACCTGA
1 ATACGACACACAAAGTGCCTGA
21428271 TCGACAAAGC
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
20 8 0.22
21 10 0.27
22 1 0.03
23 18 0.49
ACGTcount: A:0.42, C:0.25, G:0.18, T:0.15
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:21429472 original size:21 final size:21
Alignment explanation
Indices: 21429448--21429490 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
21429438 AATTGCTCTC
21429448 TGTTTCTTT-TCTTCTTTGTTT
1 TGTTTCTTTGT-TTCTTTGTTT
21429469 TGTTTCTTTGTTTCTTTGTTT
1 TGTTTCTTTGTTTCTTTGTTT
21429490 T
1 T
21429491 TTTACTTCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 20 0.95
22 1 0.05
ACGTcount: A:0.00, C:0.12, G:0.12, T:0.77
Consensus pattern (21 bp):
TGTTTCTTTGTTTCTTTGTTT
Found at i:21434581 original size:21 final size:20
Alignment explanation
Indices: 21434556--21434599 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 20
21434546 AATATATTTC
21434556 TTTGTATATA-ATTGAGATATA
1 TTTGTATATATATT-A-ATATA
21434577 TTTGTATATATATTAATATA
1 TTTGTATATATATTAATATA
21434597 TTT
1 TTT
21434600 TTAAAATGAC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 8 0.36
21 11 0.50
22 3 0.14
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (20 bp):
TTTGTATATATATTAATATA
Found at i:21435060 original size:21 final size:20
Alignment explanation
Indices: 21435016--21435060 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
21435006 AAATTTTTTT
* *
21435016 TAAATATTATTAATTAATTA
1 TAAATATTATTAATCAACTA
*
21435036 TAAATTTTATTAAATCAACTA
1 TAAATATTATT-AATCAACTA
21435057 TAAA
1 TAAA
21435061 ACTCAAATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.44
Consensus pattern (20 bp):
TAAATATTATTAATCAACTA
Found at i:21436900 original size:16 final size:16
Alignment explanation
Indices: 21436881--21436938 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 16
21436871 TAAAATACTT
21436881 TAAATTGTATTAGAGG
1 TAAATTGTATTAGAGG
* *
21436897 TAAATTTTTAATTTTAAAGG
1 TAAA-TTGT-A--TTAGAGG
21436917 TAAATTGTATTAGAGG
1 TAAATTGTATTAGAGG
*
21436933 TGAATT
1 TAAATT
21436939 TTTAAAATAC
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
16 15 0.45
17 3 0.09
18 2 0.06
19 3 0.09
20 10 0.30
ACGTcount: A:0.38, C:0.00, G:0.19, T:0.43
Consensus pattern (16 bp):
TAAATTGTATTAGAGG
Found at i:21436964 original size:22 final size:22
Alignment explanation
Indices: 21436939--21436982 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
21436929 GAGGTGAATT
21436939 TTTAAAATACTTTA-ATTACATC
1 TTTAAAAT-CTTTATATTACATC
*
21436961 TTTAAAATTTTTATATTACATC
1 TTTAAAATCTTTATATTACATC
21436983 AATAAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.50
Consensus pattern (22 bp):
TTTAAAATCTTTATATTACATC
Found at i:21436988 original size:22 final size:21
Alignment explanation
Indices: 21436949--21436989 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
21436939 TTTAAAATAC
**
21436949 TTTAATTACATCTTTAAAATT
1 TTTAATTACATCAATAAAATT
21436970 TTTATATTACATCAATAAAA
1 TTTA-ATTACATCAATAAAA
21436990 AATTTTCATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.44, C:0.10, G:0.00, T:0.46
Consensus pattern (21 bp):
TTTAATTACATCAATAAAATT
Found at i:21437395 original size:27 final size:27
Alignment explanation
Indices: 21437343--21437413 Score: 115
Period size: 27 Copynumber: 2.6 Consensus size: 27
21437333 AAAAATAAAA
* *
21437343 ATTTACTAAAATATTATAACTTTTTTTT
1 ATTTACCAAAATA-TATAAATTTTTTTT
21437371 ATTTACCAAAATATATAAATTTTTTTT
1 ATTTACCAAAATATATAAATTTTTTTT
21437398 ATTTACCAAAATATAT
1 ATTTACCAAAATATAT
21437414 CAAAAAAACC
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 29 0.71
28 12 0.29
ACGTcount: A:0.41, C:0.08, G:0.00, T:0.51
Consensus pattern (27 bp):
ATTTACCAAAATATATAAATTTTTTTT
Found at i:21437620 original size:11 final size:11
Alignment explanation
Indices: 21437604--21437640 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
21437594 GTTGGCGCGG
21437604 AAAAGAAGAGA
1 AAAAGAAGAGA
21437615 AAAAG-AGAGA
1 AAAAGAAGAGA
*
21437625 AAAAGAGGAGA
1 AAAAGAAGAGA
21437636 AAAAG
1 AAAAG
21437641 GAGGTATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 10 0.42
11 14 0.58
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (11 bp):
AAAAGAAGAGA
Found at i:21437705 original size:19 final size:21
Alignment explanation
Indices: 21437667--21437705 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
21437657 AATAATTGAT
*
21437667 TATATTGTTGTTATTATTTTG
1 TATATTGTTGTTAATATTTTG
21437688 TATATT-TTG-TAATATTTT
1 TATATTGTTGTTAATATTTT
21437706 TTTGTTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 3 0.18
21 6 0.35
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.67
Consensus pattern (21 bp):
TATATTGTTGTTAATATTTTG
Found at i:21437785 original size:3 final size:3
Alignment explanation
Indices: 21437779--21437822 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
21437769 ATTATTATTA
21437779 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
21437823 AGTATTAAGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:21438084 original size:12 final size:12
Alignment explanation
Indices: 21438067--21438097 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
21438057 ATAATTTTAG
21438067 TGTGTATTATTT
1 TGTGTATTATTT
21438079 TGTGTATTATTT
1 TGTGTATTATTT
*
21438091 TGAGTAT
1 TGTGTAT
21438098 AAATTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.19, C:0.00, G:0.19, T:0.61
Consensus pattern (12 bp):
TGTGTATTATTT
Found at i:21443754 original size:21 final size:22
Alignment explanation
Indices: 21443728--21443779 Score: 88
Period size: 21 Copynumber: 2.4 Consensus size: 22
21443718 TTGTGCCGCC
*
21443728 TTTTTTTCCCCTCCATCA-CCT
1 TTTTTTTCCCCTACATCACCCT
21443749 TTTTTTTCCCCTACATCACCCT
1 TTTTTTTCCCCTACATCACCCT
21443771 TTTTTTTCC
1 TTTTTTTCC
21443780 TCTATTATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 17 0.59
22 12 0.41
ACGTcount: A:0.10, C:0.38, G:0.00, T:0.52
Consensus pattern (22 bp):
TTTTTTTCCCCTACATCACCCT
Found at i:21444559 original size:4 final size:4
Alignment explanation
Indices: 21444543--21444692 Score: 105
Period size: 4 Copynumber: 37.0 Consensus size: 4
21444533 CTCCTTTCCT
* *
21444543 TTTC TTTC CTTC TTTC TTTC TTT- TTTC TTCTC TTTTC CTTC TCTTC -TTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TT-TC -TTTC TTTC T-TTC TTTC
* * *
21444592 -TTC TTTC TTTC TTTT TTTC TCTTC -TCC TTTCCC TTTC TTTC CTTC -TT-
1 TTTC TTTC TTTC TTTC TTTC T-TTC TTTC TTT--C TTTC TTTC TTTC TTTC
* * * *
21444639 TTTC TTTC TTCCC TCTC ATTTC TTCC TTTC TTTC TCTC TTTC TTTC TTTC
1 TTTC TTTC TT-TC TTTC -TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
21444689 TTTC
1 TTTC
21444693 CCTCCCCTTC
Statistics
Matches: 116, Mismatches: 17, Indels: 26
0.73 0.11 0.16
Matches are distributed among these distances:
3 15 0.13
4 80 0.69
5 15 0.13
6 6 0.05
ACGTcount: A:0.01, C:0.32, G:0.00, T:0.67
Consensus pattern (4 bp):
TTTC
Found at i:21444573 original size:52 final size:48
Alignment explanation
Indices: 21444515--21444611 Score: 121
Period size: 48 Copynumber: 2.1 Consensus size: 48
21444505 TTCCCTCTTC
* *
21444515 TTCTTCTTTTTTTCTCTTCTCCTT-TC--CTT-TTCTTTCCTTCTTTCT
1 TTCTT-TTTTCTTCTCTTTTCCTTCTCTTCTTCTTCTTTCCTTCTTTCT
* *
21444560 TTCTTTTTTCTTCTCTTTTCCTTCTCTTCTTCTTCTTTCTTTCTTTTT
1 TTCTTTTTTCTTCTCTTTTCCTTCTCTTCTTCTTCTTTCCTTCTTTCT
21444608 TTCT
1 TTCT
21444612 CTTCTCCTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
44 16 0.36
45 7 0.16
47 3 0.07
48 18 0.41
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (48 bp):
TTCTTTTTTCTTCTCTTTTCCTTCTCTTCTTCTTCTTTCCTTCTTTCT
Found at i:21444576 original size:44 final size:43
Alignment explanation
Indices: 21444515--21444691 Score: 163
Period size: 44 Copynumber: 4.1 Consensus size: 43
21444505 TTCCCTCTTC
*
21444515 TTCTTCTTTTTTTCTCTTCTCCTTTCCTTTTCTTTCCTTCTTTCT
1 TTCTT-TTTTCTTCTCTTCTCCTTT-CTTTTCTTTCCTTCTTTCT
* *
21444560 TTCTTTTTTCTTCTCTTTTCC-TTCTCTTC-TT-CTTCTTTCT
1 TTCTTTTTTCTTCTCTTCTCCTTTCTTTTCTTTCCTTCTTTCT
*
21444600 TTC-TTTTT-TTCTCTTCTCCTTTCCCTTTCTTTCCTTC-TT-T
1 TTCTTTTTTCTTCTCTTCTCCTTT-CTTTTCTTTCCTTCTTTCT
* * * *
21444640 TTCTTTCTTCCCTCTCATTTCTTCCTTTC-TTTCTCTCTTTCTTTCT
1 TTCTTT-TTTCTTCTC--TTC-TCCTTTCTTTTCTTTCCTTCTTTCT
21444686 TTCTTT
1 TTCTTT
21444692 CCCTCCCCTT
Statistics
Matches: 110, Mismatches: 10, Indels: 23
0.77 0.07 0.16
Matches are distributed among these distances:
38 10 0.09
39 7 0.06
40 20 0.18
41 8 0.07
42 11 0.10
43 6 0.05
44 24 0.22
45 11 0.10
46 13 0.12
ACGTcount: A:0.01, C:0.32, G:0.00, T:0.68
Consensus pattern (43 bp):
TTCTTTTTTCTTCTCTTCTCCTTTCTTTTCTTTCCTTCTTTCT
Found at i:21444622 original size:82 final size:79
Alignment explanation
Indices: 21444483--21444692 Score: 255
Period size: 82 Copynumber: 2.6 Consensus size: 79
21444473 AAATTACCTT
* * * *
21444483 TTTTTTCTTTTTTTTTCCTTCCTTCCCTCTTC-TTC-TTCTTTTTTTCTCTTCTCCTTTCCTTTT
1 TTTTTTCTTCTCTTTTCCTTCCTT-CTTCTTCTTTCTTTCTTTTTTTCTCTTCTCCTTTCCCTTT
21444546 CTTTCCTTCTTTCTTTC
65 CTTTCCTTC-TT-TTTC
21444563 TTTTTTCTTCTCTTTTCCTTCTCTTCTTCTTCTTTCTTTCTTTTTTTCTCTTCTCCTTTCCCTTT
1 TTTTTTCTTCTCTTTTCCTTC-CTTCTTCTTCTTTCTTTCTTTTTTTCTCTTCTCCTTTCCCTTT
21444628 CTTTCCTTCTTTTTC
65 CTTTCCTTCTTTTTC
* * * *
21444643 TTTCTTCCCTCTCATTT-CTTCCTTTCTTTCTCTCTTTCTTTCTTTCTTTC
1 TTT-TTTCTTCTCTTTTCCTTCC-TTC-TTCT-TCTTTCTTTCTTTTTTTC
21444693 CCTCCCCTTC
Statistics
Matches: 115, Mismatches: 8, Indels: 12
0.85 0.06 0.09
Matches are distributed among these distances:
79 1 0.01
80 39 0.34
81 22 0.19
82 53 0.46
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (79 bp):
TTTTTTCTTCTCTTTTCCTTCCTTCTTCTTCTTTCTTTCTTTTTTTCTCTTCTCCTTTCCCTTTC
TTTCCTTCTTTTTC
Found at i:21444630 original size:74 final size:70
Alignment explanation
Indices: 21444509--21444695 Score: 179
Period size: 70 Copynumber: 2.6 Consensus size: 70
21444499 CCTTCCTTCC
* *
21444509 CTCTTCTTCTTCTTTTTTTCTCTTCTCCTTTC-CTT-TTCTTT-CC-TTCTTTCTTTCTTTTTTC
1 CTCTTCTTCTTCTTTCTTTCT-TT-T--TTTCTCTTCTTCTTTCCCTTTCTTTCCTTC-TTTTTC
*
21444570 TTCTCTTTTCCTT
61 TT-TC--TTCCCT
*
21444583 CTCTTCTTCTTCTTTCTTTCTTTTTTTCTCTTCTCCTTTCCCTTTCTTTCCTTCTTTTTCTTTCT
1 CTCTTCTTCTTCTTTCTTTCTTTTTTTCTCTTCTTCTTTCCCTTTCTTTCCTTCTTTTTCTTTCT
21444648 TCCCT
66 TCCCT
* * *
21444653 CTCAT-TTCTTCCTTTCTTTCTCTCTTTCT-TTCTTTCTTTCCCT
1 CTCTTCTTCTT-CTTTCTTTCTTTTTTTCTCTTC-TTCTTTCCCT
21444696 CCCCTTCTGC
Statistics
Matches: 99, Mismatches: 8, Indels: 16
0.80 0.07 0.13
Matches are distributed among these distances:
69 8 0.08
70 38 0.38
71 3 0.03
72 8 0.08
73 12 0.12
74 30 0.30
ACGTcount: A:0.01, C:0.33, G:0.00, T:0.66
Consensus pattern (70 bp):
CTCTTCTTCTTCTTTCTTTCTTTTTTTCTCTTCTTCTTTCCCTTTCTTTCCTTCTTTTTCTTTCT
TCCCT
Found at i:21444848 original size:25 final size:26
Alignment explanation
Indices: 21444815--21444882 Score: 120
Period size: 25 Copynumber: 2.6 Consensus size: 26
21444805 GGTTTTTTTG
21444815 ATATATTTTGGTAAATAAAAAAA-TT
1 ATATATTTTGGTAAATAAAAAAAGTT
21444840 ATATATTTTGGTAAATAAAAAAAGTT
1 ATATATTTTGGTAAATAAAAAAAGTT
21444866 ATAATATTTTGGTAAAT
1 AT-ATATTTTGGTAAAT
21444883 TTTTATTTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
25 23 0.56
26 4 0.10
27 14 0.34
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.41
Consensus pattern (26 bp):
ATATATTTTGGTAAATAAAAAAAGTT
Found at i:21449571 original size:42 final size:41
Alignment explanation
Indices: 21449438--21449611 Score: 217
Period size: 41 Copynumber: 4.2 Consensus size: 41
21449428 TTTCAGAAAA
21449438 CGCCGCTAATGCTCT-ACCTTTAGCGGCGTTTTTGAAGAAG
1 CGCCGCTAATGCTCTGACCTTTAGCGGCGTTTTTGAAGAAG
* **
21449478 CGTCGCTAATGCTCT-ATCCTTTAGCAACGTTTTTGAAGAAG
1 CGCCGCTAATGCTCTGA-CCTTTAGCGGCGTTTTTGAAGAAG
* * * *
21449519 CGCCGGTAATGCTCTGGCCTTTAGCGGCATTTTTTGAATAAG
1 CGCCGCTAATGCTCTGACCTTTAGCGGC-GTTTTTGAAGAAG
** * *
21449561 CGCCGCTAATGCTAAGATCTTTAGCGGCGTTTTTGAAAAAG
1 CGCCGCTAATGCTCTGACCTTTAGCGGCGTTTTTGAAGAAG
21449602 CGCCGCTAAT
1 CGCCGCTAAT
21449612 ATTTTTTTAT
Statistics
Matches: 114, Mismatches: 17, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
40 15 0.13
41 65 0.57
42 34 0.30
ACGTcount: A:0.22, C:0.23, G:0.24, T:0.31
Consensus pattern (41 bp):
CGCCGCTAATGCTCTGACCTTTAGCGGCGTTTTTGAAGAAG
Found at i:21449583 original size:83 final size:81
Alignment explanation
Indices: 21449434--21449611 Score: 225
Period size: 83 Copynumber: 2.2 Consensus size: 81
21449424 CGCTTTTCAG
* **
21449434 AAAA-CGCCGCTAATGCTCTACCTTTAGCGGCGTTTTTGAAGAAGCGTCGCTAATGCTCTATCCT
1 AAAAGCGCCGCTAATGCTCTACCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTAGATCCT
21449498 TTAGCAACGTTTTTGA
66 TTAGCAACGTTTTTGA
* * * * *
21449514 AGAAGCGCCGGTAATGCTCTGGCCTTTAGCGGCATTTTTTGAATAAGCGCCGCTAATGCTAAGAT
1 AAAAGCGCCGCTAATGCTCT-ACCTTTAGCGGC-GTTTTTGAAGAAGCGCCGCTAATGCT-AGAT
**
21449579 -CTTTAGCGGCGTTTTTGA
63 CCTTTAGCAACGTTTTTGA
21449597 AAAAGCGCCGCTAAT
1 AAAAGCGCCGCTAAT
21449612 ATTTTTTTAT
Statistics
Matches: 82, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
80 3 0.04
81 14 0.17
82 11 0.13
83 52 0.63
84 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.30
Consensus pattern (81 bp):
AAAAGCGCCGCTAATGCTCTACCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTAGATCCT
TTAGCAACGTTTTTGA
Found at i:21449919 original size:15 final size:16
Alignment explanation
Indices: 21449899--21449932 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
21449889 CAAATATGGT
21449899 GTTTATGGATTT-AGG
1 GTTTATGGATTTAAGG
21449914 GTTTATGGATTTAAGG
1 GTTTATGGATTTAAGG
21449930 GTT
1 GTT
21449933 AGAGGTTAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.21, C:0.00, G:0.32, T:0.47
Consensus pattern (16 bp):
GTTTATGGATTTAAGG
Found at i:21450039 original size:33 final size:32
Alignment explanation
Indices: 21449991--21450069 Score: 106
Period size: 33 Copynumber: 2.4 Consensus size: 32
21449981 ATTAAATAAT
*
21449991 GTTTAGGGTTAGGGATTCT-GGGTTGGGTTGGG
1 GTTTAGGGTTAGGGATT-TAGGGTTGGGTTAGG
21450023 GTTTAGGGATTAGGGATTTAGGGTTGGGTTAGG
1 GTTTAGGG-TTAGGGATTTAGGGTTGGGTTAGG
* *
21450056 ATTTAAGGTTAGGG
1 GTTTAGGGTTAGGG
21450070 GTTAGGGCTA
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
32 15 0.36
33 27 0.64
ACGTcount: A:0.16, C:0.01, G:0.46, T:0.37
Consensus pattern (32 bp):
GTTTAGGGTTAGGGATTTAGGGTTGGGTTAGG
Found at i:21450059 original size:18 final size:19
Alignment explanation
Indices: 21450025--21450075 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 19
21450015 GGGTTGGGGT
*
21450025 TTAGGGATTAGGGATTTAGGG
1 TTAGGG-TTA-GGATTTAAGG
21450046 TT-GGGTTAGGATTTAAGG
1 TTAGGGTTAGGATTTAAGG
21450064 TTAGGGGTTAGG
1 TTA-GGGTTAGG
21450076 GCTAGAGGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 11 0.41
19 3 0.11
20 11 0.41
21 2 0.07
ACGTcount: A:0.22, C:0.00, G:0.43, T:0.35
Consensus pattern (19 bp):
TTAGGGTTAGGATTTAAGG
Found at i:21450123 original size:29 final size:28
Alignment explanation
Indices: 21450053--21450127 Score: 73
Period size: 29 Copynumber: 2.6 Consensus size: 28
21450043 GGGTTGGGTT
* *
21450053 AGGATTTAAGGTTAGGGGTTAGGGCTAG
1 AGGATTTAAGTTTAGGGGTTAGAGCTAG
*
21450081 AGG-TTTAGGGGTTTAGGGGTTAAGAGCTA-
1 AGGATTTA--AGTTTAGGGGTT-AGAGCTAG
21450110 AGGATTTATAGTTTAGGG
1 AGGATTTA-AGTTTAGGG
21450128 TTTCATGGGT
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
27 4 0.11
28 3 0.08
29 21 0.55
30 10 0.26
ACGTcount: A:0.25, C:0.03, G:0.40, T:0.32
Consensus pattern (28 bp):
AGGATTTAAGTTTAGGGGTTAGAGCTAG
Found at i:21450436 original size:23 final size:22
Alignment explanation
Indices: 21450392--21450445 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 22
21450382 TATGGTTTAA
* *
21450392 GGTTTAGGGGTTAGGAGTTAGGG
1 GGTTTAGGGGTTAAGAGCTA-GG
*
21450415 GGTTTAGGGGTTAATAGCTAGG
1 GGTTTAGGGGTTAAGAGCTAGG
*
21450437 GATTTAGGG
1 GGTTTAGGG
21450446 TTTCAAGGGT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
22 10 0.37
23 17 0.63
ACGTcount: A:0.20, C:0.02, G:0.46, T:0.31
Consensus pattern (22 bp):
GGTTTAGGGGTTAAGAGCTAGG
Found at i:21450808 original size:19 final size:18
Alignment explanation
Indices: 21450784--21450822 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
21450774 AATTATAAGA
21450784 AAAAATAAAATACAAAAAT
1 AAAAATAAAATA-AAAAAT
*
21450803 AAAAATGAAATAAAAAAT
1 AAAAATAAAATAAAAAAT
21450821 AA
1 AA
21450823 TTCTTTATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.79, C:0.03, G:0.03, T:0.15
Consensus pattern (18 bp):
AAAAATAAAATAAAAAAT
Found at i:21450844 original size:83 final size:83
Alignment explanation
Indices: 21450748--21450901 Score: 292
Period size: 83 Copynumber: 1.9 Consensus size: 83
21450738 GGATAGATAG
21450748 GTAATTATTTAATTTGGATAGGACCAAATTATAAGAAAAAATAAAATACAAAAATAAAAATGAAA
1 GTAATTATTTAATTTGGATAGGACCAAATTATAAGAAAAAATAAAATACAAAAATAAAAATGAAA
21450813 TAAAAAATAATTCTTTAT
66 TAAAAAATAATTCTTTAT
21450831 GTAATT-TTATAATTTGGATAGGACCAAATTATAAGAAAAAATAAAATACAAAAATAAAAATGAA
1 GTAATTATT-TAATTTGGATAGGACCAAATTATAAGAAAAAATAAAATACAAAAATAAAAATGAA
21450895 ATAAAAA
65 ATAAAAA
21450902 TTTTTCTAAT
Statistics
Matches: 70, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
82 2 0.03
83 68 0.97
ACGTcount: A:0.58, C:0.05, G:0.09, T:0.28
Consensus pattern (83 bp):
GTAATTATTTAATTTGGATAGGACCAAATTATAAGAAAAAATAAAATACAAAAATAAAAATGAAA
TAAAAAATAATTCTTTAT
Found at i:21451271 original size:22 final size:23
Alignment explanation
Indices: 21451232--21451275 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
21451222 CAAATGTGGA
21451232 AGAAAATAAAAGATAATTAAAAT
1 AGAAAATAAAAGATAATTAAAAT
21451255 AGAAAA-AAAATGA-AATTAAAA
1 AGAAAATAAAA-GATAATTAAAA
21451276 CACTAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.73, C:0.00, G:0.09, T:0.18
Consensus pattern (23 bp):
AGAAAATAAAAGATAATTAAAAT
Found at i:21453596 original size:12 final size:12
Alignment explanation
Indices: 21453581--21453614 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
21453571 TAACCTACAT
21453581 AACTTACATAGA
1 AACTTACATAGA
*
21453593 AACTTATATAGA
1 AACTTACATAGA
*
21453605 AACTTGCATA
1 AACTTACATA
21453615 ACTTACATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.47, C:0.15, G:0.09, T:0.29
Consensus pattern (12 bp):
AACTTACATAGA
Found at i:21453673 original size:16 final size:16
Alignment explanation
Indices: 21453654--21453763 Score: 70
Period size: 16 Copynumber: 7.1 Consensus size: 16
21453644 ATACATAGCG
21453654 TACATAACTTACATAA
1 TACATAACTTACATAA
**
21453670 TACACCACTTACAT-A
1 TACATAACTTACATAA
*
21453685 -A-ATAACTTGCATAA
1 TACATAACTTACATAA
**
21453699 TACACCACTTACAT-A
1 TACATAACTTACATAA
*
21453714 -A-ATAACTTGCATAA
1 TACATAACTTACATAA
* * *
21453728 TACATAGCCTACGTAA
1 TACATAACTTACATAA
*
21453744 CTTACTTAACTTACATAA
1 --TACATAACTTACATAA
21453762 TA
1 TA
21453764 TACCACTTAC
Statistics
Matches: 67, Mismatches: 19, Indels: 16
0.66 0.19 0.16
Matches are distributed among these distances:
13 16 0.24
14 4 0.06
15 4 0.06
16 31 0.46
18 12 0.18
ACGTcount: A:0.44, C:0.23, G:0.04, T:0.30
Consensus pattern (16 bp):
TACATAACTTACATAA
Found at i:21453699 original size:29 final size:29
Alignment explanation
Indices: 21453657--21453731 Score: 141
Period size: 29 Copynumber: 2.6 Consensus size: 29
21453647 CATAGCGTAC
*
21453657 ATAACTTACATAATACACCACTTACATAA
1 ATAACTTGCATAATACACCACTTACATAA
21453686 ATAACTTGCATAATACACCACTTACATAA
1 ATAACTTGCATAATACACCACTTACATAA
21453715 ATAACTTGCATAATACA
1 ATAACTTGCATAATACA
21453732 TAGCCTACGT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 45 1.00
ACGTcount: A:0.47, C:0.23, G:0.03, T:0.28
Consensus pattern (29 bp):
ATAACTTGCATAATACACCACTTACATAA
Found at i:21453934 original size:12 final size:12
Alignment explanation
Indices: 21453917--21453961 Score: 63
Period size: 12 Copynumber: 3.8 Consensus size: 12
21453907 TACATAACCA
*
21453917 ACATAATGACTT
1 ACATAATAACTT
*
21453929 ACATAATAACCT
1 ACATAATAACTT
*
21453941 AAATAATAACTT
1 ACATAATAACTT
21453953 ACATAATAA
1 ACATAATAA
21453962 TACATAACCA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.53, C:0.16, G:0.02, T:0.29
Consensus pattern (12 bp):
ACATAATAACTT
Found at i:21453946 original size:24 final size:24
Alignment explanation
Indices: 21453910--21453961 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
21453900 CACAACTTAC
*
21453910 ATAACCAACATAATGACTTACATA
1 ATAACCAACATAATAACTTACATA
21453934 ATAACCTAA-ATAATAACTTACATA
1 ATAACC-AACATAATAACTTACATA
21453958 ATAA
1 ATAA
21453962 TACATAACCA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 24 0.92
25 2 0.08
ACGTcount: A:0.54, C:0.17, G:0.02, T:0.27
Consensus pattern (24 bp):
ATAACCAACATAATAACTTACATA
Found at i:21454024 original size:9 final size:9
Alignment explanation
Indices: 21454010--21454129 Score: 112
Period size: 9 Copynumber: 14.2 Consensus size: 9
21454000 CAAAAACAAA
21454010 AACTTACAT
1 AACTTACAT
21454019 AACTTACAT
1 AACTTACAT
*
21454028 AA--GACAT
1 AACTTACAT
*
21454035 AAATTACAT
1 AACTTACAT
* *
21454044 AACCTACTT
1 AACTTACAT
*
21454053 AA--TATAT
1 AACTTACAT
21454060 AACTTACAT
1 AACTTACAT
*
21454069 AATTTACAT
1 AACTTACAT
21454078 AA--TACAT
1 AACTTACAT
21454085 AACTTACAT
1 AACTTACAT
* *
21454094 AATTTACTT
1 AACTTACAT
21454103 AA--TACAT
1 AACTTACAT
21454110 AACTTACAT
1 AACTTACAT
21454119 AACTTACAT
1 AACTTACAT
21454128 AA
1 AA
21454130 ATATCCCTTC
Statistics
Matches: 91, Mismatches: 12, Indels: 16
0.76 0.10 0.13
Matches are distributed among these distances:
7 24 0.26
9 67 0.74
ACGTcount: A:0.47, C:0.17, G:0.01, T:0.34
Consensus pattern (9 bp):
AACTTACAT
Found at i:21454041 original size:25 final size:25
Alignment explanation
Indices: 21454010--21454129 Score: 168
Period size: 25 Copynumber: 4.8 Consensus size: 25
21454000 CAAAAACAAA
*
21454010 AACTTACATAACTTACATAAGACAT
1 AACTTACATAACTTACATAATACAT
* * * *
21454035 AAATTACATAACCTACTTAATATAT
1 AACTTACATAACTTACATAATACAT
*
21454060 AACTTACATAATTTACATAATACAT
1 AACTTACATAACTTACATAATACAT
* *
21454085 AACTTACATAATTTACTTAATACAT
1 AACTTACATAACTTACATAATACAT
21454110 AACTTACATAACTTACATAA
1 AACTTACATAACTTACATAA
21454130 ATATCCCTTC
Statistics
Matches: 82, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 82 1.00
ACGTcount: A:0.47, C:0.17, G:0.01, T:0.34
Consensus pattern (25 bp):
AACTTACATAACTTACATAATACAT
Found at i:21454045 original size:50 final size:49
Alignment explanation
Indices: 21453983--21454129 Score: 152
Period size: 50 Copynumber: 2.9 Consensus size: 49
21453973 ATCAAATTAA
* * * *
21453983 ATAAGTTACATAATACACAAAAACAAAAACTTACATAACTTACATAAGAC
1 ATAAATTACATAATACACTAATAC-ATAACTTACATAACTTACATAAGAC
* * * *
21454033 ATAAATTACATAACCTAC-TTAATATATAACTTACATAATTTACATAATAC
1 ATAAATTACATAA--TACACTAATACATAACTTACATAACTTACATAAGAC
* **
21454083 ATAACTTACATAATTTACTTAATACATAACTTACATAACTTACATAA
1 ATAAATTACATAATACAC-TAATACATAACTTACATAACTTACATAA
21454130 ATATCCCTTC
Statistics
Matches: 79, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
48 1 0.01
50 72 0.91
51 3 0.04
52 3 0.04
ACGTcount: A:0.50, C:0.17, G:0.01, T:0.31
Consensus pattern (49 bp):
ATAAATTACATAATACACTAATACATAACTTACATAACTTACATAAGAC
Found at i:21454071 original size:16 final size:17
Alignment explanation
Indices: 21454010--21454129 Score: 99
Period size: 16 Copynumber: 7.1 Consensus size: 17
21454000 CAAAAACAAA
21454010 AACTTACATAACTTACAT
1 AACTTACATAA-TTACAT
*
21454028 AA--GACATAAATTACAT
1 AACTTACAT-AATTACAT
* * *
21454044 AACCTACTTAA-TATAT
1 AACTTACATAATTACAT
21454060 AACTTACATAATTTACAT
1 AACTTACATAA-TTACAT
21454078 AA--TACATAACTTACAT
1 AACTTACATAA-TTACAT
* *
21454094 AATTTACTTAA-TACAT
1 AACTTACATAATTACAT
21454110 AACTTACATAACTTACAT
1 AACTTACATAA-TTACAT
21454128 AA
1 AA
21454130 ATATCCCTTC
Statistics
Matches: 82, Mismatches: 11, Indels: 18
0.74 0.10 0.16
Matches are distributed among these distances:
16 54 0.66
17 4 0.05
18 24 0.29
ACGTcount: A:0.47, C:0.17, G:0.01, T:0.34
Consensus pattern (17 bp):
AACTTACATAATTACAT
Found at i:21459733 original size:66 final size:66
Alignment explanation
Indices: 21459606--21459741 Score: 191
Period size: 66 Copynumber: 2.1 Consensus size: 66
21459596 GACCACAGTT
* * * * *
21459606 GAGGTTCAAAGGAAATATGAAGAACTCCAGCTACAATTTAAAGCAGAGGCGGCAGCGAGAGAAGT
1 GAGGTTCAAAAGAAATATGAAGAACTCCAGCAACAACTTAAAGCAGAGGCGGCAGCCAGAGAAGC
21459671 A
66 A
* * * *
21459672 GAGGTTCAAAAGAAATATGAAGAACTCCAGCAACAACTTAAAGCTGATGTGGCATCCAGAGAAGC
1 GAGGTTCAAAAGAAATATGAAGAACTCCAGCAACAACTTAAAGCAGAGGCGGCAGCCAGAGAAGC
21459737 A
66 A
21459738 GAGG
1 GAGG
21459742 CTACAGCGAG
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
66 61 1.00
ACGTcount: A:0.41, C:0.16, G:0.27, T:0.15
Consensus pattern (66 bp):
GAGGTTCAAAAGAAATATGAAGAACTCCAGCAACAACTTAAAGCAGAGGCGGCAGCCAGAGAAGC
A
Found at i:21460151 original size:43 final size:43
Alignment explanation
Indices: 21460056--21460347 Score: 381
Period size: 43 Copynumber: 6.8 Consensus size: 43
21460046 GCGTTTTTAA
* * *
21460056 AAAAAGCGCCGCTAAAGAACA-GAGCTTTTGCAGCGTTTTTGT
1 AAAAAGCGCCGCTAAAGAACATGAGCTTTAGCGGCGTTTGTGT
* * *
21460098 TAAAAGCGCCGCTAAAGAACATGAGCTTTAGTGGCATTTGTGT
1 AAAAAGCGCCGCTAAAGAACATGAGCTTTAGCGGCGTTTGTGT
* * *
21460141 AAAAATCGCCGCTAAAGAACATGAACTTTAGCGGCGTTTTTGT
1 AAAAAGCGCCGCTAAAGAACATGAGCTTTAGCGGCGTTTGTGT
* *
21460184 TAAAAGCGCCGCTAAAGAACATGAGCTTTAGTGGCGTTTGTGT
1 AAAAAGCGCCGCTAAAGAACATGAGCTTTAGCGGCGTTTGTGT
* * * * *
21460227 TAAAAGTGCCGCTAAAGAACATGAACTTTAACGGCGTTTGTAT
1 AAAAAGCGCCGCTAAAGAACATGAGCTTTAGCGGCGTTTGTGT
**
21460270 -AAAAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTGTGT
1 AAAAAGCGCCGCTAAAGAACATGAGCTTTAGCGGCGTTTGTGT
* **
21460312 ATAAAGCGCCGCTAAAGAACATGTTCTTTAGCGGCG
1 AAAAAGCGCCGCTAAAGAACATGAGCTTTAGCGGCG
21460348 CTTTTATTAA
Statistics
Matches: 220, Mismatches: 28, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
42 57 0.26
43 163 0.74
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.27
Consensus pattern (43 bp):
AAAAAGCGCCGCTAAAGAACATGAGCTTTAGCGGCGTTTGTGT
Found at i:21460196 original size:86 final size:86
Alignment explanation
Indices: 21460040--21460357 Score: 435
Period size: 85 Copynumber: 3.7 Consensus size: 86
21460030 AACCCCAAAA
* ** * * *
21460040 TTAGTGGCGTTTTTAAAAAAAGCGCCGCTAAAGAACA-GAGCTTTTGCAGCGTTTTTGTTAAAAG
1 TTAGTGGCGTTTGTGTAAAAAGCGCCGCTAAAGAACATGAACTTTAGCGGCGTTTTTGTTAAAAG
21460104 CGCCGCTAAAGAACATGAGCT
66 CGCCGCTAAAGAACATGAGCT
* *
21460125 TTAGTGGCATTTGTGTAAAAATCGCCGCTAAAGAACATGAACTTTAGCGGCGTTTTTGTTAAAAG
1 TTAGTGGCGTTTGTGTAAAAAGCGCCGCTAAAGAACATGAACTTTAGCGGCGTTTTTGTTAAAAG
21460190 CGCCGCTAAAGAACATGAGCT
66 CGCCGCTAAAGAACATGAGCT
* * *
21460211 TTAGTGGCGTTTGTGTTAAAAGTGCCGCTAAAGAACATGAACTTTAACGGCG--TTTGTATAAAA
1 TTAGTGGCGTTTGTGTAAAAAGCGCCGCTAAAGAACATGAACTTTAGCGGCGTTTTTGT-TAAAA
**
21460274 GCGCCGCTAAAGAACATGTTCT
65 GCGCCGCTAAAGAACATGAGCT
* * ** * *
21460296 TTAGCGGCGTTTGTGTATAAAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTTTATTAA
1 TTAGTGGCGTTTGTGTAAAAAGCGCCGCTAAAGAACATGAACTTTAGCGGCGTTTTTGTTAA
21460358 TAAACACCGC
Statistics
Matches: 206, Mismatches: 23, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
84 5 0.02
85 102 0.50
86 95 0.46
87 4 0.02
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (86 bp):
TTAGTGGCGTTTGTGTAAAAAGCGCCGCTAAAGAACATGAACTTTAGCGGCGTTTTTGTTAAAAG
CGCCGCTAAAGAACATGAGCT
Found at i:21462420 original size:13 final size:13
Alignment explanation
Indices: 21462399--21462428 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
21462389 AAACTAGATT
*
21462399 TTAATTAAGAAAA
1 TTAACTAAGAAAA
21462412 TTAACTAAGAAAA
1 TTAACTAAGAAAA
21462425 TTAA
1 TTAA
21462429 AAGGTAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.60, C:0.03, G:0.07, T:0.30
Consensus pattern (13 bp):
TTAACTAAGAAAA
Found at i:21463912 original size:26 final size:27
Alignment explanation
Indices: 21463875--21463944 Score: 74
Period size: 26 Copynumber: 2.7 Consensus size: 27
21463865 TATGAAAATT
*
21463875 TATTATAA-AATTAATTA-AAATTAAA
1 TATTTTAATAATTAATTACAAATTAAA
* * *
21463900 TATTTTAATAATTAAGTACAATTTAAT
1 TATTTTAATAATTAATTACAAATTAAA
21463927 TATTTT-ATAATTACATTA
1 TATTTTAATAATTA-ATTA
21463945 TATTTTTCTA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
25 7 0.19
26 15 0.41
27 15 0.41
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (27 bp):
TATTTTAATAATTAATTACAAATTAAA
Found at i:21476210 original size:20 final size:19
Alignment explanation
Indices: 21476181--21476225 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
21476171 ATTAGAATAT
*
21476181 AAAAATTAAATTAAAAACA
1 AAAAATTAAAATAAAAACA
*
21476200 AAAATATTAAAATAAAAATA
1 AAAA-ATTAAAATAAAAACA
21476220 AAAAAT
1 AAAAAT
21476226 GGCTAAATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 6 0.26
20 17 0.74
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (19 bp):
AAAAATTAAAATAAAAACA
Found at i:21479482 original size:27 final size:27
Alignment explanation
Indices: 21479426--21479489 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
21479416 ATCCTGTCAG
* *
21479426 CCTTTGTGGCATACTTTGAATGAATCA
1 CCTTTGTGGCATACTCTGAATGAATAA
*
21479453 CCTTTGTGGCATACTCTGTAT-ATATAA
1 CCTTTGTGGCATACTCTGAATGA-ATAA
*
21479480 CCTTTATGGC
1 CCTTTGTGGC
21479490 GTACACTACA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 1 0.03
27 31 0.97
ACGTcount: A:0.23, C:0.20, G:0.17, T:0.39
Consensus pattern (27 bp):
CCTTTGTGGCATACTCTGAATGAATAA
Found at i:21481372 original size:33 final size:33
Alignment explanation
Indices: 21481330--21481398 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
21481320 AATCAAAATC
*
21481330 TTAGTGAGTCGATTGCTGAAGAAACCTTTTCGA
1 TTAGTGAGTCGATTGCTAAAGAAACCTTTTCGA
* *
21481363 TTAGTGAGTCGATTGCTAAAGAGACCTTTTTGA
1 TTAGTGAGTCGATTGCTAAAGAAACCTTTTCGA
21481396 TTA
1 TTA
21481399 CCAGACGTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.36
Consensus pattern (33 bp):
TTAGTGAGTCGATTGCTAAAGAAACCTTTTCGA
Done.