Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167938.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_20, whole genome shotgun sequence
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: 19866354
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 74000 characters in sequence are not A, C, G, or T
File 45 of 100
Found at i:11369125 original size:7 final size:7
Alignment explanation
Indices: 11369092--11369134 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
11369082 TTTTCGTAAA
11369092 ATAAATT
1 ATAAATT
*
11369099 TTATAATT
1 ATA-AATT
* *
11369107 AAAAAAT
1 ATAAATT
11369114 ATAAATT
1 ATAAATT
11369121 ATAAATT
1 ATAAATT
11369128 ATAAATT
1 ATAAATT
11369135 TTTTAAATAT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
7 24 0.83
8 5 0.17
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (7 bp):
ATAAATT
Found at i:11369133 original size:20 final size:22
Alignment explanation
Indices: 11369088--11369133 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
11369078 TGATTTTTCG
*
11369088 TAAA-ATAAATTTTATAATTAA
1 TAAATATAAATTATATAATTAA
*
11369109 AAAATATAAATTATA-AATT-A
1 TAAATATAAATTATATAATTAA
11369129 TAAAT
1 TAAAT
11369134 TTTTTAAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
20 5 0.24
21 7 0.33
22 9 0.43
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (22 bp):
TAAATATAAATTATATAATTAA
Found at i:11371995 original size:84 final size:84
Alignment explanation
Indices: 11371835--11372073 Score: 302
Period size: 84 Copynumber: 2.8 Consensus size: 84
11371825 ACTTAGTTTG
* * * * * * *
11371835 GCTAAAAGAGTTCAGATCTATAAAATGTCTTTATAAAGGCCTAACTCGACAAAATAGCTTAGCCA
1 GCTAAAAGAGCTCAGATCTATAAAATGCCTTCATAAA-GCCCAACTCGACAAAATAGCTCAACAA
* *
11371900 AAGATCTTGGACTCAACTCG
65 AAGAGCTTGGACTCAACTCA
* * *
11371920 GTTAAAAGAGCTCAGATCTATAAAATACCTTCATAAAGCCCAACTCGACAAAATAGCTCAACTAA
1 GCTAAAAGAGCTCAGATCTATAAAATGCCTTCATAAAGCCCAACTCGACAAAATAGCTCAACAAA
*
11371985 AGAGCTTGGACTCAACTTA
66 AGAGCTTGGACTCAACTCA
* * *
11372004 GCCAAAAGAGCTCAGATCTATAAAATGCCTTCATAAAAGCCCAATTAGACAAAATA-CTCAA-AA
1 GCTAAAAGAGCTCAGATCTATAAAATGCCTTCAT-AAAGCCCAACTCGACAAAATAGCTCAACAA
11372067 AAGAGCT
65 AAGAGCT
11372074 CGAATCCAGT
Statistics
Matches: 135, Mismatches: 18, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
83 8 0.06
84 76 0.56
85 51 0.38
ACGTcount: A:0.42, C:0.21, G:0.14, T:0.23
Consensus pattern (84 bp):
GCTAAAAGAGCTCAGATCTATAAAATGCCTTCATAAAGCCCAACTCGACAAAATAGCTCAACAAA
AGAGCTTGGACTCAACTCA
Found at i:11372208 original size:85 final size:85
Alignment explanation
Indices: 11371838--11372239 Score: 307
Period size: 85 Copynumber: 4.8 Consensus size: 85
11371828 TAGTTTGGCT
* ** * * *
11371838 AAAAGAGTTCAGATCTATAAAATGTCTTTATAAAGGCCTAACTCGACAAAATAGCTTAGCCAAAG
1 AAAAGAGCTCAGATCTATAAAATACCTTCATAAAGGCCCAACTCGACAAAATAGCTTAGCCAAAA
* * * * **
11371903 ATCTTGGACTCAACTCGGTT
66 AACTCGAACTCAACTAGGCC
* * * *
11371923 AAAAGAGCTCAGATCTATAAAATACCTTCATAAA-GCCCAACTCGACAAAATAGCTCAACTAAAG
1 AAAAGAGCTCAGATCTATAAAATACCTTCATAAAGGCCCAACTCGACAAAATAGCTTAGCCAAAA
* * *
11371987 AGCTTGGACTCAACTTA-GCC
66 AACTCGAACTCAAC-TAGGCC
* * * * *
11372007 AAAAGAGCTCAGATCTATAAAATGCCTTCATAAAAGCCCAATTAGACAAAATA-C-T--CAAAAA
1 AAAAGAGCTCAGATCTATAAAATACCTTCATAAAGGCCCAACTCGACAAAATAGCTTAGCCAAAA
** *
11372068 AGAGCTCGAA-TCCAGTTTGGCC
66 A-A-CTCGAACT-CAACTAGGCC
* * * * * *
11372090 AAAAAAGCT-TGAATCTACAAAATACCTTTATAAAGGCCCAATTCGACAAAATAGCTTGGCCAAA
1 AAAAGAGCTCAG-ATCTATAAAATACCTTCATAAAGGCCCAACTCGACAAAATAGCTTAGCCAAA
* **
11372154 AAACTCAAACTCAACTAGAAC
65 AAACTCGAACTCAACTAGGCC
** * * * * **
11372175 AAAAGAGCTTGGATCTATAAAATACCTTCATAAAGACTCAAGTCAACAAAATAGCTCGGCCAAAA
1 AAAAGAGCTCAGATCTATAAAATACCTTCATAAAGGCCCAACTCGACAAAATAGCTTAGCCAAAA
11372240 GAGCTTTGAT
Statistics
Matches: 257, Mismatches: 47, Indels: 26
0.78 0.14 0.08
Matches are distributed among these distances:
81 5 0.02
82 3 0.01
83 53 0.21
84 75 0.29
85 112 0.44
86 3 0.01
87 6 0.02
ACGTcount: A:0.43, C:0.22, G:0.14, T:0.22
Consensus pattern (85 bp):
AAAAGAGCTCAGATCTATAAAATACCTTCATAAAGGCCCAACTCGACAAAATAGCTTAGCCAAAA
AACTCGAACTCAACTAGGCC
Found at i:11372268 original size:60 final size:59
Alignment explanation
Indices: 11372174--11372328 Score: 168
Period size: 60 Copynumber: 2.6 Consensus size: 59
11372164 TCAACTAGAA
* * *
11372174 CAAAAGAGCTTGGATCTATA-AAATACCTTCATAAAGACTCAAGTCAACAAAATAGCTCGG
1 CAAAAGAGCTTAGAT-T-TACAAATACCTTCATAAAGACCCAAGTCAACAAAATAGCTCAG
* * * *
11372234 CCAAAAGAGCTTTGATTTACAAATACCTTCATAAAGGCCCAATTTAACAAAATAGCTCAG
1 -CAAAAGAGCTTAGATTTACAAATACCTTCATAAAGACCCAAGTCAACAAAATAGCTCAG
* * * *
11372294 CTAAAGAGCTCAGATCTACAAAATACTTTCATAAA
1 CAAAAGAGCTTAGATTTAC-AAATACCTTCATAAA
11372329 AGCTTAACTT
Statistics
Matches: 81, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
59 17 0.21
60 50 0.62
61 14 0.17
ACGTcount: A:0.43, C:0.21, G:0.12, T:0.24
Consensus pattern (59 bp):
CAAAAGAGCTTAGATTTACAAATACCTTCATAAAGACCCAAGTCAACAAAATAGCTCAG
Found at i:11374379 original size:24 final size:22
Alignment explanation
Indices: 11374347--11374396 Score: 57
Period size: 24 Copynumber: 2.2 Consensus size: 22
11374337 TATTTATTTA
*
11374347 ATTAATTTATATAATTATTAAAAT
1 ATTAATTTA-ATAAAT-TTAAAAT
*
11374371 ATTATTTTAATAAATTTAAAAT
1 ATTAATTTAATAAATTTAAAAT
11374393 -TTAA
1 ATTAA
11374397 ATATGTGATT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 3 0.13
22 7 0.30
23 5 0.22
24 8 0.35
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
ATTAATTTAATAAATTTAAAAT
Found at i:11375187 original size:2 final size:2
Alignment explanation
Indices: 11375180--11375204 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
11375170 TTGCACTTGA
11375180 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
11375205 AATTTTATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11375466 original size:21 final size:22
Alignment explanation
Indices: 11375440--11375482 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
11375430 AATTCATATA
11375440 TATATAAT-TAAAAA-TAAAAAT
1 TATAT-ATGTAAAAATTAAAAAT
11375461 TATATATGTAAAAATTAAAAAT
1 TATATATGTAAAAATTAAAAAT
11375483 AAATAAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 2 0.10
21 11 0.55
22 7 0.35
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (22 bp):
TATATATGTAAAAATTAAAAAT
Found at i:11380799 original size:24 final size:23
Alignment explanation
Indices: 11380762--11380818 Score: 71
Period size: 24 Copynumber: 2.5 Consensus size: 23
11380752 AAATTTTTTG
* *
11380762 TATTTTCAAAATCTTACATTAAAT
1 TATTTTTAAAATCTTAC-GTAAAT
*
11380786 TATTTTTAATATCTTACGTAAAT
1 TATTTTTAAAATCTTACGTAAAT
11380809 T-TTTTTAAAA
1 TATTTTTAAAA
11380819 GATAATTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
22 8 0.28
23 6 0.21
24 15 0.52
ACGTcount: A:0.39, C:0.09, G:0.02, T:0.51
Consensus pattern (23 bp):
TATTTTTAAAATCTTACGTAAAT
Found at i:11381053 original size:28 final size:28
Alignment explanation
Indices: 11381022--11381077 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
11381012 TCTAAATTGA
11381022 TTTGAT-TTTCAATTATAATTT-AAATAAT
1 TTTGATATTTCAA-TA-AATTTAAAATAAT
*
11381050 TTTGATATTTGAATAAATTTAAAATAAT
1 TTTGATATTTCAATAAATTTAAAATAAT
11381078 CTAATTTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
27 5 0.20
28 15 0.60
29 5 0.20
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (28 bp):
TTTGATATTTCAATAAATTTAAAATAAT
Found at i:11381240 original size:2 final size:2
Alignment explanation
Indices: 11381191--11381226 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
11381181 TGTATGTTGT
11381191 TA TA TA -A 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 TA TA T
11381227 TAGATTTTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:11387382 original size:17 final size:17
Alignment explanation
Indices: 11387362--11387394 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
11387352 TAATTGTAGA
11387362 AGTAAACAAATTAGCTT
1 AGTAAACAAATTAGCTT
11387379 AGTAAACAAATTAGCT
1 AGTAAACAAATTAGCT
11387395 CGGAAGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.12, G:0.12, T:0.27
Consensus pattern (17 bp):
AGTAAACAAATTAGCTT
Found at i:11388136 original size:60 final size:60
Alignment explanation
Indices: 11388069--11388344 Score: 321
Period size: 60 Copynumber: 4.6 Consensus size: 60
11388059 TGCTTTTATA
* * *
11388069 TAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATG-TTTTTCT-TGATAATTTTATTTT
1 TAAGAAAAATTGATACTTTCAACTTTTCC-TCAAAATGTTTTTTTTCTGA-AATTTTAATTT
* * * *
11388129 TAAGAAAAATTGGTACTTCCAACTTTTCCTCAAAATG-CTTTTTTCTAAAATTTTAATTT
1 TAAGAAAAATTGATACTTTCAACTTTTCCTCAAAATGTTTTTTTTCTGAAATTTTAATTT
* * * * *
11388188 AAAAAAAAATTGATACTTTCAACTTTTTCTCAAAATGGTTTTTTT-TGAAATTTTTATTTT
1 TAAGAAAAATTGATACTTTCAACTTTTCCTCAAAATGTTTTTTTTCTGAAA-TTTTAATTT
*
11388248 TAAGAAAAATT-AGTACTTCCAACTTTTCCTCAAAATGTTTTTTTTTTCTGAAATTTTAATTT
1 TAAGAAAAATTGA-TACTTTCAACTTTTCCTCAAAATG--TTTTTTTTCTGAAATTTTAATTT
*
11388310 CAA-AGAAAATTGATACTTTCAACTTTTCCTCAAAA
1 TAAGA-AAAATTGATACTTTCAACTTTTCCTCAAAA
11388345 AAAAATTTTT
Statistics
Matches: 184, Mismatches: 23, Indels: 16
0.83 0.10 0.07
Matches are distributed among these distances:
59 59 0.32
60 74 0.40
61 1 0.01
62 44 0.24
63 6 0.03
ACGTcount: A:0.35, C:0.13, G:0.07, T:0.46
Consensus pattern (60 bp):
TAAGAAAAATTGATACTTTCAACTTTTCCTCAAAATGTTTTTTTTCTGAAATTTTAATTT
Found at i:11388206 original size:119 final size:121
Alignment explanation
Indices: 11388073--11388345 Score: 410
Period size: 119 Copynumber: 2.3 Consensus size: 121
11388063 TTTATATAAG
11388073 AAAAATTGATACTTTCAACTTTTCCTTAAAAAT-GTTTTTCTTGATAA-TTTTATTTTTAAGAAA
1 AAAAATTGATACTTTCAACTTTTCCTTAAAAATGGTTTTTCTTGA-AATTTTTATTTTTAAGAAA
*
11388136 AATTGGTACTTCCAACTTTTCCTCAAAATG-CTTTTTTCTAAAATTTTAATTTAAAA
65 AATTAGTACTTCCAACTTTTCCTCAAAATGTCTTTTTTCTAAAATTTTAATTTAAAA
* * *
11388192 AAAAATTGATACTTTCAACTTTTTC-TCAAAATGGTTTTTTTTGAAATTTTTATTTTTAAGAAAA
1 AAAAATTGATACTTTCAACTTTTCCTTAAAAATGGTTTTTCTTGAAATTTTTATTTTTAAGAAAA
* * *
11388256 ATTAGTACTTCCAACTTTTCCTCAAAATGTTTTTTTTTTCTGAAATTTTAATTTCAAA
66 ATTAGTACTTCCAACTTTTCCTCAAAATG--TCTTTTTTCTAAAATTTTAATTTAAAA
* *
11388314 GAAAATTGATACTTTCAACTTTTCCTCAAAAA
1 AAAAATTGATACTTTCAACTTTTCCTTAAAAA
11388346 AAAATTTTTT
Statistics
Matches: 137, Mismatches: 11, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
118 8 0.06
119 79 0.58
122 46 0.34
123 4 0.03
ACGTcount: A:0.35, C:0.13, G:0.06, T:0.46
Consensus pattern (121 bp):
AAAAATTGATACTTTCAACTTTTCCTTAAAAATGGTTTTTCTTGAAATTTTTATTTTTAAGAAAA
ATTAGTACTTCCAACTTTTCCTCAAAATGTCTTTTTTCTAAAATTTTAATTTAAAA
Found at i:11388380 original size:62 final size:58
Alignment explanation
Indices: 11388074--11388381 Score: 223
Period size: 60 Copynumber: 5.1 Consensus size: 58
11388064 TTATATAAGA
* * * *
11388074 AAAATTGATACTTTCAACTTTTCCT-TAAAAATGTTTTTCTTGATAATTTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAATTTTTTTTTTGA-AATTTTA-TTTT-AGG
* * * * * * **
11388134 AAAATTGGTACTTCCAACTTTTCCTC--AAAATGCTTTTTTCTAAAATTTTAATTTAAAAA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAAT-TTTTTTTTTGAAATTTT-ATTT-TAGG
* * *
11388193 AAAATTGATACTTTCAACTTTTTCTC--AAAATGGTTTTTTTTGAAATTTTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAAT-TTTTTTTTTGAAA-TTTTA-TTTT-AGG
* ** * *
11388253 AAAATT-AGTACTTCCAACTTTTCCTCAAAATGTTTTTTTTTTCTGAAATTTTAATTTCAAAG
1 AAAATTGA-TACTTTCAACTTTTCCTCAAAA-AATTTTTTTTT-TGAAATTTT-ATTT-TAGG
11388315 AAAATTGATACTTTCAACTTTTCCTCAAAAAAAAATTTTTTTTTTGGAAATTTTATTTTAGG
1 AAAATTGATACTTTCAACTTTTCCTC---AAAAAATTTTTTTTTT-GAAATTTTATTTTAGG
11388377 AAAAT
1 AAAAT
11388382 CATTAAAAAA
Statistics
Matches: 200, Mismatches: 29, Indels: 36
0.75 0.11 0.14
Matches are distributed among these distances:
59 57 0.28
60 62 0.31
62 47 0.23
63 13 0.06
64 17 0.09
65 4 0.02
ACGTcount: A:0.35, C:0.11, G:0.07, T:0.47
Consensus pattern (58 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAAATTTTTTTTTTGAAATTTTATTTTAGG
Found at i:11388434 original size:4 final size:4
Alignment explanation
Indices: 11388425--11388484 Score: 58
Period size: 4 Copynumber: 15.8 Consensus size: 4
11388415 TAATTTAGTC
*
11388425 AATA AATA AATCA ACAGA AAT- AAT- AAT- AAT- AAT- AATA AATA AATA
1 AATA AATA AAT-A A-ATA AATA AATA AATA AATA AATA AATA AATA AATA
11388470 AATA AATA AATA AAT
1 AATA AATA AATA AAT
11388485 GAAAAAAAAA
Statistics
Matches: 51, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
3 15 0.29
4 31 0.61
5 4 0.08
6 1 0.02
ACGTcount: A:0.70, C:0.03, G:0.02, T:0.25
Consensus pattern (4 bp):
AATA
Found at i:11388792 original size:2 final size:2
Alignment explanation
Indices: 11388785--11388821 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
11388775 CCCATTTCTT
11388785 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
11388822 TTATCCACTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:11389555 original size:44 final size:44
Alignment explanation
Indices: 11389496--11389655 Score: 164
Period size: 44 Copynumber: 3.7 Consensus size: 44
11389486 ACACCTCAAG
* * * * *
11389496 CAGAGGTTC-ACAACTTTTGGAGAATAAACAAAATTCCTCTAAA
1 CAGAGGCTCAACAACTTTTGAAAAATAAACAAAACTCCTCTAAT
*
11389539 CAGAAGCTCAACAAC-TTTGAAAAAATAAACAAAAGCTCCTCTAAT
1 CAGAGGCTCAACAACTTTTG-AAAAATAAACAAAA-CTCCTCTAAT
** * * * *
11389584 CAGAGGCTCAATGACTTTTAAAAAATAAATAAAGCTCATCTAAT
1 CAGAGGCTCAACAACTTTTGAAAAATAAACAAAACTCCTCTAAT
*
11389628 CAGAGGCTCAACAAC-TTTGAAAAGTAAA
1 CAGAGGCTCAACAACTTTTGAAAAATAAA
11389656 TTGCTCCTCT
Statistics
Matches: 96, Mismatches: 17, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
43 22 0.23
44 39 0.41
45 32 0.33
46 3 0.03
ACGTcount: A:0.46, C:0.19, G:0.12, T:0.23
Consensus pattern (44 bp):
CAGAGGCTCAACAACTTTTGAAAAATAAACAAAACTCCTCTAAT
Found at i:11389594 original size:45 final size:45
Alignment explanation
Indices: 11389518--11389650 Score: 180
Period size: 44 Copynumber: 3.0 Consensus size: 45
11389508 ACTTTTGGAG
* * *
11389518 AATAAACAAAA-TTCCTCTAAACAGAAGCTCAACAACTTTGAAAA
1 AATAAACAAAAGCTCCTCTAATCAGAGGCTCAACAACTTTGAAAA
** *
11389562 AATAAACAAAAGCTCCTCTAATCAGAGGCTCAATGACTTTTAAAA
1 AATAAACAAAAGCTCCTCTAATCAGAGGCTCAACAACTTTGAAAA
* *
11389607 AATAAA-TAAAGCTCATCTAATCAGAGGCTCAACAACTTTGAAAA
1 AATAAACAAAAGCTCCTCTAATCAGAGGCTCAACAACTTTGAAAA
11389651 GTAAATTGCT
Statistics
Matches: 77, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
44 44 0.57
45 33 0.43
ACGTcount: A:0.48, C:0.20, G:0.10, T:0.23
Consensus pattern (45 bp):
AATAAACAAAAGCTCCTCTAATCAGAGGCTCAACAACTTTGAAAA
Found at i:11389675 original size:21 final size:21
Alignment explanation
Indices: 11389649--11389691 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
11389639 CAACTTTGAA
11389649 AAGTAAATTGCTCCTCTAGAC
1 AAGTAAATTGCTCCTCTAGAC
*
11389670 AAGTAAATTGCTCTTCTAGAC
1 AAGTAAATTGCTCCTCTAGAC
11389691 A
1 A
11389692 TAGGCAACCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (21 bp):
AAGTAAATTGCTCCTCTAGAC
Found at i:11389774 original size:40 final size:41
Alignment explanation
Indices: 11389673--11389806 Score: 146
Period size: 40 Copynumber: 3.2 Consensus size: 41
11389663 TCTAGACAAG
* * * *
11389673 TAAATTGCTCTTCTAGACATAGGCAACCACGA-TTTCAAAAAAA
1 TAAA-TGCTCCTCTAAACAGAGGCAACCACGACTTT--GAAAAA
*
11389716 TAAATTGCTCCTCTAAACAGAGGTAACCACGACTTTGAAAAA
1 TAAA-TGCTCCTCTAAACAGAGGCAACCACGACTTTGAAAAA
** *
11389758 -AAATGCTCCTCTAAACAGAGGCAATTATGACTTTGAAAAA
1 TAAATGCTCCTCTAAACAGAGGCAACCACGACTTTGAAAAA
11389798 TAAATGCTC
1 TAAATGCTC
11389807 ATAGAGACCA
Statistics
Matches: 80, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
40 33 0.41
41 11 0.14
42 5 0.06
43 28 0.35
44 3 0.04
ACGTcount: A:0.41, C:0.20, G:0.13, T:0.25
Consensus pattern (41 bp):
TAAATGCTCCTCTAAACAGAGGCAACCACGACTTTGAAAAA
Found at i:11390359 original size:114 final size:113
Alignment explanation
Indices: 11390094--11390469 Score: 516
Period size: 114 Copynumber: 3.4 Consensus size: 113
11390084 CACATCCAAA
* * * *
11390094 AGTTTAAAA-TTTTTCATTTGAATTTTGGAGGTTTAGATCCAAGAAATCTTAGAGTTTCACATCT
1 AGTTCAAAACTTTTT-ATTTGAATTTTGGAGATTCACATCCAAGAAATCTTAGAGTTTCACATCT
* * * *
11390158 AAGTTCAAAGGTTCTCATTAAAAAATTT-TA-A-T--C--CAAAAGTTG
65 AAGTTCAAAAGTTCTCACTCAAAAATTTAGAGATTCGCATCAAAAGTTG
* * *
11390200 AGTTCAAAGCTTTTTGTTTGAATTTTGGAGATTCACATCCCAGAAATCTTAGAGTTTCACATCTA
1 AGTTCAAAACTTTTTATTTGAATTTTGGAGATTCACATCCAAGAAATCTTAGAGTTTCACATCTA
11390265 AGTTCAAAAGTTCTCACTCAAAAATTTAGAGATTCGCATCTAAAAGTTG
66 AGTTCAAAAGTTCTCACTCAAAAATTTAGAGATTCGCATC-AAAAGTTG
* *
11390314 AGTTCAAAACTTTTTATTTGAATTTTAGAGATTCACATCCAAGAAATCTTAGACTTTCACATCTA
1 AGTTCAAAACTTTTTATTTGAATTTTGGAGATTCACATCCAAGAAATCTTAGAGTTTCACATCTA
* *
11390379 AGTTTAAATGTTCTCACTCAAAAATTTAGAGATTCGCATCCAAAAGTTG
66 AGTTCAAAAGTTCTCACTCAAAAATTTAGAGATTCGCAT-CAAAAGTTG
* *
11390428 AGTTTAAAACTTTTCATTTGAATTTTGGAGATTCACATCCAA
1 AGTTCAAAACTTTTTATTTGAATTTTGGAGATTCACATCCAA
11390470 TAGTTCAAAA
Statistics
Matches: 239, Mismatches: 21, Indels: 12
0.88 0.08 0.04
Matches are distributed among these distances:
106 76 0.32
107 6 0.03
108 1 0.00
109 1 0.00
111 1 0.00
113 1 0.00
114 152 0.64
115 1 0.00
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (113 bp):
AGTTCAAAACTTTTTATTTGAATTTTGGAGATTCACATCCAAGAAATCTTAGAGTTTCACATCTA
AGTTCAAAAGTTCTCACTCAAAAATTTAGAGATTCGCATCAAAAGTTG
Found at i:11390581 original size:79 final size:79
Alignment explanation
Indices: 11390491--11390745 Score: 352
Period size: 79 Copynumber: 3.2 Consensus size: 79
11390481 TTTTCATTAG
** * * * * *
11390491 TTCGAAGATTCACACCCAACAAACTTTAGGTTTCACATTTCAAAGATTCTCATTTGAAATTAAAA
1 TTCGAAGATTCACATTCGACTAATTTTGGGTTTCACATTTCAAAGATTCTCATTTAAAATTAAAA
11390556 GATTCTCATTTGAA
66 GATTCTCATTTGAA
* ** *
11390570 TTCGAAGATTCATATTCGA-TAATTTTGGGTTTCACACATCAAAGATTCTTATTTAAAATTCAAA
1 TTCGAAGATTCACATTCGACTAATTTTGGGTTTCACATTTCAAAGATTCTCATTTAAAATT-AAA
11390634 A-ATTCTCATTTGAA
65 AGATTCTCATTTGAA
* * *
11390648 TTTGAAGATTCACATTCGACTAATTTTGGGTTTCACATTTCAAAGATTCTCATTCAAAATTCAAA
1 TTCGAAGATTCACATTCGACTAATTTTGGGTTTCACATTTCAAAGATTCTCATTTAAAATTAAAA
*
11390713 GGTTCTCATTTGAA
66 GATTCTCATTTGAA
11390727 TTCGAAGATTCACATTCGA
1 TTCGAAGATTCACATTCGA
11390746 TACACCTCAA
Statistics
Matches: 153, Mismatches: 20, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
78 67 0.44
79 86 0.56
ACGTcount: A:0.35, C:0.17, G:0.11, T:0.37
Consensus pattern (79 bp):
TTCGAAGATTCACATTCGACTAATTTTGGGTTTCACATTTCAAAGATTCTCATTTAAAATTAAAA
GATTCTCATTTGAA
Found at i:11390773 original size:65 final size:63
Alignment explanation
Indices: 11390687--11390930 Score: 195
Period size: 65 Copynumber: 3.7 Consensus size: 63
11390677 GTTTCACATT
* ** * *
11390687 TCAAAGATTCTCATTCAAAATTCAAAGGTTCTCATTTG-AATTCGAAGATTCACATTCGATACAC
1 TCAAATATTCTCATTTGAAATTCAAAGATTCTCATTTGAAATTCAAAGATTCACATTCG--ACA-
11390751 C
63 C
* * *
11390752 TCAAATATTCTCATTTGAAATTCAAAGATTCTTATTTGAAATTCAAAGATTCTCATTTGACAC
1 TCAAATATTCTCATTTGAAATTCAAAGATTCTCATTTGAAATTCAAAGATTCACATTCGACAC
* *
11390815 TTAAATATTCTCATTTGAAAATGTCTTAAAGATTCTCATTTGGAAATGTCTTAAAGATTCTCATT
1 TCAAATATTCTCATTTG-AAAT-TC--AAAGATTCTCATTT-GAAAT-TC--AAAGATTCACATT
* * *
11390880 TGAAAATGTT
58 CG-ACA---C
* *
11390890 TTAAATATTCTCATTT-AAGACTCAAAGATTCTCATTTGAAA
1 TCAAATATTCTCATTTGAA-ATTCAAAGATTCTCATTTGAAA
11390931 ACATCTTAAA
Statistics
Matches: 152, Mismatches: 13, Indels: 23
0.81 0.07 0.12
Matches are distributed among these distances:
63 17 0.11
64 7 0.05
65 35 0.23
66 17 0.11
67 13 0.09
68 5 0.03
69 2 0.01
70 4 0.03
71 29 0.19
72 2 0.01
73 4 0.03
74 1 0.01
75 16 0.11
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.39
Consensus pattern (63 bp):
TCAAATATTCTCATTTGAAATTCAAAGATTCTCATTTGAAATTCAAAGATTCACATTCGACAC
Found at i:11390809 original size:21 final size:21
Alignment explanation
Indices: 11390686--11390955 Score: 195
Period size: 21 Copynumber: 12.0 Consensus size: 21
11390676 GGTTTCACAT
**
11390686 TTCAAAGATTCTCATTCAAAA
1 TTCAAAGATTCTCATTTGAAA
*
11390707 TTCAAAGGTTCTCATTTG-AA
1 TTCAAAGATTCTCATTTGAAA
* * *
11390727 TTCGAAGATTCACATTCGATACA
1 TTCAAAGATTCTCATTTGA-A-A
* *
11390750 CCTCAAATATTCTCATTTGAAA
1 -TTCAAAGATTCTCATTTGAAA
*
11390772 TTCAAAGATTCTTATTTGAAA
1 TTCAAAGATTCTCATTTGAAA
*
11390793 TTCAAAGATTCTCATTTGACAC
1 TTCAAAGATTCTCATTTGA-AA
*
11390815 TT-AAATATTCTCATTTGAAAA
1 TTCAAAGATTCTCATTTG-AAA
11390836 TGTCTTAAAGATTCTCATTTGGAAA
1 T-TC--AAAGATTCTCATTT-GAAA
11390861 TGTCTTAAAGATTCTCATTTGAAAA
1 T-TC--AAAGATTCTCATTTG-AAA
* *
11390886 TGTTTTAAATATTCTCATTT-AAGA
1 ---TTCAAAGATTCTCATTTGAA-A
*
11390910 CTCAAAGATTCTCATTTGAAAACA
1 TTCAAAGATTCTCATTTG--AA-A
*
11390934 TCTTAAAGATTCTCATTTGAAA
1 T-TCAAAGATTCTCATTTGAAA
11390956 ATATTTTAAA
Statistics
Matches: 201, Mismatches: 28, Indels: 39
0.75 0.10 0.15
Matches are distributed among these distances:
20 16 0.08
21 81 0.40
22 8 0.04
23 6 0.03
24 19 0.09
25 68 0.34
26 1 0.00
27 1 0.00
28 1 0.00
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.39
Consensus pattern (21 bp):
TTCAAAGATTCTCATTTGAAA
Found at i:11390842 original size:25 final size:25
Alignment explanation
Indices: 11390758--11390981 Score: 219
Period size: 25 Copynumber: 9.6 Consensus size: 25
11390748 CACCTCAAAT
11390758 ATTCTCATTTG-AAAT-TC--AAAG
1 ATTCTCATTTGAAAATGTCTTAAAG
*
11390779 ATTCTTATTTG-AAAT-TC--AAAG
1 ATTCTCATTTGAAAATGTCTTAAAG
* *
11390800 ATTCTCATTTG-ACA---CTTAAAT
1 ATTCTCATTTGAAAATGTCTTAAAG
11390821 ATTCTCATTTGAAAATGTCTTAAAG
1 ATTCTCATTTGAAAATGTCTTAAAG
*
11390846 ATTCTCATTTGGAAATGTCTTAAAG
1 ATTCTCATTTGAAAATGTCTTAAAG
* *
11390871 ATTCTCATTTGAAAATGTTTTAAAT
1 ATTCTCATTTGAAAATGTCTTAAAG
* *
11390896 ATTCTCATTT---AA-GACTCAAAG
1 ATTCTCATTTGAAAATGTCTTAAAG
**
11390917 ATTCTCATTTGAAAACATCTTAAAG
1 ATTCTCATTTGAAAATGTCTTAAAG
* *
11390942 ATTCTCATTTGAAAATATTTTAAAG
1 ATTCTCATTTGAAAATGTCTTAAAG
*
11390967 ATTCTCATTTTAAAA
1 ATTCTCATTTGAAAA
11390982 AAATCAAGAT
Statistics
Matches: 173, Mismatches: 20, Indels: 16
0.83 0.10 0.08
Matches are distributed among these distances:
19 1 0.01
21 61 0.35
22 4 0.02
24 2 0.01
25 105 0.61
ACGTcount: A:0.37, C:0.13, G:0.09, T:0.41
Consensus pattern (25 bp):
ATTCTCATTTGAAAATGTCTTAAAG
Found at i:11390917 original size:71 final size:70
Alignment explanation
Indices: 11390754--11390976 Score: 237
Period size: 71 Copynumber: 3.2 Consensus size: 70
11390744 GATACACCTC
* * * *
11390754 AAATATTCTCATTTGAA-ATTCAAAGATTCTTATTT-GAAATTC--AAAGATTCTCATTTG-ACA
1 AAATATTCTCATTTAAAGACTCAAAGATTCTCATTTGGAAATTCTTAAAGATTCTCATTTGAAAA
*
11390814 --CTT
66 TTTTT
* *
11390817 AAATATTCTCATTTGAAAATGTCTTAAAGATTCTCATTTGGAAATGTCTTAAAGATTCTCATTTG
1 AAATATTCTCATTT--AAA-GACTCAAAGATTCTCATTTGGAAAT-TCTTAAAGATTCTCATTTG
11390882 AAAATGTTTT
62 AAAAT-TTTT
* *
11390892 AAATATTCTCATTT-AAGACTCAAAGATTCTCATTTGAAAACATCTTAAAGATTCTCATTTGAAA
1 AAATATTCTCATTTAAAGACTCAAAGATTCTCATTTGGAAA-TTCTTAAAGATTCTCATTTGAAA
11390956 ATATTTT
65 AT-TTTT
*
11390963 AAAGATTCTCATTT
1 AAATATTCTCATTT
11390977 TAAAAAAATC
Statistics
Matches: 134, Mismatches: 13, Indels: 18
0.81 0.08 0.11
Matches are distributed among these distances:
63 14 0.10
65 2 0.01
67 14 0.10
68 5 0.04
69 2 0.01
71 77 0.57
72 4 0.03
75 16 0.12
ACGTcount: A:0.37, C:0.13, G:0.09, T:0.41
Consensus pattern (70 bp):
AAATATTCTCATTTAAAGACTCAAAGATTCTCATTTGGAAATTCTTAAAGATTCTCATTTGAAAA
TTTTT
Found at i:11390938 original size:96 final size:92
Alignment explanation
Indices: 11390689--11390981 Score: 285
Period size: 96 Copynumber: 3.2 Consensus size: 92
11390679 TTCACATTTC
* * * * * * * * *
11390689 AAAGATTCTCA-TTCAAAATTCAAAGGTTCTCATTTGA-ATTCGAAGATTCACATTCG-ATACAC
1 AAAGATTCTCATTTGAAAATTCAAAGATTCTCATTTAACACTCAAAGATTCTCATTTGAAAACAT
* *
11390751 CTCAAATATTCTCATTT-GAAATTC--
66 CTTAAAGATTCTCATTTGGAAATTCTT
* * * * **
11390775 AAAGATTCTTATTTG-AAATTCAAAGATTCTCATTTGACACTTAAATATTCTCATTTGAAAATGT
1 AAAGATTCTCATTTGAAAATTCAAAGATTCTCATTTAACACTCAAAGATTCTCATTTGAAAACAT
11390839 CTTAAAGATTCTCATTTGGAAATGTCTT
66 CTTAAAGATTCTCATTTGGAAAT-TCTT
* * *
11390867 AAAGATTCTCATTTGAAAATGTTTTAAATATTCTCATTTAAGACTCAAAGATTCTCATTTGAAAA
1 AAAGATTCTCATTTGAAAA---TTCAAAGATTCTCATTTAACACTCAAAGATTCTCATTTGAAAA
* *
11390932 CATCTTAAAGATTCTCATTTGAAAATATTTT
63 CATCTTAAAGATTCTCATTTGGAAAT-TCTT
*
11390963 AAAGATTCTCATTTTAAAA
1 AAAGATTCTCATTTGAAAA
11390982 AAATCAAGAT
Statistics
Matches: 168, Mismatches: 28, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
86 31 0.18
87 15 0.09
88 17 0.10
89 5 0.03
90 2 0.01
92 14 0.08
93 3 0.02
96 81 0.48
ACGTcount: A:0.37, C:0.15, G:0.09, T:0.39
Consensus pattern (92 bp):
AAAGATTCTCATTTGAAAATTCAAAGATTCTCATTTAACACTCAAAGATTCTCATTTGAAAACAT
CTTAAAGATTCTCATTTGGAAATTCTT
Found at i:11392016 original size:8 final size:8
Alignment explanation
Indices: 11391983--11392054 Score: 51
Period size: 8 Copynumber: 9.2 Consensus size: 8
11391973 AATTTGAGTC
11391983 TTCATTTT
1 TTCATTTT
*
11391991 TTC-TCCTT
1 TTCAT-TTT
*
11391999 TCCATTTT
1 TTCATTTT
*
11392007 TTCCTTTT
1 TTCATTTT
*
11392015 TT--TTTC
1 TTCATTTT
11392021 TTCATTTT
1 TTCATTTT
*
11392029 TTTATTTT
1 TTCATTTT
*
11392037 TTTATTTT
1 TTCATTTT
*
11392045 TTCCTTTT
1 TTCATTTT
11392053 TT
1 TT
11392055 TTCTTTCTTT
Statistics
Matches: 50, Mismatches: 10, Indels: 8
0.74 0.15 0.12
Matches are distributed among these distances:
6 5 0.10
7 1 0.02
8 43 0.86
9 1 0.02
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.76
Consensus pattern (8 bp):
TTCATTTT
Found at i:11392024 original size:38 final size:38
Alignment explanation
Indices: 11391981--11392056 Score: 100
Period size: 38 Copynumber: 2.0 Consensus size: 38
11391971 TCAATTTGAG
11391981 TCTTCATTTTTTCT-CCTTTCCATTTTTTCCTTTTTTTT
1 TCTTCATTTTTT-TACCTTTCCATTTTTTCCTTTTTTTT
** **
11392019 TCTTCATTTTTTTATTTTTTTATTTTTTCCTTTTTTTT
1 TCTTCATTTTTTTACCTTTCCATTTTTTCCTTTTTTTT
11392057 CTTTCTTTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
37 1 0.03
38 32 0.97
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.76
Consensus pattern (38 bp):
TCTTCATTTTTTTACCTTTCCATTTTTTCCTTTTTTTT
Found at i:11392052 original size:14 final size:13
Alignment explanation
Indices: 11392003--11392061 Score: 59
Period size: 14 Copynumber: 4.5 Consensus size: 13
11391993 CTCCTTTCCA
11392003 TTTTTTCCTTTTT
1 TTTTTTCCTTTTT
*
11392016 TTTTCTTCATTTTT
1 TTTT-TTCCTTTTT
* *
11392030 TTATTT--TTTTA
1 TTTTTTCCTTTTT
11392041 TTTTTTCCTTTTT
1 TTTTTTCCTTTTT
11392054 TTTCTTTC
1 TTT-TTTC
11392062 TTTATTCATT
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
11 9 0.24
13 13 0.35
14 15 0.41
ACGTcount: A:0.05, C:0.14, G:0.00, T:0.81
Consensus pattern (13 bp):
TTTTTTCCTTTTT
Found at i:11396196 original size:60 final size:59
Alignment explanation
Indices: 11396123--11396372 Score: 306
Period size: 60 Copynumber: 4.2 Consensus size: 59
11396113 ATTTGAAGGT
* *
11396123 TTTTA-TTTTAAGAAAAATTGATACTTTTAACTTTTCCTTAAAAATATTTTTCTTGATAA
1 TTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTTTGA-AA
* * * *
11396182 TTTTATTTTTAAGAAAAATTGGTACTTCCAACTTTTTC-TCAAAATATTTTTTTCTGAAA
1 TTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTT-TGAAA
* * *
11396241 TTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAATGTTTTTTTTTTGAAA
1 TTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTTAAAA-ATATTTTTTTTGAAA
* * * *
11396301 TTTTAATTTCAAGAAAAATTGATACTTTTAACTTTTTCTTAAAAATATATATATTTTTAGAAA
1 TTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATAT-T-T-TTTTT-GAAA
11396364 TTTTATTTT
1 TTTTATTTT
11396373 AGGAAAATCA
Statistics
Matches: 162, Mismatches: 21, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
59 57 0.35
60 79 0.49
61 9 0.06
62 5 0.03
63 12 0.07
ACGTcount: A:0.34, C:0.09, G:0.06, T:0.51
Consensus pattern (59 bp):
TTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTTTGAAA
Found at i:11396274 original size:119 final size:123
Alignment explanation
Indices: 11396123--11396372 Score: 334
Period size: 119 Copynumber: 2.1 Consensus size: 123
11396113 ATTTGAAGGT
* *
11396123 TTTTA-TTTTAAGAAAAATTGATACTTTTAACTTTTCCTTAAAA-ATATTTTTCTTGATAATTTT
1 TTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAATATATTTTTCTTGA-AATTTT
* * * *
11396186 ATTTTTAAGAAAAATTGGTACTTCCAACTTTTTC-TCAAAATAT-T-T-TTTTCT-GAAA
65 AATTTCAAGAAAAATTGATACTTCCAACTTTTTCTTAAAAATATATATATTTT-TAGAAA
* * *
11396241 TTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAATGTTTTTTTTTTGAAATTTTA
1 TTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAATATATTTTTCTTGAAATTTTA
**
11396306 ATTTCAAGAAAAATTGATACTTTTAACTTTTTCTTAAAAATATATATATTTTTAGAAA
66 ATTTCAAGAAAAATTGATACTTCCAACTTTTTCTTAAAAATATATATATTTTTAGAAA
11396364 TTTTATTTT
1 TTTTATTTT
11396373 AGGAAAATCA
Statistics
Matches: 114, Mismatches: 11, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
118 5 0.04
119 71 0.62
120 18 0.16
121 1 0.01
122 2 0.02
123 17 0.15
ACGTcount: A:0.34, C:0.09, G:0.06, T:0.51
Consensus pattern (123 bp):
TTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAATATATTTTTCTTGAAATTTTA
ATTTCAAGAAAAATTGATACTTCCAACTTTTTCTTAAAAATATATATATTTTTAGAAA
Found at i:11396469 original size:3 final size:3
Alignment explanation
Indices: 11396461--11396492 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
11396451 ATAAATAAGC
11396461 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
11396493 ATAAATAAAT
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:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:11406669 original size:9 final size:9
Alignment explanation
Indices: 11406655--11406680 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
11406645 GTTGGTTAGA
11406655 TGGTGATGG
1 TGGTGATGG
11406664 TGGTGATGG
1 TGGTGATGG
11406673 TGGTGATG
1 TGGTGATG
11406681 TATGACATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.54, T:0.35
Consensus pattern (9 bp):
TGGTGATGG
Found at i:11423938 original size:22 final size:22
Alignment explanation
Indices: 11423912--11423957 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
11423902 AGGATGAGTT
*
11423912 TTTATATTCTTAATGAAGTTTA
1 TTTATACTCTTAATGAAGTTTA
11423934 TTTATACTCTTAATGAAGTTTA
1 TTTATACTCTTAATGAAGTTTA
11423956 TT
1 TT
11423958 ATTTAAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.30, C:0.07, G:0.09, T:0.54
Consensus pattern (22 bp):
TTTATACTCTTAATGAAGTTTA
Found at i:11424805 original size:14 final size:14
Alignment explanation
Indices: 11424786--11424812 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
11424776 TAATAAATAA
11424786 AAACAAAAAAAAAG
1 AAACAAAAAAAAAG
11424800 AAACAAAAAAAAA
1 AAACAAAAAAAAA
11424813 ACAGAAAGCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.89, C:0.07, G:0.04, T:0.00
Consensus pattern (14 bp):
AAACAAAAAAAAAG
Found at i:11425072 original size:23 final size:23
Alignment explanation
Indices: 11424978--11425060 Score: 148
Period size: 23 Copynumber: 3.6 Consensus size: 23
11424968 AAGCTCTCTC
*
11424978 GAATCCCCTTCAACCGCTCTTTG
1 GAATCCCCTTCAACCTCTCTTTG
11425001 GAATCCCCTTCAACCTCTCTTTG
1 GAATCCCCTTCAACCTCTCTTTG
*
11425024 GAATCCCCTTCAACTTCTCTTTG
1 GAATCCCCTTCAACCTCTCTTTG
11425047 GAATCCCCTTCAAC
1 GAATCCCCTTCAAC
11425061 ATCCCTCTGG
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 58 1.00
ACGTcount: A:0.19, C:0.39, G:0.10, T:0.33
Consensus pattern (23 bp):
GAATCCCCTTCAACCTCTCTTTG
Found at i:11425072 original size:46 final size:46
Alignment explanation
Indices: 11424973--11425072 Score: 146
Period size: 46 Copynumber: 2.2 Consensus size: 46
11424963 CCAGAAAGCT
* * *
11424973 CTCTCGAATCCCCTTCAACCGCTCTTTGGAATCCCCTTCAACCTCT
1 CTCTGGAATCCCCTTCAACCGCTCTTTGGAATCCCCTTCAACATCC
* **
11425019 CTTTGGAATCCCCTTCAACTTCTCTTTGGAATCCCCTTCAACATCC
1 CTCTGGAATCCCCTTCAACCGCTCTTTGGAATCCCCTTCAACATCC
11425065 CTCTGGAA
1 CTCTGGAA
11425073 CCCTTATTTC
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.19, C:0.39, G:0.10, T:0.32
Consensus pattern (46 bp):
CTCTGGAATCCCCTTCAACCGCTCTTTGGAATCCCCTTCAACATCC
Found at i:11428566 original size:23 final size:23
Alignment explanation
Indices: 11428539--11428594 Score: 87
Period size: 23 Copynumber: 2.5 Consensus size: 23
11428529 ACATGTATCC
*
11428539 CATGCACTTCTTGATAAGTAATG
1 CATGCACTTCTGGATAAGTAATG
*
11428562 CATGCACTTCTGGATAAGTAGTG
1 CATGCACTTCTGGATAAGTAATG
11428585 CATGCA-TTCT
1 CATGCACTTCT
11428595 ATCTCGTTAC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
22 4 0.13
23 27 0.87
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.34
Consensus pattern (23 bp):
CATGCACTTCTGGATAAGTAATG
Found at i:11431784 original size:10 final size:9
Alignment explanation
Indices: 11431769--11431801 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
11431759 GATGGGGCAT
11431769 AAAAAAATA
1 AAAAAAATA
11431778 AAAAAAATA
1 AAAAAAATA
*
11431787 AAAAAAAGA
1 AAAAAAATA
11431796 AAAAAA
1 AAAAAA
11431802 TGGACATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.91, C:0.00, G:0.03, T:0.06
Consensus pattern (9 bp):
AAAAAAATA
Found at i:11431787 original size:17 final size:17
Alignment explanation
Indices: 11431767--11431802 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
11431757 AGGATGGGGC
11431767 ATAAAAAAATA-AAAAAA
1 ATAAAAAAA-AGAAAAAA
11431784 ATAAAAAAAAGAAAAAA
1 ATAAAAAAAAGAAAAAA
11431801 AT
1 AT
11431803 GGACATATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 1 0.06
17 17 0.94
ACGTcount: A:0.86, C:0.00, G:0.03, T:0.11
Consensus pattern (17 bp):
ATAAAAAAAAGAAAAAA
Found at i:11433546 original size:41 final size:41
Alignment explanation
Indices: 11433501--11433591 Score: 130
Period size: 41 Copynumber: 2.2 Consensus size: 41
11433491 GTTTTACAGT
**
11433501 CTCTGTTTAAAAAGAA-CTGTTCTCAATCAAGATTTCAAAAC
1 CTCTGTTTAAAAAGAACCAATT-TCAATCAAGATTTCAAAAC
* *
11433542 CTCTGTTTAAGAGGAACCAATTTCAATCAAGATTTCAAAAC
1 CTCTGTTTAAAAAGAACCAATTTCAATCAAGATTTCAAAAC
11433583 CTCTGTTTA
1 CTCTGTTTA
11433592 GAGGGAACTT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
41 42 0.93
42 3 0.07
ACGTcount: A:0.36, C:0.20, G:0.11, T:0.33
Consensus pattern (41 bp):
CTCTGTTTAAAAAGAACCAATTTCAATCAAGATTTCAAAAC
Found at i:11433801 original size:121 final size:120
Alignment explanation
Indices: 11433661--11433899 Score: 379
Period size: 121 Copynumber: 2.0 Consensus size: 120
11433651 GCCATGTTTA
**
11433661 AAAAGATTTTTAAATTTTAAAGTTTCATTACCTCTGATTATGAGAAGTGTTCAAAGATTTTGAGA
1 AAAAGATTTTTAAATTTTAAAGTTTCATTACCTCTGATTATGAGAAGCATTCAAAGATTTTGAGA
* * *
11433726 TTTGTAAGACCTTCGAACATAATCTCTAAAAGCCTCTGTGCATGACTTTCAAGATT
66 TTTGTAAGACCTCCGAACATAATCTCTAAAA-CCTCTGGGCATAACTTTCAAGATT
* *
11433782 AAAAGATTTTTAAATTTTAAAGTTTTATTACCTCTGATTATGAGGAGCATTCAAAGATTTTGAGA
1 AAAAGATTTTTAAATTTTAAAGTTTCATTACCTCTGATTATGAGAAGCATTCAAAGATTTTGAGA
** *
11433847 TTTGTAAGACCTCCGGGCATAATCTCTAAGACCTCTGGGCATAACTTTCAAGA
66 TTTGTAAGACCTCCGAACATAATCTCTAAAACCTCTGGGCATAACTTTCAAGA
11433900 CCTCCGGGCA
Statistics
Matches: 108, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
120 20 0.19
121 88 0.81
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36
Consensus pattern (120 bp):
AAAAGATTTTTAAATTTTAAAGTTTCATTACCTCTGATTATGAGAAGCATTCAAAGATTTTGAGA
TTTGTAAGACCTCCGAACATAATCTCTAAAACCTCTGGGCATAACTTTCAAGATT
Found at i:11433879 original size:22 final size:21
Alignment explanation
Indices: 11433851--11433912 Score: 88
Period size: 22 Copynumber: 2.9 Consensus size: 21
11433841 TTGAGATTTG
11433851 TAAGACCTCCGGGCATAATCTC
1 TAAGACCTCCGGGCATAA-CTC
* *
11433873 TAAGACCTCTGGGCATAACTT
1 TAAGACCTCCGGGCATAACTC
11433894 TCAAGACCTCCGGGCATAA
1 T-AAGACCTCCGGGCATAA
11433913 ATTTGATTCG
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
21 3 0.08
22 33 0.92
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (21 bp):
TAAGACCTCCGGGCATAACTC
Found at i:11434109 original size:109 final size:110
Alignment explanation
Indices: 11433873--11434123 Score: 335
Period size: 109 Copynumber: 2.3 Consensus size: 110
11433863 GCATAATCTC
* *
11433873 TAAGACCTCTGGGCATAACTTTC-AAGACCTCCGGGCATAAATTTGATTCGCGATGTTATCCCGA
1 TAAGACCTCTGGGCATGA-TTTCTAAGACCTCCGGGCATAAATTTGATTCACGATGTTATCCCGA
* * *
11433937 TCGATTCTTTATTTTTTGACTTGTGGTGTTATCCTAGTCAATTCTG
65 TCGATTCTTTATTTTTTGACTTATGATGTTATCCCAGTCAATTCTG
* * ** * * * *
11433983 TAAGACCTCCGGGCATGATTTCTAAGATCTTTGGGCATAATTTTGATTTACGTTGTTGTCCCGAT
1 TAAGACCTCTGGGCATGATTTCTAAGACCTCCGGGCATAAATTTGATTCACGATGTTATCCCGAT
*
11434048 CGATTCTTTA-TTTTTGACTTATGATGTTATCCCGGTCAATTCTG
66 CGATTCTTTATTTTTTGACTTATGATGTTATCCCAGTCAATTCTG
* *
11434092 TAAGACCTCTGGACATGATTTTTAAGACCTCC
1 TAAGACCTCTGGGCATGATTTCTAAGACCTCC
11434124 AAACAATTCT
Statistics
Matches: 120, Mismatches: 20, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
109 60 0.50
110 60 0.50
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (110 bp):
TAAGACCTCTGGGCATGATTTCTAAGACCTCCGGGCATAAATTTGATTCACGATGTTATCCCGAT
CGATTCTTTATTTTTTGACTTATGATGTTATCCCAGTCAATTCTG
Found at i:11434151 original size:43 final size:43
Alignment explanation
Indices: 11434084--11434167 Score: 125
Period size: 43 Copynumber: 2.0 Consensus size: 43
11434074 TTATCCCGGT
* *
11434084 CAATTCTGTAAGACCTCTGGACATGATTTTTAAGACCTCCAAA
1 CAATTCTGTAAGACCTCTGAACATGATTTCTAAGACCTCCAAA
*
11434127 CAATTCTGTAAGATCT-TCGAACATGATTTCTAAGACCTCCA
1 CAATTCTGTAAGACCTCT-GAACATGATTTCTAAGACCTCCA
11434168 GGTATAAATT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
42 1 0.03
43 36 0.97
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.31
Consensus pattern (43 bp):
CAATTCTGTAAGACCTCTGAACATGATTTCTAAGACCTCCAAA
Found at i:11434356 original size:108 final size:109
Alignment explanation
Indices: 11434127--11434357 Score: 286
Period size: 108 Copynumber: 2.1 Consensus size: 109
11434117 GACCTCCAAA
* * * ***
11434127 CAATTCTGTAAGATCTTCGAACATGATTTCTAAGACCTCCAGGTATAAATTCGATTTGTGATGTT
1 CAATTCTGTAAGATCTTAGAACATGATTTCTAAAACCTCCAGGCATAAATTCGATTCACGA-GTT
* *
11434192 ATCCCGATCGATTCTTTATCTTTTGACTTGTGGTGTTATCCCAGT
65 ATCCCGATCGATTCTTTATCTTTTGACTAGTAGTGTTATCCCAGT
** * *
11434237 CAATT-TCGTAAGATCTTAGGGCATGATTTCTAAAACCTCCGGGCATAAATTTGATTCACG-GTT
1 CAATTCT-GTAAGATCTTAGAACATGATTTCTAAAACCTCCAGGCATAAATTCGATTCACGAGTT
* *
11434300 ATCTCGATCGATTCTTTATCTTTTGACTAGTAGTGTTATTCCAGT
65 ATCCCGATCGATTCTTTATCTTTTGACTAGTAGTGTTATCCCAGT
**
11434345 TGATTCTGTAAGA
1 CAATTCTGTAAGA
11434358 CCTCCAGACA
Statistics
Matches: 103, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
108 53 0.51
109 2 0.02
110 48 0.47
ACGTcount: A:0.25, C:0.18, G:0.18, T:0.39
Consensus pattern (109 bp):
CAATTCTGTAAGATCTTAGAACATGATTTCTAAAACCTCCAGGCATAAATTCGATTCACGAGTTA
TCCCGATCGATTCTTTATCTTTTGACTAGTAGTGTTATCCCAGT
Found at i:11434370 original size:108 final size:108
Alignment explanation
Indices: 11434127--11434391 Score: 275
Period size: 108 Copynumber: 2.4 Consensus size: 108
11434117 GACCTCCAAA
* * ***
11434127 CAATTCTGTAAGATCTTC-GAACATGATTTCTAAGACCTCCAGGTATAAATTCGATTTGTGATGT
1 CAATTCTGTAAGATC-TCAG-ACATGATTTCTAAAACCTCCAGGCATAAATTCGATTCACGA-GT
* *
11434191 TATCCCGATCGATTCTTTATCTTTTGACTTGTGGTGTTATCCCAGT
63 TATCCCGATCGATTCTTTATCTTTTGACTAGTAGTGTTATCCCAGT
* * * *
11434237 CAATT-TCGTAAGATCTTAGGGCATGATTTCTAAAACCTCCGGGCATAAATTTGATTCACG-GTT
1 CAATTCT-GTAAGATCTCA-GACATGATTTCTAAAACCTCCAGGCATAAATTCGATTCACGAGTT
* *
11434300 ATCTCGATCGATTCTTTATCTTTTGACTAGTAGTGTTATTCCAGT
64 ATCCCGATCGATTCTTTATCTTTTGACTAGTAGTGTTATCCCAGT
** * * * *
11434345 TGATTCTGTAAGACCTCCAGACATGATTCTGTAAGACCTCCAAGCAT
1 CAATTCTGTAAGATCT-CAGACATGATT-TCTAAAACCTCCAGGCAT
11434392 GATTTCTAAG
Statistics
Matches: 127, Mismatches: 22, Indels: 13
0.78 0.14 0.08
Matches are distributed among these distances:
108 63 0.50
109 18 0.14
110 45 0.35
111 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.37
Consensus pattern (108 bp):
CAATTCTGTAAGATCTCAGACATGATTTCTAAAACCTCCAGGCATAAATTCGATTCACGAGTTAT
CCCGATCGATTCTTTATCTTTTGACTAGTAGTGTTATCCCAGT
Found at i:11434372 original size:23 final size:23
Alignment explanation
Indices: 11434345--11434406 Score: 92
Period size: 23 Copynumber: 2.7 Consensus size: 23
11434335 TTATTCCAGT
11434345 TGATTCTGTAAGACCTCC-AGACA
1 TGATTCTGTAAGACCTCCAAG-CA
11434368 TGATTCTGTAAGACCTCCAAGCA
1 TGATTCTGTAAGACCTCCAAGCA
*
11434391 TGATT-TCTAAGACCTC
1 TGATTCTGTAAGACCTC
11434407 TGGATATAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
22 10 0.27
23 25 0.68
24 2 0.05
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (23 bp):
TGATTCTGTAAGACCTCCAAGCA
Found at i:11434382 original size:262 final size:260
Alignment explanation
Indices: 11433892--11434387 Score: 676
Period size: 262 Copynumber: 1.9 Consensus size: 260
11433882 TGGGCATAAC
* * *
11433892 TTTCAAGACCTCCGGGCATAAATTTGATTCGCGATGTTATCCCGATCGATTCTTTATTTTTTGAC
1 TTTCAAGACCTCCAGGCATAAATTCGATTCGCGATGTTATCCCGATCGATTCTTTATCTTTTGAC
* * * * **
11433957 TTGTGGTGTTATCCTAGTCAATTCTGTAAGACCTCCGGGCATGATTTCTAAGATCTTTGGGCATA
66 TTGTGGTGTTATCCCAGTCAATTCTGTAAGACCTCAGGGCATGATTTCTAAAACCTCCGGGCATA
* * * *
11434022 ATTTTGATTTACGTTGTTGTCCCGATCGATTCTTTATTTTTGACTTATGATGTTATCCCGGTCAA
131 AATTTGATTCACG-TGTTATCCCGATCGATTCTTTATTTTTGACTTATGATGTTATCCCAGTCAA
** *
11434087 TTCTGTAAGACCTCTGGACATGATTTTTAAGACCTCCAAACAATTCTGTAAGATCTTCGAACATG
195 TTCTGTAAGACCTCCAGACATGATTTGTAAGACCTCCAAACAATTCTGTAAGATCTTCGAACATG
11434152 A
260 A
* * *
11434153 TTTCTAAGACCTCCAGGTATAAATTCGATTTGTGATGTTATCCCGATCGATTCTTTATCTTTTGA
1 TTTC-AAGACCTCCAGGCATAAATTCGATTCGCGATGTTATCCCGATCGATTCTTTATCTTTTGA
* *
11434218 CTTGTGGTGTTATCCCAGTCAATT-TCGTAAGATCTTAGGGCATGATTTCTAAAACCTCCGGGCA
65 CTTGTGGTGTTATCCCAGTCAATTCT-GTAAGACCTCAGGGCATGATTTCTAAAACCTCCGGGCA
* *
11434282 TAAATTTGATTCACG-GTTATCTCGATCGATTCTTTATCTTTTGAC-TA-GTAGTGTTATTCCAG
129 TAAATTTGATTCACGTGTTATCCCGATCGATTCTTTAT-TTTTGACTTATG-A-TGTTATCCCAG
**
11434344 TTGATTCTGTAAGACCTCCAGACATGATTCTGTAAGACCTCCAA
191 TCAATTCTGTAAGACCTCCAGACATGATT-TGTAAGACCTCCAA
11434388 GCATGATTTC
Statistics
Matches: 204, Mismatches: 25, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
259 1 0.00
260 23 0.11
261 46 0.23
262 134 0.66
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.39
Consensus pattern (260 bp):
TTTCAAGACCTCCAGGCATAAATTCGATTCGCGATGTTATCCCGATCGATTCTTTATCTTTTGAC
TTGTGGTGTTATCCCAGTCAATTCTGTAAGACCTCAGGGCATGATTTCTAAAACCTCCGGGCATA
AATTTGATTCACGTGTTATCCCGATCGATTCTTTATTTTTGACTTATGATGTTATCCCAGTCAAT
TCTGTAAGACCTCCAGACATGATTTGTAAGACCTCCAAACAATTCTGTAAGATCTTCGAACATGA
Found at i:11434488 original size:133 final size:132
Alignment explanation
Indices: 11434257--11435193 Score: 498
Period size: 133 Copynumber: 6.9 Consensus size: 132
11434247 AGATCTTAGG
* * *
11434257 GCATGATTTCTAAAACCTCCGGGCATAAATTTGATTCACG-GTTATCTCGATCGATTCTTTATCT
1 GCATGATTTCTAAGACCTCCGGGCATAAATTTGATTCACGTGTTATCCCAATCGATTCTTTATCT
* * **
11434321 TTTGACTAGT-AGTGTTATTCCAGTTGATTCTGTAAGACCTCCAGACATGATTCTGTAAGACCTC
66 TTTGACTTGTGA-TGTTATCCCAGTCAATTCTGTAAGACCTCCAGACATGATTCTGTAAGACCTC
11434385 CAA
130 CAA
* ** *
11434388 GCATGATTTCTAAGACCTCTGGATATAAATTCGATTCACAGTGTTATCCCAATCGATTCTTTATC
1 GCATGATTTCTAAGACCTCCGGGCATAAATTTGATTCAC-GTGTTATCCCAATCGATTCTTTATC
* * * * *
11434453 TTTTGACTTGTGATGTTATCCCAGTCAATTTTGTAAGATCT-CTGAATATGATTCTGTAAGATCT
65 TTTTGACTTGTGATGTTATCCCAGTCAATTCTGTAAGACCTCCAG-ACATGATTCTGTAAGACCT
* **
11434517 TCGG
129 CCAA
* * * * *
11434521 GCATGATTTTTAAGATCTCCGGGCATAATTTTGATTCACGATGTTGTCCCAATCGATT-TTT-TA
1 GCATGATTTCTAAGACCTCCGGGCATAAATTTGATTCACG-TGTTATCCCAATCGATTCTTTATC
** * * * * * *
11434584 TTTTGACTTACGGTGTTATCCCAGTCAATTCTATAAAACCTCCGGACATGATT-TTTAAGACCTT
65 TTTTGACTTGTGATGTTATCCCAGTCAATTCTGTAAGACCTCCAGACATGATTCTGTAAGACCTC
*
11434648 CAG
130 CAA
* * * *** ** *** **
11434651 GCATAAATTCGATTCGCGATGTTATCCGATCGATTCTTTATCTTTCGACTTGTGATGTTAT-CCA
1 GC----A-T-GATT-TCTAAGACCTCCGGGC-ATAAATT-TGATTC-AC----G-TGTTATCCCA
* * * * * ****
11434715 GTCGATT-TTGTAAGATCTTCAGGCATGATTTCTAAGATCTTCGGACA-TCAATTCGATTCGTGA
51 ATCGATTCTT-T---ATCTT-----TTGACTTGT--GATGTTATCCCAGTCAATTC---T-GT-A
* *** * * * **
11434778 TGTTATCC-CA-ATCGATTCTGTAAGATCTTCGG
100 AGACCTCCAGACAT-GATTCTGTAAGACCTCCAA
* *
11434810 GCATGATTTCTAAGACCTCCGGACATAAATTTGATTCGCGATGTTATCCCAATCGATTCTTTATC
1 GCATGATTTCTAAGACCTCCGGGCATAAATTTGATTCACG-TGTTATCCCAATCGATTCTTTATC
* * ** * * ***
11434875 TTTTGACTAGTGGTGTTATCCCAGTTGATTCTATAAGATCTTTGGACATGATTCTGTAAGACCTC
65 TTTTGACTTGTGATGTTATCCCAGTCAATTCTGTAAGACCTCCAGACATGATTCTGTAAGACCTC
**
11434940 CGG
130 CAA
* * * ** * * *
11434943 GCATG-TTGTCTAAGACTTTCGGGCATAATTTTGATTCGTGATGTTGTCCCGATCGATTTTTTAT
1 GCATGATT-TCTAAGACCTCCGGGCATAAATTTGATTCACG-TGTTATCCCAATCGATTCTTTAT
* * *
11435007 -TTTTGACTTGTGGTGTTATCCCAGTCAATTCTGTAAGACCTTC-GAACATGATTCTGTAAAACC
64 CTTTTGACTTGTGATGTTATCCCAGTCAATTCTGTAAGACCTCCAG-ACATGATTCTGTAAGACC
**
11435070 TCCGG
128 TCCAA
* * * * *
11435075 GCATGATTTCTAAGACCTCCGAGCATAAATTCGATTTCGCGATGTTATCCCTATCAATTCTTTAT
1 GCATGATTTCTAAGACCTCCGGGCATAAATTTGA-TTCACG-TGTTATCCCAATCGATTCTTTAT
* * * * *
11435140 CTTTTGACTTGTGGTGTTATCCCAGTCGATTCTGTACGACCTCCGGGCATGATT
64 CTTTTGACTTGTGATGTTATCCCAGTCAATTCTGTAAGACCTCCAGACATGATT
11435194 TCTAAAATCT
Statistics
Matches: 616, Mismatches: 140, Indels: 97
0.72 0.16 0.11
Matches are distributed among these distances:
130 13 0.02
131 77 0.12
132 100 0.16
133 219 0.36
134 52 0.08
135 2 0.00
136 10 0.02
137 13 0.02
138 10 0.02
139 4 0.01
140 2 0.00
143 16 0.03
144 8 0.01
145 8 0.01
146 10 0.02
147 2 0.00
148 3 0.00
149 1 0.00
150 4 0.01
151 4 0.01
152 8 0.01
153 9 0.01
154 8 0.01
155 7 0.01
157 3 0.00
158 6 0.01
159 17 0.03
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.38
Consensus pattern (132 bp):
GCATGATTTCTAAGACCTCCGGGCATAAATTTGATTCACGTGTTATCCCAATCGATTCTTTATCT
TTTGACTTGTGATGTTATCCCAGTCAATTCTGTAAGACCTCCAGACATGATTCTGTAAGACCTCC
AA
Found at i:11434526 original size:23 final size:22
Alignment explanation
Indices: 11434482--11434551 Score: 68
Period size: 22 Copynumber: 3.1 Consensus size: 22
11434472 CCCAGTCAAT
* ***
11434482 TTTGTAAGATCTCTGAATATGA
1 TTTGTAAGATCTCCGGGCATGA
*
11434504 TTCTGTAAGATCTTCGGGCATGA
1 TT-TGTAAGATCTCCGGGCATGA
* *
11434527 TTTTTAAGATCTCCGGGCATAA
1 TTTGTAAGATCTCCGGGCATGA
11434549 TTT
1 TTT
11434552 TGATTCACGA
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
22 22 0.56
23 17 0.44
ACGTcount: A:0.26, C:0.14, G:0.20, T:0.40
Consensus pattern (22 bp):
TTTGTAAGATCTCCGGGCATGA
Found at i:11434537 original size:22 final size:22
Alignment explanation
Indices: 11434500--11434552 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
11434490 ATCTCTGAAT
* *
11434500 ATGATTCTGTAAGATCTTCGGGC
1 ATGATT-TTTAAGATCTCCGGGC
11434523 ATGATTTTTAAGATCTCCGGGC
1 ATGATTTTTAAGATCTCCGGGC
*
11434545 ATAATTTT
1 ATGATTTT
11434553 GATTCACGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 21 0.78
23 6 0.22
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.40
Consensus pattern (22 bp):
ATGATTTTTAAGATCTCCGGGC
Found at i:11434716 original size:108 final size:107
Alignment explanation
Indices: 11434520--11434796 Score: 299
Period size: 108 Copynumber: 2.6 Consensus size: 107
11434510 AAGATCTTCG
* * * * * *
11434520 GGCATGATTTTTAAGATCTCCGGGCATAATTTTGATTCACGATGTTGTCCCAATCGATTTTTTAT
1 GGCATGATTTTTAAGATCTTC-GGCATAAATTCGATTCGCGATGTTATCCCAATCGATTCTTTAT
* *
11434585 TTTGACTTACGGTGTTATCCCAGTCAATTCTATAA-AACCTCC
65 TTTGACTTACGATGTTATCCCAGTCAATTCTATAAGAACCTCA
* *
11434627 GGACATGATTTTTAAGACCTTCAGGCATAAATTCGATTCGCGATGTTAT-CCGATCGATTCTTTA
1 GG-CATGATTTTTAAGATCTTC-GGCATAAATTCGATTCGCGATGTTATCCCAATCGATTCTTTA
** * * * * *
11434691 TCTTTCGACTTGTGATGTTAT-CCAGTCGATTTTGTAAGATCTTCA
64 T-TTT-GACTTACGATGTTATCCCAGTCAATTCTATAAGAACCTCA
* * *
11434736 GGCATGATTTCTAAGATCTTCGGACATCAATTCGATTCGTGATGTTATCCCAATCGATTCT
1 GGCATGATTTTTAAGATCTTCGG-CATAAATTCGATTCGCGATGTTATCCCAATCGATTCT
11434797 GTAAGATCTT
Statistics
Matches: 141, Mismatches: 23, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
107 18 0.13
108 94 0.67
109 29 0.21
ACGTcount: A:0.24, C:0.20, G:0.17, T:0.39
Consensus pattern (107 bp):
GGCATGATTTTTAAGATCTTCGGCATAAATTCGATTCGCGATGTTATCCCAATCGATTCTTTATT
TTGACTTACGATGTTATCCCAGTCAATTCTATAAGAACCTCA
Found at i:11434813 original size:73 final size:73
Alignment explanation
Indices: 11434694--11434869 Score: 257
Period size: 73 Copynumber: 2.4 Consensus size: 73
11434684 TTCTTTATCT
* * * *
11434694 TTCGACTT-GTGATGTTAT-CCAGTCGATTTTGTAAGATCTTCAGGCATGATTTCTAAGATCTTC
1 TTCGA-TTCGTGATGTTATCCCAATCGATTCTGTAAGATCTTCAGGCATGATTTCTAAGACCTCC
*
11434757 GGACATCAA
65 GGACATAAA
*
11434766 TTCGATTCGTGATGTTATCCCAATCGATTCTGTAAGATCTTCGGGCATGATTTCTAAGACCTCCG
1 TTCGATTCGTGATGTTATCCCAATCGATTCTGTAAGATCTTCAGGCATGATTTCTAAGACCTCCG
11434831 GACATAAA
66 GACATAAA
* *
11434839 TTTGATTCGCGATGTTATCCCAATCGATTCT
1 TTCGATTCGTGATGTTATCCCAATCGATTCT
11434870 TTATCTTTTG
Statistics
Matches: 94, Mismatches: 8, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
71 2 0.02
72 15 0.16
73 77 0.82
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.36
Consensus pattern (73 bp):
TTCGATTCGTGATGTTATCCCAATCGATTCTGTAAGATCTTCAGGCATGATTTCTAAGACCTCCG
GACATAAA
Found at i:11435064 original size:23 final size:23
Alignment explanation
Indices: 11435034--11435096 Score: 74
Period size: 23 Copynumber: 2.8 Consensus size: 23
11435024 ATCCCAGTCA
*
11435034 ATTCTGTAAGACCTTCGAACATG
1 ATTCTGTAAGACCTCCGAACATG
* **
11435057 ATTCTGTAAAACCTCCGGGCATG
1 ATTCTGTAAGACCTCCGAACATG
*
11435080 ATT-TCTAAGACCTCCGA
1 ATTCTGTAAGACCTCCGA
11435097 GCATAAATTC
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
22 11 0.33
23 22 0.67
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (23 bp):
ATTCTGTAAGACCTCCGAACATG
Found at i:11435074 original size:132 final size:133
Alignment explanation
Indices: 11434791--11435181 Score: 543
Period size: 133 Copynumber: 2.9 Consensus size: 133
11434781 TATCCCAATC
* * *
11434791 GATTCTGTAAGATCTTCGGGCATGATTTCTAAGACCTCCGGACATAAATTTGATTCGCGATGTTA
1 GATTCTGTAAGACCTCCGGGCATGATTTCTAAGACCTCCGGGCATAAATTTGATTCGCGATGTTA
* * * * * *
11434856 TCCCAATCGATTCTTTATCTTTTGACTAGTGGTGTTATCCCAGTTGATTCTATAAGATCTTTGGA
66 TCCCAATCGATTCTTTATCTTTTGACTTGTGGTGTTATCCCAGTCGATTCTGTAAGACCTTCGAA
11434921 CAT
131 CAT
* * * *
11434924 GATTCTGTAAGACCTCCGGGCATG-TTGTCTAAGACTTTCGGGCATAATTTTGATTCGTGATGTT
1 GATTCTGTAAGACCTCCGGGCATGATT-TCTAAGACCTCCGGGCATAAATTTGATTCGCGATGTT
* * * *
11434988 GTCCCGATCGATTTTTTAT-TTTTGACTTGTGGTGTTATCCCAGTCAATTCTGTAAGACCTTCGA
65 ATCCCAATCGATTCTTTATCTTTTGACTTGTGGTGTTATCCCAGTCGATTCTGTAAGACCTTCGA
11435052 ACAT
130 ACAT
* * *
11435056 GATTCTGTAAAACCTCCGGGCATGATTTCTAAGACCTCCGAGCATAAATTCGATTTCGCGATGTT
1 GATTCTGTAAGACCTCCGGGCATGATTTCTAAGACCTCCGGGCATAAATTTGA-TTCGCGATGTT
* * *
11435121 ATCCCTATCAATTCTTTATCTTTTGACTTGTGGTGTTATCCCAGTCGATTCTGTACGACCT
65 ATCCCAATCGATTCTTTATCTTTTGACTTGTGGTGTTATCCCAGTCGATTCTGTAAGACCT
11435182 CCGGGCATGA
Statistics
Matches: 224, Mismatches: 30, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
132 88 0.39
133 97 0.43
134 39 0.17
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.38
Consensus pattern (133 bp):
GATTCTGTAAGACCTCCGGGCATGATTTCTAAGACCTCCGGGCATAAATTTGATTCGCGATGTTA
TCCCAATCGATTCTTTATCTTTTGACTTGTGGTGTTATCCCAGTCGATTCTGTAAGACCTTCGAA
CAT
Found at i:11435410 original size:23 final size:23
Alignment explanation
Indices: 11435364--11435413 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
11435354 TATCTCAGTC
*** *
11435364 GATTCTGTAAGACCTTTGGGCAT
1 GATTCTGTAAGACCTCCAGACAT
11435387 GATTCTGTAAGACCTCCAGACAT
1 GATTCTGTAAGACCTCCAGACAT
11435410 GATT
1 GATT
11435414 TCTAATGCCT
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:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (23 bp):
GATTCTGTAAGACCTCCAGACAT
Found at i:11435522 original size:133 final size:132
Alignment explanation
Indices: 11435278--11435535 Score: 347
Period size: 133 Copynumber: 1.9 Consensus size: 132
11435268 ATTTCAATTT
*
11435278 ATTTCTAAGACCTTCGGGCATAAATTCGATTCGCGGTGTTATCCCAATCGATTCTTTATCTTTCA
1 ATTTCTAAGACCTCCGGGCATAAATTCGATTCGCGGTGTTATCCCAATCGATTCTTTATCTTTCA
*** * * * *
11435343 ACTTGTGGTGTTATCTCAGTCGATTCTGTAAGACCTTTGGGCATGATTCTGTAAGACCTCCAGAC
66 ACTTACAGTGTTATCCCAATCGATTCTGTAAGACCTTCGGACATGATT-TGTAAGACCTCCAGAC
11435408 ATG
130 ATG
* * * * * *
11435411 ATTTCTAATG-CCTCCGGGCATAAATTCGATTCGTGGTGTTATCTCGATCGATTTTTTATTTTTT
1 ATTTCTAA-GACCTCCGGGCATAAATTCGATTCGCGGTGTTATCCCAATCGATTCTTTATCTTTC
* *
11435475 AACTTACAGTGTTATCCCAATCGATTCTGTAAGATCTTCGGATATGATTTGTAAGACCTCC
65 AACTTACAGTGTTATCCCAATCGATTCTGTAAGACCTTCGGACATGATTTGTAAGACCTCC
11435536 GAGCATAAAT
Statistics
Matches: 108, Mismatches: 16, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
132 12 0.11
133 95 0.88
134 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.38
Consensus pattern (132 bp):
ATTTCTAAGACCTCCGGGCATAAATTCGATTCGCGGTGTTATCCCAATCGATTCTTTATCTTTCA
ACTTACAGTGTTATCCCAATCGATTCTGTAAGACCTTCGGACATGATTTGTAAGACCTCCAGACA
TG
Found at i:11435552 original size:330 final size:330
Alignment explanation
Indices: 11434951--11435589 Score: 832
Period size: 330 Copynumber: 1.9 Consensus size: 330
11434941 GGGCATGTTG
* * * * * * * **
11434951 TCTAAGACTTTCGGGCATAATTTTGATTCGTGATGTTGTCCCGATCGATTTTTTATTTTTGACTT
1 TCTAAGACCTTCGGGCATAAATTCGATTCGCGATGTTATCCCAATCGATTCTTTATTTTCAACTT
* *
11435016 GTGGTGTTATCCCAGTCAATTCTGTAAGACCTTCGAACATGATTCTGTAAAACCTCCGGGCATGA
66 GTGGTGTTATCCCAGTCAATTCTGTAAGACCTTCGAACATGATTCTGTAAAACCTCCAGACATGA
* *
11435081 TTTCTAAGACCTCCGAGCATAAATTCGATTTCGCGATGTTATCCCTATCAATTCTTTATCTTTTG
131 TTTCTAAGACCTCCGAGCATAAATTCGATTTCGCGATGTTATCCCGATCAATTCTTTATCTTTTA
*** * * * * *
11435146 ACTTGTGGTGTTATCCCAGTCGATTCTGTACGACCTCCGGGCATGATTTCTAAAATCTCTGAGCA
196 ACTTACAGTGTTATCCCAATCGATTCTGTAAGACCTCCGGACATGATTTCTAAAACCTCCGAGCA
* * * *
11435211 TAAATTCGATTCGCGGTGTTATCCCGATCGATTCTTTATCTTTTGACTTGTGATGCTATTTCAAT
261 TAAATTCGATTCGCGATATTATCCCGATCGATTCATTATCTTTTAACTTGTGATGCTATTTCAAT
11435276 TTATT
326 TTATT
*
11435281 TCTAAGACCTTCGGGCATAAATTCGATTCGCGGTGTTATCCCAATCGATTCTTTATCTTTCAACT
1 TCTAAGACCTTCGGGCATAAATTCGATTCGCGATGTTATCCCAATCGATTCTTTAT-TTTCAACT
* * * ** *
11435346 TGTGGTGTTATCTCAGTCGATTCTGTAAGACCTTTGGGCATGATTCTGTAAGACCTCCAGACATG
65 TGTGGTGTTATCCCAGTCAATTCTGTAAGACCTTCGAACATGATTCTGTAAAACCTCCAGACATG
* * * * * * *
11435411 ATTTCTAATG-CCTCCGGGCATAAATTCGA-TTCGTGGTGTTATCTCGATCGATTTTTTATTTTT
130 ATTTCTAA-GACCTCCGAGCATAAATTCGATTTCGCGATGTTATCCCGATCAATTCTTTATCTTT
* * * * *
11435474 TAACTTACAGTGTTATCCCAATCGATTCTGTAAGATCTTCGGATATGATTTGTAAGACCTCCGAG
194 TAACTTACAGTGTTATCCCAATCGATTCTGTAAGACCTCCGGACATGATTTCTAAAACCTCCGAG
* *
11435539 CATAAATTCGATTCGCGATATTATCTCGATCGATTCATTATTTTTTAACTT
259 CATAAATTCGATTCGCGATATTATCCCGATCGATTCATTATCTTTTAACTT
11435590 ACGGTGTCAT
Statistics
Matches: 261, Mismatches: 46, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
330 171 0.66
331 89 0.34
332 1 0.00
ACGTcount: A:0.23, C:0.20, G:0.18, T:0.39
Consensus pattern (330 bp):
TCTAAGACCTTCGGGCATAAATTCGATTCGCGATGTTATCCCAATCGATTCTTTATTTTCAACTT
GTGGTGTTATCCCAGTCAATTCTGTAAGACCTTCGAACATGATTCTGTAAAACCTCCAGACATGA
TTTCTAAGACCTCCGAGCATAAATTCGATTTCGCGATGTTATCCCGATCAATTCTTTATCTTTTA
ACTTACAGTGTTATCCCAATCGATTCTGTAAGACCTCCGGACATGATTTCTAAAACCTCCGAGCA
TAAATTCGATTCGCGATATTATCCCGATCGATTCATTATCTTTTAACTTGTGATGCTATTTCAAT
TTATT
Found at i:11435580 original size:110 final size:110
Alignment explanation
Indices: 11435387--11435607 Score: 309
Period size: 110 Copynumber: 2.0 Consensus size: 110
11435377 CTTTGGGCAT
* * * *
11435387 GATTCTGTAAGACCTCCAGACATGATTTCTAATGCCTCCGGGCATAAATTCGATTCGTGGTGTTA
1 GATTCTGTAAGACCTCCAGACATGATTTCTAATGCCTCCGAGCATAAATTCGATTCGCGATATTA
** *
11435452 TCTCGATCGATTTTTTATTTTTTAACTTACAGTGTTATCCCAATC
66 TCTCGATCGATTCATTATTTTTTAACTTACAGTGTCATCCCAATC
* * * * *
11435497 GATTCTGTAAGATCTTCGGATATGATTTGTAA-GACCTCCGAGCATAAATTCGATTCGCGATATT
1 GATTCTGTAAGACCTCCAGACATGATTTCTAATG-CCTCCGAGCATAAATTCGATTCGCGATATT
*
11435561 ATCTCGATCGATTCATTATTTTTTAACTTACGGTGTCATCCCAATC
65 ATCTCGATCGATTCATTATTTTTTAACTTACAGTGTCATCCCAATC
11435607 G
1 G
11435608 TTTTGTGTTT
Statistics
Matches: 97, Mismatches: 13, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
109 1 0.01
110 96 0.99
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.38
Consensus pattern (110 bp):
GATTCTGTAAGACCTCCAGACATGATTTCTAATGCCTCCGAGCATAAATTCGATTCGCGATATTA
TCTCGATCGATTCATTATTTTTTAACTTACAGTGTCATCCCAATC
Found at i:11436013 original size:23 final size:23
Alignment explanation
Indices: 11435987--11436049 Score: 74
Period size: 23 Copynumber: 2.8 Consensus size: 23
11435977 TTCCCAGAAA
11435987 GCTCTCTCGAATCCCTTTCAACC
1 GCTCTCTCGAATCCCTTTCAACC
* *
11436010 GCTCTTTCGAATCCCCTTCAACC
1 GCTCTCTCGAATCCCTTTCAACC
** *
11436033 TTTCTCTAGAA-CCCTTT
1 GCTCTCTCGAATCCCTTT
11436050 TTTTCAAAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
22 5 0.15
23 28 0.85
ACGTcount: A:0.17, C:0.40, G:0.08, T:0.35
Consensus pattern (23 bp):
GCTCTCTCGAATCCCTTTCAACC
Found at i:11438643 original size:13 final size:14
Alignment explanation
Indices: 11438621--11438653 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
11438611 TCTTATCACA
11438621 TTTTTAA-ATACATT
1 TTTTTAATATA-ATT
11438635 TTTTTAATATAATT
1 TTTTTAATATAATT
11438649 TTTTT
1 TTTTT
11438654 TCAACCGTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 15 0.83
15 3 0.17
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (14 bp):
TTTTTAATATAATT
Found at i:11441646 original size:20 final size:22
Alignment explanation
Indices: 11441629--11441676 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 22
11441619 TTTTTAAAGA
11441629 TAAA-ATTTTTTAAATAAAAAT
1 TAAACATTTTTTAAATAAAAAT
*
11441650 TAAATCATTTTTTAAAATAATAAT
1 TAAA-CATTTTTT-AAATAAAAAT
11441674 TAA
1 TAA
11441677 TCCCTTTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 4 0.17
23 7 0.30
24 12 0.52
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (22 bp):
TAAACATTTTTTAAATAAAAAT
Found at i:11441684 original size:23 final size:24
Alignment explanation
Indices: 11441634--11441684 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
11441624 AAAGATAAAA
* *
11441634 TTTTTTAAATAAAAATTAAATCAT
1 TTTTTAAAATAAAAATTAAATCAC
* *
11441658 TTTTTAAAATAATAATT-AATCCC
1 TTTTTAAAATAAAAATTAAATCAC
11441681 TTTT
1 TTTT
11441685 AATAATTTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
23 8 0.35
24 15 0.65
ACGTcount: A:0.43, C:0.08, G:0.00, T:0.49
Consensus pattern (24 bp):
TTTTTAAAATAAAAATTAAATCAC
Found at i:11444491 original size:33 final size:33
Alignment explanation
Indices: 11444454--11444520 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
11444444 TTTAGATTGT
*
11444454 TAAAATCCCCTTTACATGAAATTATAATTCTTA
1 TAAAATCCCCTTCACATGAAATTATAATTCTTA
11444487 TAAAATCCCCTTCACATGAAATTATAATTCTTA
1 TAAAATCCCCTTCACATGAAATTATAATTCTTA
11444520 T
1 T
11444521 CCAGGATGAT
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:0.39, C:0.19, G:0.03, T:0.39
Consensus pattern (33 bp):
TAAAATCCCCTTCACATGAAATTATAATTCTTA
Found at i:11446665 original size:26 final size:28
Alignment explanation
Indices: 11446613--11446665 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 28
11446603 TTTTATATCT
**
11446613 TTTTATATTTATATTTATCATTTATAAA
1 TTTTATATTTATATTTATCATAAATAAA
*
11446641 TTTTA-ATTTAT-TTTATTATAAATAA
1 TTTTATATTTATATTTATCATAAATAA
11446666 TAAATAATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 11 0.50
27 6 0.27
28 5 0.23
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (28 bp):
TTTTATATTTATATTTATCATAAATAAA
Found at i:11460537 original size:31 final size:31
Alignment explanation
Indices: 11460496--11460555 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
11460486 TTTTTTTTTT
*
11460496 TTTCTTTTCACATTGTATGTTTAATATTTCA
1 TTTCTATTCACATTGTATGTTTAATATTTCA
*
11460527 TTTCTATTCACATTGTGTGTTTAATATTT
1 TTTCTATTCACATTGTATGTTTAATATTT
11460556 AAAATTTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.22, C:0.12, G:0.08, T:0.58
Consensus pattern (31 bp):
TTTCTATTCACATTGTATGTTTAATATTTCA
Found at i:11462759 original size:32 final size:35
Alignment explanation
Indices: 11462696--11462759 Score: 80
Period size: 35 Copynumber: 1.9 Consensus size: 35
11462686 TGTTGACATA
**
11462696 AATATTAAACTATTCAAAAAATATATTTTAATTAT
1 AATATTAAACTATTCAAAAAATATAGATTAATTAT
*
11462731 AATATTTAA-TATT-AAAAAAT-TAGATTAAT
1 AATATTAAACTATTCAAAAAATATAGATTAAT
11462760 ATTAAACTCT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
32 7 0.27
33 7 0.27
34 4 0.15
35 8 0.31
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (35 bp):
AATATTAAACTATTCAAAAAATATAGATTAATTAT
Found at i:11463071 original size:18 final size:17
Alignment explanation
Indices: 11463029--11463079 Score: 50
Period size: 18 Copynumber: 3.0 Consensus size: 17
11463019 AAAATATAAA
*
11463029 ATAAT-ATATTTTAAAT
1 ATAATAATATTTGAAAT
* *
11463045 TTAAAAATATTATGAAAT
1 ATAATAATATT-TGAAAT
*
11463063 ATAATAATATTTCAAAT
1 ATAATAATATTTGAAAT
11463080 TAGGTCACAT
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
16 3 0.11
17 10 0.37
18 14 0.52
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (17 bp):
ATAATAATATTTGAAAT
Found at i:11467223 original size:17 final size:18
Alignment explanation
Indices: 11467198--11467231 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
11467188 TTTAAATATA
11467198 AAATATTTATAAAAATTT
1 AAATATTTATAAAAATTT
11467216 AAAT-TTTATAAAAATT
1 AAATATTTATAAAAATT
11467232 AATAAAAATA
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
AAATATTTATAAAAATTT
Found at i:11467342 original size:27 final size:26
Alignment explanation
Indices: 11467290--11467343 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
11467280 TTAAAAATCG
* **
11467290 ATTTAAATTAAATTAAAATATTTAAA
1 ATTTAAATTAAAATAAAATAAATAAA
*
11467316 ATTTTAATTAAAATAAAATCAAATAAA
1 ATTTAAATTAAAATAAAAT-AAATAAA
11467343 A
1 A
11467344 AAAATCTAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
26 17 0.74
27 6 0.26
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (26 bp):
ATTTAAATTAAAATAAAATAAATAAA
Found at i:11467857 original size:16 final size:16
Alignment explanation
Indices: 11467838--11467869 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
11467828 AAAATCCGTA
11467838 ATTTAAAATAAAAAAT
1 ATTTAAAATAAAAAAT
*
11467854 ATTTCAAATAAAAAAT
1 ATTTAAAATAAAAAAT
11467870 TTAAATATGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (16 bp):
ATTTAAAATAAAAAAT
Found at i:11468100 original size:24 final size:22
Alignment explanation
Indices: 11468064--11468110 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 22
11468054 TTATGAAAAT
*
11468064 AATATAATTTAAAATTTTAATAAA
1 AATATAATAT-AAA-TTTAATAAA
*
11468088 AATATTATATAAATTTAATAAA
1 AATATAATATAAATTTAATAAA
11468110 A
1 A
11468111 TAAAAAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 10 0.48
23 3 0.14
24 8 0.38
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
AATATAATATAAATTTAATAAA
Found at i:11468175 original size:18 final size:19
Alignment explanation
Indices: 11468135--11468223 Score: 64
Period size: 18 Copynumber: 4.9 Consensus size: 19
11468125 TTTTTTTATC
*
11468135 AATATAAATTATAATATATAT
1 AATATAAA-TAT-ATAAATAT
* *
11468156 AATTTACATATA-AAATAT
1 AATATAAATATATAAATAT
11468174 AATATAAATATATAAAT-T
1 AATATAAATATATAAATAT
**
11468192 -AT-T-AATAT-TTTATAT
1 AATATAAATATATAAATAT
*
11468207 AATACAAATATATAAAT
1 AATATAAATATATAAAT
11468224 TATCAGCATA
Statistics
Matches: 52, Mismatches: 10, Indels: 14
0.68 0.13 0.18
Matches are distributed among these distances:
14 3 0.06
15 6 0.12
16 3 0.06
17 2 0.04
18 21 0.40
19 8 0.15
20 3 0.06
21 6 0.12
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (19 bp):
AATATAAATATATAAATAT
Found at i:11472346 original size:11 final size:12
Alignment explanation
Indices: 11472325--11472351 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
11472315 GGATTGTTAC
11472325 TTTCTTTTTTTT
1 TTTCTTTTTTTT
11472337 TTTCTTTTTTTT
1 TTTCTTTTTTTT
11472349 TTT
1 TTT
11472352 TGGATTCTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (12 bp):
TTTCTTTTTTTT
Found at i:11474264 original size:2 final size:2
Alignment explanation
Indices: 11474257--11474292 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
11474247 TGGCAATTAC
11474257 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
11474293 GAACTTAAGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11480638 original size:16 final size:16
Alignment explanation
Indices: 11480617--11480651 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
11480607 TTTTCAGGAA
*
11480617 GTACTGAAATCTAAAT
1 GTACTGAAATCGAAAT
11480633 GTACTGAAATCGAAAT
1 GTACTGAAATCGAAAT
11480649 GTA
1 GTA
11480652 TACGAGCCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.43, C:0.11, G:0.17, T:0.29
Consensus pattern (16 bp):
GTACTGAAATCGAAAT
Found at i:11483589 original size:27 final size:27
Alignment explanation
Indices: 11483559--11483642 Score: 73
Period size: 27 Copynumber: 3.0 Consensus size: 27
11483549 ACCCGACCCG
11483559 AAATTAATAAAATATTATTTTAAATAT
1 AAATTAATAAAATATTATTTTAAATAT
*
11483586 AAA-T-ATAAAATATATATAATTAAATAT
1 AAATTAATAAAATAT-TAT-TTTAAATAT
* * * *
11483613 AAAATAAAAAAAATAATTTTTTTATATAT
1 -AAATTAATAAAAT-ATTATTTTAAATAT
11483642 A
1 A
11483643 TTGGGTCGGG
Statistics
Matches: 45, Mismatches: 6, Indels: 11
0.73 0.10 0.18
Matches are distributed among these distances:
25 9 0.20
26 4 0.09
27 11 0.24
28 4 0.09
29 7 0.16
30 8 0.18
31 2 0.04
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (27 bp):
AAATTAATAAAATATTATTTTAAATAT
Found at i:11489990 original size:32 final size:32
Alignment explanation
Indices: 11489917--11490002 Score: 131
Period size: 32 Copynumber: 2.7 Consensus size: 32
11489907 ATAAAATATC
* *
11489917 CATTAGATTACTTGTTCAATATAACATATCTT
1 CATTAGATAACATGTTCAATATAACATATCTT
11489949 -ATTAGATAACATGTTCAATATAACAATAT-TT
1 CATTAGATAACATGTTCAATATAAC-ATATCTT
11489980 CATTAGATAACATGTTCAATATA
1 CATTAGATAACATGTTCAATATA
11490003 TAAACTTTAA
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
31 24 0.48
32 26 0.52
ACGTcount: A:0.41, C:0.13, G:0.07, T:0.40
Consensus pattern (32 bp):
CATTAGATAACATGTTCAATATAACATATCTT
Found at i:11490005 original size:16 final size:16
Alignment explanation
Indices: 11489954--11490005 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
11489944 ATCTTATTAG
11489954 ATAACATGTTCAATAT
1 ATAACATGTTCAATAT
* * * *
11489970 AACAATAT-TTCATTAG
1 -ATAACATGTTCAATAT
11489986 ATAACATGTTCAATAT
1 ATAACATGTTCAATAT
11490002 ATAA
1 ATAA
11490006 ACTTTAAACA
Statistics
Matches: 26, Mismatches: 8, Indels: 3
0.70 0.22 0.08
Matches are distributed among these distances:
15 5 0.19
16 16 0.62
17 5 0.19
ACGTcount: A:0.46, C:0.12, G:0.06, T:0.37
Consensus pattern (16 bp):
ATAACATGTTCAATAT
Found at i:11493385 original size:23 final size:23
Alignment explanation
Indices: 11493344--11493399 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
11493334 TTAGTGTTTG
11493344 AGAAAAA-A-AAGGAAAAAAAGA
1 AGAAAAATAGAAGGAAAAAAAGA
* *
11493365 AGAAAAATAGAAGGAAGAAAAGC
1 AGAAAAATAGAAGGAAAAAAAGA
11493388 AGAAGAAATAGA
1 AGAA-AAATAGA
11493400 CAAACATGAG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
21 7 0.23
22 1 0.03
23 15 0.50
24 7 0.23
ACGTcount: A:0.71, C:0.02, G:0.23, T:0.04
Consensus pattern (23 bp):
AGAAAAATAGAAGGAAAAAAAGA
Found at i:11498782 original size:22 final size:21
Alignment explanation
Indices: 11498747--11498790 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 21
11498737 ATGTGTTTGA
11498747 ATTTTTTTGCTTTTTATTTTTT
1 ATTTTTTTGCTTTTT-TTTTTT
11498769 ATTTATTTTG-TTTTTTTTTTT
1 ATTT-TTTTGCTTTTTTTTTTT
11498790 A
1 A
11498791 CTAAAAATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 7 0.33
22 9 0.43
23 5 0.24
ACGTcount: A:0.11, C:0.02, G:0.05, T:0.82
Consensus pattern (21 bp):
ATTTTTTTGCTTTTTTTTTTT
Found at i:11499771 original size:19 final size:20
Alignment explanation
Indices: 11499721--11499771 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
11499711 TCTTCCTATT
*
11499721 TTTATTACTTATATTTTTAA
1 TTTATTACTTAAATTTTTAA
*
11499741 TTTATTA-ATAAATTTTT-A
1 TTTATTACTTAAATTTTTAA
11499759 TTTATTACTTAAA
1 TTTATTACTTAAA
11499772 AAAAAAGAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 8 0.30
19 12 0.44
20 7 0.26
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTATTACTTAAATTTTTAA
Found at i:11501059 original size:47 final size:48
Alignment explanation
Indices: 11500988--11501118 Score: 180
Period size: 48 Copynumber: 2.8 Consensus size: 48
11500978 TTCCTTTAAT
* *
11500988 CAGAGGCTCAATAATTTTAAAAATTTATCTT-AAAAAAGC-TTCTCTAAG
1 CAGAGGCTCAACAACTTT-AAAATTTATCTTGAAAAAA-CTTTCTCTAAG
* *
11501036 TAGAGGCTTAACAACTTTAAAATTTATCTTGAAAAAACTTTCTCTAAG
1 CAGAGGCTCAACAACTTTAAAATTTATCTTGAAAAAACTTTCTCTAAG
11501084 CAGAGGCTCAACAACTTTAAAATTT-T-TTGAAAAAA
1 CAGAGGCTCAACAACTTTAAAATTTATCTTGAAAAAA
11501119 TAACTTTGAA
Statistics
Matches: 75, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
46 9 0.12
47 14 0.19
48 52 0.69
ACGTcount: A:0.42, C:0.15, G:0.11, T:0.33
Consensus pattern (48 bp):
CAGAGGCTCAACAACTTTAAAATTTATCTTGAAAAAACTTTCTCTAAG
Found at i:11501351 original size:23 final size:23
Alignment explanation
Indices: 11501325--11501373 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
11501315 ATAACTTCGG
11501325 ATATCATCACTGAAAAAACT-CAA
1 ATATCATCACTGAAAAAA-TACAA
* *
11501348 ATATCATCATTGAGAAAATACAA
1 ATATCATCACTGAAAAAATACAA
11501371 ATA
1 ATA
11501374 ATTTTATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 1 0.04
23 22 0.96
ACGTcount: A:0.53, C:0.16, G:0.06, T:0.24
Consensus pattern (23 bp):
ATATCATCACTGAAAAAATACAA
Found at i:11501435 original size:140 final size:140
Alignment explanation
Indices: 11501208--11501507 Score: 399
Period size: 140 Copynumber: 2.1 Consensus size: 140
11501198 AGAAAACTTG
** *
11501208 AATAT-ACCTATCGAG-AAATGTAAATAATTTTTTAATGCTCGAATATCACCACCAAGAAAATGC
1 AATATCACC-ATCGAGAAAATACAAATAATTTTATAATGCTCGAATATCACCACCAAGAAAATGC
*
11501271 AAATCAAACCTTAACACTAAGATATCACCACCGAGAAGATGCAAATAACTTCGGATATCATCACT
65 AAATCAAACCTTAACACTAAGATATCACCACCGAGAAGATGCAAATAACTTCAGATATCATCACT
11501336 GAAA-AAACTCA
130 -AAAGAAACTCA
* * * * * *
11501347 AATATCATCATTGAGAAAATACAAATAATTTTATAATGCTCGGATATCATCACCTAGAAAATGTA
1 AATATCACCATCGAGAAAATACAAATAATTTTATAATGCTCGAATATCACCACCAAGAAAATGCA
* * * * * *
11501412 AATCAAACCTTAACACTTAGATATTATCACCGAGAAGATGTAAATAACTTCAGATATCGTTACTA
66 AATCAAACCTTAACACTAAGATATCACCACCGAGAAGATGCAAATAACTTCAGATATCATCACTA
*
11501477 AAGGAAACTCG
131 AA-GAAACTCA
11501488 AATATCACCATCGAGAAAAT
1 AATATCACCATCGAGAAAAT
11501508 GCAATTCAAG
Statistics
Matches: 138, Mismatches: 19, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
139 13 0.09
140 101 0.73
141 24 0.17
ACGTcount: A:0.44, C:0.19, G:0.11, T:0.26
Consensus pattern (140 bp):
AATATCACCATCGAGAAAATACAAATAATTTTATAATGCTCGAATATCACCACCAAGAAAATGCA
AATCAAACCTTAACACTAAGATATCACCACCGAGAAGATGCAAATAACTTCAGATATCATCACTA
AAGAAACTCA
Found at i:11501620 original size:82 final size:82
Alignment explanation
Indices: 11501490--11501963 Score: 598
Period size: 82 Copynumber: 5.8 Consensus size: 82
11501480 GAAACTCGAA
* * * *
11501490 TATCACCATCG-AGAAAATGCAATTCAAGCTTTAACATTCAGATATCACCATTGAA-AAGATGCA
1 TATCACCATCGAAG-AGATGCAATTCAAGCTTTATCACTCAGATATCACCACT-AAGAAGATGCA
*
11501553 AATAACTTTAACACTCGGG
64 AATGACTTTAACACTCGGG
*
11501572 TATCACCATCGAAGAGATGTAATTCAAGCTTTATCACTCAGATATCACCACTAAGAAGATGCAAA
1 TATCACCATCGAAGAGATGCAATTCAAGCTTTATCACTCAGATATCACCACTAAGAAGATGCAAA
*
11501637 TGACTTTAACACTCGGA
66 TGACTTTAACACTCGGG
* *
11501654 TATCACCATCGAAGAGATGTAATTCAAGCTTTATCACTCAGATATCACCACTGAGAAGATGCAAA
1 TATCACCATCGAAGAGATGCAATTCAAGCTTTATCACTCAGATATCACCACTAAGAAGATGCAAA
*
11501719 TGACTTTAACACTCAGG
66 TGACTTTAACACTCGGG
* * *
11501736 TATCACCATCGAAGAGATGTAATTCAAGCTTTATCACTCATATATTACCACTAAGAAGATGCAAA
1 TATCACCATCGAAGAGATGCAATTCAAGCTTTATCACTCAGATATCACCACTAAGAAGATGCAAA
11501801 TGACTTTAACACTCGGG
66 TGACTTTAACACTCGGG
* * * * * * *
11501818 TATCACCACCGAGGAGATGCAATTCAAGCTTTATCATTAAGATATCACCATTAAGAATATGCAAT
1 TATCACCATCGAAGAGATGCAATTCAAGCTTTATCACTCAGATATCACCACTAAGAAGATGCAAA
* *
11501883 TCAAACTTTAACACTCGGA
66 T--GACTTTAACACTCGGG
** * * * * * *
11501902 TATCATAATCGAAAATATGCAAAT-GA-CTTTAGCACTCGGATATCACCACTGAAG-AGATGCAA
1 TATCACCATCGAAGAGATGCAATTCAAGCTTTATCACTCAGATATCACCACT-AAGAAGATGCAA
11501964 TTCAAGTTTT
Statistics
Matches: 347, Mismatches: 40, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
81 2 0.01
82 308 0.89
83 6 0.02
84 31 0.09
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (82 bp):
TATCACCATCGAAGAGATGCAATTCAAGCTTTATCACTCAGATATCACCACTAAGAAGATGCAAA
TGACTTTAACACTCGGG
Found at i:11501714 original size:124 final size:123
Alignment explanation
Indices: 11501501--11502007 Score: 515
Period size: 124 Copynumber: 4.1 Consensus size: 123
11501491 ATCACCATCG
* * * *
11501501 AGAAAATGCAATTCAAGCTTTAACATTCAGATATCACCATTGAAAAGATGCAAATAACTTTAACA
1 AGAAGATGCAAATCAA-CTTTAACACTCAGATATCACCATCGAAAAGATGCAAATAACTTTAACA
* *
11501566 CTCGGGTATCACCA-TCGAAGAGATGTAATTCAAGCTTTATCACTCAGATATCACCACTA
65 CTCGGATATCACCACT-GAAGAGATGCAATTCAAGCTTTATCACTCAGATATCACCACTA
* * * * * *
11501625 AGAAGATGCAAAT-GACTTTAACACTCGGATATCACCATCGAAGAGATGTAATTCAAGCTTTATC
1 AGAAGATGCAAATCAACTTTAACACTCAGATATCACCATCGAAAAGATGCAAAT-AA-CTTTAAC
* * * * * *
11501689 ACTCAGATATCACCACTG-AGAAGATGCAAAT-GA-CTTTAACACTCAGGTATCACCATCGA
64 ACTCGGATATCACCACTGAAG-AGATGCAATTCAAGCTTTATCACTCAGATATCACCA-CTA
* * * * * * *
11501748 AG-AGATGTAATTCAAGCTTTATCACTCATATATTACCA-CTAAGAAGATGCAAATGACTTTAAC
1 AGAAGATGCAAATCAA-CTTTAACACTCAGATATCACCATCGAA-AAGATGCAAATAACTTTAAC
* * * * * *
11501811 ACTCGGGTATCACCACCGAGGAGATGCAATTCAAGCTTTATCATTAAGATATCACCATTA
64 ACTCGGATATCACCACTGAAGAGATGCAATTCAAGCTTTATCACTCAGATATCACCACTA
* * * ** * * *
11501871 AGAATATGCAATTCAAACTTTAACACTCGGATATCATAATCGAAAATATGCAAATGACTTTAGCA
1 AGAAGATGCAAATC-AACTTTAACACTCAGATATCACCATCGAAAAGATGCAAATAACTTTAACA
* *
11501936 CTCGGATATCACCACTGAAGAGATGCAATTCAAGTTTTATCACTCAGATATCACCACCA
65 CTCGGATATCACCACTGAAGAGATGCAATTCAAGCTTTATCACTCAGATATCACCACTA
11501995 AGAAGATGCAAAT
1 AGAAGATGCAAAT
11502008 GACTTCGGAT
Statistics
Matches: 305, Mismatches: 64, Indels: 28
0.77 0.16 0.07
Matches are distributed among these distances:
122 90 0.30
123 20 0.07
124 189 0.62
125 6 0.02
ACGTcount: A:0.38, C:0.21, G:0.14, T:0.26
Consensus pattern (123 bp):
AGAAGATGCAAATCAACTTTAACACTCAGATATCACCATCGAAAAGATGCAAATAACTTTAACAC
TCGGATATCACCACTGAAGAGATGCAATTCAAGCTTTATCACTCAGATATCACCACTA
Found at i:11502107 original size:97 final size:99
Alignment explanation
Indices: 11501970--11502185 Score: 267
Period size: 97 Copynumber: 2.2 Consensus size: 99
11501960 GCAATTCAAG
* * ** *
11501970 TTTTATCACTC-AGATATCACCACCAAGAAGATGCAAATGACTTCGGATATTACCACCAAAGGAA
1 TTTTAACACTCGA-ATATCACCACCAAGAAGATACAAATGACTTCAAATATCACCACCAAAGGAA
* *
11502034 ACTCGAATATCGCCATCGAAAAAATG-AAATGATT
65 ACTCAAATATCGCCATCGAAAAAATGCAAATAATT
* * * * **
11502068 TTTTAACA-TCGAATATCACCATCGAGAATATACAAATGACTTTAAATATCACCATTAAAGGAAA
1 TTTTAACACTCGAATATCACCACCAAGAAGATACAAATGACTTCAAATATCACCACCAAAGGAAA
*
11502132 CTCAAATATCGCCATCGAGAAAATGCAAATAATT
66 CTCAAATATCGCCATCGAAAAAATGCAAATAATT
*
11502166 TTTTAACACTCGGATATCAC
1 TTTTAACACTCGAATATCAC
11502186 TACCGAAAAA
Statistics
Matches: 100, Mismatches: 15, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
97 67 0.67
98 23 0.23
99 10 0.10
ACGTcount: A:0.42, C:0.20, G:0.12, T:0.26
Consensus pattern (99 bp):
TTTTAACACTCGAATATCACCACCAAGAAGATACAAATGACTTCAAATATCACCACCAAAGGAAA
CTCAAATATCGCCATCGAAAAAATGCAAATAATT
Found at i:11502198 original size:43 final size:43
Alignment explanation
Indices: 11502151--11502235 Score: 143
Period size: 43 Copynumber: 2.0 Consensus size: 43
11502141 CGCCATCGAG
*
11502151 AAAATGCAAATAATTTTTTAACACTCGGATATCACTACCGAAA
1 AAAATGCAAATAATTTTTTAACACTCGGATATCACCACCGAAA
* *
11502194 AAAATGCAACTGATTTTTTAACACTCGGATATCACCACCGAA
1 AAAATGCAAATAATTTTTTAACACTCGGATATCACCACCGAA
11502236 TACTTTAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.41, C:0.21, G:0.11, T:0.27
Consensus pattern (43 bp):
AAAATGCAAATAATTTTTTAACACTCGGATATCACCACCGAAA
Found at i:11502503 original size:35 final size:35
Alignment explanation
Indices: 11502446--11502548 Score: 143
Period size: 35 Copynumber: 2.9 Consensus size: 35
11502436 CACAACTATT
* *
11502446 ATGCAAATATCTTCTCTCAAAATGATGAAAATGAA
1 ATGCAAATATCTTTTCTTAAAATGATGAAAATGAA
* * *
11502481 ATGCAAATTTCTTTTCTTAAAATGATGCATATGAA
1 ATGCAAATATCTTTTCTTAAAATGATGAAAATGAA
* *
11502516 ATGCAAGTGTCTTTTCTTAAAATGATGAAAATG
1 ATGCAAATATCTTTTCTTAAAATGATGAAAATG
11502549 TCTATTTCTC
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
35 59 1.00
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.35
Consensus pattern (35 bp):
ATGCAAATATCTTTTCTTAAAATGATGAAAATGAA
Found at i:11502551 original size:24 final size:25
Alignment explanation
Indices: 11502523--11502573 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
11502513 GAAATGCAAG
*
11502523 TGTCT-TTTCTTAAAATGATGAAAA
1 TGTCTATTTCTCAAAATGATGAAAA
*
11502547 TGTCTATTTCTCAAAATGATGCAAA
1 TGTCTATTTCTCAAAATGATGAAAA
11502572 TG
1 TG
11502574 AAATGCAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.39
Consensus pattern (25 bp):
TGTCTATTTCTCAAAATGATGAAAA
Found at i:11502598 original size:60 final size:59
Alignment explanation
Indices: 11502485--11502599 Score: 167
Period size: 60 Copynumber: 1.9 Consensus size: 59
11502475 AATGAAATGC
* * * * **
11502485 AAATTTCTTTTCTTAAAATGATGCATATGAAATGCAAGTGTCTTTTCTTAAAATGATGA
1 AAATGTCTTTTCTCAAAATGATGCAAATGAAATGCAAATGTCTTTTCCAAAAATGATGA
11502544 AAATGTCTATTTCTCAAAATGATGCAAATGAAATGCAAATGTCTTTTCCAAAAATG
1 AAATGTCT-TTTCTCAAAATGATGCAAATGAAATGCAAATGTCTTTTCCAAAAATG
11502600 CCAATGTATA
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
59 7 0.14
60 42 0.86
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.37
Consensus pattern (59 bp):
AAATGTCTTTTCTCAAAATGATGCAAATGAAATGCAAATGTCTTTTCCAAAAATGATGA
Found at i:11503828 original size:13 final size:13
Alignment explanation
Indices: 11503810--11503834 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11503800 ATTCAATCAT
11503810 TTTTTTTTTTTTG
1 TTTTTTTTTTTTG
11503823 TTTTTTTTTTTT
1 TTTTTTTTTTTT
11503835 ACTTTTTCTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.00, G:0.04, T:0.96
Consensus pattern (13 bp):
TTTTTTTTTTTTG
Found at i:11507272 original size:15 final size:13
Alignment explanation
Indices: 11507229--11507275 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
11507219 TTTTGAGAGA
*
11507229 TTTTTTTTTG-TG
1 TTTTGTTTTGTTG
11507241 TTTCTGTTTTGTTG
1 TTT-TGTTTTGTTG
11507255 TTTTGTTTTGCTTTG
1 TTTTGTTTTG--TTG
11507270 TTTTGT
1 TTTTGT
11507276 ATTTTTACAG
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
12 3 0.10
13 13 0.43
14 5 0.17
15 9 0.30
ACGTcount: A:0.00, C:0.04, G:0.19, T:0.77
Consensus pattern (13 bp):
TTTTGTTTTGTTG
Found at i:11509963 original size:22 final size:24
Alignment explanation
Indices: 11509920--11509963 Score: 56
Period size: 22 Copynumber: 1.9 Consensus size: 24
11509910 AAAAAAAAAA
*
11509920 AAAAGAAAAGGAAAAGAGAAATGG
1 AAAAGAAAAGGAAAAAAGAAATGG
*
11509944 AAAA-AAAA-GAAAAAATAAAT
1 AAAAGAAAAGGAAAAAAGAAAT
11509964 AAAAATAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 10 0.56
23 4 0.22
24 4 0.22
ACGTcount: A:0.75, C:0.00, G:0.18, T:0.07
Consensus pattern (24 bp):
AAAAGAAAAGGAAAAAAGAAATGG
Found at i:11509969 original size:28 final size:28
Alignment explanation
Indices: 11509916--11509969 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
11509906 CTATAAAAAA
* *
11509916 AAAAAAAAGAAAAGGAAAAGAGAAATGG
1 AAAAAAAAGAAAAGAAAAAGAAAAATGG
*
11509944 AAAAAAAAGAAAA-AATAAATAAAAAT
1 AAAAAAAAGAAAAGAA-AAAGAAAAAT
11509970 AATAAAATGG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 1 0.05
28 21 0.95
ACGTcount: A:0.78, C:0.00, G:0.15, T:0.07
Consensus pattern (28 bp):
AAAAAAAAGAAAAGAAAAAGAAAAATGG
Found at i:11516406 original size:129 final size:129
Alignment explanation
Indices: 11516233--11516487 Score: 415
Period size: 129 Copynumber: 2.0 Consensus size: 129
11516223 AAAATACTTT
*
11516233 TTTTGATAATTTTTATTTTAGAAATTTCATTTTCAAGAAAAATTGATACTTTCAACTTTTTCCT-
1 TTTTGAAAATTTTTATTTTAGAAATTTCATTTTCAAGAAAAATTGATACTTTCAACTTTTTCCTA
*
11516297 AAAATATTTTTTAAACCTTTTTATTTTCAAG-GAAAATTAATGCTTTCAACTTTCCCCTAAAATG
66 AAAATATTTTTTAAACCTTTTTATTTTCAAGAG-AAATTAATACTTTCAAC-TTCCCCTAAAATG
11516361 C
129 C
* * *
11516362 TTTTGAAAATTTTTATTTTAGAAATTTTATTTTTAAGGAAAATTGATACTTTCAACTTTTTCCTA
1 TTTTGAAAATTTTTATTTTAGAAATTTCATTTTCAAGAAAAATTGATACTTTCAACTTTTTCCTA
* *
11516427 AAAATATTTTTTAAACCTTTTTATTTTCAAGAGAAATTGATACTTTCAACTTCTCCTAAAA
66 AAAATATTTTTTAAACCTTTTTATTTTCAAGAGAAATTAATACTTTCAACTTCCCCTAAAA
11516488 ATATTGTTTT
Statistics
Matches: 117, Mismatches: 7, Indels: 4
0.91 0.05 0.03
Matches are distributed among these distances:
129 70 0.60
130 46 0.39
131 1 0.01
ACGTcount: A:0.34, C:0.13, G:0.06, T:0.47
Consensus pattern (129 bp):
TTTTGAAAATTTTTATTTTAGAAATTTCATTTTCAAGAAAAATTGATACTTTCAACTTTTTCCTA
AAAATATTTTTTAAACCTTTTTATTTTCAAGAGAAATTAATACTTTCAACTTCCCCTAAAATGC
Found at i:11516492 original size:58 final size:60
Alignment explanation
Indices: 11516386--11516497 Score: 176
Period size: 59 Copynumber: 1.9 Consensus size: 60
11516376 ATTTTAGAAA
* *
11516386 TTTTATTTTTAAGGAAAATTGATACTTTCAACTTTTTCCTAAAAATATT-TTTTAAACCT
1 TTTTATTTTCAAGGAAAATTGATACTTTCAACTTTCTCCTAAAAATATTGTTTTAAACCT
11516445 TTTTATTTTCAA-GAGAAATTGATACTTTCAAC-TTCTCCTAAAAATATTGTTTT
1 TTTTATTTTCAAGGA-AAATTGATACTTTCAACTTTCTCCTAAAAATATTGTTTT
11516498 TAGAAATTTT
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
58 17 0.35
59 32 0.65
ACGTcount: A:0.33, C:0.12, G:0.06, T:0.48
Consensus pattern (60 bp):
TTTTATTTTCAAGGAAAATTGATACTTTCAACTTTCTCCTAAAAATATTGTTTTAAACCT
Found at i:11516553 original size:11 final size:10
Alignment explanation
Indices: 11516527--11516551 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
11516517 AAAATCATTG
11516527 AAAAATAAAT
1 AAAAATAAAT
11516537 AAAAATAAAT
1 AAAAATAAAT
11516547 AAAAA
1 AAAAA
11516552 ATTAAGGAAT
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:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (10 bp):
AAAAATAAAT
Found at i:11517437 original size:20 final size:18
Alignment explanation
Indices: 11517403--11517439 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 18
11517393 AACAAAAAAC
11517403 AAAAAATAATAAAATAAT
1 AAAAAATAATAAAATAAT
11517421 AAAAAATATATATAAATAA
1 AAAAAATA-ATA-AAATAA
11517440 ACCCAAATCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.47
19 3 0.18
20 6 0.35
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (18 bp):
AAAAAATAATAAAATAAT
Found at i:11517823 original size:88 final size:89
Alignment explanation
Indices: 11517652--11518100 Score: 283
Period size: 88 Copynumber: 5.1 Consensus size: 89
11517642 CAATTCTTGG
* * * * *
11517652 AAAATAAACAAAGCTCATCTAAAT-AGAGGTTCAATGACTTTT-AAAAATAAACAAAACT-CTTT
1 AAAATAAACAAAGCTCCTCTAAATAAAAGCTT-AACGACTTTTGAAAAATAAACAAAACTCCTCT
* * *
11517714 TAGACAAAGGCTCAACGACTTTTGA
65 AAGACAAAGGCTCAACAACTTTTAA
* *
11517739 AAAATAAATAAAGCTCCTCTAAATAAAAGCTTAACGACTTTTGAAAAATAAGCAAAACTCCTCTA
1 AAAATAAACAAAGCTCCTCTAAATAAAAGCTTAACGACTTTTGAAAAATAAACAAAACTCCTCTA
*
11517804 AG-CAGAGGCTCAACAACTTTTAA
66 AGACAAAGGCTCAACAACTTTTAA
* * * * * * *
11517827 AAAATAAAACAAAGCTTCTTTAAGTAAAGGCTCAACGACTTTGGAAAACATAAACAAAGCTCCTC
1 AAAAT-AAACAAAGCTCCTCTAAATAAAAGCTTAACGACTTTTGAAAA-ATAAACAAAACTCCTC
* ** *
11517892 TAA-ACAAAGGCCCAATGACTTTGAA
64 TAAGACAAAGGCTCAACAACTTTTAA
* * * * * *** * * * *
11517917 AAAA-ATAA-AATGCTCTTCTAAACAGAGGCACCACAACTTTGGAAAACATAAATAAAGCTCCTC
1 AAAATA-AACAAAGCTCCTCTAAATAAAAGCTTAACGACTTTTGAAAA-ATAAACAAAACTCCTC
* * * * * *
11517980 TAA-ATAGAGGCTTAATAAC-TGT-G
64 TAAGACAAAGGCTCAACAACTTTTAA
* * * * * * * * *
11518003 AAAATAAACAAAGC-CCATCTAGACAGAAGCTCAATGACTTTGGAAAACATAAACAAAGCTCATA
1 AAAATAAACAAAGCTCC-TCTAAATAAAAGCTTAACGACTTTTGAAAA-ATAAACAAAACTCCTC
* *
11518067 TAA-ACAAAGGCTCAATAACTTTGAAA
64 TAAGACAAAGGCTCAACAACTTT-TAA
11518093 AAAATAAA
1 AAAATAAA
11518101 ATGCTTCTCT
Statistics
Matches: 288, Mismatches: 61, Indels: 23
0.77 0.16 0.06
Matches are distributed among these distances:
86 7 0.02
87 91 0.32
88 103 0.36
89 42 0.15
90 45 0.16
ACGTcount: A:0.47, C:0.18, G:0.12, T:0.22
Consensus pattern (89 bp):
AAAATAAACAAAGCTCCTCTAAATAAAAGCTTAACGACTTTTGAAAAATAAACAAAACTCCTCTA
AGACAAAGGCTCAACAACTTTTAA
Found at i:11517868 original size:45 final size:44
Alignment explanation
Indices: 11517652--11518195 Score: 305
Period size: 45 Copynumber: 12.3 Consensus size: 44
11517642 CAATTCTTGG
* * * * *
11517652 AAAATAAACAAAGCTCATCTAAATAGAGGTTCAATGACTTTT-A
1 AAAATAAACAAAGCTCCTCTAAACAAAGGCTCAACGACTTTTAA
* * * * *
11517695 AAAATAAACAAAACTCTTTTAGACAAAGGCTCAACGACTTTTGA
1 AAAATAAACAAAGCTCCTCTAAACAAAGGCTCAACGACTTTTAA
* * * * *
11517739 AAAATAAATAAAGCTCCTCTAAATAAAAGCTTAACGACTTTTGA
1 AAAATAAACAAAGCTCCTCTAAACAAAGGCTCAACGACTTTTAA
* * * * *
11517783 AAAATAAGCAAAACTCCTCTAAGCAGAGGCTCAACAACTTTTAA
1 AAAATAAACAAAGCTCCTCTAAACAAAGGCTCAACGACTTTTAA
* * ** *
11517827 AAAATAAAACAAAGCTTCTTTAAGTAAAGGCTCAACGACTTTGGAA
1 AAAAT-AAACAAAGCTCCTCTAAACAAAGGCTCAACGACTTT-TAA
* * * *
11517873 AACATAAACAAAGCTCCTCTAAACAAAGGCCCAATGACTTTGAA
1 AAAATAAACAAAGCTCCTCTAAACAAAGGCTCAACGACTTTTAA
* * * * * * *
11517917 AAAA-ATAA-AATGCTCTTCTAAACAGAGGCACCACAACTTTGGAA
1 AAAATA-AACAAAGCTCCTCTAAACAAAGGCTCAACGACTTT-TAA
* * * * * ** * *
11517961 AACATAAATAAAGCTCCTCTAAATAGAGGCTTAATAAC-TGT-G
1 AAAATAAACAAAGCTCCTCTAAACAAAGGCTCAACGACTTTTAA
* * *
11518003 AAAATAAACAAAGC-CCATCTAGACAGAA-GCTCAATGACTTTGGAA
1 AAAATAAACAAAGCTCC-TCTAAACA-AAGGCTCAACGACTTT-TAA
* * * ** *
11518048 AACATAAACAAAGCTCATATAAACAAAGGCTCAATAACTTTGAA
1 AAAATAAACAAAGCTCCTCTAAACAAAGGCTCAACGACTTTTAA
* * * * * ** *
11518092 AAAA-ATAA-AATGCTTCTCTAAACAGAGGCACCATAACTTTGGAA
1 AAAATA-AACAAAGCTCCTCTAAACAAAGGCTCAACGACTTT-TAA
** * * * * *
11518136 AAACATAAACAAAGCTCCTCTAAGTAGAGGCTTAACAACTATGAA
1 AAA-ATAAACAAAGCTCCTCTAAACAAAGGCTCAACGACTTTTAA
*
11518181 AAAATAAATAAAGCT
1 AAAATAAACAAAGCT
11518196 TATCTAATAA
Statistics
Matches: 389, Mismatches: 93, Indels: 37
0.75 0.18 0.07
Matches are distributed among these distances:
41 2 0.01
42 26 0.07
43 88 0.23
44 120 0.31
45 122 0.31
46 31 0.08
ACGTcount: A:0.47, C:0.18, G:0.12, T:0.22
Consensus pattern (44 bp):
AAAATAAACAAAGCTCCTCTAAACAAAGGCTCAACGACTTTTAA
Found at i:11518054 original size:175 final size:176
Alignment explanation
Indices: 11517856--11518182 Score: 541
Period size: 175 Copynumber: 1.9 Consensus size: 176
11517846 TTAAGTAAAG
* * *
11517856 GCTCAACGACTTTGGAAAACATAAACAAAGCTCCTCTAAACAAAGGCCCAATGACTTTGAAAAAA
1 GCTCAACGACTTTGGAAAACATAAACAAAGCTCATATAAACAAAGGCCCAATAACTTTGAAAAAA
*
11517921 ATAAAATGC-TCTTCTAAACAGAGGCACCACAACTTTGG-AAAACATAAATAAAGCTCCTCTAAA
66 ATAAAATGCTTC-TCTAAACAGAGGCACCACAACTTTGGAAAAACATAAACAAAGCTCCTCTAAA
* *
11517984 TAGAGGCTTAATAACTGTGAAAATAAACAAAGCCCATCTAGACAGAA
130 TAGAGGCTTAACAACTATGAAAATAAACAAAGCCCATCTAGACAGAA
* *
11518031 GCTCAATGACTTTGGAAAACATAAACAAAGCTCATATAAACAAAGGCTCAATAACTTTGAAAAAA
1 GCTCAACGACTTTGGAAAACATAAACAAAGCTCATATAAACAAAGGCCCAATAACTTTGAAAAAA
* *
11518096 ATAAAATGCTTCTCTAAACAGAGGCACCATAACTTTGGAAAAACATAAACAAAGCTCCTCTAAGT
66 ATAAAATGCTTCTCTAAACAGAGGCACCACAACTTTGGAAAAACATAAACAAAGCTCCTCTAAAT
11518161 AGAGGCTTAACAACTATGAAAA
131 AGAGGCTTAACAACTATGAAAA
11518183 AATAAATAAA
Statistics
Matches: 140, Mismatches: 10, Indels: 3
0.92 0.07 0.02
Matches are distributed among these distances:
175 94 0.67
176 46 0.33
ACGTcount: A:0.46, C:0.20, G:0.13, T:0.21
Consensus pattern (176 bp):
GCTCAACGACTTTGGAAAACATAAACAAAGCTCATATAAACAAAGGCCCAATAACTTTGAAAAAA
ATAAAATGCTTCTCTAAACAGAGGCACCACAACTTTGGAAAAACATAAACAAAGCTCCTCTAAAT
AGAGGCTTAACAACTATGAAAATAAACAAAGCCCATCTAGACAGAA
Found at i:11518071 original size:15 final size:15
Alignment explanation
Indices: 11518051--11518084 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
11518041 TTTGGAAAAC
11518051 ATAAACAAA-GCTCA
1 ATAAACAAAGGCTCA
11518065 TATAAACAAAGGCTCA
1 -ATAAACAAAGGCTCA
11518081 ATAA
1 ATAA
11518085 CTTTGAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.56, C:0.18, G:0.09, T:0.18
Consensus pattern (15 bp):
ATAAACAAAGGCTCA
Found at i:11518128 original size:130 final size:130
Alignment explanation
Indices: 11517876--11518158 Score: 286
Period size: 130 Copynumber: 2.1 Consensus size: 130
11517866 TTTGGAAAAC
* * *
11517876 ATAAACAAAGCTCCTCTAAACAAAGGCCCAATGACTTTGAAAAAAATAAAATGCTCTTCTAAACA
1 ATAAACAAAGCTCCTCTAAACAAAGGCCCAATGACTTTGAAAAAAATAAAAAGCTCATATAAACA
* * * * * **
11517941 GAGGCACCACAACTTTGGAAAACATAAATAAAGCTCCTCTAAATAGAGGCTTAATAACTGTGAAA
66 AAGGCACAACAACTTTGAAAAAAATAAATAAAGCTCCTCTAAACAGAGGCACAATAACTGTGAAA
* * * *
11518006 ATAAACAAAGC-CCATCTAGACAGAA-GCTCAATGACTTTGGAAAACATAAACAAAGCTCATATA
1 ATAAACAAAGCTCC-TCTAAACA-AAGGCCCAATGACTTTGAAAAAAAT-AA-AAAGCTCATATA
* * * * * *
11518069 AACAAAGGCTCAATAACTTTGAAAAAAAT-AA-AATGCTTCTCTAAACAGAGGCACCATAACTTT
62 AACAAAGGCACAACAACTTTGAAAAAAATAAATAAAGCTCCTCTAAACAGAGGCACAATAACTGT
11518132 GGAAAAA
127 -G--AAA
11518139 CATAAACAAAGCTCCTCTAA
1 -ATAAACAAAGCTCCTCTAA
11518159 GTAGAGGCTT
Statistics
Matches: 123, Mismatches: 21, Indels: 14
0.78 0.13 0.09
Matches are distributed among these distances:
129 2 0.02
130 62 0.50
131 7 0.06
132 32 0.26
133 3 0.02
134 15 0.12
135 2 0.02
ACGTcount: A:0.47, C:0.20, G:0.12, T:0.21
Consensus pattern (130 bp):
ATAAACAAAGCTCCTCTAAACAAAGGCCCAATGACTTTGAAAAAAATAAAAAGCTCATATAAACA
AAGGCACAACAACTTTGAAAAAAATAAATAAAGCTCCTCTAAACAGAGGCACAATAACTGTGAAA
Found at i:11519271 original size:6 final size:6
Alignment explanation
Indices: 11519262--11519300 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
11519252 TTTTTTTATT
**
11519262 TTTTCA TTTTCA TTTTTT TTTTCA TTTTC- TTTTCA TTTT
1 TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA TTTT
11519301 TTATTTTTCA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
5 5 0.18
6 23 0.82
ACGTcount: A:0.10, C:0.13, G:0.00, T:0.77
Consensus pattern (6 bp):
TTTTCA
Found at i:11519281 original size:23 final size:22
Alignment explanation
Indices: 11519252--11519307 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 22
11519242 TTGAGTCTTC
*
11519252 TTTTTTTATT-TTTTCATTTTCA
1 TTTTTTTTTTATTTTC-TTTTCA
11519274 TTTTTTTTTTCATTTTCTTTTCA
1 TTTTTTTTTT-ATTTTCTTTTCA
11519297 TTTTTTATTTT
1 TTTTTT-TTTT
11519308 TCAAGCATAG
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
22 9 0.30
23 12 0.40
24 9 0.30
ACGTcount: A:0.11, C:0.09, G:0.00, T:0.80
Consensus pattern (22 bp):
TTTTTTTTTTATTTTCTTTTCA
Found at i:11519283 original size:18 final size:18
Alignment explanation
Indices: 11519255--11519307 Score: 74
Period size: 18 Copynumber: 2.9 Consensus size: 18
11519245 AGTCTTCTTT
11519255 TTTTATTTTTTCATTTTC
1 TTTTATTTTTTCATTTTC
11519273 ATTTT-TTTTTTCATTTTC
1 -TTTTATTTTTTCATTTTC
11519291 TTTTCATTTTTT-ATTTT
1 TTTT-ATTTTTTCATTTT
11519308 TCAAGCATAG
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
17 4 0.12
18 18 0.56
19 10 0.31
ACGTcount: A:0.11, C:0.09, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTTATTTTTTCATTTTC
Found at i:11519289 original size:11 final size:11
Alignment explanation
Indices: 11519268--11519302 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
11519258 TATTTTTTCA
11519268 TTTTCATTTTTT
1 TTTTCA-TTTTT
*
11519280 TTTTCATTTTC
1 TTTTCATTTTT
11519291 TTTTCATTTTT
1 TTTTCATTTTT
11519302 T
1 T
11519303 ATTTTTCAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 15 0.71
12 6 0.29
ACGTcount: A:0.09, C:0.11, G:0.00, T:0.80
Consensus pattern (11 bp):
TTTTCATTTTT
Found at i:11528714 original size:4 final size:4
Alignment explanation
Indices: 11528705--11528730 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
11528695 AATGGAGAGA
11528705 AATT AATT AATT AATT AATT AATT AA
1 AATT AATT AATT AATT AATT AATT AA
11528731 AACGTCACAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (4 bp):
AATT
Found at i:11530011 original size:15 final size:15
Alignment explanation
Indices: 11529977--11530009 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
11529967 CCTAAAATGC
*
11529977 TTTTGGAAATTTTTA
1 TTTTAGAAATTTTTA
11529992 TTTTAGAAA-TTTTA
1 TTTTAGAAATTTTTA
11530006 TTTT
1 TTTT
11530010 TAAAGAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.27, C:0.00, G:0.09, T:0.64
Consensus pattern (15 bp):
TTTTAGAAATTTTTA
Found at i:11530029 original size:130 final size:130
Alignment explanation
Indices: 11529807--11530129 Score: 418
Period size: 130 Copynumber: 2.4 Consensus size: 130
11529797 TTTTAATTTT
* * * * *
11529807 GAAAGAAATTGATACTTTCAACTTTACCTCAAAATACTTTTCTTGATAATTTTTATCTTAGAAAT
1 GAAA-AAATTAATACTTTCAACTTTTCCTAAAAATAC-TTT-TAGA-AATTTTTATTTTAGAAAT
* *
11529872 TTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCCTAAAAACATTTTTTAAACTTTTTTATT
62 TTTATTTTAAAGAAAAATTGATACTTTCAACTTTTCCCTAAAAACATTTTTTAAACCTTTTTATT
11529937 TTCAA
127 TT-AA
* *
11529942 G-AAAAATTAATACTTTCAACTTTTCCCT-AAAATGCTTTTGGAAATTTTTATTTTAGAAATTTT
1 GAAAAAATTAATACTTTCAACTTTT-CCTAAAAATACTTTTAGAAATTTTTATTTTAGAAATTTT
*
11530005 ATTTTTAAAG-AAAATTGATACTTTCAACTTTTTCCTAAAAACATTTTTTAAACCTTTTTATTTT
65 A-TTTTAAAGAAAAATTGATACTTTCAACTTTTCCCTAAAAACATTTTTTAAACCTTTTTATTTT
*
11530069 TA
129 AA
* * *
11530071 GAAAAAATTTATACTTTCAACTTCTCCTAAAAATATTTTTTTAGAAATTTTTATTTTAG
1 GAAAAAATTAATACTTTCAACTTTTCCTAAAAATA--CTTTTAGAAATTTTTATTTTAG
11530130 GAAAATCATT
Statistics
Matches: 168, Mismatches: 14, Indels: 15
0.85 0.07 0.08
Matches are distributed among these distances:
129 5 0.03
130 99 0.59
131 10 0.06
132 23 0.14
133 25 0.15
134 5 0.03
135 1 0.01
ACGTcount: A:0.36, C:0.12, G:0.05, T:0.47
Consensus pattern (130 bp):
GAAAAAATTAATACTTTCAACTTTTCCTAAAAATACTTTTAGAAATTTTTATTTTAGAAATTTTA
TTTTAAAGAAAAATTGATACTTTCAACTTTTCCCTAAAAACATTTTTTAAACCTTTTTATTTTAA
Found at i:11530134 original size:59 final size:60
Alignment explanation
Indices: 11529983--11530127 Score: 183
Period size: 59 Copynumber: 2.5 Consensus size: 60
11529973 ATGCTTTTGG
* *
11529983 AAATTTTTATTTTAGAAA-TTTTATTTTTA-AAGAAAATTGATACTTTCAACTTTTTCCTAA
1 AAATATTT-TTTTAGAAATTTTTATTTTTAGAA-AAAATTGATACTTTCAACTTTCTCCTAA
* * *
11530043 AAACA-TTTTTTA-AACCTTTTTATTTTTAGAAAAAATTTATACTTTCAAC-TTCTCCTAA
1 AAATATTTTTTTAGAA-ATTTTTATTTTTAGAAAAAATTGATACTTTCAACTTTCTCCTAA
11530101 AAATATTTTTTTAGAAATTTTTATTTT
1 AAATATTTTTTTAGAAATTTTTATTTT
11530128 AGGAAAATCA
Statistics
Matches: 73, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
57 2 0.03
58 17 0.23
59 47 0.64
60 7 0.10
ACGTcount: A:0.36, C:0.10, G:0.03, T:0.51
Consensus pattern (60 bp):
AAATATTTTTTTAGAAATTTTTATTTTTAGAAAAAATTGATACTTTCAACTTTCTCCTAA
Found at i:11530165 original size:6 final size:6
Alignment explanation
Indices: 11530154--11530184 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
11530144 AAAGAAAAAT
11530154 AATAAA AATAAA AATAAA AAT-AA AATAAA AA
1 AATAAA AATAAA AATAAA AATAAA AATAAA AA
11530185 ATTAAGGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.21
6 19 0.79
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AATAAA
Found at i:11530186 original size:12 final size:12
Alignment explanation
Indices: 11530154--11530184 Score: 55
Period size: 11 Copynumber: 2.7 Consensus size: 12
11530144 AAAGAAAAAT
11530154 AATAAAAATAAA
1 AATAAAAATAAA
11530166 AATAAAAAT-AA
1 AATAAAAATAAA
11530177 AATAAAAA
1 AATAAAAA
11530185 ATTAAGGAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (12 bp):
AATAAAAATAAA
Found at i:11531880 original size:15 final size:16
Alignment explanation
Indices: 11531848--11531884 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
11531838 ATAGAATTAT
*
11531848 TTTAA-AAATATTATA
1 TTTAACAAATATTAAA
11531863 TTTAACAAAT-TTAAA
1 TTTAACAAATATTAAA
11531878 TTTAACA
1 TTTAACA
11531885 TTAACCCGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 16 0.80
16 4 0.20
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.43
Consensus pattern (16 bp):
TTTAACAAATATTAAA
Found at i:11533601 original size:20 final size:21
Alignment explanation
Indices: 11533576--11533614 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
11533566 AAAAAAATTT
*
11533576 TTTATTG-TATATTTATTGAG
1 TTTATTGTTAAATTTATTGAG
11533596 TTTATTGTTAAATTTATTG
1 TTTATTGTTAAATTTATTG
11533615 TTATAGATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.26, C:0.00, G:0.13, T:0.62
Consensus pattern (21 bp):
TTTATTGTTAAATTTATTGAG
Done.