Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 103 of 425
Found at i:29899019 original size:40 final size:40
Alignment explanation
Indices: 29898822--29899025 Score: 230
Period size: 40 Copynumber: 5.1 Consensus size: 40
29898812 TGAATGATAC
* * ** * **
29898822 CCGGGCTAAGTCCCGAAGACATTTATGCTAGTATTTATAT
1 CCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTATAT
* * ** *
29898862 CCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGACTACAT
1 CCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTGGTTATAT
*
29898902 CCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTATAT
* * *
29898942 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTATAT
**
29898982 CCGGGCTAAGACCCGAAGGCATTCGTGCGTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTATAT
29899022 CCGG
1 CCGG
29899026 TTGTATTCCG
Statistics
Matches: 140, Mismatches: 22, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
39 3 0.02
40 134 0.96
41 3 0.02
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTATAT
Found at i:29901199 original size:18 final size:18
Alignment explanation
Indices: 29901173--29901207 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
29901163 CTGATATCTT
*
29901173 TTTCAAAACTGTTTTCAC
1 TTTCAAAACTATTTTCAC
*
29901191 TTTCTAAACTATTTTCA
1 TTTCAAAACTATTTTCA
29901208 TCTCTGTAAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.20, G:0.03, T:0.49
Consensus pattern (18 bp):
TTTCAAAACTATTTTCAC
Found at i:29905333 original size:27 final size:27
Alignment explanation
Indices: 29905303--29905615 Score: 410
Period size: 27 Copynumber: 11.6 Consensus size: 27
29905293 TTAGTTTACC
*
29905303 AAATTACCAAAATACCCCTGGTTTTTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
29905330 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
29905357 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * **
29905384 AAATTACCAAAATACCCTTCGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
29905411 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
29905438 AAATTACTAGAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
29905465 AAATCACCAACATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
29905492 AAATTACCAAAATACCCATGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
29905519 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
29905546 AAATTACCAAAATAGCACTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
29905573 AAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
**
29905600 AAATTACTGAAATACC
1 AAATTACCAAAATACC
29905616 TTTGACCTGT
Statistics
Matches: 248, Mismatches: 38, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 248 1.00
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:29905627 original size:54 final size:54
Alignment explanation
Indices: 29905303--29905670 Score: 434
Period size: 54 Copynumber: 6.8 Consensus size: 54
29905293 TTAGTTTACC
* * *
29905303 AAATTACCAAAATACCCCTGGTTTTTAAAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTGTA
* * **
29905357 AAATCACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTCGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTGTA
* * * *
29905411 AAATTACCAAAATACCCTTGGTTTGTAAAATTACTAGAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTGTA
* * *
29905465 AAATCACCAACATACCCCTGGTTTGTAAAATTACCAAAATACCCATGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTGTA
* *
29905519 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATAGCAC-TAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATA-CCCTTGGTTTGTA
* * ** * ***
29905573 AAATTACCAAAATACCCCTGATTTGTGAAATTACTGAAATACCTTTGACCTGTA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTGTA
*** ** *
29905627 AAATTATTGAAATA-CCCTCGACTTGTAAAATTACCAAAGTACCC
1 AAATTACCAAAATACCCCT-GGTTTGTAAAATTACCAAAATACCC
29905671 CTAATTTATA
Statistics
Matches: 270, Mismatches: 41, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
53 5 0.02
54 263 0.97
55 2 0.01
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.31
Consensus pattern (54 bp):
AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTGTA
Found at i:29905627 original size:81 final size:80
Alignment explanation
Indices: 29905303--29905672 Score: 398
Period size: 81 Copynumber: 4.6 Consensus size: 80
29905293 TTAGTTTACC
* * * * * *
29905303 AAATTACCAAAATACCCCTGGTTTTTAAAATTACTAAAATACCCTTGGTTTATAAAATCACCAAA
1 AAATTACCAAAATA-CCCTCGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAA
29905368 ATACCCCTGGTTTGTA
65 ATACCCCTGGTTTGTA
** * * *
29905384 AAATTACCAAAATACCCTTCGTTTACAAAATTACCAAAATACCCTTGGTTTGTAAAATTACTAGA
1 AAATTACCAAAATACCC-TCGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAA
* *
29905449 ATACCCTTGGTTTATA
65 ATACCCCTGGTTTGTA
* * * *
29905465 AAATCACCAACATACCCCTGGTTTGTAAAATTACCAAAATACCCATGGTTTGTAAAATTACCAAA
1 AAATTACCAAAATA-CCCTCGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAA
29905530 ATACCCCTGGTTTGTA
65 ATACCCCTGGTTTGTA
* * * * **
29905546 AAATTACCAAAATAGCACTAGTTTGTAAAATTACCAAAATACCCCTGATTTGTGAAATTACTGAA
1 AAATTACCAAAATA-CCCTCGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAA
** ***
29905611 ATACCTTTGACCTGTA
65 ATACCCCTGGTTTGTA
*** * *
29905627 AAATTATTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCCT
1 AAATTACCAAAATACCCTCG-TTTGTAAAATTACCAAAATACCCCT
29905673 AATTTATAGA
Statistics
Matches: 244, Mismatches: 42, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
80 7 0.03
81 234 0.96
82 3 0.01
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (80 bp):
AAATTACCAAAATACCCTCGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAA
TACCCCTGGTTTGTA
Found at i:29905669 original size:27 final size:27
Alignment explanation
Indices: 29905303--29905670 Score: 329
Period size: 27 Copynumber: 13.6 Consensus size: 27
29905293 TTAGTTTACC
*
29905303 AAATTACCAAAATACCC-CTGGTTTTTA
1 AAATTACCAAAATACCCTC-GGTTTGTA
* * *
29905330 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTCGGTTTGTA
*
29905357 AAATCACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GGTTTGTA
**
29905384 AAATTACCAAAATACCCTTC-GTTTACA
1 AAATTACCAAAATACCC-TCGGTTTGTA
*
29905411 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTCGGTTTGTA
* * * *
29905438 AAATTACTAGAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTCGGTTTGTA
* *
29905465 AAATCACCAACATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GGTTTGTA
29905492 AAATTACCAAAATACCCAT-GGTTTGTA
1 AAATTACCAAAATACCC-TCGGTTTGTA
29905519 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GGTTTGTA
* *
29905546 AAATTACCAAAATAGCACT-AGTTTGTA
1 AAATTACCAAAATA-CCCTCGGTTTGTA
* *
29905573 AAATTACCAAAATACCC-CTGATTTGTG
1 AAATTACCAAAATACCCTC-GGTTTGTA
** * * ***
29905600 AAATTACTGAAATACCTTTGACCTGTA
1 AAATTACCAAAATACCCTCGGTTTGTA
*** **
29905627 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTCGGTTTGTA
*
29905654 AAATTACCAAAGTACCC
1 AAATTACCAAAATACCC
29905671 CTAATTTATA
Statistics
Matches: 281, Mismatches: 45, Indels: 30
0.79 0.13 0.08
Matches are distributed among these distances:
26 3 0.01
27 275 0.98
28 2 0.01
29 1 0.00
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGGTTTGTA
Found at i:29905745 original size:27 final size:27
Alignment explanation
Indices: 29905707--29906333 Score: 920
Period size: 27 Copynumber: 23.3 Consensus size: 27
29905697 CTCAATTTAC
* * *
29905707 AATTACCGAAATACCCTTGCAGGGTAG
1 AATTACCGCAATACCCCTGTAGGGTAG
* * * *
29905734 AAATATCGAAATACCCTTGTAGGGTAG
1 AATTACCGCAATACCCCTGTAGGGTAG
* *
29905761 AATTACCGAAATACCCCTGTATGGTAG
1 AATTACCGCAATACCCCTGTAGGGTAG
29905788 AATTACCGCAATACCCCTGTAGGGTAG
1 AATTACCGCAATACCCCTGTAGGGTAG
29905815 AATTACCGCAATACCCCTGTAGGGTAG
1 AATTACCGCAATACCCCTGTAGGGTAG
** *
29905842 AATTATTGCAATACCCTTGTAGGGTAG
1 AATTACCGCAATACCCCTGTAGGGTAG
*
29905869 AATTACTGCAATACCCCTGTAGGGTAG
1 AATTACCGCAATACCCCTGTAGGGTAG
29905896 AATTACCTG-AATACCCCTGTAGGGTAG
1 AATTACC-GCAATACCCCTGTAGGGTAG
* *
29905923 AATTACCGAAATACGCCTGTAGGGTAG
1 AATTACCGCAATACCCCTGTAGGGTAG
*
29905950 AATTACCGGAATACCCCTGTAGGGTAG
1 AATTACCGCAATACCCCTGTAGGGTAG
*
29905977 AATTATCGCAATACCCCTGTAGGGTAG
1 AATTACCGCAATACCCCTGTAGGGTAG
*
29906004 AATTATCGCAATACCCCTGTAGGGTAG
1 AATTACCGCAATACCCCTGTAGGGTAG
29906031 AATTACCGCAATACCCCTGTAGGGTAG
1 AATTACCGCAATACCCCTGTAGGGTAG
*
29906058 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGCAATACCCCTGTAGGGTAG
*
29906085 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGCAATACCCCTGTAGGGTAG
*
29906112 AATTATCGCAATACCCCTGTAGGGTAG
1 AATTACCGCAATACCCCTGTAGGGTAG
29906139 AATTACCGCAATACCCCTGTAGGGTAG
1 AATTACCGCAATACCCCTGTAGGGTAG
*
29906166 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGCAATACCCCTGTAGGGTAG
*
29906193 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGCAATACCCCTGTAGGGTAG
*
29906220 AATTATCGCAATACCCCTGTAGGGTAG
1 AATTACCGCAATACCCCTGTAGGGTAG
29906247 AATTACCG-AGATACCCCTGTAGGGTAG
1 AATTACCGCA-ATACCCCTGTAGGGTAG
*** *
29906274 AATTACTAAAATACCCCTGTAGGGTGG
1 AATTACCGCAATACCCCTGTAGGGTAG
* * *
29906301 AATTACCG-AGATA-CCTTGTGGGGTAA
1 AATTACCGCA-ATACCCCTGTAGGGTAG
29906327 AATTACC
1 AATTACC
29906334 ATTTTGCCCC
Statistics
Matches: 557, Mismatches: 38, Indels: 11
0.92 0.06 0.02
Matches are distributed among these distances:
26 19 0.03
27 536 0.96
28 2 0.00
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.24
Consensus pattern (27 bp):
AATTACCGCAATACCCCTGTAGGGTAG
Found at i:29906812 original size:22 final size:22
Alignment explanation
Indices: 29906760--29906824 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
29906750 TTAAAGCCTT
* *
29906760 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
29906782 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
*
29906804 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
29906825 ACGTATTTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:29907063 original size:27 final size:26
Alignment explanation
Indices: 29906983--29907084 Score: 114
Period size: 27 Copynumber: 3.8 Consensus size: 26
29906973 ATTCTGTTAA
* * * *
29906983 GTGGCTTTGCCATATTATCTGTTTCTA
1 GTGGCTCTGCCACAATATCTG-TTCTG
*
29907010 GTGGCTATGCCACAAATATCTGTTCTG
1 GTGGCTCTGCCAC-AATATCTGTTCTG
29907037 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGT-TCTG
* *
29907064 GTGACTCTGTCACAATATCTG
1 GTGGCTCTGCCACAATATCTG
29907085 ATAACTGAGC
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
26 9 0.14
27 50 0.76
28 7 0.11
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.37
Consensus pattern (26 bp):
GTGGCTCTGCCACAATATCTGTTCTG
Found at i:29907273 original size:31 final size:31
Alignment explanation
Indices: 29907221--29907320 Score: 119
Period size: 31 Copynumber: 3.2 Consensus size: 31
29907211 TTGCATTCAC
* *
29907221 ATTCTGATTTTTTATTTTGTTACCTGATACTG
1 ATTCTGA-TTTTAATTCTGTTACCTGATACTG
* *
29907253 GTTCTTATTTTAATTCTGTTACCTGATACTG
1 ATTCTGATTTTAATTCTGTTACCTGATACTG
* * * *
29907284 ATTCTGATTTTGATTCTGTCACCTAATTCTG
1 ATTCTGATTTTAATTCTGTTACCTGATACTG
29907315 ATTCTG
1 ATTCTG
29907321 CTTCTGATTC
Statistics
Matches: 58, Mismatches: 10, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
31 53 0.91
32 5 0.09
ACGTcount: A:0.19, C:0.16, G:0.13, T:0.52
Consensus pattern (31 bp):
ATTCTGATTTTAATTCTGTTACCTGATACTG
Found at i:29907290 original size:6 final size:6
Alignment explanation
Indices: 29907275--29907346 Score: 58
Period size: 6 Copynumber: 11.8 Consensus size: 6
29907265 ATTCTGTTAC
* * * * *
29907275 CTGATA CTGATT CTGATT TTGATT CTG-TCAC CTAATT CTGATT CTGCTT
1 CTGATT CTGATT CTGATT CTGATT CTGAT--T CTGATT CTGATT CTGATT
29907324 CTGATT CTGATT CT-AGTT CTGAT
1 CTGATT CTGATT CTGA-TT CTGAT
29907347 AATGTTTCTT
Statistics
Matches: 52, Mismatches: 9, Indels: 10
0.73 0.13 0.14
Matches are distributed among these distances:
5 2 0.04
6 46 0.88
7 3 0.06
8 1 0.02
ACGTcount: A:0.18, C:0.19, G:0.15, T:0.47
Consensus pattern (6 bp):
CTGATT
Found at i:29907329 original size:31 final size:31
Alignment explanation
Indices: 29907242--29907332 Score: 92
Period size: 31 Copynumber: 2.9 Consensus size: 31
29907232 TTATTTTGTT
* * * * * *
29907242 ACCTGATACTGGTTCTTATTTTAATTCTGTT
1 ACCTAATACTGATTCTGATTCTGATTCTGTC
* *
29907273 ACCTGATACTGATTCTGATTTTGATTCTGTC
1 ACCTAATACTGATTCTGATTCTGATTCTGTC
* *
29907304 ACCTAATTCTGATTCTGCTTCTGATTCTG
1 ACCTAATACTGATTCTGATTCTGATTCTG
29907333 ATTCTAGTTC
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 52 1.00
ACGTcount: A:0.19, C:0.20, G:0.14, T:0.47
Consensus pattern (31 bp):
ACCTAATACTGATTCTGATTCTGATTCTGTC
Found at i:29907332 original size:18 final size:18
Alignment explanation
Indices: 29907275--29907346 Score: 65
Period size: 18 Copynumber: 3.9 Consensus size: 18
29907265 ATTCTGTTAC
* *
29907275 CTGATACTGATTCTGATT
1 CTGATTCTGCTTCTGATT
* ** *
29907293 TTGATTCTGTCACCTAATT
1 CTGATTCTG-CTTCTGATT
29907312 CTGATTCTGCTTCTGATT
1 CTGATTCTGCTTCTGATT
29907330 CTGATTCTAG-TTCTGAT
1 CTGATTCT-GCTTCTGAT
29907347 AATGTTTCTT
Statistics
Matches: 42, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
18 28 0.67
19 14 0.33
ACGTcount: A:0.18, C:0.19, G:0.15, T:0.47
Consensus pattern (18 bp):
CTGATTCTGCTTCTGATT
Found at i:29918107 original size:57 final size:54
Alignment explanation
Indices: 29918005--29918227 Score: 180
Period size: 57 Copynumber: 3.9 Consensus size: 54
29917995 TCATTTCTAA
* * * *
29918005 AAGGATTTAGCCCAGACGGGTAATCCTAATATAAATCTC-TTGAGCATATGTTATGG
1 AAGGATTTAGCCCGGACGGGTAATCC--AGATCAAGCTCTTTGAGCATATGTTAT-G
* *
29918061 AATGGATTTAGCCCGGACGGGTAATCCAGATCAAGCTCTTTAGAGCATATGTCATAA
1 AA-GGATTTAGCCCGGACGGGTAATCCAGATCAAGCTCTTT-GAGCATATGTTAT-G
* * * * *
29918118 AAGGATTTAGCCTGGACTGGTAATCCTGA-CTAAGCTCTATTGAGTATAAATATTATAG
1 AAGGATTTAGCCCGGACGGGTAATCCAGATC-AAGCTCT-TTGAGCAT--ATGTTAT-G
* * * *
29918176 ACAGGATTTAGCCCGAACAGGTAATCCAGATCAAGATCTTTAAAGCATATGT
1 A-AGGATTTAGCCCGGACGGGTAATCCAGATCAAGCTCTTT-GAGCATATGT
29918228 CATAAAAAGG
Statistics
Matches: 135, Mismatches: 22, Indels: 19
0.77 0.12 0.11
Matches are distributed among these distances:
55 9 0.07
56 40 0.30
57 42 0.31
58 9 0.07
59 34 0.25
60 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (54 bp):
AAGGATTTAGCCCGGACGGGTAATCCAGATCAAGCTCTTTGAGCATATGTTATG
Found at i:29918199 original size:59 final size:59
Alignment explanation
Indices: 29918119--29918317 Score: 194
Period size: 59 Copynumber: 3.4 Consensus size: 59
29918109 ATGTCATAAA
*
29918119 AGGATTTAGCCTGGACTGGTAATCCTGACTAAGCTCTATTGAGTATAAATATTATAGAC
1 AGGATTTAGCCTGGACAGGTAATCCTGACTAAGCTCTATTGAGTATAAATATTATAGAC
* * * * * * * * * *
29918178 AGGATTTAGCCCGAACAGGTAATCCAGA-TCAAGATCT-TTAAAGCAT--ATGTCATAAAA
1 AGGATTTAGCCTGGACAGGTAATCCTGACT-AAGCTCTATT-GAGTATAAATATTATAGAC
* *
29918235 AGGATTTAGCTTGGACTA-ATAATCCTGACTAAGCTCTATTGAGTATAAATATTATAGAC
1 AGGATTTAGCCTGGAC-AGGTAATCCTGACTAAGCTCTATTGAGTATAAATATTATAGAC
*
29918294 AAGATTTAGCCTGGACTA-GTAATC
1 AGGATTTAGCCTGGAC-AGGTAATC
29918318 TTGTTGTATA
Statistics
Matches: 107, Mismatches: 26, Indels: 14
0.73 0.18 0.10
Matches are distributed among these distances:
57 38 0.36
58 7 0.07
59 62 0.58
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.30
Consensus pattern (59 bp):
AGGATTTAGCCTGGACAGGTAATCCTGACTAAGCTCTATTGAGTATAAATATTATAGAC
Found at i:29918216 original size:115 final size:116
Alignment explanation
Indices: 29918064--29918304 Score: 403
Period size: 116 Copynumber: 2.1 Consensus size: 116
29918054 GTTATGGAAT
* * * *
29918064 GGATTTAGCCCGGACGGGTAATCCAGATCAAGCTCTTTAGAGCATATGTCAT-AAAAGGATTTAG
1 GGATTTAGCCCGAACAGGTAATCCAGATCAAGATCTTTAAAGCATATGTCATAAAAAGGATTTAG
**
29918128 CCTGGACTGGTAATCCTGACTAAGCTCTATTGAGTATAAATATTATAGACA
66 CCTGGACTAATAATCCTGACTAAGCTCTATTGAGTATAAATATTATAGACA
29918179 GGATTTAGCCCGAACAGGTAATCCAGATCAAGATCTTTAAAGCATATGTCATAAAAAGGATTTAG
1 GGATTTAGCCCGAACAGGTAATCCAGATCAAGATCTTTAAAGCATATGTCATAAAAAGGATTTAG
*
29918244 CTTGGACTAATAATCCTGACTAAGCTCTATTGAGTATAAATATTATAGACA
66 CCTGGACTAATAATCCTGACTAAGCTCTATTGAGTATAAATATTATAGACA
*
29918295 AGATTTAGCC
1 GGATTTAGCC
29918305 TGGACTAGTA
Statistics
Matches: 117, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
115 48 0.41
116 69 0.59
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.29
Consensus pattern (116 bp):
GGATTTAGCCCGAACAGGTAATCCAGATCAAGATCTTTAAAGCATATGTCATAAAAAGGATTTAG
CCTGGACTAATAATCCTGACTAAGCTCTATTGAGTATAAATATTATAGACA
Found at i:29920341 original size:301 final size:301
Alignment explanation
Indices: 29919794--29920395 Score: 1195
Period size: 301 Copynumber: 2.0 Consensus size: 301
29919784 TTCATATGCA
29919794 CAAATTCTCAATATCATACTTACTTCACATTACCAACCCTTATGTTCATACACAAAAGATCAACT
1 CAAATTCTCAATATCATACTTACTTCACATTACCAACCCTTATGTTCATACACAAAAGATCAACT
29919859 TAGCCAAAGGCCGGTAGCTCATTTATCAACTGAGCGAATACTTATTTGTAAGGGCTCGACTACTT
66 TAGCCAAAGGCCGGTAGCTCATTTATCAACTGAGCGAATACTTATTTGTAAGGGCTCGACTACTT
29919924 CAAAGCACATACGAAACATACCTCATTGTCGGGATTTCACAAGCGTATTAACTGAAATTTTTACA
131 CAAAGCACATACGAAACATACCTCATTGTCGGGATTTCACAAGCGTATTAACTGAAATTTTTACA
29919989 GCAAGTTCATTCATTCCCGAATCACGTACCTTCGGAGTTTAACCAGATATAGCTACTCATTCAAA
196 GCAAGTTCATTCATTCCCGAATCACGTACCTTCGGAGTTTAACCAGATATAGCTACTCATTCAAA
29920054 TACCTTCGGGACATAGCACGGTTATAGTAGCTCGCACAAAT
261 TACCTTCGGGACATAGCACGGTTATAGTAGCTCGCACAAAT
29920095 CAAATTCTCAATATCATACTTACTTCACATTACCAACCCTTATGTTCATACACAAAAGATCAACT
1 CAAATTCTCAATATCATACTTACTTCACATTACCAACCCTTATGTTCATACACAAAAGATCAACT
29920160 TAGCCAAAGGCCGGTAGCTCATTTATCAACTGAGCGAATACTTATTTGTAAGGGCTCGACTACTT
66 TAGCCAAAGGCCGGTAGCTCATTTATCAACTGAGCGAATACTTATTTGTAAGGGCTCGACTACTT
29920225 CAAAGCACATACGAAACATACCTCATTGTCGGGATTTCACAAGCGTATTAACTGAAATTTTTACA
131 CAAAGCACATACGAAACATACCTCATTGTCGGGATTTCACAAGCGTATTAACTGAAATTTTTACA
*
29920290 GCAAGTTCATTCATTCCCGAATCACGTACCTTCGGAGTTTAACCGGATATAGCTACTCATTCAAA
196 GCAAGTTCATTCATTCCCGAATCACGTACCTTCGGAGTTTAACCAGATATAGCTACTCATTCAAA
29920355 TACCTTCGGGACATAGCACGGTTATAGTAGCTCGCACAAAT
261 TACCTTCGGGACATAGCACGGTTATAGTAGCTCGCACAAAT
29920396 GCCTTCGGGA
Statistics
Matches: 300, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
301 300 1.00
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (301 bp):
CAAATTCTCAATATCATACTTACTTCACATTACCAACCCTTATGTTCATACACAAAAGATCAACT
TAGCCAAAGGCCGGTAGCTCATTTATCAACTGAGCGAATACTTATTTGTAAGGGCTCGACTACTT
CAAAGCACATACGAAACATACCTCATTGTCGGGATTTCACAAGCGTATTAACTGAAATTTTTACA
GCAAGTTCATTCATTCCCGAATCACGTACCTTCGGAGTTTAACCAGATATAGCTACTCATTCAAA
TACCTTCGGGACATAGCACGGTTATAGTAGCTCGCACAAAT
Found at i:29920395 original size:40 final size:40
Alignment explanation
Indices: 29920379--29920575 Score: 276
Period size: 40 Copynumber: 5.0 Consensus size: 40
29920369 AGCACGGTTA
*
29920379 TAGTAGCTCGCACAAATGCCTTCGGGA-CTTA-TCCCGGATT
1 TAGTAACTCGCACAAATGCCTTC-GGATCTTAGT-CCGGATT
29920419 TAGTAA-TCGCACAAATGCCTTCGGATCTTAGTCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
29920458 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
* *
29920498 TAGTAACTCGCACAAATGCCTTCAGATCTTAGTCCGGATA
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
* * * *
29920538 TAGTCACTTAGCACAAA-GCCTTCGGAACTTAGCCCGGA
1 TAGTAAC-TCGCACAAATGCCTTCGGATCTTAGTCCGGA
29920576 CATCATTCGA
Statistics
Matches: 145, Mismatches: 8, Indels: 8
0.90 0.05 0.05
Matches are distributed among these distances:
38 3 0.02
39 33 0.23
40 101 0.70
41 8 0.06
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.27
Consensus pattern (40 bp):
TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
Found at i:29926394 original size:21 final size:21
Alignment explanation
Indices: 29926342--29926394 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
29926332 CGACTTATAG
**
29926342 TACGGGTGTGTCCTAGGGTCA
1 TACGGGTGTGTCCTAGGACCA
* * * *
29926363 CACTGGAGTGTCCTTGGACCA
1 TACGGGTGTGTCCTAGGACCA
29926384 TACGGGTGTGT
1 TACGGGTGTGT
29926395 GAGCCTCGTA
Statistics
Matches: 23, Mismatches: 9, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.15, C:0.21, G:0.36, T:0.28
Consensus pattern (21 bp):
TACGGGTGTGTCCTAGGACCA
Found at i:29928057 original size:24 final size:24
Alignment explanation
Indices: 29928029--29928080 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
29928019 TTTCTAGAAG
*
29928029 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGCATTTATTAGTATAATAT
*
29928053 ATTTAGCATTTATTAGTATAATTT
1 ATTTAGCATTTATTAGTATAATAT
29928077 ATTT
1 ATTT
29928081 GACCTACGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.35, C:0.02, G:0.08, T:0.56
Consensus pattern (24 bp):
ATTTAGCATTTATTAGTATAATAT
Found at i:29937711 original size:40 final size:40
Alignment explanation
Indices: 29937641--29937847 Score: 195
Period size: 40 Copynumber: 5.2 Consensus size: 40
29937631 CAATTGAATG
* * * *
29937641 ATATCCGGGCTAAGTCCCGAAGACATTTGTGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAATT
* * * * *
29937681 ATATTCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAATT
* **
29937721 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTAATT
* * * **
29937761 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAATT
* **
29937801 ATATCCGGGCTAAGACCC-AAGGC-ATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTAATT
29937840 ATATCCGG
1 ATATCCGG
29937848 TTGTAATCCG
Statistics
Matches: 141, Mismatches: 23, Indels: 7
0.82 0.13 0.04
Matches are distributed among these distances:
38 2 0.01
39 26 0.18
40 111 0.79
41 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAATT
Found at i:29937784 original size:80 final size:80
Alignment explanation
Indices: 29937643--29937847 Score: 243
Period size: 80 Copynumber: 2.6 Consensus size: 80
29937633 ATTGAATGAT
* * * * * * *
29937643 ATCCGGGCTAAGTCCCGAAGACATTTGTGCTAGTAATTATATTCGGGTTAAGACCCGAAGGCAAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAAT
*
29937708 TGTGCTAGT-GACTAC
66 TGTGCAAGTCG-CTAC
* * * *
29937723 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAAT
* *
29937788 TGTGCAAGTCGTTAT
66 TGTGCAAGTCGCTAC
* *
29937803 ATCCGGGCTAAGACCC-AAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
29937848 TTGTAATCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
79 26 0.24
80 80 0.75
81 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAAT
TGTGCAAGTCGCTAC
Found at i:29941441 original size:14 final size:15
Alignment explanation
Indices: 29941422--29941450 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
29941412 AACATGCATA
29941422 AAATGACC-AATTTC
1 AAATGACCAAATTTC
29941436 AAATGACCAAATTTC
1 AAATGACCAAATTTC
29941451 CATTCAATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.45, C:0.21, G:0.07, T:0.28
Consensus pattern (15 bp):
AAATGACCAAATTTC
Found at i:29942775 original size:20 final size:20
Alignment explanation
Indices: 29942679--29942785 Score: 83
Period size: 20 Copynumber: 5.3 Consensus size: 20
29942669 GCATCATAGA
*
29942679 TGCATAACAGGGGCACAAAAG
1 TGCA-AACAGGGGCACCAAAG
*
29942700 TGCAAACAGGGGCA-CAAATA
1 TGCAAACAGGGGCACCAAA-G
* **
29942720 TGCAAATAGGGGCACCGTAG
1 TGCAAACAGGGGCACCAAAG
* *
29942740 TGTC-AATAGGGACACCAAAG
1 TG-CAAACAGGGGCACCAAAG
* *
29942760 TGCAAACAGAGGCACCGAAG
1 TGCAAACAGGGGCACCAAAG
*
29942780 GGCAAA
1 TGCAAA
29942786 TCCCATACAA
Statistics
Matches: 68, Mismatches: 14, Indels: 9
0.75 0.15 0.10
Matches are distributed among these distances:
19 4 0.06
20 57 0.84
21 7 0.10
ACGTcount: A:0.40, C:0.21, G:0.29, T:0.10
Consensus pattern (20 bp):
TGCAAACAGGGGCACCAAAG
Found at i:29946105 original size:42 final size:42
Alignment explanation
Indices: 29946049--29946163 Score: 119
Period size: 43 Copynumber: 2.7 Consensus size: 42
29946039 AGGGTTACCA
* *
29946049 AGATTAC-GGTAAGACCATATCTGGGATATGACATCAATTTG
1 AGATTACATGTAAGACCATATCTGGGATATGACATCAATATG
* * * *
29946090 AGACTT-CGTGTAAGACCATAGT-TGGGCTATTGGCATCGATATG
1 AGA-TTACATGTAAGACCATA-TCTGGGATA-TGACATCAATATG
*
29946133 AGATTACATGTAAGACTATATCTGGGATATG
1 AGATTACATGTAAGACCATATCTGGGATATG
29946164 GCATTGGTAC
Statistics
Matches: 60, Mismatches: 8, Indels: 11
0.76 0.10 0.14
Matches are distributed among these distances:
41 4 0.07
42 24 0.40
43 32 0.53
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.30
Consensus pattern (42 bp):
AGATTACATGTAAGACCATATCTGGGATATGACATCAATATG
Found at i:29953508 original size:46 final size:46
Alignment explanation
Indices: 29953455--29953583 Score: 147
Period size: 47 Copynumber: 2.8 Consensus size: 46
29953445 GTTATCGTTG
* *
29953455 GCTAGTGTAAGACATGTTTGGGACATGCATCAGCCACATT-ATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCC-CATTGACGAGA
*
29953501 GCTAGTGTAAGACCATGTCTGGGACATAGCATCAG--TATTGAGACGAGA
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCCATT--GACGAGA
**
29953549 GCTAGTGTAAGATGTGTCTGGGACATGCATCAGCC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCC
29953584 TCGAGACATA
Statistics
Matches: 71, Mismatches: 5, Indels: 12
0.81 0.06 0.14
Matches are distributed among these distances:
45 3 0.04
46 19 0.27
47 25 0.35
48 24 0.34
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.25
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCCATTGACGAGA
Found at i:29953602 original size:46 final size:47
Alignment explanation
Indices: 29953516--29953606 Score: 114
Period size: 46 Copynumber: 2.0 Consensus size: 47
29953506 TGTAAGACCA
* * * *
29953516 TGTCTGGGACATAGCATCAGTATTGAGACGAGAGCTAGTGTAAGATG
1 TGTCTGGGACATAGCATCAGCATCGAGACGAAAGCCAGTGTAAGATG
*
29953563 TGTCTGGGACAT-GCATCAGCCTCGAGAC-ATAAGCCAGTGTAAGA
1 TGTCTGGGACATAGCATCAGCATCGAGACGA-AAGCCAGTGTAAGA
29953607 CCTGGGACAT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
45 1 0.03
46 25 0.66
47 12 0.32
ACGTcount: A:0.30, C:0.18, G:0.30, T:0.23
Consensus pattern (47 bp):
TGTCTGGGACATAGCATCAGCATCGAGACGAAAGCCAGTGTAAGATG
Found at i:29956774 original size:42 final size:42
Alignment explanation
Indices: 29956713--29956823 Score: 132
Period size: 43 Copynumber: 2.6 Consensus size: 42
29956703 TTTAAGTTTA
**
29956713 CGTGTAAGACCATATCTGGGATATGGCATCGATATGAGATTT
1 CGTGTAAGACCATATCTGGGATATGGCATCGATATGAGATCC
* * * * *
29956755 TGTGTAAGACCATAGCTGGGCTGTTGGCATCGATTTGAGATCC
1 CGTGTAAGACCATATCTGGGAT-ATGGCATCGATATGAGATCC
* *
29956798 CATGTAAGACCATATCTAGGATATGG
1 CGTGTAAGACCATATCTGGGATATGG
29956824 TATTGGTATG
Statistics
Matches: 55, Mismatches: 13, Indels: 2
0.79 0.19 0.03
Matches are distributed among these distances:
42 22 0.40
43 33 0.60
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (42 bp):
CGTGTAAGACCATATCTGGGATATGGCATCGATATGAGATCC
Found at i:29977165 original size:25 final size:25
Alignment explanation
Indices: 29977113--29977171 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
29977103 ATAAAACCTA
*
29977113 AAAATGAAATAGTATTAAATGAAAAT
1 AAAAT-AAAAAGTATTAAATGAAAAT
*
29977139 AAAATAAAAAGTACTTAAA-GAAGAT
1 AAAATAAAAAGTA-TTAAATGAAAAT
29977164 -AAATAAAA
1 AAAATAAAA
29977172 GTGAAAATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 8 0.27
25 12 0.40
26 10 0.33
ACGTcount: A:0.66, C:0.02, G:0.10, T:0.22
Consensus pattern (25 bp):
AAAATAAAAAGTATTAAATGAAAAT
Found at i:29981124 original size:29 final size:29
Alignment explanation
Indices: 29981083--29981154 Score: 81
Period size: 29 Copynumber: 2.5 Consensus size: 29
29981073 GAAAGCGTGT
* ** *
29981083 ATATGAATGTGATTTAGGCCTGATGGGCT
1 ATATGAATTTGATTTAGGCCCAATGGGCC
* *
29981112 GTATGAATTTGATTTGGGCCCAATGGGCC
1 ATATGAATTTGATTTAGGCCCAATGGGCC
*
29981141 ATATGAATTAGATT
1 ATATGAATTTGATT
29981155 GGGCCTAGTG
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.26, C:0.11, G:0.28, T:0.35
Consensus pattern (29 bp):
ATATGAATTTGATTTAGGCCCAATGGGCC
Found at i:29981166 original size:28 final size:29
Alignment explanation
Indices: 29981113--29981169 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 29
29981103 TGATGGGCTG
*
29981113 TATGAATTTGATTTGGGCCCAATGGGCCA
1 TATGAATTAGATTTGGGCCCAATGGGCCA
* *
29981142 TATGAATTAGA-TTGGGCCTAGTGGGCCA
1 TATGAATTAGATTTGGGCCCAATGGGCCA
29981170 CACGCATGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
28 15 0.60
29 10 0.40
ACGTcount: A:0.25, C:0.16, G:0.30, T:0.30
Consensus pattern (29 bp):
TATGAATTAGATTTGGGCCCAATGGGCCA
Found at i:29985584 original size:29 final size:29
Alignment explanation
Indices: 29985542--29985663 Score: 174
Period size: 29 Copynumber: 4.2 Consensus size: 29
29985532 AGCATGTATT
*
29985542 TGAATGTGATTTGGGCCTAATGGGTCGTA
1 TGAATGTGATTTGGGCCTAATGGGCCGTA
*
29985571 TGAATGTGATTTGGGCCTAATAGGCCGTA
1 TGAATGTGATTTGGGCCTAATGGGCCGTA
* *
29985600 TGAATGTGATTTGGGCCTAGTGGGCCATA
1 TGAATGTGATTTGGGCCTAATGGGCCGTA
* *
29985629 TGAATGAGA-TTGGGCCTAATGGGCCATA
1 TGAATGTGATTTGGGCCTAATGGGCCGTA
*
29985657 TGCATGT
1 TGAATGT
29985664 ATGTAGACTT
Statistics
Matches: 84, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
28 23 0.27
29 61 0.73
ACGTcount: A:0.23, C:0.13, G:0.33, T:0.31
Consensus pattern (29 bp):
TGAATGTGATTTGGGCCTAATGGGCCGTA
Found at i:29990493 original size:47 final size:47
Alignment explanation
Indices: 29990380--29990525 Score: 177
Period size: 47 Copynumber: 3.1 Consensus size: 47
29990370 TTAGGATTTT
* ** * *
29990380 ATGTGATGAATGTGAATGTGTATATATGAGATAAGG-CGAATGGCCA
1 ATGTGATGAATATGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
29990426 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATATGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
29990473 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATATGAACATGCATATATGTGATAAGGCCGAATGGCCA
29990520 ATGTGA
1 ATGTGA
29990526 AATATGTATG
Statistics
Matches: 85, Mismatches: 14, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
46 30 0.35
47 55 0.65
ACGTcount: A:0.33, C:0.10, G:0.30, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATATGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:29990654 original size:98 final size:96
Alignment explanation
Indices: 29990496--29990679 Score: 316
Period size: 98 Copynumber: 1.9 Consensus size: 96
29990486 GAACATGCAT
*
29990496 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGA
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGA
29990561 ATGGCTAATGTGAAATATGTATGAGATATGC
66 ATGGCTAATGTGAAATATGTATGAGATATGC
29990592 ATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGC
1 ATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATATATGAGATATGTATATGTGGTAAAGC
*
29990656 CGAATGGCTAGTGTGAAATATGTA
63 CGAATGGCTAATGTGAAATATGTA
29990680 GGCGATGTGC
Statistics
Matches: 83, Mismatches: 2, Indels: 4
0.93 0.02 0.04
Matches are distributed among these distances:
95 1 0.01
96 27 0.33
97 2 0.02
98 53 0.64
ACGTcount: A:0.36, C:0.07, G:0.27, T:0.30
Consensus pattern (96 bp):
ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGA
ATGGCTAATGTGAAATATGTATGAGATATGC
Found at i:29990695 original size:50 final size:48
Alignment explanation
Indices: 29990495--29990679 Score: 309
Period size: 48 Copynumber: 3.8 Consensus size: 48
29990485 TGAACATGCA
29990495 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
29990543 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* *
29990591 CATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGATATG
*
29990641 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
29990680 GGCGATGTGC
Statistics
Matches: 128, Mismatches: 5, Indels: 8
0.91 0.04 0.06
Matches are distributed among these distances:
47 1 0.01
48 81 0.63
49 4 0.03
50 41 0.32
51 1 0.01
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.31
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:29990933 original size:37 final size:37
Alignment explanation
Indices: 29990825--29990933 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
29990815 GGAAATATAT
*
29990825 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
29990862 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
29990899 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
29990934 CGTCTGAGCT
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:29995103 original size:39 final size:39
Alignment explanation
Indices: 29995024--29995176 Score: 234
Period size: 39 Copynumber: 3.9 Consensus size: 39
29995014 TATGGTAACC
** * *
29995024 CGCACAAAGGCCTTCGGGACTTAACCCGGGTATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
*
29995064 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
29995103 CGCACAATTGCCTTCAGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
29995142 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
29995177 TCGAACATTC
Statistics
Matches: 104, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 88 0.85
40 16 0.15
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:29995148 original size:78 final size:79
Alignment explanation
Indices: 29994993--29995175 Score: 251
Period size: 78 Copynumber: 2.3 Consensus size: 79
29994983 TCGTTCAAAC
* * ** * *
29994993 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAGGCCTTCGGGACTTAACCCGGGTATC
1 GCCTTCGGG-CTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCAGGACTTAACCCGGATATC
29995058 ACAACTCGCACAATT
65 ACAACTCGCACAATT
* ** *
29995073 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCAGG-CTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCAGGACTTAACCCGGATATCA
*
29995137 CAATTCGCACAATT
66 CAACTCGCACAATT
29995151 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
29995176 CTCGAACATT
Statistics
Matches: 92, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
78 52 0.57
79 31 0.34
80 9 0.10
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.23
Consensus pattern (79 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCAGGACTTAACCCGGATATCA
CAACTCGCACAATT
Found at i:29999195 original size:15 final size:15
Alignment explanation
Indices: 29999156--29999187 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
29999146 TCTTTTAAAA
29999156 CCTTCGCCTCGGCTT
1 CCTTCGCCTCGGCTT
29999171 CCTTCGCCTCGGCTT
1 CCTTCGCCTCGGCTT
29999186 CC
1 CC
29999188 ATTGCCTCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.00, C:0.50, G:0.19, T:0.31
Consensus pattern (15 bp):
CCTTCGCCTCGGCTT
Found at i:30003898 original size:28 final size:27
Alignment explanation
Indices: 30003866--30003948 Score: 85
Period size: 27 Copynumber: 3.0 Consensus size: 27
30003856 TAGAATACAT
*
30003866 TAGTTTACCAAAGTTACCAAAATACCCC
1 TAGTTT-CCAAAATTACCAAAATACCCC
** *
30003894 TAGTTTGTAAAATTACCAAAATACCCT
1 TAGTTTCCAAAATTACCAAAATACCCC
* ** *
30003921 TGGTTTGTAAAATTACGAAAATACCCC
1 TAGTTTCCAAAATTACCAAAATACCCC
30003948 T
1 T
30003949 GTAGGGTAGA
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 42 0.88
28 6 0.12
ACGTcount: A:0.39, C:0.22, G:0.10, T:0.30
Consensus pattern (27 bp):
TAGTTTCCAAAATTACCAAAATACCCC
Found at i:30003909 original size:27 final size:27
Alignment explanation
Indices: 30003879--30003948 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
30003869 TTTACCAAAG
30003879 TTACCAAAATACCCCTAGTTTGTAAAA
1 TTACCAAAATACCCCTAGTTTGTAAAA
* *
30003906 TTACCAAAATACCCTTGGTTTGTAAAA
1 TTACCAAAATACCCCTAGTTTGTAAAA
*
30003933 TTACGAAAATACCCCT
1 TTACCAAAATACCCCT
30003949 GTAGGGTAGA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.39, C:0.23, G:0.09, T:0.30
Consensus pattern (27 bp):
TTACCAAAATACCCCTAGTTTGTAAAA
Found at i:30003961 original size:27 final size:26
Alignment explanation
Indices: 30003931--30004259 Score: 363
Period size: 27 Copynumber: 12.2 Consensus size: 26
30003921 TGGTTTGTAA
30003931 AATTACGAAAATACCCCTGTAGGGTAG
1 AATTACG-AAATACCCCTGTAGGGTAG
* *
30003958 AATTACTGAAATACACATGTAGGGTAG
1 AATTAC-GAAATACCCCTGTAGGGTAG
* * *
30003985 AATTACTAAAATACCCCTATAAGGTAG
1 AATTAC-GAAATACCCCTGTAGGGTAG
30004012 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTA-CGAAATACCCCTGTAGGGTAG
* * *
30004039 AATTACTGAAA-ACTCCTTTAAGGTAG
1 AATTAC-GAAATACCCCTGTAGGGTAG
30004065 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTA-CGAAATACCCCTGTAGGGTAG
* *
30004092 AATTACTGAAATACCCCTATAAGGTAG
1 AATTAC-GAAATACCCCTGTAGGGTAG
* * * *
30004119 AATCACCGAAATACCTCTATAGGATAG
1 AATTA-CGAAATACCCCTGTAGGGTAG
*
30004146 AATTACCGAAATACCCCTGTAAGGTAG
1 AATTA-CGAAATACCCCTGTAGGGTAG
*
30004173 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTA-CGAAATACCCCTGTAGGGTAG
*
30004200 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTA-CGAAATACCCCTGTAGGGTAG
* * *
30004227 AAATATCGGAATACCCCTGTAAGGTAG
1 AATTA-CGAAATACCCCTGTAGGGTAG
30004254 AATTAC
1 AATTAC
30004260 CGAGATAATC
Statistics
Matches: 258, Mismatches: 37, Indels: 15
0.83 0.12 0.05
Matches are distributed among these distances:
26 24 0.09
27 231 0.90
28 3 0.01
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.25
Consensus pattern (26 bp):
AATTACGAAATACCCCTGTAGGGTAG
Found at i:30003962 original size:54 final size:53
Alignment explanation
Indices: 30003931--30004259 Score: 408
Period size: 54 Copynumber: 6.1 Consensus size: 53
30003921 TGGTTTGTAA
* * * *
30003931 AATTACGAAAATACCCCTGTAGGGTAGAATTACTGAAATACACATGTAGGGTAG
1 AATTACG-AAATACCCCTGTAAGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* * *
30003985 AATTACTAAAATACCCCTATAAGGTAGAATTATCGAAATACCCCTGTAGGGTAG
1 AATTAC-GAAATACCCCTGTAAGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* *
30004039 AATTACTGAAA-ACTCCTTTAAGGTAGAATTACCGAAATACCCCTGTAGGGTAG
1 AATTAC-GAAATACCCCTGTAAGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* * * * *
30004092 AATTACTGAAATACCCCTATAAGGTAGAATCACCGAAATACCTCTATAGGATAG
1 AATTAC-GAAATACCCCTGTAAGGTAGAATTACCGAAATACCCCTGTAGGGTAG
*
30004146 AATTACCGAAATACCCCTGTAAGGTAGAATTACCAAAATACCCCTGTAGGGTAG
1 AATTA-CGAAATACCCCTGTAAGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* * * * * *
30004200 AATTATCGAAATACCCTTGTAGGGTAGAAATATCGGAATACCCCTGTAAGGTAG
1 AATTA-CGAAATACCCCTGTAAGGTAGAATTACCGAAATACCCCTGTAGGGTAG
30004254 AATTAC
1 AATTAC
30004260 CGAGATAATC
Statistics
Matches: 241, Mismatches: 31, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
53 51 0.21
54 189 0.78
55 1 0.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.25
Consensus pattern (53 bp):
AATTACGAAATACCCCTGTAAGGTAGAATTACCGAAATACCCCTGTAGGGTAG
Found at i:30004285 original size:81 final size:81
Alignment explanation
Indices: 30003931--30004262 Score: 422
Period size: 81 Copynumber: 4.1 Consensus size: 81
30003921 TGGTTTGTAA
* * **
30003931 AATTA-CGAAAATACCCCTGTAGGGTAGAATTACTGAAATACACATGTAGGGTAGAATTACTAAA
1 AATTACCG-AAATACCCCTGTAGGGTAGAATTACTGAAATACCCTTGTAGGGTAGAATTACCGAA
*
30003995 ATACCCCTATAAGGTAG
65 ATACCCCTGTAAGGTAG
* *
30004012 AATTATCGAAATACCCCTGTAGGGTAGAATTACTGAAA-ACTCCTT-TAAGGTAGAATTACCGAA
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAATAC-CCTTGTAGGGTAGAATTACCGAA
*
30004075 ATACCCCTGTAGGGTAG
65 ATACCCCTGTAAGGTAG
* * * * * * *
30004092 AATTACTGAAATACCCCTATAAGGTAGAATCACCGAAATA-CCTCTATAGGATAGAATTACCGAA
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCT-TGTAGGGTAGAATTACCGAA
30004156 ATACCCCTGTAAGGTAG
65 ATACCCCTGTAAGGTAG
* * * *
30004173 AATTACCAAAATACCCCTGTAGGGTAGAATTA-TCGAAATACCCTTGTAGGGTAGAAATATCGGA
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACT-GAAATACCCTTGTAGGGTAGAATTACCGAA
30004237 ATACCCCTGTAAGGTAG
65 ATACCCCTGTAAGGTAG
30004254 AATTACCGA
1 AATTACCGA
30004263 GATAATCTTG
Statistics
Matches: 216, Mismatches: 28, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
79 3 0.01
80 65 0.30
81 143 0.66
82 5 0.02
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.25
Consensus pattern (81 bp):
AATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAA
TACCCCTGTAAGGTAG
Found at i:30007402 original size:29 final size:29
Alignment explanation
Indices: 30007341--30007439 Score: 159
Period size: 28 Copynumber: 3.5 Consensus size: 29
30007331 ACAGTAAGTC
30007341 CGCACACTTAGTGCT-TA-ATATTCAAACT
1 CGCACACTTAGTGCTATACA-ATTCAAACT
*
30007369 TGCACACTTAGTGCTATACAATTCAAACT
1 CGCACACTTAGTGCTATACAATTCAAACT
30007398 CGCACACTTAGTGCTATACAATT-AAACT
1 CGCACACTTAGTGCTATACAATTCAAACT
30007426 CGCACACTTAGTGC
1 CGCACACTTAGTGC
30007440 CAATCTCATT
Statistics
Matches: 67, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
28 33 0.49
29 33 0.49
30 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.12, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTATACAATTCAAACT
Found at i:30008555 original size:19 final size:19
Alignment explanation
Indices: 30008531--30008567 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
30008521 ACTTTTTTTT
30008531 TTCCTTTGTTTTAATTATA
1 TTCCTTTGTTTTAATTATA
* *
30008550 TTCCTTTTTTTTCATTAT
1 TTCCTTTGTTTTAATTAT
30008568 TTTATTCTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.16, C:0.14, G:0.03, T:0.68
Consensus pattern (19 bp):
TTCCTTTGTTTTAATTATA
Found at i:30009677 original size:28 final size:27
Alignment explanation
Indices: 30009645--30009727 Score: 85
Period size: 27 Copynumber: 3.0 Consensus size: 27
30009635 TAGAATACTT
*
30009645 TAGTTTACCAAAGTTACCAAAATACCCC
1 TAGTTT-CCAAAATTACCAAAATACCCC
** *
30009673 TAGTTTGTAAAATTACCAAAATACCCT
1 TAGTTTCCAAAATTACCAAAATACCCC
* ** *
30009700 TGGTTTGTAAAATTACGAAAATACCCC
1 TAGTTTCCAAAATTACCAAAATACCCC
30009727 T
1 T
30009728 GTAGGGTAGA
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 42 0.88
28 6 0.12
ACGTcount: A:0.39, C:0.22, G:0.10, T:0.30
Consensus pattern (27 bp):
TAGTTTCCAAAATTACCAAAATACCCC
Found at i:30009688 original size:27 final size:27
Alignment explanation
Indices: 30009658--30009727 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
30009648 TTTACCAAAG
30009658 TTACCAAAATACCCCTAGTTTGTAAAA
1 TTACCAAAATACCCCTAGTTTGTAAAA
* *
30009685 TTACCAAAATACCCTTGGTTTGTAAAA
1 TTACCAAAATACCCCTAGTTTGTAAAA
*
30009712 TTACGAAAATACCCCT
1 TTACCAAAATACCCCT
30009728 GTAGGGTAGA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.39, C:0.23, G:0.09, T:0.30
Consensus pattern (27 bp):
TTACCAAAATACCCCTAGTTTGTAAAA
Found at i:30009740 original size:27 final size:26
Alignment explanation
Indices: 30009710--30010084 Score: 282
Period size: 27 Copynumber: 14.2 Consensus size: 26
30009700 TGGTTTGTAA
30009710 AATTACGAAAATACCCCTGTAGGGTAG
1 AATTACG-AAATACCCCTGTAGGGTAG
*
30009737 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTAC-GAAATACCCCTGTAGGGTAG
* * **
30009764 AATTATTGAAATACCCCTATAAAGTAG
1 AATTA-CGAAATACCCCTGTAGGGTAG
**
30009791 AATTATCGAAATACCCCTGTAGAATAG
1 AATTA-CGAAATACCCCTGTAGGGTAG
* * * * *
30009818 AATTACTGAAGTACTCCTATAAGGAAG
1 AATTAC-GAAATACCCCTGTAGGGTAG
*
30009845 AATTACCAAAGTACCCCTGTAGGGTAG
1 AATTACGAAA-TACCCCTGTAGGGTAG
* * * *
30009872 AATTACTGAAATACACCTATAAGATAG
1 AATTAC-GAAATACCCCTGTAGGGTAG
*
30009899 AATTATTGAAATACCCCTGTAGGGTAG
1 AATTA-CGAAATACCCCTGTAGGGTAG
*
30009926 AATTACCAAAATA---C---A---TAG
1 AATTA-CGAAATACCCCTGTAGGGTAG
30009944 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTAC-GAAATACCCCTGTAGGGTAG
* *
30009971 AATTACCAGAACACCCCTGTAGGGTAG
1 AATTACGA-AATACCCCTGTAGGGTAG
* * *
30009998 AAATACCGAAATACCCTTATAGGGTAG
1 AATTA-CGAAATACCCCTGTAGGGTAG
* *
30010025 AAATACCGAAATACCCCTGTATGGTAG
1 AATTA-CGAAATACCCCTGTAGGGTAG
* * * * *
30010052 AATTACCAAGATAACCTTGTGGGGTAA
1 AATTACGAA-ATACCCCTGTAGGGTAG
30010079 AATTAC
1 AATTAC
30010085 CATTTTGCCC
Statistics
Matches: 275, Mismatches: 54, Indels: 38
0.75 0.15 0.10
Matches are distributed among these distances:
17 1 0.00
18 13 0.05
21 2 0.01
24 2 0.01
26 7 0.03
27 244 0.89
28 6 0.02
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.25
Consensus pattern (26 bp):
AATTACGAAATACCCCTGTAGGGTAG
Found at i:30009768 original size:54 final size:53
Alignment explanation
Indices: 30009710--30010057 Score: 311
Period size: 54 Copynumber: 6.6 Consensus size: 53
30009700 TGGTTTGTAA
* * *
30009710 AATTACGAAAATACCCCTGTAGGGTAGAATTACTGAAATACCCTTGTAGGGTAG
1 AATTACG-AAATACCCCTATAAGGTAGAATTACTGAAATACCCCTGTAGGGTAG
* * **
30009764 AATTATTGAAATACCCCTATAAAGTAGAATTA-TCGAAATACCCCTGTAGAATAG
1 AATTA-CGAAATACCCCTATAAGGTAGAATTACT-GAAATACCCCTGTAGGGTAG
* * * *
30009818 AATTACTGAAGTACTCCTATAAGGAAGAATTAC-CAAAGTACCCCTGTAGGGTAG
1 AATTAC-GAAATACCCCTATAAGGTAGAATTACTGAAA-TACCCCTGTAGGGTAG
* * *
30009872 AATTACTGAAATACACCTATAAGATAGAATTATTGAAATACCCCTGTAGGGTAG
1 AATTAC-GAAATACCCCTATAAGGTAGAATTACTGAAATACCCCTGTAGGGTAG
* *
30009926 AATTACCAAA-A----TA-CA--TAGAATTACTGAAATACCCCTGTAGGGTAG
1 AATTACGAAATACCCCTATAAGGTAGAATTACTGAAATACCCCTGTAGGGTAG
* * * * * * * *
30009971 AATTACCAGAACACCCCTGTAGGGTAGAAATACCGAAATACCCTTATAGGGTAG
1 AATTACGA-AATACCCCTATAAGGTAGAATTACTGAAATACCCCTGTAGGGTAG
* * *
30010025 AAATACCGAAATACCCCTGTATGGTAGAATTAC
1 AATTA-CGAAATACCCCTATAAGGTAGAATTAC
30010058 CAAGATAACC
Statistics
Matches: 242, Mismatches: 36, Indels: 32
0.78 0.12 0.10
Matches are distributed among these distances:
45 37 0.15
46 2 0.01
47 2 0.01
48 2 0.01
51 1 0.00
52 1 0.00
53 7 0.03
54 184 0.76
55 6 0.02
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.25
Consensus pattern (53 bp):
AATTACGAAATACCCCTATAAGGTAGAATTACTGAAATACCCCTGTAGGGTAG
Found at i:30009987 original size:72 final size:72
Alignment explanation
Indices: 30009869--30010011 Score: 189
Period size: 72 Copynumber: 2.0 Consensus size: 72
30009859 CCCTGTAGGG
** * *
30009869 TAGAATTACTGAAATACACCTATAAGATAGAATTATTGAAATACCCCTGTAGGGTAGAATTACCA
1 TAGAATTACTGAAATACACCTATAAGATAGAATTACAGAAACACCCCTGTAGGGTAGAAATACCA
30009934 AAATACA
66 AAATACA
* * * *
30009941 TAGAATTACTGAAATACCCCTGTAGGGTAGAATTACCAG-AACACCCCTGTAGGGTAGAAATACC
1 TAGAATTACTGAAATACACCTATAAGATAGAATTA-CAGAAACACCCCTGTAGGGTAGAAATACC
*
30010005 GAAATAC
65 AAAATAC
30010012 CCTTATAGGG
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
72 60 0.98
73 1 0.02
ACGTcount: A:0.41, C:0.18, G:0.17, T:0.24
Consensus pattern (72 bp):
TAGAATTACTGAAATACACCTATAAGATAGAATTACAGAAACACCCCTGTAGGGTAGAAATACCA
AAATACA
Found at i:30010021 original size:99 final size:99
Alignment explanation
Indices: 30009843--30010038 Score: 234
Period size: 99 Copynumber: 2.0 Consensus size: 99
30009833 CCTATAAGGA
* * * **
30009843 AGAATTACCAAAGTACCCCTGTAGGGTAGAATTACTGAAATACACCTATAAGATAGAATTATTGA
1 AGAATTACCAAAGTACCCCTGTAGGGTAGAATTACAGAAACACACCTATAAGATAGAAATACCGA
* *
30009908 AATACCCCTGTAGGGTAGAATTACCAAAATACAT
66 AATACCCCTATAGGGTAGAAATACCAAAATACAT
* * * * *
30009942 AGAATTACTGAAA-TACCCCTGTAGGGTAGAATTACCAG-AACACCCCTGTAGGGTAGAAATACC
1 AGAATTAC-CAAAGTACCCCTGTAGGGTAGAATTA-CAGAAACACACCTATAAGATAGAAATACC
* *
30010005 GAAATACCCTTATAGGGTAGAAATACCGAAATAC
64 GAAATACCCCTATAGGGTAGAAATACCAAAATAC
30010039 CCCTGTATGG
Statistics
Matches: 81, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
99 76 0.94
100 5 0.06
ACGTcount: A:0.40, C:0.19, G:0.18, T:0.23
Consensus pattern (99 bp):
AGAATTACCAAAGTACCCCTGTAGGGTAGAATTACAGAAACACACCTATAAGATAGAAATACCGA
AATACCCCTATAGGGTAGAAATACCAAAATACAT
Found at i:30010039 original size:126 final size:126
Alignment explanation
Indices: 30009814--30010060 Score: 336
Period size: 126 Copynumber: 2.0 Consensus size: 126
30009804 CCCCTGTAGA
* * * * *
30009814 ATAGAATTACTGAAGTACTCCTATAAGGAAGAATTACCAAAGTACCCCTGTAGGGTAGAATTACT
1 ATAGAATTACTGAAATACCCCTATAAGGAAGAATTACCAAAGCACCCCTGTAGGGTAGAAATACC
* **
30009879 GAAATACACCTATAAGATAGAATTATTGAAATACCCCTGTAGGGTAGAATTACCAAAATAC
66 GAAATACACCTATAAGATAGAAATACCGAAATACCCCTGTAGGGTAGAATTACCAAAATAC
* * *
30009940 ATAGAATTACTGAAATACCCCTGTAGGGTAGAATTACCAGAA-CACCCCTGTAGGGTAGAAATAC
1 ATAGAATTACTGAAATACCCCTATAAGGAAGAATTACCA-AAGCACCCCTGTAGGGTAGAAATAC
* * *
30010004 CGAAATAC-CCTTATAGGGTAGAAATACCGAAATACCCCTGTATGGTAGAATTACCAA
65 CGAAATACACC-TATAAGATAGAAATACCGAAATACCCCTGTAGGGTAGAATTACCAA
30010061 GATAACCTTG
Statistics
Matches: 105, Mismatches: 14, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
125 2 0.02
126 101 0.96
127 2 0.02
ACGTcount: A:0.40, C:0.19, G:0.18, T:0.24
Consensus pattern (126 bp):
ATAGAATTACTGAAATACCCCTATAAGGAAGAATTACCAAAGCACCCCTGTAGGGTAGAAATACC
GAAATACACCTATAAGATAGAAATACCGAAATACCCCTGTAGGGTAGAATTACCAAAATAC
Found at i:30010346 original size:24 final size:24
Alignment explanation
Indices: 30010289--30010361 Score: 69
Period size: 25 Copynumber: 3.0 Consensus size: 24
30010279 AGGAAGTGCG
**
30010289 AAAAG-GGCTTTGCCCCAGATTACC
1 AAAAGAGGCTTTGCCCCAG-TTATT
30010313 AAAA-AGGGCTTTGCCCCAGTTATT
1 AAAAGA-GGCTTTGCCCCAGTTATT
**
30010337 AAAAGAGGCTAGGCCTCCAGTTATT
1 AAAAGAGGCTTTGCC-CCAGTTATT
30010362 TGATAAAGCA
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
24 18 0.44
25 23 0.56
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.25
Consensus pattern (24 bp):
AAAAGAGGCTTTGCCCCAGTTATT
Found at i:30013359 original size:27 final size:28
Alignment explanation
Indices: 30013339--30013396 Score: 84
Period size: 27 Copynumber: 2.1 Consensus size: 28
30013329 CTAATCCTTG
* *
30013339 AACCCCAAACTCG-AGCTCTAAACCTCA
1 AACCCAAAACTCGTAACTCTAAACCTCA
30013366 AACCCAAAACTCGTAACTCTAAACC-CA
1 AACCCAAAACTCGTAACTCTAAACCTCA
30013393 AACC
1 AACC
30013397 TTGAATCCTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 18 0.64
28 10 0.36
ACGTcount: A:0.41, C:0.40, G:0.05, T:0.14
Consensus pattern (28 bp):
AACCCAAAACTCGTAACTCTAAACCTCA
Found at i:30013448 original size:13 final size:14
Alignment explanation
Indices: 30013422--30013457 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
30013412 AAAAGCCAAT
*
30013422 TTTAGGGTTTAAAG
1 TTTAGGGTTGAAAG
30013436 TTT-GGGTTGAAAG
1 TTTAGGGTTGAAAG
30013449 TTTAGGGTT
1 TTTAGGGTT
30013458 CATGTTTAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 12 0.60
14 8 0.40
ACGTcount: A:0.22, C:0.00, G:0.33, T:0.44
Consensus pattern (14 bp):
TTTAGGGTTGAAAG
Found at i:30015897 original size:8 final size:8
Alignment explanation
Indices: 30015884--30015910 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
30015874 ACCTTGCAAG
30015884 TTGCCAAC
1 TTGCCAAC
30015892 TTGCCAAC
1 TTGCCAAC
30015900 TTGCCAAC
1 TTGCCAAC
30015908 TTG
1 TTG
30015911 TTTTGAAACG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.22, C:0.33, G:0.15, T:0.30
Consensus pattern (8 bp):
TTGCCAAC
Found at i:30027116 original size:40 final size:40
Alignment explanation
Indices: 30027046--30027263 Score: 325
Period size: 40 Copynumber: 5.5 Consensus size: 40
30027036 AAACCAAGTA
* *
30027046 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
30027085 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
30027125 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
30027165 CCTTCCGGACTTAGCCCGGATATAGTAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
30027205 CCTTCAGGACTTAGCCCAGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
30027245 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
30027264 TTACCATCCG
Statistics
Matches: 166, Mismatches: 10, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
39 15 0.09
40 151 0.91
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:30035155 original size:40 final size:40
Alignment explanation
Indices: 30035085--30035298 Score: 316
Period size: 40 Copynumber: 5.5 Consensus size: 40
30035075 AAACCAAGTA
* *
30035085 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
30035124 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
30035164 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
30035204 CCTTCGGGACTTAGCCCGGATATAGTAACTTGC-CAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
30035243 CCTTC--GACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
30035281 CCTTC-GGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
30035299 TTACCATCCG
Statistics
Matches: 165, Mismatches: 5, Indels: 10
0.92 0.03 0.06
Matches are distributed among these distances:
36 1 0.01
37 22 0.13
38 11 0.07
39 37 0.22
40 94 0.57
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:30039372 original size:25 final size:25
Alignment explanation
Indices: 30039344--30039391 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
30039334 TTATACCATG
* * *
30039344 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
30039369 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
30039392 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:30039494 original size:20 final size:20
Alignment explanation
Indices: 30039434--30039494 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
30039424 ATAAATATGG
*
30039434 TATGTATGAGATGCACATGA
1 TATGTATGATATGCACATGA
*
30039454 CATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
30039474 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
30039494 T
1 T
30039495 GTAATCATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.33
Consensus pattern (20 bp):
TATGTATGATATGCACATGA
Found at i:30039571 original size:24 final size:24
Alignment explanation
Indices: 30039544--30039662 Score: 170
Period size: 24 Copynumber: 5.0 Consensus size: 24
30039534 GAGGAAGTGA
*
30039544 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
30039568 AAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
30039591 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
30039615 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
30039639 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
30039663 ATGATAAAGC
Statistics
Matches: 86, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
23 22 0.26
24 53 0.62
25 11 0.13
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:30039613 original size:47 final size:48
Alignment explanation
Indices: 30039544--30039662 Score: 170
Period size: 47 Copynumber: 2.5 Consensus size: 48
30039534 GAGGAAGTGA
30039544 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
** *
30039591 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
*
30039639 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
30039663 ATGATAAAGC
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
47 43 0.66
48 11 0.17
49 11 0.17
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
Found at i:30039888 original size:31 final size:31
Alignment explanation
Indices: 30039853--30039916 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
30039843 CGTTTACAGT
30039853 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
30039884 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
30039915 AA
1 AA
30039917 TATGAAAAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:30044409 original size:25 final size:25
Alignment explanation
Indices: 30044381--30044428 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
30044371 TTATACCATG
* * *
30044381 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
30044406 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
30044429 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:30044531 original size:20 final size:20
Alignment explanation
Indices: 30044471--30044531 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
30044461 ATAAATATGG
*
30044471 TATGTATGAGATGCACATGA
1 TATGTATGATATGCACATGA
*
30044491 CATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
30044511 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
30044531 T
1 T
30044532 GTAATCATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.33
Consensus pattern (20 bp):
TATGTATGATATGCACATGA
Found at i:30044608 original size:24 final size:24
Alignment explanation
Indices: 30044581--30044699 Score: 170
Period size: 24 Copynumber: 5.0 Consensus size: 24
30044571 GAGGAAGTGA
*
30044581 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
30044605 AAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
30044628 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
30044652 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
30044676 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
30044700 ATGATAAAGC
Statistics
Matches: 86, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
23 22 0.26
24 53 0.62
25 11 0.13
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:30044650 original size:47 final size:48
Alignment explanation
Indices: 30044581--30044699 Score: 170
Period size: 47 Copynumber: 2.5 Consensus size: 48
30044571 GAGGAAGTGA
30044581 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
** *
30044628 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
*
30044676 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
30044700 ATGATAAAGC
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
47 43 0.66
48 11 0.17
49 11 0.17
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
Found at i:30044926 original size:31 final size:31
Alignment explanation
Indices: 30044891--30044954 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
30044881 CGTTTACAGT
30044891 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
30044922 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
30044953 AA
1 AA
30044955 TATGAAAAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:30049576 original size:20 final size:20
Alignment explanation
Indices: 30049516--30049576 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
30049506 ATAAATATGG
*
30049516 TATGTATGAGATGCACATGA
1 TATGTATGATATGCACATGA
*
30049536 CATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
30049556 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
30049576 T
1 T
30049577 GTAATCATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.33
Consensus pattern (20 bp):
TATGTATGATATGCACATGA
Found at i:30049653 original size:24 final size:24
Alignment explanation
Indices: 30049626--30049768 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
30049616 GAGGAAGTGA
30049626 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
30049650 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
30049674 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
30049697 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
30049721 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
30049745 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
30049769 ATGATAAAGC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 77 0.69
25 11 0.10
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:30049719 original size:47 final size:47
Alignment explanation
Indices: 30049626--30049768 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 47
30049616 GAGGAAGTGA
30049626 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATC
*
30049674 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
* * *
30049721 GAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
30049769 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 43 0.49
48 34 0.39
49 11 0.12
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
Found at i:30049742 original size:71 final size:72
Alignment explanation
Indices: 30049626--30049769 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
30049616 GAGGAAGTGA
*
30049626 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTATGCC-
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGC-TAGGCCT
30049689 CCAGTTAT
65 CCAGTTAT
** * *
30049697 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGCTAGGCCTC
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
30049762 CAGTTAT
66 CAGTTAT
30049769 A
1 A
30049770 TGATAAAGCA
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 54 0.82
72 12 0.18
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (72 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
CAGTTAT
Found at i:30049995 original size:31 final size:31
Alignment explanation
Indices: 30049960--30050023 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
30049950 CGTTTACAGT
*
30049960 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
30049991 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
30050022 AA
1 AA
30050024 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:30052937 original size:46 final size:46
Alignment explanation
Indices: 30052870--30052996 Score: 166
Period size: 46 Copynumber: 2.8 Consensus size: 46
30052860 TATTTGGGCA
*
30052870 TCCGAGCTCGTTGAGTCGAGTCCGAGTTCACTTATAGATGCAAATG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCAAATG
* * * *
30052916 TCCGAGCTCGTTGGGTTGAGTCCGAGTTCACTTATGGATGTAATTG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCAAATG
* * *
30052962 -CTCAAGCTCGTTGAGTTGAGTCCAAGTTCGCTTAT
1 TC-CGAGCTCGTTGAGTTGAGTCCGAGTTCACTTAT
30052997 GGGCGGGTTA
Statistics
Matches: 71, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
45 1 0.01
46 70 0.99
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.32
Consensus pattern (46 bp):
TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCAAATG
Found at i:30059671 original size:48 final size:47
Alignment explanation
Indices: 30059615--30059946 Score: 271
Period size: 48 Copynumber: 6.9 Consensus size: 47
30059605 GGGTGAATTA
* * *
30059615 CCGATGCCATGTTCCAAACATGGTCTTACATTGGCTCACATATCGAGG
1 CCGATGCCATGTTCCAGACATGGTCTTACACTGGCTCTCATATCGA-G
** * *
30059663 CCGATGCCATG-TCCTAGACATGGTCTTACACTATCTCTCATCTC-ATTT
1 CCGATGCCATGTTCC-AGACATGGTCTTACACTGGCTCTCATATCGA--G
* *
30059711 CCGATGCCATG-TCCTAGACATGGTCTTACACTGGCTCTCATGTTGTAG
1 CCGATGCCATGTTCC-AGACATGGTCTTACACTGGCTCTCATATCG-AG
* * * * * *
30059759 CCGATGCCATG-TCACAGACATGGTCTTACTCTAGCACACATATCAATA
1 CCGATGCCATGTTC-CAGACATGGTCTTACACTGGCTCTCATATCGA-G
* * *
30059807 CCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCACAACATC-A-
1 CCGATGCCATGTTCCAGACATGGTCTTACACTGGCTCT--C-ATATCGAG
** * * *
30059855 CCGATGTTATGTTCCAAACATGGTCTTACATTGGCTCTCATATCGTGG
1 CCGATGCCATGTTCCAGACATGGTCTTACACTGGCTCTCATATCG-AG
** * *
30059903 CCGACACCATGTCCCAGACATGGTCTTACACTGGCACTCATATC
1 CCGATGCCATGTTCCAGACATGGTCTTACACTGGCTCTCATATC
30059947 ACCCAAATGT
Statistics
Matches: 227, Mismatches: 44, Indels: 26
0.76 0.15 0.09
Matches are distributed among these distances:
45 4 0.02
46 1 0.00
47 5 0.02
48 208 0.92
49 2 0.01
50 3 0.01
51 4 0.02
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.29
Consensus pattern (47 bp):
CCGATGCCATGTTCCAGACATGGTCTTACACTGGCTCTCATATCGAG
Found at i:30059876 original size:144 final size:143
Alignment explanation
Indices: 30059615--30059947 Score: 386
Period size: 144 Copynumber: 2.3 Consensus size: 143
30059605 GGGTGAATTA
* * * * *
30059615 CCGATGCCATGTTCCAAACATGGTCTTACAT-TGGCTCACATATCGAGGCCGATGCCATGTCCTA
1 CCGATGCCATG-TCCAGACATGGTCTTAC-TCTGGCACACATATCAAGACCGATGCCATGTCCCA
* ** *
30059679 GACATGGTCTTACACTATCTCTCATCTCATTTCCGATGCCATGTCCTAGACATGGTCTTACACTG
64 GACATGGTCTTACACTATCTCTCATCACATCACCGATGCCATGTCCTAAACATGGTCTTACACTG
* *
30059744 GCTCTCATGTTGTAG
129 GCTCTCATATCGTAG
* *
30059759 CCGATGCCATGTCACAGACATGGTCTTACTCTAGCACACATATCAATACCGATGCCATGTCCCAG
1 CCGATGCCATGTC-CAGACATGGTCTTACTCTGGCACACATATCAAGACCGATGCCATGTCCCAG
** *
30059824 ACATGGTCTTACACTGA-CTCTCA-CAACATCACCGATGTTATGTTCC-AAACATGGTCTTACAT
65 ACATGGTCTTACACT-ATCTCTCATC-ACATCACCGATGCCATG-TCCTAAACATGGTCTTACAC
*
30059886 TGGCTCTCATATCGTGG
127 TGGCTCTCATATCGTAG
** * *
30059903 CCGACACCATGTCCCAGACATGGTCTTACACTGGCACTCATATCA
1 CCGATGCCATGT-CCAGACATGGTCTTACTCTGGCACACATATCA
30059948 CCCAAATGTC
Statistics
Matches: 161, Mismatches: 22, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
143 4 0.02
144 152 0.94
145 5 0.03
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.29
Consensus pattern (143 bp):
CCGATGCCATGTCCAGACATGGTCTTACTCTGGCACACATATCAAGACCGATGCCATGTCCCAGA
CATGGTCTTACACTATCTCTCATCACATCACCGATGCCATGTCCTAAACATGGTCTTACACTGGC
TCTCATATCGTAG
Found at i:30071417 original size:39 final size:39
Alignment explanation
Indices: 30071373--30071521 Score: 246
Period size: 39 Copynumber: 3.8 Consensus size: 39
30071363 TATGGTAGCC
* *
30071373 CGCACAA-TGCCTTCGAGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCG-GGCTTAGCCCGGATATCACAACT
*
30071412 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
30071451 CGCACAATTGCCTTCGAGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
30071490 CGCACAATTGCCTTCGGGCTTAGCCCGGATAT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATAT
30071522 TACCCGAACA
Statistics
Matches: 103, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
39 95 0.92
40 8 0.08
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:30079102 original size:29 final size:29
Alignment explanation
Indices: 30078967--30079101 Score: 216
Period size: 29 Copynumber: 4.7 Consensus size: 29
30078957 GCTTGGAAGG
30078967 TATGGCACTAAGTGTGCGAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
30078996 TATGGCACTAAGTGTGCGAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
*
30079025 TATGGCACTAAGTGTGCAAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
* * **
30079054 TATGGCACTATGTGTGCGAGCTTAAATCG
1 TATGGCACTAAGTGTGCGAACTTAAATTA
*
30079083 CATGGCACTAAGTGTGCGA
1 TATGGCACTAAGTGTGCGA
30079102 GATCGTTTAT
Statistics
Matches: 98, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 98 1.00
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.30
Consensus pattern (29 bp):
TATGGCACTAAGTGTGCGAACTTAAATTA
Found at i:30082845 original size:39 final size:39
Alignment explanation
Indices: 30082802--30082911 Score: 168
Period size: 39 Copynumber: 2.8 Consensus size: 39
30082792 TATGGTAGCC
30082802 CGCACAA-TGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAACCCGGATATCACAACT
*
30082841 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAACCCGGATATCACAACT
* * *
30082880 CGCACAATTGCCTTCGAGCTTAGCCCTGATAT
1 CGCACAATTGCCTTCGGGCTTAACCCGGATAT
30082912 TACCCGAACA
Statistics
Matches: 67, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
39 57 0.85
40 10 0.15
ACGTcount: A:0.25, C:0.33, G:0.19, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAACCCGGATATCACAACT
Found at i:30087035 original size:43 final size:42
Alignment explanation
Indices: 30086974--30087146 Score: 179
Period size: 43 Copynumber: 4.1 Consensus size: 42
30086964 ACATAAAGCT
* * * * *
30086974 CATACAATGCC-ATATCCCAGATATGGTCTTACATGTTATCA
1 CATACGATGCCAATGTCCCAGACATGGTCTTACACGTAATCA
* * * *
30087015 CATACCGGTGCCACTGTCCCAGACAGGGTCTTACACGAAATCGA
1 CATA-CGATGCCAATGTCCCAGACATGGTCTTACACGTAATC-A
*
30087059 -ATAGCGATGCCAATGTCCCAGACATGGTCTTACACATAATCA
1 CATA-CGATGCCAATGTCCCAGACATGGTCTTACACGTAATCA
* * *
30087101 CAATACAATGCCAATGTTCCAGACATGGTCTTACATGTAATCA
1 C-ATACGATGCCAATGTCCCAGACATGGTCTTACACGTAATCA
30087144 CAT
1 CAT
30087147 CTTGATAACC
Statistics
Matches: 108, Mismatches: 19, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
41 4 0.04
42 8 0.07
43 92 0.85
44 4 0.04
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (42 bp):
CATACGATGCCAATGTCCCAGACATGGTCTTACACGTAATCA
Found at i:30099366 original size:27 final size:27
Alignment explanation
Indices: 30099285--30099383 Score: 103
Period size: 27 Copynumber: 3.7 Consensus size: 27
30099275 TTTAGTTTAC
*
30099285 TAAAATTACCGAAATACCCTT-AGTTTG
1 TAAAATTACCGAAATA-CCTTCAATTTG
* * * *
30099312 TAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACCGAAATACCTTCAATTTG
* *
30099339 TAAATTTACCGAAATACCTTCAACTTG
1 TAAAATTACCGAAATACCTTCAATTTG
30099366 TAAAATTACC-AAAGTACC
1 TAAAATTACCGAAA-TACC
30099384 CCCGATTTAC
Statistics
Matches: 58, Mismatches: 12, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
26 6 0.10
27 52 0.90
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.30
Consensus pattern (27 bp):
TAAAATTACCGAAATACCTTCAATTTG
Found at i:30099384 original size:54 final size:54
Alignment explanation
Indices: 30099285--30099391 Score: 128
Period size: 54 Copynumber: 2.0 Consensus size: 54
30099275 TTTAGTTTAC
** * *
30099285 TAAAATTACCGAAATACCCTTAGTTTGTAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACCGAAATACCCTTAACTTGTAAAAATACTCAAATACCCCCGATTTG
* *
30099339 TAAATTTACCGAAATA-CCTTCAACTTGTAAAATTAC-CAAAGTACCCCCGATTT
1 TAAAATTACCGAAATACCCTT-AACTTGTAAAAATACTCAAA-TACCCCCGATTT
30099392 ACAGAATTAC
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
53 7 0.16
54 38 0.84
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.31
Consensus pattern (54 bp):
TAAAATTACCGAAATACCCTTAACTTGTAAAAATACTCAAATACCCCCGATTTG
Found at i:30099402 original size:54 final size:53
Alignment explanation
Indices: 30099287--30099403 Score: 121
Period size: 54 Copynumber: 2.2 Consensus size: 53
30099277 TAGTTTACTA
** * * **
30099287 AAATTACCGAAATACCCTTAGTTTGTAAAAATACTGAAATACCCTCGATTTGT
1 AAATTACCGAAATACCCTTAACTTGTAAAAATACTCAAATACCCCCGATTTAC
*
30099340 AAATTTACCGAAATA-CCTTCAACTTGTAAAATTAC-CAAAGTACCCCCGATTTAC
1 AAA-TTACCGAAATACCCTT-AACTTGTAAAAATACTCAAA-TACCCCCGATTTAC
30099394 AGAATTACCG
1 A-AATTACCG
30099404 TTTTACCCCT
Statistics
Matches: 53, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
53 10 0.19
54 41 0.77
55 2 0.04
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.29
Consensus pattern (53 bp):
AAATTACCGAAATACCCTTAACTTGTAAAAATACTCAAATACCCCCGATTTAC
Found at i:30099410 original size:27 final size:27
Alignment explanation
Indices: 30099387--30099698 Score: 363
Period size: 27 Copynumber: 11.6 Consensus size: 27
30099377 AAGTACCCCC
*
30099387 GATTTACAGAATTACCGTTTTACCCCT
1 GATTTACAGAATTACCGTTTTACCCTT
* * *
30099414 AATTTACATAATTACCGTTTTACCCCT
1 GATTTACAGAATTACCGTTTTACCCTT
* * *
30099441 GATTTACATAATTATCGTTTTACCCTC
1 GATTTACAGAATTACCGTTTTACCCTT
* *
30099468 GACTTACAGAATTACCGTTTTACCCCT
1 GATTTACAGAATTACCGTTTTACCCTT
* * * *
30099495 AATTTACATAATTATCGTTTTACCCCT
1 GATTTACAGAATTACCGTTTTACCCTT
* * * *
30099522 GATTTACATAATTATCGTCTTACCCTC
1 GATTTACAGAATTACCGTTTTACCCTT
* *
30099549 GACTTACAGAATTACCGTTTTACCCTC
1 GATTTACAGAATTACCGTTTTACCCTT
* *
30099576 GATTTACTGAATTACTGTTTTACCCTT
1 GATTTACAGAATTACCGTTTTACCCTT
* **
30099603 GATTTATAGAATTACTATTTTACCCTT
1 GATTTACAGAATTACCGTTTTACCCTT
* *
30099630 GATTTATAGAATTACTGTTTTACCCTT
1 GATTTACAGAATTACCGTTTTACCCTT
* *
30099657 GATTTACAGAATTACTGTTTTACCCTC
1 GATTTACAGAATTACCGTTTTACCCTT
*
30099684 GATTTACAAAATTAC
1 GATTTACAGAATTAC
30099699 TAAAATACCC
Statistics
Matches: 251, Mismatches: 34, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 251 1.00
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (27 bp):
GATTTACAGAATTACCGTTTTACCCTT
Found at i:30099581 original size:81 final size:81
Alignment explanation
Indices: 30099380--30099697 Score: 403
Period size: 81 Copynumber: 3.9 Consensus size: 81
30099370 ATTACCAAAG
* * *
30099380 TACCCCCGATTTACAGAATTACCGTTTTACCCCTAATTTACATAATTACCGTTTTACCCCTGATT
1 TACCCTCGACTTACAGAATTACCGTTTTACCCCTAATTTACATAATTACTGTTTTACCCCTGATT
30099445 TACATAATTATCGTTT
66 TACATAATTATCGTTT
30099461 TACCCTCGACTTACAGAATTACCGTTTTACCCCTAATTTACATAATTA-TCGTTTTACCCCTGAT
1 TACCCTCGACTTACAGAATTACCGTTTTACCCCTAATTTACATAATTACT-GTTTTACCCCTGAT
*
30099525 TTACATAATTATCGTCT
65 TTACATAATTATCGTTT
* *
30099542 TACCCTCGACTTACAGAATTACCGTTTTA-CCCTCGATTTAC-TGAATTACTGTTTTACCCTTGA
1 TACCCTCGACTTACAGAATTACCGTTTTACCCCT-AATTTACAT-AATTACTGTTTTACCCCTGA
* * *
30099605 TTTATAGAATTA-CTATTT
64 TTTACATAATTATC-GTTT
* * * * * * *
30099623 TACCCTTGATTTATAGAATTACTGTTTTACCCTTGATTTACAGAATTACTGTTTTA-CCCTCGAT
1 TACCCTCGACTTACAGAATTACCGTTTTACCCCTAATTTACATAATTACTGTTTTACCCCT-GAT
*
30099687 TTACAAAATTA
65 TTACATAATTA
30099698 CTAAAATACC
Statistics
Matches: 210, Mismatches: 19, Indels: 16
0.86 0.08 0.07
Matches are distributed among these distances:
80 9 0.04
81 197 0.94
82 4 0.02
ACGTcount: A:0.27, C:0.23, G:0.08, T:0.41
Consensus pattern (81 bp):
TACCCTCGACTTACAGAATTACCGTTTTACCCCTAATTTACATAATTACTGTTTTACCCCTGATT
TACATAATTATCGTTT
Found at i:30099707 original size:27 final size:27
Alignment explanation
Indices: 30099596--30099844 Score: 119
Period size: 27 Copynumber: 9.1 Consensus size: 27
30099586 ATTACTGTTT
* * ***
30099596 TACCCTTGATTTATAGAATTACTATTT
1 TACCCTTGATTTACAAAATTACTAAAA
* * ****
30099623 TACCCTTGATTTATAGAATTACTGTTT
1 TACCCTTGATTTACAAAATTACTAAAA
* ****
30099650 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTTGATTTACAAAATTACTAAAA
*
30099677 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGATTTACAAAATTACTAAAA
* *** *
30099704 TACCCTTGGTTTGTGAAATTACCGAAAA
1 TACCCTTGATTTACAAAATTA-CTAAAA
** ** *
30099732 -ACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACTAAAA
* * *
30099758 TACCCCTAATTTACAAAGTTAC-AGAAA
1 TACCCTTGATTTACAAAATTACTA-AAA
30099785 TACCCTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTTGA-TTTAC--AAAATTACTA-AAA
* * *
30099814 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTTGATTTACAAAATTACTAAAA
30099841 TACC
1 TACC
30099845 TTTGGTTTGT
Statistics
Matches: 183, Mismatches: 30, Indels: 18
0.79 0.13 0.08
Matches are distributed among these distances:
26 6 0.03
27 146 0.80
28 12 0.07
29 19 0.10
ACGTcount: A:0.37, C:0.19, G:0.09, T:0.36
Consensus pattern (27 bp):
TACCCTTGATTTACAAAATTACTAAAA
Found at i:30099736 original size:81 final size:81
Alignment explanation
Indices: 30099570--30099742 Score: 186
Period size: 81 Copynumber: 2.1 Consensus size: 81
30099560 TTACCGTTTT
* * * * ***
30099570 ACCCTCGATTTACTGAATTACTGTTTTACCCTTGATTTATAGAATTACTATTTTACCCTTGATTT
1 ACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGATTT
* ****
30099635 ATAGAATTACTGTTTT
66 ATAGAATTACCGAAAA
* *
30099651 ACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTT
1 ACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGATTT
*
30099716 GT-GAAATTACCGAAAA
66 ATAG-AATTACCGAAAA
*
30099732 ACCCTCAATTT
1 ACCCTCGATTT
30099743 GTAAAATTAC
Statistics
Matches: 74, Mismatches: 17, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
80 1 0.01
81 73 0.99
ACGTcount: A:0.30, C:0.20, G:0.10, T:0.40
Consensus pattern (81 bp):
ACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGATTT
ATAGAATTACCGAAAA
Found at i:30099849 original size:27 final size:27
Alignment explanation
Indices: 30099801--30099852 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
30099791 TGACTTTCTA
30099801 AAAATTATAGAAATACCATTGGTTTAC
1 AAAATTATAGAAATACCATTGGTTTAC
*
30099828 AAAATTACT-GAAATACCTTTGGTTT
1 AAAATTA-TAGAAATACCATTGGTTT
30099853 GTTGATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.37
Consensus pattern (27 bp):
AAAATTATAGAAATACCATTGGTTTAC
Found at i:30099970 original size:27 final size:27
Alignment explanation
Indices: 30099906--30099970 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
30099896 ACCCCTAAAA
*
30099906 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* *
30099933 GGTAAAGTGACCGTAATA-CCCCTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
30099960 GGTAAAATGAC
1 GGTAAAATGAC
30099971 GAATATGCCC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 32 0.97
28 1 0.03
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.20
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:30102240 original size:40 final size:40
Alignment explanation
Indices: 30102095--30102240 Score: 161
Period size: 40 Copynumber: 3.6 Consensus size: 40
30102085 CAATTGAATG
* * *
30102095 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGAC-TT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC-A-AGACGTT
* * **
30102136 -TATCCGGGCTAAGACTCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGACGTT
* * *
30102175 AAATCTGGGCTAATACCCGAAGGCATTTGTGCAAGACGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGACGTT
*
30102215 ATATCCGGGCTAAGACCTGAAGGCAT
1 ATATCCGGGCTAAGACCCGAAGGCAT
30102241 CCGTGCATGT
Statistics
Matches: 85, Mismatches: 18, Indels: 5
0.79 0.17 0.05
Matches are distributed among these distances:
38 1 0.01
39 3 0.04
40 81 0.95
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGACGTT
Found at i:30102247 original size:40 final size:40
Alignment explanation
Indices: 30102095--30102262 Score: 155
Period size: 40 Copynumber: 4.2 Consensus size: 40
30102085 CAATTGAATG
* * *
30102095 ATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGT-GACTT
1 ATATCCGGGCTAAGACCTGAAGGC-ATTCGTGCAAGTCG--TT
*
30102136 -TATCCGGGCTAAGA-CTCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCT-GAAGGCATTCGTGCAAGTCGTT
* * * * * *
30102175 AAATCTGGGCTAATACCCGAAGGCATTTGTGCAAGACGTT
1 ATATCCGGGCTAAGACCTGAAGGCATTCGTGCAAGTCGTT
* * *
30102215 ATATCCGGGCTAAGACCTGAAGGCATCCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCTGAAGGCATTCGTGCAAGTCGTT
30102255 ATATCCGG
1 ATATCCGG
30102263 TTGTATTCCG
Statistics
Matches: 103, Mismatches: 19, Indels: 11
0.77 0.14 0.08
Matches are distributed among these distances:
39 6 0.06
40 95 0.92
41 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCTGAAGGCATTCGTGCAAGTCGTT
Found at i:30103222 original size:51 final size:51
Alignment explanation
Indices: 30103158--30103293 Score: 148
Period size: 51 Copynumber: 2.7 Consensus size: 51
30103148 TGGAAACATG
*
30103158 ATCTTAAAAGATATGATATTATAGTCTTAGAGATCTTAGATATGATATGGA
1 ATCTTAAAAGATATGATATTATAGTCTTAGAGATCTTAGATAAGATATGGA
* * * * * * ** *
30103209 ATCTTATAAGATATTATTTTATAAG-ATTACATATCTTATCTAAGATATGTA
1 ATCTTAAAAGATATGATATTAT-AGTCTTAGAGATCTTAGATAAGATATGGA
* *
30103260 ATCTTAGAAGATATGATATTATATTCTTAGAGAT
1 ATCTTAAAAGATATGATATTATAGTCTTAGAGAT
30103294 TTGGTGGTAG
Statistics
Matches: 66, Mismatches: 17, Indels: 4
0.76 0.20 0.05
Matches are distributed among these distances:
50 1 0.02
51 63 0.95
52 2 0.03
ACGTcount: A:0.39, C:0.07, G:0.13, T:0.41
Consensus pattern (51 bp):
ATCTTAAAAGATATGATATTATAGTCTTAGAGATCTTAGATAAGATATGGA
Found at i:30106049 original size:51 final size:50
Alignment explanation
Indices: 30105985--30106120 Score: 128
Period size: 51 Copynumber: 2.7 Consensus size: 50
30105975 TGGAAACATG
* *
30105985 ATCTTAAAAGATATGATATTATAGCCTTAGAGATCTTAGATATGATTTGGA
1 ATCTTAAAAGATATGATATTATAG-CTTAGAGATCTTAGATAAGATATGGA
* * * * * * ** *
30106036 ATCTTATAAGATATTATTTTATAAGATTACATATCTTATCTAAGATATGTA
1 ATCTTAAAAGATATGATATTAT-AGCTTAGAGATCTTAGATAAGATATGGA
* *
30106087 ATCTTAGAAGATATGATATTATATTCTTAGAGAT
1 ATCTTAAAAGATATGATATTATA-GCTTAGAGAT
30106121 TTGGTGGTAG
Statistics
Matches: 65, Mismatches: 18, Indels: 4
0.75 0.21 0.05
Matches are distributed among these distances:
50 1 0.02
51 62 0.95
52 2 0.03
ACGTcount: A:0.38, C:0.07, G:0.13, T:0.41
Consensus pattern (50 bp):
ATCTTAAAAGATATGATATTATAGCTTAGAGATCTTAGATAAGATATGGA
Found at i:30107900 original size:25 final size:25
Alignment explanation
Indices: 30107871--30107918 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
30107861 TTATAATATG
* *
30107871 AAAATGACCATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
30107896 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
30107919 GTTTATGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:30107969 original size:9 final size:9
Alignment explanation
Indices: 30107957--30108013 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
30107947 TTTGATGCAC
30107957 ATGATATGT
1 ATGATATGT
*
30107966 ATGATATGCAC
1 ATGATATG--T
*
30107977 ATGACATGT
1 ATGATATGT
*
30107986 ATGATATGCAC
1 ATGATATG--T
30107997 ATGATATGT
1 ATGATATGT
30108006 ATGATATG
1 ATGATATG
30108014 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:30107976 original size:20 final size:20
Alignment explanation
Indices: 30107951--30108025 Score: 132
Period size: 20 Copynumber: 3.8 Consensus size: 20
30107941 TGGGATTTTG
30107951 ATGCACATGATATGTATGAT
1 ATGCACATGATATGTATGAT
*
30107971 ATGCACATGACATGTATGAT
1 ATGCACATGATATGTATGAT
30107991 ATGCACATGATATGTATGAT
1 ATGCACATGATATGTATGAT
*
30108011 ATGCACATGAGATGT
1 ATGCACATGATATGT
30108026 TCATAAATGC
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 52 1.00
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.32
Consensus pattern (20 bp):
ATGCACATGATATGTATGAT
Found at i:30108102 original size:23 final size:23
Alignment explanation
Indices: 30108072--30108285 Score: 311
Period size: 23 Copynumber: 9.1 Consensus size: 23
30108062 AGGAAGTGCA
30108072 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
30108095 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* *
30108118 AAAGGGCTTATGCCCCAGTGATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
30108142 AAAGGGCTTACGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
30108165 AAAAGGGCTTATGCCCCAGTTATCA
1 -AAAGGGCTTATGCCCCAGTTAT-T
30108190 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* *
30108213 AAAGGGCTTATGCCCCAGTGATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
* *
30108237 AAAGGGCTTACGCCCTAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
30108260 AAAGGGCTTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
30108283 AAA
1 AAA
30108286 AGAGGCAAGG
Statistics
Matches: 170, Mismatches: 17, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
23 88 0.52
24 82 0.48
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:30108150 original size:24 final size:23
Alignment explanation
Indices: 30108071--30108287 Score: 299
Period size: 24 Copynumber: 9.2 Consensus size: 23
30108061 GAGGAAGTGC
30108071 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
30108094 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
* *
30108117 TAAAGGGCTTATGCCCCAGTGAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
30108140 CAAAAGGGCTTACGCCCCAGTTATT
1 -AAAAGGGCTTATGCCCCAGTTA-T
30108165 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
30108188 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
* *
30108212 TAAAGGGCTTATGCCCCAGTGAT
1 AAAAGGGCTTATGCCCCAGTTAT
* *
30108235 CAAAAGGGCTTACGCCCTAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
* *
30108259 TAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
30108283 AAAAG
1 AAAAG
30108288 AGGCAAGGCC
Statistics
Matches: 172, Mismatches: 17, Indels: 9
0.87 0.09 0.05
Matches are distributed among these distances:
23 84 0.49
24 87 0.51
25 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.27
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:30108161 original size:47 final size:47
Alignment explanation
Indices: 30108072--30108287 Score: 344
Period size: 47 Copynumber: 4.6 Consensus size: 47
30108062 AGGAAGTGCA
* *
30108072 AAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTACGCCCCAGTTATT
*
30108118 AAAGGGCTTATGCCCCAGTGATCAAAAGGGCTTACGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTACGCCCCAGTTATT
*
30108165 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTACGCCCCAGTTATT
* *
30108213 AAAGGGCTTATGCCCCAGTGATCAAAAGGGCTTACGCCCTAGTTATT
1 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTACGCCCCAGTTATT
* *
30108260 AAAGGGCTTTTGCCCCAGTTATTAAAAG
1 AAAGGGCTTATGCCCCAGTTATCAAAAG
30108288 AGGCAAGGCC
Statistics
Matches: 157, Mismatches: 11, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
46 21 0.13
47 91 0.58
48 45 0.29
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (47 bp):
AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTACGCCCCAGTTATT
Found at i:30108577 original size:31 final size:31
Alignment explanation
Indices: 30108542--30108605 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
30108532 CGTTTACAGT
*
30108542 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
30108573 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
30108604 AA
1 AA
30108606 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:30111123 original size:25 final size:24
Alignment explanation
Indices: 30111089--30111140 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 24
30111079 CACAAACGCA
30111089 GCTCTTTATGAGAATCCTGATATAG
1 GCTCTTTATGAGAATCCTGATAT-G
**
30111114 GCTCTTTATGAGCTTCCTGATATG
1 GCTCTTTATGAGAATCCTGATATG
30111138 GCT
1 GCT
30111141 TGCTTGAACA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 4 0.16
25 21 0.84
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.38
Consensus pattern (24 bp):
GCTCTTTATGAGAATCCTGATATG
Found at i:30112820 original size:37 final size:37
Alignment explanation
Indices: 30112767--30112843 Score: 127
Period size: 37 Copynumber: 2.1 Consensus size: 37
30112757 TATAAAGTTT
* *
30112767 GGTAATGCTCTATAACCCTGTTCTGATGACGGATATG
1 GGTAATGCTCTATAACCCTGTTCTGACGACAGATATG
*
30112804 GGTAATGCTCTGTAACCCTGTTCTGACGACAGATATG
1 GGTAATGCTCTATAACCCTGTTCTGACGACAGATATG
30112841 GGT
1 GGT
30112844 TAAGGTGTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.31
Consensus pattern (37 bp):
GGTAATGCTCTATAACCCTGTTCTGACGACAGATATG
Found at i:30115232 original size:23 final size:24
Alignment explanation
Indices: 30115204--30115270 Score: 84
Period size: 24 Copynumber: 2.8 Consensus size: 24
30115194 GCTGATGGAT
*
30115204 GGTAAGCTCT-ATTGAGCTG-AAAC
1 GGTAAGCTCTGA-CGAGCTGAAAAC
30115227 GGTAAGCTCTGACGAGCTGAAAAC
1 GGTAAGCTCTGACGAGCTGAAAAC
* *
30115251 AGTAAGCTCTTACGAGCTGA
1 GGTAAGCTCTGACGAGCTGA
30115271 TATATTGGTA
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
23 16 0.41
24 23 0.59
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.22
Consensus pattern (24 bp):
GGTAAGCTCTGACGAGCTGAAAAC
Found at i:30118959 original size:25 final size:25
Alignment explanation
Indices: 30118925--30118975 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
30118915 ATTGAGACTA
30118925 AAAATGATTCTATATCCTATTATAC
1 AAAATGATTCTATATCCTATTATAC
30118950 AAAATGATTCTATATCCTATTATAC
1 AAAATGATTCTATATCCTATTATAC
30118975 A
1 A
30118976 CATTTGATTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.41, C:0.16, G:0.04, T:0.39
Consensus pattern (25 bp):
AAAATGATTCTATATCCTATTATAC
Found at i:30120033 original size:23 final size:24
Alignment explanation
Indices: 30120007--30120061 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 24
30119997 AAAAGTTACA
* * *
30120007 TTTTATTA-ATTATTGTGTATTAT
1 TTTTATAATATTATTGTATACTAT
30120030 TTTT-TAATATTATTGTATACTAT
1 TTTTATAATATTATTGTATACTAT
30120053 TTTTA-AATA
1 TTTTATAATA
30120062 CACGTGTTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 2 0.07
23 25 0.93
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.62
Consensus pattern (24 bp):
TTTTATAATATTATTGTATACTAT
Found at i:30120037 original size:21 final size:23
Alignment explanation
Indices: 30120015--30120061 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
30120005 CATTTTATTA
* *
30120015 ATTATTGTGTATTATTTTTTAAT
1 ATTATTGTATACTATTTTTTAAT
*
30120038 ATTATTGTATACTATTTTTAAAT
1 ATTATTGTATACTATTTTTTAAT
30120061 A
1 A
30120062 CACGTGTTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.32, C:0.02, G:0.06, T:0.60
Consensus pattern (23 bp):
ATTATTGTATACTATTTTTTAAT
Found at i:30123050 original size:21 final size:21
Alignment explanation
Indices: 30123018--30123078 Score: 79
Period size: 21 Copynumber: 3.0 Consensus size: 21
30123008 CCCTTGAAAC
*
30123018 AGGGC-ACGCGCCCGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
* *
30123038 AGGGCAACACGCCCGTATGAA
1 AGGGCAACACGCCCGTGTGGA
*
30123059 AGGGCAACACGTCCGTGTGG
1 AGGGCAACACGCCCGTGTGG
30123079 TCATTATAAC
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
20 5 0.15
21 29 0.85
ACGTcount: A:0.23, C:0.28, G:0.38, T:0.11
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGGA
Found at i:30124467 original size:44 final size:45
Alignment explanation
Indices: 30124416--30124514 Score: 121
Period size: 46 Copynumber: 2.2 Consensus size: 45
30124406 CCAGGCATGG
* *
30124416 TCTTACACTGAC-ACATCTCGTA-GCCGATGCATGTCTCAAACATC
1 TCTTACACTGACTACATCTCG-AGGCCGATGCATGTCACAAAAATC
* * *
30124460 TCTTACACTGGCTTACATCTCGAGGCTGATGCATGTCACAAAAATG
1 TCTTACACTGAC-TACATCTCGAGGCCGATGCATGTCACAAAAATC
30124506 TCTTACACT
1 TCTTACACT
30124515 AGCTCTCGTC
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
44 11 0.23
45 1 0.02
46 35 0.74
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.29
Consensus pattern (45 bp):
TCTTACACTGACTACATCTCGAGGCCGATGCATGTCACAAAAATC
Found at i:30124478 original size:46 final size:47
Alignment explanation
Indices: 30124429--30124608 Score: 165
Period size: 46 Copynumber: 3.9 Consensus size: 47
30124419 TACACTGACA
*
30124429 CATCTCGTA-GCCGATGCATGTCTCAAACATCTCTTACACTGGCT-T
1 CATCTCGTAGGCCGATGCATGTCTCAAACATGTCTTACACTGGCTCT
* * * *
30124474 ACATCTCG-AGGCTGATGCATGTCACAAAAATGTCTTACACTAGCTCT
1 -CATCTCGTAGGCCGATGCATGTCTCAAACATGTCTTACACTGGCTCT
* * * * * *
30124521 CGTCTC-AATGCTGATGCCATGTCCCAGACATGATCTTACACTGGCTCT
1 CATCTCGTAGGCCGATG-CATGTCTCAAACATG-TCTTACACTGGCTCT
* *
30124569 CATAAT-GT-GGCCGATGCATGTCTCAAACATGTCTTGCACT
1 CAT-CTCGTAGGCCGATGCATGTCTCAAACATGTCTTACACT
30124609 AGCACACAAA
Statistics
Matches: 108, Mismatches: 19, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
45 1 0.01
46 58 0.54
47 26 0.24
48 22 0.20
49 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.29
Consensus pattern (47 bp):
CATCTCGTAGGCCGATGCATGTCTCAAACATGTCTTACACTGGCTCT
Found at i:30130302 original size:23 final size:24
Alignment explanation
Indices: 30130276--30130325 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
30130266 ATATTCTTAA
30130276 AAATATTTTGAATTTTGA-ATTTT
1 AAATATTTTGAATTTTGATATTTT
** *
30130299 AAATATTTTTCATTTTTATATTTT
1 AAATATTTTGAATTTTGATATTTT
30130323 AAA
1 AAA
30130326 AAATTATATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 15 0.65
24 8 0.35
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (24 bp):
AAATATTTTGAATTTTGATATTTT
Found at i:30131017 original size:28 final size:29
Alignment explanation
Indices: 30130948--30131017 Score: 83
Period size: 28 Copynumber: 2.5 Consensus size: 29
30130938 GATAAATATT
**
30130948 TTTAAATAAAAAAATATAAAAATTTAATG
1 TTTAAATTTAAAAATATAAAAATTTAATG
*
30130977 TCTCAAA-TT-AAAATATAAAAATTTAA-G
1 T-TTAAATTTAAAAATATAAAAATTTAATG
30131004 TTTAAATTTAAAAA
1 TTTAAATTTAAAAA
30131018 AAATATAAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
26 4 0.12
27 4 0.12
28 21 0.62
29 1 0.03
30 4 0.12
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.36
Consensus pattern (29 bp):
TTTAAATTTAAAAATATAAAAATTTAATG
Found at i:30133008 original size:48 final size:48
Alignment explanation
Indices: 30132923--30133105 Score: 166
Period size: 48 Copynumber: 3.9 Consensus size: 48
30132913 CACATGGTAG
* * * * *
30132923 GATGCCAATTCCATATCCTGGATATGGTCTTAAATGGGATCACATATC
1 GATGCCAATGCCATGTCCTAGACATGGTCTTACATGGGATCACATATC
*
30132971 GATGCCAATGCCATGTCCTAGACATGGCCTTACATGGGATCACATATC
1 GATGCCAATGCCATGTCCTAGACATGGTCTTACATGGGATCACATATC
* * * * *
30133019 -ATTGCCGAT---A-G-CCCAG-CTATGGTCTTACA-CGAAGTTACATATC
1 GA-TGCCAATGCCATGTCCTAGAC-ATGGTCTTACATGGGA-TCACATATC
* *
30133062 AATGCCAAAGCCATGTCCTAGACATGGTCTTACATGGGATCACA
1 GATGCCAATGCCATGTCCTAGACATGGTCTTACATGGGATCACA
30133106 CATAACCCTA
Statistics
Matches: 106, Mismatches: 18, Indels: 22
0.73 0.12 0.15
Matches are distributed among these distances:
42 3 0.03
43 27 0.25
44 2 0.02
45 1 0.01
46 1 0.01
47 2 0.02
48 67 0.63
49 3 0.03
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.27
Consensus pattern (48 bp):
GATGCCAATGCCATGTCCTAGACATGGTCTTACATGGGATCACATATC
Found at i:30136888 original size:40 final size:40
Alignment explanation
Indices: 30136822--30136988 Score: 162
Period size: 40 Copynumber: 4.2 Consensus size: 40
30136812 AAATTGAATG
* *
30136822 ATATCCGGGCTAAG-CCCG-AGGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGG-CAATTGTGCTGGTAATT
* * ***
30136861 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
30136901 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
30136941 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
30136981 ATATCCGG
1 ATATCCGG
30136989 TTATATTCCG
Statistics
Matches: 105, Mismatches: 17, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
39 16 0.15
40 84 0.80
41 5 0.05
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:30144111 original size:40 final size:40
Alignment explanation
Indices: 30144067--30144195 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
30144057 TGCTGGAAAT
* * *
30144067 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGAC
* *
30144107 TATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTGAC
* * *
30144147 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCAATTGTGCGA-GTGAC
30144187 TATATCCGG
1 TATATCCGG
30144196 TTATATTCCG
Statistics
Matches: 77, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
39 4 0.05
40 71 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGAC
Found at i:30146643 original size:40 final size:41
Alignment explanation
Indices: 30146579--30146798 Score: 303
Period size: 40 Copynumber: 5.6 Consensus size: 41
30146569 AACCCAAGTA
* *
30146579 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
* * *
30146618 CCTTTGGGTCTTAGCCCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
*
30146658 CCTTCGGGTCTTAGCCCGGATATAGTCAA-TAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
* *
30146698 CCTTCGGAACTTGGCCCGGATATAGTC-ACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
*
30146738 CCTTCGGGAC-TAGCCTGGATATAGTC-ACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
30146777 CCTTC-GGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
30146799 CATTCGAATA
Statistics
Matches: 165, Mismatches: 12, Indels: 8
0.89 0.06 0.04
Matches are distributed among these distances:
38 4 0.02
39 55 0.33
40 103 0.62
41 3 0.02
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (41 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
Found at i:30150491 original size:30 final size:29
Alignment explanation
Indices: 30150437--30150538 Score: 177
Period size: 29 Copynumber: 3.5 Consensus size: 29
30150427 ATAGTAATCT
30150437 GCACACTTAGTGCTATATATTTTCAGCTC
1 GCACACTTAGTGCTATATATTTTCAGCTC
30150466 GCACACTTAGTGCTATATAATTTTCAGCTC
1 GCACACTTAGTGCTATAT-ATTTTCAGCTC
* *
30150496 GCACACTTAGTGCTATATGTTTTCAGTTC
1 GCACACTTAGTGCTATATATTTTCAGCTC
30150525 GCACACTTAGTGCT
1 GCACACTTAGTGCT
30150539 GTACAATTTT
Statistics
Matches: 70, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
29 41 0.59
30 29 0.41
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.37
Consensus pattern (29 bp):
GCACACTTAGTGCTATATATTTTCAGCTC
Found at i:30150529 original size:59 final size:60
Alignment explanation
Indices: 30150437--30150568 Score: 194
Period size: 59 Copynumber: 2.2 Consensus size: 60
30150427 ATAGTAATCT
* * * *
30150437 GCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA-TTTTCAGCTC
1 GCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTTAAACCC
* * *
30150496 GCACACTTAGTGCTATATGTTTTCAGTTCGCACACTTAGTGCTGTACAATTTTTAAACCC
1 GCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTTAAACCC
30150556 GCACACTTAGTGC
1 GCACACTTAGTGC
30150569 CAACCTTGTC
Statistics
Matches: 65, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
59 45 0.69
60 20 0.31
ACGTcount: A:0.25, C:0.24, G:0.15, T:0.36
Consensus pattern (60 bp):
GCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTTAAACCC
Found at i:30151909 original size:17 final size:19
Alignment explanation
Indices: 30151874--30151912 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
30151864 TCCACACCCA
30151874 TTTTTTTTTCATCATTTTCT
1 TTTTTTTTTCA-CATTTTCT
30151894 TTTTTTTTTC-CA-TTTCT
1 TTTTTTTTTCACATTTTCT
30151911 TT
1 TT
30151913 ATTCTCCCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.37
18 2 0.11
20 10 0.53
ACGTcount: A:0.08, C:0.15, G:0.00, T:0.77
Consensus pattern (19 bp):
TTTTTTTTTCACATTTTCT
Found at i:30158006 original size:40 final size:41
Alignment explanation
Indices: 30157939--30158160 Score: 330
Period size: 40 Copynumber: 5.6 Consensus size: 41
30157929 AACCCAAGTA
* *
30157939 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
* *
30157978 CCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
* *
30158018 CCTTCGGGTCTTAGCTCGGATATAGTCAA-TAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
*
30158058 CCTTCGGGACTTGGCCCGGATATAGTC-ACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
*
30158098 CCTTTGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
30158138 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
30158161 CATTCGAATA
Statistics
Matches: 170, Mismatches: 10, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
39 13 0.08
40 154 0.91
41 3 0.02
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (41 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
Done.