Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 334 of 362
Found at i:111390266 original size:26 final size:26
Alignment explanation
Indices: 111390213--111390268 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 26
111390203 TTAAACTTCT
*
111390213 TATTAATTATTTTTAAATTAAATTATA
1 TATTAATTATTTTAAAATT-AATTATA
*
111390240 TATTATTTATTTTAAAATT-ATTCATA
1 TATTAATTATTTTAAAATTAATT-ATA
111390266 TAT
1 TAT
111390269 GTCATTCTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 3 0.12
26 6 0.23
27 17 0.65
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (26 bp):
TATTAATTATTTTAAAATTAATTATA
Found at i:111390349 original size:27 final size:26
Alignment explanation
Indices: 111390276--111390369 Score: 89
Period size: 26 Copynumber: 3.6 Consensus size: 26
111390266 TATGTCATTC
* * * **
111390276 TTTAATTTGCTTTGTGTATTATAAAT
1 TTTAAATTGTTTTATGTATTATTCAT
* * ** *
111390302 TTTAAAATGCTTTATACATTATTTAT
1 TTTAAATTGTTTTATGTATTATTCAT
111390328 TTTAAACTTGTTTTATGTATTATTCAT
1 TTTAAA-TTGTTTTATGTATTATTCAT
111390355 TTTAAATTGTTTTAT
1 TTTAAATTGTTTTAT
111390370 TGTTTACTTT
Statistics
Matches: 55, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
26 34 0.62
27 21 0.38
ACGTcount: A:0.29, C:0.05, G:0.07, T:0.59
Consensus pattern (26 bp):
TTTAAATTGTTTTATGTATTATTCAT
Found at i:111395345 original size:125 final size:127
Alignment explanation
Indices: 111395178--111395421 Score: 348
Period size: 126 Copynumber: 1.9 Consensus size: 127
111395168 CCACTTATTG
* * *
111395178 TGAAAATAAAATTTACAAAAACAAGTTTTTATATAAATTTCAAGTCTCATTTC-CCTCGTTTATT
1 TGAAAATAAAATTTACAAAAACAAGTTTTTATATAAACTTCAAGTATCATTTCTCCTAGTTTATT
* * *
111395242 AAGCGATGTGAGATATGAGTTTATATAGACTCATAATTCATTTACAGATTATTCCTATTCTC
66 AAGCGATATAAGATATGAGTCTATATAGACTCATAATTCATTTACAGATTATTCCTATTCTC
* * * * *
111395304 TGAAAATAAAATTTAC-AAAATAAGTTTTTATATAAACTTCAAGTATTATTTCTCTTATTTTCTT
1 TGAAAATAAAATTTACAAAAACAAGTTTTTATATAAACTTCAAGTATCATTTCTCCTAGTTTATT
* * *
111395368 AAGCGATATAAGATATGGGTCTATATAGACTCCTAATTCATTTACAGTTTATTC
66 AAGCGATATAAGATATGAGTCTATATAGACTCATAATTCATTTACAGATTATTC
111395422 TTAATGAGAA
Statistics
Matches: 103, Mismatches: 14, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
125 32 0.31
126 71 0.69
ACGTcount: A:0.36, C:0.13, G:0.10, T:0.41
Consensus pattern (127 bp):
TGAAAATAAAATTTACAAAAACAAGTTTTTATATAAACTTCAAGTATCATTTCTCCTAGTTTATT
AAGCGATATAAGATATGAGTCTATATAGACTCATAATTCATTTACAGATTATTCCTATTCTC
Found at i:111396693 original size:30 final size:30
Alignment explanation
Indices: 111396655--111396740 Score: 138
Period size: 30 Copynumber: 2.9 Consensus size: 30
111396645 AAAACCCTAG
111396655 CCACCTTGCTTCCCACTTGCACCTACTCCA
1 CCACCTTGCTTCCCACTTGCACCTACTCCA
* *
111396685 CCATCTTGCCTCCCACTTGCACCTACTCCA
1 CCACCTTGCTTCCCACTTGCACCTACTCCA
111396715 CCACCTTG-TCTCCCACTTGCACCTAC
1 CCACCTTGCT-TCCCACTTGCACCTAC
111396741 ACCATCAAAT
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
30 51 1.00
ACGTcount: A:0.16, C:0.50, G:0.07, T:0.27
Consensus pattern (30 bp):
CCACCTTGCTTCCCACTTGCACCTACTCCA
Found at i:111397270 original size:3 final size:3
Alignment explanation
Indices: 111397247--111397331 Score: 63
Period size: 3 Copynumber: 28.0 Consensus size: 3
111397237 TTATTTTTTG
* *
111397247 TAT T-T TAT TAT TTT TAC TAT TAT T-T ATAT TAT TAT TAT TAT T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT
111397290 CTCAT GTAT ATAT TAT TAT T-T ATAT TAT TAT TAT TA- TAT TAT
1 -T-AT -TAT -TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT
111397332 ATATACCCTC
Statistics
Matches: 67, Mismatches: 6, Indels: 18
0.74 0.07 0.20
Matches are distributed among these distances:
2 7 0.10
3 51 0.76
4 7 0.10
5 2 0.03
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:111397470 original size:95 final size:92
Alignment explanation
Indices: 111397371--111397551 Score: 210
Period size: 92 Copynumber: 1.9 Consensus size: 92
111397361 TTACTATCAT
*
111397371 TATTGTTACTT-CTATTATTTTT-TATTTCTGACTACTATTATTATATATAAAT-ATATATGT-A
1 TATTGTTA-TTACT-TTATTTTTGTA-TTCT-AATA-TATTATTA-ATATAAATCATAT-TGTCA
*
111397432 TTATTGTTTG-TATTATTATTATTATTATCACCCC
59 TTATT-TTTGCTATTACTATTATTATTATCACCCC
* * *
111397466 TATTGTTATTACTTTATTTTTGTATTCTAATATATTATTAATATTACTCATATTTTCATTATTTT
1 TATTGTTATTACTTTATTTTTGTATTCTAATATATTATTAATATAAATCATATTGTCATTATTTT
111397531 TGCTATTACTATTATTATTAT
66 TGCTATTACTATTATTATTAT
111397552 ATATTAGTGT
Statistics
Matches: 76, Mismatches: 5, Indels: 13
0.81 0.05 0.14
Matches are distributed among these distances:
91 12 0.16
92 35 0.46
93 3 0.04
94 14 0.18
95 12 0.16
ACGTcount: A:0.28, C:0.09, G:0.04, T:0.58
Consensus pattern (92 bp):
TATTGTTATTACTTTATTTTTGTATTCTAATATATTATTAATATAAATCATATTGTCATTATTTT
TGCTATTACTATTATTATTATCACCCC
Found at i:111409408 original size:24 final size:24
Alignment explanation
Indices: 111409363--111409408 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
111409353 CTATTTCAAT
* *
111409363 TAAAAATTTATTTAATTTTTTATA
1 TAAAAATTTATATAATTATTTATA
111409387 TAAAAATTTA-ATAATATATTTA
1 TAAAAATTTATATAAT-TATTTA
111409409 CTATTTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (24 bp):
TAAAAATTTATATAATTATTTATA
Found at i:111413002 original size:42 final size:42
Alignment explanation
Indices: 111412906--111413054 Score: 219
Period size: 43 Copynumber: 3.5 Consensus size: 42
111412896 TTATTTGAAA
*
111412906 AAACGCAGCTAAAGATCATGACCTTTAGCGGCGCTTTTTCCAC
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGC-TTTTCCAC
* *
111412949 AAACGCCGCTAAAGATCATGATCTTTAGCGGCGCTCTTCCAC
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTCCAC
* *
111412991 AAACGCCGCTAAAGATCAAGACCTTTACCGGCGCTTTTCCTAC
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTCC-AC
111413034 AAACGCCGCTAAA-AGTCATGA
1 AAACGCCGCTAAAGA-TCATGA
111413055 AATTCAAAAA
Statistics
Matches: 96, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
42 44 0.46
43 52 0.54
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.23
Consensus pattern (42 bp):
AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTCCAC
Found at i:111413308 original size:19 final size:18
Alignment explanation
Indices: 111413286--111413324 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
111413276 ATTTAGAATC
111413286 AAAACTAAATTAAATAATA
1 AAAACTAAATTAAAT-ATA
* *
111413305 AAAATTAGATTAAATATA
1 AAAACTAAATTAAATATA
111413323 AA
1 AA
111413325 GATATCAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.28
Consensus pattern (18 bp):
AAAACTAAATTAAATATA
Found at i:111421319 original size:46 final size:46
Alignment explanation
Indices: 111421252--111421514 Score: 393
Period size: 46 Copynumber: 5.7 Consensus size: 46
111421242 CGGCAACCTG
111421252 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
*
111421298 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATACGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
*
111421344 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAGA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
* *
111421390 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
* ** * *
111421436 AGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG-AAA
* * * *
111421482 TGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCA
111421515 TCACGTAAAA
Statistics
Matches: 201, Mismatches: 15, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 1 0.00
46 200 1.00
ACGTcount: A:0.39, C:0.16, G:0.24, T:0.21
Consensus pattern (46 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
Found at i:111421445 original size:138 final size:129
Alignment explanation
Indices: 111421203--111421514 Score: 417
Period size: 138 Copynumber: 2.3 Consensus size: 129
111421193 AGTGTGCTCT
*
111421203 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCACGGCAACCTGTGTGTAAGACCATGGT
1 CTGATA-GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
* * **
111421268 TGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
65 TGAAAGATACCATGGCAACCTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
111421333 CTGATACGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAGATGTGTAAG
1 CTGATA-GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-----T--G-TGTGTAAG
*
111421398 ACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAGACCATGGTTGAAAGATACC
57 ACCATGGTTGAAAGATACCATGGCAACCTGACATGAAAAGAATAAGACCATGGTTGAAAGATACC
111421463 ATGGCAAC
122 ATGGCAAC
* * * * * *
111421471 ATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATAG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
111421515 TCACGTAAAA
Statistics
Matches: 160, Mismatches: 13, Indels: 10
0.87 0.07 0.05
Matches are distributed among these distances:
130 45 0.28
135 1 0.01
137 2 0.01
138 112 0.70
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.21
Consensus pattern (129 bp):
CTGATAGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGTT
GAAAGATACCATGGCAACCTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:111421820 original size:23 final size:25
Alignment explanation
Indices: 111421775--111421821 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
111421765 AATAAATATA
*
111421775 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
111421800 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
111421822 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:111422582 original size:18 final size:19
Alignment explanation
Indices: 111422545--111422583 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
111422535 AAATCATATT
111422545 TATTATTTTCATATAAAAA
1 TATTATTTTCATATAAAAA
*
111422564 TATTATTTTGATA-AAAAA
1 TATTATTTTCATATAAAAA
111422582 TA
1 TA
111422584 AAAAAGATCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (19 bp):
TATTATTTTCATATAAAAA
Found at i:111423660 original size:41 final size:41
Alignment explanation
Indices: 111423603--111423744 Score: 198
Period size: 41 Copynumber: 3.5 Consensus size: 41
111423593 TTATATAACT
*
111423603 TTTAGTGGCGTTTTACCAAAAGCGCCTCTAATGCTCTGATC
1 TTTAGCGGCGTTTTACCAAAAGCGCCTCTAATGCTCTGATC
* * * *
111423644 TTTAGCGGCGTTTTACCAAAAGTGCCGCTAATGCTTTGGTC
1 TTTAGCGGCGTTTTACCAAAAGCGCCTCTAATGCTCTGATC
* *
111423685 TTTAGCGGCGTTTTACCAAAAGCG-TTCTAATGCTCT-ATT
1 TTTAGCGGCGTTTTACCAAAAGCGCCTCTAATGCTCTGATC
*
111423724 TTTAGCGGCGTTTTAACAAAA
1 TTTAGCGGCGTTTTACCAAAA
111423745 ACACCGCTAT
Statistics
Matches: 89, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
39 21 0.24
40 9 0.10
41 59 0.66
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.35
Consensus pattern (41 bp):
TTTAGCGGCGTTTTACCAAAAGCGCCTCTAATGCTCTGATC
Found at i:111423752 original size:80 final size:82
Alignment explanation
Indices: 111423603--111423758 Score: 226
Period size: 80 Copynumber: 1.9 Consensus size: 82
111423593 TTATATAACT
* * ***
111423603 TTTAGTGGCGTTTTACCAAAAGCGCCTCTAATGCTCTGATCTTTAGCGGCGTTTTACCAAAAGTG
1 TTTAGCGGCGTTTTACCAAAAGCGCCTCTAATGCTCTGATCTTTAGCGGCGTTTTAACAAAAACA
111423668 CCGCTAATGCTTTGGTC
66 CCGCTAATGCTTTGGTC
* *
111423685 TTTAGCGGCGTTTTACCAAAAGCG-TTCTAATGCTCT-ATTTTTAGCGGCGTTTTAACAAAAACA
1 TTTAGCGGCGTTTTACCAAAAGCGCCTCTAATGCTCTGATCTTTAGCGGCGTTTTAACAAAAACA
*
111423748 CCGCTATTGCT
66 CCGCTAATGCT
111423759 CTGTATTTTA
Statistics
Matches: 66, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
80 32 0.48
81 11 0.17
82 23 0.35
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.35
Consensus pattern (82 bp):
TTTAGCGGCGTTTTACCAAAAGCGCCTCTAATGCTCTGATCTTTAGCGGCGTTTTAACAAAAACA
CCGCTAATGCTTTGGTC
Found at i:111425771 original size:21 final size:19
Alignment explanation
Indices: 111425732--111425768 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
111425722 AATAAATTTT
111425732 AAAATTCAAAATATTTATG
1 AAAATTCAAAATATTTATG
111425751 AAAATTCCAAAA-ATTTAT
1 AAAATT-CAAAATATTTAT
111425769 ATGTTTTTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.54, C:0.08, G:0.03, T:0.35
Consensus pattern (19 bp):
AAAATTCAAAATATTTATG
Found at i:111428605 original size:24 final size:24
Alignment explanation
Indices: 111428573--111428618 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
111428563 AAAAAAAGAT
111428573 AGTGTTAATAAAATTTTAGAGTAC
1 AGTGTTAATAAAATTTTAGAGTAC
111428597 AGTGTTAATAAAATTTTAGAGT
1 AGTGTTAATAAAATTTTAGAGT
111428619 GCTGTTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.41, C:0.02, G:0.17, T:0.39
Consensus pattern (24 bp):
AGTGTTAATAAAATTTTAGAGTAC
Found at i:111441543 original size:20 final size:21
Alignment explanation
Indices: 111441520--111441563 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
111441510 TTCTTTCGGA
*
111441520 TTTCCCCTTTTT-TATTTATT
1 TTTCCCCTTTTTAAATTTATT
**
111441540 TTTCTGCTTTTTAAATTTATT
1 TTTCCCCTTTTTAAATTTATT
111441561 TTT
1 TTT
111441564 TGACAAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.14, C:0.14, G:0.02, T:0.70
Consensus pattern (21 bp):
TTTCCCCTTTTTAAATTTATT
Found at i:111442686 original size:3 final size:3
Alignment explanation
Indices: 111442678--111442704 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
111442668 CATATAGTAA
111442678 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
111442705 AAATTTATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:111447080 original size:19 final size:18
Alignment explanation
Indices: 111447037--111447082 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 18
111447027 ACACAAGTGC
111447037 AATAATTAAATATTATTA
1 AATAATTAAATATTATTA
111447055 AATTAATTAAATATTATTA
1 AA-TAATTAAATATTATTA
111447074 AGATAATTA
1 A-ATAATTA
111447083 TTAAATTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
18 2 0.08
19 23 0.88
20 1 0.04
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (18 bp):
AATAATTAAATATTATTA
Found at i:111447082 original size:12 final size:11
Alignment explanation
Indices: 111447041--111447088 Score: 50
Period size: 10 Copynumber: 4.6 Consensus size: 11
111447031 AAGTGCAATA
111447041 ATTAAAT-ATT
1 ATTAAATAATT
*
111447051 ATTAAAT--TA
1 ATTAAATAATT
111447060 ATTAAAT-ATT
1 ATTAAATAATT
111447070 ATTAAGATAATT
1 ATTAA-ATAATT
111447082 ATTAAAT
1 ATTAAAT
111447089 TAAATTTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
9 8 0.24
10 13 0.39
11 4 0.12
12 8 0.24
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (11 bp):
ATTAAATAATT
Found at i:111447860 original size:74 final size:73
Alignment explanation
Indices: 111447715--111447860 Score: 179
Period size: 74 Copynumber: 2.0 Consensus size: 73
111447705 CTTGTACTTG
* * *
111447715 GTACTTAAATTTTTTTTGGATCTAACTGGTACATAAACTTAAAAACCGTAAACTAAAGTGGTACT
1 GTACCTAAATTTTTTTTGGACCTAACTGGTACATAAACTTAAAAACCGTAAACTAAAGTGATACT
111447780 TTTTTTAA
66 TTTTTTAA
* * * * *
111447788 GTACCTAAACTTTTTTTTGGACCTAATTGGTACTTGAACTTGAAAGCC-TAAA-TCAAAGTGATA
1 GTACCTAAA-TTTTTTTTGGACCTAACTGGTACATAAACTTAAAAACCGTAAACT-AAAGTGATA
111447851 CTTTCTTTTA
64 CTTT-TTTTA
111447861 GATCCAGTCA
Statistics
Matches: 62, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
72 1 0.02
73 24 0.39
74 37 0.60
ACGTcount: A:0.33, C:0.14, G:0.13, T:0.40
Consensus pattern (73 bp):
GTACCTAAATTTTTTTTGGACCTAACTGGTACATAAACTTAAAAACCGTAAACTAAAGTGATACT
TTTTTTAA
Found at i:111448595 original size:31 final size:31
Alignment explanation
Indices: 111448560--111448636 Score: 91
Period size: 31 Copynumber: 2.5 Consensus size: 31
111448550 TTATTTTTAT
* * *
111448560 TTTTTGTTTAAATTTATTTTTCGGATCTATA
1 TTTTTGTCTAAACTCATTTTTCGGATCTATA
* *
111448591 TTTTTGTCTAAGCTCATTTTTTGGATCTATA
1 TTTTTGTCTAAACTCATTTTTCGGATCTATA
* *
111448622 TTTTTATCCAAACTC
1 TTTTTGTCTAAACTC
111448637 TCTCACTTTT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.22, C:0.13, G:0.09, T:0.56
Consensus pattern (31 bp):
TTTTTGTCTAAACTCATTTTTCGGATCTATA
Found at i:111449724 original size:31 final size:31
Alignment explanation
Indices: 111449689--111449766 Score: 86
Period size: 31 Copynumber: 2.5 Consensus size: 31
111449679 TTTCTAATTT
111449689 ATCAACAAATTGTCTTTGAAAAGAAAAAAAA
1 ATCAACAAATTGTCTTTGAAAAGAAAAAAAA
*** *
111449720 ATCAACAAATTCGT-TTTGAACCTAAAAAATA
1 ATCAACAAATT-GTCTTTGAAAAGAAAAAAAA
* *
111449751 TTCAACAAATTTTCTT
1 ATCAACAAATTGTCTT
111449767 ATAAAAATAA
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
30 1 0.03
31 36 0.92
32 2 0.05
ACGTcount: A:0.49, C:0.14, G:0.06, T:0.31
Consensus pattern (31 bp):
ATCAACAAATTGTCTTTGAAAAGAAAAAAAA
Found at i:111465435 original size:21 final size:21
Alignment explanation
Indices: 111465411--111465453 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
111465401 GAAAAAAAAT
*
111465411 AGTTAATAAAATTAAAGGAAA
1 AGTTAATAAAATTAAACGAAA
**
111465432 AGTTAATCTAATTAAACGAAA
1 AGTTAATAAAATTAAACGAAA
111465453 A
1 A
111465454 AAATTATTGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.58, C:0.05, G:0.12, T:0.26
Consensus pattern (21 bp):
AGTTAATAAAATTAAACGAAA
Found at i:111465839 original size:22 final size:22
Alignment explanation
Indices: 111465814--111465870 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
111465804 ATCCAAACAT
*
111465814 TAATAATAAAAT-AGTAGCAATA
1 TAATAATAAAATGA-TAGCAAAA
*
111465836 TAATAGTAAAATGATAGCAAAA
1 TAATAATAAAATGATAGCAAAA
111465858 TAATAGA-AAAATG
1 TAATA-ATAAAATG
111465871 GCAACAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 29 0.97
23 1 0.03
ACGTcount: A:0.60, C:0.04, G:0.12, T:0.25
Consensus pattern (22 bp):
TAATAATAAAATGATAGCAAAA
Found at i:111465857 original size:11 final size:11
Alignment explanation
Indices: 111465821--111465869 Score: 53
Period size: 11 Copynumber: 4.5 Consensus size: 11
111465811 CATTAATAAT
*
111465821 AAAATAGTAGC
1 AAAATAATAGC
* *
111465832 AATATAATAGT
1 AAAATAATAGC
*
111465843 AAAATGATAGC
1 AAAATAATAGC
*
111465854 AAAATAATAGA
1 AAAATAATAGC
111465865 AAAAT
1 AAAAT
111465870 GGCAACAAAC
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 30 1.00
ACGTcount: A:0.61, C:0.04, G:0.12, T:0.22
Consensus pattern (11 bp):
AAAATAATAGC
Found at i:111465878 original size:22 final size:22
Alignment explanation
Indices: 111465835--111465878 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
111465825 TAGTAGCAAT
* * *
111465835 ATAATAGTAAAATGATAGCAAA
1 ATAATAGAAAAATGACAACAAA
*
111465857 ATAATAGAAAAATGGCAACAAA
1 ATAATAGAAAAATGACAACAAA
111465879 CGGCAACAGA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.61, C:0.07, G:0.14, T:0.18
Consensus pattern (22 bp):
ATAATAGAAAAATGACAACAAA
Found at i:111467442 original size:20 final size:20
Alignment explanation
Indices: 111467405--111467443 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
111467395 TTTTTAGAAG
* *
111467405 AATGAGAAAAAACGAAAAAA
1 AATGAAAAAAAAAGAAAAAA
*
111467425 AATGAAAAAAAAATAAAAA
1 AATGAAAAAAAAAGAAAAA
111467444 TTATTATCTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.79, C:0.03, G:0.10, T:0.08
Consensus pattern (20 bp):
AATGAAAAAAAAAGAAAAAA
Found at i:111468790 original size:14 final size:14
Alignment explanation
Indices: 111468767--111468796 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
111468757 AAACAAAGTC
*
111468767 AACTTTAATACTTA
1 AACTTAAATACTTA
111468781 AACTTAAATACTTA
1 AACTTAAATACTTA
111468795 AA
1 AA
111468797 TATATGATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (14 bp):
AACTTAAATACTTA
Found at i:111471226 original size:20 final size:21
Alignment explanation
Indices: 111471201--111471249 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
111471191 CTTAAATTCA
111471201 TTTTAAATAATAAAAAATA-T
1 TTTTAAATAATAAAAAATATT
**
111471221 TTTTAAA-AATTTAAAATATT
1 TTTTAAATAATAAAAAATATT
111471241 TTTTAAATA
1 TTTTAAATA
111471250 CTTTATTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 9 0.36
20 15 0.60
21 1 0.04
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
TTTTAAATAATAAAAAATATT
Found at i:111487580 original size:112 final size:112
Alignment explanation
Indices: 111487383--111487607 Score: 441
Period size: 112 Copynumber: 2.0 Consensus size: 112
111487373 CAATCTCCAA
111487383 AGTTTAGTTTGCAACTAAATAGTTCATATCTGTCCGGGAAAAAATTCTTATAGAAAGAAAACACT
1 AGTTTAGTTTGCAACTAAATAGTTCATATCTGTCCGGGAAAAAATTCTTATAGAAAGAAAACACT
111487448 TCAAACCATCTTAAATTAGTAATATGGGGAAAAGACTTATTAGATGG
66 TCAAACCATCTTAAATTAGTAATATGGGGAAAAGACTTATTAGATGG
*
111487495 AGTTTAGTTTGCAACTAAATAGTTCATATCTGTCCGGGAAAAATTTCTTATAGAAAGAAAACACT
1 AGTTTAGTTTGCAACTAAATAGTTCATATCTGTCCGGGAAAAAATTCTTATAGAAAGAAAACACT
111487560 TCAAACCATCTTAAATTAGTAATATGGGGAAAAGACTTATTAGATGG
66 TCAAACCATCTTAAATTAGTAATATGGGGAAAAGACTTATTAGATGG
111487607 A
1 A
111487608 CAAATGTCAG
Statistics
Matches: 112, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
112 112 1.00
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.31
Consensus pattern (112 bp):
AGTTTAGTTTGCAACTAAATAGTTCATATCTGTCCGGGAAAAAATTCTTATAGAAAGAAAACACT
TCAAACCATCTTAAATTAGTAATATGGGGAAAAGACTTATTAGATGG
Found at i:111491603 original size:18 final size:18
Alignment explanation
Indices: 111491576--111491611 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
111491566 ATTAAATTAA
*
111491576 ATAAATTATTAAAAATTT
1 ATAAAATATTAAAAATTT
111491594 ATAAAATATTAAAAATTT
1 ATAAAATATTAAAAATTT
111491612 GGTTTGTGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
ATAAAATATTAAAAATTT
Found at i:111495216 original size:29 final size:29
Alignment explanation
Indices: 111495174--111495243 Score: 70
Period size: 29 Copynumber: 2.4 Consensus size: 29
111495164 ATGGTTCGTG
* * *
111495174 AAAATTGAATCAAATTAAAA-TGTCATATGT
1 AAAATTGCA-CAAAATAAAAGT-TCATATAT
*
111495204 AAAATTGCACAAAATCAAAGTTCATATAT
1 AAAATTGCACAAAATAAAAGTTCATATAT
*
111495233 AACATTGCACA
1 AAAATTGCACA
111495244 TTAGACTCAA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
29 25 0.74
30 9 0.26
ACGTcount: A:0.50, C:0.13, G:0.09, T:0.29
Consensus pattern (29 bp):
AAAATTGCACAAAATAAAAGTTCATATAT
Found at i:111497065 original size:13 final size:11
Alignment explanation
Indices: 111497037--111497079 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
111497027 AGTTAAATAT
111497037 TATTTTATTAA
1 TATTTTATTAA
111497048 TATTTTACTTAGA
1 TATTTTA-TTA-A
*
111497061 TA-TTTATTAT
1 TATTTTATTAA
111497071 TATTTTATT
1 TATTTTATT
111497080 TAGAAAATGG
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
10 2 0.07
11 16 0.57
12 7 0.25
13 3 0.11
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:111497066 original size:23 final size:23
Alignment explanation
Indices: 111497040--111497083 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
111497030 TAAATATTAT
111497040 TTTATTAATATTTTACTTAGATA
1 TTTATTAATATTTTACTTAGATA
* *
111497063 TTTATTATTATTTTATTTAGA
1 TTTATTAATATTTTACTTAGA
111497084 AAATGGTAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (23 bp):
TTTATTAATATTTTACTTAGATA
Found at i:111499429 original size:11 final size:11
Alignment explanation
Indices: 111499410--111499473 Score: 69
Period size: 11 Copynumber: 5.9 Consensus size: 11
111499400 TATTTTGATG
111499410 CTATT-TTTTA
1 CTATTATTTTA
*
111499420 TTATTATTTT-
1 CTATTATTTTA
*
111499430 CTCACTATTTTA
1 CT-ATTATTTTA
111499442 CTATTATTTTA
1 CTATTATTTTA
*
111499453 CTATTATGTTA
1 CTATTATTTTA
*
111499464 CTACTATTTT
1 CTATTATTTT
111499474 GTTGTTATTG
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
10 5 0.11
11 37 0.84
12 2 0.05
ACGTcount: A:0.23, C:0.12, G:0.02, T:0.62
Consensus pattern (11 bp):
CTATTATTTTA
Found at i:111499458 original size:33 final size:32
Alignment explanation
Indices: 111499410--111499473 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 32
111499400 TATTTTGATG
* *
111499410 CTATTTTTTATTATTAT-TTTCTCACTATTTTA
1 CTATTTTTTACTATTATGTTACT-ACTATTTTA
111499442 CTATTATTTTACTATTATGTTACTACTATTTT
1 CTATT-TTTTACTATTATGTTACTACTATTTT
111499474 GTTGTTATTG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 5 0.18
33 19 0.68
34 4 0.14
ACGTcount: A:0.23, C:0.12, G:0.02, T:0.62
Consensus pattern (32 bp):
CTATTTTTTACTATTATGTTACTACTATTTTA
Found at i:111500503 original size:17 final size:18
Alignment explanation
Indices: 111500464--111500505 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
111500454 CTTAAGCAAA
111500464 CTTACTTTGAATATAATAT
1 CTTA-TTTGAATATAATAT
*
111500483 -TTATTTGGATA-AATAT
1 CTTATTTGAATATAATAT
111500499 CTTATTT
1 CTTATTT
111500506 TCGTATCTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 5 0.24
17 13 0.62
18 3 0.14
ACGTcount: A:0.33, C:0.07, G:0.07, T:0.52
Consensus pattern (18 bp):
CTTATTTGAATATAATAT
Found at i:111502087 original size:33 final size:35
Alignment explanation
Indices: 111502050--111502146 Score: 89
Period size: 33 Copynumber: 2.8 Consensus size: 35
111502040 ATAGTTATAT
111502050 TTAAATATTTAAAATATAATTTATATATT-C-TAA
1 TTAAATATTTAAAATATAATTTATATATTGCTTAA
* *
111502083 TTAAAT-TTTATAA-ATAATTAATATTTATTGCTTAA
1 TTAAATATTTAAAATATAATT--TATATATTGCTTAA
*
111502118 --AAATATTTAAAATTTATATTTTATATATT
1 TTAAATATTTAAAA--TATAATTTATATATT
111502147 AAAATATTAA
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
31 6 0.12
32 6 0.12
33 17 0.33
34 7 0.14
35 10 0.20
37 5 0.10
ACGTcount: A:0.45, C:0.02, G:0.01, T:0.52
Consensus pattern (35 bp):
TTAAATATTTAAAATATAATTTATATATTGCTTAA
Found at i:111502930 original size:12 final size:12
Alignment explanation
Indices: 111502913--111502945 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
111502903 CGGCCCGCCC
111502913 ATATTAATTTTT
1 ATATTAATTTTT
111502925 ATATT-ATTTTT
1 ATATTAATTTTT
111502936 ATA-TAATTTT
1 ATATTAATTTT
111502946 AAAAAACATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:111515788 original size:21 final size:21
Alignment explanation
Indices: 111515764--111515837 Score: 69
Period size: 21 Copynumber: 3.2 Consensus size: 21
111515754 TTAACTTTAA
111515764 AAATTTTGAAATATATA-TTTG
1 AAATTTT-AAATATATATTTTG
*
111515785 AAATATTTTATTAATATATATATTTTT
1 -AA-A--TT-TTAA-ATATATATTTTG
111515812 AAATTTTAAATATATATTTTG
1 AAATTTTAAATATATATTTTG
111515833 AAATT
1 AAATT
111515838 ACTTTTTTAA
Statistics
Matches: 44, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
21 16 0.36
22 6 0.14
23 3 0.07
25 5 0.11
26 11 0.25
27 3 0.07
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (21 bp):
AAATTTTAAATATATATTTTG
Found at i:111515865 original size:22 final size:21
Alignment explanation
Indices: 111515827--111515881 Score: 76
Period size: 21 Copynumber: 2.6 Consensus size: 21
111515817 TTAAATATAT
*
111515827 ATTTTGAA-ATTACTTTTTTAA
1 ATTTTAAATATTA-TTTTTTAA
111515848 ATTTTAAATATTATTTTTTAA
1 ATTTTAAATATTATTTTTTAA
111515869 ATATTTAAATATT
1 AT-TTTAAATATT
111515882 TTAAACTTTC
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
21 17 0.55
22 14 0.45
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (21 bp):
ATTTTAAATATTATTTTTTAA
Found at i:111515964 original size:14 final size:15
Alignment explanation
Indices: 111515939--111515971 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
111515929 TTAATTTATT
111515939 TTATAATATTTTAAA
1 TTATAATATTTTAAA
111515954 TTATAAT-TTTTAAA
1 TTATAATATTTTAAA
111515968 TTAT
1 TTAT
111515972 TTTTAAAGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TTATAATATTTTAAA
Found at i:111516237 original size:18 final size:20
Alignment explanation
Indices: 111516200--111516243 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
111516190 TTCACTTTTT
111516200 TTTTTACTTATTTATTATTA
1 TTTTTACTTATTTATTATTA
*
111516220 TTTTTAGTT-TTT-TTATTA
1 TTTTTACTTATTTATTATTA
111516238 TCTTTT
1 T-TTTT
111516244 GTCTTTTTCC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 7 0.32
19 7 0.32
20 8 0.36
ACGTcount: A:0.18, C:0.05, G:0.02, T:0.75
Consensus pattern (20 bp):
TTTTTACTTATTTATTATTA
Found at i:111516250 original size:18 final size:18
Alignment explanation
Indices: 111516214--111516251 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
111516204 TACTTATTTA
*
111516214 TTATTATTTTTAGTTTTT
1 TTATTATTTTTAGTCTTT
111516232 TTATTATCTTTT-GTCTTT
1 TTATTAT-TTTTAGTCTTT
111516250 TT
1 TT
111516252 CCTTAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.13, C:0.05, G:0.05, T:0.76
Consensus pattern (18 bp):
TTATTATTTTTAGTCTTT
Found at i:111516360 original size:25 final size:24
Alignment explanation
Indices: 111516310--111516366 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 24
111516300 TTTTAAAAAA
*
111516310 TTTAAA-ATGTATATTTGAAATGT
1 TTTAAATATATATATTTGAAATGT
*
111516333 TTTATAATATATATATTTTTAAAT-T
1 TTTA-AATATATATA-TTTGAAATGT
111516358 TTTAAATAT
1 TTTAAATAT
111516367 TATTTTAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
23 4 0.14
24 7 0.24
25 11 0.38
26 7 0.24
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.54
Consensus pattern (24 bp):
TTTAAATATATATATTTGAAATGT
Found at i:111516389 original size:12 final size:12
Alignment explanation
Indices: 111516356--111516389 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
111516346 TATTTTTAAA
111516356 TTTTTAAA-TAT
1 TTTTTAAATTAT
111516367 TATTTTAAATTAT
1 T-TTTTAAATTAT
111516380 TTTTTAAATT
1 TTTTTAAATT
111516390 TTGAATATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 1 0.05
12 16 0.76
13 4 0.19
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
TTTTTAAATTAT
Found at i:111516423 original size:22 final size:21
Alignment explanation
Indices: 111516375--111516425 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
111516365 ATTATTTTAA
** *
111516375 ATTATTTTTTAAATTTTGAAT
1 ATTATTTTTTAAACATTAAAT
111516396 ATTATTTTTTAAACATTAAAT
1 ATTATTTTTTAAACATTAAAT
111516417 ATATATTTT
1 AT-TATTTT
111516426 AAAAATTTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 20 0.77
22 6 0.23
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (21 bp):
ATTATTTTTTAAACATTAAAT
Found at i:111516427 original size:20 final size:20
Alignment explanation
Indices: 111516371--111516428 Score: 64
Period size: 21 Copynumber: 2.9 Consensus size: 20
111516361 AAATATTATT
**
111516371 TTAAAT-TATTTTTTAAATT
1 TTAAATATATTTTTTAAACA
*
111516390 TTGAATATTATTTTTTAAACA
1 TTAAATA-TATTTTTTAAACA
*
111516411 TTAAATATATATTTTAAA
1 TTAAATATATTTTTTAAA
111516429 AATTTGTTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
19 5 0.16
20 10 0.31
21 17 0.53
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (20 bp):
TTAAATATATTTTTTAAACA
Found at i:111516507 original size:26 final size:27
Alignment explanation
Indices: 111516446--111516509 Score: 69
Period size: 26 Copynumber: 2.4 Consensus size: 27
111516436 TTTTTTTACT
* *
111516446 TTTTTTAACTTTTGTCATTTCTCTGACA
1 TTTTTT-ATTTTTGTCATTTATCTGACA
*
111516474 TTTTTTATTTTTGTC-TTTATCTTA-A
1 TTTTTTATTTTTGTCATTTATCTGACA
111516499 TTTATTTATTT
1 TTT-TTTATTT
111516510 ATTTTTATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
25 4 0.12
26 14 0.44
27 8 0.25
28 6 0.19
ACGTcount: A:0.17, C:0.11, G:0.05, T:0.67
Consensus pattern (27 bp):
TTTTTTATTTTTGTCATTTATCTGACA
Found at i:111516530 original size:18 final size:19
Alignment explanation
Indices: 111516499--111516536 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
111516489 TTTATCTTAA
*
111516499 TTTATTTATTTATTTTTAT
1 TTTATTTATTTATTATTAT
111516518 TTTATTT-TTTATTATTAT
1 TTTATTTATTTATTATTAT
111516536 T
1 T
111516537 AATTTTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (19 bp):
TTTATTTATTTATTATTAT
Found at i:111516615 original size:22 final size:23
Alignment explanation
Indices: 111516572--111516616 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
111516562 ATTTGAAATG
* *
111516572 TTTTATAATATATATTTTTTTAA
1 TTTTATAATATATATATATTTAA
111516595 TTTTA-AATATATATATATTTAA
1 TTTTATAATATATATATATTTAA
111516617 ATTGTTTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (23 bp):
TTTTATAATATATATATATTTAA
Found at i:111516657 original size:36 final size:32
Alignment explanation
Indices: 111516593--111516688 Score: 95
Period size: 33 Copynumber: 2.8 Consensus size: 32
111516583 ATATTTTTTT
* *
111516593 AATTTTAAATATATATATATTTAAAT-TGTTTTTCTA
1 AATTTTAAATAT-TAT-T-TTTAAATAT-TGTTT-AA
111516629 AATTTTAAATATTATTTTTAAATCATTGTTTAA
1 AATTTTAAATATTATTTTTAAAT-ATTGTTTAA
*
111516662 AAATTTAAATATTATTTTTTAAATATT
1 AATTTTAAATATTA-TTTTTAAATATT
111516689 AAATATTTTT
Statistics
Matches: 54, Mismatches: 3, Indels: 9
0.82 0.05 0.14
Matches are distributed among these distances:
33 24 0.44
34 14 0.26
35 4 0.07
36 12 0.22
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (32 bp):
AATTTTAAATATTATTTTTAAATATTGTTTAA
Found at i:111516705 original size:19 final size:20
Alignment explanation
Indices: 111516646--111516706 Score: 54
Period size: 20 Copynumber: 3.0 Consensus size: 20
111516636 AATATTATTT
* *
111516646 TTAAATCATTGTTTAAAAAT-
1 TTAAAT-ATTATTTAATAATA
**
111516666 TTAAATATTATTTTTTAAATA
1 TTAAATATTATTTAAT-AATA
111516687 TTAAATATT-TTTAATAATA
1 TTAAATATTATTTAATAATA
111516706 T
1 T
111516707 AAAACATTTA
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
19 11 0.33
20 13 0.39
21 9 0.27
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (20 bp):
TTAAATATTATTTAATAATA
Found at i:111516821 original size:23 final size:23
Alignment explanation
Indices: 111516785--111516859 Score: 89
Period size: 23 Copynumber: 3.2 Consensus size: 23
111516775 TATTTTAATT
*
111516785 TTTTATAATT-TTTTTAATTATGA
1 TTTTA-AATTATTTTAAATTATGA
111516808 TTTTAAATTATTTTAAATTATGA
1 TTTTAAATTATTTTAAATTATGA
* *
111516831 TTTTGAAATTATTTAAAATATATTA
1 TTTT-AAATTATTTTAAAT-TATGA
111516856 TTTT
1 TTTT
111516860 TAAAGATATG
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
22 4 0.09
23 21 0.46
24 13 0.28
25 8 0.17
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (23 bp):
TTTTAAATTATTTTAAATTATGA
Found at i:111516822 original size:10 final size:10
Alignment explanation
Indices: 111516762--111516828 Score: 55
Period size: 10 Copynumber: 6.3 Consensus size: 10
111516752 AGCTTTACAA
111516762 TATTTTAAAT
1 TATTTTAAAT
*
111516772 GTATATTTTAAT
1 -TAT-TTTAAAT
111516784 T-TTTTATAAT
1 TATTTTA-AAT
*
111516794 TTTTTTAATTAT
1 TATTTTAA--AT
*
111516806 GATTTTAAAT
1 TATTTTAAAT
111516816 TATTTTAAAT
1 TATTTTAAAT
111516826 TAT
1 TAT
111516829 GATTTTGAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
9 3 0.07
10 20 0.43
11 9 0.20
12 14 0.30
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (10 bp):
TATTTTAAAT
Found at i:111516849 original size:24 final size:23
Alignment explanation
Indices: 111516800--111516859 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 23
111516790 TAATTTTTTT
*
111516800 AATTATGATTTTAAATTATTTTA
1 AATTATGATTTTAAATTATTTAA
111516823 AATTATGATTTTGAAATTATTTAA
1 AATTATGATTTT-AAATTATTTAA
*
111516847 AATATATTATTTT
1 AAT-TATGATTTT
111516860 TAAAGATATG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
23 12 0.36
24 13 0.39
25 8 0.24
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (23 bp):
AATTATGATTTTAAATTATTTAA
Found at i:111517061 original size:22 final size:23
Alignment explanation
Indices: 111517023--111517074 Score: 79
Period size: 22 Copynumber: 2.3 Consensus size: 23
111517013 ATTGTAAGAA
*
111517023 TTAATATTTAAAAAAATATATAT
1 TTAAAATTTAAAAAAATATATAT
111517046 TTAAAATTT-AAAAAATATATAT
1 TTAAAATTTAAAAAAATATATAT
111517068 TATAAAA
1 T-TAAAA
111517075 CATTTCAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 14 0.52
23 13 0.48
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (23 bp):
TTAAAATTTAAAAAAATATATAT
Found at i:111517140 original size:20 final size:20
Alignment explanation
Indices: 111517116--111517159 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 20
111517106 ATTAATAATA
111517116 AAAAATAGAATAAAATAAA-AT
1 AAAAATA-AAT-AAATAAAGAT
111517137 AAAAATAAATAAATAAAGAT
1 AAAAATAAATAAATAAAGAT
111517157 AAA
1 AAA
111517160 GACAAAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 7 0.32
20 8 0.36
21 7 0.32
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (20 bp):
AAAAATAAATAAATAAAGAT
Found at i:111517146 original size:25 final size:25
Alignment explanation
Indices: 111517109--111517176 Score: 77
Period size: 25 Copynumber: 2.7 Consensus size: 25
111517099 TTTTAAAATT
111517109 AATAATAAA-AAATAGAATAAA-ATAA
1 AATAA-AAATAAATA-AATAAAGATAA
111517134 AATAAAAATAAATAAATAAAGATAA
1 AATAAAAATAAATAAATAAAGATAA
* *
111517159 AGACAAAAATAAAAAAAT
1 A-ATAAAAATAAATAAAT
111517177 GTCAGAGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
24 9 0.24
25 15 0.39
26 14 0.37
ACGTcount: A:0.76, C:0.01, G:0.04, T:0.18
Consensus pattern (25 bp):
AATAAAAATAAATAAATAAAGATAA
Found at i:111517210 original size:10 final size:11
Alignment explanation
Indices: 111517191--111517223 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
111517181 GAGAAATGAC
111517191 AAAAGTTAAAA
1 AAAAGTTAAAA
111517202 AAAAG-TAAAA
1 AAAAGTTAAAA
*
111517212 AAAAATTAAAA
1 AAAAGTTAAAA
111517223 A
1 A
111517224 TATATATTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (11 bp):
AAAAGTTAAAA
Found at i:111517262 original size:31 final size:32
Alignment explanation
Indices: 111517209--111517278 Score: 106
Period size: 31 Copynumber: 2.2 Consensus size: 32
111517199 AAAAAAAGTA
*
111517209 AAAAAAAATTAAAAATATATATTCAAAATTTT
1 AAAAATAATTAAAAATATATATTCAAAATTTT
* *
111517241 AAAAATAATTTAAAATA-ATATTTAAAATTTT
1 AAAAATAATTAAAAATATATATTCAAAATTTT
111517272 AAAAATA
1 AAAAATA
111517279 TATATATTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
31 20 0.57
32 15 0.43
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.36
Consensus pattern (32 bp):
AAAAATAATTAAAAATATATATTCAAAATTTT
Found at i:111517362 original size:21 final size:20
Alignment explanation
Indices: 111517336--111517376 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
111517326 TAATAACAAT
* *
111517336 AAATAAATTAATAAATAAATA
1 AAATAAAATAAGAAA-AAATA
111517357 AAATAAAATAAGAAAAAATA
1 AAATAAAATAAGAAAAAATA
111517377 TAAAACTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (20 bp):
AAATAAAATAAGAAAAAATA
Found at i:111517434 original size:19 final size:19
Alignment explanation
Indices: 111517412--111517450 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
111517402 AAGACAGAAC
111517412 ATAATAAAAAACTAAAAAA
1 ATAATAAAAAACTAAAAAA
* *
111517431 ATAATAAATAAGTAAAAAA
1 ATAATAAAAAACTAAAAAA
111517450 A
1 A
111517451 AAAAGTGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.77, C:0.03, G:0.03, T:0.18
Consensus pattern (19 bp):
ATAATAAAAAACTAAAAAA
Found at i:111517806 original size:21 final size:22
Alignment explanation
Indices: 111517765--111517819 Score: 69
Period size: 21 Copynumber: 2.5 Consensus size: 22
111517755 GAAAGTTTAA
*
111517765 AATATTTAAATATTTAAAAAA-T
1 AATATTTAAA-ATTAAAAAAAGT
111517787 AATATTTAAAATTAAAAAAAGT
1 AATATTTAAAATTAAAAAAAGT
*
111517809 AAT-TTCAAAAT
1 AATATTTAAAAT
111517820 ATATATTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
21 16 0.53
22 14 0.47
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (22 bp):
AATATTTAAAATTAAAAAAAGT
Found at i:111517916 original size:14 final size:14
Alignment explanation
Indices: 111517899--111517952 Score: 58
Period size: 14 Copynumber: 3.9 Consensus size: 14
111517889 TAATAATAAT
111517899 AAATAAATAAAAGA
1 AAATAAATAAAAGA
111517913 AAATAAAT-AAAGA
1 AAATAAATAAAAGA
* *
111517926 AAAAAAGACAAAAGA
1 AAATAA-ATAAAAGA
111517941 AAAGTAAA-AAAA
1 AAA-TAAATAAAA
111517953 AAACAAGAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
13 10 0.29
14 13 0.38
15 9 0.26
16 2 0.06
ACGTcount: A:0.80, C:0.02, G:0.09, T:0.09
Consensus pattern (14 bp):
AAATAAATAAAAGA
Found at i:111517938 original size:28 final size:27
Alignment explanation
Indices: 111517907--111517960 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 27
111517897 ATAAATAAAT
111517907 AAAAGAAAA-TAAATAAAGAAAAAAAGAC
1 AAAAGAAAAGTAAA-AAA-AAAAAAAGAC
*
111517935 AAAAGAAAAGTAAAAAAAAAACAAGA
1 AAAAGAAAAGTAAAAAAAAAAAAAGA
111517961 ACTGACATGG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 8 0.33
28 12 0.50
29 4 0.17
ACGTcount: A:0.80, C:0.04, G:0.11, T:0.06
Consensus pattern (27 bp):
AAAAGAAAAGTAAAAAAAAAAAAAGAC
Found at i:111518351 original size:23 final size:22
Alignment explanation
Indices: 111518311--111518353 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
111518301 TAAAGAAGGA
111518311 AAAAATAACTTATATATTAATT
1 AAAAATAACTTATATATTAATT
* *
111518333 AAAAATTACTATATTTATTAA
1 AAAAATAACT-TATATATTAA
111518354 ATATTTTACC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (22 bp):
AAAAATAACTTATATATTAATT
Found at i:111521535 original size:31 final size:30
Alignment explanation
Indices: 111521478--111521535 Score: 71
Period size: 31 Copynumber: 1.9 Consensus size: 30
111521468 TTTAGAGATA
* *
111521478 AATATCAAAGCTATACTTGAATTTTGACCC
1 AATATCAAAGCTATACATGAACTTTGACCC
* *
111521508 AATATGCAATGCTATCCATGAACTTTGA
1 AATAT-CAAAGCTATACATGAACTTTGA
111521536 TTTTGTATAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
30 5 0.22
31 18 0.78
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.33
Consensus pattern (30 bp):
AATATCAAAGCTATACATGAACTTTGACCC
Found at i:111525460 original size:19 final size:19
Alignment explanation
Indices: 111525425--111525462 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
111525415 TATGCTTTAG
* *
111525425 TTTATATTATTTTATGATA
1 TTTATATTATATAATGATA
111525444 TTTATATTATATAATGATA
1 TTTATATTATATAATGATA
111525463 GCATCTAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (19 bp):
TTTATATTATATAATGATA
Found at i:111528052 original size:41 final size:41
Alignment explanation
Indices: 111527996--111528086 Score: 175
Period size: 41 Copynumber: 2.2 Consensus size: 41
111527986 ACAAGAAACT
111527996 GATTT-AACCTATTTTACTCGCATACAAAACCGAATTAACC
1 GATTTGAACCTATTTTACTCGCATACAAAACCGAATTAACC
111528036 GATTTGAACCTATTTTACTCGCATACAAAACCGAATTAACC
1 GATTTGAACCTATTTTACTCGCATACAAAACCGAATTAACC
111528077 GATTTGAACC
1 GATTTGAACC
111528087 GACTTCTGCT
Statistics
Matches: 50, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
40 5 0.10
41 45 0.90
ACGTcount: A:0.36, C:0.24, G:0.10, T:0.30
Consensus pattern (41 bp):
GATTTGAACCTATTTTACTCGCATACAAAACCGAATTAACC
Found at i:111538151 original size:24 final size:25
Alignment explanation
Indices: 111538118--111538167 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
111538108 GGGAAGCCTT
* *
111538118 TGGGACGTGGTCGGGGTCGTGGCCG
1 TGGGACGTGGACGGGGTCGAGGCCG
*
111538143 TGGG-CGTGGACGTGGTCGAGGCCG
1 TGGGACGTGGACGGGGTCGAGGCCG
111538167 T
1 T
111538168 TAAATATGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 18 0.82
25 4 0.18
ACGTcount: A:0.06, C:0.20, G:0.54, T:0.20
Consensus pattern (25 bp):
TGGGACGTGGACGGGGTCGAGGCCG
Found at i:111542224 original size:24 final size:24
Alignment explanation
Indices: 111542192--111542254 Score: 72
Period size: 25 Copynumber: 2.6 Consensus size: 24
111542182 CAACTCGAAA
* *
111542192 GAGCGTCCCGTTATTAGCTCTTAT
1 GAGCATCCCGTTATTAGCTCTCAT
*
111542216 GAGCATCCCGATACTTAGCTCTCAT
1 GAGCATCCCGTTA-TTAGCTCTCAT
**
111542241 GAGTTTCCCGTTAT
1 GAGCATCCCGTTAT
111542255 ATGGTTCTTG
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
24 12 0.38
25 20 0.62
ACGTcount: A:0.19, C:0.27, G:0.19, T:0.35
Consensus pattern (24 bp):
GAGCATCCCGTTATTAGCTCTCAT
Found at i:111544613 original size:3 final size:3
Alignment explanation
Indices: 111544605--111544641 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
111544595 AACGTGCACC
111544605 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
111544642 AAGCTTAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:111547387 original size:5 final size:5
Alignment explanation
Indices: 111547377--111547408 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
111547367 TTGTGTGTTC
111547377 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
111547409 TCACAAATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:111547391 original size:9 final size:9
Alignment explanation
Indices: 111547377--111547407 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
111547367 TTGTGTGTTC
111547377 TTTATTTTA
1 TTTATTTTA
111547386 TTTATTTTA
1 TTTATTTTA
111547395 TTTTATTTTA
1 -TTTATTTTA
111547405 TTT
1 TTT
111547408 TTCACAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:111551846 original size:5 final size:5
Alignment explanation
Indices: 111551836--111551867 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
111551826 TTGTGTGTTC
111551836 TTTAT TTTAT TTTA- TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
111551868 TCACAATATG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:111551855 original size:14 final size:14
Alignment explanation
Indices: 111551836--111551866 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
111551826 TTGTGTGTTC
111551836 TTTATTTTATTTTA
1 TTTATTTTATTTTA
111551850 TTTATTTTATTTTA
1 TTTATTTTATTTTA
111551864 TTT
1 TTT
111551867 TTCACAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTATTTTATTTTA
Found at i:111558420 original size:46 final size:45
Alignment explanation
Indices: 111558361--111558616 Score: 263
Period size: 45 Copynumber: 5.6 Consensus size: 45
111558351 CCCAACCTAA
*
111558361 TGCCATAGTGTCTTTCAACTATGGCCTTATTCATTTTCCGTCATG
1 TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTTCCGTCATG
*
111558406 TTGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTTCTGTCATG
1 -TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTTCCGTCATG
*
111558452 TTGTCATAGTGTCTTTCAACTATGGTCTTATTCATTTT-CGAT-ATAG
1 -TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTTCCG-TCAT-G
* * * * * * *
111558498 TGCTACAGCGTCTTTCAACTATGGTGTTACTCATTTGATTCGTGATG
1 TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTT--TCCGTCATG
* * *
111558545 T--CATAGTGTCTTTCAACTATGGTTTTATTCATTTGATTCGTGATG
1 TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTT--TCCGTCATG
* *
111558590 -G-CATAGCGTCTTTCAGCTATGGTCTTA
1 TGCCATAGTGTCTTTCAACTATGGTCTTA
111558617 CTCGTTTTTC
Statistics
Matches: 185, Mismatches: 18, Indels: 15
0.85 0.08 0.07
Matches are distributed among these distances:
45 95 0.51
46 82 0.44
47 4 0.02
48 4 0.02
ACGTcount: A:0.19, C:0.19, G:0.18, T:0.45
Consensus pattern (45 bp):
TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTTCCGTCATG
Found at i:111558573 original size:90 final size:92
Alignment explanation
Indices: 111558364--111558619 Score: 292
Period size: 90 Copynumber: 2.8 Consensus size: 92
111558354 AACCTAATGC
* * *
111558364 CATAGTGTCTTTCAACTATGGCCTTATTCATTTTCCGTCATGTTGCCATAGTGTCTTTCAACTAT
1 CATAGTGTCTTTCAACTATGGTCTTATTCATTTTCCGTCATGTTGCCACAGCGTCTTTCAACTAT
* ** *
111558429 GGTCTTATTCATTTTCTGTCATGTTGT
66 GGTCTTACTCATTTGATGTCATGATGT
*
111558456 CATAGTGTCTTTCAACTATGGTCTTATTCATTTT-CGAT-ATAG-TGCTACAGCGTCTTTCAACT
1 CATAGTGTCTTTCAACTATGGTCTTATTCATTTTCCG-TCAT-GTTGCCACAGCGTCTTTCAACT
* *
111558518 ATGGTGTTACTCATTTGAT-TCGTGATGT
64 ATGGTCTTACTCATTTGATGTCATGATGT
* * * * *
111558546 CATAGTGTCTTTCAACTATGGTTTTATTCATTTGATTCGTGATG--G-CATAGCGTCTTTCAGCT
1 CATAGTGTCTTTCAACTATGGTCTTATTCATTT--TCCGTCATGTTGCCACAGCGTCTTTCAACT
111558608 ATGGTCTTACTC
64 ATGGTCTTACTC
111558620 GTTTTTCAAC
Statistics
Matches: 143, Mismatches: 15, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
90 64 0.45
91 37 0.26
92 38 0.27
93 4 0.03
ACGTcount: A:0.19, C:0.19, G:0.17, T:0.45
Consensus pattern (92 bp):
CATAGTGTCTTTCAACTATGGTCTTATTCATTTTCCGTCATGTTGCCACAGCGTCTTTCAACTAT
GGTCTTACTCATTTGATGTCATGATGT
Found at i:111562706 original size:13 final size:13
Alignment explanation
Indices: 111562671--111562710 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
111562661 GTGAATGTGG
111562671 AAAAGAAAAAGAAA
1 AAAAGAAAAAG-AA
111562685 AAAAGAAAAAGAA
1 AAAAGAAAAAGAA
**
111562698 AAATTAAAAAGAA
1 AAAAGAAAAAGAA
111562711 TATAAAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 13 0.54
14 11 0.46
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.05
Consensus pattern (13 bp):
AAAAGAAAAAGAA
Found at i:111562707 original size:14 final size:14
Alignment explanation
Indices: 111562671--111562700 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
111562661 GTGAATGTGG
111562671 AAAAGAAAAAGAAA
1 AAAAGAAAAAGAAA
111562685 AAAAGAAAAAGAAA
1 AAAAGAAAAAGAAA
111562699 AA
1 AA
111562701 TTAAAAAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (14 bp):
AAAAGAAAAAGAAA
Found at i:111566633 original size:50 final size:50
Alignment explanation
Indices: 111566550--111566646 Score: 149
Period size: 50 Copynumber: 1.9 Consensus size: 50
111566540 TTGATTTTAT
*
111566550 AAATAAAAGATTTATTAATTAAAAAGATGAATTAAAAATAAAAAAATTGA
1 AAATAAAAGATTTATTAATTAAAAACATGAATTAAAAATAAAAAAATTGA
* * * *
111566600 AAATAATATATTTATTAATTAAAAACATTAATTAAAAGTAAAAAAAT
1 AAATAAAAGATTTATTAATTAAAAACATGAATTAAAAATAAAAAAAT
111566647 ATTGAAATAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 42 1.00
ACGTcount: A:0.63, C:0.01, G:0.05, T:0.31
Consensus pattern (50 bp):
AAATAAAAGATTTATTAATTAAAAACATGAATTAAAAATAAAAAAATTGA
Found at i:111574999 original size:3 final size:3
Alignment explanation
Indices: 111574993--111575021 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
111574983 TTGTTGAGCT
111574993 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
111575022 TTTGTAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:111575337 original size:9 final size:10
Alignment explanation
Indices: 111575313--111575340 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
111575303 TTCGGTGACT
111575313 ATTTTTTATA
1 ATTTTTTATA
111575323 ATTTTTTATA
1 ATTTTTTATA
111575333 ATTTTTTA
1 ATTTTTTA
111575341 AAGTTAAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (10 bp):
ATTTTTTATA
Found at i:111577840 original size:15 final size:16
Alignment explanation
Indices: 111577810--111577843 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
111577800 GTTCTTTCAT
*
111577810 AATAATGAAATTATAA
1 AATAATGAAATGATAA
111577826 AATAAT-AAATGATAA
1 AATAATGAAATGATAA
111577841 AAT
1 AAT
111577844 TATATTTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (16 bp):
AATAATGAAATGATAA
Found at i:111578385 original size:15 final size:15
Alignment explanation
Indices: 111578365--111578397 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
111578355 TTTTAGAATT
111578365 TTTAAAAA-AATTAAA
1 TTTAAAAATAA-TAAA
111578380 TTTAAAAATAATAAA
1 TTTAAAAATAATAAA
111578395 TTT
1 TTT
111578398 TAGAATTTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 15 0.88
16 2 0.12
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
TTTAAAAATAATAAA
Found at i:111583082 original size:9 final size:9
Alignment explanation
Indices: 111583066--111583102 Score: 58
Period size: 9 Copynumber: 4.2 Consensus size: 9
111583056 AGTATTTTAT
111583066 AAAATATAA
1 AAAATATAA
*
111583075 ATAATATAA
1 AAAATATAA
111583084 AAAATATAA
1 AAAATATAA
111583093 AAAAT-TAA
1 AAAATATAA
111583101 AA
1 AA
111583103 TTACATAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
8 5 0.19
9 21 0.81
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (9 bp):
AAAATATAA
Found at i:111585744 original size:16 final size:15
Alignment explanation
Indices: 111585720--111585777 Score: 63
Period size: 16 Copynumber: 4.1 Consensus size: 15
111585710 CGATCTATAT
111585720 TATA-ATAATAGTTA
1 TATATATAATAGTTA
111585734 TATATATTAATAGTT-
1 TATATA-TAATAGTTA
111585749 T-TA-ATAATAGTTA
1 TATATATAATAGTTA
111585762 TATATTATAATA-TTA
1 TATA-TATAATAGTTA
111585777 T
1 T
111585778 TTTATGTATT
Statistics
Matches: 38, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
12 8 0.21
13 2 0.05
14 8 0.21
15 6 0.16
16 14 0.37
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (15 bp):
TATATATAATAGTTA
Found at i:111587377 original size:19 final size:19
Alignment explanation
Indices: 111587353--111587390 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
111587343 TTGCCCCCCT
111587353 CCCAAATAGTGAAATTGCA
1 CCCAAATAGTGAAATTGCA
111587372 CCCAAATAGTGAAATTGCA
1 CCCAAATAGTGAAATTGCA
111587391 TTTTAACACC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.21, G:0.16, T:0.21
Consensus pattern (19 bp):
CCCAAATAGTGAAATTGCA
Found at i:111594075 original size:18 final size:18
Alignment explanation
Indices: 111594037--111594074 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
111594027 ATATTGTATA
111594037 TTAATATTTATTAAAATT
1 TTAATATTTATTAAAATT
111594055 TTAA-ATTTACTTCAAAATT
1 TTAATATTTA-TT-AAAATT
111594074 T
1 T
111594075 AGATGCATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 5 0.28
18 6 0.33
19 7 0.39
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (18 bp):
TTAATATTTATTAAAATT
Found at i:111596189 original size:26 final size:26
Alignment explanation
Indices: 111596127--111596180 Score: 83
Period size: 27 Copynumber: 2.1 Consensus size: 26
111596117 CGTTTAGGTC
*
111596127 AAAATTGAAACTTTAAATACTTTTAAA
1 AAAATTGAAACTTTAAATA-TTTGAAA
111596154 AAAATTGAAACTTTAAAT-TTTGAAA
1 AAAATTGAAACTTTAAATATTTGAAA
111596179 AA
1 AA
111596181 TACATGAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 8 0.31
27 18 0.69
ACGTcount: A:0.54, C:0.06, G:0.06, T:0.35
Consensus pattern (26 bp):
AAAATTGAAACTTTAAATATTTGAAA
Found at i:111620384 original size:2 final size:2
Alignment explanation
Indices: 111620377--111620401 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
111620367 CTCTTTATTT
111620377 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
111620402 TCACAATTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:111621081 original size:18 final size:18
Alignment explanation
Indices: 111621054--111621088 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
111621044 GAAAATTTAA
* *
111621054 TATTATTATAATTATAAT
1 TATTAATATAAATATAAT
111621072 TATTAATATAAATATAA
1 TATTAATATAAATATAA
111621089 ATATAAAATT
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:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TATTAATATAAATATAAT
Found at i:111621101 original size:24 final size:24
Alignment explanation
Indices: 111621045--111621101 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
111621035 TCCTAGAATG
* * *
111621045 AAAATTTAATATTATTATAATTAT
1 AAAATTTAATATAAATATAAATAT
*
111621069 -AATTATTAATATAAATATAAATAT
1 AAAAT-TTAATATAAATATAAATAT
111621093 AAAATTTAA
1 AAAATTTAA
111621102 ATTTATTATT
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
23 3 0.12
24 20 0.77
25 3 0.12
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (24 bp):
AAAATTTAATATAAATATAAATAT
Found at i:111621119 original size:12 final size:12
Alignment explanation
Indices: 111621102--111621129 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
111621092 TAAAATTTAA
111621102 ATTTATTATTAT
1 ATTTATTATTAT
111621114 ATTTATTATTAT
1 ATTTATTATTAT
111621126 ATTT
1 ATTT
111621130 TTTTGAAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
ATTTATTATTAT
Found at i:111630078 original size:8 final size:8
Alignment explanation
Indices: 111630056--111630099 Score: 54
Period size: 8 Copynumber: 5.6 Consensus size: 8
111630046 GAAATTTTAA
*
111630056 TATATTTT
1 TATAATTT
*
111630064 TAGAATTT
1 TATAATTT
*
111630072 TATAATTA
1 TATAATTT
111630080 TAT-ATTT
1 TATAATTT
111630087 TATAATTT
1 TATAATTT
111630095 TATAA
1 TATAA
111630100 AAATATTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
7 6 0.20
8 24 0.80
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (8 bp):
TATAATTT
Found at i:111630088 original size:15 final size:15
Alignment explanation
Indices: 111630068--111630098 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
111630058 TATTTTTAGA
111630068 ATTTTATAATTATAT
1 ATTTTATAATTATAT
*
111630083 ATTTTATAATTTTAT
1 ATTTTATAATTATAT
111630098 A
1 A
111630099 AAAATATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
ATTTTATAATTATAT
Found at i:111630093 original size:23 final size:24
Alignment explanation
Indices: 111630055--111630099 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
111630045 TGAAATTTTA
111630055 ATATATTTTTAGAATTTTATAATT
1 ATATATTTTTAGAATTTTATAATT
*
111630079 ATATA-TTTTATAATTTTATAA
1 ATATATTTTTAGAATTTTATAA
111630100 AAATATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (24 bp):
ATATATTTTTAGAATTTTATAATT
Found at i:111630105 original size:23 final size:23
Alignment explanation
Indices: 111630054--111630110 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
111630044 TTGAAATTTT
*
111630054 AATATATTTTTAGAATTTTATAAT
1 AATATA-TTTTAGAATTTTATAAA
* *
111630078 TATATATTTTATAATTTTATAAA
1 AATATATTTTAGAATTTTATAAA
111630101 AATAT-TTTTA
1 AATATATTTTA
111630111 AACAATTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
22 5 0.17
23 19 0.66
24 5 0.17
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (23 bp):
AATATATTTTAGAATTTTATAAA
Found at i:111630120 original size:11 final size:10
Alignment explanation
Indices: 111630099--111630146 Score: 51
Period size: 10 Copynumber: 4.5 Consensus size: 10
111630089 TAATTTTATA
111630099 AAAATATTTTT
1 AAAA-ATTTTT
111630110 AAACAATTTTT
1 AAA-AATTTTT
*
111630121 ACAAATTTTT
1 AAAAATTTTT
*
111630131 TAAAATTTTT
1 AAAAATTTTT
111630141 ACAAAA
1 A-AAAA
111630147 CTTTACATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
10 15 0.48
11 15 0.48
12 1 0.03
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.46
Consensus pattern (10 bp):
AAAAATTTTT
Found at i:111630127 original size:10 final size:10
Alignment explanation
Indices: 111630104--111630145 Score: 50
Period size: 11 Copynumber: 4.1 Consensus size: 10
111630094 TTATAAAAAT
*
111630104 ATTTTTAAACA
1 ATTTTTACA-A
111630115 ATTTTTACAA
1 ATTTTTACAA
111630125 ATTTTTTA-AA
1 A-TTTTTACAA
111630135 ATTTTTACAA
1 ATTTTTACAA
111630145 A
1 A
111630146 ACTTTACATT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
9 6 0.21
10 8 0.29
11 14 0.50
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (10 bp):
ATTTTTACAA
Found at i:111630266 original size:19 final size:19
Alignment explanation
Indices: 111630224--111630315 Score: 66
Period size: 19 Copynumber: 4.7 Consensus size: 19
111630214 GAATTTTATT
111630224 TTTATA-ATTTTTTTATAA
1 TTTATATATTTTTTTATAA
* *
111630242 TTTATATGTTTTTTTA-GA
1 TTTATATATTTTTTTATAA
*
111630260 TTATATATATTTTTCTA-AA
1 TT-TATATATTTTTTTATAA
*
111630279 TTTTTTATATATTTATTTCTATTA
1 ---TTTATATATTT-TTT-TATAA
111630303 TTT-TATATTTTTT
1 TTTATATATTTTTT
111630316 AATGTGTATA
Statistics
Matches: 59, Mismatches: 7, Indels: 15
0.73 0.09 0.19
Matches are distributed among these distances:
18 9 0.15
19 24 0.41
20 7 0.12
21 12 0.20
22 4 0.07
23 2 0.03
24 1 0.02
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.68
Consensus pattern (19 bp):
TTTATATATTTTTTTATAA
Found at i:111630703 original size:13 final size:13
Alignment explanation
Indices: 111630685--111630709 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
111630675 TTCATGGCGG
111630685 AACCCAAAAATTA
1 AACCCAAAAATTA
111630698 AACCCAAAAATT
1 AACCCAAAAATT
111630710 TTCCCCAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.24, G:0.00, T:0.16
Consensus pattern (13 bp):
AACCCAAAAATTA
Found at i:111631159 original size:8 final size:8
Alignment explanation
Indices: 111631147--111631178 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
111631137 TAAGACTGAG
*
111631147 TTGAATCG
1 TTGAATCA
111631155 TTGAATCA
1 TTGAATCA
111631163 TTGAATCA
1 TTGAATCA
111631171 TTGAATCA
1 TTGAATCA
111631179 GTGGAAAGGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.38
Consensus pattern (8 bp):
TTGAATCA
Found at i:111634853 original size:20 final size:20
Alignment explanation
Indices: 111634830--111634867 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
111634820 TATAATTTTT
111634830 ATTA-TTAATATCTAATTATC
1 ATTACTTAATAT-TAATTATC
*
111634850 ATTACTTATTATTAATTA
1 ATTACTTAATATTAATTA
111634868 AATGACATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.39, C:0.08, G:0.00, T:0.53
Consensus pattern (20 bp):
ATTACTTAATATTAATTATC
Found at i:111635641 original size:20 final size:20
Alignment explanation
Indices: 111635618--111635687 Score: 61
Period size: 25 Copynumber: 3.2 Consensus size: 20
111635608 TAAAATTTAT
111635618 TTAAATTTAATTAAAAAATA
1 TTAAATTTAATTAAAAAATA
*
111635638 TT-AATATTAATATAAAATTATTTA
1 TTAAAT-TTAAT-TAAAA--A-ATA
111635662 TTTAAATTTAATTATAAAAATA
1 -TTAAATTTAATTA-AAAAATA
111635684 TTAA
1 TTAA
111635688 TATTAATATA
Statistics
Matches: 40, Mismatches: 2, Indels: 15
0.70 0.04 0.26
Matches are distributed among these distances:
19 3 0.08
20 7 0.17
21 9 0.22
22 2 0.05
23 2 0.05
24 4 0.10
25 10 0.25
26 3 0.08
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
TTAAATTTAATTAAAAAATA
Found at i:111635695 original size:46 final size:45
Alignment explanation
Indices: 111635612--111635698 Score: 165
Period size: 46 Copynumber: 1.9 Consensus size: 45
111635602 TAATAATAAA
111635612 ATTTATTTAAATTTAATTAAAAAATATTAATATTAATATAAAATT
1 ATTTATTTAAATTTAATTAAAAAATATTAATATTAATATAAAATT
111635657 ATTTATTTAAATTTAATTATAAAAATATTAATATTAATATAA
1 ATTTATTTAAATTTAATTA-AAAAATATTAATATTAATATAA
111635699 TTTTATATTT
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
45 19 0.46
46 22 0.54
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (45 bp):
ATTTATTTAAATTTAATTAAAAAATATTAATATTAATATAAAATT
Found at i:111635722 original size:46 final size:45
Alignment explanation
Indices: 111635612--111635714 Score: 158
Period size: 46 Copynumber: 2.3 Consensus size: 45
111635602 TAATAATAAA
111635612 ATTTATTTAAATTTAATTA-AAAAATATTAATATTAATATAAAATT
1 ATTTATTTAAATTTAATTATAAAAATATTAATATTAATAT-AAATT
111635657 ATTTATTTAAATTTAATTATAAAAATATTAATATTAATAT-AATT
1 ATTTATTTAAATTTAATTATAAAAATATTAATATTAATATAAATT
*
111635701 -TTATATTTATATTT
1 ATT-TATTTAAATTT
111635715 TAAATTATTT
Statistics
Matches: 55, Mismatches: 1, Indels: 5
0.90 0.02 0.08
Matches are distributed among these distances:
43 2 0.04
44 14 0.25
45 19 0.35
46 20 0.36
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (45 bp):
ATTTATTTAAATTTAATTATAAAAATATTAATATTAATATAAATT
Found at i:111637477 original size:31 final size:32
Alignment explanation
Indices: 111637442--111637518 Score: 88
Period size: 31 Copynumber: 2.5 Consensus size: 32
111637432 ATGATGCTAG
* *
111637442 AGATATTTTGA-TATTTTATAATTA-TTTAATT
1 AGATATTTT-ATTATTTTATAAATATTTTAATA
**
111637473 AGATA-AATATTATTTTATAAATATTTTAATA
1 AGATATTTTATTATTTTATAAATATTTTAATA
111637504 AGATATTTTATTATT
1 AGATATTTTATTATT
111637519 ATTTTATTAG
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
29 1 0.03
30 13 0.35
31 16 0.43
32 7 0.19
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (32 bp):
AGATATTTTATTATTTTATAAATATTTTAATA
Found at i:111637497 original size:11 final size:11
Alignment explanation
Indices: 111637483--111637525 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
111637473 AGATAAATAT
111637483 TATTTTATAAA
1 TATTTTATAAA
111637494 TATTTTAATAAGA
1 TATTTT-ATAA-A
* *
111637507 TATTTTATTAT
1 TATTTTATAAA
111637518 TATTTTAT
1 TATTTTAT
111637526 TAGTATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 14 0.50
12 7 0.25
13 7 0.25
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (11 bp):
TATTTTATAAA
Found at i:111639639 original size:46 final size:46
Alignment explanation
Indices: 111639524--111639707 Score: 212
Period size: 46 Copynumber: 4.0 Consensus size: 46
111639514 GTGTGCTCTC
* * * *
111639524 TGATATGAAATGTGTAAGACTATGGTTGAAAGATACCATGGTAACC
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* *
111639570 TG--ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
** *
111639614 TGATATGAAATGAACAAGACCATGGTCGAAAGATACCATGGCAACA
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* * * * *
111639660 TGACA-GAAAATGAGTAAGACCATAGTTGAAAAATACTATGGCATCA
1 TGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
111639706 TG
1 TG
111639708 TCAAAGATAT
Statistics
Matches: 119, Mismatches: 16, Indels: 6
0.84 0.11 0.04
Matches are distributed among these distances:
44 41 0.34
45 1 0.01
46 77 0.65
ACGTcount: A:0.40, C:0.14, G:0.23, T:0.23
Consensus pattern (46 bp):
TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
Found at i:111650724 original size:18 final size:18
Alignment explanation
Indices: 111650701--111650736 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
111650691 TTTTATGTGT
* *
111650701 TACAAATTACATAGTATA
1 TACAAATAACATAATATA
111650719 TACAAATAACATAATATA
1 TACAAATAACATAATATA
111650737 AAGCATTACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.56, C:0.11, G:0.03, T:0.31
Consensus pattern (18 bp):
TACAAATAACATAATATA
Found at i:111662612 original size:3 final size:3
Alignment explanation
Indices: 111662606--111662648 Score: 50
Period size: 3 Copynumber: 14.3 Consensus size: 3
111662596 GTCGTCGTTT
* * * *
111662606 TTG TTG TTG TTG TTG TTG TTA TTG TTA TTG TTA TTT TTG TTG T
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG T
111662649 GATTGTGGTT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.07, C:0.00, G:0.23, T:0.70
Consensus pattern (3 bp):
TTG
Found at i:111662623 original size:12 final size:12
Alignment explanation
Indices: 111662606--111662654 Score: 62
Period size: 12 Copynumber: 4.1 Consensus size: 12
111662596 GTCGTCGTTT
*
111662606 TTGTTGTTGTTG
1 TTGTTGTTATTG
111662618 TTGTTGTTATTG
1 TTGTTGTTATTG
* *
111662630 TTATTGTTATTT
1 TTGTTGTTATTG
*
111662642 TTGTTGTGATTG
1 TTGTTGTTATTG
111662654 T
1 T
111662655 GGTTAATGTA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.08, C:0.00, G:0.24, T:0.67
Consensus pattern (12 bp):
TTGTTGTTATTG
Found at i:111667812 original size:20 final size:20
Alignment explanation
Indices: 111667763--111667802 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
111667753 TTTTAATTAT
111667763 TGTTACTAATAATCTTTTTA
1 TGTTACTAATAATCTTTTTA
111667783 TGTTACTAATAATCTTTTTA
1 TGTTACTAATAATCTTTTTA
111667803 GTTTCATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.10, G:0.05, T:0.55
Consensus pattern (20 bp):
TGTTACTAATAATCTTTTTA
Found at i:111671773 original size:26 final size:26
Alignment explanation
Indices: 111671744--111671829 Score: 145
Period size: 26 Copynumber: 3.3 Consensus size: 26
111671734 TGATACAAAT
111671744 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
111671770 TGATAATGAGTTAGGTAAATATTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
111671796 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
111671822 TGATAATG
1 TGATAATG
111671830 TGCACCTTGG
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.34, C:0.06, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:111674534 original size:26 final size:26
Alignment explanation
Indices: 111674505--111674560 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
111674495 TGATACAAAT
111674505 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
111674531 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
111674557 TGAT
1 TGAT
111674561 TGGAATTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:111677779 original size:32 final size:32
Alignment explanation
Indices: 111677742--111677814 Score: 146
Period size: 32 Copynumber: 2.3 Consensus size: 32
111677732 TTTTTAAAAT
111677742 ATAATTGTTATACAACAATTTATATTTTTATA
1 ATAATTGTTATACAACAATTTATATTTTTATA
111677774 ATAATTGTTATACAACAATTTATATTTTTATA
1 ATAATTGTTATACAACAATTTATATTTTTATA
111677806 ATAATTGTT
1 ATAATTGTT
111677815 TAACTTAATG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.40, C:0.05, G:0.04, T:0.51
Consensus pattern (32 bp):
ATAATTGTTATACAACAATTTATATTTTTATA
Done.