Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold3220
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: 77751
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Found at i:19443 original size:3 final size:3
Alignment explanation
Indices: 19437--19642 Score: 75
Period size: 3 Copynumber: 71.0 Consensus size: 3
19427 TATTATCAAA
** *
19437 ATT ATT ATT ATT ATT ATT A-T ATT -TGCT ACC ATT ATT ACT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT--T ATT ATT ATT ATT ATT ATT
* ** * * *
19482 ACTT -TT ATT ACT ACC ACT ATT ATC ATT A-T ATT -TT -TT ATGT TTT
1 A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT
*
19525 ATT CATT TTCT ATT ATT ATTT ATT A-T ATT -TT A-T ATT -TT A-T ATT
1 ATT -ATT AT-T ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * *
19568 ATT ATT A-G ATT ATT ATT -TT CTT ATT ATT -GT ATT ATT ATT -TT CAACT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT --ATT
* *
19614 -TT ATT ATT ATT ATT ATT ATC ATT ACT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
19643 TTCCTTTTTT
Statistics
Matches: 152, Mismatches: 27, Indels: 48
0.67 0.12 0.21
Matches are distributed among these distances:
2 28 0.18
3 110 0.72
4 13 0.09
5 1 0.01
ACGTcount: A:0.29, C:0.08, G:0.02, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:19473 original size:30 final size:30
Alignment explanation
Indices: 19437--19510 Score: 87
Period size: 30 Copynumber: 2.5 Consensus size: 30
19427 TATTATCAAA
*
19437 ATTATTATTATTATTA-TTATATTTGCTACC
1 ATTATTATTATTATTACTTATA-TTACTACC
* *
19467 ATTATTACTATTATTACTTTTATTACTACC
1 ATTATTATTATTATTACTTATATTACTACC
* *
19497 ACTATTATCATTAT
1 ATTATTATTATTAT
19511 ATTTTTTATG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
30 33 0.89
31 4 0.11
ACGTcount: A:0.31, C:0.14, G:0.01, T:0.54
Consensus pattern (30 bp):
ATTATTATTATTATTACTTATATTACTACC
Found at i:19552 original size:40 final size:40
Alignment explanation
Indices: 19506--19585 Score: 101
Period size: 40 Copynumber: 2.0 Consensus size: 40
19496 CACTATTATC
* **
19506 ATTATATTTTTTATGTTT-TATTCATT-TTCTATTATTATTT
1 ATTATATTTTATAT-TTTATATT-ATTATTAGATTATTATTT
19546 ATTATATTTTATATTTTATATTATTATTAGATTATTATTT
1 ATTATATTTTATATTTTATATTATTATTAGATTATTATTT
19586 TCTTATTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
39 6 0.17
40 29 0.83
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.68
Consensus pattern (40 bp):
ATTATATTTTATATTTTATATTATTATTAGATTATTATTT
Found at i:19560 original size:22 final size:22
Alignment explanation
Indices: 19529--19632 Score: 64
Period size: 22 Copynumber: 5.0 Consensus size: 22
19519 TGTTTTATTC
*
19529 ATTTTCTATTATTATTTATTAT
1 ATTTTATATTATTATTTATTAT
19551 ATTTTATATT-TTA--TATTAT
1 ATTTTATATTATTATTTATTAT
* *
19570 -TATTAGATTATTATTT-TCT-T
1 ATTTTATATTATTATTTAT-TAT
* *
19590 ATTATTGTATTATTATTT-TCA-
1 ATT-TTATATTATTATTTATTAT
*
19611 ACTTTATTATTATTA-TTATTAT
1 ATTTTA-TATTATTATTTATTAT
19633 CATTACTATT
Statistics
Matches: 62, Mismatches: 10, Indels: 20
0.67 0.11 0.22
Matches are distributed among these distances:
18 7 0.11
19 9 0.15
20 6 0.10
21 18 0.29
22 22 0.35
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (22 bp):
ATTTTATATTATTATTTATTAT
Found at i:19583 original size:19 final size:19
Alignment explanation
Indices: 19539--19593 Score: 51
Period size: 19 Copynumber: 2.9 Consensus size: 19
19529 ATTTTCTATT
* *
19539 ATTATT-TATTATATTTTAT
1 ATTATTATATTAT-TATTAG
19558 ATT-TTATATTATTATTAG
1 ATTATTATATTATTATTAG
* *
19576 ATTATTATTTTCTTATTA
1 ATTATTATATTATTATTA
19594 TTGTATTATT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
18 9 0.30
19 21 0.70
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (19 bp):
ATTATTATATTATTATTAG
Found at i:19593 original size:14 final size:13
Alignment explanation
Indices: 19523--19595 Score: 51
Period size: 14 Copynumber: 5.4 Consensus size: 13
19513 TTTTTATGTT
*
19523 TTATTCATTTTCTA
1 TTATT-ATTTTTTA
19537 TTATTATTTATTATA
1 TTATTATTT-TT-TA
*
19552 TT-TTATATTTTA
1 TTATTATTTTTTA
**
19564 -TATTATTATTAGA
1 TTATTATT-TTTTA
19577 TTATTATTTTCTTA
1 TTATTATTTT-TTA
19591 TTATT
1 TTATT
19596 GTATTATTAT
Statistics
Matches: 46, Mismatches: 7, Indels: 12
0.71 0.11 0.18
Matches are distributed among these distances:
11 1 0.02
12 6 0.13
13 11 0.24
14 24 0.52
15 4 0.09
ACGTcount: A:0.27, C:0.04, G:0.01, T:0.67
Consensus pattern (13 bp):
TTATTATTTTTTA
Found at i:19622 original size:54 final size:53
Alignment explanation
Indices: 19523--19628 Score: 137
Period size: 53 Copynumber: 2.0 Consensus size: 53
19513 TTTTTATGTT
*
19523 TTATTCATTTTCTATTATTATTTATTATATTTTATATTTTATATTATTATTAGA
1 TTATTCATTTTC-ATTATTATTTATTATATTTTATACTTTATATTATTATTAGA
19577 TTATT-ATTTTC-TTATTATTGTATTATTATTTTCA-ACTTTATTATTATTATTA
1 TTATTCATTTTCATTATTATT-TATTA-TATTTT-ATACTTTA-TATTATTATTA
19629 TTATCATTAC
Statistics
Matches: 47, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
51 8 0.17
52 5 0.11
53 17 0.36
54 17 0.36
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.65
Consensus pattern (53 bp):
TTATTCATTTTCATTATTATTTATTATATTTTATACTTTATATTATTATTAGA
Found at i:19843 original size:27 final size:27
Alignment explanation
Indices: 19787--19845 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
19777 ATTTTCATAA
**
19787 ATTATTATTATCATTATTATTGTTGGT
1 ATTATTATTATCATTATTATTGTTACT
19814 ATTATTATTATCATTATTA-TGTTTACT
1 ATTATTATTATCATTATTATTG-TTACT
19841 ATTAT
1 ATTAT
19846 CCTCTTTTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 2 0.07
27 27 0.93
ACGTcount: A:0.29, C:0.05, G:0.07, T:0.59
Consensus pattern (27 bp):
ATTATTATTATCATTATTATTGTTACT
Found at i:21304 original size:17 final size:17
Alignment explanation
Indices: 21282--21325 Score: 79
Period size: 17 Copynumber: 2.6 Consensus size: 17
21272 TCCGTACCTA
*
21282 TATCTTCGTGGGATTTT
1 TATCTTCGTGAGATTTT
21299 TATCTTCGTGAGATTTT
1 TATCTTCGTGAGATTTT
21316 TATCTTCGTG
1 TATCTTCGTG
21326 CGGCCATAGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.14, C:0.14, G:0.20, T:0.52
Consensus pattern (17 bp):
TATCTTCGTGAGATTTT
Found at i:25956 original size:57 final size:57
Alignment explanation
Indices: 25885--25998 Score: 133
Period size: 57 Copynumber: 2.0 Consensus size: 57
25875 TCTAATGGGA
*
25885 AATCATCCAAAAAATGCAT-TAAACATGGGGTA-AAAAATGTATAAATTACGGTTTATT
1 AATCATCCAAAAAAT--ATCTAAACATGGGATAGAAAAATGTATAAATTACGGTTTATT
* * * * *
25942 AATCATCTATAAAATATGCTAAGCATGGGATAGAAATATGTATAAATTATGGTTTAT
1 AATCATCCAAAAAATAT-CTAAACATGGGATAGAAAAATGTATAAATTACGGTTTAT
25999 CAGAAAGCCA
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
55 2 0.04
57 24 0.50
58 22 0.46
ACGTcount: A:0.44, C:0.09, G:0.15, T:0.32
Consensus pattern (57 bp):
AATCATCCAAAAAATATCTAAACATGGGATAGAAAAATGTATAAATTACGGTTTATT
Found at i:34671 original size:44 final size:45
Alignment explanation
Indices: 34606--34712 Score: 105
Period size: 44 Copynumber: 2.4 Consensus size: 45
34596 AATTCACAAC
* **
34606 CTTATCTCTTTGAGGTGGTAAGAGAA-CAGGTTGAA-GATTGAAG-T
1 CTTATCTCTTTGAGGTAGTAAG-GAAGCAGACT-AAGGATTGAAGAT
*
34650 CTTATCT-TTCTGGGGTAGTAAGGAAGCAGACTAAGGATTGAAGAT
1 CTTATCTCTT-TGAGGTAGTAAGGAAGCAGACTAAGGATTGAAGAT
**
34695 CTTATCTCCATGAGGTAG
1 CTTATCTCTTTGAGGTAG
34713 CAATGGAGCA
Statistics
Matches: 51, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
43 7 0.14
44 29 0.57
45 15 0.29
ACGTcount: A:0.29, C:0.12, G:0.28, T:0.31
Consensus pattern (45 bp):
CTTATCTCTTTGAGGTAGTAAGGAAGCAGACTAAGGATTGAAGAT
Found at i:34723 original size:45 final size:42
Alignment explanation
Indices: 34639--35434 Score: 179
Period size: 45 Copynumber: 18.0 Consensus size: 42
34629 GAACAGGTTG
* * *
34639 AAGATTGAAGTCTTATCTTTCTGGGGTAGTAAGGAAGCAGACT
1 AAGATTGAAGTCTTATCTTCCTGAGGTAGCAAGG-AGCAGACT
*
34682 AAGGATTGAAGATCTTATC-TCCATGAGGTAGCAATGGAGCAGATCG
1 AA-GATTGAAG-TCTTATCTTCC-TGAGGTAGCAA-GGAGCAGA-CT
* * * *
34728 AAGATGGTGAA-TCTTATCTTCCCGAGGTAGCAGGGGAGTAGATTT
1 AAGAT--TGAAGTCTTATCTTCCTGAGGTAGCA-AGGAGCAGA-CT
* * * **
34773 TAG--TCATAGCCTTATC-TCTCTGAGGTAGCAAGAGAGCAGGTT
1 AAGATTGA-AGTCTTATCTTC-CTGAGGTAGCAAG-GAGCAGACT
**
34815 GAAGATTGAAGTCTTATCTTCCTGAGGTAGCAAAAAAGCAGACT
1 -AAGATTGAAGTCTTATCTTCCTGAGGTAGC-AAGGAGCAGACT
* * * *
34859 AAGGATTGAAGATCTTATCTCCCTAAGCAGTAG-TA-GAGCAGATCA
1 AA-GATTGAAG-TCTTATCTTCCTGAG--GTAGCAAGGAGCAGA-CT
* *
34904 AAGATGGCGAA-TCTTATCTT-CTCGAGGTAGCAGAGGAGCAGATTT
1 AAGAT--TGAAGTCTTATCTTCCT-GAGGTAGCA-AGGAGCAGA-CT
* ***** * * **
34949 TAGCCACCAGCCTTATC-TCTCTGAGGTAGCGAGAGAGCAGGTT
1 AAGATTGAAGTCTTATCTTC-CTGAGGTAGCAAG-GAGCAGACT
* * * *
34992 GAAGATTGTAGTCTTATCTTCCTGAGATAGTAATGAAGCAGACT
1 -AAGATTGAAGTCTTATCTTCCTGAGGTAGCAA-GGAGCAGACT
* * * * *
35036 GAATATTGTAGATCTTATC-TCCATGAGGTAGCAATAGAGCAAATCG
1 -AAGATTGAAG-TCTTATCTTCC-TGAGGTAGCAA-GGAGCAGA-CT
* * * *
35082 AAGATGGCGAA-TCTTATC-TCCATGAGGTAGCAATAGAGCAAATCG
1 AAGAT--TGAAGTCTTATCTTCC-TGAGGTAGCAA-GGAGCAGA-CT
* *
35127 AAGATGGCGAA-TCTTATC-TCCTTGAGGTAGCAAGGGAGCAGATTT
1 AAGAT--TGAAGTCTTATCTTCC-TGAGGTAGCAA-GGAGCAGA-CT
* * * * *
35172 AAGCCACT--AGCCTTGTCTTTCTGA-GCAGC-AGTAGAGCA-AGCT
1 AAG--ATTGAAGTCTTATCTTCCTGAGGTAGCAAG--GAGCAGA-CT
* * *
35214 GAAGATTGTAGATATTATC-TCCATGAGGTAGCAATGGAGCAGATCG
1 -AAGATTGAAG-TCTTATCTTCC-TGAGGTAGCAA-GGAGCAGA-CT
* *
35260 AAGACGGTGAA-TCTTATCTTCCTGAAGTAGCAAGGGAGCAGATCT
1 AAGA--TTGAAGTCTTATCTTCCTGAGGTAGCAA-GGAGCAGA-CT
* * * *
35305 AAGCCA-T-CAGCCTCATC-TCTCTGAGGTAGCAAAGGAGCAGGCT
1 AAG--ATTGAAGTCTTATCTTC-CTGAGGTAGC-AAGGAGCAGACT
* * *
35348 GAAGATTGTAGTTTTATCTTCCTGAGGTA-CTAAGGGGGCAGACT
1 -AAGATTGAAGTCTTATCTTCCTGAGGTAGC-AA-GGAGCAGACT
* * * *
35392 AAAGGTTGTAGATCTTAT-TTCCATGACGTAGTAATGGAGCAGA
1 -AAGATTGAAG-TCTTATCTTCC-TGAGGTAGCAA-GGAGCAGA
35435 TCGAAGATGA
Statistics
Matches: 568, Mismatches: 113, Indels: 142
0.69 0.14 0.17
Matches are distributed among these distances:
41 5 0.01
42 14 0.02
43 61 0.11
44 195 0.34
45 259 0.46
46 18 0.03
47 16 0.03
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.26
Consensus pattern (42 bp):
AAGATTGAAGTCTTATCTTCCTGAGGTAGCAAGGAGCAGACT
Found at i:34798 original size:88 final size:88
Alignment explanation
Indices: 34695--35013 Score: 260
Period size: 88 Copynumber: 3.6 Consensus size: 88
34685 GATTGAAGAT
34695 CTTATCTC-CATGAGGTAGCAATG-GAGCAGATCGAAGATGGTGAATCTTATCTTCCCGAGGTAG
1 CTTATCTCTC-TGAGGTAGCAA-GAGAGCAGATCGAAGATGGTGAATCTTATCTTCCCGAGGTAG
* *
34758 CAGGGGAGTAGATTTTAGTCA-TAGC
64 CAGAGGAGCAGATTTTAG-CACTAGC
* * *
34783 CTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAT--TGAAGTCTTATCTTCCTGAGGTAGC
1 CTTATCTCTCTGAGGTAGCAAGAGAGCAGATCGAAGATGGTGAA-TCTTATCTTCCCGAGGTAGC
* ** * * * * *
34846 AAAAAAGCAGA-CTAAGGATTGAAGAT
65 AGAGGAGCAGATTTTAGCACT--AG-C
* * * * * * *
34872 CTTATCTCCCT-AAGCAG-TAGTAGAGCAGATCAAAGATGGCGAATCTTATCTTCTCGAGGTAGC
1 CTTATCTCTCTGAGGTAGCAAG-AGAGCAGATCGAAGATGGTGAATCTTATCTTCCCGAGGTAGC
*
34935 AGAGGAGCAGATTTTAGCCACCAGC
65 AGAGGAGCAGATTTTAG-CACTAGC
* * * * *
34960 CTTATCTCTCTGAGGTAGCGAGAGAGCAGGTTGAAGATTGT-AGTCTTATCTTCC
1 CTTATCTCTCTGAGGTAGCAAGAGAGCAGATCGAAGATGGTGAATCTTATCTTCC
35014 TGAGATAGTA
Statistics
Matches: 175, Mismatches: 42, Indels: 28
0.71 0.17 0.11
Matches are distributed among these distances:
85 1 0.01
86 8 0.05
87 28 0.16
88 72 0.41
89 57 0.33
90 8 0.05
91 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (88 bp):
CTTATCTCTCTGAGGTAGCAAGAGAGCAGATCGAAGATGGTGAATCTTATCTTCCCGAGGTAGCA
GAGGAGCAGATTTTAGCACTAGC
Found at i:34822 original size:133 final size:131
Alignment explanation
Indices: 34685--35376 Score: 432
Period size: 133 Copynumber: 5.2 Consensus size: 131
34675 GCAGACTAAG
34685 GATTGAAGATCTTATCTCCATGAGGTAGCAATGGAGCAGATCGAAGATGGTGAATCTTATCTTCC
1 GATTGAAG-TCTTATCTCC-TGAGGTAGCAATGGAGCAGATCGAAGATGGTGAATCTTATCTTCC
* * * * *
34750 CGAGGTAGCAGGGGAGTAGATTTTAGTCATAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTT
64 TGAGGTAGCAAGGGAGCAGATCTAAGTCATAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTT
34815 GAA
129 GAA
*** * *
34818 GATTGAAGTCTTATCTTCCTGAGGTAGCAAAAAAGCAGA-CTAAGGAT--TGAAGATCTTATCTC
1 GATTGAAGTCTTATC-TCCTGAGGTAGCAATGGAGCAGATCGAA-GATGGTG-A-ATCTTATCTT
* * * *
34880 CCTAAGCAGTAG-TA--GAGCAGATCAAAGATGGCGA-A-TCTTATCT-TCTCGAGGTAGC-AGA
62 CCTGAG--GTAGCAAGGGAGCAGATCTAAG-T--C-ATAGCCTTATCTCTCT-GAGGTAGCAAGA
* **
34938 GGAGCAGATTTTA
120 -GAGCAGGTTGAA
***** * * * * * *
34951 GCCACCAGCCTTATCTCTCTGAGGTAGCGA-GAGAGCAGGTTGAAGATTGT-AGTCTTATCTTCC
1 GATTGAAGTCTTATCTC-CTGAGGTAGCAATG-GAGCAGATCGAAGATGGTGAATCTTATCTTCC
* * * * * ** * *
35014 TGAGATAGTAATGAAGCAGA-CTGAATATTGTAGATCTTATCTC-CATGAGGTAGCAATAGAGCA
64 TGAGGTAGCAAGGGAGCAGATCT-AA-GTCATAG-CCTTATCTCTC-TGAGGTAGCAAGAGAGCA
** *
35077 AATCGAA
125 GGTTGAA
* * * *
35084 GATGGCGAA-TCTTATCTCCATGAGGTAGCAATAGAGCAAATCGAAGATGGCGAATCTTATC-TC
1 GAT--TGAAGTCTTATCTCC-TGAGGTAGCAATGGAGCAGATCGAAGATGGTGAATCTTATCTTC
* * * * *
35147 CTTGAGGTAGCAAGGGAGCAGATTTAAGCCACTAGCCTTGTCTTTCTGA-GCAGC-AGTAGAGCA
63 C-TGAGGTAGCAAGGGAGCAGATCTAAGTCA-TAGCCTTATCTCTCTGAGGTAGCAAG-AGAGCA
* *
35210 AGCTGAA
125 GGTTGAA
* * *
35217 GATTGTAGATATTATCTCCATGAGGTAGCAATGGAGCAGATCGAAGACGGTGAATCTTATCTTCC
1 GATTGAAG-TCTTATCTCC-TGAGGTAGCAATGGAGCAGATCGAAGATGGTGAATCTTATCTTCC
* * *
35282 TGAAGTAGCAAGGGAGCAGATCTAAGCCATCAGCCTCATCTCTCTGAGGTAGCAA-AGGAGCAGG
64 TGAGGTAGCAAGGGAGCAGATCTAAGTCAT-AGCCTTATCTCTCTGAGGTAGCAAGA-GAGCAGG
*
35346 CTGAA
127 TTGAA
* *
35351 GATTGTAGTTTTATCTTCCTGAGGTA
1 GATTGAAGTCTTATC-TCCTGAGGTA
35377 CTAAGGGGGC
Statistics
Matches: 423, Mismatches: 90, Indels: 92
0.70 0.15 0.15
Matches are distributed among these distances:
130 5 0.01
131 17 0.04
132 65 0.15
133 218 0.52
134 83 0.20
135 34 0.08
136 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (131 bp):
GATTGAAGTCTTATCTCCTGAGGTAGCAATGGAGCAGATCGAAGATGGTGAATCTTATCTTCCTG
AGGTAGCAAGGGAGCAGATCTAAGTCATAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGA
A
Found at i:34963 original size:177 final size:177
Alignment explanation
Indices: 34600--35443 Score: 784
Period size: 177 Copynumber: 4.8 Consensus size: 177
34590 TCGGTGAATT
* * * * * * *
34600 CACAACCTTATCTCTTTGAGGTGGTAAGAGAACAGGTTGAAGATTGAAGTCTTATCTTTCTGGGG
1 CACAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGAAGTCTTATCTTCCTGAGG
* *
34665 TAGTAAGGAAGCAGACTAAGGATTGAAGATCTTATCTCCATGAGGTAGCAATGGAGCAGATCGAA
66 TAGTAAAGAAGCAGACTAAGGATTGAAGATCTTATCTCCATGAGGTAGCAATAGAGCAGATCGAA
* * * * *
34730 GATGGTGAATCTTATCTTCCCGAGGTAGCAGGGGAGTAGATTTTAGT
131 GATGGCGAATCTTATCTTCTCGAGGTAGCAGAGGAGCAGATTTTAGC
*
34777 CATAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGAAGTCTTATCTTCCTGAGG
1 CACAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGAAGTCTTATCTTCCTGAGG
* * * * * * * *
34842 TAGCAAAAAAGCAGACTAAGGATTGAAGATCTTATCTCCCT-AAGCAGTAGTAGAGCAGATCAAA
66 TAGTAAAGAAGCAGACTAAGGATTGAAGATCTTATCTCCATGAGGTAGCAATAGAGCAGATCGAA
34906 GATGGCGAATCTTATCTTCTCGAGGTAGCAGAGGAGCAGATTTTAGC
131 GATGGCGAATCTTATCTTCTCGAGGTAGCAGAGGAGCAGATTTTAGC
* *
34953 CACCAGCCTTATCTCTCTGAGGTAGCGAGAGAGCAGGTTGAAGATTGTAGTCTTATCTTCCTGAG
1 CA-CAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGAAGTCTTATCTTCCTGAG
* * * * *
35018 ATAGTAATGAAGCAGACTGAA-TATTGTAGATCTTATCTCCATGAGGTAGCAATAGAGCAAATCG
65 GTAGTAAAGAAGCAGACT-AAGGATTGAAGATCTTATCTCCATGAGGTAGCAATAGAGCAGATCG
* * * *** *
35082 AAGATGGCGAATCTTATCTCCAT-GAGGTAGCA-ATAGAGCAAATCGAAGAT
129 AAGATGGCGAATCTTATCTTC-TCGAGGTAGCAGA-GGAGCAGATTTTAG-C
** ** * * * * * * *
35132 GGCGAATCTTATCTC-CTTGAGGTAGCAAGGGAGCAGATTTAAGCCACT--AGCCTTGTCTTTCT
1 CAC-AGCCTTATCTCTC-TGAGGTAGCAAGAGAGCAGGTTGAAG--ATTGAAGTCTTATCTTCCT
* * * *
35194 GAGCAGCAGT--AG-AGCA-AGCTGAA-GATTGTAGATATTATCTCCATGAGGTAGCAATGGAGC
62 GAG--GTAGTAAAGAAGCAGA-CT-AAGGATTGAAGATCTTATCTCCATGAGGTAGCAATAGAGC
* * * * *
35254 AGATCGAAGACGGTGAATCTTATCTTC-CTGAAGTAGCA-AGGGAGCAGATCTAAGC
123 AGATCGAAGATGGCGAATCTTATCTTCTC-GAGGTAGCAGA-GGAGCAGATTTTAGC
* * * *
35309 CATCAGCCTCATCTCTCTGAGGTAGCAA-AGGAGCAGGCTGAAGATTGTAGTTTTATCTTCCTGA
1 CA-CAGCCTTATCTCTCTGAGGTAGCAAGA-GAGCAGGTTGAAGATTGAAGTCTTATCTTCCTGA
* * ** * * * * *
35373 GGTACTAAGGGGGCAGACTAAAGG-TTGTAGATCTTATTTCCATGACGTAGTAATGGAGCAGATC
64 GGTAGTAAAGAAGCAGACT-AAGGATTGAAGATCTTATCTCCATGAGGTAGCAATAGAGCAGATC
35437 GAAGATG
128 GAAGATG
35444 AAAAATCTTA
Statistics
Matches: 544, Mismatches: 98, Indels: 49
0.79 0.14 0.07
Matches are distributed among these distances:
175 5 0.01
176 61 0.11
177 230 0.42
178 194 0.36
179 49 0.09
181 5 0.01
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.26
Consensus pattern (177 bp):
CACAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGAAGTCTTATCTTCCTGAGG
TAGTAAAGAAGCAGACTAAGGATTGAAGATCTTATCTCCATGAGGTAGCAATAGAGCAGATCGAA
GATGGCGAATCTTATCTTCTCGAGGTAGCAGAGGAGCAGATTTTAGC
Found at i:35407 original size:133 final size:134
Alignment explanation
Indices: 35095--35436 Score: 346
Period size: 133 Copynumber: 2.6 Consensus size: 134
35085 ATGGCGAATC
** * * * * *
35095 TTATCTCCATGAGGTAGCAATAGAGCAAATCGAAGATGGCGAATCTTATC-TCCTTGAGGTAGCA
1 TTATCTCCATGAGGTAGCAAGGGAGCAGATCGAAGACGGTGAATCTTATCTTCCATGAAGTAGCA
* ** * *
35159 AGGGAGCAGATTTAAGCCACTAGCCTTGTCTTTCTGAGCAGCAGTAGAGCAAGCTGAAGATTGTA
66 AGGGAGCAGATCTAAGCCACTAGCCTCATCTCTCTGAGCAGCAGAAGAGCAAGCTGAAGATTGTA
35224 GATA
131 GATA
*
35228 TTATCTCCATGAGGTAGCAATGGAGCAGATCGAAGACGGTGAATCTTATCTTCC-TGAAGTAGCA
1 TTATCTCCATGAGGTAGCAAGGGAGCAGATCGAAGACGGTGAATCTTATCTTCCATGAAGTAGCA
* *
35292 AGGGAGCAGATCTAAGCCA-TCAGCCTCATCTCTCTGAGGTAGCA-AAGGAGCAGGCTGAAGATT
66 AGGGAGCAGATCTAAGCCACT-AGCCTCATCTCTCTGA-GCAGCAGAA-GAGCAAGCTGAAGATT
*
35355 GTAG-TT
128 GTAGATA
* * *
35361 TTATCTTCC-TGAGGTA-CTAAGGGGGCAGA-CTAA-A-GGTTGTAGATCTTAT-TTCCATGACG
1 TTATC-TCCATGAGGTAGC-AAGGGAGCAGATCGAAGACGG-TG-A-ATCTTATCTTCCATGAAG
* *
35420 TAGTAATGGAGCAGATC
61 TAGCAAGGGAGCAGATC
35437 GAAGATGAAA
Statistics
Matches: 180, Mismatches: 19, Indels: 20
0.82 0.09 0.09
Matches are distributed among these distances:
130 2 0.01
131 3 0.02
132 10 0.06
133 135 0.75
134 30 0.17
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (134 bp):
TTATCTCCATGAGGTAGCAAGGGAGCAGATCGAAGACGGTGAATCTTATCTTCCATGAAGTAGCA
AGGGAGCAGATCTAAGCCACTAGCCTCATCTCTCTGAGCAGCAGAAGAGCAAGCTGAAGATTGTA
GATA
Found at i:37639 original size:23 final size:20
Alignment explanation
Indices: 37590--37658 Score: 77
Period size: 20 Copynumber: 3.5 Consensus size: 20
37580 CATTTTCCAT
*
37590 CTCCTTCTTTATCAGTCCTC
1 CTCCTTCTTCATCAGTCCTC
37610 CTCCTTCTTCATCAGTCCAT-
1 CTCCTTCTTCATCAGTCC-TC
* * * *
37630 CTCATTCTTCTTCATTCCTT
1 CTCCTTCTTCATCAGTCCTC
37650 CTCCTTCTT
1 CTCCTTCTT
37659 TTGTTCTTCA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
19 1 0.02
20 40 0.95
21 1 0.02
ACGTcount: A:0.10, C:0.39, G:0.03, T:0.48
Consensus pattern (20 bp):
CTCCTTCTTCATCAGTCCTC
Found at i:45414 original size:45 final size:46
Alignment explanation
Indices: 45346--45520 Score: 136
Period size: 46 Copynumber: 3.8 Consensus size: 46
45336 GTCATACCAG
* *** * * * *
45346 AAATGAGTAAGACCATAACTGAAAGACGCTATGGCATCGCGAT-TC
1 AAATGTGTAAGACCATGGTTGAAAGACACCATGACAACGCGATATC
* * *
45391 AAATGTGTAAGACCATGGTTGAAAGATACCATGACAACGTGATATG
1 AAATGTGTAAGACCATGGTTGAAAGACACCATGACAACGCGATATC
* * ** ** * *
45437 AAATGTGTAAGACCATGGTTGAAAGATACTATGGTAACATGACATG
1 AAATGTGTAAGACCATGGTTGAAAGACACCATGACAACGCGATATC
** * *
45483 AAATGAATAAAACCATGGTTGAAAGATACCATGACAAC
1 AAATGTGTAAGACCATGGTTGAAAGACACCATGACAAC
45521 ATGACGGGGA
Statistics
Matches: 107, Mismatches: 22, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
45 33 0.31
46 74 0.69
ACGTcount: A:0.41, C:0.15, G:0.22, T:0.22
Consensus pattern (46 bp):
AAATGTGTAAGACCATGGTTGAAAGACACCATGACAACGCGATATC
Found at i:45449 original size:91 final size:92
Alignment explanation
Indices: 45345--45520 Score: 210
Period size: 92 Copynumber: 1.9 Consensus size: 92
45335 CGTCATACCA
* * * * ** *
45345 GAAATGAGTAAGACCATAACTGAAAGACGCTATGGCATCGCGA-TTCAAATGTGTAAGACCATGG
1 GAAATGAGTAAGACCATAACTGAAAGACACTATGGCAACACGACATCAAATGAATAAAACCATGG
45409 TTGAAAGATACCATGACAACGTGATAT
66 TTGAAAGATACCATGACAACGTGATAT
* *** * * * *
45436 GAAATGTGTAAGACCATGGTTGAAAGATACTATGGTAACATGACATGAAATGAATAAAACCATGG
1 GAAATGAGTAAGACCATAACTGAAAGACACTATGGCAACACGACATCAAATGAATAAAACCATGG
45501 TTGAAAGATACCATGACAAC
66 TTGAAAGATACCATGACAAC
45521 ATGACGGGGA
Statistics
Matches: 69, Mismatches: 15, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
91 33 0.48
92 36 0.52
ACGTcount: A:0.41, C:0.15, G:0.22, T:0.22
Consensus pattern (92 bp):
GAAATGAGTAAGACCATAACTGAAAGACACTATGGCAACACGACATCAAATGAATAAAACCATGG
TTGAAAGATACCATGACAACGTGATAT
Found at i:45451 original size:46 final size:46
Alignment explanation
Indices: 45391--45601 Score: 243
Period size: 46 Copynumber: 4.6 Consensus size: 46
45381 ATCGCGATTC
* *
45391 AAATGTGTAAGACCATGGTTGAAAGATACCATGACAACGTGATATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGACAACATGACATG
* **
45437 AAATGTGTAAGACCATGGTTGAAAGATACTATGGTAACATGACATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGACAACATGACATG
** * **
45483 AAATGAATAAAACCATGGTTGAAAGATACCATGACAACATGACGGGG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGACAACATGAC-ATG
*
45530 AAA--TG-AAGACCATGGTTGAAAGATACCATGGA-AACTTGACA-G
1 AAATGTGTAAGACCATGGTTGAAAGATACCAT-GACAACATGACATG
* *
45572 AAAATGAGTAAGACCATAGTTGAAAGATAC
1 -AAATGTGTAAGACCATGGTTGAAAGATAC
45602 TATAGCATCA
Statistics
Matches: 139, Mismatches: 20, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
42 1 0.01
43 3 0.02
44 30 0.22
45 3 0.02
46 98 0.71
47 4 0.03
ACGTcount: A:0.43, C:0.13, G:0.23, T:0.21
Consensus pattern (46 bp):
AAATGTGTAAGACCATGGTTGAAAGATACCATGACAACATGACATG
Found at i:45578 original size:90 final size:91
Alignment explanation
Indices: 45402--45601 Score: 262
Period size: 90 Copynumber: 2.2 Consensus size: 91
45392 AATGTGTAAG
* * * *
45402 ACCATGGTTGAAAGATACCATGACAACGTGATATGAAATGTGTAAGACCATGGTTGAAAGATACT
1 ACCATGGTTGAAAGATACCATGACAACATGAGAGGAAA-GTGTAAGACCATGGTTGAAAGATACC
*
45467 ATGGTAACATGACATGAAATGAATAAA
65 ATGGAAACATGACATGAAATGAATAAA
*
45494 ACCATGGTTGAAAGATACCATGACAACATGACGGGGAAA-TG-AAGACCATGGTTGAAAGATACC
1 ACCATGGTTGAAAGATACCATGACAACATGA-GAGGAAAGTGTAAGACCATGGTTGAAAGATACC
* * *
45557 ATGGAAACTTGACA-GAAAATGAGTAAG
65 ATGGAAACATGACATG-AAATGAATAAA
*
45584 ACCATAGTTGAAAGATAC
1 ACCATGGTTGAAAGATAC
45602 TATAGCATCA
Statistics
Matches: 96, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
89 1 0.01
90 59 0.61
91 2 0.02
92 30 0.31
93 4 0.04
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.21
Consensus pattern (91 bp):
ACCATGGTTGAAAGATACCATGACAACATGAGAGGAAAGTGTAAGACCATGGTTGAAAGATACCA
TGGAAACATGACATGAAATGAATAAA
Found at i:47439 original size:31 final size:31
Alignment explanation
Indices: 47399--47475 Score: 84
Period size: 31 Copynumber: 2.5 Consensus size: 31
47389 TGATATTTTA
*
47399 TAATTTTTTAATTAGATAATTATTATT-TATT
1 TAATATTTTAATTAGATAATTATTATTAT-TT
* **
47430 TAATATTTTAATAAGATGTTTATTATTATTT
1 TAATATTTTAATTAGATAATTATTATTATTT
* *
47461 TATTATTTTATTTAG
1 TAATATTTTAATTAG
47476 TATATATATG
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
31 37 0.97
32 1 0.03
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (31 bp):
TAATATTTTAATTAGATAATTATTATTATTT
Found at i:50806 original size:4 final size:4
Alignment explanation
Indices: 50797--50825 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
50787 AAAAAATGTA
50797 AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
50826 GAATGTTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:50922 original size:15 final size:15
Alignment explanation
Indices: 50898--50943 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
50888 ATATAAATAG
*
50898 AAATAAAAATATAAT
1 AAATAGAAATATAAT
50913 AAATAGAAATATAAT
1 AAATAGAAATATAAT
50928 AATAGTAGAAATATAA
1 AA-A-TAGAAATATAA
50944 ATAGATAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 16 0.57
16 1 0.04
17 11 0.39
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (15 bp):
AAATAGAAATATAAT
Found at i:50946 original size:44 final size:43
Alignment explanation
Indices: 50892--51027 Score: 101
Period size: 44 Copynumber: 3.3 Consensus size: 43
50882 GTTAGTATAT
* *
50892 AAATAGAAATAAAAATATAATAAATAGAAATATAATAATAGTAG
1 AAATATAAATAAAAATATAATAAATAGAAA-ATAATAATAATAG
* * *
50936 AAATATAAATAGATAAATA-AA-AATTAGATAAATAATACTATTAG
1 AAATATAAATA-A-AAATATAATAAATAGA-AAATAATAATAATAG
*
50980 --A-ATAAA-AATAA-AT-ATAAATAGAAACATAATAATAATAG
1 AAATATAAATAAAAATATAATAAATAGAAA-ATAATAATAATAG
*
51018 CAATA-AAATA
1 AAATATAAATA
51028 TTAAATTAGT
Statistics
Matches: 74, Mismatches: 8, Indels: 23
0.70 0.08 0.22
Matches are distributed among these distances:
37 4 0.05
38 19 0.26
39 1 0.01
40 5 0.07
41 7 0.09
42 1 0.01
44 27 0.36
45 5 0.07
46 5 0.07
ACGTcount: A:0.65, C:0.02, G:0.07, T:0.26
Consensus pattern (43 bp):
AAATATAAATAAAAATATAATAAATAGAAAATAATAATAATAG
Found at i:50963 original size:15 final size:14
Alignment explanation
Indices: 50890--50970 Score: 58
Period size: 15 Copynumber: 5.6 Consensus size: 14
50880 ATGTTAGTAT
*
50890 ATAAATAGAAATA-
1 ATAAATAAAAATAG
*
50903 AAAATATAATAAATAG
1 ATAA-ATAA-AAATAG
*
50919 A-AATATAATAATAG
1 ATAA-ATAAAAATAG
* *
50933 TAGAAATATAAATAG
1 -ATAAATAAAAATAG
50948 ATAAATAAAAATTAG
1 ATAAATAAAAA-TAG
50963 ATAAATAA
1 ATAAATAA
50971 TACTATTAGA
Statistics
Matches: 55, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
13 3 0.05
14 17 0.31
15 32 0.58
16 3 0.05
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (14 bp):
ATAAATAAAAATAG
Found at i:51956 original size:44 final size:43
Alignment explanation
Indices: 51907--52058 Score: 141
Period size: 44 Copynumber: 3.5 Consensus size: 43
51897 ATTTGAGCCA
*
51907 CTACTGCTTAGGGAGATATGATCTGTAATTTCAAGCCTGTTTCC
1 CTACTGCTTAGGGAGATAAGATCTGTAATTTC-AGCCTGTTTCC
* * * * *
51951 CTACTGCTTAGGGGGATAAGGCTCACTGT--CTTC-GATCTG-CTCC
1 CTACTGCTTAGGGAGATAA-GAT--CTGTAATTTCAG-CCTGTTTCC
*
51994 ACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTACC
1 -CTACTGCTTAGGGAGATAAGATCTGTAA-TTTCAGCCTGTTTCC
*
52039 CTACTGCTTAGGGAGTTAAG
1 CTACTGCTTAGGGAGATAAG
52059 GCTCACTGTC
Statistics
Matches: 85, Mismatches: 13, Indels: 20
0.72 0.11 0.17
Matches are distributed among these distances:
41 4 0.05
43 6 0.07
44 63 0.74
45 8 0.09
47 4 0.05
ACGTcount: A:0.22, C:0.22, G:0.23, T:0.33
Consensus pattern (43 bp):
CTACTGCTTAGGGAGATAAGATCTGTAATTTCAGCCTGTTTCC
Found at i:52059 original size:88 final size:88
Alignment explanation
Indices: 51904--52382 Score: 710
Period size: 88 Copynumber: 5.4 Consensus size: 88
51894 TCAATTTGAG
* * *
51904 CCACTACTGCTTAGGGAGATATGATCTGTAA-TTTCAAGCCTGTTTCCCTACTGCTTAGGGGGAT
1 CCACTACTGCTTAGGGAGATAAGATCTGTAATTTTC-AGCCTGTTACCCTACTGCTTAGGGGGTT
51968 AAGGCTCACTGTCTTCGATCTGCT
65 AAGGCTCACTGTCTTCGATCTGCT
*
51992 CCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGGAGTTA
1 CCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTA
*
52057 AGGCTCACTGTCTTCGATTTGCT
66 AGGCTCACTGTCTTCGATCTGCT
* * * *
52080 CCACTACTGCTTAGGGAAATAAGATCTGAAATTTTCAGCCTATTACTCTACTGCTTATGGGGGTT
1 CCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTA-GGGGGTT
52145 AAGGCTCACTGTCTTCGATCTGCT
65 AAGGCTCACTGTCTTCGATCTGCT
* *
52169 CCACTACTGCTTAAGGAGATAAGATCTGTAATTTTCAGCCTGTTACCCTACTACTTAGGGGGTTA
1 CCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTA
* *
52234 AGGCTCACTGTCTTCAATCCGCT
66 AGGCTCACTGTCTTCGATCTGCT
* * * * ** **
52257 CCACTACTACTTAAGGAGATAAGATCTATAATCTTCAGCCTGTTACTTTACTGCTTAGGGGAATA
1 CCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTA
52322 AGGCTCA-TCGTCTTCGATCTGCT
66 AGGCTCACT-GTCTTCGATCTGCT
* *
52345 CCACTACTGCTTAGGGAGATAATATCTGAAATTTTCAG
1 CCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAG
52383 TCTGCTTCTT
Statistics
Matches: 353, Mismatches: 35, Indels: 6
0.90 0.09 0.02
Matches are distributed among these distances:
87 1 0.00
88 268 0.76
89 84 0.24
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.33
Consensus pattern (88 bp):
CCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTA
AGGCTCACTGTCTTCGATCTGCT
Found at i:52087 original size:44 final size:44
Alignment explanation
Indices: 51951--52366 Score: 216
Period size: 44 Copynumber: 9.4 Consensus size: 44
51941 GCCTGTTTCC
*
51951 CTACTGCTTAGGGGGATAAGGCTCACTGTCTTCGATCTGCTCCA
1 CTACTGCTTAGGGAGATAAGGCTCACTGTCTTCGATCTGCTCCA
* * * * *
51995 CTACTGCTTAGGGAGATAAGATCTGTAAT-T-TTC-AGCCTGTTACC-
1 CTACTGCTTAGGGAGATAAG-GCT-CACTGTCTTCGA-TCTGCT-CCA
* *
52039 CTACTGCTTAGGGAGTTAAGGCTCACTGTCTTCGATTTGCTCCA
1 CTACTGCTTAGGGAGATAAGGCTCACTGTCTTCGATCTGCTCCA
* * * * * ** * *
52083 CTACTGCTTAGGGAAATAAGATCTGAAAT-T-TTC-AGCCTATTACT
1 CTACTGCTTAGGGAGATAAG-GCT-CACTGTCTTCGA-TCTGCTCCA
* *
52127 CTACTGCTTATGGGGGTTAAGGCTCACTGTCTTCGATCTGCTCCA
1 CTACTGCTTA-GGGAGATAAGGCTCACTGTCTTCGATCTGCTCCA
* * * * * *
52172 CTACTGCTTAAGGAGATAAGATCTGTAAT-T-TTC-AGCCTGTTACC-
1 CTACTGCTTAGGGAGATAAG-GCT-CACTGTCTTCGA-TCTGCT-CCA
* * * * *
52216 CTACTACTTAGGGGGTTAAGGCTCACTGTCTTCAATCCGCTCCA
1 CTACTGCTTAGGGAGATAAGGCTCACTGTCTTCGATCTGCTCCA
* * * * * * * *
52260 CTACTACTTAAGGAGATAA-GATCTA-TAATCTTC-AGCCTGTTACT
1 CTACTGCTTAGGGAGATAAGGCTC-ACT-GTCTTCGA-TCTGCTCCA
*
52304 TTACTGCTTAGGG-GAATAAGGCTCA-TCGTCTTCGATCTGCTCCA
1 CTACTGCTTAGGGAG-ATAAGGCTCACT-GTCTTCGATCTGCTCCA
52348 CTACTGCTTAGGGAGATAA
1 CTACTGCTTAGGGAGATAA
52367 TATCTGAAAT
Statistics
Matches: 268, Mismatches: 74, Indels: 60
0.67 0.18 0.15
Matches are distributed among these distances:
42 4 0.01
43 21 0.08
44 192 0.72
45 44 0.16
46 7 0.03
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.32
Consensus pattern (44 bp):
CTACTGCTTAGGGAGATAAGGCTCACTGTCTTCGATCTGCTCCA
Found at i:52199 original size:177 final size:176
Alignment explanation
Indices: 51904--52382 Score: 721
Period size: 177 Copynumber: 2.7 Consensus size: 176
51894 TCAATTTGAG
* * * *
51904 CCACTACTGCTTAGGGAGATATGATCTGTAA-TTTCAAGCCTGTTTCCCTACTGCTTAGGGGGAT
1 CCACTACTGCTTAGGGAGATAAGATCTGAAATTTTC-AGCCTGTTACTCTACTGCTTAGGGGGAT
51968 AAGGCTCACTGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCT
65 AAGGCTCACTGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCT
* * **
52033 GTTACCCTACTGCTTAGGGAGTTAAGGCTCACTGTCTTCGATTTGCT
130 GTTACCCTACTACTTAGGGAGTTAAGGCTCACTGTCTTCAATCCGCT
* * *
52080 CCACTACTGCTTAGGGAAATAAGATCTGAAATTTTCAGCCTATTACTCTACTGCTTATGGGGGTT
1 CCACTACTGCTTAGGGAGATAAGATCTGAAATTTTCAGCCTGTTACTCTACTGCTTA-GGGGGAT
*
52145 AAGGCTCACTGTCTTCGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTGTAATTTTCAGCCT
65 AAGGCTCACTGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCT
*
52210 GTTACCCTACTACTTAGGGGGTTAAGGCTCACTGTCTTCAATCCGCT
130 GTTACCCTACTACTTAGGGAGTTAAGGCTCACTGTCTTCAATCCGCT
* * * * *
52257 CCACTACTACTTAAGGAGATAAGATCT-ATAATCTTCAGCCTGTTACTTTACTGCTTAGGGGAAT
1 CCACTACTGCTTAGGGAGATAAGATCTGA-AATTTTCAGCCTGTTACTCTACTGCTTAGGGGGAT
* *
52321 AAGGCTCA-TCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAATATCTGAAATTTTCAG
65 AAGGCTCACT-GTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAG
52383 TCTGCTTCTT
Statistics
Matches: 275, Mismatches: 24, Indels: 8
0.90 0.08 0.03
Matches are distributed among these distances:
175 1 0.00
176 109 0.40
177 165 0.60
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.33
Consensus pattern (176 bp):
CCACTACTGCTTAGGGAGATAAGATCTGAAATTTTCAGCCTGTTACTCTACTGCTTAGGGGGATA
AGGCTCACTGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTG
TTACCCTACTACTTAGGGAGTTAAGGCTCACTGTCTTCAATCCGCT
Found at i:52377 original size:265 final size:265
Alignment explanation
Indices: 51904--52382 Score: 757
Period size: 265 Copynumber: 1.8 Consensus size: 265
51894 TCAATTTGAG
* * * *
51904 CCACTACTGCTTAGGGAGATATGATCTGTAATTTCAAGCCTGTTTCCCTACTGCTTAGGGGGATA
1 CCACTACTGCTTAAGGAGATAAGATCTGTAATTTCAAGCCTGTTACCCTACTACTTAGGGGGATA
* * * * * *
51969 AGGCTCACTGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTG
66 AGGCTCACTGTCTTCAATCCGCTCCACTACTACTTAAGGAGATAAGATCTATAATCTTCAGCCTG
* *
52034 TTACCCTACTGCTTAGGGAGTTAAGGCTCACTGTCTTCGATTTGCTCCACTACTGCTTAGGGAAA
131 TTACCCTACTGCTTAGGGAGATAAGGCTCACTGTCTTCGATCTGCTCCACTACTGCTTAGGGAAA
52099 TAAGATCTGAAATTTTCAGCCTATTACTCTACTGCTTATGGGGGTTAAGGCTCACTGTCTTCGAT
196 TAAGATCTGAAATTTTCAGCCTATTACTCTACTGCTTATGGGGGTTAAGGCTCACTGTCTTCGAT
52164 CTGCT
261 CTGCT
*
52169 CCACTACTGCTTAAGGAGATAAGATCTGTAATTTTC-AGCCTGTTACCCTACTACTTAGGGGGTT
1 CCACTACTGCTTAAGGAGATAAGATCTGTAA-TTTCAAGCCTGTTACCCTACTACTTAGGGGGAT
52233 AAGGCTCACTGTCTTCAATCCGCTCCACTACTACTTAAGGAGATAAGATCTATAATCTTCAGCCT
65 AAGGCTCACTGTCTTCAATCCGCTCCACTACTACTTAAGGAGATAAGATCTATAATCTTCAGCCT
**
52298 GTTACTTTACTGCTTAGGG-GAATAAGGCTCA-TCGTCTTCGATCTGCTCCACTACTGCTTAGGG
130 GTTACCCTACTGCTTAGGGAG-ATAAGGCTCACT-GTCTTCGATCTGCTCCACTACTGCTTAGGG
* *
52361 AGATAATATCTGAAATTTTCAG
193 AAATAAGATCTGAAATTTTCAG
52383 TCTGCTTCTT
Statistics
Matches: 194, Mismatches: 17, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
264 2 0.01
265 188 0.97
266 4 0.02
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.33
Consensus pattern (265 bp):
CCACTACTGCTTAAGGAGATAAGATCTGTAATTTCAAGCCTGTTACCCTACTACTTAGGGGGATA
AGGCTCACTGTCTTCAATCCGCTCCACTACTACTTAAGGAGATAAGATCTATAATCTTCAGCCTG
TTACCCTACTGCTTAGGGAGATAAGGCTCACTGTCTTCGATCTGCTCCACTACTGCTTAGGGAAA
TAAGATCTGAAATTTTCAGCCTATTACTCTACTGCTTATGGGGGTTAAGGCTCACTGTCTTCGAT
CTGCT
Found at i:52530 original size:133 final size:133
Alignment explanation
Indices: 52360--52634 Score: 406
Period size: 133 Copynumber: 2.1 Consensus size: 133
52350 ACTGCTTAGG
* * * * *
52360 GAGATAATATCTGAAATTTTCAGTCTGCTTCTTTGCTACCTCAGGACGATAAGAGTTGTATCTTC
1 GAGATAAGATCTGAAATTTTCAGTCTACTTCCTTGCTACCTCAGGAAGATAAGACTTGTATCTTC
* ** * * * *
52425 GACTTGCTTTCTTGCTATCTCAGAGAGATAAGGCAGGTGGCTAAAATCTGTTCCATAGCCGATAC
66 CACCGGCTCTCTTGCTACCTCAGAGAGATAACGCAGGTGGCTAAAATCTGCTCCATAGCCGATAC
52490 ATA
131 ATA
*
52493 GAGATAAGATCTGTAATTTTCAGTCTACTTCCTTGCTACCTCAGGAAGATAAGACTTGTATCTTC
1 GAGATAAGATCTGAAATTTTCAGTCTACTTCCTTGCTACCTCAGGAAGATAAGACTTGTATCTTC
* *
52558 CACCGGCTCTCTTGCTACCTCAGAGAGATAACGCCGGTGGCTAAAATCTGCTCCATAGTCGATAC
66 CACCGGCTCTCTTGCTACCTCAGAGAGATAACGCAGGTGGCTAAAATCTGCTCCATAGCCGATAC
*
52623 ATG
131 ATA
52626 GAGATAAGA
1 GAGATAAGA
52635 CTCGCCATTT
Statistics
Matches: 126, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
133 126 1.00
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (133 bp):
GAGATAAGATCTGAAATTTTCAGTCTACTTCCTTGCTACCTCAGGAAGATAAGACTTGTATCTTC
CACCGGCTCTCTTGCTACCTCAGAGAGATAACGCAGGTGGCTAAAATCTGCTCCATAGCCGATAC
ATA
Found at i:52690 original size:45 final size:45
Alignment explanation
Indices: 52602--52699 Score: 126
Period size: 45 Copynumber: 2.2 Consensus size: 45
52592 CGGTGGCTAA
* * *
52602 AATCTGCTCCATAGTCGATACATGGAGATAAGACTCGCCATTTTC
1 AATCTGCTCCATAGCCGATACATAGAGATAAGACTCGCAATTTTC
* *
52647 AATCTGCTCCATAGCCGATACATAGAGATAATA-TCTGTAATTTTC
1 AATCTGCTCCATAGCCGATACATAGAGATAAGACTC-GCAATTTTC
*
52692 AGTCTGCT
1 AATCTGCT
52700 TCCTTGCTAC
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
44 2 0.04
45 44 0.96
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (45 bp):
AATCTGCTCCATAGCCGATACATAGAGATAAGACTCGCAATTTTC
Found at i:52690 original size:178 final size:178
Alignment explanation
Indices: 52470--53637 Score: 1298
Period size: 178 Copynumber: 6.4 Consensus size: 178
52460 GGTGGCTAAA
* * * *
52470 ATCTGTTCCATAGCCGATACATAGAGATAAGATCTGTAATTTTCAGTCTACTTCCTTGCTACCTC
1 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTTGCTACCTT
* * * *
52535 AGGAAGATAAGACTTGTATCTTCCACCGGCTCTCTTGCTACCTCAGAGAGATAACGCCGGTGGCT
66 AAGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCCGGTGGCT
*
52600 AAAATCTGCTCCATAGTCGATACATGGAGATAAGACTCGCCATTTTCA
131 AAAATCTGCTCCATAGTCGATACATGGAGATAAGACTCGCCATTTTCG
* *
52648 ATCTGCTCCATAGCCGATACATAGAGATAATATCTGTAATTTTCAGTCTGCTTCCTTGCTACCTT
1 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTTGCTACCTT
** * * *
52713 AAGAAGATAA-AGCCGGTGTCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAGGGCTGGTGGC
66 AAGAAGATAAGA-CTTGTATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCCGGTGGC
*
52777 TAAAATCTGCTCTATAGTCGATACATGGAGATAAGACTCGCCATTTTCG
130 TAAAATCTGCTCCATAGTCGATACATGGAGATAAGACTCGCCATTTTCG
* * * * **
52826 ATCTGCTCCATAGCC-ATTTCTGATCTGCTACAT-AGCCAATACATGGAGATAAGATCTA-TAAC
1 ATCTGCTCCATAGCCGA-TAC--A--TG-GAGATAAG---AT-C-TGTA-AT--TTTC-AGT--C
* * * *
52888 TTTCAGTCTGCTTCCTTCCTACCTTAAGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTA
49 -TGC--T-TCCTTGCTA----CCTTAAGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTA
* * * *
52953 CCTAAGAGAGATAAGGCTGTTGGCTAAAATCTGCTCCATAG-CTGATACATGGAGATAAGACTCA
106 CCTCAGAGAGATAAGGCCGGTGGCTAAAATCTGCTCCATAGTC-GATACATGGAGATAAGACTCG
53017 CCATTTTCG
170 CCATTTTCG
* * * *
53026 ATCTACTCCATAGCTGATACATGGAAATAAGATCTGTAATTTTCAGTCTGCTTCCTTGCTACCTC
1 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTTGCTACCTT
* * * * * * *
53091 AGGAAGATAA-AGTCGGTGTCTTCAACCTGCTCTCCTGCTACCTCATAGAGATAAGGCCAGTGGC
66 AAGAAGATAAGACT-TGTATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCCGGTGGC
* **
53155 TAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATTTTTT
130 TAAAATCTGCTCCATAGTCGATACATGGAGATAAGACTCGCCATTTTCG
* * *
53204 ATCTGCTCCATAGTCGATACATGGAGATAAGATCTGTAATTTTTAGTCTGCTTCCTTGCTACCTC
1 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTTGCTACCTT
* * * * *
53269 AGGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTACATTAGAGAGATAATGCTGGTGGCT
66 AAGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCCGGTGGCT
***
53334 AAAATCTGCTCCATAGTCGATACATGGAGATAAGACTCATGATTTT-G
131 AAAATCTGCTCCATAGTCGATACATGGAGATAAGACTCGCCATTTTCG
* * ** * *
53381 ATCTGCTCCATAGCCGATACATGGAGATAAGATTTGTAATTTTCAGCCTATTATCC-TACT-GCT
1 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTGCT-TCCTTGCTACCT
* * * * * * *
53444 TAAG-AGATTAAGGCTCGTATCTTCAACCTACTCTCCTACTACCTCAGAGAGATAAGACCAGTGG
65 TAAGAAGA-TAAGACTTGTATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCCGGTGG
* * *
53508 CTAAGATCTGCTCCATAG-CTGATACATGGAGACAAGACTCGCCATTTTTG
129 CTAAAATCTGCTCCATAGTC-GATACATGGAGATAAGACTCGCCATTTTCG
*
53558 ATCTGCTCCATAGTCGATACATGGAGATAAGATCTGTAA-TTTCTAGTCTGCTTCCTTGCTACCT
1 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTC-AGTCTGCTTCCTTGCTACCT
*
53622 TAAGAAGATAAAACTT
65 TAAGAAGATAAGACTT
53638 AAATTCACCG
Statistics
Matches: 831, Mismatches: 117, Indels: 84
0.81 0.11 0.08
Matches are distributed among these distances:
175 4 0.00
176 97 0.12
177 99 0.12
178 444 0.53
179 6 0.01
180 1 0.00
182 8 0.01
183 4 0.00
185 4 0.00
186 2 0.00
187 4 0.00
188 5 0.01
190 5 0.01
191 4 0.00
192 2 0.00
193 4 0.00
195 4 0.00
196 10 0.01
198 1 0.00
199 1 0.00
200 120 0.14
201 2 0.00
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (178 bp):
ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTTGCTACCTT
AAGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCCGGTGGCT
AAAATCTGCTCCATAGTCGATACATGGAGATAAGACTCGCCATTTTCG
Found at i:52844 original size:22 final size:22
Alignment explanation
Indices: 52816--52863 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
52806 GATAAGACTC
*
52816 GCCATTT-TCGATCTGCTCCATA
1 GCCATTTCT-GATCTGCTACATA
52838 GCCATTTCTGATCTGCTACATA
1 GCCATTTCTGATCTGCTACATA
52860 GCCA
1 GCCA
52864 ATACATGGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 23 0.96
23 1 0.04
ACGTcount: A:0.21, C:0.31, G:0.15, T:0.33
Consensus pattern (22 bp):
GCCATTTCTGATCTGCTACATA
Found at i:52981 original size:200 final size:200
Alignment explanation
Indices: 52648--53039 Score: 608
Period size: 200 Copynumber: 2.0 Consensus size: 200
52638 GCCATTTTCA
* * * * * *
52648 ATCTGCTCCATAGCCGATACATAGAGATAATATCTGTAATTTTCAGTCTGCTTCCTTGCTACCTT
1 ATCTGCTACATAGCCAATACATAGAGATAAGATCTATAACTTTCAGTCTGCTTCCTTCCTACCTT
* * *
52713 AAGAAGATAAAGCCGGTGTCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAGGGCTGGTGGCT
66 AAGAAGATAAAGCCGGTATCTTCAACCTGCTCTCTTGCTACCTAAGAGAGATAAGGCTGGTGGCT
* * *
52778 AAAATCTGCTCTATAG-TCGATACATGGAGATAAGACTCGCCATTTTCGATCTGCTCCATAGCCA
131 AAAATCTGCTCCATAGCT-GATACATGGAGATAAGACTCACCATTTTCGATCTACTCCATAGCCA
52842 TTTCTG
195 TTTCTG
*
52848 ATCTGCTACATAGCCAATACATGGAGATAAGATCTATAACTTTCAGTCTGCTTCCTTCCTACCTT
1 ATCTGCTACATAGCCAATACATAGAGATAAGATCTATAACTTTCAGTCTGCTTCCTTCCTACCTT
** *
52913 AAGAAGAT-AAGACTTGTATCTTCAACCTGCTCTCTTGCTACCTAAGAGAGATAAGGCTGTTGGC
66 AAGAAGATAAAG-CCGGTATCTTCAACCTGCTCTCTTGCTACCTAAGAGAGATAAGGCTGGTGGC
52977 TAAAATCTGCTCCATAGCTGATACATGGAGATAAGACTCACCATTTTCGATCTACTCCATAGC
130 TAAAATCTGCTCCATAGCTGATACATGGAGATAAGACTCACCATTTTCGATCTACTCCATAGC
53040 TGATACATGG
Statistics
Matches: 174, Mismatches: 16, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
199 3 0.02
200 170 0.98
201 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.31
Consensus pattern (200 bp):
ATCTGCTACATAGCCAATACATAGAGATAAGATCTATAACTTTCAGTCTGCTTCCTTCCTACCTT
AAGAAGATAAAGCCGGTATCTTCAACCTGCTCTCTTGCTACCTAAGAGAGATAAGGCTGGTGGCT
AAAATCTGCTCCATAGCTGATACATGGAGATAAGACTCACCATTTTCGATCTACTCCATAGCCAT
TTCTG
Found at i:53179 original size:378 final size:368
Alignment explanation
Indices: 52470--53637 Score: 1471
Period size: 378 Copynumber: 3.2 Consensus size: 368
52460 GGTGGCTAAA
* * *
52470 ATCTGTTCCATAGCCGATACATAGAGATAAGATCTGTAATTTTCAGTCTACTTCCTTGCTACCTC
1 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTTGCTACCTC
* * * *
52535 AGGAAGATAAGACTTGTATCTTCCACCGGCTCTCTTGCTACCTCAGAGAGATAACGCCGGTGGCT
66 AGGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTACCTAAGAGAGATAACGCTGGTGGCT
* *
52600 AAAATCTGCTCCATAGTCGATACATGGAGATAAGACTCGCCATTTTCAATCTGCTCCATAGCCGA
131 AAAATCTGCTCCATAGTCGATACATGGAGATAAGACTCACCATTTTCGATCTGCTCCATAGCCGA
* * *
52665 TACATAGAGATAATATCTGTAATTTTCAGTCTGCTTCCTTGCTACCTTAAGAAGATAAAGCCGGT
196 TACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTTGCTACCTTAAGAAGATAAAGTCGGT
* * ** * *
52730 GTCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAGGGCTGGTGGCTAAAATCTGCTCTATAGT
261 GTCTTCAACCTGCTCTCCTGCTACCTCAGAGAGATAAGGCCAGTGGCTAAAATCTGCTCCATAGC
52795 CGATACATGGAGATAAGACTCGCCATTTTCGATCTGCTCCATAG
326 CGATACATGGAGATAAGACTCGCCATTTT-GATCTGCTCCATAG
* * *
52839 CCATTTCTGATCTGCTACATAGCCAATACATGGAGATAAGATCTATAACTTTCAGTCTGCTTCCT
1 --A--TCTG--CT-C--CATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCT
* * * *
52904 TCCTACCTTAAGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTACCTAAGAGAGATAAGG
57 TGCTACCTCAGGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTACCTAAGAGAGATAACG
* *
52969 CTGTTGGCTAAAATCTGCTCCATAG-CTGATACATGGAGATAAGACTCACCATTTTCGATCTACT
122 CTGGTGGCTAAAATCTGCTCCATAGTC-GATACATGGAGATAAGACTCACCATTTTCGATCTGCT
* * * *
53033 CCATAGCTGATACATGGAAATAAGATCTGTAATTTTCAGTCTGCTTCCTTGCTACCTCAGGAAGA
186 CCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTTGCTACCTTAAGAAGA
*
53098 TAAAGTCGGTGTCTTCAACCTGCTCTCCTGCTACCTCATAGAGATAAGGCCAGTGGCTAAAATCT
251 TAAAGTCGGTGTCTTCAACCTGCTCTCCTGCTACCTCAGAGAGATAAGGCCAGTGGCTAAAATCT
53163 GCTCCATAGCCGATACATGGAGATAAGACTCGCCA--TT--T-T--T---T--
316 GCTCCATAGCCGATACATGGAGATAAGACTCGCCATTTTGATCTGCTCCATAG
* *
53204 ATCTGCTCCATAGTCGATACATGGAGATAAGATCTGTAATTTTTAGTCTGCTTCCTTGCTACCTC
1 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTTGCTACCTC
* * *
53269 AGGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTACATTAGAGAGATAATGCTGGTGGCT
66 AGGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTACCTAAGAGAGATAACGCTGGTGGCT
**
53334 AAAATCTGCTCCATAGTCGATACATGGAGATAAGACTCATGATTTT-GATCTGCTCCATAGCCGA
131 AAAATCTGCTCCATAGTCGATACATGGAGATAAGACTCACCATTTTCGATCTGCTCCATAGCCGA
* * ** * * *
53398 TACATGGAGATAAGATTTGTAATTTTCAGCCTATTATCC-TACT-GCTTAAG-AGATTAAGGCTC
196 TACATGGAGATAAGATCTGTAATTTTCAGTCTGCT-TCCTTGCTACCTTAAGAAGA-TAAAG-TC
* * * * *
53460 -GTATCTTCAACCTACTCTCCTACTACCTCAGAGAGATAAGACCAGTGGCTAAGATCTGCTCCAT
258 GGTGTCTTCAACCTGCTCTCCTGCTACCTCAGAGAGATAAGGCCAGTGGCTAAAATCTGCTCCAT
* *
53524 AGCTGATACATGGAGACAAGACTCGCCA---T--T-T--T---T-G
323 AGCCGATACATGGAGATAAGACTCGCCATTTTGATCTGCTCCATAG
*
53558 ATCTGCTCCATAGTCGATACATGGAGATAAGATCTGTAA-TTTCTAGTCTGCTTCCTTGCTACCT
1 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTC-AGTCTGCTTCCTTGCTACCT
* * *
53622 TAAGAAGATAAAACTT
65 CAGGAAGATAAGACTT
53638 AAATTCACCG
Statistics
Matches: 713, Mismatches: 70, Indels: 45
0.86 0.08 0.05
Matches are distributed among these distances:
353 11 0.02
354 164 0.23
355 51 0.07
356 155 0.22
357 1 0.00
358 1 0.00
359 2 0.00
361 4 0.01
363 1 0.00
367 1 0.00
370 1 0.00
371 1 0.00
372 1 0.00
373 5 0.01
375 1 0.00
376 3 0.00
377 1 0.00
378 309 0.43
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (368 bp):
ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTTGCTACCTC
AGGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTACCTAAGAGAGATAACGCTGGTGGCT
AAAATCTGCTCCATAGTCGATACATGGAGATAAGACTCACCATTTTCGATCTGCTCCATAGCCGA
TACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTTGCTACCTTAAGAAGATAAAGTCGGT
GTCTTCAACCTGCTCTCCTGCTACCTCAGAGAGATAAGGCCAGTGGCTAAAATCTGCTCCATAGC
CGATACATGGAGATAAGACTCGCCATTTTGATCTGCTCCATAG
Found at i:53246 original size:45 final size:44
Alignment explanation
Indices: 53159--53255 Score: 133
Period size: 45 Copynumber: 2.2 Consensus size: 44
53149 AGTGGCTAAA
*
53159 ATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATTTTTT
1 ATCTGCTCCATAGCCGATACATGGAGATAAGACTCG-CAATTTTT
* *
53204 ATCTGCTCCATAGTCGATACATGGAGATAAGA-TCTGTAATTTTT
1 ATCTGCTCCATAGCCGATACATGGAGATAAGACTC-GCAATTTTT
53248 AGTCTGCT
1 A-TCTGCT
53256 TCCTTGCTAC
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
44 9 0.19
45 38 0.81
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.34
Consensus pattern (44 bp):
ATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCAATTTTT
Found at i:53593 original size:354 final size:356
Alignment explanation
Indices: 52838--53637 Score: 1171
Period size: 354 Copynumber: 2.3 Consensus size: 356
52828 CTGCTCCATA
* * * * * * *
52838 GCCATTTCTGATCTGCTACATAGCCAATACATGGAGATAAGATCTATAACTTTCAGTCTGCTTCC
1 GCCATTTTTGATCTGCTCCATAGTCGATACATGGAGATAAGATCTGTAATTTTTAGTCTGCTTCC
* *
52903 TTCCTACCTTAAGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTACCTAAGAGAGATAAG
66 TTGCTACCTTAAGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTACATAAGAGAGATAAG
*
52968 GCTGTTGGCTAAAATCTGCTCCATAGCTGATACATGGAGATAAGACTCACCATTTTCGATCTACT
131 GCTGGTGGCTAAAATCTGCTCCATAGCTGATACATGGAGATAAGACTCACCATTTTCGATCTACT
* * * * *
53033 CCATAGCTGATACATGGAAATAAGATCTGTAATTTTCAGTCTGCTTCCTTGCTACCTCAGGAAGA
196 CCATAGCCGATACATGGAAATAAGATCTGTAATTTTCAGCCTACTTCCTTACTACCTCAAGAAGA
* * * * *
53098 TAAAGTCGGTGTCTTCAACCTGCTCTCCTGCTACCTCATAGAGATAAGGCCAGTGGCTAAAATCT
261 TAAAGTCGGTATCTTCAACCTACTCTCCTACTACCTCAGAGAGATAAGACCAGTGGCTAAAATCT
*
53163 GCTCCATAGCCGATACATGGAGATAAGACTC
326 GCTCCATAGCCGATACATGGAGACAAGACTC
*
53194 GCCATTTTTTATCTGCTCCATAGTCGATACATGGAGATAAGATCTGTAATTTTTAGTCTGCTTCC
1 GCCATTTTTGATCTGCTCCATAGTCGATACATGGAGATAAGATCTGTAATTTTTAGTCTGCTTCC
* * * *
53259 TTGCTACCTCAGGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTACATTAGAGAGATAAT
66 TTGCTACCTTAAGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTACATAAGAGAGATAAG
** *
53324 GCTGGTGGCTAAAATCTGCTCCATAG-TCGATACATGGAGATAAGACTCATGATTTT-GATCTGC
131 GCTGGTGGCTAAAATCTGCTCCATAGCT-GATACATGGAGATAAGACTCACCATTTTCGATCTAC
* * * * *
53387 TCCATAGCCGATACATGGAGATAAGATTTGTAATTTTCAGCCTATTATCC-TACT-GCTTAAG-A
195 TCCATAGCCGATACATGGAAATAAGATCTGTAATTTTCAGCCTACT-TCCTTACTACCTCAAGAA
* *
53449 GATTAAGGCTC-GTATCTTCAACCTACTCTCCTACTACCTCAGAGAGATAAGACCAGTGGCTAAG
259 GA-TAAAG-TCGGTATCTTCAACCTACTCTCCTACTACCTCAGAGAGATAAGACCAGTGGCTAAA
*
53513 ATCTGCTCCATAGCTGATACATGGAGACAAGACTC
322 ATCTGCTCCATAGCCGATACATGGAGACAAGACTC
*
53548 GCCATTTTTGATCTGCTCCATAGTCGATACATGGAGATAAGATCTGTAATTTCTAGTCTGCTTCC
1 GCCATTTTTGATCTGCTCCATAGTCGATACATGGAGATAAGATCTGTAATTTTTAGTCTGCTTCC
*
53613 TTGCTACCTTAAGAAGATAAAACTT
66 TTGCTACCTTAAGAAGATAAGACTT
53638 AAATTCACCG
Statistics
Matches: 398, Mismatches: 42, Indels: 10
0.88 0.09 0.02
Matches are distributed among these distances:
353 3 0.01
354 173 0.43
355 52 0.13
356 170 0.43
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (356 bp):
GCCATTTTTGATCTGCTCCATAGTCGATACATGGAGATAAGATCTGTAATTTTTAGTCTGCTTCC
TTGCTACCTTAAGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTACATAAGAGAGATAAG
GCTGGTGGCTAAAATCTGCTCCATAGCTGATACATGGAGATAAGACTCACCATTTTCGATCTACT
CCATAGCCGATACATGGAAATAAGATCTGTAATTTTCAGCCTACTTCCTTACTACCTCAAGAAGA
TAAAGTCGGTATCTTCAACCTACTCTCCTACTACCTCAGAGAGATAAGACCAGTGGCTAAAATCT
GCTCCATAGCCGATACATGGAGACAAGACTC
Found at i:57416 original size:52 final size:52
Alignment explanation
Indices: 57360--57481 Score: 137
Period size: 52 Copynumber: 2.4 Consensus size: 52
57350 TAAAAAACAT
* * *
57360 ATATAAGAAAAATAATAATGAAAATAATATTAG-TATATAAATAG-AAATAAAA
1 ATAT-AGATAAATAATAAT-AAAATAATAGTAGAAATATAAATAGAAAATAAAA
*
57412 ATATA-ATAAATAGA-AATATAATAATAGTAGAAATATAAATAGATAAATAAAA
1 ATATAGATAAATA-ATAATAAAATAATAGTAGAAATATAAATAGA-AAATAAAA
57464 AT-TAGATAAATAATAATA
1 ATATAGATAAATAATAATA
57482 GTATTAGAAT
Statistics
Matches: 60, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
49 11 0.18
50 19 0.32
51 5 0.08
52 25 0.42
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (52 bp):
ATATAGATAAATAATAATAAAATAATAGTAGAAATATAAATAGAAAATAAAA
Found at i:57428 original size:15 final size:15
Alignment explanation
Indices: 57404--57449 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
57394 ATATAAATAG
*
57404 AAATAAAAATATAAT
1 AAATAGAAATATAAT
57419 AAATAGAAATATAAT
1 AAATAGAAATATAAT
57434 AATAGTAGAAATATAA
1 AA-A-TAGAAATATAA
57450 ATAGATAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 16 0.57
16 1 0.04
17 11 0.39
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (15 bp):
AAATAGAAATATAAT
Found at i:57450 original size:29 final size:29
Alignment explanation
Indices: 57417--57533 Score: 85
Period size: 29 Copynumber: 4.0 Consensus size: 29
57407 TAAAAATATA
*
57417 ATAAATAGAAATATAATAATAGTAGAAAT
1 ATAAATAGAAATATAATAATAATAGAAAT
* * * *
57446 ATAAATAGATAA-ATAAAAATTAGATAAAT
1 ATAAATAGA-AATATAATAATAATAGAAAT
* * * * * *
57475 A-ATAATAGTATTAGAATAACAAAATAAAT
1 ATA-AATAGAAATATAATAATAATAGAAAT
* *
57504 ATAAATAGAAACATAATAATAATAGCAAT
1 ATAAATAGAAATATAATAATAATAGAAAT
57533 A
1 A
57534 ATATATTAAA
Statistics
Matches: 64, Mismatches: 20, Indels: 8
0.70 0.22 0.09
Matches are distributed among these distances:
28 2 0.03
29 59 0.92
30 3 0.05
ACGTcount: A:0.63, C:0.03, G:0.08, T:0.26
Consensus pattern (29 bp):
ATAAATAGAAATATAATAATAATAGAAAT
Found at i:57452 original size:44 final size:44
Alignment explanation
Indices: 57398--57484 Score: 108
Period size: 44 Copynumber: 2.0 Consensus size: 44
57388 ATTAGTATAT
57398 AAATAGAAATA-A-AAATATAATAAATAGA-AATATAATAATAGTAG
1 AAATAGAAATAGATAAATA-AA-AAATAGATAA-ATAATAATAGTAG
* *
57442 AAATATAAATAGATAAATAAAAATTAGATAAATAATAATAGTA
1 AAATAGAAATAGATAAATAAAAAATAGATAAATAATAATAGTA
57485 TTAGAATAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
44 28 0.74
45 5 0.13
46 5 0.13
ACGTcount: A:0.66, C:0.00, G:0.08, T:0.26
Consensus pattern (44 bp):
AAATAGAAATAGATAAATAAAAAATAGATAAATAATAATAGTAG
Found at i:57469 original size:15 final size:14
Alignment explanation
Indices: 57396--57512 Score: 62
Period size: 15 Copynumber: 8.1 Consensus size: 14
57386 ATATTAGTAT
*
57396 ATAAATAGAAATA-
1 ATAAATAAAAATAG
*
57409 AAAATATAATAAATAG
1 ATAA-ATAA-AAATAG
*
57425 A-AATATAATAATAG
1 ATAA-ATAAAAATAG
* *
57439 TAGAAATATAAATAG
1 -ATAAATAAAAATAG
57454 ATAAATAAAAATTAG
1 ATAAATAAAAA-TAG
*
57469 ATAAATAATAATAG
1 ATAAATAAAAATAG
*
57483 TATTAGAATAACAA-A-
1 -A-TA-AATAAAAATAG
*
57498 ATAAATATAAATAG
1 ATAAATAAAAATAG
57512 A
1 A
57513 AACATAATAA
Statistics
Matches: 82, Mismatches: 11, Indels: 21
0.72 0.10 0.18
Matches are distributed among these distances:
12 6 0.07
13 6 0.07
14 22 0.27
15 35 0.43
16 6 0.07
17 7 0.09
ACGTcount: A:0.65, C:0.01, G:0.08, T:0.26
Consensus pattern (14 bp):
ATAAATAAAAATAG
Found at i:58733 original size:16 final size:18
Alignment explanation
Indices: 58719--58755 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
58709 ATAATTTAAA
58719 ATATAAATTTATTAATATAT
1 ATATAAATTTATT-A-ATAT
58739 ATATAAATTTATTAATA
1 ATATAAATTTATTAATA
58756 CATGTAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 3 0.18
19 1 0.06
20 13 0.76
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
ATATAAATTTATTAATAT
Done.