Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032250.1 Gossypioides kirkii chromosome KI_08
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: 39602670
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 500 characters in sequence are not A, C, G, or T
File 51 of 125
Found at i:15702827 original size:17 final size:17
Alignment explanation
Indices: 15702805--15702848 Score: 72
Period size: 17 Copynumber: 2.6 Consensus size: 17
15702795 ATTGATATTT
15702805 TAAATTTAAA-TTAAAAA
1 TAAATTTAAACTT-AAAA
15702822 TAAATTTAAACTTAAAA
1 TAAATTTAAACTTAAAA
15702839 TAAATTTAAA
1 TAAATTTAAA
15702849 AATGAGTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
17 24 0.92
18 2 0.08
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (17 bp):
TAAATTTAAACTTAAAA
Found at i:15703718 original size:19 final size:19
Alignment explanation
Indices: 15703688--15703743 Score: 60
Period size: 18 Copynumber: 2.9 Consensus size: 19
15703678 TAAAATAGAA
*
15703688 ATTTTAGAATTTTTATAAAC
1 ATTTT-GAATTTTTAAAAAC
*
15703708 ATTTTGAA-TTTTAAAAAT
1 ATTTTGAATTTTTAAAAAC
*
15703726 ATTTTCAATTTTTGAAAA
1 ATTTTGAATTTTT-AAAA
15703744 TTATTTTATT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
18 15 0.48
19 7 0.23
20 9 0.29
ACGTcount: A:0.41, C:0.04, G:0.05, T:0.50
Consensus pattern (19 bp):
ATTTTGAATTTTTAAAAAC
Found at i:15703757 original size:19 final size:19
Alignment explanation
Indices: 15703695--15703750 Score: 60
Period size: 18 Copynumber: 2.9 Consensus size: 19
15703685 GAAATTTTAG
* * *
15703695 AATTTTTATAAACATTTTG
1 AATTTTTAAAAATATTTTC
15703714 AA-TTTTAAAAATATTTTC
1 AATTTTTAAAAATATTTTC
*
15703732 AATTTTTGAAAATTATTTT
1 AATTTTT-AAAAATATTTT
15703751 ATTTTTTTGT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
18 15 0.48
19 6 0.19
20 10 0.32
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.54
Consensus pattern (19 bp):
AATTTTTAAAAATATTTTC
Found at i:15705144 original size:20 final size:19
Alignment explanation
Indices: 15705115--15705154 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
15705105 CTGCTTGTAC
15705115 ATACCAAAGGGAGCTCGCAG
1 ATACCAAA-GGAGCTCGCAG
* *
15705135 ATACCCAAGGAGTTCGCAG
1 ATACCAAAGGAGCTCGCAG
15705154 A
1 A
15705155 AAGAAGACCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.35, C:0.25, G:0.28, T:0.12
Consensus pattern (19 bp):
ATACCAAAGGAGCTCGCAG
Found at i:15708128 original size:28 final size:29
Alignment explanation
Indices: 15708089--15708163 Score: 84
Period size: 28 Copynumber: 2.7 Consensus size: 29
15708079 CAAAAAAAAG
15708089 TTTA-AAATAAATTTTAAAATTCA-AAATA
1 TTTATAAA-AAATTTTAAAATTCATAAATA
* *
15708117 TTTATAAAAAA-TTTAAAATTTATATATA
1 TTTATAAAAAATTTTAAAATTCATAAATA
* *
15708145 TTTTTAAAAAATTTAAAAA
1 TTTATAAAAAATTTTAAAA
15708164 ATATAAAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
27 10 0.25
28 21 0.52
29 9 0.22
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (29 bp):
TTTATAAAAAATTTTAAAATTCATAAATA
Found at i:15708131 original size:27 final size:28
Alignment explanation
Indices: 15708101--15708162 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
15708091 TAAAATAAAT
15708101 TTTAAAATTCA-AAATATTTATAAAAAA
1 TTTAAAATTCATAAATATTTATAAAAAA
* * *
15708128 TTTAAAATTTATATATATTTTTAAAAAA
1 TTTAAAATTCATAAATATTTATAAAAAA
15708156 TTTAAAA
1 TTTAAAA
15708163 AATATAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
27 10 0.32
28 21 0.68
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (28 bp):
TTTAAAATTCATAAATATTTATAAAAAA
Found at i:15708161 original size:9 final size:9
Alignment explanation
Indices: 15708147--15708194 Score: 69
Period size: 9 Copynumber: 5.3 Consensus size: 9
15708137 TATATATATT
15708147 TTTAAAAAA
1 TTTAAAAAA
15708156 TTTAAAAAA
1 TTTAAAAAA
*
15708165 TATAAAAAA
1 TTTAAAAAA
* *
15708174 TTTTAAAAT
1 TTTAAAAAA
15708183 TTTAAAAAA
1 TTTAAAAAA
15708192 TTT
1 TTT
15708195 CTAAAATAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 33 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (9 bp):
TTTAAAAAA
Found at i:15708168 original size:28 final size:28
Alignment explanation
Indices: 15708112--15708192 Score: 92
Period size: 28 Copynumber: 2.9 Consensus size: 28
15708102 TTAAAATTCA
* **
15708112 AAATATTTATAAAAAATTTAAAATTTAT
1 AAATATTTTTAAAAAATTTAAAAAATAT
*
15708140 ATATATTTTTAAAAAATTTAAAAAATAT
1 AAATATTTTTAAAAAATTTAAAAAATAT
* * *
15708168 AAAAAATTTT-AAAATTTTAAAAAAT
1 AAATATTTTTAAAAAATTTAAAAAAT
15708193 TTCTAAAATA
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
27 14 0.31
28 31 0.69
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (28 bp):
AAATATTTTTAAAAAATTTAAAAAATAT
Found at i:15720500 original size:2 final size:2
Alignment explanation
Indices: 15720495--15720533 Score: 69
Period size: 2 Copynumber: 19.0 Consensus size: 2
15720485 CACAACTTTA
15720495 AT AT AT ACT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15720534 GAAAAATGAG
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 34 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:15720768 original size:4 final size:4
Alignment explanation
Indices: 15720759--15720786 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
15720749 TCCACTCTCG
15720759 AATT AATT AATT AATT AATT AATT AATT
1 AATT AATT AATT AATT AATT AATT AATT
15720787 GAATAGTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
AATT
Found at i:15724011 original size:17 final size:17
Alignment explanation
Indices: 15723989--15724022 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
15723979 AGGCTGATAC
15723989 TTAAATTGAGTTTCTTT
1 TTAAATTGAGTTTCTTT
* *
15724006 TTAAATTTATTTTCTTT
1 TTAAATTGAGTTTCTTT
15724023 AAATTCTTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.06, G:0.06, T:0.65
Consensus pattern (17 bp):
TTAAATTGAGTTTCTTT
Found at i:15724743 original size:17 final size:17
Alignment explanation
Indices: 15724707--15724749 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
15724697 TAATATTAAA
15724707 TAAATAA-AAAATTATT
1 TAAATAATAAAATTATT
* *
15724723 TAAATAATAAATTTTTT
1 TAAATAATAAAATTATT
*
15724740 TAAAAAATAA
1 TAAATAATAA
15724750 TGAAAAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
16 7 0.30
17 16 0.70
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
TAAATAATAAAATTATT
Found at i:15725141 original size:17 final size:17
Alignment explanation
Indices: 15725121--15725154 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
15725111 AAAAAAAATT
*
15725121 ATTTAAATGTTATTTAA
1 ATTTAAATATTATTTAA
15725138 ATTTAAATATTATTTAA
1 ATTTAAATATTATTTAA
15725155 TTATTGTAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
ATTTAAATATTATTTAA
Found at i:15725969 original size:12 final size:13
Alignment explanation
Indices: 15725944--15725968 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15725934 ATATATTAAG
15725944 TATTTTTTAAAAA
1 TATTTTTTAAAAA
15725957 TATTTTTTAAAA
1 TATTTTTTAAAA
15725969 TGACAAATTA
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TATTTTTTAAAAA
Found at i:15730889 original size:41 final size:41
Alignment explanation
Indices: 15730832--15730913 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
15730822 GATCATCGTC
15730832 TCAACATCTTCATCGTCTACGAGTTCCATCTCGGTAAATTT
1 TCAACATCTTCATCGTCTACGAGTTCCATCTCGGTAAATTT
15730873 TCAACATCTTCATCGTCTACGAGTTCCATCTCGGTAAATTT
1 TCAACATCTTCATCGTCTACGAGTTCCATCTCGGTAAATTT
15730914 GATAGGATCT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.24, C:0.27, G:0.12, T:0.37
Consensus pattern (41 bp):
TCAACATCTTCATCGTCTACGAGTTCCATCTCGGTAAATTT
Found at i:15731429 original size:27 final size:26
Alignment explanation
Indices: 15731366--15731432 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 26
15731356 TTAGTTTTGA
*
15731366 CAAAGGCACCACTAGTGCCGCCTACC
1 CAAAAGCACCACTAGTGCCGCCTACC
** * *
15731392 CAGTAGACACCATTGGTGCCGCCTACC
1 CAAAAG-CACCACTAGTGCCGCCTACC
15731419 CTAAAAGCACCACT
1 C-AAAAGCACCACT
15731433 TTTCAAATTT
Statistics
Matches: 31, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
26 3 0.10
27 25 0.81
28 3 0.10
ACGTcount: A:0.28, C:0.39, G:0.18, T:0.15
Consensus pattern (26 bp):
CAAAAGCACCACTAGTGCCGCCTACC
Found at i:15732820 original size:27 final size:27
Alignment explanation
Indices: 15732776--15732851 Score: 98
Period size: 27 Copynumber: 2.8 Consensus size: 27
15732766 ATTTGGGTTG
* * *
15732776 GTGCCGCCTGACAGGTAGGCACCATTA
1 GTGCCACCTGTCAGGTAGGCACCACTA
*
15732803 GTGTCACCTGTCAGGTAGGCACCACTA
1 GTGCCACCTGTCAGGTAGGCACCACTA
* *
15732830 GTGCCGCCTGTCAAGTAGGCAC
1 GTGCCACCTGTCAGGTAGGCAC
15732852 TGCCCTTTGT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.21, C:0.30, G:0.29, T:0.20
Consensus pattern (27 bp):
GTGCCACCTGTCAGGTAGGCACCACTA
Found at i:15733725 original size:26 final size:25
Alignment explanation
Indices: 15733696--15733744 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
15733686 AATATAAGTG
*
15733696 TTAAATATATCATTTTCACATATTGT
1 TTAAATA-AACATTTTCACATATTGT
*
15733722 TTAAATAAACATTTTTACATATT
1 TTAAATAAACATTTTCACATATT
15733745 TATGATTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 14 0.67
26 7 0.33
ACGTcount: A:0.39, C:0.10, G:0.02, T:0.49
Consensus pattern (25 bp):
TTAAATAAACATTTTCACATATTGT
Found at i:15734747 original size:29 final size:30
Alignment explanation
Indices: 15734703--15734766 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 30
15734693 ATTAATAAAA
*
15734703 ATAAAATTATATTTTATAC-TTTT-AAAATT
1 ATAAAATTATAATTTA-ACTTTTTAAAAATT
*
15734732 ATAAAATTTTAATTTAACTTTTTAAAAATT
1 ATAAAATTATAATTTAACTTTTTAAAAATT
15734762 ATAAA
1 ATAAA
15734767 GATATAAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
28 2 0.06
29 18 0.58
30 11 0.35
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (30 bp):
ATAAAATTATAATTTAACTTTTTAAAAATT
Found at i:15735000 original size:14 final size:13
Alignment explanation
Indices: 15734959--15735016 Score: 55
Period size: 14 Copynumber: 4.2 Consensus size: 13
15734949 CTCATCTCAA
*
15734959 AAATTAAAATTTT
1 AAATTTAAATTTT
15734972 -AATTTAAACTCTTT
1 AAATTTAAA-T-TTT
15734986 AAATATTAAATTTT
1 AAAT-TTAAATTTT
*
15735000 AAATTATATATTTT
1 AAATT-TAAATTTT
15735014 AAA
1 AAA
15735017 AAAAAAATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
12 7 0.18
13 2 0.05
14 20 0.53
15 4 0.11
16 5 0.13
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (13 bp):
AAATTTAAATTTT
Found at i:15735372 original size:9 final size:9
Alignment explanation
Indices: 15735299--15735395 Score: 54
Period size: 9 Copynumber: 10.1 Consensus size: 9
15735289 CAATTCATAT
15735299 TAATAAAAA
1 TAATAAAAA
*
15735308 -AATTAAAA
1 TAATAAAAA
15735316 TAA-ATAAAA
1 TAATA-AAAA
*
15735325 TAATTTAAATA
1 TAA--TAAAAA
*
15735336 TCATAAAAA
1 TAATAAAAA
*
15735345 TATACTAAAAT
1 TA-A-TAAAAA
15735356 TCAATAAAAA
1 T-AATAAAAA
*
15735366 TAATAAATAT
1 TAATAAA-AA
15735376 TAATAAAAA
1 TAATAAAAA
*
15735385 TTCATAAAAA
1 -TAATAAAAA
15735395 T
1 T
15735396 TATGAAAACT
Statistics
Matches: 67, Mismatches: 11, Indels: 20
0.68 0.11 0.20
Matches are distributed among these distances:
8 7 0.10
9 23 0.34
10 23 0.34
11 12 0.18
12 2 0.03
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (9 bp):
TAATAAAAA
Found at i:15735372 original size:30 final size:29
Alignment explanation
Indices: 15735338--15735395 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
15735328 TTTAAATATC
*
15735338 ATAAAAATATACT-AAAATTCAATAAAAATA
1 ATAAAAAT-TAATAAAAATTC-ATAAAAATA
*
15735368 ATAAATATTAATAAAAATTCATAAAAAT
1 ATAAAAATTAATAAAAATTCATAAAAAT
15735396 TATGAAAACT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 11 0.44
30 14 0.56
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (29 bp):
ATAAAAATTAATAAAAATTCATAAAAATA
Found at i:15735380 original size:19 final size:20
Alignment explanation
Indices: 15735295--15735385 Score: 86
Period size: 19 Copynumber: 4.7 Consensus size: 20
15735285 ATGACAATTC
15735295 ATATTAATAAAAA-AATTAA
1 ATATTAATAAAAATAATTAA
*
15735314 A-ATAAAT-AAAATAATTTAA
1 ATATTAATAAAAATAA-TTAA
* *
15735333 ATA-TCATAAAAATATACTAA
1 ATATTAATAAAAATA-ATTAA
15735353 A-ATTCAATAAAAATAA-TAA
1 ATATT-AATAAAAATAATTAA
15735372 ATATTAATAAAAAT
1 ATATTAATAAAAAT
15735386 TCATAAAAAT
Statistics
Matches: 59, Mismatches: 5, Indels: 16
0.74 0.06 0.20
Matches are distributed among these distances:
17 4 0.07
18 7 0.12
19 22 0.37
20 16 0.27
21 10 0.17
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (20 bp):
ATATTAATAAAAATAATTAA
Found at i:15735391 original size:20 final size:19
Alignment explanation
Indices: 15735297--15735397 Score: 73
Period size: 20 Copynumber: 5.2 Consensus size: 19
15735287 GACAATTCAT
*
15735297 ATTAATAAAAA-AATTAAA
1 ATTAATAAAAATAATAAAA
* **
15735315 ATAAAT-AAAATAATTTAA
1 ATTAATAAAAATAATAAAA
*
15735333 ATATCATAAAAAT-ATACTAAA
1 AT-TAATAAAAATAATA--AAA
*
15735354 ATTCAATAAAAATAATAAAT
1 ATT-AATAAAAATAATAAAA
*
15735374 ATTAATAAAAATTCATAAAA
1 ATTAATAAAAA-TAATAAAA
15735394 ATTA
1 ATTA
15735398 TGAAAACTGA
Statistics
Matches: 65, Mismatches: 10, Indels: 14
0.73 0.11 0.16
Matches are distributed among these distances:
17 4 0.06
18 13 0.20
19 12 0.18
20 21 0.32
21 12 0.18
22 3 0.05
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (19 bp):
ATTAATAAAAATAATAAAA
Found at i:15735394 original size:10 final size:10
Alignment explanation
Indices: 15735338--15735397 Score: 61
Period size: 10 Copynumber: 6.0 Consensus size: 10
15735328 TTTAAATATC
15735338 ATAAAAATATA
1 ATAAAAAT-TA
*
15735349 CT-AAAATTCA
1 ATAAAAATT-A
15735359 ATAAAAA-TA
1 ATAAAAATTA
*
15735368 ATAAATATTA
1 ATAAAAATTA
*
15735378 ATAAAAATTC
1 ATAAAAATTA
15735388 ATAAAAATTA
1 ATAAAAATTA
15735398 TGAAAACTGA
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
9 8 0.20
10 27 0.68
11 5 0.12
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (10 bp):
ATAAAAATTA
Found at i:15737496 original size:25 final size:25
Alignment explanation
Indices: 15737441--15737543 Score: 93
Period size: 25 Copynumber: 4.1 Consensus size: 25
15737431 TAGTAAACAT
* * **
15737441 GAATTCTCTAGAAATCCTTTGCAAC
1 GAATTCTCTGGAAAGCCTTTGTGAC
15737466 -ATATTCTCTGGAAAGCCTTTGTGAC
1 GA-ATTCTCTGGAAAGCCTTTGTGAC
*
15737491 GAATTCTCTGGGAAA-CCTTTGTGGC
1 GAATTCTCT-GGAAAGCCTTTGTGAC
* * * *
15737516 GAATACTCTGTAAGGCCTTTGTGGC
1 GAATTCTCTGGAAAGCCTTTGTGAC
15737541 GAA
1 GAA
15737544 CTCTTTATAA
Statistics
Matches: 66, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
24 4 0.06
25 56 0.85
26 6 0.09
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.32
Consensus pattern (25 bp):
GAATTCTCTGGAAAGCCTTTGTGAC
Found at i:15738432 original size:41 final size:41
Alignment explanation
Indices: 15738294--15738437 Score: 128
Period size: 42 Copynumber: 3.4 Consensus size: 41
15738284 GCAATATTAA
* * * *
15738294 TGGCTTGTCCACATATTAATAGTAGTTTATCTATAGTACTGG
1 TGGCTTGTCCACATATTACT-GCAATTTATCTATAATACTGG
* * * * *
15738336 TGGCTTGTCCACATGTTACTGACAGA-TCAACCACAAATACTGG
1 TGGCTTGTCCACATATTACTG-CA-ATTTATCTA-TAATACTGG
* * * *
15738379 TGGATTGCCCACATATTTCTGCAATTTATCTGTAATACTGG
1 TGGCTTGTCCACATATTACTGCAATTTATCTATAATACTGG
15738420 TGGCTTGTCCACATATTA
1 TGGCTTGTCCACATATTA
15738438 TTGGCAGCTT
Statistics
Matches: 77, Mismatches: 21, Indels: 9
0.72 0.20 0.08
Matches are distributed among these distances:
41 25 0.32
42 28 0.36
43 24 0.31
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.35
Consensus pattern (41 bp):
TGGCTTGTCCACATATTACTGCAATTTATCTATAATACTGG
Found at i:15738470 original size:43 final size:42
Alignment explanation
Indices: 15738412--15738560 Score: 151
Period size: 43 Copynumber: 3.5 Consensus size: 42
15738402 ATTTATCTGT
* *
15738412 AATACTGGTGGCTTGTCCACATATTATTGGCAGCTTGACTGCA
1 AATACTAGTGGCTTGTCCACATATTATTGGAAGCTT-ACTGCA
* *
15738455 AAGACTAGTGGCTTGTCCACATATTTTTGGAAG-TTA-T-CA
1 AATACTAGTGGCTTGTCCACATATTATTGGAAGCTTACTGCA
* * * * *
15738494 TCAATACTAGTAGTTTATCCACATCTTATTGGTAGCTTCACTGCA
1 --AATACTAGTGGCTTGTCCACATATTATTGGAAGCTT-ACTGCA
*
15738539 AATACTGGTGGCTTGTCCACAT
1 AATACTAGTGGCTTGTCCACAT
15738561 GCAATTACTG
Statistics
Matches: 85, Mismatches: 15, Indels: 12
0.76 0.13 0.11
Matches are distributed among these distances:
39 2 0.02
40 1 0.01
41 27 0.32
42 4 0.05
43 48 0.56
44 1 0.01
45 2 0.02
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (42 bp):
AATACTAGTGGCTTGTCCACATATTATTGGAAGCTTACTGCA
Found at i:15738475 original size:84 final size:83
Alignment explanation
Indices: 15738294--15738560 Score: 246
Period size: 84 Copynumber: 3.2 Consensus size: 83
15738284 GCAATATTAA
* * * * * * *
15738294 TGGCTTGTCCACATATTAATAGTAGTTTATCTATAGTACTGGTGGCTTGTCCACATGTTACTGAC
1 TGGCTTGTCCACATATTTAT-GCAATTTATCT-TAATACTGGTGGCTTGTCCACATATTATTGGC
* * **
15738359 AGATCAACCACAAATACTGG
64 AGCTTAACTGCAAATACTGG
* * *
15738379 TGGATTGCCCACATATTTCTGCAATTTATCTGTAATACTGGTGGCTTGTCCACATATTATTGGCA
1 TGGCTTGTCCACATATTTATGCAATTTATCT-TAATACTGGTGGCTTGTCCACATATTATTGGCA
* * *
15738444 GCTTGACTGCAAAGACTAG
65 GCTTAACTGCAAATACTGG
* * * * * * * * * *
15738463 TGGCTTGTCCACATATTTTTGGAAGTTATCATCAATACTAGTAGTTTATCCACATCTTATTGGTA
1 TGGCTTGTCCACATATTTATGCAATTTATC-TTAATACTGGTGGCTTGTCCACATATTATTGGCA
*
15738528 GCTTCACTGCAAATACTGG
65 GCTTAACTGCAAATACTGG
15738547 TGGCTTGTCCACAT
1 TGGCTTGTCCACAT
15738561 GCAATTACTG
Statistics
Matches: 148, Mismatches: 33, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
84 131 0.89
85 17 0.11
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (83 bp):
TGGCTTGTCCACATATTTATGCAATTTATCTTAATACTGGTGGCTTGTCCACATATTATTGGCAG
CTTAACTGCAAATACTGG
Found at i:15740454 original size:80 final size:80
Alignment explanation
Indices: 15740321--15740479 Score: 318
Period size: 80 Copynumber: 2.0 Consensus size: 80
15740311 CTATTATGAG
15740321 TTGGATGGAGTTCCAAAATGAATTTAGGAGGAATTTTTACGCCAAGTATGCTAAGGAAAAAGCTC
1 TTGGATGGAGTTCCAAAATGAATTTAGGAGGAATTTTTACGCCAAGTATGCTAAGGAAAAAGCTC
15740386 GAGCTAAGTTGTGTA
66 GAGCTAAGTTGTGTA
15740401 TTGGATGGAGTTCCAAAATGAATTTAGGAGGAATTTTTACGCCAAGTATGCTAAGGAAAAAGCTC
1 TTGGATGGAGTTCCAAAATGAATTTAGGAGGAATTTTTACGCCAAGTATGCTAAGGAAAAAGCTC
15740466 GAGCTAAGTTGTGT
66 GAGCTAAGTTGTGT
15740480 TAGCATACTC
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
80 79 1.00
ACGTcount: A:0.33, C:0.11, G:0.26, T:0.29
Consensus pattern (80 bp):
TTGGATGGAGTTCCAAAATGAATTTAGGAGGAATTTTTACGCCAAGTATGCTAAGGAAAAAGCTC
GAGCTAAGTTGTGTA
Found at i:15744008 original size:20 final size:20
Alignment explanation
Indices: 15743970--15744028 Score: 84
Period size: 19 Copynumber: 2.9 Consensus size: 20
15743960 TCAGTAAAAA
15743970 TTATAAAAATATACAAAATAAT
1 TTATAAAAAT-TACAAAAT-AT
*
15743992 TTTTAAAAATT-CAAAATAT
1 TTATAAAAATTACAAAATAT
15744011 TTATAAAAATTACAAAAT
1 TTATAAAAATTACAAAAT
15744029 TTATATTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 12 0.35
20 12 0.35
21 1 0.03
22 9 0.26
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (20 bp):
TTATAAAAATTACAAAATAT
Found at i:15746142 original size:110 final size:109
Alignment explanation
Indices: 15745968--15746226 Score: 378
Period size: 110 Copynumber: 2.4 Consensus size: 109
15745958 GTTATTTGTA
* * *
15745968 GGGGAAGTGATGGCGCAATTTAATATGACACCA-C-AAAAAAATTTAAAATTTTAAAAAATAAAT
1 GGGGAAGTGGTGGCGCCATTTAATATGGCACCACCAAAAAAAATTTAAAATTTTAAAAAATAAAT
* *
15746031 AATAAGCAAATAATAAATTATGAGAAGAGAAATCTGACATTTTTT
66 AATAAACAAATAATAAATCATGAGAAGAGAAATCTGACA-TTTTT
*
15746076 GGGGAAGTGGTGGTGCCATTTAATATGGCACCACCAAAAAAAATTTAAAATTTTAAAAAATAAAT
1 GGGGAAGTGGTGGCGCCATTTAATATGGCACCACCAAAAAAAATTTAAAATTTTAAAAAATAAAT
* *
15746141 AATAAACAAATAATAAATCATGATAAGAGAAATTTGACATTTTT
66 AATAAACAAATAATAAATCATGAGAAGAGAAATCTGACATTTTT
* * * * *
15746185 GGGGAAGTAGTGGCGTCATCTAATATGGAACTACCAAAAAAA
1 GGGGAAGTGGTGGCGCCATTTAATATGGCACCACCAAAAAAA
15746227 GGTAAAATTA
Statistics
Matches: 135, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
108 29 0.21
109 42 0.31
110 64 0.47
ACGTcount: A:0.47, C:0.10, G:0.17, T:0.27
Consensus pattern (109 bp):
GGGGAAGTGGTGGCGCCATTTAATATGGCACCACCAAAAAAAATTTAAAATTTTAAAAAATAAAT
AATAAACAAATAATAAATCATGAGAAGAGAAATCTGACATTTTT
Found at i:15746570 original size:30 final size:29
Alignment explanation
Indices: 15746503--15746571 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 29
15746493 ATTGTTAATC
*
15746503 AGTGACTGTTTTGTCATTTTTGGATAAAGTT
1 AGTGACTGTTTTGTCATTTTT-G-CAAAGTT
15746534 AGTGACTGTTTTGTCACTTTTT-CAAAGTT
1 AGTGACTGTTTTGTCA-TTTTTGCAAAGTT
15746563 GAGTGACTG
1 -AGTGACTG
15746572 AAATGAAATC
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
29 6 0.17
30 8 0.23
31 16 0.46
32 5 0.14
ACGTcount: A:0.22, C:0.10, G:0.23, T:0.45
Consensus pattern (29 bp):
AGTGACTGTTTTGTCATTTTTGCAAAGTT
Found at i:15747427 original size:23 final size:23
Alignment explanation
Indices: 15747384--15747428 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
15747374 AACAAAAATA
* *
15747384 TTTATAAAATTTAAACTTTTTCT
1 TTTATAAAACTTAAACGTTTTCT
15747407 TTTATAAAACTTAATA-GTTTTC
1 TTTATAAAACTTAA-ACGTTTTC
15747429 CTTCAATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.36, C:0.09, G:0.02, T:0.53
Consensus pattern (23 bp):
TTTATAAAACTTAAACGTTTTCT
Found at i:15748074 original size:15 final size:15
Alignment explanation
Indices: 15748052--15748087 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
15748042 AAAATAAATA
15748052 TTATTTAAA-ATTAT
1 TTATTTAAATATTAT
15748066 TTCATTTAAATATTAT
1 TT-ATTTAAATATTAT
15748082 TTATTT
1 TTATTT
15748088 TTATAATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 2 0.10
15 11 0.55
16 7 0.35
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (15 bp):
TTATTTAAATATTAT
Found at i:15748099 original size:22 final size:24
Alignment explanation
Indices: 15748072--15748115 Score: 74
Period size: 22 Copynumber: 1.9 Consensus size: 24
15748062 TTATTTCATT
15748072 TAAATATTAT-TTAT-TTTTATAA
1 TAAATATTATATTATGTTTTATAA
15748094 TAAATATTATATTATGTTTTAT
1 TAAATATTATATTATGTTTTAT
15748116 TTTCAAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 10 0.50
23 4 0.20
24 6 0.30
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (24 bp):
TAAATATTATATTATGTTTTATAA
Found at i:15749242 original size:21 final size:21
Alignment explanation
Indices: 15749218--15749271 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
15749208 ATTGAAATAT
*
15749218 TTCTACCGATACAAGT-GTAAC
1 TTCTACCGATACAAGTCAT-AC
* *
15749239 TTCTACCGAAACAAGTCATGC
1 TTCTACCGATACAAGTCATAC
15749260 TTCTACCGATAC
1 TTCTACCGATAC
15749272 TAAAAACTCT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 27 0.96
22 1 0.04
ACGTcount: A:0.31, C:0.28, G:0.13, T:0.28
Consensus pattern (21 bp):
TTCTACCGATACAAGTCATAC
Found at i:15750014 original size:25 final size:25
Alignment explanation
Indices: 15749937--15750100 Score: 158
Period size: 25 Copynumber: 6.6 Consensus size: 25
15749927 CTAGAATTTA
*
15749937 GCTCTAACGAGCCCAAA-AAAAT-ACC
1 GCTCTTACGAG-CCAAACAAAATCA-C
* * * *
15749962 GCTCATAGGAACCAAACAAAGT-ATC
1 GCTCTTACGAGCCAAACAAAATCA-C
* *
15749987 GCTCTTATGAGCCAAACAGAATCAC
1 GCTCTTACGAGCCAAACAAAATCAC
*
15750012 GCTCTTACGAGCCAGACAAAATCAC
1 GCTCTTACGAGCCAAACAAAATCAC
*
15750037 GCTCTTACGAGCCAAACAAAATTAC
1 GCTCTTACGAGCCAAACAAAATCAC
*
15750062 GCTCTTACGAG-CAAGACAGAAT-ATC
1 GCTCTTACGAGCCAA-ACAAAATCA-C
15750087 GCTCTTACGAGCCA
1 GCTCTTACGAGCCA
15750101 TAATTAGAAT
Statistics
Matches: 117, Mismatches: 17, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
24 9 0.08
25 105 0.90
26 3 0.03
ACGTcount: A:0.38, C:0.29, G:0.16, T:0.18
Consensus pattern (25 bp):
GCTCTTACGAGCCAAACAAAATCAC
Found at i:15756327 original size:21 final size:23
Alignment explanation
Indices: 15756301--15756351 Score: 63
Period size: 21 Copynumber: 2.3 Consensus size: 23
15756291 TGCTTCTTTT
15756301 ACCGATAAAAGTA-CTCAAAC-A-
1 ACCGATAAAAGTATC-CAAACTAC
*
15756322 ACCGATACAAGTATCCAAACTAC
1 ACCGATAAAAGTATCCAAACTAC
15756345 ACCGATA
1 ACCGATA
15756352 CTATTATGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
21 17 0.65
22 2 0.08
23 7 0.27
ACGTcount: A:0.47, C:0.27, G:0.10, T:0.16
Consensus pattern (23 bp):
ACCGATAAAAGTATCCAAACTAC
Found at i:15757007 original size:25 final size:25
Alignment explanation
Indices: 15756961--15757077 Score: 137
Period size: 25 Copynumber: 4.6 Consensus size: 25
15756951 CTAAAATTTA
* *
15756961 GCTCTAACGAGCCTAGATAGAATATC
1 GCTCTTACGAGCC-AGACAGAATATC
* * *
15756987 GCTCATATGAGCTAGACAGAATCA-C
1 GCTCTTACGAGCCAGACAGAAT-ATC
15757012 GCTCTTACGAGCCAGACAGAATATC
1 GCTCTTACGAGCCAGACAGAATATC
*
15757037 GCTCTTACGAGCCAGACAAAATATC
1 GCTCTTACGAGCCAGACAGAATATC
* *
15757062 GCTCTTATGGGCCAGA
1 GCTCTTACGAGCCAGA
15757078 ATCAAAATGT
Statistics
Matches: 78, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
24 1 0.01
25 67 0.86
26 10 0.13
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (25 bp):
GCTCTTACGAGCCAGACAGAATATC
Found at i:15757473 original size:31 final size:31
Alignment explanation
Indices: 15757438--15757497 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
15757428 CCCATGCTAA
15757438 TCGAATATACTAGGACTCATTCTCAACTCAT
1 TCGAATATACTAGGACTCATTCTCAACTCAT
*
15757469 TCGAATATACTAGTACTCATTCTCAACTC
1 TCGAATATACTAGGACTCATTCTCAACTC
15757498 CTACATACAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.32, C:0.27, G:0.08, T:0.33
Consensus pattern (31 bp):
TCGAATATACTAGGACTCATTCTCAACTCAT
Found at i:15763895 original size:20 final size:20
Alignment explanation
Indices: 15763845--15764017 Score: 75
Period size: 20 Copynumber: 8.7 Consensus size: 20
15763835 TGACAGTTTA
* **
15763845 TCTGCACTACTGGTGGCTTG
1 TCTGCATTACTGGCAGCTTG
*
15763865 TC-GACAATACTGGCAGCTTG
1 TCTG-CATTACTGGCAGCTTG
* * * *
15763885 TCTGCATTACTAGTAGTTTA
1 TCTGCATTACTGGCAGCTTG
** *
15763905 TCTGCATTGTTGGCGGCTTG
1 TCTGCATTACTGGCAGCTTG
**
15763925 TC--CATAATACTGATAGCTTG
1 TCTGCAT--TACTGGCAGCTTG
* * *
15763945 TCTGCATTACTAGCAGTTTA
1 TCTGCATTACTGGCAGCTTG
* * * **
15763965 TTTGCACTATTGGTGGCTTG
1 TCTGCATTACTGGCAGCTTG
*
15763985 T-TCACATTACTGGCAGCTTG
1 TCT-GCATTACTGGCAGCTTG
*
15764005 TTTGCATTACTGG
1 TCTGCATTACTGG
15764018 TGGCTTGTCC
Statistics
Matches: 106, Mismatches: 39, Indels: 16
0.66 0.24 0.10
Matches are distributed among these distances:
18 3 0.03
19 2 0.02
20 96 0.91
21 2 0.02
22 3 0.03
ACGTcount: A:0.18, C:0.20, G:0.23, T:0.38
Consensus pattern (20 bp):
TCTGCATTACTGGCAGCTTG
Found at i:15763934 original size:60 final size:60
Alignment explanation
Indices: 15763838--15764015 Score: 239
Period size: 60 Copynumber: 3.0 Consensus size: 60
15763828 GAAGTATTGA
* *
15763838 CAGTTTATCTGCACTACTGGTGGCTTGTCGACAATACTGGCAGCTTGTCTGCATTACTAG
1 CAGTTTATCTGCACTATTGGTGGCTTGTCCACAATACTGGCAGCTTGTCTGCATTACTAG
* * * * * **
15763898 TAGTTTATCTGCATTGTTGGCGGCTTGTCCATAATACTGATAGCTTGTCTGCATTACTAG
1 CAGTTTATCTGCACTATTGGTGGCTTGTCCACAATACTGGCAGCTTGTCTGCATTACTAG
* * * *
15763958 CAGTTTATTTGCACTATTGGTGGCTTGTTCACATTACTGGCAGCTTGTTTGCATTACT
1 CAGTTTATCTGCACTATTGGTGGCTTGTCCACAATACTGGCAGCTTGTCTGCATTACT
15764016 GGTGGCTTGT
Statistics
Matches: 98, Mismatches: 20, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
60 98 1.00
ACGTcount: A:0.19, C:0.20, G:0.22, T:0.39
Consensus pattern (60 bp):
CAGTTTATCTGCACTATTGGTGGCTTGTCCACAATACTGGCAGCTTGTCTGCATTACTAG
Found at i:15763984 original size:40 final size:41
Alignment explanation
Indices: 15763940--15764030 Score: 107
Period size: 40 Copynumber: 2.3 Consensus size: 41
15763930 AATACTGATA
* * *
15763940 GCTTGTCT-GCATTACTAGCAGTTTATTTGCACTATTGGTG
1 GCTTGTCTCACATTACTAGCAGCTTATTTGCACTACTGGTG
* * *
15763980 GCTTGT-TCACATTACTGGCAGCTTGTTTGCATTACTGGTG
1 GCTTGTCTCACATTACTAGCAGCTTATTTGCACTACTGGTG
15764020 GCTTGTC-CACA
1 GCTTGTCTCACA
15764031 AATTGGAGTG
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
39 1 0.02
40 42 0.98
ACGTcount: A:0.16, C:0.21, G:0.23, T:0.40
Consensus pattern (41 bp):
GCTTGTCTCACATTACTAGCAGCTTATTTGCACTACTGGTG
Found at i:15764023 original size:20 final size:20
Alignment explanation
Indices: 15763965--15764025 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
15763955 TAGCAGTTTA
* *
15763965 TTTGCACTATTGGTGGCTTG
1 TTTGCATTACTGGTGGCTTG
** **
15763985 TTCACATTACTGGCAGCTTG
1 TTTGCATTACTGGTGGCTTG
15764005 TTTGCATTACTGGTGGCTTG
1 TTTGCATTACTGGTGGCTTG
15764025 T
1 T
15764026 CCACAAATTG
Statistics
Matches: 31, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.13, C:0.18, G:0.26, T:0.43
Consensus pattern (20 bp):
TTTGCATTACTGGTGGCTTG
Found at i:15764749 original size:16 final size:16
Alignment explanation
Indices: 15764730--15764765 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
15764720 AATTTACATG
*
15764730 AAATATTATTTTAGCA
1 AAATATGATTTTAGCA
*
15764746 AAATATGGTTTTAGCA
1 AAATATGATTTTAGCA
15764762 AAAT
1 AAAT
15764766 TTTGCATTGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.44, C:0.06, G:0.11, T:0.39
Consensus pattern (16 bp):
AAATATGATTTTAGCA
Found at i:15775322 original size:26 final size:24
Alignment explanation
Indices: 15775264--15775323 Score: 84
Period size: 26 Copynumber: 2.4 Consensus size: 24
15775254 TTTTATTTTC
15775264 TAATTTTTAATTTATTTAAATTAT
1 TAATTTTTAATTTATTTAAATTAT
*
15775288 TAACTTTTTAATTTATTTTAAATTGT
1 TAA-TTTTTAATTTA-TTTAAATTAT
15775314 TAATATTTTA
1 TAAT-TTTTA
15775324 TCTAATTAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
24 3 0.09
25 12 0.38
26 17 0.53
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (24 bp):
TAATTTTTAATTTATTTAAATTAT
Found at i:15782631 original size:23 final size:23
Alignment explanation
Indices: 15782605--15783141 Score: 729
Period size: 23 Copynumber: 23.3 Consensus size: 23
15782595 ATATTTAAAT
15782605 TTTAAGCACAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* *
15782628 TTTAATCACAAATCACATTAATG
1 TTTAAGCACAAATCACATTAATA
** *
15782651 TTTAATAATAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* *
15782674 TTTAATCATAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
15782697 TTTAAATG-A-AAATCACATTAATA
1 TTT-AA-GCACAAATCACATTAATA
* *
15782720 TTTAAGCACAAATAATATTAATA
1 TTTAAGCACAAATCACATTAATA
* *
15782743 TTTAAGTACAAATCACAATAATA
1 TTTAAGCACAAATCACATTAATA
* *
15782766 TTTGACCACAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
*
15782789 TTTAAGAACAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
*
15782812 TTTAAGCATAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* *
15782835 TCTGAGCACAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
*
15782858 TTTAAGCACAAAGCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* *
15782881 TTTAAGCATAAATCACAATAATA
1 TTTAAGCACAAATCACATTAATA
*
15782904 TTTGAGCACAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
15782927 TTTAAGCACAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* *
15782950 TTTGAGCACAAATCACATTATTA
1 TTTAAGCACAAATCACATTAATA
15782973 TTTAAGCACAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* *
15782996 TTTGAGCACAAATCACATTATTA
1 TTTAAGCACAAATCACATTAATA
*
15783019 TTTAAGCACAAAACACATTAATA
1 TTTAAGCACAAATCACATTAATA
*
15783042 TTTAAGCATAAATCACATTAACT-
1 TTTAAGCACAAATCACATTAA-TA
* *
15783065 TTTAAGCATAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
* * * *
15783088 TCTAAGCATAAATCGCATTAAAA
1 TTTAAGCACAAATCACATTAATA
15783111 TTTAAGCACAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
15783134 TTTAAGCA
1 TTTAAGCA
15783142 TTCCGTCATA
Statistics
Matches: 453, Mismatches: 55, Indels: 12
0.87 0.11 0.02
Matches are distributed among these distances:
21 1 0.00
22 4 0.01
23 444 0.98
24 4 0.01
ACGTcount: A:0.47, C:0.15, G:0.05, T:0.32
Consensus pattern (23 bp):
TTTAAGCACAAATCACATTAATA
Found at i:15783211 original size:20 final size:20
Alignment explanation
Indices: 15783155--15783212 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 20
15783145 CGTCATATAT
* *
15783155 TAATCATATATAAGCACAAA
1 TAATCATATTTAATCACAAA
* * *
15783175 TAATCACATATT-GTCACACA
1 TAATCATAT-TTAATCACAAA
15783195 TAATCATATTTAATCACA
1 TAATCATATTTAATCACA
15783213 TTTAGTCACA
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
19 2 0.07
20 26 0.90
21 1 0.03
ACGTcount: A:0.47, C:0.19, G:0.03, T:0.31
Consensus pattern (20 bp):
TAATCATATTTAATCACAAA
Found at i:15783413 original size:68 final size:68
Alignment explanation
Indices: 15783295--15783435 Score: 219
Period size: 68 Copynumber: 2.1 Consensus size: 68
15783285 GATACGTGAA
* * * * * *
15783295 TCTCCAAACACACCAAATATGACTCTTAGAGTCGAACATGTTCCATAAGTGAAGCATATAGCTAA
1 TCTCCAAACACACCAAATATAACTCATAGAGTCGAACATATCCCAAAAGTGAAGCATAAAGCTAA
15783360 CAC
66 CAC
*
15783363 TCTCCAAACACACCAAATATAACTCATAGAGTTGAACATATCCCAAAAGTGAAGCATAAAGCTAA
1 TCTCCAAACACACCAAATATAACTCATAGAGTCGAACATATCCCAAAAGTGAAGCATAAAGCTAA
15783428 CAC
66 CAC
15783431 TCTCC
1 TCTCC
15783436 TTATTTCCCC
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
68 66 1.00
ACGTcount: A:0.40, C:0.26, G:0.11, T:0.22
Consensus pattern (68 bp):
TCTCCAAACACACCAAATATAACTCATAGAGTCGAACATATCCCAAAAGTGAAGCATAAAGCTAA
CAC
Found at i:15783740 original size:36 final size:36
Alignment explanation
Indices: 15783678--15783802 Score: 169
Period size: 36 Copynumber: 3.5 Consensus size: 36
15783668 CATTAGCACA
* *
15783678 ACATATTCACTATCACATGGCATGAATAACATACCC
1 ACATATTTACTGTCACATGGCATGAATAACATACCC
* * *
15783714 ACGTATTTTCTGTCTCATGGCATGAATAACATACCC
1 ACATATTTACTGTCACATGGCATGAATAACATACCC
* * *
15783750 ACACATTTACTGTCACATGGCATGAATAGCATACTC
1 ACATATTTACTGTCACATGGCATGAATAACATACCC
*
15783786 ACATATTTACTTTCACA
1 ACATATTTACTGTCACA
15783803 ACAATCATCA
Statistics
Matches: 76, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 76 1.00
ACGTcount: A:0.34, C:0.26, G:0.10, T:0.30
Consensus pattern (36 bp):
ACATATTTACTGTCACATGGCATGAATAACATACCC
Found at i:15786044 original size:2 final size:2
Alignment explanation
Indices: 15786037--15786095 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
15786027 ATCTTTATTA
15786037 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15786079 AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT A
15786096 AAAAGATAAT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:15786329 original size:17 final size:17
Alignment explanation
Indices: 15786309--15786345 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
15786299 CTCCCTTGAC
*
15786309 CTTTAACCTTCCATCTT
1 CTTTAACCTTCCATATT
*
15786326 CTTTAACCTTTCATATT
1 CTTTAACCTTCCATATT
15786343 CTT
1 CTT
15786346 GTAATTACTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.19, C:0.30, G:0.00, T:0.51
Consensus pattern (17 bp):
CTTTAACCTTCCATATT
Found at i:15786334 original size:24 final size:24
Alignment explanation
Indices: 15786289--15786336 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
15786279 ATGGATGTTC
* *
15786289 AACCTTTCATCTCCCTTGACCTTT
1 AACCTTCCATCTCCCTTAACCTTT
* *
15786313 AACCTTCCATCTTCTTTAACCTTT
1 AACCTTCCATCTCCCTTAACCTTT
15786337 CATATTCTTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.19, C:0.35, G:0.02, T:0.44
Consensus pattern (24 bp):
AACCTTCCATCTCCCTTAACCTTT
Found at i:15792640 original size:15 final size:17
Alignment explanation
Indices: 15792611--15792653 Score: 54
Period size: 15 Copynumber: 2.6 Consensus size: 17
15792601 TTTAATTATT
15792611 TAAAGATTATAAAAAT-A
1 TAAA-ATTATAAAAATGA
*
15792628 T-AAATTATTAAAATGA
1 TAAAATTATAAAAATGA
15792644 TAAAATTATA
1 TAAAATTATA
15792654 TTTATACTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 10 0.45
16 4 0.18
17 8 0.36
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (17 bp):
TAAAATTATAAAAATGA
Found at i:15792654 original size:26 final size:26
Alignment explanation
Indices: 15792604--15792653 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 26
15792594 AAATTGATTT
*
15792604 AATTATTTAAAGATTATAAAAATATA
1 AATTATTTAAAGATGATAAAAATATA
*
15792630 AATTA-TTAAA-ATGATAAAATTATA
1 AATTATTTAAAGATGATAAAAATATA
15792654 TTTATACTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 12 0.55
25 5 0.23
26 5 0.23
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (26 bp):
AATTATTTAAAGATGATAAAAATATA
Found at i:15800650 original size:51 final size:51
Alignment explanation
Indices: 15800521--15800654 Score: 232
Period size: 52 Copynumber: 2.6 Consensus size: 51
15800511 CGTAAATGCA
15800521 AAAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATT
1 AAAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATT
*
15800572 ATAAGGTCGGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATT
1 A-AAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATT
**
15800624 AAAGGTCCGATGACTCCGTGTCATCGTGAGT
1 AAAGGTCCGATGACTATGTGTCATCGTGAGT
15800655 TACCAAATGC
Statistics
Matches: 78, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
51 28 0.36
52 50 0.64
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.34
Consensus pattern (51 bp):
AAAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATT
Found at i:15803563 original size:18 final size:16
Alignment explanation
Indices: 15803534--15803577 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 16
15803524 AACAAACCAT
15803534 TTTTTC-TTC-TTTTC
1 TTTTTCTTTCTTTTTC
15803548 -TTTTC--TCTTTTTC
1 TTTTTCTTTCTTTTTC
15803561 TTTTTCTTTCTTTTTC
1 TTTTTCTTTCTTTTTC
15803577 T
1 T
15803578 CATTTTCCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 2 0.08
13 10 0.38
14 5 0.19
16 9 0.35
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTTTCTTTCTTTTTC
Found at i:15803575 original size:24 final size:24
Alignment explanation
Indices: 15803544--15803591 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 24
15803534 TTTTTCTTCT
*
15803544 TTTCTTTTCTC-TTTTTCTTTTTC
1 TTTCTTTTCTCATTTTCCTTTTTC
15803567 TTTCTTTTTCTCATTTTCCTTTTTC
1 TTTC-TTTTCTCATTTTCCTTTTTC
15803592 AAGTAACTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 4 0.18
24 7 0.32
25 11 0.50
ACGTcount: A:0.02, C:0.23, G:0.00, T:0.75
Consensus pattern (24 bp):
TTTCTTTTCTCATTTTCCTTTTTC
Found at i:15803583 original size:18 final size:18
Alignment explanation
Indices: 15803534--15803589 Score: 53
Period size: 18 Copynumber: 2.9 Consensus size: 18
15803524 AACAAACCAT
15803534 TTTTTCTTCTTTTCTTTTC
1 TTTTTC-TCTTTTCTTTTC
15803553 TCTTTT-TCTTTT-TCTTTC
1 T-TTTTCTCTTTTCT-TTTC
15803571 TTTTTCTCATTTTCCTTTT
1 TTTTTCTC-TTTT-CTTTT
15803590 TCAAGTAACT
Statistics
Matches: 31, Mismatches: 0, Indels: 11
0.74 0.00 0.26
Matches are distributed among these distances:
17 5 0.16
18 13 0.42
19 5 0.16
20 7 0.23
21 1 0.03
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.77
Consensus pattern (18 bp):
TTTTTCTCTTTTCTTTTC
Found at i:15804699 original size:3 final size:3
Alignment explanation
Indices: 15804634--15804683 Score: 66
Period size: 3 Copynumber: 16.7 Consensus size: 3
15804624 CGATAGGGTC
* *
15804634 CTT CTT CTT ATG C-T CTT CTT CTT CTT CTT CTT CTT CTT CTT CCTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT -CTT
15804679 CTT CT
1 CTT CT
15804684 GCTCTTGACC
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
2 1 0.02
3 37 0.90
4 3 0.07
ACGTcount: A:0.02, C:0.34, G:0.02, T:0.62
Consensus pattern (3 bp):
CTT
Found at i:15806564 original size:15 final size:15
Alignment explanation
Indices: 15806544--15806587 Score: 79
Period size: 15 Copynumber: 2.9 Consensus size: 15
15806534 AAATTAAAAC
15806544 GAAACAAGTAAAAGT
1 GAAACAAGTAAAAGT
15806559 GAAACAAGTAAAAGT
1 GAAACAAGTAAAAGT
*
15806574 GAAACAAATAAAAG
1 GAAACAAGTAAAAG
15806588 AAAATGTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.64, C:0.07, G:0.18, T:0.11
Consensus pattern (15 bp):
GAAACAAGTAAAAGT
Found at i:15816043 original size:20 final size:24
Alignment explanation
Indices: 15815988--15816043 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 24
15815978 TAAAGACTAT
15815988 TAAATTAATTTATCATTTCATAAA
1 TAAATTAATTTATCATTTCATAAA
15816012 TAAATT-ATTTATC-TTT-A-AAA
1 TAAATTAATTTATCATTTCATAAA
15816032 -AAATTAATTTAT
1 TAAATTAATTTAT
15816044 TTATCGTACA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
19 5 0.16
20 9 0.29
21 1 0.03
22 3 0.10
23 7 0.23
24 6 0.19
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.48
Consensus pattern (24 bp):
TAAATTAATTTATCATTTCATAAA
Found at i:15829942 original size:3 final size:3
Alignment explanation
Indices: 15829934--15829960 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
15829924 TTGAGAGGAT
15829934 AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG
15829961 GAGAGTTGTT
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:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:15831577 original size:46 final size:46
Alignment explanation
Indices: 15831485--15831587 Score: 127
Period size: 46 Copynumber: 2.2 Consensus size: 46
15831475 TAATTTTTAT
**
15831485 ATTTTGCCATGATATTATTTTGTTGTCATGACATTTTTGTAGTTGC
1 ATTTTGCCATGATATTATTTTGTTGTCATGACATTTTCATAGTTGC
* * *
15831531 ATTTTGCCATGATATTATTTAT-TTGTCTTGGCATTTTCATATTTGC
1 ATTTTGCCATGATATTATTT-TGTTGTCATGACATTTTCATAGTTGC
**
15831577 ATACTGCCATG
1 ATTTTGCCATG
15831588 GTATAGTTTG
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
46 48 0.98
47 1 0.02
ACGTcount: A:0.20, C:0.14, G:0.16, T:0.50
Consensus pattern (46 bp):
ATTTTGCCATGATATTATTTTGTTGTCATGACATTTTCATAGTTGC
Found at i:15839916 original size:19 final size:20
Alignment explanation
Indices: 15839892--15839934 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
15839882 TATCTAGTAG
15839892 GTTTAT-TTT-CTTCTGAAAA
1 GTTTATGTTTCCTT-TGAAAA
*
15839911 GTTTATGTTTCCTTTGAATA
1 GTTTATGTTTCCTTTGAAAA
15839931 GTTT
1 GTTT
15839935 GTTAGTCCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 6 0.29
20 12 0.57
21 3 0.14
ACGTcount: A:0.21, C:0.09, G:0.14, T:0.56
Consensus pattern (20 bp):
GTTTATGTTTCCTTTGAAAA
Found at i:15842085 original size:16 final size:16
Alignment explanation
Indices: 15842066--15842108 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
15842056 AAAAGAAAGA
15842066 AAAAAGGAAAAATGT-T
1 AAAAA-GAAAAATGTGT
*
15842082 -AAAAGAAAAATTTGT
1 AAAAAGAAAAATGTGT
15842097 AAAAAGAAAAAT
1 AAAAAGAAAAAT
15842109 ATTTCTTTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 8 0.33
15 5 0.21
16 11 0.46
ACGTcount: A:0.67, C:0.00, G:0.14, T:0.19
Consensus pattern (16 bp):
AAAAAGAAAAATGTGT
Found at i:15848682 original size:24 final size:24
Alignment explanation
Indices: 15848654--15848716 Score: 99
Period size: 24 Copynumber: 2.6 Consensus size: 24
15848644 TAGACTAATA
* *
15848654 AGAGTTTGACTTAAACAAATAAAC
1 AGAGTTTAACTGAAACAAATAAAC
*
15848678 AGAGTTTAACTGAAACAATTAAAC
1 AGAGTTTAACTGAAACAAATAAAC
15848702 AGAGTTTAACTGAAA
1 AGAGTTTAACTGAAA
15848717 GATTATTTCT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.49, C:0.11, G:0.14, T:0.25
Consensus pattern (24 bp):
AGAGTTTAACTGAAACAAATAAAC
Found at i:15858774 original size:27 final size:29
Alignment explanation
Indices: 15858735--15858789 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 29
15858725 AAAAGAGCAT
15858735 CATGACCCTTT-GGTCAACAGGGAGTAAG
1 CATGACCCTTTGGGTCAACAGGGAGTAAG
15858763 CATGA-CCTTTGGGTCAACAGGGAGTAA
1 CATGACCCTTTGGGTCAACAGGGAGTAA
15858790 ATCAGATATC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 5 0.19
28 21 0.81
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (29 bp):
CATGACCCTTTGGGTCAACAGGGAGTAAG
Found at i:15859472 original size:208 final size:208
Alignment explanation
Indices: 15859102--15859520 Score: 784
Period size: 208 Copynumber: 2.0 Consensus size: 208
15859092 CTAAACTTGC
*
15859102 TTGCTTCCTTGATGTTGTAATTAAGCAAATATGTTTGGTAATGAATTGACATGTGAATTTAAGAA
1 TTGCTTCCTTGATGTTGTAATTAAGCAAATATGTTTGGTAATGAATTAACATGTGAATTTAAGAA
*
15859167 TCCTTGTGATGATTGGTTGTATTTTGTGATATATGATGAAACAAGTATTGTCATGTATAGATTTT
66 TCCTTGTGATGATTGGTTGTATTTTGTGATATATGATGAAACAAGTATTGTAATGTATAGATTTT
* *
15859232 GCAGGATGAAATTTTGAATAAGAGTTTTGTGTTGAATGATGGTTGATAAACTTGAGAACTTGTGT
131 GCAGGATGAAAATTTGAATAAGAGTCTTGTGTTGAATGATGGTTGATAAACTTGAGAACTTGTGT
*
15859297 TAATAATCGAATT
196 TAATAATAGAATT
*
15859310 TTGCTTGCTTGATGTTGTAATTAAGCAAATATGTTTGGTAATGAATTAACATGTGAATTTAAGAA
1 TTGCTTCCTTGATGTTGTAATTAAGCAAATATGTTTGGTAATGAATTAACATGTGAATTTAAGAA
15859375 TCCTTGTGATGATTGGTTGTATTTTGTGATATATGATGAAACAAGTATTGTAATGTATAGATTTT
66 TCCTTGTGATGATTGGTTGTATTTTGTGATATATGATGAAACAAGTATTGTAATGTATAGATTTT
15859440 GCAGGATGAAAATTTGAATAAGAGTCTTGTGTTGAATGATGGTTGATAAACTTGAGAACTTGTGT
131 GCAGGATGAAAATTTGAATAAGAGTCTTGTGTTGAATGATGGTTGATAAACTTGAGAACTTGTGT
15859505 TAATAATAGAATT
196 TAATAATAGAATT
15859518 TTG
1 TTG
15859521 TATACTTGTT
Statistics
Matches: 205, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
208 205 1.00
ACGTcount: A:0.32, C:0.06, G:0.22, T:0.41
Consensus pattern (208 bp):
TTGCTTCCTTGATGTTGTAATTAAGCAAATATGTTTGGTAATGAATTAACATGTGAATTTAAGAA
TCCTTGTGATGATTGGTTGTATTTTGTGATATATGATGAAACAAGTATTGTAATGTATAGATTTT
GCAGGATGAAAATTTGAATAAGAGTCTTGTGTTGAATGATGGTTGATAAACTTGAGAACTTGTGT
TAATAATAGAATT
Found at i:15859765 original size:21 final size:21
Alignment explanation
Indices: 15859715--15859766 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
15859705 GCAGCTTTTA
*
15859715 GTATCGCTAGAAGCATGACAT
1 GTATCGGTAGAAGCATGACAT
* * *
15859736 GTTTTGGTAGAAGTCAT-ACTT
1 GTATCGGTAGAAG-CATGACAT
15859757 GTATCGGTAG
1 GTATCGGTAG
15859767 TATTGTCTCA
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
21 21 0.88
22 3 0.12
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (21 bp):
GTATCGGTAGAAGCATGACAT
Found at i:15861441 original size:14 final size:14
Alignment explanation
Indices: 15861418--15861455 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
15861408 CATTTTTGCA
15861418 TTTCCTTTTATCT-
1 TTTCCTTTTATCTG
*
15861431 TTTCACTTTTATTTG
1 TTTC-CTTTTATCTG
15861446 TTTCCTTTTA
1 TTTCCTTTTA
15861456 AATTCTATGT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 4 0.18
14 14 0.64
15 4 0.18
ACGTcount: A:0.11, C:0.18, G:0.03, T:0.68
Consensus pattern (14 bp):
TTTCCTTTTATCTG
Found at i:15865059 original size:24 final size:25
Alignment explanation
Indices: 15865018--15865069 Score: 63
Period size: 24 Copynumber: 2.1 Consensus size: 25
15865008 AGGATCAGTT
*
15865018 GAAGGATAAGGATCAAGA-AGAAGAA
1 GAAGGATAAGGAACAAGAGA-AAGAA
*
15865043 GAAGGA-AAGGAAGAAGAGAAAGAA
1 GAAGGATAAGGAACAAGAGAAAGAA
15865067 GAA
1 GAA
15865070 AAAGAACCTG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 17 0.71
25 7 0.29
ACGTcount: A:0.60, C:0.02, G:0.35, T:0.04
Consensus pattern (25 bp):
GAAGGATAAGGAACAAGAGAAAGAA
Found at i:15865511 original size:17 final size:18
Alignment explanation
Indices: 15865489--15865529 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
15865479 TTAGTTTTCA
15865489 TGCATTCTT-ATTGT-AC
1 TGCATTCTTAATTGTCAC
15865505 TTGCATT-TTAATTGTCAC
1 -TGCATTCTTAATTGTCAC
15865523 TGCATTC
1 TGCATTC
15865530 CTTTTAGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 2 0.10
17 17 0.81
18 2 0.10
ACGTcount: A:0.20, C:0.20, G:0.12, T:0.49
Consensus pattern (18 bp):
TGCATTCTTAATTGTCAC
Found at i:15866134 original size:12 final size:12
Alignment explanation
Indices: 15866111--15866144 Score: 50
Period size: 13 Copynumber: 2.7 Consensus size: 12
15866101 TTTAGTCACT
15866111 TGAAAAACAAAAA
1 TGAAAAA-AAAAA
15866124 TGAAAAAAAAAA
1 TGAAAAAAAAAA
15866136 TAGAAAAAA
1 T-GAAAAAA
15866145 GAAGAAGAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 6 0.30
13 14 0.70
ACGTcount: A:0.79, C:0.03, G:0.09, T:0.09
Consensus pattern (12 bp):
TGAAAAAAAAAA
Found at i:15869604 original size:19 final size:19
Alignment explanation
Indices: 15869573--15869610 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
15869563 TTATATTCCA
15869573 ATTTAACCCAAAA-TATTT
1 ATTTAACCCAAAATTATTT
*
15869591 ATTTTACCCAAAAATTATTT
1 ATTTAACCC-AAAATTATTT
15869611 CAAACCATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 8 0.47
19 4 0.24
20 5 0.29
ACGTcount: A:0.42, C:0.16, G:0.00, T:0.42
Consensus pattern (19 bp):
ATTTAACCCAAAATTATTT
Found at i:15872336 original size:46 final size:46
Alignment explanation
Indices: 15872244--15872337 Score: 118
Period size: 46 Copynumber: 2.0 Consensus size: 46
15872234 TTAATTTTAT
* * **
15872244 ATTTTTCCATGATATTGTTTTGCTGTCATGACATTTTTGTAGTTGC
1 ATTTTGCCATGATATTATTTTGCTGTCATGACATTTTCATAGTTGC
* *
15872290 ATTTTGCCATGATATTATTTCT-TTGTCATGACATTTTCATATTTGC
1 ATTTTGCCATGATATTATTT-TGCTGTCATGACATTTTCATAGTTGC
15872336 AT
1 AT
15872338 ACAGTCATGG
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
46 40 0.98
47 1 0.02
ACGTcount: A:0.20, C:0.14, G:0.14, T:0.52
Consensus pattern (46 bp):
ATTTTGCCATGATATTATTTTGCTGTCATGACATTTTCATAGTTGC
Found at i:15873183 original size:119 final size:119
Alignment explanation
Indices: 15872972--15873210 Score: 478
Period size: 119 Copynumber: 2.0 Consensus size: 119
15872962 GGGCTATAAA
15872972 TAGAGGAAAGAAGATGGAAGAAATCATCAAGAGGTGGAGGAATTAAATACTGTAATTACTTTGTG
1 TAGAGGAAAGAAGATGGAAGAAATCATCAAGAGGTGGAGGAATTAAATACTGTAATTACTTTGTG
15873037 TTTTTGGGATTTAAGTTGGAAACAATGAACTGACGGAGCAAGGGATCAACCACT
66 TTTTTGGGATTTAAGTTGGAAACAATGAACTGACGGAGCAAGGGATCAACCACT
15873091 TAGAGGAAAGAAGATGGAAGAAATCATCAAGAGGTGGAGGAATTAAATACTGTAATTACTTTGTG
1 TAGAGGAAAGAAGATGGAAGAAATCATCAAGAGGTGGAGGAATTAAATACTGTAATTACTTTGTG
15873156 TTTTTGGGATTTAAGTTGGAAACAATGAACTGACGGAGCAAGGGATCAACCACT
66 TTTTTGGGATTTAAGTTGGAAACAATGAACTGACGGAGCAAGGGATCAACCACT
15873210 T
1 T
15873211 CTGACAAGAG
Statistics
Matches: 120, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
119 120 1.00
ACGTcount: A:0.38, C:0.10, G:0.27, T:0.26
Consensus pattern (119 bp):
TAGAGGAAAGAAGATGGAAGAAATCATCAAGAGGTGGAGGAATTAAATACTGTAATTACTTTGTG
TTTTTGGGATTTAAGTTGGAAACAATGAACTGACGGAGCAAGGGATCAACCACT
Found at i:15883938 original size:15 final size:15
Alignment explanation
Indices: 15883918--15883969 Score: 70
Period size: 15 Copynumber: 3.4 Consensus size: 15
15883908 TCAGTCACTT
15883918 GAAAAAGAAAAATG-A
1 GAAAAAGAAAAA-GAA
*
15883933 GAAAAAGGAAGAAGAA
1 GAAAAA-GAAAAAGAA
15883949 GAAAAAGAAAAAGAA
1 GAAAAAGAAAAAGAA
15883964 GAAAAA
1 GAAAAA
15883970 TTTTATGATA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
15 21 0.64
16 12 0.36
ACGTcount: A:0.75, C:0.00, G:0.23, T:0.02
Consensus pattern (15 bp):
GAAAAAGAAAAAGAA
Found at i:15896414 original size:15 final size:15
Alignment explanation
Indices: 15896394--15896424 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
15896384 GGAAAAGCCT
15896394 GAAGAATAAGAAGCA
1 GAAGAATAAGAAGCA
15896409 GAAGAATAAGAAGCA
1 GAAGAATAAGAAGCA
15896424 G
1 G
15896425 GCTAAGAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.58, C:0.06, G:0.29, T:0.06
Consensus pattern (15 bp):
GAAGAATAAGAAGCA
Found at i:15896790 original size:21 final size:21
Alignment explanation
Indices: 15896752--15896791 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
15896742 GGTTGGTTCG
*
15896752 AAGGACAAGAAAAGGAAGCGC
1 AAGGACAAGAAAAAGAAGCGC
15896773 AAGGACAA-AAATAAGAAGC
1 AAGGACAAGAAA-AAGAAGC
15896792 ATAAGAAGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.57, C:0.12, G:0.28, T:0.03
Consensus pattern (21 bp):
AAGGACAAGAAAAAGAAGCGC
Found at i:15899126 original size:195 final size:195
Alignment explanation
Indices: 15898734--15899095 Score: 444
Period size: 195 Copynumber: 1.9 Consensus size: 195
15898724 AACCGACGTA
** * ***
15898734 ATGGCTGAGGTACTGCATATGTTGCGAGTCCTCGACAGCTCGTGTGAGTAGCATAGTGAGTTGGG
1 ATGGCTGAGGTACCACATATGTTGCGAGTCCTCGACAACTCGTGTGAGTAGCATAGTGACCCGGG
* * * * *
15898799 AAATGAGAAAAGAATCCAAGAATGGATTACAGGCCTTACGATGGTTGAGATTTATGCATAAGTGC
66 AAATGAGAAAAGAATCCAAGAATGAATTACAGGCCCTACGATGGCTGAGATCTATGCATAAGCGC
* * * *
15898864 ATATTCTCGACAGCTCGTGTGAGCAACATCGTAAGGGAACAGTTATATGCACAAATATCGTATCG
131 ATACTCTCGACAGCTCGTGTGAGCAACATCGTAAGAGAACAGTTATATGCACAAACACCGTATCG
* *
15898929 ATGGCTGAGGTACCACATATGTTGCGAGTCCTCGACAACTTGTGTGAGTAGCATCGTGACCCGGG
1 ATGGCTGAGGTACCACATATGTTGCGAGTCCTCGACAACTCGTGTGAGTAGCATAGTGACCCGGG
* * * * * * ** *
15898994 AAA-GAGATATGGATCCTA-AATGAATTATAGGCCCTACGATGGCTGGGA-CTATGTTTTA-CGC
66 AAATGAGAAAAGAATCCAAGAATGAATTACAGGCCCTACGATGGCTGAGATCTATGCATAAGCGC
* *
15899055 ATACTCTCGACAGCTCGTGTGAGCAGCATCGTTAGAGAACA
131 ATACTCTCGACAGCTCGTGTGAGCAACATCGTAAGAGAACA
15899096 ATTTATTGTA
Statistics
Matches: 141, Mismatches: 26, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
191 39 0.28
192 6 0.04
193 25 0.18
194 11 0.08
195 60 0.43
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.26
Consensus pattern (195 bp):
ATGGCTGAGGTACCACATATGTTGCGAGTCCTCGACAACTCGTGTGAGTAGCATAGTGACCCGGG
AAATGAGAAAAGAATCCAAGAATGAATTACAGGCCCTACGATGGCTGAGATCTATGCATAAGCGC
ATACTCTCGACAGCTCGTGTGAGCAACATCGTAAGAGAACAGTTATATGCACAAACACCGTATCG
Found at i:15900857 original size:15 final size:16
Alignment explanation
Indices: 15900827--15900864 Score: 60
Period size: 15 Copynumber: 2.4 Consensus size: 16
15900817 GTTGAATAAA
*
15900827 AGAAATAGAGAAAAAG
1 AGAAATAGAAAAAAAG
15900843 AGAAA-AGAAAAAAAG
1 AGAAATAGAAAAAAAG
15900858 AGAAATA
1 AGAAATA
15900865 TTGCTATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 14 0.70
16 6 0.30
ACGTcount: A:0.74, C:0.00, G:0.21, T:0.05
Consensus pattern (16 bp):
AGAAATAGAAAAAAAG
Found at i:15902671 original size:40 final size:40
Alignment explanation
Indices: 15902626--15902715 Score: 108
Period size: 40 Copynumber: 2.2 Consensus size: 40
15902616 CATGCTTACT
* *
15902626 GGAGCACAAATGTGTTGTCAGGGGCACCGTAGTGCTAACA
1 GGAGCACAAATGTGCTGTCAGGAGCACCGTAGTGCTAACA
** * *
15902666 GGAGCATGAATGTGCTGTTAGGAGCATCGTAGTGCTAACA
1 GGAGCACAAATGTGCTGTCAGGAGCACCGTAGTGCTAACA
* *
15902706 AGAGTACAAA
1 GGAGCACAAA
15902716 AGTACTTTTA
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.31, C:0.17, G:0.31, T:0.21
Consensus pattern (40 bp):
GGAGCACAAATGTGCTGTCAGGAGCACCGTAGTGCTAACA
Found at i:15907909 original size:14 final size:15
Alignment explanation
Indices: 15907890--15907920 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
15907880 CTTAAAGGAG
15907890 GAAAAATAAG-AAGA
1 GAAAAATAAGAAAGA
15907904 GAAAAATAAGAAAGA
1 GAAAAATAAGAAAGA
15907919 GA
1 GA
15907921 GTGAAGATGC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.62
15 6 0.38
ACGTcount: A:0.71, C:0.00, G:0.23, T:0.06
Consensus pattern (15 bp):
GAAAAATAAGAAAGA
Found at i:15909346 original size:14 final size:14
Alignment explanation
Indices: 15909329--15909364 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
15909319 TGACTCGAAT
*
15909329 CTATTGATCGTTGA
1 CTATTGACCGTTGA
15909343 CTATTGACCGTTGA
1 CTATTGACCGTTGA
*
15909357 CCATTGAC
1 CTATTGAC
15909365 TTTTGGGTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.36
Consensus pattern (14 bp):
CTATTGACCGTTGA
Found at i:15912007 original size:55 final size:55
Alignment explanation
Indices: 15911945--15912079 Score: 173
Period size: 55 Copynumber: 2.5 Consensus size: 55
15911935 ACACATGGGG
* * *
15911945 GTGTGTCTATACTGTTTGGAGGCATAAGGGCTAGCATAGGGGAGTGTGTCAGGGT
1 GTGTGTCTATACTGTTTGGAGGCACAAGAGCTAGCACAGGGGAGTGTGTCAGGGT
* * * * *
15912000 GTGTGTCTATACTGTTTGGAAGCACACGAGCTGGCACATGGGCGTGTGTCAGGGT
1 GTGTGTCTATACTGTTTGGAGGCACAAGAGCTAGCACAGGGGAGTGTGTCAGGGT
* *
15912055 GTGTGTGT-TACTATTTGGAGGCACA
1 GTGTGTCTATACTGTTTGGAGGCACA
15912080 CGGGCATGTC
Statistics
Matches: 69, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
54 15 0.22
55 54 0.78
ACGTcount: A:0.19, C:0.14, G:0.37, T:0.30
Consensus pattern (55 bp):
GTGTGTCTATACTGTTTGGAGGCACAAGAGCTAGCACAGGGGAGTGTGTCAGGGT
Found at i:15912154 original size:52 final size:53
Alignment explanation
Indices: 15912093--15912224 Score: 176
Period size: 52 Copynumber: 2.5 Consensus size: 53
15912083 GCATGTCTGA
*
15912093 CACACGGGCTGACACATGGGCGTGTGTCAGGGTGTGTATATACTGTTCTA-GG
1 CACACGGGCTGACACATGGGCGTGTGTCAAGGTGTGTATATACTGTTCTAGGG
* * * *
15912145 CACACGGGCTAACACATGGGCATGTGTCAAGGTGTGTGTATATTGTTCTAGGG
1 CACACGGGCTGACACATGGGCGTGTGTCAAGGTGTGTATATACTGTTCTAGGG
* * * *
15912198 AACATGGGCTGATACATGGGGGTGTGT
1 CACACGGGCTGACACATGGGCGTGTGT
15912225 ATATCGTTCT
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
52 45 0.66
53 23 0.34
ACGTcount: A:0.21, C:0.17, G:0.35, T:0.27
Consensus pattern (53 bp):
CACACGGGCTGACACATGGGCGTGTGTCAAGGTGTGTATATACTGTTCTAGGG
Found at i:15929661 original size:19 final size:18
Alignment explanation
Indices: 15929622--15929657 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
15929612 TTGTAAATTG
*
15929622 ATTCGTTAAGTATTTTTT
1 ATTCATTAAGTATTTTTT
15929640 ATTCATTAAGTATTTTTT
1 ATTCATTAAGTATTTTTT
15929658 TATTTTAGAG
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:0.25, C:0.06, G:0.08, T:0.61
Consensus pattern (18 bp):
ATTCATTAAGTATTTTTT
Found at i:15933745 original size:17 final size:17
Alignment explanation
Indices: 15933723--15933761 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
15933713 ATGACAAAAT
15933723 AAAATGCAATAATAA-TA
1 AAAATGCAATAA-AACTA
*
15933740 AAAATGCATTAAAACTA
1 AAAATGCAATAAAACTA
15933757 AAAAT
1 AAAAT
15933762 TTTGTACCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 2 0.10
17 18 0.90
ACGTcount: A:0.64, C:0.08, G:0.05, T:0.23
Consensus pattern (17 bp):
AAAATGCAATAAAACTA
Found at i:15951908 original size:87 final size:87
Alignment explanation
Indices: 15951759--15951941 Score: 212
Period size: 87 Copynumber: 2.1 Consensus size: 87
15951749 AAGTGAAGCT
* * * *
15951759 TTTGTGGCTGAATCTATTATATGAGAGGCTTTGTGTCTGATTCTATTATATGAAAGCTTTTGTTG
1 TTTGTGGTTGAATCTATTATATGAGAGCCTTTCTGTCTGATTCTATTATATGAAAGCTTTTGTGG
* *
15951824 CT-AATTTTTTCATATGAGAGCC
66 CTGAATCTGTT-ATATGAGAGCC
* *
15951846 TTTGTGGTTG-ATACTATTATATGAGAGCCTTTCTAGT-TGATTTTATTATATGAGAG-TCTTTG
1 TTTGTGGTTGAAT-CTATTATATGAGAGCCTTTCT-GTCTGATTCTATTATATGAAAGCT-TTTG
* *
15951908 TGGTTGAATCTGTTATATGTGAGCC
63 TGGCTGAATCTGTTATATGAGAGCC
15951933 TTTGTGGTT
1 TTTGTGGTT
15951942 AATTCTGTAA
Statistics
Matches: 82, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
86 3 0.04
87 71 0.87
88 8 0.10
ACGTcount: A:0.21, C:0.10, G:0.22, T:0.46
Consensus pattern (87 bp):
TTTGTGGTTGAATCTATTATATGAGAGCCTTTCTGTCTGATTCTATTATATGAAAGCTTTTGTGG
CTGAATCTGTTATATGAGAGCC
Found at i:15951932 original size:58 final size:58
Alignment explanation
Indices: 15951773--15951935 Score: 179
Period size: 58 Copynumber: 2.8 Consensus size: 58
15951763 TGGCTGAATC
* * * * * *
15951773 TATTATATGAGAGGCTTTGT-GTCTGATTCTATTATATGAAAGCTTTTGTTGCTAATTT
1 TATTATATGAGAGCCTTTGTGGT-TGAATCTATTATATGAGAGCCTTTCTAGCTAATTT
* *
15951831 T-TTCATATGAGAGCCTTTGTGGTTG-ATACTATTATATGAGAGCCTTTCTAGTTGATTT
1 TATT-ATATGAGAGCCTTTGTGGTTGAAT-CTATTATATGAGAGCCTTTCTAGCTAATTT
* * *
15951889 TATTATATGAGAGTCTTTGTGGTTGAATCTGTTATATGTGAGCCTTT
1 TATTATATGAGAGCCTTTGTGGTTGAATCTATTATATGAGAGCCTTT
15951936 GTGGTTAATT
Statistics
Matches: 89, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
57 3 0.03
58 80 0.90
59 6 0.07
ACGTcount: A:0.23, C:0.10, G:0.21, T:0.47
Consensus pattern (58 bp):
TATTATATGAGAGCCTTTGTGGTTGAATCTATTATATGAGAGCCTTTCTAGCTAATTT
Found at i:15951949 original size:29 final size:29
Alignment explanation
Indices: 15951771--15951947 Score: 162
Period size: 29 Copynumber: 6.1 Consensus size: 29
15951761 TGTGGCTGAA
* *
15951771 TCTATTATATGAGAGGCTTTGT-GTCTGAT
1 TCTATTATATGAGAGCCTTTGTGGT-TAAT
* * * *
15951800 TCTATTATATGAAAGCTTTTGTTGCTAAT
1 TCTATTATATGAGAGCCTTTGTGGTTAAT
* *
15951829 T-TTTTCATATGAGAGCCTTTGTGGTTGAT
1 TCTATT-ATATGAGAGCCTTTGTGGTTAAT
* * * *
15951858 ACTATTATATGAGAGCCTTTCTAGTTGAT
1 TCTATTATATGAGAGCCTTTGTGGTTAAT
* *
15951887 TTTATTATATGAGAGTCTTTGTGGTTGAA-
1 TCTATTATATGAGAGCCTTTGTGGTT-AAT
* *
15951916 TCTGTTATATGTGAGCCTTTGTGGTTAAT
1 TCTATTATATGAGAGCCTTTGTGGTTAAT
15951945 TCT
1 TCT
15951948 GTAAAGGGAA
Statistics
Matches: 118, Mismatches: 25, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
28 5 0.04
29 108 0.92
30 5 0.04
ACGTcount: A:0.22, C:0.10, G:0.21, T:0.47
Consensus pattern (29 bp):
TCTATTATATGAGAGCCTTTGTGGTTAAT
Found at i:15952011 original size:26 final size:26
Alignment explanation
Indices: 15951982--15952047 Score: 80
Period size: 26 Copynumber: 2.5 Consensus size: 26
15951972 TTAATGGAAA
15951982 GCCTTTGTGGCTATATCTAATT-GCAC
1 GCCTTTGTGGCTATATCTAATTAG-AC
* *
15952008 GCCTTTGTGGCTATCTCTGATTAGAC
1 GCCTTTGTGGCTATATCTAATTAGAC
* *
15952034 GCCTATGTAGCTAT
1 GCCTTTGTGGCTAT
15952048 CTTTGCTTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
26 34 0.97
27 1 0.03
ACGTcount: A:0.18, C:0.23, G:0.21, T:0.38
Consensus pattern (26 bp):
GCCTTTGTGGCTATATCTAATTAGAC
Found at i:15954110 original size:14 final size:14
Alignment explanation
Indices: 15954091--15954142 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
15954081 AACAATTCTG
15954091 AAAAAGAAAAACTC
1 AAAAAGAAAAACTC
*
15954105 AAAAAGAACAATTCTGC
1 AAAAAGAA-AA-ACT-C
15954122 -AAAAGAAAAACTC
1 AAAAAGAAAAACTC
*
15954135 AAAGAGAA
1 AAAAAGAA
15954143 TTTGAATAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
13 1 0.03
14 16 0.52
15 4 0.13
16 9 0.29
17 1 0.03
ACGTcount: A:0.65, C:0.13, G:0.12, T:0.10
Consensus pattern (14 bp):
AAAAAGAAAAACTC
Found at i:15954114 original size:30 final size:30
Alignment explanation
Indices: 15954078--15954142 Score: 112
Period size: 30 Copynumber: 2.2 Consensus size: 30
15954068 AAGAAAACTC
15954078 AAGAACAATTCTGAAAAAGAAAAACTCAAA
1 AAGAACAATTCTGAAAAAGAAAAACTCAAA
*
15954108 AAGAACAATTCTGCAAAAGAAAAACTCAAA
1 AAGAACAATTCTGAAAAAGAAAAACTCAAA
*
15954138 GAGAA
1 AAGAA
15954143 TTTGAATAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.62, C:0.14, G:0.12, T:0.12
Consensus pattern (30 bp):
AAGAACAATTCTGAAAAAGAAAAACTCAAA
Found at i:15954127 original size:16 final size:16
Alignment explanation
Indices: 15954078--15954128 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
15954068 AAGAAAACTC
*
15954078 AAGAACAATTCTGAAA
1 AAGAACAATTCTGCAA
*
15954094 AAGAA-AA-ACT-CAAA
1 AAGAACAATTCTGC-AA
15954108 AAGAACAATTCTGCAA
1 AAGAACAATTCTGCAA
15954124 AAGAA
1 AAGAA
15954129 AAACTCAAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 8
0.72 0.08 0.21
Matches are distributed among these distances:
14 9 0.32
15 4 0.14
16 14 0.50
17 1 0.04
ACGTcount: A:0.61, C:0.14, G:0.12, T:0.14
Consensus pattern (16 bp):
AAGAACAATTCTGCAA
Found at i:15977133 original size:19 final size:20
Alignment explanation
Indices: 15977109--15977149 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
15977099 AAACCTAAGA
* *
15977109 AAGAAAATAAGTAAAA-CCT
1 AAGAAAAAAAATAAAATCCT
15977128 AAGAAAAAAAATAAAATCCT
1 AAGAAAAAAAATAAAATCCT
15977148 AA
1 AA
15977150 ACTAAACTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.68, C:0.10, G:0.07, T:0.15
Consensus pattern (20 bp):
AAGAAAAAAAATAAAATCCT
Found at i:15977148 original size:20 final size:19
Alignment explanation
Indices: 15977099--15977149 Score: 57
Period size: 23 Copynumber: 2.4 Consensus size: 19
15977089 TGAAGTAACT
15977099 AAACCTAAGAAAGAAAATAAGTA
1 AAACCTAAG-AA-AAAA-AA-TA
15977122 AAACCTAAGAAAAAAAATA
1 AAACCTAAGAAAAAAAATA
15977141 AAATCCTAA
1 AAA-CCTAA
15977150 ACTAAACTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
19 5 0.19
20 7 0.26
21 4 0.15
22 2 0.07
23 9 0.33
ACGTcount: A:0.67, C:0.12, G:0.08, T:0.14
Consensus pattern (19 bp):
AAACCTAAGAAAAAAAATA
Found at i:15983217 original size:46 final size:45
Alignment explanation
Indices: 15983167--15983305 Score: 120
Period size: 46 Copynumber: 3.0 Consensus size: 45
15983157 ATTTGGAAAG
*
15983167 CATGAAAAACCAATTTAAGCATTATTTTAACACAATATTCAGACAA
1 CATGAAAAACCAATTTAAGCA-TATTTTAACACAATATTCGGACAA
* * * * ** * *
15983213 CATGAATAACCAAAATTTCTAGC--ATGTTAATACTCTATTCGGATAG
1 CATGAAAAACC--AATTT-AAGCATATTTTAACACAATATTCGGACAA
* *
15983259 CATGAAAATCCAATTTAAGCAGTATTTTAACACCATATTCGGACAA
1 CATGAAAAACCAATTTAAGCA-TATTTTAACACAATATTCGGACAA
15983305 C
1 C
15983306 CTCAAAGCTA
Statistics
Matches: 69, Mismatches: 18, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
43 3 0.04
44 5 0.07
46 53 0.77
48 5 0.07
49 3 0.04
ACGTcount: A:0.42, C:0.19, G:0.10, T:0.29
Consensus pattern (45 bp):
CATGAAAAACCAATTTAAGCATATTTTAACACAATATTCGGACAA
Found at i:15983227 original size:92 final size:92
Alignment explanation
Indices: 15983120--15983305 Score: 266
Period size: 92 Copynumber: 2.0 Consensus size: 92
15983110 CCAGATTCGG
* * *
15983120 ACATGAAAAACCAAAATTTCTAGCCTATTGATA-TCGTATTTGGAAAGCATGAAAAACCAATTTA
1 ACATGAAAAACCAAAATTTCTAGCATATTAATACTC-TATTCGGAAAGCATGAAAAACCAATTTA
*
15983184 AGCATTATTTTAACACAATATTCAGACA
65 AGCAGTATTTTAACACAATATTCAGACA
* * * *
15983212 ACATGAATAACCAAAATTTCTAGCATGTTAATACTCTATTCGGATAGCATGAAAATCCAATTTAA
1 ACATGAAAAACCAAAATTTCTAGCATATTAATACTCTATTCGGAAAGCATGAAAAACCAATTTAA
* *
15983277 GCAGTATTTTAACACCATATTCGGACA
66 GCAGTATTTTAACACAATATTCAGACA
15983304 AC
1 AC
15983306 CTCAAAGCTA
Statistics
Matches: 83, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
92 81 0.98
93 2 0.02
ACGTcount: A:0.41, C:0.18, G:0.11, T:0.30
Consensus pattern (92 bp):
ACATGAAAAACCAAAATTTCTAGCATATTAATACTCTATTCGGAAAGCATGAAAAACCAATTTAA
GCAGTATTTTAACACAATATTCAGACA
Found at i:15986408 original size:30 final size:30
Alignment explanation
Indices: 15986374--15986445 Score: 99
Period size: 30 Copynumber: 2.4 Consensus size: 30
15986364 AGATCGTCTG
15986374 TCTGTTGAGGTTAAGCCTTCAGTTAGTGTA
1 TCTGTTGAGGTTAAGCCTTCAGTTAGTGTA
* * *
15986404 TCTGTTAAGGTTGAGCCTTCAGTTGGTGTA
1 TCTGTTGAGGTTAAGCCTTCAGTTAGTGTA
* *
15986434 TTTGCTGAGGTT
1 TCTGTTGAGGTT
15986446 GAGTTCTTAT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.17, C:0.12, G:0.29, T:0.42
Consensus pattern (30 bp):
TCTGTTGAGGTTAAGCCTTCAGTTAGTGTA
Found at i:15993479 original size:23 final size:23
Alignment explanation
Indices: 15993453--15993504 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
15993443 ATATATGCCA
**
15993453 ATACTATTACTGAACTGACTTTG
1 ATACTATTACCAAACTGACTTTG
* *
15993476 ATACTGTTACCAAACTGATTTTG
1 ATACTATTACCAAACTGACTTTG
15993499 ATACTA
1 ATACTA
15993505 AATTGAATGA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (23 bp):
ATACTATTACCAAACTGACTTTG
Found at i:16008514 original size:19 final size:19
Alignment explanation
Indices: 16008490--16008530 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
16008480 GTGACAATGA
16008490 AATGCTACCTATTATTGTT
1 AATGCTACCTATTATTGTT
* *
16008509 AATGCTACTTGTTATTGTT
1 AATGCTACCTATTATTGTT
16008528 AAT
1 AAT
16008531 ACAACCCTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.27, C:0.12, G:0.12, T:0.49
Consensus pattern (19 bp):
AATGCTACCTATTATTGTT
Found at i:16011377 original size:15 final size:15
Alignment explanation
Indices: 16011357--16011392 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
16011347 TTTACATTTT
*
16011357 CTTTTATTTGTTTCA
1 CTTTTACTTGTTTCA
16011372 CTTTTACTTGTTTCA
1 CTTTTACTTGTTTCA
*
16011387 TTTTTA
1 CTTTTA
16011393 AACTTTATGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.14, C:0.14, G:0.06, T:0.67
Consensus pattern (15 bp):
CTTTTACTTGTTTCA
Found at i:16016979 original size:79 final size:79
Alignment explanation
Indices: 16016896--16017054 Score: 318
Period size: 79 Copynumber: 2.0 Consensus size: 79
16016886 ATGCTTTCTA
16016896 TGTCAAAAACATCAGAGGGGGTTTATTTGGTAACTCATACAATAACCGATCTCAACAACCTTGGG
1 TGTCAAAAACATCAGAGGGGGTTTATTTGGTAACTCATACAATAACCGATCTCAACAACCTTGGG
16016961 GCAATCAAAATGCT
66 GCAATCAAAATGCT
16016975 TGTCAAAAACATCAGAGGGGGTTTATTTGGTAACTCATACAATAACCGATCTCAACAACCTTGGG
1 TGTCAAAAACATCAGAGGGGGTTTATTTGGTAACTCATACAATAACCGATCTCAACAACCTTGGG
16017040 GCAATCAAAATGCT
66 GCAATCAAAATGCT
16017054 T
1 T
16017055 TCACATTTAG
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 80 1.00
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (79 bp):
TGTCAAAAACATCAGAGGGGGTTTATTTGGTAACTCATACAATAACCGATCTCAACAACCTTGGG
GCAATCAAAATGCT
Found at i:16021548 original size:20 final size:21
Alignment explanation
Indices: 16021514--16021552 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
16021504 CATTTTTCTA
*
16021514 TTTACTTTTATTTGTTTCACT
1 TTTACTTGTATTTGTTTCACT
16021535 TTTACTTGTA-TTGTTTCA
1 TTTACTTGTATTTGTTTCA
16021553 AATTCCTTGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.15, C:0.13, G:0.08, T:0.64
Consensus pattern (21 bp):
TTTACTTGTATTTGTTTCACT
Found at i:16023910 original size:18 final size:19
Alignment explanation
Indices: 16023868--16023910 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
16023858 GATATTTTCA
* *
16023868 TGCATTTTTTTATTGTCCC
1 TGCATTTTATTATTGTCAC
*
16023887 TTCATTTTATT-TTGTCAC
1 TGCATTTTATTATTGTCAC
16023905 TGCATT
1 TGCATT
16023911 CCTTTTGTTA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.14, C:0.19, G:0.09, T:0.58
Consensus pattern (19 bp):
TGCATTTTATTATTGTCAC
Found at i:16024507 original size:12 final size:12
Alignment explanation
Indices: 16024490--16024520 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
16024480 TCAGTCACTT
16024490 GAAAAAAAAAGA
1 GAAAAAAAAAGA
16024502 GAAAAAAAAAGA
1 GAAAAAAAAAGA
16024514 -AAAAAAA
1 GAAAAAAA
16024521 TATATTTACT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 7 0.37
12 12 0.63
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (12 bp):
GAAAAAAAAAGA
Found at i:16031608 original size:43 final size:43
Alignment explanation
Indices: 16031514--16031845 Score: 404
Period size: 43 Copynumber: 7.8 Consensus size: 43
16031504 CTGTACTAAC
* * * * * * *
16031514 CTTATGCTCTAATCGAGTCATAAATACTTCCATTTACAAATAAC
1 CTTATGCTCTAACCGAGACATAAGT-CTTCCTTTTATAAACAAT
* **
16031558 CGTATGCTCTTGCCGAGACATAAGTCTTCCTTTTATAAACAAT
1 CTTATGCTCTAACCGAGACATAAGTCTTCCTTTTATAAACAAT
* *
16031601 CTTATGCTCTAACCGAAATATAAGTCTTCCTTTTATAAACAAT
1 CTTATGCTCTAACCGAGACATAAGTCTTCCTTTTATAAACAAT
* *
16031644 CTTATGCTCTAACTGAGACATAAGTCTTCC--TT-T-AA-TAT
1 CTTATGCTCTAACCGAGACATAAGTCTTCCTTTTATAAACAAT
* *
16031682 CTTATGCTCTAACCGAGACATAAGTCATCATTTTATAAACAAT
1 CTTATGCTCTAACCGAGACATAAGTCTTCCTTTTATAAACAAT
*
16031725 CTTATGCTCTAACCGAGACATAAGTCTTCCTTTTATAAATAAT
1 CTTATGCTCTAACCGAGACATAAGTCTTCCTTTTATAAACAAT
* * * *
16031768 CTTATGCTCTAATCGAGACATAAGTCTTTCATTTATAAATAAT
1 CTTATGCTCTAACCGAGACATAAGTCTTCCTTTTATAAACAAT
* * *
16031811 CTTATGCTCTATCCGAGACATGAGTCATCCTTTTA
1 CTTATGCTCTAACCGAGACATAAGTCTTCCTTTTA
16031846 GTAATCACCA
Statistics
Matches: 248, Mismatches: 35, Indels: 11
0.84 0.12 0.04
Matches are distributed among these distances:
38 29 0.12
39 2 0.01
40 3 0.01
41 3 0.01
42 2 0.01
43 190 0.77
44 19 0.08
ACGTcount: A:0.32, C:0.21, G:0.10, T:0.36
Consensus pattern (43 bp):
CTTATGCTCTAACCGAGACATAAGTCTTCCTTTTATAAACAAT
Found at i:16031740 original size:124 final size:129
Alignment explanation
Indices: 16031514--16031845 Score: 451
Period size: 124 Copynumber: 2.6 Consensus size: 129
16031504 CTGTACTAAC
* * * * * * * **
16031514 CTTATGCTCTAATCGAGTCATAAATACTTCCATTTACAAATAACCGTATGCTCTTGCCGAGACAT
1 CTTATGCTCTAATCGAGACATAAGT-CTTTCACTTATAAATAATCTTATGCTCTAACCGAGACAT
* *
16031579 AAGTCTTCCTTTTATAAACAATCTTATGCTCTAACCGAAATATAAGTCTTCCTTTTATAAACAAT
65 AAGTCATCCTTTTATAAACAATCTTATGCTCTAACCGAAACATAAGTCTTCCTTTTATAAACAAT
16031644 CTTATGCTCTAA-CTGAGACATAAGTC-TTC-CTT-T-AAT-ATCTTATGCTCTAACCGAGACAT
1 CTTATGCTCTAATC-GAGACATAAGTCTTTCACTTATAAATAATCTTATGCTCTAACCGAGACAT
* * *
16031703 AAGTCATCATTTTATAAACAATCTTATGCTCTAACCGAGACATAAGTCTTCCTTTTATAAATAAT
65 AAGTCATCCTTTTATAAACAATCTTATGCTCTAACCGAAACATAAGTCTTCCTTTTATAAACAAT
* * *
16031768 CTTATGCTCTAATCGAGACATAAGTCTTTCATTTATAAATAATCTTATGCTCTATCCGAGACATG
1 CTTATGCTCTAATCGAGACATAAGTCTTTCACTTATAAATAATCTTATGCTCTAACCGAGACATA
16031833 AGTCATCCTTTTA
66 AGTCATCCTTTTA
16031846 GTAATCACCA
Statistics
Matches: 177, Mismatches: 18, Indels: 15
0.84 0.09 0.07
Matches are distributed among these distances:
124 103 0.58
125 7 0.04
126 2 0.01
127 3 0.02
128 5 0.03
129 36 0.20
130 21 0.12
ACGTcount: A:0.32, C:0.21, G:0.10, T:0.36
Consensus pattern (129 bp):
CTTATGCTCTAATCGAGACATAAGTCTTTCACTTATAAATAATCTTATGCTCTAACCGAGACATA
AGTCATCCTTTTATAAACAATCTTATGCTCTAACCGAAACATAAGTCTTCCTTTTATAAACAAT
Found at i:16036166 original size:17 final size:17
Alignment explanation
Indices: 16036125--16036180 Score: 51
Period size: 17 Copynumber: 3.3 Consensus size: 17
16036115 CTGACAGGTG
* *
16036125 ATACAATTCGCCAGGCA
1 ATACTATTCGCCAAGCA
*
16036142 ATACTATTCGCCAAGCG
1 ATACTATTCGCCAAGCA
* *
16036159 ATATTATTCACC-AGACA
1 ATACTATTCGCCAAG-CA
16036176 ATACT
1 ATACT
16036181 CTCCGTCATG
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
16 2 0.06
17 29 0.94
ACGTcount: A:0.36, C:0.27, G:0.12, T:0.25
Consensus pattern (17 bp):
ATACTATTCGCCAAGCA
Found at i:16037736 original size:13 final size:14
Alignment explanation
Indices: 16037711--16037739 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
16037701 CGATAGCCGA
16037711 AACCTCACCAATTG
1 AACCTCACCAATTG
16037725 AACCTC-CCAATTG
1 AACCTCACCAATTG
16037738 AA
1 AA
16037740 GAGTGATGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.38, C:0.34, G:0.07, T:0.21
Consensus pattern (14 bp):
AACCTCACCAATTG
Found at i:16038251 original size:17 final size:17
Alignment explanation
Indices: 16038229--16038264 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
16038219 TTTTGTAGTG
16038229 AAATATGATTACTAAAT
1 AAATATGATTACTAAAT
*
16038246 AAATATGATTATTAAAT
1 AAATATGATTACTAAAT
16038263 AA
1 AA
16038265 CGAAATAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.56, C:0.03, G:0.06, T:0.36
Consensus pattern (17 bp):
AAATATGATTACTAAAT
Found at i:16041506 original size:11 final size:11
Alignment explanation
Indices: 16041492--16041561 Score: 52
Period size: 11 Copynumber: 6.0 Consensus size: 11
16041482 TTTAAATGGG
16041492 TTTTAAATTTA
1 TTTTAAATTTA
16041503 TTTTAAATTTAA
1 TTTTAAATTT-A
* *
16041515 ATTT-ATTTTAA
1 TTTTAAATTT-A
*
16041526 ATTTAAATTTA
1 TTTTAAATTTA
16041537 CTTATTTAAATTTA
1 --T-TTTAAATTTA
*
16041551 CTTTAAATTTA
1 TTTTAAATTTA
16041562 AGTTTAATCA
Statistics
Matches: 49, Mismatches: 5, Indels: 10
0.77 0.08 0.16
Matches are distributed among these distances:
11 31 0.63
12 8 0.16
14 10 0.20
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.59
Consensus pattern (11 bp):
TTTTAAATTTA
Found at i:16041513 original size:6 final size:6
Alignment explanation
Indices: 16041493--16041568 Score: 68
Period size: 6 Copynumber: 12.8 Consensus size: 6
16041483 TTAAATGGGT
* * *
16041493 TTTAAA TTT-AT TTTAAA TTTAAA TTT-AT TTTAAA TTTAAA TTTACTTA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTA--AA
* *
16041541 TTTAAA TTT-AC TTTAAA TTTAAG TTTAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAA
16041569 TCAAATTAAA
Statistics
Matches: 56, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
5 12 0.21
6 39 0.70
8 5 0.09
ACGTcount: A:0.39, C:0.03, G:0.01, T:0.57
Consensus pattern (6 bp):
TTTAAA
Found at i:16041513 original size:17 final size:17
Alignment explanation
Indices: 16041493--16041567 Score: 102
Period size: 17 Copynumber: 4.6 Consensus size: 17
16041483 TTAAATGGGT
16041493 TTTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
16041510 TTTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
*
16041527 TTTAAATTTA-CTT--A
1 TTTAAATTTATTTTAAA
*
16041541 TTTAAATTTACTTTAAA
1 TTTAAATTTATTTTAAA
*
16041558 TTTAAGTTTA
1 TTTAAATTTA
16041568 ATCAAATTAA
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
14 11 0.21
15 2 0.04
16 2 0.04
17 37 0.71
ACGTcount: A:0.39, C:0.03, G:0.01, T:0.57
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:16041545 original size:14 final size:14
Alignment explanation
Indices: 16041526--16041553 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
16041516 TTTATTTTAA
16041526 ATTTAAATTTACTT
1 ATTTAAATTTACTT
16041540 ATTTAAATTTACTT
1 ATTTAAATTTACTT
16041554 TAAATTTAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (14 bp):
ATTTAAATTTACTT
Found at i:16041547 original size:31 final size:31
Alignment explanation
Indices: 16041509--16041567 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
16041499 TTTATTTTAA
*
16041509 ATTTAAATTTATTTTAAATTTAAATTTACTT
1 ATTTAAATTTACTTTAAATTTAAATTTACTT
*
16041540 ATTTAAATTTACTTTAAATTTAAGTTTA
1 ATTTAAATTTACTTTAAATTTAAATTTA
16041568 ATCAAATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.39, C:0.03, G:0.02, T:0.56
Consensus pattern (31 bp):
ATTTAAATTTACTTTAAATTTAAATTTACTT
Found at i:16042212 original size:21 final size:21
Alignment explanation
Indices: 16042186--16042230 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
16042176 TATTTGGGTT
* * *
16042186 ATTCATCTTTTTAATACATAC
1 ATTCATATATTTAATAAATAC
*
16042207 ATTCATATATTTATTAAATAC
1 ATTCATATATTTAATAAATAC
16042228 ATT
1 ATT
16042231 GTGTGTTGTC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.38, C:0.13, G:0.00, T:0.49
Consensus pattern (21 bp):
ATTCATATATTTAATAAATAC
Done.