Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D09
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: 51526817
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 216316 characters in sequence are not A, C, G, or T
File 35 of 172
Found at i:8747700 original size:9 final size:9
Alignment explanation
Indices: 8747686--8747751 Score: 89
Period size: 9 Copynumber: 7.2 Consensus size: 9
8747676 TTGGGTAATT
8747686 TTCGGGTAA
1 TTCGGGTAA
8747695 TTCGGGTAA
1 TTCGGGTAA
8747704 TTTTCGGGTAA
1 --TTCGGGTAA
*
8747715 TTCGGTTAA
1 TTCGGGTAA
*
8747724 TTCGGTTAA
1 TTCGGGTAA
8747733 -TCGGGTAA
1 TTCGGGTAA
8747741 TTCGGGTAA
1 TTCGGGTAA
8747750 TT
1 TT
8747752 TTTAACCAAA
Statistics
Matches: 52, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
8 7 0.13
9 36 0.69
11 9 0.17
ACGTcount: A:0.21, C:0.11, G:0.29, T:0.39
Consensus pattern (9 bp):
TTCGGGTAA
Found at i:8747703 original size:20 final size:18
Alignment explanation
Indices: 8747686--8747751 Score: 89
Period size: 20 Copynumber: 3.6 Consensus size: 18
8747676 TTGGGTAATT
8747686 TTCGGGTAATTCGGGTAA
1 TTCGGGTAATTCGGGTAA
*
8747704 TTTTCGGGTAATTCGGTTAA
1 --TTCGGGTAATTCGGGTAA
*
8747724 TTCGGTTAA-TCGGGTAA
1 TTCGGGTAATTCGGGTAA
8747741 TTCGGGTAATT
1 TTCGGGTAATT
8747752 TTTAACCAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
17 15 0.37
18 9 0.22
20 17 0.41
ACGTcount: A:0.21, C:0.11, G:0.29, T:0.39
Consensus pattern (18 bp):
TTCGGGTAATTCGGGTAA
Found at i:8749944 original size:17 final size:18
Alignment explanation
Indices: 8749919--8749976 Score: 55
Period size: 17 Copynumber: 3.2 Consensus size: 18
8749909 AAAATATTCC
*
8749919 AAATATATTTTAAAATTA
1 AAATATATTATAAAATTA
8749937 AAAT-TATTATAAAATTA
1 AAATATATTATAAAATTA
* * *
8749954 CAAAAAAAATATAAAATATA
1 -AAATATATTATAAAAT-TA
8749974 AAA
1 AAA
8749977 AATTATTAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
17 12 0.36
18 7 0.21
19 12 0.36
20 2 0.06
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.33
Consensus pattern (18 bp):
AAATATATTATAAAATTA
Found at i:8749987 original size:9 final size:9
Alignment explanation
Indices: 8749975--8750035 Score: 54
Period size: 9 Copynumber: 6.6 Consensus size: 9
8749965 TAAAATATAA
8749975 AAAATTATT
1 AAAATTATT
8749984 AAAACTTATT
1 AAAA-TTATT
8749994 AAAAATT-TT
1 -AAAATTATT
8750003 AAAATATATT
1 AAAAT-TATT
8750013 AGAAATT-TT
1 A-AAATTATT
* *
8750022 AATATTTTT
1 AAAATTATT
8750031 AAAAT
1 AAAAT
8750036 CTTATAAATC
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
8 9 0.20
9 16 0.36
10 11 0.25
11 8 0.18
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (9 bp):
AAAATTATT
Found at i:8749987 original size:10 final size:10
Alignment explanation
Indices: 8749936--8750023 Score: 53
Period size: 10 Copynumber: 9.1 Consensus size: 10
8749926 TTTTAAAATT
8749936 AAAATTATTA
1 AAAATTATTA
*
8749946 TAAAATTA-CA
1 -AAAATTATTA
* *
8749956 AAAA-AAATA
1 AAAATTATTA
*
8749965 TAAAA-TATAA
1 -AAAATTATTA
8749975 AAAATTATTA
1 AAAATTATTA
*
8749985 AAACTTATTA
1 AAAATTATTA
8749995 AAAATT-TT-
1 AAAATTATTA
8750003 AAAATATATTA
1 AAAAT-TATTA
*
8750014 GAAATT-TTA
1 AAAATTATTA
8750023 A
1 A
8750024 TATTTTTAAA
Statistics
Matches: 60, Mismatches: 11, Indels: 14
0.71 0.13 0.16
Matches are distributed among these distances:
8 6 0.10
9 15 0.25
10 28 0.47
11 11 0.18
ACGTcount: A:0.61, C:0.02, G:0.01, T:0.35
Consensus pattern (10 bp):
AAAATTATTA
Found at i:8749997 original size:20 final size:19
Alignment explanation
Indices: 8749965--8750023 Score: 70
Period size: 19 Copynumber: 3.2 Consensus size: 19
8749955 AAAAAAAATA
8749965 TAAAATATA--AAAAATTAT
1 TAAAATATATTAAAAATT-T
8749983 TAAAACT-TATTAAAAATTT
1 TAAAA-TATATTAAAAATTT
*
8750002 TAAAATATATTAGAAATTT
1 TAAAATATATTAAAAATTT
8750021 TAA
1 TAA
8750024 TATTTTTAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
18 8 0.22
19 21 0.58
20 7 0.19
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (19 bp):
TAAAATATATTAAAAATTT
Found at i:8750519 original size:18 final size:16
Alignment explanation
Indices: 8750458--8750530 Score: 64
Period size: 16 Copynumber: 4.7 Consensus size: 16
8750448 AATATATATA
8750458 TTAAAT-TTTTACAATTT
1 TTAAATATTTT-C-ATTT
* *
8750475 TTAATTATTTTAATTT
1 TTAAATATTTTCATTT
*
8750491 TTAAATA-ATT--TTT
1 TTAAATATTTTCATTT
*
8750504 GTAAATATTTTCATTT
1 TTAAATATTTTCATTT
8750520 TTAAATATTTT
1 TTAAATATTTT
8750531 TAATTTTTTT
Statistics
Matches: 45, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
13 9 0.20
14 2 0.04
15 2 0.04
16 23 0.51
17 5 0.11
18 4 0.09
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (16 bp):
TTAAATATTTTCATTT
Found at i:8750519 original size:29 final size:27
Alignment explanation
Indices: 8750472--8750531 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 27
8750462 ATTTTTACAA
*
8750472 TTTTTAATTATTTTAATTTTTAAATAAT
1 TTTTTAAATATTTTAATTTTTAAAT-AT
*
8750500 TTTTGTAAATATTTTCATTTTTAAATAT
1 TTTT-TAAATATTTTAATTTTTAAATAT
8750528 TTTT
1 TTTT
8750532 AATTTTTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 10 0.34
29 19 0.66
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (27 bp):
TTTTTAAATATTTTAATTTTTAAATAT
Found at i:8750531 original size:17 final size:16
Alignment explanation
Indices: 8750470--8750538 Score: 72
Period size: 16 Copynumber: 4.4 Consensus size: 16
8750460 AAATTTTTAC
*
8750470 AATTTTTAATTATTTT
1 AATTTTTAAATATTTT
*
8750486 AATTTTTAAATA-ATT
1 AATTTTTAAATATTTT
*
8750501 --TTTGTAAATATTTT
1 AATTTTTAAATATTTT
*
8750515 CATTTTTAAATATTTTT
1 AATTTTTAAATA-TTTT
8750532 AATTTTT
1 AATTTTT
8750539 TTCAAATTAT
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
13 9 0.21
14 2 0.05
15 2 0.05
16 20 0.47
17 10 0.23
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (16 bp):
AATTTTTAAATATTTT
Found at i:8752356 original size:36 final size:36
Alignment explanation
Indices: 8752228--8752573 Score: 313
Period size: 36 Copynumber: 9.4 Consensus size: 36
8752218 AGAAAATCTT
* * * * *
8752228 ATTAGTATAATTAGTGGATAATGCTCGTTTGAGCAAGA
1 ATTAGTAGAATCAGTAGATATTGCTCGTTTGAGC-A-C
* *
8752266 ATTCAGTATAATCAAT-GCATATTGCTCGTTTGAGCAAC
1 ATT-AGTAGAATCAGTAG-ATATTGCTCGTTTGAGC-AC
*
8752304 TATTTAGTAGAATCAGTAGATATTGCTCATTTGAGCAC
1 -A-TTAGTAGAATCAGTAGATATTGCTCGTTTGAGCAC
* * * *
8752342 ATCAGTAGAATCAGTACACATTGGTCGTTTGAGCAC
1 ATTAGTAGAATCAGTAGATATTGCTCGTTTGAGCAC
* * * *
8752378 ATTTAGTAGGATCAATAGATATTGCTC-ATTGAACAC
1 A-TTAGTAGAATCAGTAGATATTGCTCGTTTGAGCAC
* *
8752414 TTTTTGTAGAATCAGTAGATATTGCTCGTTTGAGCAC
1 -ATTAGTAGAATCAGTAGATATTGCTCGTTTGAGCAC
* * *
8752451 -TTCAGTAGAACCACTAGACATTGCTCGTTTGAGCAC
1 ATT-AGTAGAATCAGTAGATATTGCTCGTTTGAGCAC
* *
8752487 ATTTAGTAGGATCAGTAGATATTGCTC-ATTGAGCAC
1 A-TTAGTAGAATCAGTAGATATTGCTCGTTTGAGCAC
* *
8752523 TTTTAGTAGAATCAGTAGATATTGCTCGTTTGAGAAC
1 -ATTAGTAGAATCAGTAGATATTGCTCGTTTGAGCAC
*
8752560 TTTTAGTAGAATCA
1 -ATTAGTAGAATCA
8752574 CTAGTGTCGA
Statistics
Matches: 256, Mismatches: 39, Indels: 27
0.80 0.12 0.08
Matches are distributed among these distances:
35 2 0.01
36 121 0.47
37 67 0.26
38 8 0.03
39 55 0.21
40 3 0.01
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.34
Consensus pattern (36 bp):
ATTAGTAGAATCAGTAGATATTGCTCGTTTGAGCAC
Found at i:8752448 original size:109 final size:109
Alignment explanation
Indices: 8752306--8752556 Score: 421
Period size: 109 Copynumber: 2.3 Consensus size: 109
8752296 TGAGCAACTA
* * * *
8752306 TTTAGTAGAATCAGTAGATATTGCTCATTTGAGCACATCAGTAGAATCAGTACACATTGGTCGTT
1 TTTAGTAGAATCAGTAGATATTGCTCGTTTGAGCACATCAGTAGAACCACTACACATTGCTCGTT
8752371 TGAGCACATTTAGTAGGATCAATAGATATTGCTCATTGAACACT
66 TGAGCACATTTAGTAGGATCAATAGATATTGCTCATTGAACACT
* * *
8752415 TTTTGTAGAATCAGTAGATATTGCTCGTTTGAGCACTTCAGTAGAACCACTAGACATTGCTCGTT
1 TTTAGTAGAATCAGTAGATATTGCTCGTTTGAGCACATCAGTAGAACCACTACACATTGCTCGTT
* *
8752480 TGAGCACATTTAGTAGGATCAGTAGATATTGCTCATTGAGCACT
66 TGAGCACATTTAGTAGGATCAATAGATATTGCTCATTGAACACT
8752524 TTTAGTAGAATCAGTAGATATTGCTCGTTTGAG
1 TTTAGTAGAATCAGTAGATATTGCTCGTTTGAG
8752557 AACTTTTAGT
Statistics
Matches: 132, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
109 132 1.00
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34
Consensus pattern (109 bp):
TTTAGTAGAATCAGTAGATATTGCTCGTTTGAGCACATCAGTAGAACCACTACACATTGCTCGTT
TGAGCACATTTAGTAGGATCAATAGATATTGCTCATTGAACACT
Found at i:8752565 original size:73 final size:74
Alignment explanation
Indices: 8752284--8752573 Score: 338
Period size: 73 Copynumber: 3.9 Consensus size: 74
8752274 TAATCAATGC
* * * *
8752284 ATATTGCTCGTTTGAGCAACTATTTAGTAGAATCAGTAGATATTGCTCATTTGAGCAC-ATCAGT
1 ATATTGCTCGTTTGAGC-ACT-TTTAGTAGAATCAGTAGATATTGCTCGTTTGAGAACTTTTAGT
*
8752348 AGAATCAGTAC
64 AGAATCAGTAG
* * * * * * *
8752359 ACATTGGTCGTTTGAGCACATTTAGTAGGATCAATAGATATTGCTC-ATTGA-ACACTTTTTGTA
1 ATATTGCTCGTTTGAGCACTTTTAGTAGAATCAGTAGATATTGCTCGTTTGAGA-ACTTTTAGTA
8752422 GAATCAGTAG
65 GAATCAGTAG
* * * * * *
8752432 ATATTGCTCGTTTGAGCAC-TTCAGTAGAACCACTAGACATTGCTCGTTTGAGCACATTTAGTAG
1 ATATTGCTCGTTTGAGCACTTTTAGTAGAATCAGTAGATATTGCTCGTTTGAGAACTTTTAGTAG
*
8752496 GATCAGTAG
66 AATCAGTAG
*
8752505 ATATTGCTC-ATTGAGCACTTTTAGTAGAATCAGTAGATATTGCTCGTTTGAGAACTTTTAGTAG
1 ATATTGCTCGTTTGAGCACTTTTAGTAGAATCAGTAGATATTGCTCGTTTGAGAACTTTTAGTAG
8752569 AATCA
66 AATCA
8752574 CTAGTGTCGA
Statistics
Matches: 179, Mismatches: 31, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
72 35 0.20
73 127 0.71
74 2 0.01
75 15 0.08
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (74 bp):
ATATTGCTCGTTTGAGCACTTTTAGTAGAATCAGTAGATATTGCTCGTTTGAGAACTTTTAGTAG
AATCAGTAG
Found at i:8755081 original size:19 final size:19
Alignment explanation
Indices: 8755059--8755102 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
8755049 AGAAAAACCC
8755059 AAAGAAAG-AGAAAAAAATG
1 AAAGAAAGCAGAAAAAAA-G
*
8755078 AAAG-ATGCAGAAAAAAAG
1 AAAGAAAGCAGAAAAAAAG
8755096 AAAGAAA
1 AAAGAAA
8755103 ATCCAATCAC
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.73, C:0.02, G:0.20, T:0.05
Consensus pattern (19 bp):
AAAGAAAGCAGAAAAAAAG
Found at i:8755895 original size:50 final size:50
Alignment explanation
Indices: 8755789--8755900 Score: 127
Period size: 50 Copynumber: 2.2 Consensus size: 50
8755779 TTGTAGCTTG
** * * *
8755789 TAGCTTTAATCTTTTTAACTGTGATATCGGGGAAACAAGATTCGCTATTA
1 TAGCTTTAATCTTTTTAACTGCAATATCAGGGAAACAAGATTCCCGATTA
* * *
8755839 TAGCTTTAATCTTTTTAACTGCAATGTCAGGGAAGCAAGATTCACCGA-TG
1 TAGCTTTAATCTTTTTAACTGCAATATCAGGGAAACAAGATTC-CCGATTA
*
8755889 TGGCTTTAATCT
1 TAGCTTTAATCT
8755901 GTTCCTCTGC
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
50 50 0.96
51 2 0.04
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.37
Consensus pattern (50 bp):
TAGCTTTAATCTTTTTAACTGCAATATCAGGGAAACAAGATTCCCGATTA
Found at i:8756321 original size:218 final size:218
Alignment explanation
Indices: 8755943--8756339 Score: 636
Period size: 218 Copynumber: 1.8 Consensus size: 218
8755933 CTATTCTCAG
* * * * *
8755943 TCTGCCCCACTGTAACTTCAGGGTGATAAGACTTGTCTTCTCAGTCTGTTCCACTGCAACCTCAA
1 TCTGCCCCACTGCAACCTCAGGGGGATAAGACCTGTCTTCTCAGTCTGCTCCACTGCAACCTCAA
* *
8756008 GGAGATAAGACCTGGTGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAAT
66 GGAGATAAGACCTGATGCGATCCACTCTACTGCAACTTCAGAAAGATAAGATCTATTACTTTAAT
* *
8756073 CCGTTCCATTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGCAACGTCAGG
131 CCGTTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTAAATCTGCTCCACTGCAACGTCAGG
8756138 GAGTTAAGATTTTTTATCTTCGA
196 GAGTTAAGATTTTTTATCTTCGA
8756161 TCTGCCCCACTGCAACCTCAGGGGGATAAGACCTG-CTTACTCAGTCTGCTCCACTGCAACCTCA
1 TCTGCCCCACTGCAACCTCAGGGGGATAAGACCTGTCTT-CTCAGTCTGCTCCACTGCAACCTCA
* * *
8756225 GGGAGGTAAGACCTGATGCGATCCACTCTACTGCAACTTCAGAAAGATAAGATCTATTATTTTAA
65 AGGAGATAAGACCTGATGCGATCCACTCTACTGCAACTTCAGAAAGATAAGATCTATTACTTTAA
* *
8756290 TCCGCTT-CACTACAATTTTAGGGAGATAGGATTATCGGCTTAAATCTGCT
130 TCCG-TTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTAAATCTGCT
8756340 TCCTTACACT
Statistics
Matches: 163, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
217 3 0.02
218 158 0.97
219 2 0.01
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (218 bp):
TCTGCCCCACTGCAACCTCAGGGGGATAAGACCTGTCTTCTCAGTCTGCTCCACTGCAACCTCAA
GGAGATAAGACCTGATGCGATCCACTCTACTGCAACTTCAGAAAGATAAGATCTATTACTTTAAT
CCGTTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTAAATCTGCTCCACTGCAACGTCAGG
GAGTTAAGATTTTTTATCTTCGA
Found at i:8756459 original size:129 final size:129
Alignment explanation
Indices: 8756326--8756571 Score: 456
Period size: 129 Copynumber: 1.9 Consensus size: 129
8756316 TAGGATTATC
8756326 GGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGC
1 GGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGC
*
8756391 TTAGGGAGACAAGATCTGTAATTTCCCAACCTATTGCACTGCTGGTCAGGGATATAGGGCTTGT
66 TTAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGGTCAGGGATATAGGGCTTGT
* * *
8756455 GGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGTCGTCTTCGATCTGCTCCGCTATTGC
1 GGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGC
8756520 TTAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGGTCAGGGA
66 TTAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGGTCAGGGA
8756572 GCTAGGTTTT
Statistics
Matches: 113, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
129 113 1.00
ACGTcount: A:0.23, C:0.24, G:0.21, T:0.31
Consensus pattern (129 bp):
GGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGC
TTAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGGTCAGGGATATAGGGCTTGT
Found at i:8757868 original size:7 final size:7
Alignment explanation
Indices: 8757858--8757890 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
8757848 TTTTCATCAT
8757858 TTTTTTA
1 TTTTTTA
8757865 TTTTTTA
1 TTTTTTA
*
8757872 -TTTTCA
1 TTTTTTA
8757878 TTTTTTA
1 TTTTTTA
8757885 TTTTTT
1 TTTTTT
8757891 TGACTCAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
6 5 0.22
7 18 0.78
ACGTcount: A:0.12, C:0.03, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTTTA
Found at i:8758757 original size:15 final size:15
Alignment explanation
Indices: 8758720--8758758 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
8758710 CCTCTCCTTT
* *
8758720 TCTTTTTCCTTTTTC
1 TCTTTTTTCTTTCTC
*
8758735 CCTTTTTTCTTTCTC
1 TCTTTTTTCTTTCTC
8758750 TCTTTTTTC
1 TCTTTTTTC
8758759 ATTTTCATTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (15 bp):
TCTTTTTTCTTTCTC
Found at i:8758790 original size:6 final size:6
Alignment explanation
Indices: 8758754--8758829 Score: 50
Period size: 6 Copynumber: 12.8 Consensus size: 6
8758744 TTTCTCTCTT
* * * * **
8758754 TTTTCA TTTTCA TTTTCA TTTTGA CTTTGA TTTTGA TTTTTG- TTTTTC
1 TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA -TTTTGA TTTTGA
*
8758802 TTCTT-- TTTTGT TTTTGA TTTTGA TTTTG
1 TT-TTGA TTTTGA TTTTGA TTTTGA TTTTG
8758830 CCTTTTTTTT
Statistics
Matches: 60, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
4 2 0.03
5 6 0.10
6 45 0.75
7 7 0.12
ACGTcount: A:0.11, C:0.08, G:0.11, T:0.71
Consensus pattern (6 bp):
TTTTGA
Found at i:8758837 original size:29 final size:29
Alignment explanation
Indices: 8758779--8758840 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
8758769 TCATTTTGAC
*
8758779 TTTGATTTTGATTTTTGTTTTTCTTCTTT
1 TTTGATTTTGATTTTTGTTTTCCTTCTTT
* *
8758808 TTTGTTTTTGA-TTTTGATTTTGCCTTTTTT
1 TTTGATTTTGATTTTTG-TTTT-CCTTCTTT
8758838 TTT
1 TTT
8758841 TGGATTGGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 5 0.18
29 14 0.50
30 9 0.32
ACGTcount: A:0.06, C:0.06, G:0.11, T:0.76
Consensus pattern (29 bp):
TTTGATTTTGATTTTTGTTTTCCTTCTTT
Found at i:8765011 original size:36 final size:37
Alignment explanation
Indices: 8764936--8765079 Score: 161
Period size: 37 Copynumber: 4.0 Consensus size: 37
8764926 CTATTACAAC
* * * *
8764936 TAGACATTGCTTGTTTAAACA-TATTTAGTAGGATCAG
1 TAGATATTGCTTGTTTAAGCACT-TTCAGTAGAATCAG
* *
8764973 TAGATATTGCTTG-TTAAGCTCTTTCAGTAGAATAAG
1 TAGATATTGCTTGTTTAAGCACTTTCAGTAGAATCAG
* * *
8765009 TAGATATTGCTCGTTTGAGCACTTTCAATAGAATCAG
1 TAGATATTGCTTGTTTAAGCACTTTCAGTAGAATCAG
*
8765046 TAGATATTGCTTG-TTGAGCAC-TTCAGTAGAATCA
1 TAGATATTGCTTGTTTAAGCACTTTCAGTAGAATCA
8765080 TTATTCCTTT
Statistics
Matches: 92, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
35 12 0.13
36 36 0.39
37 44 0.48
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.37
Consensus pattern (37 bp):
TAGATATTGCTTGTTTAAGCACTTTCAGTAGAATCAG
Found at i:8765847 original size:16 final size:16
Alignment explanation
Indices: 8765826--8765856 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
8765816 TAATCCCCGG
8765826 GTTTGGCCAAAGCTTA
1 GTTTGGCCAAAGCTTA
*
8765842 GTTTGGCCGAAGCTT
1 GTTTGGCCAAAGCTT
8765857 GTTCTTCTCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.19, G:0.29, T:0.32
Consensus pattern (16 bp):
GTTTGGCCAAAGCTTA
Found at i:8775607 original size:6 final size:6
Alignment explanation
Indices: 8775596--8775677 Score: 76
Period size: 6 Copynumber: 13.7 Consensus size: 6
8775586 CAATCCAAAA
* ** **
8775596 AAAATC AAAATC AAAATC AAAATC AAAA-A AAGAAGA AAAAGA AAAATC
1 AAAATC AAAATC AAAATC AAAATC AAAATC AA-AATC AAAATC AAAATC
* * *
8775644 AAAATC AAAATC AAAGTC AAAATG AAAATG AAAA
1 AAAATC AAAATC AAAATC AAAATC AAAATC AAAA
8775678 AAGAGAGAAG
Statistics
Matches: 68, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
5 2 0.03
6 63 0.93
7 3 0.04
ACGTcount: A:0.71, C:0.10, G:0.07, T:0.12
Consensus pattern (6 bp):
AAAATC
Found at i:8778094 original size:129 final size:129
Alignment explanation
Indices: 8777860--8778218 Score: 558
Period size: 129 Copynumber: 2.8 Consensus size: 129
8777850 GTGAATATAG
8777860 CAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTCAAGTGTA
1 CAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTCAAGTGTA
* * * *
8777925 AGGAAGCAGATTTATGTCACAAGTCCTATATCCCTGGTCAGCAGCGGAATAGGTTGGGAAATTA
66 AGGAAGCAGATTTAAGTCACAAGTCCTATATCCCTAGTCAGCAGCGGAATAGGTTAGAAAATTA
* * *
8777989 CATATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGTGAATCTTATCTTCAACTGTA
1 CAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTCAAGTGTA
* *
8778054 AGGAAGCAGATTTAAGTCACAAGTCCTATATCCCTAGTCAGTAGTGGAATAGGTTAGAAAATTA
66 AGGAAGCAGATTTAAGTCACAAGTCCTATATCCCTAGTCAGCAGCGGAATAGGTTAGAAAATTA
* * * *
8778118 CAGACCTTGTCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATGATGAATCTTATCTTCAAGTGTA
1 CAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTCAAGTGTA
* * *
8778183 AGGAAGCATATTTAAG-CAACAAATCCTATCTCCCTA
66 AGGAAGCAGATTTAAGTC-ACAAGTCCTATATCCCTA
8778219 AAGTTGTAGT
Statistics
Matches: 210, Mismatches: 19, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
128 1 0.00
129 209 1.00
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.27
Consensus pattern (129 bp):
CAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTCAAGTGTA
AGGAAGCAGATTTAAGTCACAAGTCCTATATCCCTAGTCAGCAGCGGAATAGGTTAGAAAATTA
Found at i:8778475 original size:44 final size:44
Alignment explanation
Indices: 8778203--8778707 Score: 232
Period size: 44 Copynumber: 11.6 Consensus size: 44
8778193 TTTAAGCAAC
* * * * * *
8778203 AAATCCTATCTCCCTAAAGTTGTAGTGAAGCGGATTAAAGTAAT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTAAT
* * * ** * * *
8778247 AGATCTTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCA-T--C
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTAAT
** * * * * * *
8778288 AGGTCTTATCTTCTTGAGGTTGCAGCGGAGCAGACTG-AGTAAGC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTAA-T
** * * ***
8778332 AGGTCTTATCCCCCTGAAGTTGCAGTGG-GACAGATCGAAGATGGC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAG-CAGATTGAAG-TAAT
* * **
8778377 AAATCTTATCTCCCTGAGGTTGCAGTGGAGTAGATTGAAGCCGAT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-TAAT
* * * *
8778422 -AATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGTAAT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTAAT
* * * *
8778465 AAATCTTATCTCTCTGAAGTTACAGT--AG-AG-TTGATCG-CAT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA-AGTAAT
** * * *
8778505 CAGGTCTTATCTCCCT-AAGGTTGCAGCGGAGCAGACTG-AGTAAGC
1 -AAATCTTATCTCCCTGAA-GTTGCAGTGGAGCAGATTGAAGTAA-T
** * * *
8778550 AGGTCTTATCCCCCTGAAGTTGCAGTGG-GACAGATCGAAG-AAGC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAG-CAGATTGAAGTAA-T
* * * *
8778594 AAATCTTATCTCTCTGAGGTTGCAGTGGAACAGATTGAAGCCAAT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-TAAT
* * * * * *
8778639 -AATCCTATCTCCCTGAATTTGTAGTGGAGCGGATTAAAATAAT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTAAT
* *
8778682 AGATCTTATCTCTCTGAAGTTGCAGT
1 AAATCTTATCTCCCTGAAGTTGCAGT
8778708 AGAGTGGATC
Statistics
Matches: 342, Mismatches: 94, Indels: 50
0.70 0.19 0.10
Matches are distributed among these distances:
40 8 0.02
41 47 0.14
42 2 0.01
43 11 0.03
44 228 0.67
45 42 0.12
46 4 0.01
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.29
Consensus pattern (44 bp):
AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTAAT
Found at i:8778710 original size:217 final size:218
Alignment explanation
Indices: 8778204--8778790 Score: 942
Period size: 217 Copynumber: 2.7 Consensus size: 218
8778194 TTAAGCAACA
* *
8778204 AATCCTATCTCCCTAAAGTTGTAGTGAAGCGGATTAAAGTAATAGATCTTATCTCTCTGAAGTTG
1 AATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGTAATAGATCTTATCTCTCTGAAGTTG
* *
8778269 CAGTAGAGTGGATCGCATCAGGTCTTATCTTCTTGAGGTTGCAGCGGAGCAGACTGAGTAAGCAG
66 CAGTAGAGTGGATCGCATCAGGTCTTATCTCCCTGAGGTTGCAGCGGAGCAGACTGAGTAAGCAG
*
8778334 GTCTTATCCCCCTGAAGTTGCAGTGGGACAGATCGAAGATGGCAAATCTTATCTCCCTGAGGTTG
131 GTCTTATCCCCCTGAAGTTGCAGTGGGACAGATCGAAGATAGCAAATCTTATCTCCCTGAGGTTG
** *
8778399 CAGTGGAGTAGATTGAAGCCGAT
196 CAGTGGAACAGATTGAAGCCAAT
* *
8778422 AATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGTAATAAATCTTATCTCTCTGAAGTTA
1 AATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGTAATAGATCTTATCTCTCTGAAGTTG
* *
8778487 CAGTAGAGTTGATCGCATCAGGTCTTATCTCCCTAAGGTTGCAGCGGAGCAGACTGAGTAAGCAG
66 CAGTAGAGTGGATCGCATCAGGTCTTATCTCCCTGAGGTTGCAGCGGAGCAGACTGAGTAAGCAG
*
8778552 GTCTTATCCCCCTGAAGTTGCAGTGGGACAGATCGAAGA-AGCAAATCTTATCTCTCTGAGGTTG
131 GTCTTATCCCCCTGAAGTTGCAGTGGGACAGATCGAAGATAGCAAATCTTATCTCCCTGAGGTTG
8778616 CAGTGGAACAGATTGAAGCCAAT
196 CAGTGGAACAGATTGAAGCCAAT
* *
8778639 AATCCTATCTCCCTGAATTTGTAGTGGAGCGGATTAAAATAATAGATCTTATCTCTCTGAAGTTG
1 AATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGTAATAGATCTTATCTCTCTGAAGTTG
* * * * * * * *
8778704 CAGTAGAGTGGATCGCACCAAGTCTTATCTCCCTGAGTTTACAGTGGAGCAGACTAAGAAAGCAA
66 CAGTAGAGTGGATCGCATCAGGTCTTATCTCCCTGAGGTTGCAGCGGAGCAGACTGAGTAAGCAG
* *
8778769 GTCTTATTCCCCTAAAGTTGCA
131 GTCTTATCCCCCTGAAGTTGCA
8778791 ATGGAGCAGA
Statistics
Matches: 340, Mismatches: 29, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
217 179 0.53
218 161 0.47
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (218 bp):
AATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGTAATAGATCTTATCTCTCTGAAGTTG
CAGTAGAGTGGATCGCATCAGGTCTTATCTCCCTGAGGTTGCAGCGGAGCAGACTGAGTAAGCAG
GTCTTATCCCCCTGAAGTTGCAGTGGGACAGATCGAAGATAGCAAATCTTATCTCCCTGAGGTTG
CAGTGGAACAGATTGAAGCCAAT
Found at i:8779590 original size:27 final size:28
Alignment explanation
Indices: 8779537--8779591 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 28
8779527 CCCAAAATCT
*
8779537 AACCCAATTAACCTAGCCCAATATAAAC
1 AACCCAATTAACCTAGCCCAACATAAAC
* * *
8779565 AACCC-ATTAATCTAGCCCGACCTAAAC
1 AACCCAATTAACCTAGCCCAACATAAAC
8779592 CCGATTTTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
27 18 0.78
28 5 0.22
ACGTcount: A:0.42, C:0.35, G:0.05, T:0.18
Consensus pattern (28 bp):
AACCCAATTAACCTAGCCCAACATAAAC
Found at i:8780801 original size:3 final size:3
Alignment explanation
Indices: 8780787--8780823 Score: 56
Period size: 3 Copynumber: 12.0 Consensus size: 3
8780777 GTATTAGCAT
*
8780787 TTA TTA TCA TTA TTA TTA TTA TTAA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA
8780824 GTTTTATTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:8780814 original size:22 final size:22
Alignment explanation
Indices: 8780789--8780831 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
8780779 ATTAGCATTT
8780789 ATTATCATTATTA-TTATTATTA
1 ATTATCATTATTAGTT-TTATTA
*
8780811 ATTATTATTATTAGTTTTATT
1 ATTATCATTATTAGTTTTATT
8780832 TGCCCTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (22 bp):
ATTATCATTATTAGTTTTATTA
Found at i:8781037 original size:4 final size:4
Alignment explanation
Indices: 8781028--8781062 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
8781018 CTATATACAT
8781028 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
8781063 TATGTATCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:8789684 original size:22 final size:22
Alignment explanation
Indices: 8789652--8789694 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
8789642 AATACGGAGT
* *
8789652 ATATCAGATACAGATGCAGAAC
1 ATATCAAATACAAATGCAGAAC
8789674 ATATCAAATACAAATGCAGAA
1 ATATCAAATACAAATGCAGAA
8789695 TGCTACCCTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.51, C:0.16, G:0.14, T:0.19
Consensus pattern (22 bp):
ATATCAAATACAAATGCAGAAC
Found at i:8790743 original size:46 final size:46
Alignment explanation
Indices: 8790691--8790783 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
8790681 AGCCATACCT
8790691 AACCATCCATACCATTTGGGCACACATTCAAGAGATTTAAAACATC
1 AACCATCCATACCATTTGGGCACACATTCAAGAGATTTAAAACATC
8790737 AACCATCCATACCATTTGGGCACACATTCAAGAGATTTAAAACATC
1 AACCATCCATACCATTTGGGCACACATTCAAGAGATTTAAAACATC
8790783 A
1 A
8790784 TTCAAACACA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.40, C:0.26, G:0.11, T:0.24
Consensus pattern (46 bp):
AACCATCCATACCATTTGGGCACACATTCAAGAGATTTAAAACATC
Found at i:8794756 original size:17 final size:18
Alignment explanation
Indices: 8794721--8794757 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
8794711 ATATAGTTAA
8794721 TAAAACTATAATTTGTGT
1 TAAAACTATAATTTGTGT
8794739 TAAAA-TATAAATTT-TGT
1 TAAAACTAT-AATTTGTGT
8794756 TA
1 TA
8794758 TGTACCAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.43, C:0.03, G:0.08, T:0.46
Consensus pattern (18 bp):
TAAAACTATAATTTGTGT
Found at i:8798502 original size:49 final size:49
Alignment explanation
Indices: 8798403--8798502 Score: 139
Period size: 49 Copynumber: 2.0 Consensus size: 49
8798393 TTATTTTATT
* * * *
8798403 TTAGAATAAGGTTTTTCAACCTTATTACACTTCATCTATTTGATATTGA
1 TTAGAATAAGGTGTTTCAACCTTACTACACTCCATCTATTAGATATTGA
*
8798452 TTAGAATAAGGTGTTTCAACCTTACTACACTCCTTCTATTAGA-ATATGA
1 TTAGAATAAGGTGTTTCAACCTTACTACACTCCATCTATTAGATAT-TGA
8798501 TT
1 TT
8798503 TTTCAAGTCT
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
48 2 0.04
49 43 0.96
ACGTcount: A:0.31, C:0.16, G:0.11, T:0.42
Consensus pattern (49 bp):
TTAGAATAAGGTGTTTCAACCTTACTACACTCCATCTATTAGATATTGA
Found at i:8802602 original size:40 final size:40
Alignment explanation
Indices: 8802558--8802638 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
8802548 TGTTGTGAGC
8802558 AAACTTAGTACTCATGAAAATCCTACAGATATGATGACTA
1 AAACTTAGTACTCATGAAAATCCTACAGATATGATGACTA
8802598 AAACTTAGTACTCATGAAAATCCTACAGATATGATGACTA
1 AAACTTAGTACTCATGAAAATCCTACAGATATGATGACTA
8802638 A
1 A
8802639 GTCACTTCCC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.43, C:0.17, G:0.12, T:0.27
Consensus pattern (40 bp):
AAACTTAGTACTCATGAAAATCCTACAGATATGATGACTA
Found at i:8806669 original size:149 final size:149
Alignment explanation
Indices: 8806399--8806696 Score: 542
Period size: 149 Copynumber: 2.0 Consensus size: 149
8806389 TCCCTCTACC
* * *
8806399 ATAAAATTCTCCATCCATGGAGGTCTCCTCTTGTTACTTTAAGGACTATCAATTTGTTGGTTCAG
1 ATAAAATTCTCCATCCATGGAGGTCTCCTCTTGTTACGTTAAGGACGATCAATTTGTTAGTTCAG
*
8806464 CTACTTGTTGCTCATTTTGCACTCGCTCTATTGGATGTTGCCTTTCATCTTCATTTTCACCATCA
66 CTACTTGTTGCTCATTTTGCACTCGCTCTATTGGATATTGCCTTTCATCTTCATTTTCACCATCA
8806529 AAGTTAGCTTGTATTTATT
131 AAGTTAGCTTGTATTTATT
*
8806548 ATAAAATTCTCCATCCATGGAGGTCTCCTCTTGTTACGTTCAGGACGATCAATTTGTTAGTTCAG
1 ATAAAATTCTCCATCCATGGAGGTCTCCTCTTGTTACGTTAAGGACGATCAATTTGTTAGTTCAG
*
8806613 CTACTTGTTGCTCATTTTGCACTCGCTTTATTGGATATTGCCTTTCATCTTCATTTTCACCATCA
66 CTACTTGTTGCTCATTTTGCACTCGCTCTATTGGATATTGCCTTTCATCTTCATTTTCACCATCA
8806678 AAGTTAGCTTGTATTTATT
131 AAGTTAGCTTGTATTTATT
8806697 GTTCACCTCG
Statistics
Matches: 143, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
149 143 1.00
ACGTcount: A:0.21, C:0.21, G:0.15, T:0.43
Consensus pattern (149 bp):
ATAAAATTCTCCATCCATGGAGGTCTCCTCTTGTTACGTTAAGGACGATCAATTTGTTAGTTCAG
CTACTTGTTGCTCATTTTGCACTCGCTCTATTGGATATTGCCTTTCATCTTCATTTTCACCATCA
AAGTTAGCTTGTATTTATT
Found at i:8811748 original size:42 final size:42
Alignment explanation
Indices: 8811616--8812013 Score: 498
Period size: 42 Copynumber: 9.4 Consensus size: 42
8811606 ACGTCGCTAA
* * **
8811616 CTTTTGCGGCGCTTACAGAAAAAAACATCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTT--AGGAAAAAACGCCGCTAAAGATCATGTT
* * *
8811660 CTTTAGCGGCGCTAAGGAAATAAATGCCACTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGGAAA-AAACGCCGCTAAAGATCATGTT
*
8811703 CTTTAGCGGCGCTTACGAAAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTT
*
8811745 CTTTAGCGGCGCTTACGAAAAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTA-GGAAAAAACGCCGCTAAAGATCATGTT
*
8811788 CTTTAGCGGCGCTTGGGAAAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTT
* * * *
8811830 CTTTAACGGCGCTTGGGAAAAAACTCCACTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTT
*
8811872 CTTTAGCGGCGCTTGGGAAAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTT
* *
8811914 CTTTAGCGGCGCTTAGGAAGAAAACACCGCTAAA-AGTAATGTT
1 CTTTAGCGGCGCTTAGGAA-AAAACGCCGCTAAAGA-TCATGTT
* * *
8811957 CTATAACGGCGCTT-GGTCAAAAACGCCGCTAACAG-T-AGTGTT
1 CTTTAGCGGCGCTTAGG-AAAAAACGCCGCTAA-AGATCA-TGTT
*
8811999 CTTTAGCAGCGCTTA
1 CTTTAGCGGCGCTTA
8812014 TTTCACAAAC
Statistics
Matches: 314, Mismatches: 31, Indels: 19
0.86 0.09 0.05
Matches are distributed among these distances:
41 1 0.00
42 193 0.61
43 108 0.34
44 12 0.04
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (42 bp):
CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTT
Found at i:8811778 original size:85 final size:85
Alignment explanation
Indices: 8811616--8812013 Score: 500
Period size: 85 Copynumber: 4.7 Consensus size: 85
8811606 ACGTCGCTAA
* * ** * *
8811616 CTTTTGCGGCGCTTACAGAAAAAAACATCGCTAAAGATCATGTTCTTTAGCGGCGCTAAGGAAAT
1 CTTTAGCGGCGCTT--AGGAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAAA
*
8811681 AAATGCCACTAAAGATCATGTT
64 AAACGCCACTAAAGATCATGTT
* *
8811703 CTTTAGCGGCGCTTACGAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTACGAAAAAA
1 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAAAAA
*
8811768 ACGCCGCTAAAGATCATGTT
66 ACGCCACTAAAGATCATGTT
* * *
8811788 CTTTAGCGGCGCTTGGGAAAAAACGCCGCTAAAGATCATGTTCTTTAACGGCGCTT-GGGAAAAA
1 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAAAAA
*
8811852 ACTCCACTAAAGATCATGTT
66 ACGCCACTAAAGATCATGTT
* *
8811872 CTTTAGCGGCGCTTGGGAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAGAAA
1 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAAAAA
* * *
8811937 ACACCGCTAAA-AGTAATGTT
66 ACGCCACTAAAGA-TCATGTT
* * * *
8811957 CTATAACGGCGCTT-GGTCAAAAACGCCGCTAACAG-T-AGTGTTCTTTAGCAGCGCTTA
1 CTTTAGCGGCGCTTAGG-AAAAAACGCCGCTAA-AGATCA-TGTTCTTTAGCGGCGCTTA
8812014 TTTCACAAAC
Statistics
Matches: 279, Mismatches: 27, Indels: 12
0.88 0.08 0.04
Matches are distributed among these distances:
84 83 0.30
85 181 0.65
86 2 0.01
87 13 0.05
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (85 bp):
CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAAAAA
ACGCCACTAAAGATCATGTT
Found at i:8812001 original size:169 final size:170
Alignment explanation
Indices: 8811635--8812013 Score: 543
Period size: 169 Copynumber: 2.2 Consensus size: 170
8811625 CGCTTACAGA
** *
8811635 AAAAAACATCGCTAAAGATCATGTTCTTTAGCGGCGCTAAGGAAATAAATGCCACTAAAGATCAT
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAATAAATGCCACTAAAGATCAT
8811700 GTTCTTTAGCGGCGCTTACGAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTACGAAA
66 GTTCTTTAGCGGCGCTTACGAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTACGAAA
* * * *
8811765 AAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTGGG
131 AAAACACCGCTAAAGATAATGTTCTATAACGGCGCTTGGG
* *
8811805 AAAAAACGCCGCTAAAGATCATGTTCTTTAACGGCGCTTGGGAAA-AAACT-CCACTAAAGATCA
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAATAAA-TGCCACTAAAGATCA
** *
8811868 TGTTCTTTAGCGGCGCTTGGGAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAA
65 TGTTCTTTAGCGGCGCTTACGAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTACGAA
* *
8811933 GAAAACACCGCTAAA-AGTAATGTTCTATAACGGCGCTTGGT
130 AAAAACACCGCTAAAGA-TAATGTTCTATAACGGCGCTTGGG
* *
8811974 CAAAAACGCCGCTAACAG-T-AGTGTTCTTTAGCAGCGCTTA
1 AAAAAACGCCGCTAA-AGATCA-TGTTCTTTAGCGGCGCTTA
8812014 TTTCACAAAC
Statistics
Matches: 187, Mismatches: 18, Indels: 9
0.87 0.08 0.04
Matches are distributed among these distances:
168 2 0.01
169 142 0.76
170 43 0.23
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (170 bp):
AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAATAAATGCCACTAAAGATCAT
GTTCTTTAGCGGCGCTTACGAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTACGAAA
AAAACACCGCTAAAGATAATGTTCTATAACGGCGCTTGGG
Found at i:8812485 original size:21 final size:21
Alignment explanation
Indices: 8812461--8812508 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
8812451 GCTTCTATCG
* *
8812461 CTGCTTCTCTCGCTGTAGCCT
1 CTGCTTCCCTCGCTGCAGCCT
*
8812482 CTGCTTCCCTCGCTGCCGCCT
1 CTGCTTCCCTCGCTGCAGCCT
8812503 CTGCTT
1 CTGCTT
8812509 TAAGTTGTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.02, C:0.44, G:0.19, T:0.35
Consensus pattern (21 bp):
CTGCTTCCCTCGCTGCAGCCT
Found at i:8818037 original size:9 final size:9
Alignment explanation
Indices: 8818023--8818235 Score: 144
Period size: 9 Copynumber: 24.2 Consensus size: 9
8818013 TTTTTATGTA
8818023 TTATGTAAG
1 TTATGTAAG
*
8818032 TTATGTAAC
1 TTATGTAAG
*
8818041 TTACGTAAG
1 TTATGTAAG
* *
8818050 TTAT-CAAA
1 TTATGTAAG
*
8818058 TTAATGTATG
1 TT-ATGTAAG
8818068 TTATGTAAG
1 TTATGTAAG
8818077 -T-TGTAAG
1 TTATGTAAG
8818084 TTATTTTGT-A-
1 TTA---TGTAAG
8818094 TTATGTAAG
1 TTATGTAAG
8818103 TTATGTAAG
1 TTATGTAAG
8818112 TTATGT-A-
1 TTATGTAAG
*
8818119 TTATGTAGG
1 TTATGTAAG
8818128 TTATGTAAG
1 TTATGTAAG
*
8818137 TTGTGTAAG
1 TTATGTAAG
* *
8818146 ATATTTAAG
1 TTATGTAAG
8818155 TTATGTAAG
1 TTATGTAAG
*
8818164 TTTTGTAA-
1 TTATGTAAG
8818172 -TATGTAAG
1 TTATGTAAG
*
8818180 TTATGTATG
1 TTATGTAAG
*
8818189 CTATGT-A-
1 TTATGTAAG
*
8818196 TAATGTAAGTTG
1 TTATGTAA---G
*
8818208 TTATGTTA-
1 TTATGTAAG
8818216 TTATGTAAG
1 TTATGTAAG
*
8818225 TTATGCAAG
1 TTATGTAAG
8818234 TT
1 TT
8818236 TAAATATAAG
Statistics
Matches: 156, Mismatches: 29, Indels: 38
0.70 0.13 0.17
Matches are distributed among these distances:
7 25 0.16
8 16 0.10
9 99 0.63
10 6 0.04
11 1 0.01
12 9 0.06
ACGTcount: A:0.31, C:0.02, G:0.20, T:0.47
Consensus pattern (9 bp):
TTATGTAAG
Found at i:8818124 original size:25 final size:25
Alignment explanation
Indices: 8818017--8818206 Score: 135
Period size: 25 Copynumber: 7.7 Consensus size: 25
8818007 GATATATTTT
*
8818017 TATGTATTATGTAAGTTATGTAACT
1 TATGTATTATGTAAGTTATGTAAGT
* * * *
8818042 TACGTAAGTTAT-CAAATTAATGTATGT
1 TATGT-A-TTATGTAAGTT-ATGTAAGT
*
8818069 TATGTAAGT-TGTAAGTTA--T---T
1 TATGT-ATTATGTAAGTTATGTAAGT
8818089 T-TGTATTATGTAAGTTATGTAAGT
1 TATGTATTATGTAAGTTATGTAAGT
*
8818113 TATGTATTATGTAGGTTATGTAAGT
1 TATGTATTATGTAAGTTATGTAAGT
* * *
8818138 TGTGTAAGATATTTAAGTTATGTAAGT
1 TATGT-A-TTATGTAAGTTATGTAAGT
* * * *
8818165 TTTGTAATATGTAAGTTATGTATGC
1 TATGTATTATGTAAGTTATGTAAGT
*
8818190 TATGTATAATGTAAGTT
1 TATGTATTATGTAAGTT
8818207 GTTATGTTAT
Statistics
Matches: 130, Mismatches: 22, Indels: 26
0.73 0.12 0.15
Matches are distributed among these distances:
18 2 0.02
19 12 0.09
20 2 0.02
21 1 0.01
23 1 0.01
24 2 0.02
25 62 0.48
26 12 0.09
27 36 0.28
ACGTcount: A:0.32, C:0.02, G:0.19, T:0.47
Consensus pattern (25 bp):
TATGTATTATGTAAGTTATGTAAGT
Found at i:8818367 original size:13 final size:15
Alignment explanation
Indices: 8818348--8818388 Score: 59
Period size: 13 Copynumber: 2.8 Consensus size: 15
8818338 CATATAAGTT
8818348 TATGTAAGTTATG-A
1 TATGTAAGTTATGTA
8818362 -ATGTAAGTTATGTA
1 TATGTAAGTTATGTA
8818376 TTATGTAAGTTAT
1 -TATGTAAGTTAT
8818389 TTAAATTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 12 0.50
14 1 0.04
16 11 0.46
ACGTcount: A:0.34, C:0.00, G:0.20, T:0.46
Consensus pattern (15 bp):
TATGTAAGTTATGTA
Found at i:8818383 original size:16 final size:16
Alignment explanation
Indices: 8818347--8818425 Score: 74
Period size: 16 Copynumber: 5.0 Consensus size: 16
8818337 ACATATAAGT
8818347 TTATGTAAGTTATG-A
1 TTATGTAAGTTATGTA
8818362 --ATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
*
8818376 TTATGTAAGTTATTTAAA
1 TTATGTAAGTTATGT--A
* *
8818394 TTATTTAAGTTGTGTA
1 TTATGTAAGTTATGTA
* *
8818410 TTATATAAGTCATGTA
1 TTATGTAAGTTATGTA
8818426 GGCTATGTGT
Statistics
Matches: 52, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
13 12 0.23
14 1 0.02
16 26 0.50
18 13 0.25
ACGTcount: A:0.34, C:0.01, G:0.16, T:0.48
Consensus pattern (16 bp):
TTATGTAAGTTATGTA
Found at i:8823822 original size:41 final size:41
Alignment explanation
Indices: 8823715--8823827 Score: 129
Period size: 41 Copynumber: 2.8 Consensus size: 41
8823705 TTTTGTAACT
*
8823715 ATTAGCGGCGCTTAGATATAAACGCCGCTAAAGGCCAGAGA
1 ATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGCCAGAGA
* * * * * *
8823756 ATTAGTGGCGCTCAGATAAATACGCCACTAAAGATCC-GAGC
1 ATTAGCGGCGCTTAGATAAAAACGCCGCTAAAG-GCCAGAGA
* *
8823797 ATTAGCGGCGCTTAAACAAAAACGCCGCTAA
1 ATTAGCGGCGCTTAGATAAAAACGCCGCTAA
8823828 CGGCGCTTAA
Statistics
Matches: 58, Mismatches: 13, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
41 56 0.97
42 2 0.03
ACGTcount: A:0.35, C:0.24, G:0.23, T:0.18
Consensus pattern (41 bp):
ATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGCCAGAGA
Found at i:8823831 original size:26 final size:26
Alignment explanation
Indices: 8823802--8823857 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
8823792 CGAGCATTAG
8823802 CGGCGCTTAAACAAAAACGCCGCTAA
1 CGGCGCTTAAACAAAAACGCCGCTAA
*
8823828 CGGCGCTTAAGCAAAAACGCCGCTAA
1 CGGCGCTTAAACAAAAACGCCGCTAA
8823854 CGGC
1 CGGC
8823858 CATAGGATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.34, C:0.32, G:0.23, T:0.11
Consensus pattern (26 bp):
CGGCGCTTAAACAAAAACGCCGCTAA
Found at i:8823885 original size:41 final size:41
Alignment explanation
Indices: 8823840--8823937 Score: 126
Period size: 41 Copynumber: 2.4 Consensus size: 41
8823830 GCGCTTAAGC
* * * *
8823840 AAAAACGCCGCTAACG-GCCATAGGATTAGCGGCGCTCAAAT
1 AAAAACGCCGCTAAAGAGCC-GAGCATTAGCAGCGCTCAAAT
*
8823881 AAAAACGCCGCTAAAGATCCGAGCATTAGCAGCGCTCAAAT
1 AAAAACGCCGCTAAAGAGCCGAGCATTAGCAGCGCTCAAAT
*
8823922 AAAAATGCCGCTAAAG
1 AAAAACGCCGCTAAAG
8823938 GTTTAAAAAT
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
41 48 0.96
42 2 0.04
ACGTcount: A:0.39, C:0.26, G:0.21, T:0.14
Consensus pattern (41 bp):
AAAAACGCCGCTAAAGAGCCGAGCATTAGCAGCGCTCAAAT
Found at i:8823909 original size:108 final size:108
Alignment explanation
Indices: 8823734--8823935 Score: 305
Period size: 108 Copynumber: 1.9 Consensus size: 108
8823724 GCTTAGATAT
* * *
8823734 AAACGCCGCTAAAGGCCAGAGAATTAGTGGCGCTCAGATAAATACGCCACTAAAGATCCGAGCAT
1 AAACGCCGCTAAAGGCCAGAGAATTAGCGGCGCTCAAATAAAAACGCCACTAAAGATCCGAGCAT
* *
8823799 TAGCGGCGCTTAAACAAAAACGCCGCTAACGGCGCTTAAGCAA
66 TAGCAGCGCTCAAACAAAAACGCCGCTAACGGCGCTTAAGCAA
* * * *
8823842 AAACGCCGCTAACGGCCATAGGATTAGCGGCGCTCAAATAAAAACGCCGCTAAAGATCCGAGCAT
1 AAACGCCGCTAAAGGCCAGAGAATTAGCGGCGCTCAAATAAAAACGCCACTAAAGATCCGAGCAT
* *
8823907 TAGCAGCGCTCAAATAAAAATGCCGCTAA
66 TAGCAGCGCTCAAACAAAAACGCCGCTAA
8823936 AGGTTTAAAA
Statistics
Matches: 83, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
108 83 1.00
ACGTcount: A:0.37, C:0.26, G:0.22, T:0.15
Consensus pattern (108 bp):
AAACGCCGCTAAAGGCCAGAGAATTAGCGGCGCTCAAATAAAAACGCCACTAAAGATCCGAGCAT
TAGCAGCGCTCAAACAAAAACGCCGCTAACGGCGCTTAAGCAA
Found at i:8826299 original size:28 final size:27
Alignment explanation
Indices: 8826268--8826325 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
8826258 AAAAAGGTCA
8826268 TTTTTTTTAAATATTACAAAAATAAACC
1 TTTTTTTTAAAT-TTACAAAAATAAACC
* *
8826296 TTTTTTTTAAATTTACGAAAATAAGCC
1 TTTTTTTTAAATTTACAAAAATAAACC
8826323 TTT
1 TTT
8826326 ATAAAGACCC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
27 16 0.57
28 12 0.43
ACGTcount: A:0.40, C:0.10, G:0.03, T:0.47
Consensus pattern (27 bp):
TTTTTTTTAAATTTACAAAAATAAACC
Found at i:8826922 original size:17 final size:16
Alignment explanation
Indices: 8826890--8826920 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
8826880 TGATATCTCT
8826890 TTTTTTAAAATATTTA
1 TTTTTTAAAATATTTA
8826906 TTTTTTAAAATATTT
1 TTTTTTAAAATATTT
8826921 TACTATACTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTTTTAAAATATTTA
Found at i:8829433 original size:17 final size:17
Alignment explanation
Indices: 8829407--8829444 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
8829397 ATCATTGTAA
*
8829407 ATATTTTATTATTTTAC
1 ATATTCTATTATTTTAC
*
8829424 ATATTCTATTATTTTAT
1 ATATTCTATTATTTTAC
8829441 ATAT
1 ATAT
8829445 ATTACACCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (17 bp):
ATATTCTATTATTTTAC
Found at i:8831557 original size:17 final size:17
Alignment explanation
Indices: 8831526--8831559 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
8831516 ATTACAAAAT
*
8831526 CAAATCTTATCAGATTA
1 CAAATCTTATAAGATTA
*
8831543 CAAATCTTCTAAGATTA
1 CAAATCTTATAAGATTA
8831560 TTTTCCATAT
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:0.41, C:0.18, G:0.06, T:0.35
Consensus pattern (17 bp):
CAAATCTTATAAGATTA
Found at i:8834027 original size:10 final size:10
Alignment explanation
Indices: 8834014--8834075 Score: 51
Period size: 10 Copynumber: 6.3 Consensus size: 10
8834004 AGAAATACAA
8834014 AAAAATTTAT
1 AAAAATTTAT
*
8834024 AAAATTTTAT
1 AAAAATTTAT
8834034 -AAAA--TAGT
1 AAAAATTTA-T
*
8834042 ATAAATTTAT
1 AAAAATTTAT
8834052 AAAAATTGTA-
1 AAAAATT-TAT
8834062 AAAAATATTAT
1 AAAAAT-TTAT
8834073 AAA
1 AAA
8834076 TAATGATAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 13
0.71 0.07 0.22
Matches are distributed among these distances:
7 2 0.05
8 1 0.02
9 6 0.15
10 24 0.59
11 8 0.20
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (10 bp):
AAAAATTTAT
Found at i:8834037 original size:19 final size:19
Alignment explanation
Indices: 8834015--8834075 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
8834005 GAAATACAAA
8834015 AAAATTTATAAAATTTTAT
1 AAAATTTATAAAATTTTAT
*
8834034 AAAATAGTAT-AAA-TTTAT
1 AAAAT-TTATAAAATTTTAT
* *
8834052 AAAAATTGTAAAAAATATTAT
1 -AAAATT-TATAAAATTTTAT
8834073 AAA
1 AAA
8834076 TAATGATAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 9
0.72 0.09 0.20
Matches are distributed among these distances:
18 5 0.15
19 15 0.45
20 9 0.27
21 4 0.12
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (19 bp):
AAAATTTATAAAATTTTAT
Found at i:8834056 original size:29 final size:28
Alignment explanation
Indices: 8834016--8834076 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 28
8834006 AAATACAAAA
* *
8834016 AAATTTATAAAATTTTATAAAATAGTAT
1 AAATTTATAAAATTGTAAAAAATAGTAT
*
8834044 AAATTTATAAAAATTGTAAAAAATATTAT
1 AAATTTAT-AAAATTGTAAAAAATAGTAT
8834073 AAAT
1 AAAT
8834077 AATGATAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 8 0.28
29 21 0.72
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.39
Consensus pattern (28 bp):
AAATTTATAAAATTGTAAAAAATAGTAT
Found at i:8834085 original size:39 final size:38
Alignment explanation
Indices: 8833927--8834085 Score: 105
Period size: 39 Copynumber: 4.2 Consensus size: 38
8833917 TTCTAATTAT
* *
8833927 TATAAATATATAAAAAATTT--AAAA-ATTAGAACAAT-A
1 TATAAATACA-AAAAAATTTAAAAAATATTATAA-AATAA
* * *
8833963 TATATAAT-CACAAAAATTATAAAAAAAATTATGAAATATA
1 TATA-AATACAAAAAAATT-TAAAAAATATTATAAAATA-A
* * * *
8834003 TAGAAATACAAAAAAATTTATAAAATTTTATAAAATAG
1 TATAAATACAAAAAAATTTAAAAAATATTATAAAATAA
** *
8834041 TATAAATTTATAAAAATTGTAAAAAATATTAT-AAATAA
1 TATAAATACAAAAAAATT-TAAAAAATATTATAAAATAA
8834079 TGATAAA
1 T-ATAAA
8834086 ATTAGGTAGA
Statistics
Matches: 95, Mismatches: 18, Indels: 17
0.73 0.14 0.13
Matches are distributed among these distances:
35 7 0.07
36 6 0.06
37 3 0.03
38 27 0.28
39 39 0.41
40 13 0.14
ACGTcount: A:0.62, C:0.03, G:0.04, T:0.32
Consensus pattern (38 bp):
TATAAATACAAAAAAATTTAAAAAATATTATAAAATAA
Found at i:8839713 original size:40 final size:41
Alignment explanation
Indices: 8839636--8839723 Score: 115
Period size: 40 Copynumber: 2.2 Consensus size: 41
8839626 CATTATGGAA
* * *
8839636 TACTGAATATTGTTTTTGAGTACTAAATTGAATTGTGAAGT
1 TACTGAATATTGTTTATGAGTACTAAATTGAACTGTGAAAT
* **
8839677 TACTGAATATTG-TTATGTGTACTGCATTGAACTGTGAAAT
1 TACTGAATATTGTTTATGAGTACTAAATTGAACTGTGAAAT
8839717 TACTGAA
1 TACTGAA
8839724 GTAATGAATT
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
40 29 0.71
41 12 0.29
ACGTcount: A:0.32, C:0.08, G:0.19, T:0.41
Consensus pattern (41 bp):
TACTGAATATTGTTTATGAGTACTAAATTGAACTGTGAAAT
Found at i:8840277 original size:35 final size:35
Alignment explanation
Indices: 8840238--8840308 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
8840228 TTCCCATTTA
8840238 AGTACAAAACATGTGTATGCTTTGCCATTCATCTT
1 AGTACAAAACATGTGTATGCTTTGCCATTCATCTT
8840273 AGTACAAAACATGTGTATGCTTTGCCATTCATCTT
1 AGTACAAAACATGTGTATGCTTTGCCATTCATCTT
8840308 A
1 A
8840309 TCTTCTATTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.37
Consensus pattern (35 bp):
AGTACAAAACATGTGTATGCTTTGCCATTCATCTT
Found at i:8847119 original size:13 final size:14
Alignment explanation
Indices: 8847097--8847127 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
8847087 TTTATTTTTT
8847097 AAAAAGCACTTCTC
1 AAAAAGCACTTCTC
8847111 AAAAA-CACTTCTC
1 AAAAAGCACTTCTC
8847124 AAAA
1 AAAA
8847128 GTAATTTTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.52, C:0.26, G:0.03, T:0.19
Consensus pattern (14 bp):
AAAAAGCACTTCTC
Found at i:8850034 original size:35 final size:34
Alignment explanation
Indices: 8849991--8850057 Score: 89
Period size: 35 Copynumber: 1.9 Consensus size: 34
8849981 TGAATTTCGA
** *
8849991 TTTATTTAATTTTTTTATTTAATCAATTTTTATG
1 TTTATTTAATTGGTTTATTCAATCAATTTTTATG
*
8850025 TTTAGTTTAATTGGTTTATTCGATCAATTTTTA
1 TTTA-TTTAATTGGTTTATTCAATCAATTTTTA
8850058 ATTTTAATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 4 0.14
35 24 0.86
ACGTcount: A:0.25, C:0.04, G:0.07, T:0.63
Consensus pattern (34 bp):
TTTATTTAATTGGTTTATTCAATCAATTTTTATG
Found at i:8850758 original size:29 final size:30
Alignment explanation
Indices: 8850687--8850768 Score: 85
Period size: 31 Copynumber: 2.7 Consensus size: 30
8850677 CTAGATTTTT
* * *
8850687 TTTTATACATGAACTATGATTTAATGTGTAA
1 TTTTATACATGAACTTTGA-TTAATGAGCAA
* *
8850718 TTGTATACATGAACTTTGATT-CTGAGCAA
1 TTTTATACATGAACTTTGATTAATGAGCAA
*
8850747 TTTTATACATGAAATTTTGATT
1 TTTTATACATG-AACTTTGATT
8850769 TGATCAAATT
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
29 15 0.35
30 11 0.26
31 17 0.40
ACGTcount: A:0.33, C:0.09, G:0.13, T:0.45
Consensus pattern (30 bp):
TTTTATACATGAACTTTGATTAATGAGCAA
Found at i:8867166 original size:3 final size:3
Alignment explanation
Indices: 8867158--8867193 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
8867148 ATATCCATTG
8867158 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
8867194 GTTTTAAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:8885225 original size:45 final size:45
Alignment explanation
Indices: 8885127--8885226 Score: 132
Period size: 45 Copynumber: 2.2 Consensus size: 45
8885117 TTACATTCGA
* * *
8885127 ACTCATACATGTGAATTCATAGAAGAAGCTTCATAGATATGTCAG
1 ACTCATACATGTGAATTCATAGAAGAAGATTCATAGACATGTAAG
*
8885172 ACTAATACATGCT-AATTCATAGAAGAAGATTCATAGACATG-AAGG
1 ACTCATACATG-TGAATTCATAGAAGAAGATTCATAGACATGTAA-G
8885217 ACTCATACAT
1 ACTCATACAT
8885227 ACAAATTTAT
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
44 1 0.02
45 46 0.96
46 1 0.02
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.27
Consensus pattern (45 bp):
ACTCATACATGTGAATTCATAGAAGAAGATTCATAGACATGTAAG
Found at i:8889309 original size:41 final size:41
Alignment explanation
Indices: 8889054--8889280 Score: 409
Period size: 41 Copynumber: 5.5 Consensus size: 41
8889044 TTTAACATAT
* * *
8889054 TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGA
1 TCACCGGCACGTAGCCTGCTAGGTTTATAACCTGATTCAGA
8889095 TCACCGGCACGTAGCCTGCTAGGTTTATAACCTGATTCAGA
1 TCACCGGCACGTAGCCTGCTAGGTTTATAACCTGATTCAGA
*
8889136 TCACCGGCACGTAGCCTGCTAGGTTTATAACTTGATTCAGA
1 TCACCGGCACGTAGCCTGCTAGGTTTATAACCTGATTCAGA
*
8889177 TCACCGGCACGTAGCCTGCTAGGTTTATAACCTAATTCAGA
1 TCACCGGCACGTAGCCTGCTAGGTTTATAACCTGATTCAGA
8889218 TCACCGGCACGTAGCCTGCTAGGTTTATAACCTGATTCAGA
1 TCACCGGCACGTAGCCTGCTAGGTTTATAACCTGATTCAGA
8889259 TCACCGGCACGTAGCCTGCTAG
1 TCACCGGCACGTAGCCTGCTAG
8889281 ACTTAAAGTC
Statistics
Matches: 179, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 179 1.00
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (41 bp):
TCACCGGCACGTAGCCTGCTAGGTTTATAACCTGATTCAGA
Found at i:8897182 original size:41 final size:41
Alignment explanation
Indices: 8896968--8897153 Score: 345
Period size: 41 Copynumber: 4.5 Consensus size: 41
8896958 TTTAACATAT
* * *
8896968 TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGA
1 TCACCGGCACGTAGCCTGCTAGGTTTATAACCTGATTCAGA
8897009 TCACCGGCACGTAGCCTGCTAGGTTTATAACCTGATTCAGA
1 TCACCGGCACGTAGCCTGCTAGGTTTATAACCTGATTCAGA
8897050 TCACCGGCACGTAGCCTGCTAGGTTTATAACCTGATTCAGA
1 TCACCGGCACGTAGCCTGCTAGGTTTATAACCTGATTCAGA
8897091 TCACCGGCACGTAGCCTGCTAGGTTTATAACCTGATTCAGA
1 TCACCGGCACGTAGCCTGCTAGGTTTATAACCTGATTCAGA
8897132 TCACCGGCACGTAGCCTGCTAG
1 TCACCGGCACGTAGCCTGCTAG
8897154 ACTTAAAGTC
Statistics
Matches: 142, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 142 1.00
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (41 bp):
TCACCGGCACGTAGCCTGCTAGGTTTATAACCTGATTCAGA
Found at i:8906345 original size:19 final size:19
Alignment explanation
Indices: 8906321--8906360 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
8906311 CTCAAAGAGC
8906321 TTAGTAAGTACATTTAGAT
1 TTAGTAAGTACATTTAGAT
8906340 TTAGTAAGTACATTTAGAT
1 TTAGTAAGTACATTTAGAT
8906359 TT
1 TT
8906361 CTTATCTTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.35, C:0.05, G:0.15, T:0.45
Consensus pattern (19 bp):
TTAGTAAGTACATTTAGAT
Found at i:8906768 original size:25 final size:25
Alignment explanation
Indices: 8906721--8906768 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
8906711 TGAATTTTTA
* * *
8906721 AGGTTAAAATGGTAATTTGATTATT
1 AGGTTAAAATAGTAAGTTAATTATT
*
8906746 AGGTTAAAATATTAAGTTAATTA
1 AGGTTAAAATAGTAAGTTAATTA
8906769 AAAGGAAATA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.17, T:0.42
Consensus pattern (25 bp):
AGGTTAAAATAGTAAGTTAATTATT
Found at i:8907571 original size:20 final size:20
Alignment explanation
Indices: 8907546--8907613 Score: 66
Period size: 20 Copynumber: 3.4 Consensus size: 20
8907536 CATACGTGCT
8907546 CCTGTTTGTACTTCGGTACC
1 CCTGTTTGTACTTCGGTACC
* * *
8907566 CCTGTTTGCACATAC-GTGCC
1 CCTGTTTGTAC-TTCGGTACC
* * *
8907586 ACTGTTTATACTTCGATACC
1 CCTGTTTGTACTTCGGTACC
8907606 CCTGTTTG
1 CCTGTTTG
8907614 CACATGTGGC
Statistics
Matches: 35, Mismatches: 11, Indels: 4
0.70 0.22 0.08
Matches are distributed among these distances:
19 2 0.06
20 31 0.89
21 2 0.06
ACGTcount: A:0.15, C:0.29, G:0.18, T:0.38
Consensus pattern (20 bp):
CCTGTTTGTACTTCGGTACC
Found at i:8907591 original size:40 final size:40
Alignment explanation
Indices: 8907534--8907618 Score: 136
Period size: 40 Copynumber: 2.1 Consensus size: 40
8907524 TGAATATTTT
* *
8907534 CACATACGTGCTCCTGTTTGTACTTCGGTACCCCTGTTTG
1 CACATACGTGCTCCTGTTTATACTTCGATACCCCTGTTTG
8907574 CACATACGTGC-CACTGTTTATACTTCGATACCCCTGTTTG
1 CACATACGTGCTC-CTGTTTATACTTCGATACCCCTGTTTG
8907614 CACAT
1 CACAT
8907619 GTGGCTAAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
39 1 0.02
40 41 0.98
ACGTcount: A:0.18, C:0.31, G:0.16, T:0.35
Consensus pattern (40 bp):
CACATACGTGCTCCTGTTTATACTTCGATACCCCTGTTTG
Found at i:8909300 original size:11 final size:11
Alignment explanation
Indices: 8909284--8909319 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
8909274 AAGAGAGAAT
*
8909284 GATGCTTGATG
1 GATGCTTGAGG
8909295 GATGCTTGAGG
1 GATGCTTGAGG
*
8909306 GATGATTGAGG
1 GATGCTTGAGG
8909317 GAT
1 GAT
8909320 ATGAATGAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.22, C:0.06, G:0.42, T:0.31
Consensus pattern (11 bp):
GATGCTTGAGG
Found at i:8912958 original size:17 final size:17
Alignment explanation
Indices: 8912936--8912968 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
8912926 GGAAGAGAAC
*
8912936 TTGCAACGGCAAAAATT
1 TTGCAACGACAAAAATT
8912953 TTGCAACGACAAAAAT
1 TTGCAACGACAAAAAT
8912969 ACAAAGTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.18, G:0.15, T:0.21
Consensus pattern (17 bp):
TTGCAACGACAAAAATT
Found at i:8921087 original size:17 final size:19
Alignment explanation
Indices: 8921062--8921098 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
8921052 CCTTATTAAA
*
8921062 TTATGCCATT-AA-CCATT
1 TTATACCATTCAAGCCATT
8921079 TTATACCATTCAAGCCATT
1 TTATACCATTCAAGCCATT
8921098 T
1 T
8921099 ACTCCAAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 9 0.53
18 2 0.12
19 6 0.35
ACGTcount: A:0.30, C:0.24, G:0.05, T:0.41
Consensus pattern (19 bp):
TTATACCATTCAAGCCATT
Found at i:8926276 original size:8 final size:9
Alignment explanation
Indices: 8926252--8926284 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
8926242 TATTTATCCT
*
8926252 TTATTTTTT
1 TTATTTTTC
8926261 TTATTTTTC
1 TTATTTTTC
8926270 TTATTTTTC
1 TTATTTTTC
8926279 TTATTT
1 TTATTT
8926285 CCTTTGTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.12, C:0.06, G:0.00, T:0.82
Consensus pattern (9 bp):
TTATTTTTC
Found at i:8930962 original size:21 final size:24
Alignment explanation
Indices: 8930936--8930987 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 24
8930926 TTTGAAATAA
8930936 AAATAAAATAAA-A-TTTAAAA-T
1 AAATAAAATAAACATTTTAAAATT
8930957 AAAT-AAATAAACATTTTAAAATT
1 AAATAAAATAAACATTTTAAAATT
*
8930980 AAAAAAAA
1 AAATAAAA
8930988 AGTAAAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 7 0.27
21 5 0.19
22 7 0.27
23 4 0.15
24 3 0.12
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (24 bp):
AAATAAAATAAACATTTTAAAATT
Found at i:8934551 original size:23 final size:23
Alignment explanation
Indices: 8934508--8934551 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
8934498 AAAATTCAAG
**
8934508 TCGAGTTAAATCAAATGAAATGT
1 TCGAGTTAAATCAAAAAAAATGT
*
8934531 TCGAGTTAAATTAAAAAAAAT
1 TCGAGTTAAATCAAAAAAAAT
8934552 TAAACATATC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.50, C:0.07, G:0.14, T:0.30
Consensus pattern (23 bp):
TCGAGTTAAATCAAAAAAAATGT
Found at i:8935259 original size:12 final size:11
Alignment explanation
Indices: 8935230--8935279 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
8935220 TTTAACTTTC
*
8935230 TTTATATATTT
1 TTTAAATATTT
8935241 TTTAAATATTT
1 TTTAAATATTT
*
8935252 TTTAAA-ATACT
1 TTTAAATAT-TT
8935263 TTTAAAT-TTT
1 TTTAAATATTT
8935273 TTATAAA
1 TT-TAAA
8935280 AAATATAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
10 5 0.15
11 28 0.85
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTAAATATTT
Found at i:8935311 original size:20 final size:20
Alignment explanation
Indices: 8935288--8935340 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
8935278 AAAAATATAA
*
8935288 ATTTTAGAATTATT-ATAATT
1 ATTTT-GAATTATTGAAAATT
*
8935308 ATTTTGAATTTTTGAAAATT
1 ATTTTGAATTATTGAAAATT
*
8935328 ATTTTGAACTATT
1 ATTTTGAATTATT
8935341 TTGTAATTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 7 0.25
20 21 0.75
ACGTcount: A:0.36, C:0.02, G:0.08, T:0.55
Consensus pattern (20 bp):
ATTTTGAATTATTGAAAATT
Found at i:8935442 original size:18 final size:18
Alignment explanation
Indices: 8935419--8935458 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
8935409 CACCAATTTT
8935419 TTATTTGAATTATCCAAA
1 TTATTTGAATTATCCAAA
* *
8935437 TTATTTGACTTATTCAAA
1 TTATTTGAATTATCCAAA
8935455 TTAT
1 TTAT
8935459 AAAATTCAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.35, C:0.10, G:0.05, T:0.50
Consensus pattern (18 bp):
TTATTTGAATTATCCAAA
Found at i:8938424 original size:12 final size:12
Alignment explanation
Indices: 8938409--8938448 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
8938399 AAGTTTTCGA
8938409 TTTTGGTTTTTG
1 TTTTGGTTTTTG
** *
8938421 TTTTGGGCTTGG
1 TTTTGGTTTTTG
8938433 TTTTGGTTTTTG
1 TTTTGGTTTTTG
8938445 TTTT
1 TTTT
8938449 ATTCGCCGGT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.00, C:0.03, G:0.28, T:0.70
Consensus pattern (12 bp):
TTTTGGTTTTTG
Found at i:8941470 original size:17 final size:17
Alignment explanation
Indices: 8941448--8941480 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
8941438 AAGTGCTTTT
8941448 AATAAAAAAAGAAAGAA
1 AATAAAAAAAGAAAGAA
*
8941465 AATAAAGAAAGAAAGA
1 AATAAAAAAAGAAAGA
8941481 GAAAAAAAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.79, C:0.00, G:0.15, T:0.06
Consensus pattern (17 bp):
AATAAAAAAAGAAAGAA
Found at i:8941810 original size:19 final size:19
Alignment explanation
Indices: 8941787--8941831 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
8941777 AAGGTGAGAC
* *
8941787 AAAAACAAAAACAGAAAATG
1 AAAAA-AAAAAAAGAAAAAG
8941807 AAAAAAAAAAAAGAAAAAG
1 AAAAAAAAAAAAGAAAAAG
8941826 AAAAAA
1 AAAAAA
8941832 GAAATATAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 18 0.78
20 5 0.22
ACGTcount: A:0.84, C:0.04, G:0.09, T:0.02
Consensus pattern (19 bp):
AAAAAAAAAAAAGAAAAAG
Found at i:8943643 original size:6 final size:6
Alignment explanation
Indices: 8943634--8943658 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
8943624 TATGTTTTAT
8943634 AATTAA AATTAA AATTAA AATTAA A
1 AATTAA AATTAA AATTAA AATTAA A
8943659 TAAAAAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
AATTAA
Found at i:8944898 original size:21 final size:20
Alignment explanation
Indices: 8944860--8944898 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
8944850 GCTACATGTG
**
8944860 ATAATTTTTCATTTAATTTA
1 ATAATTTTTCATAAAATTTA
8944880 ATAATTTTTTCATAAAATT
1 ATAA-TTTTTCATAAAATT
8944899 GATATAAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.56
Consensus pattern (20 bp):
ATAATTTTTCATAAAATTTA
Found at i:8944964 original size:21 final size:22
Alignment explanation
Indices: 8944938--8944979 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
8944928 TAATAAATTA
8944938 TAAAA-TTAATAAAAAAATATT
1 TAAAATTTAATAAAAAAATATT
* *
8944959 TAAAATTTTATAAAAACATAT
1 TAAAATTTAATAAAAAAATAT
8944980 AAATTTATTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (22 bp):
TAAAATTTAATAAAAAAATATT
Found at i:8946047 original size:21 final size:20
Alignment explanation
Indices: 8946023--8946076 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
8946013 AATTACAAAA
* *
8946023 AAAAATTTCAAAATCATTTTT
1 AAAAA-TTCAAAATAACTTTT
8946044 AAAAATTCAAAATAACTTTT
1 AAAAATTCAAAATAACTTTT
*
8946064 -AAAAGTCAAAATA
1 AAAAATTCAAAATA
8946077 TTTATAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
19 12 0.40
20 13 0.43
21 5 0.17
ACGTcount: A:0.56, C:0.09, G:0.02, T:0.33
Consensus pattern (20 bp):
AAAAATTCAAAATAACTTTT
Found at i:8946052 original size:20 final size:19
Alignment explanation
Indices: 8946023--8946085 Score: 65
Period size: 19 Copynumber: 3.2 Consensus size: 19
8946013 AATTACAAAA
8946023 AAAAATTTCAAAATCATTTTT
1 AAAAA-TTCAAAAT-ATTTTT
*
8946044 AAAAATTCAAAATAACTTTT
1 AAAAATTCAAAAT-ATTTTT
* *
8946064 -AAAAGTCAAAATATTTAT
1 AAAAATTCAAAATATTTTT
8946082 AAAA
1 AAAA
8946086 TTCCAAATTT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
18 4 0.11
19 14 0.39
20 13 0.36
21 5 0.14
ACGTcount: A:0.56, C:0.08, G:0.02, T:0.35
Consensus pattern (19 bp):
AAAAATTCAAAATATTTTT
Found at i:8946093 original size:18 final size:18
Alignment explanation
Indices: 8946024--8946099 Score: 66
Period size: 18 Copynumber: 4.1 Consensus size: 18
8946014 ATTACAAAAA
*
8946024 AAAATTTCAAAATCATTTTT
1 AAAA-TTCAAAAT-ATTTAT
8946044 AAAAATTCAAAATAACTTT-T
1 -AAAATTCAAAAT-A-TTTAT
*
8946064 AAAAGTCAAAATATTTAT
1 AAAATTCAAAATATTTAT
*
8946082 AAAATTCCAAAT-TTTAT
1 AAAATTCAAAATATTTAT
8946099 A
1 A
8946100 TTTTTAAAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
17 9 0.18
18 12 0.24
19 11 0.22
20 10 0.20
21 7 0.14
ACGTcount: A:0.51, C:0.09, G:0.01, T:0.38
Consensus pattern (18 bp):
AAAATTCAAAATATTTAT
Found at i:8946787 original size:9 final size:9
Alignment explanation
Indices: 8946760--8946858 Score: 71
Period size: 9 Copynumber: 10.8 Consensus size: 9
8946750 TATTTAACCT
8946760 TAATATTTA
1 TAATATTTA
*
8946769 TAAGTTTTTA
1 TAA-TATTTA
*
8946779 TAATTTTTAA
1 TAATATTT-A
8946789 TAAT-TTTAA
1 TAATATTT-A
*
8946798 TAAGTATATA
1 TAA-TATTTA
8946808 TAA-ATTT-
1 TAATATTTA
8946815 TAATATTTA
1 TAATATTTA
8946824 TAATATTTA
1 TAATATTTA
*
8946833 TAATTCTTTTA
1 TAA-T-ATTTA
*
8946844 TAAT-TTTT
1 TAATATTTA
8946852 TAATATT
1 TAATATT
8946859 CTTATAGAAA
Statistics
Matches: 76, Mismatches: 5, Indels: 18
0.77 0.05 0.18
Matches are distributed among these distances:
7 3 0.04
8 14 0.18
9 30 0.39
10 20 0.26
11 9 0.12
ACGTcount: A:0.39, C:0.01, G:0.02, T:0.58
Consensus pattern (9 bp):
TAATATTTA
Found at i:8946800 original size:29 final size:28
Alignment explanation
Indices: 8946760--8946858 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 28
8946750 TATTTAACCT
*
8946760 TAATATTTATAAGTTTTTATAATTTTTAA
1 TAAT-TTTATAAGTATTTATAATTTTTAA
* *
8946789 TAATTTTAATAAGTATATATAAATTTTAA
1 TAATTTT-ATAAGTATTTATAATTTTTAA
*
8946818 T-A-TTTATAA-TATTTATAATTCTTTTA
1 TAATTTTATAAGTATTTATAATT-TTTAA
*
8946844 TAATTTTTTAA-TATT
1 TAATTTTATAAGTATT
8946859 CTTATAGAAA
Statistics
Matches: 59, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
25 9 0.15
26 9 0.15
27 4 0.07
28 14 0.24
29 23 0.39
ACGTcount: A:0.39, C:0.01, G:0.02, T:0.58
Consensus pattern (28 bp):
TAATTTTATAAGTATTTATAATTTTTAA
Found at i:8952949 original size:20 final size:20
Alignment explanation
Indices: 8952921--8952958 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
8952911 AAATGCTAAT
8952921 AGAGGCATCAAAGTGCAAAC
1 AGAGGCATCAAAGTGCAAAC
* *
8952941 AGAGTCATCGAAGTGCAA
1 AGAGGCATCAAAGTGCAA
8952959 TCTTGTACAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.18, G:0.26, T:0.13
Consensus pattern (20 bp):
AGAGGCATCAAAGTGCAAAC
Found at i:8955731 original size:29 final size:29
Alignment explanation
Indices: 8955685--8955750 Score: 91
Period size: 29 Copynumber: 2.2 Consensus size: 29
8955675 ATTTAATTAG
8955685 TTTTTAAAAATTATAAAA-ATAAAAAATTTA
1 TTTTTAAAAATTATAAAAGATAAAAAA--TA
8955715 TTTTTAAAAATTA-AAAAGTATAAAAAATA
1 TTTTTAAAAATTATAAAAG-ATAAAAAATA
8955744 TTTTTAA
1 TTTTTAA
8955751 GTTTTAGAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
29 13 0.38
30 13 0.38
31 8 0.24
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.41
Consensus pattern (29 bp):
TTTTTAAAAATTATAAAAGATAAAAAATA
Found at i:8956213 original size:29 final size:29
Alignment explanation
Indices: 8956145--8956220 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 29
8956135 GTTATAATTT
* * * *
8956145 AGACTTGTTTGATTTTTTTAATAATATAG
1 AGACTAGTTTGATATATTTAATAATAGAG
* * *
8956174 GGACTAATTTGATCTATTTAATAATAGAG
1 AGACTAGTTTGATATATTTAATAATAGAG
*
8956203 AGATTAGTTTGATATATT
1 AGACTAGTTTGATATATT
8956221 CCCTATTATA
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.34, C:0.04, G:0.16, T:0.46
Consensus pattern (29 bp):
AGACTAGTTTGATATATTTAATAATAGAG
Found at i:8956604 original size:16 final size:18
Alignment explanation
Indices: 8956565--8956606 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
8956555 TAAATTTATA
8956565 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
8956582 ATTTTTATATATTAT-TT
1 ATATTTATATATTATGTT
8956599 A-ATTTATA
1 ATATTTATA
8956607 AAACATATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 6 0.27
17 8 0.36
18 8 0.36
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:8957183 original size:23 final size:24
Alignment explanation
Indices: 8957157--8957215 Score: 66
Period size: 23 Copynumber: 2.4 Consensus size: 24
8957147 AAAAAAAGTA
* *
8957157 AAATAAATAAT-TTATTATATTTT
1 AAATAAAAAATATTATAATATTTT
*
8957180 AAATAAAAAATATTATAATTTTTT
1 AAATAAAAAATATTATAATATTTT
8957204 AAAAATAAAAAA
1 --AAATAAAAAA
8957216 ATACTTTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
23 10 0.33
24 10 0.33
26 10 0.33
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (24 bp):
AAATAAAAAATATTATAATATTTT
Found at i:8957209 original size:26 final size:24
Alignment explanation
Indices: 8957155--8957215 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
8957145 TAAAAAAAAG
* *
8957155 TAAAATAAATAATTTATTATATTT
1 TAAAATAAAAAATTTATAATATTT
*
8957179 T-AAATAAAAAATATTATAATTTTT
1 TAAAATAAAAAAT-TTATAATATTT
8957203 TAAAAATAAAAAA
1 T-AAAATAAAAAA
8957216 ATACTTTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
23 10 0.32
24 11 0.35
26 10 0.32
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (24 bp):
TAAAATAAAAAATTTATAATATTT
Found at i:8957226 original size:22 final size:22
Alignment explanation
Indices: 8957198--8957239 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
8957188 AATATTATAA
8957198 TTTTTTAAAAATAAAAAAATAC
1 TTTTTTAAAAATAAAAAAATAC
* *
8957220 TTTTTTAAAATTTAAAAAAT
1 TTTTTTAAAAATAAAAAAAT
8957240 GAAAATTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (22 bp):
TTTTTTAAAAATAAAAAAATAC
Found at i:8957860 original size:17 final size:17
Alignment explanation
Indices: 8957838--8957870 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
8957828 TTTAAAAATA
8957838 AAAAATA-AAAAGATTTT
1 AAAAATATAAAA-ATTTT
8957855 AAAAATATAAAAATTT
1 AAAAATATAAAAATTT
8957871 CCAAAATTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (17 bp):
AAAAATATAAAAATTTT
Found at i:8958317 original size:25 final size:25
Alignment explanation
Indices: 8958283--8958330 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
8958273 ATCAATTTTA
8958283 TTTTTATTTTTTGAATTTTAAAGAG
1 TTTTTATTTTTTGAATTTTAAAGAG
*
8958308 TTTTTATTTTTTTAATTTTAAAG
1 TTTTTATTTTTTGAATTTTAAAG
8958331 TTTTCATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (25 bp):
TTTTTATTTTTTGAATTTTAAAGAG
Found at i:8958381 original size:17 final size:17
Alignment explanation
Indices: 8958359--8958395 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
8958349 TATTTCAAAG
*
8958359 AAAATTATTAATTTTTA
1 AAAATTATTAAATTTTA
*
8958376 AAAATTTTTAAATTTTA
1 AAAATTATTAAATTTTA
8958393 AAA
1 AAA
8958396 GTACTTTTAA
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:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
AAAATTATTAAATTTTA
Found at i:8958564 original size:7 final size:7
Alignment explanation
Indices: 8958552--8958576 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
8958542 TCTCAAAGAC
8958552 TAAATTT
1 TAAATTT
8958559 TAAATTT
1 TAAATTT
8958566 TAAATTT
1 TAAATTT
8958573 TAAA
1 TAAA
8958577 AGAGTATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (7 bp):
TAAATTT
Found at i:8960941 original size:21 final size:21
Alignment explanation
Indices: 8960909--8960949 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
8960899 AGGCTCGAGG
8960909 GGCCTGTTTTAGGCC-ATACAA
1 GGCCTGTTTTA-GCCTATACAA
8960930 GGCCT-TTCTTAGCCTATACA
1 GGCCTGTT-TTAGCCTATACA
8960950 CCAAATGTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.32
Consensus pattern (21 bp):
GGCCTGTTTTAGCCTATACAA
Found at i:8970739 original size:49 final size:49
Alignment explanation
Indices: 8970667--8970764 Score: 196
Period size: 49 Copynumber: 2.0 Consensus size: 49
8970657 AGACGCCTGG
8970667 TTATATATATTGAGGGTTAAGTAGATACATTACGGTAGATTTTGAAAAA
1 TTATATATATTGAGGGTTAAGTAGATACATTACGGTAGATTTTGAAAAA
8970716 TTATATATATTGAGGGTTAAGTAGATACATTACGGTAGATTTTGAAAAA
1 TTATATATATTGAGGGTTAAGTAGATACATTACGGTAGATTTTGAAAAA
8970765 ATAGAGTGAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.39, C:0.04, G:0.20, T:0.37
Consensus pattern (49 bp):
TTATATATATTGAGGGTTAAGTAGATACATTACGGTAGATTTTGAAAAA
Found at i:8975532 original size:29 final size:30
Alignment explanation
Indices: 8975500--8975556 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
8975490 ACTTTAATTA
*
8975500 TTAAATT-AAAATAGTATAAA-TAAAATTCT
1 TTAAATTAAAAATAG-AGAAATTAAAATTCT
8975529 TTAAATTAAAAATAGAGAAATTAAAATT
1 TTAAATTAAAAATAGAGAAATTAAAATT
8975557 TAAAAGTGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 11 0.44
30 14 0.56
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.35
Consensus pattern (30 bp):
TTAAATTAAAAATAGAGAAATTAAAATTCT
Found at i:8976985 original size:29 final size:29
Alignment explanation
Indices: 8976940--8976995 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 29
8976930 TAAAGTATGT
8976940 ATATATATATTAAAATTGT-GAAATATATA
1 ATATATATATTAAAATTGTAG-AATATATA
*
8976969 ATATATATATGT-GAATTGTAGAATATA
1 ATATATATAT-TAAAATTGTAGAATATA
8976996 CGAAAATATG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
29 22 0.92
30 2 0.08
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.41
Consensus pattern (29 bp):
ATATATATATTAAAATTGTAGAATATATA
Found at i:8977233 original size:26 final size:27
Alignment explanation
Indices: 8977204--8977257 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 27
8977194 AAATATGTAC
**
8977204 GTGTATA-TATATATGTATTATAAAAT
1 GTGTATAGTATATATAAATTATAAAAT
8977230 GTGTATATGTATATATAAATTATAAAAT
1 GTGTATA-GTATATATAAATTATAAAAT
8977258 ATATAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 7 0.29
28 17 0.71
ACGTcount: A:0.44, C:0.00, G:0.11, T:0.44
Consensus pattern (27 bp):
GTGTATAGTATATATAAATTATAAAAT
Found at i:8980199 original size:57 final size:60
Alignment explanation
Indices: 8980083--8980205 Score: 164
Period size: 57 Copynumber: 2.1 Consensus size: 60
8980073 AATTGACGGT
*
8980083 AAAAAGGATCTAGCCTGGATGGGTGATCCTATCCTGATATAGCCCTCCCGAAGAATATGTGTG
1 AAAAAGGATCTAGCCCGGATGGGTGATCC-AT-CTGATATAGCCCTCCCGAAGAATATGTG-G
* *
8980146 AAAAA-GATCTAGCCCGGATGGGTGAT-C-T-TGATATAGCCTTCCTGAAGAATATGTGG
1 AAAAAGGATCTAGCCCGGATGGGTGATCCATCTGATATAGCCCTCCCGAAGAATATGTGG
8980202 AAAA
1 AAAA
8980206 TGGACCCTTT
Statistics
Matches: 57, Mismatches: 3, Indels: 7
0.85 0.04 0.10
Matches are distributed among these distances:
56 5 0.09
57 25 0.44
59 1 0.02
61 1 0.02
62 20 0.35
63 5 0.09
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (60 bp):
AAAAAGGATCTAGCCCGGATGGGTGATCCATCTGATATAGCCCTCCCGAAGAATATGTGG
Found at i:8993550 original size:16 final size:16
Alignment explanation
Indices: 8993529--8993562 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
8993519 TATTTCACTA
*
8993529 TTATGTATTTTGTATT
1 TTATGTATTTTATATT
*
8993545 TTATGTCTTTTATATT
1 TTATGTATTTTATATT
8993561 TT
1 TT
8993563 GCATGCATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.18, C:0.03, G:0.09, T:0.71
Consensus pattern (16 bp):
TTATGTATTTTATATT
Found at i:8994731 original size:19 final size:20
Alignment explanation
Indices: 8994696--8994735 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
8994686 AGTGATTTTT
*
8994696 AGAAAAATTAATTTTAATCA
1 AGAAAAATTAATATTAATCA
8994716 AGAAAAATTAA-ATTAATCA
1 AGAAAAATTAATATTAATCA
8994735 A
1 A
8994736 ATTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.30
Consensus pattern (20 bp):
AGAAAAATTAATATTAATCA
Found at i:8995227 original size:37 final size:36
Alignment explanation
Indices: 8995164--8995239 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 36
8995154 ATTCCAAAAA
*
8995164 TAATATTATTTTAATAGTTTAATATTATATTTAAT-T
1 TAATATTATCTTAATAGTTTAATATTA-ATTTAATAT
*
8995200 TAATACTTATCTTAATAGTATT-TTATTAATTTAATAT
1 TAATA-TTATCTTAATAGT-TTAATATTAATTTAATAT
8995237 TAA
1 TAA
8995240 AGTGATTATT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
36 12 0.34
37 21 0.60
38 2 0.06
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (36 bp):
TAATATTATCTTAATAGTTTAATATTAATTTAATAT
Found at i:8995754 original size:42 final size:42
Alignment explanation
Indices: 8995695--8995783 Score: 151
Period size: 42 Copynumber: 2.1 Consensus size: 42
8995685 GCCAGAGAAT
*
8995695 ATTTCCTGTACACTTGTCTTTTCTTGTAGGGAATATTTACTG
1 ATTTCCTGTACACTTGTCTTTTCTTGCAGGGAATATTTACTG
*
8995737 ATTTCCTGTTCACTTGTCTTTTCTTGCAGGGAATATTTACTG
1 ATTTCCTGTACACTTGTCTTTTCTTGCAGGGAATATTTACTG
*
8995779 TTTTC
1 ATTTC
8995784 GCCAGAGAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.17, C:0.18, G:0.16, T:0.49
Consensus pattern (42 bp):
ATTTCCTGTACACTTGTCTTTTCTTGCAGGGAATATTTACTG
Found at i:8995774 original size:99 final size:98
Alignment explanation
Indices: 8995653--8995838 Score: 327
Period size: 99 Copynumber: 1.9 Consensus size: 98
8995643 CTATTCATGC
* *
8995653 GTCTTTTCTTGCAGGGAATATTTACTGTTTTCGCCAGAGAATATTTCCTGTACACTTGTCTTTTC
1 GTCTTTTCTTGCAGGGAATATTTACTGTTTTCGCCAGAGAATATTTCCTGTACACTTGTCTTCTA
*
8995718 TTGTAGGGAATATTTACTGATTTCCTGTTCACTT
66 TTGCAGGGAATATTTACT-ATTTCCTGTTCACTT
*
8995752 GTCTTTTCTTGCAGGGAATATTTACTGTTTTCGCCAGAGAATATTTCCTGTTCACTTGTCTTCTA
1 GTCTTTTCTTGCAGGGAATATTTACTGTTTTCGCCAGAGAATATTTCCTGTACACTTGTCTTCTA
8995817 TTGCAGGGAATATTTACTATTT
66 TTGCAGGGAATATTTACTATTT
8995839 TCTCCAGAGA
Statistics
Matches: 83, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
98 4 0.05
99 79 0.95
ACGTcount: A:0.20, C:0.18, G:0.17, T:0.45
Consensus pattern (98 bp):
GTCTTTTCTTGCAGGGAATATTTACTGTTTTCGCCAGAGAATATTTCCTGTACACTTGTCTTCTA
TTGCAGGGAATATTTACTATTTCCTGTTCACTT
Found at i:8995825 original size:57 final size:57
Alignment explanation
Indices: 8995737--8995862 Score: 216
Period size: 57 Copynumber: 2.2 Consensus size: 57
8995727 ATATTTACTG
* * *
8995737 ATTTCCTGTTCACTTGTCTTTTCTTGCAGGGAATATTTACTGTTTTCGCCAGAGAAT
1 ATTTCCTGTTCACTTGTCTTCTATTGCAGGGAATATTTACTATTTTCGCCAGAGAAT
*
8995794 ATTTCCTGTTCACTTGTCTTCTATTGCAGGGAATATTTACTATTTTCTCCAGAGAAT
1 ATTTCCTGTTCACTTGTCTTCTATTGCAGGGAATATTTACTATTTTCGCCAGAGAAT
8995851 ATTTCCTGTTCA
1 ATTTCCTGTTCA
8995863 TGCATCTTTT
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
57 65 1.00
ACGTcount: A:0.21, C:0.20, G:0.15, T:0.44
Consensus pattern (57 bp):
ATTTCCTGTTCACTTGTCTTCTATTGCAGGGAATATTTACTATTTTCGCCAGAGAAT
Found at i:8995878 original size:57 final size:56
Alignment explanation
Indices: 8995737--8995878 Score: 205
Period size: 57 Copynumber: 2.5 Consensus size: 56
8995727 ATATTTACTG
*
8995737 ATTTCCTGTTCACTTGTCTTTTCTTGCAGGGAATATTTACTGTTTTCGCCAGAGAAT
1 ATTTCCTGTTCAC-TGTCTTTTCTTGCAGGGAATATTTACTATTTTCGCCAGAGAAT
* * *
8995794 ATTTCCTGTTCACTTGTCTTCTATTGCAGGGAATATTTACTATTTTCTCCAGAGAAT
1 ATTTCCTGTTCAC-TGTCTTTTCTTGCAGGGAATATTTACTATTTTCGCCAGAGAAT
8995851 ATTTCCTGTTCA-TGCATCTTTTCTTGCA
1 ATTTCCTGTTCACTG--TCTTTTCTTGCA
8995879 TCATTTTTTC
Statistics
Matches: 77, Mismatches: 6, Indels: 4
0.89 0.07 0.05
Matches are distributed among these distances:
55 2 0.03
57 75 0.97
ACGTcount: A:0.20, C:0.20, G:0.15, T:0.45
Consensus pattern (56 bp):
ATTTCCTGTTCACTGTCTTTTCTTGCAGGGAATATTTACTATTTTCGCCAGAGAAT
Found at i:9003183 original size:174 final size:175
Alignment explanation
Indices: 9002886--9003235 Score: 630
Period size: 174 Copynumber: 2.0 Consensus size: 175
9002876 CAGAGGAAAC
* *
9002886 TCCTCTCAAACAAATTACTCCTAAAGTGGCAAAGATTTCAAAAAATAAAGAGATTTTTTTACACA
1 TCCTCTCAAACAAATTACTCCTAAAGCGGCAAAGATTTCAAAAAATAAAGAGATTGTTTTACACA
9002951 AACCAAAATCTCTCAAAAAATATTTTAAAAGAGACATCTCTCCAAGATGTTTTTCCAAAAGAAAT
66 AACCAAAATCTCTCAAAAAATATTTTAAAAGAGACATCTCTCCAAGATGTTTTTCCAAAAGAAAT
*
9003016 AGCAGTATCTTCACAGACTGCTACACAAAAATCCTCACAAT-TTT
131 AGAAGTATCTTCACAGACTGCTACACAAAAATCCTCACAATATTT
* *
9003060 TCCTCTTAAACAAATTGCTCCTAAAGCGGCAAAGATTTCAAAAAATAAAGAGATTGTTTTACACA
1 TCCTCTCAAACAAATTACTCCTAAAGCGGCAAAGATTTCAAAAAATAAAGAGATTGTTTTACACA
*
9003125 AACCAAAATCTCTCAAAAAATGTTTTAAAAGAGACATCTCTCCAAGATGTTTTTCCAAAAGAAAT
66 AACCAAAATCTCTCAAAAAATATTTTAAAAGAGACATCTCTCCAAGATGTTTTTCCAAAAGAAAT
*
9003190 AGAAGTGTCTTCACAGACTGCTACACAAAAATCCTCACAATATTT
131 AGAAGTATCTTCACAGACTGCTACACAAAAATCCTCACAATATTT
9003235 T
1 T
9003236 TCAAACAAAT
Statistics
Matches: 168, Mismatches: 7, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
174 164 0.98
175 4 0.02
ACGTcount: A:0.42, C:0.20, G:0.10, T:0.28
Consensus pattern (175 bp):
TCCTCTCAAACAAATTACTCCTAAAGCGGCAAAGATTTCAAAAAATAAAGAGATTGTTTTACACA
AACCAAAATCTCTCAAAAAATATTTTAAAAGAGACATCTCTCCAAGATGTTTTTCCAAAAGAAAT
AGAAGTATCTTCACAGACTGCTACACAAAAATCCTCACAATATTT
Found at i:9004320 original size:57 final size:56
Alignment explanation
Indices: 9004232--9004438 Score: 249
Period size: 57 Copynumber: 3.6 Consensus size: 56
9004222 GAAAAAATGA
*
9004232 TGCAAGAAAAGATGC-ATGAACATGAAATATTCTCTAGCGAAAACAGTAAATATTCCC
1 TGCAAGAAAAGA--CAATGAACATGAAATATTCTCTGGCGAAAACAGTAAATATTCCC
* *
9004289 TGCAAGAAAAGACAAGTGAACATGAAATATTCTATGGC-AGAAACTGTAAATATTCCC
1 TGCAAGAAAAGACAA-TGAACATGAAATATTCTCTGGCGA-AAACAGTAAATATTCCC
* * * * *
9004346 TACAAGAAAGGACAAGTGAACAGGAAATTTTCTCTGGTGAAAACAGTAAATATTCCC
1 TGCAAGAAAAGACAA-TGAACATGAAATATTCTCTGGCGAAAACAGTAAATATTCCC
*
9004403 TGCAAGAAAAGACACATGAATA-GTAAATATTCTCTG
1 TGCAAGAAAAGACA-ATGAACATG-AAATATTCTCTG
9004439 TAGTTTGTAT
Statistics
Matches: 130, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
55 1 0.01
56 3 0.02
57 124 0.95
58 2 0.02
ACGTcount: A:0.43, C:0.16, G:0.17, T:0.23
Consensus pattern (56 bp):
TGCAAGAAAAGACAATGAACATGAAATATTCTCTGGCGAAAACAGTAAATATTCCC
Found at i:9004695 original size:16 final size:17
Alignment explanation
Indices: 9004656--9004695 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
9004646 AAGTTTCTCC
9004656 AAATT-TTTAAGTTTTT
1 AAATTATTTAAGTTTTT
*
9004672 AAA-AATTTAAG-TTTT
1 AAATTATTTAAGTTTTT
9004687 AAATTATTT
1 AAATTATTT
9004696 TTCTTTTCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (17 bp):
AAATTATTTAAGTTTTT
Found at i:9009530 original size:13 final size:14
Alignment explanation
Indices: 9009491--9009538 Score: 55
Period size: 13 Copynumber: 3.6 Consensus size: 14
9009481 GAGAGGGTAG
*
9009491 GATTCTGTTTATCT
1 GATTCTGTATATCT
*
9009505 -ATTCTGTACATCT
1 GATTCTGTATATCT
9009518 GATTCTG-ATATCT
1 GATTCTGTATATCT
*
9009531 GTTTCTGT
1 GATTCTGT
9009539 GATGGACTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
13 22 0.79
14 6 0.21
ACGTcount: A:0.17, C:0.17, G:0.15, T:0.52
Consensus pattern (14 bp):
GATTCTGTATATCT
Found at i:9015417 original size:17 final size:18
Alignment explanation
Indices: 9015397--9015433 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
9015387 CTATTTCTTA
9015397 TTTAG-ATTAATTAGAGT
1 TTTAGCATTAATTAGAGT
*
9015414 TTTAGCATTATTTAGAGT
1 TTTAGCATTAATTAGAGT
9015432 TT
1 TT
9015434 CATTTGGTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.30, C:0.03, G:0.16, T:0.51
Consensus pattern (18 bp):
TTTAGCATTAATTAGAGT
Found at i:9022174 original size:61 final size:61
Alignment explanation
Indices: 9022079--9022201 Score: 246
Period size: 61 Copynumber: 2.0 Consensus size: 61
9022069 GTGCAAATAA
9022079 TGTTCGACGTGTCTCTTATGCAAATGATGAGACTTTGGTTAATAATGACCGTGGGCAACAT
1 TGTTCGACGTGTCTCTTATGCAAATGATGAGACTTTGGTTAATAATGACCGTGGGCAACAT
9022140 TGTTCGACGTGTCTCTTATGCAAATGATGAGACTTTGGTTAATAATGACCGTGGGCAACAT
1 TGTTCGACGTGTCTCTTATGCAAATGATGAGACTTTGGTTAATAATGACCGTGGGCAACAT
9022201 T
1 T
9022202 TTTTTAGCTA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 62 1.00
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.33
Consensus pattern (61 bp):
TGTTCGACGTGTCTCTTATGCAAATGATGAGACTTTGGTTAATAATGACCGTGGGCAACAT
Found at i:9026050 original size:19 final size:18
Alignment explanation
Indices: 9026006--9026050 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
9025996 AACATCTGAA
9026006 AAACTAAATAAAAAAACT
1 AAACTAAATAAAAAAACT
*
9026024 AAATTAAATTAAAAAAA-T
1 AAACTAAA-TAAAAAAACT
9026042 ATAACTAAA
1 A-AACTAAA
9026051 CATATGATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 9 0.39
19 14 0.61
ACGTcount: A:0.71, C:0.07, G:0.00, T:0.22
Consensus pattern (18 bp):
AAACTAAATAAAAAAACT
Done.