Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D02
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: 70731513
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1900000 characters in sequence are not A, C, G, or T
File 108 of 222
Found at i:34381215 original size:101 final size:102
Alignment explanation
Indices: 34381099--34381283 Score: 266
Period size: 101 Copynumber: 1.8 Consensus size: 102
34381089 AAAGTGATGG
* * ** **
34381099 TCACGTGTGTAGTACTATGTGTAGGGTATTACGTGTACCAGA-A-TGATAGGTCGTATGTGTAGT
1 TCACGTGTGTAGTACTATGTGCAGGCTACCACGTGTACCAGATAGTGAT-GGTCACATGTGTAGT
*
34381162 ACTATGTGCTGGCTACTATGCGTACCGGATAGCTTCGA
65 ACTATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
* *
34381200 TCACGTGTGTAGTACTATGTGCAGGCTACCACGTGTATCGGATAGTGATGGTCACATGTGTAGTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACCACGTGTACCAGATAGTGATGGTCACATGTGTAGTA
34381265 CTATGTGCAGGCTACTATG
66 CTATGTGCAGGCTACTATG
34381284 TGAACCAATA
Statistics
Matches: 73, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
101 36 0.49
102 33 0.45
103 4 0.05
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.32
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACCACGTGTACCAGATAGTGATGGTCACATGTGTAGTA
CTATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
Found at i:34381219 original size:51 final size:50
Alignment explanation
Indices: 34381153--34381283 Score: 165
Period size: 51 Copynumber: 2.6 Consensus size: 50
34381143 GATAGGTCGT
*
34381153 ATGTGTAGTACTATGTGCTGGCTACTATGCGTACCGGATAGCT-TCGATCAC
1 ATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAG-TAT-GATCAC
* * * * * *
34381204 GTGTGTAGTACTATGTGCAGGCTACCACGTGTATCGGATAGTGATGGTCAC
1 ATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGT-ATGATCAC
34381255 ATGTGTAGTACTATGTGCAGGCTACTATG
1 ATGTGTAGTACTATGTGCAGGCTACTATG
34381284 TGAACCAATA
Statistics
Matches: 68, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
50 1 0.01
51 66 0.97
52 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.31
Consensus pattern (50 bp):
ATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTATGATCAC
Found at i:34381285 original size:26 final size:25
Alignment explanation
Indices: 34381205--34381285 Score: 62
Period size: 26 Copynumber: 3.2 Consensus size: 25
34381195 TTCGATCACG
34381205 TGTGTAGTACTATGTGCAGGCTACCA
1 TGTGTAGTACTATGTGCAGGCTA-CA
* *
34381231 CGTGTA-T-CGGATAGTG-ATGG-TCACA
1 TGTGTAGTAC-TAT-GTGCA-GGCT-ACA
34381256 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTAC-A
34381282 TGTG
1 TGTG
34381286 AACCAATATC
Statistics
Matches: 42, Mismatches: 4, Indels: 18
0.66 0.06 0.28
Matches are distributed among these distances:
24 1 0.02
25 19 0.45
26 21 0.50
27 1 0.02
ACGTcount: A:0.22, C:0.16, G:0.30, T:0.32
Consensus pattern (25 bp):
TGTGTAGTACTATGTGCAGGCTACA
Found at i:34381530 original size:16 final size:16
Alignment explanation
Indices: 34381509--34381540 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
34381499 TGATTGAAAG
*
34381509 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
34381525 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
34381541 GCAACAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:34383763 original size:22 final size:21
Alignment explanation
Indices: 34383735--34383788 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 21
34383725 GTTCGTGTAA
34383735 TTAAATTGTATATTTATATGTT
1 TTAAATTGTATA-TTATATGTT
*
34383757 TTAAATTG-A-ATTATTTGTT
1 TTAAATTGTATATTATATGTT
*
34383776 TGTGAATTGTATA
1 T-TAAATTGTATA
34383789 ATTTCCATGA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
19 9 0.33
20 7 0.26
21 2 0.07
22 9 0.33
ACGTcount: A:0.31, C:0.00, G:0.13, T:0.56
Consensus pattern (21 bp):
TTAAATTGTATATTATATGTT
Found at i:34387457 original size:51 final size:49
Alignment explanation
Indices: 34387399--34387525 Score: 125
Period size: 50 Copynumber: 2.6 Consensus size: 49
34387389 ATGAGTTACT
*
34387399 TAATGCATGACTTTATTTAAGATGCAAACTTTAACTATCATG-GTAGTTAAA
1 TAATGCAT-ACTTTATTTAAGATGCAAAC-TTAACTAACATGAG-AGTTAAA
* * * * **
34387450 TAATGCATATCATAATTTATGATGCAATCTTAACTAACATGAGAGTTTCA
1 TAATGCATA-CTTTATTTAAGATGCAAACTTAACTAACATGAGAGTTAAA
34387500 TAATGCATAACTTTA-TTAA-ATGCAAA
1 TAATGCAT-ACTTTATTTAAGATGCAAA
34387526 ACACATAATA
Statistics
Matches: 62, Mismatches: 11, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
48 6 0.10
49 3 0.05
50 28 0.45
51 25 0.40
ACGTcount: A:0.39, C:0.13, G:0.12, T:0.36
Consensus pattern (49 bp):
TAATGCATACTTTATTTAAGATGCAAACTTAACTAACATGAGAGTTAAA
Found at i:34405502 original size:53 final size:53
Alignment explanation
Indices: 34405344--34405483 Score: 217
Period size: 53 Copynumber: 2.6 Consensus size: 53
34405334 ATTAGTTTTC
* * *
34405344 CCATATAATGTCATAACCCACCAATTATGGTCTTACACGATATGATCTTCTTT
1 CCATATGATGTCATAACCCACCAGTTACGGTCTTACACGATATGATCTTCTTT
* * * *
34405397 CTATATGATGCCATAACCCACCAGTTACGGTTTTACATGATATGATCTTCTTT
1 CCATATGATGTCATAACCCACCAGTTACGGTCTTACACGATATGATCTTCTTT
34405450 CCATATGATGTCATAACCCACCAGTTACGGTCTT
1 CCATATGATGTCATAACCCACCAGTTACGGTCTT
34405484 GCAGGACATG
Statistics
Matches: 77, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
53 77 1.00
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.35
Consensus pattern (53 bp):
CCATATGATGTCATAACCCACCAGTTACGGTCTTACACGATATGATCTTCTTT
Found at i:34407297 original size:41 final size:40
Alignment explanation
Indices: 34407233--34407431 Score: 159
Period size: 41 Copynumber: 4.9 Consensus size: 40
34407223 TACCTAATAT
* * *
34407233 AATACACTGGCACAAAGCCTGCTAGGCTTAAAACCTGATAC
1 AATACAC-GACACGAAGCCTGCTAGGCTTAAAGCCTGATAC
* * * *
34407274 GATACATCGACACGAAGCTTGCTAGGCTCAATGCCTGATAC
1 AATACA-CGACACGAAGCCTGCTAGGCTTAAAGCCTGATAC
* * *
34407315 AATACACTGGCACGAAGCCTGCTAGGCATAAAGCTTGA-AC
1 AATACAC-GACACGAAGCCTGCTAGGCTTAAAGCCTGATAC
* * **
34407355 AATACACCGACACTAAGCCTACTAGGCACAAAGCCTGA-ATC
1 AATACA-CGACACGAAGCCTGCTAGGCTTAAAGCCTGATA-C
* * * **
34407396 AATACACTAGCACTAAGCCTACTAGGCACAAAGCCT
1 AATACACGA-CACGAAGCCTGCTAGGCTTAAAGCCT
34407432 ACTAGGCACA
Statistics
Matches: 133, Mismatches: 20, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
40 37 0.28
41 95 0.71
42 1 0.01
ACGTcount: A:0.36, C:0.28, G:0.18, T:0.18
Consensus pattern (40 bp):
AATACACGACACGAAGCCTGCTAGGCTTAAAGCCTGATAC
Found at i:34407399 original size:81 final size:82
Alignment explanation
Indices: 34407233--34407431 Score: 240
Period size: 81 Copynumber: 2.4 Consensus size: 82
34407223 TACCTAATAT
* * * * * *
34407233 AATACACTGGCACAAAGCCTGCTAGGCTTAAAACCTGATACGATACATCGACACGAAGCTTGCTA
1 AATACACTGGCACAAAGCCTGCTAGGCATAAAGCCTGATACAATACACCGACACGAAGCCTACTA
* *
34407298 GGCTCAATGCCTGATAC
66 GGCACAAAGCCTGATAC
* * *
34407315 AATACACTGGCACGAAGCCTGCTAGGCATAAAGCTTGA-ACAATACACCGACACTAAGCCTACTA
1 AATACACTGGCACAAAGCCTGCTAGGCATAAAGCCTGATACAATACACCGACACGAAGCCTACTA
34407379 GGCACAAAGCCTGA-ATC
66 GGCACAAAGCCTGATA-C
* * * *
34407396 AATACACTAGCACTAAGCCTACTAGGCACAAAGCCT
1 AATACACTGGCACAAAGCCTGCTAGGCATAAAGCCT
34407432 ACTAGGCACA
Statistics
Matches: 100, Mismatches: 16, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
80 1 0.01
81 65 0.65
82 34 0.34
ACGTcount: A:0.36, C:0.28, G:0.18, T:0.18
Consensus pattern (82 bp):
AATACACTGGCACAAAGCCTGCTAGGCATAAAGCCTGATACAATACACCGACACGAAGCCTACTA
GGCACAAAGCCTGATAC
Found at i:34407429 original size:16 final size:16
Alignment explanation
Indices: 34407401--34407447 Score: 78
Period size: 16 Copynumber: 3.0 Consensus size: 16
34407391 GAATCAATAC
*
34407401 ACTA-GCACTAAGCCT
1 ACTAGGCACAAAGCCT
34407416 ACTAGGCACAAAGCCT
1 ACTAGGCACAAAGCCT
34407432 ACTAGGCACAAAGCCT
1 ACTAGGCACAAAGCCT
34407448 GAATCAATAC
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
15 4 0.13
16 26 0.87
ACGTcount: A:0.36, C:0.32, G:0.17, T:0.15
Consensus pattern (16 bp):
ACTAGGCACAAAGCCT
Found at i:34407437 original size:57 final size:57
Alignment explanation
Indices: 34407369--34407476 Score: 207
Period size: 57 Copynumber: 1.9 Consensus size: 57
34407359 CACCGACACT
*
34407369 AAGCCTACTAGGCACAAAGCCTGAATCAATACACTAGCACTAAGCCTACTAGGCACA
1 AAGCCTACTAGGCACAAAGCCTGAATCAATACACAAGCACTAAGCCTACTAGGCACA
34407426 AAGCCTACTAGGCACAAAGCCTGAATCAATACACAAGCACTAAGCCTACTA
1 AAGCCTACTAGGCACAAAGCCTGAATCAATACACAAGCACTAAGCCTACTA
34407477 AGCATAAATC
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 50 1.00
ACGTcount: A:0.40, C:0.30, G:0.15, T:0.16
Consensus pattern (57 bp):
AAGCCTACTAGGCACAAAGCCTGAATCAATACACAAGCACTAAGCCTACTAGGCACA
Found at i:34407471 original size:41 final size:41
Alignment explanation
Indices: 34407421--34407507 Score: 129
Period size: 41 Copynumber: 2.1 Consensus size: 41
34407411 AGCCTACTAG
* *
34407421 GCACAAAGCCTACTAGGCACAAAGCCTGAATCAATACACAA
1 GCACTAAGCCTACTAAGCACAAAGCCTGAATCAATACACAA
* * *
34407462 GCACTAAGCCTACTAAGCATAAATCCTGAATCAATACACCA
1 GCACTAAGCCTACTAAGCACAAAGCCTGAATCAATACACAA
34407503 GCACT
1 GCACT
34407508 CCGGCGAGAC
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.41, C:0.30, G:0.13, T:0.16
Consensus pattern (41 bp):
GCACTAAGCCTACTAAGCACAAAGCCTGAATCAATACACAA
Found at i:34407491 original size:98 final size:97
Alignment explanation
Indices: 34407323--34407507 Score: 264
Period size: 98 Copynumber: 1.9 Consensus size: 97
34407313 ACAATACACT
* * * * * *
34407323 GGCACGAAGCCTGCTAGGCATAAAGCTTGAACAATACACCGACACTAAGCCTACTAGGCACAAAG
1 GGCACAAAGCCTACTAGGCACAAAGCCTGAACAATACACAGACACTAAGCCTACTAAGCACAAAG
*
34407388 CCTGAATCAATACACTAGCACTAAGCCTACTA
66 CCTGAATCAATACACCAGCACTAAGCCTACTA
*
34407420 GGCACAAAGCCTACTAGGCACAAAGCCTGAATCAATACACA-AGCACTAAGCCTACTAAGCATAA
1 GGCACAAAGCCTACTAGGCACAAAGCCTGAA-CAATACACAGA-CACTAAGCCTACTAAGCACAA
*
34407484 ATCCTGAATCAATACACCAGCACT
64 AGCCTGAATCAATACACCAGCACT
34407508 CCGGCGAGAC
Statistics
Matches: 77, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
97 28 0.36
98 49 0.64
ACGTcount: A:0.39, C:0.29, G:0.16, T:0.16
Consensus pattern (97 bp):
GGCACAAAGCCTACTAGGCACAAAGCCTGAACAATACACAGACACTAAGCCTACTAAGCACAAAG
CCTGAATCAATACACCAGCACTAAGCCTACTA
Found at i:34408032 original size:41 final size:40
Alignment explanation
Indices: 34407959--34408081 Score: 138
Period size: 41 Copynumber: 3.0 Consensus size: 40
34407949 AGTACAAGTT
* * *
34407959 ACCTGATACAATACACCGGCACAAAGCCTGCTAGGCTTAAA
1 ACCTGATACAATACA-CGGCACGAAGCTTGCTAGGCTCAAA
* * * *
34408000 ACCTGATACGATACATCGACACGAAGCTTGCTAAGCTCAAG
1 ACCTGATACAATACA-CGGCACGAAGCTTGCTAGGCTCAAA
* *
34408041 GCCTGATACAATACACTGGCACGAAGCTTGCTAGGCACAAA
1 ACCTGATACAATACAC-GGCACGAAGCTTGCTAGGCTCAAA
34408082 GCTTGAATCA
Statistics
Matches: 67, Mismatches: 14, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
40 1 0.01
41 66 0.99
ACGTcount: A:0.35, C:0.28, G:0.20, T:0.18
Consensus pattern (40 bp):
ACCTGATACAATACACGGCACGAAGCTTGCTAGGCTCAAA
Found at i:34408094 original size:41 final size:41
Alignment explanation
Indices: 34408023--34408255 Score: 240
Period size: 41 Copynumber: 5.7 Consensus size: 41
34408013 CATCGACACG
* * * * *
34408023 AAGCTTGCTAAGCTCAAGGCCTG-ATACAATACACTGGCACG
1 AAGCTTGCTAGGCACAAAGCCTGAAT-CAATACACTAGCACT
* *
34408064 AAGCTTGCTAGGCACAAAGCTTGAATCAATACAC-CGACACT
1 AAGCTTGCTAGGCACAAAGCCTGAATCAATACACTAG-CACT
*** *
34408105 AAGCCCACTAGGCACAAAGCCTGAATCAATACACAAGCACT
1 AAGCTTGCTAGGCACAAAGCCTGAATCAATACACTAGCACT
34408146 AAG-TCTGCTAGAG-ACAAAGCCTGAATCAATACACTAGCACT
1 AAGCT-TGCTAG-GCACAAAGCCTGAATCAATACACTAGCACT
* *
34408187 AAGCCTACTAGGCACAAAGCCTGAATCAATACACTAGCACT
1 AAGCTTGCTAGGCACAAAGCCTGAATCAATACACTAGCACT
* * * * *
34408228 GAGCCTACTAAGTACAAAGCCTGAATCA
1 AAGCTTGCTAGGCACAAAGCCTGAATCA
34408256 TTATTTCCAA
Statistics
Matches: 165, Mismatches: 20, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
40 2 0.01
41 159 0.96
42 4 0.02
ACGTcount: A:0.38, C:0.27, G:0.17, T:0.18
Consensus pattern (41 bp):
AAGCTTGCTAGGCACAAAGCCTGAATCAATACACTAGCACT
Found at i:34408102 original size:82 final size:82
Alignment explanation
Indices: 34407960--34408255 Score: 219
Period size: 82 Copynumber: 3.6 Consensus size: 82
34407950 GTACAAGTTA
* * ** * * *
34407960 CCTGATACAATACACCGGCACAAAGCCTGCTAGGCTTAAAACCTG-ATACGATACATCGACACGA
1 CCTGATACAATACACAGGCACAAAGCTTGCTAGGCACAAAGCCTGAAT-CAATACACCGACACGA
*** * *
34408024 AGCTTGCTAAGCTCAAGG
65 AGCCCACTAAGCACAAAG
* * * *
34408042 CCTGATACAATACACTGGCACGAAGCTTGCTAGGCACAAAGCTTGAATCAATACACCGACACTAA
1 CCTGATACAATACACAGGCACAAAGCTTGCTAGGCACAAAGCCTGAATCAATACACCGACACGAA
*
34408107 GCCCACTAGGCACAAAG
66 GCCCACTAAGCACAAAG
* * *
34408124 CCTGA-ATCAATACACAAGCACTAAG-TCTGCTAGAG-ACAAAGCCTGAATCAATACA-CTAGCA
1 CCTGATA-CAATACACAGGCACAAAGCT-TGCTAG-GCACAAAGCCTGAATCAATACACCGA-CA
* * *
34408185 CTAAGCCTACTAGGCACAAAG
62 CGAAGCCCACTAAGCACAAAG
** * * * *
34408206 CCTGA-ATCAATACACTA-GCACTGAGCCTACTAAGTACAAAGCCTGAATCA
1 CCTGATA-CAATACAC-AGGCACAAAGCTTGCTAGGCACAAAGCCTGAATCA
34408256 TTATTTCCAA
Statistics
Matches: 180, Mismatches: 26, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
81 5 0.03
82 171 0.95
83 4 0.02
ACGTcount: A:0.37, C:0.28, G:0.17, T:0.18
Consensus pattern (82 bp):
CCTGATACAATACACAGGCACAAAGCTTGCTAGGCACAAAGCCTGAATCAATACACCGACACGAA
GCCCACTAAGCACAAAG
Found at i:34410776 original size:22 final size:25
Alignment explanation
Indices: 34410730--34410776 Score: 64
Period size: 22 Copynumber: 2.0 Consensus size: 25
34410720 TTTCTCACCA
*
34410730 TTTTCAACATATACCTATAATCCCT
1 TTTTCAACATATACCTATAAGCCCT
34410755 TTTTC-ACATATA-C-ATAAGCCCT
1 TTTTCAACATATACCTATAAGCCCT
34410777 CAAAAGGCAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 8 0.38
23 1 0.05
24 7 0.33
25 5 0.24
ACGTcount: A:0.32, C:0.28, G:0.02, T:0.38
Consensus pattern (25 bp):
TTTTCAACATATACCTATAAGCCCT
Found at i:34417575 original size:5 final size:5
Alignment explanation
Indices: 34417565--34417608 Score: 74
Period size: 5 Copynumber: 9.2 Consensus size: 5
34417555 TAAGTTTGAC
34417565 ATATA ATATA ATATA ATAT- A-ATA ATATA ATATA ATATA ATATA A
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA A
34417609 CACGAAAACA
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
3 2 0.05
4 2 0.05
5 33 0.89
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:34417588 original size:13 final size:13
Alignment explanation
Indices: 34417572--34417600 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
34417562 GACATATAAT
34417572 ATAATATAATATA
1 ATAATATAATATA
34417585 ATAATATAATATA
1 ATAATATAATATA
34417598 ATA
1 ATA
34417601 TAATATAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
ATAATATAATATA
Found at i:34417588 original size:18 final size:18
Alignment explanation
Indices: 34417567--34417605 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
34417557 AGTTTGACAT
34417567 ATAATATAATATAATATA
1 ATAATATAATATAATATA
34417585 ATAATATAATATAATATA
1 ATAATATAATATAATATA
34417603 ATA
1 ATA
34417606 TAACACGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
ATAATATAATATAATATA
Found at i:34417591 original size:23 final size:23
Alignment explanation
Indices: 34417565--34417608 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
34417555 TAAGTTTGAC
34417565 ATATAATATAATATAATATAATA
1 ATATAATATAATATAATATAATA
34417588 ATATAATATAATATAATATAA
1 ATATAATATAATATAATATAA
34417609 CACGAAAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (23 bp):
ATATAATATAATATAATATAATA
Found at i:34422238 original size:119 final size:119
Alignment explanation
Indices: 34422027--34422274 Score: 381
Period size: 119 Copynumber: 2.1 Consensus size: 119
34422017 TTAGAAACAG
* * * *
34422027 GGGTCACACAGCTGTATGGTCAGGCCGTGTGACATAGCCCAAATTGTGTGAGCATTCGAAGTATG
1 GGGTCACACGGCTGTATGGCCAGGCCGTGTGACATAGCCCAAACTGTGTGAGCATTCGAAGTATA
*
34422092 GGACACACGGCTGTGTCACAGCCCGTGTGTCTGCCAGTGTGGGTATTCGAAATA
66 GGACACACGGCTGTGTCACAGCCCGTGTGTCTGCCAATGTGGGTATTCGAAATA
*
34422146 GGGTCACACGGCTGTATGGCCAGGTCGTGTGACATAGCCCAAACCT-TGTGAGCATTCGAAGTAT
1 GGGTCACACGGCTGTATGGCCAGGCCGTGTGACATAGCCCAAA-CTGTGTGAGCATTCGAAGTAT
* ** *
34422210 AGGACACATGGCTGTGTTGCAGCCCGTGTGTCTGCCAATGTGGGTATTTGAAATA
65 AGGACACACGGCTGTGTCACAGCCCGTGTGTCTGCCAATGTGGGTATTCGAAATA
*
34422265 GGGTCGCACG
1 GGGTCACACG
34422275 ATTGTGTCGC
Statistics
Matches: 117, Mismatches: 11, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
119 116 0.99
120 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.31, T:0.25
Consensus pattern (119 bp):
GGGTCACACGGCTGTATGGCCAGGCCGTGTGACATAGCCCAAACTGTGTGAGCATTCGAAGTATA
GGACACACGGCTGTGTCACAGCCCGTGTGTCTGCCAATGTGGGTATTCGAAATA
Found at i:34432695 original size:21 final size:21
Alignment explanation
Indices: 34432666--34432711 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
34432656 TCTCTCTCGC
*
34432666 TTTCCTTTTCGCCTTTTTCAT
1 TTTCATTTTCGCCTTTTTCAT
* *
34432687 TTTCATTTTCTCCTTTTTCTT
1 TTTCATTTTCGCCTTTTTCAT
34432708 TTTC
1 TTTC
34432712 CTCACTTGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.04, C:0.26, G:0.02, T:0.67
Consensus pattern (21 bp):
TTTCATTTTCGCCTTTTTCAT
Found at i:34455249 original size:14 final size:13
Alignment explanation
Indices: 34455227--34455257 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
34455217 TCAAGTCCCC
34455227 AAAAAAAAAAAGA
1 AAAAAAAAAAAGA
34455240 AAAAACAAAAAAGA
1 AAAAA-AAAAAAGA
34455254 AAAA
1 AAAA
34455258 GTAACAGTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.29
14 12 0.71
ACGTcount: A:0.90, C:0.03, G:0.06, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAAGA
Found at i:34462043 original size:18 final size:19
Alignment explanation
Indices: 34462022--34462083 Score: 56
Period size: 18 Copynumber: 3.3 Consensus size: 19
34462012 ATTATTTATA
34462022 TTTTATAATAATTTT-ATT
1 TTTTATAATAATTTTAATT
* * *
34462040 TTTTATTATAAATTTTTGACT
1 TTTTATAAT-AA-TTTTAATT
*
34462061 TTTTATAA-ATTTTTAATT
1 TTTTATAATAATTTTAATT
34462079 TTTTA
1 TTTTA
34462084 GAATGTCAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
18 19 0.54
19 3 0.09
20 4 0.11
21 9 0.26
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (19 bp):
TTTTATAATAATTTTAATT
Found at i:34462055 original size:19 final size:18
Alignment explanation
Indices: 34462016--34462055 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
34462006 TTTTAAATTA
34462016 TTTATATTTTATAATAAT
1 TTTATATTTTATAATAAT
* *
34462034 TTTATTTTTTATTATAAAT
1 TTTATATTTTATAAT-AAT
34462053 TTT
1 TTT
34462056 TGACTTTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTATATTTTATAATAAT
Found at i:34462130 original size:21 final size:21
Alignment explanation
Indices: 34462089--34462132 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
34462079 TTTTAGAATG
* *
34462089 TCAAAATATTTTTTTTATTTT
1 TCAAAAAATTTTATTTATTTT
*
34462110 TCAAAAAATTTTGATTTTTTTT
1 TCAAAAAATTTT-ATTTATTTT
34462132 T
1 T
34462133 ATTTTTTGCT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.64
Consensus pattern (21 bp):
TCAAAAAATTTTATTTATTTT
Found at i:34472249 original size:40 final size:40
Alignment explanation
Indices: 34472208--34472564 Score: 477
Period size: 40 Copynumber: 8.9 Consensus size: 40
34472198 ACACAGACAA
* *
34472208 AAGCTCATAAGAGCTAATCCAATCGAAACACGCCAAACAA
1 AAGCTCATAAGAGCTGATCCAATCGAAACACGCCAAACAG
* *
34472248 AAGCTCATAAGAGCTGATCCAA-CTGAAACATGCCAAATAG
1 AAGCTCATAAGAGCTGATCCAATC-GAAACACGCCAAACAG
* *
34472288 AAGCTCATAAGAGTTGATCCAATCGAAACA-GACCAAATAG
1 AAGCTCATAAGAGCTGATCCAATCGAAACACG-CCAAACAG
* * *
34472328 AAGCTCATAAGAGCTGATCCAACCAAAACACGCCAAATAG
1 AAGCTCATAAGAGCTGATCCAATCGAAACACGCCAAACAG
** * *
34472368 AAGCTCATAATCGCTGATCCAGTCGAAACACGCCACACAG
1 AAGCTCATAAGAGCTGATCCAATCGAAACACGCCAAACAG
* * *
34472408 AAGCTCACAAGAGCTGATCCAATCGAAACACACCAAACAA
1 AAGCTCATAAGAGCTGATCCAATCGAAACACGCCAAACAG
* *
34472448 AAGCTCATAAGAGCTGATCC-AGCTGAAACACGTCAAACAG
1 AAGCTCATAAGAGCTGATCCAATC-GAAACACGCCAAACAG
* *
34472488 AAGCTCATAAGAGCTTATCCAATCGAAACACGCCAAATAG
1 AAGCTCATAAGAGCTGATCCAATCGAAACACGCCAAACAG
*
34472528 AAGCTCATAAGAGCTTATCCAATCGAAACACGCCAAA
1 AAGCTCATAAGAGCTGATCCAATCGAAACACGCCAAA
34472565 AGAGAGTATA
Statistics
Matches: 280, Mismatches: 31, Indels: 12
0.87 0.10 0.04
Matches are distributed among these distances:
39 4 0.01
40 272 0.97
41 4 0.01
ACGTcount: A:0.43, C:0.26, G:0.16, T:0.15
Consensus pattern (40 bp):
AAGCTCATAAGAGCTGATCCAATCGAAACACGCCAAACAG
Found at i:34473153 original size:20 final size:20
Alignment explanation
Indices: 34473125--34473169 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
34473115 TAATGTGTCT
*
34473125 TGTCCTAACCAAATTAATTG
1 TGTCTTAACCAAATTAATTG
**
34473145 TGTCTTAACTTAATTAATTG
1 TGTCTTAACCAAATTAATTG
34473165 TGTCT
1 TGTCT
34473170 AGTTTTAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.29, C:0.16, G:0.11, T:0.44
Consensus pattern (20 bp):
TGTCTTAACCAAATTAATTG
Found at i:34482016 original size:20 final size:20
Alignment explanation
Indices: 34481993--34482068 Score: 71
Period size: 20 Copynumber: 3.8 Consensus size: 20
34481983 TGCATGCAGT
*
34481993 CAGGAGCACCGAAGTGCAAA
1 CAGGGGCACCGAAGTGCAAA
* * **
34482013 CAGGGGCACAGATGTGTGAA
1 CAGGGGCACCGAAGTGCAAA
* *
34482033 TAGGGGCACCAAAGTGCAAA
1 CAGGGGCACCGAAGTGCAAA
* *
34482053 CAGGGACATCGAAGTG
1 CAGGGGCACCGAAGTG
34482069 TAGTCAGGGG
Statistics
Matches: 41, Mismatches: 15, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.36, C:0.20, G:0.34, T:0.11
Consensus pattern (20 bp):
CAGGGGCACCGAAGTGCAAA
Found at i:34482078 original size:40 final size:41
Alignment explanation
Indices: 34481990--34482081 Score: 109
Period size: 40 Copynumber: 2.3 Consensus size: 41
34481980 ACATGCATGC
* * * *
34481990 AGTCAGGAGCACCGAAGTGCAAACAGGGGCACAGATGTGTG
1 AGTCAGGGGCACCAAAGTGCAAACAGGGACACAGAAGTGTG
*
34482031 AAT-AGGGGCACCAAAGTGCAAACAGGGACATC-GAAGTGT-
1 AGTCAGGGGCACCAAAGTGCAAACAGGGACA-CAGAAGTGTG
34482070 AGTCAGGGGCAC
1 AGTCAGGGGCAC
34482082 AGTTGCTCAA
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
39 2 0.05
40 38 0.88
41 3 0.07
ACGTcount: A:0.34, C:0.20, G:0.35, T:0.12
Consensus pattern (41 bp):
AGTCAGGGGCACCAAAGTGCAAACAGGGACACAGAAGTGTG
Found at i:34488161 original size:101 final size:101
Alignment explanation
Indices: 34487986--34488182 Score: 340
Period size: 101 Copynumber: 2.0 Consensus size: 101
34487976 AAAGAACGTG
*
34487986 TTTTTTTGGGATAATCAGTGTCTGGAAAGTTTTGAGAAGTTGAAAGTCATGTTTATAGAAGTGCT
1 TTTTTTTGGGATAATCAGTGTCTGGAAAGTTTTGAGAAGTTGAAAGTCATGTTTACAGAAGTGCT
**
34488051 AATCCTGACCTTGCCCGAATCTGGAAAGGAAAGTGT
66 AATCCTGACCTTGCCCGAATCAAGAAAGGAAAGTGT
*
34488087 TTTTTTTGGGATAATCAGTGTTTGGAAAGTTTTGAGAAGTTGAAAGTCATGTTTACAGAAGTGCT
1 TTTTTTTGGGATAATCAGTGTCTGGAAAGTTTTGAGAAGTTGAAAGTCATGTTTACAGAAGTGCT
* *
34488152 GATCCTGACCTTGCTCGAATCAAGAAAGGAA
66 AATCCTGACCTTGCCCGAATCAAGAAAGGAA
34488183 TTTATGGTAT
Statistics
Matches: 90, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
101 90 1.00
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.34
Consensus pattern (101 bp):
TTTTTTTGGGATAATCAGTGTCTGGAAAGTTTTGAGAAGTTGAAAGTCATGTTTACAGAAGTGCT
AATCCTGACCTTGCCCGAATCAAGAAAGGAAAGTGT
Found at i:34489941 original size:21 final size:20
Alignment explanation
Indices: 34489912--34489953 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
34489902 CGAAATGCAG
34489912 TCAAACTAACA-TGAATTAAAT
1 TCAAACTAA-ATTG-ATTAAAT
*
34489933 TCAAGCTAAATTGATTAAAT
1 TCAAACTAAATTGATTAAAT
34489953 T
1 T
34489954 AACCATTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.48, C:0.12, G:0.07, T:0.33
Consensus pattern (20 bp):
TCAAACTAAATTGATTAAAT
Found at i:34500748 original size:29 final size:28
Alignment explanation
Indices: 34500712--34500789 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
34500702 TCATGAGATT
34500712 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
34500742 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
34500769 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
34500790 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:34501007 original size:174 final size:174
Alignment explanation
Indices: 34500742--34501243 Score: 959
Period size: 174 Copynumber: 2.9 Consensus size: 174
34500732 AAATTGTACA
* *
34500742 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
34500807 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCGA
34500872 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
34500916 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
34500981 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCGA
34501046 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
*
34501090 GAACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
34501155 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCGA
34501220 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
34501244 ACCTTGAGTT
Statistics
Matches: 323, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
174 323 1.00
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCGA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:34508477 original size:29 final size:28
Alignment explanation
Indices: 34508441--34508518 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
34508431 TCATGAGATT
34508441 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
34508471 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
34508498 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
34508519 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:34508803 original size:172 final size:174
Alignment explanation
Indices: 34508471--34508970 Score: 950
Period size: 172 Copynumber: 2.9 Consensus size: 174
34508461 AAATTGTACA
* *
34508471 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
34508536 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCGA
34508601 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
34508645 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
34508710 TGTGCGAACCC-A-ATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCGA
34508773 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
34508817 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
34508882 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCGA
34508947 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
34508971 ACCTTGAGTT
Statistics
Matches: 320, Mismatches: 4, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
172 170 0.53
173 2 0.01
174 148 0.46
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCGA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:34516181 original size:29 final size:28
Alignment explanation
Indices: 34516145--34516222 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
34516135 TCATGAGATT
34516145 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
34516175 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
34516202 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
34516223 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:34516440 original size:174 final size:174
Alignment explanation
Indices: 34516175--34516676 Score: 968
Period size: 174 Copynumber: 2.9 Consensus size: 174
34516165 AAATTGTACA
* *
34516175 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
34516240 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCGA
34516305 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
34516349 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
34516414 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCGA
34516479 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
34516523 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
34516588 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCGA
34516653 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
34516677 ACCTTGAGTT
Statistics
Matches: 324, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
174 324 1.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCGA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:34523917 original size:29 final size:28
Alignment explanation
Indices: 34523881--34523958 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
34523871 TCATGAGATT
34523881 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
34523911 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
34523938 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
34523959 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:34524176 original size:174 final size:174
Alignment explanation
Indices: 34523911--34524412 Score: 950
Period size: 174 Copynumber: 2.9 Consensus size: 174
34523901 AAATTGTACA
* *
34523911 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
34523976 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
34524041 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
34524085 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
34524150 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
34524215 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
34524259 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* * * *
34524324 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGAGTGGGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
34524389 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
34524413 ACCTTGAGTT
Statistics
Matches: 322, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
174 322 1.00
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:34533741 original size:27 final size:27
Alignment explanation
Indices: 34533706--34533760 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
34533696 TAAAATAGAT
34533706 ATTACCACCTTTCAAAAGATATAATAA
1 ATTACCACCTTTCAAAAGATATAATAA
34533733 ATTACCACCTTTCAAAAGATATAATAA
1 ATTACCACCTTTCAAAAGATATAATAA
34533760 A
1 A
34533761 CACAAATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.49, C:0.18, G:0.04, T:0.29
Consensus pattern (27 bp):
ATTACCACCTTTCAAAAGATATAATAA
Found at i:34543938 original size:27 final size:27
Alignment explanation
Indices: 34543903--34543957 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
34543893 TAAAATAGAT
34543903 ATTACCACCTTTCAAAAGATATAATAA
1 ATTACCACCTTTCAAAAGATATAATAA
34543930 ATTACCACCTTTCAAAAGATATAATAA
1 ATTACCACCTTTCAAAAGATATAATAA
34543957 A
1 A
34543958 CACAAATTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.49, C:0.18, G:0.04, T:0.29
Consensus pattern (27 bp):
ATTACCACCTTTCAAAAGATATAATAA
Found at i:34557863 original size:27 final size:27
Alignment explanation
Indices: 34557821--34557886 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
34557811 CTAAACTGAT
* *
34557821 ATAAAATGGCTGTTATGCCCCCACGTG
1 ATAAAATGACTATTATGCCCCCACGTG
* * * *
34557848 GTAAAATGACTATTATGCCCCTATGTT
1 ATAAAATGACTATTATGCCCCCACGTG
34557875 ATAAAATGACTA
1 ATAAAATGACTA
34557887 CATGCTCTAT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (27 bp):
ATAAAATGACTATTATGCCCCCACGTG
Found at i:34560032 original size:3 final size:3
Alignment explanation
Indices: 34560024--34560071 Score: 51
Period size: 3 Copynumber: 15.7 Consensus size: 3
34560014 AAGGGCTCAA
* * * *
34560024 ATT ATT ATT ATC ATT ATC ATT ACT ATT ATT ATT AAAT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT
34560070 AT
1 AT
34560072 CTTTTTTACA
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
3 34 0.94
4 2 0.06
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (3 bp):
ATT
Found at i:34560648 original size:146 final size:144
Alignment explanation
Indices: 34560393--34560674 Score: 408
Period size: 146 Copynumber: 1.9 Consensus size: 144
34560383 TCTTGGGAAT
*
34560393 TTTTTTTAAAAAAGGCAAAGTTTAGATTTTAAAAATAAAAAAATATTTTTTTAGTCATTTCAAAG
1 TTTTTTAAAAAAAGGCAAAGTTTAGATTTTAAAAAT-AAAAAATATTTTTTTAGTCATTTCAAAG
* * *
34560458 GAAATTTTAAAATTTTAAAACAAAGTTATGATTTTTTTTAACTATTTCGAAATAAAAGCTTTGA-
65 GAAAATTTAAAATTTTAAAACAAAGTTATGATCTTTTTCAACTATTTCGAAATAAAA-CTTTGAC
34560522 TTTTAAAAAAATAATA
129 TTTTAAAAAAATAATA
* **
34560538 TTTTTTAAAAAAAGAG-AAAGTTTAGATTTTTAAAAT-AAAAATATGTTTTTTAGTCATTTTTAA
1 TTTTTTAAAAAAAG-GCAAAGTTTAGATTTTAAAAATAAAAAATAT-TTTTTTAGTCATTTCAAA
* *
34560601 GGAAAAATTTAAATTTTTTAAAACAAAGTTTTGATCTTTTTCAACTATTTCGAAATAAAACTTTG
64 GG-AAAATTTAAA-ATTTTAAAACAAAGTTATGATCTTTTTCAACTATTTCGAAATAAAACTTTG
34560666 ACTTTTAAA
127 ACTTTTAAA
34560675 GAAAGTAGTG
Statistics
Matches: 123, Mismatches: 9, Indels: 9
0.87 0.06 0.06
Matches are distributed among these distances:
143 8 0.07
144 18 0.15
145 47 0.38
146 50 0.41
ACGTcount: A:0.44, C:0.05, G:0.09, T:0.43
Consensus pattern (144 bp):
TTTTTTAAAAAAAGGCAAAGTTTAGATTTTAAAAATAAAAAATATTTTTTTAGTCATTTCAAAGG
AAAATTTAAAATTTTAAAACAAAGTTATGATCTTTTTCAACTATTTCGAAATAAAACTTTGACTT
TTAAAAAAATAATA
Found at i:34570202 original size:20 final size:20
Alignment explanation
Indices: 34570174--34570240 Score: 80
Period size: 20 Copynumber: 3.4 Consensus size: 20
34570164 GCAAGTTGAG
34570174 ATGAGCTAAAGTTGAGCTGA
1 ATGAGCTAAAGTTGAGCTGA
* * *** *
34570194 ATAAGCTAAGGACAAGCTCA
1 ATGAGCTAAAGTTGAGCTGA
34570214 ATGAGCTAAAGTTGAGCTGA
1 ATGAGCTAAAGTTGAGCTGA
34570234 ATGAGCT
1 ATGAGCT
34570241 TGAAGTAGAG
Statistics
Matches: 35, Mismatches: 12, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.37, C:0.13, G:0.27, T:0.22
Consensus pattern (20 bp):
ATGAGCTAAAGTTGAGCTGA
Found at i:34576894 original size:20 final size:20
Alignment explanation
Indices: 34576825--34576898 Score: 76
Period size: 20 Copynumber: 3.6 Consensus size: 20
34576815 AATAATTGCA
34576825 AGCTAAGATGAGCTAAAGTTG
1 AGCTAA-ATGAGCTAAAGTTG
* * * ***
34576846 AGCTGAATAAGCTAAGGACA
1 AGCTAAATGAGCTAAAGTTG
*
34576866 AGCTCAATGAGCTAAAGTTG
1 AGCTAAATGAGCTAAAGTTG
34576886 AGCTAAATGAGCT
1 AGCTAAATGAGCT
34576899 TGAAGTAGAG
Statistics
Matches: 40, Mismatches: 13, Indels: 1
0.74 0.24 0.02
Matches are distributed among these distances:
20 35 0.88
21 5 0.12
ACGTcount: A:0.39, C:0.14, G:0.26, T:0.22
Consensus pattern (20 bp):
AGCTAAATGAGCTAAAGTTG
Found at i:34589509 original size:25 final size:25
Alignment explanation
Indices: 34589471--34589652 Score: 217
Period size: 25 Copynumber: 7.4 Consensus size: 25
34589461 GGAGTTTAGT
*
34589471 GTGCTCTCTGATTATTAGCACATTA
1 GTGCTCTCTGATTATTAGCACATCA
* *
34589496 GTGCTTTCTAATTATTAGCACATCA
1 GTGCTCTCTGATTATTAGCACATCA
*
34589521 GTGCTCTCTGATTATTAGCACGTCA
1 GTGCTCTCTGATTATTAGCACATCA
*
34589546 GTGCTCTCTGATTATTAGCACGTCA
1 GTGCTCTCTGATTATTAGCACATCA
* * * *
34589571 GTGTTCTCTGATTACTAGCACGTTA
1 GTGCTCTCTGATTATTAGCACATCA
* **
34589596 GTGCTCTCCGATTATTAGCACATTG
1 GTGCTCTCTGATTATTAGCACATCA
* *
34589621 GTGCTCTCCG--T-TTAGCACATCT
1 GTGCTCTCTGATTATTAGCACATCA
34589643 GTGCTCTCTG
1 GTGCTCTCTG
34589653 TATAACACTT
Statistics
Matches: 140, Mismatches: 17, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
22 18 0.13
23 1 0.01
25 121 0.86
ACGTcount: A:0.20, C:0.24, G:0.19, T:0.38
Consensus pattern (25 bp):
GTGCTCTCTGATTATTAGCACATCA
Found at i:34589638 original size:22 final size:22
Alignment explanation
Indices: 34589586--34589678 Score: 80
Period size: 22 Copynumber: 4.1 Consensus size: 22
34589576 CTCTGATTAC
*
34589586 TAGCACGTTAGTGCTCTCCGATTAT
1 TAGCACATTAGTGCTCTCCG--T-T
*
34589611 TAGCACATTGGTGCTCTCCGTT
1 TAGCACATTAGTGCTCTCCGTT
* *
34589633 TAGCACATCT-GTGCTCTCTGTA
1 TAGCACAT-TAGTGCTCTCCGTT
* * *
34589655 TAACACTTTAGTGCTCTCTGTT
1 TAGCACATTAGTGCTCTCCGTT
34589677 TA
1 TA
34589679 ATAGTGCATA
Statistics
Matches: 59, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
21 1 0.02
22 38 0.64
23 2 0.03
25 18 0.31
ACGTcount: A:0.18, C:0.25, G:0.18, T:0.39
Consensus pattern (22 bp):
TAGCACATTAGTGCTCTCCGTT
Found at i:34590059 original size:45 final size:45
Alignment explanation
Indices: 34590010--34590174 Score: 204
Period size: 45 Copynumber: 3.6 Consensus size: 45
34590000 ATCCATGAAA
*
34590010 ATAAAGGTGGTTGCTATGTGTTGATTCCACCGGATATTGTTAATT
1 ATAAAGGTGGTTGCTATGTGTTGATTCCACCGGATATCGTTAATT
*
34590055 ATAAAGGTGGTTGCTATGTGTTGATTCCACCGGATATCGTTATTT
1 ATAAAGGTGGTTGCTATGTGTTGATTCCACCGGATATCGTTAATT
* * * * * *
34590100 ATAAAGGTGGTTGATATGTGCTAATTTCACCGGATATCATTGATT
1 ATAAAGGTGGTTGCTATGTGTTGATTCCACCGGATATCGTTAATT
* * * * *
34590145 ACAAAGGGTGATTGCTGTGTGCTGAATCCA
1 ATAAA-GGTGGTTGCTATGTGTTGATTCCA
34590175 TCGTGTATCT
Statistics
Matches: 103, Mismatches: 16, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
45 85 0.83
46 18 0.17
ACGTcount: A:0.25, C:0.13, G:0.25, T:0.37
Consensus pattern (45 bp):
ATAAAGGTGGTTGCTATGTGTTGATTCCACCGGATATCGTTAATT
Found at i:34591996 original size:20 final size:20
Alignment explanation
Indices: 34591971--34592039 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 20
34591961 ATAAAGTACG
34591971 CCACAAAGGCTAGCAGAATA
1 CCACAAAGGCTAGCAGAATA
* *
34591991 CCACAAAGGCCATGTCAGATTA
1 CCACAAAGGCTA-G-CAGAATA
* **
34592013 CCACATAGGCTAATAGAATA
1 CCACAAAGGCTAGCAGAATA
34592033 CCACAAA
1 CCACAAA
34592040 AGGACATATC
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
20 22 0.56
21 1 0.03
22 16 0.41
ACGTcount: A:0.43, C:0.26, G:0.16, T:0.14
Consensus pattern (20 bp):
CCACAAAGGCTAGCAGAATA
Found at i:34592065 original size:24 final size:24
Alignment explanation
Indices: 34592038--34592090 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
34592028 GAATACCACA
*
34592038 AAAGGACATATCAAAATATGCCAT
1 AAAGGACAGATCAAAATATGCCAT
* * * *
34592062 AAAGGCCAGATTAGAGTATGCCAT
1 AAAGGACAGATCAAAATATGCCAT
34592086 AAAGG
1 AAAGG
34592091 CTAGCAGAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.45, C:0.15, G:0.21, T:0.19
Consensus pattern (24 bp):
AAAGGACAGATCAAAATATGCCAT
Found at i:34593744 original size:15 final size:16
Alignment explanation
Indices: 34593712--34593745 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
34593702 AGTTCATCTC
*
34593712 ATTTGCATTTAGGTTA
1 ATTTGCATCTAGGTTA
34593728 ATTTGCATCTA-GTTA
1 ATTTGCATCTAGGTTA
34593743 ATT
1 ATT
34593746 AATTTAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.26, C:0.09, G:0.15, T:0.50
Consensus pattern (16 bp):
ATTTGCATCTAGGTTA
Found at i:34597968 original size:20 final size:19
Alignment explanation
Indices: 34597945--34598051 Score: 61
Period size: 20 Copynumber: 5.5 Consensus size: 19
34597935 TACTTCGGTA
34597945 CCCCTGATTGCACATAGGTG
1 CCCCTG-TTGCACATAGGTG
* * * **
34597965 CCCCTGTTGTACTTTGGAA
1 CCCCTGTTGCACATAGGTG
* * *
34597984 CCCTTGATCGCACATACGTG
1 CCCCTG-TTGCACATAGGTG
* ** * *
34598004 CCCCTGTTGTATTTTGGTA
1 CCCCTGTTGCACATAGGTG
*
34598023 CCCCTGGTTGCACATACGTG
1 CCCCT-GTTGCACATAGGTG
34598043 CCCCTGTTG
1 CCCCTGTTG
34598052 TACTTCAGTA
Statistics
Matches: 58, Mismatches: 27, Indels: 5
0.64 0.30 0.06
Matches are distributed among these distances:
19 28 0.48
20 30 0.52
ACGTcount: A:0.15, C:0.31, G:0.22, T:0.32
Consensus pattern (19 bp):
CCCCTGTTGCACATAGGTG
Found at i:34597978 original size:39 final size:39
Alignment explanation
Indices: 34597910--34598082 Score: 204
Period size: 39 Copynumber: 4.4 Consensus size: 39
34597900 CAATTATACT
* *
34597910 TGATCGCACATACGTGCCCTTGGTT-TACTTCGGTACCCC
1 TGATTGCACATACGTGCCCCT-GTTGTACTTCGGTACCCC
* * * *
34597949 TGATTGCACATAGGTGCCCCTGTTGTACTTTGGAACCCT
1 TGATTGCACATACGTGCCCCTGTTGTACTTCGGTACCCC
* * *
34597988 TGATCGCACATACGTGCCCCTGTTGTATTTTGGTACCCC
1 TGATTGCACATACGTGCCCCTGTTGTACTTCGGTACCCC
* * **
34598027 TGGTTGCACATACGTGCCCCTGTTGTACTTCAGTACCTT
1 TGATTGCACATACGTGCCCCTGTTGTACTTCGGTACCCC
*
34598066 TGATTGCACTTACGTGC
1 TGATTGCACATACGTGC
34598083 TTTGTTAACG
Statistics
Matches: 113, Mismatches: 20, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
38 3 0.03
39 110 0.97
ACGTcount: A:0.16, C:0.29, G:0.21, T:0.34
Consensus pattern (39 bp):
TGATTGCACATACGTGCCCCTGTTGTACTTCGGTACCCC
Found at i:34598037 original size:78 final size:78
Alignment explanation
Indices: 34597908--34598056 Score: 237
Period size: 78 Copynumber: 1.9 Consensus size: 78
34597898 TGCAATTATA
* *
34597908 CTTGATCGCACATACGTGCCCTTGGTTTACTTCGGTACCCCTGATTGCACATAGGTGCCCCTGTT
1 CTTGATCGCACATACGTGCCCCTGGTTTACTTCGGTACCCCTGATTGCACATACGTGCCCCTGTT
34597973 GTACTTTGGAACC
66 GTACTTTGGAACC
* * *
34597986 CTTGATCGCACATACGTGCCCCT-GTTGTATTTTGGTACCCCTGGTTGCACATACGTGCCCCTGT
1 CTTGATCGCACATACGTGCCCCTGGTT-TACTTCGGTACCCCTGATTGCACATACGTGCCCCTGT
34598050 TGTACTT
65 TGTACTT
34598057 CAGTACCTTT
Statistics
Matches: 65, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
77 3 0.05
78 62 0.95
ACGTcount: A:0.15, C:0.30, G:0.21, T:0.34
Consensus pattern (78 bp):
CTTGATCGCACATACGTGCCCCTGGTTTACTTCGGTACCCCTGATTGCACATACGTGCCCCTGTT
GTACTTTGGAACC
Found at i:34598069 original size:78 final size:78
Alignment explanation
Indices: 34597908--34598082 Score: 235
Period size: 78 Copynumber: 2.2 Consensus size: 78
34597898 TGCAATTATA
* *
34597908 CTTGATCGCACATACGTGCCCTTGGTTTACTTCGGTACCCCTGATTGCACATAGGTGCCCCTGTT
1 CTTGATCGCACATACGTGCCCCTGGTTTACTTCGGTACCCCTGATTGCACATACGTGCCCCTGTT
**
34597973 GTACTTTGGAACC
66 GTACTTCAGAACC
* * *
34597986 CTTGATCGCACATACGTGCCCCT-GTTGTATTTTGGTACCCCTGGTTGCACATACGTGCCCCTGT
1 CTTGATCGCACATACGTGCCCCTGGTT-TACTTCGGTACCCCTGATTGCACATACGTGCCCCTGT
*
34598050 TGTACTTCAGTACC
65 TGTACTTCAGAACC
* * *
34598064 TTTGATTGCACTTACGTGC
1 CTTGATCGCACATACGTGC
34598083 TTTGTTAACG
Statistics
Matches: 85, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
77 3 0.04
78 82 0.96
ACGTcount: A:0.16, C:0.29, G:0.21, T:0.34
Consensus pattern (78 bp):
CTTGATCGCACATACGTGCCCCTGGTTTACTTCGGTACCCCTGATTGCACATACGTGCCCCTGTT
GTACTTCAGAACC
Found at i:34610782 original size:20 final size:20
Alignment explanation
Indices: 34610741--34610783 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
34610731 ACCCCTATAG
* *
34610741 TTTGAAAATTTTCATCTTTT
1 TTTGAAAATTTTCATATGTT
34610761 TTTGAAAA-TTTCTATATGTT
1 TTTGAAAATTTTC-ATATGTT
34610781 TTT
1 TTT
34610784 TATTTAGTCC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.26, C:0.07, G:0.07, T:0.60
Consensus pattern (20 bp):
TTTGAAAATTTTCATATGTT
Found at i:34645589 original size:21 final size:21
Alignment explanation
Indices: 34645563--34645606 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
34645553 TTATATTAAG
34645563 TTGATTTAAAATGCGGAAGGA
1 TTGATTTAAAATGCGGAAGGA
34645584 TTGATTTAAAATGCGGAAGGA
1 TTGATTTAAAATGCGGAAGGA
34645605 TT
1 TT
34645607 TGAAAACTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.36, C:0.05, G:0.27, T:0.32
Consensus pattern (21 bp):
TTGATTTAAAATGCGGAAGGA
Found at i:34646138 original size:26 final size:26
Alignment explanation
Indices: 34646108--34646158 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
34646098 ACACCAATAT
34646108 CGCAGCAAAGCTGCCAATAACAGTAA
1 CGCAGCAAAGCTGCCAATAACAGTAA
* *
34646134 CGCAGCAAAGCTGCCAGTAATAGTA
1 CGCAGCAAAGCTGCCAATAACAGTA
34646159 TATGTGGCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.39, C:0.25, G:0.22, T:0.14
Consensus pattern (26 bp):
CGCAGCAAAGCTGCCAATAACAGTAA
Found at i:34646570 original size:27 final size:27
Alignment explanation
Indices: 34646332--34646586 Score: 271
Period size: 27 Copynumber: 9.5 Consensus size: 27
34646322 TAGGGGTACA
* *
34646332 GTCATTTTACCCTAT-GGGGGTTTTTCG
1 GTCATTTTACCC-ATCGAGGGTATTTCG
* * *
34646359 ATCATTTTACCCTTCGGGGGTATTTCG
1 GTCATTTTACCCATCGAGGGTATTTCG
34646386 GTCATTTTACCCATCGAGGGTATTTCG
1 GTCATTTTACCCATCGAGGGTATTTCG
* * ** *
34646413 ATCATTTTACTCATTAAGGGTATTTCA
1 GTCATTTTACCCATCGAGGGTATTTCG
* * * **
34646440 GTCATATTACCCATCAAAGGTATTTTA
1 GTCATTTTACCCATCGAGGGTATTTCG
* *
34646467 GTTATTTTACCCACCGAGGGTATTTCG
1 GTCATTTTACCCATCGAGGGTATTTCG
* * *
34646494 ATCATTTTACCCATTGAGGGTATTTCA
1 GTCATTTTACCCATCGAGGGTATTTCG
*
34646521 GTCATTTTACCCATTGAGGGTATTTCG
1 GTCATTTTACCCATCGAGGGTATTTCG
* * *
34646548 GTCATTTTACCCGTCGAGAGTATTTCC
1 GTCATTTTACCCATCGAGGGTATTTCG
34646575 GTCATTTT-CCCA
1 GTCATTTTACCCA
34646587 CGAATCGCAA
Statistics
Matches: 191, Mismatches: 36, Indels: 3
0.83 0.16 0.01
Matches are distributed among these distances:
26 4 0.02
27 187 0.98
ACGTcount: A:0.21, C:0.21, G:0.18, T:0.40
Consensus pattern (27 bp):
GTCATTTTACCCATCGAGGGTATTTCG
Found at i:34656206 original size:3 final size:3
Alignment explanation
Indices: 34656198--34656274 Score: 136
Period size: 3 Copynumber: 25.7 Consensus size: 3
34656188 CTCTATGGGA
* *
34656198 TCT TCT TCT TCT TTT TCT TCT TCT CCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
34656246 TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
34656275 AGGATCCTCT
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 70 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:34657918 original size:15 final size:15
Alignment explanation
Indices: 34657898--34657930 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
34657888 TATAAAGTTG
34657898 ATAAT-AATATATATT
1 ATAATAAATATA-ATT
34657913 ATAATAAATATAATT
1 ATAATAAATATAATT
34657928 ATA
1 ATA
34657931 TACTAGTTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
ATAATAAATATAATT
Found at i:34658056 original size:30 final size:29
Alignment explanation
Indices: 34657996--34658052 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
34657986 GTCTTTTGAA
* *
34657996 AATATTTACAAAAAGAGACATCTAATTTG
1 AATATTTACAAAAAAAGACATCAAATTTG
34658025 AATATTTACAAAAAAAG-CAATCAAATTT
1 AATATTTACAAAAAAAGAC-ATCAAATTT
34658053 TGAAAATAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 1 0.04
29 24 0.96
ACGTcount: A:0.53, C:0.11, G:0.07, T:0.30
Consensus pattern (29 bp):
AATATTTACAAAAAAAGACATCAAATTTG
Found at i:34666236 original size:28 final size:27
Alignment explanation
Indices: 34666172--34666379 Score: 326
Period size: 28 Copynumber: 7.6 Consensus size: 27
34666162 TTATTAAGTC
* *
34666172 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
34666199 CGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCA-ACT
*
34666227 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
34666254 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
34666282 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
34666310 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
* *
34666338 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
34666365 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
34666380 GCACAATTTA
Statistics
Matches: 173, Mismatches: 6, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
27 66 0.38
28 107 0.62
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:34666256 original size:55 final size:55
Alignment explanation
Indices: 34666172--34666379 Score: 344
Period size: 55 Copynumber: 3.8 Consensus size: 55
34666162 TTATTAAGTC
* * *
34666172 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
* *
34666227 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
34666282 CGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACTCGCACACTTAGTGCTACATAATCAAACT
* *
34666338 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCT
34666380 GCACAATTTA
Statistics
Matches: 143, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
55 90 0.63
56 53 0.37
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:34666368 original size:111 final size:110
Alignment explanation
Indices: 34666172--34666379 Score: 371
Period size: 111 Copynumber: 1.9 Consensus size: 110
34666162 TTATTAAGTC
* *
34666172 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCATACTCGCACACTTA
1 CGCACACTCAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
34666237 GTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
66 GTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
*
34666282 CGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTT
1 CGCACACTCAGTGCTACATAATC-AACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTT
*
34666347 AGTGCTACATAGTCAATTCGCACACTTAGTGCT
65 AGTGCTACATAGTCAACTCGCACACTTAGTGCT
34666380 GCACAATTTA
Statistics
Matches: 93, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
110 21 0.23
111 72 0.77
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.26
Consensus pattern (110 bp):
CGCACACTCAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
GTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
Found at i:34694169 original size:27 final size:27
Alignment explanation
Indices: 34694138--34694314 Score: 203
Period size: 27 Copynumber: 6.5 Consensus size: 27
34694128 TAAATTGTAC
34694138 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
34694165 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
34694191 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
34694219 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
34694247 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
34694274 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
34694301 AGCACTGAGTGTGC
1 AGCACTAAGTGTGC
34694315 AGACTCAATA
Statistics
Matches: 128, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 105 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:34694252 original size:82 final size:81
Alignment explanation
Indices: 34694139--34694294 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
34694129 AAATTGTACA
* *
34694139 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
34694203 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
34694220 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
34694285 TGCGAGTTGA
65 TGCGAATTGA
34694295 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:34694306 original size:82 final size:81
Alignment explanation
Indices: 34694135--34694314 Score: 227
Period size: 82 Copynumber: 2.2 Consensus size: 81
34694125 GATTAAATTG
* *
34694135 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
34694200 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
34694216 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
34694280 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
34694298 TATAGCACTGAGTGTGC
1 TACAGCACTAAGTGTGC
34694315 AGACTCAATA
Statistics
Matches: 83, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:34698077 original size:17 final size:16
Alignment explanation
Indices: 34698051--34698097 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 16
34698041 CGCGAACTAA
* *
34698051 AGAGTCCGCCAATCCAT
1 AGAGTTCGCCAAACC-T
34698068 AGAGTTCGCCAAAACCT
1 AGAGTTCGCC-AAACCT
34698085 AGAGTTCGCCAAA
1 AGAGTTCGCCAAA
34698098 TGGCGAATCC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
16 3 0.11
17 20 0.74
18 4 0.15
ACGTcount: A:0.34, C:0.30, G:0.19, T:0.17
Consensus pattern (16 bp):
AGAGTTCGCCAAACCT
Found at i:34701988 original size:2 final size:2
Alignment explanation
Indices: 34701976--34702023 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
34701966 GTAGAAGAAC
*
34701976 GA GA AA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
34702018 GA GA GA
1 GA GA GA
34702024 TTTGCAATAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
GA
Found at i:34702900 original size:14 final size:15
Alignment explanation
Indices: 34702853--34702903 Score: 79
Period size: 14 Copynumber: 3.5 Consensus size: 15
34702843 ATGTTTCACA
*
34702853 TCCTTAATTCTCTTT
1 TCCTTCATTCTCTTT
34702868 TCC-TCATTCTCTTT
1 TCCTTCATTCTCTTT
34702882 TCCTTC-TTCTCTTT
1 TCCTTCATTCTCTTT
34702896 TCCTTCAT
1 TCCTTCAT
34702904 CCTACCTGCA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
14 27 0.82
15 6 0.18
ACGTcount: A:0.08, C:0.33, G:0.00, T:0.59
Consensus pattern (15 bp):
TCCTTCATTCTCTTT
Found at i:34704571 original size:32 final size:32
Alignment explanation
Indices: 34704535--34704600 Score: 116
Period size: 32 Copynumber: 2.1 Consensus size: 32
34704525 AATGTATATC
34704535 TATGTTTATGGAAAGTATGAGC-TTAATGGCAT
1 TATGTTTATGGAAAGTATGA-CTTTAATGGCAT
34704567 TATGTTTATGGAAAGTATGACTTTAATGGCAT
1 TATGTTTATGGAAAGTATGACTTTAATGGCAT
34704599 TA
1 TA
34704601 CGTTCATGTG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
31 1 0.03
32 32 0.97
ACGTcount: A:0.32, C:0.06, G:0.23, T:0.39
Consensus pattern (32 bp):
TATGTTTATGGAAAGTATGACTTTAATGGCAT
Found at i:34707140 original size:28 final size:28
Alignment explanation
Indices: 34707109--34707183 Score: 75
Period size: 27 Copynumber: 2.7 Consensus size: 28
34707099 ATAACTGTTT
34707109 TACCCCTAATAGATGGAAATGACCAAAA
1 TACCCCTAATAGATGGAAATGACCAAAA
* ***
34707137 TACCCCTAA-AG--GGTAAAATGACTATTT
1 TACCCCTAATAGATGG--AAATGACCAAAA
34707164 TACCCCTAATAGATGGAAAT
1 TACCCCTAATAGATGGAAAT
34707184 AACCGTTATG
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
25 2 0.05
27 19 0.50
28 15 0.39
30 2 0.05
ACGTcount: A:0.41, C:0.20, G:0.15, T:0.24
Consensus pattern (28 bp):
TACCCCTAATAGATGGAAATGACCAAAA
Found at i:34707146 original size:55 final size:55
Alignment explanation
Indices: 34707078--34707183 Score: 185
Period size: 55 Copynumber: 1.9 Consensus size: 55
34707068 TAAAATGAAA
* *
34707078 AAAATACCTCTAAAGGGTAAAATAACTGTTTTACCCCTAATAGATGGAAATGACC
1 AAAATACCCCTAAAGGGTAAAATAACTATTTTACCCCTAATAGATGGAAATGACC
*
34707133 AAAATACCCCTAAAGGGTAAAATGACTATTTTACCCCTAATAGATGGAAAT
1 AAAATACCCCTAAAGGGTAAAATAACTATTTTACCCCTAATAGATGGAAAT
34707184 AACCGTTATG
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 48 1.00
ACGTcount: A:0.42, C:0.18, G:0.14, T:0.25
Consensus pattern (55 bp):
AAAATACCCCTAAAGGGTAAAATAACTATTTTACCCCTAATAGATGGAAATGACC
Found at i:34707167 original size:27 final size:27
Alignment explanation
Indices: 34707082--34707172 Score: 78
Period size: 27 Copynumber: 3.3 Consensus size: 27
34707072 ATGAAAAAAA
* * *
34707082 TACCTCTAAAGGGTAAAATAACTGTTT
1 TACCCCTAAAGGGTAAAATGACTATTT
* ***
34707109 TACCCCTAATAGATGG--AAATGACCAAAA
1 TACCCCTAA-AG--GGTAAAATGACTATTT
34707137 TACCCCTAAAGGGTAAAATGACTATTT
1 TACCCCTAAAGGGTAAAATGACTATTT
34707164 TACCCCTAA
1 TACCCCTAA
34707173 TAGATGGAAA
Statistics
Matches: 48, Mismatches: 11, Indels: 10
0.70 0.16 0.14
Matches are distributed among these distances:
25 2 0.04
27 27 0.56
28 17 0.35
30 2 0.04
ACGTcount: A:0.40, C:0.21, G:0.13, T:0.26
Consensus pattern (27 bp):
TACCCCTAAAGGGTAAAATGACTATTT
Found at i:34707403 original size:26 final size:26
Alignment explanation
Indices: 34707324--34707404 Score: 117
Period size: 26 Copynumber: 3.1 Consensus size: 26
34707314 TGGAGGAAGT
**
34707324 ATACTGTTACTGGCAGCTTTGCTGTA
1 ATACTGTTACTGGCAGCTTTGCTGCG
34707350 ATACTGTTACTGGCAGCTTTGCTGCG
1 ATACTGTTACTGGCAGCTTTGCTGCG
* * *
34707376 ATACTATTACTAGCAGCTTTGCTACG
1 ATACTGTTACTGGCAGCTTTGCTGCG
34707402 ATA
1 ATA
34707405 TTGGTGTGTT
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 50 1.00
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.36
Consensus pattern (26 bp):
ATACTGTTACTGGCAGCTTTGCTGCG
Found at i:34711093 original size:32 final size:32
Alignment explanation
Indices: 34711052--34711114 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
34711042 AATGAGTTGT
34711052 TGTTGGAATCCCTATAATTAAGGATAGAAATC
1 TGTTGGAATCCCTATAATTAAGGATAGAAATC
34711084 TGTTGGAATCCCTATAATTAAGGATAGAAAT
1 TGTTGGAATCCCTATAATTAAGGATAGAAAT
34711115 ATTACCTTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.32
Consensus pattern (32 bp):
TGTTGGAATCCCTATAATTAAGGATAGAAATC
Found at i:34714987 original size:24 final size:24
Alignment explanation
Indices: 34714955--34715003 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
34714945 ATGGAGTTTA
34714955 ACCTTAAATTGGGAACTAATGAGG
1 ACCTTAAATTGGGAACTAATGAGG
34714979 ACCTTAAATTGGGAACTAATGAGG
1 ACCTTAAATTGGGAACTAATGAGG
34715003 A
1 A
34715004 TGGAGAAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.39, C:0.12, G:0.24, T:0.24
Consensus pattern (24 bp):
ACCTTAAATTGGGAACTAATGAGG
Found at i:34715749 original size:32 final size:32
Alignment explanation
Indices: 34715708--34715804 Score: 194
Period size: 32 Copynumber: 3.0 Consensus size: 32
34715698 TGAGGGGGAG
34715708 TGTTGGAATCCCTATAATTAAGGATAGAAATC
1 TGTTGGAATCCCTATAATTAAGGATAGAAATC
34715740 TGTTGGAATCCCTATAATTAAGGATAGAAATC
1 TGTTGGAATCCCTATAATTAAGGATAGAAATC
34715772 TGTTGGAATCCCTATAATTAAGGATAGAAATC
1 TGTTGGAATCCCTATAATTAAGGATAGAAATC
34715804 T
1 T
34715805 TACCTTATTA
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 65 1.00
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.32
Consensus pattern (32 bp):
TGTTGGAATCCCTATAATTAAGGATAGAAATC
Found at i:34717226 original size:3 final size:3
Alignment explanation
Indices: 34717218--34717336 Score: 170
Period size: 3 Copynumber: 40.3 Consensus size: 3
34717208 GTAGTAAGCT
* * * *
34717218 TTG TTG TTG TTG CTA TTG TTG TT- TT- TTG TTG TTG TTG TTG TTG CTA
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
34717264 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
* *
34717312 TTG TTG TTG TTT TTG TTG GTG TTG T
1 TTG TTG TTG TTG TTG TTG TTG TTG T
34717337 GAGATAGATC
Statistics
Matches: 103, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
2 4 0.04
3 99 0.96
ACGTcount: A:0.02, C:0.02, G:0.30, T:0.66
Consensus pattern (3 bp):
TTG
Found at i:34730614 original size:40 final size:40
Alignment explanation
Indices: 34730516--34730778 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
34730506 TCCTCGTTCA
* * * * *
34730516 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
34730555 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
34730595 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
34730635 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
34730675 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
34730715 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
34730755 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
34730779 CGGCATTCAA
Statistics
Matches: 200, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 37 0.19
40 155 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:34738537 original size:40 final size:40
Alignment explanation
Indices: 34738439--34738701 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
34738429 TCCTCGTTCA
* * * * *
34738439 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
34738478 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
34738518 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
34738558 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
34738598 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
34738638 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
34738678 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
34738702 CAGCATTCAA
Statistics
Matches: 200, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 37 0.19
40 155 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:34740778 original size:47 final size:47
Alignment explanation
Indices: 34740707--34741019 Score: 509
Period size: 47 Copynumber: 6.7 Consensus size: 47
34740697 CCCTTCGGGA
* * * * * *
34740707 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
34740754 CCTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
34740801 CTTATCACATATATACACTTTCACATTCATCACATAGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34740848 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
34740895 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
34740942 CTTATCATATATATACACTTTCACATTCATCACATCGGCGATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34740989 CTTATCACATATATACACTTTCACATTCATC
1 CTTATCACATATATACACTTTCACATTCATC
34741020 TCACATATAT
Statistics
Matches: 249, Mismatches: 17, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 249 1.00
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:34740961 original size:141 final size:140
Alignment explanation
Indices: 34740707--34741277 Score: 822
Period size: 141 Copynumber: 4.2 Consensus size: 140
34740697 CCCTTCGGGA
* * * * * *
34740707 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGG-CCTATCACATATATACAC
*
34740772 TTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATA
65 TTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
34740837 GGCCATTAGGC
130 GGCCATTAGGC
34740848 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC-TATCACATATATACAC
*
34740913 TTTCACATTCATCACATCGGCTATTAGGCCTTATCATATATATACACTTTCACATTCATCACATC
65 TTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
* *
34740978 GGCGATTAAGC
130 GGCCATTAGGC
*
34740989 CTTATCACATATATACACTTTCACATTCAT--C-TC--ACA-TA----TAT-ACACT-T-T-CAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTATCACA-TATATACAC
* * *
34741040 -AT-----TCATCACGTCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACGTC
65 TTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
34741099 GGCCATTAGGC
130 GGCCATTAGGC
* *
34741110 CTTATCACATATATACACTTTCACATTCGTCACATCGGCTATTAGGCCGTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC-TATCACATATATACAC
34741175 TTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
65 TTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
34741240 GGCCATTAGGC
130 GGCCATTAGGC
34741251 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
34741278 TATTCAAATA
Statistics
Matches: 384, Mismatches: 23, Indels: 46
0.85 0.05 0.10
Matches are distributed among these distances:
121 92 0.24
123 1 0.00
124 2 0.01
126 2 0.01
127 5 0.01
128 1 0.00
129 4 0.01
130 4 0.01
132 4 0.01
133 4 0.01
134 1 0.00
135 5 0.01
136 3 0.01
138 2 0.01
139 1 0.00
140 2 0.01
141 251 0.65
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (140 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTATCACATATATACACT
TTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
GCCATTAGGC
Found at i:34741014 original size:16 final size:16
Alignment explanation
Indices: 34740993--34741041 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 16
34740983 TTAAGCCTTA
34740993 TCACATATATACACTT
1 TCACATATATACACTT
*
34741009 TCAC--AT-T-CA-TC
1 TCACATATATACACTT
34741020 TCACATATATACACTT
1 TCACATATATACACTT
34741036 TCACAT
1 TCACAT
34741042 TCATCACGTC
Statistics
Matches: 26, Mismatches: 2, Indels: 10
0.68 0.05 0.26
Matches are distributed among these distances:
11 5 0.19
12 2 0.08
13 3 0.12
14 3 0.12
15 2 0.08
16 11 0.42
ACGTcount: A:0.35, C:0.29, G:0.00, T:0.37
Consensus pattern (16 bp):
TCACATATATACACTT
Found at i:34741031 original size:27 final size:27
Alignment explanation
Indices: 34740993--34741046 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
34740983 TTAAGCCTTA
34740993 TCACATATATACACTTTCACATTCATC
1 TCACATATATACACTTTCACATTCATC
34741020 TCACATATATACACTTTCACATTCATC
1 TCACATATATACACTTTCACATTCATC
34741047 ACGTCGGCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.30, G:0.00, T:0.37
Consensus pattern (27 bp):
TCACATATATACACTTTCACATTCATC
Found at i:34741035 original size:74 final size:74
Alignment explanation
Indices: 34740950--34741093 Score: 261
Period size: 74 Copynumber: 1.9 Consensus size: 74
34740940 GCCTTATCAT
34740950 ATATATACACTTTCACATTCATCACATCGGCGATTAAGCCTTATCACATATATACACTTTCACAT
1 ATATATACACTTTCACATTCATCACATCGGCGATTAAGCCTTATCACATATATACACTTTCACAT
34741015 TCATCTCAC
66 TCATCTCAC
* * *
34741024 ATATATACACTTTCACATTCATCACGTCGGCTATTAGGCCTTATCACATATATACACTTTCACAT
1 ATATATACACTTTCACATTCATCACATCGGCGATTAAGCCTTATCACATATATACACTTTCACAT
34741089 TCATC
66 TCATC
34741094 ACGTCGGCCA
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
74 67 1.00
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (74 bp):
ATATATACACTTTCACATTCATCACATCGGCGATTAAGCCTTATCACATATATACACTTTCACAT
TCATCTCAC
Found at i:34741073 original size:47 final size:47
Alignment explanation
Indices: 34741020--34741277 Score: 462
Period size: 47 Copynumber: 5.5 Consensus size: 47
34741010 CACATTCATC
*
34741020 TCACATATATACACTTTCACATTCATCACGTCGGCTATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
* *
34741067 TCACATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
* *
34741114 TCACATATATACACTTTCACATTCGTCACATCGGCTATTAGGCCGTA
1 TCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
34741161 TCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
*
34741208 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
34741255 TCACATATATACACTTTCACATT
1 TCACATATATACACTTTCACATT
34741278 TATTCAAATA
Statistics
Matches: 203, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 203 1.00
ACGTcount: A:0.29, C:0.28, G:0.09, T:0.33
Consensus pattern (47 bp):
TCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
Found at i:34741176 original size:215 final size:215
Alignment explanation
Indices: 34740805--34741234 Score: 779
Period size: 215 Copynumber: 2.0 Consensus size: 215
34740795 TTAGGCCTTA
34740805 TCACATATATACACTTTCACATTCATCACATAGGCCATTAGGCCTTATCACATATATACACTTTC
1 TCACATATATACACTTTCACATTCATCACATAGGCCATTAGGCCTTATCACATATATACACTTTC
34740870 ACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCT
66 ACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCT
* *
34740935 ATTAGGCCTTATCATATATATACACTTTCACATTCATCACATCGGCGATTAAGCCTTATCACATA
131 ATTAGGCCGTATCACATATATACACTTTCACATTCATCACATCGGCGATTAAGCCTTATCACATA
34741000 TATACACTTTCACATTCATC
196 TATACACTTTCACATTCATC
* * *
34741020 TCACATATATACACTTTCACATTCATCACGTCGGCTATTAGGCCTTATCACATATATACACTTTC
1 TCACATATATACACTTTCACATTCATCACATAGGCCATTAGGCCTTATCACATATATACACTTTC
* *
34741085 ACATTCATCACGTCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCGTCACATCGGCT
66 ACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCT
* *
34741150 ATTAGGCCGTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATA
131 ATTAGGCCGTATCACATATATACACTTTCACATTCATCACATCGGCGATTAAGCCTTATCACATA
34741215 TATACACTTTCACATTCATC
196 TATACACTTTCACATTCATC
34741235 ACATCGGCCA
Statistics
Matches: 206, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
215 206 1.00
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.33
Consensus pattern (215 bp):
TCACATATATACACTTTCACATTCATCACATAGGCCATTAGGCCTTATCACATATATACACTTTC
ACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCT
ATTAGGCCGTATCACATATATACACTTTCACATTCATCACATCGGCGATTAAGCCTTATCACATA
TATACACTTTCACATTCATC
Found at i:34741223 original size:262 final size:262
Alignment explanation
Indices: 34740758--34741277 Score: 959
Period size: 262 Copynumber: 2.0 Consensus size: 262
34740748 CTCGGCCCTA
34740758 TCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTC
1 TCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTC
34740823 ACATTCATCACATAGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCC
66 ACATTCATCACATAGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCC
* *
34740888 ATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCATATA
131 ATTAGGCCGTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATA
*
34740953 TATACACTTTCACATTCATCACATCGGCGATTAAGCCTTATCACATATATACACTTTCACATTCA
196 TATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATACACTTTCACATTCA
34741018 TC
261 TC
*
34741020 TCACATATATACACTTTCACATTCATCACGTCGGCTATTAGGCCTTATCACATATATACACTTTC
1 TCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTC
* * * *
34741085 ACATTCATCACGTCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCGTCACATCGGCT
66 ACATTCATCACATAGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCC
34741150 ATTAGGCCGTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATA
131 ATTAGGCCGTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATA
*
34741215 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATT
196 TATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATACACTTTCACATT
34741278 TATTCAAATA
Statistics
Matches: 249, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
262 249 1.00
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.33
Consensus pattern (262 bp):
TCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTC
ACATTCATCACATAGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCC
ATTAGGCCGTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATA
TATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATACACTTTCACATTCA
TC
Found at i:34752258 original size:17 final size:16
Alignment explanation
Indices: 34752235--34752276 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 16
34752225 CTCTTTTTTC
34752235 TTTCTTTTGC-TTTCTT
1 TTTCTTTT-CATTTCTT
34752251 TTTCCTTTTCAATTTCTT
1 TTT-CTTTTC-ATTTCTT
34752269 TTTCTTTT
1 TTTCTTTT
34752277 TTTTCATTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 4 0.17
17 10 0.43
18 9 0.39
ACGTcount: A:0.05, C:0.19, G:0.02, T:0.74
Consensus pattern (16 bp):
TTTCTTTTCATTTCTT
Found at i:34757133 original size:11 final size:12
Alignment explanation
Indices: 34757113--34757151 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 12
34757103 TTTTTTTTTG
34757113 AATTTCTTTTCAA
1 AATTT-TTTTCAA
34757126 AATTTTTTTCGAA
1 AATTTTTTTC-AA
*
34757139 ATTTTTTTTCAA
1 AATTTTTTTCAA
34757151 A
1 A
34757152 TACTTACTCC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
12 8 0.33
13 16 0.67
ACGTcount: A:0.31, C:0.10, G:0.03, T:0.56
Consensus pattern (12 bp):
AATTTTTTTCAA
Found at i:34757141 original size:25 final size:24
Alignment explanation
Indices: 34757104--34757151 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
34757094 TGTTCACAAT
*
34757104 TTTTTTTTGAATTTCTTTTCAAAA
1 TTTTTTTCGAATTTCTTTTCAAAA
*
34757128 TTTTTTTCGAAATTTTTTTTCAAA
1 TTTTTTTCG-AATTTCTTTTCAAA
34757152 TACTTACTCC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.25, C:0.08, G:0.04, T:0.62
Consensus pattern (24 bp):
TTTTTTTCGAATTTCTTTTCAAAA
Found at i:34757152 original size:12 final size:12
Alignment explanation
Indices: 34757096--34757152 Score: 60
Period size: 12 Copynumber: 4.6 Consensus size: 12
34757086 TACAACCATG
34757096 TTCACAATTTTTT
1 TTCA-AATTTTTT
** *
34757109 TTTGAATTTCTT
1 TTCAAATTTTTT
*
34757121 TTCAAAATTTTT
1 TTCAAATTTTTT
34757133 TTCGAAATTTTTT
1 TTC-AAATTTTTT
34757146 TTCAAAT
1 TTCAAAT
34757153 ACTTACTCCG
Statistics
Matches: 35, Mismatches: 8, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
12 22 0.63
13 13 0.37
ACGTcount: A:0.26, C:0.11, G:0.04, T:0.60
Consensus pattern (12 bp):
TTCAAATTTTTT
Found at i:34757358 original size:24 final size:25
Alignment explanation
Indices: 34757312--34757358 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
34757302 AGGAATTTGG
*
34757312 CTAAATGAATTGATGATGGAAATGA
1 CTAAATGAATTGATGATGAAAATGA
* *
34757337 CTAAGTGAA-TGATGGTGAAAAT
1 CTAAATGAATTGATGATGAAAAT
34757359 TCAGCCAAGG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 11 0.58
25 8 0.42
ACGTcount: A:0.43, C:0.04, G:0.26, T:0.28
Consensus pattern (25 bp):
CTAAATGAATTGATGATGAAAATGA
Found at i:34765568 original size:18 final size:19
Alignment explanation
Indices: 34765545--34765582 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
34765535 CTGGTGAGTA
34765545 CAATGTA-AG-TTCTACTTT
1 CAATGTAGAGATTC-ACTTT
34765563 CAATGTAGAGATTCACTTT
1 CAATGTAGAGATTCACTTT
34765582 C
1 C
34765583 TTGTTTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.39
19 8 0.44
20 3 0.17
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.39
Consensus pattern (19 bp):
CAATGTAGAGATTCACTTT
Found at i:34772757 original size:66 final size:67
Alignment explanation
Indices: 34772680--34772808 Score: 197
Period size: 67 Copynumber: 1.9 Consensus size: 67
34772670 TCCATTTCAA
* *
34772680 AGAGCACACTCCCGCGAACCTCA-TCCTTGCAGCGGGATTACCAGTCCAGACTACATCCCCTGCA
1 AGAGCACACTCCCGCGAACCTCATTCCTTACAGCGGGATTACCAGTCCAGACTAAATCCCCTGCA
34772744 AG
66 AG
* * * *
34772746 AGAGCACACTCCCGTGAACCTTATTCCTTACAGTGGGATTACCAGTCCAGGCTAAATCCCCTG
1 AGAGCACACTCCCGCGAACCTCATTCCTTACAGCGGGATTACCAGTCCAGACTAAATCCCCTG
34772809 TAATATAAAC
Statistics
Matches: 56, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
66 21 0.38
67 35 0.62
ACGTcount: A:0.26, C:0.35, G:0.19, T:0.20
Consensus pattern (67 bp):
AGAGCACACTCCCGCGAACCTCATTCCTTACAGCGGGATTACCAGTCCAGACTAAATCCCCTGCA
AG
Found at i:34773023 original size:57 final size:57
Alignment explanation
Indices: 34772930--34773043 Score: 160
Period size: 57 Copynumber: 2.0 Consensus size: 57
34772920 ACCCTAATTC
* * *
34772930 AGATTACCCGTCCGGGCTAAATCCATTTTTCACATATTCTTCGGGAGGGCTATATCA
1 AGATCACCCGTCCAGGCTAAATCCATTTTTCACATATTCTTCAGGAGGGCTATATCA
*
34772987 AGATCACCCGTCCAGGCTAGAT-C-TTTTTCACACATATTCTTCAGGAGGGCTATATCA
1 AGATCACCCGTCCAGGCTAAATCCATTTTT--CACATATTCTTCAGGAGGGCTATATCA
34773044 GGATAGGATC
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
55 5 0.10
56 1 0.02
57 45 0.88
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.31
Consensus pattern (57 bp):
AGATCACCCGTCCAGGCTAAATCCATTTTTCACATATTCTTCAGGAGGGCTATATCA
Found at i:34776168 original size:16 final size:16
Alignment explanation
Indices: 34776138--34776194 Score: 51
Period size: 16 Copynumber: 3.5 Consensus size: 16
34776128 AAACTTTTTT
* *
34776138 CCCAAATTATAAAATC
1 CCCAAATCATGAAATC
* *
34776154 CCCAACTCATTAAATTC
1 CCCAAATCATGAAA-TC
* *
34776171 CCTAAATCGTGAAATC
1 CCCAAATCATGAAATC
34776187 CCCAAATC
1 CCCAAATC
34776195 CATAACATCT
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
16 20 0.62
17 12 0.38
ACGTcount: A:0.40, C:0.32, G:0.04, T:0.25
Consensus pattern (16 bp):
CCCAAATCATGAAATC
Found at i:34776316 original size:23 final size:23
Alignment explanation
Indices: 34776290--34776357 Score: 100
Period size: 23 Copynumber: 3.0 Consensus size: 23
34776280 TTAATCGCTT
34776290 AGAACCAAATCGTGAAATCCCTC
1 AGAACCAAATCGTGAAATCCCTC
* *
34776313 AGAACCAAATCATGAAATCCCTT
1 AGAACCAAATCGTGAAATCCCTC
* *
34776336 AAAACCAAATTGTGAAATCCCT
1 AGAACCAAATCGTGAAATCCCT
34776358 AATCTTTTCA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.43, C:0.26, G:0.10, T:0.21
Consensus pattern (23 bp):
AGAACCAAATCGTGAAATCCCTC
Found at i:34777211 original size:52 final size:51
Alignment explanation
Indices: 34777121--34777226 Score: 133
Period size: 52 Copynumber: 2.1 Consensus size: 51
34777111 GCTGTTTATT
* * *
34777121 TCTCTTTAATTTTTTTGCTTGTGCCGATTCATTGATTAAATTGTTTTAATC
1 TCTCTTTAATTTTTTTGCTTGAGCCGATTCATTAATTAAATTATTTTAATC
* * *
34777172 TCTCTTTAAATTTTTTTGCTTGAGTCGA-TCTATTAATTAACTTATTTTGATC
1 TCTCTTT-AATTTTTTTGCTTGAGCCGATTC-ATTAATTAAATTATTTTAATC
34777224 TCT
1 TCT
34777227 TTGTTGTGTT
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
51 9 0.19
52 38 0.81
ACGTcount: A:0.21, C:0.14, G:0.10, T:0.55
Consensus pattern (51 bp):
TCTCTTTAATTTTTTTGCTTGAGCCGATTCATTAATTAAATTATTTTAATC
Found at i:34777829 original size:22 final size:22
Alignment explanation
Indices: 34777804--34777850 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
34777794 CTAAGAGTCG
* * *
34777804 TAAACAGGATAGCTATAAGCTA
1 TAAACAGAATAGCTAGAAGCCA
*
34777826 TAAACAGAATGGCTAGAAGCCA
1 TAAACAGAATAGCTAGAAGCCA
34777848 TAA
1 TAA
34777851 GTGTAGTAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.47, C:0.15, G:0.19, T:0.19
Consensus pattern (22 bp):
TAAACAGAATAGCTAGAAGCCA
Found at i:34777910 original size:32 final size:32
Alignment explanation
Indices: 34777868--34778108 Score: 229
Period size: 32 Copynumber: 7.5 Consensus size: 32
34777858 AATGTGATTG
*
34777868 GCACAAAGCCATCAGTAGCAGTGATATGATCA
1 GCACAAAGCCATCAGTAACAGTGATATGATCA
* ** * * *
34777900 GCACACAGCCATCAGTAATGGTAACATGATCG
1 GCACAAAGCCATCAGTAACAGTGATATGATCA
* **
34777932 GCACAAAGCCATCAATGGCAGTGATATGATCA
1 GCACAAAGCCATCAGTAACAGTGATATGATCA
* * * *
34777964 GCACACAGCCATCAGTAACATTGAAATGATCG
1 GCACAAAGCCATCAGTAACAGTGATATGATCA
* ** *
34777996 GCACACAGCCATC-GATAATGGTAATATGATCA
1 GCACAAAGCCATCAG-TAACAGTGATATGATCA
* * *
34778028 GTACAAAGCCATTAGTAACGGT-ACTATGATCA
1 GCACAAAGCCATCAGTAACAGTGA-TATGATCA
34778060 GCACAAAGCCATCAGTAACAGT-ACTATGATC-
1 GCACAAAGCCATCAGTAACAGTGA-TATGATCA
34778091 GACACAAAGCCATCAGTA
1 G-CACAAAGCCATCAGTA
34778109 GCATCGTAGC
Statistics
Matches: 169, Mismatches: 36, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
31 3 0.02
32 165 0.98
33 1 0.01
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.20
Consensus pattern (32 bp):
GCACAAAGCCATCAGTAACAGTGATATGATCA
Found at i:34777945 original size:64 final size:64
Alignment explanation
Indices: 34777862--34778108 Score: 254
Period size: 64 Copynumber: 3.9 Consensus size: 64
34777852 TGTAGTAATG
* * *
34777862 TGATTGGCACAAAGCCATCAGTAGCAGTGATATGATCAGCACACAGCCATCAGTAATGGTAACA
1 TGATCGGCACAAAGCCATCAGTAACAGTGATATGATCAGCACAAAGCCATCAGTAATGGTAACA
* ** * *
34777926 TGATCGGCACAAAGCCATCAATGGCAGTGATATGATCAGCACACAGCCATCAGTAACATTG-AA-
1 TGATCGGCACAAAGCCATCAGTAACAGTGATATGATCAGCACAAAGCCATCAGT-A-ATGGTAAC
34777989 A
64 A
* ** * * * *
34777990 TGATCGGCACACAGCCATC-GATAATGGTAATATGATCAGTACAAAGCCATTAGTAACGGT-ACT
1 TGATCGGCACAAAGCCATCAG-TAACAGTGATATGATCAGCACAAAGCCATCAGTAATGGTAAC-
34778053 A
64 A
*
34778054 TGATCAGCACAAAGCCATCAGTAACAGT-ACTATGATC-GACACAAAGCCATCAGTA
1 TGATCGGCACAAAGCCATCAGTAACAGTGA-TATGATCAG-CACAAAGCCATCAGTA
34778109 GCATCGTAGC
Statistics
Matches: 152, Mismatches: 22, Indels: 18
0.79 0.11 0.09
Matches are distributed among these distances:
62 3 0.02
63 3 0.02
64 139 0.91
65 4 0.03
66 3 0.02
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.20
Consensus pattern (64 bp):
TGATCGGCACAAAGCCATCAGTAACAGTGATATGATCAGCACAAAGCCATCAGTAATGGTAACA
Found at i:34778034 original size:96 final size:96
Alignment explanation
Indices: 34777868--34778108 Score: 283
Period size: 96 Copynumber: 2.5 Consensus size: 96
34777858 AATGTGATTG
* * *
34777868 GCACAAAGCCATCAGTAGCAGTGATATGATCAGCACACAGCCATCAGTAATGGTAACATGATCGG
1 GCACAAAGCCATCAGTAACAGTGAAATGATCAGCACACAGCCATCAGTAATGGTAACATGATCAG
**
34777933 CACAAAGCCATCAATGGCAGTGA-TATGATCA
66 CACAAAGCCATCAATAACAGT-ACTATGATCA
* * * *
34777964 GCACACAGCCATCAGTAACATTGAAATGATCGGCACACAGCCATC-GATAATGGTAATATGATCA
1 GCACAAAGCCATCAGTAACAGTGAAATGATCAGCACACAGCCATCAG-TAATGGTAACATGATCA
* * * *
34778028 GTACAAAGCCATTAGTAACGGTACTATGATCA
65 GCACAAAGCCATCAATAACAGTACTATGATCA
* *
34778060 GCACAAAGCCATCAGTAACAGT-ACTATGATC-GACACAAAGCCATCAGTA
1 GCACAAAGCCATCAGTAACAGTGA-AATGATCAG-CACACAGCCATCAGTA
34778109 GCATCGTAGC
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
95 4 0.03
96 118 0.96
97 1 0.01
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.20
Consensus pattern (96 bp):
GCACAAAGCCATCAGTAACAGTGAAATGATCAGCACACAGCCATCAGTAATGGTAACATGATCAG
CACAAAGCCATCAATAACAGTACTATGATCA
Found at i:34778163 original size:26 final size:26
Alignment explanation
Indices: 34778111--34778164 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 26
34778101 CATCAGTAGC
* * *
34778111 ATCGTAGCAAAGCTGCCAGCAACAGT
1 ATCGCAGCAAACCTGCCAACAACAGT
* *
34778137 ATCGCAGCAAACCTGCCAATAATAGT
1 ATCGCAGCAAACCTGCCAACAACAGT
34778163 AT
1 AT
34778165 ATGTGGCCAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.37, C:0.26, G:0.19, T:0.19
Consensus pattern (26 bp):
ATCGCAGCAAACCTGCCAACAACAGT
Found at i:34778312 original size:24 final size:23
Alignment explanation
Indices: 34778280--34778352 Score: 92
Period size: 24 Copynumber: 3.1 Consensus size: 23
34778270 CCATGCTCAG
*
34778280 AATCAGTCATTCAAATCATAGACA
1 AATCAGTCATTCAAA-CACAGACA
*
34778304 AATCAGTCATACCAAACACAGACA
1 AATCAGTCAT-TCAAACACAGACA
* *
34778328 AATCAGTCATTTAACCACAGACA
1 AATCAGTCATTCAAACACAGACA
34778351 AA
1 AA
34778353 ATAATCATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
23 12 0.28
24 27 0.63
25 4 0.09
ACGTcount: A:0.48, C:0.25, G:0.08, T:0.19
Consensus pattern (23 bp):
AATCAGTCATTCAAACACAGACA
Found at i:34778454 original size:27 final size:26
Alignment explanation
Indices: 34778431--34778630 Score: 251
Period size: 27 Copynumber: 7.5 Consensus size: 26
34778421 GGTATTACAG
34778431 TCATTTTACCCTACAGGAGCATTACGA
1 TCATTTTACCCTACAGG-GCATTACGA
*
34778458 TCATTTTACCCTACAAGGGCATTACGG
1 TCATTTTACCCTAC-AGGGCATTACGA
*
34778485 TCATTTTACCCTATAGGGGCATTAC-A
1 TCATTTTACCCTACA-GGGCATTACGA
34778511 GTCATTTTACCCTACAGGGGCATTACGA
1 -TCATTTTACCCTACA-GGGCATTACGA
*
34778539 CCATTTTACCCTACAGGGCATTACGA
1 TCATTTTACCCTACAGGGCATTACGA
*
34778565 CCATTTTACCCTACAGTGGCATTACGA
1 TCATTTTACCCTACAG-GGCATTACGA
* * *
34778592 TCATTTTACCC-ATCAAGGGTATTTCGG
1 TCATTTTACCCTA-C-AGGGCATTACGA
34778619 TCATTTTACCCT
1 TCATTTTACCCT
34778631 TCGGGAGTAT
Statistics
Matches: 156, Mismatches: 9, Indels: 15
0.87 0.05 0.08
Matches are distributed among these distances:
26 29 0.19
27 121 0.78
28 6 0.04
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.32
Consensus pattern (26 bp):
TCATTTTACCCTACAGGGCATTACGA
Found at i:34778527 original size:81 final size:80
Alignment explanation
Indices: 34778415--34778602 Score: 288
Period size: 81 Copynumber: 2.3 Consensus size: 80
34778405 ACAATCATTT
* *
34778415 TACAGGGGTATTACAGTCATTTTACCCTACAGGAGCATTACGATCATTTTACCCTACAAGGGCAT
1 TACAGGGGCATTACAGTCATTTTACCCTACAGGAGCATTACGACCATTTTACCCTAC-AGGGCAT
**
34778480 TACGGTCATTTTACCC
65 TACGACCATTTTACCC
* *
34778496 TATAGGGGCATTACAGTCATTTTACCCTACAGGGGCATTACGACCATTTTACCCTACAGGGCATT
1 TACAGGGGCATTACAGTCATTTTACCCTACAGGAGCATTACGACCATTTTACCCTACAGGGCATT
34778561 ACGACCATTTTACCC
66 ACGACCATTTTACCC
*
34778576 TACAGTGGCATTAC-GATCATTTTACCC
1 TACAGGGGCATTACAG-TCATTTTACCC
34778603 ATCAAGGGTA
Statistics
Matches: 98, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
79 1 0.01
80 44 0.45
81 53 0.54
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.30
Consensus pattern (80 bp):
TACAGGGGCATTACAGTCATTTTACCCTACAGGAGCATTACGACCATTTTACCCTACAGGGCATT
ACGACCATTTTACCC
Found at i:34778624 original size:80 final size:81
Alignment explanation
Indices: 34778415--34778630 Score: 287
Period size: 80 Copynumber: 2.7 Consensus size: 81
34778405 ACAATCATTT
*
34778415 TACAGGGGTATTACAGTCATTTTACCCTAC-AGGAGCATTACGATCATTTTACCCTACAAGGGCA
1 TACAGGGGCATTACAGTCATTTTACCCTACAAGG-GCATTACGATCATTTTACCCTACAAGGGCA
**
34778479 TTACGGTCATTTTACCC
65 TTACGACCATTTTACCC
* * *
34778496 TATAGGGGCATTACAGTCATTTTACCCTACAGGGGCATTACGACCATTTTACCCTAC-AGGGCAT
1 TACAGGGGCATTACAGTCATTTTACCCTACAAGGGCATTACGATCATTTTACCCTACAAGGGCAT
34778560 TACGACCATTTTACCC
66 TACGACCATTTTACCC
* * * *
34778576 TACAGTGGCATTAC-GATCATTTTACCC-ATCAAGGGTATTTCGGTCATTTTACCCT
1 TACAGGGGCATTACAG-TCATTTTACCCTA-CAAGGGCATTACGATCATTTTACCCT
34778631 TCGGGAGTAT
Statistics
Matches: 119, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
79 2 0.02
80 65 0.55
81 50 0.42
82 2 0.02
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.31
Consensus pattern (81 bp):
TACAGGGGCATTACAGTCATTTTACCCTACAAGGGCATTACGATCATTTTACCCTACAAGGGCAT
TACGACCATTTTACCC
Found at i:34780180 original size:40 final size:40
Alignment explanation
Indices: 34780080--34780344 Score: 302
Period size: 40 Copynumber: 6.7 Consensus size: 40
34780070 GCTCCTCGTT
* * * * *
34780080 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
* *
34780120 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
*
34780159 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
* *
34780199 CAAATGCCTTCGGGACTTAACCCGGATTTAACAATTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
* * *
34780239 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
* ** * * * *
34780279 CAAAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCA
*
34780320 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
34780345 CAGCATTCAA
Statistics
Matches: 196, Mismatches: 25, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
39 37 0.19
40 148 0.76
41 11 0.06
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
Found at i:34780304 original size:80 final size:80
Alignment explanation
Indices: 34780082--34780344 Score: 334
Period size: 80 Copynumber: 3.3 Consensus size: 80
34780072 TCCTCGTTCA
* * * * *
34780082 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AATGCCTTCGGGACATAACCCGGAT
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
*
34780146 TTAACAACTCGCACG
66 TTAACAATTCGCACG
*
34780161 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
34780226 TTAACAATTCGCACG
66 TTAACAATTCGCACG
* * **
34780241 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGA
* * * *
34780305 TATATTCACTTAGCAC-
65 TTTA-ACAATTCGCACG
* *
34780321 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
34780345 CAGCATTCAA
Statistics
Matches: 163, Mismatches: 18, Indels: 5
0.88 0.10 0.03
Matches are distributed among these distances:
79 37 0.23
80 118 0.72
81 8 0.05
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
TTAACAATTCGCACG
Found at i:34780353 original size:41 final size:41
Alignment explanation
Indices: 34780276--34780353 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
34780266 TTAGTATCTC
* * *
34780276 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
34780317 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
34780354 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:34787726 original size:40 final size:40
Alignment explanation
Indices: 34787626--34787890 Score: 302
Period size: 40 Copynumber: 6.7 Consensus size: 40
34787616 GCTCCTCGTT
* * * * *
34787626 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
* *
34787666 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
*
34787705 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
* *
34787745 CAAATGCCTTCGGGACTTAACCCGGATTTAACAATTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
* * *
34787785 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
* ** * * * *
34787825 CAAAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCA
*
34787866 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
34787891 CAGCATTCAA
Statistics
Matches: 196, Mismatches: 25, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
39 37 0.19
40 148 0.76
41 11 0.06
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
Found at i:34787850 original size:80 final size:80
Alignment explanation
Indices: 34787628--34787890 Score: 334
Period size: 80 Copynumber: 3.3 Consensus size: 80
34787618 TCCTCGTTCA
* * * * *
34787628 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AATGCCTTCGGGACATAACCCGGAT
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
*
34787692 TTAACAACTCGCACG
66 TTAACAATTCGCACG
*
34787707 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
34787772 TTAACAATTCGCACG
66 TTAACAATTCGCACG
* * **
34787787 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGA
* * * *
34787851 TATATTCACTTAGCAC-
65 TTTA-ACAATTCGCACG
* *
34787867 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
34787891 CAGCATTCAA
Statistics
Matches: 163, Mismatches: 18, Indels: 5
0.88 0.10 0.03
Matches are distributed among these distances:
79 37 0.23
80 118 0.72
81 8 0.05
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
TTAACAATTCGCACG
Found at i:34787899 original size:41 final size:41
Alignment explanation
Indices: 34787822--34787899 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
34787812 TTAGTATCTC
* * *
34787822 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
34787863 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
34787900 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:34793261 original size:12 final size:11
Alignment explanation
Indices: 34793243--34793273 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
34793233 ACTCCCGGAA
34793243 TAAAAAAAATT
1 TAAAAAAAATT
34793254 TGAAAAAAAATT
1 T-AAAAAAAATT
34793266 TAAAAAAA
1 TAAAAAAA
34793274 GTTCAAAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (11 bp):
TAAAAAAAATT
Done.