Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032247.1 Gossypioides kirkii chromosome KI_05
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: 50980411
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 48 of 171
Found at i:20212009 original size:17 final size:17
Alignment explanation
Indices: 20211973--20212054 Score: 78
Period size: 17 Copynumber: 4.8 Consensus size: 17
20211963 AACTTTTAAT
*
20211973 TTTTAAATCTT-AGTTTA
1 TTTTAAAT-TTAAATTTA
*
20211990 TTTTAAATTTAAATTCA
1 TTTTAAATTTAAATTTA
20212007 -TTTAGAATTTAAATTTA
1 TTTTA-AATTTAAATTTA
* *
20212024 TGTTAAATTTGAATTTA
1 TTTTAAATTTAAATTTA
* *
20212041 TTTTGAATTAAAAT
1 TTTTAAATTTAAAT
20212055 GATTTAAATA
Statistics
Matches: 53, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
16 6 0.11
17 44 0.83
18 3 0.06
ACGTcount: A:0.38, C:0.02, G:0.06, T:0.54
Consensus pattern (17 bp):
TTTTAAATTTAAATTTA
Found at i:20212024 original size:34 final size:34
Alignment explanation
Indices: 20211986--20212054 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
20211976 TAAATCTTAG
* *
20211986 TTTATTTTAAATTTAAATTCATTTAGAATTTAAA
1 TTTATGTTAAATTTAAATTCATTTAGAATTAAAA
* * *
20212020 TTTATGTTAAATTTGAATTTATTTTGAATTAAAA
1 TTTATGTTAAATTTAAATTCATTTAGAATTAAAA
20212054 T
1 T
20212055 GATTTAAATA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.39, C:0.01, G:0.06, T:0.54
Consensus pattern (34 bp):
TTTATGTTAAATTTAAATTCATTTAGAATTAAAA
Found at i:20213521 original size:5 final size:5
Alignment explanation
Indices: 20213506--20213534 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
20213496 GGCTGGATTT
20213506 TAAAA -AAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
20213535 GAACCCTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 19 0.83
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
TAAAA
Found at i:20213674 original size:32 final size:33
Alignment explanation
Indices: 20213633--20213701 Score: 95
Period size: 32 Copynumber: 2.1 Consensus size: 33
20213623 CTATTTGTGC
* *
20213633 ATTTGGTCCTTCCGCATTTTTTATTTATTT-CA
1 ATTTAGTCCTTCCGCATTTTTTAATTATTTGCA
**
20213665 ATTTAGTCCTTTTGCATTTTTTAATTATTTGCA
1 ATTTAGTCCTTCCGCATTTTTTAATTATTTGCA
20213698 ATTT
1 ATTT
20213702 GCCCGGTAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
32 26 0.81
33 6 0.19
ACGTcount: A:0.19, C:0.14, G:0.09, T:0.58
Consensus pattern (33 bp):
ATTTAGTCCTTCCGCATTTTTTAATTATTTGCA
Found at i:20214010 original size:161 final size:162
Alignment explanation
Indices: 20213729--20214065 Score: 595
Period size: 161 Copynumber: 2.1 Consensus size: 162
20213719 GGTTTTCAAT
20213729 TTAGTCCTTTGACTGTTTGACTACACCAGAGACTGCCACGTGTCACTTTTTGGCATATTTTTGTA
1 TTAGTCCTTTGACTGTTTGACTACACCAGAGACTGCCACGTGTCACTTTTTGGCATATTTTTGTA
* *
20213794 TTTAGTCCCTGTCATTTTTAATTTGTTTTAATTTAATCCTTTAATCAACTTTTATTTAATTACAC
66 TCTAGTCCCTGTCATTTTTAATTTGTTTTAATTTAATCCTTTAATCAACTTTTATTTAATTACAA
*
20213859 AATTGGCCCAATAATTTTTCAAGATTTATAAA
131 AATTGGCCCAAGAATTTTTCAAGATTTATAAA
* * * *
20213891 TTAGTCCTTTGACTGTTTGGCTGCACCAGAGGCTGCCACGTGTCACTTTTTGGCTTA-TTTTGTA
1 TTAGTCCTTTGACTGTTTGACTACACCAGAGACTGCCACGTGTCACTTTTTGGCATATTTTTGTA
*
20213955 TCTAGTCCCTGTCATTTTTAATTTGTTTTAATTTAATCCTTTAATCAATTTTTATTTAATTACAA
66 TCTAGTCCCTGTCATTTTTAATTTGTTTTAATTTAATCCTTTAATCAACTTTTATTTAATTACAA
20214020 AATTGGCCCAAGAATTTTTCAAGATTTATAAA
131 AATTGGCCCAAGAATTTTTCAAGATTTATAAA
20214052 TTAGTCCTTTGACT
1 TTAGTCCTTTGACT
20214066 TCTGGGTACC
Statistics
Matches: 167, Mismatches: 8, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
161 114 0.68
162 53 0.32
ACGTcount: A:0.25, C:0.17, G:0.12, T:0.45
Consensus pattern (162 bp):
TTAGTCCTTTGACTGTTTGACTACACCAGAGACTGCCACGTGTCACTTTTTGGCATATTTTTGTA
TCTAGTCCCTGTCATTTTTAATTTGTTTTAATTTAATCCTTTAATCAACTTTTATTTAATTACAA
AATTGGCCCAAGAATTTTTCAAGATTTATAAA
Found at i:20214266 original size:57 final size:57
Alignment explanation
Indices: 20214135--20214411 Score: 349
Period size: 57 Copynumber: 4.8 Consensus size: 57
20214125 CCTGGACTAT
* * *
20214135 TCAAAAATTACAATTTTGCCCCTAAACTTTCCAAAATTCCATTTTTAAACCCGATTTCA
1 TCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCA-TTTT-AACCCGATTTCA
* * *
20214194 TCAAAAAATACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTAACCCGATTTTA
1 TCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTAACCCGATTTCA
* * * * *
20214251 TCAAAAATTACCATTTTATCCCTAAACTCTCCAAAATTCCA-TTTGACCTCAATTTCA
1 TCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTAACC-CGATTTCA
* * * *
20214308 TCAAAAATCACCATTTTACCCCCGAACTTTTCAAAATTCCATTTTTAACCCCGATTTTA
1 TCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCA-TTTTAA-CCCGATTTCA
* *
20214367 CCAAAAATTACCATTTTACCCCCCAACTTTCCAAAATTCCATTTT
1 TCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTT
20214412 TAGCCCCGGT
Statistics
Matches: 187, Mismatches: 27, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
56 6 0.03
57 88 0.47
58 8 0.04
59 83 0.44
60 2 0.01
ACGTcount: A:0.34, C:0.29, G:0.03, T:0.35
Consensus pattern (57 bp):
TCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTAACCCGATTTCA
Found at i:20214268 original size:29 final size:28
Alignment explanation
Indices: 20214167--20214384 Score: 120
Period size: 29 Copynumber: 7.5 Consensus size: 28
20214157 TAAACTTTCC
*
20214167 AAAATTCCATTTTTAAACCCGATTTCATCAA
1 AAAATTCCA-TTTT-AACCCGATTTTATC-A
* * ** *
20214198 AAAATACCATTTTACCCCCGAACTT-TCC
1 AAAATTCCATTTTA-ACCCGATTTTATCA
20214226 AAAATTCCATTTTAACCCGATTTTATCA
1 AAAATTCCATTTTAACCCGATTTTATCA
* * *** * *
20214254 AAAATTACCATTTTATCCCTAAACTCTCC
1 AAAATT-CCATTTTAACCCGATTTTATCA
* * *
20214283 AAAATTCCA-TTTGACCTCAATTTCATCA
1 AAAATTCCATTTTAACC-CGATTTTATCA
* * *
20214311 AAAATCACCATTTTACCCCCGAACTTT-TC-
1 AAAAT-TCCATTTTA-ACCCG-ATTTTATCA
*
20214340 AAAATTCCATTTTTAACCCCGATTTTACCA
1 AAAATTCCA-TTTTAA-CCCGATTTTATCA
20214370 AAAATTACCATTTTA
1 AAAATT-CCATTTTA
20214385 CCCCCCAACT
Statistics
Matches: 137, Mismatches: 37, Indels: 27
0.68 0.18 0.13
Matches are distributed among these distances:
27 12 0.09
28 40 0.29
29 42 0.31
30 27 0.20
31 16 0.12
ACGTcount: A:0.35, C:0.27, G:0.03, T:0.35
Consensus pattern (28 bp):
AAAATTCCATTTTAACCCGATTTTATCA
Found at i:20214363 original size:116 final size:114
Alignment explanation
Indices: 20214135--20214410 Score: 394
Period size: 116 Copynumber: 2.4 Consensus size: 114
20214125 CCTGGACTAT
* * *
20214135 TCAAAAATTACAATTTTGCCCCTAAACTTTCCAAAATTCCATTTTTAAACCCGATTTCATCAAAA
1 TCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCA--TTTAAACCCAATTTCATCAAAA
20214200 AATACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTAACCCGATTTTA
64 AATACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTAACCCGATTTTA
* * *
20214251 TCAAAAATTACCATTTTATCCCTAAACTCTCCAAAATTCCATTT-GACCTCAATTTCATC-AAAA
1 TCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTAAACC-CAATTTCATCAAAAA
*
20214314 ATCACCATTTTACCCCCGAACTTTTCAAAATTCCATTTTTAACCCCGATTTTA
65 AT-ACCATTTTACCCCCGAACTTTCCAAAATTCCA-TTTTAA-CCCGATTTTA
* **
20214367 CCAAAAATTACCATTTTACCCCCCAACTTTCCAAAATTCCATTT
1 TCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTT
20214411 TTAGCCCCGG
Statistics
Matches: 144, Mismatches: 12, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
113 9 0.06
114 43 0.30
115 6 0.04
116 86 0.60
ACGTcount: A:0.34, C:0.29, G:0.03, T:0.34
Consensus pattern (114 bp):
TCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTAAACCCAATTTCATCAAAAAA
TACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTAACCCGATTTTA
Found at i:20214402 original size:29 final size:27
Alignment explanation
Indices: 20214198--20214411 Score: 144
Period size: 28 Copynumber: 7.5 Consensus size: 27
20214188 ATTTCATCAA
*
20214198 AAAATACCATTTTACCCCCGAACTTTCC
1 AAAATTCCATTTTACCCCC-AACTTTCC
* * ** *
20214226 AAAATTCCATTTTAACCCGATTTTATCA
1 AAAATTCCATTTTACCCCCAACTT-TCC
** *
20214254 AAAATTACCATTTTATCCCTAAACTCTCC
1 AAAATT-CCATTTTA-CCCCCAACTTTCC
* *
20214283 AAAATTCCATTTGA-CCTCAA-TTTCATC
1 AAAATTCCATTTTACCCCCAACTTTC--C
* *
20214310 AAAAATCACCATTTTACCCCCGAACTTTTC
1 -AAAAT-TCCATTTTACCCCC-AACTTTCC
* * *
20214340 AAAATTCCATTTTTAACCCCGATTTTACC
1 AAAATTCCA-TTTTACCCCCAACTTT-CC
20214369 AAAAATTACCATTTTACCCCCCAACTTTCC
1 -AAAATT-CCATTTTA-CCCCCAACTTTCC
20214399 AAAATTCCATTTT
1 AAAATTCCATTTT
20214412 TAGCCCCGGT
Statistics
Matches: 143, Mismatches: 28, Indels: 30
0.71 0.14 0.15
Matches are distributed among these distances:
25 3 0.02
26 5 0.03
27 4 0.03
28 50 0.35
29 44 0.31
30 21 0.15
31 13 0.09
32 3 0.02
ACGTcount: A:0.34, C:0.29, G:0.02, T:0.35
Consensus pattern (27 bp):
AAAATTCCATTTTACCCCCAACTTTCC
Found at i:20214419 original size:59 final size:58
Alignment explanation
Indices: 20214135--20214430 Score: 353
Period size: 59 Copynumber: 5.1 Consensus size: 58
20214125 CCTGGACTAT
* * * *
20214135 TCAAAAATTACAATTTTGCCCCTAAACTTTCCAAAATTCCATTTTTAAACCCGATTTCA
1 TCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTT-ACCCCGATTTCA
* * * *
20214194 TCAAAAAATACCATTTTACCCCCGAACTTTCCAAAATTCCA-TTTTAACCCGATTTTA
1 TCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTACCCCGATTTCA
* * * * * *
20214251 TCAAAAATTACCATTTTATCCCTAAACTCTCCAAAATTCCA-TTTGACCTCAATTTCA
1 TCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTACCCCGATTTCA
* * * *
20214308 TCAAAAATCACCATTTTACCCCCGAACTTTTCAAAATTCCATTTTTAACCCCGATTTTA
1 TCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTT-ACCCCGATTTCA
* * *
20214367 CCAAAAATTACCATTTTACCCCCCAACTTTCCAAAATTCCATTTTTAGCCCCGGTTTCA
1 TCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTA-CCCCGATTTCA
*
20214426 CCAAA
1 TCAAA
20214431 TTTTTCAAAA
Statistics
Matches: 202, Mismatches: 32, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
57 93 0.46
58 8 0.04
59 101 0.50
ACGTcount: A:0.34, C:0.29, G:0.03, T:0.34
Consensus pattern (58 bp):
TCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTACCCCGATTTCA
Found at i:20214429 original size:29 final size:28
Alignment explanation
Indices: 20214339--20214430 Score: 80
Period size: 29 Copynumber: 3.1 Consensus size: 28
20214329 CCGAACTTTT
20214339 CAAAATTCCATTTTTAACCCCGATTTTAC
1 CAAAATTCCATTTTTAACCCCGA-TTTAC
* *
20214368 CAAAAATTACCA-TTTTACCCCCCAACTTT-C
1 C-AAAATT-CCATTTTTA-ACCCCGA-TTTAC
* *
20214398 CAAAATTCCATTTTTAGCCCCGGTTTCAC
1 CAAAATTCCATTTTTAACCCCGATTT-AC
20214427 CAAA
1 CAAA
20214431 TTTTTCAAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
27 3 0.06
28 7 0.14
29 17 0.33
30 13 0.25
31 11 0.22
ACGTcount: A:0.32, C:0.32, G:0.04, T:0.33
Consensus pattern (28 bp):
CAAAATTCCATTTTTAACCCCGATTTAC
Found at i:20219945 original size:26 final size:27
Alignment explanation
Indices: 20219899--20219950 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 27
20219889 TGTTACAATT
**
20219899 ATATTTTTATTATTTTATAAT-TTTTA
1 ATATTTTTATTAAATTATAATATTTTA
20219925 ATATTTTTATTAAAATT-TAATATTTT
1 ATATTTTTATT-AAATTATAATATTTT
20219951 TTATAAGTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
26 15 0.68
27 7 0.32
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (27 bp):
ATATTTTTATTAAATTATAATATTTTA
Found at i:20223779 original size:16 final size:17
Alignment explanation
Indices: 20223760--20223796 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
20223750 TTTTTTACAA
*
20223760 TTTTCTTCC-ATTTATT
1 TTTTCTACCTATTTATT
20223776 TTTT-TACCTATTTATT
1 TTTTCTACCTATTTATT
20223792 TTTTC
1 TTTTC
20223797 AAGTTATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 3 0.17
16 15 0.83
ACGTcount: A:0.14, C:0.16, G:0.00, T:0.70
Consensus pattern (17 bp):
TTTTCTACCTATTTATT
Found at i:20224723 original size:15 final size:15
Alignment explanation
Indices: 20224701--20224739 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
20224691 TTCAAGTAAT
*
20224701 TTAAAAAAAATAAATTA
1 TTAAAATAAA-AAA-TA
20224718 TTAAAATAAAAAATA
1 TTAAAATAAAAAATA
20224733 TTAAAAT
1 TTAAAAT
20224740 TTATAAGTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.43
16 3 0.14
17 9 0.43
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
TTAAAATAAAAAATA
Found at i:20224735 original size:18 final size:17
Alignment explanation
Indices: 20224701--20224738 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
20224691 TTCAAGTAAT
20224701 TTAAAAAAAATAAATTA
1 TTAAAAAAAATAAATTA
*
20224718 TTAAAATAAA-AAA-TA
1 TTAAAAAAAATAAATTA
20224733 TTAAAA
1 TTAAAA
20224739 TTTATAAGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 8 0.40
16 3 0.15
17 9 0.45
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
TTAAAAAAAATAAATTA
Found at i:20225651 original size:17 final size:17
Alignment explanation
Indices: 20225629--20225669 Score: 82
Period size: 17 Copynumber: 2.4 Consensus size: 17
20225619 AAATTAAAAT
20225629 AATGATTTTCAATATTG
1 AATGATTTTCAATATTG
20225646 AATGATTTTCAATATTG
1 AATGATTTTCAATATTG
20225663 AATGATT
1 AATGATT
20225670 ATCTAGACGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.37, C:0.05, G:0.12, T:0.46
Consensus pattern (17 bp):
AATGATTTTCAATATTG
Found at i:20233002 original size:30 final size:30
Alignment explanation
Indices: 20232960--20233016 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
20232950 TTTATACTTT
20232960 TTTTAATAATTTTTAATTT-TTAAAATTAAG
1 TTTTAATAA-TTTTAATTTATTAAAATTAAG
*
20232990 TTTT-ATATATTTTATTTTATTAAAATT
1 TTTTAATA-ATTTTAATTTATTAAAATT
20233017 TTAAAAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
29 11 0.46
30 13 0.54
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (30 bp):
TTTTAATAATTTTAATTTATTAAAATTAAG
Found at i:20236075 original size:3 final size:3
Alignment explanation
Indices: 20236067--20236105 Score: 60
Period size: 3 Copynumber: 12.7 Consensus size: 3
20236057 CCAGAAGCTG
*
20236067 CTT CTT CTT CTT CTTT CTT CTT ATT CTT CTT CTT CTT CT
1 CTT CTT CTT CTT C-TT CTT CTT CTT CTT CTT CTT CTT CT
20236106 CCGTTATCGT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
3 30 0.91
4 3 0.09
ACGTcount: A:0.03, C:0.31, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:20236112 original size:22 final size:22
Alignment explanation
Indices: 20236068--20236112 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
20236058 CAGAAGCTGC
*
20236068 TTCTTCTTCTTCTTTCTTCTTA
1 TTCTTCTTCTTCTTTCTCCTTA
20236090 TTCTTCTTCTTC-TTCTCCGTTA
1 TTCTTCTTCTTCTTTCTCC-TTA
20236112 T
1 T
20236113 CGTTATCTGG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.04, C:0.29, G:0.02, T:0.64
Consensus pattern (22 bp):
TTCTTCTTCTTCTTTCTCCTTA
Found at i:20245307 original size:15 final size:16
Alignment explanation
Indices: 20245266--20245308 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
20245256 TAAAATTTAT
20245266 AATAT-AATATAATAC
1 AATATAAATATAATAC
*
20245281 AATATAATATATACTA-
1 AATATAA-ATATAATAC
20245297 AATATAAATATA
1 AATATAAATATA
20245309 TGCCATTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 10 0.40
16 8 0.32
17 7 0.28
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (16 bp):
AATATAAATATAATAC
Found at i:20253982 original size:16 final size:17
Alignment explanation
Indices: 20253944--20253982 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
20253934 AATTACAGAT
*
20253944 AATAAATCGCAACTTAA
1 AATAAATCACAACTTAA
20253961 ATATAAATCAC-ACTTAA
1 A-ATAAATCACAACTTAA
20253978 AATAA
1 AATAA
20253983 TAAGTATCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 4 0.20
17 8 0.40
18 8 0.40
ACGTcount: A:0.56, C:0.15, G:0.03, T:0.26
Consensus pattern (17 bp):
AATAAATCACAACTTAA
Found at i:20275367 original size:18 final size:17
Alignment explanation
Indices: 20275346--20275396 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
20275336 AATAAATAAA
20275346 TAAAAAATTTTAAAAAT
1 TAAAAAATTTTAAAAAT
* *
20275363 TTAAAAATTATTGAAAAT
1 TAAAAAATT-TTAAAAAT
**
20275381 TATTAAATTTTAAAAA
1 TAAAAAATTTTAAAAA
20275397 ATATATATTA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
17 14 0.52
18 13 0.48
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (17 bp):
TAAAAAATTTTAAAAAT
Found at i:20280916 original size:72 final size:70
Alignment explanation
Indices: 20280773--20280917 Score: 159
Period size: 72 Copynumber: 2.0 Consensus size: 70
20280763 AGAAAAGAAG
* ** * *
20280773 AAAATAAATTATGGAAGAATTTACAATTTTTAATATTTTTCTAGATTTTTAAAATGATTTTTGAA
1 AAAATAAATCATAAAAGAATTTACAATTTTTAATATTTTTCTAGAATTTTAAAATAATTTTTG-A
20280838 TCTTTA
65 TCTTTA
* *
20280844 AAAATAAATCATAAAAGAAATTTATAATTTTTAATAATTTTT-TTGAAATTTTAAAATAATTGTT
1 AAAATAAATCATAAAAG-AATTTACAATTTTTAAT-ATTTTTCTAG-AATTTTAAAATAATT-TT
*
20280908 TG-TTTTTA
62 TGATCTTTA
20280916 AA
1 AA
20280918 TAAGTTTAAT
Statistics
Matches: 62, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
71 14 0.23
72 25 0.40
73 19 0.31
74 4 0.06
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.48
Consensus pattern (70 bp):
AAAATAAATCATAAAAGAATTTACAATTTTTAATATTTTTCTAGAATTTTAAAATAATTTTTGAT
CTTTA
Found at i:20287761 original size:24 final size:23
Alignment explanation
Indices: 20287730--20287790 Score: 86
Period size: 24 Copynumber: 2.6 Consensus size: 23
20287720 ATTAATATCG
20287730 TTCATGAACATGTTCAATTATATA
1 TTCATGAACATGTTCAATTA-ATA
* *
20287754 TTCATGAACATGTTCATTTAATG
1 TTCATGAACATGTTCAATTAATA
*
20287777 TTCATGAGCATGTT
1 TTCATGAACATGTT
20287791 TGATTAAGTT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
23 15 0.44
24 19 0.56
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.43
Consensus pattern (23 bp):
TTCATGAACATGTTCAATTAATA
Found at i:20287797 original size:23 final size:23
Alignment explanation
Indices: 20287729--20287810 Score: 76
Period size: 23 Copynumber: 3.5 Consensus size: 23
20287719 CATTAATATC
*
20287729 GTTCATGAACATGTTCAATTATAT
1 GTTCATGAACATGTTTAATTA-AT
* * *
20287753 ATTCATGAACATGTTCATTTAAT
1 GTTCATGAACATGTTTAATTAAT
* *
20287776 GTTCATGAGCATGTTTGATTAA-
1 GTTCATGAACATGTTTAATTAAT
*
20287798 GTTAAATGAACAT
1 GTT-CATGAACAT
20287811 TTTCGTGAAT
Statistics
Matches: 48, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
22 3 0.06
23 26 0.54
24 19 0.40
ACGTcount: A:0.34, C:0.11, G:0.15, T:0.40
Consensus pattern (23 bp):
GTTCATGAACATGTTTAATTAAT
Found at i:20305976 original size:21 final size:21
Alignment explanation
Indices: 20305947--20305989 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
20305937 GTGATTGTCT
*
20305947 AGACTGACAATACATAAGACA
1 AGACCGACAATACATAAGACA
* *
20305968 AGACCGACAATGCATAGGACA
1 AGACCGACAATACATAAGACA
20305989 A
1 A
20305990 AATTCGAGTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.49, C:0.21, G:0.19, T:0.12
Consensus pattern (21 bp):
AGACCGACAATACATAAGACA
Found at i:20306870 original size:27 final size:27
Alignment explanation
Indices: 20306802--20306861 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
20306792 CATTGTTTTT
*
20306802 GAAAAATGC-TTTTAAAAATTGATGTG
1 GAAAAGTGCTTTTTAAAAATTGATGTG
*
20306828 GAAAAGTGCTTTTTAAAAAGTT-ATTTG
1 GAAAAGTGCTTTTTAAAAA-TTGATGTG
20306855 GAAAAGT
1 GAAAAGT
20306862 TTTGTTTAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
26 8 0.27
27 20 0.67
28 2 0.07
ACGTcount: A:0.42, C:0.03, G:0.20, T:0.35
Consensus pattern (27 bp):
GAAAAGTGCTTTTTAAAAATTGATGTG
Found at i:20307732 original size:9 final size:9
Alignment explanation
Indices: 20307718--20307760 Score: 50
Period size: 9 Copynumber: 4.4 Consensus size: 9
20307708 ATAACTTACG
20307718 AATTTATTT
1 AATTTATTT
20307727 AATTTATTT
1 AATTTATTT
20307736 AATTATTATTT
1 AA-T-TTATTT
*
20307747 AATTAATTGT
1 AATTTATT-T
20307757 AATT
1 AATT
20307761 AAATAATTGA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
9 15 0.50
10 7 0.23
11 8 0.27
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (9 bp):
AATTTATTT
Found at i:20307746 original size:20 final size:21
Alignment explanation
Indices: 20307721--20307761 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
20307711 ACTTACGAAT
*
20307721 TTATTTAATTTATT-TAATTA
1 TTATTTAATTAATTGTAATTA
20307741 TTATTTAATTAATTGTAATTA
1 TTATTTAATTAATTGTAATTA
20307762 AATAATTGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (21 bp):
TTATTTAATTAATTGTAATTA
Found at i:20321258 original size:8 final size:8
Alignment explanation
Indices: 20321134--20321260 Score: 61
Period size: 8 Copynumber: 15.5 Consensus size: 8
20321124 TCATAAAAAT
*
20321134 ATTAGAAA
1 ATTATAAA
*
20321142 ATTAGAAA
1 ATTATAAA
20321150 ATTA-AAA
1 ATTATAAA
20321157 ATTATAAA
1 ATTATAAA
**
20321165 AAAATAAA
1 ATTATAAA
20321173 GA-TATCAAA
1 -ATTAT-AAA
20321182 TATTA-AAA
1 -ATTATAAA
20321190 A-TATTAAA
1 ATTA-TAAA
20321198 ATTGATATAA
1 ATT-ATA-AA
20321208 ATTTATTAAA
1 A-TTA-TAAA
*
20321218 AATA-AAA
1 ATTATAAA
20321225 ATATATAAA
1 AT-TATAAA
20321234 TATTAT-AA
1 -ATTATAAA
*
20321242 TTTA-AAA
1 ATTATAAA
20321249 ATTATAAA
1 ATTATAAA
20321257 ATTA
1 ATTA
20321261 ATATTTTTTA
Statistics
Matches: 95, Mismatches: 8, Indels: 32
0.70 0.06 0.24
Matches are distributed among these distances:
6 2 0.02
7 20 0.21
8 41 0.43
9 16 0.17
10 12 0.13
11 4 0.04
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (8 bp):
ATTATAAA
Found at i:20321258 original size:24 final size:24
Alignment explanation
Indices: 20321220--20321286 Score: 64
Period size: 25 Copynumber: 2.7 Consensus size: 24
20321210 TTATTAAAAA
*
20321220 TAAAAA-TATATAAATATTATAATT
1 TAAAAATTATA-AAATAATATAATT
**
20321244 TAAAAATTATAAAATTAATATTTTT
1 TAAAAATTATAAAA-TAATATAATT
*
20321269 TAAAAATATTTAAAATAA
1 TAAAAAT-TATAAAATAA
20321287 AAAAGTATTA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
24 9 0.25
25 21 0.58
26 6 0.17
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (24 bp):
TAAAAATTATAAAATAATATAATT
Found at i:20321377 original size:10 final size:10
Alignment explanation
Indices: 20321306--20321386 Score: 51
Period size: 10 Copynumber: 8.3 Consensus size: 10
20321296 AGAATTCTTA
* *
20321306 AAAAAATAAA
1 AAAAAATTAT
*
20321316 AAAAAATTGT
1 AAAAAATTAT
*
20321326 AAATAATTAT
1 AAAAAATTAT
20321336 -AAAAA-TAT
1 AAAAAATTAT
* *
20321344 TAAAATTTAT
1 AAAAAATTAT
** *
20321354 GTAAACTTAT
1 AAAAAATTAT
20321364 -AAAAATTAT
1 AAAAAATTAT
20321373 AAAAAAATTAT
1 -AAAAAATTAT
20321384 AAA
1 AAA
20321387 TATAACACCA
Statistics
Matches: 55, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
8 3 0.05
9 15 0.27
10 28 0.51
11 9 0.16
ACGTcount: A:0.65, C:0.01, G:0.02, T:0.31
Consensus pattern (10 bp):
AAAAAATTAT
Found at i:20321383 original size:20 final size:20
Alignment explanation
Indices: 20321315--20321386 Score: 60
Period size: 19 Copynumber: 3.7 Consensus size: 20
20321305 AAAAAAATAA
*
20321315 AAAAAAATTGTAAATAATTAT
1 AAAAAAATTATAAA-AATTAT
* *
20321336 AAAAATA-T-TAAAATTTAT
1 AAAAAAATTATAAAAATTAT
** *
20321354 -GTAAACTTATAAAAATTAT
1 AAAAAAATTATAAAAATTAT
20321373 AAAAAAATTATAAA
1 AAAAAAATTATAAA
20321387 TATAACACCA
Statistics
Matches: 38, Mismatches: 10, Indels: 7
0.69 0.18 0.13
Matches are distributed among these distances:
17 2 0.05
18 6 0.16
19 13 0.34
20 11 0.29
21 6 0.16
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.33
Consensus pattern (20 bp):
AAAAAAATTATAAAAATTAT
Found at i:20328040 original size:16 final size:16
Alignment explanation
Indices: 20328016--20328049 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
20328006 TGTTTTTATT
* *
20328016 AATACGAAAGAAGAAG
1 AATAAGAAAAAAGAAG
20328032 AATAAGAAAAAAGAAG
1 AATAAGAAAAAAGAAG
20328048 AA
1 AA
20328050 ATAATAATGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.71, C:0.03, G:0.21, T:0.06
Consensus pattern (16 bp):
AATAAGAAAAAAGAAG
Found at i:20329406 original size:60 final size:60
Alignment explanation
Indices: 20329297--20329411 Score: 151
Period size: 60 Copynumber: 1.9 Consensus size: 60
20329287 CTAAGAACTA
* * **
20329297 CATCAATTCAAATTACGGACTAACTACTTGAATTAAAATTCATGAATAACAATAATTTTG
1 CATCAATTCAAATTACGGACTAACTAATTGAACTAAAACCCATGAATAACAATAATTTTG
* * *
20329357 CATCGATTCAAATTACGGATTAACTAATTGAACTAAAACCCGT-ACATAACAATAA
1 CATCAATTCAAATTACGGACTAACTAATTGAACTAAAACCCATGA-ATAACAATAA
20329412 CTCATGATAA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
59 1 0.02
60 46 0.98
ACGTcount: A:0.44, C:0.17, G:0.09, T:0.30
Consensus pattern (60 bp):
CATCAATTCAAATTACGGACTAACTAATTGAACTAAAACCCATGAATAACAATAATTTTG
Found at i:20332668 original size:11 final size:11
Alignment explanation
Indices: 20332654--20332686 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
20332644 ATTTTTAGTG
20332654 TTAAAATATTT
1 TTAAAATATTT
*
20332665 TTAAAA-AATT
1 TTAAAATATTT
20332675 TTAAAATATTT
1 TTAAAATATTT
20332686 T
1 T
20332687 ATTTAATAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
TTAAAATATTT
Found at i:20332697 original size:15 final size:15
Alignment explanation
Indices: 20332674--20332717 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 15
20332664 TTTAAAAAAT
20332674 TTTAA-AATATTTTA
1 TTTAATAATATTTTA
20332688 TTTAATAATATTTTA
1 TTTAATAATATTTTA
20332703 TTT--TAA-ATTTTA
1 TTTAATAATATTTTA
20332715 TTT
1 TTT
20332718 TTATTTTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
12 9 0.31
13 3 0.10
14 5 0.17
15 12 0.41
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (15 bp):
TTTAATAATATTTTA
Found at i:20338042 original size:32 final size:32
Alignment explanation
Indices: 20338005--20338069 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
20337995 ATATTAGTGG
20338005 TGGTTAATAGTACACGTTATATTATGTTTATA
1 TGGTTAATAGTACACGTTATATTATGTTTATA
20338037 TGGTTAATAGTACACGTTATATTATGTTTATA
1 TGGTTAATAGTACACGTTATATTATGTTTATA
20338069 T
1 T
20338070 TTTCATATTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.31, C:0.06, G:0.15, T:0.48
Consensus pattern (32 bp):
TGGTTAATAGTACACGTTATATTATGTTTATA
Found at i:20354769 original size:90 final size:90
Alignment explanation
Indices: 20354616--20354798 Score: 242
Period size: 90 Copynumber: 2.0 Consensus size: 90
20354606 TTTTGTCCAA
* * * * *
20354616 GTTAATTTTTAAATTTGACAATTGTTCCCATGTTGAGGCTTACACATGACAATAATTCCCACATT
1 GTTAATTCTTAAATTTGACAATTGTTCCCACGTTAAAGCCTACACATGACAATAATTCCCACATT
20354681 GAGGCCAA-CTTGGATAAAGAAAAAC
66 GAGG-CAAGCTTGGATAAAGAAAAAC
* * * *
20354706 GTTAATTCTTAAATTTGACAATTGTTCCCACGTTAAAGCCTACACTTGATAATTATTCTCACATT
1 GTTAATTCTTAAATTTGACAATTGTTCCCACGTTAAAGCCTACACATGACAATAATTCCCACATT
* * *
20354771 GATGTAAGCTTGGATAAAGAAAATC
66 GAGGCAAGCTTGGATAAAGAAAAAC
20354796 GTT
1 GTT
20354799 TAGGTCTCAA
Statistics
Matches: 80, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
89 2 0.03
90 78 0.98
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (90 bp):
GTTAATTCTTAAATTTGACAATTGTTCCCACGTTAAAGCCTACACATGACAATAATTCCCACATT
GAGGCAAGCTTGGATAAAGAAAAAC
Found at i:20360651 original size:21 final size:22
Alignment explanation
Indices: 20360610--20360654 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
20360600 GAAATTTGAT
*
20360610 ATTTAATTTTTTTTATATTATA
1 ATTTAATTTTTATTATATTATA
20360632 ATTTAATCTTTTATT-T-TTATA
1 ATTTAAT-TTTTATTATATTATA
20360653 AT
1 AT
20360655 ACTAATATTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 7 0.33
22 8 0.38
23 6 0.29
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (22 bp):
ATTTAATTTTTATTATATTATA
Found at i:20364179 original size:31 final size:30
Alignment explanation
Indices: 20364143--20364209 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 30
20364133 GTCCAATGAC
** *
20364143 TTAAATAAATTTTTTTGAATAGTTCAGTGA
1 TTAAATAAAAATTTTCGAATAGTTCAGTGA
* *
20364173 TTTAAATAAAAATTTTCGGATAGTTTAGTGA
1 -TTAAATAAAAATTTTCGAATAGTTCAGTGA
20364204 TTAAAT
1 TTAAAT
20364210 TGTAACTTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
30 6 0.19
31 25 0.81
ACGTcount: A:0.39, C:0.03, G:0.13, T:0.45
Consensus pattern (30 bp):
TTAAATAAAAATTTTCGAATAGTTCAGTGA
Found at i:20369790 original size:2 final size:2
Alignment explanation
Indices: 20369783--20369807 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
20369773 CTTTAAAAAC
20369783 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
20369808 CAATAATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:20374456 original size:17 final size:17
Alignment explanation
Indices: 20374434--20374505 Score: 101
Period size: 17 Copynumber: 4.2 Consensus size: 17
20374424 ACTCATTTTC
20374434 AATTTATTTTAAGA-TTA
1 AATTTATTTTAA-ATTTA
20374451 AATTTATTTTAAATTTA
1 AATTTATTTTAAATTTA
20374468 AATTTATATTTAAATTTA
1 AATTTAT-TTTAAATTTA
* *
20374486 AAATTATTATAAATTTA
1 AATTTATTTTAAATTTA
20374503 AAT
1 AAT
20374506 AAGTAAAAAT
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
16 1 0.02
17 33 0.66
18 16 0.32
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (17 bp):
AATTTATTTTAAATTTA
Found at i:20374467 original size:6 final size:6
Alignment explanation
Indices: 20374448--20374505 Score: 59
Period size: 6 Copynumber: 10.0 Consensus size: 6
20374438 TATTTTAAGA
* * *
20374448 TTAAAT TT-ATT TTAAAT TTAAAT TTATAT TTAAAT TTAAAA TT--AT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
20374493 TATAAAT TTAAAT
1 T-TAAAT TTAAAT
20374506 AAGTAAAAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
4 2 0.05
5 5 0.12
6 32 0.76
7 3 0.07
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (6 bp):
TTAAAT
Found at i:20374487 original size:35 final size:34
Alignment explanation
Indices: 20374434--20374505 Score: 101
Period size: 35 Copynumber: 2.1 Consensus size: 34
20374424 ACTCATTTTC
* *
20374434 AATTTATTTTAAGATTAAATTTATTTTAAATTTA
1 AATTTATTTTAAGATTAAAATTATTATAAATTTA
20374468 AATTTATATTTAA-ATTTAAAATTATTATAAATTTA
1 AATTTAT-TTTAAGA-TTAAAATTATTATAAATTTA
20374503 AAT
1 AAT
20374506 AAGTAAAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
34 8 0.24
35 26 0.76
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (34 bp):
AATTTATTTTAAGATTAAAATTATTATAAATTTA
Found at i:20375898 original size:12 final size:12
Alignment explanation
Indices: 20375883--20375915 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
20375873 GACCCGTGGA
20375883 CCGACCCGAAAT
1 CCGACCCGAAAT
20375895 CCGACCCGAAAT
1 CCGACCCGAAAT
20375907 CCGACCCGA
1 CCGACCCGA
20375916 CCTACCTAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.30, C:0.45, G:0.18, T:0.06
Consensus pattern (12 bp):
CCGACCCGAAAT
Found at i:20376378 original size:30 final size:30
Alignment explanation
Indices: 20376334--20376581 Score: 158
Period size: 29 Copynumber: 8.5 Consensus size: 30
20376324 CAAACTTTAC
*
20376334 AAAAATTGCA-TTTTGACCCCAAAACTTCT
1 AAAAATTACATTTTTGACCCCAAAACTTCT
* **
20376363 AAAAATTACATTTTTGCCCCCAAATTTTC-
1 AAAAATTACATTTTTGACCCCAAAACTTCT
* ***
20376392 AAAAATT-CTATTTTTAACCTTGAAACTT-T
1 AAAAATTAC-ATTTTTGACCCCAAAACTTCT
* * *
20376421 CAAAAATTACACTTTT-ACCCCCAAACTTCC
1 -AAAAATTACATTTTTGACCCCAAAACTTCT
* *
20376451 AAAAATT-CTATTTTTGACCCTAAAACTTCC
1 AAAAATTAC-ATTTTTGACCCCAAAACTTCT
* * ** *
20376481 AAAAATTCCA-TTTTAACCGTAAAACTTCC
1 AAAAATTACATTTTTGACCCCAAAACTTCT
*
20376510 AAAAATTACA-TTTTG-CCCCCAAACTT-T
1 AAAAATTACATTTTTGACCCCAAAACTTCT
* * * *
20376537 CCAAAATTCCATTTTTGACCCCGACACTT-T
1 -AAAAATTACATTTTTGACCCCAAAACTTCT
*
20376567 CAAAATTATCATTTT
1 AAAAATTA-CATTTT
20376582 ACCCCCGAAT
Statistics
Matches: 174, Mismatches: 32, Indels: 25
0.75 0.14 0.11
Matches are distributed among these distances:
28 18 0.10
29 91 0.52
30 63 0.36
31 2 0.01
ACGTcount: A:0.36, C:0.25, G:0.04, T:0.35
Consensus pattern (30 bp):
AAAAATTACATTTTTGACCCCAAAACTTCT
Found at i:20376384 original size:59 final size:60
Alignment explanation
Indices: 20376315--20376571 Score: 219
Period size: 59 Copynumber: 4.4 Consensus size: 60
20376305 AGAAATTATG
* *
20376315 TTTTAACCCCAAACTTTACAAAAATTGC-A-TTTTGACCCCAAAAC-TTCTAAAAATTACAT
1 TTTTACCCCCAAACTTTCCAAAAATT-CTATTTTTGACCCCAAAACTTTC-AAAAATTACAT
* * * *** *
20376374 TTTTGCCCCCAAA-TTTTCAAAAATTCTATTTTTAACCTTGAAACTTTCAAAAATTACAC
1 TTTTACCCCCAAACTTTCCAAAAATTCTATTTTTGACCCCAAAACTTTCAAAAATTACAT
* * *
20376433 TTTTACCCCCAAAC-TTCCAAAAATTCTATTTTTGACCCTAAAACTTCCAAAAATTCCAT
1 TTTTACCCCCAAACTTTCCAAAAATTCTATTTTTGACCCCAAAACTTTCAAAAATTACAT
* *** * * *
20376492 TTTAACCGTAAAAC-TTCCAAAAATTAC-A-TTTTG-CCCCCAAACTTTCCAAAATTCCAT
1 TTTTACCCCCAAACTTTCCAAAAATT-CTATTTTTGACCCCAAAACTTTCAAAAATTACAT
* *
20376549 TTTTGACCCCGACACTTT-CAAAA
1 TTTT-ACCCCCAAACTTTCCAAAA
20376572 TTATCATTTT
Statistics
Matches: 162, Mismatches: 29, Indels: 15
0.79 0.14 0.07
Matches are distributed among these distances:
57 24 0.15
58 28 0.17
59 106 0.65
60 4 0.02
ACGTcount: A:0.37, C:0.26, G:0.04, T:0.34
Consensus pattern (60 bp):
TTTTACCCCCAAACTTTCCAAAAATTCTATTTTTGACCCCAAAACTTTCAAAAATTACAT
Found at i:20376464 original size:88 final size:85
Alignment explanation
Indices: 20376325--20376558 Score: 263
Period size: 88 Copynumber: 2.7 Consensus size: 85
20376315 TTTTAACCCC
* * * *
20376325 AAACTTTACAAAAATTGCATTTTGACCCCAAAACTTCTAAAAATTACATTTTTGCCCCCAAATTT
1 AAACTTT-CAAAAATTACATTTT-ACCCCCAAACTTCCAAAAATT-CATTTTTGCCCCCAAACTT
* * * *
20376390 TCAAAAATTCTATTTTTAACCTTG
63 CCAAAAATTCCA-TTTTAACCGTA
**
20376414 AAACTTTCAAAAATTACACTTTTACCCCCAAACTTCCAAAAATTCTATTTTTGACCCTAAAACTT
1 AAACTTTCAAAAATTACA-TTTTACCCCCAAACTTCCAAAAATTC-ATTTTTG-CCCCCAAACTT
20376479 CCAAAAATTCCATTTTAACCGTA
63 CCAAAAATTCCATTTTAACCGTA
* * *
20376502 AAACTTCCAAAAATTACATTTTGCCCCCAAACTTTCC-AAAATTCCATTTTTGACCCC
1 AAACTTTCAAAAATTACATTTTACCCCCAAAC-TTCCAAAAATT-CATTTTTGCCCCC
20376559 GACACTTTCA
Statistics
Matches: 125, Mismatches: 15, Indels: 13
0.82 0.10 0.08
Matches are distributed among these distances:
86 2 0.02
87 27 0.22
88 67 0.54
89 29 0.23
ACGTcount: A:0.37, C:0.26, G:0.03, T:0.34
Consensus pattern (85 bp):
AAACTTTCAAAAATTACATTTTACCCCCAAACTTCCAAAAATTCATTTTTGCCCCCAAACTTCCA
AAAATTCCATTTTAACCGTA
Found at i:20376741 original size:28 final size:28
Alignment explanation
Indices: 20376680--20376742 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
20376670 CCTAAATTTT
* *
20376680 TCCAAAATTATTATTTTACCCCCGAAAG
1 TCCAAAATTATCATATTACCCCCGAAAG
* *
20376708 TTCAAAATTATCATATTGCCCCCGAATA-
1 TCCAAAATTATCATATTACCCCCGAA-AG
20376736 TCCAAAA
1 TCCAAAA
20376743 AGTCCCATTT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
28 28 0.97
29 1 0.03
ACGTcount: A:0.38, C:0.25, G:0.06, T:0.30
Consensus pattern (28 bp):
TCCAAAATTATCATATTACCCCCGAAAG
Found at i:20377798 original size:13 final size:13
Alignment explanation
Indices: 20377779--20377819 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
20377769 AGAAATATCA
*
20377779 AAATTTAATAAAT
1 AAATTTAAAAAAT
*
20377792 AATTTTAAAAAAT
1 AAATTTAAAAAAT
*
20377805 AAATTTAAACAAT
1 AAATTTAAAAAAT
20377818 AA
1 AA
20377820 CCTTAAATAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.34
Consensus pattern (13 bp):
AAATTTAAAAAAT
Found at i:20381747 original size:30 final size:30
Alignment explanation
Indices: 20381696--20381762 Score: 75
Period size: 30 Copynumber: 2.2 Consensus size: 30
20381686 TTAAATTTTT
20381696 TAAAATAAAAAATATATTC-AAAATAATATA
1 TAAAATAAAAAATATATTCAAAAATAA-ATA
* *
20381726 TAAAATTAAAAAT-TTTGTCAAAAATAAATA
1 TAAAATAAAAAATATAT-TCAAAAATAAATA
*
20381756 AAAAATA
1 TAAAATA
20381763 TTTAAATTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
29 2 0.06
30 22 0.71
31 7 0.23
ACGTcount: A:0.66, C:0.03, G:0.01, T:0.30
Consensus pattern (30 bp):
TAAAATAAAAAATATATTCAAAAATAAATA
Found at i:20399543 original size:18 final size:20
Alignment explanation
Indices: 20399521--20399565 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 20
20399511 TTGTAAAAAT
20399521 TAAAAATCAATAAA-TTTAA
1 TAAAAATCAATAAATTTTAA
* *
20399540 -AAAAATTATTAAATTTTAA
1 TAAAAATCAATAAATTTTAA
20399559 TAAAAAT
1 TAAAAAT
20399566 TATTTAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 11 0.50
19 5 0.23
20 6 0.27
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (20 bp):
TAAAAATCAATAAATTTTAA
Found at i:20399572 original size:21 final size:19
Alignment explanation
Indices: 20399521--20399588 Score: 68
Period size: 21 Copynumber: 3.5 Consensus size: 19
20399511 TTGTAAAAAT
* *
20399521 TAAAAATCAATAAATTTAA
1 TAAAAATTATTAAATTTAA
20399540 -AAAAATTATTAAATTTTAA
1 TAAAAATTATTAAA-TTTAA
20399559 TAAAAATTATTTAAAATTT-A
1 TAAAAATTA-TT-AAATTTAA
20399579 TCAAAAATTA
1 T-AAAAATTA
20399589 GAAAAAAATT
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
18 11 0.26
19 5 0.12
20 10 0.24
21 13 0.31
22 3 0.07
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (19 bp):
TAAAAATTATTAAATTTAA
Found at i:20399746 original size:20 final size:20
Alignment explanation
Indices: 20399721--20399764 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
20399711 TATGTGGCAA
20399721 AAAAATGATAAAAAAATAAT
1 AAAAATGATAAAAAAATAAT
* * *
20399741 AAAAATTATAGAAAAATTAT
1 AAAAATGATAAAAAAATAAT
20399761 AAAA
1 AAAA
20399765 TGCTTCCTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.23
Consensus pattern (20 bp):
AAAAATGATAAAAAAATAAT
Found at i:20401832 original size:18 final size:19
Alignment explanation
Indices: 20401798--20401836 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
20401788 CACACCCTTG
*
20401798 AAAATTATATATATTTTAT
1 AAAAATATATATATTTTAT
20401817 AAAAATATAT-TATTTTAT
1 AAAAATATATATATTTTAT
20401835 AA
1 AA
20401837 TGATTTTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
AAAAATATATATATTTTAT
Found at i:20411561 original size:6 final size:6
Alignment explanation
Indices: 20411550--20411592 Score: 86
Period size: 6 Copynumber: 7.2 Consensus size: 6
20411540 AAACTTTATA
20411550 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT A
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT A
20411593 CTCTATTGCT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.35, C:0.00, G:0.16, T:0.49
Consensus pattern (6 bp):
ATATGT
Found at i:20418043 original size:16 final size:17
Alignment explanation
Indices: 20418022--20418054 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
20418012 ACTTCATGCT
*
20418022 ATTTTTTTAATT-TTTA
1 ATTTTTATAATTATTTA
20418038 ATTTTTATAATTATTTA
1 ATTTTTATAATTATTTA
20418055 GTGATGTGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (17 bp):
ATTTTTATAATTATTTA
Found at i:20421058 original size:26 final size:26
Alignment explanation
Indices: 20420997--20421045 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
20420987 GTTCGAGATG
*
20420997 TAATATAATATTTTTATTTAAAATAA
1 TAATATAGTATTTTTATTTAAAATAA
20421023 TAATATAGTATTTTTA-TTAAAAT
1 TAATATAGTATTTTTATTTAAAAT
20421046 TTTAATATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 7 0.32
26 15 0.68
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (26 bp):
TAATATAGTATTTTTATTTAAAATAA
Found at i:20423460 original size:75 final size:78
Alignment explanation
Indices: 20423281--20423491 Score: 275
Period size: 79 Copynumber: 2.7 Consensus size: 78
20423271 ATCACTACGA
* * * *
20423281 CACTACCTAAAAGCTTCACTGATAACCCTTCATGGTGGACTGTCCTAATATATACATACATACAT
1 CACTACCTAAAAGCTTCACTGACAACCCTTCATGGAGGATTTTCCTAATATATACATACATA-AT
20423346 ATATTATGCTACAT
65 ATATTATGCTACAT
* * *
20423360 CACTACCTAAAAGCTTCACTAACAACCCTTCATGGCGGATTTTCCTAATATGTACATACAT-ATA
1 CACTACCTAAAAGCTTCACTGACAACCCTTCATGGAGGATTTTCCTAATATATACATACATAATA
20423424 TA-T-TGCTACAT
66 TATTATGCTACAT
* * * * *
20423435 CACTACCTGAAAGCTTCGCTGACAACTCTCCACGGAGGATTTTTCCTAATATATACA
1 CACTACCTAAAAGCTTCACTGACAACCCTTCATGGAGGA-TTTTCCTAATATATACA
20423492 AATCTATTTG
Statistics
Matches: 117, Mismatches: 14, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
75 40 0.34
76 17 0.15
77 5 0.04
79 55 0.47
ACGTcount: A:0.33, C:0.26, G:0.11, T:0.31
Consensus pattern (78 bp):
CACTACCTAAAAGCTTCACTGACAACCCTTCATGGAGGATTTTCCTAATATATACATACATAATA
TATTATGCTACAT
Found at i:20429856 original size:35 final size:35
Alignment explanation
Indices: 20429817--20429912 Score: 124
Period size: 35 Copynumber: 2.7 Consensus size: 35
20429807 CCAAACCCAT
* *
20429817 TTTAAATTTATTTTAAGA-TTAAGTTTGTTTT-AAA
1 TTTAAATTTATTTTAA-ATTTAAATTTATTTTCAAA
20429851 GTTTAAATTTATTTTAAATTTAAATTTATTTTCAAA
1 -TTTAAATTTATTTTAAATTTAAATTTATTTTCAAA
* *
20429887 TTTAAAATTATTATAAATTTAAATTT
1 TTTAAATTTATTTTAAATTTAAATTT
20429913 CAATGTCCAA
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
34 1 0.02
35 51 0.93
36 3 0.05
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.55
Consensus pattern (35 bp):
TTTAAATTTATTTTAAATTTAAATTTATTTTCAAA
Found at i:20429872 original size:6 final size:6
Alignment explanation
Indices: 20429845--20429912 Score: 54
Period size: 6 Copynumber: 11.5 Consensus size: 6
20429835 TTAAGTTTGT
* *
20429845 TTTAAA GTTTAAA TTT-AT TTTAAA TTTAAA TTT-AT TTTCAAA TTTAAA
1 TTTAAA -TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTT-AAA TTTAAA
*
20429893 ATT--A TTATAAA TTTAAA TTT
1 TTTAAA TT-TAAA TTTAAA TTT
20429913 CAATGTCCAA
Statistics
Matches: 49, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
4 2 0.04
5 9 0.18
6 25 0.51
7 13 0.27
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (6 bp):
TTTAAA
Found at i:20429874 original size:17 final size:17
Alignment explanation
Indices: 20429817--20429912 Score: 122
Period size: 17 Copynumber: 5.5 Consensus size: 17
20429807 CCAAACCCAT
20429817 TTTAAATTTATTTTAAGA
1 TTTAAATTTATTTTAA-A
* *
20429835 -TTAAGTTTGTTTTAAA
1 TTTAAATTTATTTTAAA
20429851 GTTTAAATTTATTTTAAA
1 -TTTAAATTTATTTTAAA
20429869 TTTAAATTTATTTTCAAA
1 TTTAAATTTATTTT-AAA
* *
20429887 TTTAAAATTATTATAAA
1 TTTAAATTTATTTTAAA
20429904 TTTAAATTT
1 TTTAAATTT
20429913 CAATGTCCAA
Statistics
Matches: 68, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
16 1 0.01
17 38 0.56
18 29 0.43
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.55
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:20433950 original size:23 final size:23
Alignment explanation
Indices: 20433906--20433950 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
20433896 TTAATAAGGG
* * *
20433906 CAAAAATAGAATGCAAAGTGAAT
1 CAAAAAAAGAAAGCAAAATGAAT
*
20433929 CAAAAAAAGAAAGGAAAATGAA
1 CAAAAAAAGAAAGCAAAATGAA
20433951 GGGATACTTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.64, C:0.07, G:0.18, T:0.11
Consensus pattern (23 bp):
CAAAAAAAGAAAGCAAAATGAAT
Found at i:20434694 original size:30 final size:28
Alignment explanation
Indices: 20434660--20434823 Score: 118
Period size: 28 Copynumber: 5.6 Consensus size: 28
20434650 CCTAAACTTT
20434660 CCAAAAATTCCATTTTTAACCTCGATTTCA
1 CCAAAAATTCCA-TTTTAACCTCGATTT-A
* *
20434690 CCAAAAATTACCATTTTACCCCCGAACTTT-
1 CCAAAAATT-CCATTTTAACCTCG-A-TTTA
*
20434720 CC-AAAATTCCATTTCAACCTCGATTTCA
1 CCAAAAATTCCATTTTAACCTCGATTT-A
* * * * *
20434748 CAAAAAAAATACTATTTTACCCTCGAATTTT
1 C--CAAAAATTCCATTTTAACCTCG-ATTTA
*
20434779 CC-AAAATTCCATTTTAACCCCGATTTTA
1 CCAAAAATTCCATTTTAACCTCGA-TTTA
*
20434807 CCGAAAATTACCATTTT
1 CCAAAAATT-CCATTTT
20434824 GCCCTCGCGA
Statistics
Matches: 105, Mismatches: 17, Indels: 24
0.72 0.12 0.16
Matches are distributed among these distances:
26 3 0.03
27 2 0.02
28 33 0.31
29 12 0.11
30 27 0.26
31 21 0.20
32 7 0.07
ACGTcount: A:0.35, C:0.27, G:0.04, T:0.34
Consensus pattern (28 bp):
CCAAAAATTCCATTTTAACCTCGATTTA
Found at i:20434709 original size:60 final size:58
Alignment explanation
Indices: 20434630--20434823 Score: 237
Period size: 59 Copynumber: 3.3 Consensus size: 58
20434620 CCTGGATTGT
* * *
20434630 CCAAAAATTACAATCTTACCCCTAAACTTTCCAAAAATTCCATTTTTAACCTCGATTTCA
1 CCAAAAATTACCATTTTACCCCTGAACTTTCC-AAAATTCCA-TTTTAACCTCGATTTCA
* *
20434690 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTCAACCTCGATTTCA
1 CCAAAAATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTAACCTCGATTTCA
* * * * * *
20434748 CAAAAAAAATACTATTTTA-CCCTCGAATTTTCCAAAATTCCATTTTAACCCCGATTTTA
1 C-CAAAAATTACCATTTTACCCCT-GAACTTTCCAAAATTCCATTTTAACCTCGATTTCA
*
20434807 CCGAAAATTACCATTTT
1 CCAAAAATTACCATTTT
20434824 GCCCTCGCGA
Statistics
Matches: 115, Mismatches: 17, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
58 32 0.28
59 55 0.48
60 28 0.24
ACGTcount: A:0.36, C:0.28, G:0.03, T:0.34
Consensus pattern (58 bp):
CCAAAAATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTAACCTCGATTTCA
Found at i:20436647 original size:30 final size:31
Alignment explanation
Indices: 20436606--20436663 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 31
20436596 AATGACTTAA
* *
20436606 TTAAATAAAAACTTTTGTATAATTCAATAAT
1 TTAAATAAAAACTTTAGAATAATTCAATAAT
20436637 TTAAAT-AAAACTTTAGAATAATTCAAT
1 TTAAATAAAAACTTTAGAATAATTCAAT
20436664 GATCATATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 19 0.76
31 6 0.24
ACGTcount: A:0.50, C:0.07, G:0.03, T:0.40
Consensus pattern (31 bp):
TTAAATAAAAACTTTAGAATAATTCAATAAT
Found at i:20438763 original size:17 final size:17
Alignment explanation
Indices: 20438741--20438775 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
20438731 TAAAACAGTC
*
20438741 ACTTTTGTTTATCTTAG
1 ACTTTTATTTATCTTAG
*
20438758 ACTTTTATTTATTTTAG
1 ACTTTTATTTATCTTAG
20438775 A
1 A
20438776 TTACATTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.23, C:0.09, G:0.09, T:0.60
Consensus pattern (17 bp):
ACTTTTATTTATCTTAG
Found at i:20439028 original size:21 final size:21
Alignment explanation
Indices: 20438986--20439028 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 21
20438976 TTTTGAGCAA
*
20438986 TTTAATTTTTTTTTTATGTTCT
1 TTTAATTTTTTTTTCA-GTTCT
20439008 TTTAACTTTTTTTTTCA-TTCT
1 TTTAA-TTTTTTTTTCAGTTCT
20439029 CTTCTGCTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 4 0.21
22 5 0.26
23 10 0.53
ACGTcount: A:0.14, C:0.09, G:0.02, T:0.74
Consensus pattern (21 bp):
TTTAATTTTTTTTTCAGTTCT
Found at i:20444603 original size:19 final size:20
Alignment explanation
Indices: 20444565--20444603 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
20444555 AAATTAAGAT
* *
20444565 AATATTTTATTTTTATTAAA
1 AATATTTTATATTAATTAAA
20444585 AATATTTTA-ATTAATTAAA
1 AATATTTTATATTAATTAAA
20444604 TTTCAGTACC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
AATATTTTATATTAATTAAA
Found at i:20449373 original size:4 final size:4
Alignment explanation
Indices: 20449364--20449397 Score: 59
Period size: 4 Copynumber: 8.5 Consensus size: 4
20449354 AAAGAAACTT
*
20449364 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ACAC AT
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT
20449398 TAGCTGCAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAC
Found at i:20453475 original size:21 final size:22
Alignment explanation
Indices: 20453451--20453492 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
20453441 TAGGAAGTAG
*
20453451 TTTTTCTTT-TTTAATTTTAAA
1 TTTTTATTTATTTAATTTTAAA
*
20453472 TTTTTATTTATTTATTTTTAA
1 TTTTTATTTATTTAATTTTAA
20453493 TCAAATTTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (22 bp):
TTTTTATTTATTTAATTTTAAA
Found at i:20461564 original size:16 final size:17
Alignment explanation
Indices: 20461517--20461565 Score: 57
Period size: 16 Copynumber: 3.0 Consensus size: 17
20461507 AATATATATT
20461517 TTTAATTCATATTTT-A
1 TTTAATTCATATTTTAA
* * *
20461533 TATATTTCATAATTTAA
1 TTTAATTCATATTTTAA
20461550 TTTAATTCAT-TTTTAA
1 TTTAATTCATATTTTAA
20461566 ATTAGGGTCA
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
16 17 0.65
17 9 0.35
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (17 bp):
TTTAATTCATATTTTAA
Found at i:20467407 original size:16 final size:16
Alignment explanation
Indices: 20467380--20467420 Score: 64
Period size: 16 Copynumber: 2.5 Consensus size: 16
20467370 AATTATATTG
*
20467380 TAAAAATATCAAAATTA
1 TAAAAAT-TCAAAAATA
20467397 TAAAAATTCAAAAATA
1 TAAAAATTCAAAAATA
20467413 TAAAAATT
1 TAAAAATT
20467421 TTAAAAAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 16 0.70
17 7 0.30
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (16 bp):
TAAAAATTCAAAAATA
Found at i:20467426 original size:16 final size:17
Alignment explanation
Indices: 20467380--20467427 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
20467370 AATTATATTG
* *
20467380 TAAAAATATCAAAATTA
1 TAAAAATTTAAAAATTA
*
20467397 TAAAAATTCAAAAA-TA
1 TAAAAATTTAAAAATTA
20467413 TAAAAATTTTAAAAA
1 TAAAAA-TTTAAAAA
20467428 AACCGTAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
16 8 0.31
17 18 0.69
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (17 bp):
TAAAAATTTAAAAATTA
Found at i:20480430 original size:6 final size:6
Alignment explanation
Indices: 20480419--20480445 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
20480409 ACACAGACAT
20480419 GACAGG GACAGG GACAGG GACAGG GAC
1 GACAGG GACAGG GACAGG GACAGG GAC
20480446 GTCCTTCTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.19, G:0.48, T:0.00
Consensus pattern (6 bp):
GACAGG
Found at i:20488725 original size:8 final size:8
Alignment explanation
Indices: 20488710--20488756 Score: 51
Period size: 8 Copynumber: 6.0 Consensus size: 8
20488700 TATAGAAATT
20488710 TATT-AAA
1 TATTAAAA
20488717 TATTAAAA
1 TATTAAAA
*
20488725 TAATAAAA
1 TATTAAAA
*
20488733 TATTAATA
1 TATTAAAA
*
20488741 TTTTAAAA
1 TATTAAAA
*
20488749 AATTAAAA
1 TATTAAAA
20488757 ATAATATGGG
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
7 4 0.12
8 28 0.88
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
TATTAAAA
Found at i:20488735 original size:16 final size:16
Alignment explanation
Indices: 20488714--20488762 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
20488704 GAAATTTATT
20488714 AAATATTAAAATAATA
1 AAATATTAAAATAATA
* **
20488730 AAATATTAATATTTTA
1 AAATATTAAAATAATA
*
20488746 AAAAATTAAAAATAATA
1 AAATATT-AAAATAATA
20488763 TGGGCGAATC
Statistics
Matches: 25, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
16 19 0.76
17 6 0.24
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
AAATATTAAAATAATA
Found at i:20488758 original size:33 final size:34
Alignment explanation
Indices: 20488679--20488762 Score: 95
Period size: 33 Copynumber: 2.5 Consensus size: 34
20488669 CGACTATATA
20488679 AAAAAATTAATAAATAA-AAAATATAGAAATTTAT
1 AAAAAATTAA-AAATAATAAAATATAGAAATTTAT
* * *
20488713 TAAATATT-AAAATAATAAAATATTA-ATATTT-T
1 AAAAAATTAAAAATAATAAAATA-TAGAAATTTAT
20488745 AAAAAATTAAAAATAATA
1 AAAAAATTAAAAATAATA
20488763 TGGGCGAATC
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
32 13 0.31
33 21 0.50
34 8 0.19
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.33
Consensus pattern (34 bp):
AAAAAATTAAAAATAATAAAATATAGAAATTTAT
Found at i:20494158 original size:31 final size:32
Alignment explanation
Indices: 20494095--20494161 Score: 91
Period size: 32 Copynumber: 2.1 Consensus size: 32
20494085 ATATATTTGG
***
20494095 AATTTAGTTTTTATATTTTTATTTTTTTAAAA
1 AATTTAGTTTTTATATTTTTATAAATTTAAAA
*
20494127 AATTTAGTTTTTTTATTTTT-TAAATTTAAAA
1 AATTTAGTTTTTATATTTTTATAAATTTAAAA
20494158 AATT
1 AATT
20494162 CAATTCTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
31 12 0.39
32 19 0.61
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (32 bp):
AATTTAGTTTTTATATTTTTATAAATTTAAAA
Found at i:20496521 original size:29 final size:29
Alignment explanation
Indices: 20496489--20496545 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
20496479 AATCTGAATC
20496489 AAATTAAAAATTCATGTATAAAATTACAA
1 AAATTAAAAATTCATGTATAAAATTACAA
* * * *
20496518 AAATTTAAAATTTATGTATGACATTACA
1 AAATTAAAAATTCATGTATAAAATTACA
20496546 TATTAGATCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.53, C:0.07, G:0.05, T:0.35
Consensus pattern (29 bp):
AAATTAAAAATTCATGTATAAAATTACAA
Found at i:20499381 original size:2 final size:2
Alignment explanation
Indices: 20499374--20499414 Score: 59
Period size: 2 Copynumber: 21.5 Consensus size: 2
20499364 AATTGACTTA
*
20499374 AT AT AT AT AT AT A- AT AT -T AT GT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
20499414 A
1 A
20499415 GGCTTCATGA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
1 2 0.06
2 33 0.94
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:20505520 original size:23 final size:21
Alignment explanation
Indices: 20505469--20505528 Score: 57
Period size: 23 Copynumber: 2.7 Consensus size: 21
20505459 TTGATTCAAT
*
20505469 TTAAAATTTAAAAATTTTAAA
1 TTAAAATTTAAAAATGTTAAA
**
20505490 AAATAAATATTAAAAATAGTTAAA
1 TTA-AAAT-TTAAAAAT-GTTAAA
20505514 TTAAAATTCTAAAAA
1 TTAAAATT-TAAAAA
20505529 GTACTTATTT
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
21 1 0.03
22 5 0.17
23 18 0.60
24 6 0.20
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (21 bp):
TTAAAATTTAAAAATGTTAAA
Found at i:20510050 original size:19 final size:18
Alignment explanation
Indices: 20510026--20510070 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
20510016 TTTATATTTT
20510026 ATAAAAACA-TTCAAAAAAA
1 ATAAAAA-AGTTC-AAAAAA
*
20510045 ATAAAAAAGTTCATAAAA
1 ATAAAAAAGTTCAAAAAA
20510063 ATAAAAAA
1 ATAAAAAA
20510071 TTAACATGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 14 0.58
19 10 0.42
ACGTcount: A:0.73, C:0.07, G:0.02, T:0.18
Consensus pattern (18 bp):
ATAAAAAAGTTCAAAAAA
Found at i:20510542 original size:17 final size:17
Alignment explanation
Indices: 20510520--20510552 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
20510510 TGTTGAAAAG
20510520 TAGATTTATAATTGTAC
1 TAGATTTATAATTGTAC
*
20510537 TAGATTTATACTTGTA
1 TAGATTTATAATTGTA
20510553 AACTTAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.06, G:0.12, T:0.48
Consensus pattern (17 bp):
TAGATTTATAATTGTAC
Found at i:20512915 original size:77 final size:75
Alignment explanation
Indices: 20512783--20513075 Score: 218
Period size: 77 Copynumber: 3.8 Consensus size: 75
20512773 CTTCGACGGT
* * * * * * *
20512783 AATCTCGAGGTTTAACTCATTTTTAGAAATA-AATTCGAGTTTTAACAAAATGAAAAACTAAAAA
1 AATCCCGAGGCTTAACTCATTTTT-GAAAAAGAATTCAACTTTTGATAAAATG-AAAACTAAAAA
20512847 AGACCTCAACAAA
64 A-ACCTCAACAAA
* * *
20512860 AATCCCGAGGCTTAACTCGTTTTTGAAAATAG-ATTCGACTTTTGATAAAATGAAAACGAAAAAA
1 AATCCCGAGGCTTAACTCATTTTTGAAAA-AGAATTCAACTTTTGATAAAATGAAAAC--TAAAA
** *
20512924 AAACCTTGACAAT
63 AAACCTCAACAAA
** * * * *
20512937 TGTCTCGAGGCTTGA-TCCATTTTTGAAAACGAATTCAACTAGTT-ATAAAATGAAAAACT-AAA
1 AATCCCGAGGCTTAACT-CATTTTTGAAAAAGAATTCAACT-TTTGATAAAATG-AAAACTAAAA
*
20512999 AATCCTCAACAAA
63 AAACCTCAACAAA
* * * * * *
20513012 AGTCCCAAGGCTTGACCCAATTTTTGAAAACGAATTCAACTTTTGATGAAAACGAAAACTAAAA
1 AATCCCGAGGCTTAACTC-ATTTTTGAAAAAGAATTCAACTTTTGAT-AAAATGAAAACTAAAA
20513076 GGACCTTGAC
Statistics
Matches: 173, Mismatches: 30, Indels: 26
0.76 0.13 0.11
Matches are distributed among these distances:
75 27 0.16
76 41 0.24
77 92 0.53
78 13 0.08
ACGTcount: A:0.44, C:0.16, G:0.13, T:0.27
Consensus pattern (75 bp):
AATCCCGAGGCTTAACTCATTTTTGAAAAAGAATTCAACTTTTGATAAAATGAAAACTAAAAAAA
CCTCAACAAA
Found at i:20518128 original size:32 final size:32
Alignment explanation
Indices: 20518072--20518133 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
20518062 AACACGTTAA
*
20518072 ATTAATTAATATTAGTTATCAAATT-AAATTG
1 ATTAATTAATATGAGTTATCAAATTCAAATTG
* *
20518103 ATTAATTTATCATGAGTTATTAAATTCAAAT
1 ATTAATTAAT-ATGAGTTATCAAATTCAAAT
20518134 AATCATTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 9 0.35
32 13 0.50
33 4 0.15
ACGTcount: A:0.44, C:0.05, G:0.06, T:0.45
Consensus pattern (32 bp):
ATTAATTAATATGAGTTATCAAATTCAAATTG
Found at i:20520249 original size:17 final size:18
Alignment explanation
Indices: 20520227--20520269 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
20520217 TTTAAATTTT
20520227 ATAAAAACA-TTCA-AAAA
1 ATAAAAA-AGTTCATAAAA
20520244 ATAAAAAAGTTCATAAAA
1 ATAAAAAAGTTCATAAAA
20520262 ATAAAAAA
1 ATAAAAAA
20520270 TTAACATGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 1 0.04
17 11 0.46
18 12 0.50
ACGTcount: A:0.72, C:0.07, G:0.02, T:0.19
Consensus pattern (18 bp):
ATAAAAAAGTTCATAAAA
Found at i:20520261 original size:18 final size:16
Alignment explanation
Indices: 20520227--20520271 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 16
20520217 TTTAAATTTT
20520227 ATAAAAACATTCAAAAA
1 ATAAAAA-ATTCAAAAA
20520244 ATAAAAAAGTTCATAAAA
1 ATAAAAAA-TTCA-AAAA
20520262 ATAAAAAATT
1 ATAAAAAATT
20520272 AACATGAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
16 1 0.04
17 13 0.50
18 12 0.46
ACGTcount: A:0.69, C:0.07, G:0.02, T:0.22
Consensus pattern (16 bp):
ATAAAAAATTCAAAAA
Found at i:20524667 original size:59 final size:57
Alignment explanation
Indices: 20524542--20524985 Score: 410
Period size: 59 Copynumber: 7.6 Consensus size: 57
20524532 TCGGGGTGTG
* ** * *
20524542 AAAAT-GTAATTTTTGATGAAATCGGGG-TAAAATTGGAATTTGGAGAGTTT-GGGAT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAA-TGGGTTTTGGAAAGTTTAGGGGT
* * * * *
20524597 AAAATGGTAATTTTTGGTGAAATTGAGGTTAAGAATGAGGTTTTAGAAAGTTTAAGGAT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAA-AATG-GGTTTTGGAAAGTTTAGGGGT
20524656 AAAATGGTAATTTTTGGTGAAATCGGGGTTGAAAATGGGATTTTGGAAAGTTTAGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTT-AAAATGGG-TTTTGGAAAGTTTAGGGGT
* ** ** *
20524715 AAAACGGTAATTTTTGGTGAAATCAAGGTTAAAAATGGGATTTTAAAAAGTTTGGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTT-AAAATGGG-TTTTGGAAAGTTTAGGGGT
* * * ** *
20524774 AAAATGGTGATTTTTGGTGAAATTGGGGTTAAAAATGGAATTTTGGTGAGTTTGGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTT-AAAATGG-GTTTTGGAAAGTTTAGGGGT
* * * **
20524833 AAAATGGTAATTTTTAGTGGAATAGGGGTTGAAAATAGAATTTTGGAAAGTTTAGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTT-AAAAT-GGGTTTTGGAAAGTTTAGGGGT
* ** * * * *
20524892 AAAATGGTAATTTTTGGTAAAATCGATGTCAAAAATGGAATTTTGAAAAGTTTGGGGGTT
1 AAAATGGTAATTTTTGGTGAAATCGGGGT-TAAAATGG-GTTTTGGAAAGTTTAGGGG-T
* *
20524952 AAAATGGTAA-TTTTGGTGAAACCGGGGTCAAAAT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAT
20524986 ATAATTTATG
Statistics
Matches: 323, Mismatches: 54, Indels: 21
0.81 0.14 0.05
Matches are distributed among these distances:
55 5 0.02
56 19 0.06
57 5 0.02
58 21 0.07
59 259 0.80
60 14 0.04
ACGTcount: A:0.34, C:0.02, G:0.30, T:0.34
Consensus pattern (57 bp):
AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAATGGGTTTTGGAAAGTTTAGGGGT
Found at i:20524801 original size:29 final size:29
Alignment explanation
Indices: 20524655--20524861 Score: 83
Period size: 29 Copynumber: 7.0 Consensus size: 29
20524645 AGTTTAAGGA
* *
20524655 TAAAATGGTAATTTTTGGTGAAATCGGGG
1 TAAAATGGTGATTTTTGGTGAAATTGGGG
20524684 TTGAAAATGG-GA-TTTT-G-GAAAGTTTAGGGG
1 -T-AAAATGGTGATTTTTGGTGAAA--TT-GGGG
* * ** *
20524714 TAAAACGGTAATTTTTGGTGAAATCAAGGT
1 TAAAATGGTGATTTTTGGTGAAAT-TGGGG
**
20524744 TAAAAATGG-GA-TTTT--AAAAAGTTTGGGGG
1 T-AAAATGGTGATTTTTGGTGAAA--TT-GGGG
20524773 TAAAATGGTGATTTTTGGTGAAATTGGGG
1 TAAAATGGTGATTTTTGGTGAAATTGGGG
* **
20524802 TTAAAAAT-G-GAATTTTGGTGAGTTTGGGGG
1 -T-AAAATGGTGATTTTTGGTGAAATT-GGGG
* * * *
20524832 TAAAATGGTAATTTTTAGTGGAATAGGGG
1 TAAAATGGTGATTTTTGGTGAAATTGGGG
20524861 T
1 T
20524862 TGAAAATAGA
Statistics
Matches: 129, Mismatches: 26, Indels: 45
0.64 0.13 0.22
Matches are distributed among these distances:
27 7 0.05
28 19 0.15
29 41 0.32
30 36 0.28
31 19 0.15
32 7 0.05
ACGTcount: A:0.32, C:0.01, G:0.32, T:0.35
Consensus pattern (29 bp):
TAAAATGGTGATTTTTGGTGAAATTGGGG
Found at i:20524840 original size:177 final size:176
Alignment explanation
Indices: 20524587--20524972 Score: 515
Period size: 177 Copynumber: 2.2 Consensus size: 176
20524577 GAATTTGGAG
* * *
20524587 AGTTT-GGGATAAAATGGTAATTTTTGGTGAAATTGAGGTTAAGAATGAGGTTTTAGAAAGTTTA
1 AGTTTGGGGGTAAAATGGT-ATTTTTGGTGAAATTGAGGTTAAAAATGAGATTTTAGAAAGTTTA
* * * *
20524651 AGGATAAAATGGTAATTTTTGGTGAAATCGGGGTTGAAAATGGGATTTTGGAAAGTTTAGGGGTA
65 AGGATAAAATGGTAATTTTTAGTGAAATAGGGGTTGAAAATAGAATTTTGGAAAGTTTAGGGGTA
* * *
20524716 AAACGGTAATTTTTGGTGAAATCAAGGTTAAAAATGGGATTTTAAAA
130 AAACGGTAATTTTTGGTAAAATCAAGGTCAAAAATGGAATTTTAAAA
* * **
20524763 AGTTTGGGGGTAAAATGGTGATTTTTGGTGAAATTGGGGTTAAAAATG-GAATTTTGGTGAGTTT
1 AGTTTGGGGGTAAAATGGT-ATTTTTGGTGAAATTGAGGTTAAAAATGAG-ATTTTAGAAAGTTT
** * *
20524827 GGGGGTAAAATGGTAATTTTTAGTGGAATAGGGGTTGAAAATAGAATTTTGGAAAGTTTAGGGGT
64 AAGGATAAAATGGTAATTTTTAGTGAAATAGGGGTTGAAAATAGAATTTTGGAAAGTTTAGGGGT
* * * *
20524892 AAAATGGTAATTTTTGGTAAAATCGATGTCAAAAATGGAATTTTGAAA
129 AAAACGGTAATTTTTGGTAAAATCAAGGTCAAAAATGGAATTTTAAAA
*
20524940 AGTTTGGGGGTTAAAATGGTAATTTTGGTGAAA
1 AGTTTGGGGG-TAAAATGGTATTTTTGGTGAAA
20524973 CCGGGGTCAA
Statistics
Matches: 183, Mismatches: 24, Indels: 5
0.86 0.11 0.02
Matches are distributed among these distances:
176 6 0.03
177 168 0.92
178 9 0.05
ACGTcount: A:0.34, C:0.01, G:0.30, T:0.35
Consensus pattern (176 bp):
AGTTTGGGGGTAAAATGGTATTTTTGGTGAAATTGAGGTTAAAAATGAGATTTTAGAAAGTTTAA
GGATAAAATGGTAATTTTTAGTGAAATAGGGGTTGAAAATAGAATTTTGGAAAGTTTAGGGGTAA
AACGGTAATTTTTGGTAAAATCAAGGTCAAAAATGGAATTTTAAAA
Found at i:20524979 original size:118 final size:117
Alignment explanation
Indices: 20524542--20525007 Score: 505
Period size: 118 Copynumber: 4.0 Consensus size: 117
20524532 TCGGGGTGTG
* * * *
20524542 AAAAT-GTAATTTTTGATGAAATCGGGG-TAAAATTGGAA-TTTGGAGAGTTT-GGGATAAAATG
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTTGGGGGTAAAATG
* * * *
20524603 GTAATTTTTGGTGAAATTGAGGTTAAGAAT-GAGGTTTTAGAAAGTTTAAGGAT
66 GTAATTTTTGGTGAAATCGAGGTTAA-AATAGA-ATTTTAGAAAGTTTAGGGGT
* * * *
20524656 AAAATGGTAATTTTTGGTGAAATCGGGGTTGAAAATGGGATTTTGGAAAGTTTAGGGGTAAAACG
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTTGGGGGTAAAATG
* * * * *
20524721 GTAATTTTTGGTGAAATCAAGGTTAAAAATGGGATTTTAAAAAGTTTGGGGGT
66 GTAATTTTTGGTGAAATCGAGGTT-AAAATAGAATTTTAGAAAGTTTAGGGGT
* * **
20524774 AAAATGGTGATTTTTGGTGAAATTGGGGTTAAAAATGGAATTTTGGTGAGTTTGGGGGTAAAATG
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTTGGGGGTAAAATG
* * * * *
20524839 GTAATTTTTAGTGGAATAGGGGTTGAAAATAGAATTTTGGAAAGTTTAGGGGT
66 GTAATTTTTGGTGAAATCGAGGTT-AAAATAGAATTTTAGAAAGTTTAGGGGT
* ** * *
20524892 AAAATGGTAATTTTTGGTAAAATCGATGTCAAAAATGGAATTTTGAAAAGTTTGGGGGTTAAAAT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTTGGGGG-TAAAAT
* * * *
20524957 GGTAA-TTTTGGTGAAACCGGGGTCAAAATATAA-TTTATGAATAGTTTAGGG
65 GGTAATTTTTGGTGAAATCGAGGTTAAAATAGAATTTTA-GAA-AGTTTAGGG
20525008 ACCTATAAGC
Statistics
Matches: 293, Mismatches: 50, Indels: 14
0.82 0.14 0.04
Matches are distributed among these distances:
114 5 0.02
115 21 0.07
116 11 0.04
117 22 0.08
118 220 0.75
119 14 0.05
ACGTcount: A:0.35, C:0.02, G:0.29, T:0.34
Consensus pattern (117 bp):
AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTTGGGGGTAAAATG
GTAATTTTTGGTGAAATCGAGGTTAAAATAGAATTTTAGAAAGTTTAGGGGT
Found at i:20527530 original size:200 final size:200
Alignment explanation
Indices: 20527216--20527609 Score: 612
Period size: 200 Copynumber: 2.0 Consensus size: 200
20527206 CAATCATCTG
* * * *
20527216 TTTTAATTCGCTTCTCTGAATCTTCTCAGGAAGACGATTTGGTCCACTTCTCTGTGTCTCATCAG
1 TTTTAATTCGCTTCTCTGAATCTCCTCAGGAAGACAATCTAGTCCACTTCTCTGTGTCTCATCAG
* *
20527281 GAAGCTAACCTTTTTATTGCTTCGACCTGCTTCTCAGTACCTCATCAGGAAGCTGGGTTCAAAGA
66 GAAGCTAACCTTTTTATTACTTCGACCTGCTTCTCAGTACCTCATCAGGAAGCTGAGTTCAAAGA
*
20527346 TTTGCTCGCG-TTGAGCGTTGAGTTGGTGTTTTTCTCTATACCTCATCAGGAAGATGACCGCCTC
131 TTTGCTCGCGTTTGAGCGTTGAGTTGGTGTTCTTCTCTATACCTCATCAGGAAGATGACCGCCTC
20527410 GCTTA
196 GCTTA
*
20527415 TTTTGATTCGCTTCTCT-AGATCTCCTCAGGAAGACAAATCTAGTCCACTTCTCTGTGTCTCATC
1 TTTTAATTCGCTTCTCTGA-ATCTCCTCAGGAAGAC-AATCTAGTCCACTTCTCTGTGTCTCATC
* ** *
20527479 ATGAAGCTAACCTTTTTATTACTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGAGTTCGAA
64 AGGAAGCTAACCTTTTTATTACTTCGACCTGCTTCTCAGTACCTCATCAGGAAGCTGAGTTCAAA
* * * *
20527544 GATTTGCTCGTGTTTGAGCGTTGAGTTGGTGTTCTTCTTTGTATCTCATCAGGAAGATGACCGCC
129 GATTTGCTCGCGTTTGAGCGTTGAGTTGGTGTTCTTCTCTATACCTCATCAGGAAGATGACCGCC
20527609 T
194 T
20527610 TATCGTTTTG
Statistics
Matches: 176, Mismatches: 16, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
198 1 0.01
199 31 0.18
200 95 0.54
201 49 0.28
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.36
Consensus pattern (200 bp):
TTTTAATTCGCTTCTCTGAATCTCCTCAGGAAGACAATCTAGTCCACTTCTCTGTGTCTCATCAG
GAAGCTAACCTTTTTATTACTTCGACCTGCTTCTCAGTACCTCATCAGGAAGCTGAGTTCAAAGA
TTTGCTCGCGTTTGAGCGTTGAGTTGGTGTTCTTCTCTATACCTCATCAGGAAGATGACCGCCTC
GCTTA
Found at i:20528395 original size:20 final size:20
Alignment explanation
Indices: 20528370--20528415 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
20528360 GACCCGTTTT
20528370 GGGTTTGAGCCGCCCTTTGC
1 GGGTTTGAGCCGCCCTTTGC
20528390 GGGTTTGAGCCGCCCTTTGC
1 GGGTTTGAGCCGCCCTTTGC
20528410 GGGTTT
1 GGGTTT
20528416 TCAACTCAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.04, C:0.26, G:0.37, T:0.33
Consensus pattern (20 bp):
GGGTTTGAGCCGCCCTTTGC
Found at i:20539868 original size:58 final size:58
Alignment explanation
Indices: 20539801--20540167 Score: 241
Period size: 58 Copynumber: 6.2 Consensus size: 58
20539791 TTCGGTGGTG
* *
20539801 AAATG-TAATTTTTGATAAAATCGGGGTTAAAAATGGAATTTTGGAAGTTTAAGGGT-
1 AAATGATAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAGTTTAAGGGTA
* ** * ** *
20539857 AAATCGATAATTTTTGGTGGAATTAGGGTTAAGAATGGGGTTTTGGAAAGTTT-AGGATA
1 AAAT-GATAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGG-AAGTTTAAGGGTA
* * * * *
20539916 AAATGGTAATTTTTGGTGAAA-CGAGGTTGAAAATAGAA-TTTGGAAAG-TTAGGGGTGTA
1 AAATGATAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGG-AAGTTTA-AGG-GTA
* * ** * * *
20539974 AAATGGTAATTTTTGGTAAAATTAGGGTTAAAAATGGGATTTTGAAAAGTTTAGGGGTA
1 AAATGATAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTG-GAAGTTTAAGGGTA
** *
20540033 AAATGGTATTTTTTTTGGTGAAATCGGGG-TAAAAATGGAAATTTTGGAGAGTTTGGGGGAACGG
1 AAAT-G-ATAATTTTTGGTGAAATCGGGGTTAAAAATGG-AATTTTGGA-AGTTT-----AAGGG
20540097 TA
57 TA
* * * * * *
20540099 AAACGGTAA-TTTTGGTGGAATCGAGGTCAAAAATGGAGTTTTGGAAAGTTT-AGGGTCA
1 AAATGATAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGG-AAGTTTAAGGGT-A
20540157 AAAT-ATAATTT
1 AAATGATAATTT
20540168 ATGAATAGTT
Statistics
Matches: 237, Mismatches: 50, Indels: 46
0.71 0.15 0.14
Matches are distributed among these distances:
55 2 0.01
56 13 0.05
57 19 0.08
58 78 0.33
59 28 0.12
60 21 0.09
61 30 0.13
63 27 0.11
64 10 0.04
65 1 0.00
66 8 0.03
ACGTcount: A:0.35, C:0.02, G:0.29, T:0.34
Consensus pattern (58 bp):
AAATGATAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAGTTTAAGGGTA
Found at i:20539984 original size:29 final size:28
Alignment explanation
Indices: 20539952--20540040 Score: 74
Period size: 31 Copynumber: 3.0 Consensus size: 28
20539942 TTGAAAATAG
20539952 AATTTGGAAAGTTAGGGGTGTAAAATGGT
1 AATTTGGAAAGTTA-GGGTGTAAAATGGT
* *
20539981 AATTTTTGGTAAAATTAGGGT-TAAAAATGGG
1 AA--TTTGG-AAAGTTAGGGTGT-AAAATGGT
* *
20540012 ATTTTGAAAAGTTTAGGG-GTAAAATGGT
1 AATTTGGAAAG-TTAGGGTGTAAAATGGT
20540040 A
1 A
20540041 TTTTTTTTGG
Statistics
Matches: 48, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
28 11 0.23
29 13 0.27
30 1 0.02
31 17 0.35
32 6 0.12
ACGTcount: A:0.37, C:0.00, G:0.29, T:0.34
Consensus pattern (28 bp):
AATTTGGAAAGTTAGGGTGTAAAATGGT
Found at i:20540045 original size:29 final size:28
Alignment explanation
Indices: 20539954--20540045 Score: 80
Period size: 29 Copynumber: 3.1 Consensus size: 28
20539944 GAAAATAGAA
*
20539954 TTTGGAAAGTTAGGGGTGTAAAATGGTAATT
1 TTTGAAAAGTTA-GGG-GTAAAATGGT-ATT
* *
20539985 TTTGGTAAAA-TTAGGGTTAAAAATGGGA-T
1 TTT-G-AAAAGTTAGGGGT-AAAATGGTATT
20540014 TTTGAAAAGTTTAGGGGTAAAATGGTATT
1 TTTGAAAAG-TTAGGGGTAAAATGGTATT
20540043 TTT
1 TTT
20540046 TTTGGTGAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 14
0.72 0.07 0.20
Matches are distributed among these distances:
27 4 0.08
28 9 0.18
29 15 0.30
30 2 0.04
31 13 0.26
32 4 0.08
33 3 0.06
ACGTcount: A:0.34, C:0.00, G:0.28, T:0.38
Consensus pattern (28 bp):
TTTGAAAAGTTAGGGGTAAAATGGTATT
Found at i:20542118 original size:17 final size:17
Alignment explanation
Indices: 20542096--20542158 Score: 67
Period size: 16 Copynumber: 3.8 Consensus size: 17
20542086 TCTTAAATAT
20542096 ATTTAAATTTAAAACAA
1 ATTTAAATTTAAAACAA
*
20542113 ATTTAAATTT-AAATAA
1 ATTTAAATTTAAAACAA
* **
20542129 ATTTAAAATTAATTCAA
1 ATTTAAATTTAAAACAA
*
20542146 ACTT-AATTTAAAA
1 ATTTAAATTTAAAA
20542159 TCCAAGTTGA
Statistics
Matches: 36, Mismatches: 9, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
16 20 0.56
17 16 0.44
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.40
Consensus pattern (17 bp):
ATTTAAATTTAAAACAA
Found at i:20542125 original size:33 final size:32
Alignment explanation
Indices: 20542088--20542157 Score: 86
Period size: 33 Copynumber: 2.2 Consensus size: 32
20542078 TCAAATTATC
* * *
20542088 TTAAATATATTTAAATTTAAAACAAATTTAAAT
1 TTAAATAAATTTAAAATTAAAACAAACTT-AAT
**
20542121 TTAAATAAATTTAAAATTAATTCAAACTTAAT
1 TTAAATAAATTTAAAATTAAAACAAACTTAAT
20542153 TTAAA
1 TTAAA
20542158 ATCCAAGTTG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
32 8 0.25
33 24 0.75
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.41
Consensus pattern (32 bp):
TTAAATAAATTTAAAATTAAAACAAACTTAAT
Found at i:20542132 original size:16 final size:16
Alignment explanation
Indices: 20542088--20542140 Score: 70
Period size: 16 Copynumber: 3.2 Consensus size: 16
20542078 TCAAATTATC
*
20542088 TTAAATATATTTAAAT
1 TTAAATAAATTTAAAT
*
20542104 TTAAAACAAATTTAAAT
1 TT-AAATAAATTTAAAT
*
20542121 TTAAATAAATTTAAAA
1 TTAAATAAATTTAAAT
20542137 TTAA
1 TTAA
20542141 TTCAAACTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
16 18 0.56
17 14 0.44
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (16 bp):
TTAAATAAATTTAAAT
Found at i:20542142 original size:27 final size:27
Alignment explanation
Indices: 20542099--20542151 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
20542089 TAAATATATT
* *
20542099 TAAATTTAAAACAAATTTAAATTTAAA
1 TAAATTTAAAACAAATTCAAACTTAAA
**
20542126 TAAATTTAAAATTAATTCAAACTTAA
1 TAAATTTAAAACAAATTCAAACTTAA
20542152 TTTAAAATCC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.38
Consensus pattern (27 bp):
TAAATTTAAAACAAATTCAAACTTAAA
Found at i:20545571 original size:76 final size:75
Alignment explanation
Indices: 20545440--20545731 Score: 225
Period size: 76 Copynumber: 3.8 Consensus size: 75
20545430 CTTCGACGGT
* * * * * *
20545440 AATCTCGAGGTTTAACTCATTTTT-AGAAATAAATTCGAGTTTTAATAAAATGAAAACTAAAAAA
1 AATCCCGAGGCTTAACTCATTTTTGA-AAATAGATTCAACTTTTGATAAAATGAAAACTAAAAAA
20545504 GACCTCAACAAA
65 -ACCTCAACAAA
* * * * *
20545516 AATCCCGAGGCTTAACTCGTTTTTGAAAATAGATTCGACTTTTGACAAAATGAAAATTAAAAATA
1 AATCCCGAGGCTTAACTCATTTTTGAAAATAGATTCAACTTTTGATAAAATGAAAACTAAAAAAA
** *
20545581 CCTTGACAAC
66 CCTCAACAAA
** * * * * *
20545591 TGTCCCGAGGCTTGACCCATTTTCTGAAAACTA-ATTCAACTAGTT-ATAAAATGAAAAATTAAA
1 AATCCCGAGGCTTAACTCATTTT-TGAAAA-TAGATTCAACT-TTTGATAAAATGAAAACTAAAA
*
20545654 AATCCTCAACAAA
63 AAACCTCAACAAA
* * * * *
20545667 AGTCCCAAGGCTTGAC-CTATTTTTTGAAAA-CGAATTCAACTTTTGATGAAAACGAAAACTAAA
1 AATCCCGAGGCTTAACTC-A-TTTTTGAAAATAG-ATTCAACTTTTGAT-AAAATGAAAACTAAA
20545730 AA
62 AA
20545732 GATCTTGACG
Statistics
Matches: 172, Mismatches: 34, Indels: 19
0.76 0.15 0.08
Matches are distributed among these distances:
75 29 0.17
76 120 0.70
77 23 0.13
ACGTcount: A:0.43, C:0.17, G:0.12, T:0.28
Consensus pattern (75 bp):
AATCCCGAGGCTTAACTCATTTTTGAAAATAGATTCAACTTTTGATAAAATGAAAACTAAAAAAA
CCTCAACAAA
Found at i:20553230 original size:15 final size:16
Alignment explanation
Indices: 20553195--20553240 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 16
20553185 TTATTTTGTT
*
20553195 TTGAATATATATATATA
1 TTGAATAT-TTTATATA
*
20553212 TTGAAT-TTTTATATG
1 TTGAATATTTTATATA
20553227 TTGAATATTTTATA
1 TTGAATATTTTATA
20553241 ATTTCTGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
15 12 0.46
16 8 0.31
17 6 0.23
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.54
Consensus pattern (16 bp):
TTGAATATTTTATATA
Found at i:20553909 original size:4 final size:4
Alignment explanation
Indices: 20553895--20553933 Score: 71
Period size: 4 Copynumber: 10.0 Consensus size: 4
20553885 CTTTAGGCTA
20553895 CTTT C-TT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT
1 CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT
20553934 ATTTGCAGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 3 0.09
4 31 0.91
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (4 bp):
CTTT
Found at i:20555129 original size:31 final size:32
Alignment explanation
Indices: 20555094--20555174 Score: 103
Period size: 31 Copynumber: 2.6 Consensus size: 32
20555084 TTTTTTGTCC
20555094 AATTTGGTACTCAAACTTGACACTTTTTCTT-
1 AATTTGGTACTCAAACTTGACACTTTTTCTTA
* *
20555125 AATTTAGTA-TCTAAACTTGACACTTTTTTTTA
1 AATTTGGTACTC-AAACTTGACACTTTTTCTTA
* *
20555157 AAGTTGGTACTTAAACTT
1 AATTTGGTACTCAAACTT
20555175 TTTGGGATTC
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
30 2 0.05
31 26 0.62
32 13 0.31
33 1 0.02
ACGTcount: A:0.30, C:0.15, G:0.10, T:0.46
Consensus pattern (32 bp):
AATTTGGTACTCAAACTTGACACTTTTTCTTA
Found at i:20555479 original size:59 final size:58
Alignment explanation
Indices: 20555406--20555567 Score: 225
Period size: 60 Copynumber: 2.7 Consensus size: 58
20555396 TAAAGAAAAC
* *
20555406 TTAGATACCAAATTAGGAAAAATGTCAAGTTCAAGTACCAAATTGGATCCAAAAAGAGT
1 TTAGATACCAAATTAGGAAAAATGTCAAGTTCAAGTACCAAATTGAAT-CAAAAAAAGT
* *
20555465 TTAGATACCAAATTAGGAAAAAAGTGTCAAGTTCAAATATCAAATTGAATCAAAAAAAGT
1 TTAGATACCAAATTAGG-AAAAA-TGTCAAGTTCAAGTACCAAATTGAATCAAAAAAAGT
** * *
20555525 TTAGATACCAAATTAAAAAAAATGTCAACTTCTAGTACCAAAT
1 TTAGATACCAAATTAGGAAAAATGTCAAGTTCAAGTACCAAAT
20555568 ATTATATTAA
Statistics
Matches: 91, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
58 17 0.19
59 22 0.24
60 29 0.32
61 23 0.25
ACGTcount: A:0.49, C:0.13, G:0.13, T:0.25
Consensus pattern (58 bp):
TTAGATACCAAATTAGGAAAAATGTCAAGTTCAAGTACCAAATTGAATCAAAAAAAGT
Found at i:20560929 original size:3 final size:3
Alignment explanation
Indices: 20560921--20560947 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
20560911 GAAGATGTGC
20560921 ATG ATG ATG ATG ATG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG
20560948 CTATAGTTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
ATG
Found at i:20562044 original size:40 final size:40
Alignment explanation
Indices: 20562000--20562099 Score: 175
Period size: 40 Copynumber: 2.5 Consensus size: 40
20561990 AGACCAGAAC
20562000 GACACCCAGTGCCTCATCGGATAGTTCGAAGCAATAAAGT
1 GACACCCAGTGCCTCATCGGATAGTTCGAAGCAATAAAGT
20562040 GACACCCAGTGCCTCATCGGATAGTTCGAAGCAATAAAGT
1 GACACCCAGTGCCTCATCGGATAGTTCGAAGCAATAAAGT
*
20562080 GA-ACACCAGTGTCTCATCGG
1 GACAC-CCAGTGCCTCATCGG
20562100 CCTAGCCGAA
Statistics
Matches: 58, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
39 2 0.03
40 56 0.97
ACGTcount: A:0.31, C:0.26, G:0.23, T:0.20
Consensus pattern (40 bp):
GACACCCAGTGCCTCATCGGATAGTTCGAAGCAATAAAGT
Found at i:20562303 original size:6 final size:6
Alignment explanation
Indices: 20562278--20562326 Score: 57
Period size: 6 Copynumber: 8.5 Consensus size: 6
20562268 ACAATTCATA
* * *
20562278 TCACTT TCAATT CCAATT TCACTT T--CTT TCACTT TCACTT TCACTT
1 TCACTT TCACTT TCACTT TCACTT TCACTT TCACTT TCACTT TCACTT
20562324 TCA
1 TCA
20562327 ATTTTGATCA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
4 4 0.11
6 33 0.89
ACGTcount: A:0.20, C:0.31, G:0.00, T:0.49
Consensus pattern (6 bp):
TCACTT
Found at i:20562306 original size:22 final size:22
Alignment explanation
Indices: 20562281--20562325 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
20562271 ATTCATATCA
20562281 CTTTCAATTCCAATTTCACTTT
1 CTTTCAATTCCAATTTCACTTT
* * *
20562303 CTTTCACTTTCACTTTCACTTT
1 CTTTCAATTCCAATTTCACTTT
20562325 C
1 C
20562326 AATTTTGATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.18, C:0.31, G:0.00, T:0.51
Consensus pattern (22 bp):
CTTTCAATTCCAATTTCACTTT
Found at i:20563747 original size:58 final size:58
Alignment explanation
Indices: 20563705--20563847 Score: 218
Period size: 57 Copynumber: 2.5 Consensus size: 58
20563695 GAAAAATTCA
*
20563705 GGTTTAAAAT-GAATTTTGGAAAGTTTAAGGGTAAAATGGTAATTTTTGGTGAAATTGG
1 GGTTAAAAATGGAATTTTGGAAAGTTTAAGGGTAAAATGGTAA-TTTTGGTGAAATTGG
* **
20563763 GGTTAAAAATGGGATTTTGGAAAG-TTCGGGGTAAAATGGTAATTTTGGTGAAATTGG
1 GGTTAAAAATGGAATTTTGGAAAGTTTAAGGGTAAAATGGTAATTTTGGTGAAATTGG
*
20563820 GGTCAAAAATGGAATTTTGGAAAGTTTA
1 GGTTAAAAATGGAATTTTGGAAAGTTTA
20563848 GGATCGGGGT
Statistics
Matches: 76, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
57 37 0.49
58 27 0.36
59 12 0.16
ACGTcount: A:0.34, C:0.01, G:0.29, T:0.35
Consensus pattern (58 bp):
GGTTAAAAATGGAATTTTGGAAAGTTTAAGGGTAAAATGGTAATTTTGGTGAAATTGG
Found at i:20563901 original size:30 final size:28
Alignment explanation
Indices: 20563710--20563940 Score: 97
Period size: 30 Copynumber: 7.8 Consensus size: 28
20563700 ATTCAGGTTT
* *
20563710 AAAATGAATTTTGGAAAGTTTAAGGGT-
1 AAAAGGAATTTTGGAAAGTTTGAGGGTC
*
20563737 AAAATGGTAATTTTTGGTGAAA--TTG-GGGTTA
1 AAAA-GG-AA-TTTT-G-GAAAGTTTGAGGG-TC
* *
20563768 AAAATGGGATTTTGGAAAGTTCG-GGGT-
1 AAAA-GGAATTTTGGAAAGTTTGAGGGTC
20563795 AAAATGGTAATTTTGGTGAAA--TTG-GGGTC
1 AAAA-GG-AATTTT-G-GAAAGTTTGAGGGTC
*
20563824 AAAAATGGAATTTTGGAAAGTTTAGGATCGGGGTTA
1 -AAAA-GGAATTTTGGAAAGTTT--GA---GGG-TC
*
20563860 AAAATAGAATTTTGGAAAGTTTGAGGGT-
1 AAAA-GGAATTTTGGAAAGTTTGAGGGTC
*
20563888 AAAACGGTAAATTTTTGG-AAGTTTTAGGGTC
1 AAAA-GG--AA-TTTTGGAAAGTTTGAGGGTC
20563919 AAAAGGAATTTTGGAAAGTTTG
1 AAAAGGAATTTTGGAAAGTTTG
20563941 GGACTAGAGA
Statistics
Matches: 164, Mismatches: 12, Indels: 55
0.71 0.05 0.24
Matches are distributed among these distances:
27 25 0.15
28 28 0.17
29 24 0.15
30 37 0.23
31 19 0.12
32 4 0.02
33 2 0.01
35 24 0.15
36 1 0.01
ACGTcount: A:0.35, C:0.02, G:0.29, T:0.33
Consensus pattern (28 bp):
AAAAGGAATTTTGGAAAGTTTGAGGGTC
Found at i:20563934 original size:93 final size:92
Alignment explanation
Indices: 20563761--20563939 Score: 238
Period size: 93 Copynumber: 1.9 Consensus size: 92
20563751 TGGTGAAATT
* * * *
20563761 GGGGTTAAAAATGGGATTTTGGAAAGTTCGGGGTAAAATGGTAATTTTGGTGAAATTGGGGTCAA
1 GGGGTTAAAAATAGAATTTTGGAAAGTTCGGGGTAAAACGGTAATTTTGGTGAAATTAGGGTCAA
20563826 AAATGGAATTTTGGAAAGTTTAGGATC
66 AAATGGAATTTTGGAAAGTTTAGGATC
* * *
20563853 GGGGTTAAAAATAGAATTTTGGAAAGTTTGAGGGTAAAACGGTAAATTTTTG-GAAGTTTTAGGG
1 GGGGTTAAAAATAGAATTTTGGAAAGTTCG-GGGTAAAACGGT-AATTTTGGTGAA--ATTAGGG
20563917 TC-AAAA-GGAATTTTGGAAAGTTT
62 TCAAAAATGGAATTTTGGAAAGTTT
20563940 GGGACTAGAG
Statistics
Matches: 76, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
92 27 0.36
93 31 0.41
94 11 0.14
95 7 0.09
ACGTcount: A:0.34, C:0.03, G:0.31, T:0.32
Consensus pattern (92 bp):
GGGGTTAAAAATAGAATTTTGGAAAGTTCGGGGTAAAACGGTAATTTTGGTGAAATTAGGGTCAA
AAATGGAATTTTGGAAAGTTTAGGATC
Found at i:20565909 original size:16 final size:16
Alignment explanation
Indices: 20565890--20565930 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
20565880 GTTATTTGGC
* *
20565890 ATTTAATTTATTTTAA
1 ATTTAAATTATATTAA
20565906 ATTTAAATTATATTAA
1 ATTTAAATTATATTAA
*
20565922 GTTTAAATT
1 ATTTAAATT
20565931 TTAGAAAAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (16 bp):
ATTTAAATTATATTAA
Found at i:20567001 original size:199 final size:200
Alignment explanation
Indices: 20566287--20567390 Score: 1713
Period size: 200 Copynumber: 5.5 Consensus size: 200
20566277 AGTTCTTTGA
* * *
20566287 CTTCGACCTGCTTCTCA-TGTCTCATCAGGAAGCCGGGTTCGAA-ATTTGCTCACCTTGAGCGTT
1 CTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCGCGTTGAGCGTT
* * *
20566350 GAGTTGGTATTCTTATCTG-ATCTCATCAGGAAGATGACTGCTTCTGTTGTTTTAATTTGCTTCT
66 GAGTTGGTATTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTCTGTTGTTTTAATTTGCTTCT
* * *
20566414 CTGGATCTCCTCAGGAAGAC-AATTTTGGTCCACTTCTCTTTATCTCATCAAGAAGCTAACCATT
131 CTGGATCTCCTCAGGAAGACGAA-TTTGGTCCACTTCTCTGTGTCTCATCAGGAAGCTAACCATT
20566478 TTATTG
195 TTATTG
* * * *
20566484 TTTCGACCTGCTTCTCAGCGTCTCATCAGGAAGCTGGGTTCGAAAATTTGCTCGCATTGAGCGTT
1 CTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCGCGTTGAGCGTT
*
20566549 GAGTTGGTATTCTTCTCTGTATCTCATCAGGAAGATGACCGCATCTGTTGTTTTAATTTGCTTCT
66 GAGTTGGTATTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTCTGTTGTTTTAATTTGCTTCT
* * * * * *
20566614 CTAGATCTCCTCAAGAAGACAAATTTGGCCCACTTCTCTGTATTTCATCAGGAAGCTAACCATTT
131 CTGGATCTCCTCAGGAAGACGAATTTGGTCCACTTCTCTGTGTCTCATCAGGAAGCTAACCATTT
20566679 TATTG
196 TATTG
* * * * *
20566684 TTTCGACCTGCTTCTCAGTGTCTCATCAGGAAACTGGGTTCGAAAATTTGTTCGCATTGAGCGTT
1 CTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCGCGTTGAGCGTT
20566749 GAGTTGGTATTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTCTGTTGTTTTAATTTGCTTCT
66 GAGTTGGTATTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTCTGTTGTTTTAATTTGCTTCT
*
20566814 CTGGATCTCTTCAGGAAGACGAATTTGGTCCACTTCTCTGTGTCTCATCAGGAAGCTAACC-TTT
131 CTGGATCTCCTCAGGAAGACGAATTTGGTCCACTTCTCTGTGTCTCATCAGGAAGCTAACCATTT
20566878 TATTG
196 TATTG
*
20566883 CTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCGCGTTGAGCGTT
1 CTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCGCGTTGAGCGTT
* * *
20566948 GAGTTGGTATTCTTCTCTGTATCTCATCAGGAAGATGACTGCCTC-GCTTGTTTTGATTCGCTTC
66 GAGTTGGTATTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTCTG-TTGTTTTAATTTGCTTC
* *
20567012 TCTGGA-CTCCTCAGGAAGACGAATCTGGTCCACTTCTCTGTGTCTCATCAGGAAGCTAACCTTT
130 TCTGGATCTCCTCAGGAAGACGAATTTGGTCCACTTCTCTGTGTCTCATCAGGAAGCTAACCATT
20567076 TTATTG
195 TTATTG
* *
20567082 CTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCGTGTTGAGCGCT
1 CTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCGCGTTGAGCGTT
* * * *
20567147 GAGTTGGTGTTCTTCTCTGTATCTTATCAGGAAGATGACCGCCTC-GCTTGTTTTGATTCGCTTC
66 GAGTTGGTATTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTCTG-TTGTTTTAATTTGCTTC
* *
20567211 TCTGGATCTCCTCAGGAAGACGAATCTGGTCCACTTCTCTGTGTCTCATCAGGAAGCTAA-CTTT
130 TCTGGATCTCCTCAGGAAGACGAATTTGGTCCACTTCTCTGTGTCTCATCAGGAAGCTAACCATT
20567275 TTATTG
195 TTATTG
* *
20567281 CTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCGTGTTTGAGCGC
1 CTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCGCG-TTGAGCGT
* *
20567346 TGAGTTGGTGTTCTTCTCTGTATCTCATCAGGAAGATTACCGCCT
65 TGAGTTGGTATTCTTCTCTGTATCTCATCAGGAAGATGACCGCCT
20567391 TATCGTTTTG
Statistics
Matches: 855, Mismatches: 44, Indels: 13
0.94 0.05 0.01
Matches are distributed among these distances:
197 16 0.02
198 78 0.09
199 371 0.43
200 388 0.45
201 2 0.00
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (200 bp):
CTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCGCGTTGAGCGTT
GAGTTGGTATTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTCTGTTGTTTTAATTTGCTTCT
CTGGATCTCCTCAGGAAGACGAATTTGGTCCACTTCTCTGTGTCTCATCAGGAAGCTAACCATTT
TATTG
Found at i:20567178 original size:398 final size:398
Alignment explanation
Indices: 20566287--20567388 Score: 1712
Period size: 398 Copynumber: 2.8 Consensus size: 398
20566277 AGTTCTTTGA
* * *
20566287 CTTCGACCTGCTTCTCA-TGTCTCATCAGGAAGCCGGGTTCGAAATTTGCTCACCTTGAGCGTTG
1 CTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAATTTGCTCGCATTGAGCGTTG
* * *
20566351 AGTTGGTATTCTTATCTG-ATCTCATCAGGAAGATGACTGCTTCTGTTGTTTTAATTTGCTTCTC
66 AGTTGGTATTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTCTGTTGTTTTAATTTGCTTCTC
* * *
20566415 TGGATCTCCTCAGGAAGAC-AATTTTGGTCCACTTCTCTTTATCTCATCAAGAAGCTAACCATTT
131 TGGATCTCCTCAGGAAGACGAA-TTTGGTCCACTTCTCTGTGTCTCATCAGGAAGCTAACC-TTT
* * * *
20566479 TATTGTTTCGACCTGCTTCTCAGCGTCTCATCAGGAAGCTGGGTTCGAAAATTTGCTCGCATTGA
194 TATTGCTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCGCGTTGA
*
20566544 GCGTTGAGTTGGTATTCTTCTCTGTATCTCATCAGGAAGATGACCGCATCTGTTGTTTTAATTTG
259 GCGTTGAGTTGGTATTCTTCTCTGTATCTCATCAGGAAGATGACCGCATCTGTTGTTTTAATTCG
* *
20566609 CTTCTCTAGATCTCCTCAAGAAGACAAATTTGGCCCACTTCTCTGTATTTCATCAGGAAGCTAAC
324 CTTCTCTAGATCTCCTCAAGAAGACAAATCTGGCCCACTTCTCTGTATCTCATCAGGAAGCTAAC
20566674 CATTTTATTG
389 CATTTTATTG
* * *
20566684 TTTCGACCTGCTTCTCAGTGTCTCATCAGGAAACTGGGTTCGAAAATTTGTTCGCATTGAGCGTT
1 CTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCG-AAATTTGCTCGCATTGAGCGTT
20566749 GAGTTGGTATTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTCTGTTGTTTTAATTTGCTTCT
65 GAGTTGGTATTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTCTGTTGTTTTAATTTGCTTCT
*
20566814 CTGGATCTCTTCAGGAAGACGAATTTGGTCCACTTCTCTGTGTCTCATCAGGAAGCTAACCTTTT
130 CTGGATCTCCTCAGGAAGACGAATTTGGTCCACTTCTCTGTGTCTCATCAGGAAGCTAACCTTTT
*
20566879 ATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCGCGTTGAG
195 ATTGCTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCGCGTTGAG
* * *
20566944 CGTTGAGTTGGTATTCTTCTCTGTATCTCATCAGGAAGATGACTGCCTC-GCTTGTTTTGATTCG
260 CGTTGAGTTGGTATTCTTCTCTGTATCTCATCAGGAAGATGACCGCATCTG-TTGTTTTAATTCG
* * * * *
20567008 CTTCTCTGGA-CTCCTCAGGAAGACGAATCTGGTCCACTTCTCTGTGTCTCATCAGGAAGCTAAC
324 CTTCTCTAGATCTCCTCAAGAAGACAAATCTGGCCCACTTCTCTGTATCTCATCAGGAAGCTAAC
*
20567072 CTTTTTATTG
389 CATTTTATTG
** *
20567082 CTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCGTGTTGAGCGCT
1 CTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAA-ATTTGCTCGCATTGAGCGTT
* * * *
20567147 GAGTTGGTGTTCTTCTCTGTATCTTATCAGGAAGATGACCGCCTC-GCTTGTTTTGATTCGCTTC
65 GAGTTGGTATTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTCTG-TTGTTTTAATTTGCTTC
* *
20567211 TCTGGATCTCCTCAGGAAGACGAATCTGGTCCACTTCTCTGTGTCTCATCAGGAAGCTAACTTTT
129 TCTGGATCTCCTCAGGAAGACGAATTTGGTCCACTTCTCTGTGTCTCATCAGGAAGCTAACCTTT
*
20567276 TATTGCTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCGTGTTTG
194 TATTGCTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCGCG-TTG
* * *
20567341 AGCGCTGAGTTGGTGTTCTTCTCTGTATCTCATCAGGAAGATTACCGC
258 AGCGTTGAGTTGGTATTCTTCTCTGTATCTCATCAGGAAGATGACCGC
20567389 CTTATCGTTT
Statistics
Matches: 648, Mismatches: 49, Indels: 14
0.91 0.07 0.02
Matches are distributed among these distances:
397 19 0.03
398 315 0.49
399 215 0.33
400 97 0.15
401 2 0.00
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (398 bp):
CTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAATTTGCTCGCATTGAGCGTTG
AGTTGGTATTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTCTGTTGTTTTAATTTGCTTCTC
TGGATCTCCTCAGGAAGACGAATTTGGTCCACTTCTCTGTGTCTCATCAGGAAGCTAACCTTTTA
TTGCTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCGCGTTGAGC
GTTGAGTTGGTATTCTTCTCTGTATCTCATCAGGAAGATGACCGCATCTGTTGTTTTAATTCGCT
TCTCTAGATCTCCTCAAGAAGACAAATCTGGCCCACTTCTCTGTATCTCATCAGGAAGCTAACCA
TTTTATTG
Found at i:20579539 original size:28 final size:29
Alignment explanation
Indices: 20579507--20579606 Score: 77
Period size: 29 Copynumber: 3.5 Consensus size: 29
20579497 AATTCGAGGT
20579507 TAAAAATGG-AATTTGGAAAGTTTAAGGG
1 TAAAAATGGTAATTTGGAAAGTTTAAGGG
**
20579535 T-AAAATGGTAATTTTGGTGAAA---TCGGGG
1 TAAAAATGGTAA-TTT-G-GAAAGTTTAAGGG
* * *
20579563 TTAAAATGAG-ATTTTGGAAAGTTTGAGGG
1 TAAAAATG-GTAATTTGGAAAGTTTAAGGG
20579592 TAAAAATGGTAATTT
1 TAAAAATGGTAATTT
20579607 TTGGTGAAAT
Statistics
Matches: 55, Mismatches: 7, Indels: 19
0.68 0.09 0.23
Matches are distributed among these distances:
26 4 0.07
27 8 0.15
28 12 0.22
29 25 0.45
30 2 0.04
31 4 0.07
ACGTcount: A:0.38, C:0.01, G:0.28, T:0.33
Consensus pattern (29 bp):
TAAAAATGGTAATTTGGAAAGTTTAAGGG
Found at i:20579567 original size:29 final size:28
Alignment explanation
Indices: 20579535--20579695 Score: 116
Period size: 29 Copynumber: 5.5 Consensus size: 28
20579525 AGTTTAAGGG
20579535 TAAAATGGTAATTTTGGTGAAATCGGGGT
1 TAAAATGG-AATTTTGGTGAAATCGGGGT
*
20579564 TAAAAT-GAGATTTT-G-GAAAGTTTGAGGGT
1 TAAAATGGA-ATTTTGGTGAAA--TCG-GGGT
* *
20579593 AAAAATGGTAATTTTTGGTGAAATCGAGGT
1 TAAAATGG-AA-TTTTGGTGAAATCGGGGT
* *
20579623 TAAAAATGGGATTTT-G-GAAAGTTCGGGGG
1 T-AAAATGGAATTTTGGTGAAA--TCGGGGT
*
20579652 TAAAATGGTAATTTTGGGTGAAATCAGGGT
1 TAAAATGG-AATTTT-GGTGAAATCGGGGT
*
20579682 CAAAATGGAATTTT
1 TAAAATGGAATTTT
20579696 AGAAAGCTTG
Statistics
Matches: 104, Mismatches: 12, Indels: 32
0.70 0.08 0.22
Matches are distributed among these distances:
26 4 0.04
27 6 0.06
28 16 0.15
29 36 0.35
30 18 0.17
31 15 0.14
32 5 0.05
33 4 0.04
ACGTcount: A:0.34, C:0.03, G:0.30, T:0.33
Consensus pattern (28 bp):
TAAAATGGAATTTTGGTGAAATCGGGGT
Found at i:20579626 original size:59 final size:58
Alignment explanation
Indices: 20579500--20579767 Score: 314
Period size: 59 Copynumber: 4.6 Consensus size: 58
20579490 TCGAGAAAAT
* *
20579500 TCGAGGTTAAAAATGGAATTTGGAAAGTTTAAGGGTAAAATGGTAA-TTTTGGTGAAA
1 TCGAGGTTAAAAATGGATTTTGGAAAGTTTGAGGGTAAAATGGTAATTTTTGGTGAAA
*
20579557 TCGGGGTT-AAAATGAGATTTTGGAAAGTTTGAGGGTAAAAATGGTAATTTTTGGTGAAA
1 TCGAGGTTAAAAATG-GATTTTGGAAAGTTTGAGGGT-AAAATGGTAATTTTTGGTGAAA
* * *
20579616 TCGAGGTTAAAAATGGGATTTTGGAAAGTTCGGGGGTAAAATGGTAATTTTGGGTGAAA
1 TCGAGGTTAAAAAT-GGATTTTGGAAAGTTTGAGGGTAAAATGGTAATTTTTGGTGAAA
* * * * * *
20579675 TC-AGGGTCAAAATGGAATTTTAGAAAGCTTGGGGGTAAAATGGTAATTTTT-G-GAAGTT
1 TCGAGGTTAAAAATGG-ATTTTGGAAAGTTTGAGGGTAAAATGGTAATTTTTGGTGAA--A
*
20579733 TCGAGGTCAAAAATGGAATTTTGGAAAGTTT-AGGG
1 TCGAGGTTAAAAATGG-ATTTTGGAAAGTTTGAGGG
20579768 ACTAGAGAGT
Statistics
Matches: 182, Mismatches: 20, Indels: 17
0.83 0.09 0.08
Matches are distributed among these distances:
56 9 0.05
57 29 0.16
58 55 0.30
59 64 0.35
60 24 0.13
61 1 0.01
ACGTcount: A:0.34, C:0.03, G:0.31, T:0.32
Consensus pattern (58 bp):
TCGAGGTTAAAAATGGATTTTGGAAAGTTTGAGGGTAAAATGGTAATTTTTGGTGAAA
Done.