Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01010885.1 Corchorus capsularis cultivar CVL-1 contig10906, whole genome shotgun sequence
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: 89961
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Found at i:15759 original size:18 final size:17
Alignment explanation
Indices: 15738--15773 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
15728 ACTTTTCTTG
15738 TTTTTC-TTTCTCTTTTT
1 TTTTTCGTTTCT-TTTTT
15755 TTTTTCGTTTCTTTTTT
1 TTTTTCGTTTCTTTTTT
15772 TT
1 TT
15774 AATGCCATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.00, C:0.14, G:0.03, T:0.83
Consensus pattern (17 bp):
TTTTTCGTTTCTTTTTT
Found at i:15767 original size:16 final size:17
Alignment explanation
Indices: 15738--15773 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
15728 ACTTTTCTTG
*
15738 TTTTTCTTTCTCTTTTT
1 TTTTTCGTTCTCTTTTT
15755 TTTTTCGTT-TCTTTTT
1 TTTTTCGTTCTCTTTTT
15771 TTT
1 TTT
15774 AATGCCATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.00, C:0.14, G:0.03, T:0.83
Consensus pattern (17 bp):
TTTTTCGTTCTCTTTTT
Found at i:19040 original size:105 final size:103
Alignment explanation
Indices: 18852--19046 Score: 223
Period size: 105 Copynumber: 1.9 Consensus size: 103
18842 TGAGCATATA
*
18852 TATTTTATTTCTAAAACCCTATAACAATATTATTAATTATGGAATTTACCCTTAAAATGAAAATA
1 TATTTTATTTCTAAAACCCTATAACAATATTATTAATTATGAAATTTACCCTTAAAAT--AAATA
* * ***
18917 AAATTTTAATTTGGGGCTAAACTTAGTGAATTTAGTTTTG
64 AAATTTGAAATAAAGGCTAAACTTAGTGAATTTAGTTTTG
* * *
18957 TATTTTATTTCTAAAGCCCTATAACAATAAATTATTAATTTTGAAATTTACCCTTAAACT-AA-A
1 TATTTTATTTCTAAAACCCTATAACAAT--ATTATTAATTATGAAATTTACCCTTAAAATAAATA
* *
19020 AACTTAGTGAAATAAAGGCTAGACTTA
64 AAATT--TGAAATAAAGGCTAAACTTA
19047 ATAAAAAAAT
Statistics
Matches: 75, Mismatches: 11, Indels: 8
0.80 0.12 0.09
Matches are distributed among these distances:
103 5 0.07
104 2 0.03
105 41 0.55
107 27 0.36
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.39
Consensus pattern (103 bp):
TATTTTATTTCTAAAACCCTATAACAATATTATTAATTATGAAATTTACCCTTAAAATAAATAAA
ATTTGAAATAAAGGCTAAACTTAGTGAATTTAGTTTTG
Found at i:21376 original size:32 final size:35
Alignment explanation
Indices: 21314--21383 Score: 110
Period size: 32 Copynumber: 2.1 Consensus size: 35
21304 TCCAGCTGGT
21314 TAAACTATTATATGAGGATTGAGGATGAAATAAAG
1 TAAACTATTATATGAGGATTGAGGATGAAATAAAG
*
21349 TAAACTA-T-TATGA-GATTTAGGATGAAATAAAG
1 TAAACTATTATATGAGGATTGAGGATGAAATAAAG
21381 TAA
1 TAA
21384 CATTGCATAA
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
32 21 0.62
33 5 0.15
34 1 0.03
35 7 0.21
ACGTcount: A:0.47, C:0.03, G:0.20, T:0.30
Consensus pattern (35 bp):
TAAACTATTATATGAGGATTGAGGATGAAATAAAG
Found at i:21791 original size:3 final size:3
Alignment explanation
Indices: 21783--21810 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
21773 AAATTAGATT
21783 GAG GAG GAG GAG GAG GAG GAG GAG GAG G
1 GAG GAG GAG GAG GAG GAG GAG GAG GAG G
21811 CGCCGATATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.68, T:0.00
Consensus pattern (3 bp):
GAG
Found at i:21881 original size:33 final size:33
Alignment explanation
Indices: 21844--21930 Score: 120
Period size: 33 Copynumber: 2.6 Consensus size: 33
21834 TTGCTGGTGG
* *
21844 TGGTGACCCTGCTGCTGGTGCCGGTGCTAATTC
1 TGGTGACCCTGGTGCTGGTGCCGGGGCTAATTC
* * * *
21877 TGGTGACCCTGGTGCAGGCGCTGGGGCTGATTC
1 TGGTGACCCTGGTGCTGGTGCCGGGGCTAATTC
21910 TGGTGACCCTGGTGCTGGTGC
1 TGGTGACCCTGGTGCTGGTGC
21931 AGGAGAAACC
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.08, C:0.25, G:0.39, T:0.28
Consensus pattern (33 bp):
TGGTGACCCTGGTGCTGGTGCCGGGGCTAATTC
Found at i:22991 original size:2 final size:2
Alignment explanation
Indices: 22984--23013 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
22974 GCAAGTAGGC
22984 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
23014 CAGTAATTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:35111 original size:10 final size:11
Alignment explanation
Indices: 35077--35111 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
35067 TTTGTTTGAT
*
35077 AAAGTAAAAAA
1 AAAGAAAAAAA
*
35088 AAGGAAAAAAA
1 AAAGAAAAAAA
35099 AAAGAAAAAAA
1 AAAGAAAAAAA
35110 AA
1 AA
35112 TCATAACTCT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.86, C:0.00, G:0.11, T:0.03
Consensus pattern (11 bp):
AAAGAAAAAAA
Found at i:35976 original size:3 final size:3
Alignment explanation
Indices: 35968--35993 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
35958 TAGGTTTCTT
35968 TGG TGG TGG TGG TGG TGG TGG TGG TG
1 TGG TGG TGG TGG TGG TGG TGG TGG TG
35994 CTGGGAGGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.65, T:0.35
Consensus pattern (3 bp):
TGG
Found at i:38426 original size:8 final size:8
Alignment explanation
Indices: 38415--38450 Score: 72
Period size: 8 Copynumber: 4.5 Consensus size: 8
38405 AAAAAGGAGA
38415 AAAAGGGG
1 AAAAGGGG
38423 AAAAGGGG
1 AAAAGGGG
38431 AAAAGGGG
1 AAAAGGGG
38439 AAAAGGGG
1 AAAAGGGG
38447 AAAA
1 AAAA
38451 AAGAAAGAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.56, C:0.00, G:0.44, T:0.00
Consensus pattern (8 bp):
AAAAGGGG
Found at i:52116 original size:2 final size:2
Alignment explanation
Indices: 52064--52099 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
52054 ACAAATAAAG
52064 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
52100 GTGGATAGTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:54838 original size:17 final size:17
Alignment explanation
Indices: 54816--54851 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
54806 GTCAGTACTT
*
54816 AAAAAGAAATAAGAAAA
1 AAAAAGAAAAAAGAAAA
54833 AAAAAGAAAAAAGAAAA
1 AAAAAGAAAAAAGAAAA
54850 AA
1 AA
54852 TTTATTATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.86, C:0.00, G:0.11, T:0.03
Consensus pattern (17 bp):
AAAAAGAAAAAAGAAAA
Found at i:55148 original size:15 final size:16
Alignment explanation
Indices: 55119--55157 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
55109 TCGTGTTTTT
*
55119 AGAGAGAGA-AAGAGA
1 AGAGAGAAAGAAGAGA
55134 A-AGAGAAAGAAGAGA
1 AGAGAGAAAGAAGAGA
55149 AGAGAGAAA
1 AGAGAGAAA
55158 AGCTTCTTCG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 6 0.29
15 8 0.38
16 7 0.33
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (16 bp):
AGAGAGAAAGAAGAGA
Found at i:59688 original size:15 final size:15
Alignment explanation
Indices: 59670--59710 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
59660 TGATGAAGTT
59670 GAAAGAGATGAGGTG
1 GAAAGAGATGAGGTG
* *
59685 GAAAGAGATGATGTT
1 GAAAGAGATGAGGTG
59700 GAAAGAGATGA
1 GAAAGAGATGA
59711 AGACTCTGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.44, C:0.00, G:0.39, T:0.17
Consensus pattern (15 bp):
GAAAGAGATGAGGTG
Found at i:62580 original size:2 final size:2
Alignment explanation
Indices: 62575--62604 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
62565 GACCATCAGT
62575 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
62605 TATATATATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:65253 original size:19 final size:19
Alignment explanation
Indices: 65229--65266 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
65219 TTATTACTAA
65229 TCTGATTCTTTGAATTAAG
1 TCTGATTCTTTGAATTAAG
65248 TCTGATTCTTTGAATTAAG
1 TCTGATTCTTTGAATTAAG
65267 GACAAACCAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.11, G:0.16, T:0.47
Consensus pattern (19 bp):
TCTGATTCTTTGAATTAAG
Found at i:66151 original size:36 final size:35
Alignment explanation
Indices: 66102--66170 Score: 129
Period size: 36 Copynumber: 1.9 Consensus size: 35
66092 AGGTTATCCT
66102 AAAAAAAAAACTAGATTATAGGCAAAATCTCAAAA
1 AAAAAAAAAACTAGATTATAGGCAAAATCTCAAAA
66137 AAAAAAAAACACTAGATTATAGGCAAAATCTCAA
1 AAAAAAAAA-ACTAGATTATAGGCAAAATCTCAA
66171 TTTTTAGTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 9 0.27
36 24 0.73
ACGTcount: A:0.61, C:0.13, G:0.09, T:0.17
Consensus pattern (35 bp):
AAAAAAAAAACTAGATTATAGGCAAAATCTCAAAA
Found at i:78418 original size:21 final size:21
Alignment explanation
Indices: 78394--78447 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
78384 GGAAAAAGGC
78394 AAAAAGCATTCTAAAGTCATT
1 AAAAAGCATTCTAAAGTCATT
*
78415 AAAAAGCATTCTGAAGTCATT
1 AAAAAGCATTCTAAAGTCATT
78436 AAAAAGCATTCT
1 AAAAAGCATTCT
78448 TTTTAAAGCT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.46, C:0.15, G:0.11, T:0.28
Consensus pattern (21 bp):
AAAAAGCATTCTAAAGTCATT
Found at i:82872 original size:217 final size:216
Alignment explanation
Indices: 82497--82930 Score: 739
Period size: 217 Copynumber: 2.0 Consensus size: 216
82487 TGCTTGTCAT
82497 TGATTGTGCTTGTTGTTTCTTGTGAATCATGTCACCATTTGCTTGTTGCTGATTTCCTTTTCTGC
1 TGATTGTGCTTGTTGTTTCTTGTGAATCATGTCACCATTTGCTTGTTGCTGATTTCCTTTTCTGC
82562 TTTTGGTGATTGCCTGATTGTGACCTTTCTGTTTTGCAGTTCTCTCTGTTGCTGTTGTCTCTCTA
66 TTTTGGTGATTGCCTGATTGTGACCTTTCTGTTTTGCAGTTCTCTCTGTTGCTGTTGTCTCTCTA
* *
82627 TTGGTGTAGTTGGCTTGATTTCCTTCCATTTGGAGCTTTTTTTATGAAGGTGAACTACTTGTCAC
131 TTGGTGTAGTTGGCTTGATTTCCTTCCATTCGGAGCTTTTTTCATGAAGGTGAACTACTTGTCAC
*
82692 ACTGCTCCTCTCTCTCTCTCCC
196 ACTGCT-CTCTCTCTCTCCCCC
* *
82714 TGATTGTG-TTGGTTGTTTCTTGTGAATCGTGTCGCCATTTGCTTGTTGCTGATTTCCTTTTCTG
1 TGATTGTGCTT-GTTGTTTCTTGTGAATCATGTCACCATTTGCTTGTTGCTGATTTCCTTTTCTG
* * *
82778 CTTTTGGTGATTGCTTGATTGTGTCTTTTTCTGTTTTGCAGTTCTCTCTGTTGCTGTTGTCTCTC
65 CTTTTGGTGATTGCCTGATTGTGAC-CTTTCTGTTTTGCAGTTCTCTCTGTTGCTGTTGTCTCTC
82843 TATTGGTG-AGTTGG-TTAGATTTCCTTCCATTCGGAGCTTTTTTCATGAAGGTGAACTACTTGT
129 TATTGGTGTAGTTGGCTT-GATTTCCTTCCATTCGGAGCTTTTTTCATGAAGGTGAACTACTTGT
82906 CACACTGCTCTCTCTCTCTCCCCC
193 CACACTGCTCTCTCTCTCTCCCCC
82930 T
1 T
82931 CTCTCGCCCT
Statistics
Matches: 206, Mismatches: 8, Indels: 7
0.93 0.04 0.03
Matches are distributed among these distances:
216 19 0.09
217 141 0.68
218 46 0.22
ACGTcount: A:0.11, C:0.21, G:0.21, T:0.48
Consensus pattern (216 bp):
TGATTGTGCTTGTTGTTTCTTGTGAATCATGTCACCATTTGCTTGTTGCTGATTTCCTTTTCTGC
TTTTGGTGATTGCCTGATTGTGACCTTTCTGTTTTGCAGTTCTCTCTGTTGCTGTTGTCTCTCTA
TTGGTGTAGTTGGCTTGATTTCCTTCCATTCGGAGCTTTTTTCATGAAGGTGAACTACTTGTCAC
ACTGCTCTCTCTCTCTCCCCC
Found at i:83171 original size:146 final size:143
Alignment explanation
Indices: 82960--83226 Score: 489
Period size: 146 Copynumber: 1.8 Consensus size: 143
82950 TCTCGCTCGG
82960 TCTCTCTAATTTTCCCCCAGGATATTCTTGTGGCAACGAGGAGCGTGGAATGTTCAAAATGGAAG
1 TCTCTCTAATTTTCCCCCAGGATATTCTTGTGGCAACGAGGAGCGTGGAATGTTCAAAATGGAAG
83025 CTGCTACTTCTAATGGGGTATGGACCACCACTGTGTCTTCTTGTTTACCTTCGTGTGTCCTCTCT
66 CTGCTACTTCTAATGGGGTATGGACCACCAC--TGTCTTCTTGTTTACCTTCGTGTGTCCTCTCT
83090 CTCTCTTTCTCTCTC
129 CTCTCTTTCTCTCTC
*
83105 TCTCTCTAATATTTTCCCCAGGATATTCTTGTGGCAACGAGGAGCGTGGAATGTTCAAAATGGAA
1 TCTCTCTAAT-TTTCCCCCAGGATATTCTTGTGGCAACGAGGAGCGTGGAATGTTCAAAATGGAA
*
83170 GCTGCTACTTCTAATGGGGTATGGAGCACCACTGTCTTCTTGTTTACCTTCGTGTGT
65 GCTGCTACTTCTAATGGGGTATGGACCACCACTGTCTTCTTGTTTACCTTCGTGTGT
83227 GTCGTGTCCG
Statistics
Matches: 119, Mismatches: 2, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
144 25 0.21
145 10 0.08
146 84 0.71
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.36
Consensus pattern (143 bp):
TCTCTCTAATTTTCCCCCAGGATATTCTTGTGGCAACGAGGAGCGTGGAATGTTCAAAATGGAAG
CTGCTACTTCTAATGGGGTATGGACCACCACTGTCTTCTTGTTTACCTTCGTGTGTCCTCTCTCT
CTCTTTCTCTCTC
Found at i:83350 original size:86 final size:86
Alignment explanation
Indices: 83201--83378 Score: 277
Period size: 86 Copynumber: 2.1 Consensus size: 86
83191 TGGAGCACCA
* * *
83201 CTGT-CTTCTTGTTTACCTTCGTGTGTGTCGTGTCCGCGAGCCTCGTAGTCGGCGGCCGTTTTGA
1 CTGTCCTTCTCGTGTACCTTCGTGTGTGTCGTGTCCGCGAGCCTCGCAGTCGGCGGCCGTTTTGA
* *
83265 GAGCCTCACTGTTGAGAGCCG
66 GAGCCTCACTGCTCAGAGCCG
* * *
83286 CTGTCCTTCTCGTGTACCTTCGTGTGTGTTGTGTCTGCGAGCCTCGCAGTTGGCGGCCGTTTTGA
1 CTGTCCTTCTCGTGTACCTTCGTGTGTGTCGTGTCCGCGAGCCTCGCAGTCGGCGGCCGTTTTGA
83351 GAGCCTCACTGCTCAGAGCCG
66 GAGCCTCACTGCTCAGAGCCG
83372 CTGTCCT
1 CTGTCCT
83379 CGTGCACCTC
Statistics
Matches: 84, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
85 4 0.05
86 80 0.95
ACGTcount: A:0.09, C:0.29, G:0.30, T:0.33
Consensus pattern (86 bp):
CTGTCCTTCTCGTGTACCTTCGTGTGTGTCGTGTCCGCGAGCCTCGCAGTCGGCGGCCGTTTTGA
GAGCCTCACTGCTCAGAGCCG
Found at i:83424 original size:17 final size:17
Alignment explanation
Indices: 83398--83446 Score: 73
Period size: 17 Copynumber: 2.9 Consensus size: 17
83388 CCATGTCCAT
83398 TCGA-AGCTGGAAATGG
1 TCGACAGCTGGAAATGG
*
83414 TCGGCAGCTGGAAATGG
1 TCGACAGCTGGAAATGG
*
83431 TCGACAGCTGAAAATG
1 TCGACAGCTGGAAATG
83447 AAGTAAGTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
16 3 0.10
17 26 0.90
ACGTcount: A:0.31, C:0.16, G:0.35, T:0.18
Consensus pattern (17 bp):
TCGACAGCTGGAAATGG
Found at i:84503 original size:1 final size:1
Alignment explanation
Indices: 84497--84523 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
84487 TCTTGTATTC
84497 TTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTT
84524 CTACACCAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:85392 original size:334 final size:334
Alignment explanation
Indices: 84748--86156 Score: 2364
Period size: 334 Copynumber: 4.2 Consensus size: 334
84738 GCTGAGATTT
* * *
84748 GATTTCGGCAAAAATTTTGCAAAATCTGAATCC--AATTTTTTTT-CTCAATTCTT-GGCCACAA
1 GATTTCGGCTAAAATTTTGCAAAATCTG-ACCCGAAATTTTTTTTCCTCAATTATTCGG-CACAA
*
84809 T-ACTCATAAAGAATATATAATTCAACACCAAAAAGATTTAAGGGCTTTTCATGCTTAAAATATG
64 TAAC-CATAAGGAATATATAATTCAACACCAAAAAGATTTAAGGGCTTTTCATGCTTAAAATATG
* * *
84873 GTTATTCTTATTCTTTTCAAAATTAATTTCTGATTAAATCGAACCAGGATTCAGATGCTCGTAAA
128 GTTATTCCTATTCTTTTCCAAATTAATTTCTGATTAAATCGAAACAGGATTCAGATGCTCGTAAA
* ** * *
84938 AACATATCCTTAAATCCAATGTGCCTGAGATTTGATTAGATAAATATAGATATTTCAAGGAGTCT
193 AACATATCCTTAAATCCCATGTGGATGAGATTTGATTAGATAAATATTGATATTTCAAGGACTCT
* * *
85003 CGGCGCCAAAAATCATGTAAAACTGAG-CGGCGGGCCCGAAACGCGTTTTAAGCCAAAATCTGTG
258 CGGCGCCAAAAATCATGTAAAACTGAGCCGG-GGGCCCGGAACGCGTTTTAAGCCAAAAACCGTG
85067 ATGGTTAGTACAC
322 ATGGTTAGTACAC
*
85080 GATTTCGGCTAATATTTTGCAAAATCTGACCCGAAATTTTTTTTCCTCAATTATTCGGCACAATA
1 GATTTCGGCTAAAATTTTGCAAAATCTGACCCGAAATTTTTTTTCCTCAATTATTCGGCACAATA
* ** * ** *
85145 ACCACAAGGAATATATAATTCAATGCCTAAAAGATTTAAGAACTTTTCATGCTTAAAATCTGGTT
66 ACCATAAGGAATATATAATTCAACACCAAAAAGATTTAAGGGCTTTTCATGCTTAAAATATGGTT
*
85210 ATTCCTATTCTTTTCCAAATTAATTTCTGATTAAACCGAAACAGGATTCAGATGCTCGTAAAAAC
131 ATTCCTATTCTTTTCCAAATTAATTTCTGATTAAATCGAAACAGGATTCAGATGCTCGTAAAAAC
85275 ATATCCTTAAATCCCATGTGGATGAGATTTGATTAGATAAATATTGATATTTCAAGGACTCTCGG
196 ATATCCTTAAATCCCATGTGGATGAGATTTGATTAGATAAATATTGATATTTCAAGGACTCTCGG
85340 CGCCAAAAATCATGTAAAACTGAGCCGGGGGCCCGGAACGCGTTTTAAGCCAAAAACCGTGATGG
261 CGCCAAAAATCATGTAAAACTGAGCCGGGGGCCCGGAACGCGTTTTAAGCCAAAAACCGTGATGG
85405 TTAGTACAC
326 TTAGTACAC
*
85414 GATTTCGGCTAAAATTTTGCAAAATCTGACCCGAAAATTTTTTTCCTCAATTATTCGGCACAATA
1 GATTTCGGCTAAAATTTTGCAAAATCTGACCCGAAATTTTTTTTCCTCAATTATTCGGCACAATA
*
85479 GCCATAAGGAATATATAATTCAACACCAAAAAGATTTAAGGGCTTTTCATGCTTAAAATATGGTT
66 ACCATAAGGAATATATAATTCAACACCAAAAAGATTTAAGGGCTTTTCATGCTTAAAATATGGTT
* *
85544 ATTCCTATTCTTTTCTAAATTAATTTCTGATTAAATCGAAATAGGATTCAGATGCTCGTAAAAAC
131 ATTCCTATTCTTTTCCAAATTAATTTCTGATTAAATCGAAACAGGATTCAGATGCTCGTAAAAAC
85609 ATATCCTTAAATCCCATGTGGATGAGATTTGATTAGATAAATATTGATATTTCAAGGACTCTCGG
196 ATATCCTTAAATCCCATGTGGATGAGATTTGATTAGATAAATATTGATATTTCAAGGACTCTCGG
*
85674 CGCCAAAAATCATGTAAAACTGAGCCGGAGGCCCGGAACGCGTTTTAAGCCAAAAACCGTGATGG
261 CGCCAAAAATCATGTAAAACTGAGCCGGGGGCCCGGAACGCGTTTTAAGCCAAAAACCGTGATGG
85739 TTAGTACAC
326 TTAGTACAC
85748 GATTTCGGCTAAAATTTTGCAAAATCTGACCCGAAA-TTTTTTTCCTCAATTATTCGGCACAATA
1 GATTTCGGCTAAAATTTTGCAAAATCTGACCCGAAATTTTTTTTCCTCAATTATTCGGCACAATA
* *
85812 ACCATAAGGAATATATAATTCAACGCCTAAAAGATTTAAGGGCTTTTCATGCTTAAAATATGGTT
66 ACCATAAGGAATATATAATTCAACACCAAAAAGATTTAAGGGCTTTTCATGCTTAAAATATGGTT
*
85877 ATTCCTATTCTTTTCCAAATTAATTTCTGATTAAATCGAAACAGGATTTAGATGCTCGTAAAAAC
131 ATTCCTATTCTTTTCCAAATTAATTTCTGATTAAATCGAAACAGGATTCAGATGCTCGTAAAAAC
* * * * * *
85942 AAATCCTTAAATCCGACGTGGCTGAGATTTGATTAGATAAATATTGATGTTTCAAGGAGTCTCGG
196 ATATCCTTAAATCCCATGTGGATGAGATTTGATTAGATAAATATTGATATTTCAAGGACTCTCGG
*
86007 CGCCAAAAATCATGTAAAACTGAGCCGGGGGCTCGGAACGCGTTTTAAGCCAAAAACCGTGATGG
261 CGCCAAAAATCATGTAAAACTGAGCCGGGGGCCCGGAACGCGTTTTAAGCCAAAAACCGTGATGG
86072 TTAGTACAC
326 TTAGTACAC
* *
86081 GATTTCGGCTAAAATTTTGCAAAATATGACCCGAAGTTTTTTTTCCTCAATTATTCGGCACAATA
1 GATTTCGGCTAAAATTTTGCAAAATCTGACCCGAAATTTTTTTTCCTCAATTATTCGGCACAATA
86146 ACCATAAGGAA
66 ACCATAAGGAA
86157 AATCATGTAA
Statistics
Matches: 1016, Mismatches: 54, Indels: 12
0.94 0.05 0.01
Matches are distributed among these distances:
331 3 0.00
332 26 0.03
333 327 0.32
334 653 0.64
335 7 0.01
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.31
Consensus pattern (334 bp):
GATTTCGGCTAAAATTTTGCAAAATCTGACCCGAAATTTTTTTTCCTCAATTATTCGGCACAATA
ACCATAAGGAATATATAATTCAACACCAAAAAGATTTAAGGGCTTTTCATGCTTAAAATATGGTT
ATTCCTATTCTTTTCCAAATTAATTTCTGATTAAATCGAAACAGGATTCAGATGCTCGTAAAAAC
ATATCCTTAAATCCCATGTGGATGAGATTTGATTAGATAAATATTGATATTTCAAGGACTCTCGG
CGCCAAAAATCATGTAAAACTGAGCCGGGGGCCCGGAACGCGTTTTAAGCCAAAAACCGTGATGG
TTAGTACAC
Found at i:86057 original size:667 final size:665
Alignment explanation
Indices: 84748--86156 Score: 2326
Period size: 667 Copynumber: 2.1 Consensus size: 665
84738 GCTGAGATTT
* * * *
84748 GATTTCGGCAAAAATTTTGCAAAATCTGAATCC---AATTTTTTTTCTCAATTCTTGGCCACAAT
1 GATTTCGGCTAAAATTTTGCAAAATCTG-ACCCGAAAATTTTTTTCCTCAATTATTGGCCACAAT
*
84810 -ACTCATAAAGAATATATAATTCAACACCAAAAAGATTTAAGGGCTTTTCATGCTTAAAATATGG
65 AAC-CATAAGGAATATATAATTCAACACCAAAAAGATTTAAGGGCTTTTCATGCTTAAAATATGG
* * *
84874 TTATTCTTATTCTTTTCAAAATTAATTTCTGATTAAATCGAACCAGGATTCAGATGCTCGTAAAA
129 TTATTCCTATTCTTTTCCAAATTAATTTCTGATTAAATCGAAACAGGATTCAGATGCTCGTAAAA
** *
84939 ACATATCCTTAAATCCAATGTGCCTGAGATTTGATTAGATAAATATAGATATTTCAAGGAGTCTC
194 ACATATCCTTAAATCCAATGTGGATGAGATTTGATTAGATAAATATTGATATTTCAAGGAGTCTC
* * * *
85004 GGCGCCAAAAATCATGTAAAACTGAGCGGCGGGCCCGAAACGCGTTTTAAGCCAAAATCTGTGAT
259 GGCGCCAAAAATCATGTAAAACTGAGCCG-GGGCCCGGAACGCGTTTTAAGCCAAAAACCGTGAT
*
85069 GGTTAGTACACGATTTCGGCTAATATTTTGCAAAATCTGACCCGAAATTTTTTTTCCTCAATTAT
323 GGTTAGTACACGATTTCGGCTAAAATTTTGCAAAATCTGACCCGAAA-TTTTTTTCCTCAATTAT
* * * **
85134 TCGGCACAATAACCACAAGGAATATATAATTCAATGCCTAAAAGATTTAAGAACTTTTCATGCTT
387 TCGGCACAATAACCATAAGGAATATATAATTCAACGCCAAAAAGATTTAAGGGCTTTTCATGCTT
* * *
85199 AAAATCTGGTTATTCCTATTCTTTTCCAAATTAATTTCTGATTAAACCGAAACAGGATTCAGATG
452 AAAATATGGTTATTCCTATTCTTTTCCAAATTAATTTCTGATTAAATCGAAATAGGATTCAGATG
85264 CTCGTAAAAACATATCCTTAAATCCCATGTGGATGAGATTTGATTAGATAAATATTGATATTTCA
517 CTCGTAAAAACATATCCTTAAAT-CCATGTGGATGAGATTTGATTAGATAAATATTGATATTTCA
*
85329 AGGACTCTCGGCGCCAAAAATCATGTAAAACTGAGCCGGGGGCCCGGAACGCGTTTTAAGCCAAA
581 AGGAGTCTCGGCGCCAAAAATCATGTAAAACTGAGCCGGGGGCCCGGAACGCGTTTTAAGCCAAA
85394 AACCGTGATGGTTAGTACAC
646 AACCGTGATGGTTAGTACAC
85414 GATTTCGGCTAAAATTTTGCAAAATCTGACCCGAAAATTTTTTTCCTCAATTATTCGG-CACAAT
1 GATTTCGGCTAAAATTTTGCAAAATCTGACCCGAAAATTTTTTTCCTCAATTATT-GGCCACAAT
*
85478 AGCCATAAGGAATATATAATTCAACACCAAAAAGATTTAAGGGCTTTTCATGCTTAAAATATGGT
65 AACCATAAGGAATATATAATTCAACACCAAAAAGATTTAAGGGCTTTTCATGCTTAAAATATGGT
* *
85543 TATTCCTATTCTTTTCTAAATTAATTTCTGATTAAATCGAAATAGGATTCAGATGCTCGTAAAAA
130 TATTCCTATTCTTTTCCAAATTAATTTCTGATTAAATCGAAACAGGATTCAGATGCTCGTAAAAA
* *
85608 CATATCCTTAAATCCCATGTGGATGAGATTTGATTAGATAAATATTGATATTTCAAGGACTCTCG
195 CATATCCTTAAATCCAATGTGGATGAGATTTGATTAGATAAATATTGATATTTCAAGGAGTCTCG
85673 GCGCCAAAAATCATGTAAAACTGAGCCGGAGGCCCGGAACGCGTTTTAAGCCAAAAACCGTGATG
260 GCGCCAAAAATCATGTAAAACTGAGCCGG-GGCCCGGAACGCGTTTTAAGCCAAAAACCGTGATG
85738 GTTAGTACACGATTTCGGCTAAAATTTTGCAAAATCTGACCCGAAATTTTTTTCCTCAATTATTC
324 GTTAGTACACGATTTCGGCTAAAATTTTGCAAAATCTGACCCGAAATTTTTTTCCTCAATTATTC
*
85803 GGCACAATAACCATAAGGAATATATAATTCAACGCCTAAAAGATTTAAGGGCTTTTCATGCTTAA
389 GGCACAATAACCATAAGGAATATATAATTCAACGCCAAAAAGATTTAAGGGCTTTTCATGCTTAA
* *
85868 AATATGGTTATTCCTATTCTTTTCCAAATTAATTTCTGATTAAATCGAAACAGGATTTAGATGCT
454 AATATGGTTATTCCTATTCTTTTCCAAATTAATTTCTGATTAAATCGAAATAGGATTCAGATGCT
* * * *
85933 CGTAAAAACAAATCCTTAAATCCGACGTGGCTGAGATTTGATTAGATAAATATTGATGTTTCAAG
519 CGTAAAAACATATCCTTAAATCC-ATGTGGATGAGATTTGATTAGATAAATATTGATATTTCAAG
*
85998 GAGTCTCGGCGCCAAAAATCATGTAAAACTGAGCCGGGGGCTCGGAACGCGTTTTAAGCCAAAAA
583 GAGTCTCGGCGCCAAAAATCATGTAAAACTGAGCCGGGGGCCCGGAACGCGTTTTAAGCCAAAAA
86063 CCGTGATGGTTAGTACAC
648 CCGTGATGGTTAGTACAC
* **
86081 GATTTCGGCTAAAATTTTGCAAAATATGACCCGAAGTTTTTTTTCCTCAATTATTCGG-CACAAT
1 GATTTCGGCTAAAATTTTGCAAAATCTGACCCGAAAATTTTTTTCCTCAATTATT-GGCCACAAT
86145 AACCATAAGGAA
65 AACCATAAGGAA
86157 AATCATGTAA
Statistics
Matches: 699, Mismatches: 37, Indels: 13
0.93 0.05 0.02
Matches are distributed among these distances:
665 3 0.00
666 29 0.04
667 354 0.51
668 310 0.44
669 3 0.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.31
Consensus pattern (665 bp):
GATTTCGGCTAAAATTTTGCAAAATCTGACCCGAAAATTTTTTTCCTCAATTATTGGCCACAATA
ACCATAAGGAATATATAATTCAACACCAAAAAGATTTAAGGGCTTTTCATGCTTAAAATATGGTT
ATTCCTATTCTTTTCCAAATTAATTTCTGATTAAATCGAAACAGGATTCAGATGCTCGTAAAAAC
ATATCCTTAAATCCAATGTGGATGAGATTTGATTAGATAAATATTGATATTTCAAGGAGTCTCGG
CGCCAAAAATCATGTAAAACTGAGCCGGGGCCCGGAACGCGTTTTAAGCCAAAAACCGTGATGGT
TAGTACACGATTTCGGCTAAAATTTTGCAAAATCTGACCCGAAATTTTTTTCCTCAATTATTCGG
CACAATAACCATAAGGAATATATAATTCAACGCCAAAAAGATTTAAGGGCTTTTCATGCTTAAAA
TATGGTTATTCCTATTCTTTTCCAAATTAATTTCTGATTAAATCGAAATAGGATTCAGATGCTCG
TAAAAACATATCCTTAAATCCATGTGGATGAGATTTGATTAGATAAATATTGATATTTCAAGGAG
TCTCGGCGCCAAAAATCATGTAAAACTGAGCCGGGGGCCCGGAACGCGTTTTAAGCCAAAAACCG
TGATGGTTAGTACAC
Found at i:86289 original size:143 final size:143
Alignment explanation
Indices: 86012--86299 Score: 436
Period size: 143 Copynumber: 2.0 Consensus size: 143
86002 CTCGGCGCCA
* * *
86012 AAAATCATGTAAAACTGAGCCGGGGGCTCGGAACGCGTTTTAAGCCAAAAACCGTGATGGTTAGT
1 AAAATCATGTAAAACTAAGCCGGGGCCCCGGAACGCGTTTTAAGCCAAAAACCGTGATGGTTAGT
* *
86077 ACACGATTTCGGCTAAAATTTTGCAAAATATGACCCGAAGTTTTTTTTCCTCAATTATTCGGCAC
66 ACACGATTTCGGCTAAAATTTTGCAAAATATAACCCGAAGATTTTTTTCCTCAATTATTCGGCAC
86142 AATAACCATAAGG
131 AATAACCATAAGG
* * *
86155 AAAATCATGTAAAACTAAGTCGGGGCCCCGGAACGCGATTTTCAGCCAGAAACCGTGATGGTTAG
1 AAAATCATGTAAAACTAAGCCGGGGCCCCGGAACGCG-TTTTAAGCCAAAAACCGTGATGGTTAG
* * * *
86220 TACATGATTTCGGCTAATATTTTGCAAAATCTAACCTGAA-ATTTTTTTCCTCAATTATT-GGCC
65 TACACGATTTCGGCTAAAATTTTGCAAAATATAACCCGAAGATTTTTTTCCTCAATTATTCGG-C
86283 ACAATAACCATAAGG
129 ACAATAACCATAAGG
86298 AA
1 AA
86300 TATATAATTC
Statistics
Matches: 131, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
142 2 0.02
143 69 0.53
144 60 0.46
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (143 bp):
AAAATCATGTAAAACTAAGCCGGGGCCCCGGAACGCGTTTTAAGCCAAAAACCGTGATGGTTAGT
ACACGATTTCGGCTAAAATTTTGCAAAATATAACCCGAAGATTTTTTTCCTCAATTATTCGGCAC
AATAACCATAAGG
Found at i:86621 original size:477 final size:476
Alignment explanation
Indices: 85679--86633 Score: 1655
Period size: 477 Copynumber: 2.0 Consensus size: 476
85669 CTCGGCGCCA
*
85679 AAAATCATGTAAAACTGAGCCGGAGGCCCGGAACGCGTTTTAAGCCAAAAACCGTGATGGTTAGT
1 AAAATCATGTAAAACTAAGCCGGAGGCCCGGAACGCGTTTTAAGCCAAAAACCGTGATGGTTAGT
*
85744 ACACGATTTCGGCTAAAATTTTGCAAAATCTGACCCGAAATTTTTTTCCTCAATTATTCGGCACA
66 ACACGATTTCGGCTAAAATTTTGCAAAATCTAACCCGAAATTTTTTTCCTCAATTATTCGGCACA
85809 ATAACCATAAGGAATATATAATTCAACGCCTAAAAGATTTAAGGGCTTTTCATGCTTAAAATATG
131 ATAACCATAAGGAATATATAATTCAACGCCTAAAAGATTTAAGGGCTTTTCATGCTTAAAATATG
*
85874 GTTATTCCTATTCTTTTCCAAATTAATTTCTGATTAAATCGAAACAGGATTTAGATGCTCGTAAA
196 GTTATTCCTATTCTTTTCCAAATTAATTTCTGATTAAATCAAAACAGGATTTAGATGCTCGTAAA
* * * *
85939 AACAAATCCTTAAATCCGACGTGGCTGAGATTTGATTAGATAAATATTGATGTTTCAAGGAGTCT
261 AACAAATCCTTAAATCCCACGTGGATGAGATTTGATTAGATAAATATTGATATTTCAAGGACTCT
*
86004 CGGCGCCAAAAATCATGTAAAACTGAGCCGGGGGCTCGGAACGCGTTTTAAGCCAAAAACCGTGA
326 CGGCGCCAAAAATCATGTAAAACTGAGCCGGGGGCCCGGAACGCGTTTTAAGCCAAAAACCGTGA
* * *
86069 TGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAATATGACCCGAAGTTTTTTTTCCTCAATTA
391 TGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAATATAACCCGAAATTTTTTTTCCTCAAATA
86134 TTCGGCACAATAACCATAAGG
456 TTCGGCACAATAACCATAAGG
* * *
86155 AAAATCATGTAAAACTAAGTCGG-GGCCCCGGAACGCGATTTTCAGCCAGAAACCGTGATGGTTA
1 AAAATCATGTAAAACTAAGCCGGAGG-CCCGGAACGCG-TTTTAAGCCAAAAACCGTGATGGTTA
* * *
86219 GTACATGATTTCGGCTAATATTTTGCAAAATCTAACCTGAAATTTTTTTCCTCAATTATT-GGCC
64 GTACACGATTTCGGCTAAAATTTTGCAAAATCTAACCCGAAATTTTTTTCCTCAATTATTCGG-C
86283 ACAATAACCATAAGGAATATATAATTCAACGCCTAAAAGATTTAAGGGCTTTTCATGCTTAAAAT
128 ACAATAACCATAAGGAATATATAATTCAACGCCTAAAAGATTTAAGGGCTTTTCATGCTTAAAAT
86348 ATGGTTATTCCTATTCTTTTCCAAATTAATTTCTGATTAAATCAAAACAGGATTTAGATGCTCGT
193 ATGGTTATTCCTATTCTTTTCCAAATTAATTTCTGATTAAATCAAAACAGGATTTAGATGCTCGT
* * *
86413 AAAAACATATCCTTAAATCCCATGTGGATGAGATTTGATTAGTTAAATATTGATATTTCAAGGAC
258 AAAAACAAATCCTTAAATCCCACGTGGATGAGATTTGATTAGATAAATATTGATATTTCAAGGAC
86478 TCTCGGCGCCAAAAATCATGTAAAACTGAGCCGGGGGCCCGGAACGCGTTTTAAGCCAAAAACCG
323 TCTCGGCGCCAAAAATCATGTAAAACTGAGCCGGGGGCCCGGAACGCGTTTTAAGCCAAAAACCG
*
86543 TGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAATCTAACCCGAAA-TTTTTTTCTCTCA
388 TGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAATATAACCCGAAATTTTTTTTC-CTCA
*
86607 AATATTCGGCACAATAGCCATAAGG
452 AATATTCGGCACAATAACCATAAGG
86632 AA
1 AA
86634 TATATAATTC
Statistics
Matches: 453, Mismatches: 22, Indels: 7
0.94 0.05 0.01
Matches are distributed among these distances:
475 2 0.00
476 42 0.09
477 409 0.90
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.30
Consensus pattern (476 bp):
AAAATCATGTAAAACTAAGCCGGAGGCCCGGAACGCGTTTTAAGCCAAAAACCGTGATGGTTAGT
ACACGATTTCGGCTAAAATTTTGCAAAATCTAACCCGAAATTTTTTTCCTCAATTATTCGGCACA
ATAACCATAAGGAATATATAATTCAACGCCTAAAAGATTTAAGGGCTTTTCATGCTTAAAATATG
GTTATTCCTATTCTTTTCCAAATTAATTTCTGATTAAATCAAAACAGGATTTAGATGCTCGTAAA
AACAAATCCTTAAATCCCACGTGGATGAGATTTGATTAGATAAATATTGATATTTCAAGGACTCT
CGGCGCCAAAAATCATGTAAAACTGAGCCGGGGGCCCGGAACGCGTTTTAAGCCAAAAACCGTGA
TGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAATATAACCCGAAATTTTTTTTCCTCAAATA
TTCGGCACAATAACCATAAGG
Found at i:86764 original size:334 final size:333
Alignment explanation
Indices: 86155--89905 Score: 5598
Period size: 334 Copynumber: 11.3 Consensus size: 333
86145 AACCATAAGG
* * * * *
86155 AAAATCATGTAAAACTAAGTCGGGGCCCCGGAACGCGATTTTCAGCCAGAAACCGTGATGGTTAG
1 AAAATCATGTAAAACTGAGCCGGGGGCCCGGAACGCG-TTTTAAGCCAAAAACCGTGATGGTTAG
* * * *
86220 TACATGATTTCGGCTAATATTTTGCAAAATCTAACCTGAAATTTTTTTCCTCAATTATTGGCCAC
65 TACACGATTTCGGCTAAAATTTTGCAAAATCTGACCCGAAATTTTTTTCCTCAATTATTGGCCAC
*
86285 AATAACCATAAGGAATATATAATTCAACGCCTAAAAGATTTAAGGGCTTTTCATGCTTAAAATAT
130 AATAACCATAAGGAATATATAATTCAACGCCAAAAAGATTTAAGGGCTTTTCATGCTTAAAATAT
* *
86350 GGTTATTCCTATTCTTTTCCAAATTAATTTCTGATTAAATCAAAACAGGATTTAGATGCTCGTAA
195 GGTTATTCCTATTCTTTTCCAAATTAATTTCTGATTAAATCGAAACAGGATTCAGATGCTCGTAA
* *
86415 AAACATATCCTTAAATCCCATGTGGATGAGATTTGATTAGTTAAATATTGATATTTCAAGGACTC
260 AAACATATCCTTAAATCCCATGTGGATGAGATTTGATTAGATAAATATTGATATTTCAAGGAGTC
86480 TCGGCGCCA
325 TCGGCGCCA
86489 AAAATCATGTAAAACTGAGCCGGGGGCCCGGAACGCGTTTTAAGCCAAAAACCGTGATGGTTAGT
1 AAAATCATGTAAAACTGAGCCGGGGGCCCGGAACGCGTTTTAAGCCAAAAACCGTGATGGTTAGT
* *
86554 ACACGATTTCGGCTAAAATTTTGCAAAATCTAACCCGAAATTTTTTTCTCTCAAATATTCGG-CA
66 ACACGATTTCGGCTAAAATTTTGCAAAATCTGACCCGAAATTTTTTTC-CTCAATTATT-GGCCA
* * *
86618 CAATAGCCATAAGGAATATATAATTCAACACCAAAAAGATTTAAGGTCTTTTCATGCTTAAAATA
129 CAATAACCATAAGGAATATATAATTCAACGCCAAAAAGATTTAAGGGCTTTTCATGCTTAAAATA
*
86683 TGGTTATTCCTATTCTTTTCCAAATTAATTTCTAATTAAATCGAAACAGGATTCAGATGCTCGTA
194 TGGTTATTCCTATTCTTTTCCAAATTAATTTCTGATTAAATCGAAACAGGATTCAGATGCTCGTA
* * *
86748 AAAACATATCCTTAAATCCCATGTGGATGAAATTTGATTAGATAAATATTGATATCTCAAGGAAT
259 AAAACATATCCTTAAATCCCATGTGGATGAGATTTGATTAGATAAATATTGATATTTCAAGGAGT
86813 CTCGGCGCCA
324 CTCGGCGCCA
* **
86823 AAAATCATGTAAAACTGAGCCGGGGGCCCGAAACGCGTTTTAAAACAAAAACCGTGATGGTTAGT
1 AAAATCATGTAAAACTGAGCCGGGGGCCCGGAACGCGTTTTAAGCCAAAAACCGTGATGGTTAGT
86888 ACACGATTTCGGCTAAAATTTTGCAAAATCTGACCCGAAATTTTTTTTCCTCAATTATTCGG-CA
66 ACACGATTTCGGCTAAAATTTTGCAAAATCTGACCCGAAA-TTTTTTTCCTCAATTATT-GGCCA
86952 CAATAACCATAAGGAATATATAATTCAACGCCAAAAAGATTTAAGGGCTTTTCATGCTTAAAATA
129 CAATAACCATAAGGAATATATAATTCAACGCCAAAAAGATTTAAGGGCTTTTCATGCTTAAAATA
* *
87017 TGGTTATTCCTAATCTATTCCAAATTAATTTCTGATTAAATCGAAACAGGATTCAGATGCTCGTA
194 TGGTTATTCCTATTCTTTTCCAAATTAATTTCTGATTAAATCGAAACAGGATTCAGATGCTCGTA
* * *
87082 AAAACATATCCTTAATTCCAATGTGGATGAGATTTGATTAGATAAATATTGATATTTCGAGGAGT
259 AAAACATATCCTTAAATCCCATGTGGATGAGATTTGATTAGATAAATATTGATATTTCAAGGAGT
*
87147 CTCGGCGCCG
324 CTCGGCGCCA
* * * ** * *
87157 AAAATCATGTAAATCTAAGTCGGGTCCCCGGAACGCGATTTTCAGCCAGAAACCGTGATGGTTAG
1 AAAATCATGTAAAACTGAGCCGGGGGCCCGGAACGCG-TTTTAAGCCAAAAACCGTGATGGTTAG
* * * *
87222 TACATGATTTCGGCTAATATTTTGCAAAATCTAACCTGAAATTTTTTTTCCTCAATTATTGGCCA
65 TACACGATTTCGGCTAAAATTTTGCAAAATCTGACCCGAAA-TTTTTTTCCTCAATTATTGGCCA
* * * * * *
87287 CAATAACAATAAGGAATATATAATTCAACACCAAAAAGATTGAAGGCCTTTTCGTGGTTAAAATA
129 CAATAACCATAAGGAATATATAATTCAACGCCAAAAAGATTTAAGGGCTTTTCATGCTTAAAATA
* *
87352 TGGTTATTCCTATTCTTTTACAAATTAATTTCTGATTAAATCGAAATAGGATTCAGAT--TC-T-
194 TGGTTATTCCTATTCTTTTCCAAATTAATTTCTGATTAAATCGAAACAGGATTCAGATGCTCGTA
* **
87413 ----CGTA---TTAAAT-CCATGTGGATGAGATTTGATTAGATAAATATTGATATTTCGTGGAGT
259 AAAACATATCCTTAAATCCCATGTGGATGAGATTTGATTAGATAAATATTGATATTTCAAGGAGT
** **
87470 CTCTACGCGG
324 CTCGGCGCCA
* * * * *
87480 AAAATCATGTAAAACTAAGTCGGGGCCCCGGAACGCGATTTTCAGCCAGAAACCGTGATGGTTAG
1 AAAATCATGTAAAACTGAGCCGGGGGCCCGGAACGCG-TTTTAAGCCAAAAACCGTGATGGTTAG
* * *
87545 TACATGATTTCGGCTAATATTTTGCAAAATCTGACCTGAAATTTTTTTCCTCAATTATTGGCCAC
65 TACACGATTTCGGCTAAAATTTTGCAAAATCTGACCCGAAATTTTTTTCCTCAATTATTGGCCAC
* * *
87610 AATAACCATAAGGAATATATAATTCAACACCAAAAAGATTGAAGGCCTTTTCATGCTTAAAATAT
130 AATAACCATAAGGAATATATAATTCAACGCCAAAAAGATTTAAGGGCTTTTCATGCTTAAAATAT
*
87675 GGTTATTCCTATTCTTTTCCAAATTAATTTCTGATTAAATCGAAATAGGATTCAGATGCTCGTAA
195 GGTTATTCCTATTCTTTTCCAAATTAATTTCTGATTAAATCGAAACAGGATTCAGATGCTCGTAA
*
87740 AAACATATCCTTAAATCCCATGTGGATGAGATTTGATTAGATAAATATTGATATTTCTAGGAGTC
260 AAACATATCCTTAAATCCCATGTGGATGAGATTTGATTAGATAAATATTGATATTTCAAGGAGTC
*
87805 TCGACGCCA
325 TCGGCGCCA
* *
87814 AAAATCATGTAAAACTGAGCCGGGGTCCCGGAACGCGTTTTAAGCCAAAAACCATGATGGTTAGT
1 AAAATCATGTAAAACTGAGCCGGGGGCCCGGAACGCGTTTTAAGCCAAAAACCGTGATGGTTAGT
* *
87879 ACACGATTTCGGCTAAAATTTTGCAAAATCTGACCCAAAATTTTTTACCTCAATTATTCGG-CAC
66 ACACGATTTCGGCTAAAATTTTGCAAAATCTGACCCGAAATTTTTTTCCTCAATTATT-GGCCAC
*
87943 AATAACCATAAGGAATATATAATTCATCGCCAAAAAGATTTAAGGGCTTTTCATGCTTAAAATAT
130 AATAACCATAAGGAATATATAATTCAACGCCAAAAAGATTTAAGGGCTTTTCATGCTTAAAATAT
*
88008 GGTTATTCCTATTCTTTTCCAAATTAATTTCTGATTAAATCGAAATAGGATTCAGATGCTCGTAA
195 GGTTATTCCTATTCTTTTCCAAATTAATTTCTGATTAAATCGAAACAGGATTCAGATGCTCGTAA
88073 AAACATATCCTTAAATCCCATGTGGATGAGATTTGATTAGATAAATATTGATATTTCAAGGAGTC
260 AAACATATCCTTAAATCCCATGTGGATGAGATTTGATTAGATAAATATTGATATTTCAAGGAGTC
88138 TCGGCGCCA
325 TCGGCGCCA
*
88147 AAAATCATGTAAAACTGAGCCGGGGGTCCTGGAACGCGTTTTAAGCCAAAAACCGTGATGGTTAG
1 AAAATCATGTAAAACTGAGCCGGGGG-CCCGGAACGCGTTTTAAGCCAAAAACCGTGATGGTTAG
88212 TACACGATTTCGGCTAAAATTTTGCAAAATCTGACCCGAAATTTTTTTTCCTCAATTATTGGCCA
65 TACACGATTTCGGCTAAAATTTTGCAAAATCTGACCCGAAA-TTTTTTTCCTCAATTATTGGCCA
88277 CAAT-ACCATAAGGAATATATAATTCAACGCCAAAAAGATTTAAGGGCTTTTCATGCTTAAAATA
129 CAATAACCATAAGGAATATATAATTCAACGCCAAAAAGATTTAAGGGCTTTTCATGCTTAAAATA
*
88341 TGGTTATTCCTATTCTTTTCTAAATTAATTTCTGATTAAATCGAAACAGGATTCAGATGCTCGTA
194 TGGTTATTCCTATTCTTTTCCAAATTAATTTCTGATTAAATCGAAACAGGATTCAGATGCTCGTA
* *
88406 AAAACATATCCTTAATTCCAATGTGGATGAGATTTGATTAGATAAATATTGATATTTCAAGGAGT
259 AAAACATATCCTTAAATCCCATGTGGATGAGATTTGATTAGATAAATATTGATATTTCAAGGAGT
88471 CTCGGCGCCA
324 CTCGGCGCCA
*
88481 AAAATCATGTAAAACTGAGCCGGTGGCCCGGAACGCGTTTTAAGCCAAAAACCGTGATGGTTAGT
1 AAAATCATGTAAAACTGAGCCGGGGGCCCGGAACGCGTTTTAAGCCAAAAACCGTGATGGTTAGT
*
88546 ACACGATTTCGGCTAAAATTTTGCAAAATCAGACCCGAAATTTTTTTCCTCAATTATTCGG-CAC
66 ACACGATTTCGGCTAAAATTTTGCAAAATCTGACCCGAAATTTTTTTCCTCAATTATT-GGCCAC
* *
88610 AATAGCCATAAGGAATATATAATTCAACACCAAAAAGATTTAAGGGCTTTTCATGCTTAAAATAT
130 AATAACCATAAGGAATATATAATTCAACGCCAAAAAGATTTAAGGGCTTTTCATGCTTAAAATAT
* * * *
88675 GGTTATTCCTATTCTTTTCTAAATTAATTTCTGATTAAATCGAAATAGGATTTAGATACTCGTAA
195 GGTTATTCCTATTCTTTTCCAAATTAATTTCTGATTAAATCGAAACAGGATTCAGATGCTCGTAA
* ** *
88740 AAACATATCCTTAGAT-CCATGTAAATGAGATTTGATTAGATAAATATTGATATTTCGAGGAGTC
260 AAACATATCCTTAAATCCCATGTGGATGAGATTTGATTAGATAAATATTGATATTTCAAGGAGTC
* *
88804 TCGACGCCG
325 TCGGCGCCA
* * * * * * *
88813 AAAATCATGTAAAACTAAGTCGGGGTCCCGGAACGCGTTTTTCAGCTAGAAACCGTGATGGTTAA
1 AAAATCATGTAAAACTGAGCCGGGGGCCCGGAACGCG-TTTTAAGCCAAAAACCGTGATGGTTAG
* *
88878 TACACGATTTCGGCTAAAATTTTGCAAAATCTGACCCGAAAATTTTTTTCCCCCAACTATTGGCC
65 TACACGATTTCGGCTAAAATTTTGCAAAATCTGACCCG-AAATTTTTTT-CCTCAATTATTGGCC
* * * * *
88943 ACAATAACCATAAGGAATATATAATTCAACACCAAAAAGATCTAACGGTTTTTCATGTTTAAAAT
128 ACAATAACCATAAGGAATATATAATTCAACGCCAAAAAGATTTAAGGGCTTTTCATGCTTAAAAT
* * * *
89008 ATTGTTATTCCTATTCTTTTCCAAATTAATTTCTGATTCAATCGAAACAGCATTAAGATGCTCGT
193 ATGGTTATTCCTATTCTTTTCCAAATTAATTTCTGATTAAATCGAAACAGGATTCAGATGCTCGT
* * *
89073 AAAAACATATCCTTAAATCCAATGTGAATGAGATTTGACTAGATAAATATTGATATTTCAAGGAG
258 AAAAACATATCCTTAAATCCCATGTGGATGAGATTTGATTAGATAAATATTGATATTTCAAGGAG
*
89138 TCTCGGTGCCA
323 TCTCGGCGCCA
* * * *
89149 AAAATCATGTAAAATTGAGCCAGGGGCGCGGAACGCGTTTTAAGCCAAAAATCGTGATGGTTAGT
1 AAAATCATGTAAAACTGAGCCGGGGGCCCGGAACGCGTTTTAAGCCAAAAACCGTGATGGTTAGT
* * * *
89214 ACACGATTTCGGCTAAAATATTGCAAAATCTGTCCCGAAAATTTTTTTCCTCAATTCTTGGCCAT
66 ACACGATTTCGGCTAAAATTTTGCAAAATCTGACCCG-AAATTTTTTTCCTCAATTATTGGCCAC
* ** * * *
89279 AAT-A-CTTAAAAAAAGTATATAATTCATCGCCAAAAATATCTAAGGGCTTTTCATGCTTAAAAT
130 AATAACCAT-AAGGAA-TATATAATTCAACGCCAAAAAGATTTAAGGGCTTTTCATGCTTAAAAT
* *
89342 ATGGTTATTCCTCTTCTTTTCCAAATTAATTTCTAATTAAATCGAAACAGGATTCAGATGCTCGT
193 ATGGTTATTCCTATTCTTTTCCAAATTAATTTCTGATTAAATCGAAACAGGATTCAGATGCTCGT
* * *
89407 AAAAAGATATCCTTAATTCCAATGTGGATGAGATTTGATTAGATAAATATTGATATTTCAAGGAG
258 AAAAACATATCCTTAAATCCCATGTGGATGAGATTTGATTAGATAAATATTGATATTTCAAGGAG
*
89472 TCTCGGTGCCA
323 TCTCGGCGCCA
* * * *
89483 AAAATCATGTAAAATTGAGCCGGGGGCGCGGAACGCGTTTTAAGCCAGAAACCGTGATGGTTCGT
1 AAAATCATGTAAAACTGAGCCGGGGGCCCGGAACGCGTTTTAAGCCAAAAACCGTGATGGTTAGT
* * * *
89548 ACACGATTTCAGCTAAAATATTGCAAAATCTGTCCCGAAAATTTTGTTTTCCTCAATTCTTGGCC
66 ACACGATTTCGGCTAAAATTTTGCAAAATCTGACCCG-AAA-TTT-TTTTCCTCAATTATTGGCC
* ** * *
89613 ATAAT-ACTCA-AAAAAAGTATATAATTCATCGCCAAATAG-TTCTAAGGGCTTTTCATGCTTAA
128 ACAATAAC-CATAAGGAA-TATATAATTCAACGCCAAAAAGATT-TAAGGGCTTTTCATGCTTAA
* *
89675 AATATGGTTATTCCTATTCTTTTCCAAATTAATTTCTAATTAAATCGAAACAGAATTCAGATGCT
190 AATATGGTTATTCCTATTCTTTTCCAAATTAATTTCTGATTAAATCGAAACAGGATTCAGATGCT
* *
89740 CGTAAAAACATATCCTTAAATCCCATGTGGATGAGATTTTATTAGATAAATATTGATATTTCGAG
255 CGTAAAAACATATCCTTAAATCCCATGTGGATGAGATTTGATTAGATAAATATTGATATTTCAAG
*
89805 GAGTCTCGGCGCCG
320 GAGTCTCGGCGCCA
* * * * * *
89819 AAAATCATGTAAAACTAAGTC-GGGGCCTTGGAATGCGTTTTTCAGCCAGAAACCGTGA-----A
1 AAAATCATGTAAAACTGAGCCGGGGGCC-CGGAACGCG-TTTTAAGCCAAAAACCGTGATGGTTA
*
89878 GTACACTATTTCGGCTAAAATTTTGCAA
64 GTACACGATTTCGGCTAAAATTTTGCAA
89906 GGAGTCTCGG
Statistics
Matches: 3159, Mismatches: 221, Indels: 76
0.91 0.06 0.02
Matches are distributed among these distances:
322 142 0.04
323 155 0.05
324 7 0.00
325 1 0.00
327 3 0.00
330 3 0.00
332 136 0.04
333 662 0.21
334 1267 0.40
335 450 0.14
336 313 0.10
337 19 0.01
338 1 0.00
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.32
Consensus pattern (333 bp):
AAAATCATGTAAAACTGAGCCGGGGGCCCGGAACGCGTTTTAAGCCAAAAACCGTGATGGTTAGT
ACACGATTTCGGCTAAAATTTTGCAAAATCTGACCCGAAATTTTTTTCCTCAATTATTGGCCACA
ATAACCATAAGGAATATATAATTCAACGCCAAAAAGATTTAAGGGCTTTTCATGCTTAAAATATG
GTTATTCCTATTCTTTTCCAAATTAATTTCTGATTAAATCGAAACAGGATTCAGATGCTCGTAAA
AACATATCCTTAAATCCCATGTGGATGAGATTTGATTAGATAAATATTGATATTTCAAGGAGTCT
CGGCGCCA
Found at i:86949 original size:811 final size:810
Alignment explanation
Indices: 85345--86967 Score: 2845
Period size: 811 Copynumber: 2.0 Consensus size: 810
85335 CTCGGCGCCA
* *
85345 AAAATCATGTAAAACTGAGCCGGGGGCCCGGAACGCGTTTTAAGCCAAAAACCGTGATGGTTAGT
1 AAAATCATGTAAAACTAAGCCGGGGCCCCGGAACGCGTTTTAAGCCAAAAACCGTGATGGTTAGT
*
85410 ACACGATTTCGGCTAAAATTTTGCAAAATCTGACCCGAAAATTTTTTTCCTCAATTATTCGGCAC
66 ACACGATTTCGGCTAAAATTTTGCAAAATCTAACCCGAAAATTTTTTTCCTCAATTATTCGGCAC
*
85475 AATAGCCATAAGGAATATATAATTCAACACCAAAAAGATTTAAGGGCTTTTCATGCTTAAAATAT
131 AATAACCATAAGGAATATATAATTCAACACCAAAAAGATTTAAGGGCTTTTCATGCTTAAAATAT
* * *
85540 GGTTATTCCTATTCTTTTCTAAATTAATTTCTGATTAAATCGAAATAGGATTCAGATGCTCGTAA
196 GGTTATTCCTATTCTTTTCCAAATTAATTTCTGATTAAATCAAAACAGGATTCAGATGCTCGTAA
85605 AAACATATCCTTAAATCCCATGTGGATGAGATTTGATTAGATAAATATTGATATTTCAAGGACTC
261 AAACATATCCTTAAATCCCATGTGGATGAGATTTGATTAGATAAATATTGATATTTCAAGGACTC
85670 TCGGCGCCAAAAATCATGTAAAACTGAGCCGGAGGCCCGGAACGCGTTTTAAGCCAAAAACCGTG
326 TCGGCGCCAAAAATCATGTAAAACTGAGCCGGAGGCCCGGAACGCGTTTTAAGCCAAAAACCGTG
* *
85735 ATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAATCTGACCCGAAATTTTTTTCCTCAATTA
391 ATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAATCTAACCCGAAATTTTTTTCCTCAAATA
* *
85800 TTCGGCACAATAACCATAAGGAATATATAATTCAACGCCTAAAAGATTTAAGGGCTTTTCATGCT
456 TTCGGCACAATAACCATAAGGAATATATAATTCAACACCAAAAAGATTTAAGGGCTTTTCATGCT
* *
85865 TAAAATATGGTTATTCCTATTCTTTTCCAAATTAATTTCTGATTAAATCGAAACAGGATTTAGAT
521 TAAAATATGGTTATTCCTATTCTTTTCCAAATTAATTTCTAATTAAATCGAAACAGGATTCAGAT
* * * * *
85930 GCTCGTAAAAACAAATCCTTAAATCCGACGTGGCTGAGATTTGATTAGATAAATATTGATGTTTC
586 GCTCGTAAAAACAAATCCTTAAATCCCACGTGGATGAAATTTGATTAGATAAATATTGATATCTC
* * * **
85995 AAGGAGTCTCGGCGCCAAAAATCATGTAAAACTGAGCCGGGGGCTCGGAACGCGTTTTAAGCCAA
651 AAGGAATCTCGGCGCCAAAAATCATGTAAAACTGAGCCGGGGGCCCGAAACGCGTTTTAAAACAA
*
86060 AAACCGTGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAATATGACCCGAAGTTTTTTTT
716 AAACCGTGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAATATGACCCGAAATTTTTTTT
86125 CCTCAATTATTCGGCACAATAACCATAAGG
781 CCTCAATTATTCGGCACAATAACCATAAGG
* * *
86155 AAAATCATGTAAAACTAAGTCGGGGCCCCGGAACGCGATTTTCAGCCAGAAACCGTGATGGTTAG
1 AAAATCATGTAAAACTAAGCCGGGGCCCCGGAACGCG-TTTTAAGCCAAAAACCGTGATGGTTAG
* * *
86220 TACATGATTTCGGCTAATATTTTGCAAAATCTAACCTG-AAATTTTTTTCCTCAATTATT-GGCC
65 TACACGATTTCGGCTAAAATTTTGCAAAATCTAACCCGAAAATTTTTTTCCTCAATTATTCGG-C
* *
86283 ACAATAACCATAAGGAATATATAATTCAACGCCTAAAAGATTTAAGGGCTTTTCATGCTTAAAAT
129 ACAATAACCATAAGGAATATATAATTCAACACCAAAAAGATTTAAGGGCTTTTCATGCTTAAAAT
*
86348 ATGGTTATTCCTATTCTTTTCCAAATTAATTTCTGATTAAATCAAAACAGGATTTAGATGCTCGT
194 ATGGTTATTCCTATTCTTTTCCAAATTAATTTCTGATTAAATCAAAACAGGATTCAGATGCTCGT
*
86413 AAAAACATATCCTTAAATCCCATGTGGATGAGATTTGATTAGTTAAATATTGATATTTCAAGGAC
259 AAAAACATATCCTTAAATCCCATGTGGATGAGATTTGATTAGATAAATATTGATATTTCAAGGAC
*
86478 TCTCGGCGCCAAAAATCATGTAAAACTGAGCCGGGGGCCCGGAACGCGTTTTAAGCCAAAAACCG
324 TCTCGGCGCCAAAAATCATGTAAAACTGAGCCGGAGGCCCGGAACGCGTTTTAAGCCAAAAACCG
86543 TGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAATCTAACCCGAAATTTTTTTCTCTCAA
389 TGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAATCTAACCCGAAATTTTTTTC-CTCAA
* *
86608 ATATTCGGCACAATAGCCATAAGGAATATATAATTCAACACCAAAAAGATTTAAGGTCTTTTCAT
453 ATATTCGGCACAATAACCATAAGGAATATATAATTCAACACCAAAAAGATTTAAGGGCTTTTCAT
86673 GCTTAAAATATGGTTATTCCTATTCTTTTCCAAATTAATTTCTAATTAAATCGAAACAGGATTCA
518 GCTTAAAATATGGTTATTCCTATTCTTTTCCAAATTAATTTCTAATTAAATCGAAACAGGATTCA
* *
86738 GATGCTCGTAAAAACATATCCTTAAATCCCATGTGGATGAAATTTGATTAGATAAATATTGATAT
583 GATGCTCGTAAAAACAAATCCTTAAATCCCACGTGGATGAAATTTGATTAGATAAATATTGATAT
86803 CTCAAGGAATCTCGGCGCCAAAAATCATGTAAAACTGAGCCGGGGGCCCGAAACGCGTTTTAAAA
648 CTCAAGGAATCTCGGCGCCAAAAATCATGTAAAACTGAGCCGGGGGCCCGAAACGCGTTTTAAAA
*
86868 CAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAATCTGACCCGAAATTTTT
713 CAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAATATGACCCGAAATTTTT
86933 TTTCCTCAATTATTCGGCACAATAACCATAAGG
778 TTTCCTCAATTATTCGGCACAATAACCATAAGG
86966 AA
1 AA
86968 TATATAATTC
Statistics
Matches: 770, Mismatches: 40, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
809 2 0.00
810 365 0.47
811 403 0.52
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.30
Consensus pattern (810 bp):
AAAATCATGTAAAACTAAGCCGGGGCCCCGGAACGCGTTTTAAGCCAAAAACCGTGATGGTTAGT
ACACGATTTCGGCTAAAATTTTGCAAAATCTAACCCGAAAATTTTTTTCCTCAATTATTCGGCAC
AATAACCATAAGGAATATATAATTCAACACCAAAAAGATTTAAGGGCTTTTCATGCTTAAAATAT
GGTTATTCCTATTCTTTTCCAAATTAATTTCTGATTAAATCAAAACAGGATTCAGATGCTCGTAA
AAACATATCCTTAAATCCCATGTGGATGAGATTTGATTAGATAAATATTGATATTTCAAGGACTC
TCGGCGCCAAAAATCATGTAAAACTGAGCCGGAGGCCCGGAACGCGTTTTAAGCCAAAAACCGTG
ATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAATCTAACCCGAAATTTTTTTCCTCAAATA
TTCGGCACAATAACCATAAGGAATATATAATTCAACACCAAAAAGATTTAAGGGCTTTTCATGCT
TAAAATATGGTTATTCCTATTCTTTTCCAAATTAATTTCTAATTAAATCGAAACAGGATTCAGAT
GCTCGTAAAAACAAATCCTTAAATCCCACGTGGATGAAATTTGATTAGATAAATATTGATATCTC
AAGGAATCTCGGCGCCAAAAATCATGTAAAACTGAGCCGGGGGCCCGAAACGCGTTTTAAAACAA
AAACCGTGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAATATGACCCGAAATTTTTTTT
CCTCAATTATTCGGCACAATAACCATAAGG
Found at i:88329 original size:667 final size:666
Alignment explanation
Indices: 86155--89905 Score: 5613
Period size: 667 Copynumber: 5.6 Consensus size: 666
86145 AACCATAAGG
* *
86155 AAAATCATGTAAAACTAAGTCGGGGCCCCGGAACGCGATTTTCAGCCAGAAACCGTGATGGTTAG
1 AAAATCATGTAAAACTAAGCCGGGG-CCCGGAACGCGATTTTAAGCCAGAAACCGTGATGGTTAG
* * * *
86220 TACATGATTTCGGCTAATATTTTGCAAAATCTAACCTGAAA-TTTTTTTCCTCAATTATTGGCCA
65 TACACGATTTCGGCTAAAATTTTGCAAAATCTGACCCGAAATTTTTTTTCCTCAATTATTGGCCA
*
86284 CAATAACCATAAGGAATATATAATTCAACGCCTAAAAGATTTAAGGGCTTTTCATGCTTAAAATA
130 CAATAACCATAAGGAATATATAATTCAACGCCAAAAAGATTTAAGGGCTTTTCATGCTTAAAATA
* *
86349 TGGTTATTCCTATTCTTTTCCAAATTAATTTCTGATTAAATCAAAACAGGATTTAGATGCTCGTA
195 TGGTTATTCCTATTCTTTTCCAAATTAATTTCTGATTAAATCGAAACAGGATTCAGATGCTCGTA
* * *
86414 AAAACATATCCTTAAATCCCATGTGGATGAGATTTGATTAGTTAAATATTGATATTTCAAGGACT
260 AAAACATATCCTTAAATCCAATGTGGATGAGATTTGATTAGATAAATATTGATATTTCAAGGAGT
86479 CTCGGCGCCAAAAATCATGTAAAACTGAGCCGGGGGCCCGGAACGCGTTTTAAGCCAAAAACCGT
325 CTCGGCGCCAAAAATCATGTAAAACTGAGCC-GGGGCCCGGAACGCGTTTTAAGCCAAAAACCGT
* * *
86544 GATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAATCTAACCCGAAATTTTTTTCTCTCAAA
389 GATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAATCTGACCCAAAATTTTTTTC-CTCAAT
* *
86609 TATTCGGCACAATAGCCATAAGGAATATATAATTCAACACCAAAAAGATTTAAGGTCTTTTCATG
453 TATTCGGCACAATAACCATAAGGAATATATAATTCAACACCAAAAAGATTTAAGGGCTTTTCATG
* *
86674 CTTAAAATATGGTTATTCCTATTCTTTTCCAAATTAATTTCTAATTAAATCGAAACAGGATTCAG
518 CTTAAAATATGGTTATTCCTATTCTTTTCCAAATTAATTTCTGATTAAATCGAAATAGGATTCAG
* *
86739 ATGCTCGTAAAAACATATCCTTAAATCCCATGTGGATGAAATTTGATTAGATAAATATTGATATC
583 ATGCTCGTAAAAACATATCCTTAAATCCCATGTGGATGAGATTTGATTAGATAAATATTGATATT
*
86804 TCAAGGAATCTCGGCGCCA
648 TCAAGGAGTCTCGGCGCCA
* * ** *
86823 AAAATCATGTAAAACTGAGCCGGGGGCCCGAAACGCG-TTTTAAAACAAAAACCGTGATGGTTAG
1 AAAATCATGTAAAACTAAGCC-GGGGCCCGGAACGCGATTTTAAGCCAGAAACCGTGATGGTTAG
86887 TACACGATTTCGGCTAAAATTTTGCAAAATCTGACCCGAAATTTTTTTTCCTCAATTATTCGG-C
65 TACACGATTTCGGCTAAAATTTTGCAAAATCTGACCCGAAATTTTTTTTCCTCAATTATT-GGCC
86951 ACAATAACCATAAGGAATATATAATTCAACGCCAAAAAGATTTAAGGGCTTTTCATGCTTAAAAT
129 ACAATAACCATAAGGAATATATAATTCAACGCCAAAAAGATTTAAGGGCTTTTCATGCTTAAAAT
* *
87016 ATGGTTATTCCTAATCTATTCCAAATTAATTTCTGATTAAATCGAAACAGGATTCAGATGCTCGT
194 ATGGTTATTCCTATTCTTTTCCAAATTAATTTCTGATTAAATCGAAACAGGATTCAGATGCTCGT
* *
87081 AAAAACATATCCTTAATTCCAATGTGGATGAGATTTGATTAGATAAATATTGATATTTCGAGGAG
259 AAAAACATATCCTTAAATCCAATGTGGATGAGATTTGATTAGATAAATATTGATATTTCAAGGAG
* * * * * * *
87146 TCTCGGCGCCGAAAATCATGTAAATCTAAGTCGGGTCCCCGGAACGCGATTTTCAGCCAGAAACC
324 TCTCGGCGCCAAAAATCATGTAAAACTGAGCCGGG-GCCCGGAACGCG-TTTTAAGCCAAAAACC
* * * * *
87211 GTGATGGTTAGTACATGATTTCGGCTAATATTTTGCAAAATCTAACCTGAAATTTTTTTTCCTCA
387 GTGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAATCTGACC-CAAAATTTTTTTCCTCA
* * *
87276 ATTATT-GGCCACAATAACAATAAGGAATATATAATTCAACACCAAAAAGATTGAAGGCCTTTTC
451 ATTATTCGG-CACAATAACCATAAGGAATATATAATTCAACACCAAAAAGATTTAAGGGCTTTTC
* * *
87340 GTGGTTAAAATATGGTTATTCCTATTCTTTTACAAATTAATTTCTGATTAAATCGAAATAGGATT
515 ATGCTTAAAATATGGTTATTCCTATTCTTTTCCAAATTAATTTCTGATTAAATCGAAATAGGATT
*
87405 CAGAT--TC-T-----CGTA---TTAAAT-CCATGTGGATGAGATTTGATTAGATAAATATTGAT
580 CAGATGCTCGTAAAAACATATCCTTAAATCCCATGTGGATGAGATTTGATTAGATAAATATTGAT
** ** **
87458 ATTTCGTGGAGTCTCTACGCGG
645 ATTTCAAGGAGTCTCGGCGCCA
* *
87480 AAAATCATGTAAAACTAAGTCGGGGCCCCGGAACGCGATTTTCAGCCAGAAACCGTGATGGTTAG
1 AAAATCATGTAAAACTAAGCCGGGG-CCCGGAACGCGATTTTAAGCCAGAAACCGTGATGGTTAG
* * *
87545 TACATGATTTCGGCTAATATTTTGCAAAATCTGACCTGAAA-TTTTTTTCCTCAATTATTGGCCA
65 TACACGATTTCGGCTAAAATTTTGCAAAATCTGACCCGAAATTTTTTTTCCTCAATTATTGGCCA
* * *
87609 CAATAACCATAAGGAATATATAATTCAACACCAAAAAGATTGAAGGCCTTTTCATGCTTAAAATA
130 CAATAACCATAAGGAATATATAATTCAACGCCAAAAAGATTTAAGGGCTTTTCATGCTTAAAATA
*
87674 TGGTTATTCCTATTCTTTTCCAAATTAATTTCTGATTAAATCGAAATAGGATTCAGATGCTCGTA
195 TGGTTATTCCTATTCTTTTCCAAATTAATTTCTGATTAAATCGAAACAGGATTCAGATGCTCGTA
* *
87739 AAAACATATCCTTAAATCCCATGTGGATGAGATTTGATTAGATAAATATTGATATTTCTAGGAGT
260 AAAACATATCCTTAAATCCAATGTGGATGAGATTTGATTAGATAAATATTGATATTTCAAGGAGT
* *
87804 CTCGACGCCAAAAATCATGTAAAACTGAGCCGGGGTCCCGGAACGCGTTTTAAGCCAAAAACCAT
325 CTCGGCGCCAAAAATCATGTAAAACTGAGCCGGGG-CCCGGAACGCGTTTTAAGCCAAAAACCGT
*
87869 GATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAATCTGACCCAAAATTTTTTACCTCAATT
389 GATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAATCTGACCCAAAATTTTTTTCCTCAATT
* *
87934 ATTCGGCACAATAACCATAAGGAATATATAATTCATCGCCAAAAAGATTTAAGGGCTTTTCATGC
454 ATTCGGCACAATAACCATAAGGAATATATAATTCAACACCAAAAAGATTTAAGGGCTTTTCATGC
87999 TTAAAATATGGTTATTCCTATTCTTTTCCAAATTAATTTCTGATTAAATCGAAATAGGATTCAGA
519 TTAAAATATGGTTATTCCTATTCTTTTCCAAATTAATTTCTGATTAAATCGAAATAGGATTCAGA
88064 TGCTCGTAAAAACATATCCTTAAATCCCATGTGGATGAGATTTGATTAGATAAATATTGATATTT
584 TGCTCGTAAAAACATATCCTTAAATCCCATGTGGATGAGATTTGATTAGATAAATATTGATATTT
88129 CAAGGAGTCTCGGCGCCA
649 CAAGGAGTCTCGGCGCCA
* * *
88147 AAAATCATGTAAAACTGAGCCGGGGGTCCTGGAACGCG-TTTTAAGCCAAAAACCGTGATGGTTA
1 AAAATCATGTAAAACTAAGCC-GGGG-CCCGGAACGCGATTTTAAGCCAGAAACCGTGATGGTTA
88211 GTACACGATTTCGGCTAAAATTTTGCAAAATCTGACCCGAAATTTTTTTTCCTCAATTATTGGCC
64 GTACACGATTTCGGCTAAAATTTTGCAAAATCTGACCCGAAATTTTTTTTCCTCAATTATTGGCC
88276 ACAAT-ACCATAAGGAATATATAATTCAACGCCAAAAAGATTTAAGGGCTTTTCATGCTTAAAAT
129 ACAATAACCATAAGGAATATATAATTCAACGCCAAAAAGATTTAAGGGCTTTTCATGCTTAAAAT
*
88340 ATGGTTATTCCTATTCTTTTCTAAATTAATTTCTGATTAAATCGAAACAGGATTCAGATGCTCGT
194 ATGGTTATTCCTATTCTTTTCCAAATTAATTTCTGATTAAATCGAAACAGGATTCAGATGCTCGT
*
88405 AAAAACATATCCTTAATTCCAATGTGGATGAGATTTGATTAGATAAATATTGATATTTCAAGGAG
259 AAAAACATATCCTTAAATCCAATGTGGATGAGATTTGATTAGATAAATATTGATATTTCAAGGAG
88470 TCTCGGCGCCAAAAATCATGTAAAACTGAGCCGGTGGCCCGGAACGCGTTTTAAGCCAAAAACCG
324 TCTCGGCGCCAAAAATCATGTAAAACTGAGCCGG-GGCCCGGAACGCGTTTTAAGCCAAAAACCG
* *
88535 TGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAATCAGACCCGAAATTTTTTTCCTCAAT
388 TGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAATCTGACCCAAAATTTTTTTCCTCAAT
*
88600 TATTCGGCACAATAGCCATAAGGAATATATAATTCAACACCAAAAAGATTTAAGGGCTTTTCATG
453 TATTCGGCACAATAACCATAAGGAATATATAATTCAACACCAAAAAGATTTAAGGGCTTTTCATG
* *
88665 CTTAAAATATGGTTATTCCTATTCTTTTCTAAATTAATTTCTGATTAAATCGAAATAGGATTTAG
518 CTTAAAATATGGTTATTCCTATTCTTTTCCAAATTAATTTCTGATTAAATCGAAATAGGATTCAG
* * **
88730 ATACTCGTAAAAACATATCCTTAGAT-CCATGTAAATGAGATTTGATTAGATAAATATTGATATT
583 ATGCTCGTAAAAACATATCCTTAAATCCCATGTGGATGAGATTTGATTAGATAAATATTGATATT
* * *
88794 TCGAGGAGTCTCGACGCCG
648 TCAAGGAGTCTCGGCGCCA
* * * * *
88813 AAAATCATGTAAAACTAAGTCGGGGTCCCGGAACGCGTTTTTCAGCTAGAAACCGTGATGGTTAA
1 AAAATCATGTAAAACTAAGCCGGGG-CCCGGAACGCGATTTTAAGCCAGAAACCGTGATGGTTAG
* * *
88878 TACACGATTTCGGCTAAAATTTTGCAAAATCTGACCCGAAAATTTTTTTCCCCCAACTATTGGCC
65 TACACGATTTCGGCTAAAATTTTGCAAAATCTGACCCG-AAATTTTTTTTCCTCAATTATTGGCC
* * * * *
88943 ACAATAACCATAAGGAATATATAATTCAACACCAAAAAGATCTAACGGTTTTTCATGTTTAAAAT
129 ACAATAACCATAAGGAATATATAATTCAACGCCAAAAAGATTTAAGGGCTTTTCATGCTTAAAAT
* * * *
89008 ATTGTTATTCCTATTCTTTTCCAAATTAATTTCTGATTCAATCGAAACAGCATTAAGATGCTCGT
194 ATGGTTATTCCTATTCTTTTCCAAATTAATTTCTGATTAAATCGAAACAGGATTCAGATGCTCGT
* *
89073 AAAAACATATCCTTAAATCCAATGTGAATGAGATTTGACTAGATAAATATTGATATTTCAAGGAG
259 AAAAACATATCCTTAAATCCAATGTGGATGAGATTTGATTAGATAAATATTGATATTTCAAGGAG
* * * *
89138 TCTCGGTGCCAAAAATCATGTAAAATTGAGCCAGGGGCGCGGAACGCGTTTTAAGCCAAAAATCG
324 TCTCGGCGCCAAAAATCATGTAAAACTGAGCC-GGGGCCCGGAACGCGTTTTAAGCCAAAAACCG
* *
89203 TGATGGTTAGTACACGATTTCGGCTAAAATATTGCAAAATCTGTCCCGAAAATTTTTTTCCTCAA
388 TGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAATCTGACCC-AAAATTTTTTTCCTCAA
* * * ** * * * *
89268 TTCTT-GGC-C-ATAATACTTAAAAAAAGTATATAATTCATCGCCAAAAATATCTAAGGGCTTTT
452 TTATTCGGCACAATAA-CCAT-AAGGAA-TATATAATTCAACACCAAAAAGATTTAAGGGCTTTT
* * *
89330 CATGCTTAAAATATGGTTATTCCTCTTCTTTTCCAAATTAATTTCTAATTAAATCGAAACAGGAT
514 CATGCTTAAAATATGGTTATTCCTATTCTTTTCCAAATTAATTTCTGATTAAATCGAAATAGGAT
* * *
89395 TCAGATGCTCGTAAAAAGATATCCTTAATTCCAATGTGGATGAGATTTGATTAGATAAATATTGA
579 TCAGATGCTCGTAAAAACATATCCTTAAATCCCATGTGGATGAGATTTGATTAGATAAATATTGA
*
89460 TATTTCAAGGAGTCTCGGTGCCA
644 TATTTCAAGGAGTCTCGGCGCCA
* * * *
89483 AAAATCATGTAAAATTGAGCCGGGGGCGCGGAACGCG-TTTTAAGCCAGAAACCGTGATGGTTCG
1 AAAATCATGTAAAACTAAGCC-GGGGCCCGGAACGCGATTTTAAGCCAGAAACCGTGATGGTTAG
* * * *
89547 TACACGATTTCAGCTAAAATATTGCAAAATCTGTCCCGAAAATTTTGTTTTCCTCAATTCTTGGC
65 TACACGATTTCGGCTAAAATTTTGCAAAATCTGACCCG-AAATTTT-TTTTCCTCAATTATTGGC
* ** * *
89612 CATAAT-ACTCA-AAAAAAGTATATAATTCATCGCCAAATAG-TTCTAAGGGCTTTTCATGCTTA
128 CACAATAAC-CATAAGGAA-TATATAATTCAACGCCAAAAAGATT-TAAGGGCTTTTCATGCTTA
* *
89674 AAATATGGTTATTCCTATTCTTTTCCAAATTAATTTCTAATTAAATCGAAACAGAATTCAGATGC
190 AAATATGGTTATTCCTATTCTTTTCCAAATTAATTTCTGATTAAATCGAAACAGGATTCAGATGC
* * *
89739 TCGTAAAAACATATCCTTAAATCCCATGTGGATGAGATTTTATTAGATAAATATTGATATTTCGA
255 TCGTAAAAACATATCCTTAAATCCAATGTGGATGAGATTTGATTAGATAAATATTGATATTTCAA
* * * * * * *
89804 GGAGTCTCGGCGCCGAAAATCATGTAAAACTAAGTCGGGGCCTTGGAATGCGTTTTTCAGCCAGA
320 GGAGTCTCGGCGCCAAAAATCATGTAAAACTGAGCCGGGGCC-CGGAACGCG-TTTTAAGCCAAA
*
89869 AACCGTGA-----AGTACACTATTTCGGCTAAAATTTTGCAA
383 AACCGTGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAA
89906 GGAGTCTCGG
Statistics
Matches: 2799, Mismatches: 241, Indels: 88
0.89 0.08 0.03
Matches are distributed among these distances:
655 137 0.05
656 65 0.02
657 325 0.12
658 68 0.02
661 3 0.00
663 3 0.00
665 15 0.01
666 169 0.06
667 681 0.24
668 602 0.22
669 408 0.15
670 302 0.11
671 21 0.01
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.32
Consensus pattern (666 bp):
AAAATCATGTAAAACTAAGCCGGGGCCCGGAACGCGATTTTAAGCCAGAAACCGTGATGGTTAGT
ACACGATTTCGGCTAAAATTTTGCAAAATCTGACCCGAAATTTTTTTTCCTCAATTATTGGCCAC
AATAACCATAAGGAATATATAATTCAACGCCAAAAAGATTTAAGGGCTTTTCATGCTTAAAATAT
GGTTATTCCTATTCTTTTCCAAATTAATTTCTGATTAAATCGAAACAGGATTCAGATGCTCGTAA
AAACATATCCTTAAATCCAATGTGGATGAGATTTGATTAGATAAATATTGATATTTCAAGGAGTC
TCGGCGCCAAAAATCATGTAAAACTGAGCCGGGGCCCGGAACGCGTTTTAAGCCAAAAACCGTGA
TGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAATCTGACCCAAAATTTTTTTCCTCAATTAT
TCGGCACAATAACCATAAGGAATATATAATTCAACACCAAAAAGATTTAAGGGCTTTTCATGCTT
AAAATATGGTTATTCCTATTCTTTTCCAAATTAATTTCTGATTAAATCGAAATAGGATTCAGATG
CTCGTAAAAACATATCCTTAAATCCCATGTGGATGAGATTTGATTAGATAAATATTGATATTTCA
AGGAGTCTCGGCGCCA
Done.