Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008344.1 Hibiscus syriacus cultivar Beakdansim tig00111071_pilon, 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: 332991
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
File 1 of 3
Found at i:5175 original size:28 final size:26
Alignment explanation
Indices: 5133--5184 Score: 77
Period size: 28 Copynumber: 1.9 Consensus size: 26
5123 ACTAAATGTG
5133 TAGTTTACCTAAAATGTAATAGCTCATA
1 TAGTTTACCTAAAATGT--TAGCTCATA
*
5161 TAGTTTACCTCAAATGTTAGCTCA
1 TAGTTTACCTAAAATGTTAGCTCA
5185 AAAATTATGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 7 0.30
28 16 0.70
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.37
Consensus pattern (26 bp):
TAGTTTACCTAAAATGTTAGCTCATA
Found at i:8647 original size:19 final size:19
Alignment explanation
Indices: 8623--8661 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
8613 TACTCAACTT
*
8623 TTTTTCACTCCTATTTTAG
1 TTTTTCACTCATATTTTAG
8642 TTTTTCACTCATATTTTAG
1 TTTTTCACTCATATTTTAG
8661 T
1 T
8662 AATTGAAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.18, C:0.18, G:0.05, T:0.59
Consensus pattern (19 bp):
TTTTTCACTCATATTTTAG
Found at i:10285 original size:5 final size:5
Alignment explanation
Indices: 10275--10327 Score: 52
Period size: 5 Copynumber: 9.8 Consensus size: 5
10265 AACAGTCAAC
* *
10275 GGTCG GGTCG GGTCAAC GGTCG GGTCG GGTCG GGTCAAC GGTCG GGTCG
1 GGTCG GGTCG GGTC--G GGTCG GGTCG GGTCG GGTC--G GGTCG GGTCG
10324 GGTC
1 GGTC
10328 AGACCGGTCA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
5 32 0.80
7 8 0.20
ACGTcount: A:0.08, C:0.23, G:0.51, T:0.19
Consensus pattern (5 bp):
GGTCG
Found at i:10289 original size:17 final size:17
Alignment explanation
Indices: 10269--10328 Score: 75
Period size: 17 Copynumber: 3.2 Consensus size: 17
10259 AAAGTCAACA
10269 GTCAACGGTCGGGTCGG
1 GTCAACGGTCGGGTCGG
10286 GTCAACGGTCGGGTCGGGTCGG
1 GTCAA----C-GGTCGGGTCGG
10308 GTCAACGGTCGGGTCGG
1 GTCAACGGTCGGGTCGG
10325 GTCA
1 GTCA
10329 GACCGGTCAA
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
17 20 0.53
18 1 0.03
21 1 0.03
22 16 0.42
ACGTcount: A:0.12, C:0.23, G:0.47, T:0.18
Consensus pattern (17 bp):
GTCAACGGTCGGGTCGG
Found at i:10302 original size:22 final size:22
Alignment explanation
Indices: 10275--10327 Score: 106
Period size: 22 Copynumber: 2.4 Consensus size: 22
10265 AACAGTCAAC
10275 GGTCGGGTCGGGTCAACGGTCG
1 GGTCGGGTCGGGTCAACGGTCG
10297 GGTCGGGTCGGGTCAACGGTCG
1 GGTCGGGTCGGGTCAACGGTCG
10319 GGTCGGGTC
1 GGTCGGGTC
10328 AGACCGGTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.08, C:0.23, G:0.51, T:0.19
Consensus pattern (22 bp):
GGTCGGGTCGGGTCAACGGTCG
Found at i:10342 original size:9 final size:9
Alignment explanation
Indices: 10324--10401 Score: 75
Period size: 9 Copynumber: 8.3 Consensus size: 9
10314 GGTCGGGTCG
*
10324 GGTCAGACC
1 GGTCAAACC
10333 GGTCAAACC
1 GGTCAAACC
*
10342 GGTTCAGACC
1 GG-TCAAACC
*
10352 GATCAAACC
1 GGTCAAACC
*
10361 GGTTCGAACC
1 GG-TCAAACC
*
10371 GGTTGAAACC
1 GG-TCAAACC
10381 GGTCAAACC
1 GGTCAAACC
*
10390 GGTTAAACC
1 GGTCAAACC
10399 GGT
1 GGT
10402 TTCCAGCAGC
Statistics
Matches: 57, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
9 34 0.60
10 23 0.40
ACGTcount: A:0.28, C:0.28, G:0.27, T:0.17
Consensus pattern (9 bp):
GGTCAAACC
Found at i:10348 original size:19 final size:19
Alignment explanation
Indices: 10326--10402 Score: 86
Period size: 19 Copynumber: 4.1 Consensus size: 19
10316 TCGGGTCGGG
10326 TCAGACCGGTCAAACCGGT
1 TCAGACCGGTCAAACCGGT
*
10345 TCAGACCGATCAAACCGGT
1 TCAGACCGGTCAAACCGGT
*
10364 TC-GAACCGGTTGAAACCGG-
1 TCAG-ACCGG-TCAAACCGGT
* *
10383 TCAAACCGGTTAAACCGGT
1 TCAGACCGGTCAAACCGGT
10402 T
1 T
10403 TCCAGCAGCC
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
18 9 0.18
19 32 0.65
20 8 0.16
ACGTcount: A:0.29, C:0.29, G:0.25, T:0.18
Consensus pattern (19 bp):
TCAGACCGGTCAAACCGGT
Found at i:17558 original size:7 final size:7
Alignment explanation
Indices: 17546--17576 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
17536 GTCAAAGAAA
17546 GTCAACG
1 GTCAACG
17553 GTCAACG
1 GTCAACG
17560 GTCAACG
1 GTCAACG
17567 GTCAACG
1 GTCAACG
17574 GTC
1 GTC
17577 GGGTCGAGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.26, C:0.29, G:0.29, T:0.16
Consensus pattern (7 bp):
GTCAACG
Found at i:17627 original size:22 final size:22
Alignment explanation
Indices: 17566--17630 Score: 112
Period size: 22 Copynumber: 3.0 Consensus size: 22
17556 AACGGTCAAC
*
17566 GGTCAACGGTCGGGTCGAGTCG
1 GGTCAACGGTCGGGTCGGGTCG
*
17588 TGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCG
17610 GGTCAACGGTCGGGTCGGGTC
1 GGTCAACGGTCGGGTCGGGTC
17631 AGACCGGTCA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.11, C:0.23, G:0.46, T:0.20
Consensus pattern (22 bp):
GGTCAACGGTCGGGTCGGGTCG
Found at i:17651 original size:19 final size:19
Alignment explanation
Indices: 17629--17726 Score: 101
Period size: 19 Copynumber: 5.1 Consensus size: 19
17619 TCGGGTCGGG
17629 TCAGACCGGTCAAACCGGT
1 TCAGACCGGTCAAACCGGT
17648 TCAGACCGGTCAAACCGGT
1 TCAGACCGGTCAAACCGGT
*
17667 TC-GAACCGGTTGAAACCGG-
1 TCAG-ACCGG-TCAAACCGGT
*
17686 TCAAACCGGTCAGAACCGGT
1 TCAGACCGGTCA-AACCGGT
* * *
17706 TGAAAACCGGTTAAACCGGT
1 T-CAGACCGGTCAAACCGGT
17726 T
1 T
17727 TCCAGCAGCC
Statistics
Matches: 68, Mismatches: 5, Indels: 11
0.81 0.06 0.13
Matches are distributed among these distances:
18 3 0.04
19 39 0.57
20 17 0.25
21 9 0.13
ACGTcount: A:0.29, C:0.28, G:0.27, T:0.17
Consensus pattern (19 bp):
TCAGACCGGTCAAACCGGT
Found at i:17657 original size:10 final size:9
Alignment explanation
Indices: 17627--17725 Score: 90
Period size: 9 Copynumber: 10.3 Consensus size: 9
17617 GGTCGGGTCG
*
17627 GGTCAGACC
1 GGTCAAACC
17636 GGTCAAACC
1 GGTCAAACC
*
17645 GGTTCAGACC
1 GG-TCAAACC
17655 GGTCAAACC
1 GGTCAAACC
*
17664 GGTTCGAACC
1 GG-TCAAACC
*
17674 GGTTGAAACC
1 GG-TCAAACC
17684 GGTCAAACC
1 GGTCAAACC
17693 GGTCAGAACC
1 GGTCA-AACC
*
17703 GGTTGAAAACC
1 GG-T-CAAACC
*
17714 GGTTAAACC
1 GGTCAAACC
17723 GGT
1 GGT
17726 TTCCAGCAGC
Statistics
Matches: 76, Mismatches: 9, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
9 37 0.49
10 31 0.41
11 7 0.09
12 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.28, T:0.16
Consensus pattern (9 bp):
GGTCAAACC
Found at i:17684 original size:29 final size:28
Alignment explanation
Indices: 17628--17725 Score: 124
Period size: 29 Copynumber: 3.4 Consensus size: 28
17618 GTCGGGTCGG
* * *
17628 GTCAGACCGGTCAAACCGGTTCAGACCG
1 GTCAAACCGGTCAAACCGGTTGAAACCG
*
17656 GTCAAACCGGTTCGAACCGGTTGAAACCG
1 GTCAAACCGG-TCAAACCGGTTGAAACCG
17685 GTCAAACCGGTCAGAACCGGTTGAAAACCG
1 GTCAAACCGGTCA-AACCGGTTG-AAACCG
*
17715 GTTAAACCGGT
1 GTCAAACCGGT
17726 TTCCAGCAGC
Statistics
Matches: 61, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
28 11 0.18
29 34 0.56
30 16 0.26
ACGTcount: A:0.29, C:0.28, G:0.28, T:0.16
Consensus pattern (28 bp):
GTCAAACCGGTCAAACCGGTTGAAACCG
Found at i:27850 original size:31 final size:29
Alignment explanation
Indices: 27769--27832 Score: 119
Period size: 29 Copynumber: 2.2 Consensus size: 29
27759 TATATAATTG
27769 AACTTTCAATTTCTTCAATTATAGCATTA
1 AACTTTCAATTTCTTCAATTATAGCATTA
*
27798 AACTTTCAATTTCTTCAATTATAGCATTG
1 AACTTTCAATTTCTTCAATTATAGCATTA
27827 AACTTT
1 AACTTT
27833 AGTTTTAACT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.33, C:0.17, G:0.05, T:0.45
Consensus pattern (29 bp):
AACTTTCAATTTCTTCAATTATAGCATTA
Found at i:28874 original size:2 final size:2
Alignment explanation
Indices: 28867--28896 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
28857 TCGAAGTTAA
28867 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
28897 GTTTTGATCA
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:32664 original size:32 final size:32
Alignment explanation
Indices: 32623--32936 Score: 376
Period size: 32 Copynumber: 10.6 Consensus size: 32
32613 TTTGCAGAGG
*
32623 TAAAATAAATCAATCCATACAAATAAATTATT
1 TAAAATAAATCAATCCATACTAATAAATTATT
32655 TAAAATAAATCAATCCATACTAATAAATTATT
1 TAAAATAAATCAATCCATACTAATAAATTATT
32687 TAAAATAAATCAATCCATACTAATAAATTATT
1 TAAAATAAATCAATCCATACTAATAAATTATT
32719 TAAAATAAATCAATCCATACTAATAAATTATT
1 TAAAATAAATCAATCCATACTAATAAATTATT
32751 TAAAATAAATCAATCCATACTAATAAATTATT
1 TAAAATAAATCAATCCATACTAATAAATTATT
*
32783 TAAAATAAATCAATCCATAC-AACTACA--A--
1 TAAAATAAATCAATCCATACTAA-TAAATTATT
* **
32811 T--AATAAATCAATCCA-AATTTTAAA--A--
1 TAAAATAAATCAATCCATACTAATAAATTATT
32836 -----TAAATCAATCCATACTAATAAATTATT
1 TAAAATAAATCAATCCATACTAATAAATTATT
32863 TAAAATAAATCAAT-C---C--AT--A-T-TT
1 TAAAATAAATCAATCCATACTAATAAATTATT
32885 TAAAATAAATCAATCCATACTAATAAATTATT
1 TAAAATAAATCAATCCATACTAATAAATTATT
*
32917 TAAAATAAATCAATCTATAC
1 TAAAATAAATCAATCCATAC
32937 AACTACAATA
Statistics
Matches: 250, Mismatches: 10, Indels: 44
0.82 0.03 0.14
Matches are distributed among these distances:
22 28 0.11
23 8 0.03
24 1 0.00
25 6 0.02
26 17 0.07
28 4 0.02
30 2 0.01
31 4 0.02
32 180 0.72
ACGTcount: A:0.54, C:0.14, G:0.00, T:0.33
Consensus pattern (32 bp):
TAAAATAAATCAATCCATACTAATAAATTATT
Found at i:32858 original size:22 final size:23
Alignment explanation
Indices: 32783--32857 Score: 73
Period size: 22 Copynumber: 3.2 Consensus size: 23
32773 ATAAATTATT
32783 TAAAATAAATCAATCCATAC-AA
1 TAAAATAAATCAATCCATACTAA
* **
32805 CTACAATAATAAATCAATCCA-AATTT
1 -T--AA-AATAAATCAATCCATACTAA
32831 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATACTAA
32854 TAAA
1 TAAA
32858 TTATTTAAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 10
0.72 0.11 0.18
Matches are distributed among these distances:
22 14 0.34
23 9 0.22
25 4 0.10
26 14 0.34
ACGTcount: A:0.56, C:0.17, G:0.00, T:0.27
Consensus pattern (23 bp):
TAAAATAAATCAATCCATACTAA
Found at i:32879 original size:54 final size:54
Alignment explanation
Indices: 32653--33082 Score: 302
Period size: 54 Copynumber: 7.8 Consensus size: 54
32643 AAATAAATTA
32653 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACTAATAAATT
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT-C---C----AAA-T
32716 ATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACTAATAAATT
1 -TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT-C---C----AAA-T
*
32780 ATTTAAAATAAATCAATCCATAC-AACTACA--A--T--AATAAATCAATCCAAAT
1 -TTTAAAATAAATCAATCCATACTAA-TAAATTATTTAAAATAAATCAATCCAAAT
*
32829 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCAAAT
*
32883 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCTATACA-
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCA-A-AT
** * * * *
32938 ACTACAAT-AATAAATCAAT-CT-AT--A-T-TTTAAAATAAATCAATCCACACT
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCA-AAT
** * ** * ** ** *
32986 AATAAATTATTTAAAATAAAT-C-AATCCA-TATTTTAAAATAAATCAATCCATAT
1 TTTAAAATAAAT-CAATCCATACTAATAAATTA-TTTAAAATAAATCAATCCAAAT
* *
33039 TTTAAAATAAAACAATCTATACTAATAAATTATTTAAAATAAAT
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT
33083 TATTTAAAAA
Statistics
Matches: 313, Mismatches: 32, Indels: 52
0.79 0.08 0.13
Matches are distributed among these distances:
48 49 0.16
49 5 0.02
50 15 0.05
52 10 0.03
53 10 0.03
54 111 0.35
55 7 0.02
56 1 0.00
57 1 0.00
58 11 0.04
60 1 0.00
62 1 0.00
63 2 0.01
64 89 0.28
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (54 bp):
TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCAAAT
Found at i:32887 original size:22 final size:22
Alignment explanation
Indices: 32861--32903 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
32851 TAATAAATTA
32861 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
32883 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
32904 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:32912 original size:22 final size:22
Alignment explanation
Indices: 32863--32911 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
32853 ATAAATTATT
**
32863 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
32885 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
32908 TAAA
1 TAAA
32912 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:32913 original size:134 final size:134
Alignment explanation
Indices: 32685--33037 Score: 580
Period size: 134 Copynumber: 2.6 Consensus size: 134
32675 TAATAAATTA
32685 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTAT
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT-C---C--AT--A-T-T
32750 TTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAAT
56 TTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAAT
32815 AAATCAATCCAAAT
121 AAATCAATCCAAAT
32829 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
* *
32894 TCAATCCATACTAATAAATTATTTAAAATAAATCAATCTATACAACTACAATAATAAATCAATCT
66 TCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCC
*
32959 ATAT
131 AAAT
*
32963 TTTAAAATAAATCAATCCACACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
33028 TCAATCCATA
66 TCAATCCATA
33038 TTTTAAAATA
Statistics
Matches: 205, Mismatches: 4, Indels: 10
0.94 0.02 0.05
Matches are distributed among these distances:
134 151 0.74
135 1 0.00
136 1 0.00
138 2 0.01
140 1 0.00
143 1 0.00
144 48 0.23
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (134 bp):
TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
TCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCC
AAAT
Found at i:32950 original size:80 final size:76
Alignment explanation
Indices: 32864--33117 Score: 333
Period size: 80 Copynumber: 3.4 Consensus size: 76
32854 TAAATTATTT
32864 AAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCA
1 AAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCA
*
32929 ATCTATACAACTAC
66 ATCCAT---ACTAC
* *
32943 AATAATAAATCAATCTATATTTTAAAATAAATCAATCCACACTAATAAATTATTTAAAATAAATC
1 AA-AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATC
* **
33008 AATCCATATTTT
65 AATCCATACTAC
* *
33020 AAAATAAATCAATCCATATTTTAAAATAAAACAATCTATACTAATAAATTATTTAAAATAAAT--
1 AAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCA
*
33083 -T--AT-TTA-
66 ATCCATACTAC
*
33089 AAAATAAATCAATCCATATTTTATAATAA
1 AAAATAAATCAATCCATATTTTAAAATAA
33118 TTTATTTTAA
Statistics
Matches: 162, Mismatches: 12, Indels: 12
0.87 0.06 0.06
Matches are distributed among these distances:
69 28 0.17
70 2 0.01
71 2 0.01
73 1 0.01
76 57 0.35
77 4 0.02
79 2 0.01
80 66 0.41
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (76 bp):
AAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCA
ATCCATACTAC
Found at i:33021 original size:22 final size:22
Alignment explanation
Indices: 32995--33055 Score: 113
Period size: 22 Copynumber: 2.8 Consensus size: 22
32985 TAATAAATTA
32995 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
33017 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
33039 TTTAAAATAAAACAATC
1 TTTAAAATAAATCAATC
33056 TATACTAATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.34
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:33093 original size:47 final size:50
Alignment explanation
Indices: 33036--33179 Score: 135
Period size: 45 Copynumber: 3.0 Consensus size: 50
33026 AATCAATCCA
33036 TATTTTAAAATAAAACAAT-C-TA-TACTAATAAATTA-TTTAAAATAAAT
1 TATTTTAAAATAAAACAATCCATATTA-TAATAAATTATTTTAAAATAAAT
* * *
33083 TATTTAAAAATAAATCAATCCATATTTTATAATAATTTATTTTAAAATAAAT
1 TATTTTAAAATAAAACAATCCATA--TTATAATAAATTATTTTAAAATAAAT
* * * *
33135 TATTTT---ATAATA-AAT-TATTTTAAAATAAATTATTTTAAAATAAAT
1 TATTTTAAAATAAAACAATCCATATTATAATAAATTATTTTAAAATAAAT
33180 AACCTTATTA
Statistics
Matches: 81, Mismatches: 10, Indels: 14
0.77 0.10 0.13
Matches are distributed among these distances:
45 24 0.30
47 19 0.23
48 4 0.05
49 6 0.07
51 9 0.11
52 19 0.23
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (50 bp):
TATTTTAAAATAAAACAATCCATATTATAATAAATTATTTTAAAATAAAT
Found at i:33094 original size:15 final size:15
Alignment explanation
Indices: 33062--33179 Score: 130
Period size: 15 Copynumber: 7.5 Consensus size: 15
33052 AATCTATACT
33062 AATAAATTA-TTTAA
1 AATAAATTATTTTAA
*
33076 AATAAATTATTTAAA
1 AATAAATTATTTTAA
*
33091 AATAAATCAATCCATATTTTAT
1 AAT--A--AAT---TATTTTAA
*
33113 AATAATTTATTTTAA
1 AATAAATTATTTTAA
*
33128 AATAAATTATTTTAT
1 AATAAATTATTTTAA
33143 AATAAATTATTTTAA
1 AATAAATTATTTTAA
33158 AATAAATTATTTTAA
1 AATAAATTATTTTAA
33173 AATAAAT
1 AATAAAT
33180 AACCTTATTA
Statistics
Matches: 88, Mismatches: 8, Indels: 15
0.79 0.07 0.14
Matches are distributed among these distances:
14 9 0.10
15 63 0.72
17 1 0.01
18 2 0.02
19 3 0.03
20 1 0.01
22 9 0.10
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (15 bp):
AATAAATTATTTTAA
Found at i:34336 original size:13 final size:14
Alignment explanation
Indices: 34310--34338 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
34300 AAATTTTAAT
34310 TTTTTAAAATAAAA
1 TTTTTAAAATAAAA
34324 TTTTTAAAA-AAAA
1 TTTTTAAAATAAAA
34337 TT
1 TT
34339 ATAAACGCGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
TTTTTAAAATAAAA
Found at i:35683 original size:2 final size:2
Alignment explanation
Indices: 35676--35723 Score: 89
Period size: 2 Copynumber: 24.5 Consensus size: 2
35666 TAAAAAGTAA
35676 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
35718 AT -T AT A
1 AT AT AT A
35724 AGTAGGGTAT
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 44 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:37733 original size:123 final size:123
Alignment explanation
Indices: 37562--38133 Score: 934
Period size: 123 Copynumber: 4.7 Consensus size: 123
37552 TAGAGTAAAA
* *
37562 TGAATAAGTTCTTCAGATTATGAACTTATTCTTCCTCTTCAAATGAGTTCTTCTTATTACGAACT
1 TGAATAAGTTCTTCAGATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTTATTACGAACT
*
37627 CCTTCTGGAAATGTTAATGTTGCTCTATCTTC-TTCTG-TAATAGAGTCGAGCAAAAGGT
66 CCTTCTGGAAATGTTAATGATGCTCTATC-TCATTCTGCT-ATAGAGTCGAGCAAAAGGT
*
37685 TGAATAAGTTCTTCATATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTTATTACGAACT
1 TGAATAAGTTCTTCAGATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTTATTACGAACT
* * * *
37750 CCTTCTGGAAATATTGATGCTGCTCTATCTCATTCTGTTATAGAGTCGAGCAAAAGGT
66 CCTTCTGGAAATGTTAATGATGCTCTATCTCATTCTGCTATAGAGTCGAGCAAAAGGT
37808 TGAATAAGTTCTTCAGATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTTATTACGAACT
1 TGAATAAGTTCTTCAGATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTTATTACGAACT
* * * *
37873 ACTTCTGGAAATGTTGATGATGCTCTATCTTC-TTTTGCTATTGAGTCGAGCAAAAGGT
66 CCTTCTGGAAATGTTAATGATGCTCTATC-TCATTCTGCTATAGAGTCGAGCAAAAGGT
* * * *
37931 TGAATAAGTTCTTCAGATTATGAACTTATTCTTCATCTTCAAATGAGTTATTCTTATTACGAACT
1 TGAATAAGTTCTTCAGATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTTATTACGAACT
*
37996 CCTTCTGGAAATGTTAATGATGCTCTATCTCTTTCTGCTATAGAGTCGAGCAAAAGGT
66 CCTTCTGGAAATGTTAATGATGCTCTATCTCATTCTGCTATAGAGTCGAGCAAAAGGT
*
38054 TGAATAAGTTCTTCAGATTATGAACTTCTTCTTCCTCTTTAGATGAGTTCTTCTTATTACGAACT
1 TGAATAAGTTCTTCAGATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTTATTACGAACT
38119 CCTTCTGGAAATGTT
66 CCTTCTGGAAATGTT
38134 TTAAGAAAAA
Statistics
Matches: 419, Mismatches: 26, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
122 4 0.01
123 412 0.98
124 3 0.01
ACGTcount: A:0.26, C:0.18, G:0.16, T:0.40
Consensus pattern (123 bp):
TGAATAAGTTCTTCAGATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTTATTACGAACT
CCTTCTGGAAATGTTAATGATGCTCTATCTCATTCTGCTATAGAGTCGAGCAAAAGGT
Found at i:38226 original size:36 final size:35
Alignment explanation
Indices: 38130--38414 Score: 133
Period size: 37 Copynumber: 7.8 Consensus size: 35
38120 CTTCTGGAAA
* *
38130 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAA-T
1 TGTTTTAAGAAAAACAATCTCAAGCGAGAAAAATT
* ** ***
38164 TGTTATTTCGAGTTAAATTTTCTCAAGCGAGAAACAATT
1 TG-T-TTT-AAGAAAAACAATCTCAAGCGAGAAA-AATT
* *
38203 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAA-T
1 TGTTTTAAGAAAAACAATCTCAAGCGAGAAAAATT
** *** *
38237 TGTTATTTCAAGTGAAATTTTCTCTAGCGAGAAATAATT
1 TG-T-TTT-AAGAAAAACAATCTCAAGCGAGAAA-AATT
* * *
38276 TGTTTTAAGAAAAACAATATCAAGTGAGATAAATT
1 TGTTTTAAGAAAAACAATCTCAAGCGAGAAAAATT
* * ** ** *
38311 GCTATTTTGAGTGAAACTTTCTTAAGCGAGAAACAATT
1 --TGTTTTAAGAAAAACAATCTCAAGCGAGAAA-AATT
* * *
38349 TGTTTTAAGAAAAACAATCTGAAGTGAGATAAATCTT
1 TGTTTTAAGAAAAACAATCTCAAGCGAGA-AAA-ATT
* * ** *
38386 TGCTTTGAGAAAAATTATCTCAAGTGAGA
1 TGTTTTAAGAAAAACAATCTCAAGCGAGA
38415 TAATTTTTTT
Statistics
Matches: 179, Mismatches: 57, Indels: 27
0.68 0.22 0.10
Matches are distributed among these distances:
34 5 0.03
35 8 0.04
36 61 0.34
37 89 0.50
38 10 0.06
39 6 0.03
ACGTcount: A:0.40, C:0.10, G:0.16, T:0.34
Consensus pattern (35 bp):
TGTTTTAAGAAAAACAATCTCAAGCGAGAAAAATT
Found at i:38255 original size:73 final size:73
Alignment explanation
Indices: 38130--38382 Score: 416
Period size: 73 Copynumber: 3.5 Consensus size: 73
38120 CTTCTGGAAA
*
38130 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGTTATTTCGAGTTAAATTTTCTCAAGCGAG
1 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGTTATTTCGAGTGAAATTTTCTCAAGCGAG
38195 AAACAATT
66 AAACAATT
* *
38203 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGTTATTTCAAGTGAAATTTTCTCTAGCGAG
1 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGTTATTTCGAGTGAAATTTTCTCAAGCGAG
*
38268 AAATAATT
66 AAACAATT
* * * * *
38276 TGTTTTAAGAAAAACAATATCAAGTGAGATAAATTGCTATTTTGAGTGAAACTTTCTTAAGCGAG
1 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGTTATTTCGAGTGAAATTTTCTCAAGCGAG
38341 AAACAATT
66 AAACAATT
*
38349 TGTTTTAAGAAAAACAATCTGAAGTGAGATAAAT
1 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAAT
38383 CTTTGCTTTG
Statistics
Matches: 166, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
73 166 1.00
ACGTcount: A:0.41, C:0.09, G:0.16, T:0.34
Consensus pattern (73 bp):
TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGTTATTTCGAGTGAAATTTTCTCAAGCGAG
AAACAATT
Found at i:42996 original size:16 final size:16
Alignment explanation
Indices: 42975--43005 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
42965 TCGAAATCCT
42975 TATTTTAATGAATGAA
1 TATTTTAATGAATGAA
*
42991 TATTTTAATGCATGA
1 TATTTTAATGAATGA
43006 TTTGGAAATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.03, G:0.13, T:0.45
Consensus pattern (16 bp):
TATTTTAATGAATGAA
Found at i:44803 original size:25 final size:26
Alignment explanation
Indices: 44752--44813 Score: 83
Period size: 25 Copynumber: 2.5 Consensus size: 26
44742 AATTGAAATT
*
44752 AAAT-AAATAAAAAGTAAATGGAATA
1 AAATAAAATATAAAGTAAATGGAATA
* *
44777 AATTAAAATATAAAGTAAAT-GACTA
1 AAATAAAATATAAAGTAAATGGAATA
44802 AAATAAAATATA
1 AAATAAAATATA
44814 TCATAAGATT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
25 18 0.56
26 14 0.44
ACGTcount: A:0.66, C:0.02, G:0.08, T:0.24
Consensus pattern (26 bp):
AAATAAAATATAAAGTAAATGGAATA
Found at i:46288 original size:18 final size:19
Alignment explanation
Indices: 46253--46288 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
46243 GATACACTTT
46253 GATTTAATTTTATTTAAAA
1 GATTTAATTTTATTTAAAA
*
46272 GATTTTATTTT-TTTAAA
1 GATTTAATTTTATTTAAA
46289 TATGATATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (19 bp):
GATTTAATTTTATTTAAAA
Found at i:46532 original size:6 final size:7
Alignment explanation
Indices: 46515--46540 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
46505 TTCTCCTTTC
46515 TTTTTAA
1 TTTTTAA
46522 TTTTTAA
1 TTTTTAA
46529 TTTTTAA
1 TTTTTAA
46536 TTTTT
1 TTTTT
46541 CCTAATATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (7 bp):
TTTTTAA
Found at i:47223 original size:16 final size:15
Alignment explanation
Indices: 47204--47245 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
47194 TGTTAGTATT
47204 TTATTTAATTATTGTA
1 TTATTTAATT-TTGTA
*
47220 TTATTTAATTTTTTA
1 TTATTTAATTTTGTA
*
47235 TTATTTTATTT
1 TTATTTAATTT
47246 AATTATTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 14 0.58
16 10 0.42
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.71
Consensus pattern (15 bp):
TTATTTAATTTTGTA
Found at i:47235 original size:20 final size:21
Alignment explanation
Indices: 47212--47257 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
47202 TTTTATTTAA
*
47212 TTATTGTATTATTTAATT-TT
1 TTATTATATTATTTAATTATT
*
47232 TTATTATTTTATTTAATTATT
1 TTATTATATTATTTAATTATT
47253 TTATT
1 TTATT
47258 TTTTTGCAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 16 0.70
21 7 0.30
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (21 bp):
TTATTATATTATTTAATTATT
Found at i:47261 original size:20 final size:20
Alignment explanation
Indices: 47220--47261 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
47210 AATTATTGTA
47220 TTATTTAATTTTTTATTATT
1 TTATTTAATTTTTTATTATT
47240 TTATTTAATTATTTTATT-TT
1 TTATTTAATT-TTTTATTATT
47260 TT
1 TT
47262 TGCAGTTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (20 bp):
TTATTTAATTTTTTATTATT
Found at i:47529 original size:15 final size:15
Alignment explanation
Indices: 47509--47538 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
47499 TTATAACTGC
47509 AAAAAATAAAATAAT
1 AAAAAATAAAATAAT
47524 AAAAAATAAAATAAT
1 AAAAAATAAAATAAT
47539 TAATACAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (15 bp):
AAAAAATAAAATAAT
Found at i:48635 original size:22 final size:20
Alignment explanation
Indices: 48603--48658 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 20
48593 TTACCAATCA
48603 TATAATTTTAAATTAAAAAT
1 TATAATTTTAAATTAAAAAT
*
48623 TATAATATCTTAACTT-AAAAT
1 TATAAT-T-TTAAATTAAAAAT
*
48644 T-T-ACTTTAAATTAAA
1 TATAATTTTAAATTAAA
48659 TCGTACTATA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
17 6 0.20
18 3 0.10
19 1 0.03
20 7 0.23
21 7 0.23
22 6 0.20
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (20 bp):
TATAATTTTAAATTAAAAAT
Found at i:48982 original size:20 final size:19
Alignment explanation
Indices: 48957--49021 Score: 51
Period size: 20 Copynumber: 3.3 Consensus size: 19
48947 GATCGATAAT
48957 TCGCAACGCGATCTCCGATA
1 TCGCAACGCGAT-TCCGATA
** *
48977 TCGCAAATCAATTTCCAGAT-
1 TCGCAACGCGA-TTCC-GATA
*
48997 TCGCAACGCGATTCTGACTA
1 TCGCAACGCGATTCCGA-TA
49017 TCGCA
1 TCGCA
49022 TTGCGATTTC
Statistics
Matches: 34, Mismatches: 7, Indels: 8
0.69 0.14 0.16
Matches are distributed among these distances:
18 2 0.06
19 4 0.12
20 24 0.71
21 4 0.12
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.25
Consensus pattern (19 bp):
TCGCAACGCGATTCCGATA
Found at i:49051 original size:21 final size:21
Alignment explanation
Indices: 49022--49061 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
49012 GACTATCGCA
*
49022 TTGCGATTTCCCAAATTCGTG
1 TTGCAATTTCCCAAATTCGTG
* *
49043 TTGCAATTTTCCTAATTCG
1 TTGCAATTTCCCAAATTCG
49062 CAACGCGAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.20, C:0.23, G:0.15, T:0.42
Consensus pattern (21 bp):
TTGCAATTTCCCAAATTCGTG
Found at i:49084 original size:20 final size:20
Alignment explanation
Indices: 49059--49151 Score: 134
Period size: 20 Copynumber: 4.7 Consensus size: 20
49049 TTTTCCTAAT
*
49059 TCGCAACGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
49079 TCGCAACGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
49099 TCGCAATGCGAATTA-GAAAA
1 TCGCAATGCGAA-TACGTAAA
*
49119 TCGTAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
49139 TCGCAATGCGAAT
1 TCGCAATGCGAAT
49152 CTGACTATCG
Statistics
Matches: 66, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
19 2 0.03
20 62 0.94
21 2 0.03
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.19
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:49167 original size:40 final size:40
Alignment explanation
Indices: 49059--49169 Score: 136
Period size: 40 Copynumber: 2.8 Consensus size: 40
49049 TTTTCCTAAT
* * *
49059 TCGCAACGCGAA-TACGTAAATCGCAACGCGAATACGTAAA
1 TCGCAATGCGAATTA-GAAAATCGCAATGCGAATACGTAAA
*
49099 TCGCAATGCGAATTAGAAAATCGTAATGCGAATACGTAAA
1 TCGCAATGCGAATTAGAAAATCGCAATGCGAATACGTAAA
**
49139 TCGCAATGCGAATCT-GACTATCGCAATGCGA
1 TCGCAATGCGAAT-TAGAAAATCGCAATGCGA
49170 TTTACATAGC
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
40 59 0.95
41 3 0.05
ACGTcount: A:0.38, C:0.22, G:0.21, T:0.20
Consensus pattern (40 bp):
TCGCAATGCGAATTAGAAAATCGCAATGCGAATACGTAAA
Found at i:49721 original size:20 final size:19
Alignment explanation
Indices: 49696--49800 Score: 85
Period size: 20 Copynumber: 5.6 Consensus size: 19
49686 TTCTAAACTT
49696 AAAATCGCAACATGAAAATG
1 AAAATCGCAACA-GAAAATG
49716 AAAATCGCAACACGAAAATG
1 AAAATCGCAACA-GAAAATG
**
49736 ACTATCGCAACGAGAGAAATG
1 AAAATCGCAAC-AGA-AAATG
*
49757 AAAATCACAAC-G---A-G
1 AAAATCGCAACAGAAAATG
* * *
49771 AGAATCGCAACGGGAAATG
1 AAAATCGCAACAGAAAATG
49790 AAAATCGCAAC
1 AAAATCGCAAC
49801 GCGAAACCAA
Statistics
Matches: 69, Mismatches: 9, Indels: 15
0.74 0.10 0.16
Matches are distributed among these distances:
14 10 0.14
15 2 0.03
18 1 0.01
19 12 0.17
20 30 0.43
21 14 0.20
ACGTcount: A:0.50, C:0.19, G:0.19, T:0.11
Consensus pattern (19 bp):
AAAATCGCAACAGAAAATG
Found at i:49797 original size:19 final size:19
Alignment explanation
Indices: 49696--49817 Score: 74
Period size: 20 Copynumber: 6.5 Consensus size: 19
49686 TTCTAAACTT
* *
49696 AAAATCGCAACATGAAAATG
1 AAAATCGCAAC-GGGAAATG
* *
49716 AAAATCGCAACACGAAAATG
1 AAAATCGCAAC-GGGAAATG
**
49736 ACTATCGCAACGAGAGAAATG
1 AAAATCGCAACG-G-GAAATG
*
49757 AAAATCACAAC--G--A-G
1 AAAATCGCAACGGGAAATG
*
49771 AGAATCGCAACGGGAAATG
1 AAAATCGCAACGGGAAATG
* **
49790 AAAATCGCAACGCGAAACC
1 AAAATCGCAACGGGAAATG
49809 AAAATCGCA
1 AAAATCGCA
49818 TTGCGATTTT
Statistics
Matches: 81, Mismatches: 14, Indels: 15
0.74 0.13 0.14
Matches are distributed among these distances:
14 10 0.12
15 1 0.01
16 1 0.01
17 1 0.01
18 1 0.01
19 25 0.31
20 29 0.36
21 13 0.16
ACGTcount: A:0.50, C:0.20, G:0.19, T:0.11
Consensus pattern (19 bp):
AAAATCGCAACGGGAAATG
Found at i:49835 original size:19 final size:19
Alignment explanation
Indices: 49813--49930 Score: 137
Period size: 19 Copynumber: 6.1 Consensus size: 19
49803 GAAACCAAAA
*
49813 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
49832 TCGCGTTGCGATTTTAATT
1 TCGCGTTGCGATTTTCATT
49851 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* **
49870 TCGCATTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
**
49889 TCCGCGTTGCGATAGTCATT
1 T-CGCGTTGCGATTTTCATT
* *
49909 CTCTCGTTGCGATTTTTATT
1 -TCGCGTTGCGATTTTCATT
49929 TC
1 TC
49931 AACCAAAAGA
Statistics
Matches: 86, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
19 54 0.63
20 31 0.36
21 1 0.01
ACGTcount: A:0.14, C:0.21, G:0.19, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:50915 original size:95 final size:96
Alignment explanation
Indices: 50752--50946 Score: 383
Period size: 95 Copynumber: 2.0 Consensus size: 96
50742 TCAGGCTTTG
50752 TTGGGCCTTTAAGGTAAGAATTTCTATATAATGTTTTCAAAATTATAATTAATTATTTAACAATT
1 TTGGGCCTTTAAGGTAAGAATTTCTATATAATGTTTTCAAAATTATAATTAATTATTTAACAATT
50817 ACTAA-TTTTGTTATTATATTGTTTGTAGAT
66 ACTAATTTTTGTTATTATATTGTTTGTAGAT
50847 TTGGGCCTTTAAGGTAAGAATTTCTATATAATGTTTTCAAAATTATAATTAATTATTTAACAATT
1 TTGGGCCTTTAAGGTAAGAATTTCTATATAATGTTTTCAAAATTATAATTAATTATTTAACAATT
50912 ACTAATTTTTGTTATTATATTGTTTGTAGAT
66 ACTAATTTTTGTTATTATATTGTTTGTAGAT
50943 TTGG
1 TTGG
50947 ATATTTGAGG
Statistics
Matches: 99, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
95 70 0.71
96 29 0.29
ACGTcount: A:0.33, C:0.06, G:0.12, T:0.49
Consensus pattern (96 bp):
TTGGGCCTTTAAGGTAAGAATTTCTATATAATGTTTTCAAAATTATAATTAATTATTTAACAATT
ACTAATTTTTGTTATTATATTGTTTGTAGAT
Found at i:51932 original size:94 final size:94
Alignment explanation
Indices: 51719--52091 Score: 564
Period size: 94 Copynumber: 4.1 Consensus size: 94
51709 TAGATTGCTT
* *
51719 AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAAC--TGT-TT-ATTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
* **
51780 ATTTGTCTTT-TGTTAACTTTTGGTTG-A
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
51807 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
51872 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
* *
51901 AATAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
51966 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
* * * * * * *
51995 AGTAAATTTGTTCGTTTGCTGTC-ATTCTGCTAAACTGTGTGTTATTTAATACTCTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
52059 ATTTGTCTTTGTTTTGTCTTTTGGTTG-A
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
52087 AGTAA
1 AGTAA
52092 TGCAATCCAT
Statistics
Matches: 265, Mismatches: 14, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
88 35 0.13
90 3 0.01
91 2 0.01
92 35 0.13
93 77 0.29
94 113 0.43
ACGTcount: A:0.22, C:0.12, G:0.19, T:0.47
Consensus pattern (94 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:52055 original size:187 final size:182
Alignment explanation
Indices: 51721--52087 Score: 556
Period size: 187 Copynumber: 2.0 Consensus size: 182
51711 GATTGCTTAG
51721 TAAATTTATTCGGTTGCTGCCAATACTGCTAAACTGTTTATTAACACTGTGAAGTTAGTATTTGT
1 TAAATTTATTCGGTTGCTGCCAATACTGCTAAACTGTTTATTAACACTGTGAAGTTAGTATTTGT
51786 CTTTTGTTAACTTTTGGTTGAAGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATT
66 CTTTTGTTAACTTTTGGTTGAAGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATT
* *
51851 CTTTAACACTGTGAAGTTAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAAAA
131 ATTTAACACTCTGAAGTTAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAAAA
* * *
51903 TAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGTAT
1 TAAATTTATTCGGTTGCTGCCAATACTGCTAAAC--TGT-TT-ATTAACACTGTGAAGTTAGTAT
* ** * * *
51968 TTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGTTTGCTGTC-ATTCTGCTAAACTG
62 TTGTCTTT-TGTTAACTTTTGGTTG-AAGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTG
* *
52032 TGTGTTATTTAATACTCTGAAGTTAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
125 TGTATTATTTAACACTCTGAAGTTAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
52088 GTAATGCAAT
Statistics
Matches: 166, Mismatches: 13, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
182 32 0.19
184 3 0.02
185 2 0.01
186 29 0.17
187 79 0.48
188 21 0.13
ACGTcount: A:0.22, C:0.12, G:0.19, T:0.47
Consensus pattern (182 bp):
TAAATTTATTCGGTTGCTGCCAATACTGCTAAACTGTTTATTAACACTGTGAAGTTAGTATTTGT
CTTTTGTTAACTTTTGGTTGAAGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATT
ATTTAACACTCTGAAGTTAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAAAA
Found at i:52209 original size:20 final size:20
Alignment explanation
Indices: 52184--52245 Score: 90
Period size: 20 Copynumber: 3.1 Consensus size: 20
52174 TTTTGGTTGA
*
52184 AATGAAAATCGAAACGAGAG
1 AATGAAAATCGCAACGAGAG
*
52204 AATGAAAATCGCAACGCGA-
1 AATGAAAATCGCAACGAGAG
*
52223 AACGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
52243 AAT
1 AAT
52246 CGCAACGCGA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
19 17 0.47
20 19 0.53
ACGTcount: A:0.52, C:0.16, G:0.23, T:0.10
Consensus pattern (20 bp):
AATGAAAATCGCAACGAGAG
Found at i:52247 original size:33 final size:33
Alignment explanation
Indices: 52208--52345 Score: 141
Period size: 33 Copynumber: 3.9 Consensus size: 33
52198 CGAGAGAATG
*
52208 AAAATCGCAACGCGAAACGAAAATCGCAACGAG
1 AAAATCGCAACGCGAAACGAAAATCGCAACGAC
* * *
52241 AGAATCGCAACGCGAAATGAAAATCGTAACGAC
1 AAAATCGCAACGCGAAACGAAAATCGCAACGAC
* *
52274 AAAATCGCAACGCGAAACCAAAAAGCGCAACGCGAAACC
1 AAAATCGCAACGCGAAA-CGAAAATCGCAA--CG--A-C
*
52313 AAAAATCGCAACGCGAAACCAAAAATCGCAACG
1 -AAAATCGCAACGCGAAA-CGAAAATCGCAACG
52346 CGAAACTATA
Statistics
Matches: 88, Mismatches: 10, Indels: 9
0.82 0.09 0.08
Matches are distributed among these distances:
33 45 0.51
34 8 0.09
36 2 0.02
38 3 0.03
39 1 0.01
40 29 0.33
ACGTcount: A:0.49, C:0.26, G:0.19, T:0.07
Consensus pattern (33 bp):
AAAATCGCAACGCGAAACGAAAATCGCAACGAC
Found at i:52297 original size:20 final size:20
Alignment explanation
Indices: 52274--52351 Score: 147
Period size: 20 Copynumber: 3.9 Consensus size: 20
52264 TCGTAACGAC
52274 AAAATCGCAACGCGAAACCA
1 AAAATCGCAACGCGAAACCA
*
52294 AAAAGCGCAACGCGAAACCA
1 AAAATCGCAACGCGAAACCA
52314 AAAATCGCAACGCGAAACCA
1 AAAATCGCAACGCGAAACCA
52334 AAAATCGCAACGCGAAAC
1 AAAATCGCAACGCGAAAC
52352 TATAATCGCG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 56 1.00
ACGTcount: A:0.50, C:0.29, G:0.17, T:0.04
Consensus pattern (20 bp):
AAAATCGCAACGCGAAACCA
Found at i:52900 original size:21 final size:21
Alignment explanation
Indices: 52876--52942 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
52866 TCATTCCTCG
52876 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
52897 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
52918 AGATGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
52939 AGAG
1 AGAG
52943 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.19, T:0.21
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:54296 original size:14 final size:14
Alignment explanation
Indices: 54277--54313 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
54267 TTATTGTTTA
54277 ATGATTTGTAAAAG
1 ATGATTTGTAAAAG
54291 ATGATTTGTAAAAG
1 ATGATTTGTAAAAG
*
54305 TTGATTTGT
1 ATGATTTGT
54314 TTAATTGATG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.35, C:0.00, G:0.22, T:0.43
Consensus pattern (14 bp):
ATGATTTGTAAAAG
Found at i:54436 original size:19 final size:19
Alignment explanation
Indices: 54420--54466 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
54410 AAAAATGACT
54420 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
54439 ATCGCAACGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
54458 ATCGCAATG
1 ATCGCAATG
54467 ACAAAATCGC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.45, C:0.19, G:0.21, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:54519 original size:19 final size:18
Alignment explanation
Indices: 54497--54588 Score: 74
Period size: 19 Copynumber: 5.4 Consensus size: 18
54487 TAAATTCACA
54497 TTGCGATTTTCATTTCGC
1 TTGCGATTTTCATTTCGC
**
54515 TTTGCGA--TTC-CCTCG-
1 -TTGCGATTTTCATTTCGC
54530 TTGCGATTTTCATTTCGC
1 TTGCGATTTTCATTTCGC
*
54548 ATTGCGA--TTC-TCTCG-
1 -TTGCGATTTTCATTTCGC
54563 TTGCGATTTTCATTTCGC
1 TTGCGATTTTCATTTCGC
54581 ATTGCGAT
1 -TTGCGAT
54589 AGTTATTTCC
Statistics
Matches: 57, Mismatches: 6, Indels: 20
0.69 0.07 0.24
Matches are distributed among these distances:
14 12 0.21
16 13 0.23
17 13 0.23
19 19 0.33
ACGTcount: A:0.12, C:0.24, G:0.18, T:0.46
Consensus pattern (18 bp):
TTGCGATTTTCATTTCGC
Found at i:54539 original size:33 final size:33
Alignment explanation
Indices: 54497--54588 Score: 166
Period size: 33 Copynumber: 2.8 Consensus size: 33
54487 TAAATTCACA
*
54497 TTGCGATTTTCATTTCGCTTTGCGATTCCCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCCCTCG
*
54530 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCCCTCG
54563 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
54589 AGTTATTTCC
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.12, C:0.24, G:0.18, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTCCCTCG
Found at i:54607 original size:20 final size:20
Alignment explanation
Indices: 54561--54610 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
54551 GCGATTCTCT
*
54561 CGTTGCGAT-TTTCATTTCG
1 CGTTGCGATAGTTCATTTCG
*
54580 CATTGCGATAGTT-ATTTCCG
1 CGTTGCGATAGTTCATTT-CG
54600 CGTTGCGATAG
1 CGTTGCGATAG
54611 ACATTAAGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
19 12 0.46
20 14 0.54
ACGTcount: A:0.16, C:0.20, G:0.24, T:0.40
Consensus pattern (20 bp):
CGTTGCGATAGTTCATTTCG
Found at i:57978 original size:20 final size:20
Alignment explanation
Indices: 57951--58030 Score: 119
Period size: 20 Copynumber: 4.1 Consensus size: 20
57941 TCGTTGCAAT
57951 TTAC-TAAATCGCAATGCGA
1 TTACGTAAATCGCAATGCGA
*
57970 TTACGTAAATCGCAATGAGA
1 TTACGTAAATCGCAATGCGA
57990 TTACGTAAATCGCAATGCGA
1 TTACGTAAATCGCAATGCGA
* *
58010 ATACGT-AATCGCATTGCGA
1 TTACGTAAATCGCAATGCGA
58029 TT
1 TT
58031 TTCCTAATTC
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
19 17 0.31
20 38 0.69
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.28
Consensus pattern (20 bp):
TTACGTAAATCGCAATGCGA
Found at i:58048 original size:21 final size:21
Alignment explanation
Indices: 58023--58073 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
58013 CGTAATCGCA
58023 TTGCGATTTTCCTAATTCGTT
1 TTGCGATTTTCCTAATTCGTT
58044 TTGCGATTTTCCTAATTCGTT
1 TTGCGATTTTCCTAATTCGTT
58065 TTGCGATTT
1 TTGCGATTT
58074 ACGTATTCGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.14, C:0.18, G:0.16, T:0.53
Consensus pattern (21 bp):
TTGCGATTTTCCTAATTCGTT
Found at i:58088 original size:20 final size:21
Alignment explanation
Indices: 57944--58105 Score: 111
Period size: 20 Copynumber: 8.0 Consensus size: 21
57934 CAGAATCTCG
*
57944 TTGCAATTTAC-TAAATCGCA
1 TTGCGATTTACGTAAATCGCA
*
57964 ATGCGA-TTACGTAAATCGCA
1 TTGCGATTTACGTAAATCGCA
* *
57984 ATGAGA-TTACGTAAATCGCA
1 TTGCGATTTACGTAAATCGCA
* *
58004 ATGCGA-ATACGT-AATCGCA
1 TTGCGATTTACGTAAATCGCA
* * * **
58023 TTGCGATTTTCCTAATTCGTT
1 TTGCGATTTACGTAAATCGCA
* * * **
58044 TTGCGATTTTCCTAATTCGTT
1 TTGCGATTTACGTAAATCGCA
*
58065 TTGCGATTTACGT-ATTCGCA
1 TTGCGATTTACGTAAATCGCA
* *
58085 TTGCGATTTAGGAAAATCGCA
1 TTGCGATTTACGTAAATCGCA
58106 ACGCGAATTT
Statistics
Matches: 119, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
19 16 0.13
20 61 0.51
21 42 0.35
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (21 bp):
TTGCGATTTACGTAAATCGCA
Found at i:58120 original size:22 final size:21
Alignment explanation
Indices: 58090--58132 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
58080 TCGCATTGCG
58090 ATTTAGGAAAATCGCAACGCGA
1 ATTTAGG-AAATCGCAACGCGA
* *
58112 ATTTGGGAAATCGCAATGCGA
1 ATTTAGGAAATCGCAACGCGA
58133 TAGTCAGAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.37, C:0.16, G:0.26, T:0.21
Consensus pattern (21 bp):
ATTTAGGAAATCGCAACGCGA
Found at i:60373 original size:14 final size:16
Alignment explanation
Indices: 60335--60366 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
60325 CGTGTTCTTA
60335 TATTTAAAA-AAAAAT
1 TATTTAAAATAAAAAT
60350 TATTTAAAATAAAAAT
1 TATTTAAAATAAAAAT
60366 T
1 T
60367 TTAAAATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
TATTTAAAATAAAAAT
Found at i:61759 original size:21 final size:23
Alignment explanation
Indices: 61733--61779 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
61723 GTACATTATC
*
61733 TTTTATT-AA-AATTATAATATA
1 TTTTATTGAAGAATAATAATATA
*
61754 TTTTATTGAAGAATAATAATTTA
1 TTTTATTGAAGAATAATAATATA
61777 TTT
1 TTT
61780 AAACAAATAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 7 0.32
22 2 0.09
23 13 0.59
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (23 bp):
TTTTATTGAAGAATAATAATATA
Found at i:62615 original size:19 final size:19
Alignment explanation
Indices: 62578--62616 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
62568 GTTTTATTGA
*
62578 ATTTAATTTTATAAAATTT
1 ATTTAATTTGATAAAATTT
62597 ATTTAA-TTGATAAATATTT
1 ATTTAATTTGATAAA-ATTT
62616 A
1 A
62617 ATATAATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (19 bp):
ATTTAATTTGATAAAATTT
Found at i:63504 original size:16 final size:17
Alignment explanation
Indices: 63483--63517 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
63473 GAATACTACA
*
63483 TTCAATTTTATA-AAAT
1 TTCAATTTGATACAAAT
63499 TTCAATTTGATACAAAT
1 TTCAATTTGATACAAAT
63516 TT
1 TT
63518 TAACTTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.40, C:0.09, G:0.03, T:0.49
Consensus pattern (17 bp):
TTCAATTTGATACAAAT
Found at i:65358 original size:157 final size:153
Alignment explanation
Indices: 65084--65507 Score: 517
Period size: 157 Copynumber: 2.7 Consensus size: 153
65074 TATATGTTCA
** * * *
65084 TATTTGAAATTTACATGGGAATCCGAATAATATAATCTTTTCACATGATGAACTTTTCCTGCCTT
1 TATTTGAAATTTACATTCGAATCCGAATAATATAATCTTTTAACATGATGAACTTTTCTTGGCTT
* *
65149 GTTAGGTGATGGTCCTATGCACTAATCTATGCATACTTATCCCTAGTTTTTTTCCCCATATGTAT
66 GTTAGGTGATGGTCCTATGCACTAATCTATGC-TACTTATCCCTAGTATTTTT---CATATGAAT
65214 ATAAAACTAAAT-TTGAATACATAATCG
127 ATAAAACTAAATCTT-AATACATAATCG
* * * * *
65241 TATTTAAAATTTACATTCAAATTCGAATGATATAATCTTTTGACATGATGAACTTTTCTTGGCTT
1 TATTTGAAATTTACATTCGAATCCGAATAATATAATCTTTTAACATGATGAACTTTTCTTGGCTT
* * * * *
65306 GTTAGGTTATGATCCTATGCAGTAATCTATGCTACTAATCCCTAGTAATTTTTTATATGAATATA
66 GTTAGGTGATGGTCCTATGCACTAATCTATGCTACTTATCCCTAGT-ATTTTTCATATGAATATA
* * * **
65371 AAATTACATCTTAATACATATTTT
130 AAACTAAATCTTAATACATAATCG
* ** *
65395 TATTTGAATTTTATGTTCGAATCCGAATAATATAATCTTTTTAACATGATGAATTTTTCTTGGCT
1 TATTTGAAATTTACATTCGAATCCGAATAATATAATC-TTTTAACATGATGAACTTTTCTTGGCT
* *
65460 TGTTAAGTGATGGTCCTAATGCACTGATCTATGCTACTTATCCCTAGT
65 TGTTAGGTGATGGTCCT-ATGCACTAATCTATGCTACTTATCCCTAGT
65508 TTAGGTGAAT
Statistics
Matches: 227, Mismatches: 36, Indels: 9
0.83 0.13 0.03
Matches are distributed among these distances:
154 56 0.25
155 41 0.18
156 40 0.18
157 90 0.40
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.42
Consensus pattern (153 bp):
TATTTGAAATTTACATTCGAATCCGAATAATATAATCTTTTAACATGATGAACTTTTCTTGGCTT
GTTAGGTGATGGTCCTATGCACTAATCTATGCTACTTATCCCTAGTATTTTTCATATGAATATAA
AACTAAATCTTAATACATAATCG
Found at i:67485 original size:16 final size:18
Alignment explanation
Indices: 67464--67497 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
67454 TCCTTAAACT
67464 ATGATTT-T-ATTTTAAA
1 ATGATTTGTAATTTTAAA
67480 ATGATTTGTAATTTTAAA
1 ATGATTTGTAATTTTAAA
67498 TATTTTAGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 1 0.06
18 8 0.50
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (18 bp):
ATGATTTGTAATTTTAAA
Found at i:67823 original size:60 final size:59
Alignment explanation
Indices: 67738--67914 Score: 196
Period size: 60 Copynumber: 3.0 Consensus size: 59
67728 TATATTGATG
* * * * ** *
67738 GTTTGGGATGAAATTGAAATGTTCAAAAGTTTGGGGATCAATTTAGAATTAGGGTTATA
1 GTTTGAGATGAAATTAAAATGTTCAAAAGTTTGAGGATCAATTTAGAATGAGAATCATA
* *
67797 GTTTTGAGATGAAATTAAAATTTTCAAAAGGTTGAGGA-C-ATTTAGAATGAGAATCATA
1 G-TTTGAGATGAAATTAAAATGTTCAAAAGTTTGAGGATCAATTTAGAATGAGAATCATA
* * * * *
67855 GTTTGAGGATGAAACTAAAATGTTCAAAAGTTTAAGGATCAATTTAAAATAAAAATCATA
1 GTTTGA-GATGAAATTAAAATGTTCAAAAGTTTGAGGATCAATTTAGAATGAGAATCATA
67915 ATTTATGTAA
Statistics
Matches: 98, Mismatches: 16, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
57 5 0.05
58 43 0.44
59 3 0.03
60 47 0.48
ACGTcount: A:0.41, C:0.05, G:0.21, T:0.33
Consensus pattern (59 bp):
GTTTGAGATGAAATTAAAATGTTCAAAAGTTTGAGGATCAATTTAGAATGAGAATCATA
Found at i:68465 original size:23 final size:24
Alignment explanation
Indices: 68421--68477 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 24
68411 ACACATTTAT
68421 GAACATATAAACGAACACGTTCGC
1 GAACATATAAACGAACACGTTCGC
* * * *
68445 GAACAT-TATACGAATATGTTCGT
1 GAACATATAAACGAACACGTTCGC
68468 GAACA-ATAAA
1 GAACATATAAA
68478 TAGACGAACA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
23 21 0.78
24 6 0.22
ACGTcount: A:0.44, C:0.18, G:0.16, T:0.23
Consensus pattern (24 bp):
GAACATATAAACGAACACGTTCGC
Found at i:70380 original size:5 final size:5
Alignment explanation
Indices: 70370--70400 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
70360 TATTATTATT
70370 TCGGG TCGGG TCGGG TCGGG TCGGG TCGGG T
1 TCGGG TCGGG TCGGG TCGGG TCGGG TCGGG T
70401 TTCTAAGTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.00, C:0.19, G:0.58, T:0.23
Consensus pattern (5 bp):
TCGGG
Found at i:71550 original size:19 final size:19
Alignment explanation
Indices: 71515--71553 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
71505 CCATTCAAAA
*
71515 TAAAAAATAATTATAATAT
1 TAAAAAATAATCATAATAT
71534 TAAAAAAT-ATCATTAATAT
1 TAAAAAATAATCA-TAATAT
71553 T
1 T
71554 TGATTAAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 3 0.17
19 15 0.83
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (19 bp):
TAAAAAATAATCATAATAT
Found at i:76333 original size:17 final size:17
Alignment explanation
Indices: 76291--76333 Score: 65
Period size: 14 Copynumber: 2.7 Consensus size: 17
76281 ATTTTTTCCT
76291 TCACTTTTCATATTAAA
1 TCACTTTTCATATTAAA
76308 TCA---TTCATATTAAA
1 TCACTTTTCATATTAAA
76322 TCACTTTTCATA
1 TCACTTTTCATA
76334 CTAGAATGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
14 14 0.61
17 9 0.39
ACGTcount: A:0.35, C:0.19, G:0.00, T:0.47
Consensus pattern (17 bp):
TCACTTTTCATATTAAA
Found at i:76573 original size:15 final size:15
Alignment explanation
Indices: 76553--76583 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
76543 TAACAGATAG
76553 AATTTTTATATAAAT
1 AATTTTTATATAAAT
*
76568 AATTTTTATTTAAAT
1 AATTTTTATATAAAT
76583 A
1 A
76584 TTTAGAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
AATTTTTATATAAAT
Found at i:76738 original size:18 final size:19
Alignment explanation
Indices: 76715--76791 Score: 95
Period size: 20 Copynumber: 4.0 Consensus size: 19
76705 TACAGTAATC
* *
76715 TTATTCC-CTGGTAATATT
1 TTATTCCACTGATAATCTT
76733 TTATTCCCACTGATAATCTT
1 TTATT-CCACTGATAATCTT
76753 TTATTCTCACTGATAATCTT
1 TTATTC-CACTGATAATCTT
76773 TTATTCCCACT-ATAATCTT
1 TTATT-CCACTGATAATCTT
76792 ACATTCAGTA
Statistics
Matches: 53, Mismatches: 2, Indels: 7
0.85 0.03 0.11
Matches are distributed among these distances:
18 5 0.09
19 11 0.21
20 36 0.68
21 1 0.02
ACGTcount: A:0.25, C:0.22, G:0.05, T:0.48
Consensus pattern (19 bp):
TTATTCCACTGATAATCTT
Found at i:76797 original size:19 final size:20
Alignment explanation
Indices: 76726--76791 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
76716 TATTCCCTGG
*
76726 TAATATTTTATTCCCACTGA
1 TAATCTTTTATTCCCACTGA
*
76746 TAATCTTTTATTCTCACTGA
1 TAATCTTTTATTCCCACTGA
76766 TAATCTTTTATTCCCACT-A
1 TAATCTTTTATTCCCACTGA
76785 TAATCTT
1 TAATCTT
76792 ACATTCAGTA
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
19 8 0.19
20 35 0.81
ACGTcount: A:0.27, C:0.21, G:0.03, T:0.48
Consensus pattern (20 bp):
TAATCTTTTATTCCCACTGA
Found at i:79069 original size:14 final size:14
Alignment explanation
Indices: 79050--79085 Score: 72
Period size: 14 Copynumber: 2.6 Consensus size: 14
79040 AGAACCCAAT
79050 CAATCACCAACTTA
1 CAATCACCAACTTA
79064 CAATCACCAACTTA
1 CAATCACCAACTTA
79078 CAATCACC
1 CAATCACC
79086 TTCCACTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.39, G:0.00, T:0.19
Consensus pattern (14 bp):
CAATCACCAACTTA
Found at i:106027 original size:17 final size:17
Alignment explanation
Indices: 106007--106041 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
105997 GTCAAAAAAG
*
106007 TTAATAAAGTATAACCA
1 TTAATAAAGCATAACCA
106024 TTAATAAAGCATAACCA
1 TTAATAAAGCATAACCA
106041 T
1 T
106042 ATAAATCGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.51, C:0.14, G:0.06, T:0.29
Consensus pattern (17 bp):
TTAATAAAGCATAACCA
Found at i:114145 original size:15 final size:15
Alignment explanation
Indices: 114133--114164 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
114123 GAGGCTACTT
114133 ATAGTGAGCCTACGC
1 ATAGTGAGCCTACGC
114148 ATAGTGAGCCTACGC
1 ATAGTGAGCCTACGC
114163 AT
1 AT
114165 TCATGTTCTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.28, C:0.25, G:0.25, T:0.22
Consensus pattern (15 bp):
ATAGTGAGCCTACGC
Found at i:116879 original size:57 final size:60
Alignment explanation
Indices: 116784--116904 Score: 151
Period size: 57 Copynumber: 2.1 Consensus size: 60
116774 AAATAAATGG
* * *
116784 TTTAGATTATAGGTGTTATTTAATTGAGTCATTTAATTATTAAAAT-TTATAAAATAATTT
1 TTTAGATTATACGTGTTATTTAATTGAGTCATTCAATTATT-AAATGTTATAAAATAATTA
* * *
116844 TTTAG-TTATACGTGTT-TTT-GTTGAGTTATTCAATTATTAAATGTTATAAAATGATTA
1 TTTAGATTATACGTGTTATTTAATTGAGTCATTCAATTATTAAATGTTATAAAATAATTA
116901 TTTA
1 TTTA
116905 TATATTTTAA
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
56 4 0.07
57 32 0.59
58 3 0.06
59 10 0.19
60 5 0.09
ACGTcount: A:0.35, C:0.02, G:0.12, T:0.51
Consensus pattern (60 bp):
TTTAGATTATACGTGTTATTTAATTGAGTCATTCAATTATTAAATGTTATAAAATAATTA
Found at i:123549 original size:20 final size:21
Alignment explanation
Indices: 123524--123616 Score: 100
Period size: 21 Copynumber: 4.5 Consensus size: 21
123514 TTTTCCCAAT
*
123524 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
123544 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
*
123565 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
123585 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
123606 TCGCAATGCGA
1 TCGCAATGCGA
123617 TACTTACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 27 0.47
21 31 0.53
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:123569 original size:41 final size:41
Alignment explanation
Indices: 123524--123616 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
123514 TTTTCCCAAT
123524 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
123565 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
123606 TCGCAATGCGA
1 TCGCAATGCGA
123617 TACTTACTAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
Found at i:123629 original size:41 final size:41
Alignment explanation
Indices: 123543--123677 Score: 148
Period size: 41 Copynumber: 3.3 Consensus size: 41
123533 GAATAAGTAA
** *
123543 ATCGCAACGCGAATTGGGAAAATCGCAATGCGAATAAGTA-A
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCG-ATACTTACT
123584 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTTACT
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTTACT
* * ** * *
123625 ATCGCAATGCGATAAT-ACAAAATCGCAACGAGATACTTACT
1 ATCGCAACGCGA-ATTGGGAAAATCGCAATGCGATACTTACT
*
123666 TTCGCAACGCGA
1 ATCGCAACGCGA
123678 TACTGACTTT
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
40 5 0.06
41 74 0.91
42 2 0.02
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.20
Consensus pattern (41 bp):
ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTTACT
Found at i:123630 original size:20 final size:20
Alignment explanation
Indices: 123605--123698 Score: 91
Period size: 20 Copynumber: 4.7 Consensus size: 20
123595 AATTGGGAAA
*
123605 ATCGCAATGCGATACTTACT
1 ATCGCAACGCGATACTTACT
* * *
123625 ATCGCAATGCGATA-ATACAAA
1 ATCGCAACGCGATACTTAC--T
*
123646 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTTACT
* *
123666 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTTACT
*
123686 TTCGCAACGCGAT
1 ATCGCAACGCGAT
123699 TTAAATAGCG
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
19 3 0.05
20 44 0.71
21 12 0.19
22 3 0.05
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (20 bp):
ATCGCAACGCGATACTTACT
Found at i:124254 original size:19 final size:19
Alignment explanation
Indices: 124216--124282 Score: 80
Period size: 19 Copynumber: 3.5 Consensus size: 19
124206 TTCGAGAATG
124216 AAAATCGCAACGCGGAAATA
1 AAAATCGCAACGC-GAAATA
** *
124236 ACTATCGCAATGCGAAATA
1 AAAATCGCAACGCGAAATA
**
124255 AAAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAATA
124274 AAAATCGCA
1 AAAATCGCA
124283 TTGCGATTTT
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 29 0.74
20 10 0.26
ACGTcount: A:0.48, C:0.24, G:0.16, T:0.12
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATA
Found at i:124300 original size:19 final size:19
Alignment explanation
Indices: 124278--124428 Score: 177
Period size: 19 Copynumber: 8.1 Consensus size: 19
124268 GAAACCAAAA
*
124278 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
124297 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
124316 TCGCGTTGCGATTTTTATT
1 TCGCGTTGCGATTTTCATT
124335 TCGCGGTTGCGATTTTCATT
1 TCGC-GTTGCGATTTTCATT
*
124355 TCGCGTTGCGATTGTC---
1 TCGCGTTGCGATTTTCATT
* **
124371 T-G-GTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
124388 TCGCGTTGCGATTCTCATT
1 TCGCGTTGCGATTTTCATT
*
124407 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
124427 TC
1 TC
124429 AACCAAAAGA
Statistics
Matches: 114, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
14 10 0.09
15 1 0.01
16 1 0.01
17 1 0.01
18 1 0.01
19 65 0.57
20 35 0.31
ACGTcount: A:0.12, C:0.21, G:0.22, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:124355 original size:39 final size:38
Alignment explanation
Indices: 124278--124428 Score: 177
Period size: 39 Copynumber: 4.1 Consensus size: 38
124268 GAAACCAAAA
*
124278 TCGCATTGCGATTTTCATTTCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
*
124316 TCGCGTTGCGATTTTTATTTCGCGGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATTTCGC-GTTGCGATTTTCATT
* * **
124355 TCGCGTTGCGATTGTC---T-G-GTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
* *
124388 TCGCGTTGCGATTCTCATTATCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT-TCGCGTTGCGATTTTCATT
124427 TC
1 TC
124429 AACCAAAAGA
Statistics
Matches: 94, Mismatches: 12, Indels: 13
0.79 0.10 0.11
Matches are distributed among these distances:
33 27 0.29
35 1 0.01
36 1 0.01
37 1 0.01
38 21 0.22
39 43 0.46
ACGTcount: A:0.12, C:0.21, G:0.22, T:0.45
Consensus pattern (38 bp):
TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
Found at i:126491 original size:42 final size:42
Alignment explanation
Indices: 126431--126553 Score: 122
Period size: 42 Copynumber: 2.9 Consensus size: 42
126421 GCCCGACTCG
* * *
126431 CCTATCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * *
126473 CCTATCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * ** * *
126515 ACTGTCATCGTTGAAGAGGTCC-CTCCCACCATTCAAGAG
1 CCTATCATCCCTCAAGA-GTCCACTCCCACCGTTCAAGAG
126554 CCCGATTCAC
Statistics
Matches: 66, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
42 62 0.94
43 4 0.06
ACGTcount: A:0.23, C:0.37, G:0.18, T:0.23
Consensus pattern (42 bp):
CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
Found at i:126511 original size:21 final size:21
Alignment explanation
Indices: 126487--126553 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
126477 TCATTCCTCG
126487 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
126508 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
126529 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
126550 AGAG
1 AGAG
126554 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:128207 original size:17 final size:17
Alignment explanation
Indices: 128185--128226 Score: 84
Period size: 17 Copynumber: 2.5 Consensus size: 17
128175 GAACCGAGCA
128185 TTCATGTCAGTCATAAT
1 TTCATGTCAGTCATAAT
128202 TTCATGTCAGTCATAAT
1 TTCATGTCAGTCATAAT
128219 TTCATGTC
1 TTCATGTC
128227 CCCGATATAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.26, C:0.19, G:0.12, T:0.43
Consensus pattern (17 bp):
TTCATGTCAGTCATAAT
Found at i:128682 original size:12 final size:12
Alignment explanation
Indices: 128665--128689 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
128655 TCTTCGGGGA
128665 CTTTTTCTTCTT
1 CTTTTTCTTCTT
128677 CTTTTTCTTCTT
1 CTTTTTCTTCTT
128689 C
1 C
128690 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:128898 original size:24 final size:24
Alignment explanation
Indices: 128864--128917 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
128854 CTGAAACATC
* *
128864 ATCAAAATCCGTGTATTGACCAAT
1 ATCAAAATCCGGGTATTGACCAAG
*
128888 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGGGTATTGACCAAG
128912 ATCAAA
1 ATCAAA
128918 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (24 bp):
ATCAAAATCCGGGTATTGACCAAG
Found at i:129979 original size:20 final size:20
Alignment explanation
Indices: 129954--130011 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
129944 ATTCATTTGA
129954 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
129974 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
* *
129994 TTATCGCAACGAGAAAAT
1 CTATCGCAACGCGAAAAT
130012 CGCAATGCGA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.17
Consensus pattern (20 bp):
CTATCGCAACGCGAAAATGG
Found at i:130054 original size:14 final size:14
Alignment explanation
Indices: 130035--130092 Score: 71
Period size: 14 Copynumber: 3.8 Consensus size: 14
130025 GAAAATCGCA
130035 TTGCGATTTTCTCG
1 TTGCGATTTTCTCG
130049 TTGCGATTTTCATTTCG
1 TTGCGATTTTC---TCG
130066 CATTGCGATTTTCTCG
1 --TTGCGATTTTCTCG
130082 TTGCGATTTTC
1 TTGCGATTTTC
130093 ATTTCGCATT
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
14 22 0.56
16 3 0.08
17 3 0.08
19 11 0.28
ACGTcount: A:0.10, C:0.21, G:0.19, T:0.50
Consensus pattern (14 bp):
TTGCGATTTTCTCG
Found at i:130054 original size:33 final size:33
Alignment explanation
Indices: 130017--130087 Score: 88
Period size: 33 Copynumber: 2.2 Consensus size: 33
130007 AAAATCGCAA
130017 TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
1 TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
** ** **
130050 TGCGATTTTCATTTCGCATTGCGATTTTCTCGT
1 TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
130083 TGCGA
1 TGCGA
130088 TTTTCATTTC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.20, C:0.20, G:0.21, T:0.39
Consensus pattern (33 bp):
TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
Found at i:130071 original size:19 final size:19
Alignment explanation
Indices: 130030--130126 Score: 106
Period size: 19 Copynumber: 5.6 Consensus size: 19
130020 GAAATGAAAA
130030 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
130046 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
130063 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
130079 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
130096 TCGCATTGCGATTTCCATT
1 TCGCATTGCGATTTTCATT
*
130115 TCGCGTTGCGAT
1 TCGCATTGCGAT
130127 AGTCTGTTTT
Statistics
Matches: 69, Mismatches: 2, Indels: 17
0.78 0.02 0.19
Matches are distributed among these distances:
14 22 0.32
16 6 0.09
17 6 0.09
19 35 0.51
ACGTcount: A:0.12, C:0.23, G:0.20, T:0.45
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:130088 original size:33 final size:33
Alignment explanation
Indices: 130030--130109 Score: 160
Period size: 33 Copynumber: 2.4 Consensus size: 33
130020 GAAATGAAAA
130030 TCGCATTGCGATTTTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCTCGTTGCGATTTTCATT
130063 TCGCATTGCGATTTTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCTCGTTGCGATTTTCATT
130096 TCGCATTGCGATTT
1 TCGCATTGCGATTT
130110 CCATTTCGCG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 47 1.00
ACGTcount: A:0.12, C:0.21, G:0.19, T:0.47
Consensus pattern (33 bp):
TCGCATTGCGATTTTCTCGTTGCGATTTTCATT
Found at i:131451 original size:18 final size:17
Alignment explanation
Indices: 131374--131452 Score: 62
Period size: 14 Copynumber: 4.8 Consensus size: 17
131364 ACCAAGACCG
131374 ATTTCGCGTTGCGATTT-
1 ATTTCGC-TTGCGATTTC
*
131391 -TGTCG-TTGCGATTTC
1 ATTTCGCTTGCGATTTC
*
131406 ATTTCGCGTGGCGATTT-
1 ATTTCGC-TTGCGATTTC
*
131423 -TGTCG-TTGCGATTTC
1 ATTTCGCTTGCGATTTC
131438 ATTTCGCATTGCGAT
1 ATTTCGC-TTGCGAT
131453 AGCCATTTCC
Statistics
Matches: 48, Mismatches: 6, Indels: 15
0.70 0.09 0.22
Matches are distributed among these distances:
14 17 0.35
16 16 0.33
18 15 0.31
ACGTcount: A:0.11, C:0.19, G:0.25, T:0.44
Consensus pattern (17 bp):
ATTTCGCTTGCGATTTC
Found at i:131452 original size:32 final size:32
Alignment explanation
Indices: 131374--131452 Score: 140
Period size: 32 Copynumber: 2.5 Consensus size: 32
131364 ACCAAGACCG
131374 ATTTCGCGTTGCGATTTTGTCGTTGCGATTTC
1 ATTTCGCGTTGCGATTTTGTCGTTGCGATTTC
*
131406 ATTTCGCGTGGCGATTTTGTCGTTGCGATTTC
1 ATTTCGCGTTGCGATTTTGTCGTTGCGATTTC
*
131438 ATTTCGCATTGCGAT
1 ATTTCGCGTTGCGAT
131453 AGCCATTTCC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 44 1.00
ACGTcount: A:0.11, C:0.19, G:0.25, T:0.44
Consensus pattern (32 bp):
ATTTCGCGTTGCGATTTTGTCGTTGCGATTTC
Found at i:131489 original size:19 final size:19
Alignment explanation
Indices: 131426--131490 Score: 78
Period size: 20 Copynumber: 3.4 Consensus size: 19
131416 GCGATTTTGT
*
131426 CGTTGCGAT-TTCATTTCG
1 CGTTGCGATAGTCATTTCG
* *
131444 CATTGCGATAGCCATTTCCG
1 CGTTGCGATAGTCATTT-CG
131464 CGTTGCGATAGTCATTTCG
1 CGTTGCGATAGTCATTTCG
*
131483 TGTTGCGA
1 CGTTGCGA
131491 AAGTAAACTA
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
18 8 0.21
19 14 0.36
20 17 0.44
ACGTcount: A:0.15, C:0.23, G:0.25, T:0.37
Consensus pattern (19 bp):
CGTTGCGATAGTCATTTCG
Found at i:131989 original size:18 final size:18
Alignment explanation
Indices: 131963--132007 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
131953 GTCGATCAGA
* *
131963 TGATGGCTCTGGGTGGGG
1 TGATGGCTCTGGGCGAGG
*
131981 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
131999 TGATGGCTC
1 TGATGGCTC
132008 CCGAAGTGGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.11, C:0.16, G:0.47, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:133567 original size:22 final size:22
Alignment explanation
Indices: 133542--133585 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
133532 GATTTAGATA
133542 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
133564 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
133586 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:133866 original size:20 final size:20
Alignment explanation
Indices: 133753--133866 Score: 90
Period size: 20 Copynumber: 5.7 Consensus size: 20
133743 CGCTTTGAAA
133753 ATCGCATTGCGATTATGTAA--
1 ATCGCATTGCGA-TA-GTAAGT
* * *
133773 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTAAGT
* *
133793 ATCGCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATAGTAAGT
* * * *
133813 ATCTCGTTGCGATTTTGT-ATT
1 ATCGCATTGCGA--TAGTAAGT
133834 ATCGCATTGCGATAGTAAGT
1 ATCGCATTGCGATAGTAAGT
133854 ATCGCATTGCGAT
1 ATCGCATTGCGAT
133867 TTTCCCAATT
Statistics
Matches: 77, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
18 3 0.04
19 4 0.05
20 56 0.73
21 12 0.16
22 2 0.03
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (20 bp):
ATCGCATTGCGATAGTAAGT
Found at i:133884 original size:21 final size:21
Alignment explanation
Indices: 133855--133930 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
133845 ATAGTAAGTA
133855 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
133876 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
133896 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
*
133917 TCGCGTTGCGATTT
1 TCGCATTGCGATTT
133931 ACTTATTTGC
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 16 0.36
21 29 0.64
ACGTcount: A:0.16, C:0.25, G:0.18, T:0.41
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCCAAT
Found at i:133885 original size:41 final size:41
Alignment explanation
Indices: 133794--133928 Score: 148
Period size: 41 Copynumber: 3.3 Consensus size: 41
133784 AAAGTCAGTA
* * * ** *
133794 TCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTT-GTATT
1 TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
*
133834 ATCGCATTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
1 -TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* **
133876 TCGCGTTGCGAT-TTACTTATTCGCATTGCGATTTTCCCAAT
1 TCGCGTTGCGATAGTAAGTA-TCGCATTGCGATTTTCCCAAT
133917 TCGCGTTGCGAT
1 TCGCGTTGCGAT
133929 TTACTTATTT
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
40 4 0.05
41 75 0.93
42 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.38
Consensus pattern (41 bp):
TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
Found at i:133899 original size:20 final size:20
Alignment explanation
Indices: 133855--133947 Score: 87
Period size: 20 Copynumber: 4.5 Consensus size: 20
133845 ATAGTAAGTA
* **
133855 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGA-TTTACTTAT
*
133876 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
* **
133896 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGA-TTTACTTAT
*
133917 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
*
133937 TTGCATTGCGA
1 TCGCATTGCGA
133948 ATTGGGAAAA
Statistics
Matches: 57, Mismatches: 14, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
20 31 0.54
21 26 0.46
ACGTcount: A:0.17, C:0.24, G:0.18, T:0.41
Consensus pattern (20 bp):
TCGCATTGCGATTTACTTAT
Found at i:133929 original size:41 final size:41
Alignment explanation
Indices: 133855--133947 Score: 177
Period size: 41 Copynumber: 2.3 Consensus size: 41
133845 ATAGTAAGTA
133855 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
133896 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
*
133937 TTGCATTGCGA
1 TCGCATTGCGA
133948 ATTGGGAAAA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.17, C:0.24, G:0.18, T:0.41
Consensus pattern (41 bp):
TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
Found at i:148387 original size:39 final size:38
Alignment explanation
Indices: 148323--148454 Score: 126
Period size: 39 Copynumber: 3.4 Consensus size: 38
148313 TTGTTTATAT
*
148323 TGTTAGGGTG-AATAATTTAAGAAATTAATAATTTAGAA
1 TGTTATGGTGAAATAATTTAAGAAATTAA-AATTTAGAA
* * *
148361 TGTTATGGTGAAATATTTTAAGAAATTAGGAATTTATAAA
1 TGTTATGGTGAAATAATTTAAGAAATTA-AAATTTA-GAA
** *
148401 T-TTATGACGAAATAATTTAAGAAATTAGAGATTTAGAA
1 TGTTATGGTGAAATAATTTAAGAAATTA-AAATTTAGAA
*
148439 TATTA-GAGTGAAATAA
1 TGTTATG-GTGAAATAA
148455 CTTCAGAATT
Statistics
Matches: 77, Mismatches: 12, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
38 13 0.17
39 61 0.79
40 3 0.04
ACGTcount: A:0.45, C:0.01, G:0.17, T:0.36
Consensus pattern (38 bp):
TGTTATGGTGAAATAATTTAAGAAATTAAAATTTAGAA
Found at i:150119 original size:15 final size:15
Alignment explanation
Indices: 150074--150119 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
150064 TTACCGGATT
150074 AAAAATCGGATTGAA
1 AAAAATCGGATTGAA
*
150089 AAAAACCGGATT---
1 AAAAATCGGATTGAA
*
150101 AAAAATCGGTTTGAA
1 AAAAATCGGATTGAA
150116 AAAA
1 AAAA
150120 CCCGAATAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
12 10 0.40
15 15 0.60
ACGTcount: A:0.54, C:0.09, G:0.17, T:0.20
Consensus pattern (15 bp):
AAAAATCGGATTGAA
Found at i:150121 original size:26 final size:27
Alignment explanation
Indices: 150066--150119 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
150056 CTATATTTTT
150066 ACCGGATTAAAAATCGGATTGAAAAAA
1 ACCGGATTAAAAATCGGATTGAAAAAA
*
150093 ACCGGATTAAAAATCGGTTTGAAAAAA
1 ACCGGATTAAAAATCGGATTGAAAAAA
150120 CCCGAATAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.50, C:0.11, G:0.19, T:0.20
Consensus pattern (27 bp):
ACCGGATTAAAAATCGGATTGAAAAAA
Found at i:150129 original size:26 final size:27
Alignment explanation
Indices: 150073--150130 Score: 82
Period size: 26 Copynumber: 2.2 Consensus size: 27
150063 TTTACCGGAT
* *
150073 TAAAAATCGGATTGAAAAAAACCGGAT
1 TAAAAATCGGATTGAAAAAAACCCGAA
*
150100 TAAAAATCGGTTTG-AAAAAACCCGAA
1 TAAAAATCGGATTGAAAAAAACCCGAA
150126 TAAAA
1 TAAAA
150131 TTAACTTATG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 15 0.54
27 13 0.46
ACGTcount: A:0.53, C:0.12, G:0.16, T:0.19
Consensus pattern (27 bp):
TAAAAATCGGATTGAAAAAAACCCGAA
Found at i:151441 original size:951 final size:917
Alignment explanation
Indices: 148506--151988 Score: 4988
Period size: 902 Copynumber: 3.7 Consensus size: 917
148496 ATATAAGAAA
148506 CTAGGTATTGGGTGAGTGGGTACCCAATTAAAAGATATTTTGTGACCCATGCTGACTTGGAAACC
1 CTAGGTATTGGGTGAGTGGGTACCCAATTAAAAGATATTTTGTGACCCATGCTGACTTGGAAACC
* * *
148571 CGTGAAAAAGAGCGGGTCAGGTACTCGACCCACAAAACCGGGTATTCTTATTATTATTGGTTACA
66 CGTGAAAAAGAGCGGGTCAAGTACTCAACCCACAAAACCAGGTATTCTTATTATTATTGGTTACA
148636 AATAAAACCACTACACTAGTAGTGGATTAATCGGGTATCTACAGCAGTAGCATCAGTGTTGAGAA
131 AATAAAACCACTACACTAGTAGTGGATTAATCGGGTATCTACAGCAGTAGCATCAGTGTTGAGAA
* ** *
148701 GGGTGTGAAAT-CCCTCGGAGGCTGTTGGTAGATAGAGAGTCCCAAAGTGTCATTAATATCAGTA
196 GGGTGTGAACTCCCCTAAGAGGCTGTTGGTAGATAAAGAGTCCCAAAGTGTCATTAATATCAGTA
* ** *
148765 TGAGCAAGATGATCAGCAATGGCATTGGTTTCACGATTAGTATAAGAGATCTTAACGCTCTATTG
261 TGAGCAAGATGATCAACAATGGCATTGGTTTCACGATTAGTACGAGAGATCTTAACGCTCCATTG
* * *
148830 CCCGATACGTAGTCTTGGAGTATAGTTCAATATCTTAATCACGTCCTTATTATCGGCCTCGAATT
326 CCCGATACGTAGCCTTGGAGTAGAGTTCAATATCTTAATCACGTCCTTATTATCGGCCTCGACTT
*
148895 CAATATTCCTGAAGCCATGATTCCATGCAACCGTGAGTCCATCTAGAACTGCCCAAAGCTCGGCG
391 CAATATTCCTGAAGCCATGATTCCATGCAA-CGTGAGTCCATCTAGAACTGCCCAAAGCTCGGCA
* *
148960 TTATGGGCATTGCAATGTCTGATATTCCGGTGATATCTCAAGATCCAAGCACTAGATGTGTAC-A
455 TTATGGGCATTGCAATGTCCGATATTCCGGTGATATCTCAAGATCCAAGCACTAGAGGTGTACAA
149024 AAAAAATCCGAATATCCGATTTTGCGCAAAAACTATCCGAAATTAGATTTGGT---A--------
520 AAAAAAT-CGAATATCCGATTTTGCGCAAAAACTATCCGAAATTAGATTTGGTAAAATCCGTTTT
* *
149078 ---AAA----ATCGGATATTTAAAAACCGGATAGTATAACCGGTTTGGGGAAAAAATTAGACGGT
584 TTTAAACCGGATCGGATATTTAAAAACCAGATAGTATAACCGGTTT-GGGAAAAAATTAGACGAT
* * * *
149136 CGGTTTTTTTACCGGATTAAAAATCGGTTTGGAAAAAA--GGGATAAAATTAAGTTATGATGTTT
648 CTGTTTTTTTACCGGATTAAAAATCGGTTT-GAAAAAACCCGAATAAAATTAACTTATGATGTTT
*
149199 ATTAGCATGATTTTTATAATTTATTGAAATGAAAAATCAATCAATAAAATTAAAATTTAATTTTT
712 ATTAGCATGATTTTTATAATTTATTGAAATGAATAATCAATCAATAAAATT--AA-TT--TTTTT
** **** * * *
149264 TTTAGTTTTTATAATATATTGCTAGATGTAATTTATAAAACAAACCAAAATTAAGC-AGAAA-AA
772 TAAAAAAATTATAATACATTGCTAGATGTAATTTATAAAACAAACAAAAATTAAGCAAAAAAGAA
* * * * *
149327 CAAGGACAATCCTGTCATTTTACATTACTGAAATTAAATTCATCTGACATGTCAGAAATATTCCA
837 GAAGGGCAATCCTATCATTTTACATTACTGAAATCAAATTCATCTGACATATCAGAAATATTCCA
* *
149392 GCGAACCAAACTCCAC
902 ACGAACCAAACGCCAC
* *
149408 CTAGGTATTGGGTGAGTAGATACCCAATTAAAAGATATTTTGTGACCCATGCTGACTTGGAAACC
1 CTAGGTATTGGGTGAGTGGGTACCCAATTAAAAGATATTTTGTGACCCATGCTGACTTGGAAACC
* * **
149473 CGTGAAAAAGAGCGGGTCAGGTACTCGACCCACAAAA-TTGGTATTCTTATTATTATTGGTTACA
66 CGTGAAAAAGAGCGGGTCAAGTACTCAACCCACAAAACCAGGTATTCTTATTATTATTGGTTACA
*
149537 AATAAAACCACTAAACTAGTAGTGGATTAATCGGGTATCTACAGCAGTAGCATCAGTGTTGAGAA
131 AATAAAACCACTACACTAGTAGTGGATTAATCGGGTATCTACAGCAGTAGCATCAGTGTTGAGAA
** *
149602 GGGTGTGAACTCCCCTCGGAGGCTGTTGGTAGATAAAGAGTCCCAAAGTGTCATTAATATCGGTA
196 GGGTGTGAACTCCCCTAAGAGGCTGTTGGTAGATAAAGAGTCCCAAAGTGTCATTAATATCAGTA
* *
149667 TGAGCAAGATGATCAGCAATGGCATTGGTTTCACGATTAGTACGAGAGATCTTAATGCTCCATTG
261 TGAGCAAGATGATCAACAATGGCATTGGTTTCACGATTAGTACGAGAGATCTTAACGCTCCATTG
149732 CCCGATACGTAGCCTTGGAGTAGAGTTCAATATCTTAATCACGTCCTTATTATCGGCCTCGACTT
326 CCCGATACGTAGCCTTGGAGTAGAGTTCAATATCTTAATCACGTCCTTATTATCGGCCTCGACTT
* *
149797 CAATATTCATGAAGCCATGATTCCATGCAACCGTGAGTCCATCTAGAACTGCCCAAAGCTCGGCG
391 CAATATTCCTGAAGCCATGATTCCATGCAA-CGTGAGTCCATCTAGAACTGCCCAAAGCTCGGCA
* *
149862 TTATGGGCATTGCAATGTCTGATATTCCGGTGATATCTCAAGATCCAAGCACTAGAAGTGTACAA
455 TTATGGGCATTGCAATGTCCGATATTCCGGTGATATCTCAAGATCCAAGCACTAGAGGTGTACAA
*
149927 AAAAAATCGAATATCCGATTTTGCGCAAAAACTATCCGAAATTAGATTTGGTAAAAATCGGTTTT
520 AAAAAATCGAATATCCGATTTTGCGCAAAAACTATCCGAAATTAGATTTGGT-AAAATCCGTTTT
* * *
149992 TTTAAACCAGATCGGATATTTAAAAACCGGATAGTATAACCGGTTTGGGAAAAAATTATACGATC
584 TTTAAACCGGATCGGATATTTAAAAACCAGATAGTATAACCGGTTTGGGAAAAAATTAGACGATC
*
150057 TATATTTTTACCGGATTAAAAATCGGATTGAAAAAAACCGGATTAAAAATCGGTTTGAAAAAACC
649 -----TGTT------TT-----T----TT-------ACCGGATTAAAAATCGGTTTGAAAAAACC
150122 CGAATAAAATTAACTTATGATGTTTATTAGCATGATTTTTATAATTTATTGAAATGAATAATCAA
687 CGAATAAAATTAACTTATGATGTTTATTAGCATGATTTTTATAATTTATTGAAATGAATAATCAA
* *
150187 TCAATAAAATTAATTTTTTTTAAAAAAATTATAATATATTGCTATATGTAATTTATAAAACAAAC
752 TCAATAAAATTAATTTTTTTTAAAAAAATTATAATACATTGCTAGATGTAATTTATAAAACAAAC
* * *
150252 CAAAATTAAGCAAAAAAGAAGAAGGGCAATCCTATCATTTTACTTTACTGAAATTAAATTCATCT
817 AAAAATTAAGCAAAAAAGAAGAAGGGCAATCCTATCATTTTACATTACTGAAATCAAATTCATCT
* *
150317 GACATGTCAGAAATATTCCAGCGAACCAAACGCCAC
882 GACATATCAGAAATATTCCAACGAACCAAACGCCAC
*
150353 CTAGGTATTGGGTGAGTGGGTACCCAATTAAAAGATATTTTGTGACCCATGTTGACTTGGAAACC
1 CTAGGTATTGGGTGAGTGGGTACCCAATTAAAAGATATTTTGTGACCCATGCTGACTTGGAAACC
*
150418 CGTGAAAAAGAGCGGGTCAAGTACTCAACCCACAAAACCGGGTATTCTTATTATTATTGGTTACA
66 CGTGAAAAAGAGCGGGTCAAGTACTCAACCCACAAAACCAGGTATTCTTATTATTATTGGTTACA
150483 AATAAAACCACTACACTAGTAGTGGATTAATCGGGTATCTACAGCAGTAGCATCAGTGTTGAGAA
131 AATAAAACCACTACACTAGTAGTGGATTAATCGGGTATCTACAGCAGTAGCATCAGTGTTGAGAA
** *
150548 GGGTGTGAACTCCCCTCGGAGGCTGTTGGTAGATAAAGAGTCCCAAAGTGTCATTAATATCGGTA
196 GGGTGTGAACTCCCCTAAGAGGCTGTTGGTAGATAAAGAGTCCCAAAGTGTCATTAATATCAGTA
*
150613 TGAGCAAGATGATCAGCAATGGCATTGGTTTCACGATTAGTACGAGAGATCTTAACGCTCCATTG
261 TGAGCAAGATGATCAACAATGGCATTGGTTTCACGATTAGTACGAGAGATCTTAACGCTCCA-T-
*
150678 TGCGATACGTCGAACAATGGTCGCTTCATGCAACCTTGGAGTAGAGTTCAATATCTTAATCACGT
324 TGC----C--CG----AT--ACG--T-A-G---CCTTGGAGTAGAGTTCAATATCTTAATCACGT
*
150743 CCTTATTATCGGCCTCGAATTCAATATTCCTGAAGCCATGATTCCATGCAACAGTGAGTCCATCT
370 CCTTATTATCGGCCTCGACTTCAATATTCCTGAAGCCATGATTCCATGCAAC-GTGAGTCCATCT
*
150808 AGAACTGCCCAAAGCTCGGCATTATGGGCATTGCAATGTCCGATATTCTGGTGATATCTCAAGAT
434 AGAACTGCCCAAAGCTCGGCATTATGGGCATTGCAATGTCCGATATTCCGGTGATATCTCAAGAT
* *
150873 CCAAGCACTAGAGGTGTACAAAAAAAATATGAATATCCGTTTTTGCGCAAAAACTATCCGAAATT
499 CCAAGCACTAGAGGTGTACAAAAAAAAT-CGAATATCCGATTTTGCGCAAAAACTATCCGAAATT
* * *
150938 ATATTTGGTAAAATCCGATTTTTTTAAACCGGATCGGATATTTAAAAACCTGATAGTATAACTGG
563 AGATTTGGTAAAATCCG-TTTTTTTAAACCGGATCGGATATTTAAAAACCAGATAGTATAACCGG
*
151003 TTTGGGAAAAAAATTAGACGATC-GTTTTTTTACCGGATTAAAAATCGGTTTGAAAAAACCCGGA
627 TTTGGG-AAAAAATTAGACGATCTGTTTTTTTACCGGATTAAAAATCGGTTTGAAAAAACCCGAA
* * *
151067 TAAAATTAACTTATGATGTTTATTAGGATGTTTTTTTTATAATTTATTGAAATTAATAATCAATC
691 TAAAATTAACTTATGATGTTTATTAGCATG--ATTTTTATAATTTATTGAAATGAATAATCAATC
** ****
151132 AATAAAATTAAAATTTATTTTTTTTTTAGTTTTTATAATACATTGCTAGATGTAATTTATAAAAC
754 AATAAAATT---A---ATTTTTTTTAAAAAAATTATAATACATTGCTAGATGTAATTTATAAAAC
* *
151197 AAACAAAAATTAAGCAAACAAAATAAGAAGGGCAATCCTGTCATTTTACATTACTGAAATCAAAT
813 AAACAAAAATTAAGC-AA-AAAAGAAGAAGGGCAATCCTATCATTTTACATTACTGAAATCAAAT
151262 TCATCTGACATATCAGAAATATTCCAACGAACCAAACGCCAC
876 TCATCTGACATATCAGAAATATTCCAACGAACCAAACGCCAC
151304 CTAGGTATTGGGTGAGTGGGTACCCAATTAAAAGATATTTTGTGACCCATGCTGACTTGGAAACC
1 CTAGGTATTGGGTGAGTGGGTACCCAATTAAAAGATATTTTGTGACCCATGCTGACTTGGAAACC
* *
151369 CGTGAAAAAGAGCGGGTCAGGTACTCGACCCACAAAACCAGGTATTCTTATTATTATTGGTTACA
66 CGTGAAAAAGAGCGGGTCAAGTACTCAACCCACAAAACCAGGTATTCTTATTATTATTGGTTACA
*
151434 AATAAAACCACTACACTAGTAGTGGATTAATCGGGTATCTATAGCAGTAGCATCAGTGTTGAGAA
131 AATAAAACCACTACACTAGTAGTGGATTAATCGGGTATCTACAGCAGTAGCATCAGTGTTGAGAA
*
151499 GGGTGTGAACTCCCCTAAGAGGCTGTTGGTAGATAGAGAGTCCCAAAGTGTCATTAATATCAGTA
196 GGGTGTGAACTCCCCTAAGAGGCTGTTGGTAGATAAAGAGTCCCAAAGTGTCATTAATATCAGTA
* *
151564 TGAGCAAGATGATCAACAATGGCATTGGTTTCACGATTAGTATGAGAGATCTTAATGCTCCATTG
261 TGAGCAAGATGATCAACAATGGCATTGGTTTCACGATTAGTACGAGAGATCTTAACGCTCCATTG
* *
151629 CCCGATACGTAGCCTTGGAGTAGGGTTCAATATCTTAATCACATCCTTATTATCGGCCAT-GACT
326 CCCGATACGTAGCCTTGGAGTAGAGTTCAATATCTTAATCACGTCCTTATTATCGGCC-TCGACT
* *
151693 TCAATATACCTGAAGCCATGATTCCATGCAATCGTGAGTCCATCTAGAACTGCCCAAAGCTCGAC
390 TCAATATTCCTGAAGCCATGATTCCATGCAA-CGTGAGTCCATCTAGAACTGCCCAAAGCTCGGC
* * ***
151758 ATTATGGGCATTGCAATGTTCGATATTCCGGTGATATCTCAAGATCCAAGCATTAGAGGCACACA
454 ATTATGGGCATTGCAATGTCCGATATTCCGGTGATATCTCAAGATCCAAGCACTAGAGGTGTACA
* * * * * * * * *
151823 CAAAAAATCCGAATATCCGATTTTACGTAAAAAATATCCGAAACTGGATTTGGGAAAAGCCGGTT
519 AAAAAAAT-CGAATATCCGATTTTGCGCAAAAACTATCCGAAATTAGATTTGGTAAAATCCGTTT
* * *
151888 TTTTAAACCGGATCAGATATTTAAAAATCAGATAGTATAACCGGTTTGGG-AAAAATTAGACAAT
583 TTTTAAACCGGATCGGATATTTAAAAACCAGATAGTATAACCGGTTTGGGAAAAAATTAGACGAT
*
151952 CAGTTTTTTTACCGGATTAAAAATCGGTTTGAAAAAA
648 CTGTTTTTTTACCGGATTAAAAATCGGTTTGAAAAAA
151989 ACCAATTTTT
Statistics
Matches: 2366, Mismatches: 124, Indels: 156
0.89 0.05 0.06
Matches are distributed among these distances:
901 99 0.04
902 445 0.19
903 8 0.00
906 1 0.00
917 3 0.00
920 17 0.01
921 36 0.02
925 2 0.00
927 14 0.01
928 35 0.01
929 48 0.02
930 217 0.09
931 4 0.00
933 1 0.00
934 1 0.00
935 1 0.00
936 1 0.00
937 2 0.00
939 2 0.00
940 2 0.00
941 61 0.03
943 96 0.04
944 4 0.00
945 178 0.08
946 225 0.10
947 21 0.01
948 77 0.03
949 58 0.02
950 3 0.00
951 392 0.17
952 2 0.00
954 2 0.00
957 2 0.00
958 2 0.00
960 2 0.00
962 1 0.00
963 3 0.00
964 1 0.00
966 1 0.00
967 189 0.08
968 92 0.04
969 15 0.01
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (917 bp):
CTAGGTATTGGGTGAGTGGGTACCCAATTAAAAGATATTTTGTGACCCATGCTGACTTGGAAACC
CGTGAAAAAGAGCGGGTCAAGTACTCAACCCACAAAACCAGGTATTCTTATTATTATTGGTTACA
AATAAAACCACTACACTAGTAGTGGATTAATCGGGTATCTACAGCAGTAGCATCAGTGTTGAGAA
GGGTGTGAACTCCCCTAAGAGGCTGTTGGTAGATAAAGAGTCCCAAAGTGTCATTAATATCAGTA
TGAGCAAGATGATCAACAATGGCATTGGTTTCACGATTAGTACGAGAGATCTTAACGCTCCATTG
CCCGATACGTAGCCTTGGAGTAGAGTTCAATATCTTAATCACGTCCTTATTATCGGCCTCGACTT
CAATATTCCTGAAGCCATGATTCCATGCAACGTGAGTCCATCTAGAACTGCCCAAAGCTCGGCAT
TATGGGCATTGCAATGTCCGATATTCCGGTGATATCTCAAGATCCAAGCACTAGAGGTGTACAAA
AAAAATCGAATATCCGATTTTGCGCAAAAACTATCCGAAATTAGATTTGGTAAAATCCGTTTTTT
TAAACCGGATCGGATATTTAAAAACCAGATAGTATAACCGGTTTGGGAAAAAATTAGACGATCTG
TTTTTTTACCGGATTAAAAATCGGTTTGAAAAAACCCGAATAAAATTAACTTATGATGTTTATTA
GCATGATTTTTATAATTTATTGAAATGAATAATCAATCAATAAAATTAATTTTTTTTAAAAAAAT
TATAATACATTGCTAGATGTAATTTATAAAACAAACAAAAATTAAGCAAAAAAGAAGAAGGGCAA
TCCTATCATTTTACATTACTGAAATCAAATTCATCTGACATATCAGAAATATTCCAACGAACCAA
ACGCCAC
Found at i:154977 original size:14 final size:14
Alignment explanation
Indices: 154960--154986 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
154950 GTTGTTAAAA
154960 AATAAAAATTAATG
1 AATAAAAATTAATG
154974 AATAAAAATTAAT
1 AATAAAAATTAAT
154987 TTGATCCTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.30
Consensus pattern (14 bp):
AATAAAAATTAATG
Found at i:156136 original size:20 final size:21
Alignment explanation
Indices: 156101--156147 Score: 78
Period size: 20 Copynumber: 2.3 Consensus size: 21
156091 CGATATACCA
156101 GGTAAAAAATATGATAAAACC
1 GGTAAAAAATATGATAAAACC
*
156122 GGTAACAAA-ATGATAAAACC
1 GGTAAAAAATATGATAAAACC
156142 GGTAAA
1 GGTAAA
156148 TTTAAAAGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 16 0.67
21 8 0.33
ACGTcount: A:0.55, C:0.11, G:0.17, T:0.17
Consensus pattern (21 bp):
GGTAAAAAATATGATAAAACC
Found at i:156317 original size:17 final size:19
Alignment explanation
Indices: 156278--156320 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
156268 ATGTAAAAAT
156278 ATGATAAAACCGGTATCAAA
1 ATGATAAAACCGG-ATCAAA
156298 ATGATAAAACCGG-T-AAA
1 ATGATAAAACCGGATCAAA
156315 ATGATA
1 ATGATA
156321 CCGGATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
18 1 0.04
20 13 0.57
ACGTcount: A:0.51, C:0.12, G:0.16, T:0.21
Consensus pattern (19 bp):
ATGATAAAACCGGATCAAA
Found at i:158595 original size:21 final size:21
Alignment explanation
Indices: 158548--158612 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
158538 AAGACAATCA
* *
158548 AGAGTCGAAGAGAAACTTGATC
1 AGAGTCGAAGAGAAACTCGA-G
*
158570 A-AGTCGTAGAGAAACTCGAG
1 AGAGTCGAAGAGAAACTCGAG
* *
158590 AGAGTCGAAGATACACTCGAG
1 AGAGTCGAAGAGAAACTCGAG
158611 AG
1 AG
158613 GCATAAGGGG
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
20 1 0.03
21 34 0.94
22 1 0.03
ACGTcount: A:0.40, C:0.15, G:0.29, T:0.15
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTCGAG
Found at i:158688 original size:33 final size:33
Alignment explanation
Indices: 158646--158711 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
158636 AAATAGATGG
*
158646 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
158679 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
158712 TATTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:159140 original size:21 final size:21
Alignment explanation
Indices: 159093--159157 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
159083 GTGACAATCA
* *
159093 AGAGTCGAAGAGAAACTTGATC
1 AGAGTCGAAGAGAAACTCGA-G
*
159115 A-AGTCGTAGAGAAACTCGAG
1 AGAGTCGAAGAGAAACTCGAG
* *
159135 AGAGTCGAAGATACACTCGAG
1 AGAGTCGAAGAGAAACTCGAG
159156 AG
1 AG
159158 GCATAAGGGG
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
20 1 0.03
21 34 0.94
22 1 0.03
ACGTcount: A:0.40, C:0.15, G:0.29, T:0.15
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTCGAG
Found at i:159233 original size:33 final size:33
Alignment explanation
Indices: 159191--159256 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
159181 AAATAGATGG
*
159191 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
159224 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
159257 TATTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:159683 original size:21 final size:21
Alignment explanation
Indices: 159637--159700 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 21
159627 GTGACAATCA
* *
159637 AGAGTCGAAGAG-AACTTGATC
1 AGAGTCGAAGAGAAACTCGA-G
*
159658 A-AGTCGTAGAGAAACTCGAG
1 AGAGTCGAAGAGAAACTCGAG
* *
159678 AGAGTCGAAGATACACTCGAG
1 AGAGTCGAAGAGAAACTCGAG
159699 AG
1 AG
159701 GCATAAGGGG
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
20 10 0.29
21 25 0.71
ACGTcount: A:0.39, C:0.16, G:0.30, T:0.16
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTCGAG
Found at i:160127 original size:540 final size:545
Alignment explanation
Indices: 158540--160173 Score: 3217
Period size: 545 Copynumber: 3.0 Consensus size: 545
158530 ATCATGCAAA
158540 GACAATCAAGAGTCGAAGAGAAACTTGATCAAGTCGTAGAGAAACTCGAGAGAGTCGAAGATACA
1 GACAATCAAGAGTCGAAGAGAAACTTGATCAAGTCGTAGAGAAACTCGAGAGAGTCGAAGATACA
158605 CTCGAGAGGCATAAGGGGGTAGTGGAAGGAAAAATAGATGGAGTGGTGAAAGAAGTAGAGGTGTT
66 CTCGAGAGGCATAAGGGGGTAGTGGAAGGAAAAATAGATGGAGTGGTGAAAGAAGTAGAGGTGTT
158670 GAGGGGTGAAGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGATATTAAGATGGTGACGGGAGAAA
131 GAGGGGTGAAGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGATATTAAGATGGTGACGGGAGAAA
158735 AATTTGAGGGAGTGGTGAAGGAGGTTGTGGATTTGAGGAGTGAACTTACGGGGGTGAAGGGGGTG
196 AATTTGAGGGAGTGGTGAAGGAGGTTGTGGATTTGAGGAGTGAACTTACGGGGGTGAAGGGGGTG
158800 GTTGATAAATACTCGGATGAAGGAGCTCAATTGAAGGGTGAAATAAAAGAGATGAAGAGCTATGT
261 GTTGATAAATACTCGGATGAAGGAGCTCAATTGAAGGGTGAAATAAAAGAGATGAAGAGCTATGT
158865 AGAAAAAAAGTACGATGAACTGAAAAAATATGAAGAAGAAAAGAGGGAGGAGGAAGAAGAAGAGA
326 AGAAAAAAAGTACGATGAACTGAAAAAATATGAAGAAGAAAAGAGGGAGGAGGAAGAAGAAGAGA
158930 TGGAAGAAATGAGGAGGAAGGAAGTCGATGTCATTTATACACCGGAGAGTGTTATAGCAGCAGTT
391 TGGAAGAAATGAGGAGGAAGGAAGTCGATGTCATTTATACACCGGAGAGTGTTATAGCAGCAGTT
158995 TTGGATTCGGAATGTCCTGCACCCCAGAAGAAGAAGCAGAAGGTAAGTTTAATAAAAGAATACTT
456 TTGGATTCGGAATGTCCTGCACCCCAGAAGAAGAAGCAGAAGGTAAGTTTAATAAAAGAATACTT
159060 AATTTGATTTTTATTATGTTGTTGT
521 AATTTGATTTTTATTATGTTGTTGT
159085 GACAATCAAGAGTCGAAGAGAAACTTGATCAAGTCGTAGAGAAACTCGAGAGAGTCGAAGATACA
1 GACAATCAAGAGTCGAAGAGAAACTTGATCAAGTCGTAGAGAAACTCGAGAGAGTCGAAGATACA
159150 CTCGAGAGGCATAAGGGGGTAGTGGAAGGAAAAATAGATGGAGTGGTGAAAGAAGTAGAGGTGTT
66 CTCGAGAGGCATAAGGGGGTAGTGGAAGGAAAAATAGATGGAGTGGTGAAAGAAGTAGAGGTGTT
159215 GAGGGGTGAAGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGATATTAAGATGGTGACGGGAGAAA
131 GAGGGGTGAAGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGATATTAAGATGGTGACGGGAGAAA
159280 AATTTGAGGGAGTGGTGAAGGAGGTTGTGGATTTGAGGAGTGAACTTACGGGGGTGAAGGGGGTG
196 AATTTGAGGGAGTGGTGAAGGAGGTTGTGGATTTGAGGAGTGAACTTACGGGGGTGAAGGGGGTG
159345 GTTGATAAATACTCGGATGAAGGAGCTCAATTGAAGGGTGAAATAAAAGAGATGAAGAGCTATGT
261 GTTGATAAATACTCGGATGAAGGAGCTCAATTGAAGGGTGAAATAAAAGAGATGAAGAGCTATGT
159410 AG-AAAAAAGTACGATGAACTGAAAAAATATGAAGAAGAAAAGAGGGAGGAGGAAGAAGAAGAGA
326 AGAAAAAAAGTACGATGAACTGAAAAAATATGAAGAAGAAAAGAGGGAGGAGGAAGAAGAAGAGA
159474 TGGAAGAAATGAGGAGGAAGGAAGTCGATGTCATTTATACACCGGAGAGTGTTATAGCAGCAGTT
391 TGGAAGAAATGAGGAGGAAGGAAGTCGATGTCATTTATACACCGGAGAGTGTTATAGCAGCAGTT
159539 TTGGATTCGGAATGTCCTGCACCCCAGAAGAAGAAGCAGAAGGTAAGTTTAATAAAAGAATACTT
456 TTGGATTCGGAATGTCCTGCACCCCAGAAGAAGAAGCAGAAGGTAAGTTTAATAAAAGAATACTT
159604 AATTTGATTTTTATTATGTTGTTGT
521 AATTTGATTTTTATTATGTTGTTGT
159629 GACAATCAAGAGTCGAAGAG-AACTTGATCAAGTCGTAGAGAAACTCGAGAGAGTCGAAGATACA
1 GACAATCAAGAGTCGAAGAGAAACTTGATCAAGTCGTAGAGAAACTCGAGAGAGTCGAAGATACA
159693 CTCGAGAGGCATAAGGGGGTAGTGGAAGG-AAAATAGATGGAGTGGTGAAAGAAGTAGAGGTGTT
66 CTCGAGAGGCATAAGGGGGTAGTGGAAGGAAAAATAGATGGAGTGGTGAAAGAAGTAGAGGTGTT
159757 GAGGGGTGAAGTGGTGAAAGAAGTTGGGGTGTTAA-GGGTGATATTAAGATGGTGACGGGAG-AA
131 GAGGGGTGAAGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGATATTAAGATGGTGACGGGAGAAA
159820 AATTTGAGGGAGTGGTGAAGGAGGTTGTGGATTTGAGGAGTGAACTTACGGGGGTGAA-GGGGTG
196 AATTTGAGGGAGTGGTGAAGGAGGTTGTGGATTTGAGGAGTGAACTTACGGGGGTGAAGGGGGTG
159884 GTTGATAAATACTCGGATGAAGGAGCTCAATTGAAGGGTGAAATAAAAGAGATGAAGAGCTATGT
261 GTTGATAAATACTCGGATGAAGGAGCTCAATTGAAGGGTGAAATAAAAGAGATGAAGAGCTATGT
159949 AGAAAAAAAGTACGATGAACTGAAAAAATATGAAGAAGAAAAGAGGGAGGAGGAAGAAGAAGAGA
326 AGAAAAAAAGTACGATGAACTGAAAAAATATGAAGAAGAAAAGAGGGAGGAGGAAGAAGAAGAGA
160014 TGGAAGAAATGAGGAGGAAGGAAGTCGATGTCATTTATACACCGGAGAGTGTTATAGCAGCAGTT
391 TGGAAGAAATGAGGAGGAAGGAAGTCGATGTCATTTATACACCGGAGAGTGTTATAGCAGCAGTT
*
160079 TTGGATTCAGAATGTCCTGCACCCCAGAAGAAGAAGCAGAAGGTAAGTTTAATAAAAGAATACTT
456 TTGGATTCGGAATGTCCTGCACCCCAGAAGAAGAAGCAGAAGGTAAGTTTAATAAAAGAATACTT
160144 AATTTGATTTTTATTATGTTGTTGT
521 AATTTGATTTTTATTATGTTGTTGT
160169 GACAA
1 GACAA
160174 AAATTTGTAT
Statistics
Matches: 1087, Mismatches: 1, Indels: 7
0.99 0.00 0.01
Matches are distributed among these distances:
539 73 0.07
540 281 0.26
541 26 0.02
542 70 0.06
543 73 0.07
544 237 0.22
545 327 0.30
ACGTcount: A:0.37, C:0.07, G:0.34, T:0.22
Consensus pattern (545 bp):
GACAATCAAGAGTCGAAGAGAAACTTGATCAAGTCGTAGAGAAACTCGAGAGAGTCGAAGATACA
CTCGAGAGGCATAAGGGGGTAGTGGAAGGAAAAATAGATGGAGTGGTGAAAGAAGTAGAGGTGTT
GAGGGGTGAAGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGATATTAAGATGGTGACGGGAGAAA
AATTTGAGGGAGTGGTGAAGGAGGTTGTGGATTTGAGGAGTGAACTTACGGGGGTGAAGGGGGTG
GTTGATAAATACTCGGATGAAGGAGCTCAATTGAAGGGTGAAATAAAAGAGATGAAGAGCTATGT
AGAAAAAAAGTACGATGAACTGAAAAAATATGAAGAAGAAAAGAGGGAGGAGGAAGAAGAAGAGA
TGGAAGAAATGAGGAGGAAGGAAGTCGATGTCATTTATACACCGGAGAGTGTTATAGCAGCAGTT
TTGGATTCGGAATGTCCTGCACCCCAGAAGAAGAAGCAGAAGGTAAGTTTAATAAAAGAATACTT
AATTTGATTTTTATTATGTTGTTGT
Done.