Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold64
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: 7997333
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 95991 characters in sequence are not A, C, G, or T
File 42 of 45
Found at i:7398527 original size:32 final size:32
Alignment explanation
Indices: 7398486--7398556 Score: 133
Period size: 32 Copynumber: 2.2 Consensus size: 32
7398476 AAACTGTAAC
7398486 TGTATCGATACATAAGTGTTGTATTGATACAA
1 TGTATCGATACATAAGTGTTGTATTGATACAA
*
7398518 TGTATCGATACATAAGTTTTGTATTGATACAA
1 TGTATCGATACATAAGTGTTGTATTGATACAA
7398550 TGTATCG
1 TGTATCG
7398557 CTACGAAGCT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.39
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATTGATACAA
Found at i:7398621 original size:13 final size:13
Alignment explanation
Indices: 7398603--7398627 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7398593 TACTCAAATG
7398603 TATCGATACATTA
1 TATCGATACATTA
7398616 TATCGATACATT
1 TATCGATACATT
7398628 TGATCTCTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.08, T:0.40
Consensus pattern (13 bp):
TATCGATACATTA
Found at i:7411564 original size:1 final size:1
Alignment explanation
Indices: 7411560--7411622 Score: 63
Period size: 1 Copynumber: 63.0 Consensus size: 1
7411550 TTCTTTTTTT
* * * * * * *
7411560 AAAAAAAAAACAAAACAAAAAAAAAACAAAAACAAAAAAAAAACAAAAAGAAGAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
7411623 GAGAGAAAAG
Statistics
Matches: 48, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 48 1.00
ACGTcount: A:0.89, C:0.08, G:0.03, T:0.00
Consensus pattern (1 bp):
A
Found at i:7411579 original size:11 final size:11
Alignment explanation
Indices: 7411560--7411622 Score: 76
Period size: 11 Copynumber: 5.6 Consensus size: 11
7411550 TTCTTTTTTT
7411560 AAAAAAAAAAC
1 AAAAAAAAAAC
7411571 AAAACAAAAAA-
1 AAAA-AAAAAAC
*
7411582 AAAACAAAAAC
1 AAAAAAAAAAC
7411593 AAAAAAAAAAC
1 AAAAAAAAAAC
7411604 AAAAAGAAGAAA-
1 AAAAA-AA-AAAC
7411616 AAAAAAA
1 AAAAAAA
7411623 GAGAGAAAAG
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
10 5 0.11
11 25 0.54
12 13 0.28
13 3 0.07
ACGTcount: A:0.89, C:0.08, G:0.03, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAC
Found at i:7411582 original size:17 final size:17
Alignment explanation
Indices: 7411560--7411620 Score: 97
Period size: 17 Copynumber: 3.6 Consensus size: 17
7411550 TTCTTTTTTT
7411560 AAAAAAAAAAC-AAAAC
1 AAAAAAAAAACAAAAAC
7411576 AAAAAAAAAACAAAAAC
1 AAAAAAAAAACAAAAAC
*
7411593 AAAAAAAAAACAAAAAG
1 AAAAAAAAAACAAAAAC
7411610 AAGAAAAAAAA
1 AA-AAAAAAAA
7411621 AAGAGAGAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
16 11 0.26
17 23 0.55
18 8 0.19
ACGTcount: A:0.89, C:0.08, G:0.03, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAACAAAAAC
Found at i:7411633 original size:20 final size:17
Alignment explanation
Indices: 7411560--7411636 Score: 73
Period size: 17 Copynumber: 4.4 Consensus size: 17
7411550 TTCTTTTTTT
* *
7411560 AAAAAAAAAACAAAACA
1 AAAAAAAAAAAAAAAGA
* *
7411577 AAAAAAAAACAAAAACA
1 AAAAAAAAAAAAAAAGA
*
7411594 AAAAAAAAACAAAAAGA
1 AAAAAAAAAAAAAAAGA
* *
7411611 AGAAAAAAAAAAGAGAGA
1 A-AAAAAAAAAAAAAAGA
7411629 AAAGAAAA
1 AAA-AAAA
7411637 GAACCTGTTT
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
17 34 0.65
18 18 0.35
ACGTcount: A:0.86, C:0.06, G:0.08, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAAAAAAAGA
Found at i:7411638 original size:14 final size:14
Alignment explanation
Indices: 7411560--7411636 Score: 63
Period size: 14 Copynumber: 5.6 Consensus size: 14
7411550 TTCTTTTTTT
*
7411560 AAAAAAAAAACAA-
1 AAAAAAAAAAGAAG
*
7411573 AACAAAAAAAA-AAC
1 AA-AAAAAAAAGAAG
*
7411587 AAAAACAAAA-AA-
1 AAAAAAAAAAGAAG
*
7411599 AAAACAAAAAGAAG
1 AAAAAAAAAAGAAG
7411613 AAAAAAAAAAGAGAG
1 AAAAAAAAAAGA-AG
7411628 AAAAGAAAA
1 AAAA-AAAA
7411637 GAACCTGTTT
Statistics
Matches: 54, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
12 8 0.15
13 15 0.28
14 21 0.39
15 6 0.11
16 4 0.07
ACGTcount: A:0.86, C:0.06, G:0.08, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAGAAG
Found at i:7413038 original size:62 final size:61
Alignment explanation
Indices: 7412729--7413241 Score: 531
Period size: 61 Copynumber: 8.5 Consensus size: 61
7412719 GAGCAGGATG
* *
7412729 CCTTTCAAAGCCCACACCAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACACC---T
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTT-CAGTCCTCAAAGAGCAGGACACCTTTT
* * * * **
7412787 --TTTAAAAGCCCACACAAGCTGGTGGCAC-CTTCAGTCCTCAAAGAGCGGGATGCCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACACCTTTT
* * * * * * * **
7412845 CCTTTCAAAACCCATACAAGCTAGTGGCACTTTCCAGTCCTCACAGAGCAGGA-TTCTTTCT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACACCTTT-T
* * *
7412906 CCGTTTAAAGACCACACAAGTTGGTGGCACTTTTCAGTCCTCAAGGAGCAGGACACCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACACCTTTT
* * * *
7412967 CCTTCTAAAGCCCACACAAGTTGGTGGCACTTTGCTAGTCCTTAAAGAGCAGGACACATTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTC-AGTCCTCAAAGAGCAGGACACCTTTT
* * * *
7413029 TCTTTTAAAGCCAACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAAGACGCCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTC-AGTCCTCAAAGAGCAGGACACCTTTT
* * * *
7413091 CCTTTTAAAGCCTACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGATA-CTTTCT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACACCTTT-T
* * * * * * ** *
7413152 CCTTTTGAAGACCATACAAATTGGTGGCACTTTTCAGTCCTCAAGGAGCATGATGCCTTCT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACACCTTTT
* *
7413213 CCTTTTAAAGCCTACACAAATTGGTGGCA
1 CCTTTTAAAGCCCACACAAGTTGGTGGCA
7413242 AACCTTTCTA
Statistics
Matches: 377, Mismatches: 66, Indels: 21
0.81 0.14 0.05
Matches are distributed among these distances:
55 20 0.05
56 26 0.07
58 1 0.00
60 32 0.08
61 183 0.49
62 115 0.31
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (61 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACACCTTTT
Found at i:7413091 original size:246 final size:238
Alignment explanation
Indices: 7412735--7413241 Score: 656
Period size: 246 Copynumber: 2.1 Consensus size: 238
7412725 GATGCCTTTC
* * *
7412735 AAAGCCCACACCAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAAGCCCAC
1 AAAGCCCACACAAGTTGGTGGCATTTGCCAGTCCTCAAAGAGCAGGACACCTTTTAAAAGCCAAC
** * *
7412800 ACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCGGGATGCCTTTTCCTTTCAAAACCCATACAAG
66 ACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAAGACGCCTTTTCCTTTCAAAACCCACACAAG
* * * *
7412865 CTAGTGGCACTTTCCAGTCCTCACAGAGCAGGATTCTTTCTCCGTTTAAAGACCACACAAGTTGG
131 CTAGTGGCACCTTCCAGTCCTCAAAGAGCAGGATACTTTCTCCGTTTAAAGACCACACAAATTGG
*
7412930 TGGCACTTTTCAGTCCTCAAGGAGCAGGACACCTTTTCCTTCT
196 TGGCACTTTTCAGTCCTCAAGGAGCAGGACACCTTCTCCTTCT
* *
7412973 AAAGCCCACACAAGTTGGTGGCACTTTGCTAGTCCTTAAAGAGCAGGACACATTTTTCTTTT-AA
1 AAAGCCCACACAAGTTGGTGGCA-TTTGCCAGTCCTCAAAGAGCAGGACAC------CTTTTAAA
* * * *
7413037 AGCCAACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAAGACGCCTTTTCCTTTTAAAGC
59 AGCCAACACAAGCTGGTGGCAC-CTTC-AGTCCTCAAAGAGCAAGACGCCTTTTCCTTTCAAAAC
* * * * * *
7413102 CTACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGATACTTTCTCCTTTTGAAGACCAT
122 CCACACAAGCTAGTGGCACCTTCCAGTCCTCAAAGAGCAGGATACTTTCTCCGTTTAAAGACCAC
* ** *
7413167 ACAAATTGGTGGCACTTTTCAGTCCTCAAGGAGCATGATGCCTTCTCCTTTT
187 ACAAATTGGTGGCACTTTTCAGTCCTCAAGGAGCAGGACACCTTCTCCTTCT
* *
7413219 AAAGCCTACACAAATTGGTGGCA
1 AAAGCCCACACAAGTTGGTGGCA
7413242 AACCTTTCTA
Statistics
Matches: 230, Mismatches: 30, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
238 22 0.10
239 24 0.10
244 22 0.10
245 8 0.03
246 154 0.67
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (238 bp):
AAAGCCCACACAAGTTGGTGGCATTTGCCAGTCCTCAAAGAGCAGGACACCTTTTAAAAGCCAAC
ACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAAGACGCCTTTTCCTTTCAAAACCCACACAAG
CTAGTGGCACCTTCCAGTCCTCAAAGAGCAGGATACTTTCTCCGTTTAAAGACCACACAAATTGG
TGGCACTTTTCAGTCCTCAAGGAGCAGGACACCTTCTCCTTCT
Found at i:7414122 original size:183 final size:183
Alignment explanation
Indices: 7413814--7414178 Score: 712
Period size: 183 Copynumber: 2.0 Consensus size: 183
7413804 CAATGTATCG
*
7413814 ATACATTCAGGTATTTTTTACCACTTCGAGCCATTTTTCTGCTCTTGTATTGTCTATTCAAAACT
1 ATACATTCAGGTATTTTTTACCACTTCGAGCCATTTTTCTGCTCTTGTATTGTCCATTCAAAACT
7413879 TAGTTTTCAACACATGTTTTGCATCCAGAACCATTAGAAATCATGCTAAGTTTCATCTTTGGGGT
66 TAGTTTTCAACACATGTTTTGCATCCAGAACCATTAGAAATCATGCTAAGTTTCATCTTTGGGGT
7413944 CAGAATGGAATTTAAACATATTTAAGATCAAATTTTCAAAAAAGACAAATGTA
131 CAGAATGGAATTTAAACATATTTAAGATCAAATTTTCAAAAAAGACAAATGTA
7413997 ATACATTCAGGTATTTTTTACCACTTCGAGCCATTTTTCTGCTCTTGTATTGTCCATTCAAAACT
1 ATACATTCAGGTATTTTTTACCACTTCGAGCCATTTTTCTGCTCTTGTATTGTCCATTCAAAACT
7414062 TAGTTTTCAACACATGTTTTGCATCCAGAACCATTAGAAATCATGCTAAGTTTCATCTTTGGGGT
66 TAGTTTTCAACACATGTTTTGCATCCAGAACCATTAGAAATCATGCTAAGTTTCATCTTTGGGGT
*
7414127 CAGAATGGAATTTAAACATGTTTAAGATCAAATTTTCAAAAAAGACAAATGT
131 CAGAATGGAATTTAAACATATTTAAGATCAAATTTTCAAAAAAGACAAATGT
7414179 CATTTTCCAC
Statistics
Matches: 180, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
183 180 1.00
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.37
Consensus pattern (183 bp):
ATACATTCAGGTATTTTTTACCACTTCGAGCCATTTTTCTGCTCTTGTATTGTCCATTCAAAACT
TAGTTTTCAACACATGTTTTGCATCCAGAACCATTAGAAATCATGCTAAGTTTCATCTTTGGGGT
CAGAATGGAATTTAAACATATTTAAGATCAAATTTTCAAAAAAGACAAATGTA
Found at i:7414817 original size:23 final size:24
Alignment explanation
Indices: 7414776--7414829 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 24
7414766 TTGACAAACT
* *
7414776 AATTAGATAATGCAATATCG-AAA
1 AATTAGACAACGCAATATCGAAAA
*
7414799 AATTAGACAACGCAGTATCGATAAA
1 AATTAGACAACGCAATATCGA-AAA
7414824 AATTAG
1 AATTAG
7414830 TGTAGATAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 17 0.65
25 9 0.35
ACGTcount: A:0.50, C:0.11, G:0.15, T:0.24
Consensus pattern (24 bp):
AATTAGACAACGCAATATCGAAAA
Found at i:7416108 original size:20 final size:20
Alignment explanation
Indices: 7416062--7416108 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
7416052 TTTTACCTAT
*
7416062 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTAA
*
7416082 ATCTATCGATACATTTTTAA
1 ATGTATCGATACATTTTTAA
7416102 ATGTATC
1 ATGTATC
7416109 TGTAGACACC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.32, C:0.15, G:0.09, T:0.45
Consensus pattern (20 bp):
ATGTATCGATACATTTTTAA
Found at i:7421072 original size:19 final size:21
Alignment explanation
Indices: 7421048--7421087 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
7421038 CAATCAAGTT
7421048 TAATAAG-GA-AAAAGCATAC
1 TAATAAGAGATAAAAGCATAC
7421067 TAATAAGACGATAAAAGCATA
1 TAATAAGA-GATAAAAGCATA
7421088 TAGTATTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.39
21 2 0.11
22 9 0.50
ACGTcount: A:0.57, C:0.10, G:0.15, T:0.17
Consensus pattern (21 bp):
TAATAAGAGATAAAAGCATAC
Found at i:7424880 original size:53 final size:50
Alignment explanation
Indices: 7424677--7425019 Score: 233
Period size: 52 Copynumber: 6.9 Consensus size: 50
7424667 TGAAGGTACT
* *
7424677 AATGTGCTGATTCAAGGCCAGCGACATTAGACTT-AAGAAAAAAAGGTGCC
1 AATGTGCTGATTCAAGGCCAGCGATATTAGACTTAAAG-AGAAAAGGTGCC
* * * * *
7424727 AATGTGCTAATTTAAGGCCAGTGAGATTAGACTTAAAGACGACAA-GT--C
1 AATGTGCTGATTCAAGGCCAGCGATATTAGACTTAAAGA-GAAAAGGTGCC
* * * * * * * *
7424775 AATATGCTAATTGAAGGCCAGTGATATTGGATTTAAGAAAGGAAAATGTGCC
1 AATGTGCTGATTCAAGGCCAGCGATATTAGACTTAA-AGA-GAAAAGGTGCC
* *
7424827 AATGTGCTGATTCAAGGCTAGCGATATTTGGACTTAAAGATGATAAAGGTGCC
1 AATGTGCTGATTCAAGGCCAGCGATA-TTAGACTTAAAGA-GA-AAAGGTGCC
* * *
7424880 AATATGCTGATTCAAGACCAGCGATATTAGACTTAGGAA-AGAAAAAAGTGCC
1 AATGTGCTGATTCAAGGCCAGCGATATTAGACTTA--AAGAG-AAAAGGTGCC
* * * * * *
7424932 ATTGTGTTGATTCAAGGCCAACGGTATTTGGACTT------AAAAGGTGTC
1 AATGTGCTGATTCAAGGCCAGCGATA-TTAGACTTAAAGAGAAAAGGTGCC
* * *
7424977 AATATGCTGATTCAAGGCCAGTGATATTGGACTTAGAA-AGAAA
1 AATGTGCTGATTCAAGGCCAGCGATATTAGACTTA-AAGAGAAA
7425020 TGGTTTGACA
Statistics
Matches: 232, Mismatches: 43, Indels: 36
0.75 0.14 0.12
Matches are distributed among these distances:
44 8 0.03
45 28 0.12
48 32 0.14
49 6 0.03
50 38 0.16
51 6 0.03
52 63 0.27
53 49 0.21
54 2 0.01
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.26
Consensus pattern (50 bp):
AATGTGCTGATTCAAGGCCAGCGATATTAGACTTAAAGAGAAAAGGTGCC
Found at i:7424931 original size:105 final size:103
Alignment explanation
Indices: 7424657--7425019 Score: 335
Period size: 105 Copynumber: 3.6 Consensus size: 103
7424647 TAGTGATATC
* * *
7424657 GGAC-TAAAGATG--AAGGTACTAATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAG-AA-A
1 GGACTTAAAGATGAAAAGGTGC-AATATGCTGATTCAAGGCCAGCGATATTAGACTTAAGAAAGA
* * * * *
7424717 AAAAGGTGCCAATGTGCTAATTTAAGGCCAGTGAGA-TT
65 AAAAAGTGCCAATGTGCTGATTCAAGGCCAGCGATATTT
* * * * * * * * *
7424755 AGACTTAAAGACGACAA-GT-CAATATGCTAATTGAAGGCCAGTGATATTGGATTTAAGAAAGGA
1 GGACTTAAAGATGAAAAGGTGCAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAGAAAGAA
* *
7424818 AAATGTGCCAATGTGCTGATTCAAGGCTAGCGATATTT
66 AAAAGTGCCAATGTGCTGATTCAAGGCCAGCGATATTT
* *
7424856 GGACTTAAAGATGATAAAGGTGCCAATATGCTGATTCAAGACCAGCGATATTAGACTTAGGAAAG
1 GGACTTAAAGATGA-AAAGGTG-CAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAGAAAG
* * * *
7424921 AAAAAAGTGCCATTGTGTTGATTCAAGGCCAACGGTATTT
64 AAAAAAGTGCCAATGTGCTGATTCAAGGCCAGCGATATTT
* *
7424961 GGAC-T-----T-AAAAGGTGTCAATATGCTGATTCAAGGCCAGTGATATTGGACTT-AGAAAGA
1 GGACTTAAAGATGAAAAGGTG-CAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAGAAAGA
7425018 AA
65 AA
7425020 TGGTTTGACA
Statistics
Matches: 217, Mismatches: 38, Indels: 22
0.78 0.14 0.08
Matches are distributed among these distances:
96 8 0.04
97 39 0.18
98 34 0.16
99 11 0.05
100 32 0.15
101 16 0.07
102 2 0.01
103 2 0.01
104 1 0.00
105 72 0.33
ACGTcount: A:0.37, C:0.13, G:0.25, T:0.25
Consensus pattern (103 bp):
GGACTTAAAGATGAAAAGGTGCAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAGAAAGAA
AAAAGTGCCAATGTGCTGATTCAAGGCCAGCGATATTT
Found at i:7425156 original size:31 final size:31
Alignment explanation
Indices: 7425086--7425226 Score: 183
Period size: 31 Copynumber: 4.5 Consensus size: 31
7425076 AGATGCCATT
* *
7425086 GACTTGTATGGGCTTTTGAAAGGGTTGCCACC
1 GACTTGTGTGGGCTTTAG-AAGGGTTGCCACC
* * *
7425118 GATTTGTGTGGGCTTTAGAAGGGTTACTACC
1 GACTTGTGTGGGCTTTAGAAGGGTTGCCACC
*
7425149 AACTTGTGTGGGCTTTAGAAGGGTTGCCACC
1 GACTTGTGTGGGCTTTAGAAGGGTTGCCACC
* * * *
7425180 GACTTGTATAGGCTTTAAAAGGGTGGCCACC
1 GACTTGTGTGGGCTTTAGAAGGGTTGCCACC
7425211 GACTTGTGTGGGCTTT
1 GACTTGTGTGGGCTTT
7425227 TGCAAAAGTG
Statistics
Matches: 93, Mismatches: 16, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
31 78 0.84
32 15 0.16
ACGTcount: A:0.19, C:0.17, G:0.32, T:0.32
Consensus pattern (31 bp):
GACTTGTGTGGGCTTTAGAAGGGTTGCCACC
Found at i:7426701 original size:11 final size:11
Alignment explanation
Indices: 7426696--7426762 Score: 79
Period size: 10 Copynumber: 6.4 Consensus size: 11
7426686 ATTTTTGTTG
7426696 TTTTT-TTATT
1 TTTTTGTTATT
7426706 TTTTTGTTATT
1 TTTTTGTTATT
*
7426717 ATTTTTGTTTTT
1 -TTTTTGTTATT
7426729 TTTTTGTT-TT
1 TTTTTGTTATT
*
7426739 TGTTT-TTATT
1 TTTTTGTTATT
7426749 TTTTTGTT-TT
1 TTTTTGTTATT
7426759 TTTT
1 TTTT
7426763 AGAAGGATGC
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
9 2 0.04
10 23 0.46
11 15 0.30
12 10 0.20
ACGTcount: A:0.06, C:0.00, G:0.07, T:0.87
Consensus pattern (11 bp):
TTTTTGTTATT
Found at i:7426708 original size:29 final size:29
Alignment explanation
Indices: 7426676--7426761 Score: 111
Period size: 31 Copynumber: 2.9 Consensus size: 29
7426666 CATCCGAACC
*
7426676 TTTTTCTTTTATTTTTGTTGTTTTTTTAT
1 TTTTTTTTTTATTTTTGTTGTTTTTTTAT
* *
7426705 TTTTTTGTTATTATTTTTGTTTTTTTTTTGT
1 TTTTTT-TT-TTATTTTTGTTGTTTTTTTAT
*
7426736 TTTTGTTTTTATTTTT-TTGTTTTTTT
1 TTTTTTTTTTATTTTTGTTGTTTTTTT
7426762 TAGAAGGATG
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
28 9 0.18
29 13 0.26
30 4 0.08
31 24 0.48
ACGTcount: A:0.06, C:0.01, G:0.08, T:0.85
Consensus pattern (29 bp):
TTTTTTTTTTATTTTTGTTGTTTTTTTAT
Found at i:7426722 original size:31 final size:29
Alignment explanation
Indices: 7426676--7426762 Score: 115
Period size: 29 Copynumber: 3.0 Consensus size: 29
7426666 CATCCGAACC
* *
7426676 TTTTTCTTTTATTTTTGTTGTTTTTTTATT
1 TTTTTGTTTTATTTTTGTTGTTTTTTT-TG
7426706 TTTTTGTTATTATTTTTGTT-TTTTTTTTG
1 TTTTTGTT-TTATTTTTGTTGTTTTTTTTG
7426735 TTTTTGTTTTTATTTTT-TTGTTTTTTTT
1 TTTTTG-TTTTATTTTTGTTGTTTTTTTT
7426763 AGAAGGATGC
Statistics
Matches: 52, Mismatches: 2, Indels: 7
0.85 0.03 0.11
Matches are distributed among these distances:
28 2 0.04
29 23 0.44
30 16 0.31
31 11 0.21
ACGTcount: A:0.06, C:0.01, G:0.08, T:0.85
Consensus pattern (29 bp):
TTTTTGTTTTATTTTTGTTGTTTTTTTTG
Found at i:7426778 original size:1 final size:1
Alignment explanation
Indices: 7426676--7426762 Score: 57
Period size: 1 Copynumber: 87.0 Consensus size: 1
7426666 CATCCGAACC
* * * * * * * * * * *
7426676 TTTTTCTTTTATTTTTGTTGTTTTTTTATTTTTTTGTTATTATTTTTGTTTTTTTTTTGTTTTTG
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* *
7426741 TTTTTATTTTTTTGTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTT
7426763 AGAAGGATGC
Statistics
Matches: 60, Mismatches: 26, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
1 60 1.00
ACGTcount: A:0.06, C:0.01, G:0.08, T:0.85
Consensus pattern (1 bp):
T
Found at i:7435310 original size:30 final size:32
Alignment explanation
Indices: 7435244--7435320 Score: 90
Period size: 31 Copynumber: 2.5 Consensus size: 32
7435234 TATTTTTTGA
7435244 AAATTA-AAAAAATATTATATTAACAAAGATT
1 AAATTATAAAAAATATTATATTAACAAAGATT
* *
7435275 AAATTATAAAAAATATTTTTTTTAA-AAA-A-T
1 AAATTATAAAAAATA-TTATATTAACAAAGATT
7435305 AAATTATAAAGAAATA
1 AAATTATAAA-AAATA
7435321 ATATGATCGG
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
30 11 0.27
31 12 0.29
32 11 0.27
33 7 0.17
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.35
Consensus pattern (32 bp):
AAATTATAAAAAATATTATATTAACAAAGATT
Found at i:7435522 original size:11 final size:11
Alignment explanation
Indices: 7435506--7435537 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
7435496 CGAAATGGTG
7435506 TTTATAATTAC
1 TTTATAATTAC
7435517 TTTATAATTAC
1 TTTATAATTAC
7435528 TTTATAATTA
1 TTTATAATTA
7435538 TATTTAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (11 bp):
TTTATAATTAC
Found at i:7436003 original size:15 final size:16
Alignment explanation
Indices: 7435983--7436013 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
7435973 TACAACATTC
7435983 AAATAAAATA-TATTT
1 AAATAAAATATTATTT
7435998 AAATAAAATATTATTT
1 AAATAAAATATTATTT
7436014 TTAATTTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
AAATAAAATATTATTT
Found at i:7437061 original size:14 final size:15
Alignment explanation
Indices: 7437042--7437075 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
7437032 TCATAAAAAC
*
7437042 TAATAA-AAGTATTT
1 TAATAAGAAGTATTA
7437056 TAATAAGAAGTATTA
1 TAATAAGAAGTATTA
7437071 TAATA
1 TAATA
7437076 TACACATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.38
Consensus pattern (15 bp):
TAATAAGAAGTATTA
Found at i:7437543 original size:17 final size:17
Alignment explanation
Indices: 7437451--7437547 Score: 90
Period size: 16 Copynumber: 5.5 Consensus size: 17
7437441 ATATGAATTC
7437451 AAAATAATTTAAATTTA
1 AAAATAATTTAAATTTA
*
7437468 AAAA-AATTTAAATCTA
1 AAAATAATTTAAATTTA
* *
7437484 AAAACTAATATAATCTTTA
1 AAAA-TAATTTAA-ATTTA
7437503 TCTAAAATAAATTTAAATTT-
1 ---AAAAT-AATTTAAATTTA
*
7437523 AAAATAATTTTAATTTA
1 AAAATAATTTAAATTTA
7437540 AAAATAAT
1 AAAATAAT
7437548 ACAATGGAAC
Statistics
Matches: 65, Mismatches: 7, Indels: 16
0.74 0.08 0.18
Matches are distributed among these distances:
16 25 0.38
17 17 0.26
18 6 0.09
19 3 0.05
21 4 0.06
22 10 0.15
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (17 bp):
AAAATAATTTAAATTTA
Found at i:7443759 original size:15 final size:14
Alignment explanation
Indices: 7443739--7443779 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 14
7443729 GTTTAATTAA
7443739 AAATAAATAAATATT
1 AAATAAATAAAT-TT
7443754 AAATAAATAAATTT
1 AAATAAATAAATTT
7443768 AATATTAAATAA
1 AA-A-TAAATAA
7443780 TAGATAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.17
15 13 0.54
16 7 0.29
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
AAATAAATAAATTT
Found at i:7443773 original size:20 final size:19
Alignment explanation
Indices: 7443739--7443790 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
7443729 GTTTAATTAA
7443739 AAATAAATAAATATTAAAT
1 AAATAAATAAATATTAAAT
*
7443758 AAATAAATTTAATATTAAAT
1 AAATAAA-TAAATATTAAAT
*
7443778 -AATAGATAAATAT
1 AAATAAATAAATAT
7443791 AGTAAACAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
18 6 0.21
19 12 0.41
20 11 0.38
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (19 bp):
AAATAAATAAATATTAAAT
Found at i:7445262 original size:2 final size:2
Alignment explanation
Indices: 7445255--7445282 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
7445245 TTACCTGTTT
7445255 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7445283 CACACACACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7445303 original size:4 final size:4
Alignment explanation
Indices: 7445296--7445350 Score: 92
Period size: 4 Copynumber: 13.8 Consensus size: 4
7445286 ACACACACAC
*
7445296 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ATAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
7445344 ACTT ACA
1 ACAT ACA
7445351 AAGAGAGAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 47 1.00
ACGTcount: A:0.49, C:0.24, G:0.00, T:0.27
Consensus pattern (4 bp):
ACAT
Found at i:7446131 original size:13 final size:14
Alignment explanation
Indices: 7446105--7446139 Score: 54
Period size: 13 Copynumber: 2.5 Consensus size: 14
7446095 TTTTATATTG
7446105 TCTTGTTTTCTTCTT
1 TCTT-TTTTCTTCTT
7446120 TCTTTTTT-TTCTT
1 TCTTTTTTCTTCTT
7446133 TCTTTTT
1 TCTTTTT
7446140 CTTTGCAACG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 12 0.60
14 4 0.20
15 4 0.20
ACGTcount: A:0.00, C:0.17, G:0.03, T:0.80
Consensus pattern (14 bp):
TCTTTTTTCTTCTT
Found at i:7446140 original size:10 final size:10
Alignment explanation
Indices: 7446111--7446143 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
7446101 ATTGTCTTGT
7446111 TTTCTTCTTTC
1 TTTCTT-TTTC
7446122 TTT-TTTTTC
1 TTTCTTTTTC
7446131 TTTCTTTTTC
1 TTTCTTTTTC
7446141 TTT
1 TTT
7446144 GCAACGGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 7 0.33
10 11 0.52
11 3 0.14
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTCTTTTTC
Found at i:7447092 original size:2 final size:2
Alignment explanation
Indices: 7447085--7447116 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
7447075 TAGTCATAAA
*
7447085 AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7447117 TATCTCCCCT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7447281 original size:76 final size:76
Alignment explanation
Indices: 7447155--7447367 Score: 216
Period size: 75 Copynumber: 2.8 Consensus size: 76
7447145 ACCATAACTT
* * ** *
7447155 TAAACCGATGGCACGGTTTGAAACGAAAATCACTATTCTAAATTGATGGCATGGTTCGAAATA-A
1 TAAACCGA-GGCACGGTTTGAAACAAAAATCACTATTCTTAACCGGTGGCATGGTTCGAAATACA
*
7447219 AAATTATTATTC
65 AAATTACTATTC
*
7447231 TAAACCAGAGGCACGGTTTGAAACAAAAATCACTATTCTTAACCGGTGGCACGGTTC--AATACA
1 TAAACC-GAGGCACGGTTTGAAACAAAAATCACTATTCTTAACCGGTGGCATGGTTCGAAATACA
*
7447294 AAATTACTATTT
65 AAATTACTATTC
* * * * * * * ** *
7447306 TTAACCTGTGACACGGTTCGAAATAGAAATTACTATTCTTAACCGGTGTTATGGTTTGAAAT
1 TAAACC-GAGGCACGGTTTGAAACAAAAATCACTATTCTTAACCGGTGGCATGGTTCGAAAT
7447368 TGGCTTCTAA
Statistics
Matches: 113, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
74 4 0.04
75 56 0.50
76 48 0.42
77 5 0.04
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.31
Consensus pattern (76 bp):
TAAACCGAGGCACGGTTTGAAACAAAAATCACTATTCTTAACCGGTGGCATGGTTCGAAATACAA
AATTACTATTC
Found at i:7447295 original size:38 final size:37
Alignment explanation
Indices: 7447157--7447353 Score: 153
Period size: 38 Copynumber: 5.2 Consensus size: 37
7447147 CATAACTTTA
* * * * *
7447157 AACCGATGGCACGGTTTGAAACGAAAATCACTATTCTA
1 AACCGGTGGCACGG-TTCAAACAAAAATTACTATTCTT
** * * * * *
7447195 AATTGATGGCATGGTTCGAAATAAAAATTATTATTCTA
1 AACCGGTGGCACGGTTC-AAACAAAAATTACTATTCTT
* * * *
7447233 AACCAGAGGCACGGTTTGAAACAAAAATCACTATTCTT
1 AACCGGTGGCACGG-TTCAAACAAAAATTACTATTCTT
*
7447271 AACCGGTGGCACGGTTCAATAC-AAAATTACTATTTTT
1 AACCGGTGGCACGGTTCAA-ACAAAAATTACTATTCTT
* * * *
7447308 AACCTGTGACACGGTTCGAAATAGAAATTACTATTCTT
1 AACCGGTGGCACGGTTC-AAACAAAAATTACTATTCTT
7447346 AACCGGTG
1 AACCGGTG
7447354 TTATGGTTTG
Statistics
Matches: 124, Mismatches: 30, Indels: 10
0.76 0.18 0.06
Matches are distributed among these distances:
37 35 0.28
38 87 0.70
39 2 0.02
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29
Consensus pattern (37 bp):
AACCGGTGGCACGGTTCAAACAAAAATTACTATTCTT
Found at i:7447895 original size:17 final size:17
Alignment explanation
Indices: 7447873--7447907 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
7447863 ATATATATCT
7447873 AAAAAT-TAGAATTTAAC
1 AAAAATATA-AATTTAAC
7447890 AAAAATATAAATTTAAC
1 AAAAATATAAATTTAAC
7447907 A
1 A
7447908 GCGTACGACG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 15 0.88
18 2 0.12
ACGTcount: A:0.63, C:0.06, G:0.03, T:0.29
Consensus pattern (17 bp):
AAAAATATAAATTTAAC
Found at i:7448159 original size:20 final size:20
Alignment explanation
Indices: 7448136--7448180 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
7448126 AAATAGAGAT
*
7448136 AAATTTGTAAATATAT-ATTA
1 AAATTTGTAAAAAT-TCATTA
*
7448156 AAATATGTAAAAATTCATTA
1 AAATTTGTAAAAATTCATTA
7448176 AAATT
1 AAATT
7448181 AATAAAGCTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 1 0.05
20 20 0.95
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.40
Consensus pattern (20 bp):
AAATTTGTAAAAATTCATTA
Found at i:7453885 original size:38 final size:39
Alignment explanation
Indices: 7453793--7453913 Score: 140
Period size: 38 Copynumber: 3.1 Consensus size: 39
7453783 AGCTATGAAC
* *
7453793 AAAAATCACTATTTTAAAAAGCTGGTGGTACGGTTCGAAA-
1 AAAAATCACTATTTT--AAACCTGGTGGCACGGTTCGAAAT
* * *
7453833 GAAAATCACTATTTTAAA-CTGGTGGCACAGTTCAAAAT
1 AAAAATCACTATTTTAAACCTGGTGGCACGGTTCGAAAT
* *
7453871 AAAAATTACTATTTTAAACCT-GTGGCAGGGTTCGAAAT
1 AAAAATCACTATTTTAAACCTGGTGGCACGGTTCGAAAT
7453909 AAAAA
1 AAAAA
7453914 CTATTATTCT
Statistics
Matches: 70, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
37 16 0.23
38 38 0.54
39 2 0.03
40 14 0.20
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.28
Consensus pattern (39 bp):
AAAAATCACTATTTTAAACCTGGTGGCACGGTTCGAAAT
Found at i:7453935 original size:38 final size:40
Alignment explanation
Indices: 7453834--7453983 Score: 93
Period size: 38 Copynumber: 3.9 Consensus size: 40
7453824 GGTTCGAAAG
* * * *
7453834 AAAATCACTATT-TTAAACTGGTGGCACAGTTC-AAA-ATA
1 AAAATCACTATTCTTAATC-GATGGCACGGTTCGAAATACA
* * *
7453872 AAAATTACTATT-TTAAACCTG-TGGCAGGGTTCGAAATA-A
1 AAAATCACTATTCTT-AATC-GATGGCACGGTTCGAAATACA
* * * *
7453911 AAACT-ATTATTCTTAATCGATGGCATGATTC--AATACA
1 AAAATCACTATTCTTAATCGATGGCACGGTTCGAAATACA
* *
7453948 AAAATCACTATTTTTAATCGATGGCACGGTTTGAAA
1 AAAATCACTATTCTTAATCGATGGCACGGTTCGAAA
7453984 CCAGTTTTTA
Statistics
Matches: 88, Mismatches: 15, Indels: 16
0.74 0.13 0.13
Matches are distributed among these distances:
36 4 0.05
37 6 0.07
38 60 0.68
39 15 0.17
40 3 0.03
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.32
Consensus pattern (40 bp):
AAAATCACTATTCTTAATCGATGGCACGGTTCGAAATACA
Found at i:7454518 original size:33 final size:32
Alignment explanation
Indices: 7454476--7454537 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
7454466 CACCCAGATG
*
7454476 TATCGATACATATTGCTTGGTATTGATACATTA
1 TATCGATACATATT-CTTGGTATCGATACATTA
* *
7454509 TATCGATACATGTTCTTTGTATCGATACA
1 TATCGATACATATTCTTGGTATCGATACA
7454538 CCATAAAATG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 13 0.50
33 13 0.50
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.42
Consensus pattern (32 bp):
TATCGATACATATTCTTGGTATCGATACATTA
Found at i:7454665 original size:43 final size:43
Alignment explanation
Indices: 7454617--7454718 Score: 168
Period size: 43 Copynumber: 2.4 Consensus size: 43
7454607 ATAATGGTAA
* *
7454617 ATTGTATCAATACATTGAGCCCAGCGGCTAGAATTTCAAATGC
1 ATTGTATCGATACATTGAGCCCAACGGCTAGAATTTCAAATGC
*
7454660 ATTGTATCGATACATTGAGTCCAACGGCTAGAATTTCAAATGC
1 ATTGTATCGATACATTGAGCCCAACGGCTAGAATTTCAAATGC
*
7454703 ATTATATCGATACATT
1 ATTGTATCGATACATT
7454719 ATGAATTGTA
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 55 1.00
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (43 bp):
ATTGTATCGATACATTGAGCCCAACGGCTAGAATTTCAAATGC
Found at i:7457057 original size:20 final size:20
Alignment explanation
Indices: 7457029--7457066 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
7457019 TCTATATAAC
*
7457029 AAGTTAATGTATCGATACAT
1 AAGTAAATGTATCGATACAT
7457049 AAGTAAATGTATCGATAC
1 AAGTAAATGTATCGATAC
7457067 TGAACCCTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.11, G:0.16, T:0.32
Consensus pattern (20 bp):
AAGTAAATGTATCGATACAT
Found at i:7462324 original size:16 final size:16
Alignment explanation
Indices: 7462299--7462348 Score: 82
Period size: 16 Copynumber: 3.1 Consensus size: 16
7462289 TTTAGGTTGA
7462299 TTTAGGTTCGGATCAT
1 TTTAGGTTCGGATCAT
* *
7462315 TTTAGCTTCGGATTAT
1 TTTAGGTTCGGATCAT
7462331 TTTAGGTTCGGATCAT
1 TTTAGGTTCGGATCAT
7462347 TT
1 TT
7462349 CGGATTCAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.18, C:0.12, G:0.22, T:0.48
Consensus pattern (16 bp):
TTTAGGTTCGGATCAT
Found at i:7463262 original size:16 final size:16
Alignment explanation
Indices: 7463241--7463271 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7463231 ATTGTTTAAG
7463241 TTATTTCGAGTTCGAA
1 TTATTTCGAGTTCGAA
*
7463257 TTATTTCGATTTCGA
1 TTATTTCGAGTTCGA
7463272 GTCATTTTCA
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:0.23, C:0.13, G:0.16, T:0.48
Consensus pattern (16 bp):
TTATTTCGAGTTCGAA
Found at i:7463367 original size:14 final size:15
Alignment explanation
Indices: 7463319--7463384 Score: 66
Period size: 14 Copynumber: 4.4 Consensus size: 15
7463309 TAATTTTTTT
7463319 AATTAATTTAAA-TTA
1 AATT-ATTTAAATTTA
*
7463334 AATTAAATTTGAATTTA
1 AATT--ATTTAAATTTA
*
7463351 AATTATTT-AATTAA
1 AATTATTTAAATTTA
7463365 AATT-TTTAAATTTA
1 AATTATTTAAATTTA
7463379 AATTAT
1 AATTAT
7463385 AATTGACGAA
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
13 3 0.07
14 18 0.41
15 9 0.20
16 7 0.16
17 7 0.16
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (15 bp):
AATTATTTAAATTTA
Found at i:7463932 original size:15 final size:17
Alignment explanation
Indices: 7463885--7463940 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
7463875 TTTAAATATT
*
7463885 ATATATAAAAAATTTTG
1 ATATATTAAAAATTTTG
* *
7463902 ATATATTAATAATTTTT
1 ATATATTAAAAATTTTG
*
7463919 AT-TA-TAAAAATTTTA
1 ATATATTAAAAATTTTG
7463934 ATATATT
1 ATATATT
7463941 TATATATTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
15 11 0.34
16 4 0.12
17 17 0.53
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (17 bp):
ATATATTAAAAATTTTG
Found at i:7463938 original size:32 final size:33
Alignment explanation
Indices: 7463841--7463957 Score: 104
Period size: 32 Copynumber: 3.7 Consensus size: 33
7463831 ATATTTATAT
* *
7463841 TATATTAATATATTTTTATATATTATAA--TT-A
1 TATATTAATATATTTTTAT-TATAAAAATTTTAA
* * *
7463872 TATTTTAA-ATA-TTATA-TATAAAAAATTTTGA
1 TATATTAATATATTTTTATTAT-AAAAATTTTAA
7463903 TATATTAATA-ATTTTTATTATAAAAATTTTAA
1 TATATTAATATATTTTTATTATAAAAATTTTAA
* *
7463935 TATATTTATATATTTATATTATA
1 TATATTAATATATTTTTATTATA
7463958 TTAATATTTT
Statistics
Matches: 69, Mismatches: 9, Indels: 14
0.75 0.10 0.15
Matches are distributed among these distances:
27 3 0.04
28 3 0.04
29 4 0.06
30 5 0.07
31 16 0.23
32 24 0.35
33 14 0.20
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (33 bp):
TATATTAATATATTTTTATTATAAAAATTTTAA
Found at i:7477808 original size:19 final size:20
Alignment explanation
Indices: 7477764--7477816 Score: 72
Period size: 19 Copynumber: 2.7 Consensus size: 20
7477754 CTGCCAGTTT
**
7477764 CATGTATCGATACAATTGTC
1 CATGTATCGATACAATTGAA
7477784 CATGTATCGATACAA-TGAA
1 CATGTATCGATACAATTGAA
*
7477803 CATGTATCAATACA
1 CATGTATCGATACA
7477817 TCTGGGTGTG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.30
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:7486611 original size:19 final size:19
Alignment explanation
Indices: 7486556--7486611 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
7486546 CTGCCAGTTT
**
7486556 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAA
*
7486576 CATGTATCGATATAATGAA
1 CATGTATCGATACAATGAA
*
7486595 CATGTATCCATACAATG
1 CATGTATCGATACAATG
7486612 TATCGATACA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.32
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:7488089 original size:15 final size:15
Alignment explanation
Indices: 7488054--7488103 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
7488044 GCACATTTAT
*
7488054 TTTTAGCATAGATAC
1 TTTTGGCATAGATAC
7488069 -TTTGGCATAGATAC
1 TTTTGGCATAGATAC
* *
7488083 TTTTGGCATAGGTGC
1 TTTTGGCATAGATAC
7488098 TTTTGG
1 TTTTGG
7488104 TACAAGTACT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
14 13 0.42
15 18 0.58
ACGTcount: A:0.22, C:0.12, G:0.24, T:0.42
Consensus pattern (15 bp):
TTTTGGCATAGATAC
Found at i:7488118 original size:14 final size:14
Alignment explanation
Indices: 7488099--7488129 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
7488089 CATAGGTGCT
7488099 TTTGGTACAAGTAC
1 TTTGGTACAAGTAC
*
7488113 TTTGGTACAGGTAC
1 TTTGGTACAAGTAC
7488127 TTT
1 TTT
7488130 AACAAAACTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.13, G:0.23, T:0.42
Consensus pattern (14 bp):
TTTGGTACAAGTAC
Found at i:7488200 original size:14 final size:14
Alignment explanation
Indices: 7488181--7488253 Score: 60
Period size: 14 Copynumber: 5.1 Consensus size: 14
7488171 TTGTTATAGA
*
7488181 TACTTTGACAGAAG
1 TACTTTGGCAGAAG
7488195 TACTTTGGCA-AAGG
1 TACTTTGGCAGAA-G
*
7488209 TACTTTTGGCACAAG
1 TAC-TTTGGCAGAAG
* *
7488224 TATTTTGACAG-AG
1 TACTTTGGCAGAAG
*
7488237 CTACGTTGGCAGAAG
1 -TACTTTGGCAGAAG
7488252 TA
1 TA
7488254 TTTTAGTAAA
Statistics
Matches: 47, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
13 4 0.09
14 29 0.62
15 12 0.26
16 2 0.04
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (14 bp):
TACTTTGGCAGAAG
Found at i:7488212 original size:28 final size:28
Alignment explanation
Indices: 7488181--7488342 Score: 92
Period size: 28 Copynumber: 5.7 Consensus size: 28
7488171 TTGTTATAGA
*
7488181 TACTTTGACAGAAGTACTTTGGCAAAGG
1 TACTTTGACAGAAGTACTTTGGCAAAGC
* * * * *
7488209 TACTTTTGGCACAAGTATTTTGACAGAGC
1 TAC-TTTGACAGAAGTACTTTGGCAAAGC
* * * * * *
7488238 TACGTTGGCAGAAGTATTTTAGTAAAGG
1 TACTTTGACAGAAGTACTTTGGCAAAGC
* * * *
7488266 TACTTTTGCCA-CAGTTACTTTGGCATAGA
1 TAC-TTTGACAGAAG-TACTTTGGCAAAGC
* * * *
7488295 TTCTTTGAAAGAAGTACATTGGCATAGC
1 TACTTTGACAGAAGTACTTTGGCAAAGC
* *
7488323 TACTTTGACATAAATACTTT
1 TACTTTGACAGAAGTACTTT
7488343 TGTCACAAGT
Statistics
Matches: 98, Mismatches: 32, Indels: 8
0.71 0.23 0.06
Matches are distributed among these distances:
28 58 0.59
29 40 0.41
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (28 bp):
TACTTTGACAGAAGTACTTTGGCAAAGC
Found at i:7488308 original size:57 final size:57
Alignment explanation
Indices: 7488176--7488311 Score: 148
Period size: 57 Copynumber: 2.4 Consensus size: 57
7488166 GTACATTGTT
* * *
7488176 ATAGATACTTTGACAGAAGTACTTTGGCAAAGGTACTTTTGGCACAAGTATTTTGAC
1 ATAGATACTTTGACAGAAGTACTTTAGCAAAGGTACTTTTGCCACAAGTACTTTGAC
* * * * * * *
7488233 AGAGCTACGTTGGCAGAAGTATTTTAGTAAAGGTACTTTTGCCAC-AGTTACTTTGGC
1 ATAGATACTTTGACAGAAGTACTTTAGCAAAGGTACTTTTGCCACAAG-TACTTTGAC
* *
7488290 ATAGATTCTTTGAAAGAAGTAC
1 ATAGATACTTTGACAGAAGTAC
7488312 ATTGGCATAG
Statistics
Matches: 61, Mismatches: 17, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
56 2 0.03
57 59 0.97
ACGTcount: A:0.31, C:0.14, G:0.22, T:0.33
Consensus pattern (57 bp):
ATAGATACTTTGACAGAAGTACTTTAGCAAAGGTACTTTTGCCACAAGTACTTTGAC
Found at i:7488502 original size:14 final size:14
Alignment explanation
Indices: 7488485--7488516 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
7488475 AAAGGTACTT
7488485 TTGGCACAGATACC
1 TTGGCACAGATACC
*
7488499 TTGGCACAGATACT
1 TTGGCACAGATACC
7488513 TTGG
1 TTGG
7488517 AAGAAGTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.28
Consensus pattern (14 bp):
TTGGCACAGATACC
Found at i:7488543 original size:214 final size:214
Alignment explanation
Indices: 7488181--7488649 Score: 573
Period size: 214 Copynumber: 2.2 Consensus size: 214
7488171 TTGTTATAGA
* * * * * * *
7488181 TACTTTGACAGAAGTACTTTGGCAAAGGTACTTTTGGCACAAGTATTTTGACAGAGCTACGTTGG
1 TACTTTGATAGAAGTATTTTGACAAAGGTACTTTTGGCACAAGTACTTTAACAGAGCTACATTAG
* * * * *
7488246 CAGAAGTATTTTAGTAAAGGTACTTTTGCCACAGTTACTTTGGCATAGATTCTTTGAAAGAAGTA
66 CAGAAGTACTTTAGTAAAGGTACTTTTGCCACAGATACCTTGGCACAGATACTTTGAAAGAAGTA
* *
7488311 CATTGGCATAGCTACTTTGACATAAATACTTTTGTCACAAGTACTCTAACACAAATACCTCTAGC
131 CATTGACAAAGCTACTTTGACATAAATACTTTTGTCACAAGTACTCTAACACAAATACCTCTAGC
* *
7488376 ACAGGTATTTTAGCAAAAG
196 ACAGGTACTTTAACAAAAG
* * *
7488395 TACTTTGATAGAAGTATTTTGACAAATGTACTTTTGGCACAAGTACTTTAACATAGGTACATTAG
1 TACTTTGATAGAAGTATTTTGACAAAGGTACTTTTGGCACAAGTACTTTAACAGAGCTACATTAG
* * *
7488460 CATAAGTACTTTAGTAAAGGTACTTTTGGCACAGATACCTTGGCACAGATACTTTGGAAGAAGTA
66 CAGAAGTACTTTAGTAAAGGTACTTTTGCCACAGATACCTTGGCACAGATACTTTGAAAGAAGTA
** ** * * * * * *
7488525 TTTTGACACAAG-TACTTTGGTATAAGTACTTTTGTCATACGTACTCTAGCACATATACCTTTAG
131 CATTGACA-AAGCTACTTTGACATAAATACTTTTGTCACAAGTACTCTAACACAAATACCTCTAG
**
7488589 TGCAGGTACTTTAACAAAAG
195 CACAGGTACTTTAACAAAAG
* * *
7488609 TACTTTGATAGAAATATTTTTGGCACAGGTAC-TTTGGCACA
1 TACTTTGATAGAAGTA-TTTTGACAAAGGTACTTTTGGCACA
7488650 GGTGCTTTTT
Statistics
Matches: 215, Mismatches: 38, Indels: 4
0.84 0.15 0.02
Matches are distributed among these distances:
214 201 0.93
215 14 0.07
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.33
Consensus pattern (214 bp):
TACTTTGATAGAAGTATTTTGACAAAGGTACTTTTGGCACAAGTACTTTAACAGAGCTACATTAG
CAGAAGTACTTTAGTAAAGGTACTTTTGCCACAGATACCTTGGCACAGATACTTTGAAAGAAGTA
CATTGACAAAGCTACTTTGACATAAATACTTTTGTCACAAGTACTCTAACACAAATACCTCTAGC
ACAGGTACTTTAACAAAAG
Found at i:7488646 original size:14 final size:14
Alignment explanation
Indices: 7488627--7488657 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
7488617 TAGAAATATT
7488627 TTTGGCACAGGTAC
1 TTTGGCACAGGTAC
*
7488641 TTTGGCACAGGTGC
1 TTTGGCACAGGTAC
7488655 TTT
1 TTT
7488658 TTGTATAGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.16, C:0.19, G:0.29, T:0.35
Consensus pattern (14 bp):
TTTGGCACAGGTAC
Found at i:7493260 original size:18 final size:18
Alignment explanation
Indices: 7493221--7493264 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
7493211 ACTTAATAGT
* *
7493221 AATTAAAAATAATTTTAT
1 AATTAAAAATAATTTAAA
7493239 AATTAAAAAT-ATTTAAAA
1 AATTAAAAATAATTT-AAA
7493257 AATTAAAA
1 AATTAAAA
7493265 GAAAAAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 19 0.83
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
AATTAAAAATAATTTAAA
Found at i:7493568 original size:23 final size:21
Alignment explanation
Indices: 7493542--7493593 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
7493532 TATTAGATTA
7493542 TATAAAATAAATTTATATAATAT
1 TATAAAATAAA-TTAT-TAATAT
* *
7493565 TATAATATAAATTATTCATAT
1 TATAAAATAAATTATTAATAT
*
7493586 TTTAAAAT
1 TATAAAAT
7493594 TTTATAAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 11 0.44
22 4 0.16
23 10 0.40
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (21 bp):
TATAAAATAAATTATTAATAT
Found at i:7496374 original size:91 final size:90
Alignment explanation
Indices: 7496227--7496476 Score: 331
Period size: 91 Copynumber: 2.7 Consensus size: 90
7496217 ACATTTTCTG
* * ** *
7496227 TCATGTTAGAAGTAATTTGATACCTCATGCATCTGTCACATTTTTTGGGTTTCAAGATTAAATTT
1 TCATGTTAGAAGAAATTTGATACC-CATGCATCTGTCACATCTTTCAGGTTACAAGATTAAATTT
*
7496292 ATTAGGCATTAGTCAAATATTTTTTA
65 ATTAGACATTAGTCAAATATTTTTTA
* *
7496318 TTATGTTAGAAGAAATCTT-ATACTCCATACATCTGTCACATCTTTCAGGTTACAAGATTAAATT
1 TCATGTTAGAAGAAAT-TTGATAC-CCATGCATCTGTCACATCTTTCAGGTTACAAGATTAAATT
* *
7496382 TATTAGACATTAGTTAAATATTTTTTG
64 TATTAGACATTAGTCAAATATTTTTTA
* * * *
7496409 TCGTGTCAAAAGAAATTTGATACCCTATGCATCTATCACATCTTTCAGGTTACAAGATTAAATTT
1 TCATGTTAGAAGAAATTTGATACCC-ATGCATCTGTCACATCTTTCAGGTTACAAGATTAAATTT
7496474 ATT
65 ATT
7496477 TTCTGTTGTG
Statistics
Matches: 139, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
90 4 0.03
91 132 0.95
92 3 0.02
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.41
Consensus pattern (90 bp):
TCATGTTAGAAGAAATTTGATACCCATGCATCTGTCACATCTTTCAGGTTACAAGATTAAATTTA
TTAGACATTAGTCAAATATTTTTTA
Found at i:7496519 original size:73 final size:73
Alignment explanation
Indices: 7496400--7496549 Score: 221
Period size: 73 Copynumber: 2.1 Consensus size: 73
7496390 ATTAGTTAAA
* *
7496400 TATTTTTTGTCGTGTCAAAAGAAATTTGATACCCTATGCATCTATCACATCTTTCAGGTTACAAG
1 TATTTTCTGTCGTGTCAAAAGAAATTTGATACCCTATGCATCTATCACATCTTTCAAGTTACAAG
7496465 ATTAAATT
66 ATTAAATT
* ** * *
7496473 TATTTTCTGTTGTGTCGGAAGAAATTTGATA-CCTCATTCATTTATCACATCTTTCAAGTTACAA
1 TATTTTCTGTCGTGTCAAAAGAAATTTGATACCCT-ATGCATCTATCACATCTTTCAAGTTACAA
7496537 GATTAAATT
65 GATTAAATT
7496546 TATT
1 TATT
7496550 AGGCATTAGT
Statistics
Matches: 69, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
72 3 0.04
73 66 0.96
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.42
Consensus pattern (73 bp):
TATTTTCTGTCGTGTCAAAAGAAATTTGATACCCTATGCATCTATCACATCTTTCAAGTTACAAG
ATTAAATT
Found at i:7496779 original size:15 final size:15
Alignment explanation
Indices: 7496726--7496782 Score: 51
Period size: 15 Copynumber: 3.6 Consensus size: 15
7496716 TTTGAATGAT
* *
7496726 AAAAATATATATTAT
1 AAAAATACATATTAA
* *
7496741 ACAAATGACACTAATAA
1 AAAAAT-ACA-TATTAA
7496758 TAAAAATACATATTAA
1 -AAAAATACATATTAA
7496774 AAAAATACA
1 AAAAATACA
7496783 CATAAAGTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
15 14 0.42
16 7 0.21
17 7 0.21
18 5 0.15
ACGTcount: A:0.63, C:0.09, G:0.02, T:0.26
Consensus pattern (15 bp):
AAAAATACATATTAA
Found at i:7498706 original size:50 final size:50
Alignment explanation
Indices: 7498646--7498766 Score: 154
Period size: 50 Copynumber: 2.4 Consensus size: 50
7498636 TAAATTTCTT
*
7498646 AATTTTTCATCTCGGAGATACTCTAACCCCAACTTTA-TTTCTAAAATATT
1 AATTTTTCATCTCGGAGATACTCTAACCCCAACTTTATTTTC-AAAATATC
* * ***
7498696 GATTTTTCATCTCGGGGATACTCTAACCCCGGTTTTATTTTCAAAATATC
1 AATTTTTCATCTCGGAGATACTCTAACCCCAACTTTATTTTCAAAATATC
*
7498746 AATTTTTCATAATCGGAGATA
1 AATTTTTCAT-CTCGGAGATA
7498767 TTCCAATCCC
Statistics
Matches: 60, Mismatches: 9, Indels: 3
0.83 0.12 0.04
Matches are distributed among these distances:
50 48 0.80
51 12 0.20
ACGTcount: A:0.30, C:0.20, G:0.11, T:0.40
Consensus pattern (50 bp):
AATTTTTCATCTCGGAGATACTCTAACCCCAACTTTATTTTCAAAATATC
Found at i:7498803 original size:79 final size:79
Alignment explanation
Indices: 7498713--7499092 Score: 290
Period size: 79 Copynumber: 4.8 Consensus size: 79
7498703 CATCTCGGGG
* * * *
7498713 ATACTCTAACCCCGGTTTTATTTTCAAAATATCAATTTTTCATAATCGGAGATATTCCAATCCC-
1 ATACTCCAACCCCGATTTTATTTTCAAAATATCGATTTTTCATAATCGGAGATACTCCAA-CCCT
7498777 GTTATTTTCGAGGGA
65 GTTATTTTCGAGGGA
** * * * * ** *
7498792 ATACTCCAACCCCGGCTTTA-GTTCTAAAATATTGATTTCTCACAATCGGAGATACTTTAGCCCT
1 ATACTCCAACCCCGATTTTATTTTC-AAAATATCGATTTTTCATAATCGGAGATACTCCAACCCT
*
7498856 GTTATTTTGGCAGGG-
65 GTTATTTTCG-AGGGA
* ** * * * * *
7498871 ACACTCCAACCCCGACCTTA-TTTCTAAAGCT-TTGATTTTCCACAATCGGGGATACTCCAACCC
1 ATACTCCAACCCCGATTTTATTTTC-AAA-ATATCGATTTTTCATAATCGGAGATACTCCAACCC
* *
7498934 CGTTATTTTCGAGGGG
64 TGTTATTTTCGAGGGA
* * * * *
7498950 ATACTCTAACCCCGATTTTATTTTCAAAACACCGA-TTTTCTATAATCAGG-GATGCTCTAACCC
1 ATACTCCAACCCCGATTTTATTTTCAAAATATCGATTTTTC-ATAATC-GGAGATACTCCAACCC
*
7499013 TGTTATTTCCGAGGGA
64 TGTTATTTTCGAGGGA
* * * * * * *
7499029 ATACTCCAACCCTGATTTTATTTCCAGAACATCCATTTTCCATAATTAAGG-GATACTCCAACCC
1 ATACTCCAACCCCGATTTTATTTTCAAAATATCGATTTTTCATAA-T-CGGAGATACTCCAACCC
7499093 CATTGCCATC
Statistics
Matches: 239, Mismatches: 50, Indels: 23
0.77 0.16 0.07
Matches are distributed among these distances:
78 14 0.06
79 196 0.82
80 29 0.12
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.33
Consensus pattern (79 bp):
ATACTCCAACCCCGATTTTATTTTCAAAATATCGATTTTTCATAATCGGAGATACTCCAACCCTG
TTATTTTCGAGGGA
Found at i:7499052 original size:158 final size:158
Alignment explanation
Indices: 7498747--7499040 Score: 344
Period size: 158 Copynumber: 1.9 Consensus size: 158
7498737 CAAAATATCA
* * * * *
7498747 ATTTTTCATAATCGGAGATATTCCAATCCCGTTATTTTCGAGGGAATACTCCAACCCCGGCTTTA
1 ATTTTCCACAATCGGAGATACTCCAACCCCGTTATTTTCGAGGGAATACTCCAACCCCGACTTTA
* ** * * **
7498812 GTTCTAAAATATTGATTTCTCACAATCGGAGATACTTTAGCCCTGTTATTTTGGCAGGGACACTC
66 GTTCTAAAACACCGATTTCTCACAATCGGAGATACTCTAACCCTGTTATTTCCGCAGGGACACTC
7498877 CAACCCCGACCTTATTTCTAAAGCTTTG
131 CAACCCCGACCTTATTTCTAAAGCTTTG
* * * *
7498905 ATTTTCCACAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCTAACCCCGATTTTA
1 ATTTTCCACAATCGGAGATACTCCAACCCCGTTATTTTCGAGGGAATACTCCAACCCCGACTTTA
* * * *
7498970 -TTTTCAAAACACCGATTT-TCTATAATCAGG-GATGCTCTAACCCTGTTATTTCCG-AGGGAAT
66 GTTCT-AAAACACCGATTTCTC-ACAATC-GGAGATACTCTAACCCTGTTATTTCCGCAGGG-AC
7499031 ACTCCAACCC
127 ACTCCAACCC
7499041 TGATTTTATT
Statistics
Matches: 112, Mismatches: 20, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
157 9 0.08
158 101 0.90
159 2 0.02
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.33
Consensus pattern (158 bp):
ATTTTCCACAATCGGAGATACTCCAACCCCGTTATTTTCGAGGGAATACTCCAACCCCGACTTTA
GTTCTAAAACACCGATTTCTCACAATCGGAGATACTCTAACCCTGTTATTTCCGCAGGGACACTC
CAACCCCGACCTTATTTCTAAAGCTTTG
Found at i:7501356 original size:21 final size:21
Alignment explanation
Indices: 7501298--7501357 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 21
7501288 ACAATATCAA
* *
7501298 TAAATTTAATTGTACTAAAAT
1 TAAATTTAATTATAATAAAAT
* * *
7501319 TAAACTTAGTTACAATAAAAT
1 TAAATTTAATTATAATAAAAT
*
7501340 TAAATTTAATAATAATAA
1 TAAATTTAATTATAATAA
7501358 TAAATTACAA
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.38
Consensus pattern (21 bp):
TAAATTTAATTATAATAAAAT
Found at i:7507395 original size:27 final size:26
Alignment explanation
Indices: 7507332--7507395 Score: 65
Period size: 27 Copynumber: 2.4 Consensus size: 26
7507322 TTTATTCATC
*
7507332 AGGGATACTCTAACCGCATTATTCCA
1 AGGGATACTCCAACCGCATTATTCCA
* * * *
7507358 AGGAGACACTCCAACCTCATTCTTCCG
1 AGG-GATACTCCAACCGCATTATTCCA
7507385 AGAGGATACTC
1 AG-GGATACTC
7507396 AAATCCTATT
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
26 3 0.10
27 26 0.87
28 1 0.03
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (26 bp):
AGGGATACTCCAACCGCATTATTCCA
Found at i:7514197 original size:15 final size:16
Alignment explanation
Indices: 7514177--7514209 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
7514167 CACCTTATTA
7514177 TCAATTA-ATTATCAT
1 TCAATTATATTATCAT
*
7514192 TCAATTATATTATGAT
1 TCAATTATATTATCAT
7514208 TC
1 TC
7514210 TTAATTTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.36, C:0.12, G:0.03, T:0.48
Consensus pattern (16 bp):
TCAATTATATTATCAT
Found at i:7516614 original size:17 final size:18
Alignment explanation
Indices: 7516594--7516627 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
7516584 TTAAAATATT
*
7516594 AATAA-AAAATATATTTG
1 AATAAGAAAATAAATTTG
7516611 AATAAGAAAATAAATTT
1 AATAAGAAAATAAATTT
7516628 ATTTATACTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (18 bp):
AATAAGAAAATAAATTTG
Found at i:7516652 original size:21 final size:20
Alignment explanation
Indices: 7516627--7516665 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
7516617 AAAATAAATT
7516627 TATTTATACTAAGTTTTTACA
1 TATTTATAC-AAGTTTTTACA
* *
7516648 TATTTTTACAATTTTTTA
1 TATTTATACAAGTTTTTA
7516666 TATGATAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.31, C:0.08, G:0.03, T:0.59
Consensus pattern (20 bp):
TATTTATACAAGTTTTTACA
Found at i:7517263 original size:22 final size:23
Alignment explanation
Indices: 7517224--7517267 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
7517214 CTTTAAAAAA
7517224 AATTTATAAAAAATTATTATTTT
1 AATTTATAAAAAATTATTATTTT
*
7517247 AATTTTTAAAAAA-TATTATTT
1 AATTTATAAAAAATTATTATTT
7517268 AATAATAACG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
AATTTATAAAAAATTATTATTTT
Found at i:7517709 original size:30 final size:31
Alignment explanation
Indices: 7517654--7517712 Score: 86
Period size: 30 Copynumber: 1.9 Consensus size: 31
7517644 TTTTTATTTA
*
7517654 AATTTTATTATAAAATATAAAAATAATTTTT
1 AATTTTATAATAAAATATAAAAATAATTTTT
7517685 AATTTT-TAATAAAA-ATAAATAATAATTT
1 AATTTTATAATAAAATATAAA-AATAATTT
7517713 AAATTTAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 5 0.19
30 15 0.58
31 6 0.23
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (31 bp):
AATTTTATAATAAAATATAAAAATAATTTTT
Found at i:7518232 original size:16 final size:15
Alignment explanation
Indices: 7518178--7518238 Score: 52
Period size: 16 Copynumber: 3.9 Consensus size: 15
7518168 TATAATATTT
7518178 TAAAATAAAT-TTAA
1 TAAAATAAATATTAA
*
7518192 TATTAAATAAATATTATG
1 TA--AAATAAATATTA-A
*
7518210 TATAATAAATAATTAA
1 TAAAATAAAT-ATTAA
*
7518226 TAAAATATATATT
1 TAAAATAAATATT
7518239 TTATTTAATG
Statistics
Matches: 37, Mismatches: 5, Indels: 9
0.73 0.10 0.18
Matches are distributed among these distances:
14 2 0.05
15 3 0.08
16 23 0.62
17 7 0.19
18 2 0.05
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (15 bp):
TAAAATAAATATTAA
Found at i:7518591 original size:17 final size:18
Alignment explanation
Indices: 7518569--7518602 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
7518559 TTAGAGATGC
7518569 AATTATATT-TTTATTTT
1 AATTATATTATTTATTTT
7518586 AATTATATTATTTATTT
1 AATTATATTATTTATTT
7518603 ATTTATTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
AATTATATTATTTATTTT
Found at i:7518603 original size:17 final size:16
Alignment explanation
Indices: 7518569--7518617 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 16
7518559 TTAGAGATGC
7518569 AATTATATTTTTATTTT
1 AATTATATTTTTA-TTT
7518586 AATTATATTATTTATTT
1 AATTATATT-TTTATTT
*
7518603 ATTTAT-TTGTTTATT
1 AATTATATT-TTTATT
7518618 AATATTTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 8 0.28
17 17 0.59
18 4 0.14
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (16 bp):
AATTATATTTTTATTT
Found at i:7520047 original size:40 final size:40
Alignment explanation
Indices: 7520003--7520125 Score: 219
Period size: 40 Copynumber: 3.0 Consensus size: 40
7519993 GAATTTATTA
*
7520003 AATTTTTTTTAAATATTATAATATAGAATAAACAAGAATT
1 AATTTTTTTTAAAGATTATAATATAGAATAAACAAGAATT
7520043 AATTTTTTTTAAAGATTATAATATAGAATAAACAAGAATT
1 AATTTTTTTTAAAGATTATAATATAGAATAAACAAGAATT
*
7520083 AAATTTTTTTTAAAGATTATAATATAGAATAAACAAAAATT
1 -AATTTTTTTTAAAGATTATAATATAGAATAAACAAGAATT
7520124 AA
1 AA
7520126 ATATACAAAT
Statistics
Matches: 80, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
40 41 0.51
41 39 0.49
ACGTcount: A:0.52, C:0.02, G:0.06, T:0.40
Consensus pattern (40 bp):
AATTTTTTTTAAAGATTATAATATAGAATAAACAAGAATT
Found at i:7520050 original size:41 final size:41
Alignment explanation
Indices: 7519999--7520127 Score: 233
Period size: 41 Copynumber: 3.2 Consensus size: 41
7519989 ATTAGAATTT
*
7519999 ATTAAATTTTTTTTAAATATTATAATATAGAATAAACAAGA
1 ATTAAATTTTTTTTAAAGATTATAATATAGAATAAACAAGA
7520040 ATT-AATTTTTTTTAAAGATTATAATATAGAATAAACAAGA
1 ATTAAATTTTTTTTAAAGATTATAATATAGAATAAACAAGA
*
7520080 ATTAAATTTTTTTTAAAGATTATAATATAGAATAAACAAAA
1 ATTAAATTTTTTTTAAAGATTATAATATAGAATAAACAAGA
7520121 ATTAAAT
1 ATTAAAT
7520128 ATACAAATAA
Statistics
Matches: 85, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
40 39 0.46
41 46 0.54
ACGTcount: A:0.52, C:0.02, G:0.05, T:0.40
Consensus pattern (41 bp):
ATTAAATTTTTTTTAAAGATTATAATATAGAATAAACAAGA
Found at i:7523496 original size:17 final size:17
Alignment explanation
Indices: 7523474--7523531 Score: 59
Period size: 17 Copynumber: 3.5 Consensus size: 17
7523464 AATTAAAATC
7523474 ATATATATTAATAATTT
1 ATATATATTAATAATTT
*
7523491 ATATATATT--TAATAT
1 ATATATATTAATAATTT
* *
7523506 ATACATATATAAT-ATTA
1 ATATATAT-TAATAATTT
7523523 ATATATATT
1 ATATATATT
7523532 GAATCAAATT
Statistics
Matches: 33, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
15 12 0.36
16 2 0.06
17 18 0.55
18 1 0.03
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (17 bp):
ATATATATTAATAATTT
Found at i:7523503 original size:15 final size:15
Alignment explanation
Indices: 7523474--7523531 Score: 53
Period size: 15 Copynumber: 3.6 Consensus size: 15
7523464 AATTAAAATC
7523474 ATATATATTAATAATTT
1 ATATATATT--TAATTT
*
7523491 ATATATATTTAATAT
1 ATATATATTTAATTT
* *
7523506 ATACATATATAATATT
1 ATATATATTTAAT-TT
7523522 AATATATATT
1 -ATATATATT
7523532 GAATCAAATT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
15 16 0.48
16 1 0.03
17 16 0.48
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (15 bp):
ATATATATTTAATTT
Found at i:7523515 original size:8 final size:7
Alignment explanation
Indices: 7523474--7523529 Score: 53
Period size: 7 Copynumber: 8.0 Consensus size: 7
7523464 AATTAAAATC
7523474 ATATATA
1 ATATATA
*
7523481 TTA-ATA
1 ATATATA
*
7523487 ATTTATA
1 ATATATA
*
7523494 TATATTTA
1 -ATATATA
7523502 ATATATA
1 ATATATA
7523509 CATATATA
1 -ATATATA
7523517 ATAT-TA
1 ATATATA
7523523 ATATATA
1 ATATATA
7523530 TTGAATCAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
6 10 0.26
7 17 0.44
8 12 0.31
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (7 bp):
ATATATA
Found at i:7526538 original size:30 final size:33
Alignment explanation
Indices: 7526492--7526574 Score: 91
Period size: 34 Copynumber: 2.5 Consensus size: 33
7526482 TTAAAGTTAT
*
7526492 TATATTAAAATATATATAAT-AAATAATTAAAATA
1 TATATTAAATTATATAT-ATGAAATAA-TAAAATA
7526526 T-T-TTAAATTATATTTATATGAAATAATAAAATA
1 TATATTAAATTATA--TATATGAAATAATAAAATA
7526559 TATATTAAGATTATAT
1 TATATTAA-ATTATAT
7526575 TTAAGTTAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
32 9 0.21
33 11 0.26
34 12 0.29
35 4 0.10
36 6 0.14
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (33 bp):
TATATTAAATTATATATATGAAATAATAAAATA
Found at i:7526594 original size:11 final size:11
Alignment explanation
Indices: 7526580--7526614 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
7526570 TATATTTAAG
7526580 TTAAATAATA-A
1 TTAAA-AATATA
7526591 TTAAAAATATA
1 TTAAAAATATA
7526602 TTAAAAATATA
1 TTAAAAATATA
7526613 TT
1 TT
7526615 TATATTAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 4 0.17
11 19 0.83
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
TTAAAAATATA
Found at i:7526601 original size:39 final size:38
Alignment explanation
Indices: 7526513--7526628 Score: 127
Period size: 39 Copynumber: 3.1 Consensus size: 38
7526503 ATATATAATA
* *
7526513 AATAATT-AAAATATTTTAAATTATATTTATATGAAAT
1 AATAATTAAAAATATATTAAATTATATTTATATTAAAT
*
7526550 AAT-A--AAATATATATTAAGATTATATTTA-AGTTAAAT
1 AATAATTAAAAATATATTAA-ATTATATTTATA-TTAAAT
*
7526586 AATAATTAAAAATATATTAAAAATATATTTATATTAAA-
1 AATAATTAAAAATATATT-AAATTATATTTATATTAAAT
7526624 AATAA
1 AATAA
7526629 ATGAATAAAA
Statistics
Matches: 66, Mismatches: 5, Indels: 15
0.77 0.06 0.17
Matches are distributed among these distances:
35 11 0.17
36 19 0.29
37 4 0.06
38 5 0.08
39 24 0.36
40 3 0.05
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (38 bp):
AATAATTAAAAATATATTAAATTATATTTATATTAAAT
Found at i:7526644 original size:19 final size:19
Alignment explanation
Indices: 7526620--7526671 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 19
7526610 ATATTTATAT
7526620 TAAAAA-TAAATGAATAAAA
1 TAAAAATTAAA-GAATAAAA
7526639 TAAAAATTAAAGAATAAATA
1 TAAAAATTAAAGAATAAA-A
7526659 TTTAAAAATTAAA
1 --TAAAAATTAAA
7526672 AATTTGAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
19 13 0.45
20 5 0.17
22 11 0.38
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (19 bp):
TAAAAATTAAAGAATAAAA
Found at i:7526702 original size:25 final size:27
Alignment explanation
Indices: 7526635--7526695 Score: 72
Period size: 29 Copynumber: 2.3 Consensus size: 27
7526625 ATAAATGAAT
*
7526635 AAAATAAAAATTAAAGAATAAATATTTAA
1 AAAATAAAAATT--TGAATAAATATTTAA
*
7526664 AAATTAAAAATTTGAATAAA-A-TTAA
1 AAAATAAAAATTTGAATAAATATTTAA
7526689 AAAATAA
1 AAAATAA
7526696 TATTTTGTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 10 0.34
26 1 0.03
27 7 0.24
29 11 0.38
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (27 bp):
AAAATAAAAATTTGAATAAATATTTAA
Found at i:7527126 original size:6 final size:6
Alignment explanation
Indices: 7527107--7527142 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
7527097 GCTTCTGTAG
* *
7527107 ACAAAA ACATAA ACAAAA ACAAAA ATAAAA ACAAAA
1 ACAAAA ACAAAA ACAAAA ACAAAA ACAAAA ACAAAA
7527143 TAGAATTGCA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.81, C:0.14, G:0.00, T:0.06
Consensus pattern (6 bp):
ACAAAA
Found at i:7527920 original size:3 final size:3
Alignment explanation
Indices: 7527871--7527901 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
7527861 CAATCTTACA
*
7527871 AAG AAG AAG AGG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
7527902 TAAAGGGATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:7528700 original size:17 final size:15
Alignment explanation
Indices: 7528652--7528700 Score: 55
Period size: 16 Copynumber: 3.2 Consensus size: 15
7528642 GAGGAAAGAT
*
7528652 AAATGGAAGAT-AAA
1 AAATGAAAGATGAAA
7528666 AAATGAAAGATGACAA
1 AAATGAAAGATGA-AA
*
7528682 AAGTGAAAGATAGAAA
1 AAATGAAAGAT-GAAA
7528698 AAA
1 AAA
7528701 AAGTTTTATT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
14 10 0.34
15 1 0.03
16 16 0.55
17 2 0.07
ACGTcount: A:0.65, C:0.02, G:0.20, T:0.12
Consensus pattern (15 bp):
AAATGAAAGATGAAA
Found at i:7532689 original size:20 final size:20
Alignment explanation
Indices: 7532666--7532742 Score: 109
Period size: 20 Copynumber: 3.9 Consensus size: 20
7532656 AAATACCCAG
* *
7532666 ATGTATCGATAAATTTTTCA
1 ATGTATCGATACATTTTTGA
* *
7532686 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTGA
*
7532706 ATGTATCGATACATTCTTGA
1 ATGTATCGATACATTTTTGA
7532726 ATGTATCGATACATTTT
1 ATGTATCGATACATTTT
7532743 ATCTTTTTAC
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACATTTTTGA
Found at i:7532764 original size:31 final size:31
Alignment explanation
Indices: 7532726--7532835 Score: 211
Period size: 31 Copynumber: 3.5 Consensus size: 31
7532716 ACATTCTTGA
7532726 ATGTATCGATACATTTTATCTTTTTACCCAG
1 ATGTATCGATACATTTTATCTTTTTACCCAG
7532757 ATGTATCGATACATTTTATCTTTTTACCCAG
1 ATGTATCGATACATTTTATCTTTTTACCCAG
*
7532788 ATGTATCGATACATTTTGTCTTTTTACCCAG
1 ATGTATCGATACATTTTATCTTTTTACCCAG
7532819 ATGTATCGATACATTTT
1 ATGTATCGATACATTTT
7532836 TCCAATGTAT
Statistics
Matches: 78, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
31 78 1.00
ACGTcount: A:0.25, C:0.18, G:0.11, T:0.45
Consensus pattern (31 bp):
ATGTATCGATACATTTTATCTTTTTACCCAG
Found at i:7533744 original size:20 final size:21
Alignment explanation
Indices: 7533707--7533745 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
7533697 AGCCTTCGAC
**
7533707 CATGCATTTTTTTTTATGTTT
1 CATGCATTTTTTAATATGTTT
7533728 CATGCA-TTTTTAATATGT
1 CATGCATTTTTTAATATGT
7533746 CCAGCATCTC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.21, C:0.10, G:0.10, T:0.59
Consensus pattern (21 bp):
CATGCATTTTTTAATATGTTT
Found at i:7536648 original size:20 final size:20
Alignment explanation
Indices: 7536609--7536650 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
7536599 AGAGGCCACT
*
7536609 TTTTTTTTTATTGATGTTCA
1 TTTTTTTTTATTGATATTCA
* *
7536629 TTTTTTTTTCTTGCTATTCA
1 TTTTTTTTTATTGATATTCA
7536649 TT
1 TT
7536651 CCCATTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.12, C:0.10, G:0.07, T:0.71
Consensus pattern (20 bp):
TTTTTTTTTATTGATATTCA
Found at i:7547477 original size:28 final size:28
Alignment explanation
Indices: 7547437--7548105 Score: 604
Period size: 28 Copynumber: 22.9 Consensus size: 28
7547427 CGTTCATCTC
*
7547437 TTCAAAGCCCACAAGTCAATGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
7547465 TTCAAAGCCCACAAGTCAATGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
7547493 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
7547521 TTCAAAGCCCACAAGTCAGTGGCTAGTCTT
1 TTCAAAGCCCACAAGTCAGTGGC-A-CCCT
* * *
7547551 TTCAAAGCCCACAAGTTAGTGTCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
7547579 TTCAAAGCCCAAACAAGTCAGTGGTAACCCAT
1 TTCAAAGCCC--ACAAGTCAGTGG-CACCC-T
**
7547611 TTCAAAGCCCACACAAGTTGGTGGCAACCCAT
1 TTCAAAG-CC-CACAAGTCAGTGGC-ACCC-T
*
7547643 TTCAAAGCCCACACAAGTCGGTGGCAACCCAT
1 TTCAAAG-CC-CACAAGTCAGTGGC-ACCC-T
* *
7547675 TTCAAAGCTCACAAATCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
7547703 TTCAAAGCCCACAAGTCAGTGGCACTCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
7547731 TTCAAAGCCCACAAGTCAGTGGCATCCTT
1 TTCAAAGCCCACAAGTCAGTGGCA-CCCT
* * *
7547760 TTCAAAGCCCACAAATC-GATGGCATCTT
1 TTCAAAGCCCACAAGTCAG-TGGCACCCT
* **
7547788 TTCAAAGCCCACAAATCAGTGGCACATT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
**
7547816 TTCAAAGCCCACAAGTCAGTGGCATTCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* ** **
7547844 TTCAAAGTCCACAAGTTGGTGGCATCATT
1 TTCAAAGCCCACAAGTCAGTGGCA-CCCT
**
7547873 TTCAAAGCCCACAAGTCAGTGGCATTCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * * * **
7547901 TTTAAAGTCCACAAGTCGGTGACATCATT
1 TTCAAAGCCCACAAGTCAGTGGCA-CCCT
***
7547930 TTCAAAGCCCACAAGTCAGTGGCATTTT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
7547958 TTCTAAGCCCACAAATCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
7547986 TTCAAAGCTCACACAAGTCAGTAGCACTCTT
1 TTCAAAGC-C-CACAAGTCAGTGGCAC-CCT
* *
7548017 TTCAAAGCCCACAAG-CTAGTGGTAACTCTT
1 TTCAAAGCCCACAAGTC-AGTGG-CAC-CCT
* * *
7548047 TTTAAAGCCCACACGAGTCTGTGGCAACTCTT
1 TTCAAAGCCCACA--AGTCAGTGGC-AC-CCT
*
7548079 TTCAAAGCCCACACAAGTTAGTGGCAC
1 TTCAAAG-CC-CACAAGTCAGTGGCAC
7548106 ATTTTTTTTA
Statistics
Matches: 544, Mismatches: 72, Indels: 47
0.82 0.11 0.07
Matches are distributed among these distances:
28 267 0.49
29 84 0.15
30 79 0.15
31 16 0.03
32 88 0.16
33 5 0.01
34 5 0.01
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.23
Consensus pattern (28 bp):
TTCAAAGCCCACAAGTCAGTGGCACCCT
Found at i:7547772 original size:57 final size:58
Alignment explanation
Indices: 7547437--7548091 Score: 672
Period size: 57 Copynumber: 11.2 Consensus size: 58
7547427 CGTTCATCTC
* * * *
7547437 TTCAAAGCCCACAAGTCAATGGCA-CCCTTTCAAAGCCCACAAGTCAATGGCAC-CCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAGTCAGTGGCACTCTT
*
7547493 TTCAAAGCCCACAAGTCAGTGGCATCC-TTTCAAAGCCCACAAGTCAGTGGCTAGTCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAGTCAGTGGC-ACTCTT
* * * * *
7547551 TTCAAAGCCCACAAGTTAGTGTCATCC-TTTCAAAGCCCAAACAAGTCAGTGGTAACCCAT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCC--ACAAGTCAGTGG-CACTCTT
** * * * * *
7547611 TTCAAAGCCCACACAAGTTGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCAT
1 TTCAAAG-CC-CACAAGTCAGTGGC-ATCCTTTTCAAAG-CC-CACAAGTCAGTGGC-ACTCTT
* * *
7547675 TTCAAAGCTCACAAATCAGTGGCA-CCCTTTCAAAGCCCACAAGTCAGTGGCACTC-T
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAGTCAGTGGCACTCTT
*
7547731 TTCAAAGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAATC-GATGGCA-TCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAGTCAG-TGGCACTCTT
* * *
7547788 TTCAAAGCCCACAAATCAGTGGCA-CATTTTCAAAGCCCACAAGTCAGTGGCATTC-T
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAGTCAGTGGCACTCTT
* ** * *
7547844 TTCAAAGTCCACAAGTTGGTGGCATCATTTTCAAAGCCCACAAGTCAGTGGCATTCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAGTCAGTGGCACTCTT
* * * * *
7547902 TT-AAAGTCCACAAGTCGGTGACATCATTTTCAAAGCCCACAAGTCAGTGGCA-TTTT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAGTCAGTGGCACTCTT
* * * *
7547958 TTCTAAGCCCACAAATCAGTGGCA-CCCTTTCAAAGCTCACACAAGTCAGTAGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTTCAAAGC-C-CACAAGTCAGTGGCACTCTT
* * * *
7548017 TTCAAAGCCCACAAG-CTAGTGGTAACTCTTTTTAAAGCCCACACGAGTCTGTGGCAACTCTT
1 TTCAAAGCCCACAAGTC-AGTGGCATC-CTTTTCAAAGCCCACA--AGTCAGTGGC-ACTCTT
7548079 TTCAAAGCCCACA
1 TTCAAAGCCCACA
7548092 CAAGTTAGTG
Statistics
Matches: 517, Mismatches: 52, Indels: 54
0.83 0.08 0.09
Matches are distributed among these distances:
56 132 0.26
57 153 0.30
58 69 0.13
59 28 0.05
60 34 0.07
61 20 0.04
62 42 0.08
63 4 0.01
64 32 0.06
65 2 0.00
66 1 0.00
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.24
Consensus pattern (58 bp):
TTCAAAGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAGTCAGTGGCACTCTT
Found at i:7547773 original size:85 final size:85
Alignment explanation
Indices: 7547437--7548091 Score: 642
Period size: 85 Copynumber: 7.5 Consensus size: 85
7547427 CGTTCATCTC
* * * *
7547437 TTCAAAGCCCACAAGTCAATGGCACCCTTTCAAAGCCCACAAGTCAATGGCA-CCCTTTCAAAGC
1 TTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTTCAAAGC
7547501 CCACAAGTCAGTGGCATCC-T
66 CCACAAGTCAGTGGCA-CCTT
* * *
7547521 TTCAAAGCCCACAAGTCAGTGGCTAGTCTTTTCAAAGCCCACAAGTTAGTGTCATCC-TTTCAAA
1 TTCAAAGCCCACAAGTCAGTGGC-ACTC-TTTCAAAGCCCACAAGTCAGTGGCATCCTTTTCAAA
* *
7547585 GCCCAAACAAGTCAGTGGTAACCCAT
64 GCCC--ACAAGTCAGTGG-CA-CCTT
** * * * *
7547611 TTCAAAGCCCACACAAGTTGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATT
1 TTCAAAG-CC-CACAAGTCAGTGGC-ACTC-TTTCAAAG-CC-CACAAGTCAGTGGC-ATCCTTT
* * *
7547676 TCAAAGCTCACAAATCAGTGGCACCCT
59 TCAAAGCCCACAAGTCAGTGGCACCTT
7547703 TTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTTCAAAGC
1 TTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTTCAAAGC
* *
7547768 CCACAAATC-GATGGCATCTT
66 CCACAAGTCAG-TGGCACCTT
* *
7547788 TTCAAAGCCCACAAATCAGTGGCACAT-TTTCAAAGCCCACAAGTCAGTGGCATTC-TTTCAAAG
1 TTCAAAGCCCACAAGTCAGTGGCAC-TCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTTCAAAG
* ** *
7547851 TCCACAAGTTGGTGGCATCATT
65 CCCACAAGTCAGTGGCA-CCTT
* * * * * *
7547873 TTCAAAGCCCACAAGTCAGTGGCATTCTTTTAAAGTCCACAAGTCGGTGACATCATTTTCAAAGC
1 TTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTTCAAAGC
**
7547938 CCACAAGTCAGTGGCATTTT
66 CCACAAGTCAGTGGCACCTT
* * * *
7547958 TTCTAAGCCCACAAATCAGTGGCACCCTTTCAAAGCTCACACAAGTCAGTAGCA-CTCTTTTCAA
1 TTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGC-C-CACAAGTCAGTGGCATC-CTTTTCAA
*
7548022 AGCCCACAAG-CTAGTGGTAACTCTT
63 AGCCCACAAGTC-AGTGG-CAC-CTT
* *
7548047 TTTAAAGCCCACACGAGTCTGTGGCAACTCTTTTCAAAGCCCACA
1 TTCAAAGCCCACA--AGTCAGTGGC-ACTC-TTTCAAAGCCCACA
7548092 CAAGTTAGTG
Statistics
Matches: 473, Mismatches: 69, Indels: 51
0.80 0.12 0.09
Matches are distributed among these distances:
84 44 0.09
85 160 0.34
86 72 0.15
87 38 0.08
88 21 0.04
89 19 0.04
90 20 0.04
91 16 0.03
92 36 0.08
93 12 0.03
94 22 0.05
95 3 0.01
96 10 0.02
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.24
Consensus pattern (85 bp):
TTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTTCAAAGC
CCACAAGTCAGTGGCACCTT
Found at i:7548911 original size:20 final size:20
Alignment explanation
Indices: 7548886--7549010 Score: 88
Period size: 20 Copynumber: 5.7 Consensus size: 20
7548876 AAGTACCCAG
7548886 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * *
7548906 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
7548926 ATGTATTGATACATTCTTGA
1 ATGTATCGATACATTTTTCA
*
7548946 ATGTATTGATACATTCTATCTTTTTACCCA
1 ATGTATCGAT--A--C-A--TTTTT---CA
7548976 GATGTATCGATACATTTTTCA
1 -ATGTATCGATACATTTTTCA
7548997 ATGTATCGATACAT
1 ATGTATCGATACAT
7549011 CTAGTTAAAA
Statistics
Matches: 84, Mismatches: 10, Indels: 22
0.72 0.09 0.19
Matches are distributed among these distances:
20 57 0.68
21 2 0.02
22 1 0.01
24 6 0.07
25 1 0.01
26 1 0.01
27 5 0.06
29 1 0.01
30 1 0.01
31 9 0.11
ACGTcount: A:0.30, C:0.14, G:0.13, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:7549904 original size:20 final size:20
Alignment explanation
Indices: 7549868--7549905 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
7549858 AGCCTTCAAC
**
7549868 CATGCATTTTTTTTATGTTT
1 CATGCATTTTTAATATGTTT
7549888 CATGCATTTTTAATATGT
1 CATGCATTTTTAATATGT
7549906 CCAACATCTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.11, G:0.11, T:0.58
Consensus pattern (20 bp):
CATGCATTTTTAATATGTTT
Found at i:7553507 original size:16 final size:16
Alignment explanation
Indices: 7553488--7553546 Score: 57
Period size: 16 Copynumber: 3.4 Consensus size: 16
7553478 TTGAATTTAT
7553488 TTTATTTTGATTATTA
1 TTTATTTTGATTATTA
*
7553504 TTTATTTTTG-TTGGATTTTT
1 TTTA-TTTTGATT--A--TTA
7553524 TTTATTTTGATTATTA
1 TTTATTTTGATTATTA
7553540 TTTATTT
1 TTTATTT
7553547 CTTTCTTTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 12
0.71 0.04 0.24
Matches are distributed among these distances:
16 15 0.43
17 5 0.14
18 2 0.06
19 5 0.14
20 8 0.23
ACGTcount: A:0.19, C:0.00, G:0.08, T:0.73
Consensus pattern (16 bp):
TTTATTTTGATTATTA
Found at i:7553508 original size:21 final size:21
Alignment explanation
Indices: 7553482--7553546 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 21
7553472 AAAAGGTTGA
7553482 ATTTATTTTATTTTGATTATT
1 ATTTATTTTATTTTGATTATT
* *
7553503 ATTTATTTT-TGTTG--GA-T
1 ATTTATTTTATTTTGATTATT
7553520 -TTT-TTTTATTTTGATTATT
1 ATTTATTTTATTTTGATTATT
7553539 ATTTATTT
1 ATTTATTT
7553547 CTTTCTTTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 12
0.68 0.08 0.24
Matches are distributed among these distances:
15 4 0.12
16 7 0.21
17 1 0.03
18 2 0.06
19 1 0.03
20 7 0.21
21 12 0.35
ACGTcount: A:0.20, C:0.00, G:0.08, T:0.72
Consensus pattern (21 bp):
ATTTATTTTATTTTGATTATT
Found at i:7553528 original size:36 final size:36
Alignment explanation
Indices: 7553477--7553546 Score: 122
Period size: 36 Copynumber: 1.9 Consensus size: 36
7553467 ATTTTAAAAG
7553477 GTTGAATTTATTTTATTTTGATTATTATTTATTTTT
1 GTTGAATTTATTTTATTTTGATTATTATTTATTTTT
* *
7553513 GTTGGATTTTTTTTATTTTGATTATTATTTATTT
1 GTTGAATTTATTTTATTTTGATTATTATTTATTT
7553547 CTTTCTTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.20, C:0.00, G:0.10, T:0.70
Consensus pattern (36 bp):
GTTGAATTTATTTTATTTTGATTATTATTTATTTTT
Found at i:7554878 original size:13 final size:13
Alignment explanation
Indices: 7554840--7554897 Score: 55
Period size: 14 Copynumber: 4.3 Consensus size: 13
7554830 TGACATTTAT
7554840 ATTAATTCAT-AAA
1 ATTAATT-ATAAAA
* *
7554853 ATTATACTGTAAAA
1 ATTA-ATTATAAAA
*
7554867 ATTAATTATAAAG
1 ATTAATTATAAAA
7554880 ATTAAATTATAAAA
1 ATT-AATTATAAAA
7554894 ATTA
1 ATTA
7554898 TATTTTTACA
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
13 15 0.42
14 21 0.58
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.38
Consensus pattern (13 bp):
ATTAATTATAAAA
Found at i:7554883 original size:27 final size:27
Alignment explanation
Indices: 7554840--7554897 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
7554830 TGACATTTAT
* *
7554840 ATTAATTCATAAAATTATACTGTAAAA
1 ATTAATTCATAAAATTAAACTATAAAA
*
7554867 ATTAATT-ATAAAGATTAAATTATAAAA
1 ATTAATTCATAAA-ATTAAACTATAAAA
7554894 ATTA
1 ATTA
7554898 TATTTTTACA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 5 0.19
27 22 0.81
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.38
Consensus pattern (27 bp):
ATTAATTCATAAAATTAAACTATAAAA
Found at i:7554887 original size:14 final size:14
Alignment explanation
Indices: 7554862--7554897 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
7554852 AATTATACTG
7554862 TAAAAATT-AATTA
1 TAAAAATTAAATTA
*
7554875 TAAAGATTAAATTA
1 TAAAAATTAAATTA
7554889 TAAAAATTA
1 TAAAAATTA
7554898 TATTTTTACA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 7 0.35
14 13 0.65
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (14 bp):
TAAAAATTAAATTA
Found at i:7558147 original size:2 final size:2
Alignment explanation
Indices: 7558140--7558198 Score: 73
Period size: 2 Copynumber: 29.5 Consensus size: 2
7558130 TATTTTATGT
* * * * *
7558140 TA TA TA TA TA TA CA CA TA CA TA TA TA TA TA TA TA GA GA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7558182 TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA T
7558199 TAATAGCCAC
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.42
Consensus pattern (2 bp):
TA
Found at i:7560931 original size:21 final size:20
Alignment explanation
Indices: 7560893--7560931 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
7560883 TGATTCTTTC
* *
7560893 TCTTTTTTTTTTCTTTATTT
1 TCTTTTTCTTTTCCTTATTT
7560913 TCTTGTTTCTTTTCCTTAT
1 TCTT-TTTCTTTTCCTTAT
7560932 GAAAATGAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.05, C:0.15, G:0.03, T:0.77
Consensus pattern (20 bp):
TCTTTTTCTTTTCCTTATTT
Found at i:7562306 original size:19 final size:18
Alignment explanation
Indices: 7562281--7562322 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
7562271 CAGTGTTAAT
*
7562281 ATATTATATTATGTATGTA
1 ATATTATAATAT-TATGTA
*
7562300 TTATTATAATATTATGTA
1 ATATTATAATATTATGTA
7562318 ATATT
1 ATATT
7562323 TAAATTAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (18 bp):
ATATTATAATATTATGTA
Found at i:7563724 original size:16 final size:17
Alignment explanation
Indices: 7563703--7563738 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
7563693 TCCTCGATGG
*
7563703 CTTTCTTT-GGCTTCAA
1 CTTTCTTTGGGATTCAA
7563719 CTTTCTTTGGGATTCAA
1 CTTTCTTTGGGATTCAA
7563736 CTT
1 CTT
7563739 CGAAATTGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.14, C:0.22, G:0.14, T:0.50
Consensus pattern (17 bp):
CTTTCTTTGGGATTCAA
Found at i:7569970 original size:2 final size:2
Alignment explanation
Indices: 7569963--7570003 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
7569953 TGACTACCAT
7569963 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7570004 CATTTCAGGC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:7571222 original size:2 final size:2
Alignment explanation
Indices: 7571217--7571251 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
7571207 GTTGTGTGTA
7571217 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7571252 GTTCTATATG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:7574932 original size:12 final size:12
Alignment explanation
Indices: 7574915--7574946 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
7574905 ATGCTATGAA
7574915 CAATTAAACATT
1 CAATTAAACATT
7574927 CAATTAAACATT
1 CAATTAAACATT
*
7574939 CAGTTAAA
1 CAATTAAA
7574947 AAAAAACGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.50, C:0.16, G:0.03, T:0.31
Consensus pattern (12 bp):
CAATTAAACATT
Found at i:7575797 original size:2 final size:2
Alignment explanation
Indices: 7575790--7575834 Score: 72
Period size: 2 Copynumber: 22.5 Consensus size: 2
7575780 AATTTTAATA
* *
7575790 AT AT AT AT AT AT AT AA AT AT AT AT AT AT AT AT AT AA 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
7575832 AT A
1 AT A
7575835 ATAGATAGAT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:7576636 original size:2 final size:2
Alignment explanation
Indices: 7576631--7576659 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
7576621 AAATCTTTTT
7576631 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7576660 TAATAATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7576767 original size:16 final size:15
Alignment explanation
Indices: 7576746--7576785 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
7576736 CTGTAGACAT
7576746 TTTTTTATATTATATA
1 TTTTTTATATTAT-TA
7576762 TTTTTTA-ATTATTA
1 TTTTTTATATTATTA
*
7576776 TATTTTATAT
1 TTTTTTATAT
7576786 AAATTTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 8 0.36
15 7 0.32
16 7 0.32
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTTTTATATTATTA
Found at i:7576774 original size:18 final size:17
Alignment explanation
Indices: 7576744--7576778 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
7576734 AGCTGTAGAC
*
7576744 ATTTTTTTATATTATAT
1 ATTTTTTAATATTATAT
7576761 ATTTTTTAATTATTATAT
1 ATTTTTTAA-TATTATAT
7576779 TTTATATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
ATTTTTTAATATTATAT
Found at i:7577787 original size:16 final size:16
Alignment explanation
Indices: 7577768--7577844 Score: 68
Period size: 16 Copynumber: 4.8 Consensus size: 16
7577758 GTAAGTTTGG
*
7577768 ATTTAAATTTGTTAAC
1 ATTTAAATTTATTAAC
* *
7577784 ATTTAAATTTATTTAG
1 ATTTAAATTTATTAAC
*
7577800 ATTTAAATTTATTTGA-
1 ATTTAAATTTA-TTAAC
*
7577816 ATTTAAATTTTTTTAA-
1 ATTTAAA-TTTATTAAC
*
7577832 ATTTAAGTTTATT
1 ATTTAAATTTATT
7577845 GGGGTCCAGA
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
15 5 0.10
16 40 0.78
17 6 0.12
ACGTcount: A:0.36, C:0.01, G:0.05, T:0.57
Consensus pattern (16 bp):
ATTTAAATTTATTAAC
Found at i:7577808 original size:32 final size:32
Alignment explanation
Indices: 7577767--7577842 Score: 91
Period size: 32 Copynumber: 2.4 Consensus size: 32
7577757 GGTAAGTTTG
7577767 GATTTAAATTT-GTTAACATTTAAATTTATTTA
1 GATTTAAATTTAGTTAA-ATTTAAATTTATTTA
* * *
7577799 GATTTAAATTTATTTGAATTTAAATTTTTTTA
1 GATTTAAATTTAGTTAAATTTAAATTTATTTA
* *
7577831 AATTTAAGTTTA
1 GATTTAAATTTA
7577843 TTGGGGTCCA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
32 35 0.92
33 3 0.08
ACGTcount: A:0.37, C:0.01, G:0.07, T:0.55
Consensus pattern (32 bp):
GATTTAAATTTAGTTAAATTTAAATTTATTTA
Found at i:7577843 original size:32 final size:32
Alignment explanation
Indices: 7577784--7577844 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
7577774 ATTTGTTAAC
*
7577784 ATTTAAATTTATTTAGATTTAAATTTATTTGA
1 ATTTAAATTTATTTAAATTTAAATTTATTTGA
* *
7577816 ATTTAAATTTTTTTAAATTTAAGTTTATT
1 ATTTAAATTTATTTAAATTTAAATTTATT
7577845 GGGGTCCAGA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (32 bp):
ATTTAAATTTATTTAAATTTAAATTTATTTGA
Found at i:7578047 original size:33 final size:31
Alignment explanation
Indices: 7577987--7578047 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 31
7577977 TTATTAATTT
7577987 ATTAATTTTTAAATAAATTTTTATTTATACA
1 ATTAATTTTTAAATAAATTTTTATTTATACA
*
7578018 ATTATATTTTT-AATATATTTAATTATTTAT
1 ATTA-ATTTTTAAATAAATTT--TTATTTAT
7578048 TTATTGAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
31 12 0.46
32 6 0.23
33 8 0.31
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (31 bp):
ATTAATTTTTAAATAAATTTTTATTTATACA
Found at i:7578261 original size:23 final size:23
Alignment explanation
Indices: 7578226--7578272 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 23
7578216 ATTAATATTT
7578226 TAAAAATTT-AAAATATATTTAA
1 TAAAAATTTAAAAATATATTTAA
*
7578248 TAAAATATTTAAAAATCTATTTAA
1 TAAAA-ATTTAAAAATATATTTAA
7578272 T
1 T
7578273 CTTAATTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 5 0.23
23 4 0.18
24 13 0.59
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (23 bp):
TAAAAATTTAAAAATATATTTAA
Found at i:7578352 original size:15 final size:14
Alignment explanation
Indices: 7578320--7578346 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
7578310 AATTTAATTA
7578320 AAATAAAAAAAACG
1 AAATAAAAAAAACG
7578334 AAATAAAAAAAAC
1 AAATAAAAAAAAC
7578347 ATAAATCTTC
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:0.81, C:0.07, G:0.04, T:0.07
Consensus pattern (14 bp):
AAATAAAAAAAACG
Found at i:7580931 original size:6 final size:6
Alignment explanation
Indices: 7580922--7580946 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
7580912 CTGCCTCCAT
7580922 GCCTCA GCCTCA GCCTCA GCCTCA G
1 GCCTCA GCCTCA GCCTCA GCCTCA G
7580947 TCATTGCAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.48, G:0.20, T:0.16
Consensus pattern (6 bp):
GCCTCA
Done.