Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167893.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_16, 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: 22157061
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 74000 characters in sequence are not A, C, G, or T
File 39 of 113
Found at i:11250484 original size:3 final size:3
Alignment explanation
Indices: 11250476--11250619 Score: 177
Period size: 3 Copynumber: 46.7 Consensus size: 3
11250466 TTTGAAATCA
11250476 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
11250524 ATT ATT ATT ATT ATCT AGTT GTTT ATT ATT ATT ATT ATT ATCT AGTT
1 ATT ATT ATT ATT AT-T A-TT -ATT ATT ATT ATT ATT ATT AT-T A-TT
* *
11250571 GTT -TT ATT ATT ATT ATT ATT ATT ATT ATCT AGTT GTT -TT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T A-TT ATT ATT ATT ATT
11250616 -TT AT
1 ATT AT
11250620 AATTTTCCAA
Statistics
Matches: 127, Mismatches: 4, Indels: 20
0.84 0.03 0.13
Matches are distributed among these distances:
2 6 0.05
3 107 0.84
4 11 0.09
5 3 0.02
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:11253072 original size:2 final size:2
Alignment explanation
Indices: 11253065--11253091 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
11253055 TGTAAATTAT
11253065 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 T
11253092 CAAGAAGTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:11254900 original size:36 final size:35
Alignment explanation
Indices: 11254827--11254900 Score: 80
Period size: 36 Copynumber: 2.1 Consensus size: 35
11254817 GATATTAATC
*
11254827 AAATATTAAACAAAAATAACAAAACAAAAAAGTGAA
1 AAATATTAAACAAAAATAAAAAAACAAAAAAG-GAA
*
11254863 AAATATTAAACACAAAA-AAAATTAAATAAAAAA-GAA
1 AAATATTAAACA-AAAATAAAA--AAACAAAAAAGGAA
11254899 AA
1 AA
11254901 CAAAAAACAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
36 20 0.61
37 4 0.12
38 9 0.27
ACGTcount: A:0.74, C:0.07, G:0.04, T:0.15
Consensus pattern (35 bp):
AAATATTAAACAAAAATAAAAAAACAAAAAAGGAA
Found at i:11255898 original size:3 final size:3
Alignment explanation
Indices: 11255890--11255931 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
11255880 AACTTTATAC
11255890 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
11255932 AATGGTTTCT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:11256413 original size:3 final size:3
Alignment explanation
Indices: 11256405--11256431 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
11256395 AAATGGAACG
11256405 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
11256432 GGAAACTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:11257421 original size:27 final size:27
Alignment explanation
Indices: 11257369--11257421 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
11257359 AAAAAAGAAA
*
11257369 TAGATAATAAAAGAAAAGCATTTTTTT
1 TAGATAATAAAAGAAAAGAATTTTTTT
*
11257396 TAGATAATAAGAA-AAAA-AATTCTTTT
1 TAGATAATAA-AAGAAAAGAATTTTTTT
11257422 AACATGTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 7 0.30
27 14 0.61
28 2 0.09
ACGTcount: A:0.51, C:0.04, G:0.09, T:0.36
Consensus pattern (27 bp):
TAGATAATAAAAGAAAAGAATTTTTTT
Found at i:11263657 original size:6 final size:6
Alignment explanation
Indices: 11263648--11263737 Score: 56
Period size: 6 Copynumber: 14.7 Consensus size: 6
11263638 GGGACATTCG
* * * * *
11263648 CATTTA CATTTA CATGTA CATTTG CATTTA CATCTA CATGT- CTTTTA
1 CATTTA CATTTA CATTTA CATTTA CATTTA CATTTA CATTTA CATTTA
* * * * *
11263695 TATTTG CATTTGTA GCACTTA CATTTG CATTTA CATGTA CATT
1 CATTTA CA-TT-TA -CATTTA CATTTA CATTTA CATTTA CATT
11263738 AGGAGAAAGA
Statistics
Matches: 61, Mismatches: 19, Indels: 8
0.69 0.22 0.09
Matches are distributed among these distances:
5 3 0.05
6 50 0.82
7 4 0.07
8 2 0.03
9 2 0.03
ACGTcount: A:0.27, C:0.18, G:0.09, T:0.47
Consensus pattern (6 bp):
CATTTA
Found at i:11263668 original size:24 final size:24
Alignment explanation
Indices: 11263641--11263688 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
11263631 CATGAAAGGG
*
11263641 ACATTCGCATTTACATTTACATGT
1 ACATTCGCATTTACATCTACATGT
*
11263665 ACATTTGCATTTACATCTACATGT
1 ACATTCGCATTTACATCTACATGT
11263689 CTTTTATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.29, C:0.21, G:0.08, T:0.42
Consensus pattern (24 bp):
ACATTCGCATTTACATCTACATGT
Found at i:11263759 original size:32 final size:32
Alignment explanation
Indices: 11263723--11263785 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 32
11263713 TTACATTTGC
*
11263723 ATTTACATGTACATTAGGAGAAAGACATTCAT
1 ATTTACATGTACATTAGGAAAAAGACATTCAT
* * *
11263755 ATTTACATTTACATTATGAAAAAGATATTCA
1 ATTTACATGTACATTAGGAAAAAGACATTCA
11263786 CAGTTGCATT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.35
Consensus pattern (32 bp):
ATTTACATGTACATTAGGAAAAAGACATTCAT
Found at i:11263914 original size:32 final size:32
Alignment explanation
Indices: 11263853--11263914 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
11263843 TCTACATGAT
* **
11263853 AATTAAGCCCAATTTTGCTAGCATTCAGATCA
1 AATTAAGCCCAATTTAGCTAGCACCCAGATCA
* *
11263885 AATTAAGCCTAGTTTAGCTAGCACCCAGAT
1 AATTAAGCCCAATTTAGCTAGCACCCAGAT
11263915 AATGACTAAG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.29
Consensus pattern (32 bp):
AATTAAGCCCAATTTAGCTAGCACCCAGATCA
Found at i:11264415 original size:104 final size:103
Alignment explanation
Indices: 11264235--11264539 Score: 421
Period size: 104 Copynumber: 2.9 Consensus size: 103
11264225 GACCTCTAGC
* * * *
11264235 CATAATCTGTAAGATCTCTATGTAAAATATTTTAAATTTTCAAAGTTTCAATGCCTCTGATACGA
1 CATAATCTGTAAGACCTTTAGGCAAAATATTTTAAATTTTCAAAGTTTCAATGCCTCTGATACGA
*
11264300 AGAGCACTCAAAGATATTGAGATTTGTAAAACTTAAGA
66 GGAGCACTCAAAGATATTGAGATTTGTAAAACTTAAGA
* * * *
11264338 GCATAATCTATAAGACCTTTAGGCAAAACATTTTAAATTTTGAAAGTTTTAATGCCTCTGATACG
1 -CATAATCTGTAAGACCTTTAGGCAAAATATTTTAAATTTTCAAAGTTTCAATGCCTCTGATACG
** *
11264403 AGGAGCACTCAAAGATATAAAGATTTGTAAAACCTTCAGA
65 AGGAGCACTCAAAGATATTGAGATTTGTAAAA-CTTAAGA
** *
11264443 CATAATCTGTAAGACCTTCGGGCAAAATATTTTAAATTTTCAAAGTTTCAATGCCTTTGATACGA
1 CATAATCTGTAAGACCTTTAGGCAAAATATTTTAAATTTTCAAAGTTTCAATGCCTCTGATACGA
* * * *
11264508 GGAACACTTAAAGATGTTGAGATTTATAAAAC
66 GGAGCACTCAAAGATATTGAGATTTGTAAAAC
11264540 ATTCTGGCAC
Statistics
Matches: 175, Mismatches: 25, Indels: 3
0.86 0.12 0.01
Matches are distributed among these distances:
103 1 0.01
104 168 0.96
105 6 0.03
ACGTcount: A:0.38, C:0.14, G:0.15, T:0.32
Consensus pattern (103 bp):
CATAATCTGTAAGACCTTTAGGCAAAATATTTTAAATTTTCAAAGTTTCAATGCCTCTGATACGA
GGAGCACTCAAAGATATTGAGATTTGTAAAACTTAAGA
Found at i:11264575 original size:22 final size:21
Alignment explanation
Indices: 11264542--11264585 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
11264532 TATAAAACAT
*
11264542 TCTGGCACAATCTTTAAGACC
1 TCTGGCACAATCTATAAGACC
*
11264563 TCTGAGCATAATCTATAAGACC
1 TCTG-GCACAATCTATAAGACC
11264585 T
1 T
11264586 TCGGGCAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.30
Consensus pattern (21 bp):
TCTGGCACAATCTATAAGACC
Found at i:11264680 original size:126 final size:126
Alignment explanation
Indices: 11264443--11264685 Score: 319
Period size: 126 Copynumber: 1.9 Consensus size: 126
11264433 AACCTTCAGA
* * * *
11264443 CATAATCTGTAAGACCTTCGGGCAAAATATTTTAAATTTTCAAAGTTTCAATGCCTTTGATACGA
1 CATAATCTATAAGACCTTCGGGCAAAACATTTTAAATTTTCAAAGTTTCAATACCTCTGATACGA
* * ** *
11264508 GGAACACTTAAAGATGTTGAGATTTATAAAACATTCTGGCACAATCTTTAAGACCTCTGAG
66 GGAACACTCAAAGATGTTGAGATTTATAAAACATCCAAGCACAATCTCTAAGACCTCTGAG
*
11264569 CATAATCTATAAGACCTTCGGGCAAAACATTTTAAATTTTTAAAGTTTCAATACCTCTGATAC-A
1 CATAATCTATAAGACCTTCGGGCAAAACATTTTAAATTTTCAAAGTTTCAATACCTCTGATACGA
** * * *
11264633 TGGAGTACTCAAAGATGTTGAGATTTGTAAGAGC-TCCAAGCATAATCTCTAAG
66 -GGAACACTCAAAGATGTTGAGATTTATAA-AACATCCAAGCACAATCTCTAAG
11264686 CACTTTTATG
Statistics
Matches: 100, Mismatches: 15, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
125 1 0.01
126 97 0.97
127 2 0.02
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.32
Consensus pattern (126 bp):
CATAATCTATAAGACCTTCGGGCAAAACATTTTAAATTTTCAAAGTTTCAATACCTCTGATACGA
GGAACACTCAAAGATGTTGAGATTTATAAAACATCCAAGCACAATCTCTAAGACCTCTGAG
Found at i:11265045 original size:12 final size:11
Alignment explanation
Indices: 11265026--11265082 Score: 53
Period size: 11 Copynumber: 4.9 Consensus size: 11
11265016 AAAATTAGGC
11265026 TTATTTTTATT
1 TTATTTTTATT
11265037 TTCATTTTTTACTT
1 TT-A-TTTTTA-TT
**
11265051 TTGCTTTTATT
1 TTATTTTTATT
11265062 TTATTATTTA-T
1 TTATT-TTTATT
11265073 TTATTTTTAT
1 TTATTTTTAT
11265083 AATCTAATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
10 4 0.11
11 13 0.35
12 10 0.27
13 6 0.16
14 4 0.11
ACGTcount: A:0.18, C:0.05, G:0.02, T:0.75
Consensus pattern (11 bp):
TTATTTTTATT
Found at i:11265134 original size:8 final size:8
Alignment explanation
Indices: 11265121--11265162 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
11265111 AATATTAAAC
11265121 AAAAATAA
1 AAAAATAA
11265129 AAAAATAA
1 AAAAATAA
*
11265137 AAAGA-AA
1 AAAAATAA
* *
11265144 AATATTAA
1 AAAAATAA
11265152 AAAAATAA
1 AAAAATAA
11265160 AAA
1 AAA
11265163 CAATTAAACA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
7 4 0.15
8 23 0.85
ACGTcount: A:0.83, C:0.00, G:0.02, T:0.14
Consensus pattern (8 bp):
AAAAATAA
Found at i:11265148 original size:33 final size:34
Alignment explanation
Indices: 11265110--11265181 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 34
11265100 GATATTAATC
*
11265110 AAATATTAAACAAAAATAAAAA-AA-TAAA-AAGAA
1 AAATATT-AA-AAAAATAAAAACAATTAAACAAAAA
11265143 AAATATTAAAAAAATAAAAACAATTAAACAAAAA
1 AAATATTAAAAAAATAAAAACAATTAAACAAAAA
11265177 AAATA
1 AAATA
11265182 GAAAATAATT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
31 11 0.31
32 4 0.11
33 11 0.31
34 9 0.26
ACGTcount: A:0.78, C:0.04, G:0.01, T:0.17
Consensus pattern (34 bp):
AAATATTAAAAAAATAAAAACAATTAAACAAAAA
Found at i:11265155 original size:11 final size:11
Alignment explanation
Indices: 11265088--11265158 Score: 56
Period size: 12 Copynumber: 6.4 Consensus size: 11
11265078 TTTATAATCT
11265088 AATATTAAATAA
1 AATATTAAA-AA
* **
11265100 GATATTAATCA
1 AATATTAAAAA
11265111 AATATTAAACAA
1 AATATTAAA-AA
11265123 AA-A-TAAAAA
1 AATATTAAAAA
**
11265132 AATAAAAAGAAA
1 AATATTAA-AAA
11265144 AATATTAAAAA
1 AATATTAAAAA
11265155 AATA
1 AATA
11265159 AAAACAATTA
Statistics
Matches: 46, Mismatches: 9, Indels: 9
0.72 0.14 0.14
Matches are distributed among these distances:
9 4 0.09
10 5 0.11
11 18 0.39
12 19 0.41
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.24
Consensus pattern (11 bp):
AATATTAAAAA
Found at i:11266550 original size:6 final size:6
Alignment explanation
Indices: 11266539--11266602 Score: 51
Period size: 6 Copynumber: 10.7 Consensus size: 6
11266529 TATACATAAT
* * * *
11266539 AAAATA AAAATA AAATAGA AAAAT- AAAATC AAAATT GAAATA AAAA-A
1 AAAATA AAAATA AAA-ATA AAAATA AAAATA AAAATA AAAATA AAAATA
*
11266586 TAAAATA AAAAGA AAAA
1 -AAAATA AAAATA AAAA
11266603 GGAAAAACTT
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
5 6 0.13
6 35 0.74
7 6 0.13
ACGTcount: A:0.78, C:0.02, G:0.05, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:11266563 original size:19 final size:19
Alignment explanation
Indices: 11266539--11266596 Score: 68
Period size: 19 Copynumber: 3.2 Consensus size: 19
11266529 TATACATAAT
11266539 AAAATAAAAATAAAATAGA
1 AAAATAAAAATAAAATAGA
*
11266558 AAAAT-AAAATCAAAATTGA
1 AAAATAAAAAT-AAAATAGA
*
11266577 AATA-AAAAATAAAATA-A
1 AAAATAAAAATAAAATAGA
11266594 AAA
1 AAA
11266597 GAAAAAGGAA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
17 3 0.09
18 10 0.30
19 20 0.61
ACGTcount: A:0.78, C:0.02, G:0.03, T:0.17
Consensus pattern (19 bp):
AAAATAAAAATAAAATAGA
Found at i:11266572 original size:24 final size:24
Alignment explanation
Indices: 11266536--11266609 Score: 89
Period size: 24 Copynumber: 3.1 Consensus size: 24
11266526 AGATATACAT
11266536 AATAAAATAAAAATAAAATAGAAA
1 AATAAAATAAAAATAAAATAGAAA
* *
11266560 AATAAAATCAAAATTGAAATA-AAA
1 AATAAAAT-AAAAATAAAATAGAAA
*
11266584 AATAAAATAAAAAGAAAA-AGGAAA
1 AATAAAATAAAAATAAAATA-GAAA
11266608 AA
1 AA
11266610 CTTACGATCG
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
22 1 0.02
23 7 0.17
24 24 0.57
25 10 0.24
ACGTcount: A:0.77, C:0.01, G:0.07, T:0.15
Consensus pattern (24 bp):
AATAAAATAAAAATAAAATAGAAA
Found at i:11268251 original size:18 final size:18
Alignment explanation
Indices: 11268222--11268272 Score: 61
Period size: 17 Copynumber: 2.9 Consensus size: 18
11268212 AGATTTACAA
11268222 AAGTTTGCAAGAATTCT-
1 AAGTTTGCAAGAATTCTC
*
11268239 AAGTTTCGCAAGAGTT-TC
1 AAGTTT-GCAAGAATTCTC
*
11268257 AAGTTTGTAAGAATTC
1 AAGTTTGCAAGAATTC
11268273 AAAGATTCAT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
17 14 0.50
18 14 0.50
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.35
Consensus pattern (18 bp):
AAGTTTGCAAGAATTCTC
Found at i:11268292 original size:35 final size:35
Alignment explanation
Indices: 11268222--11268300 Score: 88
Period size: 35 Copynumber: 2.3 Consensus size: 35
11268212 AGATTTACAA
* * * *
11268222 AAGTTTGCAAGAATTCTAAGTTTCGCAAGAGTTTC
1 AAGTTTGCAAGAATTCAAAGATTCACAAGACTTTC
* *
11268257 AAGTTTGTAAGAATTCAAAGATTCATAAGACTTTC
1 AAGTTTGCAAGAATTCAAAGATTCACAAGACTTTC
11268292 ATA-TTTGCA
1 A-AGTTTGCA
11268301 GTGTTTCAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
35 35 0.97
36 1 0.03
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (35 bp):
AAGTTTGCAAGAATTCAAAGATTCACAAGACTTTC
Found at i:11268416 original size:17 final size:16
Alignment explanation
Indices: 11268378--11268421 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
11268368 AAAATTTTAG
*
11268378 GTTCATAAGAGTTTCA
1 GTTCACAAGAGTTTCA
*
11268394 GATTCACAAGATTTTCAA
1 G-TTCACAAGAGTTTC-A
11268412 GTTCACAAGA
1 GTTCACAAGA
11268422 ATTTAAGGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 1 0.04
17 21 0.88
18 2 0.08
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (16 bp):
GTTCACAAGAGTTTCA
Found at i:11268789 original size:80 final size:80
Alignment explanation
Indices: 11268638--11268792 Score: 197
Period size: 80 Copynumber: 1.9 Consensus size: 80
11268628 TATTCTAATT
* * * *
11268638 CAAAAATTTTAGAGATTCACACCAAAAAGTTAAAGATTTTTATTTGAAAATTTTGAGGAATCATA
1 CAAAAATTTTAGAGATTCACACCAAAAAGTTAAAGATTTTTATTTAAAAACTTAGAGGAATCACA
11268703 TCCAAAATTTATATA
66 TCCAAAATTTATATA
*** * *
11268718 CAAAAATTTTAGAGATTCACATTTAAGAGTTAAAGATTTTTCATTTAAAAAACTTAGA-GATTCA
1 CAAAAATTTTAGAGATTCACACCAAAAAGTTAAAGATTTTT-ATTT-AAAAACTTAGAGGAATCA
11268782 CAT-CAAAATTT
64 CATCCAAAATTT
11268793 TCAAAATTCA
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
80 45 0.70
81 11 0.17
82 8 0.12
ACGTcount: A:0.45, C:0.10, G:0.10, T:0.35
Consensus pattern (80 bp):
CAAAAATTTTAGAGATTCACACCAAAAAGTTAAAGATTTTTATTTAAAAACTTAGAGGAATCACA
TCCAAAATTTATATA
Found at i:11268857 original size:23 final size:23
Alignment explanation
Indices: 11268831--11268907 Score: 75
Period size: 24 Copynumber: 3.3 Consensus size: 23
11268821 TTTCACAACC
*
11268831 AAAATTTCAAAGTTTCTCATCCGA
1 AAAATTTCAAAGTTTCACAT-CGA
* *
11268855 AAAATTTCAAGGTTTCACATC-T
1 AAAATTTCAAAGTTTCACATCGA
* * *
11268877 AAAATTTCAAAGATTCATATTCAA
1 AAAATTTCAAAGTTTCACA-TCGA
11268901 AAAATTT
1 AAAATTT
11268908 TAGGAATTCC
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
22 16 0.36
23 3 0.07
24 25 0.57
ACGTcount: A:0.43, C:0.16, G:0.06, T:0.35
Consensus pattern (23 bp):
AAAATTTCAAAGTTTCACATCGA
Found at i:11268883 original size:22 final size:22
Alignment explanation
Indices: 11268821--11268903 Score: 76
Period size: 22 Copynumber: 3.6 Consensus size: 22
11268811 AACTTTAACA
* *
11268821 TTTCACAACCAAAATTTCAAAG
1 TTTCACATCAAAAATTTCAAAG
* *
11268843 TTTCTCATCCGAAAAATTTCAAGG
1 TTTCACAT-C-AAAAATTTCAAAG
*
11268867 TTTCACATCTAAAATTTCAAAG
1 TTTCACATCAAAAATTTCAAAG
* *
11268889 ATTCATATTCAAAAA
1 TTTCACA-TCAAAAA
11268904 ATTTTAGGAA
Statistics
Matches: 48, Mismatches: 10, Indels: 5
0.76 0.16 0.08
Matches are distributed among these distances:
22 22 0.46
23 8 0.17
24 18 0.38
ACGTcount: A:0.42, C:0.19, G:0.06, T:0.33
Consensus pattern (22 bp):
TTTCACATCAAAAATTTCAAAG
Found at i:11269926 original size:10 final size:9
Alignment explanation
Indices: 11269911--11269954 Score: 61
Period size: 9 Copynumber: 4.8 Consensus size: 9
11269901 TTGAAGTCTT
*
11269911 TTTTTTTCTC
1 TTTTTTT-TA
11269921 TTTTTTTTA
1 TTTTTTTTA
11269930 TTTTTTTTA
1 TTTTTTTTA
*
11269939 TTTTTTTCA
1 TTTTTTTTA
11269948 TTTTTTT
1 TTTTTTT
11269955 GCACACCATT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
9 25 0.78
10 7 0.22
ACGTcount: A:0.07, C:0.07, G:0.00, T:0.86
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:11270295 original size:25 final size:27
Alignment explanation
Indices: 11270262--11270311 Score: 68
Period size: 25 Copynumber: 1.9 Consensus size: 27
11270252 TTTTTTTGTT
*
11270262 TTTTCTTTTTCTTTTTAATT-TTTTAA
1 TTTTCTTTTTATTTTTAATTATTTTAA
*
11270288 TTTT-TTTTTATTTTTCATTATTTT
1 TTTTCTTTTTATTTTTAATTATTTT
11270312 TCAAGAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 13 0.62
26 8 0.38
ACGTcount: A:0.14, C:0.06, G:0.00, T:0.80
Consensus pattern (27 bp):
TTTTCTTTTTATTTTTAATTATTTTAA
Found at i:11274221 original size:21 final size:21
Alignment explanation
Indices: 11274194--11274246 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
11274184 TAATAATATG
*
11274194 ATATCATGCAATTAATATAAA
1 ATATCATGCAATTAAGATAAA
* *
11274215 CTATCATGTAATTAAGATAAA
1 ATATCATGCAATTAAGATAAA
11274236 ATATCATGCAA
1 ATATCATGCAA
11274247 ATTTATTAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.49, C:0.11, G:0.08, T:0.32
Consensus pattern (21 bp):
ATATCATGCAATTAAGATAAA
Found at i:11274419 original size:26 final size:26
Alignment explanation
Indices: 11274375--11274428 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 26
11274365 ATTAAATATG
*
11274375 AAAAATAGGAGAATAAAAACAAAGTAA
1 AAAAATAGGAGAATAAAAA-AAAATAA
11274402 AAAAATA-GAGAA-ACAAAAAAAATAA
1 AAAAATAGGAGAATA-AAAAAAAATAA
11274427 AA
1 AA
11274429 TCATAAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
25 9 0.36
26 9 0.36
27 7 0.28
ACGTcount: A:0.76, C:0.04, G:0.11, T:0.09
Consensus pattern (26 bp):
AAAAATAGGAGAATAAAAAAAAATAA
Found at i:11274419 original size:27 final size:25
Alignment explanation
Indices: 11274375--11274428 Score: 65
Period size: 27 Copynumber: 2.1 Consensus size: 25
11274365 ATTAAATATG
*
11274375 AAAAATAGGAGAATAAAAACAAAGTAA
1 AAAAATAGGAGAACAAAAA-AAA-TAA
11274402 AAAAATA-GAGAAACAAAAAAAATAA
1 AAAAATAGGAG-AACAAAAAAAATAA
11274427 AA
1 AA
11274429 TCATAAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
25 5 0.20
26 6 0.24
27 14 0.56
ACGTcount: A:0.76, C:0.04, G:0.11, T:0.09
Consensus pattern (25 bp):
AAAAATAGGAGAACAAAAAAAATAA
Found at i:11275308 original size:12 final size:11
Alignment explanation
Indices: 11275291--11275337 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
11275281 TAAAAAATAT
11275291 ATAATAACAAAA
1 ATAATAA-AAAA
11275303 ATAATAAAAAA
1 ATAATAAAAAA
*
11275314 AAAATAAAAATA
1 ATAATAAAAA-A
*
11275326 AGAA-AAAAAA
1 ATAATAAAAAA
11275336 AT
1 AT
11275338 TTTACCCAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
10 2 0.06
11 18 0.58
12 11 0.35
ACGTcount: A:0.81, C:0.02, G:0.02, T:0.15
Consensus pattern (11 bp):
ATAATAAAAAA
Found at i:11275318 original size:14 final size:15
Alignment explanation
Indices: 11275282--11275333 Score: 61
Period size: 16 Copynumber: 3.4 Consensus size: 15
11275272 TTTAAATTTT
11275282 AAAAAATATATAATAA
1 AAAAAATA-ATAATAA
*
11275298 CAAAAATAATAA-AA
1 AAAAAATAATAATAA
*
11275312 AAAAAATAAAAATAA
1 AAAAAATAATAATAA
11275327 GAAAAAA
1 -AAAAAA
11275334 AAATTTTACC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
14 12 0.39
15 6 0.19
16 13 0.42
ACGTcount: A:0.81, C:0.02, G:0.02, T:0.15
Consensus pattern (15 bp):
AAAAAATAATAATAA
Found at i:11275324 original size:20 final size:20
Alignment explanation
Indices: 11275299--11275336 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
11275289 ATATAATAAC
*
11275299 AAAAATAATAAAAAAAAAAT
1 AAAAATAAGAAAAAAAAAAT
11275319 AAAAATAAGAAAAAAAAA
1 AAAAATAAGAAAAAAAAA
11275337 TTTTACCCAA
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:0.87, C:0.00, G:0.03, T:0.11
Consensus pattern (20 bp):
AAAAATAAGAAAAAAAAAAT
Found at i:11276666 original size:24 final size:25
Alignment explanation
Indices: 11276630--11276676 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
11276620 GTCGATGGGA
* * *
11276630 ACTAAGTGTTACATTGT-GGGAGTC
1 ACTAAGAGCTACATGGTAGGGAGTC
11276654 ACTAAGAGCTACATGGTAGGGAG
1 ACTAAGAGCTACATGGTAGGGAG
11276677 CCACATTTAG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 14 0.74
25 5 0.26
ACGTcount: A:0.30, C:0.13, G:0.32, T:0.26
Consensus pattern (25 bp):
ACTAAGAGCTACATGGTAGGGAGTC
Found at i:11277765 original size:12 final size:11
Alignment explanation
Indices: 11277748--11277809 Score: 56
Period size: 12 Copynumber: 5.5 Consensus size: 11
11277738 TTTTCATATC
11277748 AATATAAATTAT
1 AATATAAATT-T
11277760 AATATATAATTTT
1 AATATA-AA-TTT
*
11277773 TATATAAAATTT
1 AATAT-AAATTT
*
11277785 AATATAAATAT
1 AATATAAATTT
11277796 -ATAT-AATTT
1 AATATAAATTT
11277805 AATAT
1 AATAT
11277810 TTTATATAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
9 4 0.10
10 8 0.19
11 5 0.12
12 13 0.31
13 9 0.21
14 3 0.07
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (11 bp):
AATATAAATTT
Found at i:11277819 original size:12 final size:12
Alignment explanation
Indices: 11277762--11277821 Score: 50
Period size: 12 Copynumber: 4.8 Consensus size: 12
11277752 TAAATTATAA
11277762 TATATAAT-TTT
1 TATATAATATTT
*
11277773 TATATAAAATTT
1 TATATAATATTT
*
11277785 AATATAAATATATAT
1 TATAT-AATAT-T-T
* *
11277800 AATTTAATATTT
1 TATATAATATTT
11277812 TATATAATAT
1 TATATAATAT
11277822 AAATACACGA
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
11 7 0.18
12 16 0.41
13 5 0.13
14 6 0.15
15 5 0.13
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TATATAATATTT
Found at i:11277859 original size:9 final size:10
Alignment explanation
Indices: 11277838--11277863 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
11277828 ACGAATCATC
11277838 AAATTTAAAA
1 AAATTTAAAA
11277848 AAATTTAAAA
1 AAATTTAAAA
11277858 AAATTT
1 AAATTT
11277864 TGTACCTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (10 bp):
AAATTTAAAA
Found at i:11278263 original size:15 final size:15
Alignment explanation
Indices: 11278240--11278276 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
11278230 AAACTACTAC
*
11278240 TATTATTATTATTGT
1 TATTGTTATTATTGT
11278255 TATTGTTATTATTGT
1 TATTGTTATTATTGT
*
11278270 TGTTGTT
1 TATTGTT
11278277 TAAAATTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.19, C:0.00, G:0.14, T:0.68
Consensus pattern (15 bp):
TATTGTTATTATTGT
Found at i:11278322 original size:20 final size:20
Alignment explanation
Indices: 11278290--11278327 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
11278280 AATTATTTTT
*
11278290 AATTAAATGTTTATTATTAA
1 AATTAAATGTTTAATATTAA
11278310 AATTAAAAT-TTTAATATT
1 AATT-AAATGTTTAATATT
11278328 TTCCTAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (20 bp):
AATTAAATGTTTAATATTAA
Found at i:11282197 original size:18 final size:19
Alignment explanation
Indices: 11282164--11282200 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
11282154 ATATATATTA
11282164 ATATTCTAATAATTAAAAT
1 ATATTCTAATAATTAAAAT
*
11282183 ATATTTTAA-AATTAAAAT
1 ATATTCTAATAATTAAAAT
11282201 TAAATAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (19 bp):
ATATTCTAATAATTAAAAT
Found at i:11292197 original size:20 final size:20
Alignment explanation
Indices: 11292172--11292210 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
11292162 AAGAAAAATA
*
11292172 AATGATTAGCAGTAACATGC
1 AATGATCAGCAGTAACATGC
*
11292192 AATGATCAGTAGTAACATG
1 AATGATCAGCAGTAACATG
11292211 AGTCGTTTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.41, C:0.13, G:0.21, T:0.26
Consensus pattern (20 bp):
AATGATCAGCAGTAACATGC
Found at i:11299506 original size:5 final size:5
Alignment explanation
Indices: 11299496--11299531 Score: 63
Period size: 5 Copynumber: 7.0 Consensus size: 5
11299486 AAGTGAATTT
11299496 GAGGG GAGGG GAGGG GAGGGG GAGGG GAGGG GAGGG
1 GAGGG GAGGG GAGGG GA-GGG GAGGG GAGGG GAGGG
11299532 AAGGTGGAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 25 0.83
6 5 0.17
ACGTcount: A:0.19, C:0.00, G:0.81, T:0.00
Consensus pattern (5 bp):
GAGGG
Found at i:11299519 original size:16 final size:16
Alignment explanation
Indices: 11299498--11299531 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
11299488 GTGAATTTGA
11299498 GGGGAGGGGAGGGGAG
1 GGGGAGGGGAGGGGAG
11299514 GGGGAGGGGAGGGGAG
1 GGGGAGGGGAGGGGAG
11299530 GG
1 GG
11299532 AAGGTGGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.18, C:0.00, G:0.82, T:0.00
Consensus pattern (16 bp):
GGGGAGGGGAGGGGAG
Found at i:11300735 original size:18 final size:18
Alignment explanation
Indices: 11300712--11300757 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
11300702 TTTTTATATA
11300712 TAAATTTAAATATA-AACT
1 TAAATTTAAATATATAA-T
*
11300730 TCAATTTAAATATATAAT
1 TAAATTTAAATATATAAT
11300748 TAAATTTAAA
1 TAAATTTAAA
11300758 ATTAAGTATG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 23 0.92
19 2 0.08
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.41
Consensus pattern (18 bp):
TAAATTTAAATATATAAT
Found at i:11302122 original size:21 final size:18
Alignment explanation
Indices: 11302097--11302135 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 18
11302087 ATTTTTCCTA
11302097 AAAATTATTGAAATAATTATT
1 AAAA-TATT-AAA-AATTATT
11302118 AAAATATTAAAAATTATT
1 AAAATATTAAAAATTATT
11302136 TATAATAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.39
19 3 0.17
20 4 0.22
21 4 0.22
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (18 bp):
AAAATATTAAAAATTATT
Found at i:11302524 original size:3 final size:3
Alignment explanation
Indices: 11302459--11302511 Score: 54
Period size: 3 Copynumber: 18.0 Consensus size: 3
11302449 TTATTATTAA
* * * * *
11302459 AAT AAT AAT AAT AAT AAT AAC AAC AAC AAC AAC AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
11302507 -AT AAT
1 AAT AAT
11302512 GCTAACATAA
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
2 2 0.04
3 45 0.96
ACGTcount: A:0.66, C:0.09, G:0.00, T:0.25
Consensus pattern (3 bp):
AAT
Found at i:11302630 original size:36 final size:36
Alignment explanation
Indices: 11302589--11302670 Score: 96
Period size: 36 Copynumber: 2.3 Consensus size: 36
11302579 TTCATTTAAG
11302589 AAAATAATATTA-TT-ATATCATTTAATATTAATTATT
1 AAAATAATATTATTTAATAT-A-TTAATATTAATTATT
* * * *
11302625 AAAATATTATTATTTAATATATTATTCTTTATTATT
1 AAAATAATATTATTTAATATATTAATATTAATTATT
11302661 AAAATAATAT
1 AAAATAATAT
11302671 AGTACAATTT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
36 32 0.82
37 3 0.08
38 4 0.10
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.51
Consensus pattern (36 bp):
AAAATAATATTATTTAATATATTAATATTAATTATT
Found at i:11302649 original size:15 final size:15
Alignment explanation
Indices: 11302593--11302655 Score: 58
Period size: 15 Copynumber: 4.1 Consensus size: 15
11302583 TTTAAGAAAA
11302593 TAATATTATTATATCATT
1 TAATA-TATTAT-T-ATT
*
11302611 TAATAT-TAATTA-T
1 TAATATATTATTATT
*
11302624 TAAAATATTATTATT
1 TAATATATTATTATT
*
11302639 TAATATATTATTCTT
1 TAATATATTATTATT
11302654 TA
1 TA
11302656 TTATTAAAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
13 6 0.16
14 6 0.16
15 17 0.45
16 3 0.08
17 1 0.03
18 5 0.13
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (15 bp):
TAATATATTATTATT
Found at i:11305558 original size:26 final size:25
Alignment explanation
Indices: 11305507--11305558 Score: 59
Period size: 26 Copynumber: 2.0 Consensus size: 25
11305497 ACATTTGTAA
* *
11305507 ATATTAAATAAATATATTCACGAAC
1 ATATTAAATAAACATATTCACAAAC
* *
11305532 ATATATAAATGAACATATTCATAAAC
1 ATAT-TAAATAAACATATTCACAAAC
11305558 A
1 A
11305559 ATAAACAAAC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
25 4 0.18
26 18 0.82
ACGTcount: A:0.54, C:0.12, G:0.04, T:0.31
Consensus pattern (25 bp):
ATATTAAATAAACATATTCACAAAC
Found at i:11314459 original size:27 final size:29
Alignment explanation
Indices: 11314429--11314484 Score: 80
Period size: 27 Copynumber: 2.0 Consensus size: 29
11314419 GAATTTATTT
11314429 AATATTTATGA-CCAAAAAATT-TTATAC
1 AATATTTATGAGCCAAAAAATTATTATAC
*
11314456 AATATTTATGATGTCAAAAAATTATTATA
1 AATATTTATGA-GCCAAAAAATTATTATA
11314485 AATTATTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
27 11 0.44
29 9 0.36
30 5 0.20
ACGTcount: A:0.48, C:0.07, G:0.05, T:0.39
Consensus pattern (29 bp):
AATATTTATGAGCCAAAAAATTATTATAC
Found at i:11314516 original size:14 final size:15
Alignment explanation
Indices: 11314499--11314561 Score: 53
Period size: 15 Copynumber: 4.3 Consensus size: 15
11314489 ATTAAATTAT
11314499 TTTTA-TAATAATAA
1 TTTTACTAATAATAA
*
11314513 TTTTATTAATAAATAA
1 TTTTACTAAT-AATAA
*
11314529 TTATTACTAA-AATTAT
1 TT-TTACTAATAA-TAA
11314545 TTTTA-TAATAAT-A
1 TTTTACTAATAATAA
11314558 TTTT
1 TTTT
11314562 TGTTATAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
13 4 0.10
14 9 0.22
15 11 0.27
16 11 0.27
17 6 0.15
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (15 bp):
TTTTACTAATAATAA
Found at i:11314547 original size:31 final size:31
Alignment explanation
Indices: 11314486--11314555 Score: 72
Period size: 31 Copynumber: 2.3 Consensus size: 31
11314476 ATTATTATAA
* * *
11314486 ATTATTAAATTATTTTTATAATAATAATTTT
1 ATTAATAAATAATTATTATAATAATAATTTT
*
11314517 ATTAATAAATAATTATTACTAA-AATTATTTT
1 ATTAATAAATAATTATTA-TAATAATAATTTT
11314548 -TATAATAA
1 AT-TAATAA
11314556 TATTTTTGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
30 1 0.03
31 29 0.88
32 3 0.09
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (31 bp):
ATTAATAAATAATTATTATAATAATAATTTT
Found at i:11314569 original size:14 final size:14
Alignment explanation
Indices: 11314496--11314562 Score: 64
Period size: 14 Copynumber: 4.5 Consensus size: 14
11314486 ATTATTAAAT
11314496 TATTTTTATAATAA
1 TATTTTTATAATAA
*
11314510 TAATTTTATTAATAAA
1 TATTTTTA-TAAT-AA
*
11314526 TAATTATTACTAA-AA
1 T-ATTTTTA-TAATAA
11314541 TTATTTTTATAATAA
1 -TATTTTTATAATAA
11314556 TATTTTT
1 TATTTTT
11314563 GTTATAAAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
14 17 0.40
15 14 0.33
16 4 0.09
17 8 0.19
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.55
Consensus pattern (14 bp):
TATTTTTATAATAA
Found at i:11319693 original size:16 final size:16
Alignment explanation
Indices: 11319674--11319706 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
11319664 TAATCTTTAA
11319674 TGTTCTT-TAGCTTTTT
1 TGTTCTTCTAG-TTTTT
11319690 TGTTCTTCTAGTTTTT
1 TGTTCTTCTAGTTTTT
11319706 T
1 T
11319707 AAGTTTTCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 13 0.81
17 3 0.19
ACGTcount: A:0.06, C:0.12, G:0.12, T:0.70
Consensus pattern (16 bp):
TGTTCTTCTAGTTTTT
Found at i:11321834 original size:3 final size:3
Alignment explanation
Indices: 11321826--11321856 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
11321816 TTCCTCGAAA
11321826 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
11321857 GCAAGTCATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:11323505 original size:17 final size:17
Alignment explanation
Indices: 11323485--11323517 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
11323475 ATCGTAAATC
11323485 ATTATTAAAAAT-AAAAA
1 ATTA-TAAAAATGAAAAA
11323502 ATTATAAAAATGAAAA
1 ATTATAAAAATGAAAA
11323518 TATAATAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (17 bp):
ATTATAAAAATGAAAAA
Found at i:11323525 original size:17 final size:16
Alignment explanation
Indices: 11323490--11323533 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
11323480 AAATCATTAT
*
11323490 TAAAAATAAAAAATTA
1 TAAAAATAAAAAATAA
*
11323506 TAAAAATGAAAATATAA
1 TAAAAAT-AAAAAATAA
11323523 TAATAAATAAA
1 TAA-AAATAAA
11323534 GCTCATGATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 7 0.29
17 13 0.54
18 4 0.17
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (16 bp):
TAAAAATAAAAAATAA
Found at i:11328688 original size:13 final size:13
Alignment explanation
Indices: 11328670--11328694 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11328660 CTGCTTATGA
11328670 AAAAAATAAAAAT
1 AAAAAATAAAAAT
11328683 AAAAAATAAAAA
1 AAAAAATAAAAA
11328695 CATTCCTTGT
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:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (13 bp):
AAAAAATAAAAAT
Found at i:11329103 original size:14 final size:14
Alignment explanation
Indices: 11329083--11329119 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
11329073 CACTGTGTAC
11329083 ATATCCTTTCTTTT
1 ATATCCTTTCTTTT
*
11329097 TTATCCTTTCTTTT
1 ATATCCTTTCTTTT
11329111 ATATCCTTT
1 ATATCCTTT
11329120 TCTATACCCC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.14, C:0.22, G:0.00, T:0.65
Consensus pattern (14 bp):
ATATCCTTTCTTTT
Found at i:11332682 original size:21 final size:23
Alignment explanation
Indices: 11332652--11332707 Score: 71
Period size: 21 Copynumber: 2.5 Consensus size: 23
11332642 TTTTTAAATT
*
11332652 TTTAAATAATTCAAAAT-AA-AA
1 TTTAAATAATTAAAAATAAATAA
* *
11332673 TTTAATTAATAAAAAATAAATAA
1 TTTAAATAATTAAAAATAAATAA
11332696 TTTAAATAATTA
1 TTTAAATAATTA
11332708 TTAAACTTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
21 14 0.50
22 2 0.07
23 12 0.43
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (23 bp):
TTTAAATAATTAAAAATAAATAA
Found at i:11334199 original size:2 final size:2
Alignment explanation
Indices: 11334192--11334227 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
11334182 ACTATCCTTT
11334192 TA TA TA TA 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 TA TA TA TA
11334228 ATTAAGTTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:11335128 original size:17 final size:17
Alignment explanation
Indices: 11335108--11335142 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
11335098 TATTTGATTG
*
11335108 TTTTTTAAAAATTTTAA
1 TTTTTTAAAAATATTAA
11335125 TTTTTTAAAAATATTAA
1 TTTTTTAAAAATATTAA
11335142 T
1 T
11335143 ATAACTATTA
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:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TTTTTTAAAAATATTAA
Found at i:11335177 original size:25 final size:25
Alignment explanation
Indices: 11335148--11335213 Score: 89
Period size: 26 Copynumber: 2.6 Consensus size: 25
11335138 TTAATATAAC
11335148 TATTAAAATATTAAAAATTACTTAT
1 TATTAAAATATTAAAAATTACTTAT
*
11335173 TATTAAAGTATATT-AAAATTATTTAT
1 TATTAAA--ATATTAAAAATTACTTAT
11335199 TATTAAAATTATTAA
1 TATTAAAA-TATTAA
11335214 TATTTAAAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
24 1 0.03
25 11 0.31
26 19 0.53
27 5 0.14
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (25 bp):
TATTAAAATATTAAAAATTACTTAT
Found at i:11335220 original size:16 final size:17
Alignment explanation
Indices: 11335171--11335238 Score: 68
Period size: 16 Copynumber: 3.9 Consensus size: 17
11335161 AAAATTACTT
11335171 ATTATTAAAGTATATTAAA
1 ATTATT-AA-TATATTAAA
*
11335190 ATTATTTAT-TATTAAA
1 ATTATTAATATATTAAA
11335206 ATTATTAATAT-TTAAA
1 ATTATTAATATATTAAA
*
11335222 ATATTTTAATAATATTA
1 AT-TATTAAT-ATATTA
11335239 TTTAATATAA
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
16 22 0.52
17 8 0.19
18 3 0.07
19 9 0.21
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (17 bp):
ATTATTAATATATTAAA
Found at i:11335221 original size:42 final size:44
Alignment explanation
Indices: 11335129--11335257 Score: 106
Period size: 45 Copynumber: 2.9 Consensus size: 44
11335119 TTTTAATTTT
* * *
11335129 TTAAAA-ATATTAAT-ATAACTATTAAAATATTAAAAATTACTTATTA
1 TTAAAATATATTAATAAT-ATTATT-TAATATT-AAAATTA-TTAATA
* *
11335175 TTAAAGTATATT-A-AA-ATTATTTATTATTAAAATTATTAATA
1 TTAAAATATATTAATAATATTATTTAATATTAAAATTATTAATA
* * *
11335216 TTTAAAATATTTTAATAATATTATTTAATATAAAAAATATTA
1 -TTAAAATATATTAATAATATTATTTAATATTAAAATTATTA
11335258 TCTTAATATA
Statistics
Matches: 67, Mismatches: 10, Indels: 13
0.74 0.11 0.14
Matches are distributed among these distances:
41 5 0.07
42 17 0.25
43 6 0.09
44 7 0.10
45 20 0.30
46 7 0.10
47 5 0.07
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.46
Consensus pattern (44 bp):
TTAAAATATATTAATAATATTATTTAATATTAAAATTATTAATA
Found at i:11335256 original size:19 final size:20
Alignment explanation
Indices: 11335232--11335270 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
11335222 ATATTTTAAT
11335232 AATATTAT-TTAATATAAAA
1 AATATTATCTTAATATAAAA
11335251 AATATTATCTTAATATAAAA
1 AATATTATCTTAATATAAAA
11335271 TACTAAACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (20 bp):
AATATTATCTTAATATAAAA
Found at i:11335323 original size:18 final size:18
Alignment explanation
Indices: 11335300--11335349 Score: 91
Period size: 18 Copynumber: 2.8 Consensus size: 18
11335290 TATTATTCTT
*
11335300 TATATTATTTATTAATAG
1 TATATTATTTATTAATAA
11335318 TATATTATTTATTAATAA
1 TATATTATTTATTAATAA
11335336 TATATTATTTATTA
1 TATATTATTTATTA
11335350 TTATATTATC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (18 bp):
TATATTATTTATTAATAA
Found at i:11345737 original size:21 final size:21
Alignment explanation
Indices: 11345713--11345752 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
11345703 GTATGACTAG
11345713 CCAATAAATTAATAACTGACC
1 CCAATAAATTAATAACTGACC
* *
11345734 CCAATATATTATTAACTGA
1 CCAATAAATTAATAACTGA
11345753 TATCACCATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.45, C:0.20, G:0.05, T:0.30
Consensus pattern (21 bp):
CCAATAAATTAATAACTGACC
Found at i:11346625 original size:20 final size:20
Alignment explanation
Indices: 11346574--11346629 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
11346564 TTCCCCTTCC
*
11346574 ATTTATTTA-TTTATTTTAT
1 ATTTTTTTATTTTATTTTAT
**
11346593 ATTTTTTGGTTTTATCTTT-T
1 ATTTTTTTATTTTAT-TTTAT
11346613 ATTTTTTTATTTTATTT
1 ATTTTTTTATTTTATTT
11346630 ATTTTATTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
19 8 0.27
20 19 0.63
21 3 0.10
ACGTcount: A:0.18, C:0.02, G:0.04, T:0.77
Consensus pattern (20 bp):
ATTTTTTTATTTTATTTTAT
Found at i:11346632 original size:9 final size:9
Alignment explanation
Indices: 11346610--11346638 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
11346600 GGTTTTATCT
11346610 TTTATTTT-
1 TTTATTTTA
11346618 TTTATTTTA
1 TTTATTTTA
11346627 TTTATTTTA
1 TTTATTTTA
11346636 TTT
1 TTT
11346639 TTGGACTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (9 bp):
TTTATTTTA
Found at i:11347432 original size:21 final size:20
Alignment explanation
Indices: 11347401--11347441 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
11347391 TTTTTTTGGT
11347401 ATTTTTATTTATTT-TTTTA
1 ATTTTTATTTATTTATTTTA
11347420 ATTTTTATGTTTATTTATTTTA
1 ATTTTTA--TTTATTTATTTTA
11347442 GAAGTATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.37
21 7 0.37
22 5 0.26
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (20 bp):
ATTTTTATTTATTTATTTTA
Found at i:11355576 original size:2 final size:2
Alignment explanation
Indices: 11355571--11355597 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
11355561 TATATGTGTG
11355571 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 T
11355598 GGCATTTTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:11356688 original size:2 final size:2
Alignment explanation
Indices: 11356681--11356708 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
11356671 TTTCATCTGG
11356681 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
11356709 TGAAATTAAT
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):
AT
Found at i:11358184 original size:18 final size:18
Alignment explanation
Indices: 11358144--11358192 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
11358134 AAATTTTAAC
*
11358144 AAAAATTATTTTTAAGAT
1 AAAAATTATATTTAAGAT
*
11358162 AAAAATTATATTTAATAT
1 AAAAATTATATTTAAGAT
* *
11358180 TAAAACTATATTT
1 AAAAATTATATTT
11358193 TCAAATTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (18 bp):
AAAAATTATATTTAAGAT
Found at i:11365241 original size:2 final size:2
Alignment explanation
Indices: 11365234--11365271 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
11365224 AAAATACATT
11365234 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
11365272 TATATATATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:11370562 original size:21 final size:22
Alignment explanation
Indices: 11370538--11370595 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 22
11370528 TTCATTTTTT
* *
11370538 TATAATTTTTTAT-TATTTTAA
1 TATAATTTTTAATATATTTAAA
*
11370559 TATAGTTTTTAATATATTTAAA
1 TATAATTTTTAATATATTTAAA
*
11370581 TA-AA-ATTTAATATAT
1 TATAATTTTTAATATAT
11370596 AATAATTATT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
20 10 0.32
21 12 0.39
22 9 0.29
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (22 bp):
TATAATTTTTAATATATTTAAA
Found at i:11370576 original size:22 final size:21
Alignment explanation
Indices: 11370538--11370588 Score: 57
Period size: 22 Copynumber: 2.4 Consensus size: 21
11370528 TTCATTTTTT
* *
11370538 TATAATTTTTTATTATTTTAA
1 TATAATTTTTAATTATTTAAA
*
11370559 TATAGTTTTTAATATATTTAAA
1 TATAATTTTTAAT-TATTTAAA
*
11370581 TAAAATTT
1 TATAATTT
11370589 AATATATAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 11 0.46
22 13 0.54
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (21 bp):
TATAATTTTTAATTATTTAAA
Found at i:11371494 original size:11 final size:11
Alignment explanation
Indices: 11371478--11371502 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
11371468 CCATCAAGTA
11371478 TTTTTTTAATT
1 TTTTTTTAATT
11371489 TTTTTTTAATT
1 TTTTTTTAATT
11371500 TTT
1 TTT
11371503 CAACTCTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTTTTAATT
Found at i:11376595 original size:30 final size:29
Alignment explanation
Indices: 11376555--11376637 Score: 87
Period size: 30 Copynumber: 2.8 Consensus size: 29
11376545 CAAGTCTCTG
* *
11376555 ATATTGAATTTACATCTAAATAAAATTTTA
1 ATATTTAATTTATAT-TAAATAAAATTTTA
* *
11376585 CT-TTATAATTTATATTCAAATAAATTTTTA
1 ATATT-TAATTTATATT-AAATAAAATTTTA
11376615 ATATTTAATTTATATTTAAATAA
1 ATATTTAATTTATA-TTAAATAA
11376638 GCTTTTGATA
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
29 3 0.07
30 37 0.84
31 4 0.09
ACGTcount: A:0.45, C:0.05, G:0.01, T:0.49
Consensus pattern (29 bp):
ATATTTAATTTATATTAAATAAAATTTTA
Found at i:11378951 original size:29 final size:30
Alignment explanation
Indices: 11378913--11378970 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
11378903 AATATTTATG
*
11378913 TTTGCAATTTTTA-ATTTCATTCTTTAAAAT
1 TTTGCAATTTATATATTTCATT-TTTAAAAT
*
11378943 TTTG-AATTTATATATTTGATTTTTAAAA
1 TTTGCAATTTATATATTTCATTTTTAAAA
11378971 AACTCCTGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 14 0.56
30 11 0.44
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.57
Consensus pattern (30 bp):
TTTGCAATTTATATATTTCATTTTTAAAAT
Found at i:11382425 original size:23 final size:25
Alignment explanation
Indices: 11382374--11382425 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
11382364 TCATTTATTG
***
11382374 ATATATAGTAATTATTTTTGACAAT
1 ATATATAGTAATTATTAAAGACAAT
11382399 ATATATAGTAATTATTAAAG-CAA-
1 ATATATAGTAATTATTAAAGACAAT
11382422 ATAT
1 ATAT
11382426 GCGGGCAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 4 0.17
24 3 0.12
25 17 0.71
ACGTcount: A:0.46, C:0.04, G:0.08, T:0.42
Consensus pattern (25 bp):
ATATATAGTAATTATTAAAGACAAT
Found at i:11386721 original size:18 final size:17
Alignment explanation
Indices: 11386679--11386721 Score: 50
Period size: 19 Copynumber: 2.4 Consensus size: 17
11386669 AAACTCAAGC
*
11386679 AAAATAAATAAAGGAGTG
1 AAAA-AAATAAAGGAGAG
11386697 AATAAAAATAAAAGGAGAG
1 AA-AAAAAT-AAAGGAGAG
11386716 AAAAAA
1 AAAAAA
11386722 TAACTGGGGC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 10 0.45
19 12 0.55
ACGTcount: A:0.70, C:0.00, G:0.19, T:0.12
Consensus pattern (17 bp):
AAAAAAATAAAGGAGAG
Found at i:11392707 original size:12 final size:12
Alignment explanation
Indices: 11392690--11392741 Score: 61
Period size: 12 Copynumber: 4.2 Consensus size: 12
11392680 TATTAATAAT
11392690 TTATATTTTATA
1 TTATATTTTATA
11392702 TTATATTTTATA
1 TTATATTTTATA
11392714 -TATAATTTATATA
1 TTAT-ATTT-TATA
* *
11392727 TTATAATTTAGA
1 TTATATTTTATA
11392739 TTA
1 TTA
11392742 ACATAAAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
11 3 0.09
12 22 0.63
13 7 0.20
14 3 0.09
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (12 bp):
TTATATTTTATA
Found at i:11396148 original size:17 final size:18
Alignment explanation
Indices: 11396123--11396167 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
11396113 AAAATTTTTA
*
11396123 AATAATTTT-GTTAATCT
1 AATATTTTTAGTTAATCT
* *
11396140 AATATTTTTATTTAATTT
1 AATATTTTTAGTTAATCT
11396158 AATATTTTTA
1 AATATTTTTA
11396168 ATGATAATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 8 0.33
18 16 0.67
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (18 bp):
AATATTTTTAGTTAATCT
Found at i:11396160 original size:18 final size:18
Alignment explanation
Indices: 11396133--11396167 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
11396123 AATAATTTTG
11396133 TTAATCTAATATTTTTAT
1 TTAATCTAATATTTTTAT
*
11396151 TTAATTTAATATTTTTA
1 TTAATCTAATATTTTTA
11396168 ATGATAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (18 bp):
TTAATCTAATATTTTTAT
Found at i:11396177 original size:20 final size:18
Alignment explanation
Indices: 11396134--11396186 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 18
11396124 ATAATTTTGT
* *
11396134 TAATCTAATATTTTTATT
1 TAATTTAATATTTTTATA
11396152 TAATTTAATATTTTTAATGA
1 TAATTTAATATTTTT-AT-A
11396172 TAATTT-AT-TTTTTAT
1 TAATTTAATATTTTTAT
11396187 TACAATTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
17 2 0.06
18 19 0.61
19 4 0.13
20 6 0.19
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (18 bp):
TAATTTAATATTTTTATA
Found at i:11401256 original size:11 final size:11
Alignment explanation
Indices: 11401240--11401271 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
11401230 TTATGGAGAT
*
11401240 ATATTAAATAC
1 ATATTAAATAA
11401251 ATATTAAATAA
1 ATATTAAATAA
11401262 ATATTAAATA
1 ATATTAAATA
11401272 TTTTTATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (11 bp):
ATATTAAATAA
Found at i:11401552 original size:22 final size:23
Alignment explanation
Indices: 11401527--11401577 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
11401517 TATATAACAC
11401527 ATATATTAAATGT-AT-TATATTT
1 ATATATTAAAT-TAATATATATTT
*
11401549 ATATTTTAAATTAATATATATTT
1 ATATATTAAATTAATATATATTT
11401572 A-ATATT
1 ATATATT
11401578 TATATTTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 1 0.04
22 16 0.64
23 8 0.32
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (23 bp):
ATATATTAAATTAATATATATTT
Found at i:11404252 original size:22 final size:22
Alignment explanation
Indices: 11404226--11404269 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
11404216 TTTGTATATT
*
11404226 TATTTGTATCTCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
11404248 TATTTGTATCCCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
11404270 GATAAAAAAT
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:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (22 bp):
TATTTGTATCCCTAGAATTAAG
Found at i:11408378 original size:31 final size:31
Alignment explanation
Indices: 11408340--11408398 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
11408330 TTTTTATCTC
*
11408340 TAGAATTAAGTATCTGTATCCCTAGAATCCT
1 TAGAATTAAGTATCTGCATCCCTAGAATCCT
* *
11408371 TAGAATTAAGTATTTGCATCCCTTGAAT
1 TAGAATTAAGTATCTGCATCCCTAGAAT
11408399 TAAGGACAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (31 bp):
TAGAATTAAGTATCTGCATCCCTAGAATCCT
Found at i:11411694 original size:61 final size:61
Alignment explanation
Indices: 11411618--11411741 Score: 212
Period size: 61 Copynumber: 2.0 Consensus size: 61
11411608 AAGCATGGGA
**
11411618 ACAATAAAAATCATGCATTAGTGTAAATGGAAATGCTCTATTATCATTATAAATCAAACAT
1 ACAATAAAAATCATGCATTAGCATAAATGGAAATGCTCTATTATCATTATAAATCAAACAT
* *
11411679 ACAATAAAAATCATGCATTAGCATAAATGGAAATGCTCTATTGTCATTATAAATTAAACAT
1 ACAATAAAAATCATGCATTAGCATAAATGGAAATGCTCTATTATCATTATAAATCAAACAT
11411740 AC
1 AC
11411742 GGTAGCAAAC
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
61 59 1.00
ACGTcount: A:0.46, C:0.14, G:0.10, T:0.31
Consensus pattern (61 bp):
ACAATAAAAATCATGCATTAGCATAAATGGAAATGCTCTATTATCATTATAAATCAAACAT
Found at i:11423140 original size:18 final size:19
Alignment explanation
Indices: 11423099--11423143 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
11423089 TTTTAATTTA
* *
11423099 AAAATTTATTATTAAATTT
1 AAAATTTTTTATTAAAATT
*
11423118 TAAATTTTTTA-TAAAATT
1 AAAATTTTTTATTAAAATT
11423136 AAAATTTT
1 AAAATTTT
11423144 ATAATTTTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 13 0.59
19 9 0.41
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
AAAATTTTTTATTAAAATT
Found at i:11423175 original size:29 final size:27
Alignment explanation
Indices: 11423122--11423175 Score: 63
Period size: 29 Copynumber: 1.9 Consensus size: 27
11423112 AAATTTTAAA
***
11423122 TTTTTTATAAAATTAAAATTTTATAAT
1 TTTTTTATAAAATTAAAAAACTATAAT
11423149 TTTTATTATAAAAATTAAAAAACTATA
1 TTTT-TTAT-AAAATTAAAAAACTATA
11423176 TAAAATAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 4 0.18
28 4 0.18
29 14 0.64
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (27 bp):
TTTTTTATAAAATTAAAAAACTATAAT
Found at i:11423200 original size:20 final size:20
Alignment explanation
Indices: 11423172--11423228 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 20
11423162 ATTAAAAAAC
* *
11423172 TATATAAAATAATTTTTAAA
1 TATAAAAAATAAATTTTAAA
11423192 TATAAAAAATAAGAATTTTAAA
1 TATAAAAAAT-A-AATTTTAAA
11423214 TATTCAAAAAATAAA
1 TA-T-AAAAAATAAA
11423229 AAATAAATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
20 9 0.29
21 1 0.03
22 12 0.39
23 2 0.06
24 7 0.23
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (20 bp):
TATAAAAAATAAATTTTAAA
Found at i:11423974 original size:21 final size:22
Alignment explanation
Indices: 11423936--11423990 Score: 60
Period size: 20 Copynumber: 2.6 Consensus size: 22
11423926 TTATTTAACA
11423936 TAAATATATATATTAATTTTTT
1 TAAATATATATATTAATTTTTT
* *
11423958 TAAAT-TATAT-TTAAATTTTC
1 TAAATATATATATTAATTTTTT
* *
11423978 AAAATTTATATAT
1 TAAATATATATAT
11423991 ACTAACTTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
20 12 0.43
21 10 0.36
22 6 0.21
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (22 bp):
TAAATATATATATTAATTTTTT
Found at i:11426366 original size:14 final size:15
Alignment explanation
Indices: 11426334--11426365 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
11426324 ATCAATTTTT
11426334 AAAATAAATATATAA
1 AAAATAAATATATAA
11426349 AAAAT-AATAT-TAA
1 AAAATAAATATATAA
11426362 AAAA
1 AAAA
11426366 AACTAATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 7 0.41
14 5 0.29
15 5 0.29
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (15 bp):
AAAATAAATATATAA
Found at i:11426503 original size:2 final size:2
Alignment explanation
Indices: 11426496--11426526 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
11426486 TAATATTCAA
11426496 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 A
11426527 AACCCTTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11426953 original size:2 final size:2
Alignment explanation
Indices: 11426946--11426970 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
11426936 ATCAATTTTC
11426946 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 A
11426971 AGAAATATCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11427085 original size:2 final size:2
Alignment explanation
Indices: 11427078--11427104 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
11427068 TCAATTATTA
11427078 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 A
11427105 ACACTTGCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11428236 original size:6 final size:6
Alignment explanation
Indices: 11428219--11428248 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
11428209 TTGGTGGGTA
11428219 AATAGTT AATAGT AATAGT AATAGT AATAG
1 AATAG-T AATAGT AATAGT AATAGT AATAG
11428249 CAGAATGTCG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 18 0.78
7 5 0.22
ACGTcount: A:0.50, C:0.00, G:0.17, T:0.33
Consensus pattern (6 bp):
AATAGT
Found at i:11428829 original size:2 final size:2
Alignment explanation
Indices: 11428822--11428864 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
11428812 CAAACCCTAA
11428822 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
11428864 A
1 A
11428865 AAACCTATAC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:11429222 original size:23 final size:23
Alignment explanation
Indices: 11429189--11429232 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
11429179 ATTTTAATCA
*
11429189 AAAATATTAATTT-TAATTAGTCT
1 AAAATAATAATTTAT-ATTAGTCT
11429212 AAAATAATAATTTATATTAGT
1 AAAATAATAATTTATATTAGT
11429233 TAATAAAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.45
Consensus pattern (23 bp):
AAAATAATAATTTATATTAGTCT
Found at i:11436860 original size:58 final size:57
Alignment explanation
Indices: 11436790--11436899 Score: 150
Period size: 56 Copynumber: 1.9 Consensus size: 57
11436780 TTGTATTTTG
* * * *
11436790 ACTATGTTATTCATATTTTTTTTACTATTATGATATTAATCATTTGC-ATATTAATACA
1 ACTATGTTATTCATA-ATTTATTACTA-TATGATATTAATAAGTTGCTATATTAATACA
*
11436848 ACTATGTTATTCATAATTTATTACTATATGTTATTAATAAGTTGCTATATTA
1 ACTATGTTATTCATAATTTATTACTATATGATATTAATAAGTTGCTATATTA
11436900 CGTTATTAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
56 16 0.35
57 15 0.33
58 15 0.33
ACGTcount: A:0.34, C:0.09, G:0.06, T:0.51
Consensus pattern (57 bp):
ACTATGTTATTCATAATTTATTACTATATGATATTAATAAGTTGCTATATTAATACA
Found at i:11436878 original size:24 final size:24
Alignment explanation
Indices: 11436850--11436942 Score: 82
Period size: 24 Copynumber: 3.8 Consensus size: 24
11436840 TTAATACAAC
11436850 TATGTTATTCATAATTTATTACTA-
1 TATGTTATTCATAATTTATTA-TAT
* * **
11436874 TATGTTATTAATAAGTTGCTATAT
1 TATGTTATTCATAATTTATTATAT
* *
11436898 TACGTTATT-AAATATTTATTATATAT
1 TATGTTATTCATA-ATTTA-T-TATAT
11436924 TATGTTATTCATAATTTAT
1 TATGTTATTCATAATTTAT
11436943 GAATTATTTG
Statistics
Matches: 53, Mismatches: 11, Indels: 9
0.73 0.15 0.12
Matches are distributed among these distances:
23 4 0.08
24 28 0.53
25 1 0.02
26 18 0.34
27 2 0.04
ACGTcount: A:0.34, C:0.05, G:0.06, T:0.54
Consensus pattern (24 bp):
TATGTTATTCATAATTTATTATAT
Found at i:11441643 original size:2 final size:2
Alignment explanation
Indices: 11441638--11441670 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
11441628 CACACTCCGA
*
11441638 AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11441671 ATGTCCTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:11455547 original size:22 final size:21
Alignment explanation
Indices: 11455518--11455564 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
11455508 ATATAAAAAA
11455518 TTAAAATTAAAATCGATTAAT-
1 TTAAAATTAAAATCGA-TAATC
*
11455539 TTAAGAATTGAAATCGATAATC
1 TTAA-AATTAAAATCGATAATC
11455561 TTAA
1 TTAA
11455565 TTTGATTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 8 0.35
22 15 0.65
ACGTcount: A:0.49, C:0.06, G:0.09, T:0.36
Consensus pattern (21 bp):
TTAAAATTAAAATCGATAATC
Found at i:11460623 original size:6 final size:6
Alignment explanation
Indices: 11460612--11460639 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
11460602 TTTTCCCAAA
11460612 AGAGAT AGAGAT AGAGAT AGAGAT AGAG
1 AGAGAT AGAGAT AGAGAT AGAGAT AGAG
11460640 GGGTTCTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.36, T:0.14
Consensus pattern (6 bp):
AGAGAT
Found at i:11462661 original size:35 final size:35
Alignment explanation
Indices: 11462610--11462681 Score: 119
Period size: 35 Copynumber: 2.1 Consensus size: 35
11462600 TTCCACATAG
11462610 AATGATGATGAACAATAAGAATA-GATTTAGTTTTT
1 AATGATGATGAACAATAAGAA-AGGATTTAGTTTTT
*
11462645 AATGTTGATGAACAATAAGAAAGGATTTAGTTTTT
1 AATGATGATGAACAATAAGAAAGGATTTAGTTTTT
11462680 AA
1 AA
11462682 CCTCATAATT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
34 1 0.03
35 34 0.97
ACGTcount: A:0.43, C:0.03, G:0.18, T:0.36
Consensus pattern (35 bp):
AATGATGATGAACAATAAGAAAGGATTTAGTTTTT
Found at i:11469200 original size:44 final size:44
Alignment explanation
Indices: 11469108--11469200 Score: 116
Period size: 44 Copynumber: 2.1 Consensus size: 44
11469098 CTATATGTAT
* * * *
11469108 AATTTGTTAAACTTAAGCTCCTGTAGTAGTGCAACTGGTGCAAG
1 AATTTGTTAAACATAAGCTCCTGTACTAGTGAAACGGGTGCAAG
* *
11469152 AATTTGTTAGACATAAGCTCCTGTACTAAGTGAAACGGGTTCAA-
1 AATTTGTTAAACATAAGCTCCTGTACT-AGTGAAACGGGTGCAAG
11469196 AATTT
1 AATTT
11469201 TGTTTGGGGA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
44 29 0.69
45 13 0.31
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.32
Consensus pattern (44 bp):
AATTTGTTAAACATAAGCTCCTGTACTAGTGAAACGGGTGCAAG
Found at i:11485780 original size:23 final size:24
Alignment explanation
Indices: 11485749--11485798 Score: 84
Period size: 23 Copynumber: 2.1 Consensus size: 24
11485739 TATTCATCCA
11485749 TTTAAATTAAATGGTAAAAAA-AT
1 TTTAAATTAAATGGTAAAAAATAT
*
11485772 TTTAGATTAAATGGTAAAAAATAT
1 TTTAAATTAAATGGTAAAAAATAT
11485796 TTT
1 TTT
11485799 TTTTACTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
23 20 0.80
24 5 0.20
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (24 bp):
TTTAAATTAAATGGTAAAAAATAT
Found at i:11485838 original size:16 final size:16
Alignment explanation
Indices: 11485817--11485847 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
11485807 TTAAATTAAA
*
11485817 ATTAATTAAAAATATT
1 ATTAATAAAAAATATT
11485833 ATTAATAAAAAATAT
1 ATTAATAAAAAATAT
11485848 CACAAGAATA
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:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
ATTAATAAAAAATATT
Found at i:11489794 original size:11 final size:12
Alignment explanation
Indices: 11489768--11489792 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11489758 TATTGATTTG
11489768 AATTTTTATTAA
1 AATTTTTATTAA
11489780 AATTTTTATTAA
1 AATTTTTATTAA
11489792 A
1 A
11489793 TTAAAAAAAA
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
AATTTTTATTAA
Found at i:11492646 original size:13 final size:13
Alignment explanation
Indices: 11492628--11492652 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11492618 AAGTTTAATT
11492628 CAATTATTTTATA
1 CAATTATTTTATA
11492641 CAATTATTTTAT
1 CAATTATTTTAT
11492653 TATTAACTAA
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:0.08, G:0.00, T:0.56
Consensus pattern (13 bp):
CAATTATTTTATA
Found at i:11494567 original size:22 final size:22
Alignment explanation
Indices: 11494521--11494581 Score: 61
Period size: 22 Copynumber: 2.6 Consensus size: 22
11494511 AAATTCGACT
**
11494521 TTAATTAAATTAATCGATTGAA
1 TTAATTAAATTAATAAATTGAA
11494543 TTAATTAAATTTAATAAATTG-A
1 TTAATTAAA-TTAATAAATTGAA
11494565 TTAGTTATTAAATTAAT
1 TTA---ATTAAATTAAT
11494582 TTTAGTTGGT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
22 13 0.39
23 9 0.27
24 5 0.15
25 6 0.18
ACGTcount: A:0.46, C:0.02, G:0.07, T:0.46
Consensus pattern (22 bp):
TTAATTAAATTAATAAATTGAA
Found at i:11495493 original size:18 final size:17
Alignment explanation
Indices: 11495461--11495495 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
11495451 TTCATATTTA
11495461 TAAAATTAATAAATTAT
1 TAAAATTAATAAATTAT
*
11495478 TAAAATTTATTAAATTAT
1 TAAAA-TTAATAAATTAT
11495496 ATTTATGTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
TAAAATTAATAAATTAT
Found at i:11495566 original size:48 final size:52
Alignment explanation
Indices: 11495466--11495567 Score: 140
Period size: 52 Copynumber: 2.0 Consensus size: 52
11495456 ATTTATAAAA
* * *
11495466 TTAATAAATTATTAAAATTTATTAAATTATATTTATGTAAAAAATAATATTG
1 TTAATAAATAATTAAAATTAATTAAATTATATCTATGTAAAAAATAATATTG
*
11495518 TTAATAAATAATTAAAATTAATT-ATTTA-ATCTA-GTAAAAAATAA-ATTG
1 TTAATAAATAATTAAAATTAATTAAATTATATCTATGTAAAAAATAATATTG
11495566 TT
1 TT
11495568 TAAAAAATTT
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
48 6 0.13
49 11 0.24
50 4 0.09
51 4 0.09
52 21 0.46
ACGTcount: A:0.51, C:0.01, G:0.04, T:0.44
Consensus pattern (52 bp):
TTAATAAATAATTAAAATTAATTAAATTATATCTATGTAAAAAATAATATTG
Found at i:11496956 original size:16 final size:17
Alignment explanation
Indices: 11496923--11496956 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
11496913 AGAAAGGTCA
11496923 ACTTAAAATGACTTTTT
1 ACTTAAAATGACTTTTT
11496940 ACTTAAAATGA-TTTTT
1 ACTTAAAATGACTTTTT
11496956 A
1 A
11496957 AAATTAAGGC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.38, C:0.09, G:0.06, T:0.47
Consensus pattern (17 bp):
ACTTAAAATGACTTTTT
Found at i:11497424 original size:29 final size:30
Alignment explanation
Indices: 11497380--11497440 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 30
11497370 GTCTAATAGA
11497380 AAAACTTAATTATGATGAAAATAAATATTT
1 AAAACTTAATTATGATGAAAATAAATATTT
* * **
11497410 AAAATTTAATT-TGATGACAATTGATATTT
1 AAAACTTAATTATGATGAAAATAAATATTT
11497439 AA
1 AA
11497441 GGATTCAATG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
29 17 0.63
30 10 0.37
ACGTcount: A:0.49, C:0.03, G:0.08, T:0.39
Consensus pattern (30 bp):
AAAACTTAATTATGATGAAAATAAATATTT
Found at i:11500737 original size:15 final size:15
Alignment explanation
Indices: 11500714--11500752 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
11500704 AGGGTGTTCC
*
11500714 TTTTT-TATTTTTTA
1 TTTTTATATTTTTAA
11500728 TTTTTATATTTTTAA
1 TTTTTATATTTTTAA
11500743 TTTTTA-ATTT
1 TTTTTATATTT
11500753 CCTTTTGCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 9 0.39
15 14 0.61
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTTTATATTTTTAA
Done.