Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 35 of 208
Found at i:13679920 original size:16 final size:16
Alignment explanation
Indices: 13679899--13679953 Score: 101
Period size: 16 Copynumber: 3.4 Consensus size: 16
13679889 TTAAATTACT
13679899 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
*
13679915 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCC
13679931 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
13679947 ATTACAG
1 ATTACAG
13679954 TGAACCAAAC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 37 1.00
ACGTcount: A:0.29, C:0.27, G:0.07, T:0.36
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:13682060 original size:31 final size:32
Alignment explanation
Indices: 13682015--13682078 Score: 76
Period size: 31 Copynumber: 2.0 Consensus size: 32
13682005 TTTTTAATTA
* * * *
13682015 AAAATGGTATTTAAATTAGATTTTATTA-CTT
1 AAAATAGTACTTAAACTAGATTCTATTATCTT
*
13682046 AAAATAGTACTTAAACTATATTCTATTATCTT
1 AAAATAGTACTTAAACTAGATTCTATTATCTT
13682078 A
1 A
13682079 CTTATTAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
31 23 0.85
32 4 0.15
ACGTcount: A:0.41, C:0.08, G:0.06, T:0.45
Consensus pattern (32 bp):
AAAATAGTACTTAAACTAGATTCTATTATCTT
Found at i:13683271 original size:61 final size:61
Alignment explanation
Indices: 13683204--13683322 Score: 157
Period size: 61 Copynumber: 2.0 Consensus size: 61
13683194 ATTTTTTAAC
* * ** * * * *
13683204 TTTTAGAGTTAGGACTAAATTGATAAATTTTGTAAAAATTGAGGGTTAAATTTATTAATTT
1 TTTTAGAATTAGAACTAAAAGGACAAATTTTATAAAAATTAAGGGCTAAATTTATTAATTT
*
13683265 TTTTAGAATTAGAACTAAAAGGACAAATTTTATAAACATTAAGGGCTAAATTTATTAA
1 TTTTAGAATTAGAACTAAAAGGACAAATTTTATAAAAATTAAGGGCTAAATTTATTAA
13683323 ATTTATTATA
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
61 49 1.00
ACGTcount: A:0.42, C:0.04, G:0.14, T:0.39
Consensus pattern (61 bp):
TTTTAGAATTAGAACTAAAAGGACAAATTTTATAAAAATTAAGGGCTAAATTTATTAATTT
Found at i:13683468 original size:23 final size:23
Alignment explanation
Indices: 13683418--13683462 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
13683408 AAACTTAAAG
* *
13683418 TGTAATATCCCGAAAATTATTAA
1 TGTAATACCCCGAAAATTACTAA
13683441 TGTAATACCCCGAAAATTACTA
1 TGTAATACCCCGAAAATTACTA
13683463 CAGTAAGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.42, C:0.18, G:0.09, T:0.31
Consensus pattern (23 bp):
TGTAATACCCCGAAAATTACTAA
Found at i:13685981 original size:41 final size:41
Alignment explanation
Indices: 13685936--13686037 Score: 134
Period size: 41 Copynumber: 2.5 Consensus size: 41
13685926 GCTTAGAGCT
*
13685936 TAGCAGGCTTATTGCCGGTGAAACACTTCAGACAAAATGTC
1 TAGCAGGCTTAATGCCGGTGAAACACTTCAGACAAAATGTC
* * * * *
13685977 TAGCAGGCTTAATGCCAGTGAAATATTTCAGACTATATGTC
1 TAGCAGGCTTAATGCCGGTGAAACACTTCAGACAAAATGTC
13686018 TAGCAGGC-TAAGTGCCGGTG
1 TAGCAGGCTTAA-TGCCGGTG
13686038 TACTGAATCA
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
40 3 0.06
41 50 0.94
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (41 bp):
TAGCAGGCTTAATGCCGGTGAAACACTTCAGACAAAATGTC
Found at i:13687998 original size:30 final size:29
Alignment explanation
Indices: 13687932--13688002 Score: 85
Period size: 29 Copynumber: 2.4 Consensus size: 29
13687922 AAATACAAAA
13687932 AAAATTACATCTTGGCCCCTAATATTTTGT
1 AAAATTACA-CTTGGCCCCTAATATTTTGT
13687962 -AAATTACACTTGGGCCCCTAA-ACTTTCT-T
1 AAAATTACACTT-GGCCCCTAATA-TTT-TGT
13687991 AAAATTACACTT
1 AAAATTACACTT
13688003 TAGCCTTATA
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
28 4 0.11
29 21 0.57
30 12 0.32
ACGTcount: A:0.32, C:0.23, G:0.08, T:0.37
Consensus pattern (29 bp):
AAAATTACACTTGGCCCCTAATATTTTGT
Found at i:13688545 original size:7 final size:7
Alignment explanation
Indices: 13688530--13688613 Score: 56
Period size: 7 Copynumber: 12.4 Consensus size: 7
13688520 AAGTCGAAGG
*
13688530 GAAGGAA
1 GAAGAAA
13688537 GAAGAAA
1 GAAGAAA
13688544 GAAAGAAA
1 G-AAGAAA
13688552 GAA-AAA
1 GAAGAAA
13688558 G-AG-AA
1 GAAGAAA
13688563 -AAGAAA
1 GAAGAAA
13688569 -AAGAAA
1 GAAGAAA
*
13688575 GAAAAAA
1 GAAGAAA
13688582 GAAGAGAAA
1 G-A-AGAAA
*
13688591 GAAAAAA
1 GAAGAAA
13688598 G-AGAAA
1 GAAGAAA
13688604 -AAGGAAA
1 GAA-GAAA
13688611 GAA
1 GAA
13688614 AAAATAAAAA
Statistics
Matches: 62, Mismatches: 5, Indels: 19
0.72 0.06 0.22
Matches are distributed among these distances:
5 5 0.08
6 17 0.27
7 24 0.39
8 11 0.18
9 5 0.08
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (7 bp):
GAAGAAA
Found at i:13688573 original size:27 final size:26
Alignment explanation
Indices: 13688535--13688614 Score: 94
Period size: 27 Copynumber: 3.1 Consensus size: 26
13688525 GAAGGGAAGG
13688535 AAGAAGAAAGAAAGAAAGAAA-AAGAGAA
1 AAGAA-AAAGAAAGAAA-AAAGAAGAG-A
13688563 AAGAAAAAGAAAGAAAAAAGAAGAGA
1 AAGAAAAAGAAAGAAAAAAGAAGAGA
* *
13688589 AAGAAAAA-AGAGAAAAAGGAA-AGA
1 AAGAAAAAGAAAGAAAAAAGAAGAGA
13688613 AA
1 AA
13688615 AAATAAAAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
24 5 0.10
25 11 0.22
26 12 0.24
27 16 0.33
28 5 0.10
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (26 bp):
AAGAAAAAGAAAGAAAAAAGAAGAGA
Found at i:13688611 original size:13 final size:12
Alignment explanation
Indices: 13688545--13688617 Score: 75
Period size: 12 Copynumber: 6.2 Consensus size: 12
13688535 AAGAAGAAAG
13688545 AAAGAAAGA-AA
1 AAAGAAAGAGAA
13688556 AAGAGAAA-AGAA
1 AA-AGAAAGAGAA
13688568 AAAGAAAGA-AA
1 AAAGAAAGAGAA
13688579 AAAG-AAGAGAA
1 AAAGAAAGAGAA
*
13688590 AGAAAAAAGAGAA
1 A-AAGAAAGAGAA
13688603 AAAGGAAAGA-AA
1 AAA-GAAAGAGAA
13688615 AAA
1 AAA
13688618 TAAAAAAATA
Statistics
Matches: 53, Mismatches: 2, Indels: 13
0.78 0.03 0.19
Matches are distributed among these distances:
10 4 0.08
11 17 0.32
12 19 0.36
13 13 0.25
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (12 bp):
AAAGAAAGAGAA
Found at i:13688617 original size:47 final size:47
Alignment explanation
Indices: 13688534--13688625 Score: 120
Period size: 47 Copynumber: 2.0 Consensus size: 47
13688524 CGAAGGGAAG
*
13688534 GAAGAAGAAAGAAAGAAAGAAAAAGAGAAAAGAAAAAGAAAGAAAAAA
1 GAAGAAGAAAGAAAAAAAGAAAAAGAGAAAAGAAAAAGAAA-AAAAAA
*
13688582 GAAG-AGAAAGAAAAAAGAGAAAAAG-G-AAAGAAAAA-ATAAAAAAA
1 GAAGAAGAAAGAAAAAA-AGAAAAAGAGAAAAGAAAAAGAAAAAAAAA
13688626 TATAACAGTC
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
44 6 0.15
45 2 0.05
46 9 0.22
47 12 0.29
48 12 0.29
ACGTcount: A:0.77, C:0.00, G:0.22, T:0.01
Consensus pattern (47 bp):
GAAGAAGAAAGAAAAAAAGAAAAAGAGAAAAGAAAAAGAAAAAAAAA
Found at i:13688624 original size:20 final size:20
Alignment explanation
Indices: 13688543--13688625 Score: 78
Period size: 20 Copynumber: 4.0 Consensus size: 20
13688533 GGAAGAAGAA
13688543 AGAAAGAAAGAAAAAGAGAAAAG
1 AGAAAGAAA-AAAAA-A-AAAAG
* * *
13688566 AAAAAGAAAGAAAAAAGAAG
1 AGAAAGAAAAAAAAAAAAAG
*
13688586 AGAAAGAAAAAAGAGAAAAAG
1 AGAAAGAAAAAA-AAAAAAAG
13688607 -GAAAGAAAAAATAAAAAAA
1 AGAAAGAAAAAA-AAAAAAA
13688626 TATAACAGTC
Statistics
Matches: 50, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
20 31 0.62
21 7 0.14
22 4 0.08
23 8 0.16
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.01
Consensus pattern (20 bp):
AGAAAGAAAAAAAAAAAAAG
Found at i:13688869 original size:20 final size:20
Alignment explanation
Indices: 13688844--13688882 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
13688834 AGCTAGCAGG
13688844 CCAGGCCAGGTCCAGCAGCC
1 CCAGGCCAGGTCCAGCAGCC
* *
13688864 CCAGGCCCGTTCCAGCAGC
1 CCAGGCCAGGTCCAGCAGC
13688883 AGGCCAGCAT
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:0.18, C:0.46, G:0.28, T:0.08
Consensus pattern (20 bp):
CCAGGCCAGGTCCAGCAGCC
Found at i:13689359 original size:18 final size:18
Alignment explanation
Indices: 13689316--13689359 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
13689306 ATAAAAAATA
*
13689316 TTAAAAAATCCTCGTGTT
1 TTAATAAATCCTCGTGTT
** *
13689334 TTTTTAAATTCTCGTGTT
1 TTAATAAATCCTCGTGTT
13689352 TTAATAAA
1 TTAATAAA
13689360 ATCCCGATTA
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.32, C:0.11, G:0.09, T:0.48
Consensus pattern (18 bp):
TTAATAAATCCTCGTGTT
Found at i:13689638 original size:17 final size:17
Alignment explanation
Indices: 13689616--13689860 Score: 109
Period size: 17 Copynumber: 13.3 Consensus size: 17
13689606 CTTGTATTTA
*
13689616 AAAAATTATCGTGTTTC
1 AAAAATTTTCGTGTTTC
* * *
13689633 ACAAATTCTCATGTTTC
1 AAAAATTTTCGTGTTTC
13689650 AAAAATTTTCGTGTTTTC
1 AAAAATTTTCGTG-TTTC
*
13689668 -AAAA-TTCCTGTGTTTC
1 AAAAATTTTC-GTGTTTC
13689684 AAAAATTTTCGTGTTTTC
1 AAAAATTTTCGTG-TTTC
*
13689702 AAAAAAAAAATTCTT-GTATTTTC
1 -----AAAAATT-TTCGT-GTTTC
** *
13689725 AAAAATTCCCGTATTTC
1 AAAAATTTTCGTGTTTC
* *
13689742 GAAAATTTTCTTGTTTTC
1 AAAAATTTTCGTG-TTTC
13689760 AAAAAAAATTTTCGTGTTTC
1 ---AAAAATTTTCGTGTTTC
* * *
13689780 ATAAATTTCCGTATTTTC
1 AAAAATTTTCGT-GTTTC
* * *
13689798 AAAAAAAAAATCTCGTCTTTC
1 ----AAAAATTTTCGTGTTTC
13689819 AAAAATTTTCGTGTTTTC
1 AAAAATTTTCGTG-TTTC
*
13689837 AAAAAATTTACCGTGTTTC
1 -AAAAATTT-TCGTGTTTC
13689856 AAAAA
1 AAAAA
13689861 AAAATCCTCG
Statistics
Matches: 172, Mismatches: 31, Indels: 49
0.68 0.12 0.19
Matches are distributed among these distances:
16 7 0.04
17 70 0.41
18 37 0.22
19 12 0.07
20 8 0.05
21 15 0.09
22 8 0.05
23 13 0.08
24 2 0.01
ACGTcount: A:0.35, C:0.14, G:0.09, T:0.42
Consensus pattern (17 bp):
AAAAATTTTCGTGTTTC
Found at i:13689711 original size:23 final size:23
Alignment explanation
Indices: 13689684--13689729 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
13689674 CCTGTGTTTC
*
13689684 AAAAATT-TTCGTGTTTTCAAAAA
1 AAAAATTCTT-GTATTTTCAAAAA
13689707 AAAAATTCTTGTATTTTCAAAAA
1 AAAAATTCTTGTATTTTCAAAAA
13689730 TTCCCGTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 19 0.90
24 2 0.10
ACGTcount: A:0.46, C:0.09, G:0.07, T:0.39
Consensus pattern (23 bp):
AAAAATTCTTGTATTTTCAAAAA
Found at i:13689750 original size:58 final size:57
Alignment explanation
Indices: 13689650--13689802 Score: 179
Period size: 58 Copynumber: 2.7 Consensus size: 57
13689640 CTCATGTTTC
* * *
13689650 AAAAATTTTCGTGTTTTCAAAATTCCTGTGTTTCAAAAATTTTCGTGTTTTCAAAAA
1 AAAAATTTTCGTATTTTCAAAATTCCCGTATTTCAAAAATTTTCGTGTTTTCAAAAA
* *
13689707 AAAAATTCTT-GTATTTTCAAAAATTCCCGTATTTCGAAAATTTTCTTGTTTTC--AAA
1 AAAAATT-TTCGTATTTTC-AAAATTCCCGTATTTCAAAAATTTTCGTGTTTTCAAAAA
* *
13689763 AAAAATTTTCGT-GTTTCATAAATTTCCGTATTTTCAAAAA
1 AAAAATTTTCGTATTTTCA-AAATTCCCGTA-TTTCAAAAA
13689803 AAAAATCTCG
Statistics
Matches: 83, Mismatches: 8, Indels: 11
0.81 0.08 0.11
Matches are distributed among these distances:
54 1 0.01
55 16 0.19
56 20 0.24
57 14 0.17
58 32 0.39
ACGTcount: A:0.35, C:0.13, G:0.08, T:0.44
Consensus pattern (57 bp):
AAAAATTTTCGTATTTTCAAAATTCCCGTATTTCAAAAATTTTCGTGTTTTCAAAAA
Found at i:13689786 original size:38 final size:38
Alignment explanation
Indices: 13689738--13689842 Score: 129
Period size: 39 Copynumber: 2.7 Consensus size: 38
13689728 AATTCCCGTA
* * * * *
13689738 TTTCGAAAATTTTCTTGTTTTCAAAAAAAATTTTCGTG
1 TTTCAAAAATTTTCGTGTTTTCAAAAAAAAATCTCGTC
* * *
13689776 TTTCATAAATTTCCGTATTTTCAAAAAAAAAATCTCGTC
1 TTTCAAAAATTTTCGTGTTTTC-AAAAAAAAATCTCGTC
13689815 TTTCAAAAATTTTCGTGTTTTCAAAAAA
1 TTTCAAAAATTTTCGTGTTTTCAAAAAA
13689843 TTTACCGTGT
Statistics
Matches: 55, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
38 23 0.42
39 32 0.58
ACGTcount: A:0.36, C:0.13, G:0.08, T:0.43
Consensus pattern (38 bp):
TTTCAAAAATTTTCGTGTTTTCAAAAAAAAATCTCGTC
Found at i:13689843 original size:96 final size:96
Alignment explanation
Indices: 13689677--13689863 Score: 227
Period size: 96 Copynumber: 1.9 Consensus size: 96
13689667 CAAAATTCCT
* * * *
13689677 GTGTTTCAAAAATTTTCGTGTTTTCAAAAAAAAAATTCTTGTATTTTCAAAAATTCCCGTATTTC
1 GTGTTTCAAAAATTTCCGTATTTTCAAAAAAAAAATTCTCGTACTTTCAAAAATTCCCGTATTTC
* * *
13689742 GAAAATTT-TCTTGTTTTCAAAAAAAATTTTC
66 AAAAATTTACCGTG-TTTCAAAAAAAATTTTC
* ** *
13689773 GTGTTTCATAAATTTCCGTATTTTCAAAAAAAAAA-TCTCGT-CTTTCAAAAATTTTCGTGTTTT
1 GTGTTTCAAAAATTTCCGTATTTTCAAAAAAAAAATTCTCGTACTTTCAAAAATTCCCGT-ATTT
13689836 CAAAAAATTTACCGTGTTTCAAAAAAAA
65 C-AAAAATTTACCGTGTTTCAAAAAAAA
13689864 ATCCTCGTGT
Statistics
Matches: 77, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
94 14 0.18
95 9 0.12
96 51 0.66
97 3 0.04
ACGTcount: A:0.37, C:0.13, G:0.09, T:0.41
Consensus pattern (96 bp):
GTGTTTCAAAAATTTCCGTATTTTCAAAAAAAAAATTCTCGTACTTTCAAAAATTCCCGTATTTC
AAAAATTTACCGTGTTTCAAAAAAAATTTTC
Found at i:13689862 original size:39 final size:37
Alignment explanation
Indices: 13689707--13689860 Score: 118
Period size: 39 Copynumber: 4.1 Consensus size: 37
13689697 TTTTCAAAAA
* * *
13689707 AAAAATTCTT-GTATTTTC-AAAAA-TTCCCGTATTTC
1 AAAAATT-TTCGTGTTTTCAAAAAATTTACCGTGTTTC
* * *
13689742 GAAAATTTTCTTGTTTTCAAAAAAAATTT-TCGTGTTTC
1 AAAAATTTTCGTGTTTTC--AAAAAATTTACCGTGTTTC
* * * *** *
13689780 ATAAATTTCCGTATTTTCAAAAAAAAAATCTCGTCTTTC
1 AAAAATTTTCGTGTTTTCAAAAAATTTA-C-CGTGTTTC
13689819 AAAAATTTTCGTGTTTTCAAAAAATTTACCGTGTTTC
1 AAAAATTTTCGTGTTTTCAAAAAATTTACCGTGTTTC
13689856 AAAAA
1 AAAAA
13689861 AAAATCCTCG
Statistics
Matches: 89, Mismatches: 22, Indels: 14
0.71 0.18 0.11
Matches are distributed among these distances:
34 2 0.02
35 12 0.13
36 6 0.07
37 12 0.13
38 26 0.29
39 31 0.35
ACGTcount: A:0.36, C:0.14, G:0.08, T:0.42
Consensus pattern (37 bp):
AAAAATTTTCGTGTTTTCAAAAAATTTACCGTGTTTC
Found at i:13689949 original size:20 final size:19
Alignment explanation
Indices: 13689924--13689965 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
13689914 TCGTGTTTCT
* *
13689924 AAAATTCTTGTATTTTAAAA
1 AAAATTCGTGT-TTTCAAAA
13689944 AAAATTCGTGTTTTCAAAA
1 AAAATTCGTGTTTTCAAAA
13689963 AAA
1 AAA
13689966 GAAAAGGTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.48, C:0.07, G:0.07, T:0.38
Consensus pattern (19 bp):
AAAATTCGTGTTTTCAAAA
Found at i:13701638 original size:12 final size:12
Alignment explanation
Indices: 13701617--13701655 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
13701607 TACATAATAT
*
13701617 TATGTATGTCTG
1 TATGTCTGTCTG
13701629 TATGTCTGTCTG
1 TATGTCTGTCTG
* *
13701641 TCTGTCTGTATG
1 TATGTCTGTCTG
13701653 TAT
1 TAT
13701656 ATATGTATGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.13, C:0.13, G:0.23, T:0.51
Consensus pattern (12 bp):
TATGTCTGTCTG
Found at i:13708324 original size:2 final size:2
Alignment explanation
Indices: 13708317--13708344 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
13708307 ATTAATGAAA
13708317 AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC
13708345 TATACTGATT
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:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:13709850 original size:13 final size:13
Alignment explanation
Indices: 13709832--13709861 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
13709822 ATTTTTATAG
*
13709832 AATTAAAATTAAA
1 AATTAAAAATAAA
13709845 AATTAAAAATAAA
1 AATTAAAAATAAA
13709858 AATT
1 AATT
13709862 TGAGAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (13 bp):
AATTAAAAATAAA
Found at i:13711914 original size:21 final size:20
Alignment explanation
Indices: 13711872--13711914 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
13711862 TGAAGTAACG
* *
13711872 TTCTTTAAAATTTTTTTAAA
1 TTCTTCAAAATTTCTTTAAA
*
13711892 TTCTTCAAAGATTTCTTTGAA
1 TTCTTCAAA-ATTTCTTTAAA
13711913 TT
1 TT
13711915 TTAAATAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.30, C:0.09, G:0.05, T:0.56
Consensus pattern (20 bp):
TTCTTCAAAATTTCTTTAAA
Found at i:13711955 original size:15 final size:15
Alignment explanation
Indices: 13711921--13711959 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
13711911 AATTTTAAAT
* *
13711921 AAAACTTCTGATTTT
1 AAAACTTATGATTTC
*
13711936 TAAACTTATGATTTC
1 AAAACTTATGATTTC
13711951 AAAACTTAT
1 AAAACTTAT
13711960 TAATAGTCAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.38, C:0.13, G:0.05, T:0.44
Consensus pattern (15 bp):
AAAACTTATGATTTC
Found at i:13713420 original size:21 final size:22
Alignment explanation
Indices: 13713385--13713425 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
13713375 ATAAAATAAT
*
13713385 TACATATAAAATAAATAAATGA
1 TACATATAAAATAAAAAAATGA
*
13713407 TACAT-TAAATTAAAAAAAT
1 TACATATAAAATAAAAAAAT
13713426 AACTCCTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.29
Consensus pattern (22 bp):
TACATATAAAATAAAAAAATGA
Found at i:13716134 original size:26 final size:21
Alignment explanation
Indices: 13716078--13716125 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
13716068 GGGGGATGAG
13716078 CCTGAGAAAGACACTTGCTGA
1 CCTGAGAAAGACACTTGCTGA
13716099 CCTGAGAAAGACACTTGCTGA
1 CCTGAGAAAGACACTTGCTGA
13716120 CCTGAG
1 CCTGAG
13716126 TATGGAAAGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.31, C:0.25, G:0.25, T:0.19
Consensus pattern (21 bp):
CCTGAGAAAGACACTTGCTGA
Found at i:13719989 original size:2 final size:2
Alignment explanation
Indices: 13719982--13720006 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
13719972 GAGAATGACT
13719982 GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA G
13720007 GAACTGTGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:13726269 original size:23 final size:27
Alignment explanation
Indices: 13726237--13726288 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 27
13726227 TTGAATAAAT
13726237 TAATATTTTAA-AA-ATAT-TTATATA
1 TAATATTTTAATAAGATATATTATATA
*
13726261 TAAT-TTTTAATAAGATATATTTTATA
1 TAATATTTTAATAAGATATATTATATA
13726287 TA
1 TA
13726289 TTCATAAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
23 6 0.25
24 6 0.25
25 4 0.17
26 8 0.33
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (27 bp):
TAATATTTTAATAAGATATATTATATA
Found at i:13734107 original size:21 final size:21
Alignment explanation
Indices: 13734081--13734122 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
13734071 GAAATACATG
13734081 GACGATTATTGTTATATGTAA
1 GACGATTATTGTTATATGTAA
13734102 GACGATTATTGTTATATGTAA
1 GACGATTATTGTTATATGTAA
13734123 AAATCGGCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.05, G:0.19, T:0.43
Consensus pattern (21 bp):
GACGATTATTGTTATATGTAA
Found at i:13734686 original size:23 final size:23
Alignment explanation
Indices: 13734605--13734687 Score: 71
Period size: 23 Copynumber: 3.5 Consensus size: 23
13734595 ATAGCTCGAA
*
13734605 AGAGCATCCTGTTATTAGCTC-TC
1 AGAGCATCCCGTTA-TAGCTCTTC
*
13734628 ATGAGCATCCCGTTATATGGTTCTTGC
1 A-GAGCATCCCGTTATA--GCTCTT-C
* *
13734655 A-AGCTTCCCATTATAGCTCTTC
1 AGAGCATCCCGTTATAGCTCTTC
13734677 AGAGCATCCCG
1 AGAGCATCCCG
13734688 ATAGGTTGTG
Statistics
Matches: 47, Mismatches: 7, Indels: 12
0.71 0.11 0.18
Matches are distributed among these distances:
22 2 0.04
23 15 0.32
24 12 0.26
25 15 0.32
26 1 0.02
27 2 0.04
ACGTcount: A:0.22, C:0.28, G:0.18, T:0.33
Consensus pattern (23 bp):
AGAGCATCCCGTTATAGCTCTTC
Found at i:13734768 original size:26 final size:27
Alignment explanation
Indices: 13734733--13734801 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 27
13734723 TTAGCTCTTA
*
13734733 TGAGCATCCCGATATA-TGGCTCTTCG
1 TGAGCTTCCCGATATATTGGCTCTTCG
* * *
13734759 TGAGCTTCCCGTTAAATTGGCTCTTTG
1 TGAGCTTCCCGATATATTGGCTCTTCG
*
13734786 TGAGCTTCCTGATATA
1 TGAGCTTCCCGATATA
13734802 GCTCGCTTTA
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
26 13 0.37
27 22 0.63
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (27 bp):
TGAGCTTCCCGATATATTGGCTCTTCG
Found at i:13744333 original size:23 final size:23
Alignment explanation
Indices: 13744307--13744352 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
13744297 TTGATATTTT
13744307 ATATATTTA-TATTTATATTTAAA
1 ATATATTTATTATTTA-ATTTAAA
*
13744330 ATATCTTTATTATTTAATTTAAA
1 ATATATTTATTATTTAATTTAAA
13744353 TTCTAATCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 15 0.71
24 6 0.29
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (23 bp):
ATATATTTATTATTTAATTTAAA
Found at i:13744739 original size:43 final size:43
Alignment explanation
Indices: 13744690--13744776 Score: 158
Period size: 43 Copynumber: 2.0 Consensus size: 43
13744680 TAATAAAACC
13744690 ACTTTTTATAAAAGAAAACATGATAACG-ACATGATAATTACCT
1 ACTTTTTATAAAAGAAAACATGATAA-GTACATGATAATTACCT
13744733 ACTTTTTATAAAAGAAAACATGATAAGTACATGATAATTACCT
1 ACTTTTTATAAAAGAAAACATGATAAGTACATGATAATTACCT
13744776 A
1 A
13744777 TTCTTCTCAA
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
42 1 0.02
43 42 0.98
ACGTcount: A:0.47, C:0.13, G:0.09, T:0.31
Consensus pattern (43 bp):
ACTTTTTATAAAAGAAAACATGATAAGTACATGATAATTACCT
Found at i:13745664 original size:126 final size:124
Alignment explanation
Indices: 13745387--13745722 Score: 494
Period size: 126 Copynumber: 2.7 Consensus size: 124
13745377 GATAAAATCA
* * * * *
13745387 AAGCAGGATGCTTTATCAGAAGAATTTCTGAAGTCGCGTCCACGTGTACGCGCTTTTGCTATAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCG-CCTCGTGGACGCGCTTTTGCTATAGT
* * * *
13745452 AGGTCCTGCAA-AACTAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAACGCTTC
65 AGGTCCTGGAAGAAATAATTTCGACTTGACATTTCTGAGCAAATAGTATAAAAACGCTTC
* *
13745511 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCTTCGTGGATGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCC-TCGTGGACGCGCTTTTGCTATAGT
*
13745576 AGGTCCTGGAAGAAATAATTTCGACTTGACATTTCTGAGCAAATAGTATAAAAAATGCTTC
65 AGGTCCTGGAAGAAATAATTTCGACTTGACATTTCTGAGCAAATAGTAT-AAAAACGCTTC
*
13745637 AGGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTATAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCG-CCTCGTGGACGCGCTTTTGCTATAGT
* *
13745702 AGGTTCTAGAAGAAATAATTT
65 AGGTCCTGGAAGAAATAATTT
13745723 GAAGAACGTA
Statistics
Matches: 191, Mismatches: 17, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
123 2 0.01
124 65 0.34
125 34 0.18
126 88 0.46
127 2 0.01
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (124 bp):
AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCTCGTGGACGCGCTTTTGCTATAGTA
GGTCCTGGAAGAAATAATTTCGACTTGACATTTCTGAGCAAATAGTATAAAAACGCTTC
Found at i:13746405 original size:11 final size:12
Alignment explanation
Indices: 13746391--13746444 Score: 51
Period size: 11 Copynumber: 4.8 Consensus size: 12
13746381 AAAAATAGGG
13746391 ATTTAAGA-GAA
1 ATTTAAGAGGAA
13746402 ATTTAAGAGGAA
1 ATTTAAGAGGAA
* *
13746414 A-TTGAGAGCAA
1 ATTTAAGAGGAA
*
13746425 A-TTGAGAGGAA
1 ATTTAAGAGGAA
*
13746436 ATTTGAGAG
1 ATTTAAGAG
13746445 AGGATTAGTT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
11 27 0.71
12 11 0.29
ACGTcount: A:0.46, C:0.02, G:0.28, T:0.24
Consensus pattern (12 bp):
ATTTAAGAGGAA
Found at i:13748919 original size:21 final size:21
Alignment explanation
Indices: 13748889--13748950 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
13748879 TTCCCTCTTT
*
13748889 TTTTTTATTTTTATTTTAAAA
1 TTTTTAATTTTTATTTTAAAA
*
13748910 TTTTTAATTTTTATATTTCAAA
1 TTTTTAATTTTTAT-TTTAAAA
* * *
13748932 TTTTAAAATTTAATTTTAA
1 TTTTTAATTTTTATTTTAA
13748951 TTATTAGTAT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
21 17 0.50
22 17 0.50
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.65
Consensus pattern (21 bp):
TTTTTAATTTTTATTTTAAAA
Found at i:13755322 original size:16 final size:16
Alignment explanation
Indices: 13755269--13755322 Score: 63
Period size: 16 Copynumber: 3.4 Consensus size: 16
13755259 TTTGGTTCGC
* * *
13755269 TGTATTGGATTAGAGA
1 TGTAATGGAATAGAGG
*
13755285 TGTATTGGAATAGAGG
1 TGTAATGGAATAGAGG
*
13755301 TATAATGGAATAGAGG
1 TGTAATGGAATAGAGG
13755317 TGTAAT
1 TGTAAT
13755323 AGCAAATCAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.35, C:0.00, G:0.31, T:0.33
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:13755367 original size:45 final size:44
Alignment explanation
Indices: 13755303--13755391 Score: 117
Period size: 44 Copynumber: 2.0 Consensus size: 44
13755293 AATAGAGGTA
13755303 TAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAATG
1 TAATGGAATAGAGGTGTAATAG-AAATCAACTGTTTGGTTGAATG
* ***
13755348 TAATGGAATAGA-GTCGTAATAGTAATCTTGTGTTTGGTTGAATG
1 TAATGGAATAGAGGT-GTAATAGAAATCAACTGTTTGGTTGAATG
13755392 GAATAGAGGT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
44 20 0.51
45 19 0.49
ACGTcount: A:0.33, C:0.06, G:0.27, T:0.35
Consensus pattern (44 bp):
TAATGGAATAGAGGTGTAATAGAAATCAACTGTTTGGTTGAATG
Found at i:13755406 original size:39 final size:43
Alignment explanation
Indices: 13755303--13755410 Score: 118
Period size: 45 Copynumber: 2.6 Consensus size: 43
13755293 AATAGAGGTA
13755303 TAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAATG
1 TAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTT--ATG
* ***
13755348 TAATGGAATAGA-GTCGTAATAG-TAATCTTGTGTTTGG-T-TG
1 TAATGGAATAGAGGT-GTAATAGCAAATCAACTGTTTGGTTATG
13755388 -AATGGAATAGAGGTGTAATAGCA
1 TAATGGAATAGAGGTGTAATAGCA
13755411 TAATGGAAAA
Statistics
Matches: 55, Mismatches: 5, Indels: 11
0.77 0.07 0.15
Matches are distributed among these distances:
39 18 0.33
40 4 0.07
43 1 0.02
44 13 0.24
45 19 0.35
ACGTcount: A:0.34, C:0.06, G:0.28, T:0.32
Consensus pattern (43 bp):
TAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTATG
Found at i:13755579 original size:18 final size:17
Alignment explanation
Indices: 13755557--13755591 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
13755547 TTATTATTAA
*
13755557 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
13755575 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
13755592 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:13755650 original size:61 final size:61
Alignment explanation
Indices: 13755572--13755891 Score: 254
Period size: 61 Copynumber: 5.3 Consensus size: 61
13755562 TTTTAATTAA
* *
13755572 AATATATAAT-TTAATAAAATTCTTAATAATTAATATTCTGATATGAATTTACTCAAATAAT
1 AATATATAATACT-ATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATAAT
* * * * * *
13755633 AATATATGATACTATAAAA-TATAAATTAATATAATTATTATTAAAT--ATATTA-T-AATTAA-
1 AATATATAATACTATAAAATTCTTAA-TAAT-TAA-TATTCTTATATGAAT-TTACTCAAATAAT
* *
13755692 AATATATAAT-TTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATACT-ATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATAAT
* ** * * * * * *
13755753 AATATATGATACTATAAAA--GATAATTTATT-ATAATTATTAT-TAAATATATCTTAATTAA-
1 AATATATAATACTATAAAATTCTTAA-TAATTAAT-ATTCTTATATGAATTTA-CTCAAATAAT
* *
13755812 AATATATAAT-TTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATACT-ATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATAAT
*
13755873 AATATATTATACTATAAAA
1 AATATATAATACTATAAAA
13755892 GATAATTTGA
Statistics
Matches: 196, Mismatches: 40, Indels: 46
0.70 0.14 0.16
Matches are distributed among these distances:
57 9 0.05
58 8 0.04
59 48 0.24
60 51 0.26
61 63 0.32
62 9 0.05
63 8 0.04
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (61 bp):
AATATATAATACTATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATAAT
Found at i:13755681 original size:16 final size:17
Alignment explanation
Indices: 13755660--13755697 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
13755650 AATATAAATT
*
13755660 AATATAATTATTATT-A
1 AATATAATTATAATTAA
13755676 AATAT-ATTATAATTAA
1 AATATAATTATAATTAA
13755692 AATATA
1 AATATA
13755698 TAATTTAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
AATATAATTATAATTAA
Found at i:13755705 original size:14 final size:15
Alignment explanation
Indices: 13755656--13755707 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
13755646 ATAAAATATA
13755656 AATT-AATATAATTAT
1 AATTAAATAT-ATTAT
*
13755671 TATTAAATATATTAT
1 AATTAAATATATTAT
13755686 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
13755699 AATTTAATA
1 AATTAAATA
13755708 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 4 0.12
15 14 0.44
16 5 0.16
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:13755755 original size:120 final size:120
Alignment explanation
Indices: 13755535--13755952 Score: 721
Period size: 120 Copynumber: 3.5 Consensus size: 120
13755525 ATTTAATCAT
13755535 ATTTAAATATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTT-AATATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
* * *
13755600 ATTAATATTCTGATATGAATTTACTCAAATAATAATATATGATACTATAAAATATA
65 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
* *
13755656 AATTAATATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
1 ATTTAATATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
13755721 TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
66 TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
* *
13755776 ATTTATTATAATTATTATTAAATATATCTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
1 ATTTAATATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
*
13755841 TTAATATTCTTATATGAATTTACTCAAATCATAATATATTATACTATAAAAGATA
66 TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
* *
13755896 ATTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 ATTT-AATATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
13755953 TAAAATAATT
Statistics
Matches: 282, Mismatches: 14, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
120 278 0.99
121 4 0.01
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.44
Consensus pattern (120 bp):
ATTTAATATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
Found at i:13756061 original size:38 final size:40
Alignment explanation
Indices: 13755991--13756074 Score: 145
Period size: 38 Copynumber: 2.1 Consensus size: 40
13755981 TAAGTGAGTA
13755991 AGAATTGAACTCTAAAAATAAAAAAAAAACATAACCATAT
1 AGAATTGAACTCTAAAAATAAAAAAAAAACATAACCATAT
13756031 AGAATTGAACTCT-AAAA-AAAAAAAAAACATAACCATAT
1 AGAATTGAACTCTAAAAATAAAAAAAAAACATAACCATAT
*
13756069 TGAATT
1 AGAATT
13756075 ATCATCAACA
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
38 26 0.60
39 4 0.09
40 13 0.30
ACGTcount: A:0.61, C:0.12, G:0.06, T:0.21
Consensus pattern (40 bp):
AGAATTGAACTCTAAAAATAAAAAAAAAACATAACCATAT
Found at i:13759261 original size:50 final size:50
Alignment explanation
Indices: 13759186--13759282 Score: 194
Period size: 50 Copynumber: 1.9 Consensus size: 50
13759176 TATTGGCTAT
13759186 GCCAATACATCCAACCAAACATGCTCTAAGGCTTTCTTTCCTGATTAATA
1 GCCAATACATCCAACCAAACATGCTCTAAGGCTTTCTTTCCTGATTAATA
13759236 GCCAATACATCCAACCAAACATGCTCTAAGGCTTTCTTTCCTGATTA
1 GCCAATACATCCAACCAAACATGCTCTAAGGCTTTCTTTCCTGATTA
13759283 GCTCGTGGAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.31, C:0.29, G:0.10, T:0.30
Consensus pattern (50 bp):
GCCAATACATCCAACCAAACATGCTCTAAGGCTTTCTTTCCTGATTAATA
Found at i:13763910 original size:16 final size:14
Alignment explanation
Indices: 13763878--13763911 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
13763868 ATTTTAGAAA
*
13763878 AGAGAAAAAAGAAG
1 AGAGAAAAAAAAAG
13763892 AGAGAAAAAAAAAG
1 AGAGAAAAAAAAAG
*
13763906 CGAGAA
1 AGAGAA
13763912 GAGAAGAGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.71, C:0.03, G:0.26, T:0.00
Consensus pattern (14 bp):
AGAGAAAAAAAAAG
Found at i:13765190 original size:27 final size:29
Alignment explanation
Indices: 13765160--13765214 Score: 71
Period size: 27 Copynumber: 2.0 Consensus size: 29
13765150 TAAAATAGAT
13765160 AATA-AAATTACATTTT-A-ACTCTAAAAA
1 AATATAAATTA-ATTTTGACACTCTAAAAA
*
13765187 AATATAATTTAATTTTGACACTCTAAAA
1 AATATAAATTAATTTTGACACTCTAAAA
13765215 TAGTTTCACC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 9 0.38
28 6 0.25
29 9 0.38
ACGTcount: A:0.51, C:0.11, G:0.02, T:0.36
Consensus pattern (29 bp):
AATATAAATTAATTTTGACACTCTAAAAA
Found at i:13767369 original size:17 final size:18
Alignment explanation
Indices: 13767349--13767386 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
13767339 CTCTGCCCAT
13767349 CGTCCC-CCCTCTCACCC
1 CGTCCCTCCCTCTCACCC
*
13767366 CGTCCCTTCCCTCTCCCCC
1 CGTCCC-TCCCTCTCACCC
13767385 CG
1 CG
13767387 CCACCGTCCG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
19 12 0.67
ACGTcount: A:0.03, C:0.68, G:0.08, T:0.21
Consensus pattern (18 bp):
CGTCCCTCCCTCTCACCC
Found at i:13770963 original size:13 final size:13
Alignment explanation
Indices: 13770929--13770963 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
13770919 AAAATATTTC
13770929 TCAAAAACACTTT
1 TCAAAAACACTTT
* *
13770942 TCCATAACACTTT
1 TCAAAAACACTTT
13770955 TCAAAAACA
1 TCAAAAACA
13770964 TTGTTAAACT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.46, C:0.26, G:0.00, T:0.29
Consensus pattern (13 bp):
TCAAAAACACTTT
Found at i:13771104 original size:33 final size:33
Alignment explanation
Indices: 13771059--13771126 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
13771049 CAGATTTCAT
13771059 TGTTACCATTATTCATTCGGTTGAAAAATGTGG
1 TGTTACCATTATTCATTCGGTTGAAAAATGTGG
*
13771092 TGTTACCGTTATTCATTCGGTTGAAAAATGTGG
1 TGTTACCATTATTCATTCGGTTGAAAAATGTGG
13771125 TG
1 TG
13771127 AAGAAATGCT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.25, C:0.12, G:0.24, T:0.40
Consensus pattern (33 bp):
TGTTACCATTATTCATTCGGTTGAAAAATGTGG
Found at i:13771299 original size:20 final size:22
Alignment explanation
Indices: 13771253--13771301 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 22
13771243 TGTAGCATAA
*
13771253 AATATATGTATTTAATTATTAT
1 AATATATGTAGTTAATTATTAT
*
13771275 -TTATAT-TAGTTAA-TATTAT
1 AATATATGTAGTTAATTATTAT
13771294 AATATATG
1 AATATATG
13771302 AGATATATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 5
0.73 0.10 0.17
Matches are distributed among these distances:
19 6 0.27
20 11 0.50
21 5 0.23
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (22 bp):
AATATATGTAGTTAATTATTAT
Found at i:13773618 original size:50 final size:50
Alignment explanation
Indices: 13773551--13773777 Score: 189
Period size: 50 Copynumber: 4.6 Consensus size: 50
13773541 TAAAGAGATT
*
13773551 CCATGTAAGACCATGTCTAGGG-CATGGCGTTAGCA-TCGAGACAAGAGGTC
1 CCATGTAAGACCATGTCT-GGGACATGGCATTAGCACT-GAGACAAGAGGTC
* **
13773601 CCATGTAAGACCATGTCTGGGACATGACATTAGCACTGAGATGAGAGGTC
1 CCATGTAAGACCATGTCTGGGACATGGCATTAGCACTGAGACAAGAGGTC
* * * ** **
13773651 CC-TCGTAAGACCATGTCTGGGACATGGCA-TGGACACCGATATGAGAACTC
1 CCAT-GTAAGACCATGTCTGGGACATGGCATTAG-CACTGAGACAAGAGGTC
* * * * * * *
13773701 CCATGTAAGACCATATCTGGGATATGACATTGGCAGTACATGA-AACA--TC
1 CCATGTAAGACCATGTCTGGGACATGGCATTAGCACT-GA-GACAAGAGGTC
13773750 CCATGTAAGACCATGTCTGGGACATGGC
1 CCATGTAAGACCATGTCTGGGACATGGC
13773778 TTTGGCATGT
Statistics
Matches: 147, Mismatches: 22, Indels: 17
0.79 0.12 0.09
Matches are distributed among these distances:
49 33 0.22
50 105 0.71
51 8 0.05
52 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.26, T:0.22
Consensus pattern (50 bp):
CCATGTAAGACCATGTCTGGGACATGGCATTAGCACTGAGACAAGAGGTC
Found at i:13775073 original size:9 final size:9
Alignment explanation
Indices: 13775055--13775121 Score: 98
Period size: 9 Copynumber: 7.4 Consensus size: 9
13775045 ATTGGTTAAA
13775055 AATTAACCG
1 AATTAACCG
*
13775064 AATTACCCG
1 AATTAACCG
13775073 AATTAACCG
1 AATTAACCG
13775082 AATTAACCG
1 AATTAACCG
* *
13775091 GATTACCCG
1 AATTAACCG
*
13775100 AATTAACTG
1 AATTAACCG
13775109 AATTAACCG
1 AATTAACCG
13775118 AATT
1 AATT
13775122 GAATCACTAA
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 50 1.00
ACGTcount: A:0.40, C:0.22, G:0.12, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:13775086 original size:27 final size:27
Alignment explanation
Indices: 13775055--13775121 Score: 116
Period size: 27 Copynumber: 2.5 Consensus size: 27
13775045 ATTGGTTAAA
13775055 AATTAACCGAATTACCCGAATTAACCG
1 AATTAACCGAATTACCCGAATTAACCG
* *
13775082 AATTAACCGGATTACCCGAATTAACTG
1 AATTAACCGAATTACCCGAATTAACCG
13775109 AATTAACCGAATT
1 AATTAACCGAATT
13775122 GAATCACTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.40, C:0.22, G:0.12, T:0.25
Consensus pattern (27 bp):
AATTAACCGAATTACCCGAATTAACCG
Found at i:13775835 original size:14 final size:15
Alignment explanation
Indices: 13775806--13775837 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
13775796 TGCTACCATT
13775806 TTACTATTTGTGTTG
1 TTACTATTTGTGTTG
13775821 TTACTATTT-TGTTG
1 TTACTATTTGTGTTG
13775835 TTA
1 TTA
13775838 TTGATTGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.16, C:0.06, G:0.16, T:0.62
Consensus pattern (15 bp):
TTACTATTTGTGTTG
Found at i:13777797 original size:30 final size:30
Alignment explanation
Indices: 13777762--13777821 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
13777752 TATTTTATTA
13777762 TTAATTTTGTTATTATTTTAAAGACATTTG
1 TTAATTTTGTTATTATTTTAAAGACATTTG
* *
13777792 TTAATTTTGTTATTATTTTAGAGGCATTTG
1 TTAATTTTGTTATTATTTTAAAGACATTTG
13777822 CTTGTTAAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.27, C:0.03, G:0.13, T:0.57
Consensus pattern (30 bp):
TTAATTTTGTTATTATTTTAAAGACATTTG
Found at i:13780330 original size:17 final size:16
Alignment explanation
Indices: 13780301--13780356 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 16
13780291 TTTTTTTTTC
13780301 ATTTTTA-AGATTTTAA
1 ATTTTTATA-ATTTTAA
13780317 GATTTTTATAATTTTATA
1 -ATTTTTATAATTTTA-A
13780335 A-TTTTATAATTTTAA
1 ATTTTTATAATTTTAA
13780350 ACTTTTT
1 A-TTTTT
13780357 TATATAGATA
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
15 2 0.06
16 13 0.37
17 18 0.51
18 2 0.06
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.61
Consensus pattern (16 bp):
ATTTTTATAATTTTAA
Found at i:13780331 original size:8 final size:8
Alignment explanation
Indices: 13780320--13780348 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
13780310 ATTTTAAGAT
13780320 TTTTATAA
1 TTTTATAA
13780328 TTTTATAA
1 TTTTATAA
13780336 TTTTATAA
1 TTTTATAA
13780344 TTTTA
1 TTTTA
13780349 AACTTTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (8 bp):
TTTTATAA
Found at i:13780355 original size:16 final size:15
Alignment explanation
Indices: 13780310--13780355 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 15
13780300 CATTTTTAAG
13780310 ATTTTAAGATTTTTATA
1 ATTTTAA-A-TTTTATA
13780327 ATTTTATAATTTTATA
1 ATTTTA-AATTTTATA
13780343 ATTTTAAACTTTT
1 ATTTTAAA-TTTT
13780356 TTATATAGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
15 2 0.07
16 17 0.63
17 7 0.26
18 1 0.04
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (15 bp):
ATTTTAAATTTTATA
Found at i:13791165 original size:14 final size:12
Alignment explanation
Indices: 13791128--13791161 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
13791118 CTATCACCAT
13791128 ATATATATATGC
1 ATATATATATGC
*
13791140 ACATATATATGC
1 ATATATATATGC
*
13791152 ATTTATATAT
1 ATATATATAT
13791162 ATGCCATCAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.41, C:0.09, G:0.06, T:0.44
Consensus pattern (12 bp):
ATATATATATGC
Found at i:13807355 original size:35 final size:35
Alignment explanation
Indices: 13807309--13807378 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
13807299 CCTGGTAGAA
13807309 ATATCACTTCTAGTTTACTTATGAGGATTGCATCT
1 ATATCACTTCTAGTTTACTTATGAGGATTGCATCT
13807344 ATATCACTTCTAGTTTACTTATGAGGATTGCATCT
1 ATATCACTTCTAGTTTACTTATGAGGATTGCATCT
13807379 CAAATTGCTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.26, C:0.17, G:0.14, T:0.43
Consensus pattern (35 bp):
ATATCACTTCTAGTTTACTTATGAGGATTGCATCT
Found at i:13815377 original size:1 final size:1
Alignment explanation
Indices: 13815371--13815404 Score: 68
Period size: 1 Copynumber: 34.0 Consensus size: 1
13815361 AAGTTTATGC
13815371 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
13815405 CAGAAATTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 33 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:13842226 original size:24 final size:24
Alignment explanation
Indices: 13842199--13842251 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 24
13842189 TTTTCATTCT
*
13842199 TATAATTTATTTATT-AATATTTTA
1 TATAATTAATTT-TTAAATATTTTA
13842223 TATAAATTAATTTTTAAATATTTTA
1 TAT-AATTAATTTTTAAATATTTTA
13842248 TATA
1 TATA
13842252 TCTAATATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
24 6 0.23
25 20 0.77
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (24 bp):
TATAATTAATTTTTAAATATTTTA
Found at i:13843572 original size:22 final size:22
Alignment explanation
Indices: 13843521--13843582 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
13843511 ATAAGTAAAT
* *
13843521 ACAAAAATAA-AGGAAAATATA
1 ACAAAAATAATAGAAAAATACA
* *
13843542 ATAACAATAATAGAAAAATACA
1 ACAAAAATAATAGAAAAATACA
*
13843564 ACAATAATAATAGTAAAAA
1 ACAAAAATAATAG-AAAAA
13843583 GATATAATAA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
21 8 0.24
22 20 0.61
23 5 0.15
ACGTcount: A:0.69, C:0.06, G:0.06, T:0.18
Consensus pattern (22 bp):
ACAAAAATAATAGAAAAATACA
Found at i:13843682 original size:3 final size:3
Alignment explanation
Indices: 13843674--13843713 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
13843664 AAAGTAGTGC
*
13843674 TAA TAA TAA TAA TAA TAA TAA CAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
13843714 CTATTAAGTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:13843822 original size:16 final size:16
Alignment explanation
Indices: 13843801--13843832 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
13843791 TTATAATAAT
13843801 AGTGATGAGAATAACA
1 AGTGATGAGAATAACA
*
13843817 AGTGATGATAATAACA
1 AGTGATGAGAATAACA
13843833 GTAACAATAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.06, G:0.22, T:0.22
Consensus pattern (16 bp):
AGTGATGAGAATAACA
Found at i:13844090 original size:3 final size:3
Alignment explanation
Indices: 13844078--13844127 Score: 75
Period size: 3 Copynumber: 16.3 Consensus size: 3
13844068 ACCACATATT
13844078 ATA ATAA ATA ATA ATA ATA ATA ATA ATA A-A ATA ATA ATA ATAA ATA
1 ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA
13844124 ATA A
1 ATA A
13844128 ATAGAAATAC
Statistics
Matches: 44, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.05
3 36 0.82
4 6 0.14
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:13844136 original size:20 final size:22
Alignment explanation
Indices: 13844078--13844130 Score: 83
Period size: 20 Copynumber: 2.5 Consensus size: 22
13844068 ACCACATATT
13844078 ATAATAAATAATAATAATAATA
1 ATAATAAATAATAATAATAATA
13844100 ATAAT-AA-AATAATAATAATAA
1 ATAATAAATAATAATAATAAT-A
13844121 ATAATAAATA
1 ATAATAAATA
13844131 GAAATACAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
20 12 0.43
21 8 0.29
22 7 0.25
23 1 0.04
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (22 bp):
ATAATAAATAATAATAATAATA
Found at i:13844739 original size:23 final size:21
Alignment explanation
Indices: 13844688--13844745 Score: 80
Period size: 21 Copynumber: 2.7 Consensus size: 21
13844678 TCGAAAAAAG
* *
13844688 AAAAATCCCCTCTTGAATCTC
1 AAAAATCTCTTCTTGAATCTC
13844709 AAAAATCTCTTCTTGAATCTC
1 AAAAATCTCTTCTTGAATCTC
13844730 AAAAAAATCTCTTCTT
1 --AAAAATCTCTTCTT
13844746 CCAAAAATAC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
21 19 0.58
23 14 0.42
ACGTcount: A:0.36, C:0.26, G:0.03, T:0.34
Consensus pattern (21 bp):
AAAAATCTCTTCTTGAATCTC
Found at i:13845352 original size:16 final size:16
Alignment explanation
Indices: 13845331--13845387 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 16
13845321 TTTTATGTGT
13845331 TATAAATTACATAATA
1 TATAAATTACATAATA
*
13845347 TATAAAAGTAACATAATA
1 TAT-AAA-TTACATAATA
* *
13845365 TA-AACATTACAAAATT
1 TATAA-ATTACATAATA
13845381 TATAAAT
1 TATAAAT
13845388 GGGCCGAACC
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
16 16 0.48
17 6 0.18
18 11 0.33
ACGTcount: A:0.58, C:0.07, G:0.02, T:0.33
Consensus pattern (16 bp):
TATAAATTACATAATA
Found at i:13854291 original size:7 final size:7
Alignment explanation
Indices: 13854281--13854319 Score: 60
Period size: 7 Copynumber: 5.6 Consensus size: 7
13854271 ATATAAATTA
13854281 AATATTG
1 AATATTG
13854288 AATATTG
1 AATATTG
13854295 AATATTG
1 AATATTG
*
13854302 AATATTA
1 AATATTG
*
13854309 AATATTA
1 AATATTG
13854316 AATA
1 AATA
13854320 ATATTAATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (7 bp):
AATATTG
Found at i:13854300 original size:14 final size:14
Alignment explanation
Indices: 13854277--13854333 Score: 70
Period size: 14 Copynumber: 4.4 Consensus size: 14
13854267 ATAAATATAA
13854277 ATTAAATATTGAAT
1 ATTAAATATTGAAT
*
13854291 ATTGAATATTGAAT
1 ATTAAATATTGAAT
13854305 ATTAAATATT-AA-
1 ATTAAATATTGAAT
13854317 A-T-AATATT-AAT
1 ATTAAATATTGAAT
13854328 ATTAAA
1 ATTAAA
13854334 ATATATCCTT
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
10 8 0.21
11 2 0.05
12 2 0.05
13 4 0.11
14 22 0.58
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (14 bp):
ATTAAATATTGAAT
Found at i:13854339 original size:16 final size:17
Alignment explanation
Indices: 13854260--13854333 Score: 62
Period size: 21 Copynumber: 4.1 Consensus size: 17
13854250 CATTTTGAAT
*
13854260 AATAATAATAAATA-TA
1 AATAATATTAAATATTA
*
13854276 AATTAAATATTGAATATTGA
1 AA-T-AATATTAAATATT-A
13854296 ATATTGAATATTAAATATTA
1 A-A-T-AATATTAAATATTA
13854316 AATAATATT-AATATTA
1 AATAATATTAAATATTA
13854332 AA
1 AA
13854334 ATATATCCTT
Statistics
Matches: 49, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
16 11 0.22
17 7 0.14
18 10 0.20
19 2 0.04
20 4 0.08
21 15 0.31
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (17 bp):
AATAATATTAAATATTA
Found at i:13858586 original size:154 final size:155
Alignment explanation
Indices: 13858218--13859030 Score: 1130
Period size: 154 Copynumber: 5.4 Consensus size: 155
13858208 CAATTGTTCG
* * *
13858218 TATTTTGGCCCTTTGTTCGTATTTTTTT-CTGGATTTTATTACTTT-TA-AAAAATATACTA-TT
1 TATTTCGGCCCTTTGTTCGTATTTTTTTCCTGGATTTTATTACTTTCAATAAAAATATATTATTT
*
13858279 TCCTATTTT-TTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTG-TT
66 TCGTATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTTT
*
13858342 TTTAAATAAA-TTAAAAAAAAACCT
131 TTTAAATAAATTTAAAAAAAACCCT
* * *
13858366 TATTTCTGCCCTTTGTTCGTATTTTTTTCCCGAATTTTATTACTTTCAATAAAAATATATTATTT
1 TATTTCGGCCCTTTGTTCGTATTTTTTTCCTGGATTTTATTACTTTCAATAAAAATATATTATTT
* * *
13858431 TCGTATTTTATTATTTTACATTATTTTAGTACATTATGTTTTAAATGAATTAATTTACTGTGTTT
66 TCGTATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTTT
13858496 TTTAAATAAATTTAAAAAAAACCCT
131 TTTAAATAAATTTAAAAAAAACCCT
13858521 TATTTCGGCCCTTTGTTCGTA-TTTTTTCCTGGATTTTATTACTTTCAATAAAAATATATTATTT
1 TATTTCGGCCCTTTGTTCGTATTTTTTTCCTGGATTTTATTACTTTCAATAAAAATATATTATTT
13858585 TCGTATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTG-TT
66 TCGTATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTTT
13858649 TTTAAATAAATTTAAAAAAAACCCT
131 TTTAAATAAATTTAAAAAAAACCCT
* * *
13858674 TATTTCGGCCCTTTATTTGTATTTTTTT-CTCAGATTTTATTACTTTCAATAAAAATATATTATT
1 TATTTCGGCCCTTTGTTCGTATTTTTTTCCT-GGATTTTATTACTTTCAATAAAAATATATTATT
* *
13858738 TTCAG-ATTTTATTATTTTACATTATTTTAGTACATTATGTTTAAAATGTATTAATTTACTGT-T
65 TTC-GTATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGT
* *
13858801 TTTTTAAATAAATTT-TAAAAAACTCT
129 TTTTTAAATAAATTTAAAAAAAACCCT
** ** *
13858827 TATTTCGGCCCTTTGTTCGTATTTTTTTCC-CCA----AAAACTTT---TAAAAATATACTATTT
1 TATTTCGGCCCTTTGTTCGTATTTTTTTCCTGGATTTTATTACTTTCAATAAAAATATATTATTT
* *
13858884 T-ATAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTT
66 TCGT-ATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTT
* * *
13858948 TTTTAAATAATTTTTTTAAAAAAACTCT
130 TTTTAAATAA--ATTTAAAAAAAACCCT
* * * * *
13858976 TATTTCTGCCCTTTGTTTGTATTTTTTTCCCGAATTTTATTATTTTCAATAAAAA
1 TATTTCGGCCCTTTGTTCGTATTTTTTTCCTGGATTTTATTACTTTCAATAAAAA
13859031 CACACACTAA
Statistics
Matches: 595, Mismatches: 44, Indels: 43
0.87 0.06 0.06
Matches are distributed among these distances:
145 70 0.12
146 12 0.02
148 35 0.06
149 53 0.09
150 2 0.00
151 11 0.02
152 11 0.02
153 132 0.22
154 229 0.38
155 34 0.06
157 6 0.01
ACGTcount: A:0.30, C:0.10, G:0.08, T:0.52
Consensus pattern (155 bp):
TATTTCGGCCCTTTGTTCGTATTTTTTTCCTGGATTTTATTACTTTCAATAAAAATATATTATTT
TCGTATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTTT
TTTAAATAAATTTAAAAAAAACCCT
Found at i:13860650 original size:3 final size:3
Alignment explanation
Indices: 13860642--13860666 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
13860632 TTGGACTCCC
13860642 TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT T
13860667 GGCTGTTGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:13863054 original size:23 final size:22
Alignment explanation
Indices: 13863002--13863054 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
13862992 TCCACGTCTT
*
13863002 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
13863024 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
13863047 TTTCTTTT
1 TTTCTTTT
13863055 TTACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:13868842 original size:24 final size:24
Alignment explanation
Indices: 13868815--13868863 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
13868805 CTCCTAGTAC
13868815 TTCTATTGACCCTATTACAGTAGT
1 TTCTATTGACCCTATTACAGTAGT
13868839 TTCTATTGACCCTATTACAGTAGT
1 TTCTATTGACCCTATTACAGTAGT
13868863 T
1 T
13868864 GAGGAGTCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.24, C:0.20, G:0.12, T:0.43
Consensus pattern (24 bp):
TTCTATTGACCCTATTACAGTAGT
Found at i:13876330 original size:55 final size:57
Alignment explanation
Indices: 13876255--13876370 Score: 173
Period size: 60 Copynumber: 2.0 Consensus size: 57
13876245 TGACTGGGTT
13876255 TGGATAAGCACGAGTTTTA-T-TTTATTTTGCTTATTTATTAGGCCCAATTTGTTTC
1 TGGATAAGCACGAGTTTTATTATTTATTTTGCTTATTTATTAGGCCCAATTTGTTTC
* *
13876310 TGGATAAGCATGAGTTTTATTTTACTTTATTTTGTTTATTTATTAGGCCCAATTTGTTTC
1 TGGATAAGCACGAGTTTTA--TTA-TTTATTTTGCTTATTTATTAGGCCCAATTTGTTTC
13876370 T
1 T
13876371 TTGTTTCCAG
Statistics
Matches: 54, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
55 18 0.33
58 1 0.02
60 35 0.65
ACGTcount: A:0.22, C:0.11, G:0.16, T:0.52
Consensus pattern (57 bp):
TGGATAAGCACGAGTTTTATTATTTATTTTGCTTATTTATTAGGCCCAATTTGTTTC
Found at i:13878268 original size:31 final size:31
Alignment explanation
Indices: 13878233--13878294 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
13878223 CAATAGTTAT
*
13878233 CTAAACTTGACACTTTTTCTTAATTTGGTAC
1 CTAAACTTGACACTTTTTCTTAAGTTGGTAC
13878264 CTAAACTTGACACTTTTTCTTAAGTTGGTAC
1 CTAAACTTGACACTTTTTCTTAAGTTGGTAC
13878295 TTAATCTCTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.26, C:0.19, G:0.11, T:0.44
Consensus pattern (31 bp):
CTAAACTTGACACTTTTTCTTAAGTTGGTAC
Found at i:13879544 original size:10 final size:10
Alignment explanation
Indices: 13879531--13879555 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
13879521 AATAAATAAA
13879531 AAAATATTTT
1 AAAATATTTT
13879541 AAAATATTTT
1 AAAATATTTT
13879551 AAAAT
1 AAAAT
13879556 TAAAAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (10 bp):
AAAATATTTT
Found at i:13892419 original size:23 final size:22
Alignment explanation
Indices: 13892393--13892444 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
13892383 GTAAAGATAA
13892393 AATTATATTTTATATAAAAATT-T
1 AATTATATTTT-T-TAAAAATTAT
13892416 AATT-TAATTTTTTAAAAATTAT
1 AATTAT-ATTTTTTAAAAATTAT
*
13892438 AAATATA
1 AATTATA
13892445 AAAACTGTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 8 0.32
22 7 0.28
23 10 0.40
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
AATTATATTTTTTAAAAATTAT
Found at i:13892673 original size:23 final size:23
Alignment explanation
Indices: 13892629--13892691 Score: 58
Period size: 23 Copynumber: 2.7 Consensus size: 23
13892619 TTGTGTGACA
* *
13892629 AATAAAATTT-ATATAAATAAATT
1 AATAAAATTTCAAATATATAAA-T
13892652 AATAAAATTTCAAATATA-AAAT
1 AATAAAATTTCAAATATATAAAT
* *
13892674 AGTAAAATATACAAATAT
1 AATAAAAT-TTCAAATAT
13892692 GAGACACACG
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
22 8 0.24
23 21 0.62
24 5 0.15
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.33
Consensus pattern (23 bp):
AATAAAATTTCAAATATATAAAT
Found at i:13892679 original size:22 final size:23
Alignment explanation
Indices: 13892645--13892691 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
13892635 ATTTATATAA
* *
13892645 ATAAATTAATAAAAT-TTCAAAT
1 ATAAAATAATAAAATATACAAAT
*
13892667 ATAAAATAGTAAAATATACAAAT
1 ATAAAATAATAAAATATACAAAT
13892690 AT
1 AT
13892692 GAGACACACG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 13 0.62
23 8 0.38
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (23 bp):
ATAAAATAATAAAATATACAAAT
Found at i:13895178 original size:21 final size:20
Alignment explanation
Indices: 13895125--13895180 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 20
13895115 TTTCTATTTC
*
13895125 TTTTAAATTGAAAAATACAT
1 TTTTAAAATGAAAAATACAT
* **
13895145 TTATAAAAT-AAAAATTTAT
1 TTTTAAAATGAAAAATACAT
13895164 TTTTAATAATGAAAAAT
1 TTTTAA-AATGAAAAAT
13895181 GTGAAAACAC
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 13 0.45
20 10 0.34
21 6 0.21
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.41
Consensus pattern (20 bp):
TTTTAAAATGAAAAATACAT
Found at i:13898719 original size:23 final size:23
Alignment explanation
Indices: 13898693--13898740 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
13898683 TCGAAAAGAC
13898693 AATAAATGTGTGCGGGAAACAAA
1 AATAAATGTGTGCGGGAAACAAA
13898716 AATAAATGTGTGCGGGAAACAAA
1 AATAAATGTGTGCGGGAAACAAA
13898739 AA
1 AA
13898741 CTTATGCTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.50, C:0.08, G:0.25, T:0.17
Consensus pattern (23 bp):
AATAAATGTGTGCGGGAAACAAA
Found at i:13903668 original size:9 final size:9
Alignment explanation
Indices: 13903654--13903693 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
13903644 TCTTCATATC
13903654 TTTATTATT
1 TTTATTATT
13903663 TTTATTATT
1 TTTATTATT
*
13903672 TTTATCATTT
1 TTTATTA-TT
*
13903682 TTTATTCTT
1 TTTATTATT
13903691 TTT
1 TTT
13903694 GGGTTTTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
9 20 0.74
10 7 0.26
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (9 bp):
TTTATTATT
Found at i:13905197 original size:34 final size:35
Alignment explanation
Indices: 13905153--13905219 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
13905143 CAGTAAAATA
13905153 TTTTCCGTAAAATAATTT-TTGAAAAATATTTTAC
1 TTTTCCGTAAAATAATTTATTGAAAAATATTTTAC
* * *
13905187 TTTTCTGTAAAATGATTTATTGGAAAATATTTT
1 TTTTCCGTAAAATAATTTATTGAAAAATATTTT
13905220 CTGGTGTCTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.36, C:0.06, G:0.09, T:0.49
Consensus pattern (35 bp):
TTTTCCGTAAAATAATTTATTGAAAAATATTTTAC
Found at i:13906597 original size:35 final size:36
Alignment explanation
Indices: 13906548--13906616 Score: 104
Period size: 35 Copynumber: 1.9 Consensus size: 36
13906538 TGTCAATCAT
*
13906548 TTCAATAACTAACAAGCTTAAAACATAAT-AATAAA
1 TTCAATAACCAACAAGCTTAAAACATAATCAATAAA
* *
13906583 TTCAATATCCAACAAGGTTAAAACATAATCAATA
1 TTCAATAACCAACAAGCTTAAAACATAATCAATA
13906617 TCTAACAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
35 26 0.87
36 4 0.13
ACGTcount: A:0.54, C:0.16, G:0.04, T:0.26
Consensus pattern (36 bp):
TTCAATAACCAACAAGCTTAAAACATAATCAATAAA
Found at i:13906614 original size:27 final size:28
Alignment explanation
Indices: 13906584--13906653 Score: 81
Period size: 27 Copynumber: 2.5 Consensus size: 28
13906574 AATAATAAAT
*
13906584 TCAATATCCAACAAGGTT-AAAACATA-A
1 TCAATATCCAACAA-ATTCAAAACATATA
* *
13906611 TCAATATCTAACAAATTCAAGACATATA
1 TCAATATCCAACAAATTCAAAACATATA
*
13906639 TCAAAATCCAACAAA
1 TCAATATCCAACAAA
13906654 CTAAAATTTC
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
26 2 0.06
27 20 0.56
28 14 0.39
ACGTcount: A:0.53, C:0.20, G:0.04, T:0.23
Consensus pattern (28 bp):
TCAATATCCAACAAATTCAAAACATATA
Found at i:13908936 original size:51 final size:51
Alignment explanation
Indices: 13908766--13909002 Score: 184
Period size: 51 Copynumber: 4.7 Consensus size: 51
13908756 TATCATTCGA
* * * * ***
13908766 TACACGTAGTAGCTTTCACATAGTACTACACACGTGATC--AG-TTGTACAA
1 TACACATAGTAGCCTTCACATAGTACTACACACGTGCTCAAAGCTTAT-TGG
* *
13908815 TTCACATAGTAGCCTTCACATAGTACTACACACGTGATC-AAG-TT-TTACGG
1 TACACATAGTAGCCTTCACATAGTACTACACACGTGCTCAAAGCTTATT--GG
* * *
13908865 CT-CACGTAGTAGCCTTCACTTAGTAGTACACACGTGCTCAAAGCTTATTGG
1 -TACACATAGTAGCCTTCACATAGTACTACACACGTGCTCAAAGCTTATTGG
* * *** * *
13908916 TACACATAGTAGCCTTCACTTAGTACTACACATGTGAC-CATTTCTTATCGA
1 TACACATAGTAGCCTTCACATAGTACTACACACGTG-CTCAAAGCTTATTGG
* *
13908967 TACACGTAGTAGCCTTCACACAGTACTACACACGTG
1 TACACATAGTAGCCTTCACATAGTACTACACACGTG
13909003 TTCATCGATA
Statistics
Matches: 157, Mismatches: 22, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
49 37 0.24
50 38 0.24
51 77 0.49
52 3 0.02
53 2 0.01
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (51 bp):
TACACATAGTAGCCTTCACATAGTACTACACACGTGCTCAAAGCTTATTGG
Found at i:13911214 original size:14 final size:14
Alignment explanation
Indices: 13911197--13911226 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
13911187 AGGTGAACTA
13911197 GCAGAGAAGATGAG
1 GCAGAGAAGATGAG
*
13911211 GCAGAGATGATGAG
1 GCAGAGAAGATGAG
13911225 GC
1 GC
13911227 TGCAATCGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.37, C:0.10, G:0.43, T:0.10
Consensus pattern (14 bp):
GCAGAGAAGATGAG
Found at i:13911283 original size:33 final size:33
Alignment explanation
Indices: 13911237--13911303 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
13911227 TGCAATCGTT
*
13911237 AGGGTGAATAGAGTGAAAAGAGGAACTGTGGAA
1 AGGGTGAAGAGAGTGAAAAGAGGAACTGTGGAA
* * *
13911270 AGGGTGAAGAGAGTGAAGAGATGAGCTGTGGAA
1 AGGGTGAAGAGAGTGAAAAGAGGAACTGTGGAA
13911303 A
1 A
13911304 ATGTCTTACC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.03, G:0.42, T:0.15
Consensus pattern (33 bp):
AGGGTGAAGAGAGTGAAAAGAGGAACTGTGGAA
Found at i:13914312 original size:31 final size:31
Alignment explanation
Indices: 13914276--13914335 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
13914266 TTTAACAACC
13914276 CAATGAATTAAATAAAAACTTTCAAATAGCT
1 CAATGAATTAAATAAAAACTTTCAAATAGCT
* *
13914307 CAATGACTTAAATAAAAACTTTCGAATAG
1 CAATGAATTAAATAAAAACTTTCAAATAG
13914336 TTTAGTGACC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.50, C:0.13, G:0.08, T:0.28
Consensus pattern (31 bp):
CAATGAATTAAATAAAAACTTTCAAATAGCT
Found at i:13914680 original size:6 final size:6
Alignment explanation
Indices: 13914669--13914707 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
13914659 TATGAGAATT
* *
13914669 TATATA TATATA TATAGA TATAGA TATAGA TATAGA TAT
1 TATAGA TATAGA TATAGA TATAGA TATAGA TATAGA TAT
13914708 TCAAAACACT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.41
Consensus pattern (6 bp):
TATAGA
Found at i:13922690 original size:19 final size:19
Alignment explanation
Indices: 13922668--13922705 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
13922658 TTTCTGTATT
13922668 TTTATTT-TTAATAATTTAA
1 TTTATTTATTAA-AATTTAA
13922687 TTTATTTATTAAAATTTAA
1 TTTATTTATTAAAATTTAA
13922706 AATTTAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
TTTATTTATTAAAATTTAA
Found at i:13922715 original size:27 final size:27
Alignment explanation
Indices: 13922674--13922725 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
13922664 TATTTTTATT
* *
13922674 TTTAATAATTTAATTTATTTATTAAAA
1 TTTAATAATTTAATTCAATTATTAAAA
13922701 TTTAA-AATTTAAATTCAATTATTAA
1 TTTAATAATTT-AATTCAATTATTAA
13922726 TACTGTCATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 5 0.23
27 17 0.77
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (27 bp):
TTTAATAATTTAATTCAATTATTAAAA
Found at i:13924170 original size:18 final size:16
Alignment explanation
Indices: 13924139--13924174 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 16
13924129 ATTAGTTAGA
13924139 ATTTTTTATTAATTTG
1 ATTTTTTATTAATTTG
13924155 ATTTTTTAGTTAAATTTG
1 ATTTTTTA-TT-AATTTG
13924173 AT
1 AT
13924175 ATTCAGTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 8 0.44
17 2 0.11
18 8 0.44
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (16 bp):
ATTTTTTATTAATTTG
Found at i:13924238 original size:22 final size:23
Alignment explanation
Indices: 13924210--13924255 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
13924200 TTTGATTATA
*
13924210 ATTTTTTAA-AAAAATATTTACT
1 ATTTTTTAATAAAAATATTGACT
13924232 ATTTTTTAATAAAAATATTGACT
1 ATTTTTTAATAAAAATATTGACT
13924255 A
1 A
13924256 AAAAGTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 9 0.41
23 13 0.59
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (23 bp):
ATTTTTTAATAAAAATATTGACT
Found at i:13931161 original size:43 final size:43
Alignment explanation
Indices: 13931114--13931196 Score: 105
Period size: 43 Copynumber: 1.9 Consensus size: 43
13931104 AATCACAGAT
*
13931114 CGATGCC-ACTATCTCAGACAAGGTCTTACACGACAACACAAGC
1 CGATGCCAAC-ATCCCAGACAAGGTCTTACACGACAACACAAGC
* ** *
13931157 CGATGCCAACGTCCCAGACGTGGTCTTACACGAGAACACA
1 CGATGCCAACATCCCAGACAAGGTCTTACACGACAACACA
13931197 TATCGAAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
43 32 0.94
44 2 0.06
ACGTcount: A:0.33, C:0.33, G:0.19, T:0.16
Consensus pattern (43 bp):
CGATGCCAACATCCCAGACAAGGTCTTACACGACAACACAAGC
Found at i:13933100 original size:42 final size:42
Alignment explanation
Indices: 13933036--13933134 Score: 155
Period size: 42 Copynumber: 2.4 Consensus size: 42
13933026 GCTCTTGGTA
13933036 TCGCACACTTAGTGCCCGTTATTCAACATC-TCCATTTTAATT
1 TCGCACACTTAGTGCCCGTTATTCAACATCGT-CATTTTAATT
* * *
13933078 TCGCACACTTAGTGCCCTTTATTCAACCTCGTCATTTTAGTT
1 TCGCACACTTAGTGCCCGTTATTCAACATCGTCATTTTAATT
13933120 TCGCACACTTAGTGC
1 TCGCACACTTAGTGC
13933135 TGTTCATATA
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
42 52 0.98
43 1 0.02
ACGTcount: A:0.21, C:0.29, G:0.12, T:0.37
Consensus pattern (42 bp):
TCGCACACTTAGTGCCCGTTATTCAACATCGTCATTTTAATT
Found at i:13939514 original size:41 final size:41
Alignment explanation
Indices: 13939445--13939589 Score: 218
Period size: 41 Copynumber: 3.5 Consensus size: 41
13939435 ATTAACATAT
* * *
13939445 TCACTGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
* *
13939486 TCACCGGCACGTAGCCTGGTAGGTTTATAACCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
* * *
13939527 TCACCGGCACTTAGCCTGCTAAGTTCATAACCTGGTTCAGA
1 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
13939568 TCACCGGCACTTAGCCTGCTAG
1 TCACCGGCACTTAGCCTGCTAG
13939590 ACTTAAAGTC
Statistics
Matches: 93, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 93 1.00
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.27
Consensus pattern (41 bp):
TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
Found at i:13939613 original size:82 final size:83
Alignment explanation
Indices: 13939443--13939619 Score: 211
Period size: 82 Copynumber: 2.2 Consensus size: 83
13939433 TAATTAACAT
* * * *
13939443 ATTCACTGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACGTAGCCTGGTAG
1 ATTCACCGGCACTTAGCCTGCTAAGCTTATAACCTGATTCAGATCACCGGCACGTAGCCTGCTAG
**
13939508 GTTTATAACCTGATTCAG
66 ACTTATAACCTGATTCAG
* *
13939526 A-TCACCGGCACTTAGCCTGCTAAG-TTCATAACCTGGTTCAGATCACCGGCACTTAGCCTGCTA
1 ATTCACCGGCACTTAGCCTGCTAAGCTT-ATAACCTGATTCAGATCACCGGCACGTAGCCTGCTA
*
13939589 GACTTA-AAGTCTGAATT-A-
65 GACTTATAA-CCTG-ATTCAG
13939607 ATTCACCGGCACT
1 ATTCACCGGCACT
13939620 ACATCTGCTA
Statistics
Matches: 81, Mismatches: 9, Indels: 9
0.82 0.09 0.09
Matches are distributed among these distances:
81 5 0.06
82 72 0.89
83 4 0.05
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (83 bp):
ATTCACCGGCACTTAGCCTGCTAAGCTTATAACCTGATTCAGATCACCGGCACGTAGCCTGCTAG
ACTTATAACCTGATTCAG
Found at i:13940844 original size:29 final size:29
Alignment explanation
Indices: 13940811--13940869 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
13940801 TAACCTTTTT
13940811 ATTCATCAAAACATTCAATTAAGTCCAAA
1 ATTCATCAAAACATTCAATTAAGTCCAAA
13940840 ATTCATCAAAACATTCAATTAAGTCCAAA
1 ATTCATCAAAACATTCAATTAAGTCCAAA
13940869 A
1 A
13940870 GGCATAAGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.49, C:0.20, G:0.03, T:0.27
Consensus pattern (29 bp):
ATTCATCAAAACATTCAATTAAGTCCAAA
Found at i:13955104 original size:21 final size:21
Alignment explanation
Indices: 13955078--13955238 Score: 99
Period size: 21 Copynumber: 7.7 Consensus size: 21
13955068 ATGAGAGCTA
*
13955078 AACGGAAACCCATAAGGGTTG
1 AACGGAAACTCATAAGGGTTG
* ** * *
13955099 AACGGAAGCTTGTAAGAGCTG
1 AACGGAAACTCATAAGGGTTG
* *
13955120 AACGGAAAC-CTATAAGGATTA
1 AACGGAAACTC-ATAAGGGTTG
* * * * *
13955141 AACTGAAGCTCAAAAGAGCTG
1 AACGGAAACTCATAAGGGTTG
* * *
13955162 AACAGAAACCCATAAGGGTTA
1 AACGGAAACTCATAAGGGTTG
* * * * *
13955183 AACTGAAGCTCAAAAGAGCTG
1 AACGGAAACTCATAAGGGTTG
* *
13955204 AACGGAAGCTCATTAGGGTTG
1 AACGGAAACTCATAAGGGTTG
13955225 AACGGAAACTCATA
1 AACGGAAACTCATA
13955239 TGAGTTAATA
Statistics
Matches: 97, Mismatches: 41, Indels: 4
0.68 0.29 0.03
Matches are distributed among these distances:
21 96 0.99
22 1 0.01
ACGTcount: A:0.41, C:0.17, G:0.25, T:0.17
Consensus pattern (21 bp):
AACGGAAACTCATAAGGGTTG
Found at i:13955124 original size:42 final size:42
Alignment explanation
Indices: 13955061--13955236 Score: 199
Period size: 42 Copynumber: 4.2 Consensus size: 42
13955051 AGGCTTAACA
** * *
13955061 GAAGCTCATGAGAGCTAAACGGAAACCCATAAGGGTTGAACG
1 GAAGCTCAAAAGAGCTGAACGGAAACCCATAAGGGTTAAACG
*** * * *
13955103 GAAGCTTGTAAGAGCTGAACGGAAACCTATAAGGATTAAACT
1 GAAGCTCAAAAGAGCTGAACGGAAACCCATAAGGGTTAAACG
* *
13955145 GAAGCTCAAAAGAGCTGAACAGAAACCCATAAGGGTTAAACT
1 GAAGCTCAAAAGAGCTGAACGGAAACCCATAAGGGTTAAACG
* * * *
13955187 GAAGCTCAAAAGAGCTGAACGGAAGCTCATTAGGGTTGAACG
1 GAAGCTCAAAAGAGCTGAACGGAAACCCATAAGGGTTAAACG
*
13955229 GAAACTCA
1 GAAGCTCA
13955237 TATGAGTTAA
Statistics
Matches: 113, Mismatches: 21, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 113 1.00
ACGTcount: A:0.40, C:0.18, G:0.26, T:0.16
Consensus pattern (42 bp):
GAAGCTCAAAAGAGCTGAACGGAAACCCATAAGGGTTAAACG
Found at i:13955349 original size:24 final size:24
Alignment explanation
Indices: 13955322--13955369 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
13955312 TACTTGGGTA
* *
13955322 ATTTGCCGTCAATTTATCCTTTGC
1 ATTTACCGTCAATTCATCCTTTGC
13955346 ATTTACCGTCAATTCATCCTTTGC
1 ATTTACCGTCAATTCATCCTTTGC
13955370 CACAGAACGA
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:0.19, C:0.27, G:0.10, T:0.44
Consensus pattern (24 bp):
ATTTACCGTCAATTCATCCTTTGC
Found at i:13958371 original size:25 final size:23
Alignment explanation
Indices: 13958343--13958393 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 23
13958333 TTTATGTATG
*
13958343 TTTATAATTTTTTCTAATTTTTTTA
1 TTTATAATTTTTT-T-AGTTTTTTA
**
13958368 TTTATCCTTTTTTTAGTTTTTTA
1 TTTATAATTTTTTTAGTTTTTTA
13958391 TTT
1 TTT
13958394 TTTTCTTTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 11 0.48
24 1 0.04
25 11 0.48
ACGTcount: A:0.18, C:0.06, G:0.02, T:0.75
Consensus pattern (23 bp):
TTTATAATTTTTTTAGTTTTTTA
Found at i:13971238 original size:25 final size:25
Alignment explanation
Indices: 13971204--13971340 Score: 202
Period size: 25 Copynumber: 5.5 Consensus size: 25
13971194 ACCTTAGCGC
13971204 GCTATCTGATTATTAGCACATCAGT
1 GCTATCTGATTATTAGCACATCAGT
13971229 GCTATCTGATTATTAGCACATCAGT
1 GCTATCTGATTATTAGCACATCAGT
*
13971254 GCTATCTGATTATTAGCACATCAGA
1 GCTATCTGATTATTAGCACATCAGT
* *
13971279 GCTCTCTGATTATTAGCACATTAGT
1 GCTATCTGATTATTAGCACATCAGT
* * *
13971304 GCTCTCTGATTATTAGCACGTTAGT
1 GCTATCTGATTATTAGCACATCAGT
* *
13971329 GCTCTCCGATTA
1 GCTATCTGATTA
13971341 GCACATCTGT
Statistics
Matches: 106, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 106 1.00
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (25 bp):
GCTATCTGATTATTAGCACATCAGT
Found at i:13971331 original size:75 final size:72
Alignment explanation
Indices: 13971208--13971387 Score: 208
Period size: 75 Copynumber: 2.5 Consensus size: 72
13971198 TAGCGCGCTA
* * *
13971208 TCTGATTATTAGCACATCAGTGCTATCTGATTATTAGCACATCAGTGCTATCTGATTATTAGCAC
1 TCTGATTATTAGCACATTAGTGCTCTCTGATTATTAGCACATCAGTGCTATCCG---ATTAGCAC
13971273 ATCAGAGCTC
63 ATCAGAGCTC
* * *
13971283 TCTGATTATTAGCACATTAGTGCTCTCTGATTATTAGCACGTTAGTGCTCTCCGATTAGCACATC
1 TCTGATTATTAGCACATTAGTGCTCTCTGATTATTAGCACATCAGTGCTATCCGATTAGCACATC
* *
13971348 TGTGCTC
66 AGAGCTC
*
13971355 TCTG--TA-TAGCAC-TTTGTGCTCTCTG-TTCATTAG
1 TCTGATTATTAGCACATTAGTGCTCTCTGATT-ATTAG
13971388 TGCATAATAA
Statistics
Matches: 95, Mismatches: 9, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
67 2 0.02
68 17 0.18
69 6 0.06
70 2 0.02
72 20 0.21
75 48 0.51
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (72 bp):
TCTGATTATTAGCACATTAGTGCTCTCTGATTATTAGCACATCAGTGCTATCCGATTAGCACATC
AGAGCTC
Found at i:13971343 original size:22 final size:22
Alignment explanation
Indices: 13971215--13971379 Score: 102
Period size: 25 Copynumber: 7.0 Consensus size: 22
13971205 CTATCTGATT
* *
13971215 ATTAGCACATCAGTGCTATCTG
1 ATTAGCACATTAGTGCTCTCTG
* *
13971237 ATTATTAGCACATCAGTGCTATCTG
1 ---ATTAGCACATTAGTGCTCTCTG
* *
13971262 ATTATTAGCACATCAGAGCTCTCTG
1 ---ATTAGCACATTAGTGCTCTCTG
13971287 ATTATTAGCACATTAGTGCTCTCTG
1 ---ATTAGCACATTAGTGCTCTCTG
* *
13971312 ATTATTAGCACGTTAGTGCTCTCCG
1 ---ATTAGCACATTAGTGCTCTCTG
13971337 ATTAGCACATCT-GTGCTCTCTG
1 ATTAGCACAT-TAGTGCTCTCTG
*
13971359 -TATAGCAC-TTTGTGCTCTCTG
1 AT-TAGCACATTAGTGCTCTCTG
13971380 TTCATTAGTG
Statistics
Matches: 129, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
20 1 0.01
21 12 0.09
22 24 0.19
23 1 0.01
25 91 0.71
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.36
Consensus pattern (22 bp):
ATTAGCACATTAGTGCTCTCTG
Found at i:13981637 original size:12 final size:13
Alignment explanation
Indices: 13981620--13981656 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
13981610 GAACCGGACA
13981620 CGAACCGAA-CTC
1 CGAACCGAAGCTC
13981632 CGAACC-AAGCTC
1 CGAACCGAAGCTC
*
13981644 CGAACCGTAGCTC
1 CGAACCGAAGCTC
13981657 TGATACCACT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
11 2 0.09
12 15 0.68
13 5 0.23
ACGTcount: A:0.30, C:0.41, G:0.19, T:0.11
Consensus pattern (13 bp):
CGAACCGAAGCTC
Found at i:13982363 original size:15 final size:14
Alignment explanation
Indices: 13982343--13982376 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
13982333 GATAATAGAC
13982343 TAACAATCTCTATA
1 TAACAATCTCTATA
*
13982357 TTAACAATCTTTATA
1 -TAACAATCTCTATA
13982372 TAACA
1 TAACA
13982377 CACTCTCACC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.44, C:0.18, G:0.00, T:0.38
Consensus pattern (14 bp):
TAACAATCTCTATA
Found at i:13984498 original size:10 final size:10
Alignment explanation
Indices: 13984485--13984517 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
13984475 TAATTTTTTG
13984485 TTTTTTGTTT
1 TTTTTTGTTT
13984495 TTTTTTGTTT
1 TTTTTTGTTT
13984505 TTGTTTT-TTT
1 TT-TTTTGTTT
13984515 TTT
1 TTT
13984518 AAATTTTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 1 0.05
10 17 0.77
11 4 0.18
ACGTcount: A:0.00, C:0.00, G:0.09, T:0.91
Consensus pattern (10 bp):
TTTTTTGTTT
Found at i:13984517 original size:17 final size:17
Alignment explanation
Indices: 13984478--13984516 Score: 71
Period size: 16 Copynumber: 2.4 Consensus size: 17
13984468 TTTTATTTAA
13984478 TTTTTTGTTTTTTGTTT
1 TTTTTTGTTTTTTGTTT
13984495 TTTTTTG-TTTTTGTTT
1 TTTTTTGTTTTTTGTTT
13984511 TTTTTT
1 TTTTTT
13984517 TAAATTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 15 0.68
17 7 0.32
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (17 bp):
TTTTTTGTTTTTTGTTT
Found at i:13984697 original size:39 final size:40
Alignment explanation
Indices: 13984649--13984733 Score: 102
Period size: 40 Copynumber: 2.1 Consensus size: 40
13984639 CTAATTTTCT
* *
13984649 AAAATTTAAAAAAATAT-AGAAACTTTTTTAAAAAT-TTA
1 AAAATTTAAAAAAATATAAAAAACATTTTTAAAAATCTTA
** *
13984687 AAAATATTAAAAAGTTATAAAAAACATTTTTAAAATTCTTA
1 AAAAT-TTAAAAAAATATAAAAAACATTTTTAAAAATCTTA
13984728 AAAATT
1 AAAATT
13984734 AATTAAATGT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
38 5 0.13
39 10 0.26
40 16 0.41
41 8 0.21
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.36
Consensus pattern (40 bp):
AAAATTTAAAAAAATATAAAAAACATTTTTAAAAATCTTA
Found at i:13985917 original size:14 final size:14
Alignment explanation
Indices: 13985898--13985931 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
13985888 GCTTTCTTAC
13985898 CCGTCTTTTATTTG
1 CCGTCTTTTATTTG
13985912 CCGTCTTTTATTTG
1 CCGTCTTTTATTTG
*
13985926 CTGTCT
1 CCGTCT
13985932 AATATGTGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.06, C:0.24, G:0.15, T:0.56
Consensus pattern (14 bp):
CCGTCTTTTATTTG
Found at i:13988552 original size:17 final size:17
Alignment explanation
Indices: 13988513--13988546 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
13988503 TATTCATTTT
13988513 AATTTTTTATTTTAAAA
1 AATTTTTTATTTTAAAA
*
13988530 AATTTTTTTTTTTAAAA
1 AATTTTTTATTTTAAAA
13988547 TTTTTTGTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
AATTTTTTATTTTAAAA
Found at i:13988945 original size:15 final size:16
Alignment explanation
Indices: 13988919--13988948 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
13988909 GAGTGAGATG
13988919 GAATTCGAATCGAATC
1 GAATTCGAATCGAATC
13988935 GAATT-GAATCGAAT
1 GAATTCGAATCGAAT
13988949 ATATTTGTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.27
Consensus pattern (16 bp):
GAATTCGAATCGAATC
Done.