Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01014917.1 Kokia drynarioides strain JFW-HI SEQ_129960, 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: 341305
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 345 characters in sequence are not A, C, G, or T
File 1 of 2
Found at i:6477 original size:24 final size:24
Alignment explanation
Indices: 6445--6490 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
6435 TCATTTAACT
*
6445 TAATCGAACATGTTCATGAACATA
1 TAATCGAACATGTTCACGAACATA
*
6469 TAATTGAACATGTTCACGAACA
1 TAATCGAACATGTTCACGAACA
6491 ATGCTAATGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.28
Consensus pattern (24 bp):
TAATCGAACATGTTCACGAACATA
Found at i:7181 original size:8 final size:8
Alignment explanation
Indices: 7164--7207 Score: 72
Period size: 8 Copynumber: 5.6 Consensus size: 8
7154 TAAATAATAC
*
7164 AAATTTAA
1 AAATTAAA
7172 AAATTAAA
1 AAATTAAA
7180 AAATTAAA
1 AAATTAAA
7188 AAATTAAA
1 AAATTAAA
7196 AAA-TAAA
1 AAATTAAA
7203 AAATT
1 AAATT
7208 TTGAAGTTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
7 7 0.21
8 27 0.79
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (8 bp):
AAATTAAA
Found at i:7586 original size:27 final size:28
Alignment explanation
Indices: 7546--7617 Score: 78
Period size: 28 Copynumber: 2.6 Consensus size: 28
7536 TTTTATGATG
7546 GTAAAA-ATTAATTTTTAAAGAA-TTAAA
1 GTAAAATATT-ATTTTTAAAGAAGTTAAA
*
7573 TTAAAATATTATTTTT-AAGAAGGTTAAA
1 GTAAAATATTATTTTTAAAGAA-GTTAAA
* *
7601 GTATAATTTTATTTTTA
1 GTAAAATATTATTTTTA
7618 TTAATTTAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
26 5 0.14
27 11 0.30
28 21 0.57
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (28 bp):
GTAAAATATTATTTTTAAAGAAGTTAAA
Found at i:14946 original size:41 final size:41
Alignment explanation
Indices: 14851--15071 Score: 250
Period size: 41 Copynumber: 5.3 Consensus size: 41
14841 GAGTCGTAGA
* * * * *
14851 TCTTCCTTTTAA-ACAATCTTATGCTC-TACCGAGTCATAAG
1 TCTTCC-TTTAATATAATCTCATGCTCATCCCGAGACATGAG
*
14891 TCTTCCTTTAAATATAATCTCATGCTCATCCCGAGACACGAG
1 TCTTCCTTT-AATATAATCTCATGCTCATCCCGAGACATGAG
* * *
14933 TCTCCCTTTAATATAATCTGATGCTCA-CCTTGAGACATGAG
1 TCTTCCTTTAATATAATCTCATGCTCATCC-CGAGACATGAG
**
14974 TCTTCCTTTAATATAATCTCATGCTCATCTTGAGACATGAG
1 TCTTCCTTTAATATAATCTCATGCTCATCCCGAGACATGAG
* * *
15015 TCTTCCTTCAATATAATCTCATGCTTATCTCGAGACATGAG
1 TCTTCCTTTAATATAATCTCATGCTCATCCCGAGACATGAG
15056 TCTTCCATTTATATAT
1 TCTTCC-TTTA-ATAT
15072 CAAGTGATTC
Statistics
Matches: 157, Mismatches: 17, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
39 3 0.02
40 10 0.06
41 118 0.75
42 22 0.14
43 4 0.03
ACGTcount: A:0.27, C:0.24, G:0.11, T:0.37
Consensus pattern (41 bp):
TCTTCCTTTAATATAATCTCATGCTCATCCCGAGACATGAG
Found at i:18126 original size:56 final size:56
Alignment explanation
Indices: 18052--18162 Score: 143
Period size: 56 Copynumber: 2.0 Consensus size: 56
18042 TCCAACATGC
* * *
18052 CTTGTAAAGGAGCATGCATAGAAGCTTATCACA-AAGAGCTCACATAGGGAGCTTGG
1 CTTGCAAAGGAGCATGCATAGAAGCTTATCACATAA-AGCTCAAATAGAGAGCTTGG
* * * *
18108 CTTGCAAAGGAGCTTGCATAGGATCTTATCACATTAAGCTCAAATAGAGAGCTTG
1 CTTGCAAAGGAGCATGCATAGAAGCTTATCACATAAAGCTCAAATAGAGAGCTTG
18163 CTTAAAATAA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
56 46 0.98
57 1 0.02
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.24
Consensus pattern (56 bp):
CTTGCAAAGGAGCATGCATAGAAGCTTATCACATAAAGCTCAAATAGAGAGCTTGG
Found at i:18899 original size:26 final size:26
Alignment explanation
Indices: 18867--18953 Score: 86
Period size: 26 Copynumber: 3.3 Consensus size: 26
18857 TCTTTGACTG
*
18867 GCGAACCCTAGTTCACAGCTCAACTG
1 GCGAACCCTAGTTCACAGCTCAACTA
** *
18893 GCGAACCCCTAGTTCGTAACTCAACTA
1 GCGAA-CCCTAGTTCACAGCTCAACTA
* * *
18920 ACAAACCCTA-TCTCACAGCTTAACTA
1 GCGAACCCTAGT-TCACAGCTCAACTA
18946 GCGAACCC
1 GCGAACCC
18954 ACTTGCAATG
Statistics
Matches: 47, Mismatches: 12, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
25 1 0.02
26 26 0.55
27 20 0.43
ACGTcount: A:0.31, C:0.36, G:0.14, T:0.20
Consensus pattern (26 bp):
GCGAACCCTAGTTCACAGCTCAACTA
Found at i:20575 original size:22 final size:22
Alignment explanation
Indices: 20539--20583 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
20529 ATCTATTTAA
*
20539 TAAACCGTGTATGATTAATATTT
1 TAAACCGTATATGATT-ATATTT
20562 TAAACC-TATATGATTATATTT
1 TAAACCGTATATGATTATATTT
20583 T
1 T
20584 CGTTCCAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 7 0.33
22 8 0.38
23 6 0.29
ACGTcount: A:0.36, C:0.09, G:0.09, T:0.47
Consensus pattern (22 bp):
TAAACCGTATATGATTATATTT
Found at i:22437 original size:26 final size:26
Alignment explanation
Indices: 22408--22467 Score: 93
Period size: 26 Copynumber: 2.3 Consensus size: 26
22398 TTCTGGGAGT
22408 AATTCTGGACATATTCATGCAACGAC
1 AATTCTGGACATATTCATGCAACGAC
* *
22434 AATTCTGGACATGTTCATGCAATGAC
1 AATTCTGGACATATTCATGCAACGAC
*
22460 ATTTCTGG
1 AATTCTGG
22468 GAGAATTTGA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (26 bp):
AATTCTGGACATATTCATGCAACGAC
Found at i:22604 original size:37 final size:37
Alignment explanation
Indices: 22563--22638 Score: 134
Period size: 37 Copynumber: 2.1 Consensus size: 37
22553 AAAATATTCT
* *
22563 TGCAGTGACAATTTTGGGTGCAATCTGGAAGTGCTCA
1 TGCAGCGACAATTTTGGGTGCAATCTAGAAGTGCTCA
22600 TGCAGCGACAATTTTGGGTGCAATCTAGAAGTGCTCA
1 TGCAGCGACAATTTTGGGTGCAATCTAGAAGTGCTCA
22637 TG
1 TG
22639 TACCGACATT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (37 bp):
TGCAGCGACAATTTTGGGTGCAATCTAGAAGTGCTCA
Found at i:22646 original size:37 final size:37
Alignment explanation
Indices: 22569--22646 Score: 129
Period size: 37 Copynumber: 2.1 Consensus size: 37
22559 TTCTTGCAGT
* *
22569 GACAATTTTGGGTGCAATCTGGAAGTGCTCATGCAGC
1 GACAATTTTGGGTGCAATCTAGAAGTGCTCATGCACC
*
22606 GACAATTTTGGGTGCAATCTAGAAGTGCTCATGTACC
1 GACAATTTTGGGTGCAATCTAGAAGTGCTCATGCACC
22643 GACA
1 GACA
22647 TTAGTAGTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (37 bp):
GACAATTTTGGGTGCAATCTAGAAGTGCTCATGCACC
Found at i:28769 original size:108 final size:108
Alignment explanation
Indices: 28569--28802 Score: 283
Period size: 108 Copynumber: 2.2 Consensus size: 108
28559 AAGAGCATAC
* * * * * *
28569 GTCTCGGTTAAAGCATAATGCTATGTGAGTGCATACTTCTCGGTTAGAGCGTATTGCTATATAGT
1 GTCTCGGTCAGAGCATAATGCTATGTGAGTACATACTTCTCGGTTAGAGAGTATTACTATATAAT
* * * *
28634 TGCTTACGTCTTGGTTAGAGCGTAATGCTAAGAGATTGTTTAT
66 TGCTTACGTCTCGATTAGAGCATAATGCTAAGAGATTGCTTAT
* *
28677 GTCTTGGTCAGAGCATAATGCTATGTG-GTTACATA-TGTCTCGGTTAGAGAGTATTACTATGTA
1 GTCTCGGTCAGAGCATAATGCTATGTGAG-TACATACT-TCTCGGTTAGAGAGTATTACTATATA
* * **
28740 ATTGCTTGCGTCTCGATTATAGCATAATGCTAATTGATTGCTTAT
64 ATTGCTTACGTCTCGATTAGAGCATAATGCTAAGAGATTGCTTAT
*
28785 GTCTCGGTTAGAGCATAA
1 GTCTCGGTCAGAGCATAA
28803 GGCCATTTCA
Statistics
Matches: 106, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
107 2 0.02
108 104 0.98
ACGTcount: A:0.25, C:0.14, G:0.24, T:0.37
Consensus pattern (108 bp):
GTCTCGGTCAGAGCATAATGCTATGTGAGTACATACTTCTCGGTTAGAGAGTATTACTATATAAT
TGCTTACGTCTCGATTAGAGCATAATGCTAAGAGATTGCTTAT
Found at i:28800 original size:36 final size:36
Alignment explanation
Indices: 28569--28802 Score: 188
Period size: 36 Copynumber: 6.5 Consensus size: 36
28559 AAGAGCATAC
* * *
28569 GTCTCGGTTAAAGCATAATGCTATGTGAGTGCATACT
1 GTCTCGGTTAGAGCATAATGCTATGTGATTGCTTA-T
* * * *
28606 -TCTCGGTTAGAGCGTATTGCTATAT-AGTTGCTTAC
1 GTCTCGGTTAGAGCATAATGCTATGTGA-TTGCTTAT
* * * * *
28641 GTCTTGGTTAGAGCGTAATGCTAAGAGATTGTTTAT
1 GTCTCGGTTAGAGCATAATGCTATGTGATTGCTTAT
* * * * *
28677 GTCTTGGTCAGAGCATAATGCTATGTGGTTACATAT
1 GTCTCGGTTAGAGCATAATGCTATGTGATTGCTTAT
* * * **
28713 GTCTCGGTTAGAG-AGTATTACTATGTAATTGCTTGC
1 GTCTCGGTTAGAGCA-TAATGCTATGTGATTGCTTAT
* *
28749 GTCTCGATTATAGCATAATGCTAAT-TGATTGCTTAT
1 GTCTCGGTTAGAGCATAATGCT-ATGTGATTGCTTAT
28785 GTCTCGGTTAGAGCATAA
1 GTCTCGGTTAGAGCATAA
28803 GGCCATTTCA
Statistics
Matches: 150, Mismatches: 41, Indels: 13
0.74 0.20 0.06
Matches are distributed among these distances:
35 2 0.01
36 144 0.96
37 4 0.03
ACGTcount: A:0.25, C:0.14, G:0.24, T:0.37
Consensus pattern (36 bp):
GTCTCGGTTAGAGCATAATGCTATGTGATTGCTTAT
Found at i:42914 original size:18 final size:18
Alignment explanation
Indices: 42893--42943 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
42883 TATTGCTTTT
*
42893 ACGAGCCGGTATGCTCAA
1 ACGAGCCAGTATGCTCAA
*
42911 ACGAGCCAGTATGCTCTA
1 ACGAGCCAGTATGCTCAA
*
42929 ACGAGCCAATATGCT
1 ACGAGCCAGTATGCT
42944 ATTCCTTCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.29, C:0.27, G:0.24, T:0.20
Consensus pattern (18 bp):
ACGAGCCAGTATGCTCAA
Found at i:44517 original size:3 final size:3
Alignment explanation
Indices: 44509--44558 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
44499 ATATGATGTG
44509 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
44557 AT
1 AT
44559 AAGATGTATG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:50095 original size:18 final size:17
Alignment explanation
Indices: 50066--50104 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 17
50056 AAATGAACTA
50066 ACAAATAAAATGCAATG
1 ACAAATAAAATGCAATG
*
50083 ACAAATAAAAATGTAATG
1 ACAAAT-AAAATGCAATG
50101 ACAA
1 ACAA
50105 CAAAATGTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.62, C:0.10, G:0.10, T:0.18
Consensus pattern (17 bp):
ACAAATAAAATGCAATG
Found at i:50530 original size:15 final size:15
Alignment explanation
Indices: 50507--50545 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
50497 TTTGTCGGGG
* *
50507 CATCTTTCTTTTCTT
1 CATCCTTCTTCTCTT
50522 CATCCTTCTTCTCTT
1 CATCCTTCTTCTCTT
*
50537 CTTCCTTCT
1 CATCCTTCT
50546 CTTCCTCATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.05, C:0.36, G:0.00, T:0.59
Consensus pattern (15 bp):
CATCCTTCTTCTCTT
Found at i:57560 original size:16 final size:15
Alignment explanation
Indices: 57522--57566 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
57512 CATAAAATCT
*
57522 AAAAAGAAATAGATA
1 AAAAAGAAATAAATA
57537 AAAGAAGAAATAAAGTA
1 AAA-AAGAAATAAA-TA
*
57554 TAAAAGAAATAAA
1 AAAAAGAAATAAA
57567 CATAAATGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
15 3 0.12
16 19 0.73
17 4 0.15
ACGTcount: A:0.73, C:0.00, G:0.13, T:0.13
Consensus pattern (15 bp):
AAAAAGAAATAAATA
Found at i:63773 original size:21 final size:21
Alignment explanation
Indices: 63728--63774 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
63718 TGTAGTAGTT
**
63728 CTACCAATACAAGTATGACTT
1 CTACCAATACAAGTATGACAA
63749 CTACCAATACAAGTCATG-CAA
1 CTACCAATACAAGT-ATGACAA
63770 CTACC
1 CTACC
63775 GGTACCAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 20 0.87
22 3 0.13
ACGTcount: A:0.38, C:0.30, G:0.09, T:0.23
Consensus pattern (21 bp):
CTACCAATACAAGTATGACAA
Found at i:65584 original size:20 final size:20
Alignment explanation
Indices: 65548--65593 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 20
65538 TCATTAAGCT
*
65548 TTAATTAATCATTTTTA-ATC
1 TTAATTAATCATATTTATA-C
65568 TTAATTAAATC-TATTTATAC
1 TTAATT-AATCATATTTATAC
65588 TTAATT
1 TTAATT
65594 TAAACCATGC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 18 0.78
21 5 0.22
ACGTcount: A:0.37, C:0.09, G:0.00, T:0.54
Consensus pattern (20 bp):
TTAATTAATCATATTTATAC
Found at i:69652 original size:26 final size:26
Alignment explanation
Indices: 69614--69684 Score: 99
Period size: 26 Copynumber: 2.7 Consensus size: 26
69604 TCAAAATTGC
69614 GCCCAGAATTGTCGCTGCATGA-CGAT
1 GCCCAGAATTGTCGCTGCATGAGC-AT
* *
69640 GTCCAGAAATGTCGCTGCATGAGCAT
1 GCCCAGAATTGTCGCTGCATGAGCAT
*
69666 GCCCAGAATTGTCGTTGCA
1 GCCCAGAATTGTCGCTGCA
69685 GGAACTCGTT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
26 38 0.97
27 1 0.03
ACGTcount: A:0.24, C:0.25, G:0.27, T:0.24
Consensus pattern (26 bp):
GCCCAGAATTGTCGCTGCATGAGCAT
Found at i:71575 original size:31 final size:31
Alignment explanation
Indices: 71507--71569 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
71497 TTAATTATTA
*
71507 CATGCATTATGTGATTTGCATTTAATAAAGT
1 CATGCATTATGTAATTTGCATTTAATAAAGT
*
71538 CATGCATTATGTAACTTT-CATGTTAGTAAAGT
1 CATGCATTATGTAA-TTTGCAT-TTAATAAAGT
71570 GTGCATCATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 16 0.57
32 12 0.43
ACGTcount: A:0.32, C:0.11, G:0.16, T:0.41
Consensus pattern (31 bp):
CATGCATTATGTAATTTGCATTTAATAAAGT
Found at i:71641 original size:51 final size:50
Alignment explanation
Indices: 71530--71748 Score: 271
Period size: 50 Copynumber: 4.3 Consensus size: 50
71520 ATTTGCATTT
* *
71530 AATAAAGTCATGCATTATGTAACTTTCATGTTAGTAAAGTGTGCATCATA
1 AATAAAGTCATGCATTATGTAACTTTCATGTTAGTTAAGTTTGCATCATA
* * *
71580 AACAATGACATGCATTATGTAACTTTCATGATTAGTTAAGTTTGCATCATA
1 AATAAAGTCATGCATTATGTAACTTTCATG-TTAGTTAAGTTTGCATCATA
* * * * *
71631 AATAAAGACATGCATTAAGTAACTTACATGTTAGTTAAATATGCATCATA
1 AATAAAGTCATGCATTATGTAACTTTCATGTTAGTTAAGTTTGCATCATA
* *
71681 AATTATA-TCATGCATTATGTAACTCTCATGTTAGTTAAAGTTTGCATCATTA
1 AA-TAAAGTCATGCATTATGTAACTTTCATGTTAGTT-AAGTTTGCATCA-TA
71733 AA-ACAAGTCATGCATT
1 AATA-AAGTCATGCATT
71749 TAGTAATCCA
Statistics
Matches: 144, Mismatches: 19, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
50 73 0.51
51 58 0.40
52 13 0.09
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.36
Consensus pattern (50 bp):
AATAAAGTCATGCATTATGTAACTTTCATGTTAGTTAAGTTTGCATCATA
Found at i:71645 original size:101 final size:102
Alignment explanation
Indices: 71525--71754 Score: 308
Period size: 101 Copynumber: 2.3 Consensus size: 102
71515 ATGTGATTTG
* * * *
71525 CATTTAATAAAGTCATGCATTATGTAACTTTCATGTTAG-TAAAGTGTGCATCATAAACAATGA-
1 CATTAAATAAAGTCATGCATTAAGTAACTTACATGTTAGTTAAA-TATGCATCATAAACAAT-AT
*
71588 CATGCATTATGTAACTTTCATGATTAGTT-AAGTTTGCAT
64 CATGCATTATGTAACTCTCATG-TTAGTTAAAGTTTGCAT
* **
71627 CA-TAAATAAAGACATGCATTAAGTAACTTACATGTTAGTTAAATATGCATCATAAATTATATCA
1 CATTAAATAAAGTCATGCATTAAGTAACTTACATGTTAGTTAAATATGCATCATAAACAATATCA
71691 TGCATTATGTAACTCTCATGTTAGTTAAAGTTTGCAT
66 TGCATTATGTAACTCTCATGTTAGTTAAAGTTTGCAT
*
71728 CATTAAA-ACAAGTCATGCATTTAGTAA
1 CATTAAATA-AAGTCATGCATTAAGTAA
71755 TCCATTTGTT
Statistics
Matches: 113, Mismatches: 10, Indels: 10
0.85 0.08 0.08
Matches are distributed among these distances:
100 7 0.06
101 80 0.71
102 26 0.23
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (102 bp):
CATTAAATAAAGTCATGCATTAAGTAACTTACATGTTAGTTAAATATGCATCATAAACAATATCA
TGCATTATGTAACTCTCATGTTAGTTAAAGTTTGCAT
Found at i:72748 original size:14 final size:15
Alignment explanation
Indices: 72731--72759 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
72721 AAAAAAAGTG
72731 AAAAAAATTT-AAAA
1 AAAAAAATTTGAAAA
72745 AAAAAAATTTGAAAA
1 AAAAAAATTTGAAAA
72760 TATTGAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (15 bp):
AAAAAAATTTGAAAA
Found at i:72751 original size:24 final size:24
Alignment explanation
Indices: 72719--72773 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
72709 ATTGTTTCAC
*
72719 AAAAAAAAA-GTGAAAAAAATTTAA
1 AAAAAAAAATGTG-AAAAAATTGAA
* *
72743 AAAAAAAAATTTGAAAATATTGAA
1 AAAAAAAAATGTGAAAAAATTGAA
72767 AAAAAAA
1 AAAAAAA
72774 CAAAGGAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
24 25 0.93
25 2 0.07
ACGTcount: A:0.75, C:0.00, G:0.07, T:0.18
Consensus pattern (24 bp):
AAAAAAAAATGTGAAAAAATTGAA
Found at i:73741 original size:21 final size:21
Alignment explanation
Indices: 73695--73751 Score: 53
Period size: 21 Copynumber: 2.7 Consensus size: 21
73685 TAATGAGAGA
* **
73695 AAATT-AAAGAAAAATACGAG
1 AAATTGAAAGAAAAAGAAAAG
*
73715 AGATTGAAAGAAAAAGAAAAG
1 AAATTGAAAGAAAAAGAAAAG
73736 AAATTGTAAAAGAAAA
1 AAATTG--AAAGAAAA
73752 TTTGAGAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
20 4 0.14
21 17 0.59
23 8 0.28
ACGTcount: A:0.67, C:0.02, G:0.18, T:0.14
Consensus pattern (21 bp):
AAATTGAAAGAAAAAGAAAAG
Found at i:84715 original size:10 final size:9
Alignment explanation
Indices: 84700--84741 Score: 52
Period size: 10 Copynumber: 4.7 Consensus size: 9
84690 TCACATATAA
84700 AAAAAAGAAG
1 AAAAAAG-AG
84710 AAAAAAGAG
1 AAAAAAGAG
84719 -AAAAAGAG
1 AAAAAAGAG
84727 AAAACAAGA-
1 AAAA-AAGAG
84736 AAAAAA
1 AAAAAA
84742 ATAGCTATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
8 10 0.33
9 9 0.30
10 11 0.37
ACGTcount: A:0.81, C:0.02, G:0.17, T:0.00
Consensus pattern (9 bp):
AAAAAAGAG
Found at i:84724 original size:18 final size:17
Alignment explanation
Indices: 84700--84740 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
84690 TCACATATAA
84700 AAAAAAGAAGAAAA-AAG
1 AAAAAAG-AGAAAACAAG
84717 AGAAAAAGAGAAAACAAG
1 A-AAAAAGAGAAAACAAG
84735 AAAAAA
1 AAAAAA
84741 AATAGCTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 12 0.55
18 10 0.45
ACGTcount: A:0.80, C:0.02, G:0.17, T:0.00
Consensus pattern (17 bp):
AAAAAAGAGAAAACAAG
Found at i:84741 original size:18 final size:18
Alignment explanation
Indices: 84699--84741 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
84689 ATCACATATA
84699 AAAAAAAGAAGAAAAAAG
1 AAAAAAAGAAGAAAAAAG
*
84717 AGAAAAAG-AGAAAACAAG
1 AAAAAAAGAAGAAAA-AAG
84735 AAAAAAA
1 AAAAAAA
84742 ATAGCTATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 6 0.27
18 16 0.73
ACGTcount: A:0.81, C:0.02, G:0.16, T:0.00
Consensus pattern (18 bp):
AAAAAAAGAAGAAAAAAG
Found at i:88671 original size:51 final size:50
Alignment explanation
Indices: 88576--88767 Score: 226
Period size: 51 Copynumber: 3.8 Consensus size: 50
88566 TTAATAAATT
88576 CATGCATTATGTAACTTTCATGTTAGTTAAGTATGCATCATAAATAATAA
1 CATGCATTATGTAACTTTCATGTTAGTTAAGTATGCATCATAAATAATAA
* *
88626 CATGTATTATGTAACTTTCATGATTAGTTAAGTTTGCATCATAAATAA-AGA
1 CATGCATTATGTAACTTTCATG-TTAGTTAAGTATGCATCATAAATAATA-A
* * * * * *
88677 CATGCATTAAGTAACTTACATG-TAGTTAAATATGCATCGTAAATTATAT
1 CATGCATTATGTAACTTTCATGTTAGTTAAGTATGCATCATAAATAATAA
* ** * *
88726 CATGCATTAGGTAACTCCCATGTTTGTTAAAGTTTGCATCAT
1 CATGCATTATGTAACTTTCATGTTAGTT-AAGTATGCATCAT
88768 TAAAACAAGT
Statistics
Matches: 120, Mismatches: 17, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
49 39 0.32
50 27 0.22
51 54 0.45
ACGTcount: A:0.35, C:0.13, G:0.14, T:0.38
Consensus pattern (50 bp):
CATGCATTATGTAACTTTCATGTTAGTTAAGTATGCATCATAAATAATAA
Found at i:88759 original size:100 final size:102
Alignment explanation
Indices: 88576--88790 Score: 267
Period size: 100 Copynumber: 2.1 Consensus size: 102
88566 TTAATAAATT
* * * * *
88576 CATGCATTATGTAACTTTCATGTTAGTTAAGTATGCATCATAAATAATAACATGTATTATGTAAC
1 CATGCATTAAGTAACTTACATGTTAGTTAAATATGCATCATAAATAATAACATGCATTAGGTAAC
**
88641 TTTCATGATTAGTTAAGTTTGCATCA-TAAATA-AAGA
66 TCCCATGATTAGTTAAGTTTGCATCATTAAA-ACAAGA
* * *
88677 CATGCATTAAGTAACTTACATG-TAGTTAAATATGCATCGTAAATTATATCATGCATTAGGTAAC
1 CATGCATTAAGTAACTTACATGTTAGTTAAATATGCATCATAAATAATAACATGCATTAGGTAAC
* *
88741 TCCCATG-TTTGTTAAAGTTTGCATCATTAAAACAAGT
66 TCCCATGATTAGTT-AAGTTTGCATCATTAAAACAAGA
*
88778 CATGCATTTAGTA
1 CATGCATTAAGTA
88791 TTTCATTTGT
Statistics
Matches: 98, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
99 5 0.05
100 54 0.55
101 39 0.40
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.37
Consensus pattern (102 bp):
CATGCATTAAGTAACTTACATGTTAGTTAAATATGCATCATAAATAATAACATGCATTAGGTAAC
TCCCATGATTAGTTAAGTTTGCATCATTAAAACAAGA
Found at i:92099 original size:22 final size:22
Alignment explanation
Indices: 92071--92116 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
92061 AAAAAGAAAA
*
92071 ATTCAAAAAGGATCTAGCAACC
1 ATTCAAAAAGGATCTAACAACC
*
92093 ATTCAAAAAGGGTCTAACAACC
1 ATTCAAAAAGGATCTAACAACC
92115 AT
1 AT
92117 CTTTGAATTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.46, C:0.22, G:0.13, T:0.20
Consensus pattern (22 bp):
ATTCAAAAAGGATCTAACAACC
Found at i:96208 original size:26 final size:26
Alignment explanation
Indices: 96172--96223 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
96162 GCAAATATGA
96172 TATTGCTGCTTCGCCTAGTCTCCTCC
1 TATTGCTGCTTCGCCTAGTCTCCTCC
96198 TATTGCTGCTTCGCCTAGTCTCCTCC
1 TATTGCTGCTTCGCCTAGTCTCCTCC
96224 AACCCATGCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.08, C:0.38, G:0.15, T:0.38
Consensus pattern (26 bp):
TATTGCTGCTTCGCCTAGTCTCCTCC
Found at i:97812 original size:19 final size:19
Alignment explanation
Indices: 97788--97824 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
97778 TTATTAGGAG
97788 ATCTTTT-TTAATTAAAAGC
1 ATCTTTTGTT-ATTAAAAGC
97807 ATCTTTTGTTATTAAAAG
1 ATCTTTTGTTATTAAAAG
97825 TGTTTCCATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 15 0.88
20 2 0.12
ACGTcount: A:0.35, C:0.08, G:0.08, T:0.49
Consensus pattern (19 bp):
ATCTTTTGTTATTAAAAGC
Found at i:100040 original size:29 final size:28
Alignment explanation
Indices: 99956--100041 Score: 109
Period size: 29 Copynumber: 3.0 Consensus size: 28
99946 ATTGTTCTGA
99956 AAAAAATAATTTTGACAAGATGAGTTTTG
1 AAAAAATAATTTTGACAAGATGA-TTTTG
* *
99985 AAAAAATAAATTTGACATGATGTATTTTG
1 AAAAAATAATTTTGACAAGATG-ATTTTG
* *
100014 AAGAAATTATTTTGACAAGATAGATTTT
1 AAAAAATAATTTTGACAAGAT-GATTTT
100042 TTTTTAAAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
29 47 0.96
30 2 0.04
ACGTcount: A:0.44, C:0.03, G:0.15, T:0.37
Consensus pattern (28 bp):
AAAAAATAATTTTGACAAGATGATTTTG
Found at i:101062 original size:81 final size:81
Alignment explanation
Indices: 100927--101089 Score: 326
Period size: 81 Copynumber: 2.0 Consensus size: 81
100917 AAGCACTTGC
100927 GACTTCAACATCTACTATTGTTTGAAAGGAATACACGACCCCTGCCCGATACTCTGTTAGTGAGA
1 GACTTCAACATCTACTATTGTTTGAAAGGAATACACGACCCCTGCCCGATACTCTGTTAGTGAGA
100992 GGCAGAACATGGAACA
66 GGCAGAACATGGAACA
101008 GACTTCAACATCTACTATTGTTTGAAAGGAATACACGACCCCTGCCCGATACTCTGTTAGTGAGA
1 GACTTCAACATCTACTATTGTTTGAAAGGAATACACGACCCCTGCCCGATACTCTGTTAGTGAGA
101073 GGCAGAACATGGAACA
66 GGCAGAACATGGAACA
101089 G
1 G
101090 TATGTTTTTT
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
81 82 1.00
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.23
Consensus pattern (81 bp):
GACTTCAACATCTACTATTGTTTGAAAGGAATACACGACCCCTGCCCGATACTCTGTTAGTGAGA
GGCAGAACATGGAACA
Found at i:103827 original size:39 final size:39
Alignment explanation
Indices: 103761--103844 Score: 143
Period size: 39 Copynumber: 2.2 Consensus size: 39
103751 AATAATTTAT
*
103761 ACAAAAATATTCAAAAGAACATTTATTTTATTAAATGAA
1 ACAATAATATTCAAAAGAACATTTATTTTATTAAATGAA
103800 ACAATAATATTCAAAAGAAC-TTCTATTTTATTAAATGAA
1 ACAATAATATTCAAAAGAACATT-TATTTTATTAAATGAA
103839 ACAATA
1 ACAATA
103845 TAGAAATAAT
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
38 2 0.05
39 41 0.95
ACGTcount: A:0.52, C:0.10, G:0.05, T:0.33
Consensus pattern (39 bp):
ACAATAATATTCAAAAGAACATTTATTTTATTAAATGAA
Found at i:105930 original size:32 final size:32
Alignment explanation
Indices: 105871--105936 Score: 80
Period size: 32 Copynumber: 2.1 Consensus size: 32
105861 CATAAAAATT
* * *
105871 ATAAAAAATATTAATTAAATTATAAAAATGAA
1 ATAAAAAAAATTAAATAAATTATAAAAATAAA
*
105903 ATAAAAAAAATTAAATAGTATTA-AAAAATAAA
1 ATAAAAAAAATTAAATA-AATTATAAAAATAAA
105935 AT
1 AT
105937 TAACTCTTAC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
32 25 0.86
33 4 0.14
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (32 bp):
ATAAAAAAAATTAAATAAATTATAAAAATAAA
Found at i:106516 original size:21 final size:20
Alignment explanation
Indices: 106474--106516 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
106464 AAAATTAATC
**
106474 TTTTTTGGTACTAAATCCTA
1 TTTTTTGGTACTAAATTATA
*
106494 TTTTTTGTGTTCTAAATTATA
1 TTTTTTG-GTACTAAATTATA
106515 TT
1 TT
106517 AATGTATAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.23, C:0.09, G:0.09, T:0.58
Consensus pattern (20 bp):
TTTTTTGGTACTAAATTATA
Found at i:106773 original size:16 final size:16
Alignment explanation
Indices: 106754--106790 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
106744 ACCCATGGTC
106754 AAACGGACATGGAAAT
1 AAACGGACATGGAAAT
* *
106770 AAACGTACTTGGAAAT
1 AAACGGACATGGAAAT
106786 AAACG
1 AAACG
106791 TCAAATACGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.49, C:0.14, G:0.22, T:0.16
Consensus pattern (16 bp):
AAACGGACATGGAAAT
Found at i:119118 original size:20 final size:20
Alignment explanation
Indices: 119040--119124 Score: 59
Period size: 20 Copynumber: 4.2 Consensus size: 20
119030 TCCTAAAACT
* *
119040 ATTTTGACTTGTTTGAAAAAC
1 ATTTTGACATGTTT-AAAATC
*
119061 ATTTTGA-A-GTGTTAAAATG
1 ATTTTGACATGT-TTAAAATC
* * * *
119080 ACTTTGACTTAG-TTCAAATT
1 ATTTTGACAT-GTTTAAAATC
119100 ATTTTGACATGTTTAAAATC
1 ATTTTGACATGTTTAAAATC
119120 ATTTT
1 ATTTT
119125 AACTTGATTT
Statistics
Matches: 48, Mismatches: 11, Indels: 11
0.69 0.16 0.16
Matches are distributed among these distances:
19 13 0.27
20 27 0.56
21 7 0.15
22 1 0.02
ACGTcount: A:0.33, C:0.08, G:0.13, T:0.46
Consensus pattern (20 bp):
ATTTTGACATGTTTAAAATC
Found at i:119712 original size:22 final size:22
Alignment explanation
Indices: 119687--119730 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
119677 AATGAAATTC
119687 AATA-AAATAAAAAAAATACAAA
1 AATAGAAA-AAAAAAAATACAAA
**
119709 AATAGAAAAATGAAAATACAAA
1 AATAGAAAAAAAAAAATACAAA
119731 TGTCATGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.77, C:0.05, G:0.05, T:0.14
Consensus pattern (22 bp):
AATAGAAAAAAAAAAATACAAA
Found at i:127244 original size:20 final size:20
Alignment explanation
Indices: 127165--127250 Score: 59
Period size: 20 Copynumber: 4.3 Consensus size: 20
127155 GTCCTTGAGC
* * *
127165 TATTTTGACTTGCTTGAAAAA
1 TATTTTGACATG-TTTAAAAT
127186 TATTTTGA-A-GTGTTAAAAT
1 TATTTTGACATGT-TTAAAAT
* * * * *
127205 GACTTTGACTTATTTCAAAT
1 TATTTTGACATGTTTAAAAT
127225 TATTTTGACATGTTTAAAAT
1 TATTTTGACATGTTTAAAAT
*
127245 CATTTT
1 TATTTT
127251 AACTTGATTT
Statistics
Matches: 48, Mismatches: 14, Indels: 7
0.70 0.20 0.10
Matches are distributed among these distances:
18 1 0.02
19 12 0.25
20 26 0.54
21 9 0.19
ACGTcount: A:0.33, C:0.08, G:0.12, T:0.48
Consensus pattern (20 bp):
TATTTTGACATGTTTAAAAT
Found at i:141050 original size:16 final size:17
Alignment explanation
Indices: 141026--141059 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
141016 AATAAAGCGA
141026 TTTTAAGACTT-TAATT
1 TTTTAAGACTTGTAATT
*
141042 TTTTGAGACTTGTAATT
1 TTTTAAGACTTGTAATT
141059 T
1 T
141060 GGATTATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.26, C:0.06, G:0.12, T:0.56
Consensus pattern (17 bp):
TTTTAAGACTTGTAATT
Found at i:141972 original size:34 final size:34
Alignment explanation
Indices: 141911--141980 Score: 83
Period size: 33 Copynumber: 2.1 Consensus size: 34
141901 AGTTTAGCCA
*
141911 AAAAGAGAAGAATAGTGAAAAATAAAAAAGAAAGAG
1 AAAAGAGAAGAATAGTGAAAAA-CAAAAAG-AAGAG
141947 AAAAGA-AA-AAT-GTGTAAAAACAAAAAGAAGAG
1 AAAAGAGAAGAATAGTG-AAAAACAAAAAGAAGAG
141979 AA
1 AA
141981 TTTTGAGTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
32 7 0.22
33 9 0.28
34 8 0.25
35 2 0.06
36 6 0.19
ACGTcount: A:0.70, C:0.01, G:0.20, T:0.09
Consensus pattern (34 bp):
AAAAGAGAAGAATAGTGAAAAACAAAAAGAAGAG
Found at i:151059 original size:109 final size:107
Alignment explanation
Indices: 150731--151064 Score: 447
Period size: 108 Copynumber: 3.1 Consensus size: 107
150721 CCGACGATAT
* * * * * *
150731 TAAA-AGTGAGCCCAGGTCTAGTTGGCTTAACCAACAATATTGCGCGTAGCGTTAGTCAGATAAA
1 TAAATAGTGAGCCCAGCTCTAGTTGGATTAACCAACAATATTGCGC-CAGTGCTAGTCGGATAAA
*** * * *
150795 TTAACGAATGTGTGCCCATCACTGGT-AATATAAACTGACGAAA
65 CCGACGAATGTGTGCCCAACACTAGTCAA-ATAAACTAACGAAA
*
150838 TAAATAGTGAGCCCAGCTCTAGTTGGATTAACCAACGATATTGCGCCCAGTGCTAGTCGGATAAA
1 TAAATAGTGAGCCCAGCTCTAGTTGGATTAACCAACAATATTGCG-CCAGTGCTAGTCGGATAAA
150903 CCGACGAATGTGTGCCCAACACTAGTCAAATAAACTAACGAAA
65 CCGACGAATGTGTGCCCAACACTAGTCAAATAAACTAACGAAA
* *
150946 TAAATAGTGAGCACAGCTCTAGTTGGATTAACCATCAATATTGCGTCCAGTGCTAAGTCGGATAA
1 TAAATAGTGAGCCCAGCTCTAGTTGGATTAACCAACAATATTGCG-CCAGTGCT-AGTCGGATAA
* * *
151011 ACCGACGAATGAGTGCCCAACACTAGTCAGATAAATTAACGAAA
64 ACCGACGAATGTGTGCCCAACACTAGTCAAATAAACTAACGAAA
151055 TAAATAGTGA
1 TAAATAGTGA
151065 TTCATTTCCA
Statistics
Matches: 203, Mismatches: 20, Indels: 6
0.89 0.09 0.03
Matches are distributed among these distances:
107 4 0.02
108 135 0.67
109 64 0.32
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23
Consensus pattern (107 bp):
TAAATAGTGAGCCCAGCTCTAGTTGGATTAACCAACAATATTGCGCCAGTGCTAGTCGGATAAAC
CGACGAATGTGTGCCCAACACTAGTCAAATAAACTAACGAAA
Found at i:162799 original size:27 final size:27
Alignment explanation
Indices: 162768--162844 Score: 111
Period size: 27 Copynumber: 2.9 Consensus size: 27
162758 GTGTTGAAAC
*
162768 ACCAACTTTACCAAAACCAGAACTAGA
1 ACCAACTTTACCAGAACCAGAACTAGA
*
162795 ACCAACTTTACCAGAACCAAAACTAGA
1 ACCAACTTTACCAGAACCAGAACTAGA
*
162822 ACC-AGTTTCACCAGAACCAGAAC
1 ACCAACTTT-ACCAGAACCAGAAC
162845 CGATGAATGT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 4 0.09
27 41 0.91
ACGTcount: A:0.45, C:0.31, G:0.09, T:0.14
Consensus pattern (27 bp):
ACCAACTTTACCAGAACCAGAACTAGA
Found at i:166996 original size:15 final size:14
Alignment explanation
Indices: 166971--167006 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
166961 AAAGATTTTA
166971 TTTATTTATTTATC
1 TTTATTTATTTATC
*
166985 TTTATGTTATTTATT
1 TTTAT-TTATTTATC
167000 TTTATTT
1 TTTATTT
167007 TTCAAAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.19, C:0.03, G:0.03, T:0.75
Consensus pattern (14 bp):
TTTATTTATTTATC
Found at i:171408 original size:27 final size:28
Alignment explanation
Indices: 171360--171417 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
171350 GTGCATTTGA
* *
171360 AATTTAGTTTTAGCTTTAAC-TTAGATT
1 AATTTAGTTTTAGATTAAACTTTAGATT
171387 AATTTAG-TTTAGATTAATACTTTAGATT
1 AATTTAGTTTTAGATTAA-ACTTTAGATT
171415 AAT
1 AAT
171418 ATCTATCATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 8 0.30
27 9 0.33
28 10 0.37
ACGTcount: A:0.34, C:0.05, G:0.10, T:0.50
Consensus pattern (28 bp):
AATTTAGTTTTAGATTAAACTTTAGATT
Found at i:171412 original size:13 final size:13
Alignment explanation
Indices: 171380--171418 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
171370 TAGCTTTAAC
*
171380 TTAGATTAATTTAGT
1 TTAGATTAA--TACT
171395 TTAGATTAATACT
1 TTAGATTAATACT
171408 TTAGATTAATA
1 TTAGATTAATA
171419 TCTATCATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 14 0.61
15 9 0.39
ACGTcount: A:0.38, C:0.03, G:0.10, T:0.49
Consensus pattern (13 bp):
TTAGATTAATACT
Found at i:172664 original size:18 final size:18
Alignment explanation
Indices: 172643--172677 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
172633 ACAATGCGCC
*
172643 AAACTATTTTCATGCTTG
1 AAACCATTTTCATGCTTG
*
172661 AAACCATTTTGATGCTT
1 AAACCATTTTCATGCTT
172678 CATATTCTTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.17, G:0.11, T:0.43
Consensus pattern (18 bp):
AAACCATTTTCATGCTTG
Found at i:175949 original size:26 final size:26
Alignment explanation
Indices: 175872--175951 Score: 71
Period size: 26 Copynumber: 3.2 Consensus size: 26
175862 GATAAATAGT
*
175872 CACATAGCACATTGTGGGTAAACCAC
1 CACATAGCACATCGTGGGTAAACCAC
* * * *
175898 CACATAG-ATA-C-T-GATAAA-TAGT
1 CACATAGCACATCGTGGGTAAACCA-C
175920 CACATAGCACATCGTGGGTAAACCAC
1 CACATAGCACATCGTGGGTAAACCAC
175946 CACATA
1 CACATA
175952 ATTGTCGATA
Statistics
Matches: 39, Mismatches: 9, Indels: 12
0.65 0.15 0.20
Matches are distributed among these distances:
21 1 0.03
22 12 0.31
23 3 0.08
24 1 0.03
25 3 0.08
26 18 0.46
27 1 0.03
ACGTcount: A:0.39, C:0.25, G:0.16, T:0.20
Consensus pattern (26 bp):
CACATAGCACATCGTGGGTAAACCAC
Found at i:175962 original size:48 final size:48
Alignment explanation
Indices: 175846--175951 Score: 203
Period size: 48 Copynumber: 2.2 Consensus size: 48
175836 TGTGGACAAG
*
175846 CCACCACATAGATACTGATAAATAGTCACATAGCACATTGTGGGTAAA
1 CCACCACATAGATACTGATAAATAGTCACATAGCACATCGTGGGTAAA
175894 CCACCACATAGATACTGATAAATAGTCACATAGCACATCGTGGGTAAA
1 CCACCACATAGATACTGATAAATAGTCACATAGCACATCGTGGGTAAA
175942 CCACCACATA
1 CCACCACATA
175952 ATTGTCGATA
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 57 1.00
ACGTcount: A:0.40, C:0.25, G:0.15, T:0.21
Consensus pattern (48 bp):
CCACCACATAGATACTGATAAATAGTCACATAGCACATCGTGGGTAAA
Found at i:175976 original size:55 final size:56
Alignment explanation
Indices: 175915--176020 Score: 151
Period size: 56 Copynumber: 1.9 Consensus size: 56
175905 ATACTGATAA
* **
175915 ATAGTCACA-TAGCACATCGTGGGTAAACCACCACATAATTGTCGATAACGGTCAC
1 ATAGTCACATTAGCACATCATGGACAAACCACCACATAATTGTCGATAACGGTCAC
* * *
175970 ATAGTCACATTATCACATCATGGACAAGCCACCACATATTTGTCGATAACG
1 ATAGTCACATTAGCACATCATGGACAAACCACCACATAATTGTCGATAACG
176021 ACCACATAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
55 9 0.20
56 35 0.80
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.24
Consensus pattern (56 bp):
ATAGTCACATTAGCACATCATGGACAAACCACCACATAATTGTCGATAACGGTCAC
Found at i:181809 original size:18 final size:16
Alignment explanation
Indices: 181771--181817 Score: 51
Period size: 15 Copynumber: 2.9 Consensus size: 16
181761 CGGGGCAACA
181771 TCTTCTTCCTCTT-TG
1 TCTTCTTCCTCTTCTG
*
181786 TTTTCTTCCTCTTCTGG
1 TCTTCTTCCTCTTCT-G
*
181803 TCCTTCTTCTTCTTC
1 T-CTTCTTCCTCTTC
181818 ATTCACCTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
15 12 0.46
16 1 0.04
17 2 0.08
18 11 0.42
ACGTcount: A:0.00, C:0.34, G:0.06, T:0.60
Consensus pattern (16 bp):
TCTTCTTCCTCTTCTG
Found at i:187946 original size:3 final size:3
Alignment explanation
Indices: 187938--187974 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
187928 GTTGAGAATA
*
187938 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG ATG TTG T
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG T
187975 CCTTGCATAG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.03, C:0.00, G:0.32, T:0.65
Consensus pattern (3 bp):
TTG
Found at i:192815 original size:23 final size:22
Alignment explanation
Indices: 192779--192822 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
192769 TAAATATTTC
*
192779 ATTAAATAATTTGGGTTGAATTA
1 ATTAAATAAATTGGGTT-AATTA
*
192802 ATTAATTAAATTGGGTTAATT
1 ATTAAATAAATTGGGTTAATT
192823 TTATTTCTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (22 bp):
ATTAAATAAATTGGGTTAATTA
Found at i:195701 original size:25 final size:25
Alignment explanation
Indices: 195667--195715 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
195657 ACTAGAGTCT
195667 CTATTATTTT-CAAGTCTATAGTTTC
1 CTATTATTTTACAA-TCTATAGTTTC
* *
195692 CTATTGTTTTACTATCTATAGTTT
1 CTATTATTTTACAATCTATAGTTT
195716 TTCATAGATC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 19 0.90
26 2 0.10
ACGTcount: A:0.22, C:0.14, G:0.08, T:0.55
Consensus pattern (25 bp):
CTATTATTTTACAATCTATAGTTTC
Found at i:195736 original size:17 final size:18
Alignment explanation
Indices: 195705--195738 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
195695 TTGTTTTACT
195705 ATCTATAGTTTTTCATAG
1 ATCTATAGTTTTTCATAG
195723 ATCTATAG-TTTTCATA
1 ATCTATAGTTTTTCATA
195739 ATGTAAAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.29, C:0.12, G:0.09, T:0.50
Consensus pattern (18 bp):
ATCTATAGTTTTTCATAG
Found at i:199118 original size:23 final size:23
Alignment explanation
Indices: 199088--199140 Score: 106
Period size: 23 Copynumber: 2.3 Consensus size: 23
199078 TGACGACGTT
199088 TCGACGGCAGCGATGGCAGTGAC
1 TCGACGGCAGCGATGGCAGTGAC
199111 TCGACGGCAGCGATGGCAGTGAC
1 TCGACGGCAGCGATGGCAGTGAC
199134 TCGACGG
1 TCGACGG
199141 TAGTTCGATG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.21, C:0.26, G:0.40, T:0.13
Consensus pattern (23 bp):
TCGACGGCAGCGATGGCAGTGAC
Found at i:200943 original size:30 final size:30
Alignment explanation
Indices: 200869--200943 Score: 98
Period size: 29 Copynumber: 2.5 Consensus size: 30
200859 GTTTATGAAA
* *
200869 ATGTAGAAGCCTTTGTGGTTGTTATATGAT
1 ATGTGGAAGCCTTTGTGATTGTTATATGAT
* * *
200899 ATGTGTAA-CCTTTGTGATTGTTCTCTGAT
1 ATGTGGAAGCCTTTGTGATTGTTATATGAT
200928 ATGTGGAAGCCTTTGT
1 ATGTGGAAGCCTTTGT
200944 AGCTGTTCTC
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
29 25 0.66
30 13 0.34
ACGTcount: A:0.20, C:0.11, G:0.25, T:0.44
Consensus pattern (30 bp):
ATGTGGAAGCCTTTGTGATTGTTATATGAT
Found at i:200951 original size:30 final size:29
Alignment explanation
Indices: 200869--200955 Score: 95
Period size: 29 Copynumber: 2.9 Consensus size: 29
200859 GTTTATGAAA
* * *
200869 ATGTAGAAGCCTTTGTGGTTGTTATATGAT
1 ATGTGGAAGCCTTTGT-GTTGTTCTCTGAT
*
200899 ATGTGTAA-CCTTTGTGATTGTTCTCTGAT
1 ATGTGGAAGCCTTTGTG-TTGTTCTCTGAT
*
200928 ATGTGGAAGCCTTTGTAGCTGTTCTCTG
1 ATGTGGAAGCCTTTGT-GTTGTTCTCTG
200956 TTACATTTGA
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
28 1 0.02
29 24 0.50
30 22 0.46
31 1 0.02
ACGTcount: A:0.18, C:0.13, G:0.25, T:0.44
Consensus pattern (29 bp):
ATGTGGAAGCCTTTGTGTTGTTCTCTGAT
Found at i:202204 original size:81 final size:81
Alignment explanation
Indices: 202069--202232 Score: 292
Period size: 81 Copynumber: 2.0 Consensus size: 81
202059 TAAGTACGTC
*
202069 GGTCCTTAAGCTTAACACCCAAAACTTGAATCCCATTTATCGGATCGGGTGGAAGGCATTACACT
1 GGTCCTTAAGCTTAACACCCAAAAATTGAATCCCATTTATCGGATCGGGTGGAAGGCATTACACT
202134 AAGCTTGAAGACCTTA
66 AAGCTTGAAGACCTTA
* * *
202150 GGTCCTTAGGCTTAACACCCAAAAATTGAATCCGATTTATCGGATTGGGTGGAAGGCATTACACT
1 GGTCCTTAAGCTTAACACCCAAAAATTGAATCCCATTTATCGGATCGGGTGGAAGGCATTACACT
202215 AAGCTTGAAGACCTTA
66 AAGCTTGAAGACCTTA
202231 GG
1 GG
202233 AAGTCATTTA
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
81 79 1.00
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.26
Consensus pattern (81 bp):
GGTCCTTAAGCTTAACACCCAAAAATTGAATCCCATTTATCGGATCGGGTGGAAGGCATTACACT
AAGCTTGAAGACCTTA
Found at i:204128 original size:14 final size:14
Alignment explanation
Indices: 204106--204136 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
204096 TGAGACTCTG
*
204106 TTTTCAAGTTATGT
1 TTTTAAAGTTATGT
204120 TTTTAAAGTTATGT
1 TTTTAAAGTTATGT
204134 TTT
1 TTT
204137 ATGTGTGCTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.03, G:0.13, T:0.61
Consensus pattern (14 bp):
TTTTAAAGTTATGT
Found at i:206018 original size:20 final size:20
Alignment explanation
Indices: 205995--206051 Score: 105
Period size: 20 Copynumber: 2.9 Consensus size: 20
205985 AATATTCCTT
205995 ATTGGTTTATTGATTTCCAG
1 ATTGGTTTATTGATTTCCAG
*
206015 ATTGGTTTATTGATTTTCAG
1 ATTGGTTTATTGATTTCCAG
206035 ATTGGTTTATTGATTTC
1 ATTGGTTTATTGATTTC
206052 AAGTCATTTG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.19, C:0.07, G:0.19, T:0.54
Consensus pattern (20 bp):
ATTGGTTTATTGATTTCCAG
Found at i:209995 original size:18 final size:17
Alignment explanation
Indices: 209953--209995 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
209943 GTTTTAAGTT
*
209953 TTTAATATTTTATATTA
1 TTTAATTTTTTATATTA
209970 TGTT-ATTTTTATATATTA
1 T-TTAATTTTT-TATATTA
209988 TTTAATTT
1 TTTAATTT
209996 AGAACACTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (17 bp):
TTTAATTTTTTATATTA
Found at i:218664 original size:21 final size:20
Alignment explanation
Indices: 218626--218664 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
218616 TTATTTAGCC
*
218626 ATTTTTATTTTTATTTAAAT
1 ATTTTTATTTTTACTTAAAT
*
218646 ATTTTTGTTTTTGACTTAA
1 ATTTTTATTTTT-ACTTAA
218665 TTTTTATATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.26, C:0.03, G:0.05, T:0.67
Consensus pattern (20 bp):
ATTTTTATTTTTACTTAAAT
Found at i:221862 original size:18 final size:17
Alignment explanation
Indices: 221834--221893 Score: 77
Period size: 18 Copynumber: 3.4 Consensus size: 17
221824 AGTGATGTCA
221834 TTTAGTTTTATATTTTAT
1 TTTA-TTTTATATTTTAT
221852 TTATATTTTATATTTTAT
1 TT-TATTTTATATTTTAT
221870 TTTCATTTTCAT-TTTTAT
1 TTT-ATTTT-ATATTTTAT
221888 TTTATT
1 TTTATT
221894 ATGCACGGTT
Statistics
Matches: 39, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
17 4 0.10
18 31 0.79
19 4 0.10
ACGTcount: A:0.22, C:0.03, G:0.02, T:0.73
Consensus pattern (17 bp):
TTTATTTTATATTTTAT
Found at i:222853 original size:16 final size:15
Alignment explanation
Indices: 222834--222865 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
222824 TGAAAAAATG
222834 AAAAAAGAGAAGAAAA
1 AAAAAAGAGAA-AAAA
222850 AAAAAAGAGAAAAAA
1 AAAAAAGAGAAAAAA
222865 A
1 A
222866 TTTGTTTGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (15 bp):
AAAAAAGAGAAAAAA
Found at i:225822 original size:18 final size:19
Alignment explanation
Indices: 225783--225822 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
225773 GACATCAGGT
*
225783 TCTT-CTCTTCTTCTTTTC
1 TCTTCCTCTTCTTCTTTCC
225801 -CTTCCTCTTCTT-TTTCC
1 TCTTCCTCTTCTTCTTTCC
225818 TCTTC
1 TCTTC
225823 TATCTCCACA
Statistics
Matches: 19, Mismatches: 1, Indels: 4
0.79 0.04 0.17
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (19 bp):
TCTTCCTCTTCTTCTTTCC
Found at i:227596 original size:20 final size:19
Alignment explanation
Indices: 227561--227598 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
227551 ATTCCTAAAA
227561 AAACTAAAAAAGATAACTG
1 AAACTAAAAAAGATAACTG
227580 AAACATAAACAAA-ATAACT
1 AAAC-TAAA-AAAGATAACT
227599 AAAAGTAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 4 0.24
20 10 0.59
21 3 0.18
ACGTcount: A:0.66, C:0.13, G:0.05, T:0.16
Consensus pattern (19 bp):
AAACTAAAAAAGATAACTG
Found at i:240913 original size:37 final size:37
Alignment explanation
Indices: 240863--240936 Score: 121
Period size: 37 Copynumber: 2.0 Consensus size: 37
240853 TTGGCTTTCG
*
240863 AAACTTAAGTTTTCAGTAATTGCGTTTGACCAAACAA
1 AAACTTAAGTTTTCAATAATTGCGTTTGACCAAACAA
* *
240900 AAACTTAAGTTTTCAATAATTTCTTTTGACCAAACAA
1 AAACTTAAGTTTTCAATAATTGCGTTTGACCAAACAA
240937 GTTTCTATGT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.39, C:0.16, G:0.09, T:0.35
Consensus pattern (37 bp):
AAACTTAAGTTTTCAATAATTGCGTTTGACCAAACAA
Found at i:244969 original size:14 final size:16
Alignment explanation
Indices: 244949--244985 Score: 60
Period size: 14 Copynumber: 2.4 Consensus size: 16
244939 ACCTAAACTT
244949 GACCCAATTTA-CCAA
1 GACCCAATTTACCCAA
244964 -ACCCAATTTACCCAA
1 GACCCAATTTACCCAA
244979 GACCCAA
1 GACCCAA
244986 CAAGCTCGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 10 0.50
15 4 0.20
16 6 0.30
ACGTcount: A:0.41, C:0.38, G:0.05, T:0.16
Consensus pattern (16 bp):
GACCCAATTTACCCAA
Found at i:245474 original size:65 final size:65
Alignment explanation
Indices: 245374--245530 Score: 224
Period size: 65 Copynumber: 2.4 Consensus size: 65
245364 CTATTTCAAA
* * *
245374 TTTATATACGCATGTATATATATATACATACATAGATATACATCTTGATTTTATTTTTATTATTT
1 TTTATATACGTATGTATATATATATACAAACATAGATATACATCTTGATTTCATTTTTATTATTT
* * * * *
245439 TTTATATACGTATGAATATATATATATAAATATAGATATATATTTTGATTTCATTTTTATTATTT
1 TTTATATACGTATGTATATATATATACAAACATAGATATACATCTTGATTTCATTTTTATTATTT
*
245504 TTATATATACGTATGTACATATATATA
1 TT-TATATACGTATGTATATATATATA
245531 GATAGATAGA
Statistics
Matches: 81, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
65 59 0.73
66 22 0.27
ACGTcount: A:0.36, C:0.06, G:0.06, T:0.51
Consensus pattern (65 bp):
TTTATATACGTATGTATATATATATACAAACATAGATATACATCTTGATTTCATTTTTATTATTT
Found at i:245562 original size:65 final size:62
Alignment explanation
Indices: 245374--245569 Score: 182
Period size: 65 Copynumber: 3.0 Consensus size: 62
245364 CTATTTCAAA
* * *
245374 TTTATATACGCATGTATATATATATACATACATAGAT-ATACATCTTGATTTTATTTTTATTATT
1 TTTATATACGTATGTA-ATATATATACATAAATAGATAATACAT-TT--TATTATTTTTATTATT
245438 T
62 T
* *
245439 TTTATATACGTATG-AATATATATATATAAATATAGAT-ATATATTTTGATTTCATTTTTATTAT
1 TTTATATACGTATGTAATATATATACAT-AA-ATAGATAATACATTTT-A-TT-ATTTTTATTAT
245502 TT
61 TT
* * *
245504 TTATATATACGTATGTACATATATATAGATAGATAGATAGATAGATTTTATTATTTTTATATATT
1 TT-TATATACGTATGTA-ATATATATACATAAATAGATA-ATACATTTTATTATTTTTAT-TATT
245569 T
62 T
245570 AAAATAGAAA
Statistics
Matches: 112, Mismatches: 8, Indels: 21
0.79 0.06 0.15
Matches are distributed among these distances:
62 1 0.01
63 11 0.10
64 6 0.05
65 47 0.42
66 25 0.22
67 3 0.03
68 19 0.17
ACGTcount: A:0.36, C:0.05, G:0.08, T:0.51
Consensus pattern (62 bp):
TTTATATACGTATGTAATATATATACATAAATAGATAATACATTTTATTATTTTTATTATTT
Found at i:246503 original size:13 final size:13
Alignment explanation
Indices: 246487--246512 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
246477 TAAATATGTG
246487 TATATTATTTTTT
1 TATATTATTTTTT
246500 TATATTATTTTTT
1 TATATTATTTTTT
246513 CGTTCTCATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (13 bp):
TATATTATTTTTT
Found at i:248020 original size:20 final size:22
Alignment explanation
Indices: 247971--248012 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
247961 GAATGATCAC
247971 TGAGATGAACTAGGGCAAAAAA
1 TGAGATGAACTAGGGCAAAAAA
247993 TGAGATGAACTAGGGCAAAA
1 TGAGATGAACTAGGGCAAAA
248013 TTGGATGATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.48, C:0.10, G:0.29, T:0.14
Consensus pattern (22 bp):
TGAGATGAACTAGGGCAAAAAA
Found at i:250302 original size:13 final size:13
Alignment explanation
Indices: 250270--250302 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
250260 AAAGAAAATC
250270 AAAAAAA-AAGAA
1 AAAAAAAGAAGAA
250282 AAAAAAAGAAGAA
1 AAAAAAAGAAGAA
*
250295 AAAGAAAG
1 AAAAAAAG
250303 GAAAGTCAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (13 bp):
AAAAAAAGAAGAA
Found at i:251046 original size:16 final size:15
Alignment explanation
Indices: 251026--251093 Score: 66
Period size: 16 Copynumber: 4.5 Consensus size: 15
251016 AGATTTCATT
251026 CAAAAAAAAAAGAGAA
1 CAAAAAAAAAAGA-AA
* **
251042 GAAAAGGAAAAGAAA
1 CAAAAAAAAAAGAAA
*
251057 CAAAACAAAAAAAAAA
1 CAAAA-AAAAAAGAAA
*
251073 CAAAAACAAAA-AAA
1 CAAAAAAAAAAGAAA
251087 CAAAAAA
1 CAAAAAA
251094 GGAGAGGTCG
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
14 9 0.21
15 11 0.26
16 22 0.52
ACGTcount: A:0.82, C:0.09, G:0.09, T:0.00
Consensus pattern (15 bp):
CAAAAAAAAAAGAAA
Found at i:251069 original size:17 final size:17
Alignment explanation
Indices: 251049--251086 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
251039 GAAGAAAAGG
*
251049 AAAAGAAAC-AAAACAA
1 AAAAAAAACAAAAACAA
251065 AAAAAAAACAAAAACAA
1 AAAAAAAACAAAAACAA
251082 AAAAA
1 AAAAA
251087 CAAAAAAGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 8 0.40
17 12 0.60
ACGTcount: A:0.87, C:0.11, G:0.03, T:0.00
Consensus pattern (17 bp):
AAAAAAAACAAAAACAA
Found at i:251071 original size:25 final size:24
Alignment explanation
Indices: 251043--251096 Score: 60
Period size: 22 Copynumber: 2.3 Consensus size: 24
251033 AAAAGAGAAG
251043 AAAAGGAAAAGAAACAAAACAAA-AA
1 AAAAGGAAAA-AAACAAAA-AAACAA
*
251068 AAAA--ACAAAAACAAAAAAACAA
1 AAAAGGAAAAAAACAAAAAAACAA
251090 AAAAGGA
1 AAAAGGA
251097 GAGGTCGAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 14 0.56
23 3 0.12
24 1 0.04
25 4 0.16
ACGTcount: A:0.81, C:0.09, G:0.09, T:0.00
Consensus pattern (24 bp):
AAAAGGAAAAAAACAAAAAAACAA
Found at i:251077 original size:8 final size:8
Alignment explanation
Indices: 251058--251093 Score: 54
Period size: 8 Copynumber: 4.4 Consensus size: 8
251048 GAAAAGAAAC
251058 AAAACAAA
1 AAAACAAA
*
251066 AAAAAAACA
1 AAAACAA-A
251075 AAAACAAA
1 AAAACAAA
251083 AAAACAAA
1 AAAACAAA
251091 AAA
1 AAA
251094 GGAGAGGTCG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
8 18 0.72
9 7 0.28
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (8 bp):
AAAACAAA
Found at i:252047 original size:49 final size:49
Alignment explanation
Indices: 251994--252528 Score: 511
Period size: 50 Copynumber: 10.8 Consensus size: 49
251984 AACGAATCTA
* *
251994 ATACCTTAGAA-ATATGAAGGGAAAGGTTGAGGCCGCAACGGTAAACCCT
1 ATACCTT-GAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGTGAACCCG
* * *
252043 ATACCTATAAAGATATGAAGGGAAAGGTTAAGGTCGCAACGGTGAACCCG
1 ATACCT-TGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGTGAACCCG
* * * * *
252093 ATACCTTAGAAGATGTGATGGGGAAAGGTTGAGGTCGCAACGGCGAATCCG
1 ATACCTT-GAAGATATGA-AGGGAAAGGTTGAGGCCGCAACGGTGAACCCG
* * * *
252144 ATACCATGAAGATATGAAGGGAAAGGTTGAGGCCGTAACGGTAAACCCA
1 ATACCTTGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGTGAACCCG
* * * * *
252193 ATACCTTAGAAGATATGAAGGGAAAGATTGAGGCTGTAACGGCGAATCC-
1 ATACCTT-GAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGTGAACCCG
* *
252242 AGTACCATGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGTGAACTCG
1 A-TACCTTGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGTGAACCCG
* * * * * * **
252292 TTACCTTAGAAGATGTGATGGG-AAGATTGAGGCCGTAATGGTGAATTCG
1 ATACCTT-GAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGTGAACCCG
* * * * * * * *
252341 ATACCATGACGATATAAAGAGAAAGGTTAAGGCTGTAACGGTGAACCAG
1 ATACCTTGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGTGAACCCG
* * **
252390 GTACCTTGAAAGATATGAAGGGAAAGGTTGAGGCTGCAA-GAACGAACCCG
1 ATACCTTG-AAGATATGAAGGGAAAGGTTGAGGCCGCAACG-GTGAACCCG
* * * *
252440 ATACCTTGGAAGATGTGATGGAAAAGGTTGAGGCCACAACGGTGAACCCG
1 ATACCTT-GAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGTGAACCCG
* * * *
252490 ATACCATGAGGATATGAAGAGAAAGGTTGAAGCCGCAAC
1 ATACCTTGAAGATATGAAGGGAAAGGTTGAGGCCGCAAC
252529 AACGAATCCA
Statistics
Matches: 392, Mismatches: 81, Indels: 26
0.79 0.16 0.05
Matches are distributed among these distances:
48 9 0.02
49 161 0.41
50 186 0.47
51 36 0.09
ACGTcount: A:0.36, C:0.16, G:0.30, T:0.19
Consensus pattern (49 bp):
ATACCTTGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGTGAACCCG
Found at i:252263 original size:99 final size:100
Alignment explanation
Indices: 251993--252569 Score: 550
Period size: 99 Copynumber: 5.8 Consensus size: 100
251983 CAACGAATCT
* * ** *
251993 AATACCTTAGAA-ATATGAAGGGAAAGGTTGAGGCCGCAACGG-TAAACCCTATACCTATAAAGA
1 AATACCTTAGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGCGAATCCAGATACC-ATGAAGA
* *
252056 TATGAAGGGAAAGGTTAAGGTCGCAACGGTGAACCC
65 TATGAAGGGAAAGGTTGAGGCCGCAACGGTGAACCC
* * * *
252092 GATACCTTAGAAGATGTGATGGGGAAAGGTTGAGGTCGCAACGGCGAATCC-GATACCATGAAGA
1 AATACCTTAGAAGATATGA-AGGGAAAGGTTGAGGCCGCAACGGCGAATCCAGATACCATGAAGA
* *
252156 TATGAAGGGAAAGGTTGAGGCCGTAACGGTAAACCC
65 TATGAAGGGAAAGGTTGAGGCCGCAACGGTGAACCC
* * *
252192 AATACCTTAGAAGATATGAAGGGAAAGATTGAGGCTGTAACGGCGAATCCAG-TACCATGAAGAT
1 AATACCTTAGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGCGAATCCAGATACCATGAAGAT
*
252256 ATGAAGGGAAAGGTTGAGGCCGCAACGGTGAACTC
66 ATGAAGGGAAAGGTTGAGGCCGCAACGGTGAACCC
** * * * * * * * *
252291 GTTACCTTAGAAGATGTGATGGG-AAGATTGAGGCCGTAATGGTGAATTC-GATACCATGACGAT
1 AATACCTTAGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGCGAATCCAGATACCATGAAGAT
* * * * *
252354 ATAAAGAGAAAGGTTAAGGCTGTAACGGTGAA-CC
66 ATGAAGGGAAAGGTTGAGGCCGCAACGGTGAACCC
* * * * *
252388 AGGTACCTT-GAAAGATATGAAGGGAAAGGTTGAGGCTGCAA-GAACGAA-CCCGATACCTTGGA
1 A-ATACCTTAG-AAGATATGAAGGGAAAGGTTGAGGCCGCAACG-GCGAATCCAGATACCAT-GA
* * * *
252450 AGATGTGATGGAAAAGGTTGAGGCCACAACGGTGAACCC
62 AGATATGAAGGGAAAGGTTGAGGCCGCAACGGTGAACCC
* * * * * **
252489 GATACCAT-GAGGATATGAAGAGAAAGGTTGAAGCCGCAACAACGAATCCAG-TACCATGGAA-A
1 AATACCTTAGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGCGAATCCAGATACCAT-GAAGA
* *
252551 TATAAAAGGAAAGGTTGAG
65 TATGAAGGGAAAGGTTGAG
252570 TTCGCAATGA
Statistics
Matches: 391, Mismatches: 73, Indels: 29
0.79 0.15 0.06
Matches are distributed among these distances:
97 3 0.01
98 94 0.24
99 163 0.42
100 98 0.25
101 29 0.07
102 4 0.01
ACGTcount: A:0.36, C:0.15, G:0.30, T:0.19
Consensus pattern (100 bp):
AATACCTTAGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGCGAATCCAGATACCATGAAGAT
ATGAAGGGAAAGGTTGAGGCCGCAACGGTGAACCC
Found at i:253039 original size:120 final size:120
Alignment explanation
Indices: 252772--253211 Score: 594
Period size: 120 Copynumber: 3.6 Consensus size: 120
252762 AAGATAAAGT
* * * *
252772 TGAAACTTCATACCCCATCTTCCTGGTAAGGTATAGAAAAGTAGGTCAAACAATGAAGTGATCAT
1 TGAAACTTCAAACCCCATCTTCCTGGTGAGGTACAGAGAAGTAGGTCAAACAATGAAGTGATCAT
* * *
252837 CTTCCTGGTGAGATATGGAGAAGTGTACAAAAATAATGAGTAGAAGCTCAAATGTGAG
66 CTTCCTGGTGAGATA---AAAAGTGTACCAAAATAATGAGGAGAAGCTCAAATGTGAG
* * * * * *
252895 TGAAACTTTAGACCCCATCTTCCTGATGAGGTACAGAGAAGTAGGTTAAACAATGATGTGGTCAT
1 TGAAACTTCAAACCCCATCTTCCTGGTGAGGTACAGAGAAGTAGGTCAAACAATGAAGTGATCAT
* * * *
252960 CTTCCTAGTGAGATACAAAGTGTACCAAGATAATGAGGAGAAGCTCAAATATGAG
66 CTTCCTGGTGAGATAAAAAGTGTACCAAAATAATGAGGAGAAGCTCAAATGTGAG
* * *
253015 TGAAACTTCAAACCCCATCTTCCTGGTGAGGTACAGAGAAGTAGCTCAAACAATAAAGTGGTCAT
1 TGAAACTTCAAACCCCATCTTCCTGGTGAGGTACAGAGAAGTAGGTCAAACAATGAAGTGATCAT
*
253080 -TATCCTGGTGAGATAAAAAGTGTACCAAAATAATGAGGTGAAGCTCAAATGTGAG
66 CT-TCCTGGTGAGATAAAAAGTGTACCAAAATAATGAGGAGAAGCTCAAATGTGAG
* * * * * *
253135 TGAAACTTCAAACCCCATCTTTCTGGTGAGATATAGAGAAGTGGGTCAAATAATGAAGCGATCAT
1 TGAAACTTCAAACCCCATCTTCCTGGTGAGGTACAGAGAAGTAGGTCAAACAATGAAGTGATCAT
253200 CTTCCTGGTGAG
66 CTTCCTGGTGAG
253212 GTATAGAGAA
Statistics
Matches: 278, Mismatches: 37, Indels: 7
0.86 0.11 0.02
Matches are distributed among these distances:
119 1 0.00
120 206 0.74
121 1 0.00
123 70 0.25
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (120 bp):
TGAAACTTCAAACCCCATCTTCCTGGTGAGGTACAGAGAAGTAGGTCAAACAATGAAGTGATCAT
CTTCCTGGTGAGATAAAAAGTGTACCAAAATAATGAGGAGAAGCTCAAATGTGAG
Found at i:253232 original size:47 final size:48
Alignment explanation
Indices: 253150--253241 Score: 123
Period size: 47 Copynumber: 1.9 Consensus size: 48
253140 CTTCAAACCC
* * ** *
253150 CATCTTTCTGGTGAGATATAGAGAAGTGGGTCAAAT-AATGAAGCGAT
1 CATCTTCCTGGTGAGATATAGAGAAGTAGACCAAATCAACGAAGCGAT
*
253197 CATCTTCCTGGTGAGGTATAGAGAAGTAGACCAAATCAACGAAGC
1 CATCTTCCTGGTGAGATATAGAGAAGTAGACCAAATCAACGAAGC
253242 AAGAGCGTGT
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
47 31 0.82
48 7 0.18
ACGTcount: A:0.35, C:0.15, G:0.26, T:0.24
Consensus pattern (48 bp):
CATCTTCCTGGTGAGATATAGAGAAGTAGACCAAATCAACGAAGCGAT
Found at i:263331 original size:14 final size:15
Alignment explanation
Indices: 263294--263331 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
263284 CCCGAGGTCA
*
263294 ACCACCACGCTTCTG
1 ACCACCACGCCTCTG
263309 ACACACCACGCCTCTG
1 AC-CACCACGCCTCTG
263325 -CCACCAC
1 ACCACCAC
263332 CTACCACCGC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 6 0.29
15 3 0.14
16 12 0.57
ACGTcount: A:0.24, C:0.53, G:0.11, T:0.13
Consensus pattern (15 bp):
ACCACCACGCCTCTG
Found at i:263373 original size:13 final size:13
Alignment explanation
Indices: 263355--263390 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
263345 AAGCACCAAT
263355 AAAGAAAAAAGAC
1 AAAGAAAAAAGAC
263368 AAAG-AAAAAGAC
1 AAAGAAAAAAGAC
263380 AAAGAAGAAAA
1 AAAGAA-AAAA
263391 AAAAAAAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 12 0.57
13 5 0.24
14 4 0.19
ACGTcount: A:0.78, C:0.06, G:0.17, T:0.00
Consensus pattern (13 bp):
AAAGAAAAAAGAC
Found at i:263377 original size:12 final size:12
Alignment explanation
Indices: 263355--263405 Score: 54
Period size: 12 Copynumber: 4.2 Consensus size: 12
263345 AAGCACCAAT
263355 AAAGAAAAAAGAC
1 AAAG-AAAAAGAC
263368 AAAGAAAAAGAC
1 AAAGAAAAAGAC
263380 AAAGAAGAAA-A-
1 AAAGAA-AAAGAC
263391 AAA-AAAAAGAAC
1 AAAGAAAAAG-AC
263403 AAA
1 AAA
263406 AGAACAAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
9 3 0.09
10 2 0.06
11 4 0.12
12 18 0.53
13 7 0.21
ACGTcount: A:0.80, C:0.06, G:0.14, T:0.00
Consensus pattern (12 bp):
AAAGAAAAAGAC
Found at i:263394 original size:19 final size:19
Alignment explanation
Indices: 263355--263413 Score: 55
Period size: 22 Copynumber: 2.8 Consensus size: 19
263345 AAGCACCAAT
263355 AAAGAAAAAAGACAAAGAA
1 AAAGAAAAAAGACAAAGAA
* *
263374 AAAGACAAAGAAGAAAAAAAAA
1 AAAGA-AAA-AAG-ACAAAGAA
263396 AAAGAACAAAAGAACAAA
1 AAAGAA-AAAAG-ACAAA
263414 ATATGTAATG
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
19 5 0.15
20 3 0.09
21 12 0.36
22 13 0.39
ACGTcount: A:0.80, C:0.07, G:0.14, T:0.00
Consensus pattern (19 bp):
AAAGAAAAAAGACAAAGAA
Found at i:263723 original size:20 final size:20
Alignment explanation
Indices: 263698--263735 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
263688 ATTATTTTTA
*
263698 TATATACATATGTACATATC
1 TATATACATATATACATATC
*
263718 TATATATATATATACATA
1 TATATACATATATACATA
263736 GATCTAGATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.45, C:0.11, G:0.03, T:0.42
Consensus pattern (20 bp):
TATATACATATATACATATC
Found at i:264706 original size:13 final size:13
Alignment explanation
Indices: 264690--264720 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
264680 TAAATATGTG
264690 TATATTATTTTTT
1 TATATTATTTTTT
264703 TATATTATTTTTT
1 TATATTATTTTTT
264716 T-TATT
1 TATATT
264721 CTCATCATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.22
13 14 0.78
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (13 bp):
TATATTATTTTTT
Found at i:265938 original size:16 final size:17
Alignment explanation
Indices: 265914--265962 Score: 66
Period size: 16 Copynumber: 2.9 Consensus size: 17
265904 CGACCTGACC
265914 TATTTTTATATTTATAA
1 TATTTTTATATTTATAA
*
265931 TA-TTTTATA-TTATAT
1 TATTTTTATATTTATAA
265946 TATTTTTATATATTATA
1 TATTTTTATAT-TTATA
265963 TAATTTAGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
15 7 0.25
16 14 0.50
17 2 0.07
18 5 0.18
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TATTTTTATATTTATAA
Found at i:265949 original size:15 final size:15
Alignment explanation
Indices: 265917--265961 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
265907 CCTGACCTAT
*
265917 TTTTATATTTATAATA
1 TTTTATA-TTATATTA
265933 TTTTATATTATATTA
1 TTTTATATTATATTA
265948 TTTT-TA-TATATTA
1 TTTTATATTATATTA
265961 T
1 T
265962 ATAATTTAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
13 8 0.29
14 2 0.07
15 11 0.39
16 7 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTTATATTATATTA
Found at i:265959 original size:18 final size:18
Alignment explanation
Indices: 265914--265968 Score: 64
Period size: 18 Copynumber: 3.3 Consensus size: 18
265904 CGACCTGACC
265914 TATTTTTATAT-TTATA-
1 TATTTTTATATATTATAT
*
265930 -ATATTT-TATATTATAT
1 TATTTTTATATATTATAT
265946 TATTTTTATATATTATAT
1 TATTTTTATATATTATAT
*
265964 AATTT
1 TATTT
265969 AGAACACAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
14 3 0.09
15 10 0.31
17 5 0.16
18 14 0.44
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
TATTTTTATATATTATAT
Found at i:267463 original size:19 final size:22
Alignment explanation
Indices: 267425--267467 Score: 65
Period size: 19 Copynumber: 2.1 Consensus size: 22
267415 ATATTTATTT
267425 TAAATATGATATTATAAAATAA
1 TAAATATGATATTATAAAATAA
267447 TAAATAT-ATATT-T-AAATAA
1 TAAATATGATATTATAAAATAA
267466 TA
1 TA
267468 TTTAAATTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 8 0.38
20 1 0.05
21 5 0.24
22 7 0.33
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (22 bp):
TAAATATGATATTATAAAATAA
Found at i:267470 original size:11 final size:12
Alignment explanation
Indices: 267413--267474 Score: 53
Period size: 11 Copynumber: 5.3 Consensus size: 12
267403 TTTAAAAATA
*
267413 AAATATTTATTTT
1 AAATATATA-TTT
267426 AAATATGATATTAT
1 AAATAT-ATATT-T
267440 AAA-ATA-A--T
1 AAATATATATTT
267448 AAATATATATTT
1 AAATATATATTT
267460 AAATA-ATATTT
1 AAATATATATTT
267471 AAAT
1 AAAT
267475 TAGTTAATAT
Statistics
Matches: 42, Mismatches: 1, Indels: 14
0.74 0.02 0.25
Matches are distributed among these distances:
8 4 0.10
9 3 0.07
10 1 0.02
11 11 0.26
12 7 0.17
13 10 0.24
14 6 0.14
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (12 bp):
AAATATATATTT
Found at i:268806 original size:21 final size:21
Alignment explanation
Indices: 268777--268827 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
268767 TGATTAAGTC
**
268777 TTTATATTTTAAATTTTCAAAT
1 TTTA-ATTTTAAATTTAAAAAT
**
268799 TTTAATTTTTTATTTAAAAAT
1 TTTAATTTTAAATTTAAAAAT
268820 TTTAATTT
1 TTTAATTT
268828 AATTATTATT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
21 21 0.84
22 4 0.16
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (21 bp):
TTTAATTTTAAATTTAAAAAT
Found at i:272557 original size:14 final size:15
Alignment explanation
Indices: 272527--272560 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
272517 AATAATATAG
*
272527 TAATAAACATGAATT
1 TAATAAACATAAATT
272542 TAATAAA-ATAAATT
1 TAATAAACATAAATT
272556 TAATA
1 TAATA
272561 TTAAACTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (15 bp):
TAATAAACATAAATT
Found at i:272591 original size:20 final size:19
Alignment explanation
Indices: 272536--272591 Score: 51
Period size: 20 Copynumber: 2.9 Consensus size: 19
272526 GTAATAAACA
*
272536 TGAATTTAATAAAATAAATT
1 TGAATATAA-AAAATAAATT
* **
272556 T-AATATTAAACTTAAATTT
1 TGAATATAAAAAATAAA-TT
272575 TGAATATAAAAAATAAA
1 TGAATATAAAAAATAAA
272592 AAAAAAACTC
Statistics
Matches: 27, Mismatches: 7, Indels: 4
0.71 0.18 0.11
Matches are distributed among these distances:
18 6 0.22
19 8 0.30
20 13 0.48
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.38
Consensus pattern (19 bp):
TGAATATAAAAAATAAATT
Found at i:285828 original size:18 final size:18
Alignment explanation
Indices: 285805--285843 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
285795 ATAATTTATT
285805 TAATTAAATTGAAT-AAAC
1 TAATTAAA-TGAATCAAAC
285823 TAATTAAATGAATCAAAC
1 TAATTAAATGAATCAAAC
285841 TAA
1 TAA
285844 AAATAGATGG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.56, C:0.08, G:0.05, T:0.31
Consensus pattern (18 bp):
TAATTAAATGAATCAAAC
Found at i:286595 original size:24 final size:25
Alignment explanation
Indices: 286560--286612 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 25
286550 GTTTTGGTGC
286560 TTTTTTTACTG-TTTTG-GTTGATGT
1 TTTTTTTACTGTTTTTGAGTTGAT-T
*
286584 TTTTTTTGCTGTTTTTGAGTTGATT
1 TTTTTTTACTGTTTTTGAGTTGATT
286609 TTTT
1 TTTT
286613 ATTGTTTTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 10 0.38
25 10 0.38
26 6 0.23
ACGTcount: A:0.08, C:0.04, G:0.19, T:0.70
Consensus pattern (25 bp):
TTTTTTTACTGTTTTTGAGTTGATT
Found at i:286663 original size:44 final size:44
Alignment explanation
Indices: 286608--286707 Score: 130
Period size: 44 Copynumber: 2.3 Consensus size: 44
286598 TTGAGTTGAT
* *
286608 TTTTTATTGTTTTGATTGCTATTTTCG-TGTTAATTTTGCTGTTA
1 TTTTTGTTGTTTT-ATTGCTATTTTCGCTGCTAATTTTGCTGTTA
* * * *
286652 TTTTTGTTGTTTTATTGTTATTTTTGCTGCTATTTTTGTTGTTA
1 TTTTTGTTGTTTTATTGCTATTTTCGCTGCTAATTTTGCTGTTA
286696 TTTTTGTTGTTT
1 TTTTTGTTGTTT
286708 GGATGTTATT
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
43 11 0.22
44 38 0.78
ACGTcount: A:0.10, C:0.05, G:0.16, T:0.69
Consensus pattern (44 bp):
TTTTTGTTGTTTTATTGCTATTTTCGCTGCTAATTTTGCTGTTA
Found at i:286671 original size:32 final size:33
Alignment explanation
Indices: 286635--286720 Score: 104
Period size: 32 Copynumber: 2.7 Consensus size: 33
286625 GCTATTTTCG
286635 TGTTAATTTTGCTGTTATTTTTGTTGTT-TTAT
1 TGTTAATTTTGCTGTTATTTTTGTTGTTATTAT
* * *
286667 TGTTATTTTTGCTGCTATTTTTGTTGTTATTTT
1 TGTTAATTTTGCTGTTATTTTTGTTGTTATTAT
* * *
286700 TGTT-GTTTGGATGTTATTTTT
1 TGTTAATTTTGCTGTTATTTTT
286721 TATTCGTTTT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
32 39 0.85
33 7 0.15
ACGTcount: A:0.10, C:0.03, G:0.17, T:0.69
Consensus pattern (33 bp):
TGTTAATTTTGCTGTTATTTTTGTTGTTATTAT
Found at i:286676 original size:12 final size:12
Alignment explanation
Indices: 286617--286706 Score: 73
Period size: 12 Copynumber: 7.8 Consensus size: 12
286607 TTTTTTATTG
*
286617 TTTTGATTGCTAT
1 TTTTG-TTGTTAT
* *
286630 TTTCG-TGTTAA
1 TTTTGTTGTTAT
*
286641 TTTTGCTGTTAT
1 TTTTGTTGTTAT
286653 TTTTGTTG----
1 TTTTGTTGTTAT
*
286661 TTTTATTGTTAT
1 TTTTGTTGTTAT
* *
286673 TTTTGCTGCTAT
1 TTTTGTTGTTAT
286685 TTTTGTTGTTAT
1 TTTTGTTGTTAT
286697 TTTTGTTGTT
1 TTTTGTTGTT
286707 TGGATGTTAT
Statistics
Matches: 60, Mismatches: 12, Indels: 11
0.72 0.14 0.13
Matches are distributed among these distances:
8 7 0.12
11 8 0.13
12 41 0.68
13 4 0.07
ACGTcount: A:0.10, C:0.06, G:0.17, T:0.68
Consensus pattern (12 bp):
TTTTGTTGTTAT
Found at i:286924 original size:49 final size:47
Alignment explanation
Indices: 286831--286925 Score: 113
Period size: 50 Copynumber: 2.0 Consensus size: 47
286821 TATCTTAATA
* *
286831 TAATTTTTTAATGTATTTTAAATTTATTTATTTTTTAATGTTTGTTT
1 TAATTTTTTAATGTATTTTAAATTTATATATTTTTTAATATTTGTTT
*
286878 TAATGTTTTTAA-GTATATTTGATATATTATATATTTTTTAA-ATTTGTT
1 TAAT-TTTTTAATGTAT-TTT-AAAT-TTATATATTTTTTAATATTTGTT
286926 GTATGTAATA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
47 8 0.20
48 10 0.24
49 9 0.22
50 14 0.34
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.64
Consensus pattern (47 bp):
TAATTTTTTAATGTATTTTAAATTTATATATTTTTTAATATTTGTTT
Found at i:293586 original size:30 final size:29
Alignment explanation
Indices: 293552--293944 Score: 115
Period size: 30 Copynumber: 13.4 Consensus size: 29
293542 TAGAAATCAT
*
293552 ATTTTGACCCTCGAACTTTTATAAAATTAC
1 ATTTTGACCCTCAAACTTTTA-AAAATTAC
* * *
293582 ATTTTGA-CCTCTAAAGTTTAACAAAATTAT
1 ATTTTGACCCTC-AAACTTTTA-AAAATTAC
* * * *
293612 ATTTTTATCCAT-GAACTTCTCAAAAATTAC
1 ATTTTGA-CCCTCAAACTT-TTAAAAATTAC
* * * * *
293642 ATTCTCACCC-CTGAAGTTCTCAAAAATTAC
1 ATTTTGACCCTC-AAACTT-TTAAAAATTAC
** ** *
293672 ATTTTG-CTTTCAAACTTCCAAAAATCAC
1 ATTTTGACCCTCAAACTTTTAAAAATTAC
* * *
293700 ATTTTTACCC-AAAACTTTTCAAAAGTTAC
1 ATTTTGACCCTCAAACTTTT-AAAAATTAC
* * ** *
293729 ATCTTGACCCTCGAACTTATCCAAAATTAT
1 ATTTTGACCCTCAAACTT-TTAAAAATTAC
* * * * * *
293759 ATTTCGAGCCTCGAACTCTTTTAAAATCAT
1 ATTTTGACCCTCAAACT-TTTAAAAATTAC
* * * *
293789 ATTTTCACCCT-AAAATTTTCTAAAATTTC
1 ATTTTGACCCTCAAACTTTT-AAAAATTAC
* * ** *
293818 ATTTT-TCCCTCAAACATCCAAAAATTTCC
1 ATTTTGACCCTCAAACTTTTAAAAA-TTAC
**
293847 ATTTTGACCCT-AAACTTTTTCAAATTAC
1 ATTTTGACCCTCAAACTTTTAAAAATTAC
* * * *
293875 ATTTTTACTCCT-GAACATCTAAAAATTACC
1 ATTTTGAC-CCTCAAACTTTTAAAAATTA-C
* * *
293905 ATTTTG-CGCTCAAA-TTTCCAAAAATTTC
1 ATTTTGACCCTCAAACTTT-TAAAAATTAC
293933 AATTTTGACCCT
1 -ATTTTGACCCT
293945 AAATTCCTCG
Statistics
Matches: 260, Mismatches: 81, Indels: 44
0.68 0.21 0.11
Matches are distributed among these distances:
28 45 0.17
29 91 0.35
30 118 0.45
31 4 0.02
32 2 0.01
ACGTcount: A:0.34, C:0.23, G:0.05, T:0.38
Consensus pattern (29 bp):
ATTTTGACCCTCAAACTTTTAAAAATTAC
Found at i:293821 original size:29 final size:28
Alignment explanation
Indices: 293789--293879 Score: 67
Period size: 28 Copynumber: 3.2 Consensus size: 28
293779 TTAAAATCAT
293789 ATTTTCACCCTAAAATTTTCTAAAATTTC
1 ATTTT-ACCCTAAAATTTTCTAAAATTTC
* * ** * *
293818 ATTTTTCCCTCAAACATCCAAAAATTTCC
1 ATTTTACCCTAAAATTTTCTAAAATTT-C
* * *
293847 ATTTTGACCCTAAACTTTT-TCAAATTAC
1 ATTTT-ACCCTAAAATTTTCTAAAATTTC
293875 ATTTT
1 ATTTT
293880 TACTCCTGAA
Statistics
Matches: 45, Mismatches: 15, Indels: 5
0.69 0.23 0.08
Matches are distributed among these distances:
28 22 0.49
29 16 0.36
30 7 0.16
ACGTcount: A:0.33, C:0.23, G:0.01, T:0.43
Consensus pattern (28 bp):
ATTTTACCCTAAAATTTTCTAAAATTTC
Found at i:293857 original size:58 final size:59
Alignment explanation
Indices: 293789--293947 Score: 157
Period size: 58 Copynumber: 2.7 Consensus size: 59
293779 TTAAAATCAT
* *
293789 ATTTTCACCCTAAAATTTTCTAAAATTTCATTTTT-C-CCTCAAACATCCAAAAATTTCC
1 ATTTTGACCCTAAAATTTTCTAAAATTTCATTTTTACTCCT-AAACATCCAAAAATTACC
* * * * *
293847 ATTTTGACCCTAAACTTTT-TCAAATTACATTTTTACTCCTGAACATCTAAAAATTACC
1 ATTTTGACCCTAAAATTTTCTAAAATTTCATTTTTACTCCTAAACATCCAAAAATTACC
* * * * *
293905 ATTTTG-CGCTCAAATTTCCAAAAATTTCAATTTTGAC-CCTAAA
1 ATTTTGACCCTAAAATTTTCTAAAATTTC-ATTTTTACTCCTAAA
293948 TTCCTCGAAA
Statistics
Matches: 81, Mismatches: 16, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
57 21 0.26
58 50 0.62
59 10 0.12
ACGTcount: A:0.35, C:0.23, G:0.03, T:0.39
Consensus pattern (59 bp):
ATTTTGACCCTAAAATTTTCTAAAATTTCATTTTTACTCCTAAACATCCAAAAATTACC
Found at i:293948 original size:29 final size:29
Alignment explanation
Indices: 293789--293949 Score: 77
Period size: 29 Copynumber: 5.6 Consensus size: 29
293779 TTAAAATCAT
* * * *
293789 ATTTTCACCCTAAAATTTTCTAAAATTTC
1 ATTTTGACCCTCAAATTTCCAAAAATTTC
* **
293818 ATTTT-TCCCTCAAACATCCAAAAATTTCC
1 ATTTTGACCCTCAAATTTCCAAAAATTT-C
* *
293847 ATTTTGACCCT-AAACTTTTTC--AAATTAC
1 ATTTTGACCCTCAAA--TTTCCAAAAATTTC
* * * *
293875 ATTTTTACTCCTGAACA--TCTAAAAATTACC
1 ATTTTGAC-CCTCAA-ATTTCCAAAAATT-TC
*
293905 ATTTTG-CGCTCAAATTTCCAAAAATTTC
1 ATTTTGACCCTCAAATTTCCAAAAATTTC
293933 AATTTTGACCCT-AAATT
1 -ATTTTGACCCTCAAATT
293950 CCTCGAAAAT
Statistics
Matches: 97, Mismatches: 21, Indels: 28
0.66 0.14 0.19
Matches are distributed among these distances:
27 2 0.02
28 29 0.30
29 48 0.49
30 15 0.15
31 3 0.03
ACGTcount: A:0.34, C:0.23, G:0.03, T:0.40
Consensus pattern (29 bp):
ATTTTGACCCTCAAATTTCCAAAAATTTC
Found at i:296151 original size:3 final size:3
Alignment explanation
Indices: 296143--296167 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
296133 CCTTATATCA
296143 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
296168 TAAAACATCG
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:296205 original size:27 final size:23
Alignment explanation
Indices: 296156--296211 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 23
296146 TATTATTATT
296156 ATTATT-ATTATTTAAAACATCGA
1 ATTATTGA-TATTTAAAACATCGA
296179 ATATATTGATATTTGAAAACCATTCGA
1 AT-TATTGATATTT-AAAA-CA-TCGA
296206 ATTATT
1 ATTATT
296212 TCGACTTTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
23 2 0.07
24 9 0.32
25 5 0.18
26 6 0.21
27 6 0.21
ACGTcount: A:0.41, C:0.09, G:0.07, T:0.43
Consensus pattern (23 bp):
ATTATTGATATTTAAAACATCGA
Found at i:298281 original size:24 final size:24
Alignment explanation
Indices: 298238--298284 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
298228 CATACATAAA
*
298238 TAAATTTAATCTTTATTTTTTAAT
1 TAAATTTAATCTTTAGTTTTTAAT
* *
298262 TAAATTTAATTTTTCGTTTTTAA
1 TAAATTTAATCTTTAGTTTTTAA
298285 AAAAAAGTCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (24 bp):
TAAATTTAATCTTTAGTTTTTAAT
Found at i:298533 original size:11 final size:10
Alignment explanation
Indices: 298518--298546 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
298508 TAAAAAAAAA
298518 TAAAAAATTC
1 TAAAAAATTC
298528 TAAAAAATTC
1 TAAAAAATTC
298538 TAAAAAATT
1 TAAAAAATT
298547 AGCATGAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.31
Consensus pattern (10 bp):
TAAAAAATTC
Found at i:299566 original size:19 final size:18
Alignment explanation
Indices: 299539--299585 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
299529 CCATCGAAGT
* *
299539 AATAAATAAATAACATAAA
1 AATATATAAA-AACAAAAA
*
299558 AATATATAAAAAGAAAAA
1 AATATATAAAAACAAAAA
299576 AAT-TATAAAA
1 AATATATAAAA
299586 CTAGTTCTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 7 0.28
18 9 0.36
19 9 0.36
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.21
Consensus pattern (18 bp):
AATATATAAAAACAAAAA
Found at i:303774 original size:22 final size:22
Alignment explanation
Indices: 303748--303793 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
303738 TTGGTGTTTT
303748 TTCAATAAAAATTATAAAAA-AA
1 TTCAA-AAAAATTATAAAAATAA
* *
303770 TTCAAAATATTTATAAAAATAA
1 TTCAAAAAAATTATAAAAATAA
303792 TT
1 TT
303794 TTTTTAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (22 bp):
TTCAAAAAAATTATAAAAATAA
Found at i:307563 original size:156 final size:156
Alignment explanation
Indices: 307279--307591 Score: 599
Period size: 156 Copynumber: 2.0 Consensus size: 156
307269 AATCCAAATT
*
307279 CCAATCCCATGTTTGAACCCCAAAAGTGGGGCAAAGATTTTAATTTTAGAAAAATCGTGTACGAT
1 CCAATCCCATGTTTGAACCCCAAAAATGGGGCAAAGATTTTAATTTTAGAAAAATCGTGTACGAT
*
307344 GGGTCAAGACTTTGGAAAGGATACATGTGCAGTGGAAAATACGGTGAAGGACCTGCTTGGAATTT
66 GGGTCAAGACTTTGGAAAGGATACATGTGCAATGGAAAATACGGTGAAGGACCTGCTTGGAATTT
307409 AAGGAATGCAAGAGTCTATCGAGGAA
131 AAGGAATGCAAGAGTCTATCGAGGAA
307435 CCAATCCCATGTTTGAACCCCAAAAATGGGGCAAAGATTTTAATTTTAGAAAAATCGTGTACGAT
1 CCAATCCCATGTTTGAACCCCAAAAATGGGGCAAAGATTTTAATTTTAGAAAAATCGTGTACGAT
307500 GGGTCAAGACTTTGGAAAGGATACATGTGCAATGGAAAATACGGTGAAGGACCTGCTTGGAATTT
66 GGGTCAAGACTTTGGAAAGGATACATGTGCAATGGAAAATACGGTGAAGGACCTGCTTGGAATTT
*
307565 AAGGAATGCAATAGTCTATCGAGGAA
131 AAGGAATGCAAGAGTCTATCGAGGAA
307591 C
1 C
307592 ATGTGAGTGA
Statistics
Matches: 154, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
156 154 1.00
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.25
Consensus pattern (156 bp):
CCAATCCCATGTTTGAACCCCAAAAATGGGGCAAAGATTTTAATTTTAGAAAAATCGTGTACGAT
GGGTCAAGACTTTGGAAAGGATACATGTGCAATGGAAAATACGGTGAAGGACCTGCTTGGAATTT
AAGGAATGCAAGAGTCTATCGAGGAA
Found at i:308872 original size:25 final size:24
Alignment explanation
Indices: 308843--308895 Score: 70
Period size: 25 Copynumber: 2.2 Consensus size: 24
308833 TATTGAATCC
* * *
308843 ATTTTTTTATTTTTTAAATATTATT
1 ATTTTTATAATTTTTAAATAAT-TT
308868 ATTTTTATAATTTTTAAATAATTT
1 ATTTTTATAATTTTTAAATAATTT
308892 ATTT
1 ATTT
308896 AATGAAATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 6 0.24
25 19 0.76
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (24 bp):
ATTTTTATAATTTTTAAATAATTT
Found at i:313062 original size:39 final size:39
Alignment explanation
Indices: 313007--313219 Score: 180
Period size: 39 Copynumber: 5.5 Consensus size: 39
312997 TTAGTCTAGT
* *
313007 AGTGTTTACAATGTCACTA-CTGCTTCAGTATAGCATTAC
1 AGTGTTTACAGTGTCACTATCAG-TTCAGTATAGCATTAC
* * * *
313046 GGTGTTTATAGTGTCACCATCAGTTCAGTATAGCATTGC
1 AGTGTTTACAGTGTCACTATCAGTTCAGTATAGCATTAC
** * * **
313085 AGTGTTTACAGTGTCACTGCCAGTTCAATATATCATTGT
1 AGTGTTTACAGTGTCACTATCAGTTCAGTATAGCATTAC
** * *** *
313124 AGTGTTTACAGTGTCACTGCCAATTCAGTATAATGTTGC
1 AGTGTTTACAGTGTCACTATCAGTTCAGTATAGCATTAC
* * * *
313163 AGTGTTTACTGTGTCACTGTC-GATTCAGTATAACATT-G
1 AGTGTTTACAGTGTCACTATCAG-TTCAGTATAGCATTAC
313201 AGTGTTTACAGTGTCACTA
1 AGTGTTTACAGTGTCACTA
313220 CCGGTTCAAT
Statistics
Matches: 144, Mismatches: 28, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
38 17 0.12
39 125 0.87
40 2 0.01
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.37
Consensus pattern (39 bp):
AGTGTTTACAGTGTCACTATCAGTTCAGTATAGCATTAC
Found at i:313129 original size:78 final size:77
Alignment explanation
Indices: 313007--313217 Score: 210
Period size: 78 Copynumber: 2.7 Consensus size: 77
312997 TTAGTCTAGT
* * * * * * * * *
313007 AGTGTTTACAATGTCACTACTGCTTCAGTATAGCATT-ACGGTGTTTATAGTGTCACCATCAGTT
1 AGTGTTTACAGTGTCACTGCCGATTCAATATAACATTGA--GTGTTTACAGTGTCACCACCAATT
*
313071 CAGTATAGCATTGC
64 CAGTATAACATTGC
* **
313085 AGTGTTTACAGTGTCACTGCC-AGTTCAATATATCATTGTAGTGTTTACAGTGTCACTGCCAATT
1 AGTGTTTACAGTGTCACTGCCGA-TTCAATATAACATTG-AGTGTTTACAGTGTCACCACCAATT
**
313149 CAGTATAATGTTGC
64 CAGTATAACATTGC
* * *
313163 AGTGTTTACTGTGTCACTGTCGATTCAGTATAACATTGAGTGTTTACAGTGTCAC
1 AGTGTTTACAGTGTCACTGCCGATTCAATATAACATTGAGTGTTTACAGTGTCAC
313218 TACCGGTTCA
Statistics
Matches: 111, Mismatches: 18, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
77 17 0.15
78 92 0.83
79 1 0.01
80 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.37
Consensus pattern (77 bp):
AGTGTTTACAGTGTCACTGCCGATTCAATATAACATTGAGTGTTTACAGTGTCACCACCAATTCA
GTATAACATTGC
Done.