Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 186 of 207
Found at i:56659110 original size:24 final size:25
Alignment explanation
Indices: 56659083--56659134 Score: 61
Period size: 26 Copynumber: 2.1 Consensus size: 25
56659073 TCTTATTTTA
*
56659083 ATTTAATATTTA-ATAATTTTATAT
1 ATTTAATATTTATAAAATTTTATAT
**
56659107 ATTTTTTATTTATTAAAATTTTATAT
1 ATTTAATATTTA-TAAAATTTTATAT
56659133 AT
1 AT
56659135 AGTTACCTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 10 0.43
26 13 0.57
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (25 bp):
ATTTAATATTTATAAAATTTTATAT
Found at i:56672681 original size:18 final size:18
Alignment explanation
Indices: 56672634--56672682 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
56672624 GTAGTGATTC
56672634 AATTTGGTTAATTCGGTT
1 AATTTGGTTAATTCGGTT
* *
56672652 AATTCGGGTAATTCGGTT
1 AATTTGGTTAATTCGGTT
56672670 AATTTGGTTAATT
1 AATTTGGTTAATT
56672683 TTTAACCAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.24, C:0.06, G:0.22, T:0.47
Consensus pattern (18 bp):
AATTTGGTTAATTCGGTT
Found at i:56672683 original size:9 final size:9
Alignment explanation
Indices: 56672634--56672682 Score: 71
Period size: 9 Copynumber: 5.4 Consensus size: 9
56672624 GTAGTGATTC
*
56672634 AATTTGGTT
1 AATTCGGTT
56672643 AATTCGGTT
1 AATTCGGTT
*
56672652 AATTCGGGT
1 AATTCGGTT
56672661 AATTCGGTT
1 AATTCGGTT
*
56672670 AATTTGGTT
1 AATTCGGTT
56672679 AATT
1 AATT
56672683 TTTAACCAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 36 1.00
ACGTcount: A:0.24, C:0.06, G:0.22, T:0.47
Consensus pattern (9 bp):
AATTCGGTT
Found at i:56672860 original size:12 final size:12
Alignment explanation
Indices: 56672843--56672867 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
56672833 TGTTATTTTG
56672843 GGTCGGTTAACC
1 GGTCGGTTAACC
56672855 GGTCGGTTAACC
1 GGTCGGTTAACC
56672867 G
1 G
56672868 AATGAACACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:56678418 original size:23 final size:23
Alignment explanation
Indices: 56678359--56678406 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
56678349 GGTAATTCAC
56678359 GTAGAACACATACAACACTATTT
1 GTAGAACACATACAACACTATTT
56678382 GTAGAACACATACAACACTATTT
1 GTAGAACACATACAACACTATTT
56678405 GT
1 GT
56678407 CTTATACGTA
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:0.42, C:0.21, G:0.10, T:0.27
Consensus pattern (23 bp):
GTAGAACACATACAACACTATTT
Found at i:56685586 original size:6 final size:6
Alignment explanation
Indices: 56685577--56685611 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
56685567 GAGATGATGA
*
56685577 GATTGG GATTGG GATTGG CATTGG GATT-G GATTGG
1 GATTGG GATTGG GATTGG GATTGG GATTGG GATTGG
56685612 AGGGTTGAGC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.17, C:0.03, G:0.46, T:0.34
Consensus pattern (6 bp):
GATTGG
Found at i:56695461 original size:19 final size:17
Alignment explanation
Indices: 56695451--56695630 Score: 150
Period size: 17 Copynumber: 10.4 Consensus size: 17
56695441 ATTTTTATTT
56695451 AACACGAGAATTTTTGAA
1 AACACGAGAATTTTT-AA
56695469 AACACGAGAATTTTT-A
1 AACACGAGAATTTTTAA
* *
56695485 AACAGGA-AAATTTTAGA
1 AACACGAGAATTTTTA-A
* *
56695502 AACATGAAAATTTTTAGA
1 AACACGAGAATTTTTA-A
*
56695520 AACACGAAAATTTTTAA
1 AACACGAGAATTTTTAA
* * *
56695537 AACACGACATTTTTTTTGA
1 AACACGAGA--ATTTTTAA
*
56695556 AACACGGGAATTTTTAA
1 AACACGAGAATTTTTAA
* *
56695573 AACA-GGGAAATTTTAGA
1 AACACGAGAATTTTTA-A
*
56695590 AACACGAAAATTTTTAA
1 AACACGAGAATTTTTAA
* * *
56695607 AACACGACATTTTTTGA
1 AACACGAGAATTTTTAA
56695624 AACACGA
1 AACACGA
56695631 TTTAAAAAAA
Statistics
Matches: 136, Mismatches: 19, Indels: 15
0.80 0.11 0.09
Matches are distributed among these distances:
15 6 0.04
16 17 0.12
17 53 0.39
18 47 0.35
19 13 0.10
ACGTcount: A:0.46, C:0.12, G:0.13, T:0.29
Consensus pattern (17 bp):
AACACGAGAATTTTTAA
Found at i:56695497 original size:34 final size:34
Alignment explanation
Indices: 56695451--56695630 Score: 186
Period size: 34 Copynumber: 5.2 Consensus size: 34
56695441 ATTTTTATTT
* *
56695451 AACACGAGAATTTTTGAAAACACGAGAATTTTT-A
1 AACACGAAAATTTTT-AAAACACGACAATTTTTGA
* * *
56695485 AACAGGAAAA-TTTTAGAAACATGAAAATTTTTAGA
1 AACACGAAAATTTTTA-AAACACGACAATTTTT-GA
*
56695520 AACACGAAAATTTTTAAAACACGACATTTTTTTTGA
1 AACACGAAAATTTTTAAAACACGACA--ATTTTTGA
** * *
56695556 AACACGGGAATTTTTAAAACAGGGA-AATTTTAGA
1 AACACGAAAATTTTTAAAACA-CGACAATTTTTGA
*
56695590 AACACGAAAATTTTTAAAACACGACATTTTTTGA
1 AACACGAAAATTTTTAAAACACGACAATTTTTGA
56695624 AACACGA
1 AACACGA
56695631 TTTAAAAAAA
Statistics
Matches: 120, Mismatches: 18, Indels: 16
0.78 0.12 0.10
Matches are distributed among these distances:
32 1 0.01
33 20 0.17
34 47 0.39
35 18 0.15
36 27 0.22
37 7 0.06
ACGTcount: A:0.46, C:0.12, G:0.13, T:0.29
Consensus pattern (34 bp):
AACACGAAAATTTTTAAAACACGACAATTTTTGA
Found at i:56695510 original size:17 final size:17
Alignment explanation
Indices: 56695451--56695630 Score: 125
Period size: 18 Copynumber: 10.4 Consensus size: 17
56695441 ATTTTTATTT
* *
56695451 AACACGAGAATTTTTGAA
1 AACACGAAAATTTTAG-A
* *
56695469 AACACGAGAATTTT-TA
1 AACACGAAAATTTTAGA
*
56695485 AACAGGAAAATTTTAGA
1 AACACGAAAATTTTAGA
*
56695502 AACATGAAAATTTTTAGA
1 AACACGAAAA-TTTTAGA
56695520 AACACGAAAATTTTTA-A
1 AACACGAAAA-TTTTAGA
** *
56695537 AACACGACATTTTTTTTGA
1 AACACGA-A-AATTTTAGA
* *
56695556 AACACGGGAATTTTTA-A
1 AACAC-GAAAATTTTAGA
* *
56695573 AACAGGGAAATTTTAGA
1 AACACGAAAATTTTAGA
56695590 AACACGAAAATTTTTA-A
1 AACACGAAAA-TTTTAGA
* * *
56695607 AACACGACATTTTTTGA
1 AACACGAAAATTTTAGA
56695624 AACACGA
1 AACACGA
56695631 TTTAAAAAAA
Statistics
Matches: 134, Mismatches: 19, Indels: 19
0.78 0.11 0.11
Matches are distributed among these distances:
16 26 0.19
17 49 0.37
18 51 0.38
19 7 0.05
20 1 0.01
ACGTcount: A:0.46, C:0.12, G:0.13, T:0.29
Consensus pattern (17 bp):
AACACGAAAATTTTAGA
Found at i:56695633 original size:15 final size:16
Alignment explanation
Indices: 56695427--56695630 Score: 83
Period size: 17 Copynumber: 11.9 Consensus size: 16
56695417 ATATTTCTTT
*
56695427 TTTTTTTAAA-ACGAA
1 TTTTTTAAAACACGAA
**
56695442 TTTTTATTTAACACGAGAA
1 TTTTT-TAAAACAC--GAA
*
56695461 TTTTTGAAAACACGAGA
1 TTTTTTAAAACACGA-A
* *
56695478 ATTTTT-AAACAGGAA
1 TTTTTTAAAACACGAA
** *
56695493 AATTTTAGAAACATGAAA
1 TTTTTTA-AAACACG-AA
*
56695511 ATTTTTAGAAACACGAAA
1 TTTTTTA-AAACACG-AA
*
56695529 ATTTTTAAAACACGACA
1 TTTTTTAAAACACGA-A
*
56695546 TTTTTTTTGAAACACGGGAA
1 --TTTTTTAAAACAC--GAA
*
56695566 -TTTTTAAAACAGGGAA
1 TTTTTTAAAACA-CGAA
*
56695582 -ATTTTAGAAACACGAAA
1 TTTTTTA-AAACACG-AA
*
56695599 ATTTTTAAAACACGACA
1 TTTTTTAAAACACGA-A
*
56695616 TTTTTTGAAACACGA
1 TTTTTTAAAACACGA
56695631 TTTAAAAAAA
Statistics
Matches: 151, Mismatches: 20, Indels: 34
0.74 0.10 0.17
Matches are distributed among these distances:
15 11 0.07
16 24 0.16
17 59 0.39
18 35 0.23
19 19 0.13
20 1 0.01
21 2 0.01
ACGTcount: A:0.44, C:0.11, G:0.12, T:0.33
Consensus pattern (16 bp):
TTTTTTAAAACACGAA
Found at i:56695681 original size:18 final size:18
Alignment explanation
Indices: 56695660--56695750 Score: 53
Period size: 18 Copynumber: 4.8 Consensus size: 18
56695650 TGCGAGAATC
56695660 TTTTTGAAACACGAAAAA
1 TTTTTGAAACACGAAAAA
* *
56695678 TTTTTTACAAACGCGAAAAGTGAAA
1 -TTTTT-GAAACACG-AAA----AA
* *
56695703 TTTTTGAAATACGAGAAA
1 TTTTTGAAACACGAAAAA
56695721 TTTTTGAAAACACG-AAAA
1 TTTTTG-AAACACGAAAAA
56695739 --TTTGAAACACGA
1 TTTTTGAAACACGA
56695751 GGTTTTTTTT
Statistics
Matches: 56, Mismatches: 8, Indels: 19
0.67 0.10 0.23
Matches are distributed among these distances:
15 7 0.12
16 4 0.07
18 11 0.20
19 11 0.20
20 6 0.11
21 3 0.05
22 2 0.04
23 5 0.09
24 5 0.09
25 2 0.04
ACGTcount: A:0.46, C:0.11, G:0.14, T:0.29
Consensus pattern (18 bp):
TTTTTGAAACACGAAAAA
Found at i:56695737 original size:17 final size:17
Alignment explanation
Indices: 56695699--56695750 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 17
56695689 CGCGAAAAGT
56695699 GAAATTTTTGAAATACGA-
1 GAAATTTTTGAAA-AC-AC
56695717 GAAATTTTTGAAAACAC
1 GAAATTTTTGAAAACAC
*
56695734 GAAA-ATTTG-AAACAC
1 GAAATTTTTGAAAACAC
56695749 GA
1 GA
56695751 GGTTTTTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
15 8 0.25
16 5 0.16
17 6 0.19
18 13 0.41
ACGTcount: A:0.48, C:0.10, G:0.15, T:0.27
Consensus pattern (17 bp):
GAAATTTTTGAAAACAC
Found at i:56695804 original size:44 final size:41
Alignment explanation
Indices: 56695726--56695888 Score: 117
Period size: 44 Copynumber: 4.0 Consensus size: 41
56695716 AGAAATTTTT
**
56695726 GAAAACACGAAAATTTG-AAACACGAGGTTTTTTTTTGAAAACGC
1 GAAAACACGAAAATTTGTAAACACG-GG--AATTTTTGAAAAC-C
56695770 GAAAACACGAAAATTTGTCAAACACGGGAATTTTT-------
1 GAAAACACGAAAATTTGT-AAACACGGGAATTTTTGAAAACC
* * *
56695805 GAAAACACGAAATTTTTTTAAACACGAGAATTTTTTGAAAACAC
1 GAAAACACGAAA-ATTTGTAAACACGGGAA-TTTTTGAAAAC-C
* * *
56695849 GAAAACACGAAATTTTTTAAAACACAGGAATTTTTGAAAA
1 GAAAACACGAAAATTTGT-AAACACGGGAATTTTTGAAAA
56695889 TACGAATTTT
Statistics
Matches: 99, Mismatches: 7, Indels: 27
0.74 0.05 0.20
Matches are distributed among these distances:
35 22 0.22
36 9 0.09
43 21 0.21
44 38 0.38
45 2 0.02
46 7 0.07
ACGTcount: A:0.45, C:0.13, G:0.15, T:0.28
Consensus pattern (41 bp):
GAAAACACGAAAATTTGTAAACACGGGAATTTTTGAAAACC
Found at i:56695810 original size:79 final size:78
Alignment explanation
Indices: 56695719--56695928 Score: 237
Period size: 79 Copynumber: 2.7 Consensus size: 78
56695709 AAATACGAGA
** *
56695719 AATTTTTGAAAACACGAAA-ATTTGAAACACGAGGTTTTTTTTTGAAAACGCGAAAACACGAAAA
1 AATTTTTGAAAACACGAAATATTTGAAACACGA-G-AATTTTTTGAAAACACGAAAACACGAAAA
* *
56695783 TTTGTCAAACACGGG
64 TTTGTAAAACACAGG
* * *
56695798 AATTTTTGAAAACACGAAATTTTTTTAAACACGAGAATTTTTTGAAAACACGAAAACACGAAATT
1 AATTTTTGAAAACACGAAA-TATTTGAAACACGAGAATTTTTTGAAAACACGAAAACACGAAAAT
*
56695863 TTTTAAAACACAGG
65 TTGTAAAACACAGG
* * * * **
56695877 AATTTTTGAAAATACGAATTTTTTTATTCACGAGAA-TTTTTG-AAACACGAAA
1 AATTTTTGAAAACACGAAATATTTGAAACACGAGAATTTTTTGAAAACACGAAA
56695929 TTTTTTTAAA
Statistics
Matches: 116, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
76 10 0.09
77 6 0.05
78 15 0.13
79 73 0.63
80 1 0.01
81 11 0.09
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.31
Consensus pattern (78 bp):
AATTTTTGAAAACACGAAATATTTGAAACACGAGAATTTTTTGAAAACACGAAAACACGAAAATT
TGTAAAACACAGG
Found at i:56695812 original size:18 final size:18
Alignment explanation
Indices: 56695789--56695849 Score: 70
Period size: 17 Copynumber: 3.4 Consensus size: 18
56695779 AAAATTTGTC
56695789 AAACACGGGAATTTTTGA
1 AAACACGGGAATTTTTGA
* **
56695807 AAACAC-GAAATTTTTTT
1 AAACACGGGAATTTTTGA
*
56695824 AAACACGAGAATTTTTTGA
1 AAACACGGGAA-TTTTTGA
56695843 AAACACG
1 AAACACG
56695850 AAAACACGAA
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
17 14 0.41
18 8 0.24
19 12 0.35
ACGTcount: A:0.43, C:0.13, G:0.15, T:0.30
Consensus pattern (18 bp):
AAACACGGGAATTTTTGA
Found at i:56695816 original size:35 final size:36
Alignment explanation
Indices: 56695770--56695853 Score: 125
Period size: 35 Copynumber: 2.4 Consensus size: 36
56695760 TTGAAAACGC
*
56695770 GAAAACACGAAAATTTGTCAAACACGGGAA-TTTTT
1 GAAAACACGAAAATTTGTCAAACACGAGAATTTTTT
* * *
56695805 GAAAACACGAAATTTTTTTAAACACGAGAATTTTTT
1 GAAAACACGAAAATTTGTCAAACACGAGAATTTTTT
56695841 GAAAACACGAAAA
1 GAAAACACGAAAA
56695854 CACGAAATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
35 26 0.60
36 17 0.40
ACGTcount: A:0.46, C:0.13, G:0.14, T:0.26
Consensus pattern (36 bp):
GAAAACACGAAAATTTGTCAAACACGAGAATTTTTT
Found at i:56695870 original size:25 final size:27
Alignment explanation
Indices: 56695824--56695873 Score: 86
Period size: 26 Copynumber: 1.9 Consensus size: 27
56695814 AAATTTTTTT
56695824 AAACACGAGAATTTTTTGAAAACACGA
1 AAACACGAGAATTTTTTGAAAACACGA
56695851 AAACACGA-AATTTTTT-AAAACAC
1 AAACACGAGAATTTTTTGAAAACAC
56695874 AGGAATTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 7 0.30
26 8 0.35
27 8 0.35
ACGTcount: A:0.50, C:0.16, G:0.10, T:0.24
Consensus pattern (27 bp):
AAACACGAGAATTTTTTGAAAACACGA
Found at i:56695872 original size:17 final size:17
Alignment explanation
Indices: 56695771--56695939 Score: 90
Period size: 18 Copynumber: 10.2 Consensus size: 17
56695761 TGAAAACGCG
* *
56695771 AAAACACGAAAATTTGT
1 AAAACACGAAATTTTTT
* * *
56695788 CAAACACGGGAATTTTTG
1 AAAACAC-GAAATTTTTT
56695806 AAAACACGAAATTTTTT
1 AAAACACGAAATTTTTT
*
56695823 TAAACACGAGAATTTTTT
1 AAAACACGA-AATTTTTT
56695841 GAAAACACG---------
1 -AAAACACGAAATTTTTT
56695850 AAAACACGAAATTTTTT
1 AAAACACGAAATTTTTT
* *
56695867 AAAACACAGGAATTTTTG
1 AAAACAC-GAAATTTTTT
*
56695885 AAAATACG-AATTTTTT
1 AAAACACGAAATTTTTT
* **
56695901 TATTCACGAGAA-TTTTT
1 AAAACACGA-AATTTTTT
*
56695918 GAAACACGAAATTTTTTT
1 AAAACACGAAA-TTTTTT
56695936 AAAA
1 AAAA
56695940 GAAAGAGACA
Statistics
Matches: 113, Mismatches: 22, Indels: 33
0.67 0.13 0.20
Matches are distributed among these distances:
8 8 0.07
16 13 0.12
17 41 0.36
18 44 0.39
19 7 0.06
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.33
Consensus pattern (17 bp):
AAAACACGAAATTTTTT
Found at i:56695883 original size:43 final size:44
Alignment explanation
Indices: 56695805--56695894 Score: 139
Period size: 44 Copynumber: 2.1 Consensus size: 44
56695795 GGGAATTTTT
*
56695805 GAAAACACGAAATTTTTTTAAACACGAGAATTTTTTGAAAACAC
1 GAAAACACGAAATTTTTTAAAACACGAGAATTTTTTGAAAACAC
*
56695849 GAAAACACGAAATTTTTTAAAACAC-AGGAA-TTTTTGAAAATAC
1 GAAAACACGAAATTTTTTAAAACACGA-GAATTTTTTGAAAACAC
56695892 GAA
1 GAA
56695895 TTTTTTTATT
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
43 16 0.37
44 27 0.63
ACGTcount: A:0.48, C:0.12, G:0.12, T:0.28
Consensus pattern (44 bp):
GAAAACACGAAATTTTTTAAAACACGAGAATTTTTTGAAAACAC
Found at i:56696031 original size:18 final size:17
Alignment explanation
Indices: 56695990--56696038 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 17
56695980 TATTATTATT
56695990 ATTTTGAAACACGAGAA
1 ATTTTGAAACACGAGAA
*
56696007 ATTTTGAAGACATGA-AA
1 ATTTTGAA-ACACGAGAA
56696024 ATTTTTGAAACACGA
1 A-TTTTGAAACACGA
56696039 TTTTTCTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 16 0.57
18 12 0.43
ACGTcount: A:0.45, C:0.10, G:0.16, T:0.29
Consensus pattern (17 bp):
ATTTTGAAACACGAGAA
Found at i:56696847 original size:6 final size:6
Alignment explanation
Indices: 56696831--56696914 Score: 78
Period size: 6 Copynumber: 13.2 Consensus size: 6
56696821 TGACTATAAA
* **
56696831 TTTTCT GTTTCT TTTTCT TTTTCT TTTTCTT TTTTCT TTTTCT TCTCCCT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTC-T TTTTCT TTTTCT T-TTTCT
* *
56696881 TTTTCT TCTTTTT TCTTTCT TCTTTCT TCTTCT T
1 TTTTCT T-TTTCT T-TTTCT T-TTTCT TTTTCT T
56696915 CGGGCCGTAC
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
6 38 0.58
7 28 0.42
ACGTcount: A:0.00, C:0.23, G:0.01, T:0.76
Consensus pattern (6 bp):
TTTTCT
Found at i:56696854 original size:18 final size:19
Alignment explanation
Indices: 56696831--56696873 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
56696821 TGACTATAAA
56696831 TTTTCTGTTTC-TTTTTCT
1 TTTTCTGTTTCTTTTTTCT
*
56696849 TTTTCTTTTTCTTTTTTCT
1 TTTTCTGTTTCTTTTTTCT
56696868 TTTTCT
1 TTTTCT
56696874 TCTCCCTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 10 0.43
19 13 0.57
ACGTcount: A:0.00, C:0.16, G:0.02, T:0.81
Consensus pattern (19 bp):
TTTTCTGTTTCTTTTTTCT
Found at i:56696858 original size:7 final size:7
Alignment explanation
Indices: 56696838--56696911 Score: 57
Period size: 7 Copynumber: 10.9 Consensus size: 7
56696828 AAATTTTCTG
56696838 TTTC-TT
1 TTTCTTT
56696844 TTTC-TT
1 TTTCTTT
56696850 TTTC-TT
1 TTTCTTT
56696856 TTTCTTT
1 TTTCTTT
56696863 TTTC-TT
1 TTTCTTT
*
56696869 TTTCTTC
1 TTTCTTT
**
56696876 TCCCTTTT
1 TTTC-TTT
56696884 TCTTCTTT
1 T-TTCTTT
56696892 TTTCTTT
1 TTTCTTT
*
56696899 CTTCTTT
1 TTTCTTT
*
56696906 CTTCTT
1 TTTCTT
56696912 CTTCGGGCCG
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
6 22 0.39
7 27 0.47
8 7 0.12
9 1 0.02
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (7 bp):
TTTCTTT
Found at i:56696915 original size:13 final size:13
Alignment explanation
Indices: 56696838--56696915 Score: 95
Period size: 13 Copynumber: 6.0 Consensus size: 13
56696828 AAATTTTCTG
56696838 TTTCTTTTTCTT-
1 TTTCTTTTTCTTC
*
56696850 TTTCTTTTTCTTT
1 TTTCTTTTTCTTC
56696863 TTTCTTTTTCTTC
1 TTTCTTTTTCTTC
**
56696876 TCCCTTTTTCTTC
1 TTTCTTTTTCTTC
*
56696889 TTTTTTCTTTCTTC
1 TTTCTT-TTTCTTC
*
56696903 TTTCTTCTTCTTC
1 TTTCTTTTTCTTC
56696916 GGGCCGTACC
Statistics
Matches: 56, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
12 12 0.21
13 32 0.57
14 12 0.21
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTCTTTTTCTTC
Found at i:56697073 original size:19 final size:17
Alignment explanation
Indices: 56697049--56697087 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
56697039 TTTTCTCATT
56697049 TTTTGCTGCTGCGTTTTTG
1 TTTTGCTGCT-C-TTTTTG
*
56697068 TTTTGCTTCTCTTTTTG
1 TTTTGCTGCTCTTTTTG
56697085 TTT
1 TTT
56697088 CGATTTCTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 9 0.47
18 1 0.05
19 9 0.47
ACGTcount: A:0.00, C:0.15, G:0.18, T:0.67
Consensus pattern (17 bp):
TTTTGCTGCTCTTTTTG
Found at i:56697549 original size:29 final size:29
Alignment explanation
Indices: 56697462--56697623 Score: 116
Period size: 30 Copynumber: 5.5 Consensus size: 29
56697452 AAATATGGGC
* *
56697462 CAAATTGTAATTTCTTGAAAA-TTTAGGGGT
1 CAAAATGTAATTT-TAGAAAAGTTTA-GGGT
* * *
56697492 TAAAGTGAAATTTT-GAGAAAGTTTAAGGGT
1 CAAAATGTAATTTTAGA-AAAGTTT-AGGGT
**
56697522 TGAAATGTAATTTTAGAAAAGTTTAGGGT
1 CAAAATGTAATTTTAGAAAAGTTTAGGGT
* * *
56697551 CAAAATATAAATTTTA-AAAGGTTTGGGGT
1 CAAAATGT-AATTTTAGAAAAGTTTAGGGT
* *
56697580 CAAAATATAAGTTTTA-AAAAGTATAGGGGT
1 CAAAATGTAA-TTTTAGAAAAGTTTA-GGGT
*
56697610 CAAAATGCAATTTT
1 CAAAATGTAATTTT
56697624 TTATTTTTTT
Statistics
Matches: 109, Mismatches: 16, Indels: 15
0.78 0.11 0.11
Matches are distributed among these distances:
28 4 0.04
29 48 0.44
30 54 0.50
31 3 0.03
ACGTcount: A:0.40, C:0.04, G:0.21, T:0.35
Consensus pattern (29 bp):
CAAAATGTAATTTTAGAAAAGTTTAGGGT
Found at i:56697564 original size:30 final size:29
Alignment explanation
Indices: 56697499--56697615 Score: 119
Period size: 29 Copynumber: 3.9 Consensus size: 29
56697489 GGTTAAAGTG
* ** *
56697499 AAATTTTGAGAAAGTTTAAGGGTTGAAATGT
1 AAATTTT-AAAAAGTTT-AGGGTCAAAATAT
56697530 -AATTTTAGAAAAGTTTAGGGTCAAAATAT
1 AAATTTTA-AAAAGTTTAGGGTCAAAATAT
* *
56697559 AAATTTTAAAAGGTTTGGGGTCAAAATAT
1 AAATTTTAAAAAGTTTAGGGTCAAAATAT
* *
56697588 AAGTTTTAAAAAGTATAGGGGTCAAAAT
1 AAATTTTAAAAAGTTTA-GGGTCAAAAT
56697616 GCAATTTTTT
Statistics
Matches: 73, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
29 43 0.59
30 30 0.41
ACGTcount: A:0.43, C:0.03, G:0.21, T:0.33
Consensus pattern (29 bp):
AAATTTTAAAAAGTTTAGGGTCAAAATAT
Found at i:56712313 original size:6 final size:6
Alignment explanation
Indices: 56712304--56712339 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
56712294 GAGATGATGA
56712304 GATTGG GATTGG GATTGG GATTGG GATTGG GATTGG
1 GATTGG GATTGG GATTGG GATTGG GATTGG GATTGG
56712340 AGGGTTGGGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.17, C:0.00, G:0.50, T:0.33
Consensus pattern (6 bp):
GATTGG
Found at i:56718457 original size:42 final size:42
Alignment explanation
Indices: 56718336--56718443 Score: 162
Period size: 42 Copynumber: 2.6 Consensus size: 42
56718326 ATCGATGTCG
* *
56718336 ATGCCATGTCCCAGACATGGTATTACACGAGATCACACGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACGAGATCACATGCCA
* *
56718378 ATGCCATGTCCCAAACATAGTCTTACACGAGATCACATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACGAGATCACATGCCA
* *
56718420 ATGTCATGTCCCAGTCATGGTCTT
1 ATGCCATGTCCCAGACATGGTCTT
56718444 CCACTGGCTC
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 58 1.00
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.24
Consensus pattern (42 bp):
ATGCCATGTCCCAGACATGGTCTTACACGAGATCACATGCCA
Found at i:56721076 original size:26 final size:26
Alignment explanation
Indices: 56721046--56721102 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
56721036 ATAGCTCTTA
*
56721046 TGAGCGTCCAGA-TATATGACTCTTTG
1 TGAGCGTCCAGATTA-AAGACTCTTTG
* * *
56721072 TGAGCTTCCTGATTAAAGGCTCTTTG
1 TGAGCGTCCAGATTAAAGACTCTTTG
56721098 TGAGC
1 TGAGC
56721103 TTCCTGTTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 24 0.92
27 2 0.08
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.35
Consensus pattern (26 bp):
TGAGCGTCCAGATTAAAGACTCTTTG
Found at i:56721118 original size:25 final size:26
Alignment explanation
Indices: 56721065--56721119 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 26
56721055 AGATATATGA
56721065 CTCTTTGTGAGCTTCCTGATTAAAGG
1 CTCTTTGTGAGCTTCCTGATTAAAGG
*
56721091 CTCTTTGTGAGCTTCCTG-TTAATGG
1 CTCTTTGTGAGCTTCCTGATTAAAGG
56721116 CTCT
1 CTCT
56721120 CCGGTGCTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
25 10 0.36
26 18 0.64
ACGTcount: A:0.15, C:0.22, G:0.22, T:0.42
Consensus pattern (26 bp):
CTCTTTGTGAGCTTCCTGATTAAAGG
Found at i:56721230 original size:24 final size:24
Alignment explanation
Indices: 56721203--56721259 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
56721193 TTCGGAGTTA
56721203 CCTGTTATAGGCT-TACATGAGCTT
1 CCTGTTATAGGCTCT-CATGAGCTT
*
56721227 CCTGATTAT-GGCTCTTATGAGCTT
1 CCTG-TTATAGGCTCTCATGAGCTT
*
56721251 CCCGTTATA
1 CCTGTTATA
56721260 CAGCCCGGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
23 4 0.14
24 19 0.68
25 5 0.18
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.39
Consensus pattern (24 bp):
CCTGTTATAGGCTCTCATGAGCTT
Found at i:56727352 original size:15 final size:15
Alignment explanation
Indices: 56727332--56727364 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
56727322 ATAACATAAG
*
56727332 AGAAGAAAAAGAAGA
1 AGAAGAAAAAGAAAA
56727347 AGAAGAAAAAGAAAA
1 AGAAGAAAAAGAAAA
56727362 AGA
1 AGA
56727365 GATTGTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (15 bp):
AGAAGAAAAAGAAAA
Found at i:56734675 original size:17 final size:17
Alignment explanation
Indices: 56734640--56734683 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
56734630 TAAAATTTAT
*
56734640 AAATTTATAGAAAAAATC
1 AAATTT-TATAAAAAATC
*
56734658 AAATTTTATAAAATATC
1 AAATTTTATAAAAAATC
56734675 AAATTTTAT
1 AAATTTTAT
56734684 GTATTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 18 0.75
18 6 0.25
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.39
Consensus pattern (17 bp):
AAATTTTATAAAAAATC
Found at i:56734745 original size:19 final size:19
Alignment explanation
Indices: 56734691--56734748 Score: 55
Period size: 19 Copynumber: 3.0 Consensus size: 19
56734681 TATGTATTTT
*
56734691 AAATTTAATAATA-ATATAA
1 AAATTTAA-AATATATAAAA
* * *
56734710 AAATATGATAATTTATAAAA
1 AAAT-TTAAAATATATAAAA
56734730 AAATTTAAAATATATAAAA
1 AAATTTAAAATATATAAAA
56734749 TTAATAAAAA
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
19 19 0.63
20 11 0.37
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (19 bp):
AAATTTAAAATATATAAAA
Found at i:56735000 original size:22 final size:22
Alignment explanation
Indices: 56734940--56734996 Score: 64
Period size: 20 Copynumber: 2.6 Consensus size: 22
56734930 TTGCCCACTC
**
56734940 ATATTATTTTTAAAATATATATTT
1 ATATTA-TTTTAATTTA-ATATTT
56734964 ATATTATTTTAATTTAATATTT
1 ATATTATTTTAATTTAATATTT
56734986 A-A-TATTTTAAT
1 ATATTATTTTAAT
56734997 ATTTTTTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 9 0.29
21 1 0.03
22 7 0.23
23 8 0.26
24 6 0.19
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
ATATTATTTTAATTTAATATTT
Found at i:56735006 original size:15 final size:15
Alignment explanation
Indices: 56734964--56735007 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
56734954 ATATATATTT
*
56734964 ATATTATTTTAATTTA
1 ATATT-TTTTATTTTA
**
56734980 ATATTTAATATTTTA
1 ATATTTTTTATTTTA
56734995 ATATTTTTTATTT
1 ATATTTTTTATTT
56735008 ATTAAAATTT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
15 18 0.78
16 5 0.22
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
ATATTTTTTATTTTA
Found at i:56735017 original size:17 final size:17
Alignment explanation
Indices: 56734992--56735025 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
56734982 ATTTAATATT
* *
56734992 TTAATATTTTTTATTTA
1 TTAAAATTTTATATTTA
56735009 TTAAAATTTTATATTTA
1 TTAAAATTTTATATTTA
56735026 GTTTTCTTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTAAAATTTTATATTTA
Found at i:56735610 original size:20 final size:19
Alignment explanation
Indices: 56735573--56735613 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
56735563 CCTATATGTT
* *
56735573 AAAAATTTATATATTTTTA
1 AAAAATTTAAATACTTTTA
56735592 AAAAATGTTAAATACTTTTA
1 AAAAAT-TTAAATACTTTTA
56735612 AA
1 AA
56735614 TATTTTTTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (19 bp):
AAAAATTTAAATACTTTTA
Found at i:56736817 original size:5 final size:5
Alignment explanation
Indices: 56736803--56736834 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
56736793 ATATATAAAC
56736803 TATT- TATTA TATTA TATTA TATTA TATTA TAT
1 TATTA TATTA TATTA TATTA TATTA TATTA TAT
56736835 AGTAGGAGGA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TATTA
Found at i:56738721 original size:10 final size:10
Alignment explanation
Indices: 56738708--56738734 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
56738698 TAAACAAATA
56738708 TAATAATAAT
1 TAATAATAAT
56738718 TAATAATAAT
1 TAATAATAAT
56738728 TAATAAT
1 TAATAAT
56738735 TAATATAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (10 bp):
TAATAATAAT
Found at i:56739245 original size:43 final size:43
Alignment explanation
Indices: 56739037--56739242 Score: 297
Period size: 43 Copynumber: 4.8 Consensus size: 43
56739027 GTGTGGCTAA
* * *
56739037 CTTTAGCGGCGCTTATCCCACAAACGCCGCTATAGACCGAGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
* *
56739080 CTTTAGCGGCG-TTTATCCCATAAACGCCGCTAAAGACCGAGAC
1 CTTTAGCGGCGCTTT-TCCCACAAACGCCGCTAAAGACCAAGAC
* *
56739123 CTTTAGCGGCGTTTTTCCCACAAATGCCGCTAAAGACCAAGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
* * * *
56739166 CTTTAGAGGCGCTTCTCCCACAAACGCCGCTAAAAACCAAGAA
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
56739209 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAA
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAA
56739243 AACATTATTT
Statistics
Matches: 147, Mismatches: 14, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
42 2 0.01
43 142 0.97
44 3 0.02
ACGTcount: A:0.28, C:0.33, G:0.19, T:0.20
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
Found at i:56739453 original size:18 final size:18
Alignment explanation
Indices: 56739430--56739489 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
56739420 TTAAAACAAG
56739430 TTACATTCTATATTAGAA
1 TTACATTCTATATTAGAA
*** * *
56739448 TTACATAAGAAAATT-G-T
1 TTACAT-TCTATATTAGAA
56739465 TTACATTCTATATTAGAA
1 TTACATTCTATATTAGAA
56739483 TTACATT
1 TTACATT
56739490 AGAATTACAT
Statistics
Matches: 29, Mismatches: 10, Indels: 6
0.64 0.22 0.13
Matches are distributed among these distances:
16 4 0.14
17 7 0.24
18 14 0.48
19 4 0.14
ACGTcount: A:0.40, C:0.10, G:0.07, T:0.43
Consensus pattern (18 bp):
TTACATTCTATATTAGAA
Found at i:56743877 original size:41 final size:41
Alignment explanation
Indices: 56743804--56744075 Score: 361
Period size: 41 Copynumber: 6.7 Consensus size: 41
56743794 CAAAATATTT
* * *
56743804 TTAGCGGCGCATTTTC-AAAACCCCGCTAAAGACCCCAACA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGACCCCAGCA
*
56743844 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGACTCCAGCA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGACCCCAGCA
* *
56743885 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGACCCCAGTA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGACCCCAGCA
* * * *
56743926 TTCGCGGCGATTTTCCAAAAACGCCGCTAAAGACCCCAGTA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGACCCCAGCA
* * * *
56743967 TTCGCGGCG-ATTTTCAAAAACACCGCTAAAGACCCCAACA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGACCCCAGCA
* *
56744007 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGACCCCATCA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGACCCCAGCA
* *
56744048 TTAACGACGCTTTTTCAAAAACG-CGCTA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTA
56744076 CAACCCCCAA
Statistics
Matches: 208, Mismatches: 22, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
40 54 0.26
41 154 0.74
ACGTcount: A:0.31, C:0.32, G:0.17, T:0.20
Consensus pattern (41 bp):
TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGACCCCAGCA
Found at i:56744024 original size:122 final size:122
Alignment explanation
Indices: 56743807--56744044 Score: 372
Period size: 122 Copynumber: 2.0 Consensus size: 122
56743797 AATATTTTTA
* *
56743807 GCGGCGCATTTTCAAAACCCCGCTAAAGACCCCAACATTAGCGGCGCTTTTTCAAAAACGCCGCT
1 GCGGCGCATTTTCAAAACCCCGCTAAAGACCCCAACATTAGCGGCGCATTTTCAAAAACACCGCT
* *
56743872 AAAGACTCCAGCATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGACCCCAGTATTC
66 AAAGACCCCAACATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGACCCCAGTATTC
* ** *
56743929 GCGGCG-ATTTTCCAAAAACGCCGCTAAAGACCCCAGTATTCGCGGCG-ATTTTCAAAAACACCG
1 GCGGCGCATTTT-C-AAAACCCCGCTAAAGACCCCAACATTAGCGGCGCATTTTCAAAAACACCG
56743992 CTAAAGACCCCAACATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGACCCCA
64 CTAAAGACCCCAACATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGACCCCA
56744045 TCATTAACGA
Statistics
Matches: 106, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
121 5 0.05
122 72 0.68
123 29 0.27
ACGTcount: A:0.31, C:0.33, G:0.18, T:0.18
Consensus pattern (122 bp):
GCGGCGCATTTTCAAAACCCCGCTAAAGACCCCAACATTAGCGGCGCATTTTCAAAAACACCGCT
AAAGACCCCAACATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGACCCCAGTATTC
Found at i:56744067 original size:122 final size:123
Alignment explanation
Indices: 56743815--56744075 Score: 368
Period size: 122 Copynumber: 2.1 Consensus size: 123
56743805 TAGCGGCGCA
* * * *
56743815 TTTTC-AAAACCCCGCTAAAGACCCCAACATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGACT
1 TTTTCAAAAACGCCGCTAAAGACCCCAACATTAGCGGCGCATTTTCAAAAACACCGCTAAAGACC
* ** *
56743879 CCAGCATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGACCCCAGTATTCGCGGCGAT
66 CCAACATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGACCCCAGTATTAACGACGAT
* ** *
56743937 TTTCCAAAAACGCCGCTAAAGACCCCAGTATTCGCGGCG-ATTTTCAAAAACACCGCTAAAGACC
1 TTTTCAAAAACGCCGCTAAAGACCCCAACATTAGCGGCGCATTTTCAAAAACACCGCTAAAGACC
*
56744001 CCAACATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGACCCCA-TCATTAACGACGCT
66 CCAACATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGACCCCAGT-ATTAACGACGAT
56744059 TTTTCAAAAACG-CGCTA
1 TTTTCAAAAACGCCGCTA
56744076 CAACCCCCAA
Statistics
Matches: 123, Mismatches: 14, Indels: 5
0.87 0.10 0.04
Matches are distributed among these distances:
121 6 0.05
122 88 0.72
123 29 0.24
ACGTcount: A:0.31, C:0.32, G:0.16, T:0.20
Consensus pattern (123 bp):
TTTTCAAAAACGCCGCTAAAGACCCCAACATTAGCGGCGCATTTTCAAAAACACCGCTAAAGACC
CCAACATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGACCCCAGTATTAACGACGAT
Found at i:56744075 original size:81 final size:81
Alignment explanation
Indices: 56743804--56744075 Score: 368
Period size: 81 Copynumber: 3.3 Consensus size: 81
56743794 CAAAATATTT
* * *
56743804 TTAGCGGCGCATTTTCAAAACCCCGCTAAAGACCCCAACATTAGCGGCGCTTTTTCAAAAACGCC
1 TTAGCGGCGCTTTTTCAAAAACCCGCTAAAGACCCCAACATTAGCGGCGCTTTTCCAAAAACGCC
* *
56743869 GCTAAAGACTCCAGCA
66 GCTAAAGACCCCATCA
* ** * *
56743885 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGACCCCAGTATTCGCGGCGATTTTCCAAAAACGC
1 TTAGCGGCGCTTTTTCAAAAAC-CCGCTAAAGACCCCAACATTAGCGGCGCTTTTCCAAAAACGC
56743950 CGCTAAAGACCCCAGT-A
65 CGCTAAAGACCCCA-TCA
* *
56743967 TTCGCGGCG-ATTTTCAAAAACACCGCTAAAGACCCCAACATTAGCGGCGCTTTTCCAAAAACGC
1 TTAGCGGCGCTTTTTCAAAAAC-CCGCTAAAGACCCCAACATTAGCGGCGCTTTTCCAAAAACGC
56744031 CGCTAAAGACCCCATCA
65 CGCTAAAGACCCCATCA
* * *
56744048 TTAACGACGCTTTTTCAAAAACGCGCTA
1 TTAGCGGCGCTTTTTCAAAAACCCGCTA
56744076 CAACCCCCAA
Statistics
Matches: 164, Mismatches: 23, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
80 1 0.01
81 93 0.57
82 70 0.43
ACGTcount: A:0.31, C:0.32, G:0.17, T:0.20
Consensus pattern (81 bp):
TTAGCGGCGCTTTTTCAAAAACCCGCTAAAGACCCCAACATTAGCGGCGCTTTTCCAAAAACGCC
GCTAAAGACCCCATCA
Found at i:56752384 original size:15 final size:15
Alignment explanation
Indices: 56752360--56752389 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
56752350 AATAATGTAC
*
56752360 ATATAGTAATAATAA
1 ATATAATAATAATAA
56752375 ATATAATAATAATAA
1 ATATAATAATAATAA
56752390 TAATAAACCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (15 bp):
ATATAATAATAATAA
Found at i:56754170 original size:88 final size:88
Alignment explanation
Indices: 56754053--56754369 Score: 303
Period size: 88 Copynumber: 3.6 Consensus size: 88
56754043 ACTTACAATC
* * * * * *
56754053 TTCAACCTATTCCACTGCT-ATCTAGGGAGA-TAGGACTGGTATCTTCGATCTGCTTCGCCGTCA
1 TTCAACCTACTCCACTGCTGCTC-AAGGAGACAAGG-CTGGGATCTTCGATCTGCTTCGCAGTCA
*
56754116 GTACAGGAATGCAAGATCTGTTATT
64 ATACAGGAATGCAAGATCTGTTATT
* * *
56754141 TTCAACCTACTCCACTGCTGCTCAAGGAGACAAGGCTGGGGA-CTTCCACCTGC-TC-CAGT-AC
1 TTCAACCTACTCCACTGCTGCTCAAGGAGACAAGGCT-GGGATCTTCGATCTGCTTCGCAGTCAA
*
56754202 TACTTAGGGAGAT--AAGATCTGTAATT
65 TAC--A-GGA-ATGCAAGATCTGTTATT
* * * * * * *
56754228 TTTAACCTACTCCACTGCTGCTGAGGGAGACAAGGCTGGGGTCTTCGATCTACTTCGCTGCCAAT
1 TTCAACCTACTCCACTGCTGCTCAAGGAGACAAGGCTGGGATCTTCGATCTGCTTCGCAGTCAAT
* *
56754293 ACAAGAA-GACAAGATCTGCTATT
66 ACAGGAATG-CAAGATCTGTTATT
56754316 TTCAACCTACTCCACTGCTGCTCAAGGAGACAAGGCTGGGGA-CTTCGATCTGCT
1 TTCAACCTACTCCACTGCTGCTCAAGGAGACAAGGCT-GGGATCTTCGATCTGCT
56754370 CCACTACTGC
Statistics
Matches: 186, Mismatches: 28, Indels: 30
0.76 0.11 0.12
Matches are distributed among these distances:
85 4 0.02
86 7 0.04
87 59 0.32
88 97 0.52
89 15 0.08
90 4 0.02
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (88 bp):
TTCAACCTACTCCACTGCTGCTCAAGGAGACAAGGCTGGGATCTTCGATCTGCTTCGCAGTCAAT
ACAGGAATGCAAGATCTGTTATT
Found at i:56754237 original size:87 final size:87
Alignment explanation
Indices: 56754128--56754432 Score: 373
Period size: 87 Copynumber: 3.5 Consensus size: 87
56754118 ACAGGAATGC
* * *
56754128 AAGATCTGTTATTTTCAACCTACTCCACTGCTGCTCAAGGAGACAAGGCTGGGGACTTCCACCTG
1 AAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCAAGGAGACAAGGCTGGGGACTTCGATCTG
56754193 CTCCAGTACTACTTAGGGAGAT
66 CTCCAGTACTACTTAGGGAGAT
* * * * *
56754215 AAGATCTGTAATTTTTAACCTACTCCACTGCTGCTGAGGGAGACAAGGCTGGGGTCTTCGATCTA
1 AAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCAAGGAGACAAGGCTGGGGACTTCGATCTG
* * * * * *
56754280 CTTCGCTGCCAATAC--AAGAAGAC
66 C-TC-CAG-TACTACTTAGGGAGAT
56754303 AAGATCTGCT-ATTTTCAACCTACTCCACTGCTGCTCAAGGAGACAAGGCTGGGGACTTCGATCT
1 AAGATCTG-TAATTTTCAACCTACTCCACTGCTGCTCAAGGAGACAAGGCTGGGGACTTCGATCT
* * *
56754367 GCTCCACTACTGCTTTGGGAGAT
65 GCTCCAGTACTACTTAGGGAGAT
* * *
56754390 AAGATATGTAATTTTTAACCTACTCCACTGCTGCTCAAAGAGA
1 AAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCAAGGAGA
56754433 TAGGATTCAT
Statistics
Matches: 180, Mismatches: 31, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
85 3 0.02
86 2 0.01
87 102 0.57
88 66 0.37
89 3 0.02
90 4 0.02
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (87 bp):
AAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCAAGGAGACAAGGCTGGGGACTTCGATCTG
CTCCAGTACTACTTAGGGAGAT
Found at i:56754308 original size:175 final size:175
Alignment explanation
Indices: 56754094--56754424 Score: 538
Period size: 175 Copynumber: 1.9 Consensus size: 175
56754084 AGGACTGGTA
* * * * *
56754094 TCTTCGATCTGCTTCGCCGTCAGTACAGGAATGCAAGATCTGTTATTTTCAACCTACTCCACTGC
1 TCTTCGATCTACTTCGCCGCCAATACAAGAATGCAAGATCTGCTATTTTCAACCTACTCCACTGC
* *
56754159 TGCTCAAGGAGACAAGGCTGGGGACTTCCACCTGCTCCAGTACTACTTAGGGAGATAAGATCTGT
66 TGCTCAAGGAGACAAGGCTGGGGACTTCCACCTGCTCCACTACTACTTAGGGAGATAAGATATGT
56754224 AATTTTTAACCTACTCCACTGCTGCTGAGGGAGACAAGGCTGGGG
131 AATTTTTAACCTACTCCACTGCTGCTGAGGGAGACAAGGCTGGGG
*
56754269 TCTTCGATCTACTTCGCTGCCAATACAAGAA-GACAAGATCTGCTATTTTCAACCTACTCCACTG
1 TCTTCGATCTACTTCGCCGCCAATACAAGAATG-CAAGATCTGCTATTTTCAACCTACTCCACTG
* * * *
56754333 CTGCTCAAGGAGACAAGGCTGGGGACTTCGATCTGCTCCACTACTGCTTTGGGAGATAAGATATG
65 CTGCTCAAGGAGACAAGGCTGGGGACTTCCACCTGCTCCACTACTACTTAGGGAGATAAGATATG
56754398 TAATTTTTAACCTACTCCACTGCTGCT
130 TAATTTTTAACCTACTCCACTGCTGCT
56754425 CAAAGAGATA
Statistics
Matches: 143, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
174 1 0.01
175 142 0.99
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (175 bp):
TCTTCGATCTACTTCGCCGCCAATACAAGAATGCAAGATCTGCTATTTTCAACCTACTCCACTGC
TGCTCAAGGAGACAAGGCTGGGGACTTCCACCTGCTCCACTACTACTTAGGGAGATAAGATATGT
AATTTTTAACCTACTCCACTGCTGCTGAGGGAGACAAGGCTGGGG
Found at i:56754477 original size:44 final size:44
Alignment explanation
Indices: 56754406--56754615 Score: 260
Period size: 44 Copynumber: 4.8 Consensus size: 44
56754396 TGTAATTTTT
* *
56754406 AACCTACTCCACTGCTG-CTCAAAGAGATAGGATTCATAATCTTC
1 AACCTATTCCACTGCTGTC-CAAAGAGATAGGATTCACAATCTTC
** * *
56754450 AACCTATTCCACTGCTGTCCAGGGAGATAGGACTCACAATTTTC
1 AACCTATTCCACTGCTGTCCAAAGAGATAGGATTCACAATCTTC
**
56754494 AACCTATTCCACTGCTGTCCATGGAGATAGGATTCACAATCTTC
1 AACCTATTCCACTGCTGTCCAAAGAGATAGGATTCACAATCTTC
* * * *
56754538 GACCTATTCCATTGTTGTCCAATGAGATAGGATTCACAATCTTC
1 AACCTATTCCACTGCTGTCCAAAGAGATAGGATTCACAATCTTC
* * * *
56754582 AACCTATTTCACTACTGTCTAGAGAGATAGGATT
1 AACCTATTCCACTGCTGTCCAAAGAGATAGGATT
56754616 TATAACTTCA
Statistics
Matches: 143, Mismatches: 22, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
44 142 0.99
45 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (44 bp):
AACCTATTCCACTGCTGTCCAAAGAGATAGGATTCACAATCTTC
Found at i:56756923 original size:3 final size:3
Alignment explanation
Indices: 56756917--56756950 Score: 52
Period size: 3 Copynumber: 11.3 Consensus size: 3
56756907 TAATGTACAT
56756917 ATA ATA ATA ATA A-A TATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA A
56756951 ACCAATTAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 1 0.03
3 27 0.93
4 1 0.03
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:56756935 original size:15 final size:15
Alignment explanation
Indices: 56756915--56756944 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
56756905 AATAATGTAC
56756915 ATATAATAATAATAA
1 ATATAATAATAATAA
56756930 ATATAATAATAATAA
1 ATATAATAATAATAA
56756945 TAATAAACCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
ATATAATAATAATAA
Found at i:56764149 original size:27 final size:28
Alignment explanation
Indices: 56764119--56764178 Score: 79
Period size: 27 Copynumber: 2.2 Consensus size: 28
56764109 AAAATAAAAA
*
56764119 AAAATAACTA-AAACTTTTTTATTTATC
1 AAAATAACTATAAACTTTTTTATTTACC
* *
56764146 AAAAT-ATTATAAATTTTTTTATTTACC
1 AAAATAACTATAAACTTTTTTATTTACC
56764173 AAAATA
1 AAAATA
56764179 TATCAAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 3 0.11
27 25 0.89
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (28 bp):
AAAATAACTATAAACTTTTTTATTTACC
Found at i:56764928 original size:19 final size:19
Alignment explanation
Indices: 56764904--56764966 Score: 92
Period size: 19 Copynumber: 3.4 Consensus size: 19
56764894 TTACTTAATT
56764904 TTATTAAATTAAAATAGAG
1 TTATTAAATTAAAATAGAG
* * *
56764923 TTATTAAATGAGAATAG-T
1 TTATTAAATTAAAATAGAG
56764941 TTATTAAATTAAAATAGAG
1 TTATTAAATTAAAATAGAG
56764960 TTATTAA
1 TTATTAA
56764967 TGCCTACGAG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
18 15 0.41
19 22 0.59
ACGTcount: A:0.49, C:0.00, G:0.11, T:0.40
Consensus pattern (19 bp):
TTATTAAATTAAAATAGAG
Found at i:56765455 original size:16 final size:16
Alignment explanation
Indices: 56765420--56765455 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
56765410 TGGTTTACTG
* *
56765420 TAATGGAATAGGGCTG
1 TAATGGAATAGAGCTC
56765436 TAATGGAATAGAGCTC
1 TAATGGAATAGAGCTC
56765452 TAAT
1 TAAT
56765456 CAGTAATTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.36, C:0.08, G:0.28, T:0.28
Consensus pattern (16 bp):
TAATGGAATAGAGCTC
Found at i:56765749 original size:58 final size:58
Alignment explanation
Indices: 56765619--56765755 Score: 179
Period size: 58 Copynumber: 2.4 Consensus size: 58
56765609 TAGTGTTATT
*
56765619 AAATTTTAATA-AGATTATTATTAAAAATAATTTAATAAAAATAATAAATAATTTAAGC
1 AAATTTTAATATA-ATTATTATTAAAAATAATTTAATAAAAATAATAAATAATTTAAGA
* * * * * *
56765677 ATATTTAAACATAATTATTATTAAATATAATTTAAT-AAAATAATATATAATTTAATA
1 AAATTTTAATATAATTATTATTAAAAATAATTTAATAAAAATAATAAATAATTTAAGA
56765734 AAATTCTTAATATAATTATTAT
1 AAATT-TTAATATAATTATTAT
56765756 ATGAATTTAC
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
57 22 0.33
58 44 0.66
59 1 0.01
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.42
Consensus pattern (58 bp):
AAATTTTAATATAATTATTATTAAAAATAATTTAATAAAAATAATAAATAATTTAAGA
Found at i:56767739 original size:31 final size:30
Alignment explanation
Indices: 56767704--56767787 Score: 114
Period size: 31 Copynumber: 2.7 Consensus size: 30
56767694 TTTATAAATT
* *
56767704 GTGAATTATTTAAAAATTTTTATTTAAGTC
1 GTGAATTATTTTAAAGTTTTTATTTAAGTC
*
56767734 AGTGAATTATTTTAAAGTTTTTATTTGAGTC
1 -GTGAATTATTTTAAAGTTTTTATTTAAGTC
*
56767765 GTTGAGTTATTTTAAAGTTTTTA
1 G-TGAATTATTTTAAAGTTTTTA
56767788 CTGGAGTCAT
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
30 1 0.02
31 47 0.98
ACGTcount: A:0.31, C:0.02, G:0.14, T:0.52
Consensus pattern (30 bp):
GTGAATTATTTTAAAGTTTTTATTTAAGTC
Found at i:56767795 original size:31 final size:31
Alignment explanation
Indices: 56767730--56767803 Score: 103
Period size: 31 Copynumber: 2.4 Consensus size: 31
56767720 TTTTTATTTA
* * * *
56767730 AGTCAGTGAATTATTTTAAAGTTTTTATTTG
1 AGTCATTGAGTTATTTTAAAGTTTTTACTGG
*
56767761 AGTCGTTGAGTTATTTTAAAGTTTTTACTGG
1 AGTCATTGAGTTATTTTAAAGTTTTTACTGG
56767792 AGTCATTGAGTT
1 AGTCATTGAGTT
56767804 GTTGAGTTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.26, C:0.05, G:0.20, T:0.49
Consensus pattern (31 bp):
AGTCATTGAGTTATTTTAAAGTTTTTACTGG
Found at i:56768563 original size:407 final size:417
Alignment explanation
Indices: 56768043--56768881 Score: 1035
Period size: 436 Copynumber: 2.0 Consensus size: 417
56768033 CAAAATCGGG
*
56768043 TTTTTTACCTAAATAATATTAAAAATATATATATACTAAAATGGCATGTTCTAAAAATTATGTAC
1 TTTTTTACCTAAATAATATTAAAAATATATATATACTAAAATGACATGTTCTAAAAATTATGTAC
* * *
56768108 CAAAATGGTATATTTAAAAGGGTGGAGGGTGGTGCATAAGCAGCACCGCC-CT-A-AT-A-TTA-
66 CAAAATGGTACATTCAAAAGGGTAGAGGGTGGTGCATAAGCAGCACCGCCTCTGACATAATTTAT
* * * *
56768167 AAATAGTAACAATATTTTAGTAGTGGTGCCTATCTGATAGACGACAC-CCTTATCTGATAGGTGG
131 AAAAAATAACAATATTTTAGTAGTGGTGCCTATCTGATAGACGACACGCC-TATCTGATAGGCGA
* ** * *
56768231 TATACCTAACATTTTTCCCCATTTGGCTCAATTTTAAAGTATCAGTTTAAAAAAATATATCTTTT
195 TACACCTAACA-TTTTCCCCATCCGGCTCAAGTTTAAAGTATCAGTTT-AAAAAATATATATTTT
** *
56768296 ACCTCCAT-A-AAAAAATTTATATTAAAATAAT-AAAA-AA-ATGACAA-GAAAAAATATAACAA
258 ACCTCCATAATAAAAAATAAATATTAAAATAATAAAAATAACATGACAATAAAAAAATATAAC-A
* *
56768355 AAAATATAACGTAAACGATACATAATAAATACAAATATTATTATTATTTTAAAATGATAATAAGT
322 AAAACATAACATAAACGATACATAATAAATACAAATATTATTATTATTTTAAAATGATAATAAGT
56768420 AAAATGTATTGGTTTAAAATATAATAGGGTT
387 AAAATGTATTGGTTTAAAATATAATAGGGTT
* *
56768451 TTTTTATACCTAAATAATATT-AAAA-ATATATATACTGAAATGATATGTT-TCAAAAATTATGT
1 TTTTT-TACCTAAATAATATTAAAAATATATATATACTAAAATGACATGTTCT-AAAAATTATGT
* * * *
56768513 ACCAAAATGGTACATTCAAAGGGGTAGATGGTGGTGCATAGGCGGCACCGCCTTGATATTCTGAC
64 ACCAAAATGGTACATTCAAAAGGGTAGAGGGTGGTGCATAAGCAGCACCGCC-------TCTGAC
* * *
56768578 ATAATTTAGTTAAAAAATAATAATATTTTAGTAGTGGTGCCTATCTGATAGGCGGCACTTGTGGT
122 ATAATTTA--TAAAAAATAACAATATTTTAGTAGTGGTGCCTATCTGATAGACGACAC-------
* **
56768643 GCCTATCTGATAGGCGATACACTTAGTATTTTCCCCATCCGGCTCAAGTTTAAAGTATCAGTTTA
178 GCCTATCTGATAGGCGATACACCTAACATTTTCCCCATCCGGCTCAAGTTTAAAGTATCAGTTTA
*
56768708 AAAAATATATATTTTACCTCCATAAAAAATAAAAAATAAATATTAAAATAATAAAAATAACATGG
243 AAAAATATATATTTTACCTCCAT----AATAAAAAATAAATATTAAAATAATAAAAATAACATGA
* *
56768773 CAATAAAAAAATATAACAAAAACATAACATAAACGATACATAATAAATACGAGTATTATTATTAT
304 CAATAAAAAAATATAACAAAAACATAACATAAACGATACATAATAAATACAAATATTATTATTAT
56768838 TTTAAAATGATAATAAGTAAAATGTATTGGTTTAAAATATAATA
369 TTTAAAATGATAATAAGTAAAATGTATTGGTTTAAAATATAATA
56768882 TATATAATAA
Statistics
Matches: 363, Mismatches: 33, Indels: 42
0.83 0.08 0.10
Matches are distributed among these distances:
406 1 0.00
407 77 0.21
408 9 0.02
409 15 0.04
415 2 0.01
416 1 0.00
417 2 0.01
418 1 0.00
419 3 0.01
422 42 0.12
427 23 0.06
428 33 0.09
429 19 0.05
430 2 0.01
432 1 0.00
433 20 0.06
434 4 0.01
435 2 0.01
436 94 0.26
437 12 0.03
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.33
Consensus pattern (417 bp):
TTTTTTACCTAAATAATATTAAAAATATATATATACTAAAATGACATGTTCTAAAAATTATGTAC
CAAAATGGTACATTCAAAAGGGTAGAGGGTGGTGCATAAGCAGCACCGCCTCTGACATAATTTAT
AAAAAATAACAATATTTTAGTAGTGGTGCCTATCTGATAGACGACACGCCTATCTGATAGGCGAT
ACACCTAACATTTTCCCCATCCGGCTCAAGTTTAAAGTATCAGTTTAAAAAATATATATTTTACC
TCCATAATAAAAAATAAATATTAAAATAATAAAAATAACATGACAATAAAAAAATATAACAAAAA
CATAACATAAACGATACATAATAAATACAAATATTATTATTATTTTAAAATGATAATAAGTAAAA
TGTATTGGTTTAAAATATAATAGGGTT
Found at i:56769764 original size:44 final size:44
Alignment explanation
Indices: 56769671--56769761 Score: 148
Period size: 45 Copynumber: 2.0 Consensus size: 44
56769661 AAGAAAATTA
56769671 AAATAATTTAATCTTGATAAATTTAAATGTAAGTAAATAAAGAC
1 AAATAATTTAATCTTGATAAATTTAAATGTAAGTAAATAAAGAC
*
56769715 AAATAATTTAATC-TGAAATAAATTTAAATTTAAGTAAATAAAGAC
1 AAATAATTTAATCTTG--ATAAATTTAAATGTAAGTAAATAAAGAC
56769760 AA
1 AA
56769762 TAAATAACGA
Statistics
Matches: 44, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
43 2 0.05
44 13 0.30
45 29 0.66
ACGTcount: A:0.55, C:0.04, G:0.08, T:0.33
Consensus pattern (44 bp):
AAATAATTTAATCTTGATAAATTTAAATGTAAGTAAATAAAGAC
Found at i:56770569 original size:91 final size:92
Alignment explanation
Indices: 56770412--56770642 Score: 398
Period size: 91 Copynumber: 2.6 Consensus size: 92
56770402 CAAAATAATA
56770412 GTATT-ATTTCTTTAGAATGTTTGTA-TTTTTTTATATCTATAAATTTAATGTAGTTGTTTAGAA
1 GTATTAATTTCTTTAGAATGTTTGTATTTTTTTTATATCTATAAATTTAATGTAGTTGTTTAGAA
56770475 TTTAAGGTTTCATTTTTATATTTTCGT
66 TTTAAGGTTTCATTTTTATATTTTCGT
*
56770502 GTATTAATTTC-TTAGAATGTTTGTATTTTTTTTATATCTATAAATTTAATGTAGTTGTTTAGTA
1 GTATTAATTTCTTTAGAATGTTTGTATTTTTTTTATATCTATAAATTTAATGTAGTTGTTTAGAA
56770566 TTTAAGGTTTCATTTTTATATTTTCGT
66 TTTAAGGTTTCATTTTTATATTTTCGT
* * *
56770593 GTATTAATTTCTTTA-AATGTTTGTATTTTTTTTGTATTTGTAAATTTAAT
1 GTATTAATTTCTTTAGAATGTTTGTATTTTTTTTATATCTATAAATTTAAT
56770643 TTAATTCGTA
Statistics
Matches: 134, Mismatches: 4, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
90 19 0.14
91 112 0.84
92 3 0.02
ACGTcount: A:0.26, C:0.04, G:0.12, T:0.59
Consensus pattern (92 bp):
GTATTAATTTCTTTAGAATGTTTGTATTTTTTTTATATCTATAAATTTAATGTAGTTGTTTAGAA
TTTAAGGTTTCATTTTTATATTTTCGT
Found at i:56770965 original size:20 final size:20
Alignment explanation
Indices: 56770919--56770965 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 20
56770909 AAATTAATAT
56770919 TAAAAACAGAATAATTACAA
1 TAAAAACAGAATAATTACAA
* *
56770939 AATAAAACA-AATATTTACATA
1 TA-AAAACAGAATAATTACA-A
56770960 TAAAAA
1 TAAAAA
56770966 TTAAAATTGT
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.66, C:0.09, G:0.02, T:0.23
Consensus pattern (20 bp):
TAAAAACAGAATAATTACAA
Found at i:56772540 original size:89 final size:89
Alignment explanation
Indices: 56772290--56772606 Score: 238
Period size: 89 Copynumber: 3.6 Consensus size: 89
56772280 TAAGAATAGT
* * * * * **
56772290 ATAC-GAC-AAATTAAATTTACAGACACAATAAAATACAAACCTTCTACAATATTAATACAAAAA
1 ATACAGACTAAATTAAATTTACAGATACAACAAAATACAAACATTCTAAAAAATTAATACATGAA
* *
56772353 AATATAAAATTCAAAC-AAAAATT
66 AATATAAAATTCAAACTAAATATA
* * * * * * * * *
56772376 GTAC-GCACTAAACTAAATTTAAACA-ACCAACAAACTACAAACAGAT-GAGCAAAATTAATATA
1 ATACAG-ACTAAATTAAATTTACAGATA-CAACAAAATACAAACA-TTCTA-AAAAATTAATACA
* * *
56772438 TGGAAATTTAAAATTCAAACTACATATA
62 TGAAAATATAAAATTCAAACTAAATATA
*
56772466 ATACAGATTAAATTAAATTTACAGATACAA-AAAATACAAACATTCTAAAAAATTAATACATGAA
1 ATACAGACTAAATTAAATTTACAGATACAACAAAATACAAACATTCTAAAAAATTAATACATGAA
* * *
56772530 AATATAAAAATGAAACATTAAATCCTA
66 AATATAAAATTCAAAC--TAAAT-ATA
* * *
56772557 A-ACA-ACTATATTAAATTTACAGATATAAAAAAAAATACAAACATTCTAAA
1 ATACAGACTAAATTAAATTTACAG--ATACAACAAAATACAAACATTCTAAA
56772607 GATATAATAC
Statistics
Matches: 179, Mismatches: 37, Indels: 24
0.75 0.15 0.10
Matches are distributed among these distances:
86 4 0.02
87 3 0.02
88 55 0.31
89 56 0.31
90 32 0.18
91 10 0.06
92 19 0.11
ACGTcount: A:0.57, C:0.14, G:0.04, T:0.25
Consensus pattern (89 bp):
ATACAGACTAAATTAAATTTACAGATACAACAAAATACAAACATTCTAAAAAATTAATACATGAA
AATATAAAATTCAAACTAAATATA
Found at i:56775708 original size:30 final size:29
Alignment explanation
Indices: 56775651--56775708 Score: 71
Period size: 30 Copynumber: 2.0 Consensus size: 29
56775641 TAAATTAGTA
*
56775651 GAAACCTGAAAAGTAGACAGCTGAATTTT
1 GAAACCTGAAAAGTAGACAGATGAATTTT
* * *
56775680 GAAATCTGAAAAAGTAGAGAGATTAATTT
1 GAAACCTG-AAAAGTAGACAGATGAATTT
56775709 CCTAGAAATA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 7 0.29
30 17 0.71
ACGTcount: A:0.45, C:0.09, G:0.21, T:0.26
Consensus pattern (29 bp):
GAAACCTGAAAAGTAGACAGATGAATTTT
Found at i:56788952 original size:35 final size:35
Alignment explanation
Indices: 56788906--56788976 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
56788896 TTTAAGCATA
56788906 TATATAAAATAAAAAGGGAGGAGAGTTCAAAAACT
1 TATATAAAATAAAAAGGGAGGAGAGTTCAAAAACT
56788941 TATATAAAATAAAAAGGGAGGAGAGTTCAAAAACT
1 TATATAAAATAAAAAGGGAGGAGAGTTCAAAAACT
56788976 T
1 T
56788977 TACCTGGATC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.54, C:0.06, G:0.20, T:0.21
Consensus pattern (35 bp):
TATATAAAATAAAAAGGGAGGAGAGTTCAAAAACT
Found at i:56789952 original size:2 final size:2
Alignment explanation
Indices: 56789945--56789976 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
56789935 TTATTTCAAA
56789945 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
56789977 TATTGTTTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:56791212 original size:15 final size:15
Alignment explanation
Indices: 56791182--56791210 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
56791172 TCATCTTACG
56791182 TGAAATAATTTAAAA
1 TGAAATAATTTAAAA
56791197 TGAAA-AATTTAAAA
1 TGAAATAATTTAAAA
56791211 ATAGATGTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (15 bp):
TGAAATAATTTAAAA
Found at i:56791629 original size:20 final size:20
Alignment explanation
Indices: 56791604--56791646 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
56791594 TTGCTGCACC
* *
56791604 ATGCTGTTGTTGTCCCTTCA
1 ATGCTGCTGCTGTCCCTTCA
56791624 ATGCTGCTGCTGTCCCTTCA
1 ATGCTGCTGCTGTCCCTTCA
56791644 ATG
1 ATG
56791647 GGAAAAAGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.12, C:0.28, G:0.21, T:0.40
Consensus pattern (20 bp):
ATGCTGCTGCTGTCCCTTCA
Found at i:56791743 original size:3 final size:3
Alignment explanation
Indices: 56791730--56791762 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
56791720 AAGAGAAAGG
*
56791730 AGA AG- AGA AGA AGA AGA AGA AGA AAA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
56791763 AGAAAGAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:56791763 original size:9 final size:9
Alignment explanation
Indices: 56791737--56791774 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
56791727 AGGAGAAGAG
*
56791737 AAGAAGAAG
1 AAGAAGAAA
56791746 AAGAAGAAA
1 AAGAAGAAA
56791755 AAGAAGAAA
1 AAGAAGAAA
*
56791764 GA-AAGAAA
1 AAGAAGAAA
56791772 AAG
1 AAG
56791775 GATAATGTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
8 7 0.28
9 18 0.72
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (9 bp):
AAGAAGAAA
Found at i:56792097 original size:21 final size:22
Alignment explanation
Indices: 56792059--56792100 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
56792049 TTTTATTTGA
*
56792059 TTTTATTTATTTATTTAAAATT
1 TTTTATTGATTTATTTAAAATT
56792081 TTTTATTGATTTA-TTAAAAT
1 TTTTATTGATTTATTTAAAAT
56792101 ATTGATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (22 bp):
TTTTATTGATTTATTTAAAATT
Found at i:56794069 original size:40 final size:41
Alignment explanation
Indices: 56794019--56794136 Score: 148
Period size: 40 Copynumber: 2.8 Consensus size: 41
56794009 ACCCGAATAT
*
56794019 AATAATTTTTTTTATTTTTTTAAATTTTAAAATACTTTTAA
1 AATAACTTTTTTTATTTTTTTAAATTTTAAAATACTTTTAA
* * *
56794060 AAT-ACTTTTTTAAATTTTTTAAATTTTAAAATATTTTTAA
1 AATAACTTTTTTTATTTTTTTAAATTTTAAAATACTTTTAA
* *
56794100 AATAATTTTTTTTATTTTTGTTTTAATTTTTAAAATA
1 AATAACTTTTTTTA--TTT-TTTTAAATTTTAAAATA
56794137 AATTTTTGGT
Statistics
Matches: 65, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
40 36 0.55
41 11 0.17
43 2 0.03
44 16 0.25
ACGTcount: A:0.36, C:0.02, G:0.01, T:0.61
Consensus pattern (41 bp):
AATAACTTTTTTTATTTTTTTAAATTTTAAAATACTTTTAA
Found at i:56794109 original size:12 final size:11
Alignment explanation
Indices: 56794043--56794109 Score: 63
Period size: 11 Copynumber: 6.4 Consensus size: 11
56794033 TTTTTTTAAA
*
56794043 TTTTAAAATAC
1 TTTTAAAATAT
56794054 TTTTAAAATACT
1 TTTTAAAATA-T
*
56794066 TTTTTAAAT-T
1 TTTTAAAATAT
56794076 TTTT--AA-A-
1 TTTTAAAATAT
56794083 TTTTAAAATAT
1 TTTTAAAATAT
56794094 TTTTAAAATAAT
1 TTTTAAAAT-AT
56794106 TTTT
1 TTTT
56794110 TTTATTTTTG
Statistics
Matches: 47, Mismatches: 2, Indels: 13
0.76 0.03 0.21
Matches are distributed among these distances:
7 4 0.09
8 2 0.04
9 2 0.04
10 6 0.13
11 19 0.40
12 14 0.30
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:56794544 original size:33 final size:34
Alignment explanation
Indices: 56794502--56794615 Score: 128
Period size: 33 Copynumber: 3.4 Consensus size: 34
56794492 CAGCCCACTA
56794502 CCACCTCAGTACTCCAG-T-CATCCTAGCTCGTAT
1 CCACCTCAGTACTCCAGCTCCATCC-AGCTCGTAT
* *
56794535 CCACCTCAGTACT-CTGCTCCTTCCAGCTCGTAT
1 CCACCTCAGTACTCCAGCTCCATCCAGCTCGTAT
* * *
56794568 CCACCTCAGTACTCCA-CTCCTTCCGGCCCGTAT
1 CCACCTCAGTACTCCAGCTCCATCCAGCTCGTAT
* *
56794601 CCACCGCCGTACTCC
1 CCACCTCAGTACTCC
56794616 GTTCCTCCCG
Statistics
Matches: 71, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
32 2 0.03
33 64 0.90
34 5 0.07
ACGTcount: A:0.17, C:0.46, G:0.12, T:0.25
Consensus pattern (34 bp):
CCACCTCAGTACTCCAGCTCCATCCAGCTCGTAT
Found at i:56794627 original size:33 final size:33
Alignment explanation
Indices: 56794530--56794627 Score: 124
Period size: 33 Copynumber: 3.0 Consensus size: 33
56794520 CATCCTAGCT
* * *
56794530 CGTATCCACCTCAGTACTCTGCTCCTTCCAGCT
1 CGTATCCACCTCAGTACTCCGCTCCTTCCGGCC
*
56794563 CGTATCCACCTCAGTACTCCACTCCTTCCGGCC
1 CGTATCCACCTCAGTACTCCGCTCCTTCCGGCC
* * * *
56794596 CGTATCCACCGCCGTACTCCGTTCCTCCCGGC
1 CGTATCCACCTCAGTACTCCGCTCCTTCCGGC
56794628 TTCATCGATG
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.13, C:0.47, G:0.14, T:0.26
Consensus pattern (33 bp):
CGTATCCACCTCAGTACTCCGCTCCTTCCGGCC
Found at i:56796060 original size:35 final size:35
Alignment explanation
Indices: 56796021--56796105 Score: 120
Period size: 36 Copynumber: 2.4 Consensus size: 35
56796011 AATTTAATTT
56796021 ATATTTT-ATTATTTGATTCA-AATATAATCTGTAAA
1 ATATTTTGA-TATTTGATT-AGAATATAATCTGTAAA
*
56796056 ATATTTTGATATTTTATTATGAATATAATCTGTAAA
1 ATATTTTGATATTTGATTA-GAATATAATCTGTAAA
56796092 ATATTTTGATATTT
1 ATATTTTGATATTT
56796106 TTGAATTTTT
Statistics
Matches: 46, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
34 1 0.02
35 15 0.33
36 30 0.65
ACGTcount: A:0.38, C:0.04, G:0.07, T:0.52
Consensus pattern (35 bp):
ATATTTTGATATTTGATTAGAATATAATCTGTAAA
Found at i:56796211 original size:19 final size:18
Alignment explanation
Indices: 56796169--56796214 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 18
56796159 ATATAATTGT
*
56796169 AATAATTTTTAATTATTT
1 AATAATTTTTAATTATTA
* *
56796187 ATTAATTTTGTAATTGTTA
1 AATAATTTT-TAATTATTA
56796206 AATAATTTT
1 AATAATTTT
56796215 AAAAACTTCT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
18 8 0.35
19 15 0.65
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (18 bp):
AATAATTTTTAATTATTA
Found at i:56796359 original size:21 final size:21
Alignment explanation
Indices: 56796327--56796378 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
56796317 ACCGCTATTT
56796327 CTAATCTCACCGCTACAGTATC
1 CTAATCTCACCGCTACAGTA-C
*
56796349 C-AATCTTACCGCTACAGTAC
1 CTAATCTCACCGCTACAGTAC
56796369 CTAATCTCAC
1 CTAATCTCAC
56796379 TGCCACCGCT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 2 0.07
21 24 0.89
22 1 0.04
ACGTcount: A:0.29, C:0.37, G:0.08, T:0.27
Consensus pattern (21 bp):
CTAATCTCACCGCTACAGTAC
Found at i:56803487 original size:30 final size:32
Alignment explanation
Indices: 56803438--56803497 Score: 88
Period size: 30 Copynumber: 1.9 Consensus size: 32
56803428 ATTATTATTA
* *
56803438 TTTTTTGAATCAATGCATACTTTAATCTTTGT
1 TTTTTTGAATCAATACATACTTCAATCTTTGT
56803470 TTTTTTGAA-CAA-ACATACTTCAATCTTT
1 TTTTTTGAATCAATACATACTTCAATCTTT
56803498 TATTTGTGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 14 0.54
31 3 0.12
32 9 0.35
ACGTcount: A:0.28, C:0.15, G:0.07, T:0.50
Consensus pattern (32 bp):
TTTTTTGAATCAATACATACTTCAATCTTTGT
Found at i:56804940 original size:18 final size:18
Alignment explanation
Indices: 56804913--56805005 Score: 114
Period size: 18 Copynumber: 5.2 Consensus size: 18
56804903 TACGACCGTT
56804913 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
* *
56804931 TACGGCACTATTTACGTA
1 TACGGTACTATTCACGTA
* **
56804949 TATGGTACTATTCATATA
1 TACGGTACTATTCACGTA
* *
56804967 TATGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
*
56804985 TACGGTACTGTTCACGTA
1 TACGGTACTATTCACGTA
56805003 TAC
1 TAC
56805006 AGTAGTTGGG
Statistics
Matches: 62, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 62 1.00
ACGTcount: A:0.28, C:0.20, G:0.16, T:0.35
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:56811284 original size:9 final size:10
Alignment explanation
Indices: 56811263--56811295 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
56811253 ACTAAATATT
56811263 AAATA-AAATA
1 AAATAGAAA-A
56811273 AAATAGAAAA
1 AAATAGAAAA
56811283 AAATAGAAAA
1 AAATAGAAAA
56811293 AAA
1 AAA
56811296 AATATAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 19 0.86
11 3 0.14
ACGTcount: A:0.82, C:0.00, G:0.06, T:0.12
Consensus pattern (10 bp):
AAATAGAAAA
Found at i:56821402 original size:31 final size:31
Alignment explanation
Indices: 56821364--56821431 Score: 109
Period size: 31 Copynumber: 2.2 Consensus size: 31
56821354 TTACAAAATT
56821364 ATCACTGAACTATTCAAAAGTTTTCATTTAA
1 ATCACTGAACTATTCAAAAGTTTTCATTTAA
* * *
56821395 CTCACTGAATTATTCAAAAGTTTTTATTTAA
1 ATCACTGAACTATTCAAAAGTTTTCATTTAA
56821426 ATCACT
1 ATCACT
56821432 TAAGTTTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.37, C:0.16, G:0.06, T:0.41
Consensus pattern (31 bp):
ATCACTGAACTATTCAAAAGTTTTCATTTAA
Found at i:56822475 original size:31 final size:31
Alignment explanation
Indices: 56822437--56822504 Score: 118
Period size: 31 Copynumber: 2.2 Consensus size: 31
56822427 TTACAAAATT
56822437 ATCACTGAACTATTCAAAAGTTTTTATTTAA
1 ATCACTGAACTATTCAAAAGTTTTTATTTAA
* *
56822468 CTCACTGAATTATTCAAAAGTTTTTATTTAA
1 ATCACTGAACTATTCAAAAGTTTTTATTTAA
56822499 ATCACT
1 ATCACT
56822505 AGGCTATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.37, C:0.15, G:0.06, T:0.43
Consensus pattern (31 bp):
ATCACTGAACTATTCAAAAGTTTTTATTTAA
Found at i:56824765 original size:26 final size:27
Alignment explanation
Indices: 56824714--56824771 Score: 77
Period size: 26 Copynumber: 2.2 Consensus size: 27
56824704 TATTATTTCC
*
56824714 AATA-AAAATAATAAATATATTGAAAT
1 AATATAAAATAATAAATATATCGAAAT
56824740 AATATAAAATAATAAA-ATA-CGAAAAT
1 AATATAAAATAATAAATATATCG-AAAT
56824766 AATATA
1 AATATA
56824772 TTTTTATTGA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
25 1 0.03
26 17 0.59
27 11 0.38
ACGTcount: A:0.67, C:0.02, G:0.03, T:0.28
Consensus pattern (27 bp):
AATATAAAATAATAAATATATCGAAAT
Found at i:56825881 original size:1 final size:1
Alignment explanation
Indices: 56825875--56825899 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
56825865 CCCACTTTTC
56825875 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
56825900 CCCAAACAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:56834639 original size:3 final size:3
Alignment explanation
Indices: 56834631--56834659 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
56834621 ATACCTTTAA
56834631 ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
56834660 AAACTTACCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (3 bp):
ATC
Found at i:56835530 original size:31 final size:31
Alignment explanation
Indices: 56835486--56835545 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
56835476 AAAATTTCAA
56835486 AATTAAAAAAGTATAA-AGACTAAAATTGACC
1 AATTAAAAAAGTATAAGA-ACTAAAATTGACC
* *
56835517 AATTTAAAGAGTATAAGAACTAAAATTGA
1 AATTAAAAAAGTATAAGAACTAAAATTGA
56835546 TCAAAATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 25 0.96
32 1 0.04
ACGTcount: A:0.57, C:0.07, G:0.12, T:0.25
Consensus pattern (31 bp):
AATTAAAAAAGTATAAGAACTAAAATTGACC
Found at i:56841028 original size:2 final size:2
Alignment explanation
Indices: 56841023--56841058 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
56841013 CTGAATACTT
56841023 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
56841059 TTACCTTTGC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:56845269 original size:32 final size:33
Alignment explanation
Indices: 56845214--56845282 Score: 113
Period size: 32 Copynumber: 2.1 Consensus size: 33
56845204 GAATTATACT
56845214 AGGTTATAACCTTTTTTTTTATAATATGTAAATTA
1 AGGTTATAACC--TTTTTTTATAATATGTAAATTA
56845249 AGGTTATAACC-TTTTTTATAATATGTAAATTA
1 AGGTTATAACCTTTTTTTATAATATGTAAATTA
56845281 AG
1 AG
56845283 TTAAAAATAA
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
32 23 0.68
35 11 0.32
ACGTcount: A:0.36, C:0.06, G:0.10, T:0.48
Consensus pattern (33 bp):
AGGTTATAACCTTTTTTTATAATATGTAAATTA
Found at i:56854052 original size:27 final size:27
Alignment explanation
Indices: 56853706--56854051 Score: 401
Period size: 27 Copynumber: 12.9 Consensus size: 27
56853696 AAAATAACTA
*
56853706 AAATACCCCCATAGGGTAAAATGACCA
1 AAATACCCCCATAGGGTAAAATGACCG
** *
56853733 AAATACCCTTAGAGGGTAAAATGACCG
1 AAATACCCCCATAGGGTAAAATGACCG
* * *
56853760 AAATACCCTCATAGTGTAAAATAACCG
1 AAATACCCCCATAGGGTAAAATGACCG
*
56853787 AAATACCCCCATAGGGTAGAATGACCG
1 AAATACCCCCATAGGGTAAAATGACCG
* *
56853814 AAATACCCTCATAGGGTAAAATGATCG
1 AAATACCCCCATAGGGTAAAATGACCG
* * *
56853841 AAATACCCCTATAGGGTAAATTGACTG
1 AAATACCCCCATAGGGTAAAATGACCG
* * *
56853868 AAATA-CCCCTTAAGGT-AAATAACCG
1 AAATACCCCCATAGGGTAAAATGACCG
* * * *
56853893 AAATACCCCTATAGGGTAGAATAATCG
1 AAATACCCCCATAGGGTAAAATGACCG
* * *
56853920 AAATACCCTCATAGGGTAAAATGAACA
1 AAATACCCCCATAGGGTAAAATGACCG
* * * *
56853947 AAATA-CTCCAGTAGGCTAGAATGGCCG
1 AAATACCCCCA-TAGGGTAAAATGACCG
56853974 AAATACCCCCATAGGGTAAAATGACCG
1 AAATACCCCCATAGGGTAAAATGACCG
* *
56854001 AAATACCCTCATAGGGTAAAATGATCG
1 AAATACCCCCATAGGGTAAAATGACCG
56854028 AAATACCCCCATAGGGTAAAATGA
1 AAATACCCCCATAGGGTAAAATGA
56854052 TTATTATACC
Statistics
Matches: 264, Mismatches: 51, Indels: 8
0.82 0.16 0.02
Matches are distributed among these distances:
25 11 0.04
26 19 0.07
27 230 0.87
28 4 0.02
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.19
Consensus pattern (27 bp):
AAATACCCCCATAGGGTAAAATGACCG
Found at i:56854158 original size:26 final size:26
Alignment explanation
Indices: 56854109--56854183 Score: 73
Period size: 26 Copynumber: 2.8 Consensus size: 26
56854099 GGAATACCTT
* *
56854109 CATAGGGTAAAATGATCGA-AATACCC
1 CATAGGGTAAAATGA-CTATTATACCC
56854135 CATAGGGTAAAATGACTATTATACCC
1 CATAGGGTAAAATGACTATTATACCC
* *
56854161 C-TAGGAGATGAAATGACTGTTAT
1 CATAGG-G-TAAAATGACTATTAT
56854184 GACTTTATGT
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
25 6 0.14
26 23 0.55
27 13 0.31
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.25
Consensus pattern (26 bp):
CATAGGGTAAAATGACTATTATACCC
Found at i:56854182 original size:98 final size:99
Alignment explanation
Indices: 56854002--56854184 Score: 323
Period size: 98 Copynumber: 1.9 Consensus size: 99
56853992 AAATGACCGA
*
56854002 AATACCCTCATAGGGTAAAATGATCGAAATACCCCCATAGGGTAAAATGATTATTATACCCCTAG
1 AATACCCTCATAGGGTAAAATGATCGAAATACCCCCATAGGGTAAAATGACTATTATACCCCTAG
*
56854067 GAGATGAAATAATTGTTATGGCTAGAATGATTGG
66 GAGATGAAATAACTGTTATGGCTAGAATGATTGG
*
56854101 AATACCTTCATAGGGTAAAATGATCGAAATA-CCCCATAGGGTAAAATGACTATTATACCCCTAG
1 AATACCCTCATAGGGTAAAATGATCGAAATACCCCCATAGGGTAAAATGACTATTATACCCCTAG
*
56854165 GAGATGAAATGACTGTTATG
66 GAGATGAAATAACTGTTATG
56854185 ACTTTATGTT
Statistics
Matches: 80, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
98 50 0.62
99 30 0.38
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.27
Consensus pattern (99 bp):
AATACCCTCATAGGGTAAAATGATCGAAATACCCCCATAGGGTAAAATGACTATTATACCCCTAG
GAGATGAAATAACTGTTATGGCTAGAATGATTGG
Found at i:56858146 original size:107 final size:107
Alignment explanation
Indices: 56858000--56858195 Score: 275
Period size: 107 Copynumber: 1.8 Consensus size: 107
56857990 CAAAAAATTA
* * * * *
56858000 AGTGTGTTGGGCTGAGTAACTGGGGTGGGGTGTTTGGGTTGTCATCCCACTTCGCGTTAAAAGGG
1 AGTGTGTTGGGCTGAATAACCGGGGTGGGGTGCTTGGGTTGCCATCCCACTTCGCGTCAAAAGGG
56858065 CCAAAACATTCTTAACCAAAAAAAATATAATAGTAAATTAGG
66 CCAAAACATTCTTAACCAAAAAAAATATAATAGTAAATTAGG
* ** * *
56858107 AGTGTGTTGGGCTTAATAACCGGGGTGGGGTGCTTGGGTTGCCATTTCACTTTGTGTCAAAAGGG
1 AGTGTGTTGGGCTGAATAACCGGGGTGGGGTGCTTGGGTTGCCATCCCACTTCGCGTCAAAAGGG
* **
56858172 CCAATACATTCTTAAGTAAAAAAA
66 CCAAAACATTCTTAACCAAAAAAA
56858196 TGAAGGAAAA
Statistics
Matches: 76, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
107 76 1.00
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (107 bp):
AGTGTGTTGGGCTGAATAACCGGGGTGGGGTGCTTGGGTTGCCATCCCACTTCGCGTCAAAAGGG
CCAAAACATTCTTAACCAAAAAAAATATAATAGTAAATTAGG
Found at i:56858785 original size:11 final size:12
Alignment explanation
Indices: 56858767--56858795 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
56858757 AATTTGAATT
56858767 TTATTTTTAGGA
1 TTATTTTTAGGA
56858779 TTATTTTTAGGA
1 TTATTTTTAGGA
56858791 TTATT
1 TTATT
56858796 ATATTGTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.14, T:0.62
Consensus pattern (12 bp):
TTATTTTTAGGA
Found at i:56865935 original size:123 final size:122
Alignment explanation
Indices: 56865719--56865970 Score: 357
Period size: 123 Copynumber: 2.1 Consensus size: 122
56865709 CTAAAAAATC
*
56865719 GAAGTCAATCGAAATCACACCCTCAATTCCCTGAAGGCGCACCAACCAACCCTTGATCTCCACCC
1 GAAGTCAATCGAAATCACACCCTCAATTCCCTGAAGACGCACCAACCAACCCTTGATCTCCACCC
* *
56865784 AACTAACGAAAGAACGTAGTGCAGTTTGGCAACACAAGAGAGAACGAATCAAAAAGAG
66 AACTAACGAAAAAACGTAGTGCAATTTGGCAACACAAGAGAGAACGAATCAAAAAG-G
** * *
56865842 GAAGTCAA-CAGAAATCGTACCCTCAATTCCTTGAAGACGCACCAACCAACCCTTGGTCTCCACC
1 GAAGTCAATC-GAAATCACACCCTCAATTCCCTGAAGACGCACCAACCAACCCTTGATCTCCACC
** * *
56865906 CAAC-AGACGAAAAAACGTAGTGCAATTTGGCAATGCAAGAGAGAACGGATCGAAAAGG
65 CAACTA-ACGAAAAAACGTAGTGCAATTTGGCAACACAAGAGAGAACGAATCAAAAAGG
56865964 GAA-TCAA
1 GAAGTCAA
56865971 AGACTAGCAG
Statistics
Matches: 116, Mismatches: 11, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
121 4 0.03
122 6 0.05
123 106 0.91
ACGTcount: A:0.39, C:0.27, G:0.19, T:0.15
Consensus pattern (122 bp):
GAAGTCAATCGAAATCACACCCTCAATTCCCTGAAGACGCACCAACCAACCCTTGATCTCCACCC
AACTAACGAAAAAACGTAGTGCAATTTGGCAACACAAGAGAGAACGAATCAAAAAGG
Found at i:56866498 original size:3 final size:3
Alignment explanation
Indices: 56866490--56866540 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
56866480 TGTATTGTAC
56866490 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
56866538 CAT
1 CAT
56866541 TATAATATTA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
CAT
Found at i:56867242 original size:15 final size:16
Alignment explanation
Indices: 56867210--56867244 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
56867200 ACTTATACCG
56867210 AAAATGAAATATTAAA
1 AAAATGAAATATTAAA
56867226 AAAATGAAATATTAAA
1 AAAATGAAATATTAAA
56867242 AAA
1 AAA
56867245 GGCAAGTGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (16 bp):
AAAATGAAATATTAAA
Found at i:56869662 original size:26 final size:26
Alignment explanation
Indices: 56869633--56869707 Score: 123
Period size: 26 Copynumber: 2.9 Consensus size: 26
56869623 AACACACCAA
*
56869633 TATCACAGCAAAACTGCCAGTAATAG
1 TATCACAGCAAAGCTGCCAGTAATAG
* *
56869659 TATCGCAACAAAGCTGCCAGTAATAG
1 TATCACAGCAAAGCTGCCAGTAATAG
56869685 TATCACAGCAAAGCTGCCAGTAA
1 TATCACAGCAAAGCTGCCAGTAA
56869708 CAATATACTT
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 44 1.00
ACGTcount: A:0.40, C:0.24, G:0.17, T:0.19
Consensus pattern (26 bp):
TATCACAGCAAAGCTGCCAGTAATAG
Found at i:56871819 original size:50 final size:50
Alignment explanation
Indices: 56871744--56871878 Score: 234
Period size: 50 Copynumber: 2.7 Consensus size: 50
56871734 ATTTGGGTAA
56871744 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
*
56871794 AGAGGTCACATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* **
56871844 AGACGTCCCCCGTAAGACCATGTCTGGGACATGGC
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGC
56871879 ATGGGCACTA
Statistics
Matches: 80, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 80 1.00
ACGTcount: A:0.24, C:0.24, G:0.33, T:0.19
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
Found at i:56875184 original size:3 final size:3
Alignment explanation
Indices: 56875176--56875211 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
56875166 TGTACTGCAC
* *
56875176 CAT CAT CAT CAT CAT CAC CAC CAT CAT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
56875212 TATAATATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.33, C:0.39, G:0.00, T:0.28
Consensus pattern (3 bp):
CAT
Found at i:56875200 original size:18 final size:18
Alignment explanation
Indices: 56875173--56875210 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
56875163 AGTTGTACTG
*
56875173 CACCATCATCATCATCAT
1 CACCACCATCATCATCAT
56875191 CACCACCATCATCATCAT
1 CACCACCATCATCATCAT
56875209 CA
1 CA
56875211 TTATAATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.34, C:0.42, G:0.00, T:0.24
Consensus pattern (18 bp):
CACCACCATCATCATCAT
Found at i:56877652 original size:18 final size:18
Alignment explanation
Indices: 56877621--56877668 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
56877611 CGTCGTTCGT
*
56877621 TTTCAAAACATTATTC-A
1 TTTCAAAACGTTATTCAA
*
56877638 TTTACAAATCGTTATTCAA
1 TTT-CAAAACGTTATTCAA
56877657 TTTCAAAACGTT
1 TTTCAAAACGTT
56877669 TTATTTTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 3 0.12
18 19 0.73
19 4 0.15
ACGTcount: A:0.38, C:0.17, G:0.04, T:0.42
Consensus pattern (18 bp):
TTTCAAAACGTTATTCAA
Found at i:56881470 original size:6 final size:6
Alignment explanation
Indices: 56881461--56881494 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
56881451 TTTGAAAAGG
56881461 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAA
56881495 TATATTATCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:56883659 original size:27 final size:27
Alignment explanation
Indices: 56883615--56883882 Score: 270
Period size: 27 Copynumber: 10.0 Consensus size: 27
56883605 CCGTAATGGG
* *
56883615 ACCGAAATACCCTCGAAGGTTAAAATT
1 ACCGAAATACCCTTGAAGGGTAAAATT
*
56883642 ACCGAAATACCTTTGAAGGGTAAAATT
1 ACCGAAATACCCTTGAAGGGTAAAATT
* * *
56883669 ACTGAAATACCCTTGAAAGTTAAAATT
1 ACCGAAATACCCTTGAAGGGTAAAATT
** *
56883696 AGTGAAATACCCTTGAAAGGTAAAATT
1 ACCGAAATACCCTTGAAGGGTAAAATT
* * *
56883723 ACCGAACTACTCTCGAAGGGTAAAATT
1 ACCGAAATACCCTTGAAGGGTAAAATT
* * *
56883750 ATCGAAATACCC-TGAAAGGTAAAATG
1 ACCGAAATACCCTTGAAGGGTAAAATT
* * *
56883776 ATCGAAATACCCTTAAATGGTAAAATT
1 ACCGAAATACCCTTGAAGGGTAAAATT
** ** *
56883803 ACAAAAATACCCCCGAAGGGTAAAATG
1 ACCGAAATACCCTTGAAGGGTAAAATT
** *
56883830 ACCGAAATACCCTCAAAGGGTAAAATG
1 ACCGAAATACCCTTGAAGGGTAAAATT
*
56883857 ACCGAAATACCCCTGTAA-GGTAAAAT
1 ACCGAAATACCCTTG-AAGGGTAAAAT
56883883 AATCGTTATA
Statistics
Matches: 200, Mismatches: 39, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
26 23 0.12
27 175 0.88
28 2 0.01
ACGTcount: A:0.43, C:0.18, G:0.16, T:0.22
Consensus pattern (27 bp):
ACCGAAATACCCTTGAAGGGTAAAATT
Found at i:56884104 original size:26 final size:26
Alignment explanation
Indices: 56884075--56884148 Score: 94
Period size: 26 Copynumber: 2.8 Consensus size: 26
56884065 ATACCACATA
*
56884075 TACTGTTACTGGCAGCTTTGCTGTGT
1 TACTGTTACTGGCAGCTTTGCTGAGT
* * *
56884101 TACTGTTACTGGAAACTTTGCAGAGT
1 TACTGTTACTGGCAGCTTTGCTGAGT
* *
56884127 TATTATTACTGGCAGCTTTGCT
1 TACTGTTACTGGCAGCTTTGCT
56884149 ACGATATTGG
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.19, C:0.18, G:0.23, T:0.41
Consensus pattern (26 bp):
TACTGTTACTGGCAGCTTTGCTGAGT
Found at i:56884298 original size:28 final size:28
Alignment explanation
Indices: 56884257--56884342 Score: 109
Period size: 28 Copynumber: 3.0 Consensus size: 28
56884247 ACTGCATTTT
* *
56884257 ATTGATTATTGTATTGGGCTAAAGCTCAC
1 ATTG-TTACTGTATTGGGCTAAAGCCCAC
*
56884286 ATTGTTACTGTATTGGGCTAAGGCCCAC
1 ATTGTTACTGTATTGGGCTAAAGCCCAC
* * *
56884314 ACTGTTACTGTAATGGACTAAAGCCCAC
1 ATTGTTACTGTATTGGGCTAAAGCCCAC
56884342 A
1 A
56884343 CTATACTGAT
Statistics
Matches: 50, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
28 46 0.92
29 4 0.08
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (28 bp):
ATTGTTACTGTATTGGGCTAAAGCCCAC
Found at i:56884343 original size:28 final size:28
Alignment explanation
Indices: 56884266--56884344 Score: 113
Period size: 28 Copynumber: 2.8 Consensus size: 28
56884256 TATTGATTAT
* *
56884266 TGTATTGGGCTAAAGCTCACATTGTTAC
1 TGTATTGGGCTAAAGCCCACACTGTTAC
*
56884294 TGTATTGGGCTAAGGCCCACACTGTTAC
1 TGTATTGGGCTAAAGCCCACACTGTTAC
* *
56884322 TGTAATGGACTAAAGCCCACACT
1 TGTATTGGGCTAAAGCCCACACT
56884345 ATACTGATTC
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 45 1.00
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (28 bp):
TGTATTGGGCTAAAGCCCACACTGTTAC
Found at i:56884434 original size:40 final size:40
Alignment explanation
Indices: 56884376--56884455 Score: 133
Period size: 40 Copynumber: 2.0 Consensus size: 40
56884366 CAGGCCTAGA
*
56884376 CTGATTCTGCATGTTGCATAGTGAATGGCTAGTAGAGGAT
1 CTGATTCTGCATGATGCATAGTGAATGGCTAGTAGAGGAT
* *
56884416 CTGATTCTGCATGATGCATAGTGATTGGCTAGTAGGGGAT
1 CTGATTCTGCATGATGCATAGTGAATGGCTAGTAGAGGAT
56884456 TACACACTGA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.24, C:0.12, G:0.31, T:0.33
Consensus pattern (40 bp):
CTGATTCTGCATGATGCATAGTGAATGGCTAGTAGAGGAT
Found at i:56886813 original size:18 final size:16
Alignment explanation
Indices: 56886790--56886823 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 16
56886780 TGAGTGTTGC
56886790 ATTTTAATCCTTCATTTT
1 ATTTTAAT--TTCATTTT
56886808 ATTTTAATTTCATTTT
1 ATTTTAATTTCATTTT
56886824 TCCCATTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
18 8 0.50
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.65
Consensus pattern (16 bp):
ATTTTAATTTCATTTT
Found at i:56886903 original size:3 final size:3
Alignment explanation
Indices: 56886895--56887013 Score: 85
Period size: 3 Copynumber: 39.0 Consensus size: 3
56886885 TTAGTTTAAG
*
56886895 ATT ATT ATT GATTT AGT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT -A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * * * * * *
56886942 ATT ATT AGT AGT AGT AGT AGT AGT AGT AGT AGT ACT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* ** *
56886990 GTT ATT GGT ATT ATT ATT CTT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT
56887014 TTTTTTTATT
Statistics
Matches: 101, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
3 97 0.96
4 2 0.02
5 2 0.02
ACGTcount: A:0.30, C:0.02, G:0.12, T:0.56
Consensus pattern (3 bp):
ATT
Found at i:56887327 original size:4 final size:4
Alignment explanation
Indices: 56887318--56887388 Score: 142
Period size: 4 Copynumber: 17.8 Consensus size: 4
56887308 TATTTTCATT
56887318 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
56887366 ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATA
56887389 ATCTATTGTT
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 67 1.00
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:56887460 original size:19 final size:18
Alignment explanation
Indices: 56887438--56887516 Score: 54
Period size: 19 Copynumber: 4.2 Consensus size: 18
56887428 CTCTTTCAAA
56887438 TATTTTAATATCTTTAATT
1 TATTTTAATAT-TTTAATT
* *
56887457 TATTTCAACTTATTTCAA--
1 TATTTTAA--TATTTTAATT
*
56887475 TATTGTTAATTTATTTAAATT
1 TATT-TTAA--TATTTTAATT
*
56887496 TATTTTAACATTTTAATT
1 TATTTTAATATTTTAATT
56887514 TAT
1 TAT
56887517 ATATATTATA
Statistics
Matches: 48, Mismatches: 7, Indels: 11
0.73 0.11 0.17
Matches are distributed among these distances:
18 15 0.31
19 18 0.38
20 8 0.17
21 7 0.15
ACGTcount: A:0.33, C:0.06, G:0.01, T:0.59
Consensus pattern (18 bp):
TATTTTAATATTTTAATT
Found at i:56887476 original size:29 final size:28
Alignment explanation
Indices: 56887438--56887516 Score: 104
Period size: 29 Copynumber: 2.8 Consensus size: 28
56887428 CTCTTTCAAA
*
56887438 TATTTTAATATCTTTAATTTATTTCAACT
1 TATTTTAATAT-TTTAATTTATTTAAACT
* *
56887467 TATTTCAATATTGTTAATTTATTTAAATT
1 TATTTTAATATT-TTAATTTATTTAAACT
*
56887496 TATTTTAACATTTTAATTTAT
1 TATTTTAATATTTTAATTTAT
56887517 ATATATTATA
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
28 10 0.23
29 34 0.77
ACGTcount: A:0.33, C:0.06, G:0.01, T:0.59
Consensus pattern (28 bp):
TATTTTAATATTTTAATTTATTTAAACT
Found at i:56893991 original size:71 final size:71
Alignment explanation
Indices: 56893875--56894021 Score: 276
Period size: 71 Copynumber: 2.1 Consensus size: 71
56893865 TTCGTGGAAA
*
56893875 TAGAACTCTTCTTGTAAACATGTGTGTAATCACACCCTTTCTCAACTGCAAATCGGTAAAAGCCA
1 TAGAACTCTTCTTGTAAACATGTGTGTAATCACACCCTTTCTCAACTGCAAACCGGTAAAAGCCA
56893940 AAAAGC
66 AAAAGC
*
56893946 TAGAACTCTTCTTGTAAACATGTGTGTAATCACACCCTTTCTCAACTGCAAACCGGTAAAAGCCG
1 TAGAACTCTTCTTGTAAACATGTGTGTAATCACACCCTTTCTCAACTGCAAACCGGTAAAAGCCA
56894011 AAAAGC
66 AAAAGC
56894017 TAGAA
1 TAGAA
56894022 AAGACGGCAC
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 74 1.00
ACGTcount: A:0.35, C:0.24, G:0.15, T:0.26
Consensus pattern (71 bp):
TAGAACTCTTCTTGTAAACATGTGTGTAATCACACCCTTTCTCAACTGCAAACCGGTAAAAGCCA
AAAAGC
Found at i:56894174 original size:27 final size:27
Alignment explanation
Indices: 56894145--56894360 Score: 278
Period size: 27 Copynumber: 8.0 Consensus size: 27
56894135 TAATGGGACC
*
56894145 GAAATACCCTTGAAGGGTAAAATTA-T
1 GAAATACCCTCGAAGGGTAAAATTACT
*
56894171 CGAAATACCCTCAAAGGGTAAAATTACT
1 -GAAATACCCTCGAAGGGTAAAATTACT
* **
56894199 TAAATGTCCTCGAAGGGTAAAATTA-T
1 GAAATACCCTCGAAGGGTAAAATTACT
*
56894225 CGAAATACCCTTGAAGGGTAAAATTACT
1 -GAAATACCCTCGAAGGGTAAAATTACT
* *
56894253 GAAATACCTTCGAAAGGTAAAATTA-T
1 GAAATACCCTCGAAGGGTAAAATTACT
56894279 CGAAATACCCTCGAAGGGTAAAATTACT
1 -GAAATACCCTCGAAGGGTAAAATTACT
*
56894307 GAAATACCCTCGAAGGGTAAAATGACT
1 GAAATACCCTCGAAGGGTAAAATTACT
* *
56894334 GAAATACCC-CAAAGGGTAAAATGACT
1 GAAATACCCTCGAAGGGTAAAATTACT
56894360 G
1 G
56894361 TTATGGCCTT
Statistics
Matches: 167, Mismatches: 17, Indels: 11
0.86 0.09 0.06
Matches are distributed among these distances:
26 19 0.11
27 145 0.87
28 3 0.02
ACGTcount: A:0.42, C:0.17, G:0.19, T:0.23
Consensus pattern (27 bp):
GAAATACCCTCGAAGGGTAAAATTACT
Found at i:56894551 original size:26 final size:26
Alignment explanation
Indices: 56894522--56894592 Score: 97
Period size: 26 Copynumber: 2.7 Consensus size: 26
56894512 ATGCGACATA
*
56894522 TACTGTTACTGGTAGCTTTGCCGCGT
1 TACTGTTACTGGAAGCTTTGCCGCGT
* *
56894548 TACTGTTACTGGCAGCTTTGCTGCGT
1 TACTGTTACTGGAAGCTTTGCCGCGT
* *
56894574 TATTATTACTGGAAGCTTT
1 TACTGTTACTGGAAGCTTT
56894593 ACTGCAATAT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.15, C:0.20, G:0.24, T:0.41
Consensus pattern (26 bp):
TACTGTTACTGGAAGCTTTGCCGCGT
Found at i:56894603 original size:26 final size:26
Alignment explanation
Indices: 56894553--56894603 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
56894543 CGCGTTACTG
* * **
56894553 TTACTGGCAGCTTTGCTGCGTTATTA
1 TTACTGGAAGCTTTACTGCAATATTA
56894579 TTACTGGAAGCTTTACTGCAATATT
1 TTACTGGAAGCTTTACTGCAATATT
56894604 GGTGTGTTGG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.22, C:0.18, G:0.20, T:0.41
Consensus pattern (26 bp):
TTACTGGAAGCTTTACTGCAATATTA
Found at i:56894734 original size:28 final size:28
Alignment explanation
Indices: 56894694--56894778 Score: 109
Period size: 28 Copynumber: 3.1 Consensus size: 28
56894684 TACTGATTAC
*
56894694 TGTATTGGGCTAAAGCCCACATTGTTAT
1 TGTATTGGGCTAAGGCCCACATTGTTAT
* * *
56894722 TGTATTGGGCTAAGGACCATATTGTTAC
1 TGTATTGGGCTAAGGCCCACATTGTTAT
* *
56894750 TGTAATGGGCTAAGGCCCACACTG-TAT
1 TGTATTGGGCTAAGGCCCACATTGTTAT
56894777 TG
1 TG
56894779 ATACTATATA
Statistics
Matches: 48, Mismatches: 9, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
27 4 0.08
28 44 0.92
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.33
Consensus pattern (28 bp):
TGTATTGGGCTAAGGCCCACATTGTTAT
Done.