Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr9
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: 48574783
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2023350 characters in sequence are not A, C, G, or T
File 90 of 135
Found at i:34259695 original size:19 final size:19
Alignment explanation
Indices: 34259673--34259750 Score: 63
Period size: 19 Copynumber: 4.2 Consensus size: 19
34259663 AATACGACAA
*
34259673 TTTTTGAAATATGAGAATT
1 TTTTTAAAATATGAGAATT
*
34259692 TTTTTAAAACATG-GAAATT
1 TTTTTAAAATATGAG-AATT
* **
34259711 TTTTTGAAAACA--AGAAAA
1 TTTTT-AAAATATGAGAATT
*
34259729 TTTTCAAAATATGAGAATT
1 TTTTTAAAATATGAGAATT
34259748 TTT
1 TTT
34259751 GAAAACACGG
Statistics
Matches: 46, Mismatches: 8, Indels: 10
0.72 0.12 0.16
Matches are distributed among these distances:
17 5 0.11
18 7 0.15
19 28 0.61
20 6 0.13
ACGTcount: A:0.42, C:0.04, G:0.12, T:0.42
Consensus pattern (19 bp):
TTTTTAAAATATGAGAATT
Found at i:34259713 original size:20 final size:20
Alignment explanation
Indices: 34259688--34259732 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
34259678 GAAATATGAG
* *
34259688 AATTTTTTT-AAAACATGGA
1 AATTTTTTTGAAAACAAGAA
34259707 AATTTTTTTGAAAACAAGAA
1 AATTTTTTTGAAAACAAGAA
34259727 AATTTT
1 AATTTT
34259733 CAAAATATGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.44, C:0.04, G:0.09, T:0.42
Consensus pattern (20 bp):
AATTTTTTTGAAAACAAGAA
Found at i:34259731 original size:56 final size:57
Alignment explanation
Indices: 34259610--34259865 Score: 204
Period size: 56 Copynumber: 4.8 Consensus size: 57
34259600 AAAATTTTAG
* * * * **
34259610 AAACACGAAAATTTTTAAAACACGACAA--TTTTG-AAACACGGTCAA--TTTTTGA
1 AAACACGAAAATTTTTGAAATATGAGAATTTTTTGAAAACACGGGAAATTTTTTTGA
* * * *
34259662 AAATACGACAATTTTTGAAATATGAGAATTTTTTTAAAACA-TGGAAATTTTTTTGA
1 AAACACGAAAATTTTTGAAATATGAGAATTTTTTGAAAACACGGGAAATTTTTTTGA
* ** *
34259718 AAACAAGAAAATTTTCAAAATATGAGAA-TTTTTGAAAACACGGGAAATTTTTTTAA
1 AAACACGAAAATTTTTGAAATATGAGAATTTTTTGAAAACACGGGAAATTTTTTTGA
*
34259774 AAACACGAAAATTTTTGAAACACT-AGAA-TTTTT-AAAACAC--GAAGA--TTTTTG-
1 AAACACGAAAATTTTTGAAATA-TGAGAATTTTTTGAAAACACGGGAA-ATTTTTTTGA
* ** *
34259825 AAACACGAAAATTTTAGAAACGTGA-AAATTTTT-AAAACACG
1 AAACACGAAAATTTTTGAAATATGAGAATTTTTTGAAAACACG
34259866 ACAATTTTGA
Statistics
Matches: 168, Mismatches: 25, Indels: 22
0.78 0.12 0.10
Matches are distributed among these distances:
50 3 0.02
51 33 0.20
52 27 0.16
53 3 0.02
54 8 0.05
55 23 0.14
56 70 0.42
57 1 0.01
ACGTcount: A:0.46, C:0.10, G:0.12, T:0.32
Consensus pattern (57 bp):
AAACACGAAAATTTTTGAAATATGAGAATTTTTTGAAAACACGGGAAATTTTTTTGA
Found at i:34259776 original size:21 final size:20
Alignment explanation
Indices: 34259746--34259789 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
34259736 AATATGAGAA
* *
34259746 TTTTTGAAAACACGGGAAATT
1 TTTTTAAAAACAC-GAAAATT
34259767 TTTTTAAAAACACGAAAATT
1 TTTTTAAAAACACGAAAATT
34259787 TTT
1 TTT
34259790 GAAACACTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.41, C:0.09, G:0.11, T:0.39
Consensus pattern (20 bp):
TTTTTAAAAACACGAAAATT
Found at i:34260183 original size:5 final size:5
Alignment explanation
Indices: 34260173--34260197 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
34260163 TAAAATTATT
34260173 TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA
34260198 ATTGAAGTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:34260387 original size:7 final size:7
Alignment explanation
Indices: 34260375--34260399 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
34260365 TTCTTCTTCT
34260375 TTTTTTC
1 TTTTTTC
34260382 TTTTTTC
1 TTTTTTC
34260389 TTTTTTC
1 TTTTTTC
34260396 TTTT
1 TTTT
34260400 CTTTTTCTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTC
Found at i:34260404 original size:18 final size:18
Alignment explanation
Indices: 34260368--34260409 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
34260358 GAACCCCTTC
*
34260368 TTCTTCTTTTTTTCTTTT
1 TTCTTTTTTTTTTCTTTT
34260386 TTCTTTTTTCTTTTC-TTT
1 TTCTTTTTT-TTTTCTTTT
34260404 TTCTTT
1 TTCTTT
34260410 CCCTTTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 17 0.77
19 5 0.23
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (18 bp):
TTCTTTTTTTTTTCTTTT
Found at i:34260406 original size:11 final size:11
Alignment explanation
Indices: 34260365--34260422 Score: 50
Period size: 11 Copynumber: 5.4 Consensus size: 11
34260355 ATTGAACCCC
*
34260365 TTCTTCTTCTT
1 TTCTTTTTCTT
34260376 TT-TTTCTT-TT
1 TTCTTT-TTCTT
34260386 TTCTTTTTTCTT
1 TTC-TTTTTCTT
34260398 TTCTTTTTCTT
1 TTCTTTTTCTT
* *
34260409 TCCCTTTT-TT
1 TTCTTTTTCTT
34260419 TTCT
1 TTCT
34260423 GTTGGGCTGC
Statistics
Matches: 38, Mismatches: 5, Indels: 9
0.73 0.10 0.17
Matches are distributed among these distances:
10 10 0.26
11 20 0.53
12 8 0.21
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (11 bp):
TTCTTTTTCTT
Found at i:34260500 original size:24 final size:24
Alignment explanation
Indices: 34260440--34260537 Score: 118
Period size: 24 Copynumber: 4.3 Consensus size: 24
34260430 TGCTTGCGTG
*
34260440 TGGGCCTGGCCTGCTGGG-TGCGC
1 TGGGCCTGGCCTACTGGGCTGCGC
34260463 TGGG--T---CTACTGGGCTGCGC
1 TGGGCCTGGCCTACTGGGCTGCGC
*
34260482 TGGGCCTGGCCTGCTGGGCTGCGC
1 TGGGCCTGGCCTACTGGGCTGCGC
* *
34260506 TGGGCCTGCCCTACTGGGTTGCGC
1 TGGGCCTGGCCTACTGGGCTGCGC
34260530 TGGGCCTG
1 TGGGCCTG
34260538 CTGAAAATGG
Statistics
Matches: 64, Mismatches: 5, Indels: 11
0.80 0.06 0.14
Matches are distributed among these distances:
18 7 0.11
19 9 0.14
21 2 0.03
23 4 0.06
24 42 0.66
ACGTcount: A:0.02, C:0.31, G:0.44, T:0.23
Consensus pattern (24 bp):
TGGGCCTGGCCTACTGGGCTGCGC
Found at i:34260529 original size:48 final size:42
Alignment explanation
Indices: 34260440--34260537 Score: 133
Period size: 48 Copynumber: 2.2 Consensus size: 42
34260430 TGCTTGCGTG
34260440 TGGGCCTGGCCTGCTGGGTGCGCTGGGTCTACTGGGCTGCGC
1 TGGGCCTGGCCTGCTGGGTGCGCTGGGTCTACTGGGCTGCGC
*
34260482 TGGGCCTGGCCTGCTGGGCTGCGCTGGGCCTGCCCTACTGGGTTGCGC
1 TGGGCCTGGCCTGCTGGG-TGCGCTGGG--T---CTACTGGGCTGCGC
34260530 TGGGCCTG
1 TGGGCCTG
34260538 CTGAAAATGG
Statistics
Matches: 49, Mismatches: 1, Indels: 6
0.88 0.02 0.11
Matches are distributed among these distances:
42 18 0.37
43 9 0.18
45 1 0.02
48 21 0.43
ACGTcount: A:0.02, C:0.31, G:0.44, T:0.23
Consensus pattern (42 bp):
TGGGCCTGGCCTGCTGGGTGCGCTGGGTCTACTGGGCTGCGC
Found at i:34260573 original size:18 final size:20
Alignment explanation
Indices: 34260550--34260592 Score: 56
Period size: 18 Copynumber: 2.3 Consensus size: 20
34260540 GAAAATGGCC
34260550 TGCTTTCTT-TT-TTTTTTT
1 TGCTTTCTTCTTCTTTTTTT
*
34260568 TGCTTTGTTCTTCTTTTTTT
1 TGCTTTCTTCTTCTTTTTTT
34260588 T-CTTT
1 TGCTTT
34260593 TTGGGCTACT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 8 0.36
19 6 0.27
20 8 0.36
ACGTcount: A:0.00, C:0.14, G:0.07, T:0.79
Consensus pattern (20 bp):
TGCTTTCTTCTTCTTTTTTT
Found at i:34260595 original size:21 final size:20
Alignment explanation
Indices: 34260554--34260592 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
34260544 ATGGCCTGCT
34260554 TTCTTTTTTTTTTTTGCTTTG
1 TTCTTTTTTTTTTTT-CTTTG
*
34260575 TTC-TTCTTTTTTTTCTTT
1 TTCTTTTTTTTTTTTCTTT
34260593 TTGGGCTACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 10 0.59
21 3 0.18
ACGTcount: A:0.00, C:0.13, G:0.05, T:0.82
Consensus pattern (20 bp):
TTCTTTTTTTTTTTTCTTTG
Found at i:34260737 original size:17 final size:17
Alignment explanation
Indices: 34260715--34260783 Score: 68
Period size: 17 Copynumber: 3.9 Consensus size: 17
34260705 TACAAAATAT
34260715 TTTCTTTTTTTTCTTTC
1 TTTCTTTTTTTTCTTTC
*
34260732 TTTCTTCTTTTTCTTCCATC
1 TTTCTTTTTTTTCTT---TC
* *
34260752 TTTCTTTCTCTTCTTTC
1 TTTCTTTTTTTTCTTTC
34260769 -TTCTTTTTTCTTCTT
1 TTTCTTTTTT-TTCTT
34260784 CTTCTTCTTC
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
16 7 0.17
17 21 0.50
20 14 0.33
ACGTcount: A:0.01, C:0.25, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTCTTTTTTTTCTTTC
Found at i:34260784 original size:13 final size:14
Alignment explanation
Indices: 34260715--34260794 Score: 71
Period size: 13 Copynumber: 5.9 Consensus size: 14
34260705 TACAAAATAT
*
34260715 TTTCTTT-TTTTTC
1 TTTCTTTCTTCTTC
34260728 TTTCTTTCTTCTT-
1 TTTCTTTCTTCTTC
* *
34260741 TTTCTTCCATCTTTC
1 TTTCTTTCTTC-TTC
34260756 TTTCTCTTCTTTCTTC
1 TTTCT-TTC-TTCTTC
34260772 TTT-TTTCTTCTTC
1 TTTCTTTCTTCTTC
34260785 -TTC-TTCTTCT
1 TTTCTTTCTTCT
34260795 CCGTTCGGTC
Statistics
Matches: 56, Mismatches: 5, Indels: 13
0.76 0.07 0.18
Matches are distributed among these distances:
12 9 0.16
13 22 0.39
14 9 0.16
15 6 0.11
16 8 0.14
17 2 0.04
ACGTcount: A:0.01, C:0.26, G:0.00, T:0.72
Consensus pattern (14 bp):
TTTCTTTCTTCTTC
Found at i:34260784 original size:20 final size:20
Alignment explanation
Indices: 34260714--34260792 Score: 74
Period size: 20 Copynumber: 4.0 Consensus size: 20
34260704 TTACAAAATA
*
34260714 TTTTCTT-TTTTTTCTTTCTT
1 TTTTCTTCTTCTTTC-TTCTT
* * * *
34260734 TCTTCTTTTTCTTCCATCTT
1 TTTTCTTCTTCTTTCTTCTT
34260754 TCTTTC-TCTTCTTTCTTCTT
1 T-TTTCTTCTTCTTTCTTCTT
34260774 TTTTCTTCTTC-TTCTTCTT
1 TTTTCTTCTTCTTTCTTCTT
34260793 CTCCGTTCGG
Statistics
Matches: 48, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
19 12 0.25
20 28 0.58
21 8 0.17
ACGTcount: A:0.01, C:0.25, G:0.00, T:0.73
Consensus pattern (20 bp):
TTTTCTTCTTCTTTCTTCTT
Found at i:34261774 original size:13 final size:12
Alignment explanation
Indices: 34261756--34261801 Score: 53
Period size: 12 Copynumber: 3.9 Consensus size: 12
34261746 NNNNNNNNNN
34261756 TCTTTCTTTCTCT
1 TCTTTC-TTCTCT
34261769 TCTTTCTTCT-T
1 TCTTTCTTCTCT
34261780 T-TTTCTTCTTCT
1 TCTTTCTTC-TCT
34261792 TC-TTCTTCTC
1 TCTTTCTTCTC
34261802 CGTTCGGTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
10 7 0.23
11 5 0.17
12 12 0.40
13 6 0.20
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (12 bp):
TCTTTCTTCTCT
Found at i:34262204 original size:30 final size:30
Alignment explanation
Indices: 34262150--34262318 Score: 171
Period size: 30 Copynumber: 5.7 Consensus size: 30
34262140 AAATACAGCA
* * **
34262150 AAAGTTTTGGGGCCAAAACATAATTTTGAG
1 AAAGTTTAGGGGTCAAAATGTAATTTTGAG
* * * *
34262180 AAAGCTTAAGGGTCCAAATGTAATTTTAAG
1 AAAGTTTAGGGGTCAAAATGTAATTTTGAG
*
34262210 AAAGTTTAGGGGTCAAAATGTAATTTAGA-
1 AAAGTTTAGGGGTCAAAATGTAATTTTGAG
** *
34262239 AAAGTTTAGGGGTTGAACTGTAATTTTGAG
1 AAAGTTTAGGGGTCAAAATGTAATTTTGAG
* * *
34262269 AAAGTTTATGGGTTAAAATGCAATTTT-AG
1 AAAGTTTAGGGGTCAAAATGTAATTTTGAG
*
34262298 AAAAGTTTAGTGGTCAAAATG
1 -AAAGTTTAGGGGTCAAAATG
34262319 CAAAAAAATT
Statistics
Matches: 113, Mismatches: 24, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
29 27 0.24
30 86 0.76
ACGTcount: A:0.38, C:0.06, G:0.24, T:0.33
Consensus pattern (30 bp):
AAAGTTTAGGGGTCAAAATGTAATTTTGAG
Found at i:34262724 original size:76 final size:77
Alignment explanation
Indices: 34262601--34262783 Score: 260
Period size: 76 Copynumber: 2.4 Consensus size: 77
34262591 CGACATGTGC
* * *
34262601 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTCAAAAAACATAAATTTAAAAGAAA
1 CCCGAGGCTCAACTCACCTCT-GTATTATGAGTTGATTTTTCAAAAAACAGAAATTTAAAAGAAA
*
34262666 TACCTCGGCATGG
65 TACCTCGGCATGA
* * * * *
34262679 TCTGAGGCTCAACTCACATCTGTATTATGAGTTGATTTTT-GAAAAACGGAAATTTAAAAGAAAT
1 CCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTCAAAAAACAGAAATTTAAAAGAAAT
34262743 ACCTCGGCATGA
66 ACCTCGGCATGA
*
34262755 CCCGAGGCTCAACTCACCCCTGTATTATG
1 CCCGAGGCTCAACTCACCTCTGTATTATG
34262784 NNNNNNNNNN
Statistics
Matches: 92, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
76 57 0.62
77 17 0.18
78 18 0.20
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.27
Consensus pattern (77 bp):
CCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTCAAAAAACAGAAATTTAAAAGAAAT
ACCTCGGCATGA
Found at i:34263136 original size:76 final size:77
Alignment explanation
Indices: 34263001--34263266 Score: 421
Period size: 77 Copynumber: 3.5 Consensus size: 77
34262991 NNNNNNNNNN
* *
34263001 TCAACTCACCGCTGTATTATGAGTTGATTTTTTGAAAAACGAAAATTTAAAAGAAATACCTCGGC
1 TCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAACGGAAATTTAAAAGAAATACCTCGGC
*
34263066 ATAACCCGAGGC
66 ATGACCCGAGGC
*
34263078 TCAACTCACCTCTGTATTATGAGTTGA-TTTTTGAAAAACGGAAATTTAAAAGAAATACCTTGGC
1 TCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAACGGAAATTTAAAAGAAATACCTCGGC
34263142 ATGACCCGAGGC
66 ATGACCCGAGGC
* *
34263154 TCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAAACAGAAA-TTAAAA-AAATACCTCA
1 TCAACTCACCTCTGTATTATGAGTTGATTTTTTG--AAAAACGGAAATTTAAAAGAAATACCTCG
* *
34263217 GCGTGACCGGAGGC
64 GCATGACCCGAGGC
34263231 TCAACTCACCTCTGTATTATGAGTTGATTTTTTGAA
1 TCAACTCACCTCTGTATTATGAGTTGATTTTTTGAA
34263267 NNNNNNNNNN
Statistics
Matches: 177, Mismatches: 9, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
75 2 0.01
76 73 0.41
77 86 0.49
78 6 0.03
79 10 0.06
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (77 bp):
TCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAACGGAAATTTAAAAGAAATACCTCGGC
ATGACCCGAGGC
Found at i:34279368 original size:17 final size:16
Alignment explanation
Indices: 34279331--34279706 Score: 171
Period size: 17 Copynumber: 21.4 Consensus size: 16
34279321 CAAAAAAAAA
*
34279331 TTTTGAAACACGAGAATT
1 TTTTAAAACACGA-AA-T
34279349 TTTTAAAACACGAAGAT
1 TTTTAAAACACGAA-AT
**
34279366 TTTTGGAACACGCAAAAT
1 TTTTAAAACACG--AAAT
* *
34279384 TTTGAAAACATGAAAAT
1 TTTTAAAACACG-AAAT
* * *
34279401 TTTTGAAATACGAAAA
1 TTTTAAAACACGAAAT
34279417 TTTTAGAAACACGAAAAT
1 TTTTA-AAACACG-AAAT
34279435 TTTTAAAACACGACAA-
1 TTTTAAAACACGA-AAT
* * *
34279451 TTTTGAAACATGGTCAAT
1 TTTTAAAACA-CG-AAAT
*
34279469 TTTTGAAAATACGACAAT
1 TTTT-AAAACACGA-AAT
* * *
34279487 TTTTGAAATATGAGAATTTT
1 TTTTAAAACACGA-AA---T
34279507 TTTTAAAACACGGAAATTT
1 TTTTAAAACAC-GAAA--T
*
34279526 TTTTGAAAACAAGAAAAT
1 TTTT-AAAACACG-AAAT
* * *
34279544 TTTCAAAATACGGGAAT
1 TTTTAAAACAC-GAAAT
34279561 TTTTGAAAACACGGGAAATTT
1 TTTT-AAAACAC--GAAA--T
34279582 TTTTAAAAACACGAAAAT
1 TTTT-AAAACACG-AAAT
* *
34279600 TTTTGAAACACTGGAAT
1 TTTTAAAACAC-GAAAT
34279617 TTTTAAAACACGAAGAT
1 TTTTAAAACACGAA-AT
* *
34279634 TTTTGAAACACGAAAA
1 TTTTAAAACACGAAAT
**
34279650 TTTTAGAAACGTGAAAAT
1 TTTTA-AAACACG-AAAT
34279668 TTTTAAAACACGAGAA-
1 TTTTAAAACACGA-AAT
* **
34279684 TTTTGAAACACGATTT
1 TTTTAAAACACGAAAT
34279700 TTTTAAA
1 TTTTAAA
34279707 GAAGTATCGT
Statistics
Matches: 276, Mismatches: 53, Indels: 60
0.71 0.14 0.15
Matches are distributed among these distances:
16 43 0.16
17 109 0.39
18 68 0.25
19 19 0.07
20 23 0.08
21 14 0.05
ACGTcount: A:0.44, C:0.10, G:0.13, T:0.33
Consensus pattern (16 bp):
TTTTAAAACACGAAAT
Found at i:34279526 original size:19 final size:19
Alignment explanation
Indices: 34279504--34279603 Score: 89
Period size: 20 Copynumber: 5.3 Consensus size: 19
34279494 ATATGAGAAT
34279504 TTTTTTTAAAACACGGAAA
1 TTTTTTTAAAACACGGAAA
*
34279523 TTTTTTTGAAAACA-AGAAA
1 TTTTTTT-AAAACACGGAAA
* * * *
34279542 -ATTTTCAAAATACGGGAA
1 TTTTTTTAAAACACGGAAA
*
34279560 -TTTTTGAAAACACGGGAAA
1 TTTTTTTAAAACAC-GGAAA
*
34279579 TTTTTTTAAAAACACGAAAA
1 TTTTTTT-AAAACACGGAAA
34279599 TTTTT
1 TTTTT
34279604 GAAACACTGG
Statistics
Matches: 64, Mismatches: 12, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
17 5 0.08
18 17 0.27
19 15 0.23
20 20 0.31
21 7 0.11
ACGTcount: A:0.43, C:0.09, G:0.12, T:0.36
Consensus pattern (19 bp):
TTTTTTTAAAACACGGAAA
Found at i:34279580 original size:56 final size:55
Alignment explanation
Indices: 34279506--34279628 Score: 176
Period size: 56 Copynumber: 2.2 Consensus size: 55
34279496 ATGAGAATTT
* *
34279506 TTTTTAAAACAC-GGAAATTTTTTTGAAAACAAGAAAATTTTCAAAATACGGGAA
1 TTTTTAAAACACGGGAAATTTTTTTAAAAACAAGAAAATTTTCAAAACACGGGAA
* ** *
34279560 TTTTTGAAAACACGGGAAATTTTTTTAAAAACACGAAAATTTTTGAAACACTGGAA
1 TTTTT-AAAACACGGGAAATTTTTTTAAAAACAAGAAAATTTTCAAAACACGGGAA
34279616 TTTTTAAAACACG
1 TTTTTAAAACACG
34279629 AAGATTTTTG
Statistics
Matches: 61, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
54 5 0.08
55 15 0.25
56 41 0.67
ACGTcount: A:0.44, C:0.11, G:0.13, T:0.33
Consensus pattern (55 bp):
TTTTTAAAACACGGGAAATTTTTTTAAAAACAAGAAAATTTTCAAAACACGGGAA
Found at i:34279626 original size:34 final size:34
Alignment explanation
Indices: 34279326--34279696 Score: 239
Period size: 34 Copynumber: 10.5 Consensus size: 34
34279316 AGCACCAAAA
* * * *
34279326 AAAAATTTTGAAACACGAGAATTTTTTAAAACACG
1 AAAATTTTTAAAACACGA-AAATTTTTGAAACACG
* ** *
34279361 AAGATTTTTGGAACACGCAAAA-TTTTGAAAACATG
1 AAAATTTTTAAAACACG-AAAATTTTTG-AAACACG
* * *
34279396 AAAATTTTTGAAATACGAAAATTTTAGAAACACG
1 AAAATTTTTAAAACACGAAAATTTTTGAAACACG
* *
34279430 AAAATTTTTAAAACACGACAA-TTTTGAAACATGG
1 AAAATTTTTAAAACACGAAAATTTTTGAAACA-CG
** * * * *
34279464 TCAATTTTTGAAAATACGACAATTTTTGAAATATG
1 AAAATTTTT-AAAACACGAAAATTTTTGAAACACG
* * *
34279499 AGAATTTTTTTTAAAACACGGAAATTTTTTTGAAAACAAG
1 A-AA--ATTTTTAAAACAC-GAAA-ATTTTTG-AAACACG
* * **
34279539 AAAATTTTCAAAATACGGGAATTTTTGAAAACACGGG
1 AAAATTTTTAAAACACGAAAATTTTTG-AAACAC--G
*
34279576 AAATTTTTTTAAAAACACGAAAATTTTTGAAACACTG
1 AAA-ATTTTT-AAAACACGAAAATTTTTGAAACAC-G
* *
34279613 -GAATTTTTAAAACACGAAGATTTTTGAAACACG
1 AAAATTTTTAAAACACGAAAATTTTTGAAACACG
** *
34279646 AAAA-TTTTAGAAACGTGAAAATTTTTAAAACACG
1 AAAATTTTTA-AAACACGAAAATTTTTGAAACACG
* *
34279680 AGAA-TTTTGAAACACGA
1 AAAATTTTTAAAACACGA
34279697 TTTTTTTAAA
Statistics
Matches: 264, Mismatches: 54, Indels: 38
0.74 0.15 0.11
Matches are distributed among these distances:
33 21 0.08
34 92 0.35
35 69 0.26
36 14 0.05
37 21 0.08
38 18 0.07
39 23 0.09
40 6 0.02
ACGTcount: A:0.45, C:0.10, G:0.13, T:0.31
Consensus pattern (34 bp):
AAAATTTTTAAAACACGAAAATTTTTGAAACACG
Found at i:34279998 original size:5 final size:5
Alignment explanation
Indices: 34279988--34280012 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
34279978 TAAAATTATT
34279988 TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA
34280013 ATTGAAGTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:34280202 original size:7 final size:7
Alignment explanation
Indices: 34280190--34280214 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
34280180 TTCTTCTTCT
34280190 TTTTTTC
1 TTTTTTC
34280197 TTTTTTC
1 TTTTTTC
34280204 TTTTTTC
1 TTTTTTC
34280211 TTTT
1 TTTT
34280215 CTTTTTCTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTC
Found at i:34280219 original size:18 final size:18
Alignment explanation
Indices: 34280183--34280224 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
34280173 GAACCCCTTC
*
34280183 TTCTTCTTTTTTTCTTTT
1 TTCTTTTTTTTTTCTTTT
34280201 TTCTTTTTTCTTTTC-TTT
1 TTCTTTTTT-TTTTCTTTT
34280219 TTCTTT
1 TTCTTT
34280225 CCCTTTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 17 0.77
19 5 0.23
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (18 bp):
TTCTTTTTTTTTTCTTTT
Found at i:34280221 original size:11 final size:11
Alignment explanation
Indices: 34280180--34280237 Score: 50
Period size: 11 Copynumber: 5.4 Consensus size: 11
34280170 ATTGAACCCC
*
34280180 TTCTTCTTCTT
1 TTCTTTTTCTT
34280191 TT-TTTCTT-TT
1 TTCTTT-TTCTT
34280201 TTCTTTTTTCTT
1 TTC-TTTTTCTT
34280213 TTCTTTTTCTT
1 TTCTTTTTCTT
* *
34280224 TCCCTTTT-TT
1 TTCTTTTTCTT
34280234 TTCT
1 TTCT
34280238 GTTGGGCTGC
Statistics
Matches: 38, Mismatches: 5, Indels: 9
0.73 0.10 0.17
Matches are distributed among these distances:
10 10 0.26
11 20 0.53
12 8 0.21
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (11 bp):
TTCTTTTTCTT
Found at i:34280297 original size:19 final size:19
Alignment explanation
Indices: 34280265--34280329 Score: 69
Period size: 24 Copynumber: 3.2 Consensus size: 19
34280255 TGGGTCTGGC
34280265 CTGCTGGG-TGCGCTGGGT
1 CTGCTGGGCTGCGCTGGGT
34280283 CTGCTGGGCTGCGCTGGGCCT
1 CTGCTGGGCTGCGCTGGG--T
*
34280304 GGCTTGCTGGGCTGCGCTGGGC
1 --C-TGCTGGGCTGCGCTGGGT
34280326 CTGC
1 CTGC
34280330 CCTACTGGGC
Statistics
Matches: 40, Mismatches: 1, Indels: 11
0.77 0.02 0.21
Matches are distributed among these distances:
18 8 0.20
19 12 0.30
20 1 0.03
21 1 0.03
23 1 0.03
24 17 0.43
ACGTcount: A:0.00, C:0.29, G:0.46, T:0.25
Consensus pattern (19 bp):
CTGCTGGGCTGCGCTGGGT
Found at i:34280315 original size:24 final size:24
Alignment explanation
Indices: 34280283--34280353 Score: 115
Period size: 24 Copynumber: 3.0 Consensus size: 24
34280273 TGCGCTGGGT
*
34280283 CTGCTGGGCTGCGCTGGGCCTGGC
1 CTGCTGGGCTGCGCTGGGCCTGCC
*
34280307 TTGCTGGGCTGCGCTGGGCCTGCC
1 CTGCTGGGCTGCGCTGGGCCTGCC
*
34280331 CTACTGGGCTGCGCTGGGCCTGC
1 CTGCTGGGCTGCGCTGGGCCTGC
34280354 TGAAAATGGC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.01, C:0.34, G:0.42, T:0.23
Consensus pattern (24 bp):
CTGCTGGGCTGCGCTGGGCCTGCC
Found at i:34280393 original size:21 final size:20
Alignment explanation
Indices: 34280369--34280408 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
34280359 ATGGCCTGTT
*
34280369 TTCTTTTTTTTTTTTGCTTTG
1 TTCTTCTTTTTTTTT-CTTTG
34280390 TTCTTCTTTTTTTTTCTTT
1 TTCTTCTTTTTTTTTCTTT
34280409 TTGGGCTACT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.00, C:0.12, G:0.05, T:0.82
Consensus pattern (20 bp):
TTCTTCTTTTTTTTTCTTTG
Found at i:34280543 original size:10 final size:10
Alignment explanation
Indices: 34280527--34280592 Score: 71
Period size: 10 Copynumber: 6.5 Consensus size: 10
34280517 ACAAAATATT
34280527 TTCTTTTTT-
1 TTCTTTTTTC
34280536 TTCTTTTTTTC
1 TTC-TTTTTTC
*
34280547 TGTCTTTCTTC
1 T-TCTTTTTTC
* *
34280558 TTCTTCTTCC
1 TTCTTTTTTC
34280568 TTCTTTTTTC
1 TTCTTTTTTC
*
34280578 TTTTTTTTTC
1 TTCTTTTTTC
34280588 TTCTT
1 TTCTT
34280593 CTTCTTCTCC
Statistics
Matches: 46, Mismatches: 8, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
9 3 0.07
10 33 0.72
11 8 0.17
12 2 0.04
ACGTcount: A:0.00, C:0.21, G:0.02, T:0.77
Consensus pattern (10 bp):
TTCTTTTTTC
Found at i:34280554 original size:16 final size:15
Alignment explanation
Indices: 34280535--34280595 Score: 56
Period size: 16 Copynumber: 4.1 Consensus size: 15
34280525 TTTTCTTTTT
34280535 TTTCTTTTTTTCTGTC
1 TTTCTTTTTTTCT-TC
*
34280551 TTTCTTCTTCTTCTTC
1 TTTCTT-TTTTTCTTC
*
34280567 CTTC-TTTTTTCTT-
1 TTTCTTTTTTTCTTC
*
34280580 TTT-TTTTCTTCTTC
1 TTTCTTTTTTTCTTC
34280594 TT
1 TT
34280596 CTTCTCCGTT
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
13 10 0.27
14 9 0.24
15 1 0.03
16 11 0.30
17 6 0.16
ACGTcount: A:0.00, C:0.23, G:0.02, T:0.75
Consensus pattern (15 bp):
TTTCTTTTTTTCTTC
Found at i:34280558 original size:3 final size:3
Alignment explanation
Indices: 34280552--34280600 Score: 52
Period size: 3 Copynumber: 17.3 Consensus size: 3
34280542 TTTTCTGTCT
*
34280552 TTC TTC TTC TTC TTCC TTC TT- TT- TTC TT- TT- TTT TTC TTC TTC
1 TTC TTC TTC TTC TT-C TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
34280594 TTC TTC T
1 TTC TTC T
34280601 CCGTTCGGTC
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
2 8 0.19
3 31 0.74
4 3 0.07
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (3 bp):
TTC
Found at i:34281005 original size:30 final size:30
Alignment explanation
Indices: 34280950--34281118 Score: 180
Period size: 30 Copynumber: 5.7 Consensus size: 30
34280940 AAATGCAGCA
* * * *
34280950 AAAGTTTTGGGGCCGAAACGTAATTTTGAG
1 AAAGTTTAGGGGTCAAAATGTAATTTTGAG
* * * *
34280980 AAAGCTTAAGGGTCCAAATGTAATTTTAAG
1 AAAGTTTAGGGGTCAAAATGTAATTTTGAG
*
34281010 AAAGTTTAGGGGTCAAAATGTAATTTAGA-
1 AAAGTTTAGGGGTCAAAATGTAATTTTGAG
** *
34281039 AAAGTTTAGGGGTTGAACTGTAATTTTGAG
1 AAAGTTTAGGGGTCAAAATGTAATTTTGAG
* * *
34281069 AAAGTTTATGGGTAAAAATGCAATTTT-AG
1 AAAGTTTAGGGGTCAAAATGTAATTTTGAG
34281098 AAAAGTTTAGGGGTCAAAATG
1 -AAAGTTTAGGGGTCAAAATG
34281119 CAAAAAAATT
Statistics
Matches: 114, Mismatches: 23, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
29 27 0.24
30 87 0.76
ACGTcount: A:0.37, C:0.06, G:0.25, T:0.31
Consensus pattern (30 bp):
AAAGTTTAGGGGTCAAAATGTAATTTTGAG
Found at i:34281071 original size:59 final size:60
Alignment explanation
Indices: 34280998--34281111 Score: 185
Period size: 59 Copynumber: 1.9 Consensus size: 60
34280988 AGGGTCCAAA
* *
34280998 TGTAATTTTAAGAAAGTTTAGGGGTCAAAATGTAA-TTTAGAAAAGTTTAGGGGTTGAAC
1 TGTAATTTTAAGAAAGTTTAGGGGTAAAAATGCAATTTTAGAAAAGTTTAGGGGTTGAAC
* *
34281057 TGTAATTTTGAGAAAGTTTATGGGTAAAAATGCAATTTTAGAAAAGTTTAGGGGT
1 TGTAATTTTAAGAAAGTTTAGGGGTAAAAATGCAATTTTAGAAAAGTTTAGGGGT
34281112 CAAAATGCAA
Statistics
Matches: 50, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
59 31 0.62
60 19 0.38
ACGTcount: A:0.37, C:0.03, G:0.25, T:0.35
Consensus pattern (60 bp):
TGTAATTTTAAGAAAGTTTAGGGGTAAAAATGCAATTTTAGAAAAGTTTAGGGGTTGAAC
Found at i:34281664 original size:44 final size:44
Alignment explanation
Indices: 34281528--34282143 Score: 563
Period size: 44 Copynumber: 14.0 Consensus size: 44
34281518 AAGACTTGTA
* * * *
34281528 TCTTCGATCTTCTTC-TGCCAATACAGGAAGACAAGATCTGCTA
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
* * * *** * *
34281571 TCTTTGATCTACTTCACCACCAGTATGGGAAGATAAGATCTGCTA
1 TCTTCGATCTACTTCA-CGCCAATACATGAAGACAAGATCTGCTT
* * *
34281616 TCTTCGATCTAATTCACGCCAATATATGAAGACAATATCTGCTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
34281660 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
* * * *** * *
34281704 TCTTTGATCTACTTCACCACCAGTATGGGAAGATAAGATCTGCTA
1 TCTTCGATCTACTTCA-CGCCAATACATGAAGACAAGATCTGCTT
* * *
34281749 TCTTCGATCTAATTCACGCCAATATATGAAGACAATATCTGCTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
* *
34281793 TCTTCGATCTACTTCACGCCAATACATGAAGATAAGA-C-CCATT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGC-TT
* * * * *
34281836 ATCTTCGATCTACTTCATGTCAAAACATGAAGATAAGATCTGCTA
1 -TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
* * *
34281881 TC-TCTGATCTACTTCATGTCAATACATGAAGACAATATC--CATT
1 TCTTC-GATCTACTTCACGCCAATACATGAAGACAAGATCTGC-TT
* * *
34281924 ATCTTCGATCTACTTCACGCCAATACATGAAGATAAGATCTTCTA
1 -TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
* * *
34281969 TC-TCTGATCTACTTCATGTCAATACATAAAGACAAGATC--CATT
1 TCTTC-GATCTACTTCACGCCAATACATGAAGACAAGATCTGC-TT
* * * * *
34282012 ATCTTCGATCTACTTCATGTCAATACATGAAGATAAGATCTTCTA
1 -TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
* *
34282057 TC-TCTGATCTACTTCATGTCAATACATGAAGACAAGATC--CATT
1 TCTTC-GATCTACTTCACGCCAATACATGAAGACAAGATCTGC-TT
* * *
34282100 ATCTTCGATCTACTTCATGTCAATACATGAAGATAAGATCTGCT
1 -TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCT
34282144 ACTTTTCAAC
Statistics
Matches: 481, Mismatches: 67, Indels: 48
0.81 0.11 0.08
Matches are distributed among these distances:
42 4 0.01
43 25 0.05
44 366 0.76
45 82 0.17
46 4 0.01
ACGTcount: A:0.32, C:0.23, G:0.13, T:0.32
Consensus pattern (44 bp):
TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
Found at i:34281877 original size:88 final size:88
Alignment explanation
Indices: 34281544--34282144 Score: 679
Period size: 88 Copynumber: 6.8 Consensus size: 88
34281534 ATCTTCTTCT
* *** * * * ***
34281544 GCCAATACAGGAAGACAAGATCTGCTATCTTTGATCTACTTCACCACCAGTATGGGAAGATAAGA
1 GCCAATACATGAAGACAAGATCCATTATCTTCGATCTACTTCA-CGCCAATACATGAAGATAAGA
*
34281609 TCTGCTATCT-TCGATCTAATTCAC
65 TCTGCTATCTCT-GATCTACTTCAC
* * *
34281633 GCCAATATATGAAGACAATATCTGC-TT-TCTTCGATCTACTTCACGCCAATACATGAAGACAAG
1 GCCAATACATGAAGACAAGATC--CATTATCTTCGATCTACTTCACGCCAATACATGAAGATAAG
* *
34281696 ATCTGCTTTCTTTGATCTACTTCACC
64 ATCTGCTATCTCTGATCTACTTCA-C
* * *** * *** * * * *
34281722 ACCAGTATGGGAAGATAAGATCTGCTATCTTCGATCTAATTCACGCCAATATATGAAGACAATAT
1 GCCAATACATGAAGACAAGATCCATTATCTTCGATCTACTTCACGCCAATACATGAAGATAAGAT
*
34281787 CTGCTTTCT-TCGATCTACTTCAC
66 CTGCTATCTCT-GATCTACTTCAC
* * * * *
34281810 GCCAATACATGAAGATAAGACCCATTATCTTCGATCTACTTCATGTCAAAACATGAAGATAAGAT
1 GCCAATACATGAAGACAAGATCCATTATCTTCGATCTACTTCACGCCAATACATGAAGATAAGAT
*
34281875 CTGCTATCTCTGATCTACTTCAT
66 CTGCTATCTCTGATCTACTTCAC
* *
34281898 GTCAATACATGAAGACAATATCCATTATCTTCGATCTACTTCACGCCAATACATGAAGATAAGAT
1 GCCAATACATGAAGACAAGATCCATTATCTTCGATCTACTTCACGCCAATACATGAAGATAAGAT
* *
34281963 CTTCTATCTCTGATCTACTTCAT
66 CTGCTATCTCTGATCTACTTCAC
* * * *
34281986 GTCAATACATAAAGACAAGATCCATTATCTTCGATCTACTTCATGTCAATACATGAAGATAAGAT
1 GCCAATACATGAAGACAAGATCCATTATCTTCGATCTACTTCACGCCAATACATGAAGATAAGAT
* *
34282051 CTTCTATCTCTGATCTACTTCAT
66 CTGCTATCTCTGATCTACTTCAC
* * *
34282074 GTCAATACATGAAGACAAGATCCATTATCTTCGATCTACTTCATGTCAATACATGAAGATAAGAT
1 GCCAATACATGAAGACAAGATCCATTATCTTCGATCTACTTCACGCCAATACATGAAGATAAGAT
34282139 CTGCTA
66 CTGCTA
34282145 CTTTTCAACC
Statistics
Matches: 447, Mismatches: 57, Indels: 17
0.86 0.11 0.03
Matches are distributed among these distances:
88 338 0.76
89 108 0.24
90 1 0.00
ACGTcount: A:0.33, C:0.23, G:0.13, T:0.31
Consensus pattern (88 bp):
GCCAATACATGAAGACAAGATCCATTATCTTCGATCTACTTCACGCCAATACATGAAGATAAGAT
CTGCTATCTCTGATCTACTTCAC
Found at i:34281971 original size:132 final size:132
Alignment explanation
Indices: 34281526--34282144 Score: 636
Period size: 132 Copynumber: 4.7 Consensus size: 132
34281516 ATAAGACTTG
* * * * * *
34281526 TATCTTCGATCTTCTTC-TGCCAATACAGGAAGACAAGATCTGCTATCTTTGATCTACTTCA--C
1 TATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTTCTATCTTCGATCTACTTCATGT
* ** *
34281588 CACCAGTATGGGAAGATAAGATCTGCTATCTTCGATCTAATTCACGCCAATATATGAAGACAATA
66 CA-AAACAT--GAAGATAAGATCTGCTATCTTCGATCTAATTCACGCCAATACATGAAGACAATA
34281653 TCTGCT
128 TC-GCT
* * * *
34281659 T-TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTTGATCTACTTCA--C
1 TATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTTCTATCTTCGATCTACTTCATGT
* ** *
34281721 CACCAGTATGGGAAGATAAGATCTGCTATCTTCGATCTAATTCACGCCAATATATGAAGACAATA
66 CA-AAACAT--GAAGATAAGATCTGCTATCTTCGATCTAATTCACGCCAATACATGAAGACAATA
34281786 TCTGCT
128 TC-GCT
* * *
34281792 T-TCTTCGATCTACTTCACGCCAATACATGAAGATAAGACCCAT-TATCTTCGATCTACTTCATG
1 TATCTTCGATCTACTTCACGCCAATACATGAAGACAAGA-TCTTCTATCTTCGATCTACTTCATG
* * *
34281855 TCAAAACATGAAGATAAGATCTGCTATC-TCTGATCTACTTCATGTCAATACATGAAGACAATAT
65 TCAAAACATGAAGATAAGATCTGCTATCTTC-GATCTAATTCACGCCAATACATGAAGACAATAT
34281919 C-CAT
129 CGC-T
*
34281923 TATCTTCGATCTACTTCACGCCAATACATGAAGATAAGATCTTCTATC-TCTGATCTACTTCATG
1 TATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTTCTATCTTC-GATCTACTTCATG
* * * *** * * * * *
34281987 TCAATACATAAAGACAAGATCCATTATCTTCGATCTACTTCATGTCAATACATGAAGATAAGATC
65 TCAAAACATGAAGATAAGATCTGCTATCTTCGATCTAATTCACGCCAATACATGAAGACAATATC
*
34282052 -TT
130 GCT
* * *
34282054 CTATC-TCTGATCTACTTCATGTCAATACATGAAGACAAGATCCAT-TATCTTCGATCTACTTCA
1 -TATCTTC-GATCTACTTCACGCCAATACATGAAGACAAGAT-CTTCTATCTTCGATCTACTTCA
*
34282117 TGTCAATACATGAAGATAAGATCTGCTA
63 TGTCAAAACATGAAGATAAGATCTGCTA
34282145 CTTTTCAACC
Statistics
Matches: 434, Mismatches: 38, Indels: 29
0.87 0.08 0.06
Matches are distributed among these distances:
130 1 0.00
131 11 0.03
132 243 0.56
133 173 0.40
134 4 0.01
135 2 0.00
ACGTcount: A:0.32, C:0.23, G:0.13, T:0.32
Consensus pattern (132 bp):
TATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTTCTATCTTCGATCTACTTCATGT
CAAAACATGAAGATAAGATCTGCTATCTTCGATCTAATTCACGCCAATACATGAAGACAATATCG
CT
Found at i:34283466 original size:22 final size:23
Alignment explanation
Indices: 34283435--34283482 Score: 73
Period size: 22 Copynumber: 2.1 Consensus size: 23
34283425 AGCCTCTCCA
34283435 TTTTATTTTTCCAT-TTTTCATTT
1 TTTTATTTTT-CATCTTTTCATTT
34283458 TTTTA-TTTTCATCTTTTCATTT
1 TTTTATTTTTCATCTTTTCATTT
34283480 TTT
1 TTT
34283483 CACATCACTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 3 0.12
22 16 0.67
23 5 0.21
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.75
Consensus pattern (23 bp):
TTTTATTTTTCATCTTTTCATTT
Found at i:34288155 original size:3 final size:3
Alignment explanation
Indices: 34288147--34288180 Score: 50
Period size: 3 Copynumber: 11.0 Consensus size: 3
34288137 ATTACCAGAT
*
34288147 TAA TAA TAA TAA CAAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA
34288181 CAGTAAACTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 26 0.93
4 2 0.07
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:34290804 original size:27 final size:26
Alignment explanation
Indices: 34290764--34290837 Score: 112
Period size: 27 Copynumber: 2.8 Consensus size: 26
34290754 ACACACCGCA
*
34290764 GCTCTTTATGAGCTTCCCGTTTAAAG
1 GCTCTTTATGAGCTTCCCGATTAAAG
*
34290790 GCTCTTTCATGAGCTTCCTGATTAAAG
1 GCTCTTT-ATGAGCTTCCCGATTAAAG
*
34290817 GCTCTTTATGAGCTTTCCGAT
1 GCTCTTTATGAGCTTCCCGAT
34290838 ATGGCTAGTT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 19 0.44
27 24 0.56
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.39
Consensus pattern (26 bp):
GCTCTTTATGAGCTTCCCGATTAAAG
Found at i:34294629 original size:5 final size:5
Alignment explanation
Indices: 34294614--34294642 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
34294604 CAATCCGGGC
34294614 CCAAA -CAAA CCAAA CCAAA CCAAA CCAAA
1 CCAAA CCAAA CCAAA CCAAA CCAAA CCAAA
34294643 TAAAAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 19 0.83
ACGTcount: A:0.62, C:0.38, G:0.00, T:0.00
Consensus pattern (5 bp):
CCAAA
Found at i:34296052 original size:22 final size:22
Alignment explanation
Indices: 34296027--34296096 Score: 60
Period size: 21 Copynumber: 3.3 Consensus size: 22
34296017 TTTATTGTGC
34296027 ATTTTTATTTATTTTATTTATT
1 ATTTTTATTTATTTTATTTATT
*
34296049 A-TTTTACTTT-TTTTCCTTTATT
1 ATTTTTA-TTTATTTT-ATTTATT
*
34296071 ATTTATA-TTA--TTATTTATT
1 ATTTTTATTTATTTTATTTATT
34296090 ACTTTTT
1 A-TTTTT
34296097 TATACTTTCA
Statistics
Matches: 39, Mismatches: 4, Indels: 12
0.71 0.07 0.22
Matches are distributed among these distances:
19 7 0.18
20 6 0.15
21 11 0.28
22 11 0.28
23 4 0.10
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.73
Consensus pattern (22 bp):
ATTTTTATTTATTTTATTTATT
Found at i:34300723 original size:44 final size:44
Alignment explanation
Indices: 34300660--34301482 Score: 765
Period size: 44 Copynumber: 18.6 Consensus size: 44
34300650 ACAAGATACG
* * * *
34300660 AATCTTATCTCCTTAAAGTTGCAGTGGGGTAGATTAAAGCTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
* *
34300704 AATCTTATTTCTCTGAAGTTGCAGTGG-GACAGATTAAAGCTACAAGTTA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAG-CAGATTAAAGCTAC-----A
* * * *
34300753 CAAGTCTTATCTCCCTGAACTTGCAGTGGAGTAGATTAAAACCACA
1 -AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
* * * * * *
34300799 GATCTTCTCTCACTGAAGTTGCAGTGGAGTAGATTAAAACCACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
** * * * * *
34300843 GGTCTTCTCTCACTGAAGTTGCAGTGGACCAGATTGAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
34300887 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
* * * * * *
34300931 AATCTTATCTCCTTGATGTTGCAATAGAGAAAATTAAAGCTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
* * * *
34300975 AATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTAAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
* * *
34301019 AATCTTATCTCTCTGAAGGTGCAGTGGAGCAGAATAAAGCTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
* *
34301063 AATCTTATCTCCATGAAGTTGCAGTGGAGCAGATTAAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
* * * * * *
34301107 AATCTTATTTCCTTAAAGTTGTAGTGGAGCAGATTGAAA-TTGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAGCTACA
* * * *
34301151 AGTCTTATCTCCTTGAAGTTGTAGTGGAGTAGATTAAAGCTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
* * * * * * * * *
34301195 TATCTTCTCTCCATAAAGTTACAGTGGAGCAGACTGAAGTTGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
* * * *
34301239 AATTTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCTGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
* * * * *
34301283 AATCTTATCTCCCTAAAGTTACAGTGGAGTAGATTGAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
* * *
34301327 AATCTTATCTCTCTGAAGTTGCAGTGGAGC-GATTGAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
* * *
34301370 AATCTCATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCGACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
* * ** * * * * * *
34301414 AGTCTAATCTCTTTAAAGTTGTAATGGAGTAGATTGAAGCAACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
*
34301458 AATTCTGTA-C-CTCTGAAGTTGCAGT
1 AA-TCT-TATCTCCCTGAAGTTGCAGT
34301483 AGGTTAGAAT
Statistics
Matches: 648, Mismatches: 117, Indels: 28
0.82 0.15 0.04
Matches are distributed among these distances:
43 44 0.07
44 557 0.86
45 8 0.01
46 2 0.00
49 1 0.00
50 2 0.00
51 33 0.05
52 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
Found at i:34305628 original size:3 final size:3
Alignment explanation
Indices: 34305581--34305659 Score: 52
Period size: 3 Copynumber: 25.3 Consensus size: 3
34305571 TATTTTTTGC
* * * * * *
34305581 TAT TAT TGT TAT TTT TAA TAT TAC TAT TAC TAT TAT T-G TATT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT
*
34305626 TAT TAT TACT TACCT TAT TAT TAT TAT AAT TAT T
1 TAT TAT TA-T TA--T TAT TAT TAT TAT TAT TAT T
34305660 TATTCATTCA
Statistics
Matches: 58, Mismatches: 14, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
2 1 0.02
3 48 0.83
4 5 0.09
5 4 0.07
ACGTcount: A:0.30, C:0.06, G:0.03, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:34305645 original size:30 final size:29
Alignment explanation
Indices: 34305580--34305652 Score: 78
Period size: 30 Copynumber: 2.4 Consensus size: 29
34305570 TTATTTTTTG
34305580 CTATTATTGTTATTTTTAATATTACTATTA
1 CTATTATTGTTATTTTTAATATTAC-ATTA
*
34305610 CTATTATTG-TATTTATTATTATTAC-TTA
1 CTATTATTGTTATTT-TTAATATTACATTA
*
34305638 CCTTATTATTATTAT
1 -C-TATTATTGTTAT
34305653 AATTATTTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
28 3 0.08
29 6 0.16
30 25 0.68
31 3 0.08
ACGTcount: A:0.29, C:0.08, G:0.03, T:0.60
Consensus pattern (29 bp):
CTATTATTGTTATTTTTAATATTACATTA
Found at i:34305745 original size:27 final size:27
Alignment explanation
Indices: 34305707--34305760 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
34305697 TATATACATG
*
34305707 CATACTAGATGTGTCCATGGGCCGGGC
1 CATACCAGATGTGTCCATGGGCCGGGC
34305734 CATACCAGATGTGTCCATGGGCCGGGC
1 CATACCAGATGTGTCCATGGGCCGGGC
34305761 AGCCCGGCCC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.19, C:0.28, G:0.33, T:0.20
Consensus pattern (27 bp):
CATACCAGATGTGTCCATGGGCCGGGC
Found at i:34306347 original size:17 final size:17
Alignment explanation
Indices: 34306309--34306350 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
34306299 ATACATACTT
*
34306309 ATATATATTTTTATATT
1 ATATATATTTTTATATC
*
34306326 TTATA-ATTTTTATATAC
1 ATATATATTTTTATAT-C
34306343 ATATATAT
1 ATATATAT
34306351 ACACATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 3
0.77 0.12 0.12
Matches are distributed among these distances:
16 10 0.50
17 8 0.40
18 2 0.10
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (17 bp):
ATATATATTTTTATATC
Found at i:34316702 original size:4 final size:4
Alignment explanation
Indices: 34316684--34316717 Score: 52
Period size: 4 Copynumber: 8.5 Consensus size: 4
34316674 GGATTTTGGG
34316684 GAAA GTAAA -AAA GAAA GAAA GAAA GAAA GAAA GA
1 GAAA G-AAA GAAA GAAA GAAA GAAA GAAA GAAA GA
34316718 GAATGTAACA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
3 3 0.11
4 22 0.79
5 3 0.11
ACGTcount: A:0.74, C:0.00, G:0.24, T:0.03
Consensus pattern (4 bp):
GAAA
Found at i:34330712 original size:19 final size:20
Alignment explanation
Indices: 34330667--34330712 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
34330657 ATTTTTTTTG
34330667 ATAAAAATACATAAAAATTT
1 ATAAAAATACATAAAAATTT
* *
34330687 ATTAAAAT-GATACAAAA-TT
1 ATAAAAATACATA-AAAATTT
34330706 ATAAAAA
1 ATAAAAA
34330713 ATATATAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
19 11 0.50
20 11 0.50
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.28
Consensus pattern (20 bp):
ATAAAAATACATAAAAATTT
Found at i:34335606 original size:69 final size:71
Alignment explanation
Indices: 34335464--34335608 Score: 215
Period size: 69 Copynumber: 2.1 Consensus size: 71
34335454 ATAGTGATGC
* *
34335464 ATATACAATTTAAAACATGAATAGTCGAATGTGTATATACATTTATGCTTAACAAATATTATCAT
1 ATATACAATTTAAAACATGAATAGTCGAATGTGTATATACA-TTATGCCTAACAAATATTATCAC
34335529 CGAATGT
65 CGAATGT
* *
34335536 ATATACACTTT-AAACATGAATAGTCGAATGCT-TATATACA-TATGCCTAACAAGTATTATCAC
1 ATATACAATTTAAAACATGAATAGTCGAATG-TGTATATACATTATGCCTAACAAATATTATCAC
34335598 CGAATGT
65 CGAATGT
34335605 ATAT
1 ATAT
34335609 GTAACACACC
Statistics
Matches: 68, Mismatches: 4, Indels: 5
0.88 0.05 0.06
Matches are distributed among these distances:
69 30 0.44
71 27 0.40
72 11 0.16
ACGTcount: A:0.41, C:0.14, G:0.11, T:0.34
Consensus pattern (71 bp):
ATATACAATTTAAAACATGAATAGTCGAATGTGTATATACATTATGCCTAACAAATATTATCACC
GAATGT
Found at i:34337033 original size:50 final size:50
Alignment explanation
Indices: 34336971--34337153 Score: 222
Period size: 50 Copynumber: 3.7 Consensus size: 50
34336961 CAATGCAATA
* ** * * *
34336971 TCCCAGATATGGTCTTACATGAGAGTTCTCATATAGGTGCCCATGCCATG
1 TCCCAGACATGGTCTTACATGAGACCTCTCATATCGGTGCCAACGCCATG
* *** * * *
34337021 TCCCAGAGATGGTCTTATGGGGGACCTCGCATCTCGGTGCCAACGCCATG
1 TCCCAGACATGGTCTTACATGAGACCTCTCATATCGGTGCCAACGCCATG
* * *
34337071 TCCTAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATG
1 TCCCAGACATGGTCTTACATGAGACCTCTCATATCGGTGCCAACGCCATG
34337121 TCCCAGACATGGTCTTACATGAGACCTCTCATA
1 TCCCAGACATGGTCTTACATGAGACCTCTCATA
34337154 ATCTCAATGA
Statistics
Matches: 112, Mismatches: 21, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 112 1.00
ACGTcount: A:0.22, C:0.29, G:0.23, T:0.26
Consensus pattern (50 bp):
TCCCAGACATGGTCTTACATGAGACCTCTCATATCGGTGCCAACGCCATG
Found at i:34338621 original size:41 final size:41
Alignment explanation
Indices: 34338551--34338655 Score: 102
Period size: 41 Copynumber: 2.6 Consensus size: 41
34338541 CGGCTTTTAG
* * * * * * * *
34338551 CCTGCTAGACTTATAGTCCGAATTGTTTCACCTGCATTAAT
1 CCTGCTAGACATAAAGTCTGAAATATTTCACCGGCATCAAA
* *
34338592 CTTGCTAGACATAAAGTCTGAAATATTTCACCGGCGTCAAA
1 CCTGCTAGACATAAAGTCTGAAATATTTCACCGGCATCAAA
* *
34338633 CCTACTAGACGTAAAGTCTGAAA
1 CCTGCTAGACATAAAGTCTGAAA
34338656 CATTCGATCA
Statistics
Matches: 51, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.30
Consensus pattern (41 bp):
CCTGCTAGACATAAAGTCTGAAATATTTCACCGGCATCAAA
Found at i:34338824 original size:75 final size:74
Alignment explanation
Indices: 34338737--34338877 Score: 167
Period size: 75 Copynumber: 1.9 Consensus size: 74
34338727 AATATATATA
* * * * *
34338737 CATAATCGAATCTTCCATAT-ACATATATAAATTTCATACTTAAATTCATTACAAGAACATACAC
1 CATAATCAAATC-T-CATATAACATATATAAATGTCATACCTAAATTCAATAAAAGAACATACAC
34338801 ATGTATACCTG
64 ATGTATACCTG
* * * *
34338812 CATAATCAAATCTCATATAAACTTATATAAATGTCCTTCCTAAATTCAATAAAAGAACATATACA
1 CATAATCAAATCTCATAT-AACATATATAAATGTCATACCTAAATTCAATAAAAGAACATACACA
34338877 T
65 T
34338878 ATATGTAAGC
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
73 5 0.09
74 1 0.02
75 49 0.89
ACGTcount: A:0.44, C:0.19, G:0.04, T:0.33
Consensus pattern (74 bp):
CATAATCAAATCTCATATAACATATATAAATGTCATACCTAAATTCAATAAAAGAACATACACAT
GTATACCTG
Found at i:34346075 original size:69 final size:71
Alignment explanation
Indices: 34345929--34346082 Score: 206
Period size: 69 Copynumber: 2.2 Consensus size: 71
34345919 ACTTAAAATT
* * * *
34345929 GAATGCATATACAATTTAAAACATGAATAGCCGAATGTGTATATACATATATGCTTAACAAATAT
1 GAATGTATATACAATTTAAAACATGAACAACCGAATGTGTATATACA-ATATGCCTAACAAATAT
*
34345994 TATCATC
65 TATCACC
* *
34346001 GAATGTATATACACTTT-AAACATGAACAACCGAATGCT-TATATAC-ATATGCCTAACAATTAT
1 GAATGTATATACAATTTAAAACATGAACAACCGAATG-TGTATATACAATATGCCTAACAAATAT
34346063 TATCACC
65 TATCACC
34346070 GAATGTATATACA
1 GAATGTATATACA
34346083 TGTTCTTCAA
Statistics
Matches: 74, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
69 34 0.46
71 24 0.32
72 16 0.22
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.31
Consensus pattern (71 bp):
GAATGTATATACAATTTAAAACATGAACAACCGAATGTGTATATACAATATGCCTAACAAATATT
ATCACC
Found at i:34346482 original size:75 final size:75
Alignment explanation
Indices: 34346396--34346540 Score: 168
Period size: 75 Copynumber: 1.9 Consensus size: 75
34346386 ATATATATAC
* * * * *
34346396 ATAATCAAATCTTCCATATACA-TT-TATAAATTTCATACTTAAATTCATTACAAGAACATACAC
1 ATAATCAAATC-T-CATATAAACTTATATAAATGTCATACCTAAATTCAATAAAAGAACATACAC
*
34346459 ATGTATACCTGT
64 ATATATACCTGT
* * * *
34346471 ATAATCGAATCTCATATAAACTTATATAAATGTCCTTCCTAAATTCAATAAAAGAACATATACAT
1 ATAATCAAATCTCATATAAACTTATATAAATGTCATACCTAAATTCAATAAAAGAACATACACAT
34346536 ATATA
66 ATATA
34346541 TAAGCATGCT
Statistics
Matches: 58, Mismatches: 10, Indels: 4
0.81 0.14 0.06
Matches are distributed among these distances:
73 7 0.12
74 3 0.05
75 48 0.83
ACGTcount: A:0.44, C:0.17, G:0.04, T:0.34
Consensus pattern (75 bp):
ATAATCAAATCTCATATAAACTTATATAAATGTCATACCTAAATTCAATAAAAGAACATACACAT
ATATACCTGT
Found at i:34346800 original size:2 final size:2
Alignment explanation
Indices: 34346795--34346838 Score: 52
Period size: 2 Copynumber: 22.0 Consensus size: 2
34346785 ATTCGAGCAT
* * * *
34346795 TA TA TA CA TA TA TA TA TA CA TA TA TA TA TA CA TA TA CA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
34346837 TA
1 TA
34346839 CATACTCATA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (2 bp):
TA
Found at i:34346811 original size:6 final size:6
Alignment explanation
Indices: 34346796--34346836 Score: 64
Period size: 6 Copynumber: 6.8 Consensus size: 6
34346786 TTCGAGCATT
* *
34346796 ATATAC ATATAT ATATAC ATATAT ATATAC ATATAC ATATA
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATA
34346837 TACATACTCA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.39
Consensus pattern (6 bp):
ATATAC
Found at i:34346812 original size:12 final size:12
Alignment explanation
Indices: 34346795--34346842 Score: 78
Period size: 12 Copynumber: 3.8 Consensus size: 12
34346785 ATTCGAGCAT
34346795 TATATACATATA
1 TATATACATATA
34346807 TATATACATATA
1 TATATACATATA
34346819 TATATACATATACA
1 TATATACATAT--A
34346833 TATATACATA
1 TATATACATA
34346843 CTCATACCTT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
12 23 0.68
14 11 0.32
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (12 bp):
TATATACATATA
Found at i:34346823 original size:18 final size:18
Alignment explanation
Indices: 34346796--34346843 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
34346786 TTCGAGCATT
* *
34346796 ATATACATATATATATAC
1 ATATATATATACATATAC
34346814 ATATATATATACATATAC
1 ATATATATATACATATAC
*
34346832 ATATATACATAC
1 ATATATATATAC
34346844 TCATACCTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (18 bp):
ATATATATATACATATAC
Found at i:34350090 original size:17 final size:17
Alignment explanation
Indices: 34350070--34350105 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
34350060 ATTTTCAGAG
34350070 TTAGTCAAATAATTTCT
1 TTAGTCAAATAATTTCT
34350087 TTAGTCAAATAATTTCT
1 TTAGTCAAATAATTTCT
34350104 TT
1 TT
34350106 TGGACAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.33, C:0.11, G:0.06, T:0.50
Consensus pattern (17 bp):
TTAGTCAAATAATTTCT
Found at i:34355935 original size:36 final size:36
Alignment explanation
Indices: 34355887--34356054 Score: 309
Period size: 36 Copynumber: 4.6 Consensus size: 36
34355877 AAAAACACTC
34355887 TATATTATTAGAATAGATAAATAAATTCTAATACTAA
1 TATA-TATTAGAATAGATAAATAAATTCTAATACTAA
34355924 TATATATTAGAATAGATAAATAAATTCTAATACTAA
1 TATATATTAGAATAGATAAATAAATTCTAATACTAA
34355960 TATATATTAGAATAGATAAATAAATTCTAATACTAA
1 TATATATTAGAATAGATAAATAAATTCTAATACTAA
34355996 TATATATTAGAATAGATAAATAAATTCTAATACTAA
1 TATATATTAGAATAGATAAATAAATTCTAATACTAA
* *
34356032 TATATATTAGAATATATATATAA
1 TATATATTAGAATAGATAAATAA
34356055 TAGAATAGAT
Statistics
Matches: 129, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
36 125 0.97
37 4 0.03
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.38
Consensus pattern (36 bp):
TATATATTAGAATAGATAAATAAATTCTAATACTAA
Found at i:34356050 original size:16 final size:16
Alignment explanation
Indices: 34356031--34356080 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 16
34356021 TCTAATACTA
*
34356031 ATATATATTAGAATAT
1 ATATATAATAGAATAT
34356047 ATATATAATAGAATAGAT
1 ATATATAATAGAAT--AT
34356065 AAATATATAATAGAAT
1 --ATATATAATAGAAT
34356081 TAATATTCTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
16 13 0.45
18 2 0.07
20 14 0.48
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (16 bp):
ATATATAATAGAATAT
Found at i:34356070 original size:72 final size:71
Alignment explanation
Indices: 34355887--34356080 Score: 255
Period size: 72 Copynumber: 2.7 Consensus size: 71
34355877 AAAAACACTC
***
34355887 TATATTATTAGAATAGATAAATAAATTCTAATACTAATATATATTAGAATAGATAAATAAATTCT
1 TATA-TATTAGAATAGATAAATAAAGAATAATAC-AATATATATTAGAATAGATAAATAAATTCT
34355952 AATACTAA
64 AATACTAA
***
34355960 TATATATTAGAATAGATAAATAAATTCTAATACTAATATATATTAGAATAGATAAATAAATTCTA
1 TATATATTAGAATAGATAAATAAAGAATAATAC-AATATATATTAGAATAGATAAATAAATTCTA
34356025 ATACTAA
65 ATACTAA
* * *
34356032 TATATATTAGAATATATATATAATAGAATAGATA-AATATATAATAGAAT
1 TATATATTAGAATAGATAAATAA-AGAATA-ATACAATATATATTAGAAT
34356081 TAATATTCTA
Statistics
Matches: 113, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
72 103 0.91
73 7 0.06
74 3 0.03
ACGTcount: A:0.53, C:0.04, G:0.06, T:0.37
Consensus pattern (71 bp):
TATATATTAGAATAGATAAATAAAGAATAATACAATATATATTAGAATAGATAAATAAATTCTAA
TACTAA
Found at i:34356129 original size:26 final size:26
Alignment explanation
Indices: 34356071--34356129 Score: 61
Period size: 26 Copynumber: 2.3 Consensus size: 26
34356061 AGATAAATAT
*
34356071 ATAATAGAATTAATATTCTAACATCTA
1 ATAATA-AATTAATATTATAACATCTA
34356098 AT-ATAAATTATATATTATAAGC-TC-A
1 ATAATAAATTA-ATATTATAA-CATCTA
34356123 ATAATAA
1 ATAATAA
34356130 GAAATAAGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
25 8 0.29
26 17 0.61
27 3 0.11
ACGTcount: A:0.51, C:0.08, G:0.03, T:0.37
Consensus pattern (26 bp):
ATAATAAATTAATATTATAACATCTA
Found at i:34361647 original size:3 final size:3
Alignment explanation
Indices: 34361639--34361695 Score: 114
Period size: 3 Copynumber: 19.0 Consensus size: 3
34361629 TTTCGTTTGC
34361639 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
34361687 ATT ATT ATT
1 ATT ATT ATT
34361696 NNNNNNNNNN
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:34366116 original size:20 final size:20
Alignment explanation
Indices: 34366091--34366129 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
34366081 TCAAAAATCT
34366091 GAATAAAAATGAATG-TAATG
1 GAATAAAAAT-AATGATAATG
*
34366111 GAATAACAATAATGATAAT
1 GAATAAAAATAATGATAAT
34366130 CAAACAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.56, C:0.03, G:0.15, T:0.26
Consensus pattern (20 bp):
GAATAAAAATAATGATAATG
Found at i:34367349 original size:17 final size:18
Alignment explanation
Indices: 34367318--34367351 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
34367308 GGATTTATAA
34367318 AAAAATGGAAACAAAAAT
1 AAAAATGGAAACAAAAAT
*
34367336 AAAAAT-GAATCAAAAA
1 AAAAATGGAAACAAAAA
34367352 ATAACACAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.74, C:0.06, G:0.09, T:0.12
Consensus pattern (18 bp):
AAAAATGGAAACAAAAAT
Found at i:34369032 original size:15 final size:15
Alignment explanation
Indices: 34369012--34369041 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
34369002 CAATTGCTAA
34369012 CCTAAAATTGGATTT
1 CCTAAAATTGGATTT
34369027 CCTAAAATTGGATTT
1 CCTAAAATTGGATTT
34369042 TCCAATTTTG
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:0.33, C:0.13, G:0.13, T:0.40
Consensus pattern (15 bp):
CCTAAAATTGGATTT
Found at i:34370388 original size:16 final size:15
Alignment explanation
Indices: 34370363--34370393 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
34370353 CCTTATTTCG
34370363 GCCCTGTTCGTATTT
1 GCCCTGTTCGTATTT
34370378 GCCCTTGTTCGTATTT
1 GCCC-TGTTCGTATTT
34370394 TTTCCCGGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.06, C:0.26, G:0.19, T:0.48
Consensus pattern (15 bp):
GCCCTGTTCGTATTT
Found at i:34370597 original size:150 final size:151
Alignment explanation
Indices: 34370382--34371019 Score: 850
Period size: 150 Copynumber: 4.2 Consensus size: 151
34370372 GTATTTGCCC
*
34370382 TTGTTCGTATTTTTT-CCCGGATTTTATTACTTTCAATAAAAATATATTATTTTC-ATATTTTAT
1 TTGTTCGTATTTTTTCCCCAGATTTTATTACTTTC-A-AAAAATATATTATTTTCTA-ATTTTAT
* * *
34370445 TATTTTACATTGTTTTAGTACATTATGTTTGAAATATATTAATTTACTGTATTTTTTAAATAAAT
63 TATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTA-TGTGTTTTTTAAATAAAT
34370510 TTAAAAAAAACTCTTATTTCGGC-CAT
127 TTAAAAAAAAC-CTTATTTCGGCTC-T
* * * * *
34370536 TTGTTTGTATTTTTTCCCCCGATTTTATTGC-TT-AAAAAA-ATACTATTTTCTAATTTCATTAT
1 TTGTTCGTATTTTTTCCCCAGATTTTATTACTTTCAAAAAATATATTATTTTCTAATTTTATTAT
**
34370598 TTTACATTATTTTAGTACATTATGTTTGAAATGTATCCATTTA-GTGTTTTTTAAATAAATTTTT
66 TTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTATGTGTTTTTTAAATAAA---TT
* *
34370662 TTAAAAAACCCTTATTTCGGCTCT
128 TAAAAAAAACCTTATTTCGGCTCT
*
34370686 TTGTTCGTA-TTTTTCTCCCAAATTTTATTACTTTCAATAAAAATATATTATTTTCGT-ATTTTA
1 TTGTTCGTATTTTTTC-CCCAGATTTTATTACTTTC-A-AAAAATATATTATTTTC-TAATTTTA
*
34370749 TTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTAATTGTGTTTTTTAAATAAA
62 TTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTA-TGTGTTTTTTAAATAAA
34370814 TTTAGTAAAAAAACCTTTATTTCGGCTCT
126 TTTA--AAAAAAACC-TTATTTCGGCTCT
34370843 TTGTTCGTA-TTTTTCCCCAGATTTTATTACTTT-AAAAAATATATTATTTTCTAATTTTATTAT
1 TTGTTCGTATTTTTTCCCCAGATTTTATTACTTTCAAAAAATATATTATTTTCTAATTTTATTAT
*
34370906 TTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAATGTGTTTTTTAAATAAATTTA
66 TTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTT-ATGTGTTTTTTAAATAAATTTA
*
34370971 AAAAAAA-CTTATTTCGGCCCT
130 AAAAAAACCTTATTTCGGCTCT
* * *
34370992 TTATTCGTATTTTTTTCTCAGATTTTAT
1 TTGTTCGTATTTTTTCCCCAGATTTTAT
34371020 CATTTTACAT
Statistics
Matches: 433, Mismatches: 30, Indels: 46
0.85 0.06 0.09
Matches are distributed among these distances:
148 15 0.03
149 26 0.06
150 107 0.25
151 26 0.06
152 2 0.00
153 89 0.21
154 26 0.06
155 72 0.17
156 26 0.06
157 44 0.10
ACGTcount: A:0.30, C:0.11, G:0.08, T:0.52
Consensus pattern (151 bp):
TTGTTCGTATTTTTTCCCCAGATTTTATTACTTTCAAAAAATATATTATTTTCTAATTTTATTAT
TTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTATGTGTTTTTTAAATAAATTTAA
AAAAAACCTTATTTCGGCTCT
Found at i:34370792 original size:305 final size:304
Alignment explanation
Indices: 34370378--34371019 Score: 967
Period size: 305 Copynumber: 2.1 Consensus size: 304
34370368 GTTCGTATTT
*
34370378 GCCC-TTGTTCGTATTTTTTCCCGGATTTTATTACTTTCAATAAAAATATATTATTTTCATATTT
1 GCCCTTTGTTCGTATTTTTTCCCAGATTTTATTACTTTCAATAAAAATATATTATTTTCATATTT
* *
34370442 TATTATTTTACATTGTTTTAGTACATTATGTTTGAAATATATTAATTTACTGTATTTTTTAAATA
66 TATTATTTTACATTATTTTAGTACATTATGTTTGAAATATATTAATTAACTGTATTTTTTAAATA
* * *
34370507 AATTTA-AAAAAAA-CTCTTATTTCGGC-CATTTGTTTGTATTTTTTCCCCCGATTTTATTGC-T
131 AATTTAGAAAAAAACCT-TTATTTCGGCTC-TTTGTTCGTA-TTTTTCCCCAGATTTTATTACTT
34370568 TAAAAAA-ATACTATTTTCTAATTTCATTATTTTACATTATTTTAGTACATTATGTTTGAAATGT
193 TAAAAAATATACTATTTTCTAATTTCATTATTTTACATTATTTTAGTACATTATGTTTGAAATGT
**
34370632 ATCCATTT-A-GTGTTTTTTAAATAAATTTTTTTAAAAAACCCTTATTTCG
258 ATCCATTTAATGTGTTTTTTAAATAAA----TTTAAAAAAAACTTATTTCG
* * *
34370681 GCTCTTTGTTCGTATTTTTCTCCCAAATTTTATTACTTTCAATAAAAATATATTATTTTCGTATT
1 GCCCTTTGTTCGTATTTTT-TCCCAGATTTTATTACTTTCAATAAAAATATATTATTTTCATATT
* * *
34370746 TTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTAATTGTGTTTTTTAAAT
65 TTATTATTTTACATTATTTTAGTACATTATGTTTGAAATATATTAATTAACTGTATTTTTTAAAT
34370811 AAATTTAGTAAAAAAACCTTTATTTCGGCTCTTTGTTCGTATTTTTCCCCAGATTTTATTACTTT
130 AAATTTAG-AAAAAAACCTTTATTTCGGCTCTTTGTTCGTATTTTTCCCCAGATTTTATTACTTT
* *
34370876 AAAAAATATATTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTA
194 AAAAAATATACTATTTTCTAATTTCATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTA
*
34370941 TTCATTTAATGTGTTTTTTAAATAAATTTAAAAAAAACTTATTTCG
259 TCCATTTAATGTGTTTTTTAAATAAATTTAAAAAAAACTTATTTCG
* *
34370987 GCCCTTTATTCGTATTTTTTTCTCAGATTTTAT
1 GCCCTTTGTTCGTA-TTTTTTCCCAGATTTTAT
34371020 CATTTTACAT
Statistics
Matches: 307, Mismatches: 21, Indels: 19
0.88 0.06 0.05
Matches are distributed among these distances:
303 3 0.01
304 14 0.05
305 109 0.36
306 60 0.20
307 39 0.13
308 65 0.21
309 1 0.00
310 16 0.05
ACGTcount: A:0.30, C:0.11, G:0.08, T:0.52
Consensus pattern (304 bp):
GCCCTTTGTTCGTATTTTTTCCCAGATTTTATTACTTTCAATAAAAATATATTATTTTCATATTT
TATTATTTTACATTATTTTAGTACATTATGTTTGAAATATATTAATTAACTGTATTTTTTAAATA
AATTTAGAAAAAAACCTTTATTTCGGCTCTTTGTTCGTATTTTTCCCCAGATTTTATTACTTTAA
AAAATATACTATTTTCTAATTTCATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATC
CATTTAATGTGTTTTTTAAATAAATTTAAAAAAAACTTATTTCG
Found at i:34371093 original size:117 final size:116
Alignment explanation
Indices: 34370884--34371125 Score: 355
Period size: 117 Copynumber: 2.1 Consensus size: 116
34370874 TTAAAAAATA
* * *
34370884 TATTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTA
1 TATTTTTTTCTAATTTTATCATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCAATTA
* *
34370949 ATGTGTTTTTTAAATAAATTTAAAAAAAA-CTTATTTCGGCCCTTTATTCG
66 ATATGTTTTTTAAATAAATTTAAAAAAAACCTTACTTCGGCCCTTTATTCG
34370999 TATTTTTTTCTCAGATTTTATCATTTTACATTATTTTAGTACATTATGTTTGAAATGTATT-AAT
1 TATTTTTTTCT-A-ATTTTATCATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCAAT
* *
34371063 TAATTATG-TTTTTAAATAAATTTAGTAAAAAACCCTTACTTCGGCCCTTTGTTCG
64 TAA-TATGTTTTTTAAATAAATTTA--AAAAAAACCTTACTTCGGCCCTTTATTCG
34371118 TATTTTTT
1 TATTTTTT
34371126 CCCCGGATTT
Statistics
Matches: 114, Mismatches: 7, Indels: 8
0.88 0.05 0.06
Matches are distributed among these distances:
115 10 0.09
116 22 0.19
117 49 0.43
118 6 0.05
119 27 0.24
ACGTcount: A:0.30, C:0.10, G:0.08, T:0.52
Consensus pattern (116 bp):
TATTTTTTTCTAATTTTATCATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCAATTA
ATATGTTTTTTAAATAAATTTAAAAAAAACCTTACTTCGGCCCTTTATTCG
Found at i:34371182 original size:152 final size:158
Alignment explanation
Indices: 34371004--34371308 Score: 426
Period size: 154 Copynumber: 2.0 Consensus size: 158
34370994 ATTCGTATTT
*
34371004 TTTTCTCAGATTTTATCATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTAATTA
1 TTTTCTCAGATTTTATCATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTAAGTA
* *
34371069 TG-TTTTT-AAATAAATTTAGTAAAAAA-CCCTTACTTCGGCCCTTTGTTCGTATTTTTTCCCCG
66 TGTTTTTTAAAATAAATTTA-AAAAAAACCCCTTACTTCGGCCCTTTGTTCGTATTTTTTCCCCA
34371131 GATTTTATTACTTT-AA-AAAAAATACTA
130 GATTTTATTACTTTCAATAAAAAATACTA
* * * * *
34371158 TTTTCT-A-ATTTTATTATTTTACATTATTTTAGTACGTTATGTTTGAAATGTATTCATTTAGTG
1 TTTTCTCAGATTTTATCATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTAAGTA
*** * * *
34371221 TGTTTTTTAAAATTTTTTTAAAAAAAACCCCTTATTTCGGCTCTTTGTTCGTATTTTTTTCCCAG
66 TGTTTTTTAAAATAAATTTAAAAAAAACCCCTTACTTCGGCCCTTTGTTCGTATTTTTTCCCCAG
34371286 ATTTTATTACTTTCAATAAAAAA
131 ATTTTATTACTTTCAATAAAAAA
34371309 AACACACTAA
Statistics
Matches: 132, Mismatches: 14, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
152 52 0.39
153 12 0.09
154 60 0.45
155 2 0.02
156 6 0.05
ACGTcount: A:0.30, C:0.12, G:0.09, T:0.50
Consensus pattern (158 bp):
TTTTCTCAGATTTTATCATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTAAGTA
TGTTTTTTAAAATAAATTTAAAAAAAACCCCTTACTTCGGCCCTTTGTTCGTATTTTTTCCCCAG
ATTTTATTACTTTCAATAAAAAATACTA
Found at i:34371225 original size:269 final size:272
Alignment explanation
Indices: 34370743--34371292 Score: 901
Period size: 269 Copynumber: 2.0 Consensus size: 272
34370733 TTATTTTCGT
* *
34370743 ATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTAATTGTGTTTTTTA
1 ATTTTATCATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTAATTATGTTTTTTA
* * *
34370808 AATAAATTTAGTAAAAAAACCTTTATTTCGGCTCTTTGTTCGTATTTTTCCCCAGATTTTATTAC
66 AATAAATTTAGTAAAAAAACCCTTACTTCGGCCCTTTGTTCGTATTTTTCCCCAGATTTTATTAC
* *
34370873 TTTAAAAAATATATTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAAT
131 TTTAAAAAAAATACTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAAT
34370938 GTATTCATTTAATGTGTTTTTT-AAATAAATTTAAAAAAAA-CTTATTTCGGCCCTTTATTCGTA
196 GTATTCATTTAATGTGTTTTTTAAAATAAATTTAAAAAAAACCTTATTTCGGCCCTTTATTCGTA
*
34371001 TTTTTTTCTCAG
261 TTTTTTTCCCAG
34371013 ATTTTATCATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTAATTATG-TTTTTA
1 ATTTTATCATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTAATTATGTTTTTTA
*
34371077 AATAAATTTAGT-AAAAAACCCTTACTTCGGCCCTTTGTTCGTATTTTTTCCCCGGATTTTATTA
66 AATAAATTTAGTAAAAAAACCCTTACTTCGGCCCTTTGTTCGTA-TTTTTCCCCAGATTTTATTA
*
34371141 CTTTAAAAAAAATACTATTTTCTAATTTTATTATTTTACATTATTTTAGTACGTTATGTTTGAAA
130 CTTTAAAAAAAATACTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAA
* *** * *
34371206 TGTATTCATTTAGTGTGTTTTTTAAAATTTTTTTAAAAAAAACCCCTTATTTCGGCTCTTTGTTC
195 TGTATTCATTTAATGTGTTTTTTAAAATAAATTTAAAAAAAA--CCTTATTTCGGCCCTTTATTC
34371271 GTATTTTTTTCCCAG
258 GTATTTTTTTCCCAG
34371286 ATTTTAT
1 ATTTTAT
34371293 TACTTTCAAT
Statistics
Matches: 259, Mismatches: 16, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
268 28 0.11
269 121 0.47
270 71 0.27
273 39 0.15
ACGTcount: A:0.30, C:0.11, G:0.09, T:0.51
Consensus pattern (272 bp):
ATTTTATCATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTAATTATGTTTTTTA
AATAAATTTAGTAAAAAAACCCTTACTTCGGCCCTTTGTTCGTATTTTTCCCCAGATTTTATTAC
TTTAAAAAAAATACTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAAT
GTATTCATTTAATGTGTTTTTTAAAATAAATTTAAAAAAAACCTTATTTCGGCCCTTTATTCGTA
TTTTTTTCCCAG
Found at i:34374079 original size:15 final size:17
Alignment explanation
Indices: 34374046--34374082 Score: 51
Period size: 15 Copynumber: 2.2 Consensus size: 17
34374036 ATATAAATTT
34374046 AAAATTGTTAAGTCGAAA
1 AAAATTGTTAAGTC-AAA
34374064 AAAATT-TTAAGT-AAA
1 AAAATTGTTAAGTCAAA
34374079 AAAA
1 AAAA
34374083 AACTTATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
17 6 0.32
18 6 0.32
ACGTcount: A:0.59, C:0.03, G:0.11, T:0.27
Consensus pattern (17 bp):
AAAATTGTTAAGTCAAA
Found at i:34374080 original size:16 final size:18
Alignment explanation
Indices: 34374046--34374083 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
34374036 ATATAAATTT
*
34374046 AAAATTGTTAAGTCGAAA
1 AAAATTGTTAAGTCAAAA
34374064 AAAATT-TTAAGT-AAAA
1 AAAATTGTTAAGTCAAAA
34374080 AAAA
1 AAAA
34374084 ACTTATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 7 0.37
17 6 0.32
18 6 0.32
ACGTcount: A:0.61, C:0.03, G:0.11, T:0.26
Consensus pattern (18 bp):
AAAATTGTTAAGTCAAAA
Found at i:34374081 original size:17 final size:18
Alignment explanation
Indices: 34374046--34374084 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
34374036 ATATAAATTT
**
34374046 AAAATTGTTAAGTCGAAA
1 AAAATTGTTAAGTAAAAA
34374064 AAAATT-TTAAGTAAAAA
1 AAAATTGTTAAGTAAAAA
34374081 AAAA
1 AAAA
34374085 CTTATTAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.62, C:0.03, G:0.10, T:0.26
Consensus pattern (18 bp):
AAAATTGTTAAGTAAAAA
Found at i:34379278 original size:61 final size:60
Alignment explanation
Indices: 34379195--34379340 Score: 141
Period size: 61 Copynumber: 2.4 Consensus size: 60
34379185 ATACACTTTA
* * * * * * * *
34379195 TCAATTTGATCCTAAATATAAAAAATTTAACAAATTTAGCCTTCAATATTTACAAAATTTG
1 TCAATTTAATTCTAATTCTAAAAAA-TCAACAAACTTAGCCCTCAACATTTACAAAATTTG
* * * * *
34379256 AT-ATTTTAGTTCTAATTCTAAAATCATCAACTAACTTCGCCCTCAACATTTACAAAATTTG
1 -TCAATTTAATTCTAATTCTAAAA-AATCAACAAACTTAGCCCTCAACATTTACAAAATTTG
34379317 TCAATTTAATTCTAATTCTAAAAA
1 TCAATTTAATTCTAATTCTAAAAA
34379341 TTTCAAAAAG
Statistics
Matches: 66, Mismatches: 16, Indels: 6
0.75 0.18 0.07
Matches are distributed among these distances:
60 1 0.02
61 63 0.95
62 2 0.03
ACGTcount: A:0.41, C:0.16, G:0.04, T:0.38
Consensus pattern (60 bp):
TCAATTTAATTCTAATTCTAAAAAATCAACAAACTTAGCCCTCAACATTTACAAAATTTG
Found at i:34380669 original size:107 final size:107
Alignment explanation
Indices: 34380480--34380692 Score: 286
Period size: 107 Copynumber: 2.0 Consensus size: 107
34380470 ATTCATCACC
* *
34380480 CCTTCACCTACATGATGACCATAAAATATCTTTCTATCGTCCGTGGGACAAAATTGAGTATCCAC
1 CCTTCACCTACATGATGACCATAAAATATATTTCTATCGTCCATGGGACAAAATTGAGTATCCAC
* * *
34380545 GTTGTGTACGCGAGAATTCAATATGAAAGCATCTAATCTTCA
66 ATTGTGTACGCGAGAATTCAATACGAAACCATCTAATCTTCA
* * * *
34380587 CCTTCACCTGCATGAAT-AGCATACAATATATTTCT-TTGATCCATGGGACAAAATTGAGTATCC
1 CCTTCACCTACATG-ATGACCATAAAATATATTTCTATCG-TCCATGGGACAAAATTGAGTATCC
** *
34380650 ACATTGTGTTGGCGTGAATTCAATACGAAACCATCTAATCTTC
64 ACATTGTGTACGCGAGAATTCAATACGAAACCATCTAATCTTC
34380693 CTAACCTATA
Statistics
Matches: 92, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
106 2 0.02
107 88 0.96
108 2 0.02
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.31
Consensus pattern (107 bp):
CCTTCACCTACATGATGACCATAAAATATATTTCTATCGTCCATGGGACAAAATTGAGTATCCAC
ATTGTGTACGCGAGAATTCAATACGAAACCATCTAATCTTCA
Found at i:34391373 original size:15 final size:15
Alignment explanation
Indices: 34391353--34391401 Score: 77
Period size: 15 Copynumber: 3.5 Consensus size: 15
34391343 TTGATTTGAT
34391353 TTGATTTCAATCAAA
1 TTGATTTCAATCAAA
34391368 TTGATTT---TCAAA
1 TTGATTTCAATCAAA
34391380 TTGATTTCAATCAAA
1 TTGATTTCAATCAAA
34391395 TTGATTT
1 TTGATTT
34391402 TATTTTATTC
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
12 12 0.39
15 19 0.61
ACGTcount: A:0.35, C:0.10, G:0.08, T:0.47
Consensus pattern (15 bp):
TTGATTTCAATCAAA
Found at i:34391373 original size:20 final size:20
Alignment explanation
Indices: 34391348--34391421 Score: 58
Period size: 20 Copynumber: 3.4 Consensus size: 20
34391338 ATATCTTGAT
34391348 TTGATTTGATTTCAATCAAA
1 TTGATTTGATTTCAATCAAA
34391368 TTGATTTTCAAATTGATTTCAATCAAA
1 TTGA---T----TTGATTTCAATCAAA
* * *
34391395 TTGATTTTATTTTATTCAAA
1 TTGATTTGATTTCAATCAAA
34391415 TTGATTT
1 TTGATTT
34391422 AAAGACTCCT
Statistics
Matches: 44, Mismatches: 3, Indels: 14
0.72 0.05 0.23
Matches are distributed among these distances:
20 23 0.52
23 1 0.02
24 1 0.02
27 19 0.43
ACGTcount: A:0.32, C:0.08, G:0.08, T:0.51
Consensus pattern (20 bp):
TTGATTTGATTTCAATCAAA
Found at i:34391389 original size:11 final size:12
Alignment explanation
Indices: 34391363--34391402 Score: 53
Period size: 12 Copynumber: 3.1 Consensus size: 12
34391353 TTGATTTCAA
34391363 TCAAATTGATTT
1 TCAAATTGATTT
34391375 TCAAATTGATTT
1 TCAAATTGATTT
34391387 CAATCAAATTGATTT
1 ---TCAAATTGATTT
34391402 T
1 T
34391403 ATTTTATTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 13 0.52
15 12 0.48
ACGTcount: A:0.35, C:0.10, G:0.07, T:0.47
Consensus pattern (12 bp):
TCAAATTGATTT
Found at i:34396072 original size:63 final size:62
Alignment explanation
Indices: 34395973--34396113 Score: 169
Period size: 63 Copynumber: 2.3 Consensus size: 62
34395963 TTTTAAGCCT
* *** * **
34395973 AAACAGTGAGTTACACAGCCTGGATACATGTTCATGTCCCT-ACCCGTGTGG-CTTTTATACCAC
1 AAACAGTGAGTTACACAGCCTGGACACATACCCATGTCCCTGA-CCGTATGGTCTCGT-T-CCAC
*
34396036 AAACAGTGAGTTACACAGCCTGGGCACATACCCATGTCCCTGACCGTATGGTCTCGTTCCAC
1 AAACAGTGAGTTACACAGCCTGGACACATACCCATGTCCCTGACCGTATGGTCTCGTTCCAC
34396098 AAACAGTGAGTTACAC
1 AAACAGTGAGTTACAC
34396114 GACCCAAACA
Statistics
Matches: 68, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
62 20 0.29
63 44 0.65
64 4 0.06
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (62 bp):
AAACAGTGAGTTACACAGCCTGGACACATACCCATGTCCCTGACCGTATGGTCTCGTTCCAC
Found at i:34397551 original size:91 final size:91
Alignment explanation
Indices: 34397396--34397580 Score: 361
Period size: 91 Copynumber: 2.0 Consensus size: 91
34397386 CATGTCATAA
*
34397396 TTGAATCTTGAATACATTCAAAACATCTAATAATATAAAGAAACTTGTAATTAATATATATTTCC
1 TTGAATCTTGAATACATTCAAAACATCTAATAATATAAAGAAACCTGTAATTAATATATATTTCC
34397461 AACTTTCTTTGAAAATTCACTCATCT
66 AACTTTCTTTGAAAATTCACTCATCT
34397487 TTGAATCTTGAATACATTCAAAACATCTAATAATATAAAGAAACCTGTAATTAATATATATTTCC
1 TTGAATCTTGAATACATTCAAAACATCTAATAATATAAAGAAACCTGTAATTAATATATATTTCC
34397552 AACTTTCTTTGAAAATTCACTCATCT
66 AACTTTCTTTGAAAATTCACTCATCT
34397578 TTG
1 TTG
34397581 TACGTTGTGG
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
91 93 1.00
ACGTcount: A:0.40, C:0.16, G:0.06, T:0.38
Consensus pattern (91 bp):
TTGAATCTTGAATACATTCAAAACATCTAATAATATAAAGAAACCTGTAATTAATATATATTTCC
AACTTTCTTTGAAAATTCACTCATCT
Found at i:34400758 original size:27 final size:27
Alignment explanation
Indices: 34400711--34400763 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
34400701 ACGTGTTATA
*
34400711 AAAAAAAAGATGGAGAGAATAAAGAAC
1 AAAAAAAAGATGGAAAGAATAAAGAAC
* *
34400738 AAAAAAAATAT-GAAAGCAATAGAGAA
1 AAAAAAAAGATGGAAAG-AATAAAGAA
34400764 TGTACTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.68, C:0.04, G:0.19, T:0.09
Consensus pattern (27 bp):
AAAAAAAAGATGGAAAGAATAAAGAAC
Found at i:34401015 original size:17 final size:18
Alignment explanation
Indices: 34400993--34401036 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
34400983 GGGATTTAAA
*
34400993 TAATTAATTAAA-AATTT
1 TAATTAAGTAAATAATTT
34401010 TAATTATAGTAAATAATTT
1 TAATTA-AGTAAATAATTT
34401029 TCAATTAA
1 T-AATTAA
34401037 AATACCTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 6 0.26
18 5 0.22
19 7 0.30
20 5 0.22
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (18 bp):
TAATTAAGTAAATAATTT
Found at i:34401811 original size:2 final size:2
Alignment explanation
Indices: 34401804--34401837 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
34401794 TATTTTGAGC
34401804 AT 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 AT
34401838 TATTGTTATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:34406720 original size:10 final size:11
Alignment explanation
Indices: 34406692--34406725 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
34406682 GATCTATCTC
34406692 TCAACAAAAATT
1 TCAA-AAAAATT
34406704 TCAAAAAAATT
1 TCAAAAAAATT
*
34406715 TCAAAATAATT
1 TCAAAAAAATT
34406726 ATTTAAATTC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 17 0.81
12 4 0.19
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.29
Consensus pattern (11 bp):
TCAAAAAAATT
Found at i:34409166 original size:10 final size:11
Alignment explanation
Indices: 34409138--34409171 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
34409128 GATCTATCTC
34409138 TCAACAAAAATT
1 TCAA-AAAAATT
34409150 TCAAAAAAATT
1 TCAAAAAAATT
*
34409161 TCAAAATAATT
1 TCAAAAAAATT
34409172 ATTTAAATTC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 17 0.81
12 4 0.19
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.29
Consensus pattern (11 bp):
TCAAAAAAATT
Found at i:34415540 original size:16 final size:16
Alignment explanation
Indices: 34415484--34415541 Score: 57
Period size: 16 Copynumber: 3.7 Consensus size: 16
34415474 TATTAAATTT
*
34415484 TTTAATAATTATTTATA
1 TTTAATAA-TATATATA
*
34415501 TTTAATAATATAAATA
1 TTTAATAATATATATA
* *
34415517 ATT-A-AATATATATG
1 TTTAATAATATATATA
34415531 TTTAATAATAT
1 TTTAATAATAT
34415542 TGAACACTAT
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
14 10 0.30
15 2 0.06
16 13 0.39
17 8 0.24
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (16 bp):
TTTAATAATATATATA
Found at i:34415616 original size:17 final size:17
Alignment explanation
Indices: 34415596--34415630 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
34415586 TGTTTTAAAA
34415596 ATTAAAATAAAAATATT
1 ATTAAAATAAAAATATT
* *
34415613 ATTAATATAATAATATT
1 ATTAAAATAAAAATATT
34415630 A
1 A
34415631 GGCTTAATTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
ATTAAAATAAAAATATT
Found at i:34423605 original size:20 final size:20
Alignment explanation
Indices: 34423563--34423605 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
34423553 GAATATATAA
** *
34423563 TTAAAATACTTTTTTGATTT
1 TTAAAATAAATTTTTGATGT
*
34423583 TTAAAATAAATTTTTGGTGT
1 TTAAAATAAATTTTTGATGT
34423603 TTA
1 TTA
34423606 TTAAAAAAAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.02, G:0.09, T:0.56
Consensus pattern (20 bp):
TTAAAATAAATTTTTGATGT
Found at i:34433170 original size:22 final size:22
Alignment explanation
Indices: 34433127--34433170 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
34433117 TTACCTTTAC
*
34433127 ATGCATTACATGCATTTCATAG
1 ATGCATTACATGCAATTCATAG
*
34433149 ATGCATTACCATGGAATT-ATAG
1 ATGCATTA-CATGCAATTCATAG
34433171 CTAATTCATG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (22 bp):
ATGCATTACATGCAATTCATAG
Found at i:34436215 original size:14 final size:15
Alignment explanation
Indices: 34436196--34436236 Score: 57
Period size: 14 Copynumber: 2.7 Consensus size: 15
34436186 AAGTTTTATT
34436196 TTTATTTTTATTTA-
1 TTTATTTTTATTTAG
*
34436210 TTTATTTTTACTTAG
1 TTTATTTTTATTTAG
34436225 TTTAATTTTTAT
1 TTT-ATTTTTAT
34436237 GTAAATATTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
14 13 0.57
15 3 0.13
16 7 0.30
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.73
Consensus pattern (15 bp):
TTTATTTTTATTTAG
Found at i:34451757 original size:20 final size:20
Alignment explanation
Indices: 34451732--34451771 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
34451722 AGTTAATTCG
34451732 TTATTGATCTTGACATTTAA
1 TTATTGATCTTGACATTTAA
34451752 TTATTGATCTTGACATTTAA
1 TTATTGATCTTGACATTTAA
34451772 GATTCAGATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (20 bp):
TTATTGATCTTGACATTTAA
Found at i:34451958 original size:54 final size:54
Alignment explanation
Indices: 34451876--34451986 Score: 213
Period size: 54 Copynumber: 2.1 Consensus size: 54
34451866 CATTTTGGAT
34451876 ATAATTTTAGCTATTTCAAATCAATTATATTTTTTATAACTTAATTAGGAAACC
1 ATAATTTTAGCTATTTCAAATCAATTATATTTTTTATAACTTAATTAGGAAACC
*
34451930 ATAATTTTAGCTATTTCAAATCAATTATATTTTTTATAACTTAATTTGGAAACC
1 ATAATTTTAGCTATTTCAAATCAATTATATTTTTTATAACTTAATTAGGAAACC
34451984 ATA
1 ATA
34451987 TAAATAATAA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 56 1.00
ACGTcount: A:0.39, C:0.11, G:0.05, T:0.45
Consensus pattern (54 bp):
ATAATTTTAGCTATTTCAAATCAATTATATTTTTTATAACTTAATTAGGAAACC
Found at i:34463072 original size:6 final size:6
Alignment explanation
Indices: 34463061--34463093 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
34463051 TATAGTAGTA
34463061 TTTATT TTTATT TTTATT TTTATT TTTATT TTT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTT
34463094 TTGAAAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTATT
Found at i:34464425 original size:107 final size:108
Alignment explanation
Indices: 34464299--34464513 Score: 423
Period size: 107 Copynumber: 2.0 Consensus size: 108
34464289 AATGGTTTAG
34464299 CATCGATATTTTCAAGGTTTTATGAGTAACTTAAGAAGAAGAATGAGGATCCTAAAAATTAATTT
1 CATCGATATTTTCAAGGTTTTATGAGTAACTTAAGAAGAAGAATGAGGATCCTAAAAATTAATTT
34464364 TTGATTTTAAAATATTAAAATTTATTTTT-AAATTTTTAAAAT
66 TTGATTTTAAAATATTAAAATTTATTTTTAAAATTTTTAAAAT
34464406 CATCGATATTTTCAAGGTTTTATGAGTAACTTAAGAAGAAGAATGAGGATCCTAAAAATTAATTT
1 CATCGATATTTTCAAGGTTTTATGAGTAACTTAAGAAGAAGAATGAGGATCCTAAAAATTAATTT
34464471 TTGATTTTAAAATATTAAAATTTATTTTTAAAATTTTTAAAAT
66 TTGATTTTAAAATATTAAAATTTATTTTTAAAATTTTTAAAAT
34464514 ATTTTATATT
Statistics
Matches: 107, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
107 94 0.88
108 13 0.12
ACGTcount: A:0.41, C:0.06, G:0.11, T:0.42
Consensus pattern (108 bp):
CATCGATATTTTCAAGGTTTTATGAGTAACTTAAGAAGAAGAATGAGGATCCTAAAAATTAATTT
TTGATTTTAAAATATTAAAATTTATTTTTAAAATTTTTAAAAT
Found at i:34467663 original size:80 final size:82
Alignment explanation
Indices: 34467572--34467730 Score: 200
Period size: 82 Copynumber: 2.0 Consensus size: 82
34467562 GCATAAGCAA
** * * *
34467572 TTTTCAAAATATAACATA-AGCGGTCGCTCTCATAT-G-TGATCTTTAGAATTGCCTTTCGCC-A
1 TTTTCAAAATATAACATAGA-CGACCGCTCTCAGATAGCTGATCCTTAGAATTGCCTTTCACCAA
34467633 AACATTTAAACATAGGAGT
65 AACA-TTAAACATAGGAGT
* * *
34467652 TTTTTAAAATATAACATAGATGACCGTTCTCAGATAGCTGATCCTTAGAATTGCCTTTCACCAAA
1 TTTTCAAAATATAACATAGACGACCGCTCTCAGATAGCTGATCCTTAGAATTGCCTTTCACCAAA
34467717 ACATTAAACATAGG
66 ACATTAAACATAGG
34467731 TGATCTTCAA
Statistics
Matches: 67, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
80 27 0.40
81 2 0.03
82 33 0.49
83 5 0.07
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.33
Consensus pattern (82 bp):
TTTTCAAAATATAACATAGACGACCGCTCTCAGATAGCTGATCCTTAGAATTGCCTTTCACCAAA
ACATTAAACATAGGAGT
Found at i:34471418 original size:244 final size:244
Alignment explanation
Indices: 34470989--34471476 Score: 949
Period size: 244 Copynumber: 2.0 Consensus size: 244
34470979 GTGAAATAGG
*
34470989 AGAATTTACTCTGGAAGAAAGTAGAACTACAAGCTAGAATTTTTAAAAATTATATATAGACAAGA
1 AGAATTTACTCTGGAAGAAAGTAGAACTACAAGCAAGAATTTTTAAAAATTATATATAGACAAGA
34471054 GGGTAATCCAGGTTCTGTTCTTTCAAGCTAAGATTTGAGGTTCATTTGATTTTAAATAAAATAGT
66 GGGTAATCCAGGTTCTGTTCTTTCAAGCTAAGATTTGAGGTTCATTTGATTTTAAATAAAATAGT
34471119 AATCAATGATATCATGGTAAACAAATACTTCCATGACAATTTGCTTTGGCATGGAATTGAATAGA
131 AATCAATGATATCATGGTAAACAAATACTTCCATGACAATTTGCTTTGGCATGGAATTGAATAGA
* *
34471184 TTAACATGCTGGATGCTGGGGTCCTTGCAGAGAGATGATTGTTCTAGCT
196 TTAACATGCTGGATGCTGGGGTCCATGCAAAGAGATGATTGTTCTAGCT
34471233 AGAATTTACTCTGGAAGAAAGTAGAACTACAAGCAAGAATTTTTAAAAATTATATATAGACAAGA
1 AGAATTTACTCTGGAAGAAAGTAGAACTACAAGCAAGAATTTTTAAAAATTATATATAGACAAGA
34471298 GGGTAATCCAGGTTCTGTTCTTTCAAGCTAAGATTTGAGGTTCATTTGATTTTAAATAAAATAGT
66 GGGTAATCCAGGTTCTGTTCTTTCAAGCTAAGATTTGAGGTTCATTTGATTTTAAATAAAATAGT
34471363 AATCAATGATATCATGGTAAACAAATACTTCCATGACAATTTGCTTTGGCATGGAATTGAATAGA
131 AATCAATGATATCATGGTAAACAAATACTTCCATGACAATTTGCTTTGGCATGGAATTGAATAGA
34471428 TTAACATGCTGGATGCTGGGGTCCATGCAAAGAGATGATTGTTCTAGCT
196 TTAACATGCTGGATGCTGGGGTCCATGCAAAGAGATGATTGTTCTAGCT
34471477 GAACCTTTAC
Statistics
Matches: 241, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
244 241 1.00
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.32
Consensus pattern (244 bp):
AGAATTTACTCTGGAAGAAAGTAGAACTACAAGCAAGAATTTTTAAAAATTATATATAGACAAGA
GGGTAATCCAGGTTCTGTTCTTTCAAGCTAAGATTTGAGGTTCATTTGATTTTAAATAAAATAGT
AATCAATGATATCATGGTAAACAAATACTTCCATGACAATTTGCTTTGGCATGGAATTGAATAGA
TTAACATGCTGGATGCTGGGGTCCATGCAAAGAGATGATTGTTCTAGCT
Found at i:34476669 original size:131 final size:133
Alignment explanation
Indices: 34476435--34476705 Score: 510
Period size: 131 Copynumber: 2.1 Consensus size: 133
34476425 AACTACCCCA
34476435 TGAATCAATACAAGCCAATCTTAAACCAAAATCAAACAAGTTTTATCGGGTCAAAGCAAGTCAAG
1 TGAATCAATACAAGCCAATCTTAAACCAAAATCAAACAAGTTTTATCGGGTCAAAGCAAGTCAAG
*
34476500 AATGAAGGCTGAAGCTTTTAAACAGCAGATTATGGAAAACATTACCAAATCAAACG-ATGGATTT
66 AATGAAGGCTGAAGCTTTTAAACAGCAGACTATGGAAAACATTACCAAATCAAACGCATGGATTT
34476564 T-C
131 TAC
34476566 TGAATCAATACAAGCCAATCTTAAACCAAAATCAAACAAGTTTTATCGGGTCAAAGCAAGTCAAG
1 TGAATCAATACAAGCCAATCTTAAACCAAAATCAAACAAGTTTTATCGGGTCAAAGCAAGTCAAG
34476631 AATGAAGGCTGAAGCTTTTAAACAGCAGACTATGGAAAACATTACCAAATCAAACGCATGGATTT
66 AATGAAGGCTGAAGCTTTTAAACAGCAGACTATGGAAAACATTACCAAATCAAACGCATGGATTT
34476696 TAC
131 TAC
*
34476699 TAAATCA
1 TGAATCA
34476706 GTCTTGAACG
Statistics
Matches: 136, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
131 120 0.88
132 9 0.07
133 7 0.05
ACGTcount: A:0.43, C:0.18, G:0.15, T:0.23
Consensus pattern (133 bp):
TGAATCAATACAAGCCAATCTTAAACCAAAATCAAACAAGTTTTATCGGGTCAAAGCAAGTCAAG
AATGAAGGCTGAAGCTTTTAAACAGCAGACTATGGAAAACATTACCAAATCAAACGCATGGATTT
TAC
Found at i:34478094 original size:403 final size:404
Alignment explanation
Indices: 34477586--34478395 Score: 1613
Period size: 403 Copynumber: 2.0 Consensus size: 404
34477576 TTTTTGCAGC
34477586 TAACAACGATCAAGGAGAGGAAAAATAAAGAAAACTAAAAAAGAAAAATTGGGAGATAATTTAAT
1 TAACAACGATCAAGGAGAGGAAAAATAAAGAAAACTAAAAAAGAAAAATTGGGAGATAATTTAAT
34477651 TGAAACAAAGAAAGCAATCAAACAAGAGTTAGGTGAGAAAGGGGAGAATTCAGTATAAAACAAGA
66 TGAAACAAAGAAAGCAATCAAACAAGAGTTAGGTGAGAAAGGGGAGAATTCAGTATAAAACAAGA
34477716 CGTTTTGTTCATTTTAGTTGCAATCACAATAACAATAAATAAACAAATAAATAAAAATTATTCCT
131 CGTTTTGTTCATTTTAGTTGCAATCACAATAACAATAAATAAACAAATAAATAAAAATTATTCCT
34477781 GAAGAGTAGAAAACGGCAACGTTTCGAGCACACGCCTTTGCAAGAAAGGGGAGTGGGTCAACCTT
196 GAAGAGTAGAAAACGGCAACGTTTCGAGCACACGCCTTTGCAAGAAAGGGGAGTGGGTCAACCTT
34477846 TGCGTGTGCCGGCCATAATTGAAGTGTTTGAGTCGAAATTAATTTATGAATTATTATTAATTCAA
261 TGCGTGTGCCGGCCATAATTGAAGTGTTTGAGTCGAAATTAATTTATGAATTATTATTAATTCAA
34477911 TATAAATAATAATGTAAAAGAAAAAAAAAGGGAAAAATGACTTTTTTTTATAAATATAATATTAA
326 TATAAATAATAATGTAAAAGAAAAAAAAAGGGAAAAATGACTTTTTTTTATAAATATAATATTAA
34477976 AAAA-GTTTAGTTA
391 AAAATGTTTAGTTA
34477989 TAACAACGATCAAGGAGAGGAAAAATAAAGAAAACTAAAAAAGAAAAATTGGGAGATAATTTAAT
1 TAACAACGATCAAGGAGAGGAAAAATAAAGAAAACTAAAAAAGAAAAATTGGGAGATAATTTAAT
34478054 TGAAACAAAGAAAGCAATCAAACAAGAGTTAGGTGAGAAAGGGGAGAATTCAGTATAAAACAAGA
66 TGAAACAAAGAAAGCAATCAAACAAGAGTTAGGTGAGAAAGGGGAGAATTCAGTATAAAACAAGA
34478119 CGTTTTGTTCATTTTAGTTGCAATCACAATAACAATAAATAAACAAATAAATAAAAATTATTCCT
131 CGTTTTGTTCATTTTAGTTGCAATCACAATAACAATAAATAAACAAATAAATAAAAATTATTCCT
34478184 GAAGAGTAGAAAACGGCAACGTTTCGAGCACACGCCTTTGCAAGAAAGGGGAGTGGGTCAACCTT
196 GAAGAGTAGAAAACGGCAACGTTTCGAGCACACGCCTTTGCAAGAAAGGGGAGTGGGTCAACCTT
34478249 TGCGTGTGCCGGCCATAATTGAAGTGTTTGAGTCGAAATTAATTTATGAATTATTATTAATTCAA
261 TGCGTGTGCCGGCCATAATTGAAGTGTTTGAGTCGAAATTAATTTATGAATTATTATTAATTCAA
34478314 TATAAATAATAATGTAAAAGAAAAAAAAAGGGAAAAATGACTTTTTTTTATAAATATAATATTAA
326 TATAAATAATAATGTAAAAGAAAAAAAAAGGGAAAAATGACTTTTTTTTATAAATATAATATTAA
34478379 AAAATGTTTAGTTA
391 AAAATGTTTAGTTA
34478393 TAA
1 TAA
34478396 AAAGAGGGTA
Statistics
Matches: 406, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
403 394 0.97
404 12 0.03
ACGTcount: A:0.46, C:0.10, G:0.18, T:0.26
Consensus pattern (404 bp):
TAACAACGATCAAGGAGAGGAAAAATAAAGAAAACTAAAAAAGAAAAATTGGGAGATAATTTAAT
TGAAACAAAGAAAGCAATCAAACAAGAGTTAGGTGAGAAAGGGGAGAATTCAGTATAAAACAAGA
CGTTTTGTTCATTTTAGTTGCAATCACAATAACAATAAATAAACAAATAAATAAAAATTATTCCT
GAAGAGTAGAAAACGGCAACGTTTCGAGCACACGCCTTTGCAAGAAAGGGGAGTGGGTCAACCTT
TGCGTGTGCCGGCCATAATTGAAGTGTTTGAGTCGAAATTAATTTATGAATTATTATTAATTCAA
TATAAATAATAATGTAAAAGAAAAAAAAAGGGAAAAATGACTTTTTTTTATAAATATAATATTAA
AAAATGTTTAGTTA
Found at i:34484795 original size:26 final size:26
Alignment explanation
Indices: 34484766--34484818 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
34484756 TGATAAATAG
34484766 TCCAATTAAGACTAAAATGAGTTCAT
1 TCCAATTAAGACTAAAATGAGTTCAT
34484792 TCCAATTAAGACTAAAATGAGTTCAT
1 TCCAATTAAGACTAAAATGAGTTCAT
34484818 T
1 T
34484819 TAGATGGAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.42, C:0.15, G:0.11, T:0.32
Consensus pattern (26 bp):
TCCAATTAAGACTAAAATGAGTTCAT
Found at i:34488823 original size:21 final size:21
Alignment explanation
Indices: 34488767--34488830 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 21
34488757 GCAATAATCA
34488767 AATTGCTGCTCCTGGTCAAAAT
1 AATT-CTGCTCCTGGTCAAAAT
* * *
34488789 TATTTTG-TGGCTGGTCAAAAT
1 AATTCTGCT-CCTGGTCAAAAT
*
34488810 AATTCTGCTTCTGGTCAAAAT
1 AATTCTGCTCCTGGTCAAAAT
34488831 GTGTGTGCTG
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
20 1 0.03
21 29 0.85
22 4 0.12
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.38
Consensus pattern (21 bp):
AATTCTGCTCCTGGTCAAAAT
Found at i:34489432 original size:33 final size:33
Alignment explanation
Indices: 34489390--34489454 Score: 130
Period size: 33 Copynumber: 2.0 Consensus size: 33
34489380 ACGGGTGATG
34489390 GTACGCCTGCTATGATATCATCTGTTGGTCAAT
1 GTACGCCTGCTATGATATCATCTGTTGGTCAAT
34489423 GTACGCCTGCTATGATATCATCTGTTGGTCAA
1 GTACGCCTGCTATGATATCATCTGTTGGTCAA
34489455 GGTGTGTTGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.35
Consensus pattern (33 bp):
GTACGCCTGCTATGATATCATCTGTTGGTCAAT
Found at i:34492413 original size:7 final size:7
Alignment explanation
Indices: 34492390--34492486 Score: 83
Period size: 7 Copynumber: 14.0 Consensus size: 7
34492380 AATCAAAGTC
*
34492390 TAAATTT
1 TAAATCT
*
34492397 TAAA-CC
1 TAAATCT
*
34492403 TAAATAT
1 TAAATCT
34492410 TAAATCT
1 TAAATCT
*
34492417 TAAA-CAA
1 TAAATC-T
34492424 TAAAT-T
1 TAAATCT
34492430 ATAAATCT
1 -TAAATCT
*
34492438 TAAATAT
1 TAAATCT
*
34492445 TAAATCG
1 TAAATCT
34492452 TAAATCT
1 TAAATCT
*
34492459 TAAATAT
1 TAAATCT
*
34492466 TAAATTT
1 TAAATCT
34492473 TAAATCT
1 TAAATCT
34492480 TAAATCT
1 TAAATCT
34492487 ATTACTATTG
Statistics
Matches: 71, Mismatches: 14, Indels: 10
0.75 0.15 0.11
Matches are distributed among these distances:
6 5 0.07
7 65 0.92
8 1 0.01
ACGTcount: A:0.49, C:0.09, G:0.01, T:0.40
Consensus pattern (7 bp):
TAAATCT
Found at i:34492434 original size:21 final size:21
Alignment explanation
Indices: 34492410--34492484 Score: 105
Period size: 21 Copynumber: 3.6 Consensus size: 21
34492400 ACCTAAATAT
* *
34492410 TAAATCTTAAACAATAAATTA
1 TAAATCTTAAATATTAAATTA
**
34492431 TAAATCTTAAATATTAAATCG
1 TAAATCTTAAATATTAAATTA
*
34492452 TAAATCTTAAATATTAAATTT
1 TAAATCTTAAATATTAAATTA
34492473 TAAATCTTAAAT
1 TAAATCTTAAAT
34492485 CTATTACTAT
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 48 1.00
ACGTcount: A:0.51, C:0.08, G:0.01, T:0.40
Consensus pattern (21 bp):
TAAATCTTAAATATTAAATTA
Found at i:34494321 original size:9 final size:9
Alignment explanation
Indices: 34494307--34494336 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
34494297 GACTCAATCT
34494307 ATTATTTGA
1 ATTATTTGA
34494316 ATTATTTGA
1 ATTATTTGA
*
34494325 GTTATTTGA
1 ATTATTTGA
34494334 ATT
1 ATT
34494337 GTAAAATTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.30, C:0.00, G:0.13, T:0.57
Consensus pattern (9 bp):
ATTATTTGA
Found at i:34494562 original size:79 final size:80
Alignment explanation
Indices: 34494479--34494637 Score: 311
Period size: 79 Copynumber: 2.0 Consensus size: 80
34494469 AATTGATTTA
34494479 AGCAAAAATTATTCAAGTCTAACATTCTTTTCTTATTTGCATTCACTTGATATAATTCAAATTAA
1 AGCAAAAATTATTCAAGTCTAACATTCTTTTCTTATTTGCATTCACTTGATATAATTCAAATTAA
34494544 TA-TTTACAATAAAT
66 TATTTTACAATAAAT
34494558 AGCAAAAATTATTCAAGTCTAACATTCTTTTCTTATTTGCATTCACTTGATATAATTCAAATTAA
1 AGCAAAAATTATTCAAGTCTAACATTCTTTTCTTATTTGCATTCACTTGATATAATTCAAATTAA
34494623 TATTTTACAATAAAT
66 TATTTTACAATAAAT
34494638 TAATTATAAA
Statistics
Matches: 79, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
79 67 0.85
80 12 0.15
ACGTcount: A:0.39, C:0.14, G:0.05, T:0.42
Consensus pattern (80 bp):
AGCAAAAATTATTCAAGTCTAACATTCTTTTCTTATTTGCATTCACTTGATATAATTCAAATTAA
TATTTTACAATAAAT
Found at i:34498666 original size:29 final size:29
Alignment explanation
Indices: 34498612--34498668 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
34498602 CATGTATAAT
* **
34498612 TAATAAAAATTTAATAAATTTTAAAAAAC
1 TAATAAAAATTCAATAAATTAAAAAAAAC
34498641 TAATAAAAATTCAATAAATTAAAAAAAA
1 TAATAAAAATTCAATAAATTAAAAAAAA
34498669 AATTAGAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.30
Consensus pattern (29 bp):
TAATAAAAATTCAATAAATTAAAAAAAAC
Found at i:34502167 original size:28 final size:27
Alignment explanation
Indices: 34502106--34502179 Score: 105
Period size: 28 Copynumber: 2.7 Consensus size: 27
34502096 AAAAATAAAA
*
34502106 ATTTATCAAAATACTAT-AATTTTTTTT
1 ATTTACCAAAATA-TATAAATTTTTTTT
*
34502133 ATGTACCAAAATATATAAACTTTTTTTT
1 ATTTACCAAAATATATAAA-TTTTTTTT
34502161 ATTTACCAAAATATATAAA
1 ATTTACCAAAATATATAAA
34502180 AAAACCAAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
26 3 0.07
27 13 0.31
28 26 0.62
ACGTcount: A:0.43, C:0.09, G:0.01, T:0.46
Consensus pattern (27 bp):
ATTTACCAAAATATATAAATTTTTTTT
Found at i:34502199 original size:17 final size:18
Alignment explanation
Indices: 34502165--34502202 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
34502155 TTTTTTATTT
*
34502165 ACCAAAATATATAAAAAA
1 ACCAAAATATAAAAAAAA
34502183 ACCAAAAT-TAAAAAAAA
1 ACCAAAATATAAAAAAAA
34502200 ACC
1 ACC
34502203 TGACAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.71, C:0.16, G:0.00, T:0.13
Consensus pattern (18 bp):
ACCAAAATATAAAAAAAA
Found at i:34502283 original size:27 final size:27
Alignment explanation
Indices: 34502253--34502313 Score: 95
Period size: 27 Copynumber: 2.3 Consensus size: 27
34502243 CGCCAATGGT
34502253 ATTGGCGGCACCAAAGGTGCCAAAACC
1 ATTGGCGGCACCAAAGGTGCCAAAACC
* **
34502280 ATTGGCGGCACCAATGGTGCCAATGCC
1 ATTGGCGGCACCAAAGGTGCCAAAACC
34502307 ATTGGCG
1 ATTGGCG
34502314 NNNNNNNNNN
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.26, C:0.28, G:0.30, T:0.16
Consensus pattern (27 bp):
ATTGGCGGCACCAAAGGTGCCAAAACC
Found at i:34507651 original size:19 final size:18
Alignment explanation
Indices: 34507616--34507655 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
34507606 TTTTTTGTCA
**
34507616 GGTTTTTTTTTTAATTTT
1 GGTTTTTTTGATAATTTT
34507634 GGTTTTTTTGATATATTTT
1 GGTTTTTTTGATA-ATTTT
34507653 GGT
1 GGT
34507656 AAATAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.12, C:0.00, G:0.17, T:0.70
Consensus pattern (18 bp):
GGTTTTTTTGATAATTTT
Found at i:34507676 original size:28 final size:29
Alignment explanation
Indices: 34507644--34507715 Score: 94
Period size: 28 Copynumber: 2.6 Consensus size: 29
34507634 GGTTTTTTTG
*
34507644 ATATATTTTGGTAAATAAAAAAAAGTT-T
1 ATATATTTTGGTAAATAAAAAAAACTTGT
**
34507672 ATATATTTTAATAAATAAAAAAAACTTGT
1 ATATATTTTGGTAAATAAAAAAAACTTGT
*
34507701 A-GTATTTTGGTAAAT
1 ATATATTTTGGTAAAT
34507716 TTTTATTTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
28 35 0.95
29 2 0.05
ACGTcount: A:0.49, C:0.01, G:0.10, T:0.40
Consensus pattern (29 bp):
ATATATTTTGGTAAATAAAAAAAACTTGT
Found at i:34512576 original size:39 final size:40
Alignment explanation
Indices: 34512532--34512619 Score: 108
Period size: 39 Copynumber: 2.2 Consensus size: 40
34512522 NGAATTATGG
* * *
34512532 AATACTGGATATTGTTTTG-ATTACTG-AGTGAATTGTGAA
1 AATACTGAATATTGTTATGTA-TAATGCAGTGAATTGTGAA
*
34512571 AATACTGAATATTGTTATGTATAATGCATTGAATTGTGAA
1 AATACTGAATATTGTTATGTATAATGCAGTGAATTGTGAA
*
34512611 ATTACTGAA
1 AATACTGAA
34512620 GTAAAGAATT
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
39 21 0.50
40 21 0.50
ACGTcount: A:0.35, C:0.06, G:0.19, T:0.40
Consensus pattern (40 bp):
AATACTGAATATTGTTATGTATAATGCAGTGAATTGTGAA
Found at i:34512923 original size:45 final size:45
Alignment explanation
Indices: 34512820--34512926 Score: 153
Period size: 46 Copynumber: 2.4 Consensus size: 45
34512810 TATGTGCCGA
*
34512820 TTACTGTTACTGTTACCAATTCGGCACTTTGTGTGTCGAAATACTG
1 TTACTGTTACTGTTA-CAATTCAGCACTTTGTGTGTCGAAATACTG
* *
34512866 TTACCGTTACTGTTACAGATTCAGCACTTTGTGTGTTG-AATACTG
1 TTACTGTTACTGTTACA-ATTCAGCACTTTGTGTGTCGAAATACTG
*
34512911 TTACTTTTACTGTTAC
1 TTACTGTTACTGTTAC
34512927 TGTTACCGTT
Statistics
Matches: 55, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
45 23 0.42
46 32 0.58
ACGTcount: A:0.21, C:0.19, G:0.18, T:0.42
Consensus pattern (45 bp):
TTACTGTTACTGTTACAATTCAGCACTTTGTGTGTCGAAATACTG
Found at i:34512947 original size:7 final size:6
Alignment explanation
Indices: 34512906--34512954 Score: 62
Period size: 6 Copynumber: 7.8 Consensus size: 6
34512896 GTGTGTTGAA
* *
34512906 TACTGT TACTTT TACTGT TACTGT TACCGT TACTGAT TACTGTT TACTG
1 TACTGT TACTGT TACTGT TACTGT TACTGT TACTG-T TACTG-T TACTG
34512955 GTGTGTTTGG
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
6 25 0.68
7 12 0.32
ACGTcount: A:0.18, C:0.18, G:0.14, T:0.49
Consensus pattern (6 bp):
TACTGT
Found at i:34517990 original size:16 final size:17
Alignment explanation
Indices: 34517962--34517993 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
34517952 ATATAAAAAG
34517962 AAAATTGTAGTTAAATT
1 AAAATTGTAGTTAAATT
34517979 AAAATT-TAGTTAAAT
1 AAAATTGTAGTTAAAT
34517994 GTTTAGAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (17 bp):
AAAATTGTAGTTAAATT
Done.