Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr5
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: 43060996
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2186021 characters in sequence are not A, C, G, or T
File 55 of 128
Found at i:17473838 original size:35 final size:34
Alignment explanation
Indices: 17473778--17473876 Score: 108
Period size: 35 Copynumber: 2.8 Consensus size: 34
17473768 TATGATTTAG
*
17473778 GGTTTAAGGGATATGGGTTAGGGGTTTATGGATTAT
1 GGTTTAAGGG-T-TGGGTTAGGGGTTTATGGATTAA
* * *
17473814 GGTTTAAGGGTTGAGGTTAAGGGTTTAGGGGTTAA
1 GGTTTAAGGGTTG-GGTTAGGGGTTTATGGATTAA
* *
17473849 GGGTTAAGGGCTGGGGTTAGGGGTTTAT
1 GGTTTAAGGG-TTGGGTTAGGGGTTTAT
17473877 AGTTAATGTT
Statistics
Matches: 53, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
34 2 0.04
35 39 0.74
36 12 0.23
ACGTcount: A:0.20, C:0.01, G:0.43, T:0.35
Consensus pattern (34 bp):
GGTTTAAGGGTTGGGTTAGGGGTTTATGGATTAA
Found at i:17473851 original size:8 final size:7
Alignment explanation
Indices: 17473776--17473858 Score: 51
Period size: 7 Copynumber: 11.6 Consensus size: 7
17473766 TCTATGATTT
17473776 AGGGTTTA
1 AGGG-TTA
*
17473784 AGGGATA
1 AGGGTTA
*
17473791 TGGGTTA
1 AGGGTTA
*
17473798 GGGGTTTA
1 AGGG-TTA
* *
17473806 TGGATTA
1 AGGGTTA
* *
17473813 TGGTTTA
1 AGGGTTA
*
17473820 AGGGTTG
1 AGGGTTA
17473827 A-GGTTA
1 AGGGTTA
17473833 AGGGTTTA
1 AGGG-TTA
*
17473841 GGGGTTA
1 AGGGTTA
17473848 AGGGTTA
1 AGGGTTA
17473855 AGGG
1 AGGG
17473859 CTGGGGTTAG
Statistics
Matches: 59, Mismatches: 13, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
6 5 0.08
7 39 0.66
8 15 0.25
ACGTcount: A:0.23, C:0.00, G:0.43, T:0.34
Consensus pattern (7 bp):
AGGGTTA
Found at i:17473856 original size:22 final size:22
Alignment explanation
Indices: 17473773--17473858 Score: 70
Period size: 21 Copynumber: 4.0 Consensus size: 22
17473763 TGTTCTATGA
* * *
17473773 TTTAGGGTTTAAGGGATATGGG
1 TTTAGGGGTTAAGGGTTAAGGG
* * *
17473795 -TTAGGGGTTTATGGATT-ATGG
1 TTTAGGGG-TTAAGGGTTAAGGG
* *
17473816 TTTAAGGGTTGA-GGTTAAGGG
1 TTTAGGGGTTAAGGGTTAAGGG
17473837 TTTAGGGGTTAAGGGTTAAGGG
1 TTTAGGGGTTAAGGGTTAAGGG
17473859 CTGGGGTTAG
Statistics
Matches: 47, Mismatches: 13, Indels: 8
0.69 0.19 0.12
Matches are distributed among these distances:
20 3 0.06
21 23 0.49
22 21 0.45
ACGTcount: A:0.22, C:0.00, G:0.42, T:0.36
Consensus pattern (22 bp):
TTTAGGGGTTAAGGGTTAAGGG
Found at i:17474068 original size:57 final size:56
Alignment explanation
Indices: 17473997--17474126 Score: 138
Period size: 57 Copynumber: 2.3 Consensus size: 56
17473987 TGTTCTATGA
* * * * * *
17473997 TTTAAGGTTTAAGGGAT-ATGGGTTAGGGGTTTATGGATTATGGTTTAAGGGTT-GGTG
1 TTTAGGGTTTAAGGG-TGAAGGGTTAAGGGTTTAAGGATTAAGGGTT-AGGGTTAGG-G
*
17474054 TTTAGGGTTTAAGGGTGAAGGGTTAAGGGTTTAAGGGTTAAGGGTTAGGGTTAAGGG
1 TTTAGGGTTTAAGGGTGAAGGGTTAAGGGTTTAAGGATTAAGGGTTAGGGTT-AGGG
*
17474111 TTTAGGGTTTAGGGGT
1 TTTAGGGTTTAAGGGT
17474127 TTATAGTTAA
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
56 7 0.11
57 53 0.85
58 2 0.03
ACGTcount: A:0.22, C:0.00, G:0.42, T:0.37
Consensus pattern (56 bp):
TTTAGGGTTTAAGGGTGAAGGGTTAAGGGTTTAAGGATTAAGGGTTAGGGTTAGGG
Found at i:17474074 original size:7 final size:7
Alignment explanation
Indices: 17474057--17474124 Score: 84
Period size: 7 Copynumber: 9.6 Consensus size: 7
17474047 GTTGGTGTTT
17474057 AGGGTTTA
1 AGGG-TTA
*
17474065 AGGGTGA
1 AGGGTTA
17474072 AGGGTTA
1 AGGGTTA
17474079 AGGGTTTA
1 AGGG-TTA
17474087 AGGGTTA
1 AGGGTTA
17474094 AGGGTT-
1 AGGGTTA
17474100 AGGGTTA
1 AGGGTTA
*
17474107 AGGGTTT
1 AGGGTTA
*
17474114 AGGGTTT
1 AGGGTTA
17474121 AGGG
1 AGGG
17474125 GTTTATAGTT
Statistics
Matches: 55, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
6 6 0.11
7 38 0.69
8 11 0.20
ACGTcount: A:0.24, C:0.00, G:0.46, T:0.31
Consensus pattern (7 bp):
AGGGTTA
Found at i:17474074 original size:28 final size:27
Alignment explanation
Indices: 17473997--17474126 Score: 102
Period size: 28 Copynumber: 4.6 Consensus size: 27
17473987 TGTTCTATGA
* *
17473997 TTTAAGGTTTAAGGGATATGGGTTAGGGG
1 TTTAGGGTTTAAGGG-TAAGGGTTA-GGG
* * * *
17474026 TTTATGGATTATGGTTTAAGGGTT-GGTG
1 TTTAGGGTTTAAGG-GTAAGGGTTAGG-G
17474054 TTTAGGGTTTAAGGGTGAAGGGTTAAGGG
1 TTTAGGGTTTAAGGGT-AAGGGTT-AGGG
*
17474083 TTTAAGGG-TTAAGGGTTAGGGTTAAGGG
1 TTT-AGGGTTTAAGGGTAAGGGTT-AGGG
*
17474111 TTTAGGGTTTAGGGGT
1 TTTAGGGTTTAAGGGT
17474127 TTATAGTTAA
Statistics
Matches: 83, Mismatches: 11, Indels: 15
0.76 0.10 0.14
Matches are distributed among these distances:
27 7 0.08
28 40 0.48
29 30 0.36
30 6 0.07
ACGTcount: A:0.22, C:0.00, G:0.42, T:0.37
Consensus pattern (27 bp):
TTTAGGGTTTAAGGGTAAGGGTTAGGG
Found at i:17474085 original size:22 final size:22
Alignment explanation
Indices: 17474038--17474129 Score: 102
Period size: 22 Copynumber: 4.3 Consensus size: 22
17474028 TATGGATTAT
*
17474038 GGTTTAAGGGTT--GGTGTTTAG
1 GGTTTAAGGGTTAAGG-GTTAAG
*
17474059 GGTTTAAGGGTGAAGGGTTAAG
1 GGTTTAAGGGTTAAGGGTTAAG
17474081 GGTTTAAGGGTTAAGGGTT-AG
1 GGTTTAAGGGTTAAGGGTTAAG
* *
17474102 GG-TTAAGGGTTTAGGGTTTAGG
1 GGTTTAAGGGTTAAGGG-TTAAG
17474124 GGTTTA
1 GGTTTA
17474130 TAGTTAATGT
Statistics
Matches: 61, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
20 13 0.21
21 17 0.28
22 26 0.43
23 5 0.08
ACGTcount: A:0.21, C:0.00, G:0.43, T:0.36
Consensus pattern (22 bp):
GGTTTAAGGGTTAAGGGTTAAG
Found at i:17474102 original size:43 final size:43
Alignment explanation
Indices: 17474038--17474129 Score: 109
Period size: 43 Copynumber: 2.1 Consensus size: 43
17474028 TATGGATTAT
17474038 GGTTTAAGGGTTGGTGTTTAGGGTTTAAGGGTGAAGGG-TTAAG
1 GGTTTAAGGGTTGGTGTTTAGGG-TTAAGGGTGAAGGGTTTAAG
** *
17474081 GGTTTAAGGGTTAAGG-G-TTAGGGTTAAGGGTTTAGGGTTTAGG
1 GGTTTAAGGGTT--GGTGTTTAGGGTTAAGGGTGAAGGGTTTAAG
17474124 GGTTTA
1 GGTTTA
17474130 TAGTTAATGT
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
42 12 0.28
43 28 0.65
44 1 0.02
45 2 0.05
ACGTcount: A:0.21, C:0.00, G:0.43, T:0.36
Consensus pattern (43 bp):
GGTTTAAGGGTTGGTGTTTAGGGTTAAGGGTGAAGGGTTTAAG
Found at i:17477104 original size:9 final size:9
Alignment explanation
Indices: 17477090--17477137 Score: 62
Period size: 9 Copynumber: 5.3 Consensus size: 9
17477080 TAAAAATATA
17477090 ATAACCTAC
1 ATAACCTAC
17477099 ATAACCTAC
1 ATAACCTAC
*
17477108 ATATA-ATAC
1 ATA-ACCTAC
17477117 ATAACCTAC
1 ATAACCTAC
*
17477126 ATAACTTAC
1 ATAACCTAC
17477135 ATA
1 ATA
17477138 TAATACATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
8 1 0.03
9 32 0.94
10 1 0.03
ACGTcount: A:0.48, C:0.25, G:0.00, T:0.27
Consensus pattern (9 bp):
ATAACCTAC
Found at i:17477119 original size:18 final size:18
Alignment explanation
Indices: 17477096--17477157 Score: 74
Period size: 18 Copynumber: 3.4 Consensus size: 18
17477086 TATAATAACC
17477096 TACATAACCTACATATAA
1 TACATAACCTACATATAA
*
17477114 TACATAACCTACATA-ACT
1 TACATAACCTACATATA-A
*
17477132 TACATATA-ATACATATAA
1 TACATA-ACCTACATATAA
17477150 TACATAAC
1 TACATAAC
17477158 TTATTAATAA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
17 2 0.05
18 33 0.89
19 2 0.05
ACGTcount: A:0.50, C:0.21, G:0.00, T:0.29
Consensus pattern (18 bp):
TACATAACCTACATATAA
Found at i:17477123 original size:27 final size:27
Alignment explanation
Indices: 17477090--17477146 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
17477080 TAAAAATATA
17477090 ATAACCTACATAACCTACATATAATAC
1 ATAACCTACATAACCTACATATAATAC
*
17477117 ATAACCTACATAACTTACATATAATAC
1 ATAACCTACATAACCTACATATAATAC
17477144 ATA
1 ATA
17477147 TAATACATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.49, C:0.23, G:0.00, T:0.28
Consensus pattern (27 bp):
ATAACCTACATAACCTACATATAATAC
Found at i:17477167 original size:27 final size:27
Alignment explanation
Indices: 17477090--17477160 Score: 99
Period size: 27 Copynumber: 2.6 Consensus size: 27
17477080 TAAAAATATA
* *
17477090 ATAACCTACATAACCTACATATAATAC
1 ATAACATACATAACTTACATATAATAC
*
17477117 ATAACCTACATAACTTACATATAATAC
1 ATAACATACATAACTTACATATAATAC
17477144 ATATA-ATACATAACTTA
1 ATA-ACATACATAACTTA
17477161 TTAATAACCT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
27 40 0.98
28 1 0.02
ACGTcount: A:0.49, C:0.21, G:0.00, T:0.30
Consensus pattern (27 bp):
ATAACATACATAACTTACATATAATAC
Found at i:17477216 original size:39 final size:40
Alignment explanation
Indices: 17477173--17477248 Score: 136
Period size: 39 Copynumber: 1.9 Consensus size: 40
17477163 AATAACCTAC
*
17477173 ATAACTTACCGGGATGTATATTATATCTTAA-TTACACTT
1 ATAACTTACCGGGATATATATTATATCTTAACTTACACTT
17477212 ATAACTTACCGGGATATATATTATATCTTAACTTACA
1 ATAACTTACCGGGATATATATTATATCTTAACTTACA
17477249 TAACTTACAT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
39 30 0.86
40 5 0.14
ACGTcount: A:0.36, C:0.16, G:0.09, T:0.39
Consensus pattern (40 bp):
ATAACTTACCGGGATATATATTATATCTTAACTTACACTT
Found at i:17477432 original size:12 final size:12
Alignment explanation
Indices: 17477387--17477433 Score: 55
Period size: 12 Copynumber: 4.2 Consensus size: 12
17477377 CATAATGAAC
*
17477387 ATAACCTACATA
1 ATAACTTACATA
*
17477399 GTAACTTAC---
1 ATAACTTACATA
17477408 ATAACTTACATA
1 ATAACTTACATA
17477420 ATAACTTACATA
1 ATAACTTACATA
17477432 AT
1 AT
17477434 TTACATACAT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
9 8 0.28
12 21 0.72
ACGTcount: A:0.47, C:0.19, G:0.02, T:0.32
Consensus pattern (12 bp):
ATAACTTACATA
Found at i:17477437 original size:21 final size:21
Alignment explanation
Indices: 17477385--17477480 Score: 90
Period size: 21 Copynumber: 4.7 Consensus size: 21
17477375 TACATAATGA
* *
17477385 ACATAACCTACATAGTAACTT
1 ACATAACTTACATAATAACTT
17477406 ACATAACTTACATAATAACTT
1 ACATAACTTACATAATAACTT
* *
17477427 ACATAATTTACATACATAA-AT
1 ACATAACTTACATA-ATAACTT
* * **
17477448 A-TTAA-TTATATCTTAACTT
1 ACATAACTTACATAATAACTT
17477467 ACATAACTTACATA
1 ACATAACTTACATA
17477481 GCTTAATTAT
Statistics
Matches: 59, Mismatches: 12, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
18 3 0.05
19 7 0.12
20 6 0.10
21 39 0.66
22 4 0.07
ACGTcount: A:0.46, C:0.18, G:0.01, T:0.35
Consensus pattern (21 bp):
ACATAACTTACATAATAACTT
Found at i:17482181 original size:21 final size:21
Alignment explanation
Indices: 17482155--17482205 Score: 77
Period size: 21 Copynumber: 2.4 Consensus size: 21
17482145 CTACAACTTA
*
17482155 AAGCAGAGGC-GACAGCGAGGG
1 AAGCAGAGGCTG-CAGCGAGAG
17482176 AAGCAGAGGCTGCAGCGAGAG
1 AAGCAGAGGCTGCAGCGAGAG
17482197 AAGCAGAGG
1 AAGCAGAGG
17482206 TTCAAAAGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
21 27 0.96
22 1 0.04
ACGTcount: A:0.35, C:0.18, G:0.45, T:0.02
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCGAGAG
Found at i:17482558 original size:44 final size:42
Alignment explanation
Indices: 17482464--17482620 Score: 149
Period size: 44 Copynumber: 3.7 Consensus size: 42
17482454 GTCGCTAAAA
* * * * *
17482464 GCTAAAGAGCATGACC-ATAGCGGCGTTTGTGGAAAAAAACACC
1 GCTAAAGAACATTACCTTTAGCGGCGTTTGTGG--AAAAGCGCC
*
17482507 GTTAAAGAACATTA-CTTGTAGCGGCGTTTGTGGAAAAGGCGCC
1 GCTAAAGAACATTACCTT-TAGCGGCGTTTGTGGAAAA-GCGCC
* *
17482550 GCTAAAAGAACATTACCTTTAGCGGGGTTTCT-GAGAAAGCGCC
1 GCT-AAAGAACATTACCTTTAGCGGCGTTTGTGGA-AAAGCGCC
* *
17482593 GCTAAAGAACATGAGCTTTAGCGGCGTT
1 GCTAAAGAACATTACCTTTAGCGGCGTT
17482621 AAAGAACATG
Statistics
Matches: 96, Mismatches: 12, Indels: 13
0.79 0.10 0.11
Matches are distributed among these distances:
42 27 0.28
43 26 0.27
44 40 0.42
45 3 0.03
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.22
Consensus pattern (42 bp):
GCTAAAGAACATTACCTTTAGCGGCGTTTGTGGAAAAGCGCC
Found at i:17482615 original size:25 final size:25
Alignment explanation
Indices: 17482587--17482640 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
17482577 TTTCTGAGAA
*
17482587 AGCGCCGCTAAAGAACATGAGCTTT
1 AGCGCCGCTAAAGAACATGACCTTT
* *
17482612 AGCGGCGTTAAAGAACATGACCTTT
1 AGCGCCGCTAAAGAACATGACCTTT
17482637 AGCG
1 AGCG
17482641 GCGTTTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.31, C:0.22, G:0.26, T:0.20
Consensus pattern (25 bp):
AGCGCCGCTAAAGAACATGACCTTT
Found at i:17482641 original size:25 final size:25
Alignment explanation
Indices: 17482595--17482645 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
17482585 AAAGCGCCGC
*
17482595 TAAAGAACATGAGCTTTAGCGGCGT
1 TAAAGAACATGACCTTTAGCGGCGT
17482620 TAAAGAACATGACCTTTAGCGGCGT
1 TAAAGAACATGACCTTTAGCGGCGT
17482645 T
1 T
17482646 TTTTTTGAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.25
Consensus pattern (25 bp):
TAAAGAACATGACCTTTAGCGGCGT
Found at i:17482662 original size:67 final size:67
Alignment explanation
Indices: 17482554--17482687 Score: 198
Period size: 67 Copynumber: 2.0 Consensus size: 67
17482544 GGCGCCGCTA
* *
17482554 AAAGAACATTACCTTTAGCGGGGTTTCTGAGAAAGCGCCGCTAAAGAACATGAGCTTTAGCGGCG
1 AAAGAACATGACCTTTAGCGGGGTTTCTGAGAAAGCGCCGCTAAAGAACATGACCTTTAGCGGCG
17482619 TT
66 TT
* * **
17482621 AAAGAACATGACCTTTAGCGGCGTTTTTTTTG-AAGCGCCGCTAAAGAACATGACCTTTAGCGGC
1 AAAGAACATGACCTTTAGCGG-GGTTTCTGAGAAAGCGCCGCTAAAGAACATGACCTTTAGCGGC
17482685 GTT
65 GTT
17482688 TATTTCTATA
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
67 54 0.90
68 6 0.10
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.26
Consensus pattern (67 bp):
AAAGAACATGACCTTTAGCGGGGTTTCTGAGAAAGCGCCGCTAAAGAACATGACCTTTAGCGGCG
TT
Found at i:17487365 original size:4 final size:4
Alignment explanation
Indices: 17487356--17487381 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
17487346 ATTATCTAAC
17487356 GTAT GTAT GTAT GTAT GTAT GTAT GT
1 GTAT GTAT GTAT GTAT GTAT GTAT GT
17487382 GAAGCTATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.27, T:0.50
Consensus pattern (4 bp):
GTAT
Found at i:17491633 original size:37 final size:38
Alignment explanation
Indices: 17491583--17491662 Score: 103
Period size: 37 Copynumber: 2.1 Consensus size: 38
17491573 ATGTTACTCT
* *
17491583 TTCAAATTTCACTTTTTCACTTTC-AA-TCACA-ATTCAA
1 TTCAAAATTCACTTTTCCA-TTTCTAAGTCA-ATATTCAA
17491620 TTCAAAATTCACTTTTCCATTTCTAAGTCAATATTCAA
1 TTCAAAATTCACTTTTCCATTTCTAAGTCAATATTCAA
17491658 TTCAA
1 TTCAA
17491663 TTCCACAACT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
36 4 0.11
37 20 0.53
38 14 0.37
ACGTcount: A:0.34, C:0.23, G:0.01, T:0.42
Consensus pattern (38 bp):
TTCAAAATTCACTTTTCCATTTCTAAGTCAATATTCAA
Found at i:17491886 original size:51 final size:51
Alignment explanation
Indices: 17491783--17491978 Score: 175
Period size: 51 Copynumber: 3.9 Consensus size: 51
17491773 CAATGATGTT
* * * *
17491783 CGGTTCACATAGTAGCCTGCACATAGTGCTACACATGTGACCATTACCATC
1 CGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCATAACCATC
* * * *
17491834 CGATTA-ACTTAGTAGCCTGCACATAGTACTACACACGTGATCGA-AACTATC
1 CG-GTACACATAGTAGCCTGCACATAGTACTACACACGTGA-CCATAACCATC
* * * *** *
17491885 CGGTACGCATAGTAGCCTACACAGAGTACTACACATACGACC-T-ATCATTC
1 CGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCATAACCA-TC
** *
17491935 CGGTACATGTAGTAGCCTGCACATAGTACTACACACTTGACCAT
1 CGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCAT
17491979 CACTTTCACT
Statistics
Matches: 112, Mismatches: 27, Indels: 12
0.74 0.18 0.08
Matches are distributed among these distances:
49 2 0.02
50 39 0.35
51 68 0.61
52 3 0.03
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (51 bp):
CGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCATAACCATC
Found at i:17495335 original size:42 final size:42
Alignment explanation
Indices: 17495251--17495336 Score: 118
Period size: 42 Copynumber: 2.0 Consensus size: 42
17495241 CCTAGCACAC
* *
17495251 GGCCTGGCACACGGGCGTGTGTGGCAACTCAAAGAGTTACAT
1 GGCCTGGCACACGGGCGTGTGGGGCAACTCAAAGAGTAACAT
* * **
17495293 GGCCTGGCACATGGGCGTGTGGGGCATCTCAGTGAGTAACAT
1 GGCCTGGCACACGGGCGTGTGGGGCAACTCAAAGAGTAACAT
17495335 GG
1 GG
17495337 GTGACGATAC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.21, C:0.22, G:0.37, T:0.20
Consensus pattern (42 bp):
GGCCTGGCACACGGGCGTGTGGGGCAACTCAAAGAGTAACAT
Found at i:17502686 original size:18 final size:18
Alignment explanation
Indices: 17502660--17502701 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
17502650 TATATATATG
*
17502660 TATACATAC-TTATATATT
1 TATATATACATTATA-ATT
*
17502678 TTTATATACATTATAATT
1 TATATATACATTATAATT
17502696 TATATA
1 TATATA
17502702 CATAACGATA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.52
Consensus pattern (18 bp):
TATATATACATTATAATT
Found at i:17502894 original size:18 final size:18
Alignment explanation
Indices: 17502849--17502900 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
17502839 TTTATATTTT
* *
17502849 TTTACAATTTATATATAC
1 TTTATAATTTTTATATAC
*
17502867 -ATATATATTTTTATATAC
1 TTTATA-ATTTTTATATAC
*
17502885 TTTATAATTTTCATAT
1 TTTATAATTTTTATAT
17502901 GCATACATAT
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
17 3 0.11
18 20 0.74
19 4 0.15
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTATAATTTTTATATAC
Found at i:17502894 original size:36 final size:35
Alignment explanation
Indices: 17502793--17502913 Score: 118
Period size: 36 Copynumber: 3.3 Consensus size: 35
17502783 ATACCCTTTT
* * *
17502793 TACATATTTATTTTTTTATTTTTATAATTCATATA
1 TACATATATATTTTTATATTTTTATAATTTATATA
* *
17502828 CACATATAT-TTTTTATATTTTTTTACAATTTATATA
1 TACATATATATTTTTATA--TTTTTATAATTTATATA
*
17502864 TACATATATATTTTTATATACTTTATAATTTTCATATGCA
1 TACATATATATTTTTATAT-TTTTATAA-TTT-ATAT--A
17502904 TACATATATA
1 TACATATATA
17502914 CATATTTATA
Statistics
Matches: 70, Mismatches: 8, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
34 7 0.10
35 8 0.11
36 29 0.41
37 11 0.16
38 4 0.06
40 11 0.16
ACGTcount: A:0.35, C:0.08, G:0.01, T:0.56
Consensus pattern (35 bp):
TACATATATATTTTTATATTTTTATAATTTATATA
Found at i:17502959 original size:23 final size:23
Alignment explanation
Indices: 17502932--17502976 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
17502922 TACTCTTGTA
*
17502932 TTTTTATAATTTTGTTCACGTTCC
1 TTTTAATAATTTT-TTCACGTTCC
*
17502956 TTTTAATTATTTTTTCACGTT
1 TTTTAATAATTTTTTCACGTT
17502977 TTCATCATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.18, C:0.13, G:0.07, T:0.62
Consensus pattern (23 bp):
TTTTAATAATTTTTTCACGTTCC
Found at i:17505358 original size:5 final size:5
Alignment explanation
Indices: 17505348--17505387 Score: 64
Period size: 5 Copynumber: 8.2 Consensus size: 5
17505338 TTCTTCGTGT
*
17505348 TTTTA TTTTA TTTTA -TTTA TTTTA TCTTA TTTTA TTTTA T
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA T
17505388 ATATATTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
4 4 0.12
5 28 0.88
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:17505372 original size:19 final size:19
Alignment explanation
Indices: 17505348--17505384 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
17505338 TTCTTCGTGT
*
17505348 TTTTATTTTATTTTATTTA
1 TTTTATCTTATTTTATTTA
17505367 TTTTATCTTATTTTATTT
1 TTTTATCTTATTTTATTT
17505385 TATATATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTTATCTTATTTTATTTA
Found at i:17505948 original size:18 final size:18
Alignment explanation
Indices: 17505911--17506065 Score: 129
Period size: 18 Copynumber: 8.8 Consensus size: 18
17505901 AATTTTTAAG
17505911 AATTTTCGTGTTTT-AAA
1 AATTTTCGTGTTTTCAAA
*
17505928 AATTTCCGTGTTTTCAAA
1 AATTTTCGTGTTTTCAAA
* * *
17505946 AATTTTCGTATTTTTAAG
1 AATTTTCGTGTTTTCAAA
* *
17505964 AATTTTCGTG-TCTCTAA
1 AATTTTCGTGTTTTCAAA
*
17505981 AATTCTCGTGTTTT-AAA
1 AATTTTCGTGTTTTCAAA
17505998 AATTTTTCGTGTTTTCAAA
1 AA-TTTTCGTGTTTTCAAA
** ***
17506017 AAAATAAATG-TTTCAAA
1 AATTTTCGTGTTTTCAAA
* *
17506034 AATCTTCGTGTTTTTAAA
1 AATTTTCGTGTTTTCAAA
* *
17506052 AATTCTCGTATTTT
1 AATTTTCGTGTTTT
17506066 GATCTGATCG
Statistics
Matches: 105, Mismatches: 28, Indels: 9
0.74 0.20 0.06
Matches are distributed among these distances:
17 41 0.39
18 59 0.56
19 5 0.05
ACGTcount: A:0.30, C:0.11, G:0.10, T:0.48
Consensus pattern (18 bp):
AATTTTCGTGTTTTCAAA
Found at i:17505950 original size:35 final size:35
Alignment explanation
Indices: 17505911--17506065 Score: 141
Period size: 35 Copynumber: 4.4 Consensus size: 35
17505901 AATTTTTAAG
*
17505911 AATTTTCGTGTTTTAAAAATTTCCGTGTTTTCAAA
1 AATTTTCGTGTTTTAAAAATTTTCGTGTTTTCAAA
* * * *
17505946 AATTTTCGTATTTTTAAGAATTTTCGTG-TCTCTAA
1 AATTTTCGT-GTTTTAAAAATTTTCGTGTTTTCAAA
*
17505981 AATTCTCGTGTTTTAAAAATTTTTCGTGTTTTCAAA
1 AATTTTCGTGTTTTAAAAA-TTTTCGTGTTTTCAAA
** *** * * *
17506017 AAAATAAATGTTTCAAAAATCTTCGTGTTTTTAAA
1 AATTTTCGTGTTTTAAAAATTTTCGTGTTTTCAAA
* *
17506052 AATTCTCGTATTTT
1 AATTTTCGTGTTTT
17506066 GATCTGATCG
Statistics
Matches: 90, Mismatches: 27, Indels: 6
0.73 0.22 0.05
Matches are distributed among these distances:
34 8 0.09
35 50 0.56
36 32 0.36
ACGTcount: A:0.30, C:0.11, G:0.10, T:0.48
Consensus pattern (35 bp):
AATTTTCGTGTTTTAAAAATTTTCGTGTTTTCAAA
Found at i:17505964 original size:53 final size:52
Alignment explanation
Indices: 17505902--17506065 Score: 154
Period size: 53 Copynumber: 3.1 Consensus size: 52
17505892 AAAGAAAAGA
17505902 ATTTTTAAGAATTTTCGTGTTTTAAAAATTTCCGTGTTTTCAAAAATTTTCGT
1 ATTTTTAAGAATTTTCGTGTTTTAAAAATTTCCGTGTTTT-AAAAATTTTCGT
*
17505955 ATTTTTAAGAATTTTCGTGTCTCT-AAAA-TTCTCGTGTTTTAAAAATTTTTCGT
1 ATTTTTAAGAATTTTCGTGT-TTTAAAAATTTC-CGTGTTTTAAAAA-TTTTCGT
* * * ** *** * *
17506008 GTTTTCAAAAAAATAAATGTTTCAAAAATCTT-CGTGTTTTTAAAAATTCTCGT
1 ATTTTTAAGAATTTTCGTGTTTTAAAAAT-TTCCGTG-TTTTAAAAATTTTCGT
17506061 ATTTT
1 ATTTT
17506066 GATCTGATCG
Statistics
Matches: 91, Mismatches: 13, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
52 9 0.10
53 69 0.76
54 11 0.12
55 2 0.02
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.49
Consensus pattern (52 bp):
ATTTTTAAGAATTTTCGTGTTTTAAAAATTTCCGTGTTTTAAAAATTTTCGT
Found at i:17507666 original size:4 final size:4
Alignment explanation
Indices: 17507657--17507681 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
17507647 CATCCATTGG
17507657 TCAT TCAT TCAT TCAT TCAT TCAT T
1 TCAT TCAT TCAT TCAT TCAT TCAT T
17507682 TGATGTACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (4 bp):
TCAT
Found at i:17511359 original size:15 final size:14
Alignment explanation
Indices: 17511339--17511379 Score: 64
Period size: 15 Copynumber: 2.9 Consensus size: 14
17511329 TATTATGCCT
17511339 AAAAAAACAAAAAC
1 AAAAAAACAAAAAC
*
17511353 AAAAAAAAACAAAAC
1 AAAAAAACA-AAAAC
17511368 AAAAAAACAAAA
1 AAAAAAACAAAA
17511380 GAAAAAGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 11 0.46
15 13 0.54
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (14 bp):
AAAAAAACAAAAAC
Found at i:17511384 original size:13 final size:13
Alignment explanation
Indices: 17511339--17511385 Score: 58
Period size: 13 Copynumber: 3.4 Consensus size: 13
17511329 TATTATGCCT
17511339 AAAAAAACAAAAAC
1 AAAAAAAC-AAAAC
17511353 AAAAAAAAACAAAAC
1 --AAAAAAACAAAAC
*
17511368 AAAAAAACAAAAG
1 AAAAAAACAAAAC
17511381 AAAAA
1 AAAAA
17511386 GAAAAAATCA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
13 17 0.57
15 5 0.17
16 8 0.27
ACGTcount: A:0.87, C:0.11, G:0.02, T:0.00
Consensus pattern (13 bp):
AAAAAAACAAAAC
Found at i:17512839 original size:69 final size:69
Alignment explanation
Indices: 17511610--17512820 Score: 2404
Period size: 69 Copynumber: 17.6 Consensus size: 69
17511600 AGAAACGTGG
17511610 GAGGTGAGTTGAGCCTCGGGTCACGCTGAAGTATTTTTAATTTATGTTTTTTTTTCAACTCATAA
1 GAGGTGAGTTGAGCCTCGGGTCACGCTGAAGTATTTTTAATTTATGTTTTTTTTTCAACTCATAA
17511675 TACA
66 TACA
17511679 GAGGTGAGTTGAGCCTCGGGTCACGCTGAAGTATTTTTAATTTATGTTTTTTTTTCAACTCATAA
1 GAGGTGAGTTGAGCCTCGGGTCACGCTGAAGTATTTTTAATTTATGTTTTTTTTTCAACTCATAA
17511744 TACA
66 TACA
17511748 GAGGTGAGTTGAGCCTCGGGTCACGCTGAAGTATTTTTAATTTATGTTTTTTTTTCAACTCATAA
1 GAGGTGAGTTGAGCCTCGGGTCACGCTGAAGTATTTTTAATTTATGTTTTTTTTTCAACTCATAA
17511813 TACA
66 TACA
17511817 GAGGTGAGTTGAGCCTCGGGTCACGCTGAAGTATTTTTAATTTATGTTTTTTTTTCAACTCATAA
1 GAGGTGAGTTGAGCCTCGGGTCACGCTGAAGTATTTTTAATTTATGTTTTTTTTTCAACTCATAA
17511882 TACA
66 TACA
17511886 GAGGTGAGTTGAGCCTCGGGTCACGCTGAAGTATTTTTAATTTATGTTTTTTTTTCAACTCATAA
1 GAGGTGAGTTGAGCCTCGGGTCACGCTGAAGTATTTTTAATTTATGTTTTTTTTTCAACTCATAA
17511951 TACA
66 TACA
17511955 GAGGTGAGTTGAGCCTCGGGTCACGCTGAAGTATTTTTAATTTATGTTTTTTTTTCAACTCATAA
1 GAGGTGAGTTGAGCCTCGGGTCACGCTGAAGTATTTTTAATTTATGTTTTTTTTTCAACTCATAA
17512020 TACA
66 TACA
17512024 GAGGTGAGTTGAGCCTCGGGTCACGCTGAAGTATTTTTAATTTATGTTTTTTTTTCAACTCATAA
1 GAGGTGAGTTGAGCCTCGGGTCACGCTGAAGTATTTTTAATTTATGTTTTTTTTTCAACTCATAA
17512089 TACA
66 TACA
17512093 GAGGTGAGTTGAGCCTCGGGTCACGCTGAAGTATTTTTAATTTATGTTTTTTTTTCAACTCATAA
1 GAGGTGAGTTGAGCCTCGGGTCACGCTGAAGTATTTTTAATTTATGTTTTTTTTTCAACTCATAA
17512158 TACA
66 TACA
17512162 GAGGTGAGTTGAGCCTCGGGTCACGCTGAAGTATTTTTAATTTATGTTTTTTTTTCAACTCATAA
1 GAGGTGAGTTGAGCCTCGGGTCACGCTGAAGTATTTTTAATTTATGTTTTTTTTTCAACTCATAA
17512227 TACA
66 TACA
17512231 GAGGTGAGTTGAGCCTCGGGTCACGCTGAAGTATTTTTAATTTATGTTTTTTTTTCAACTCATAA
1 GAGGTGAGTTGAGCCTCGGGTCACGCTGAAGTATTTTTAATTTATGTTTTTTTTTCAACTCATAA
17512296 TACA
66 TACA
17512300 GAGGTGAGTTGAGCCTCGGGTCACGCTGAAGTATTTTTAATTTATGTTTTTTTTTCAACTCATAA
1 GAGGTGAGTTGAGCCTCGGGTCACGCTGAAGTATTTTTAATTTATGTTTTTTTTTCAACTCATAA
17512365 TACA
66 TACA
17512369 GAGGTGAGTTGAGCCTCGGGTCACGCTGAAGTATTTTTAATTTATGTTTTTTTTTCAACTCATAA
1 GAGGTGAGTTGAGCCTCGGGTCACGCTGAAGTATTTTTAATTTATGTTTTTTTTTCAACTCATAA
17512434 TACA
66 TACA
17512438 GAGGTGAGTTGAGCCTCGGGTCACGCTGAAGTATTTTTAATTTATGTTTTTTTTTCAACTCATAA
1 GAGGTGAGTTGAGCCTCGGGTCACGCTGAAGTATTTTTAATTTATGTTTTTTTTTCAACTCATAA
17512503 TACA
66 TACA
17512507 GAGGTGAGTTGAGCCTCGGGTCACGCTGAAGTATTTTTAATTTATGTTTTTTTTTCAACTCATAA
1 GAGGTGAGTTGAGCCTCGGGTCACGCTGAAGTATTTTTAATTTATGTTTTTTTTTCAACTCATAA
17512572 TACA
66 TACA
17512576 GAGGTGAGTTGAGCCTCGGGTCACGCTGAAGTATTTTTAATTTATGTTTTTTTTTCAACTCATAA
1 GAGGTGAGTTGAGCCTCGGGTCACGCTGAAGTATTTTTAATTTATGTTTTTTTTTCAACTCATAA
17512641 TACA
66 TACA
17512645 GAGGTGAGTTGAGCCTCGGGTCACGCTGAAGTATTTTTAATTTATGTTTTTTTTTCAACTCATAA
1 GAGGTGAGTTGAGCCTCGGGTCACGCTGAAGTATTTTTAATTTATGTTTTTTTTTCAACTCATAA
17512710 TACA
66 TACA
17512714 GAGGTGAGTTGAGCCTCGGGTCACGCTGAAGTATTTTTAATTTATGTTTTTTTTTCAACTCATAA
1 GAGGTGAGTTGAGCCTCGGGTCACGCTGAAGTATTTTTAATTTATGTTTTTTTTTCAACTCATAA
17512779 TACA
66 TACA
* *
17512783 GAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTTTTTTT
1 GAGGTGAGTTGAGCCTCGGGTCACGCTGAAGTATTTTT
17512821 TTTTAATTTC
Statistics
Matches: 1140, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 1140 1.00
ACGTcount: A:0.24, C:0.15, G:0.21, T:0.40
Consensus pattern (69 bp):
GAGGTGAGTTGAGCCTCGGGTCACGCTGAAGTATTTTTAATTTATGTTTTTTTTTCAACTCATAA
TACA
Found at i:17512911 original size:82 final size:77
Alignment explanation
Indices: 17511664--17513134 Score: 403
Period size: 69 Copynumber: 20.7 Consensus size: 77
17511654 TGTTTTTTTT
* * * * * *
17511664 TCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGCTGAAGTA--T-TTTT-AATTTAT
1 TCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCCATGCCGAGGTATTTCTTTTAAATTTCT
***
17511724 GTTTTT---TTT
66 GTTTTTCAAAAA
* * * * * *
17511733 TCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGCTGAAGTA--T-TTTT-AATTTAT
1 TCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCCATGCCGAGGTATTTCTTTTAAATTTCT
***
17511793 GTTTTT---TTT
66 GTTTTTCAAAAA
* * * * * *
17511802 TCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGCTGAAGTA--T-TTTT-AATTTAT
1 TCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCCATGCCGAGGTATTTCTTTTAAATTTCT
***
17511862 GTTTTT---TTT
66 GTTTTTCAAAAA
* * * * * *
17511871 TCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGCTGAAGTA--T-TTTT-AATTTAT
1 TCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCCATGCCGAGGTATTTCTTTTAAATTTCT
***
17511931 GTTTTT---TTT
66 GTTTTTCAAAAA
* * * * * *
17511940 TCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGCTGAAGTA--T-TTTT-AATTTAT
1 TCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCCATGCCGAGGTATTTCTTTTAAATTTCT
***
17512000 GTTTTT---TTT
66 GTTTTTCAAAAA
* * * * * *
17512009 TCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGCTGAAGTA--T-TTTT-AATTTAT
1 TCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCCATGCCGAGGTATTTCTTTTAAATTTCT
***
17512069 GTTTTT---TTT
66 GTTTTTCAAAAA
* * * * * *
17512078 TCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGCTGAAGTA--T-TTTT-AATTTAT
1 TCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCCATGCCGAGGTATTTCTTTTAAATTTCT
***
17512138 GTTTTT---TTT
66 GTTTTTCAAAAA
* * * * * *
17512147 TCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGCTGAAGTA--T-TTTT-AATTTAT
1 TCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCCATGCCGAGGTATTTCTTTTAAATTTCT
***
17512207 GTTTTT---TTT
66 GTTTTTCAAAAA
* * * * * *
17512216 TCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGCTGAAGTA--T-TTTT-AATTTAT
1 TCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCCATGCCGAGGTATTTCTTTTAAATTTCT
***
17512276 GTTTTT---TTT
66 GTTTTTCAAAAA
* * * * * *
17512285 TCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGCTGAAGTA--T-TTTT-AATTTAT
1 TCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCCATGCCGAGGTATTTCTTTTAAATTTCT
***
17512345 GTTTTT---TTT
66 GTTTTTCAAAAA
* * * * * *
17512354 TCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGCTGAAGTA--T-TTTT-AATTTAT
1 TCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCCATGCCGAGGTATTTCTTTTAAATTTCT
***
17512414 GTTTTT---TTT
66 GTTTTTCAAAAA
* * * * * *
17512423 TCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGCTGAAGTA--T-TTTT-AATTTAT
1 TCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCCATGCCGAGGTATTTCTTTTAAATTTCT
***
17512483 GTTTTT---TTT
66 GTTTTTCAAAAA
* * * * * *
17512492 TCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGCTGAAGTA--T-TTTT-AATTTAT
1 TCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCCATGCCGAGGTATTTCTTTTAAATTTCT
***
17512552 GTTTTT---TTT
66 GTTTTTCAAAAA
* * * * * *
17512561 TCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGCTGAAGTA--T-TTTT-AATTTAT
1 TCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCCATGCCGAGGTATTTCTTTTAAATTTCT
***
17512621 GTTTTT---TTT
66 GTTTTTCAAAAA
* * * * * *
17512630 TCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGCTGAAGTA--T-TTTT-AATTTAT
1 TCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCCATGCCGAGGTATTTCTTTTAAATTTCT
***
17512690 GTTTTT---TTT
66 GTTTTTCAAAAA
* * * * * *
17512699 TCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGCTGAAGTA--T-TTTT-AATTTAT
1 TCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCCATGCCGAGGTATTTCTTTTAAATTTCT
***
17512759 GTTTTT---TTT
66 GTTTTTCAAAAA
* * * * * * *
17512768 TCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTTTTTTTTTTTAATTTCT
1 TCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCCATGCCGAGGTATTTCTTTTAAATTTCT
17512832 GTTTTTCATAAAAAAAA
66 GTTTTTC-----AAAAA
* * *
17512849 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGACCATGCCGAGGTATTTCTTTTAAATTTCT
1 TCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCCATGCCGAGGTATTTCTTTTAAATTTCT
*
17512914 ATTTTTCAAAAA
66 GTTTTTCAAAAA
* * * * * * *
17512926 TCAATTCATACTGCGAGGGGTGAGTTGATCCTCGGGTCGTAGGCCGAGGTATTTCTTTTCAATTT
1 TCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGG-C-CATGCCGAGGTATTTCTTTTAAATTT
*
17512991 ATGTTTTTCAAAAA
64 CTGTTTTTCAAAAA
* * * *
17513005 TCAACTCATAATAC-AGAGGTGAGTTGAGTCTCGGGTCATGCCGAGGTATTTCGTTTAAATTTCT
1 TCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCCATGCCGAGGTATTTCTTTTAAATTTCT
*
17513069 GTTGTTCAAAAA
66 GTTTTTCAAAAA
* * * *
17513081 TCAACTCATATTGCGAGAAGTGAGTTGAACCTCGGGTCACATGCTGAGGTATTT
1 TCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGG-C-CATGCCGAGGTATTT
17513135 TTCAAAAAAA
Statistics
Matches: 1336, Mismatches: 48, Indels: 26
0.95 0.03 0.02
Matches are distributed among these distances:
69 1081 0.81
71 1 0.00
72 4 0.00
73 12 0.01
76 46 0.03
77 53 0.04
78 19 0.01
79 60 0.04
81 12 0.01
82 48 0.04
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.39
Consensus pattern (77 bp):
TCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCCATGCCGAGGTATTTCTTTTAAATTTCT
GTTTTTCAAAAA
Found at i:17512998 original size:79 final size:77
Alignment explanation
Indices: 17512768--17513134 Score: 389
Period size: 79 Copynumber: 4.7 Consensus size: 77
17512758 TGTTTTTTTT
* * * * * * * *
17512768 TCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTTTTTTTTTTTAATTTCT
1 TCAACTCATATTGCGAGAGGTGAGTTGATCCTCGGGTCATGCCGAGGTATTTCTTTTAAATTTCT
17512832 GTTTTTCATAAAAAAAA
66 GTTTTTC-----AAAAA
* * **
17512849 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGACCATGCCGAGGTATTTCTTTTAAATTTCT
1 TCAACTCATATTGCGAGAGGTGAGTTGATCCTCGGGTCATGCCGAGGTATTTCTTTTAAATTTCT
*
17512914 ATTTTTCAAAAA
66 GTTTTTCAAAAA
* * * * *
17512926 TCAATTCATACTGCGAGGGGTGAGTTGATCCTCGGGTCGTAGGCCGAGGTATTTCTTTTCAATTT
1 TCAACTCATATTGCGAGAGGTGAGTTGATCCTCGGGTC--ATGCCGAGGTATTTCTTTTAAATTT
*
17512991 ATGTTTTTCAAAAA
64 CTGTTTTTCAAAAA
* * *
17513005 TCAACTCATAATAC-AGAGGTGAGTTGAGT-CTCGGGTCATGCCGAGGTATTTCGTTTAAATTTC
1 TCAACTCATATTGCGAGAGGTGAGTTGA-TCCTCGGGTCATGCCGAGGTATTTCTTTTAAATTTC
*
17513068 TGTTGTTCAAAAA
65 TGTTTTTCAAAAA
* * *
17513081 TCAACTCATATTGCGAGAAGTGAGTTGAACCTCGGGTCACATGCTGAGGTATTT
1 TCAACTCATATTGCGAGAGGTGAGTTGATCCTCGGGT--CATGCCGAGGTATTT
17513135 TTCAAAAAAA
Statistics
Matches: 242, Mismatches: 36, Indels: 18
0.82 0.12 0.06
Matches are distributed among these distances:
76 46 0.19
77 55 0.23
78 20 0.08
79 61 0.25
81 12 0.05
82 48 0.20
ACGTcount: A:0.26, C:0.16, G:0.22, T:0.35
Consensus pattern (77 bp):
TCAACTCATATTGCGAGAGGTGAGTTGATCCTCGGGTCATGCCGAGGTATTTCTTTTAAATTTCT
GTTTTTCAAAAA
Found at i:17513032 original size:155 final size:150
Alignment explanation
Indices: 17511664--17513456 Score: 724
Period size: 138 Copynumber: 12.6 Consensus size: 150
17511654 TGTTTTTTTT
* * * *
17511664 TCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGCTGAAGTA-TTTTT-AATTTATGT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCATGCTGAGGTATTTTTTCAATTTATGT
**** * * * ** * * *
17511726 TTT--TTTTTCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGCTGAAGTA-T-TTTT
66 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGACCATGCCGAGGTATTCTTTT
* ***
17511786 -AATTTATGTTTTT---TTT
131 AAATTTCTGTTTTTCAAAAA
* * * *
17511802 TCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGCTGAAGTA-TTTTT-AATTTATGT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCATGCTGAGGTATTTTTTCAATTTATGT
**** * * * ** * * *
17511864 TTT--TTTTTCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGCTGAAGTA-T-TTTT
66 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGACCATGCCGAGGTATTCTTTT
* ***
17511924 -AATTTATGTTTTT---TTT
131 AAATTTCTGTTTTTCAAAAA
* * * *
17511940 TCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGCTGAAGTA-TTTTT-AATTTATGT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCATGCTGAGGTATTTTTTCAATTTATGT
**** * * * ** * * *
17512002 TTT--TTTTTCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGCTGAAGTA-T-TTTT
66 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGACCATGCCGAGGTATTCTTTT
* ***
17512062 -AATTTATGTTTTT---TTT
131 AAATTTCTGTTTTTCAAAAA
* * * *
17512078 TCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGCTGAAGTA-TTTTT-AATTTATGT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCATGCTGAGGTATTTTTTCAATTTATGT
**** * * * ** * * *
17512140 TTT--TTTTTCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGCTGAAGTA-T-TTTT
66 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGACCATGCCGAGGTATTCTTTT
* ***
17512200 -AATTTATGTTTTT---TTT
131 AAATTTCTGTTTTTCAAAAA
* * * *
17512216 TCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGCTGAAGTA-TTTTT-AATTTATGT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCATGCTGAGGTATTTTTTCAATTTATGT
**** * * * ** * * *
17512278 TTT--TTTTTCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGCTGAAGTA-T-TTTT
66 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGACCATGCCGAGGTATTCTTTT
* ***
17512338 -AATTTATGTTTTT---TTT
131 AAATTTCTGTTTTTCAAAAA
* * * *
17512354 TCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGCTGAAGTA-TTTTT-AATTTATGT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCATGCTGAGGTATTTTTTCAATTTATGT
**** * * * ** * * *
17512416 TTT--TTTTTCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGCTGAAGTA-T-TTTT
66 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGACCATGCCGAGGTATTCTTTT
* ***
17512476 -AATTTATGTTTTT---TTT
131 AAATTTCTGTTTTTCAAAAA
* * * *
17512492 TCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGCTGAAGTA-TTTTT-AATTTATGT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCATGCTGAGGTATTTTTTCAATTTATGT
**** * * * ** * * *
17512554 TTT--TTTTTCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGCTGAAGTA-T-TTTT
66 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGACCATGCCGAGGTATTCTTTT
* ***
17512614 -AATTTATGTTTTT---TTT
131 AAATTTCTGTTTTTCAAAAA
* * * *
17512630 TCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGCTGAAGTA-TTTTT-AATTTATGT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCATGCTGAGGTATTTTTTCAATTTATGT
**** * * * ** * * *
17512692 TTT--TTTTTCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGCTGAAGTA-T-TTTT
66 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGACCATGCCGAGGTATTCTTTT
* ***
17512752 -AATTTATGTTTTT---TTT
131 AAATTTCTGTTTTTCAAAAA
* * * * * *
17512768 TCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTTTTTTTTTTTAATTTCT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCATGCTGAGG--TATTTTTTCAATTTAT
17512832 GTTTTTCATAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGACCATGCCGAGGT
64 G-TTTTC-----AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGACCATGCCGAGGT
*
17512897 ATTTCTTTTAAATTTCTATTTTTCAAAAA
123 A-TTCTTTTAAATTTCTGTTTTTCAAAAA
* * * * * *
17512926 TCAATTCATACTGCGAGGGGTGAGTTGATCCTCGGGTCGTAGGCCGAGGTATTTCTTTTCAATTT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC--ATGCTGAGGTA-TT-TTTTCAATTT
* * * * **
17512991 ATGTTTTTCAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGTCTCGGGTCATGCCGAGGTATT
62 ATG-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGACCATGCCGAGGTA-T
* *
17513055 TCGTTTAAATTTCTGTTGTTCAAAAA
125 TCTTTTAAATTTCTGTTTTTCAAAAA
* *
17513081 TCAACTCATATTGCGAGAAGTGAGTTGAACCTCGGGTCACATGCTGAGGTA-TTTTTC-A---A-
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT--CATGCTGAGGTATTTTTTCAATTTAT
* * *
17513140 ------AAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGTCGCATGCCGAGGTATTC
64 GTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGAC-CATGCCGAGGTATTC
*
17513199 TTTTCAATTTCTGTTTTTTCAAAAA
127 TTTTAAATTTCTG-TTTTTCAAAAA
* * *
17513224 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGTCATGTTGAGGTATTTTTT-AATTTTTGC
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCATGCTGAGGTATTTTTTCAATTTATG-
* * * **
17513288 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGA-CCCTCGAGTCATGTTGAGGTATT-TT
65 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGA-CCATGCCGAGGTATTCTT
* *
17513351 TT-AATTTTTGCTTTTCAAAAA
129 TTAAATTTCTGTTTTTCAAAAA
* * *
17513372 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTTGCACGCTGAGG--TGTTTT-AAGTTTC
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG-T-CATGCTGAGGTATTTTTTCAA-TTTA
17513434 TGTTTTTTCAAAAATCAACTCAT
63 TG--TTTTCAAAAATCAACTCAT
17513457 GGCTCGAGAG
Statistics
Matches: 1530, Mismatches: 76, Indels: 86
0.90 0.04 0.05
Matches are distributed among these distances:
138 1011 0.66
140 18 0.01
141 32 0.02
142 29 0.02
143 60 0.04
148 53 0.03
149 13 0.01
150 43 0.03
151 42 0.03
152 7 0.00
153 34 0.02
154 4 0.00
155 107 0.07
156 17 0.01
157 1 0.00
158 11 0.01
159 22 0.01
160 2 0.00
161 24 0.02
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.39
Consensus pattern (150 bp):
TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCATGCTGAGGTATTTTTTCAATTTATGT
TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGACCATGCCGAGGTATTCTTTT
AAATTTCTGTTTTTCAAAAA
Found at i:17513172 original size:64 final size:64
Alignment explanation
Indices: 17513076--17513197 Score: 199
Period size: 64 Copynumber: 1.9 Consensus size: 64
17513066 TCTGTTGTTC
*
17513076 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTCGGGTCACATGCTGAGGTATTTTTCAA
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTCGGGTCACATGCCGAGGTATTTTTCAA
* * * *
17513140 AAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGTCGCATGCCGAGGTATT
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTCGGGTCACATGCCGAGGTATT
17513198 CTTTTCAATT
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 53 1.00
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (64 bp):
AAAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTCGGGTCACATGCCGAGGTATTTTTCAA
Found at i:17513316 original size:74 final size:74
Alignment explanation
Indices: 17513140--17513405 Score: 424
Period size: 74 Copynumber: 3.5 Consensus size: 74
17513130 TATTTTTCAA
* * **
17513140 AAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGTCGCATGCCGAGGTATTCTTTTCA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGT--CATGTTGAGGTATT-TTTT-A
* *
17513205 ATTTCTGTTTTTTC
62 ATTTTTG-CTTTTC
17513219 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGTCATGTTGAGGTATTTTTTAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGTCATGTTGAGGTATTTTTTAATTT
17513284 TTGCTTTTC
66 TTGCTTTTC
*
17513293 AAAAATCAACTCATATTGCGAGAGGTGAGTTGACCCTCGAGTCATGTTGAGGTATTTTTTAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGTCATGTTGAGGTATTTTTTAATTT
17513358 TTGCTTTTC
66 TTGCTTTTC
17513367 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
17513406 GGTTGCACGC
Statistics
Matches: 179, Mismatches: 8, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
74 116 0.65
75 7 0.04
76 4 0.02
77 12 0.07
79 40 0.22
ACGTcount: A:0.26, C:0.16, G:0.22, T:0.36
Consensus pattern (74 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGTCATGTTGAGGTATTTTTTAATTT
TTGCTTTTC
Found at i:17513427 original size:74 final size:74
Alignment explanation
Indices: 17513140--17513456 Score: 406
Period size: 74 Copynumber: 4.2 Consensus size: 74
17513130 TATTTTTCAA
* * *
17513140 AAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGTCGCATGCCGAGGTATTCTTTTCA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGT--CATGCTGAGGT-TT-TTTT-A
*
17513205 ATTTCTGTTTTTTC
61 ATTTCTGTCTTTTC
*
17513219 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGTCATGTTGAGGTATTTTTTAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGTCATGCTGAGGT-TTTTTTAATTT
*
17513284 TTG-CTTTTC
65 CTGTCTTTTC
* *
17513293 AAAAATCAACTCATATTGCGAGAGGTGAGTTGACCCTCGAGTCATGTTGAGGTATTTTTTAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGTCATGCTGAGGT-TTTTTTAATTT
*
17513358 TTG-CTTTTC
65 CTGTCTTTTC
* * *
17513367 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTTGCACGCTGAGG-TGTTTTAAGT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAG-T-CATGCTGAGGTTTTTTTAA-T
*
17513431 TTCTGTTTTTTC
63 TTCTGTCTTTTC
17513443 AAAAATCAACTCAT
1 AAAAATCAACTCAT
17513457 GGCTCGAGAG
Statistics
Matches: 220, Mismatches: 14, Indels: 11
0.90 0.06 0.04
Matches are distributed among these distances:
74 124 0.56
75 13 0.06
76 31 0.14
77 12 0.05
79 40 0.18
ACGTcount: A:0.26, C:0.16, G:0.21, T:0.37
Consensus pattern (74 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGTCATGCTGAGGTTTTTTTAATTTC
TGTCTTTTC
Found at i:17513660 original size:5 final size:5
Alignment explanation
Indices: 17513647--17513686 Score: 55
Period size: 5 Copynumber: 8.2 Consensus size: 5
17513637 TTCTTCGTGT
* *
17513647 TTTTG TTTTA TTTTA -TTTA TTTTA TCTTA TTTTA TTTTA T
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA T
17513687 ATATATTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
4 4 0.13
5 27 0.87
ACGTcount: A:0.17, C:0.03, G:0.03, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:17513676 original size:10 final size:9
Alignment explanation
Indices: 17513653--17513683 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
17513643 GTGTTTTTGT
17513653 TTTATTTTA
1 TTTATTTTA
17513662 TTTATTTTA
1 TTTATTTTA
17513671 TCTTATTTTA
1 T-TTATTTTA
17513681 TTT
1 TTT
17513684 TATATATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTATTTTA
Found at i:17514111 original size:30 final size:30
Alignment explanation
Indices: 17514076--17514231 Score: 140
Period size: 30 Copynumber: 5.2 Consensus size: 30
17514066 TAAAAAATTG
*
17514076 CATTTTGACCCCTGTACTTTTCAAAATTTA
1 CATTTTGACCCCTATACTTTTCAAAATTTA
**
17514106 CATTTTGACCCCTATACTTTTTGAAATTTA
1 CATTTTGACCCCTATACTTTTCAAAATTTA
*
17514136 CATTTTGACCCC-AAACTTTTCTAAAA-TTA
1 CATTTTGACCCCTATACTTTTC-AAAATTTA
** ** *
17514165 CATTTCAACCTTTAAACTTTCTCAAAATTT-
1 CATTTTGACCCCTATACTTT-TCAAAATTTA
* * * *
17514195 CACTTTAACCCCTAAAC-TTTCAAGAAATTA
1 CATTTTGACCCCTATACTTTTCAA-AATTTA
17514225 CATTTTG
1 CATTTTG
17514232 GCCCATATTT
Statistics
Matches: 103, Mismatches: 17, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
28 4 0.04
29 24 0.23
30 71 0.69
31 4 0.04
ACGTcount: A:0.31, C:0.23, G:0.04, T:0.41
Consensus pattern (30 bp):
CATTTTGACCCCTATACTTTTCAAAATTTA
Found at i:17514184 original size:59 final size:59
Alignment explanation
Indices: 17514069--17514229 Score: 148
Period size: 59 Copynumber: 2.7 Consensus size: 59
17514059 AAAAAATTAA
* ** ** * *
17514069 AAAATTGCATTTTGACCCCTGTACTTTTCAAAATTTACATTTTGACCCCTATACTTT-TT
1 AAAATTTCATTTTGACCCCTAAACTTTTCAAAA-TTACATTTCAACCCCTAAACTTTCTC
* **
17514128 GAAATTTACATTTTGACCCC-AAACTTTTCTAAAATTACATTTCAACCTTTAAACTTTCTC
1 AAAATTT-CATTTTGACCCCTAAACTTTTC-AAAATTACATTTCAACCCCTAAACTTTCTC
* *
17514188 AAAATTTCACTTTAACCCCTAAAC-TTTCAAGAAATTACATTT
1 AAAATTTCATTTTGACCCCTAAACTTTTC-A-AAATTACATTT
17514230 TGGCCCATAT
Statistics
Matches: 83, Mismatches: 14, Indels: 9
0.78 0.13 0.08
Matches are distributed among these distances:
59 45 0.54
60 38 0.46
ACGTcount: A:0.33, C:0.22, G:0.04, T:0.40
Consensus pattern (59 bp):
AAAATTTCATTTTGACCCCTAAACTTTTCAAAATTACATTTCAACCCCTAAACTTTCTC
Found at i:17514807 original size:4 final size:4
Alignment explanation
Indices: 17514800--17514849 Score: 57
Period size: 4 Copynumber: 12.5 Consensus size: 4
17514790 GGGAAGGAAG
* * *
17514800 AAGA AAGA AAGA AAGA AA-A AAGA GAGA AAGA AAAA GAAGA AAAA AAGA
1 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA -AAGA AAGA AAGA
17514848 AA
1 AA
17514850 TACATTACAG
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
3 3 0.08
4 32 0.84
5 3 0.08
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:17514821 original size:15 final size:15
Alignment explanation
Indices: 17514797--17514849 Score: 61
Period size: 15 Copynumber: 3.4 Consensus size: 15
17514787 GAAGGGAAGG
*
17514797 AAGAAGAAAGAAAGA
1 AAGAAAAAAGAAAGA
*
17514812 AAGAAAAAAGAGAGA
1 AAGAAAAAAGAAAGA
*
17514827 AAGAAAAAGAAGAAAAA
1 AAG-AAAA-AAGAAAGA
17514844 AAGAAA
1 AAGAAA
17514850 TACATTACAG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
15 16 0.50
16 7 0.22
17 9 0.28
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (15 bp):
AAGAAAAAAGAAAGA
Found at i:17514966 original size:18 final size:20
Alignment explanation
Indices: 17514934--17514970 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
17514924 AAAAAAAGAA
17514934 AAAAAAGAAATAGCAGCAGC
1 AAAAAAGAAATAGCAGCAGC
17514954 AAAAAA-AAA-AGCAGCAG
1 AAAAAAGAAATAGCAGCAG
17514971 GCCAGGCCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.47
19 3 0.18
20 6 0.35
ACGTcount: A:0.65, C:0.14, G:0.19, T:0.03
Consensus pattern (20 bp):
AAAAAAGAAATAGCAGCAGC
Found at i:17515114 original size:13 final size:13
Alignment explanation
Indices: 17515098--17515122 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17515088 GAAAAAAGAA
17515098 AAAAAACAAAAAC
1 AAAAAACAAAAAC
17515111 AAAAAACAAAAA
1 AAAAAACAAAAA
17515123 AGGCCCGAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAAACAAAAAC
Found at i:17515509 original size:224 final size:225
Alignment explanation
Indices: 17515106--17515556 Score: 895
Period size: 224 Copynumber: 2.0 Consensus size: 225
17515096 AAAAAAAACA
17515106 AAAACAAAAAACAAAAAAGGCCCGAATTGCGTAGCCCGTTGGATCAAGCCCATAACTTTTGGCTT
1 AAAACAAAAAACAAAAAAGGCCCGAATTGCGTAGCCCGTTGGATCAAGCCCATAACTTTTGGCTT
17515171 TTGGTAATCCTTTTACCCTCGTTTTAAATTAATCTGTATATTTAATTATTGTTTCATTTCAATTT
66 TTGGTAATCCTTTTACCCTCGTTTTAAATTAATCTGTATATTTAATTATTGTTTCATTTCAATTT
17515236 AATTAGTATTTTTAAATAGCATATTTAGAAATATTATCACATTTATTTTACTTGCATTTTTAAAA
131 AATTAGTATTTTTAAATAGCATATTTAGAAATATTATCACATTTATTTTACTTGCATTTTTAAAA
17515301 TTAAAAAATATTTTAATGCACAAGGCAACG
196 TTAAAAAATATTTTAATGCACAAGGCAACG
17515331 AAAACAAAAAAC-AAAAAGGCCCGAATTGCGTAGCCCGTTGGATCAAGCCCATAACTTTTGGCTT
1 AAAACAAAAAACAAAAAAGGCCCGAATTGCGTAGCCCGTTGGATCAAGCCCATAACTTTTGGCTT
17515395 TTGGTAATCCTTTTACCCTCGTTTTAAATTAATCTGTATATTTAATTATTGTTTCATTTCAATTT
66 TTGGTAATCCTTTTACCCTCGTTTTAAATTAATCTGTATATTTAATTATTGTTTCATTTCAATTT
17515460 AATTAGTATTTTTAAATAGCATATTTAGAAATATTATCACATTTATTTTACTTGCATTTTTAAAA
131 AATTAGTATTTTTAAATAGCATATTTAGAAATATTATCACATTTATTTTACTTGCATTTTTAAAA
17515525 TTAAAAAATATTTTAATGCACAAGGCAACG
196 TTAAAAAATATTTTAATGCACAAGGCAACG
17515555 AA
1 AA
17515557 CCAATTTAAT
Statistics
Matches: 226, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
224 214 0.95
225 12 0.05
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.39
Consensus pattern (225 bp):
AAAACAAAAAACAAAAAAGGCCCGAATTGCGTAGCCCGTTGGATCAAGCCCATAACTTTTGGCTT
TTGGTAATCCTTTTACCCTCGTTTTAAATTAATCTGTATATTTAATTATTGTTTCATTTCAATTT
AATTAGTATTTTTAAATAGCATATTTAGAAATATTATCACATTTATTTTACTTGCATTTTTAAAA
TTAAAAAATATTTTAATGCACAAGGCAACG
Found at i:17515943 original size:22 final size:21
Alignment explanation
Indices: 17515892--17515943 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 21
17515882 ATTTACCGTG
*
17515892 TTTCAAAAAATATATTCGTGT
1 TTTCAAAAAATATATTCGTAT
**
17515913 TTTTTAAAAATA-ATTTCCGTAT
1 TTTCAAAAAATATA-TT-CGTAT
17515935 TTTCAAAAA
1 TTTCAAAAA
17515944 TTTCCGTGTT
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
20 1 0.04
21 12 0.50
22 11 0.46
ACGTcount: A:0.40, C:0.10, G:0.06, T:0.44
Consensus pattern (21 bp):
TTTCAAAAAATATATTCGTAT
Found at i:17515947 original size:18 final size:18
Alignment explanation
Indices: 17515924--17516120 Score: 176
Period size: 18 Copynumber: 11.1 Consensus size: 18
17515914 TTTTAAAAAT
*
17515924 AATTTCCGTATTTTCAAA
1 AATTTCCGTGTTTTCAAA
*
17515942 AATTTCCGTGTTTTAAAA
1 AATTTCCGTGTTTTCAAA
*
17515960 AATCTT-CGTGTTTTCAAG
1 AAT-TTCCGTGTTTTCAAA
*
17515978 AA-TCCTCGTG-TTTCAAA
1 AATTTC-CGTGTTTTCAAA
*
17515995 AGATTT-CATGTTTTCAAA
1 A-ATTTCCGTGTTTTCAAA
17516013 AATTTCCGTGTTTT-AAA
1 AATTTCCGTGTTTTCAAA
17516030 AATTTCCGTGTTTTCAAA
1 AATTTCCGTGTTTTCAAA
* * * *
17516048 AATTTTCGTATTTTTAAG
1 AATTTCCGTGTTTTCAAA
* * *
17516066 AATTTTCGTG-TCTCTAA
1 AATTTCCGTGTTTTCAAA
17516083 AA-TTCTCGTGTTTT-AAA
1 AATTTC-CGTGTTTTCAAA
*
17516100 AATTTTTCGTGTTTTCAAA
1 AA-TTTCCGTGTTTTCAAA
17516119 AA
1 AA
17516121 ACTAATTGTT
Statistics
Matches: 144, Mismatches: 22, Indels: 25
0.75 0.12 0.13
Matches are distributed among these distances:
16 3 0.02
17 44 0.31
18 87 0.60
19 10 0.07
ACGTcount: A:0.29, C:0.14, G:0.11, T:0.46
Consensus pattern (18 bp):
AATTTCCGTGTTTTCAAA
Found at i:17516023 original size:35 final size:34
Alignment explanation
Indices: 17515924--17516157 Score: 186
Period size: 35 Copynumber: 6.6 Consensus size: 34
17515914 TTTTAAAAAT
*
17515924 AATTTCCGTATTTTCAAAAATTTCCGTGTTTTAAAA
1 AATTT-CGTGTTTTCAAAAATTTCCGTGTTTT-AAA
* * *
17515960 AATCTTCGTGTTTTCAAGAA-TCCTCGTGTTTCAAA
1 AAT-TTCGTGTTTTCAAAAATTTC-CGTGTTTTAAA
*
17515995 AGATTTCATGTTTTCAAAAATTTCCGTGTTTTAAA
1 A-ATTTCGTGTTTTCAAAAATTTCCGTGTTTTAAA
* *
17516030 AATTTCCGTGTTTTCAAAAATTTTCGTATTTTTAAGA
1 AATTT-CGTGTTTTCAAAAATTTCCGT-GTTTTAA-A
* * *
17516067 ATTTTCGTG-TCTCTAAAA-TTCTCGTGTTTTAAA
1 AATTTCGTGTTTTCAAAAATTTC-CGTGTTTTAAA
** *** *
17516100 AATTTTTCGTGTTTTCAAAAAACTAATTGTTTCAAA
1 AA--TTTCGTGTTTTCAAAAATTTCCGTGTTTTAAA
*
17516136 AATCTTCGTGTTTTTAAAAATT
1 AAT-TTCGTGTTTTCAAAAATT
17516158 CTCGTATTTT
Statistics
Matches: 158, Mismatches: 27, Indels: 27
0.75 0.13 0.13
Matches are distributed among these distances:
33 2 0.01
34 13 0.08
35 82 0.52
36 53 0.34
37 8 0.05
ACGTcount: A:0.30, C:0.13, G:0.11, T:0.46
Consensus pattern (34 bp):
AATTTCGTGTTTTCAAAAATTTCCGTGTTTTAAA
Found at i:17516045 original size:53 final size:51
Alignment explanation
Indices: 17515934--17516120 Score: 175
Period size: 53 Copynumber: 3.5 Consensus size: 51
17515924 AATTTCCGTA
* * *
17515934 TTTTCAAAAATTTCCGTGTTTTAAAAAATCTTCGTGTTTTCAAGAATCCTCGTG
1 TTTTCAAAAATTT-CGTGTTTTCAAAAAT-TTCGTGTTTT-AAAAATTCTCGTG
*
17515988 -TTTCAAAAGATTTCATGTTTTCAAAAATTTCCGTGTTTTAAAAATT-TCCGTG
1 TTTTCAAAA-ATTTCGTGTTTTCAAAAATTT-CGTGTTTTAAAAATTCT-CGTG
* * * *
17516040 TTTTCAAAAATTTTCGTATTTTTAAGAATTTTCGTGTCTCT-AAAATTCTCGTG
1 TTTTCAAAAA-TTTCGTGTTTTCAA-AAATTTCGTGT-TTTAAAAATTCTCGTG
17516093 TTTT-AAAAATTTTTCGTGTTTTCAAAAA
1 TTTTCAAAAA--TTTCGTGTTTTCAAAAA
17516121 ACTAATTGTT
Statistics
Matches: 112, Mismatches: 12, Indels: 20
0.78 0.08 0.14
Matches are distributed among these distances:
51 1 0.01
52 19 0.17
53 80 0.71
54 12 0.11
ACGTcount: A:0.29, C:0.13, G:0.11, T:0.46
Consensus pattern (51 bp):
TTTTCAAAAATTTCGTGTTTTCAAAAATTTCGTGTTTTAAAAATTCTCGTG
Found at i:17516154 original size:18 final size:18
Alignment explanation
Indices: 17515934--17516156 Score: 169
Period size: 18 Copynumber: 12.6 Consensus size: 18
17515924 AATTTCCGTA
17515934 TTTTCAAAAAT-TTCCGTG
1 TTTTCAAAAATCTT-CGTG
*
17515952 TTTTAAAAAATCTTCGTG
1 TTTTCAAAAATCTTCGTG
* *
17515970 TTTTCAAGAATCCTCGTG
1 TTTTCAAAAATCTTCGTG
*
17515988 -TTTCAAAAGAT-TTCATG
1 TTTTCAAAA-ATCTTCGTG
17516005 TTTTCAAAAAT-TTCCGTG
1 TTTTCAAAAATCTT-CGTG
17516023 TTTT-AAAAAT-TTCCGTG
1 TTTTCAAAAATCTT-CGTG
* *
17516040 TTTTCAAAAATTTTCGTA
1 TTTTCAAAAATCTTCGTG
* * *
17516058 TTTTTAAGAATTTTCGTG
1 TTTTCAAAAATCTTCGTG
* *
17516076 -TCTCTAAAAT-TCTCGTG
1 TTTTCAAAAATCT-TCGTG
*
17516093 TTTT-AAAAATTTTTCGTG
1 TTTTCAAAAA-TCTTCGTG
* ***
17516111 TTTTCAAAAAACTAATTG
1 TTTTCAAAAATCTTCGTG
17516129 -TTTCAAAAATCTTCGTG
1 TTTTCAAAAATCTTCGTG
*
17516146 TTTTTAAAAAT
1 TTTTCAAAAAT
17516157 TCTCGTATTT
Statistics
Matches: 165, Mismatches: 28, Indels: 24
0.76 0.13 0.11
Matches are distributed among these distances:
16 1 0.01
17 60 0.36
18 94 0.57
19 10 0.06
ACGTcount: A:0.30, C:0.13, G:0.11, T:0.46
Consensus pattern (18 bp):
TTTTCAAAAATCTTCGTG
Found at i:17517998 original size:21 final size:21
Alignment explanation
Indices: 17517959--17517998 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
17517949 NNNAATTATT
**
17517959 TAAAATTAATTTTTTTTAAAA
1 TAAAATTAATTTTACTTAAAA
*
17517980 TAAAATTTATTTTACTTAA
1 TAAAATTAATTTTACTTAA
17517999 TTATGTTTAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (21 bp):
TAAAATTAATTTTACTTAAAA
Found at i:17518134 original size:16 final size:16
Alignment explanation
Indices: 17518113--17518154 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
17518103 TAAAATTATA
17518113 AATTATATAAAAATTG
1 AATTATATAAAAATTG
* *
17518129 AATTATA-AAATATTT
1 AATTATATAAAAATTG
17518144 AATATATATAA
1 AAT-TATATAA
17518155 TGATTTAAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 9 0.41
16 11 0.50
17 2 0.09
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (16 bp):
AATTATATAAAAATTG
Found at i:17521853 original size:30 final size:31
Alignment explanation
Indices: 17521814--17521873 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
17521804 AGAGGTGGGA
17521814 TGGGAAGGGAATAAAAATTTTAGGGAAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGAAAAAG
* * *
17521845 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGAAAAA
17521874 TAAAAGGTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.43, C:0.00, G:0.37, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGAAAAAG
Found at i:17530354 original size:19 final size:20
Alignment explanation
Indices: 17530309--17530365 Score: 57
Period size: 19 Copynumber: 3.0 Consensus size: 20
17530299 AATTCTATAG
17530309 AAAAG-TTATTTAAAAAACT
1 AAAAGATTATTTAAAAAACT
* *
17530328 CAAA-ATTATTTAAAATA-T
1 AAAAGATTATTTAAAAAACT
* *
17530346 AAAAGATTATATATAAAACT
1 AAAAGATTATTTAAAAAACT
17530366 TCTAAAAAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
18 4 0.14
19 24 0.83
20 1 0.03
ACGTcount: A:0.58, C:0.05, G:0.04, T:0.33
Consensus pattern (20 bp):
AAAAGATTATTTAAAAAACT
Found at i:17532120 original size:22 final size:22
Alignment explanation
Indices: 17532080--17532125 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
17532070 GGATCCCTGT
*
17532080 TAGGATATTATTTGGGATATTA
1 TAGGATATTATTTGAGATATTA
17532102 TAGGATATTATTAT-AGATATTA
1 TAGGATATTATT-TGAGATATTA
17532124 TA
1 TA
17532126 TTTTAGCAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 21 0.95
23 1 0.05
ACGTcount: A:0.37, C:0.00, G:0.17, T:0.46
Consensus pattern (22 bp):
TAGGATATTATTTGAGATATTA
Found at i:17533718 original size:21 final size:21
Alignment explanation
Indices: 17533689--17533732 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
17533679 GTACTTTGTC
*
17533689 AACAGAAGCTCATAAGAGCTG
1 AACAAAAGCTCATAAGAGCTG
*
17533710 AACAAAAGCTCATAAGAGTTG
1 AACAAAAGCTCATAAGAGCTG
17533731 AA
1 AA
17533733 TAGAAACTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.16, G:0.20, T:0.16
Consensus pattern (21 bp):
AACAAAAGCTCATAAGAGCTG
Found at i:17539911 original size:21 final size:21
Alignment explanation
Indices: 17539878--17539917 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
17539868 ATATATTAAT
*
17539878 AGAAGCTCGTAAGAGTTGAAC
1 AGAAGCTCATAAGAGTTGAAC
*
17539899 AGAATCTCATAAGAGTTGA
1 AGAAGCTCATAAGAGTTGA
17539918 TCCACCCAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.40, C:0.12, G:0.25, T:0.23
Consensus pattern (21 bp):
AGAAGCTCATAAGAGTTGAAC
Found at i:17542244 original size:19 final size:19
Alignment explanation
Indices: 17542220--17542258 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
17542210 AAGTTCGTGT
17542220 AACTAAATTATGTATATTA
1 AACTAAATTATGTATATTA
17542239 AACTAAATTATGTATATTA
1 AACTAAATTATGTATATTA
17542258 A
1 A
17542259 TATGTTTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.41
Consensus pattern (19 bp):
AACTAAATTATGTATATTA
Found at i:17542285 original size:22 final size:21
Alignment explanation
Indices: 17542252--17542293 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
17542242 TAAATTATGT
*
17542252 ATATTAATATGTTTGAATTGA
1 ATATTAATATGTGTGAATTGA
17542273 ATATTATATATGTGTGAATTG
1 ATATTA-ATATGTGTGAATTG
17542294 TATAAATGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.36, C:0.00, G:0.17, T:0.48
Consensus pattern (21 bp):
ATATTAATATGTGTGAATTGA
Found at i:17542609 original size:25 final size:24
Alignment explanation
Indices: 17542573--17542625 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
17542563 ACATACTGCA
17542573 GCTCTTTATGAG-TATCCCGATATAG
1 GCTCTTTATGAGCT-TCCCGATAT-G
* *
17542598 GCTCTTTGTGAGCTTCCTGATATG
1 GCTCTTTATGAGCTTCCCGATATG
17542622 GCTC
1 GCTC
17542626 ACTTGAACTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 5 0.20
25 19 0.76
26 1 0.04
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.38
Consensus pattern (24 bp):
GCTCTTTATGAGCTTCCCGATATG
Found at i:17544501 original size:42 final size:42
Alignment explanation
Indices: 17544454--17544574 Score: 134
Period size: 42 Copynumber: 2.9 Consensus size: 42
17544444 TACTTTTTTT
* * *
17544454 AGCTCTTTCGAGCTTCTGTTTAACTCATATGAGTTTTCGTTC
1 AGCTCTTTCGAGCTTCTGTTTAACCCATATGAGTTTCCATTC
* * * *
17544496 AGCTCTTTTGTGCTTCTGTTTAACCCTTATGGGTTTCCATTC
1 AGCTCTTTCGAGCTTCTGTTTAACCCATATGAGTTTCCATTC
* * * * *
17544538 AGCTCTTACGAGCTTCCGTTCAACCCTTATGGGTTTC
1 AGCTCTTTCGAGCTTCTGTTTAACCCATATGAGTTTC
17544575 TGTTTAACTC
Statistics
Matches: 67, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 67 1.00
ACGTcount: A:0.15, C:0.25, G:0.17, T:0.43
Consensus pattern (42 bp):
AGCTCTTTCGAGCTTCTGTTTAACCCATATGAGTTTCCATTC
Found at i:17544593 original size:42 final size:42
Alignment explanation
Indices: 17544507--17544601 Score: 118
Period size: 42 Copynumber: 2.3 Consensus size: 42
17544497 GCTCTTTTGT
* * *
17544507 GCTTCTGTTTAACCCTTATGGGTTTCCATTCAGCTCTTACGA
1 GCTTCTGTTCAACCCTTATGGGTTTCCATTCAACTCTCACGA
* ** * *
17544549 GCTTCCGTTCAACCCTTATGGGTTTCTGTTTAACTCTCATGA
1 GCTTCTGTTCAACCCTTATGGGTTTCCATTCAACTCTCACGA
17544591 GCTTCTGTTCA
1 GCTTCTGTTCA
17544602 GCCTTCGGGC
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.16, C:0.26, G:0.17, T:0.41
Consensus pattern (42 bp):
GCTTCTGTTCAACCCTTATGGGTTTCCATTCAACTCTCACGA
Found at i:17567775 original size:20 final size:20
Alignment explanation
Indices: 17567750--17567793 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
17567740 AGAGATAAGA
*
17567750 GAGAGAAAGAAAGAGGGAGG
1 GAGAGAAAGAAAGAAGGAGG
* *
17567770 GAGAGAGAGAGAGAAGGAGG
1 GAGAGAAAGAAAGAAGGAGG
17567790 GAGA
1 GAGA
17567794 AAGCGTGTGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (20 bp):
GAGAGAAAGAAAGAAGGAGG
Found at i:17567779 original size:24 final size:24
Alignment explanation
Indices: 17567747--17567792 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
17567737 GAAAGAGATA
17567747 AGAGAGAGAAAGAAAGAGGGAGGG
1 AGAGAGAGAAAGAAAGAGGGAGGG
* *
17567771 AGAGAGAGAGAGAAGGAGGGAG
1 AGAGAGAGAAAGAAAGAGGGAG
17567793 AAAGCGTGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (24 bp):
AGAGAGAGAAAGAAAGAGGGAGGG
Found at i:17568737 original size:21 final size:19
Alignment explanation
Indices: 17568698--17568739 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 19
17568688 TAAAATTTAT
*
17568698 ATAAAAGTATTTTTAAAAA
1 ATAAAAGTATTTATAAAAA
17568717 ATAAAAGTATCCTTATAAAAA
1 ATAAAAGTAT--TTATAAAAA
17568738 AT
1 AT
17568740 TTGCTACTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 10 0.50
21 10 0.50
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.33
Consensus pattern (19 bp):
ATAAAAGTATTTATAAAAA
Found at i:17576903 original size:34 final size:34
Alignment explanation
Indices: 17576839--17576905 Score: 82
Period size: 34 Copynumber: 2.0 Consensus size: 34
17576829 ATAATTAGTA
* * * *
17576839 GGGCCTTTGCCCAATTTCAGTAATATTATCAGTG
1 GGGCCTTGGCCCAATTACAGTAACAATATCAGTG
17576873 GGGCCTTGGCCC-ATTACAGTAACAGATATCAGT
1 GGGCCTTGGCCCAATTACAGTAACA-ATATCAGT
17576906 CATGCAGTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 10 0.36
34 18 0.64
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.30
Consensus pattern (34 bp):
GGGCCTTGGCCCAATTACAGTAACAATATCAGTG
Found at i:17579376 original size:26 final size:26
Alignment explanation
Indices: 17579347--17579398 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
17579337 ATTTACCGTT
17579347 TAAGCCCATTAATTTACATTTCCATA
1 TAAGCCCATTAATTTACATTTCCATA
*
17579373 TAAGTCCATTAATTTACATTTCCATA
1 TAAGCCCATTAATTTACATTTCCATA
17579399 GCCATTTAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.35, C:0.21, G:0.04, T:0.40
Consensus pattern (26 bp):
TAAGCCCATTAATTTACATTTCCATA
Found at i:17580560 original size:13 final size:13
Alignment explanation
Indices: 17580542--17580566 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17580532 AAATTATCCA
17580542 ACCCAACCCAATT
1 ACCCAACCCAATT
17580555 ACCCAACCCAAT
1 ACCCAACCCAAT
17580567 AAAACTAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.48, G:0.00, T:0.12
Consensus pattern (13 bp):
ACCCAACCCAATT
Found at i:17580653 original size:38 final size:38
Alignment explanation
Indices: 17580547--17580663 Score: 189
Period size: 39 Copynumber: 3.0 Consensus size: 38
17580537 ATCCAACCCA
17580547 ACCCAATTACCCAACCCAATAAAACTAAAACTAAAGTCT
1 ACCCAATTA-CCAACCCAATAAAACTAAAACTAAAGTCT
* *
17580586 ACCAAATTACTTAACCCAATAAAACTAAAACTAAAGTCT
1 ACCCAATTAC-CAACCCAATAAAACTAAAACTAAAGTCT
*
17580625 ACCCAATTACCAACCCAATAAAAATAAAACTAAAGTCT
1 ACCCAATTACCAACCCAATAAAACTAAAACTAAAGTCT
17580663 A
1 A
17580664 ACTCTAAGTC
Statistics
Matches: 72, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
38 28 0.39
39 44 0.61
ACGTcount: A:0.51, C:0.26, G:0.03, T:0.20
Consensus pattern (38 bp):
ACCCAATTACCAACCCAATAAAACTAAAACTAAAGTCT
Found at i:17580809 original size:9 final size:9
Alignment explanation
Indices: 17580733--17580808 Score: 80
Period size: 9 Copynumber: 8.4 Consensus size: 9
17580723 GTAGTGATTC
*
17580733 AATTTGGTT
1 AATTCGGTT
17580742 AATTCGGTT
1 AATTCGGTT
**
17580751 AATTCGAAT
1 AATTCGGTT
17580760 AATTCGGTT
1 AATTCGGTT
*
17580769 AATTCGGGT
1 AATTCGGTT
**
17580778 AATTTAGTT
1 AATTCGGTT
*
17580787 AATTCAGTT
1 AATTCGGTT
*
17580796 AATTTGGTT
1 AATTCGGTT
17580805 AATT
1 AATT
17580809 TTTAACCAAA
Statistics
Matches: 55, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
9 55 1.00
ACGTcount: A:0.29, C:0.07, G:0.18, T:0.46
Consensus pattern (9 bp):
AATTCGGTT
Found at i:17588560 original size:19 final size:19
Alignment explanation
Indices: 17588536--17588574 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
17588526 TAACCTTCTT
*
17588536 ATTACAAATAAAATTAAAA
1 ATTACAAATAAAAATAAAA
17588555 ATTACAAATAAAAATAAAA
1 ATTACAAATAAAAATAAAA
17588574 A
1 A
17588575 GTCCTTTTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.72, C:0.05, G:0.00, T:0.23
Consensus pattern (19 bp):
ATTACAAATAAAAATAAAA
Found at i:17597372 original size:20 final size:20
Alignment explanation
Indices: 17597347--17597391 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
17597337 AAAGGAAATG
17597347 ATAAGACTAGTAAGTATG-TA
1 ATAAGA-TAGTAAGTATGATA
* *
17597367 ATAAGATATTAAGTTTGATA
1 ATAAGATAGTAAGTATGATA
17597387 ATAAG
1 ATAAG
17597392 GTAAATGAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 9 0.41
20 13 0.59
ACGTcount: A:0.47, C:0.02, G:0.18, T:0.33
Consensus pattern (20 bp):
ATAAGATAGTAAGTATGATA
Found at i:17604491 original size:12 final size:12
Alignment explanation
Indices: 17604466--17604517 Score: 52
Period size: 12 Copynumber: 4.2 Consensus size: 12
17604456 ACCTATAAGA
17604466 TAAATATTAAAT
1 TAAATATTAAAT
17604478 TAAAT-TTAATAT
1 TAAATATTAA-AT
* *
17604490 TAAGATAATAACT
1 TAA-ATATTAAAT
*
17604503 TTAATATTAAAT
1 TAAATATTAAAT
17604515 TAA
1 TAA
17604518 TAAAATACTA
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
11 4 0.13
12 19 0.61
13 5 0.16
14 3 0.10
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (12 bp):
TAAATATTAAAT
Found at i:17604518 original size:20 final size:19
Alignment explanation
Indices: 17604468--17604520 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 19
17604458 CTATAAGATA
17604468 AATATTAAATT-A-AATTT
1 AATATTAAATTAATAATTT
17604485 AATATTAAGA-TAATAACTTT
1 AATATTAA-ATTAATAA-TTT
17604505 AATATTAAATTAATAA
1 AATATTAAATTAATAA
17604521 AATACTATCA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
17 9 0.29
18 2 0.06
19 3 0.10
20 17 0.55
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (19 bp):
AATATTAAATTAATAATTT
Found at i:17604554 original size:36 final size:34
Alignment explanation
Indices: 17604503--17604578 Score: 107
Period size: 36 Copynumber: 2.1 Consensus size: 34
17604493 GATAATAACT
*
17604503 TTAATATTAAATTAATAAAATACTATCATGATAAGTA
1 TTAA-ATTAAATTAATAAAATACTATAAT-A-AAGTA
*
17604540 TTAAATTAAATTAATAAAATTCTATAATAAAGTA
1 TTAAATTAAATTAATAAAATACTATAATAAAGTA
17604574 TTAAA
1 TTAAA
17604579 CAAATTTCAT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
34 10 0.27
35 1 0.03
36 22 0.59
37 4 0.11
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.38
Consensus pattern (34 bp):
TTAAATTAAATTAATAAAATACTATAATAAAGTA
Found at i:17606567 original size:9 final size:9
Alignment explanation
Indices: 17606547--17606577 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
17606537 AAAATATCAT
17606547 ATTAATTTTA
1 ATTAA-TTTA
17606557 ATTAATTTA
1 ATTAATTTA
17606566 ATTAATTTA
1 ATTAATTTA
17606575 ATT
1 ATT
17606578 TTACTTAATC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 16 0.76
10 5 0.24
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (9 bp):
ATTAATTTA
Found at i:17606864 original size:15 final size:15
Alignment explanation
Indices: 17606844--17606875 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
17606834 TCACATCCCA
17606844 AAAATTGGGTTAATG
1 AAAATTGGGTTAATG
*
17606859 AAAATTGTGTTAATG
1 AAAATTGGGTTAATG
17606874 AA
1 AA
17606876 CCGAGAGTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.22, T:0.34
Consensus pattern (15 bp):
AAAATTGGGTTAATG
Found at i:17614103 original size:40 final size:41
Alignment explanation
Indices: 17614007--17614109 Score: 145
Period size: 41 Copynumber: 2.5 Consensus size: 41
17613997 GACTTCGAGT
* * * * *
17614007 CGATGAGACATTGGGTGTCAATTTATTACTTCGGATTTATT
1 CGATGAGGCACTGGGTGTCAATTTAATACTTCGGAATTATC
17614048 CGATGAGGCACTGGGTGTCAATTTAATACTTC-GAATTATC
1 CGATGAGGCACTGGGTGTCAATTTAATACTTCGGAATTATC
*
17614088 CGATGAGGCACTGGGTGCCAAT
1 CGATGAGGCACTGGGTGTCAAT
17614110 CTGGTGTGTT
Statistics
Matches: 56, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
40 27 0.48
41 29 0.52
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (41 bp):
CGATGAGGCACTGGGTGTCAATTTAATACTTCGGAATTATC
Found at i:17615921 original size:37 final size:37
Alignment explanation
Indices: 17615879--17615954 Score: 116
Period size: 37 Copynumber: 2.1 Consensus size: 37
17615869 GTATTTAGGT
*
17615879 ACCCAAAATACAATGAACGTCAGAAGTGAATTAATGC
1 ACCCAAAATACAATGAACGTCACAAGTGAATTAATGC
* * *
17615916 ACCCAACATACCATGAACGTTACAAGTGAATTAATGC
1 ACCCAAAATACAATGAACGTCACAAGTGAATTAATGC
17615953 AC
1 AC
17615955 AAACGGATTC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.43, C:0.22, G:0.14, T:0.20
Consensus pattern (37 bp):
ACCCAAAATACAATGAACGTCACAAGTGAATTAATGC
Found at i:17620517 original size:24 final size:24
Alignment explanation
Indices: 17620490--17620536 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
17620480 CGGTGCTATC
17620490 TTGATTATGCACTTCCGTGTTGTT
1 TTGATTATGCACTTCCGTGTTGTT
* **
17620514 TTGATTATGTACTTTGGTGTTGT
1 TTGATTATGCACTTCCGTGTTGT
17620537 CCTGTTCTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.13, C:0.11, G:0.23, T:0.53
Consensus pattern (24 bp):
TTGATTATGCACTTCCGTGTTGTT
Found at i:17621773 original size:29 final size:28
Alignment explanation
Indices: 17621692--17621865 Score: 147
Period size: 30 Copynumber: 6.0 Consensus size: 28
17621682 CCCCTGTACT
17621692 TTTC-AAAATTTACATTTTGACCCCAAAC
1 TTTCTAAAA-TTACATTTTGACCCCAAAC
17621720 TTTTCTAAAATTTACATTTTGACCCCAAAAC
1 -TTTCTAAAA-TTACATTTTGACCCC-AAAC
* *
17621751 TTTCTAAAATTACATTTTGACCCTTAGAC
1 TTTCTAAAATTACATTTTGACCC-CAAAC
* *
17621780 TTTCTCAAAATTGCACTTTGACCCCTAAAC
1 TTTCT-AAAATTACATTTTGACCCC-AAAC
* * * * *
17621810 TCTCAAGAAATTACATTTTG-GCCCATAT
1 TTTCTA-AAATTACATTTTGACCCCAAAC
*
17621838 TTTGCTAAAATTACTCTTTTG-CCCCAAA
1 TTT-CTAAAATTAC-ATTTTGACCCCAAA
17621866 AACTTTGCAT
Statistics
Matches: 119, Mismatches: 18, Indels: 16
0.78 0.12 0.10
Matches are distributed among these distances:
28 11 0.09
29 42 0.35
30 62 0.52
31 4 0.03
ACGTcount: A:0.32, C:0.24, G:0.06, T:0.37
Consensus pattern (28 bp):
TTTCTAAAATTACATTTTGACCCCAAAC
Found at i:17621790 original size:30 final size:30
Alignment explanation
Indices: 17621674--17621829 Score: 153
Period size: 30 Copynumber: 5.2 Consensus size: 30
17621664 CTATTTTTTG
* **
17621674 CATTTTAACCCCTGTACTTT-TCAAAATTTA
1 CATTTTGACCCCTAAACTTTCTCAAAA-TTA
17621704 CATTTTGACCCC-AAACTTT-TCTAAAATTTA
1 CATTTTGACCCCTAAACTTTCTC-AAAA-TTA
*
17621734 CATTTTGACCCCAAAACTTTCT-AAAATTA
1 CATTTTGACCCCTAAACTTTCTCAAAATTA
* * *
17621763 CATTTTGACCCTTAGACTTTCTCAAAATTG
1 CATTTTGACCCCTAAACTTTCTCAAAATTA
*
17621793 CACTTTGACCCCTAAAC--TCTCAAGAAATTA
1 CATTTTGACCCCTAAACTTTCTC-A-AAATTA
17621823 CATTTTG
1 CATTTTG
17621830 GCCCATATTT
Statistics
Matches: 108, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
28 4 0.04
29 30 0.28
30 66 0.61
31 7 0.06
32 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.06, T:0.38
Consensus pattern (30 bp):
CATTTTGACCCCTAAACTTTCTCAAAATTA
Found at i:17621800 original size:59 final size:58
Alignment explanation
Indices: 17621692--17621871 Score: 156
Period size: 59 Copynumber: 3.1 Consensus size: 58
17621682 CCCCTGTACT
*
17621692 TTTCAAAATTTACATTTTGACCCCAAACTTTTCTAAAATTTACATTTTGACCCCAAAAC
1 TTTCAAAA-TTACATTTTGACCCCAAACTTTTCTAAAATTTACACTTTGACCCCAAAAC
* * * *
17621751 TTTCTAAAATTACATTTTGACCCTTAGAC-TTTCTCAAAA-TTGCACTTTGACCCCTAAAC
1 TTTC-AAAATTACATTTTGACCC-CAAACTTTTCT-AAAATTTACACTTTGACCCCAAAAC
* * * *
17621810 TCTCAAGAAATTACATTTTG-GCCCATA-TTTTGCTAAAA-TTACTCTTTTG-CCCCAAAAAC
1 TTTC-A-AAATTACATTTTGACCCCAAACTTTT-CTAAAATTTACAC-TTTGACCCC-AAAAC
17621869 TTT
1 TTT
17621872 GCATCCCATG
Statistics
Matches: 99, Mismatches: 14, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
58 17 0.17
59 58 0.59
60 24 0.24
ACGTcount: A:0.32, C:0.24, G:0.06, T:0.38
Consensus pattern (58 bp):
TTTCAAAATTACATTTTGACCCCAAACTTTTCTAAAATTTACACTTTGACCCCAAAAC
Found at i:17622207 original size:14 final size:14
Alignment explanation
Indices: 17622188--17622226 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
17622178 AGCAAGCATA
17622188 AGCAAAAAAAAAAC
1 AGCAAAAAAAAAAC
* *
17622202 AGCAAACAAGAAAC
1 AGCAAAAAAAAAAC
*
17622216 AACAAAAAAAA
1 AGCAAAAAAAA
17622227 CAGCAAAGAA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.77, C:0.15, G:0.08, T:0.00
Consensus pattern (14 bp):
AGCAAAAAAAAAAC
Found at i:17622363 original size:6 final size:6
Alignment explanation
Indices: 17622356--17622414 Score: 64
Period size: 6 Copynumber: 9.3 Consensus size: 6
17622346 CGACCCGAAG
* * *
17622356 AAGAAG AAGAAA AAGAAA AAGAAA GAAGGAAA AAGAGAG AAGAAA AAGAGA
1 AAGAAA AAGAAA AAGAAA AAGAAA -AA-GAAA AAGA-AA AAGAAA AAGAAA
17622407 AAGAAA AA
1 AAGAAA AA
17622415 AAAGAAATAT
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
6 32 0.71
7 9 0.20
8 4 0.09
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (6 bp):
AAGAAA
Found at i:17622420 original size:13 final size:14
Alignment explanation
Indices: 17622353--17622421 Score: 74
Period size: 14 Copynumber: 5.1 Consensus size: 14
17622343 GTACGACCCG
*
17622353 AAGAAG-AAGAAGA
1 AAGAAGAAAAAAGA
17622366 AA-AAG-AAAAAGA
1 AAGAAGAAAAAAGA
*
17622378 AAGAAGGAAAAAGA
1 AAGAAGAAAAAAGA
*
17622392 GAGAAGAAAAAGAGA
1 AAGAAGAAAAA-AGA
17622407 AAGAA-AAAAAAGA
1 AAGAAGAAAAAAGA
17622420 AA
1 AA
17622422 TATATCACAG
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
12 11 0.22
13 10 0.20
14 21 0.43
15 7 0.14
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (14 bp):
AAGAAGAAAAAAGA
Found at i:17622542 original size:15 final size:16
Alignment explanation
Indices: 17622524--17622553 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
17622514 AAAAAACCAA
17622524 AACAG-AAAAAGAAAC
1 AACAGAAAAAAGAAAC
17622539 AACAGAAAAAAGAAA
1 AACAGAAAAAAGAAA
17622554 GAAAGAAAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.77, C:0.10, G:0.13, T:0.00
Consensus pattern (16 bp):
AACAGAAAAAAGAAAC
Found at i:17622556 original size:4 final size:4
Alignment explanation
Indices: 17622531--17622587 Score: 50
Period size: 4 Copynumber: 14.5 Consensus size: 4
17622521 CAAAACAGAA
*
17622531 AAAG AAAC AACAG AAA- AAAG AAAG AAAG AAAG AAGCAG AAA- AAAG -AAG
1 AAAG AAAG AA-AG AAAG AAAG AAAG AAAG AAAG AA--AG AAAG AAAG AAAG
17622579 -AAG AAAG AA
1 AAAG AAAG AA
17622588 GCAGCCCAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 12
0.76 0.03 0.20
Matches are distributed among these distances:
3 12 0.27
4 26 0.58
5 3 0.07
6 4 0.09
ACGTcount: A:0.74, C:0.05, G:0.21, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:17622558 original size:24 final size:27
Alignment explanation
Indices: 17622527--17622587 Score: 85
Period size: 24 Copynumber: 2.4 Consensus size: 27
17622517 AAACCAAAAC
17622527 AGAA-AAAGAAACAA-CAGAAAAAAG-
1 AGAAGAAAGAAACAAGCAGAAAAAAGA
*
17622551 A-AAGAAAGAAAGAAGCAGAAAAAAGA
1 AGAAGAAAGAAACAAGCAGAAAAAAGA
17622577 AGAAGAAAGAA
1 AGAAGAAAGAA
17622588 GCAGCCCAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
23 2 0.06
24 10 0.31
25 10 0.31
26 1 0.03
27 9 0.28
ACGTcount: A:0.74, C:0.05, G:0.21, T:0.00
Consensus pattern (27 bp):
AGAAGAAAGAAACAAGCAGAAAAAAGA
Found at i:17622669 original size:22 final size:24
Alignment explanation
Indices: 17622623--17622673 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
17622613 GCAGCAGGCC
17622623 CAGCAGGCCCCCAGGCCCAGTGCAG
1 CAGCAGGCCCCCAGGCCCAG-GCAG
*
17622648 CAGCA-GCCCCCAGGCCTA-GCAG
1 CAGCAGGCCCCCAGGCCCAGGCAG
17622670 CAGC
1 CAGC
17622674 CCAACAGGCC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 8 0.32
24 12 0.48
25 5 0.20
ACGTcount: A:0.22, C:0.45, G:0.29, T:0.04
Consensus pattern (24 bp):
CAGCAGGCCCCCAGGCCCAGGCAG
Found at i:17622683 original size:20 final size:19
Alignment explanation
Indices: 17622646--17622683 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
17622636 GGCCCAGTGC
*
17622646 AGCAGCAGCCCCCAGGCCT
1 AGCAGCAGCCCACAGGCCT
17622665 AGCAGCAGCCCAACAGGCC
1 AGCAGCAGCCC-ACAGGCC
17622684 AGCCCAGTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.26, C:0.45, G:0.26, T:0.03
Consensus pattern (19 bp):
AGCAGCAGCCCACAGGCCT
Found at i:17622720 original size:11 final size:11
Alignment explanation
Indices: 17622694--17622749 Score: 50
Period size: 10 Copynumber: 5.5 Consensus size: 11
17622684 AGCCCAGTCC
17622694 AGAAAAA-A-A
1 AGAAAAAGAGA
17622703 AGAAAAAGAGA
1 AGAAAAAGAGA
*
17622714 GGAAAAA-AGA
1 AGAAAAAGAGA
*
17622724 AGATAAA-AGA
1 AGAAAAAGAGA
*
17622734 AGAAAAAAAGA
1 AGAAAAAGAGA
17622745 A-AAAA
1 AGAAAA
17622750 GAAAAAAGGG
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
9 7 0.17
10 22 0.55
11 11 0.28
ACGTcount: A:0.79, C:0.00, G:0.20, T:0.02
Consensus pattern (11 bp):
AGAAAAAGAGA
Found at i:17622726 original size:21 final size:20
Alignment explanation
Indices: 17622695--17622749 Score: 69
Period size: 21 Copynumber: 2.8 Consensus size: 20
17622685 GCCCAGTCCA
17622695 GAAAAAA-AAGAAAAAGAGAG
1 GAAAAAAGAAGAAAAAGA-AG
17622715 GAAAAAAGAAGATAAAAGAAG
1 GAAAAAAGAAGA-AAAAGAAG
*
17622736 AAAAAAAGAA-AAAA
1 GAAAAAAGAAGAAAA
17622750 GAAAAAAGGG
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
19 3 0.09
20 8 0.25
21 15 0.47
22 6 0.19
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (20 bp):
GAAAAAAGAAGAAAAAGAAG
Found at i:17622750 original size:18 final size:18
Alignment explanation
Indices: 17622697--17622756 Score: 68
Period size: 18 Copynumber: 3.2 Consensus size: 18
17622687 CCAGTCCAGA
*
17622697 AAAAAAAGAAAAAGAGAGG
1 AAAAAAAGAAAAA-AGAAG
*
17622716 AAAAAAGAAGATAAAAGAAG
1 -AAAAA-AAGAAAAAAGAAG
17622736 AAAAAAAGAAAAAAGAA-
1 AAAAAAAGAAAAAAGAAG
17622753 AAAA
1 AAAA
17622757 GGGGTTTTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
17 4 0.11
18 11 0.31
19 5 0.14
20 9 0.25
21 7 0.19
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (18 bp):
AAAAAAAGAAAAAAGAAG
Found at i:17623084 original size:18 final size:17
Alignment explanation
Indices: 17623063--17623404 Score: 155
Period size: 17 Copynumber: 19.3 Consensus size: 17
17623053 TAAATATTCA
17623063 AAAAATTTCGTGTTTTC
1 AAAAATTTCGTGTTTTC
*
17623080 GAAAAATTCCCGTG-TTT-
1 -AAAAATT-TCGTGTTTTC
*
17623097 AAAAGTTTTCGTGTTTTC
1 AAAA-ATTTCGTGTTTTC
*
17623115 AAAATTTTCGTG-TTTC
1 AAAAATTTCGTGTTTTC
* *
17623131 AAAAATCCTAGTGTTTTC
1 AAAAAT-TTCGTGTTTTC
**
17623149 AAAAATCCCG-GTGTTTC
1 AAAAATTTCGTGT-TTTC
*
17623166 AAAAATTTTCGTGTTCTC
1 AAAAA-TTTCGTGTTTTC
**
17623184 AAAAA-TTC-TGATGATC
1 AAAAATTTCGTG-TTTTC
*
17623200 AAAATTTTTTTCTCGTGTTTTC
1 AAAA----ATT-TCGTGTTTTC
*
17623222 TAAAAAATTCCGTG-TTTC
1 --AAAAATTTCGTGTTTTC
17623240 AAAAATTTTCGTGTTTTTC
1 AAAAA-TTTCGTG-TTTTC
* *
17623259 AACAATTCTCGTG-TTTG
1 AAAAATT-TCGTGTTTTC
*
17623276 AAAAATTTCCG-CTTTTC
1 AAAAATTT-CGTGTTTTC
** **
17623293 AAAAAAATATTGTTTTC
1 AAAAATTTCGTGTTTTC
17623310 AAAAAATTGTCGTGTTTTC
1 -AAAAATT-TCGTGTTTTC
*
17623329 AAAAAATATTCGTGTTTTT
1 -AAAAAT-TTCGTGTTTTC
* *
17623348 AAGAATTTTCGTG-TCTC
1 AA-AAATTTCGTGTTTTC
* *
17623365 TAAAATTCTCGTGTTTTA
1 AAAAATT-TCGTGTTTTC
** *
17623383 AAAAAAATCGTATTTTC
1 AAAAATTTCGTGTTTTC
17623400 AAAAA
1 AAAAA
17623405 AAATTGTTTC
Statistics
Matches: 246, Mismatches: 46, Indels: 65
0.69 0.13 0.18
Matches are distributed among these distances:
15 2 0.01
16 39 0.16
17 80 0.33
18 60 0.24
19 50 0.20
20 3 0.01
21 1 0.00
22 5 0.02
23 2 0.01
24 4 0.02
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.43
Consensus pattern (17 bp):
AAAAATTTCGTGTTTTC
Found at i:17623109 original size:35 final size:35
Alignment explanation
Indices: 17623059--17623404 Score: 199
Period size: 35 Copynumber: 9.7 Consensus size: 35
17623049 ATTGTAAATA
*
17623059 TTCAAAAAATTTCGTGTTTTCGAAAAATTCCCGTGT
1 TTCAAAAATTTTCGTGTTTTC-AAAAATTCCCGTGT
* **
17623095 TT-AAAAGTTTTCGTGTTTTC-AAAATTTTCGTGT
1 TTCAAAAATTTTCGTGTTTTCAAAAATTCCCGTGT
** *
17623128 TTCAAAAATCCTAGTGTTTTCAAAAA-TCCCGGTGT
1 TTCAAAAATTTTCGTGTTTTCAAAAATTCCC-GTGT
* *
17623163 TTCAAAAATTTTCGTGTTCTCAAAAATT-CTGATG-
1 TTCAAAAATTTTCGTGTTTTCAAAAATTCCCG-TGT
* *
17623197 ATCAAAATTTTTTTCTCGTGTTTTCTAAAAAATT-CCGTGT
1 TTCAAAA---ATTT-TCGTGTTTTC--AAAAATTCCCGTGT
* *
17623237 TTCAAAAATTTTCGTGTTTTTCAACAATTCTCGTGT
1 TTCAAAAATTTTCGTG-TTTTCAAAAATTCCCGTGT
* * * * ***
17623273 TTGAAAAATTTCCG-CTTTTCAAAAAAATATTGT-T
1 TTCAAAAATTTTCGTGTTTTC-AAAAATTCCCGTGT
* *
17623307 TTCAAAAAATTGTCGTGTTTTCAAAAAATAT-TCGTGTT
1 TTC-AAAAATTTTCGTGTTTTC-AAAAAT-TCCCGTG-T
* * * * *
17623345 TTTAAGAATTTTCGTG-TCTCTAAAATTCTCGTGT
1 TTCAAAAATTTTCGTGTTTTCAAAAATTCCCGTGT
* *** *
17623379 TTTAAAAAAAATCGTATTTTCAAAAA
1 TTCAAAAATTTTCGTGTTTTCAAAAA
17623405 AAATTGTTTC
Statistics
Matches: 240, Mismatches: 48, Indels: 45
0.72 0.14 0.14
Matches are distributed among these distances:
33 13 0.05
34 44 0.18
35 89 0.37
36 42 0.17
37 23 0.10
38 12 0.05
39 2 0.01
40 15 0.06
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.43
Consensus pattern (35 bp):
TTCAAAAATTTTCGTGTTTTCAAAAATTCCCGTGT
Found at i:17623393 original size:17 final size:17
Alignment explanation
Indices: 17623373--17623439 Score: 59
Period size: 16 Copynumber: 4.1 Consensus size: 17
17623363 TCTAAAATTC
17623373 TCGTGTTTTAAAAAAAA
1 TCGTGTTTTAAAAAAAA
*
17623390 TCGTATTTTCAAAAAAAA
1 TCGTGTTTT-AAAAAAAA
* ***
17623408 T--TGTTTCAAAAATCT
1 TCGTGTTTTAAAAAAAA
17623423 TCGTG-TTTAAAAAAAA
1 TCGTGTTTTAAAAAAAA
17623439 T
1 T
17623440 TTGTATTTTG
Statistics
Matches: 37, Mismatches: 10, Indels: 7
0.69 0.19 0.13
Matches are distributed among these distances:
15 6 0.16
16 12 0.32
17 10 0.27
18 9 0.24
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.37
Consensus pattern (17 bp):
TCGTGTTTTAAAAAAAA
Found at i:17623405 original size:18 final size:17
Alignment explanation
Indices: 17623373--17623408 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
17623363 TCTAAAATTC
*
17623373 TCGTGTTTTAAAAAAAA
1 TCGTATTTTAAAAAAAA
17623390 TCGTATTTTCAAAAAAAA
1 TCGTATTTT-AAAAAAAA
17623408 T
1 T
17623409 TGTTTCAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.47, C:0.08, G:0.08, T:0.36
Consensus pattern (17 bp):
TCGTATTTTAAAAAAAA
Found at i:17629689 original size:1 final size:1
Alignment explanation
Indices: 17629683--17629757 Score: 60
Period size: 1 Copynumber: 75.0 Consensus size: 1
17629673 TATTATGCTT
* * * * * * * * *
17629683 AAAAAAAACAAACAAAAAAATAGAAAAAAAACAGAAAAAAACAAAAAAACAAAAAAACAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
17629748 AAAGAAAAAA
1 AAAAAAAAAA
17629758 TCAAGATGAA
Statistics
Matches: 54, Mismatches: 20, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 54 1.00
ACGTcount: A:0.87, C:0.08, G:0.04, T:0.01
Consensus pattern (1 bp):
A
Found at i:17629701 original size:11 final size:11
Alignment explanation
Indices: 17629683--17629757 Score: 69
Period size: 12 Copynumber: 6.4 Consensus size: 11
17629673 TATTATGCTT
17629683 AAAAAAAACAA
1 AAAAAAAACAA
*
17629694 ACAAAAAAATAGA
1 A-AAAAAAACA-A
*
17629707 AAAAAAACAGAA
1 AAAAAAA-ACAA
*
17629719 AAAAACAAAAAA
1 AAAAA-AAACAA
17629731 ACAAAAAAACAA
1 A-AAAAAAACAA
*
17629743 AAAAAAAAGAA
1 AAAAAAAACAA
17629754 AAAA
1 AAAA
17629758 TCAAGATGAA
Statistics
Matches: 54, Mismatches: 5, Indels: 10
0.78 0.07 0.14
Matches are distributed among these distances:
11 14 0.26
12 30 0.56
13 10 0.19
ACGTcount: A:0.87, C:0.08, G:0.04, T:0.01
Consensus pattern (11 bp):
AAAAAAAACAA
Found at i:17629728 original size:18 final size:19
Alignment explanation
Indices: 17629686--17629757 Score: 80
Period size: 19 Copynumber: 3.9 Consensus size: 19
17629676 TATGCTTAAA
*
17629686 AAAAACAAACA-AAAAAATAG
1 AAAAA-AAACAGAAAAAA-AC
17629706 AAAAAAAACAGAAAAAAAC
1 AAAAAAAACAGAAAAAAAC
17629725 -AAAAAAAC--AAAAAAAC
1 AAAAAAAACAGAAAAAAAC
*
17629741 AAAAAAAAAAGAAAAAA
1 AAAAAAAACAGAAAAAA
17629758 TCAAGATGAA
Statistics
Matches: 46, Mismatches: 2, Indels: 9
0.81 0.04 0.16
Matches are distributed among these distances:
16 8 0.17
17 7 0.15
18 8 0.17
19 12 0.26
20 11 0.24
ACGTcount: A:0.86, C:0.08, G:0.04, T:0.01
Consensus pattern (19 bp):
AAAAAAAACAGAAAAAAAC
Found at i:17629755 original size:26 final size:26
Alignment explanation
Indices: 17629707--17629757 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
17629697 AAAAAATAGA
*
17629707 AAAAAAACAGAAAAAAACAAAAAAAC
1 AAAAAAACAGAAAAAAAAAAAAAAAC
17629733 AAAAAAACA-AAAAAAAAAGAAAAAA
1 AAAAAAACAGAAAAAAAAA-AAAAAA
17629758 TCAAGATGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 8 0.35
26 15 0.65
ACGTcount: A:0.88, C:0.08, G:0.04, T:0.00
Consensus pattern (26 bp):
AAAAAAACAGAAAAAAAAAAAAAAAC
Found at i:17629757 original size:8 final size:8
Alignment explanation
Indices: 17629684--17629747 Score: 69
Period size: 8 Copynumber: 7.9 Consensus size: 8
17629674 ATTATGCTTA
17629684 AAAAAAAC
1 AAAAAAAC
17629692 AAACAAAA-
1 AAA-AAAAC
17629700 AAATAGAAA-
1 AAA-A-AAAC
* *
17629709 AAAAACAG
1 AAAAAAAC
17629717 AAAAAAAC
1 AAAAAAAC
17629725 AAAAAAAC
1 AAAAAAAC
17629733 AAAAAAAC
1 AAAAAAAC
17629741 AAAAAAA
1 AAAAAAA
17629748 AAAGAAAAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
7 2 0.04
8 37 0.76
9 10 0.20
ACGTcount: A:0.86, C:0.09, G:0.03, T:0.02
Consensus pattern (8 bp):
AAAAAAAC
Found at i:17630813 original size:75 final size:75
Alignment explanation
Indices: 17630630--17630829 Score: 208
Period size: 75 Copynumber: 2.6 Consensus size: 75
17630620 AAAATCTGTT
*
17630630 TTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTC-GGACCATGCCGAGGTATTTC
1 TTTTTCGAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGACCATGCCGAGGTA--T-
17630694 TTTTAAATTTATG
63 TTTTAAATTTATG
* * * * *
17630707 TTTTTTGAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACATGTCGAGGTA-T
1 TTTTTCGAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGAC-CATGCCGAGGTATT
** *
17630771 TTTCGATTTTTG
64 TTTAAATTTATG
* * * *
17630783 TTTTTCG-AAGATCAACTCATAATCCAAGAGGTGAGTTAAGTCTCGGG
1 TTTTTCGAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGG
17630830 TCGCACGCTG
Statistics
Matches: 104, Mismatches: 16, Indels: 8
0.81 0.12 0.06
Matches are distributed among these distances:
75 34 0.33
76 16 0.15
77 22 0.21
78 18 0.17
79 3 0.03
80 11 0.11
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.34
Consensus pattern (75 bp):
TTTTTCGAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGACCATGCCGAGGTATTTT
TAAATTTATG
Found at i:17631063 original size:30 final size:30
Alignment explanation
Indices: 17631044--17631162 Score: 131
Period size: 30 Copynumber: 4.0 Consensus size: 30
17631034 TAACCCCTGT
17631044 ACTTTTC-AAAATTTACATTTTGACCCCAA
1 ACTTTTCTAAAATTTACATTTTGACCCCAA
17631073 ACTTTTCTAAAATTTACATTTTGACCCCAAA
1 ACTTTTCTAAAATTTACATTTTGACCCC-AA
* * *
17631104 AC-TTTCTAAAA-TTACATTTCGACCCTTAG
1 ACTTTTCTAAAATTTACATTTTGACCC-CAA
* *
17631133 AC-TTTCTCAAAA-TTGCACTTTGACCCCAA
1 ACTTTTCT-AAAATTTACATTTTGACCCCAA
17631162 A
1 A
17631163 AGTCTCAAGA
Statistics
Matches: 78, Mismatches: 8, Indels: 8
0.83 0.09 0.09
Matches are distributed among these distances:
29 30 0.38
30 44 0.56
31 4 0.05
ACGTcount: A:0.34, C:0.25, G:0.05, T:0.36
Consensus pattern (30 bp):
ACTTTTCTAAAATTTACATTTTGACCCCAA
Found at i:17631077 original size:29 final size:29
Alignment explanation
Indices: 17631044--17631218 Score: 128
Period size: 30 Copynumber: 6.0 Consensus size: 29
17631034 TAACCCCTGT
17631044 ACTTTTC-AAAATTTACATTTTGACCCCAA
1 ACTTTTCTAAAA-TTACATTTTGACCCCAA
17631073 ACTTTTCTAAAATTTACATTTTGACCCCAAA
1 ACTTTTCTAAAA-TTACATTTTGACCCC-AA
* * *
17631104 AC-TTTCTAAAATTACATTTCGACCCTTAG
1 ACTTTTCTAAAATTACATTTTGACCC-CAA
* *
17631133 AC-TTTCTCAAAATTGCACTTTGACCCCAA
1 ACTTTTCT-AAAATTACATTTTGACCCCAA
** * * * *
17631162 AAGTCTCAAGAAATTACATTTTG-GCCCAT
1 ACTTTTCTA-AAATTACATTTTGACCCCAA
*
17631191 A-TTTTGCTAAAATTATACTTTT-ACCCCA
1 ACTTTT-CTAAAATTACA-TTTTGACCCCA
17631219 GAAACTTTGC
Statistics
Matches: 117, Mismatches: 20, Indels: 18
0.75 0.13 0.12
Matches are distributed among these distances:
28 9 0.08
29 46 0.39
30 58 0.50
31 4 0.03
ACGTcount: A:0.33, C:0.24, G:0.06, T:0.37
Consensus pattern (29 bp):
ACTTTTCTAAAATTACATTTTGACCCCAA
Found at i:17631583 original size:14 final size:14
Alignment explanation
Indices: 17631564--17631602 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
17631554 AGCAAGCATA
17631564 AGCAAAAAAAAAAC
1 AGCAAAAAAAAAAC
* *
17631578 AGCAAACAAGAAAC
1 AGCAAAAAAAAAAC
*
17631592 AACAAAAAAAA
1 AGCAAAAAAAA
17631603 TAGCAAAGAA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.77, C:0.15, G:0.08, T:0.00
Consensus pattern (14 bp):
AGCAAAAAAAAAAC
Found at i:17631739 original size:6 final size:6
Alignment explanation
Indices: 17631732--17631790 Score: 64
Period size: 6 Copynumber: 9.3 Consensus size: 6
17631722 CGGCCCGAAG
* * *
17631732 AAGAAG AAGAAA AAGAAA AAGAAA GAAGGAAA AAGAGAG AAGAAA AAGAGA
1 AAGAAA AAGAAA AAGAAA AAGAAA -AA-GAAA AAGA-AA AAGAAA AAGAAA
17631783 AAGAAA AA
1 AAGAAA AA
17631791 AAAGAAATAT
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
6 32 0.71
7 9 0.20
8 4 0.09
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (6 bp):
AAGAAA
Found at i:17631796 original size:13 final size:14
Alignment explanation
Indices: 17631729--17631797 Score: 74
Period size: 14 Copynumber: 5.1 Consensus size: 14
17631719 GTACGGCCCG
*
17631729 AAGAAG-AAGAAGA
1 AAGAAGAAAAAAGA
17631742 AA-AAG-AAAAAGA
1 AAGAAGAAAAAAGA
*
17631754 AAGAAGGAAAAAGA
1 AAGAAGAAAAAAGA
*
17631768 GAGAAGAAAAAGAGA
1 AAGAAGAAAAA-AGA
17631783 AAGAA-AAAAAAGA
1 AAGAAGAAAAAAGA
17631796 AA
1 AA
17631798 TATATCACAG
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
12 11 0.22
13 10 0.20
14 21 0.43
15 7 0.14
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (14 bp):
AAGAAGAAAAAAGA
Found at i:17631932 original size:4 final size:4
Alignment explanation
Indices: 17631923--17631968 Score: 51
Period size: 4 Copynumber: 11.5 Consensus size: 4
17631913 GCAGCAAGAA
*
17631923 AAAG AAAG AAAG AAAG AAAG AAGCAG AAAA AAAG -AAG -AAG AAAG AA
1 AAAG AAAG AAAG AAAG AAAG AA--AG AAAG AAAG AAAG AAAG AAAG AA
17631969 GCAGCCCAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
3 6 0.16
4 27 0.73
6 4 0.11
ACGTcount: A:0.74, C:0.02, G:0.24, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:17631943 original size:32 final size:28
Alignment explanation
Indices: 17631907--17631968 Score: 88
Period size: 32 Copynumber: 2.1 Consensus size: 28
17631897 CAAAACAGAA
17631907 AAAGAAGCAGCAAGAAAAAGAAAGAAAGAAAG
1 AAAGAAGCAG-AA-AAAAAG-AAG-AAGAAAG
17631939 AAAGAAGCAGAAAAAAAGAAGAAGAAAG
1 AAAGAAGCAGAAAAAAAGAAGAAGAAAG
17631967 AA
1 AA
17631969 GCAGCCCAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
28 9 0.30
29 3 0.10
30 6 0.20
31 2 0.07
32 10 0.33
ACGTcount: A:0.71, C:0.05, G:0.24, T:0.00
Consensus pattern (28 bp):
AAAGAAGCAGAAAAAAAGAAGAAGAAAG
Found at i:17631968 original size:24 final size:27
Alignment explanation
Indices: 17631922--17631972 Score: 81
Period size: 24 Copynumber: 2.0 Consensus size: 27
17631912 AGCAGCAAGA
17631922 AAAAGAAAGAAAGAAAGAAAGAAGCAG
1 AAAAGAAAGAAAGAAAGAAAGAAGCAG
17631949 AAAA-AAAG-AAG-AAGAAAGAAGCAG
1 AAAAGAAAGAAAGAAAGAAAGAAGCAG
17631973 CCCAAATGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
24 13 0.54
25 3 0.12
26 4 0.17
27 4 0.17
ACGTcount: A:0.71, C:0.04, G:0.25, T:0.00
Consensus pattern (27 bp):
AAAAGAAAGAAAGAAAGAAAGAAGCAG
Found at i:17632038 original size:24 final size:26
Alignment explanation
Indices: 17632003--17632053 Score: 79
Period size: 24 Copynumber: 2.0 Consensus size: 26
17631993 GCAGCAGGCC
17632003 CAGCAGGCCCCCAGGCCCAGT-GCAG
1 CAGCAGGCCCCCAGGCCCAGTAGCAG
*
17632028 CAGCA-GCCCCCAGGCCTAGTAGCAG
1 CAGCAGGCCCCCAGGCCCAGTAGCAG
17632053 C
1 C
17632054 CCAACAGGCC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 14 0.58
25 10 0.42
ACGTcount: A:0.22, C:0.43, G:0.29, T:0.06
Consensus pattern (26 bp):
CAGCAGGCCCCCAGGCCCAGTAGCAG
Done.