Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold867
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: 33168
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Found at i:11106 original size:22 final size:23
Alignment explanation
Indices: 11078--11133 Score: 105
Period size: 22 Copynumber: 2.5 Consensus size: 23
11068 TGGACATGTT
11078 AAAAATGCATGAAACATAAT-AA
1 AAAAATGCATGAAACATAATAAA
11100 AAAAATGCATGAAACATAATAAA
1 AAAAATGCATGAAACATAATAAA
11123 AAAAATGCATG
1 AAAAATGCATG
11134 GTCAAAGGCT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 20 0.61
23 13 0.39
ACGTcount: A:0.62, C:0.09, G:0.11, T:0.18
Consensus pattern (23 bp):
AAAAATGCATGAAACATAATAAA
Found at i:12091 original size:20 final size:20
Alignment explanation
Indices: 12044--12118 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
12034 AAAAAGACAT
*
12044 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
12063 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
12084 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
12104 AATGTATCGATACAT
1 AATGTATCGATACAT
12119 CAGGGTATGA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:12112 original size:40 final size:39
Alignment explanation
Indices: 12041--12118 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
12031 GGTAAAAAGA
* *
12041 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
12080 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
12119 CAGGGTATGA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:12726 original size:28 final size:28
Alignment explanation
Indices: 12674--12784 Score: 159
Period size: 28 Copynumber: 3.9 Consensus size: 28
12664 TTTAAAATGG
12674 TGCCACTGACTTGCGTGGGCTTTGAAAGAA
1 TGCCACTGAC-T-CGTGGGCTTTGAAAGAA
* *
12704 TGCCACTAACTCGTGGGCTTTGAAAGGA
1 TGCCACTGACTCGTGGGCTTTGAAAGAA
* *
12732 TGCCACTGACTTGTGGGCTTTGAAAGAG
1 TGCCACTGACTCGTGGGCTTTGAAAGAA
*
12760 TGCCACTGACTTGTGGGCTTTGAAA
1 TGCCACTGACTCGTGGGCTTTGAAA
12785 AGGTACCACT
Statistics
Matches: 75, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
28 65 0.87
29 1 0.01
30 9 0.12
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.28
Consensus pattern (28 bp):
TGCCACTGACTCGTGGGCTTTGAAAGAA
Found at i:12765 original size:56 final size:55
Alignment explanation
Indices: 12659--12814 Score: 204
Period size: 56 Copynumber: 2.7 Consensus size: 55
12649 TTGACTTGCA
*
12659 TGGGCTTTAAAATGGTGCCACTGACTTGCGTGGGCTTTGAAAGAATGCCACTAACTCG
1 TGGGCTTTGAAA-GGTGCCACTGACTT--GTGGGCTTTGAAAGAATGCCACTAACTCG
* * *
12717 TGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTG
1 TGGGCTTTGAAAGG-TGCCACTGACTTGTGGGCTTTGAAAGAATGCCACTAACTCG
*
12773 TGGGCTTTGAAAAGGTACCACTGACTTGTGTGGGCTTTGAAA
1 TGGGCTTTG-AAAGGTGCCACTGAC-T-TGTGGGCTTTGAAA
12815 AGGGTTGCCA
Statistics
Matches: 89, Mismatches: 5, Indels: 8
0.87 0.05 0.08
Matches are distributed among these distances:
56 44 0.49
57 8 0.09
58 37 0.42
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.29
Consensus pattern (55 bp):
TGGGCTTTGAAAGGTGCCACTGACTTGTGGGCTTTGAAAGAATGCCACTAACTCG
Found at i:12836 original size:32 final size:32
Alignment explanation
Indices: 12632--13222 Score: 721
Period size: 32 Copynumber: 18.8 Consensus size: 32
12622 ACAGTGGTGA
** **
12632 TTTGAAAAGGGTTGCCATTGACTTGCATGGGC
1 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGC
* * *
12664 TTT-AAAATGG-TGCCACTGACTTGCGTGGGC
1 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGC
** ** *
12694 TTTG-AAA-GAATGCCACTAAC-T-CGTGGGC
1 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGC
* *
12722 TTTG-AAA-GGATGCCACTGAC-T-TGTGGGC
1 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGC
* *
12750 TTTG-AAAGAG-TGCCACTGAC-T-TGTGGGC
1 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGC
* *
12778 TTTGAAAA-GG-TACCACTGACTTGTGTGGGC
1 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGC
12808 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGC
*
12840 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGC
* * *
12872 TTTGGAATGGGTTGCCACCGACTTGTGTGGAC
1 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGC
12904 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGC
* *
12936 TTTGAAAATGGTTGCCACCAACTTGTGTGGGC
1 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGC
*
12968 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGC
13000 TTTGAAAAGGGTTGCCACCACACCGACTTGTGTGGGC
1 TTTGAAAAGGGTTG----C-CACCGACTTGTGTGGGC
13037 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGC
*
13069 TTTGAAAATGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGC
*
13101 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGC
**
13133 TTTGAAAAATGTTGCCACCGACTTGTGTGGGC
1 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGC
*
13165 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGC
* * *
13197 TTTGAAATGGG-TGCCACAGAGTTGTG
1 TTTGAAAAGGGTTGCCACCGACTTGTG
13223 GATTTTAAAA
Statistics
Matches: 510, Mismatches: 36, Indels: 27
0.89 0.06 0.05
Matches are distributed among these distances:
28 71 0.14
29 7 0.01
30 48 0.09
31 21 0.04
32 330 0.65
33 1 0.00
36 1 0.00
37 31 0.06
ACGTcount: A:0.20, C:0.19, G:0.32, T:0.30
Consensus pattern (32 bp):
TTTGAAAAGGGTTGCCACCGACTTGTGTGGGC
Found at i:13302 original size:27 final size:27
Alignment explanation
Indices: 13205--14406 Score: 1963
Period size: 27 Copynumber: 44.0 Consensus size: 27
13195 GCTTTGAAAT
* *
13205 GGGTGCCACAGAGTTGTGGATTTTAAAA
1 GGGTGCCACGGAGTTGTGGA-CTTAAAA
*
13233 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
13260 GAGATGCCACGGAGTTATGGACTTAAAA
1 G-GGTGCCACGGAGTTGTGGACTTAAAA
*
13288 GGGTGCCACGGAGTTGTGGTCTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
13315 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
13342 GGGTGCCACGGAGTTGTGGTCTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
13369 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
13396 GGGTGCCACGGAGTTATGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
13423 GGGTGCCAGGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
13450 GGGTGCCACGGAGTTGTGGTCTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
13477 GGGATGCCACGGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
*
13505 GGGTGCCGCGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
13532 GGGTGCCGCGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
13559 GGGTGCCACGGAGTTGTGGTCTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
13586 GGGATGCCACGGAGTTATGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
**
13614 GGGTGCCGTGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
13641 GGGTGCCCCGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
13668 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
13695 GGATGCCACGAAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
13722 GGGATGCCACGGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
13750 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
13777 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
13804 GGGTGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
*
13832 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
**
13859 GATATGCCACGGAGTTGTGGACTTAAAA
1 G-GGTGCCACGGAGTTGTGGACTTAAAA
*
13887 GGGTGTCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
13914 GGGTGCCACGGAGTTGTGGTCTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
13941 GGGATGCCACGGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
* * *
13969 GGGTGCCGCGAAGTTATGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
13996 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
14023 GGGTGCCACGGAGTTGTGGACTTAAAAA
1 GGGTGCCACGGAGTTGTGGACTT-AAAA
14051 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
14078 GAGATGCCACGGAGTTATGGACTTAAAA
1 G-GGTGCCACGGAGTTGTGGACTTAAAA
14106 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
14133 GGGTGCCACGGAGTTGTGGTCTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
14160 GGGATGCCACGGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
14188 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
14215 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
**
14242 GAATGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
* *
14270 GGATGCCACGAAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
14297 GGGATGCCACGGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
14325 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
14352 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
14379 GGGTGCCACGGAGTTGTGGGCTTTAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
14406 G
1 G
14407 AGGTCACACT
Statistics
Matches: 1101, Mismatches: 61, Indels: 25
0.93 0.05 0.02
Matches are distributed among these distances:
27 775 0.70
28 326 0.30
ACGTcount: A:0.27, C:0.14, G:0.36, T:0.23
Consensus pattern (27 bp):
GGGTGCCACGGAGTTGTGGACTTAAAA
Found at i:13522 original size:82 final size:81
Alignment explanation
Indices: 13205--14406 Score: 1963
Period size: 82 Copynumber: 14.7 Consensus size: 81
13195 GCTTTGAAAT
* * * *
13205 GGGTGCCACAGAGTTGTGGATTTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGAGATGCCAC
1 GGGTGCCACGGAGTTGTGGA-CTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAG-GGTGCCAC
*
13270 GGAGTTATGGACTTAAAA
64 GGAGTTGTGGACTTAAAA
*
13288 GGGTGCCACGGAGTTGTGGTCTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
*
13353 AGTTGTGGTCTTAAAA
66 AGTTGTGGACTTAAAA
* *
13369 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTATGGACTTAAAAGGGTGCCAGGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
13434 AGTTGTGGACTTAAAA
66 AGTTGTGGACTTAAAA
* *
13450 GGGTGCCACGGAGTTGTGGTCTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCGCG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
13515 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
* *
13532 GGGTGCCGCGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGTCTTAAAAGGGATGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACG
*
13597 GAGTTATGGACTTAAAA
65 GAGTTGTGGACTTAAAA
** *
13614 GGGTGCCGTGGAGTTGTGGACTTAAAAGGGTGCCCCGGAGTTGTGGACTTAAAAGGGTGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
13679 AGTTGTGGACTTAAAA
66 AGTTGTGGACTTAAAA
* *
13695 GGATGCCACGAAGTTGTGGACTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
13760 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
*
13777 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACG
13842 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
** *
13859 GATATGCCACGGAGTTGTGGACTTAAAAGGGTGTCACGGAGTTGTGGACTTAAAAGGGTGCCACG
1 G-GGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
*
13924 GAGTTGTGGTCTTAAAA
65 GAGTTGTGGACTTAAAA
* * *
13941 GGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCGCGAAGTTATGGACTTAAAAGGGTGCCACG
1 GGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
14006 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
*
14023 GGGTGCCACGGAGTTGTGGACTTAAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGAGATGCCAC
1 GGGTGCCACGGAGTTGTGGACTT-AAAAGGGTGCCACGGAGTTGTGGACTTAAAAG-GGTGCCAC
*
14088 GGAGTTATGGACTTAAAA
64 GGAGTTGTGGACTTAAAA
*
14106 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGTCTTAAAAGGGATGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACG
14171 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
**
14188 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGAATGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
14253 AGTTGTGGACTTTAAAA
66 AGTTGTGGAC-TTAAAA
* *
14270 GGATGCCACGAAGTTGTGGACTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
14335 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
* *
14352 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGGCTTTAAAG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAG
14407 AGGTCACACT
Statistics
Matches: 1045, Mismatches: 63, Indels: 24
0.92 0.06 0.02
Matches are distributed among these distances:
81 284 0.27
82 609 0.58
83 152 0.15
ACGTcount: A:0.27, C:0.14, G:0.36, T:0.23
Consensus pattern (81 bp):
GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
AGTTGTGGACTTAAAA
Found at i:13538 original size:109 final size:108
Alignment explanation
Indices: 13205--14406 Score: 1963
Period size: 109 Copynumber: 11.0 Consensus size: 108
13195 GCTTTGAAAT
* * * *
13205 GGGTGCCACAGAGTTGTGGATTTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGAGATGCCAC
1 GGGTGCCACGGAGTTGTGGA-CTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAG-GGTGCCAC
* *
13270 GGAGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGGTCTTAAAA
64 GGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
*
13315 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGTCTTAAAAGGGTGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
*
13380 AGTTGTGGACTTAAAAGGGTGCCACGGAGTTATGGACTTAAAA
66 AGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
* *
13423 GGGTGCCAGGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGTCTTAAAAGGGATGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACG
*
13488 GAGTTGTGGACTTAAAAGGGTGCCGCGGAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
* *
13532 GGGTGCCGCGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGTCTTAAAAGGGATGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACG
* **
13597 GAGTTATGGACTTAAAAGGGTGCCGTGGAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
* * *
13641 GGGTGCCCCGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACGA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
13706 AGTTGTGGACTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAA
66 AGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAA
13750 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
*
13815 AGTTGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAA
66 AGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
** *
13859 GATATGCCACGGAGTTGTGGACTTAAAAGGGTGTCACGGAGTTGTGGACTTAAAAGGGTGCCACG
1 G-GGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
*
13924 GAGTTGTGGTCTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAA
* * *
13969 GGGTGCCGCGAAGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
14034 AGTTGTGGACTTAAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
66 AGTTGTGGACTT-AAAAGGGTGCCACGGAGTTGTGGACTTAAAA
* *
14078 GAGATGCCACGGAGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
1 G-GGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
*
14143 GAGTTGTGGTCTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAA
**
14188 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGAATGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
* *
14253 AGTTGTGGACTTTAAAAGGATGCCACGAAGTTGTGGACTTAAAA
66 AGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
14297 GGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
1 GGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
* *
14362 GAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGGCTTTAAA
65 GAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
14406 G
1 G
14407 AGGTCACACT
Statistics
Matches: 1027, Mismatches: 55, Indels: 21
0.93 0.05 0.02
Matches are distributed among these distances:
108 130 0.13
109 593 0.58
110 304 0.30
ACGTcount: A:0.27, C:0.14, G:0.36, T:0.23
Consensus pattern (108 bp):
GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
AGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
Found at i:15734 original size:23 final size:23
Alignment explanation
Indices: 15686--15737 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
15676 CATGTCCTCA
*
15686 TTTTTTTTATTTTTGTTGTTCCC
1 TTTTTTTTATTTTTGTTGTTCAC
15709 TTTTTTTTA-TTTTGCTT-TTGCAC
1 TTTTTTTTATTTTTG-TTGTT-CAC
15732 TTTTTT
1 TTTTTT
15738 CTTTTCATCT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
22 7 0.27
23 19 0.73
ACGTcount: A:0.06, C:0.12, G:0.08, T:0.75
Consensus pattern (23 bp):
TTTTTTTTATTTTTGTTGTTCAC
Found at i:15736 original size:15 final size:16
Alignment explanation
Indices: 15718--15760 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
15708 CTTTTTTTTA
15718 TTTTGCTTTTGCA-CT
1 TTTTGCTTTTGCATCT
*
15733 TTTTTCTTTT-CATCT
1 TTTTGCTTTTGCATCT
15748 TTTGTGCTTTTGC
1 TTT-TGCTTTTGC
15761 TTTTGACTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 2 0.09
15 14 0.61
16 6 0.26
17 1 0.04
ACGTcount: A:0.05, C:0.19, G:0.12, T:0.65
Consensus pattern (16 bp):
TTTTGCTTTTGCATCT
Found at i:21902 original size:23 final size:23
Alignment explanation
Indices: 21876--21932 Score: 114
Period size: 23 Copynumber: 2.5 Consensus size: 23
21866 TGGACATGTT
21876 AAAAATGCATGAAACATAATAAA
1 AAAAATGCATGAAACATAATAAA
21899 AAAAATGCATGAAACATAATAAA
1 AAAAATGCATGAAACATAATAAA
21922 AAAAATGCATG
1 AAAAATGCATG
21933 GTCAAAGGCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.63, C:0.09, G:0.11, T:0.18
Consensus pattern (23 bp):
AAAAATGCATGAAACATAATAAA
Found at i:22890 original size:20 final size:20
Alignment explanation
Indices: 22843--22917 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
22833 AAAAAGACAT
*
22843 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
22862 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
22883 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
22903 AATGTATCGATACAT
1 AATGTATCGATACAT
22918 CAGGGTATGA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:22911 original size:40 final size:39
Alignment explanation
Indices: 22840--22917 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
22830 GGTAAAAAGA
* *
22840 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
22879 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
22918 CAGGGTATGA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:24421 original size:1 final size:1
Alignment explanation
Indices: 24415--24518 Score: 73
Period size: 1 Copynumber: 104.0 Consensus size: 1
24405 CGTCCTCCAC
* * * * * * * ** *
24415 AAAAAAAAAAAAAACAAAACAAAACAAAATAAAAACAAAACAAAACAAAAAAAAAAGCAAAAACA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * *
24480 AAAATACAAAGAAAAAAACAAAAAAAAAACAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
24519 GGGGTCTGGA
Statistics
Matches: 74, Mismatches: 29, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 74 1.00
ACGTcount: A:0.86, C:0.11, G:0.02, T:0.02
Consensus pattern (1 bp):
A
Found at i:24438 original size:11 final size:11
Alignment explanation
Indices: 24413--24518 Score: 96
Period size: 10 Copynumber: 9.6 Consensus size: 11
24403 GGCGTCCTCC
24413 ACAAAAA-AAA
1 ACAAAAACAAA
24423 A-AAAAACAAA
1 ACAAAAACAAA
24433 AC-AAAACAAA
1 ACAAAAACAAA
*
24443 ATAAAAACAAA
1 ACAAAAACAAA
24454 AC-AAAACAAA
1 ACAAAAACAAA
*
24464 AAAAAAAGCAAAA
1 ACAAAAA-C-AAA
24477 ACAAAAATACAAA
1 AC-AAAA-ACAAA
*
24490 GAAAAAAACAAA
1 -ACAAAAACAAA
*
24502 AAAAAAACAAA
1 ACAAAAACAAA
24513 A-AAAAA
1 ACAAAAA
24519 GGGGTCTGGA
Statistics
Matches: 82, Mismatches: 5, Indels: 18
0.78 0.05 0.17
Matches are distributed among these distances:
9 5 0.06
10 28 0.34
11 25 0.30
12 6 0.07
13 11 0.13
14 6 0.07
15 1 0.01
ACGTcount: A:0.85, C:0.11, G:0.02, T:0.02
Consensus pattern (11 bp):
ACAAAAACAAA
Found at i:26065 original size:37 final size:37
Alignment explanation
Indices: 25982--26374 Score: 495
Period size: 37 Copynumber: 11.4 Consensus size: 37
25972 AGTGGCATCT
*
25982 TTTTCAAAGCCCACAACTCCGTGGCAC-CTTCTT--C
1 TTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCC
26016 TTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCC
1 TTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCC
* *
26053 TTTTCAAAGCCCACAAGTCAGTGGCA-TC----T---
1 TTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCC
*
26082 TTTTCAAAGCCCACAACTCCGTGGCAC-CTTCTT--C
1 TTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCC
26116 TTTTCAAAGCCCACAACTCCGTGGCACTC----T---
1 TTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCC
26146 TTTT-AAAGCCCACAACTCCGTGGCACTCTTTTTCCC
1 TTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCC
*
26182 TTTTCAAAGCCCACAACTCTGTGGCACTCTTTTTCCC
1 TTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCC
26219 TTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCC
1 TTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCC
26256 TTTTCAAAGCCCACAACTCCGTGGCACT-TTTTT--C
1 TTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCC
26290 TTTT-AAAGCCCACAACTCCGTGGCACTCTTTTTCCC
1 TTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCC
* *
26326 TTTT--AAGTCCACAACTCCGTGGCA-TCTTTCTCCC
1 TTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCC
*
26360 -TTCCTAAAGCCCACA
1 TTTTC-AAAGCCCACA
26375 CAAGTCGGTG
Statistics
Matches: 324, Mismatches: 11, Indels: 46
0.85 0.03 0.12
Matches are distributed among these distances:
29 49 0.15
30 4 0.01
31 1 0.00
32 1 0.00
33 27 0.08
34 73 0.23
35 25 0.08
36 24 0.07
37 120 0.37
ACGTcount: A:0.21, C:0.36, G:0.12, T:0.32
Consensus pattern (37 bp):
TTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCC
Found at i:26128 original size:100 final size:102
Alignment explanation
Indices: 25955--26407 Score: 490
Period size: 100 Copynumber: 4.4 Consensus size: 102
25945 TTCTTTACCC
25955 TTCAAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCCACAACTCCGTGGCAC-CTTCTT-CTT
1 TTCAAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCCACAACTCCGTGGCACTCTTCTTCCTT
26018 TTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTT
66 TTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTT
26055 TTCAAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCCACAACTCCGTGGCAC-CTTCTT-CTT
1 TTCAAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCCACAACTCCGTGGCACTCTTCTTCCTT
26118 TTCAAAGCCCACAACTCCGTGGCACTC----T---TT
66 TTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTT
* * *
26148 TT-AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCTGTGGCACTCT
1 TTCAAAGCCCACAAGTCAGTGGCA-TC----T---TTTTCAAAGCCCACAACTCCGTGGCACTCT
*
26212 TTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTT
58 TCTT-CCTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTT
* * *
26258 TTCAAAGCCCACAACTCCGTGGCA-CTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTT
1 TTCAAAGCCCACAAGTCAGTGGCATC-TTTTTC----AAAGCCCACAACTCCGTGGCACTCTTCT
* *
26322 TCCCTTTT--AAGTCCACAACTCCGTGGCA-TCTTTCTCCC-T
61 T-CCTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTT
* * * *
26361 TCCTAAAGCCCACACAAGTCGGTGGCAACCTTCTTCCAAAGCCCACA
1 TTC-AAAG-CC-CACAAGTCAGTGGC-ATCTT-TTTCAAAGCCCACA
26408 CAAGTCGGTG
Statistics
Matches: 313, Mismatches: 11, Indels: 54
0.83 0.03 0.14
Matches are distributed among these distances:
92 19 0.06
93 6 0.02
96 1 0.00
97 1 0.00
100 116 0.37
101 5 0.02
103 38 0.12
104 23 0.07
105 21 0.07
106 14 0.04
107 39 0.12
108 4 0.01
109 1 0.00
110 4 0.01
111 21 0.07
ACGTcount: A:0.22, C:0.36, G:0.13, T:0.30
Consensus pattern (102 bp):
TTCAAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCCACAACTCCGTGGCACTCTTCTTCCTT
TTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTT
Found at i:26402 original size:33 final size:35
Alignment explanation
Indices: 26359--26428 Score: 126
Period size: 33 Copynumber: 2.1 Consensus size: 35
26349 ATCTTTCTCC
26359 CTTCCTAAAGCCCACACAAGTCGGTGGCAA-CCTT
1 CTTCCTAAAGCCCACACAAGTCGGTGGCAACCCTT
26393 CTTCC-AAAGCCCACACAAGTCGGTGGCAACCCTT
1 CTTCCTAAAGCCCACACAAGTCGGTGGCAACCCTT
26427 CT
1 CT
26429 AAGTCCAATA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
33 24 0.69
34 11 0.31
ACGTcount: A:0.26, C:0.37, G:0.17, T:0.20
Consensus pattern (35 bp):
CTTCCTAAAGCCCACACAAGTCGGTGGCAACCCTT
Found at i:26485 original size:49 final size:48
Alignment explanation
Indices: 26428--26932 Score: 618
Period size: 49 Copynumber: 10.8 Consensus size: 48
26418 GCAACCCTTC
*
26428 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC-TTATCTT
* *
26477 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTT-ATCTT
*
26526 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C---T-TT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTATCTT
* *
26569 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTT-ATCTT
*
26618 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C---T-TT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTATCTT
* * *
26661 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTT-ATCTT
* * *
26710 TAAGTCCAATGTAGCTAGCCTTGACTCAGCACATTGGCA-C----CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTATCTT
* * *
26753 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTT-ATCTT
*
26802 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C----CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTATCTT
*
26845 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC--TT--ATCTT
*
26897 TAAGTTCAATATAGCTGGCCTTGAATCAGCACATTG
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTG
26933 ACATCCTTTT
Statistics
Matches: 398, Mismatches: 30, Indels: 53
0.83 0.06 0.11
Matches are distributed among these distances:
43 153 0.38
44 6 0.02
48 8 0.02
49 194 0.49
52 37 0.09
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (48 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTATCTT
Found at i:26586 original size:43 final size:44
Alignment explanation
Indices: 26520--26942 Score: 442
Period size: 43 Copynumber: 9.2 Consensus size: 44
26510 TTGGCACCTT
*
26520 CATC-TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG
1 CATCTTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGG
* *
26563 CA-CTTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG
1 CATCTTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGG
*
26606 CACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG
1 CA---TC-T-TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGG
* *
26655 CA-CTTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG
1 CATCTTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGG
* * *
26698 CATCTTCATCTTTAAGTCCAATGTAGCTAGCCTTGACTCAGCACATTGG
1 CA---TC-T-TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGG
* * *
26747 CA-CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG
1 CATCTTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGG
*
26790 CATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG
1 CA---TC-T-TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGG
* *
26839 CA-CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG
1 CATCTTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGG
* *
26882 CACCTTTTCCATCTTTAAGTTCAATATAGCTGGCCTTGAATCAGCACATTGA
1 CA-----T-C-T-TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGG
26934 CATCCTTTT
1 CAT-CTTTT
26943 TCTCATCTTT
Statistics
Matches: 321, Mismatches: 31, Indels: 54
0.79 0.08 0.13
Matches are distributed among these distances:
42 1 0.00
43 153 0.48
44 1 0.00
45 6 0.02
46 1 0.00
47 6 0.02
48 2 0.01
49 112 0.35
50 1 0.00
52 38 0.12
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.32
Consensus pattern (44 bp):
CATCTTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGG
Found at i:26609 original size:92 final size:92
Alignment explanation
Indices: 26474--26941 Score: 774
Period size: 92 Copynumber: 5.0 Consensus size: 92
26464 GCACCTTTAT
* * * *
26474 CTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
26539 GCTGGCCTTGAATCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
*
26566 TTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
26631 GCTGGCCTTGAATCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
* *
26658 TTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
* *
26723 GCTAGCCTTGACTCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
*
26750 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
26815 GCTGGCCTTGAATCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
* *
26842 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC--TT-CATCTTTAAGTCCAAT
* *
26907 ATAGCTGGCCTTGAATCAGCACATTGACATC
63 GTAGCTGGCCTTGAATCAGCACATTGGCA-C
26938 CTTT
1 CTTT
26942 TTCTCATCTT
Statistics
Matches: 356, Mismatches: 16, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
92 307 0.86
94 2 0.01
95 42 0.12
96 5 0.01
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (92 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
GCTGGCCTTGAATCAGCACATTGGCAC
Found at i:26920 original size:52 final size:53
Alignment explanation
Indices: 26842--26995 Score: 195
Period size: 52 Copynumber: 2.9 Consensus size: 53
26832 ACATTGGCAC
26842 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTC-CAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTCAT
* * *
26894 CTTTAAGTTCAATATAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC-TTTTCTCAT
* * * * *
26949 CTTTAAGCCCAATATCA-TTGGCCGTGAATCAACATATTGGCATCTTT
1 CTTTAAGTCCAATAT-AGCTGGCCTTGAATCAGCATATTGGCACCTTT
26996 ATCACTTTTC
Statistics
Matches: 87, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
52 39 0.45
53 5 0.06
54 6 0.07
55 36 0.41
56 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.36
Consensus pattern (53 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTCAT
Found at i:27169 original size:169 final size:170
Alignment explanation
Indices: 26842--27228 Score: 408
Period size: 169 Copynumber: 2.2 Consensus size: 170
26832 ACATTGGCAC
* * *
26842 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAAT
1 CTTTAAGTCCAATGT-GCTGGCCTTGAATCAGCACATTGGCACCTTTT-CATCTTTAAGTCCAAT
* * * *
26907 ATAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCATCTTTAAGCCCAATATCATTGGCC
64 ATAGCTAGCC-TGAATCAGCACATT-ACATCCCTTTTCTCATCTCTAAACCCAATATCATTGGCC
* ** *
26972 GTGAATCAACATATTGGCATCTTTATCACTTTTC-TCATCTTCA
127 GAGAATCAACATATTGGCATCTTTATCACACTTCATCATCATCA
27015 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC-TTT-ATCTTTAAGTCCAAT
1 -CTTTAAGTCCAATGT-GCTGGCCTTGAATCAGCACATTGGCACCTTTTCATCTTTAAGTCCAAT
* ** * * * *
27078 ATCGCTAGCC-GCATATTGGCTCCTT-TATCCCTTTTCTCATCTCTAAACCCAATATCGTTGGCC
64 ATAGCTAGCCTG-A-ATCAGCACATTACATCCCTTTTCTCATCTCTAAACCCAATATCATTGGCC
* * *
27141 GAGAATCAACGTATTGGTCCT-TTTATCACACTTCATCCTCATCA
127 GAGAATCAACATATTGG-CATCTTTATCACACTTCATCATCATCA
* * * *
27185 CATTTAAGTCCAGTGTGACAGGCCTTGAATCTGCACAGTGGCAC
1 C-TTTAAGTCCAATGTG-CTGGCCTTGAATCAGCACATTGGCAC
27229 ATTGCAAGAC
Statistics
Matches: 181, Mismatches: 26, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
169 62 0.34
170 46 0.25
171 29 0.16
173 3 0.02
174 41 0.23
ACGTcount: A:0.24, C:0.27, G:0.14, T:0.35
Consensus pattern (170 bp):
CTTTAAGTCCAATGTGCTGGCCTTGAATCAGCACATTGGCACCTTTTCATCTTTAAGTCCAATAT
AGCTAGCCTGAATCAGCACATTACATCCCTTTTCTCATCTCTAAACCCAATATCATTGGCCGAGA
ATCAACATATTGGCATCTTTATCACACTTCATCATCATCA
Found at i:27778 original size:13 final size:13
Alignment explanation
Indices: 27760--27784 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27750 CATAAAATGT
27760 TGTATCGATACAA
1 TGTATCGATACAA
27773 TGTATCGATACA
1 TGTATCGATACA
27785 TATTTTTTTT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:27866 original size:13 final size:13
Alignment explanation
Indices: 27848--27872 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27838 ATTACTCAAA
27848 TGTATCGATACAT
1 TGTATCGATACAT
27861 TGTATCGATACA
1 TGTATCGATACA
27873 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Done.