Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1818
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: 26449
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.35
Found at i:3218 original size:25 final size:26
Alignment explanation
Indices: 3143--3272 Score: 74
Period size: 25 Copynumber: 5.0 Consensus size: 26
3133 TATTCCAAAA
* *
3143 AAAATTAT-TTTAATAATTTTAATGTT
1 AAAATTATATTTATTAA-TTTAATATT
* * * *
3169 AAATTTA-ATTTAAT-ACTT-ATCTT
1 AAAATTATATTTATTAATTTAATATT
*
3192 AAAAATAT-TTTATTAATTTAATATT
1 AAAATTATATTTATTAATTTAATATT
* *
3217 AAATTGATTATCTTAATATTAAATTAA-ATT
1 AAA---ATTATATT--TATTAATTTAATATT
*
3247 AAAATTTTATTTATTAATTTAATATT
1 AAAATTATATTTATTAATTTAATATT
3273 TAGCTTGATA
Statistics
Matches: 80, Mismatches: 13, Indels: 22
0.70 0.11 0.19
Matches are distributed among these distances:
23 14 0.17
24 5 0.06
25 18 0.22
26 15 0.19
27 6 0.08
28 4 0.05
29 2 0.03
30 6 0.08
31 10 0.12
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (26 bp):
AAAATTATATTTATTAATTTAATATT
Found at i:3313 original size:56 final size:56
Alignment explanation
Indices: 3200--3315 Score: 130
Period size: 57 Copynumber: 2.1 Consensus size: 56
3190 TTAAAAATAT
* * *
3200 TTTATTAATTTAATATTAAATTGATTATCTTAATATTAAATTAAATTAAAATTTTA
1 TTTATTAATTTAATATTAAATTGATAATATTAATATTAAATTAAATTAAAATGTTA
** *
3256 TTTATTAATTTAATATTTAGCTTGATAAGTATT-ATATTAATTTAATATT-AAA-GTTA
1 TTTATTAATTTAATA-TTAAATTGATAA-TATTAATATTAAATTAA-ATTAAAATGTTA
3312 TTTA
1 TTTA
3316 GTGTCACACC
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
56 22 0.43
57 23 0.45
58 6 0.12
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (56 bp):
TTTATTAATTTAATATTAAATTGATAATATTAATATTAAATTAAATTAAAATGTTA
Found at i:7915 original size:41 final size:40
Alignment explanation
Indices: 7851--7966 Score: 146
Period size: 41 Copynumber: 2.9 Consensus size: 40
7841 TCAAACACAG
* * *
7851 AGCAATAGCGGCGTCTTA-CAAAAATGCCGCTAAAAACAA
1 AGCAATAGCGGCGTTTTAGAAAAAACGCCGCTAAAAACAA
*
7890 AGCAATAGCGGCGTTTTAGTAAAAAACGCCGCTAAAAACAG
1 AGCAATAGCGGCGTTTTAG-AAAAAACGCCGCTAAAAACAA
* *
7931 AGCATTAGCGGCGCTTTT-GATAAAACGCCGCTAAAA
1 AGCAATAGCGGCG-TTTTAGAAAAAACGCCGCTAAAA
7967 GTCATATAAC
Statistics
Matches: 68, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
39 17 0.25
40 16 0.24
41 31 0.46
42 4 0.06
ACGTcount: A:0.40, C:0.22, G:0.21, T:0.18
Consensus pattern (40 bp):
AGCAATAGCGGCGTTTTAGAAAAAACGCCGCTAAAAACAA
Found at i:8865 original size:78 final size:78
Alignment explanation
Indices: 8776--8936 Score: 236
Period size: 78 Copynumber: 2.1 Consensus size: 78
8766 CGTTTATTTA
*
8776 AAAAACGCCGCAAAAAACATAGCAG-TTAAC-AAAACGGCGTCGTTTTAATTGGATATTTAGGAG
1 AAAAACGCCGC-AAAAACATAGCAGTTTAACGAAAACGGCGTCGTTTTAATTAGATATTTAGG-G
*
8839 AGTAGCGGCATTTTT
64 AGTACCGGCATTTTT
* * *
8854 AAAAACGCCGCAAAAACATAGCAGTTTAACGAAAACGTCGTCGTTTTTATTAGATTTTTAGGGAG
1 AAAAACGCCGCAAAAACATAGCAGTTTAACGAAAACGGCGTCGTTTTAATTAGATATTTAGGGAG
*
8919 TACCGGCGTTTTT
66 TACCGGCATTTTT
8932 AAAAA
1 AAAAA
8937 AAAAACGCCA
Statistics
Matches: 75, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
77 13 0.17
78 35 0.47
79 27 0.36
ACGTcount: A:0.37, C:0.16, G:0.20, T:0.27
Consensus pattern (78 bp):
AAAAACGCCGCAAAAACATAGCAGTTTAACGAAAACGGCGTCGTTTTAATTAGATATTTAGGGAG
TACCGGCATTTTT
Found at i:14567 original size:9 final size:9
Alignment explanation
Indices: 14540--14706 Score: 145
Period size: 9 Copynumber: 17.6 Consensus size: 9
14530 ATTGATCATT
*
14540 ACTTAAATA
1 ACTTACATA
*
14549 AATTACATA
1 ACTTACATA
*
14558 ACTTAAATA
1 ACTTACATA
* *
14567 ACTCATATA
1 ACTTACATA
14576 ACTTACATA
1 ACTTACATA
*
14585 ATTTACATAACA
1 ACTTACAT---A
14597 ACTTACATA
1 ACTTACATA
*
14606 ACTCACATA
1 ACTTACATA
14615 ACTTACATA
1 ACTTACATA
*
14624 ATTTACATAACA
1 ACTTACAT---A
14636 ACTTACATA
1 ACTTACATA
*
14645 ACTCACATA
1 ACTTACATA
14654 ACTTACATA
1 ACTTACATA
*
14663 ATTTACATA
1 ACTTACATA
*
14672 ACTCACATA
1 ACTTACATA
*
14681 ACGTACATAACA
1 ACTTACAT---A
14693 ACTTACATA
1 ACTTACATA
14702 ACTTA
1 ACTTA
14707 ACTAATACAT
Statistics
Matches: 127, Mismatches: 22, Indels: 18
0.76 0.13 0.11
Matches are distributed among these distances:
9 103 0.81
12 24 0.19
ACGTcount: A:0.47, C:0.21, G:0.01, T:0.31
Consensus pattern (9 bp):
ACTTACATA
Found at i:14607 original size:48 final size:47
Alignment explanation
Indices: 14551--14707 Score: 170
Period size: 48 Copynumber: 3.3 Consensus size: 47
14541 CTTAAATAAA
* * *
14551 TTACATAACTTAAATAACTCATATAACTTACATAATTTACATAACAAC
1 TTACATAACTTAAATAACTTACATAACTTACATAA-CTACATAACAAC
* * * * * *
14599 TTACATAACTCACATAACTTACATAATTTACATAACAACTTACATAAC
1 TTACATAACTTAAATAACTTACATAACTTACATAACTACATA-ACAAC
* * * *
14647 TCACATAACTTACATAATTTACATAACTCACATAACGTACATAACAAC
1 TTACATAACTTAAATAACTTACATAACTTACATAAC-TACATAACAAC
14695 TTACATAACTTAA
1 TTACATAACTTAA
14708 CTAATACATG
Statistics
Matches: 88, Mismatches: 19, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
47 4 0.05
48 80 0.91
49 4 0.05
ACGTcount: A:0.46, C:0.22, G:0.01, T:0.31
Consensus pattern (47 bp):
TTACATAACTTAAATAACTTACATAACTTACATAACTACATAACAAC
Found at i:14610 original size:39 final size:39
Alignment explanation
Indices: 14557--14673 Score: 216
Period size: 39 Copynumber: 3.0 Consensus size: 39
14547 TAAATTACAT
* *
14557 AACTTAAATAACTCATATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
14596 AACTTACATAACTCACATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
14635 AACTTACATAACTCACATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
14674 TCACATAACG
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 76 1.00
ACGTcount: A:0.47, C:0.21, G:0.00, T:0.32
Consensus pattern (39 bp):
AACTTACATAACTCACATAACTTACATAATTTACATAAC
Found at i:14692 original size:57 final size:57
Alignment explanation
Indices: 14540--14704 Score: 183
Period size: 57 Copynumber: 2.9 Consensus size: 57
14530 ATTGATCATT
* * * * *
14540 ACTTAAATAAATTACATAACTTAAATAACT-CAT-ATAACTTACATAATTTACATAACA
1 ACTTACATAAATTACATAACTTACATAACTACATAACAACTTACATAACTCACAT-A-A
* * *
14597 ACTTACATAACTCACATAACTTACATAATTTACATAACAACTTACATAACTCACAT-A
1 ACTTACATAAATTACATAACTTACATAA-CTACATAACAACTTACATAACTCACATAA
* *
14654 ACTTACATAATTTACATAACTCACATAACGTACATAACAACTTACATAACT
1 ACTTACATAAATTACATAACTTACATAAC-TACATAACAACTTACATAACT
14705 TAACTAATAC
Statistics
Matches: 92, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
57 71 0.77
58 1 0.01
59 3 0.03
60 17 0.18
ACGTcount: A:0.47, C:0.21, G:0.01, T:0.31
Consensus pattern (57 bp):
ACTTACATAAATTACATAACTTACATAACTACATAACAACTTACATAACTCACATAA
Found at i:14702 original size:39 final size:37
Alignment explanation
Indices: 14540--14691 Score: 193
Period size: 39 Copynumber: 4.1 Consensus size: 37
14530 ATTGATCATT
* * * *
14540 ACTTAAATAAATTACAT-AACTTAAATAACTCATATA
1 ACTTACATAATTTACATAAACTTACATAACTCACATA
14576 ACTTACATAATTTACATAACAACTTACATAACTCACATA
1 ACTTACATAATTTACAT-A-AACTTACATAACTCACATA
14615 ACTTACATAATTTACATAACAACTTACATAACTCACATA
1 ACTTACATAATTTACAT-A-AACTTACATAACTCACATA
*
14654 ACTTACATAATTTACAT-AACTCACATAACGT-ACATA
1 ACTTACATAATTTACATAAACTTACATAAC-TCACATA
14690 AC
1 AC
14692 AACTTACATA
Statistics
Matches: 107, Mismatches: 5, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
36 33 0.31
37 1 0.01
39 73 0.68
ACGTcount: A:0.47, C:0.21, G:0.01, T:0.31
Consensus pattern (37 bp):
ACTTACATAATTTACATAAACTTACATAACTCACATA
Found at i:20281 original size:20 final size:21
Alignment explanation
Indices: 20242--20285 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
20232 AACTTAGAGC
20242 GAGGCAGCAACGAGGGAGGCG
1 GAGGCAGCAACGAGGGAGGCG
*
20263 GAGGCAGCAGCGA-GGAGGCG
1 GAGGCAGCAACGAGGGAGGCG
20283 GAG
1 GAG
20286 CAGAACAGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.27, C:0.18, G:0.55, T:0.00
Consensus pattern (21 bp):
GAGGCAGCAACGAGGGAGGCG
Found at i:20626 original size:43 final size:42
Alignment explanation
Indices: 20579--20722 Score: 189
Period size: 43 Copynumber: 3.4 Consensus size: 42
20569 ACTGGGCAAA
* * *
20579 TTAGCGGCGTTTTTTAAAAAAGCGCTGCTAAAGATCCTGGTCT
1 TTAGCGGCGTTTTTT-AAGAAGCGCCGCTAAAGGTCCTGGTCT
* *
20622 TTAGCGGCGTTTTTTGAAGAAGCGCCGCTAAAGGTCTTAGTCT
1 TTAGCGGCGTTTTTT-AAGAAGCGCCGCTAAAGGTCCTGGTCT
* **
20665 TTAGCAGCGTTTTTTGTGAAGCGCCGCTAAAGGTCCTGGTCT
1 TTAGCGGCGTTTTTTAAGAAGCGCCGCTAAAGGTCCTGGTCT
20707 TTAGCGGCGCTTTTTT
1 TTAGCGGCG-TTTTTT
20723 CTGAAAAACG
Statistics
Matches: 88, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
42 31 0.35
43 57 0.65
ACGTcount: A:0.19, C:0.19, G:0.26, T:0.35
Consensus pattern (42 bp):
TTAGCGGCGTTTTTTAAGAAGCGCCGCTAAAGGTCCTGGTCT
Found at i:20930 original size:41 final size:40
Alignment explanation
Indices: 20869--21025 Score: 197
Period size: 41 Copynumber: 3.8 Consensus size: 40
20859 CCTGTAGTGA
* * * *
20869 TAGCGGCGTTTTTTGTTAAAACGCCGCTAAAAGTTGGGGCAA
1 TAGCGGCG-CTTTTGGTAAAACGCCGCTAAAA-TTGGAGCAT
* *
20911 TAGCGGTGCTTTTGGTAAAACGTCGCTAAAATTCGGAGCAT
1 TAGCGGCGCTTTTGGTAAAACGCCGCTAAAATT-GGAGCAT
* *
20952 TAGCGGCGCTTTTGGTAAAACGACGCTAAAACTCGGAGCAT
1 TAGCGGCGCTTTTGGTAAAACGCCGCTAAAA-TTGGAGCAT
*
20993 TAGCGGCGTTTTTGGTAAAACGCCGCTAAAATT
1 TAGCGGCGCTTTTGGTAAAACGCCGCTAAAATT
21026 CATATAACCC
Statistics
Matches: 101, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
40 3 0.03
41 90 0.89
42 8 0.08
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.27
Consensus pattern (40 bp):
TAGCGGCGCTTTTGGTAAAACGCCGCTAAAATTGGAGCAT
Found at i:20979 original size:82 final size:83
Alignment explanation
Indices: 20869--21026 Score: 219
Period size: 82 Copynumber: 1.9 Consensus size: 83
20859 CCTGTAGTGA
* * * * * * * *
20869 TAGCGGCGTTTTTTGTTAAAACGCCGCTAAAAGTTGGGGCAATAGCGGTGCTTTTGGTAAAACGT
1 TAGCGGCGTCTTTTGGTAAAACGACGCTAAAACTCGGAGCAATAGCGGCGCTTTTGGTAAAACGC
20934 CGCTAAAATTCGGAGCAT
66 CGCTAAAATTCGGAGCAT
* *
20952 TAGCGGCG-CTTTTGGTAAAACGACGCTAAAACTCGGAGCATTAGCGGCGTTTTTGGTAAAACGC
1 TAGCGGCGTCTTTTGGTAAAACGACGCTAAAACTCGGAGCAATAGCGGCGCTTTTGGTAAAACGC
21016 CGCTAAAATTC
66 CGCTAAAATTC
21027 ATATAACCCC
Statistics
Matches: 65, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
82 57 0.88
83 8 0.12
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (83 bp):
TAGCGGCGTCTTTTGGTAAAACGACGCTAAAACTCGGAGCAATAGCGGCGCTTTTGGTAAAACGC
CGCTAAAATTCGGAGCAT
Found at i:21108 original size:37 final size:37
Alignment explanation
Indices: 21065--21136 Score: 99
Period size: 37 Copynumber: 1.9 Consensus size: 37
21055 AAAAATCATG
* * *
21065 AACACTAATCTATAACTCCTAAAATACTAAACCCCTA
1 AACACTAAACCATAACTCCTAAAACACTAAACCCCTA
* *
21102 AACACTAAACCATAACTTCTAAAACCCTAAACCCC
1 AACACTAAACCATAACTCCTAAAACACTAAACCCC
21137 AAAAAACGTC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.46, C:0.33, G:0.00, T:0.21
Consensus pattern (37 bp):
AACACTAAACCATAACTCCTAAAACACTAAACCCCTA
Found at i:21261 original size:7 final size:7
Alignment explanation
Indices: 21249--21311 Score: 56
Period size: 7 Copynumber: 9.0 Consensus size: 7
21239 TTTATTTTTT
*
21249 GGTTTAC
1 GGTTTAA
21256 GGTTTAA
1 GGTTTAA
**
21263 TATTTAA
1 GGTTTAA
21270 GGTTTAA
1 GGTTTAA
* *
21277 GGTCTAT
1 GGTTTAA
21284 GGTTT-A
1 GGTTTAA
*
21290 GGTTTTAT
1 GG-TTTAA
21298 GGTTTAA
1 GGTTTAA
21305 GGTTTAA
1 GGTTTAA
21312 TGGCCATGGG
Statistics
Matches: 43, Mismatches: 11, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
6 2 0.05
7 39 0.91
8 2 0.05
ACGTcount: A:0.24, C:0.03, G:0.25, T:0.48
Consensus pattern (7 bp):
GGTTTAA
Found at i:21310 original size:14 final size:14
Alignment explanation
Indices: 21249--21310 Score: 63
Period size: 14 Copynumber: 4.4 Consensus size: 14
21239 TTTATTTTTT
*
21249 GGTTTACGGTTTAA
1 GGTTTATGGTTTAA
** *
21263 TATTTAAGGTTTAA
1 GGTTTATGGTTTAA
*
21277 GGTCTATGGTTT-A
1 GGTTTATGGTTTAA
21290 GGTTTTATGGTTTAA
1 GG-TTTATGGTTTAA
21305 GGTTTA
1 GGTTTA
21311 ATGGCCATGG
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
13 3 0.08
14 32 0.84
15 3 0.08
ACGTcount: A:0.23, C:0.03, G:0.26, T:0.48
Consensus pattern (14 bp):
GGTTTATGGTTTAA
Found at i:21922 original size:7 final size:7
Alignment explanation
Indices: 21904--22016 Score: 102
Period size: 7 Copynumber: 16.0 Consensus size: 7
21894 AAATAAACTC
21904 AAAATTT
1 AAAATTT
21911 AAAAATTT
1 -AAAATTT
21919 AAAATTT
1 AAAATTT
21926 AAAATTT
1 AAAATTT
21933 AAAATTT
1 AAAATTT
21940 AAAATTT
1 AAAATTT
21947 AAAATTT
1 AAAATTT
*
21954 AAAA-AT
1 AAAATTT
**
21960 AAAAAAT
1 AAAATTT
* *
21967 AAAAATA
1 AAAATTT
* *
21974 AAAAATA
1 AAAATTT
* *
21981 AAAAATA
1 AAAATTT
*
21988 AAAACTTA
1 AAAA-TTT
21996 AAAATTT
1 AAAATTT
22003 AAAATTT
1 AAAATTT
*
22010 AATATTT
1 AAAATTT
22017 TAGTCCATAT
Statistics
Matches: 97, Mismatches: 6, Indels: 5
0.90 0.06 0.05
Matches are distributed among these distances:
6 5 0.05
7 79 0.81
8 13 0.13
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.34
Consensus pattern (7 bp):
AAAATTT
Found at i:21998 original size:13 final size:13
Alignment explanation
Indices: 21953--21991 Score: 69
Period size: 13 Copynumber: 2.9 Consensus size: 13
21943 ATTTAAAATT
21953 TAAAAATAAAAAA
1 TAAAAATAAAAAA
21966 TAAAAATAAAAAA
1 TAAAAATAAAAAA
21979 TAAAAAATAAAAA
1 T-AAAAATAAAAA
21992 CTTAAAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 14 0.56
14 11 0.44
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
TAAAAATAAAAAA
Found at i:22098 original size:19 final size:18
Alignment explanation
Indices: 22076--22116 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 18
22066 CCAAAAGAAA
*
22076 AAAAATAAAAAAATATGTT
1 AAAAATAAAAAAAAAT-TT
22095 AAAAATAAAAAAAAATTT
1 AAAAATAAAAAAAAATTT
22113 AAAA
1 AAAA
22117 TTAATCTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (18 bp):
AAAAATAAAAAAAAATTT
Found at i:26152 original size:41 final size:41
Alignment explanation
Indices: 26070--26320 Score: 296
Period size: 42 Copynumber: 6.0 Consensus size: 41
26060 GTGTGTGTGT
*
26070 GCGTTTGTGAAAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCG
1 GCGTTTGCG-AAAAAGCGCCGCT-AAGGTCATGGTCTTTAGCG
26113 GCGTTTGCGAAAAAGGCGCCGCT-AGGTCATGGTCTTTAGCG
1 GCGTTTGCGAAAAA-GCGCCGCTAAGGTCATGGTCTTTAGCG
*
26154 GCG-TTGCGAAAAAGCGCCACTGAAGGTCATGGTCTTTAGCG
1 GCGTTTGCGAAAAAGCGCCGCT-AAGGTCATGGTCTTTAGCG
*** *
26195 GC-TTT-TTTAAAAGCGCCGCTAAAGGTCCTGGTCTTTAGCG
1 GCGTTTGCGAAAAAGCGCCGCT-AAGGTCATGGTCTTTAGCG
* * * *
26235 GCGTTTGAGAAAACTGCGCCGCTAAAGTTATGGTCTTTAGCG
1 GCGTTTGCGAAAA-AGCGCCGCTAAGGTCATGGTCTTTAGCG
*
26277 GCGTTTGCAAAAAAAGCGCCGCTAAAGGTCATGGTC-TTAGCG
1 GCGTTTGC-GAAAAAGCGCCGCT-AAGGTCATGGTCTTTAGCG
26319 GC
1 GC
26321 ATTTTTTTCA
Statistics
Matches: 179, Mismatches: 20, Indels: 19
0.82 0.09 0.09
Matches are distributed among these distances:
39 7 0.04
40 41 0.23
41 46 0.26
42 47 0.26
43 38 0.21
ACGTcount: A:0.24, C:0.21, G:0.30, T:0.25
Consensus pattern (41 bp):
GCGTTTGCGAAAAAGCGCCGCTAAGGTCATGGTCTTTAGCG
Found at i:26247 original size:82 final size:83
Alignment explanation
Indices: 26070--26320 Score: 298
Period size: 82 Copynumber: 3.0 Consensus size: 83
26060 GTGTGTGTGT
* * *
26070 GCGTTTGTGAAAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGCGAAAAAGGCGCCGC
1 GCGTTTGAG-AAAAAGCGCCGCT-AAGGTCATGGTCTTTAGCGGCGTTTG-AAAAAAAGCGCCGC
26135 T--AGGTCATGGTCTTTAGCG
63 TAAAGGTCATGGTCTTTAGCG
* * ***
26154 GCG-TTGCGAAAAAGCGCCACTGAAGGTCATGGTCTTTAGCGGC-TTT-TTTAAAAGCGCCGCTA
1 GCGTTTGAGAAAAAGCGCCGCT-AAGGTCATGGTCTTTAGCGGCGTTTGAAAAAAAGCGCCGCTA
*
26216 AAGGTCCTGGTCTTTAGCG
65 AAGGTCATGGTCTTTAGCG
* * *
26235 GCGTTTGAGAAAACTGCGCCGCTAAAGTTATGGTCTTTAGCGGCGTTTGCAAAAAAAGCGCCGCT
1 GCGTTTGAGAAAA-AGCGCCGCTAAGGTCATGGTCTTTAGCGGCGTTTG-AAAAAAAGCGCCGCT
26300 AAAGGTCATGGTC-TTAGCG
64 AAAGGTCATGGTCTTTAGCG
26319 GC
1 GC
26321 ATTTTTTTCA
Statistics
Matches: 143, Mismatches: 17, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
79 11 0.08
81 23 0.16
82 60 0.42
83 14 0.10
84 11 0.08
85 24 0.17
ACGTcount: A:0.24, C:0.21, G:0.30, T:0.25
Consensus pattern (83 bp):
GCGTTTGAGAAAAAGCGCCGCTAAGGTCATGGTCTTTAGCGGCGTTTGAAAAAAAGCGCCGCTAA
AGGTCATGGTCTTTAGCG
Done.