Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01007299.1 Kokia drynarioides strain JFW-HI SEQ_121915, whole genome shotgun sequence
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: 90936
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Warning! 74 characters in sequence are not A, C, G, or T
Found at i:5012 original size:20 final size:19
Alignment explanation
Indices: 4971--5012 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
4961 ACATATGTTC
4971 AAATCATTTCAATATATAT
1 AAATCATTTCAATATATAT
*
4990 AAAT-ATTTGCAACTATATTT
1 AAATCATTT-CAA-TATATAT
5010 AAA
1 AAA
5013 AAAAAATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 4 0.20
19 7 0.35
20 9 0.45
ACGTcount: A:0.48, C:0.10, G:0.02, T:0.40
Consensus pattern (19 bp):
AAATCATTTCAATATATAT
Found at i:6243 original size:24 final size:23
Alignment explanation
Indices: 6207--6256 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 23
6197 TTTGAAATAA
* *
6207 TATATTAATTAATAATAATTTTAT
1 TATAATAAATAATAAT-ATTTTAT
6231 TATAATAAATAATAATATTTTAT
1 TATAATAAATAATAATATTTTAT
6254 TAT
1 TAT
6257 TTATATTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 10 0.42
24 14 0.58
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
TATAATAAATAATAATATTTTAT
Found at i:12298 original size:18 final size:20
Alignment explanation
Indices: 12284--12325 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
12274 ATCAATATAT
*
12284 TAATTAATAATAATAATATTA
1 TAATAAATAATAAT-ATATTA
*
12305 TAATAAATAATAATATTTTA
1 TAATAAATAATAATATATTA
12325 T
1 T
12326 TATTTATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
TAATAAATAATAATATATTA
Found at i:13375 original size:17 final size:19
Alignment explanation
Indices: 13348--13386 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
13338 GATATGGGAC
*
13348 AAAAATGAGAA-TGATGTG
1 AAAAATGAGAATTGAAGTG
13366 AAAAAT-AGAATTGAAGTG
1 AAAAATGAGAATTGAAGTG
13384 AAA
1 AAA
13387 TTTGATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.56, C:0.00, G:0.23, T:0.21
Consensus pattern (19 bp):
AAAAATGAGAATTGAAGTG
Found at i:33335 original size:61 final size:61
Alignment explanation
Indices: 33207--34054 Score: 924
Period size: 61 Copynumber: 14.0 Consensus size: 61
33197 AAGATACATA
** * * *
33207 GAATTTGGCTAGCAGTAGAATATCAGTGAGTCAATT-AGCTCCTTTCGTAGTTACATATCT
1 GAATTTGGCTCTCAGTAGAATATCAGTGAGTCAATTCAGTTCCTTTCATAGTTACATAGCT
* * * * * *
33267 GAATTTGGCCCTCAGTAGCATATCAGTGAGCCAAGTCAGCTCCTTTCATAGTTAGATAGCT
1 GAATTTGGCTCTCAGTAGAATATCAGTGAGTCAATTCAGTTCCTTTCATAGTTACATAGCT
** * *
33328 GAATTTGGCTAGCAGTAGAATATCAGTGAGCCAATTCAGTTTCTTTCATAGTTACATAGCT
1 GAATTTGGCTCTCAGTAGAATATCAGTGAGTCAATTCAGTTCCTTTCATAGTTACATAGCT
** * *
33389 GAATTCAGCTCTCAGTAGAATATCAGTGAGTCAATTAAGTTCCTTTCATAGTTAGATAGCT
1 GAATTTGGCTCTCAGTAGAATATCAGTGAGTCAATTCAGTTCCTTTCATAGTTACATAGCT
* ** *
33450 GAATTTGGCTCTCAGTAGAATATCTGTGAGTCAATTCAGCCCCTTTCATAGTTAGATAGCT
1 GAATTTGGCTCTCAGTAGAATATCAGTGAGTCAATTCAGTTCCTTTCATAGTTACATAGCT
* * * * * *
33511 GAATTTGG--CTCAATAGCATAACAGTGAGCCAATTCAGCTCCTTTCATAGTTAGATAGCT
1 GAATTTGGCTCTCAGTAGAATATCAGTGAGTCAATTCAGTTCCTTTCATAGTTACATAGCT
* *
33570 GAATTTGGCTATCAGTAGAATATCAGTGAGCCAATTCAGTTCCTTTCATAGTTACATAGCT
1 GAATTTGGCTCTCAGTAGAATATCAGTGAGTCAATTCAGTTCCTTTCATAGTTACATAGCT
* * * * * *
33631 GTATTCGGCTCTCAGTAGAATATCAGTGAGTCAACTAAGTTCCTTTCATAGTTAGAAAGCT
1 GAATTTGGCTCTCAGTAGAATATCAGTGAGTCAATTCAGTTCCTTTCATAGTTACATAGCT
* * * * * *
33692 GAATTTGGCTCTAAGTAGACTATCAGTGAGTCAATTTAGCTCCTTCCATAGATACATAGCT
1 GAATTTGGCTCTCAGTAGAATATCAGTGAGTCAATTCAGTTCCTTTCATAGTTACATAGCT
** * *
33753 GAATTTGGCTCTCAGTAGAATATCA---AGTCAATTCAGCCCCTTTCATAGTTAGATTGCT
1 GAATTTGGCTCTCAGTAGAATATCAGTGAGTCAATTCAGTTCCTTTCATAGTTACATAGCT
* * * * * * * *
33811 GAATTTGGCTCTTAGTATAAAATCAATGAGCCAATTAAGTTCCTTTCAAAGTTACATAGAT
1 GAATTTGGCTCTCAGTAGAATATCAGTGAGTCAATTCAGTTCCTTTCATAGTTACATAGCT
* * * * ** *
33872 GATTTTGGCTCTAAGTA-ATATATAAGTCAACCAATTCTAGTTCCTTCCATAGTTACATA-CT
1 GAATTTGGCTCTCAGTAGA-ATATCAGTGAGTCAATTC-AGTTCCTTTCATAGTTACATAGCT
* * * * *
33933 GAATTCGGCTCTCAGTACAA-ATCAGTGAGTCAATTAAGTTCCTTTCCTAGTTTACATAGTT
1 GAATTTGGCTCTCAGTAGAATATCAGTGAGTCAATTCAGTTCCTTTCATAG-TTACATAGCT
* * * * * *
33994 GAATTTGGCTCTCAGTGGAATATATCAGAGAGACAAGTCGGTTCCTTTCATGGTTAC-TAGC
1 GAATTTGGCTCTCAGTAG-A-ATATCAGTGAGTCAATTCAGTTCCTTTCATAGTTACATAGC
34055 AATATTTTAG
Statistics
Matches: 660, Mismatches: 114, Indels: 26
0.82 0.14 0.03
Matches are distributed among these distances:
58 49 0.07
59 65 0.10
60 49 0.07
61 445 0.67
62 24 0.04
63 5 0.01
64 23 0.03
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (61 bp):
GAATTTGGCTCTCAGTAGAATATCAGTGAGTCAATTCAGTTCCTTTCATAGTTACATAGCT
Found at i:33644 original size:242 final size:241
Alignment explanation
Indices: 33207--34009 Score: 1044
Period size: 242 Copynumber: 3.3 Consensus size: 241
33197 AAGATACATA
** * *
33207 GAATTTGGCTAGCAGTAGAATATCAGTGAGTCAATTAGCTCCTTTCGTAGTTACATATCTGAATT
1 GAATTTGGCTCTCAGTAGAATATCAGTGAGTCAATTAGCTCCTTTCATAGTTACATAGCTGAATT
*
33272 TGGCCCTCAGTAGCATATCAGTGAGCCAAGTCAGCTCCTTTCATAGTTAGATAGCTGAATTTGGC
66 TGG-CCTCAGTAGCATATCAGTGAGCCAATTCAGCTCCTTTCATAGTTAGATAGCTGAATTTGGC
* * *
33337 TAGCAGTAGAATATCAGTGAGCCAATTCAGTTTCTTTCATAGTTACATAGCTGAATTCAGCTCTC
130 TATCAGTAGAATATCAGTGAGCCAATTCAGTTCCTTTCATAGTTACATAGCTG-ATTCGGCTCTC
33402 AGTAGAATATCAGTGAGTCAATTAAGTTCCTTTCATAGTTAGATAGCT
194 AGTAGAATATCAGTGAGTCAATTAAGTTCCTTTCATAGTTAGATAGCT
* * *
33450 GAATTTGGCTCTCAGTAGAATATCTGTGAGTCAATTCAGCCCCTTTCATAGTTAGATAGCTGAAT
1 GAATTTGGCTCTCAGTAGAATATCAGTGAGTCAATT-AGCTCCTTTCATAGTTACATAGCTGAAT
* *
33515 TTGG-CTCAATAGCATAACAGTGAGCCAATTCAGCTCCTTTCATAGTTAGATAGCTGAATTTGGC
65 TTGGCCTCAGTAGCATATCAGTGAGCCAATTCAGCTCCTTTCATAGTTAGATAGCTGAATTTGGC
33579 TATCAGTAGAATATCAGTGAGCCAATTCAGTTCCTTTCATAGTTACATAGCTGTATTCGGCTCTC
130 TATCAGTAGAATATCAGTGAGCCAATTCAGTTCCTTTCATAGTTACATAGCTG-ATTCGGCTCTC
* *
33644 AGTAGAATATCAGTGAGTCAACTAAGTTCCTTTCATAGTTAGAAAGCT
194 AGTAGAATATCAGTGAGTCAATTAAGTTCCTTTCATAGTTAGATAGCT
* * * *
33692 GAATTTGGCTCTAAGTAGACTATCAGTGAGTCAATTTAGCTCCTTCCATAGATACATAGCTGAAT
1 GAATTTGGCTCTCAGTAGAATATCAGTGAGTCAA-TTAGCTCCTTTCATAGTTACATAGCTGAAT
* * * *
33757 TTGGCTCTCAGTAGAATATCA---AGTCAATTCAGCCCCTTTCATAGTTAGATTGCTGAATTTGG
65 TTGGC-CTCAGTAGCATATCAGTGAGCCAATTCAGCTCCTTTCATAGTTAGATAGCTGAATTTGG
* * * * * * * * *
33819 CTCTTAGTATAAAATCAATGAGCCAATTAAGTTCCTTTCAAAGTTACATAGATGATTTTGGCTCT
129 CTATCAGTAGAATATCAGTGAGCCAATTCAGTTCCTTTCATAGTTACATAGCTGA-TTCGGCTCT
* * * ** * * *
33884 AAGTA-ATATATAAGTCAACCAATTCTAGTTCCTTCCATAGTTACATA-CT
193 CAGTAGA-ATATCAGTGAGTCAATT-AAGTTCCTTTCATAGTTAGATAGCT
* * * * *
33933 GAATTCGGCTCTCAGTACAA-ATCAGTGAGTCAATTAAGTTCCTTTCCTAGTTTACATAGTTGAA
1 GAATTTGGCTCTCAGTAGAATATCAGTGAGTCAATT-AGCTCCTTTCATAG-TTACATAGCTGAA
33997 TTTGGCTCTCAGT
64 TTTGGC-CTCAGT
34010 GGAATATATC
Statistics
Matches: 494, Mismatches: 57, Indels: 20
0.87 0.10 0.04
Matches are distributed among these distances:
239 2 0.00
240 26 0.05
241 150 0.30
242 241 0.49
243 35 0.07
244 40 0.08
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (241 bp):
GAATTTGGCTCTCAGTAGAATATCAGTGAGTCAATTAGCTCCTTTCATAGTTACATAGCTGAATT
TGGCCTCAGTAGCATATCAGTGAGCCAATTCAGCTCCTTTCATAGTTAGATAGCTGAATTTGGCT
ATCAGTAGAATATCAGTGAGCCAATTCAGTTCCTTTCATAGTTACATAGCTGATTCGGCTCTCAG
TAGAATATCAGTGAGTCAATTAAGTTCCTTTCATAGTTAGATAGCT
Found at i:36415 original size:22 final size:20
Alignment explanation
Indices: 36384--36428 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 20
36374 AATACAAGTC
*
36384 CAAAATCCAAACAAATCATAAA
1 CAAAAACCAAACAAA-C-TAAA
36406 CAAAAACCAAACAAACTAAA
1 CAAAAACCAAACAAACTAAA
36426 CAA
1 CAA
36429 TAGACCTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 7 0.32
21 1 0.05
22 14 0.64
ACGTcount: A:0.67, C:0.24, G:0.00, T:0.09
Consensus pattern (20 bp):
CAAAAACCAAACAAACTAAA
Found at i:51532 original size:77 final size:78
Alignment explanation
Indices: 51380--51533 Score: 213
Period size: 77 Copynumber: 2.0 Consensus size: 78
51370 TTTGCCAGTT
* * * *
51380 GGTTTTTTCGAGTCGGGTGTCTTGGGTTCATGTCTTTTCGGATTACTTGTTTGGGTCATATTGGG
1 GGTTTTTTCGAGTCGGGTATCTTGGGTTCATGTATTTTCGGATTACTTGTTCGGGTCATATCGGG
*
51445 CTCGATTTATTTG
66 CTCGAGTTATTTG
*
51458 GGTTTTTT-GAGTCGGGTATCTTGGGTTCCTGTAATTTT-GGATTACTTGTTCGGGTCATATCGG
1 GGTTTTTTCGAGTCGGGTATCTTGGGTTCATGT-ATTTTCGGATTACTTGTTCGGGTCATATCGG
* *
51521 GTTCGGGTTATTT
65 GCTCGAGTTATTT
51534 TGGGCTTGGG
Statistics
Matches: 67, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
77 55 0.82
78 12 0.18
ACGTcount: A:0.11, C:0.12, G:0.30, T:0.47
Consensus pattern (78 bp):
GGTTTTTTCGAGTCGGGTATCTTGGGTTCATGTATTTTCGGATTACTTGTTCGGGTCATATCGGG
CTCGAGTTATTTG
Found at i:60519 original size:10 final size:10
Alignment explanation
Indices: 60504--60532 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
60494 TTTCCCTTTT
60504 CCTTCCCTCA
1 CCTTCCCTCA
60514 CCTTCCCTCA
1 CCTTCCCTCA
60524 CCTTCCCTC
1 CCTTCCCTC
60533 GGGCTTTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.07, C:0.62, G:0.00, T:0.31
Consensus pattern (10 bp):
CCTTCCCTCA
Found at i:66050 original size:2 final size:2
Alignment explanation
Indices: 66043--66076 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
66033 AGCCCGTTTA
66043 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
66077 TTGTGGTGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:66657 original size:8 final size:8
Alignment explanation
Indices: 66644--66670 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
66634 CCAAAAGTTT
66644 TTTAATTA
1 TTTAATTA
66652 TTTAATTA
1 TTTAATTA
66660 TTTAATTA
1 TTTAATTA
66668 TTT
1 TTT
66671 TTTTATTGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (8 bp):
TTTAATTA
Found at i:67044 original size:98 final size:101
Alignment explanation
Indices: 66927--67127 Score: 318
Period size: 101 Copynumber: 2.0 Consensus size: 101
66917 TTAAATATTA
* *
66927 TTTTTTATTATAACTTAAAAACAAATGACATCAACATAGACTTGCTTGT-G-G-TGTTTTTTTTT
1 TTTTTTATTATAACATAAAAACAAATGACATCAACATAGAATTGCTTGTGGAGTTGTTTTTTTTT
*
66989 TTATGAATTACAAACAGTAACTAGCGCGATTCGAAT
66 TTATGAATTACAAACAGTAACTAGCGCAATTCGAAT
* * *
67025 TTTTTTATTATACCATAAAAACAAATGACATCAACGTAGAATTGCTTGTGGAGTTTTTTTTTTTT
1 TTTTTTATTATAACATAAAAACAAATGACATCAACATAGAATTGCTTGTGGAGTTGTTTTTTTTT
*
67090 TTATGAATTACAAACAGTAACTAGTGCAATTCGAAT
66 TTATGAATTACAAACAGTAACTAGCGCAATTCGAAT
67126 TT
1 TT
67128 AAGTCACACA
Statistics
Matches: 93, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
98 45 0.48
99 1 0.01
100 1 0.01
101 46 0.49
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.41
Consensus pattern (101 bp):
TTTTTTATTATAACATAAAAACAAATGACATCAACATAGAATTGCTTGTGGAGTTGTTTTTTTTT
TTATGAATTACAAACAGTAACTAGCGCAATTCGAAT
Found at i:71703 original size:15 final size:17
Alignment explanation
Indices: 71669--71706 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
71659 ATAATACCAT
71669 TAATTTCATCATTTTAA
1 TAATTTCATCATTTTAA
*
71686 TAATTT-AT-ATTTTTA
1 TAATTTCATCATTTTAA
71701 TAATTT
1 TAATTT
71707 TTAAAAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 12 0.60
16 2 0.10
17 6 0.30
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (17 bp):
TAATTTCATCATTTTAA
Found at i:78604 original size:32 final size:32
Alignment explanation
Indices: 78540--78608 Score: 79
Period size: 32 Copynumber: 2.1 Consensus size: 32
78530 AAAAAATTAA
78540 ATTTAAATTAAATTTGAATTAATCGAATTAAATT
1 ATTTAAATT-AATTTGAATTAATCGAATTAAA-T
* *
78574 ATTTAAATT-ATTTGAGTTAATTTGAA-TAAAT
1 ATTTAAATTAATTTGAATTAA-TCGAATTAAAT
78605 ATTT
1 ATTT
78609 CGAGTTTCGA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
31 5 0.16
32 14 0.44
33 4 0.12
34 9 0.28
ACGTcount: A:0.43, C:0.01, G:0.07, T:0.48
Consensus pattern (32 bp):
ATTTAAATTAATTTGAATTAATCGAATTAAAT
Found at i:80275 original size:26 final size:27
Alignment explanation
Indices: 80219--80276 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
80209 TAACCTAAAT
* * *
80219 AAATTTTTTTGAATAATTTAGTGACTT
1 AAATTTTTTTAAATAATTTAATGACTC
80246 AAATTTTTTTAAATAATTTAATGA-TC
1 AAATTTTTTTAAATAATTTAATGACTC
80272 AAATT
1 AAATT
80277 ATAATTTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 6 0.21
27 22 0.79
ACGTcount: A:0.40, C:0.03, G:0.07, T:0.50
Consensus pattern (27 bp):
AAATTTTTTTAAATAATTTAATGACTC
Found at i:80289 original size:32 final size:27
Alignment explanation
Indices: 80218--80269 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
80208 ATAACCTAAA
* *
80218 TAAATTTTTTTGAATAATTTAGTGACT
1 TAAATTTTTTTAAATAATTTAATGACT
80245 TAAATTTTTTTAAATAATTTAATGA
1 TAAATTTTTTTAAATAATTTAATGA
80270 TCAAATTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.38, C:0.02, G:0.08, T:0.52
Consensus pattern (27 bp):
TAAATTTTTTTAAATAATTTAATGACT
Found at i:82872 original size:24 final size:24
Alignment explanation
Indices: 82844--82894 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
82834 AGAAATAATC
*
82844 TTTCAGTTAAACTCTGTTTATTTG
1 TTTCAATTAAACTCTGTTTATTTG
82868 TTTCAATTAAACTCTGTTTATTTG
1 TTTCAATTAAACTCTGTTTATTTG
82892 TTT
1 TTT
82895 AAATCAAGCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.22, C:0.12, G:0.10, T:0.57
Consensus pattern (24 bp):
TTTCAATTAAACTCTGTTTATTTG
Found at i:82906 original size:24 final size:24
Alignment explanation
Indices: 82852--82906 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 24
82842 TCTTTCAGTT
* *
82852 AAACTCTGTTTATTTGTTTCAATT
1 AAACTCTGTTTATTTGTTTAAATC
82876 AAACTCTGTTTATTTGTTTAAATC
1 AAACTCTGTTTATTTGTTTAAATC
*
82900 AAGCTCT
1 AAACTCT
82907 TATTAGTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.27, C:0.15, G:0.09, T:0.49
Consensus pattern (24 bp):
AAACTCTGTTTATTTGTTTAAATC
Found at i:84847 original size:24 final size:24
Alignment explanation
Indices: 84814--84888 Score: 114
Period size: 24 Copynumber: 3.1 Consensus size: 24
84804 AAAAATAATC
* *
84814 TTTCAGTTAAACTCTGTTTAATTG
1 TTTCAATTAAACTCTGTTTATTTG
*
84838 TTTCAATTAAACTCCGTTTATTTG
1 TTTCAATTAAACTCTGTTTATTTG
*
84862 TTTCAATTAAACCCTGTTTATTTG
1 TTTCAATTAAACTCTGTTTATTTG
84886 TTT
1 TTT
84889 GAGTCAAACT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 46 1.00
ACGTcount: A:0.24, C:0.15, G:0.09, T:0.52
Consensus pattern (24 bp):
TTTCAATTAAACTCTGTTTATTTG
Found at i:89475 original size:30 final size:30
Alignment explanation
Indices: 89415--89477 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 30
89405 ATACCTCATA
89415 AGTTTTTGTACTTTTCATAAATTTAAAATTT
1 AGTTTTTGTACTTTT-ATAAATTTAAAATTT
89446 AGTTTCTT-TACTTTT-TAAATTTCAAAATTT
1 AGTTT-TTGTACTTTTATAAATTT-AAAATTT
89476 AG
1 AG
89478 ATTCAACTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
29 7 0.23
30 9 0.30
31 12 0.40
32 2 0.07
ACGTcount: A:0.32, C:0.08, G:0.06, T:0.54
Consensus pattern (30 bp):
AGTTTTTGTACTTTTATAAATTTAAAATTT
Done.