Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01006052.1 Kokia drynarioides strain JFW-HI SEQ_120522, 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: 55557
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Found at i:4891 original size:23 final size:23
Alignment explanation
Indices: 4863--4908 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
4853 AAGAGTTAAT
4863 TTGTCA-ATGCAAATATAA-ATAAA
1 TTGTCAGA-GCAAAT-TAAGATAAA
4886 TTGTCAGAGCAAATTAAGATAAA
1 TTGTCAGAGCAAATTAAGATAAA
4909 ATGAATAGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
22 3 0.14
23 17 0.81
24 1 0.05
ACGTcount: A:0.50, C:0.09, G:0.13, T:0.28
Consensus pattern (23 bp):
TTGTCAGAGCAAATTAAGATAAA
Found at i:15119 original size:9 final size:9
Alignment explanation
Indices: 15105--15139 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
15095 CTTGAAAAAC
15105 AAAAAGAAG
1 AAAAAGAAG
15114 AAAAAGAAG
1 AAAAAGAAG
15123 AAAGAA-AAG
1 AAA-AAGAAG
15132 AAAAAGAA
1 AAAAAGAA
15140 TAATATATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
8 2 0.08
9 20 0.83
10 2 0.08
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (9 bp):
AAAAAGAAG
Found at i:15893 original size:6 final size:6
Alignment explanation
Indices: 15882--15909 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
15872 GACAGCTGCA
15882 AGATCT AGATCT AGATCT AGATCT AGAT
1 AGATCT AGATCT AGATCT AGATCT AGAT
15910 TTGAAAATGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (6 bp):
AGATCT
Found at i:26352 original size:22 final size:22
Alignment explanation
Indices: 26327--26409 Score: 98
Period size: 22 Copynumber: 3.8 Consensus size: 22
26317 TATGAGTCAT
*
26327 GTTATGTGAGCCTTGTACATAA
1 GTTATGCGAGCCTTGTACATAA
* *
26349 GTTATGTGAGCCCAGTGTACAT--
1 GTTATGCGAG-CC-TTGTACATAA
26371 GTTATGCGAGCCTTGTACATAA
1 GTTATGCGAGCCTTGTACATAA
*
26393 GTTATGCGAGCCATGTA
1 GTTATGCGAGCCTTGTA
26410 TTTATTTTAT
Statistics
Matches: 53, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
20 7 0.13
21 2 0.04
22 35 0.66
23 2 0.04
24 7 0.13
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (22 bp):
GTTATGCGAGCCTTGTACATAA
Found at i:26465 original size:34 final size:33
Alignment explanation
Indices: 26427--26491 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 33
26417 TATACGAGCT
26427 TGTATGCATGCGAAC-CTTAGGAATTATGTGAGGG
1 TGTATGCATGCGAACTC-TAGGAA-TATGTGAGGG
*
26461 TGTATGTATGCGAACTCTAGGAATATGTGAG
1 TGTATGCATGCGAACTCTAGGAATATGTGAG
26492 CATATATGCG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
33 8 0.28
34 20 0.69
35 1 0.03
ACGTcount: A:0.28, C:0.11, G:0.31, T:0.31
Consensus pattern (33 bp):
TGTATGCATGCGAACTCTAGGAATATGTGAGGG
Found at i:26534 original size:29 final size:29
Alignment explanation
Indices: 26501--26557 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
26491 GCATATATGC
*
26501 GAACCCTGGGAACATGCAAGCCAACATGT
1 GAACCCTAGGAACATGCAAGCCAACATGT
* *
26530 GAACCCTAGGTACATGCAAGCCCACATG
1 GAACCCTAGGAACATGCAAGCCAACATG
26558 ACTATACGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.33, C:0.30, G:0.23, T:0.14
Consensus pattern (29 bp):
GAACCCTAGGAACATGCAAGCCAACATGT
Found at i:28426 original size:17 final size:15
Alignment explanation
Indices: 28398--28432 Score: 52
Period size: 17 Copynumber: 2.2 Consensus size: 15
28388 AACACTCATT
28398 ATTTTTTTGAATAAA
1 ATTTTTTTGAATAAA
28413 ATTTTTTCTGGAATAAA
1 ATTTTTT-T-GAATAAA
28430 ATT
1 ATT
28433 AAGATAGTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 7 0.39
16 1 0.06
17 10 0.56
ACGTcount: A:0.37, C:0.03, G:0.09, T:0.51
Consensus pattern (15 bp):
ATTTTTTTGAATAAA
Found at i:31317 original size:37 final size:37
Alignment explanation
Indices: 31259--31445 Score: 216
Period size: 37 Copynumber: 5.1 Consensus size: 37
31249 ATTCTAATGA
* * * *
31259 ACACCGACACGAAGCCAGCTAGGCATATAGCTCGAAT
1 ACACCGGCACGAAACCTGCTAGGCACATAGCTCGAAT
*
31296 ACACCGGCACGAAACTTGCTAGGCACATAGCTCGAAT
1 ACACCGGCACGAAACCTGCTAGGCACATAGCTCGAAT
**
31333 ACACCGAG-ACGAAGTCTGCTAGGCACATAG-TCCGAAT
1 ACACCG-GCACGAAACCTGCTAGGCACATAGCT-CGAAT
* * * *
31370 ACACCGACACGAAGCCTACTAAGCACATAGCTCGAAT
1 ACACCGGCACGAAACCTGCTAGGCACATAGCTCGAAT
* * *
31407 ACACCGGCACGAAGCCTGTTAGGCACATAGCTAGAAT
1 ACACCGGCACGAAACCTGCTAGGCACATAGCTCGAAT
31444 AC
1 AC
31446 TCAAATGCAA
Statistics
Matches: 129, Mismatches: 17, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
36 1 0.01
37 126 0.98
38 2 0.02
ACGTcount: A:0.34, C:0.29, G:0.21, T:0.15
Consensus pattern (37 bp):
ACACCGGCACGAAACCTGCTAGGCACATAGCTCGAAT
Found at i:31381 original size:74 final size:74
Alignment explanation
Indices: 31259--31445 Score: 243
Period size: 74 Copynumber: 2.5 Consensus size: 74
31249 ATTCTAATGA
* * * * * * *
31259 ACACCGACACGAAGCCAGCTAGGCATATAGCTCGAATACACCGGCACGAAACTTGCTAGGCACAT
1 ACACCGAGACGAAGCCTGCTAGGCACATAGCTCGAATACACCGACACGAAACCTACTAAGCACAT
31324 AGCTCGAAT
66 AGCTCGAAT
* *
31333 ACACCGAGACGAAGTCTGCTAGGCACATAG-TCCGAATACACCGACACGAAGCCTACTAAGCACA
1 ACACCGAGACGAAGCCTGCTAGGCACATAGCT-CGAATACACCGACACGAAACCTACTAAGCACA
31397 TAGCTCGAAT
65 TAGCTCGAAT
* *
31407 ACACCG-GCACGAAGCCTGTTAGGCACATAGCTAGAATAC
1 ACACCGAG-ACGAAGCCTGCTAGGCACATAGCTCGAATAC
31446 TCAAATGCAA
Statistics
Matches: 98, Mismatches: 12, Indels: 6
0.84 0.10 0.05
Matches are distributed among these distances:
73 2 0.02
74 95 0.97
75 1 0.01
ACGTcount: A:0.34, C:0.29, G:0.21, T:0.15
Consensus pattern (74 bp):
ACACCGAGACGAAGCCTGCTAGGCACATAGCTCGAATACACCGACACGAAACCTACTAAGCACAT
AGCTCGAAT
Found at i:34020 original size:28 final size:29
Alignment explanation
Indices: 33976--34031 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 29
33966 TATATAATTC
33976 TTTTGTTTTTACTTATTT-T-TCTTTTCT
1 TTTTGTTTTTACTTATTTCTCTCTTTTCT
34003 TTTTGATTTTT-CTCTATTTCTCTCTTTTC
1 TTTTG-TTTTTACT-TATTTCTCTCTTTTC
34032 GGCTAAACTA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
27 7 0.28
28 10 0.40
29 1 0.04
30 7 0.28
ACGTcount: A:0.07, C:0.16, G:0.04, T:0.73
Consensus pattern (29 bp):
TTTTGTTTTTACTTATTTCTCTCTTTTCT
Found at i:34618 original size:11 final size:10
Alignment explanation
Indices: 34598--34622 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
34588 AAGAACACAT
34598 AAAAATAAAA
1 AAAAATAAAA
34608 AAAAATAAAA
1 AAAAATAAAA
34618 AAAAA
1 AAAAA
34623 CTATTTGCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (10 bp):
AAAAATAAAA
Found at i:39142 original size:12 final size:11
Alignment explanation
Indices: 39122--39155 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
39112 TTTTTAGAGC
39122 ATAAAAATAAA
1 ATAAAAATAAA
*
39133 AGTGAAAATAAA
1 A-TAAAAATAAA
39145 ATAAAAATAAA
1 ATAAAAATAAA
39156 GGAAAGACTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (11 bp):
ATAAAAATAAA
Found at i:39753 original size:46 final size:46
Alignment explanation
Indices: 39703--39798 Score: 192
Period size: 46 Copynumber: 2.1 Consensus size: 46
39693 TTTCAAACTG
39703 AAAATATAAAGTAAAACTAAAAACTAAGATCTAATGAATGGTGTGT
1 AAAATATAAAGTAAAACTAAAAACTAAGATCTAATGAATGGTGTGT
39749 AAAATATAAAGTAAAACTAAAAACTAAGATCTAATGAATGGTGTGT
1 AAAATATAAAGTAAAACTAAAAACTAAGATCTAATGAATGGTGTGT
39795 AAAA
1 AAAA
39799 CCTTAGTGAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 50 1.00
ACGTcount: A:0.54, C:0.06, G:0.15, T:0.25
Consensus pattern (46 bp):
AAAATATAAAGTAAAACTAAAAACTAAGATCTAATGAATGGTGTGT
Found at i:45598 original size:12 final size:12
Alignment explanation
Indices: 45581--45621 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
45571 ATTCACATCA
* *
45581 CCGTGTCGTAGT
1 CCGTGTGGTAGG
45593 CCGTGTGGTAGG
1 CCGTGTGGTAGG
45605 CCGTGTGGTAGG
1 CCGTGTGGTAGG
45617 CCGTG
1 CCGTG
45622 CGTCTATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.07, C:0.22, G:0.44, T:0.27
Consensus pattern (12 bp):
CCGTGTGGTAGG
Found at i:46373 original size:37 final size:37
Alignment explanation
Indices: 46311--46423 Score: 136
Period size: 37 Copynumber: 3.1 Consensus size: 37
46301 ATTCTAATGA
* * * * *
46311 ACACTAGCACGAAGCCTACTCGGCACAAATCCCGAAT
1 ACACCAGCACGAAGCCTGCTAGGCACATAGCCCGAAT
* *
46348 ACACCAGCACGAAGCTTGCTAGGCACATAGCCCGGAT
1 ACACCAGCACGAAGCCTGCTAGGCACATAGCCCGAAT
* * *
46385 ATACCGGTACGAAGCCTGCTAGGCACATAGCCCGAAT
1 ACACCAGCACGAAGCCTGCTAGGCACATAGCCCGAAT
46422 AC
1 AC
46424 TTAAATGCAA
Statistics
Matches: 63, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 63 1.00
ACGTcount: A:0.32, C:0.33, G:0.21, T:0.14
Consensus pattern (37 bp):
ACACCAGCACGAAGCCTGCTAGGCACATAGCCCGAAT
Found at i:48755 original size:23 final size:23
Alignment explanation
Indices: 48729--49000 Score: 384
Period size: 23 Copynumber: 11.8 Consensus size: 23
48719 ATTTACACAA
*
48729 AAATCACTTTAATATTTAAGCAT
1 AAATCACATTAATATTTAAGCAT
* * *
48752 AAATCATATTAACATTTAAACAT
1 AAATCACATTAATATTTAAGCAT
* *
48775 AAATCACATTGACATTTAAGCAT
1 AAATCACATTAATATTTAAGCAT
48798 AAATCACATTAATATTTAAGCAT
1 AAATCACATTAATATTTAAGCAT
*
48821 AAATCACAATAATATTTAAGCAT
1 AAATCACATTAATATTTAAGCAT
*
48844 AAATCACATTAATATTTAAGCAC
1 AAATCACATTAATATTTAAGCAT
*
48867 AAATCAC-TTAAATATTTAAGCAC
1 AAATCACATT-AATATTTAAGCAT
*
48890 AAATCACATTAATATTTAAGAAT
1 AAATCACATTAATATTTAAGCAT
* * *
48913 AAATCATATTAACATTTAAGCTT
1 AAATCACATTAATATTTAAGCAT
*
48936 AAATCACATTAATATTTAAGCAC
1 AAATCACATTAATATTTAAGCAT
*
48959 AAATCACATTAATATTTAAGCAC
1 AAATCACATTAATATTTAAGCAT
*
48982 AAATCATATTAATATTTAA
1 AAATCACATTAATATTTAA
49001 CACATTTAAT
Statistics
Matches: 224, Mismatches: 23, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
22 2 0.01
23 220 0.98
24 2 0.01
ACGTcount: A:0.48, C:0.14, G:0.04, T:0.34
Consensus pattern (23 bp):
AAATCACATTAATATTTAAGCAT
Found at i:49191 original size:66 final size:66
Alignment explanation
Indices: 49081--49207 Score: 175
Period size: 66 Copynumber: 1.9 Consensus size: 66
49071 CATGGATCTT
* * * * * * *
49081 CAAACACACCAAATTGCTCATAGAGTCAAACATTTCTCATAAGTGAAGCATATAGCTAACACTCT
1 CAAACACACCAAATAGATCATAGAGTCAAACATGTCCCAAAAGTGAACCATAAAGCTAACACTCT
49146 C
66 C
49147 CAAACACACCAAA-AGAATCATAGAGTCAAACATGTCCCAAAAGTGAACCATAAAGCTAACA
1 CAAACACACCAAATAG-ATCATAGAGTCAAACATGTCCCAAAAGTGAACCATAAAGCTAACA
49208 TGCTCCTTAT
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
65 1 0.02
66 52 0.98
ACGTcount: A:0.45, C:0.25, G:0.11, T:0.19
Consensus pattern (66 bp):
CAAACACACCAAATAGATCATAGAGTCAAACATGTCCCAAAAGTGAACCATAAAGCTAACACTCT
C
Found at i:49512 original size:36 final size:36
Alignment explanation
Indices: 49467--49653 Score: 212
Period size: 36 Copynumber: 5.2 Consensus size: 36
49457 ATATATTCAT
**
49467 TGTCACATGGCATGAATAACATAGTCACATATTTAC
1 TGTCACATGGCATGAATAACATACCCACATATTTAC
* * *
49503 TGTCTCATGGCATGAATAACTTACCCACATATTTAT
1 TGTCACATGGCATGAATAACATACCCACATATTTAC
* * ** *
49539 TATCACATGGCGTGAATAATTTACCCACATATTTAT
1 TGTCACATGGCATGAATAACATACCCACATATTTAC
* * * *
49575 TATCACTTAGCATTAATAACATACCCACATATTTAC
1 TGTCACATGGCATGAATAACATACCCACATATTTAC
* * *
49611 TGTCTCATGGCATGAATAATATACCAACATATTTAC
1 TGTCACATGGCATGAATAACATACCCACATATTTAC
*
49647 TTTCACA
1 TGTCACA
49654 ACATTCATCA
Statistics
Matches: 126, Mismatches: 25, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 126 1.00
ACGTcount: A:0.35, C:0.21, G:0.10, T:0.34
Consensus pattern (36 bp):
TGTCACATGGCATGAATAACATACCCACATATTTAC
Found at i:52315 original size:23 final size:23
Alignment explanation
Indices: 52296--52343 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
52286 TCCATTTACA
*
52296 CATAAATTACATTAATATTTAAG
1 CATAAATCACATTAATATTTAAG
52319 CATAAATCACATTAATATTTAAG
1 CATAAATCACATTAATATTTAAG
52342 CA
1 CA
52344 CAAGTCAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.48, C:0.12, G:0.04, T:0.35
Consensus pattern (23 bp):
CATAAATCACATTAATATTTAAG
Found at i:52417 original size:23 final size:23
Alignment explanation
Indices: 52397--52510 Score: 183
Period size: 23 Copynumber: 5.0 Consensus size: 23
52387 TCCTTTTACA
*
52397 CATAAATTACATTAATATTTAAG
1 CATAAATCACATTAATATTTAAG
52420 CATAAATCACATTAATATTTAAG
1 CATAAATCACATTAATATTTAAG
*
52443 CTTAAATCACATTAATATTTAAG
1 CATAAATCACATTAATATTTAAG
** *
52466 CGCAAATCACATTAATATTTACG
1 CATAAATCACATTAATATTTAAG
52489 CATAAATCACATTAATATTTAA
1 CATAAATCACATTAATATTTAA
52511 CACATTTAAT
Statistics
Matches: 83, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 83 1.00
ACGTcount: A:0.46, C:0.14, G:0.04, T:0.36
Consensus pattern (23 bp):
CATAAATCACATTAATATTTAAG
Found at i:52424 original size:101 final size:101
Alignment explanation
Indices: 52249--52443 Score: 381
Period size: 101 Copynumber: 1.9 Consensus size: 101
52239 TACCAACTTT
52249 AATGTCATATTGCATACATTTTAACATCTTTCTTGGGTCCATTTACACATAAATTACATTAATAT
1 AATGTCATATTGCATACATTTTAACATCTTTCTTGGGTCCATTTACACATAAATTACATTAATAT
52314 TTAAGCATAAATCACATTAATATTTAAGCACAAGTC
66 TTAAGCATAAATCACATTAATATTTAAGCACAAGTC
*
52350 AATGTCATATTGCATACATTTTAACATCTTTCTTGGGTCCTTTTACACATAAATTACATTAATAT
1 AATGTCATATTGCATACATTTTAACATCTTTCTTGGGTCCATTTACACATAAATTACATTAATAT
52415 TTAAGCATAAATCACATTAATATTTAAGC
66 TTAAGCATAAATCACATTAATATTTAAGC
52444 TTAAATCACA
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
101 93 1.00
ACGTcount: A:0.37, C:0.16, G:0.08, T:0.39
Consensus pattern (101 bp):
AATGTCATATTGCATACATTTTAACATCTTTCTTGGGTCCATTTACACATAAATTACATTAATAT
TTAAGCATAAATCACATTAATATTTAAGCACAAGTC
Found at i:52720 original size:66 final size:66
Alignment explanation
Indices: 52587--52723 Score: 193
Period size: 66 Copynumber: 2.1 Consensus size: 66
52577 GATACACGGA
* * * * ** *
52587 TCTCCAAACACACCAAATGACTCATAGAGTCGACCATGTCCCATAAGTGAAGCATATCGCTAGCA
1 TCTCCAAACACACCAAAAGACTCATAGAGTCAAACATGTCCCAAAAGTGAAGCATAAAGCTAACA
52652 C
66 C
* *
52653 TCTCCAAACACACCAAAAGACTCATAGAGTCAAACATGTCCCAAAAGTGAAGCGTAAAGTTAACA
1 TCTCCAAACACACCAAAAGACTCATAGAGTCAAACATGTCCCAAAAGTGAAGCATAAAGCTAACA
52718 C
66 C
52719 TCTCC
1 TCTCC
52724 TTATTTCCCC
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
66 62 1.00
ACGTcount: A:0.38, C:0.29, G:0.14, T:0.19
Consensus pattern (66 bp):
TCTCCAAACACACCAAAAGACTCATAGAGTCAAACATGTCCCAAAAGTGAAGCATAAAGCTAACA
C
Found at i:53037 original size:36 final size:36
Alignment explanation
Indices: 52985--53198 Score: 261
Period size: 36 Copynumber: 5.9 Consensus size: 36
52975 TTCACTATCA
*
52985 CATGGCATGAATAACATACTCACATATTTACTGTCT
1 CATGACATGAATAACATACTCACATATTTACTGTCT
* *
53021 CACGACATGAATAACATACTCATATATTTACTGT-T
1 CATGACATGAATAACATACTCACATATTTACTGTCT
* * * *
53056 ACATGGCATGAAAAATATACTCACATATATTTACTGACT
1 -CATGACATGAATAACATACTCAC--ATATTTACTGTCT
* * *
53095 CATGACATGAATAACATACCCGCATATTTACTGTCA
1 CATGACATGAATAACATACTCACATATTTACTGTCT
* * *
53131 CTTGGCATGAATAACATACCCACATATTTACTGTCT
1 CATGACATGAATAACATACTCACATATTTACTGTCT
53167 CATGACATGAATAACATAC-CAACATATTTACT
1 CATGACATGAATAACATACTC-ACATATTTACT
53199 TTCACAACGG
Statistics
Matches: 151, Mismatches: 22, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
35 2 0.01
36 120 0.79
38 28 0.19
39 1 0.01
ACGTcount: A:0.37, C:0.22, G:0.10, T:0.31
Consensus pattern (36 bp):
CATGACATGAATAACATACTCACATATTTACTGTCT
Found at i:53192 original size:110 final size:110
Alignment explanation
Indices: 52985--53198 Score: 281
Period size: 110 Copynumber: 2.0 Consensus size: 110
52975 TTCACTATCA
* * * * *
52985 CATGGCATGAATAACATACTCACATATTTACTGTCTCACGACATGAATAACATACTCATATATTT
1 CATGACATGAATAACATACCCACATATTTACTGTCACACGACATGAATAACATACCCACATATTT
* *
53050 ACTGTTACATGGCATGAAAAATATACTCACATATATTTACTGACT
66 ACTGTTACATGACATGAAAAACATACTCACATATATTTACTGACT
* ** *
53095 CATGACATGAATAACATACCCGCATATTTACTGTCACTTGGCATGAATAACATACCCACATATTT
1 CATGACATGAATAACATACCCACATATTTACTGTCACACGACATGAATAACATACCCACATATTT
* *
53160 ACTGTCT-CATGACATGAATAACATAC-CA-ACATATTTACT
66 ACTGT-TACATGACATGAAAAACATACTCACATATATTTACT
53199 TTCACAACGG
Statistics
Matches: 90, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
108 10 0.11
109 2 0.02
110 77 0.86
111 1 0.01
ACGTcount: A:0.37, C:0.22, G:0.10, T:0.31
Consensus pattern (110 bp):
CATGACATGAATAACATACCCACATATTTACTGTCACACGACATGAATAACATACCCACATATTT
ACTGTTACATGACATGAAAAACATACTCACATATATTTACTGACT
Found at i:53193 original size:72 final size:71
Alignment explanation
Indices: 52982--53204 Score: 302
Period size: 72 Copynumber: 3.1 Consensus size: 71
52972 ATGTTCACTA
* * *
52982 TCACATGGCATGAATAACATACTCACATATTTACTGTCTCACGACATGAATAACATACTCATATA
1 TCACATGGCATGAATAACATACCCACATATTTACTGTCTCATGACATGAATAACATAC-CACATA
53047 TTTACTG
65 TTTACTG
* * * * * *
53054 TTACATGGCATGAAAAATATACTCACATATATTTACTGACTCATGACATGAATAACATACCCGCA
1 TCACATGGCATGAATAACATAC-C-CACATATTTACTGTCTCATGACATGAATAACATA-CCACA
53119 TATTTACTG
63 TATTTACTG
*
53128 TCACTTGGCATGAATAACATACCCACATATTTACTGTCTCATGACATGAATAACATACCAACATA
1 TCACATGGCATGAATAACATACCCACATATTTACTGTCTCATGACATGAATAACATACC-ACATA
*
53193 TTTACTT
65 TTTACTG
53200 TCACA
1 TCACA
53205 ACGGTCATCA
Statistics
Matches: 129, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
71 2 0.02
72 65 0.50
73 1 0.01
74 60 0.47
75 1 0.01
ACGTcount: A:0.37, C:0.22, G:0.09, T:0.31
Consensus pattern (71 bp):
TCACATGGCATGAATAACATACCCACATATTTACTGTCTCATGACATGAATAACATACCACATAT
TTACTG
Done.