Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01013982.1 Kokia drynarioides strain JFW-HI SEQ_129013, 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: 16137
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Found at i:1807 original size:29 final size:30
Alignment explanation
Indices: 1773--2188 Score: 277
Period size: 29 Copynumber: 14.5 Consensus size: 30
1763 TGAACTTCTA
1773 AAAAATTCCATTTTTTACCCCAAAACTTCC
1 AAAAATTCCATTTTTTACCCCAAAACTTCC
* *
1803 -AAAATTACA-TTTTTACCCTC-GAACTTCC
1 AAAAATTCCATTTTTTACCC-CAAAACTTCC
* *
1831 AAAAATTCCA-TTTTAACCCTAAAACTTCC
1 AAAAATTCCATTTTTTACCCCAAAACTTCC
* *
1860 AAAAAATCCA-TTTTTACCCCCAAACTTCC
1 AAAAATTCCATTTTTTACCCCAAAACTTCC
* * *** *
1889 AAAAATTTC-TTTTTCGACCTTGAAACTTAC
1 AAAAATTCCATTTTT-TACCCCAAAACTTCC
*** **
1919 AAAAATTCCA-TTTTTACCCGTGAACTTTT
1 AAAAATTCCATTTTTTACCCCAAAACTTCC
* * * *
1948 AAAAATTCTATTTTTGACTCCGAAACTTCC
1 AAAAATTCCATTTTTTACCCCAAAACTTCC
* *
1978 -AAAATTCTATTTCTTACCCCAAAA----C
1 AAAAATTCCATTTTTTACCCCAAAACTTCC
*
2003 -----TTCCA-TTTTTACCCTC-GAACTTCC
1 AAAAATTCCATTTTTTACCC-CAAAACTTCC
* * * *
2027 AAAAATACCATTTTTGACCTCGAAACTTCC
1 AAAAATTCCATTTTTTACCCCAAAACTTCC
**
2057 AAAAATT--ATTTTTTTACCCCCGAACTTCC
1 AAAAATTCCA-TTTTTTACCCCAAAACTTCC
* * *
2086 AAAAATTCCATTTTTGACCCTAAAACTTCT
1 AAAAATTCCATTTTTTACCCCAAAACTTCC
***
2116 AAAAA-TCTCATTTTTT--CCTTGAACTTCC
1 AAAAATTC-CATTTTTTACCCCAAAACTTCC
* *
2144 AAAAATTCCATTTTTGACCCCATAACTTCC
1 AAAAATTCCATTTTTTACCCCAAAACTTCC
2174 AAAAATTCCATTTTT
1 AAAAATTCCATTTTT
2189 GCCCCCGGAT
Statistics
Matches: 298, Mismatches: 62, Indels: 52
0.72 0.15 0.13
Matches are distributed among these distances:
20 10 0.03
21 5 0.02
24 1 0.00
25 1 0.00
28 38 0.13
29 137 0.46
30 105 0.35
31 1 0.00
ACGTcount: A:0.34, C:0.27, G:0.03, T:0.36
Consensus pattern (30 bp):
AAAAATTCCATTTTTTACCCCAAAACTTCC
Found at i:1814 original size:59 final size:58
Alignment explanation
Indices: 1745--2275 Score: 284
Period size: 59 Copynumber: 9.2 Consensus size: 58
1735 AACTGCTTGG
* * * *
1745 AAATTCCATTTTTATCCTTGAACTTCTAAAAAATTCCATTTTTTACCCCAAAACTTCCA
1 AAATTCCATTTTTACCCTCGAACTTC-CAAAAATTCCATTTTTGACCCCAAAACTTCCA
* * *
1804 AAATTACATTTTTACCCTCGAACTTCCAAAAATTCCA-TTTTAACCCTAAAACTTCCAA
1 AAATTCCATTTTTACCCTCGAACTTCCAAAAATTCCATTTTTGACCCCAAAACTTCC-A
* * * * *** *
1862 AAAATCCATTTTTACCCCCAAACTTCCAAAAATTTC-TTTTTCGACCTTGAAACTTACAA
1 AAATTCCATTTTTACCCTCGAACTTCCAAAAATTCCATTTTT-GACCCCAAAACTT-CCA
** * * *
1921 AAATTCCATTTTTACCCGT-GAACTTTTAAAAATTCTATTTTTGACTCCGAAACTTCCA
1 AAATTCCATTTTTACCC-TCGAACTTCCAAAAATTCCATTTTTGACCCCAAAACTTCCA
* * *
1979 AAATTCTATTTCTTA----C---C--CCAAAACTTCCATTTTT-ACCCTC-GAACTTCCAA
1 AAATTCCATTT-TTACCCTCGAACTTCCAAAAATTCCATTTTTGACCC-CAAAACTTCC-A
* * **
2029 AAATACCATTTTTGA-CCTCGAAACTTCCAAAAATT--ATTTTTTTACCCCCGAACTTCCAA
1 AAATTCCATTTTT-ACCCTCG-AACTTCCAAAAATTCCA-TTTTTGACCCCAAAACTTCC-A
** * * ***
2088 AAATTCCATTTTTGACCCTAAAACTTCTAAAAA-TCTCATTTTT--TCCTTGAACTTCCAA
1 AAATTCCATTTTT-ACCCTCGAACTTCCAAAAATTC-CATTTTTGACCCCAAAACTTCC-A
* * ** ** *
2146 AAATTCCATTTTTGACCC-CATAACTTCCAAAAATTCCATTTTTGCCCCCGGATGTTCGA
1 AAATTCCATTTTT-ACCCTC-GAACTTCCAAAAATTCCATTTTTGACCCCAAAACTTCCA
* * * * * *
2205 AAACTCTATTTTCAACCTCGAAAC-TCCAAAAATTCTA-TTTT-ACCCCAAAA-TATCTAA
1 AAATTCCATTTTTACCCTCG-AACTTCCAAAAATTCCATTTTTGACCCCAAAACT-TC-CA
2262 AAATTCCATTTTTA
1 AAATTCCATTTTTA
2276 ACCCCGATTT
Statistics
Matches: 371, Mismatches: 66, Indels: 72
0.73 0.13 0.14
Matches are distributed among these distances:
49 12 0.03
50 25 0.07
52 1 0.00
53 1 0.00
55 1 0.00
56 7 0.02
57 35 0.09
58 128 0.35
59 139 0.37
60 21 0.06
61 1 0.00
ACGTcount: A:0.34, C:0.26, G:0.04, T:0.36
Consensus pattern (58 bp):
AAATTCCATTTTTACCCTCGAACTTCCAAAAATTCCATTTTTGACCCCAAAACTTCCA
Found at i:2001 original size:20 final size:20
Alignment explanation
Indices: 1976--2016 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
1966 TCCGAAACTT
*
1976 CCAAAA-TTCTATTTCTTACC
1 CCAAAACTTCCATTT-TTACC
1996 CCAAAACTTCCATTTTTACC
1 CCAAAACTTCCATTTTTACC
2016 C
1 C
2017 TCGAACTTCC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.29, C:0.34, G:0.00, T:0.37
Consensus pattern (20 bp):
CCAAAACTTCCATTTTTACC
Found at i:2051 original size:79 final size:79
Alignment explanation
Indices: 1918--2086 Score: 209
Period size: 79 Copynumber: 2.1 Consensus size: 79
1908 TTGAAACTTA
* ** * *
1918 CAAAAATTCCATTTTTACCCGTGAACTTTTAAAAATTCTATTTTTGACTCCGAAACTTCC-AAAA
1 CAAAACTTCCATTTTTACCCGTGAACTTCCAAAAATACCATTTTTGACTCCGAAACTTCCAAAAA
*
1982 TTCTATTTCTTACCC
66 TTAT-TTTCTTACCC
1997 CAAAACTTCCATTTTTACCC-TCGAACTTCCAAAAATACCATTTTTGAC-CTCGAAACTTCCAAA
1 CAAAACTTCCATTTTTACCCGT-GAACTTCCAAAAATACCATTTTTGACTC-CGAAACTTCCAAA
*
2060 AATTATTTTTTTACCC
64 AATTATTTTCTTACCC
**
2076 CCGAACTTCCA
1 CAAAACTTCCA
2087 AAAATTCCAT
Statistics
Matches: 78, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
78 2 0.03
79 69 0.88
80 7 0.09
ACGTcount: A:0.32, C:0.27, G:0.05, T:0.36
Consensus pattern (79 bp):
CAAAACTTCCATTTTTACCCGTGAACTTCCAAAAATACCATTTTTGACTCCGAAACTTCCAAAAA
TTATTTTCTTACCC
Found at i:2056 original size:30 final size:29
Alignment explanation
Indices: 1996--2189 Score: 191
Period size: 30 Copynumber: 6.6 Consensus size: 29
1986 ATTTCTTACC
*
1996 CCAAAACTTCCATTTTT-ACCCTCGAACTT
1 CCAAAAATTCCATTTTTGA-CCTCGAACTT
*
2025 CCAAAAATACCATTTTTGACCTCGAAACTT
1 CCAAAAATTCCATTTTTGACCTCG-AACTT
* *
2055 CCAAAAATT--ATTTTTTTACCCCCGAACTT
1 CCAAAAATTCCA-TTTTTGA-CCTCGAACTT
**
2084 CCAAAAATTCCATTTTTGACCCTAAAACTT
1 CCAAAAATTCCATTTTTGA-CCTCGAACTT
* * *
2114 CTAAAAA-TCTCATTTTT-TCCTTGAACTT
1 CCAAAAATTC-CATTTTTGACCTCGAACTT
* *
2142 CCAAAAATTCCATTTTTGACCCCATAACTT
1 CCAAAAATTCCATTTTTGACCTC-GAACTT
2172 CCAAAAATTCCATTTTTG
1 CCAAAAATTCCATTTTTG
2190 CCCCCGGATG
Statistics
Matches: 137, Mismatches: 18, Indels: 19
0.79 0.10 0.11
Matches are distributed among these distances:
28 22 0.16
29 46 0.34
30 68 0.50
31 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.04, T:0.36
Consensus pattern (29 bp):
CCAAAAATTCCATTTTTGACCTCGAACTT
Found at i:2112 original size:138 final size:139
Alignment explanation
Indices: 1866--2128 Score: 334
Period size: 138 Copynumber: 1.9 Consensus size: 139
1856 TTCCAAAAAA
** * *
1866 TCCATTTTTACCCCCAAACTTCCAAAAATTTCTTTTTCGACCTTGAAACTTACAAAAATTCCATT
1 TCCATTTTTACCCCCAAACTTCCAAAAATACCTTTTTCGACCTCGAAACTTACAAAAATTACATT
** ** * * *
1931 TTTACCCGTGAACTTTTAAAAATTCTATTTTTGACTCCGAAACTTCCAAAATTCT-ATTTCTTAC
66 TTTACCCCCGAACTTCCAAAAATTCCATTTTTGACTCCAAAACTTCCAAAAATCTCATTTCTTAC
1995 CCCAAAACT
131 CCCAAAACT
* * * **
2004 TCCATTTTTACCCTCGAACTTCCAAAAATACCATTTTT-GACCTCGAAACTTCCAAAAATTATTT
1 TCCATTTTTACCCCCAAACTTCCAAAAATACC-TTTTTCGACCTCGAAACTTACAAAAATTACAT
*
2068 TTTTACCCCCGAACTTCCAAAAATTCCATTTTTGAC-CCTAAAACTTCTAAAAATCTCATTT
65 TTTTACCCCCGAACTTCCAAAAATTCCATTTTTGACTCC-AAAACTTCCAAAAATCTCATTT
2129 TTTCCTTGAA
Statistics
Matches: 105, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
137 2 0.02
138 94 0.90
139 9 0.09
ACGTcount: A:0.32, C:0.27, G:0.04, T:0.37
Consensus pattern (139 bp):
TCCATTTTTACCCCCAAACTTCCAAAAATACCTTTTTCGACCTCGAAACTTACAAAAATTACATT
TTTACCCCCGAACTTCCAAAAATTCCATTTTTGACTCCAAAACTTCCAAAAATCTCATTTCTTAC
CCCAAAACT
Found at i:2233 original size:88 final size:86
Alignment explanation
Indices: 1996--2280 Score: 235
Period size: 88 Copynumber: 3.3 Consensus size: 86
1986 ATTTCTTACC
* * * *
1996 CCAAAACTTCCATTTTT-ACCCTC-GAACTTCCAAAAATAC-CATTTTTGACCTCGAAACTTCCA
1 CCAAAAATTCCATTTTTGACCC-CAAAACTTCGAAAAAT-CTCA-TTTTAACCTCGAAACTTCCA
*
2058 AAAATT-ATTTTTTTACCCCCGAACTT
63 AAAATTCA--TTTTTA-CCCCAAACTT
* * ** *
2084 CCAAAAATTCCATTTTTGACCCTAAAACTTCTAAAAATCTCATTTTTTCCTTG-AACTTCCAAAA
1 CCAAAAATTCCATTTTTGACCCCAAAACTTCGAAAAATCTCATTTTAACCTCGAAACTTCCAAAA
2148 ATTCCATTTTTGACCCCATAACTT
66 ATT-CATTTTT-ACCCCA-AACTT
* ** ** *
2172 CCAAAAATTCCATTTTTGCCCCCGGATGTTCGAAAACTCT-ATTTTCAACCTCGAAAC-TCCAAA
1 CCAAAAATTCCATTTTTGACCCCAAAACTTCGAAAAATCTCATTTT-AACCTCGAAACTTCCAAA
*
2235 AATTC-TATTTTACCCCAAAATAT
65 AATTCAT-TTTTACCCCAAACT-T
* *
2258 CTAAAAATTCCATTTTTAACCCC
1 CCAAAAATTCCATTTTTGACCCC
2281 GATTTTTCCC
Statistics
Matches: 163, Mismatches: 23, Indels: 24
0.78 0.11 0.11
Matches are distributed among these distances:
85 3 0.02
86 28 0.17
87 33 0.20
88 77 0.47
89 22 0.13
ACGTcount: A:0.33, C:0.28, G:0.05, T:0.34
Consensus pattern (86 bp):
CCAAAAATTCCATTTTTGACCCCAAAACTTCGAAAAATCTCATTTTAACCTCGAAACTTCCAAAA
ATTCATTTTTACCCCAAACTT
Found at i:2436 original size:19 final size:19
Alignment explanation
Indices: 2399--2436 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
2389 CTCTATTTTG
* *
2399 CATTTTTTATTTTTTTTAC
1 CATTTTTTATTTATCTTAC
2418 CATTTTTTATTTATCTTAC
1 CATTTTTTATTTATCTTAC
2437 TTCACGTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.18, C:0.13, G:0.00, T:0.68
Consensus pattern (19 bp):
CATTTTTTATTTATCTTAC
Found at i:14405 original size:204 final size:203
Alignment explanation
Indices: 14053--14608 Score: 713
Period size: 204 Copynumber: 2.8 Consensus size: 203
14043 AAATGACACA
* * *
14053 GTCATCTTCCTGATGAGATATTGAGAAGAAGACCAAATCAAACTCACTCTCGATGCGAGCAAATC
1 GTCATCTTCTTGATGAGATATTGAGAAGAAGACCAAATCAAACTC-C-CTCAATGCGAGCAAAAC
* * *
14118 TTCGAACCCCCGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTTCC
64 TTTGAACCCCAGCTTCCTGATGAGATACTGAGAAGTAGGTCGAAGCAATAAAATGGTTAGCTTCC
* * * *
14183 TGATGAGGTATTGAGAAGTGAACCAAATTCAG-CTTCCTGATGAGATACAGAGAAGCGGATTGAA
129 TGATGAGATA-TGAGAAGTGAACCAAATTC-GTCTTCCTGATGAGATACAAAGAAGCAGATTAAA
* **
14247 ACAAGCGATTTG
192 ACAAACGATGCG
* *
14259 GTCATCTTCTTGATAAGATATTGAGAA-AAGACCAAATCAAACTCCGCTCAATGCGAGCAAACCT
1 GTCATCTTCTTGATGAGATATTGAGAAGAAGACCAAATCAAACTCC-CTCAATGCGAGCAAAACT
*
14323 TTGAACCCCAGCTTCCTGATGAGATACAGAGAAGTAGGTCGAAGCAATAAAATGGTTAGCTTCCT
65 TTGAACCCCAGCTTCCTGATGAGATACTGAGAAGTAGGTCGAAGCAATAAAATGGTTAGCTTCCT
*
14388 GATGAGATACTGAGAAGTGAATCAAATTCGTCTTCCTGATGAGATACAAAGAAGCAGATTAAAAC
130 GATGAGATA-TGAGAAGTGAACCAAATTCGTCTTCCTGATGAGATACAAAGAAGCAGATTAAAAC
*
14453 AAATGATGCG
194 AAACGATGCG
* *
14463 GTCATCTTCTTGATGAGATACTGAGAAGAAGACCAAATC--A-------AA-GCGAGCAAAATTT
1 GTCATCTTCTTGATGAGATATTGAGAAGAAGACCAAATCAAACTCCCTCAATGCGAGCAAAACTT
* * * *
14518 TCGAACCCCAGCTTCCTGATGAGATACTGAGAAGTAAGTCAAAGTAATAAAATGGTTAGCTTCTT
66 T-GAACCCCAGCTTCCTGATGAGATACTGAGAAGTAGGTCGAAGCAATAAAATGGTTAGCTTCCT
* * *
14583 GACGAAATATGGGGAAGTGAACCAAA
130 GATGAGATAT-GAGAAGTGAACCAAA
14609 ATCATCTTTT
Statistics
Matches: 314, Mismatches: 32, Indels: 19
0.86 0.09 0.05
Matches are distributed among these distances:
194 13 0.04
195 80 0.25
203 2 0.01
204 166 0.53
205 28 0.09
206 25 0.08
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.23
Consensus pattern (203 bp):
GTCATCTTCTTGATGAGATATTGAGAAGAAGACCAAATCAAACTCCCTCAATGCGAGCAAAACTT
TGAACCCCAGCTTCCTGATGAGATACTGAGAAGTAGGTCGAAGCAATAAAATGGTTAGCTTCCTG
ATGAGATATGAGAAGTGAACCAAATTCGTCTTCCTGATGAGATACAAAGAAGCAGATTAAAACAA
ACGATGCG
Found at i:14686 original size:195 final size:194
Alignment explanation
Indices: 14107--14693 Score: 480
Period size: 204 Copynumber: 3.0 Consensus size: 194
14097 CACTCTCGAT
* * * * * * *
14107 GCGAGCAAATCTTCGAACCCCCGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAAT
1 GCGAGCAAAACTTTGAACCCCAGCTTCCTGATGAGATACAGAGAAGTAAGTCAAAGCAATAAAAT
* ** * * * * * * *
14172 GGTTAGCTTCCTGATGAGGTATTGAGAAGTGAACCAAATTCAGCTTCCTGATGAGATACAGAGAA
66 GGTTAGCTTCCTGACGAAATACTGAGAAGTGAACCAAAATCATCTTCCTGATAAAACACAAAGAA
* ** ** ** * **
14237 GCGGATTGAAACAAGCGATTTGGTCATCTTCTTGAT-AAGATATTGAGAA-AAGACCAAATCAAA
131 GCAGATCAAAACAAATGATACGGTCATCTTCCTGATGAA-ATACCGAGAAGAAGACCAAATC--A
14300 CTCCGCTCAA
193 --------AA
* * *
14310 TGCGAGCAAACCTTTGAACCCCAGCTTCCTGATGAGATACAGAGAAGTAGGTCGAAGCAATAAAA
1 -GCGAGCAAAACTTTGAACCCCAGCTTCCTGATGAGATACAGAGAAGTAAGTCAAAGCAATAAAA
* * * * * * * *
14375 TGGTTAGCTTCCTGATGAGATACTGAGAAGTGAATCAAATTCGTCTTCCTGATGAGATACAAAGA
65 TGGTTAGCTTCCTGACGAAATACTGAGAAGTGAACCAAAATCATCTTCCTGATAAAACACAAAGA
* * * * *
14440 AGCAGATTAAAACAAATGATGCGGTCATCTTCTTGATGAGATACTGAGAAGAAGACCAAATCAAA
130 AGCAGATCAAAACAAATGATACGGTCATCTTCCTGATGAAATACCGAGAAGAAGACCAAATCAAA
* * *
14505 GCGAGCAAAATTTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGTAAGTCAAAGTAATAAAA
1 GCGAGCAAAACTTT-GAACCCCAGCTTCCTGATGAGATACAGAGAAGTAAGTCAAAGCAATAAAA
* * * **
14570 TGGTTAGCTTCTTGACGAAATA-TGGGGAAGTGAACCAAAATCATCTT-TTAGATAAAACACGGA
65 TGGTTAGCTTCCTGACGAAATACT-GAGAAGTGAACCAAAATCATCTTCCT-GATAAAACACAAA
* ** ** * * *
14633 GTAGTGGATCAAAACAGGTGATATGGTCGTCTTCCTGATGAAATACCGAGAAGAAGGCCAA
128 GAAGCAGATCAAAACAAATGATACGGTCATCTTCCTGATGAAATACCGAGAAGAAGACCAA
14694 TCAGACTTAA
Statistics
Matches: 327, Mismatches: 51, Indels: 19
0.82 0.13 0.05
Matches are distributed among these distances:
194 14 0.04
195 142 0.43
203 1 0.00
204 158 0.48
205 12 0.04
ACGTcount: A:0.36, C:0.18, G:0.23, T:0.23
Consensus pattern (194 bp):
GCGAGCAAAACTTTGAACCCCAGCTTCCTGATGAGATACAGAGAAGTAAGTCAAAGCAATAAAAT
GGTTAGCTTCCTGACGAAATACTGAGAAGTGAACCAAAATCATCTTCCTGATAAAACACAAAGAA
GCAGATCAAAACAAATGATACGGTCATCTTCCTGATGAAATACCGAGAAGAAGACCAAATCAAA
Found at i:15046 original size:18 final size:18
Alignment explanation
Indices: 15005--15049 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 18
14995 CTAAATTCAT
*
15005 TTTAAATTTATTTTAAGA
1 TTTAAATTTATTTTAAAA
*
15023 -TTAAATTTGTTTTAAAA
1 TTTAAATTTATTTTAAAA
15040 TTTAAATTTA
1 TTTAAATTTA
15050 AATATAATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 15 0.65
18 8 0.35
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (18 bp):
TTTAAATTTATTTTAAAA
Found at i:15060 original size:17 final size:17
Alignment explanation
Indices: 15038--15107 Score: 63
Period size: 17 Copynumber: 4.1 Consensus size: 17
15028 TTTGTTTTAA
15038 AATTTAAATTTAAATAT
1 AATTTAAATTTAAATAT
** *
15055 AATTTAAGGTTAAATTT
1 AATTTAAATTTAAATAT
*
15072 ATTTTCAAATTT-AATAT
1 AATTT-AAATTTAAATAT
*
15089 TATTATAAATTTAAA-AT
1 AATT-TAAATTTAAATAT
15106 AA
1 AA
15108 ATAAAGTTCA
Statistics
Matches: 40, Mismatches: 10, Indels: 6
0.71 0.18 0.11
Matches are distributed among these distances:
17 33 0.82
18 7 0.17
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.47
Consensus pattern (17 bp):
AATTTAAATTTAAATAT
Found at i:15102 original size:41 final size:41
Alignment explanation
Indices: 15005--15085 Score: 117
Period size: 41 Copynumber: 2.0 Consensus size: 41
14995 CTAAATTCAT
* * *
15005 TTTAAATTTATTTTAAGATTAAATTTGTTTTAAAATTTAAA
1 TTTAAATATAATTTAAGATTAAATTTATTTTAAAATTTAAA
* *
15046 TTTAAATATAATTTAAGGTTAAATTTATTTTCAAATTTAA
1 TTTAAATATAATTTAAGATTAAATTTATTTTAAAATTTAA
15086 TATTATTATA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.42, C:0.01, G:0.05, T:0.52
Consensus pattern (41 bp):
TTTAAATATAATTTAAGATTAAATTTATTTTAAAATTTAAA
Done.