Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01012508.1 Corchorus olitorius cultivar O-4 contig12541, 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: 12133
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.30
Found at i:479 original size:27 final size:27
Alignment explanation
Indices: 401--472 Score: 117
Period size: 27 Copynumber: 2.7 Consensus size: 27
391 TGTGAACTTT
**
401 AAAATGACTGAAATGCCCCTGAATGTA
1 AAAATGACCAAAATGCCCCTGAATGTA
*
428 AAAATGACCAAAATACCCCTGAATGTA
1 AAAATGACCAAAATGCCCCTGAATGTA
455 AAAATGACCAAAATGCCC
1 AAAATGACCAAAATGCCC
473 TTAAATGACC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.46, C:0.22, G:0.14, T:0.18
Consensus pattern (27 bp):
AAAATGACCAAAATGCCCCTGAATGTA
Found at i:857 original size:39 final size:39
Alignment explanation
Indices: 814--902 Score: 101
Period size: 39 Copynumber: 2.3 Consensus size: 39
804 ATTAATTGAC
* *
814 AAGCAATGATCCTGAACCAAGA-TCGAAATAAAACTGATA
1 AAGCAATGATCCTAAACCAAGACT-GAAACAAAACTGATA
* * *
853 AAGCAAT-AGTACTAAATCAAGACTGAAACATAACTGATA
1 AAGCAATGA-TCCTAAACCAAGACTGAAACAAAACTGATA
892 AAGCAATGATC
1 AAGCAATGATC
903 AAAATTCAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
38 1 0.02
39 38 0.93
40 2 0.05
ACGTcount: A:0.49, C:0.17, G:0.15, T:0.19
Consensus pattern (39 bp):
AAGCAATGATCCTAAACCAAGACTGAAACAAAACTGATA
Found at i:1013 original size:30 final size:30
Alignment explanation
Indices: 979--1500 Score: 672
Period size: 30 Copynumber: 17.3 Consensus size: 30
969 CTACATCGTG
*
979 ATAAAGCAATGATCCT-AAACCAGGATTATA
1 ATAAAGCAATGATCCTCAAA-CAGGATTAAA
* * *
1009 ATAAAGCAACGATCCTAAAACATGATTAAA
1 ATAAAGCAATGATCCTCAAACAGGATTAAA
* *
1039 ATGAAGTAATGATCCTCAAACAGGATTAAAA
1 ATAAAGCAATGATCCTCAAACAGGATT-AAA
* *
1070 ATGAAGCAATGATCCTCAAACATGATTAAA
1 ATAAAGCAATGATCCTCAAACAGGATTAAA
* * *
1100 ATAGAGCGATGATCCTCAAACAAGATTAAA
1 ATAAAGCAATGATCCTCAAACAGGATTAAA
* * *
1130 ATGAAGTAATGATCCT-AAACCAGGATTAAC
1 ATAAAGCAATGATCCTCAAA-CAGGATTAAA
* * *
1160 ATAGAGCAAAT-ATCCTCAACCAGGATAAAA
1 ATAAAGC-AATGATCCTCAAACAGGATTAAA
1190 ATAAAGCAATGATCCTCAAACAGGATTAAA
1 ATAAAGCAATGATCCTCAAACAGGATTAAA
* * *
1220 ATGAAGTAATGATCCTCAAACATGATTAAA
1 ATAAAGCAATGATCCTCAAACAGGATTAAA
1250 ATAAAGCAATGATCCTCAAACAGGATTAAAA
1 ATAAAGCAATGATCCTCAAACAGGATT-AAA
*
1281 ATGAAGCAATGATCCTCAAACAGGATTAAA
1 ATAAAGCAATGATCCTCAAACAGGATTAAA
* * *
1311 ATGAAGTAATGATCCTCAATCAGGATTAAA
1 ATAAAGCAATGATCCTCAAACAGGATTAAA
* *
1341 ATAAAGCAATGATCCTCAACCAGGTTTAAA
1 ATAAAGCAATGATCCTCAAACAGGATTAAA
* * * *
1371 ATAAAGCAACGATCCTTAACCAGGATTAAC
1 ATAAAGCAATGATCCTCAAACAGGATTAAA
*
1401 ATAAAGCAATGATCCTCAAACAGGATTAAC
1 ATAAAGCAATGATCCTCAAACAGGATTAAA
*
1431 ATAAAGCAATGATCCTCAAACAGGATTAAC
1 ATAAAGCAATGATCCTCAAACAGGATTAAA
* *
1461 ATAAAGCAATGATCCTCAAACAAGATTAAC
1 ATAAAGCAATGATCCTCAAACAGGATTAAA
1491 ATAAAGCAAT
1 ATAAAGCAAT
1501 AACCAAAAAT
Statistics
Matches: 435, Mismatches: 50, Indels: 14
0.87 0.10 0.03
Matches are distributed among these distances:
29 6 0.01
30 364 0.84
31 65 0.15
ACGTcount: A:0.48, C:0.17, G:0.14, T:0.21
Consensus pattern (30 bp):
ATAAAGCAATGATCCTCAAACAGGATTAAA
Found at i:1354 original size:211 final size:211
Alignment explanation
Indices: 979--1489 Score: 747
Period size: 211 Copynumber: 2.4 Consensus size: 211
969 CTACATCGTG
* * * *
979 ATAAAGCAATGATCCT-AAACCAGGATTATAATAAAGCAACGATCCTAAAACATGATTAAAATGA
1 ATAAAGCAATGATCCTCAAA-CAGGATTAAAATAAAGCAATGATCCTCAAACATGATTAAAATAA
* * *
1043 AGTAATGATCCTCAAACAGGATTAAAAATGAAGCAATGATCCTCAAACATGATTAAAATAGAGCG
65 AGCAATGATCCTCAAACAGGATTAAAAATGAAGCAATGATCCTCAAACAGGATTAAAATAGAGCA
* * * * *
1108 ATGATCCTCAAACAAGATTAAAATGAAGTAATGATCCTAAACCAGGATTAACATAGAGCAAATAT
130 ATGATCCTCAAACAAGATTAAAATAAAGCAATGATCCTAAACCAGGATTAAAATAAAGCAAAGAT
1173 CCTCAACCAGGATAAAA
195 CCTCAACCAGGATAAAA
* *
1190 ATAAAGCAATGATCCTCAAACAGGATTAAAATGAAGTAATGATCCTCAAACATGATTAAAATAAA
1 ATAAAGCAATGATCCTCAAACAGGATTAAAATAAAGCAATGATCCTCAAACATGATTAAAATAAA
*
1255 GCAATGATCCTCAAACAGGATTAAAAATGAAGCAATGATCCTCAAACAGGATTAAAAT-GAAGTA
66 GCAATGATCCTCAAACAGGATTAAAAATGAAGCAATGATCCTCAAACAGGATTAAAATAG-AGCA
* * * * *
1319 ATGATCCTCAATCAGGATTAAAATAAAGCAATGATCCTCAACCAGGTTTAAAATAAAGCAACGAT
130 ATGATCCTCAAACAAGATTAAAATAAAGCAATGATCCTAAACCAGGATTAAAATAAAGCAAAGAT
* * *
1384 CCTTAACCAGGATTAAC
195 CCTCAACCAGGATAAAA
* * *
1401 ATAAAGCAATGATCCTCAAACAGGATTAACATAAAGCAATGATCCTCAAACAGGATTAACATAAA
1 ATAAAGCAATGATCCTCAAACAGGATTAAAATAAAGCAATGATCCTCAAACATGATTAAAATAAA
*
1466 GCAATGATCCTCAAACAAGATTAA
66 GCAATGATCCTCAAACAGGATTAA
1490 CATAAAGCAA
Statistics
Matches: 269, Mismatches: 29, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
210 1 0.00
211 265 0.99
212 3 0.01
ACGTcount: A:0.47, C:0.17, G:0.14, T:0.22
Consensus pattern (211 bp):
ATAAAGCAATGATCCTCAAACAGGATTAAAATAAAGCAATGATCCTCAAACATGATTAAAATAAA
GCAATGATCCTCAAACAGGATTAAAAATGAAGCAATGATCCTCAAACAGGATTAAAATAGAGCAA
TGATCCTCAAACAAGATTAAAATAAAGCAATGATCCTAAACCAGGATTAAAATAAAGCAAAGATC
CTCAACCAGGATAAAA
Found at i:1818 original size:35 final size:35
Alignment explanation
Indices: 1756--2315 Score: 381
Period size: 35 Copynumber: 16.3 Consensus size: 35
1746 GCAGTCAATC
* *
1756 GAAATAAACTGCAGAGAAGATCGCCCTGGATCTACT
1 GAAATAAACTG-AGAAAAGATCGCCCTGGATCAACT
* * *
1792 GAAGTAAATTGAGGAAAGATCGCCCTGGATCAA-T
1 GAAATAAACTGAGAAAAGATCGCCCTGGATCAACT
* *
1826 ----T-AA---AGAAAAGATCGCCCTCGATCGACT
1 GAAATAAACTGAGAAAAGATCGCCCTGGATCAACT
* *
1853 GAAATAAACTGAAGAAAAGATTGCCCCGGATCAA-T
1 GAAATAAACTG-AGAAAAGATCGCCCTGGATCAACT
1888 GGAAATAAACTGAAGAAAAGATCGCCCTGGATCAACT
1 -GAAATAAACTG-AGAAAAGATCGCCCTGGATCAACT
* * *
1925 G------A---AGAAAAGATTGCCTTGGATCAATT
1 GAAATAAACTGAGAAAAGATCGCCCTGGATCAACT
1951 GAAATAAACTGAAGAAAAGATCGCCCTGGATCAACT
1 GAAATAAACTG-AGAAAAGATCGCCCTGGATCAACT
* *
1987 GAAATAAACTGA-AGAAAGACCGCCCTGGGTCAACT
1 GAAATAAACTGAGA-AAAGATCGCCCTGGATCAACT
* * * *
2022 GAAATAAACCGA-AGAAAGACCGCCCT-AAGTCAATT
1 GAAATAAACTGAGA-AAAGATCGCCCTGGA-TCAACT
2057 GAAATAAACTGAAGAAAAGATCGCCCTGGATCAACT
1 GAAATAAACTG-AGAAAAGATCGCCCTGGATCAACT
* * * *
2093 GAAGTAAACTGA-AGAAAGACCG-CCTTGAGTCAATT
1 GAAATAAACTGAGA-AAAGATCGCCCTGGA-TCAACT
*
2128 GAAATAAACTGAAGAAAAGATCGCCCTGAATCAA-T
1 GAAATAAACTG-AGAAAAGATCGCCCTGGATCAACT
* * *
2163 GGAAATAAACT-A-AAATAGGACCACCCTGGGTCAACT
1 -GAAATAAACTGAGAAA-A-GATCGCCCTGGATCAACT
* * *
2199 GAAATGAATTGA-ATAAGGATCGCCCTGGATCAACT
1 GAAATAAACTGAGA-AAAGATCGCCCTGGATCAACT
* * * * *
2234 GAAGTGAATTGAAGAAAA-A-CTGCCCTGGGTCAGCT
1 GAAATAAACTG-AGAAAAGATC-GCCCTGGATCAACT
* * * *
2269 GAAATAAACCGA-ATAAAGACCGCCCTGGGTCAATT
1 GAAATAAACTGAGA-AAAGATCGCCCTGGATCAACT
*
2304 GAAATGAACTGA
1 GAAATAAACTGA
2316 AGCATCTAAA
Statistics
Matches: 420, Mismatches: 60, Indels: 89
0.74 0.11 0.16
Matches are distributed among these distances:
26 41 0.10
27 1 0.00
29 2 0.00
30 2 0.00
31 1 0.00
32 3 0.01
33 4 0.01
34 15 0.04
35 192 0.46
36 148 0.35
37 11 0.03
ACGTcount: A:0.41, C:0.19, G:0.21, T:0.18
Consensus pattern (35 bp):
GAAATAAACTGAGAAAAGATCGCCCTGGATCAACT
Found at i:1868 original size:36 final size:36
Alignment explanation
Indices: 1828--2317 Score: 432
Period size: 35 Copynumber: 14.1 Consensus size: 36
1818 GGATCAATTA
* *
1828 AAGAAAAGATCGCCCTCGATCGACTGAAATAAACTG
1 AAGAAAAGATCGCCCTGGATCAACTGAAATAAACTG
* *
1864 AAGAAAAGATTGCCCCGGATCAA-TGGAAATAAACTG
1 AAGAAAAGATCGCCCTGGATCAACT-GAAATAAACTG
1900 AAGAAAAGATCGCCCTGGAT---C-------AACTG
1 AAGAAAAGATCGCCCTGGATCAACTGAAATAAACTG
* * *
1926 AAGAAAAGATTGCCTTGGATCAATTGAAATAAACTG
1 AAGAAAAGATCGCCCTGGATCAACTGAAATAAACTG
1962 AAGAAAAGATCGCCCTGGATCAACTGAAATAAACTG
1 AAGAAAAGATCGCCCTGGATCAACTGAAATAAACTG
* * *
1998 AAG-AAAGACCGCCCTGGGTCAACTGAAATAAACCG
1 AAGAAAAGATCGCCCTGGATCAACTGAAATAAACTG
* * *
2033 AAG-AAAGACCGCCCT-AAGTCAATTGAAATAAACTG
1 AAGAAAAGATCGCCCTGGA-TCAACTGAAATAAACTG
*
2068 AAGAAAAGATCGCCCTGGATCAACTGAAGTAAACTG
1 AAGAAAAGATCGCCCTGGATCAACTGAAATAAACTG
* * *
2104 AAG-AAAGACCG-CCTTGAGTCAATTGAAATAAACTG
1 AAGAAAAGATCGCCCTGGA-TCAACTGAAATAAACTG
*
2139 AAGAAAAGATCGCCCTGAATCAA-TGGAAATAAACT-
1 AAGAAAAGATCGCCCTGGATCAACT-GAAATAAACTG
* * * * * *
2174 AA-AATAGGACCACCCTGGGTCAACTGAAATGAATTG
1 AAGAA-AAGATCGCCCTGGATCAACTGAAATAAACTG
* * * * *
2210 AA-TAAGGATCGCCCTGGATCAACTGAAGTGAATTG
1 AAGAAAAGATCGCCCTGGATCAACTGAAATAAACTG
* * *
2245 AAGAAAA-A-CTGCCCTGGGTCAGCTGAAATAAACCG
1 AAGAAAAGATC-GCCCTGGATCAACTGAAATAAACTG
* * * * *
2280 AA-TAAAGACCGCCCTGGGTCAATTGAAATGAACTG
1 AAGAAAAGATCGCCCTGGATCAACTGAAATAAACTG
2315 AAG
1 AAG
2318 CATCTAAAAT
Statistics
Matches: 372, Mismatches: 55, Indels: 54
0.77 0.11 0.11
Matches are distributed among these distances:
26 23 0.06
34 11 0.03
35 187 0.50
36 146 0.39
37 5 0.01
ACGTcount: A:0.42, C:0.19, G:0.21, T:0.18
Consensus pattern (36 bp):
AAGAAAAGATCGCCCTGGATCAACTGAAATAAACTG
Found at i:1911 original size:62 final size:62
Alignment explanation
Indices: 1845--1989 Score: 193
Period size: 62 Copynumber: 2.3 Consensus size: 62
1835 GATCGCCCTC
1845 GATCG-ACTGAAATAAACTGAAGAAAAGATTGCCCCGGATCAATGGAAATAAACTGAAGAAAA
1 GATCGCACTG-AATAAACTGAAGAAAAGATTGCCCCGGATCAATGGAAATAAACTGAAGAAAA
* * * ** *
1907 GATCGCCCTGGATCAACTGAAGAAAAGATTGCCTTGGATCAATTGAAATAAACTGAAGAAAA
1 GATCGCACTGAATAAACTGAAGAAAAGATTGCCCCGGATCAATGGAAATAAACTGAAGAAAA
* * *
1969 GATCGCCCTGGATCAACTGAA
1 GATCGCACTGAATAAACTGAA
1990 ATAAACTGAA
Statistics
Matches: 76, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
62 73 0.96
63 3 0.04
ACGTcount: A:0.43, C:0.17, G:0.21, T:0.19
Consensus pattern (62 bp):
GATCGCACTGAATAAACTGAAGAAAAGATTGCCCCGGATCAATGGAAATAAACTGAAGAAAA
Found at i:1924 original size:26 final size:26
Alignment explanation
Indices: 1895--1953 Score: 91
Period size: 26 Copynumber: 2.3 Consensus size: 26
1885 AATGGAAATA
1895 AACTGAAGAAAAGATCGCCCTGGATC
1 AACTGAAGAAAAGATCGCCCTGGATC
* *
1921 AACTGAAGAAAAGATTGCCTTGGATC
1 AACTGAAGAAAAGATCGCCCTGGATC
*
1947 AATTGAA
1 AACTGAA
1954 ATAAACTGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.41, C:0.17, G:0.22, T:0.20
Consensus pattern (26 bp):
AACTGAAGAAAAGATCGCCCTGGATC
Found at i:1930 original size:98 final size:96
Alignment explanation
Indices: 1756--2116 Score: 382
Period size: 98 Copynumber: 3.6 Consensus size: 96
1746 GCAGTCAATC
* * * * * *
1756 GAAATAAACTGCAGAGAAGATCGCCCTGGATCTACTGAAGTAAATTGAGGAAAGATCGCCCTGGA
1 GAAATAAACTGAAGAAAAGATCGCCCTGGATC-AATGAAATAAACTGAAGAAAGATCGCCCTGGA
* * *
1821 TCAATTAAAGAAAAGATCGCCCTCGATCGACT
65 TCAACTGAAGAAAAGATCGCCCTCGATCAACT
* *
1853 GAAATAAACTGAAGAAAAGATTGCCCCGGATCAATGGAAATAAACTGAAGAAAAGATCGCCCTGG
1 GAAATAAACTGAAGAAAAGATCGCCCTGGATCAAT-GAAATAAACTGAAG-AAAGATCGCCCTGG
* * * *
1918 ATCAACTGAAGAAAAGATTGCCTTGGATCAATT
64 ATCAACTGAAGAAAAGATCGCCCTCGATCAACT
* *
1951 GAAATAAACTGAAGAAAAGATCGCCCTGGATCAACTGAAATAAACTGAAGAAAGACCGCCCTGGG
1 GAAATAAACTGAAGAAAAGATCGCCCTGGATCAA-TGAAATAAACTGAAGAAAGATCGCCCTGGA
* * *
2016 TCAACTGAAATAAACCGAAGAAAGACCGCCCT-AAGTCAATT
65 TCAACTG-----AA--G-A-AAAGATCGCCCTCGA-TCAACT
* *
2057 GAAATAAACTGAAGAAAAGATCGCCCTGGATCAACTGAAGTAAACTGAAGAAAGACCGCC
1 GAAATAAACTGAAGAAAAGATCGCCCTGGATCAA-TGAAATAAACTGAAGAAAGATCGCC
2117 TTGAGTCAAT
Statistics
Matches: 227, Mismatches: 24, Indels: 17
0.85 0.09 0.06
Matches are distributed among these distances:
96 2 0.01
97 59 0.26
98 86 0.38
99 1 0.00
102 2 0.01
104 1 0.00
105 2 0.01
106 74 0.33
ACGTcount: A:0.42, C:0.20, G:0.21, T:0.17
Consensus pattern (96 bp):
GAAATAAACTGAAGAAAAGATCGCCCTGGATCAATGAAATAAACTGAAGAAAGATCGCCCTGGAT
CAACTGAAGAAAAGATCGCCCTCGATCAACT
Found at i:2038 original size:71 final size:72
Alignment explanation
Indices: 1921--2317 Score: 393
Period size: 71 Copynumber: 5.6 Consensus size: 72
1911 GCCCTGGATC
* * * *
1921 AACTGAAGAAAAGATTGCCTTGGATCAATTGAAATAAACTGAAGAAAAGATCGCCCTGGATCAAC
1 AACTGAAGAAAAGATCGCCCTGGATCAACTGAAATAAACTGAAGAAAAGACCGCCCTGGATCAAC
1986 TGAAATA
66 TGAAATA
* * * *
1993 AACTGAAG-AAAGACCGCCCTGGGTCAACTGAAATAAACCGAAG-AAAGACCGCCCT-AAGTCAA
1 AACTGAAGAAAAGATCGCCCTGGATCAACTGAAATAAACTGAAGAAAAGACCGCCCTGGA-TCAA
*
2055 TTGAAATA
65 CTGAAATA
* *
2063 AACTGAAGAAAAGATCGCCCTGGATCAACTGAAGTAAACTGAAG-AAAGACCG-CCTTGAGTCAA
1 AACTGAAGAAAAGATCGCCCTGGATCAACTGAAATAAACTGAAGAAAAGACCGCCCTGGA-TCAA
*
2126 TTGAAATA
65 CTGAAATA
* * * *
2134 AACTGAAGAAAAGATCGCCCTGAATCAA-TGGAAATAAACT-AA-AATAGGACCACCCTGGGTCA
1 AACTGAAGAAAAGATCGCCCTGGATCAACT-GAAATAAACTGAAGAA-AAGACCGCCCTGGATCA
*
2196 ACTGAAATG
64 ACTGAAATA
* * * * * * * * *
2205 AATTGAA-TAAGGATCGCCCTGGATCAACTGAAGTGAATTGAAGAAAA-ACTGCCCTGGGTCAGC
1 AACTGAAGAAAAGATCGCCCTGGATCAACTGAAATAAACTGAAGAAAAGACCGCCCTGGATCAAC
2268 TGAAATA
66 TGAAATA
* * * * * *
2275 AACCGAA-TAAAGACCGCCCTGGGTCAATTGAAATGAACTGAAG
1 AACTGAAGAAAAGATCGCCCTGGATCAACTGAAATAAACTGAAG
2318 CATCTAAAAT
Statistics
Matches: 273, Mismatches: 42, Indels: 22
0.81 0.12 0.07
Matches are distributed among these distances:
69 1 0.00
70 115 0.42
71 143 0.52
72 14 0.05
ACGTcount: A:0.42, C:0.19, G:0.21, T:0.18
Consensus pattern (72 bp):
AACTGAAGAAAAGATCGCCCTGGATCAACTGAAATAAACTGAAGAAAAGACCGCCCTGGATCAAC
TGAAATA
Found at i:2115 original size:106 final size:105
Alignment explanation
Indices: 1945--2317 Score: 399
Period size: 106 Copynumber: 3.5 Consensus size: 105
1935 TTGCCTTGGA
*
1945 TCAATTGAAATAAACTGAAGAAAAGATCGCCCTGGATCAACTGAAATAAACTGAAGAAAGACCGC
1 TCAATTGAAATAAACTGAA-AAAAGACCGCCCTGGATCAACTGAAATAAACTGAAGAAAGACCGC
*
2010 CCTGGGTCAACTGAAATAAACCGAAGAAAGACCGCCCTAAG
65 CCTGGGTCAACTGAAATAAACTGAAGAAAGACCGCCCTAAG
* *
2051 TCAATTGAAATAAACTGAAGAAAAGATCGCCCTGGATCAACTGAAGTAAACTGAAGAAAGACCGC
1 TCAATTGAAATAAACTGAA-AAAAGACCGCCCTGGATCAACTGAAATAAACTGAAGAAAGACCGC
* * * *
2116 CTTGAGTCAATTGAAATAAACTGAAGAAAAGATCGCCCTGAA-
65 CCTGGGTCAACTGAAATAAACTGAAG-AAAGACCGCCCT-AAG
* * * * * * * * *
2158 TCAATGGAAATAAACT-AAAATAGGACCACCCTGGGTCAACTGAAATGAATTGAATAAGGATCGC
1 TCAATTGAAATAAACTGAAAA-AAGACCGCCCTGGATCAACTGAAATAAACTGAAGAAAGACCGC
* * * * * * **
2222 CCTGGATCAACTGAAGTGAATTGAAGAAAAACTGCCCTGGG
65 CCTGGGTCAACTGAAATAAACTGAAGAAAGACCGCCCTAAG
** * * * * *
2263 TCAGCTGAAATAAACCGAATAAAGACCGCCCTGGGTCAATTGAAATGAACTGAAG
1 TCAATTGAAATAAACTGAAAAAAGACCGCCCTGGATCAACTGAAATAAACTGAAG
2318 CATCTAAAAT
Statistics
Matches: 223, Mismatches: 39, Indels: 11
0.82 0.14 0.04
Matches are distributed among these distances:
105 52 0.23
106 143 0.64
107 26 0.12
108 2 0.01
ACGTcount: A:0.42, C:0.19, G:0.21, T:0.18
Consensus pattern (105 bp):
TCAATTGAAATAAACTGAAAAAAGACCGCCCTGGATCAACTGAAATAAACTGAAGAAAGACCGCC
CTGGGTCAACTGAAATAAACTGAAGAAAGACCGCCCTAAG
Found at i:11548 original size:21 final size:22
Alignment explanation
Indices: 11518--11558 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
11508 GCATAATTTC
*
11518 TAAAATCAGGGATTAAATTGAA
1 TAAAATCAGGGATCAAATTGAA
11540 TAAAA-CAGGGATCAAATTG
1 TAAAATCAGGGATCAAATTG
11559 CATTTAATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.49, C:0.07, G:0.20, T:0.24
Consensus pattern (22 bp):
TAAAATCAGGGATCAAATTGAA
Done.