Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01018265.1 Corchorus olitorius cultivar O-4 contig18298, 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: 65162
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:582 original size:36 final size:36
Alignment explanation
Indices: 535--604 Score: 113
Period size: 36 Copynumber: 1.9 Consensus size: 36
525 AAGATTTTGG
* *
535 AGAAATATGATAATCAAAATTACAAAAAATGTAATA
1 AGAAATATGATAACCAAAATCACAAAAAATGTAATA
*
571 AGAAATATGATAACCAAAATCACAAAAGATGTAA
1 AGAAATATGATAACCAAAATCACAAAAAATGTAA
605 GGTTATTGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.60, C:0.09, G:0.10, T:0.21
Consensus pattern (36 bp):
AGAAATATGATAACCAAAATCACAAAAAATGTAATA
Found at i:3479 original size:2 final size:2
Alignment explanation
Indices: 3472--3510 Score: 69
Period size: 2 Copynumber: 19.0 Consensus size: 2
3462 ACGTGCTTTA
3472 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT ACT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT
3511 TATTTTTAGT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 34 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:8226 original size:21 final size:19
Alignment explanation
Indices: 8200--8258 Score: 73
Period size: 19 Copynumber: 3.0 Consensus size: 19
8190 CGCTACTCTA
*
8200 ATAATCTCATCTGTACATT
1 ATAATCTCATCTGTACAGT
* *
8219 ACCTAATCTAATCTATACAGT
1 A--TAATCTCATCTGTACAGT
8240 ATAATCTCATCTGTACAGT
1 ATAATCTCATCTGTACAGT
8259 TGCTAAATAG
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
19 17 0.52
21 16 0.48
ACGTcount: A:0.34, C:0.22, G:0.07, T:0.37
Consensus pattern (19 bp):
ATAATCTCATCTGTACAGT
Found at i:14239 original size:250 final size:250
Alignment explanation
Indices: 13798--14302 Score: 992
Period size: 250 Copynumber: 2.0 Consensus size: 250
13788 ATTTTGTGAA
13798 GACTGTGATCCATGGCATATATCTACCTTTGGCCTAGCATTAAAATCAGTGCTCTGCCTGCCTGA
1 GACTGTGATCCATGGCATATATCTACCTTTGGCCTAGCATTAAAATCAGTGCTCTGCCTGCCTGA
*
13863 GTTTATTAAGTTCCTTCTTTGCTTTCTCCTGCATATCATGACATATGTTGTACTTCTATTGATTT
66 GTTTATTAAGGTCCTTCTTTGCTTTCTCCTGCATATCATGACATATGTTGTACTTCTATTGATTT
13928 AACATGCAAAGAAAACAAAGTGTCCTAATGTGTGATTGAATTTACTATTGTACTCAAAGGAACCA
131 AACATGCAAAGAAAACAAAGTGTCCTAATGTGTGATTGAATTTACTATTGTACTCAAAGGAACCA
13993 AGTAAGATCAGAGGAAACTGTTTGCTATTCATGCACAATGTCTGAACTAATTCAT
196 AGTAAGATCAGAGGAAACTGTTTGCTATTCATGCACAATGTCTGAACTAATTCAT
*
14048 GACTGTGATCCATGGCATATATCTACGTTTGGCCTAGCATTAAAATCAGTGCTCTGCCTGCCTGA
1 GACTGTGATCCATGGCATATATCTACCTTTGGCCTAGCATTAAAATCAGTGCTCTGCCTGCCTGA
14113 GTTTATTAAGGTCCTTCTTTGCTTTCTCCTGCATATCATGACATATGTTGTACTTCTATTGATTT
66 GTTTATTAAGGTCCTTCTTTGCTTTCTCCTGCATATCATGACATATGTTGTACTTCTATTGATTT
14178 AACATGCAAAGAAAACAAAGTGTCCTAATGTGTGATTGAATTTACTATTGTACTCAAAGGAACCA
131 AACATGCAAAGAAAACAAAGTGTCCTAATGTGTGATTGAATTTACTATTGTACTCAAAGGAACCA
14243 AGTAAGATCAGAGGAAACTGTTTGCTATTCATGCACAATGTCTGAACTAATTCAT
196 AGTAAGATCAGAGGAAACTGTTTGCTATTCATGCACAATGTCTGAACTAATTCAT
14298 GACTG
1 GACTG
14303 AATTTACTAT
Statistics
Matches: 253, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
250 253 1.00
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.34
Consensus pattern (250 bp):
GACTGTGATCCATGGCATATATCTACCTTTGGCCTAGCATTAAAATCAGTGCTCTGCCTGCCTGA
GTTTATTAAGGTCCTTCTTTGCTTTCTCCTGCATATCATGACATATGTTGTACTTCTATTGATTT
AACATGCAAAGAAAACAAAGTGTCCTAATGTGTGATTGAATTTACTATTGTACTCAAAGGAACCA
AGTAAGATCAGAGGAAACTGTTTGCTATTCATGCACAATGTCTGAACTAATTCAT
Found at i:22547 original size:26 final size:26
Alignment explanation
Indices: 22517--22567 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
22507 TGAAATGTAG
*
22517 TTTTAATTCATATATGATTGGAAAAA
1 TTTTAATTCAAATATGATTGGAAAAA
22543 TTTTAATTCAAATATGATTGGAAAA
1 TTTTAATTCAAATATGATTGGAAAA
22568 TCAAAAACAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.43, C:0.04, G:0.12, T:0.41
Consensus pattern (26 bp):
TTTTAATTCAAATATGATTGGAAAAA
Found at i:32496 original size:20 final size:20
Alignment explanation
Indices: 32468--32533 Score: 109
Period size: 20 Copynumber: 3.4 Consensus size: 20
32458 CCATATTTCA
*
32468 AGATTGAATGTGTGTATACT
1 AGATAGAATGTGTGTATACT
32488 AGATAGAATGTGTGTATA--
1 AGATAGAATGTGTGTATACT
32506 AGATAGAATGTGTGTATACT
1 AGATAGAATGTGTGTATACT
32526 AGATAGAA
1 AGATAGAA
32534 ATTCCGACAA
Statistics
Matches: 43, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
18 18 0.42
20 25 0.58
ACGTcount: A:0.38, C:0.03, G:0.26, T:0.33
Consensus pattern (20 bp):
AGATAGAATGTGTGTATACT
Found at i:32917 original size:116 final size:116
Alignment explanation
Indices: 32713--32923 Score: 377
Period size: 116 Copynumber: 1.8 Consensus size: 116
32703 GTACGAGTTC
*
32713 TTGTAAAACTTTTGAATCGCCCATTATACCCTTATATTTCAAATATATTTTTTAAATACCATTGT
1 TTGTAAAACTTTTGAATCGCCCATTATACCCTTATATTTCAAATATATTTCTTAAATACCATTGT
*
32778 TTAAAGTTTTATATTTTTACTCAACTAAAATGTAAAAACTCTATTTTTATT
66 TTAAAGTTTTATAGTTTTACTCAACTAAAATGTAAAAACTCTATTTTTATT
* * *
32829 TTGTAAAACTTTTGAATCGTCCATTATACCCTTATATTTCGAATATATTTCTTAAATGCCATTGT
1 TTGTAAAACTTTTGAATCGCCCATTATACCCTTATATTTCAAATATATTTCTTAAATACCATTGT
32894 TTAAAGTTTTATAGTTTTACTCAACTAAAA
66 TTAAAGTTTTATAGTTTTACTCAACTAAAA
32924 ACTCTATTTT
Statistics
Matches: 90, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
116 90 1.00
ACGTcount: A:0.34, C:0.14, G:0.07, T:0.45
Consensus pattern (116 bp):
TTGTAAAACTTTTGAATCGCCCATTATACCCTTATATTTCAAATATATTTCTTAAATACCATTGT
TTAAAGTTTTATAGTTTTACTCAACTAAAATGTAAAAACTCTATTTTTATT
Found at i:33113 original size:133 final size:132
Alignment explanation
Indices: 32900--33141 Score: 344
Period size: 133 Copynumber: 1.8 Consensus size: 132
32890 TTGTTTAAAG
* *
32900 TTTTATAGTTTTACTCAACTAAAAACTCTATTTTTATTTAATTAAGTCTAATATCCTTATAATTA
1 TTTTATAGTTTTACTCAACTAAAAACTCTATTTTAATTTAATTAAGTCTAATATCCTTATAACTA
* *
32965 TTTTATTTTTACCATTTCACTATTTTATTTTAATTAAAAAACTTAAATATTAGAACTTTTTTAAA
66 TTTTATTTTTACCATTTCACTAATTTA-ATTAA--AAAAAACTTAAATATTAGAACTTTTTTAAA
33030 TATAA
128 TATAA
* * * ** *
33035 TTTTATAGTTTTACTCAATTTAAAACTCTATTTTAATTTTA-TAA-TCTAATATTTTTATACCTA
1 TTTTATAGTTTTACTCAACTAAAAACTCTATTTTAATTTAATTAAGTCTAATATCCTTATAACTA
*
33098 TTTTATTTTTACCATTTTACTAATTTAATTAAAAAAAACTTAAA
66 TTTTATTTTTACCATTTCACTAATTTAATTAAAAAAAACTTAAA
33142 GTTTCTTTTA
Statistics
Matches: 96, Mismatches: 11, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
130 12 0.12
132 4 0.04
133 40 0.42
134 3 0.03
135 37 0.39
ACGTcount: A:0.37, C:0.10, G:0.02, T:0.51
Consensus pattern (132 bp):
TTTTATAGTTTTACTCAACTAAAAACTCTATTTTAATTTAATTAAGTCTAATATCCTTATAACTA
TTTTATTTTTACCATTTCACTAATTTAATTAAAAAAAACTTAAATATTAGAACTTTTTTAAATAT
AA
Found at i:33314 original size:52 final size:52
Alignment explanation
Indices: 33234--33345 Score: 152
Period size: 52 Copynumber: 2.2 Consensus size: 52
33224 AATACAGTTT
* * * **
33234 AATCTTTAGCTAGAGAATATGCAGATACATTGGTTTCGTCTATTTACAGCTC
1 AATCTTTAGCTAGAAAATATGCAAATACATTGGCTTCCCCTATTTACAGCTC
* * *
33286 AATCTTTAGCTAGAAAATGTGTAAATACATTGGCTTCCCCTATTTACGGCTC
1 AATCTTTAGCTAGAAAATATGCAAATACATTGGCTTCCCCTATTTACAGCTC
33338 AATCTTTA
1 AATCTTTA
33346 AGGGAATCAG
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.37
Consensus pattern (52 bp):
AATCTTTAGCTAGAAAATATGCAAATACATTGGCTTCCCCTATTTACAGCTC
Found at i:37060 original size:39 final size:40
Alignment explanation
Indices: 37004--37084 Score: 137
Period size: 39 Copynumber: 2.0 Consensus size: 40
36994 TTTAATTCCT
37004 ATGTAATATATATAATAACTAAAATACTTACATTAATTAA
1 ATGTAATATATATAATAACTAAAATACTTACATTAATTAA
* *
37044 ATGTAATA-CTATAATAACTGAAATACTTACATTAATTAA
1 ATGTAATATATATAATAACTAAAATACTTACATTAATTAA
37083 AT
1 AT
37085 TATTAGGTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
39 31 0.79
40 8 0.21
ACGTcount: A:0.51, C:0.09, G:0.04, T:0.37
Consensus pattern (40 bp):
ATGTAATATATATAATAACTAAAATACTTACATTAATTAA
Found at i:37598 original size:201 final size:204
Alignment explanation
Indices: 37195--37605 Score: 731
Period size: 201 Copynumber: 2.0 Consensus size: 204
37185 TTGCTTAATA
37195 ATAAATAAATCGGATCTTAATATCTTTTATAATTTTGAAATTTTGTTTGACATTGATCTAATTTA
1 ATAAATAAATCGGATCTTAATATCTTTTATAATTTTGAAATTTTGTTTGACATTGATCTAATTTA
* *
37260 ATTTAATAAATCAACCACTAATGTTCAACTGATTTTTTTTTTGGTATAGTTCTATATATATAATA
66 ATTTAATAAATCAACCACTAATATTCAACTGA-TCTTTTTTTGGTATAGTTCTATATATATAATA
* *
37325 GTAATGTGTTGTATCTTATTCACTACAACTTTGTTAGTAATCTTAGACTTAAAAAATTAATAACA
130 ATAATGTATTGTATCTTATTCACTACAACTTTGTTAGTAATCTTAGACTTAAAAAATTAATAACA
37390 TTCACCATTG
195 TTCACCATTG
*
37400 ATAAATAAATCGGATTTTTAATATCTTTTATAATTTTGAAATTTTGTTTGACATTGATCTAATTT
1 ATAAATAAATCGGA-TCTTAATATCTTTTATAATTTTGAAATTTTGTTTGACATTGATCTAATTT
37465 AATTTAATAAATCAACCACTAATATTCAACT-A-CTTTTTTTGGTATAGTT-T-TATATATAATA
65 AATTTAATAAATCAACCACTAATATTCAACTGATCTTTTTTTGGTATAGTTCTATATATATAATA
37526 ATAATGTATTGTATCTTATTCACTACAACTTTGTTAGTAATCTTAGACTTAAAAAATTAATAACA
130 ATAATGTATTGTATCTTATTCACTACAACTTTGTTAGTAATCTTAGACTTAAAAAATTAATAACA
37591 TTCACCATTG
195 TTCACCATTG
37601 ATAAA
1 ATAAA
37606 GTTATTAAGC
Statistics
Matches: 200, Mismatches: 5, Indels: 6
0.95 0.02 0.03
Matches are distributed among these distances:
201 89 0.44
202 1 0.00
203 16 0.08
205 15 0.08
206 79 0.40
ACGTcount: A:0.36, C:0.11, G:0.08, T:0.44
Consensus pattern (204 bp):
ATAAATAAATCGGATCTTAATATCTTTTATAATTTTGAAATTTTGTTTGACATTGATCTAATTTA
ATTTAATAAATCAACCACTAATATTCAACTGATCTTTTTTTGGTATAGTTCTATATATATAATAA
TAATGTATTGTATCTTATTCACTACAACTTTGTTAGTAATCTTAGACTTAAAAAATTAATAACAT
TCACCATTG
Found at i:38166 original size:35 final size:36
Alignment explanation
Indices: 38106--38174 Score: 104
Period size: 35 Copynumber: 1.9 Consensus size: 36
38096 GAGATTTTGG
* *
38106 AGAAATATGATAATCAAAATTACAAAAAATGTAATA
1 AGAAATATGATAACCAAAATCACAAAAAATGTAATA
*
38142 AGAAATATG-TAACCAAAATCACAAAAGATGTAA
1 AGAAATATGATAACCAAAATCACAAAAAATGTAA
38175 GGTTATTGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
35 21 0.70
36 9 0.30
ACGTcount: A:0.59, C:0.09, G:0.10, T:0.22
Consensus pattern (36 bp):
AGAAATATGATAACCAAAATCACAAAAAATGTAATA
Found at i:44640 original size:63 final size:61
Alignment explanation
Indices: 44539--44655 Score: 198
Period size: 63 Copynumber: 1.9 Consensus size: 61
44529 GCTATAGCTA
*
44539 ATTAATCAAATGGTTTTGTGTAATTGAATATGTCATTATATACATATATATATATATATATAT
1 ATTAATCAAATGGTTTTGTGTAATTGAATATGTAATTATAT-C-TATATATATATATATATAT
*
44602 ATTAATCAAATGGTTTTGTGTAATTGAATATGTAATTATATCTATATCTATATA
1 ATTAATCAAATGGTTTTGTGTAATTGAATATGTAATTATATCTATATATATATA
44656 CAATATAAGT
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
61 11 0.21
62 1 0.02
63 40 0.77
ACGTcount: A:0.38, C:0.05, G:0.10, T:0.46
Consensus pattern (61 bp):
ATTAATCAAATGGTTTTGTGTAATTGAATATGTAATTATATCTATATATATATATATATAT
Found at i:44966 original size:15 final size:14
Alignment explanation
Indices: 44942--44984 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
44932 ACCTCTTATT
*
44942 ATTATAATTATTAA
1 ATTATTATTATTAA
*
44956 ACTTATTATTATTAT
1 A-TTATTATTATTAA
44971 ATTAATTATTATTA
1 ATT-ATTATTATTA
44985 GTGGTAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 3 0.12
15 22 0.88
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (14 bp):
ATTATTATTATTAA
Found at i:44979 original size:18 final size:21
Alignment explanation
Indices: 44936--44984 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
44926 CGTTAAACCT
44936 CTTATTATTATAATTATTAAA
1 CTTATTATTATAATTATTAAA
*
44957 CTTATTATTATTA-TATT-AA
1 CTTATTATTATAATTATTAAA
44976 -TTATTATTA
1 CTTATTATTA
44985 GTGGTAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 9 0.33
19 2 0.07
20 4 0.15
21 12 0.44
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (21 bp):
CTTATTATTATAATTATTAAA
Found at i:50996 original size:31 final size:31
Alignment explanation
Indices: 50952--51146 Score: 162
Period size: 31 Copynumber: 6.3 Consensus size: 31
50942 ACGGTGTCCG
*
50952 ACGTGGCATGCCACGTGTACCAAAAAGTGAC
1 ACGTGGCACGCCACGTGTACCAAAAAGTGAC
* *
50983 ATGTGGCACGCCACGTGTACCAAAAAGTGAT
1 ACGTGGCACGCCACGTGTACCAAAAAGTGAC
** * *
51014 ACGTATCACGTCACGTATACCAAAAAGTGAC
1 ACGTGGCACGCCACGTGTACCAAAAAGTGAC
** * **
51045 ACGTATCACGCCATGTGTATTAAAAAGTGAC
1 ACGTGGCACGCCACGTGTACCAAAAAGTGAC
* * * *
51076 ACGTGGCATGCCA-TTGTTTCAAAAAAGTGAC
1 ACGTGGCACGCCACGTG-TACCAAAAAGTGAC
* * * *
51107 ACTGTGGCATGCCATGTGCA-CAAAAA-TGAT
1 AC-GTGGCACGCCACGTGTACCAAAAAGTGAC
*
51137 ACGTGCCACG
1 ACGTGGCACG
51147 TGTCATTTTT
Statistics
Matches: 133, Mismatches: 28, Indels: 8
0.79 0.17 0.05
Matches are distributed among these distances:
29 6 0.05
30 7 0.05
31 107 0.80
32 11 0.08
33 2 0.02
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.21
Consensus pattern (31 bp):
ACGTGGCACGCCACGTGTACCAAAAAGTGAC
Found at i:52859 original size:2 final size:2
Alignment explanation
Indices: 52813--52846 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
52803 AAATGTTCAA
52813 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
52847 GGCAAATTAT
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:53836 original size:13 final size:13
Alignment explanation
Indices: 53801--53884 Score: 64
Period size: 13 Copynumber: 6.2 Consensus size: 13
53791 CAGAGATATG
*
53801 TTTGTAA-TTATT
1 TTTGTAAGTAATT
* *
53813 ATTGTATGTAATT
1 TTTGTAAGTAATT
53826 TTTGTAAGTAATT
1 TTTGTAAGTAATT
*
53839 TTT-TATGTTAATT
1 TTTGTAAG-TAATT
*
53852 ATTAGTGTATGTAATT
1 -TT--TGTAAGTAATT
53868 TTTGTAAGTAATAT
1 TTTGTAAGTAAT-T
53882 TTT
1 TTT
53885 CTTGTAAGTA
Statistics
Matches: 58, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
12 8 0.14
13 32 0.55
14 6 0.10
15 2 0.03
16 6 0.10
17 4 0.07
ACGTcount: A:0.29, C:0.00, G:0.13, T:0.58
Consensus pattern (13 bp):
TTTGTAAGTAATT
Found at i:53852 original size:42 final size:42
Alignment explanation
Indices: 53805--53884 Score: 142
Period size: 42 Copynumber: 1.9 Consensus size: 42
53795 GATATGTTTG
* *
53805 TAATTATTATTGTATGTAATTTTTGTAAGTAATTTTTTATGT
1 TAATTATTAGTGTATGTAATTTTTGTAAGTAATATTTTATGT
53847 TAATTATTAGTGTATGTAATTTTTGTAAGTAATATTTT
1 TAATTATTAGTGTATGTAATTTTTGTAAGTAATATTTT
53885 CTTGTAAGTA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.30, C:0.00, G:0.12, T:0.57
Consensus pattern (42 bp):
TAATTATTAGTGTATGTAATTTTTGTAAGTAATATTTTATGT
Found at i:54130 original size:10 final size:10
Alignment explanation
Indices: 54115--54145 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
54105 TTAATTTAAA
*
54115 GATTTCAGAG
1 GATTTCAAAG
54125 GATTTCAAAG
1 GATTTCAAAG
54135 GATTTCAAAG
1 GATTTCAAAG
54145 G
1 G
54146 TTAGAAAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.35, C:0.10, G:0.26, T:0.29
Consensus pattern (10 bp):
GATTTCAAAG
Found at i:64022 original size:12 final size:13
Alignment explanation
Indices: 64005--64033 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
63995 TCATTACTAC
64005 TATAATAAT-ATA
1 TATAATAATAATA
64017 TATAATAATAATA
1 TATAATAATAATA
64030 TATA
1 TATA
64034 TACGTGCCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
TATAATAATAATA
Found at i:64026 original size:15 final size:15
Alignment explanation
Indices: 64006--64035 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
63996 CATTACTACT
64006 ATAATAATATATATA
1 ATAATAATATATATA
64021 ATAATAATATATATA
1 ATAATAATATATATA
64036 CGTGCCTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
ATAATAATATATATA
Done.