Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01010791.1 Corchorus olitorius cultivar O-4 contig10823, 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: 35345
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Found at i:6733 original size:22 final size:22
Alignment explanation
Indices: 6664--6731 Score: 111
Period size: 22 Copynumber: 3.1 Consensus size: 22
6654 CTCAGTGGCA
* *
6664 CCCGGACATGACTAGGCCATAG
1 CCCGGTCATGACTCGGCCATAG
6686 CCCGGTCATGACTCGGCCATAG
1 CCCGGTCATGACTCGGCCATAG
6708 CCCGGTCATGACTCGGCCAT-G
1 CCCGGTCATGACTCGGCCATAG
6729 CCC
1 CCC
6732 CGCGCCAGGC
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
21 4 0.09
22 40 0.91
ACGTcount: A:0.19, C:0.38, G:0.26, T:0.16
Consensus pattern (22 bp):
CCCGGTCATGACTCGGCCATAG
Found at i:6811 original size:22 final size:21
Alignment explanation
Indices: 6782--6833 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
6772 CCAGGACACA
*
6782 GCTC-GGCAATCACCAAGCCAT
1 GCTCGGGCAAGCACC-AGCCAT
*
6803 GC-CGAGGCAGGCACCAGCCAT
1 GCTCG-GGCAAGCACCAGCCAT
6824 GCTCGGGCAA
1 GCTCGGGCAA
6834 CCATAGAGCC
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
20 1 0.04
21 14 0.56
22 10 0.40
ACGTcount: A:0.25, C:0.37, G:0.29, T:0.10
Consensus pattern (21 bp):
GCTCGGGCAAGCACCAGCCAT
Found at i:8326 original size:21 final size:21
Alignment explanation
Indices: 8283--8326 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
8273 CCAATTTAGG
* *
8283 TTTAGATTTCAATTTCTTGTT
1 TTTAGATTTAAATTTATTGTT
8304 TTTAGATTTAAGATTTATT-TT
1 TTTAGATTTAA-ATTTATTGTT
8325 TT
1 TT
8327 CTGCATCTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.23, C:0.05, G:0.09, T:0.64
Consensus pattern (21 bp):
TTTAGATTTAAATTTATTGTT
Found at i:13070 original size:26 final size:26
Alignment explanation
Indices: 13034--13104 Score: 106
Period size: 26 Copynumber: 2.7 Consensus size: 26
13024 TTACAACGGC
*
13034 TGGCAATTTTCCTTCTTGATGGAGGA
1 TGGCAATTTTCCTTCTTGATGGACGA
13060 TGGCAATTTTCCTTCTTGATGGACGA
1 TGGCAATTTTCCTTCTTGATGGACGA
*
13086 TGGACAATTTCTCCCTCTT
1 TGG-CAATTT-TCCTTCTT
13105 CCTGTGGTAA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
26 28 0.68
27 6 0.15
28 7 0.17
ACGTcount: A:0.18, C:0.21, G:0.21, T:0.39
Consensus pattern (26 bp):
TGGCAATTTTCCTTCTTGATGGACGA
Found at i:16939 original size:67 final size:66
Alignment explanation
Indices: 16563--17202 Score: 454
Period size: 67 Copynumber: 9.8 Consensus size: 66
16553 TCAAAAAAGT
* * * * * * **
16563 TTTTAAGA-GTTGATCAGAAGACGATCTTGTTCAGAAAAT-GACCGGAAGAAAGTTTGCTAGAAA
1 TTTTCAGATGTTGATCGGAAGACGATCTTG-TCAGGAAGTACACCAGAAGATGGTTTGCT-GAAA
16626 GAA
64 GAA
* * * * *
16629 TTTTCAGATGTTGATTGGAAGACGATCTCAT-TAAGGAA-TACACCAAAAGCTCGTTTGCTAGAA
1 TTTTCAGATGTTGATCGGAAGACGATCT--TGTCAGGAAGTACACCAGAAGATGGTTTGCT-GAA
16692 AGAA
63 AGAA
* * * * * * *
16696 TTTTCAGATGCTGATTGGAAGACAATCTCAT-TAAGG-AGTATACCGGAAGACGGTTTGCTCGAA
1 TTTTCAGATGTTGATCGGAAGACGATCT--TGTCAGGAAGTACACCAGAAGATGGTTTGCT-GAA
16759 AGAA
63 AGAA
* * * * * * * *
16763 TTTTCAGATGTTGATTGGAAGACAATCTCAT-TAAGGAA-AACATCGGAAAACGGTTTGCTAGAA
1 TTTTCAGATGTTGATCGGAAGACGATCT--TGTCAGGAAGTACACCAGAAGATGGTTTGCT-GAA
16826 AGAA
63 AGAA
* ** * * *
16830 TTTTTAGATGTTGATTAGAAGACAATCTCAT-TAAGGAA-TACACCGGAAGATGGTTTGCTAGAA
1 TTTTCAGATGTTGATCGGAAGACGATCT--TGTCAGGAAGTACACCAGAAGATGGTTTGCT-GAA
16893 AGAA
63 AGAA
* * *
16897 TTTTCAGATGTTGATCAGAAAACGATCTTGTCAGGAAGTACACCAGAAGAT-GTTT-CT-CAAGA
1 TTTTCAGATGTTGATCGGAAGACGATCTTGTCAGGAAGTACACCAGAAGATGGTTTGCTGAAAGA
*
16959 G
66 A
* * * * * *
16960 TTTTCAGAAGTTGATCGGAAGACGATCTTGTCAAGAAGCACGCCAGAAGATGGTTT-CT-CAACA
1 TTTTCAGATGTTGATCGGAAGACGATCTTGTCAGGAAGTACACCAGAAGATGGTTTGCTGAAAGA
17023 A
66 A
* * * * * *
17024 TTTTCAGAAGTTGATCGGAAGACGATCTTGTCAAGAAATACACCGGAAGATAGTTT-CT-CAAGA
1 TTTTCAGATGTTGATCGGAAGACGATCTTGTCAGGAAGTACACCAGAAGATGGTTTGCTGAAAGA
*
17087 G
66 A
* * * * * *
17088 TTTTCAAAAGTTGATCGGAAGAGGATCTTGTCAAGAAGTACACCAGAAGGTGGTTT-CTCAAA-A
1 TTTTCAGATGTTGATCGGAAGACGATCTTGTCAGGAAGTACACCAGAAGATGGTTTGCTGAAAGA
17151 A
66 A
* * * * **
17152 TTATCAGAAGTTGATCGGAAGACGATCCTGTTAAAAAGTACACCAGAAGAT
1 TTTTCAGATGTTGATCGGAAGACGATCTTGTCAGGAAGTACACCAGAAGAT
17203 ATTTTCTCGA
Statistics
Matches: 494, Mismatches: 70, Indels: 22
0.84 0.12 0.04
Matches are distributed among these distances:
63 49 0.10
64 164 0.33
65 5 0.01
66 19 0.04
67 255 0.52
68 1 0.00
69 1 0.00
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (66 bp):
TTTTCAGATGTTGATCGGAAGACGATCTTGTCAGGAAGTACACCAGAAGATGGTTTGCTGAAAGA
A
Found at i:17038 original size:64 final size:64
Alignment explanation
Indices: 16868--17202 Score: 438
Period size: 64 Copynumber: 5.2 Consensus size: 64
16858 CATTAAGGAA
* * * * * *
16868 TACACCGGAAGATGGTTTGCTAGAAAGAATTTTCAGATGTTGATCAGAAAACGATCTTGTCAGGA
1 TACACCAGAAGATGGTTT-CT--CAAGAATTTTCAGAAGTTGATCGGAAGACGATCTTGTCAAGA
16933 AG
63 AG
*
16935 TACACCAGAAGAT-GTTTCTCAAGAGTTTTCAGAAGTTGATCGGAAGACGATCTTGTCAAGAAG
1 TACACCAGAAGATGGTTTCTCAAGAATTTTCAGAAGTTGATCGGAAGACGATCTTGTCAAGAAG
* * * *
16998 CACGCCAGAAGATGGTTTCTCAACAATTTTCAGAAGTTGATCGGAAGACGATCTTGTCAAGAAA
1 TACACCAGAAGATGGTTTCTCAAGAATTTTCAGAAGTTGATCGGAAGACGATCTTGTCAAGAAG
* * * * *
17062 TACACCGGAAGATAGTTTCTCAAGAGTTTTCAAAAGTTGATCGGAAGAGGATCTTGTCAAGAAG
1 TACACCAGAAGATGGTTTCTCAAGAATTTTCAGAAGTTGATCGGAAGACGATCTTGTCAAGAAG
* * * * * *
17126 TACACCAGAAGGTGGTTTCTCAAAAATTATCAGAAGTTGATCGGAAGACGATCCTGTTAAAAAG
1 TACACCAGAAGATGGTTTCTCAAGAATTTTCAGAAGTTGATCGGAAGACGATCTTGTCAAGAAG
17190 TACACCAGAAGAT
1 TACACCAGAAGAT
17203 ATTTTCTCGA
Statistics
Matches: 234, Mismatches: 33, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
63 49 0.21
64 167 0.71
65 2 0.01
66 4 0.02
67 12 0.05
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (64 bp):
TACACCAGAAGATGGTTTCTCAAGAATTTTCAGAAGTTGATCGGAAGACGATCTTGTCAAGAAG
Found at i:17515 original size:62 final size:62
Alignment explanation
Indices: 17457--17709 Score: 355
Period size: 62 Copynumber: 4.1 Consensus size: 62
17447 GACTGAAGGT
* *
17457 AGTTCACAAAAATGGGTTCTGAAGACAGTTCCTAAAAGGTATTTAAGAGTGAATCTGAAGAC
1 AGTTCACGAAGATGGGTTCTGAAGACAGTTCCTAAAAGGTATTTAAGAGTGAATCTGAAGAC
* * * * *
17519 AGTTAACGAAGATGAGTTTTGCAGACAGTTCCTAAAAGGTATTTAAGAGTGAATCTGAACAC
1 AGTTCACGAAGATGGGTTCTGAAGACAGTTCCTAAAAGGTATTTAAGAGTGAATCTGAAGAC
*
17581 AGTTCACGAAGATGGGTTCTGAAGACAGTTCCTAAAAGGTATTTAAGAGTGAATCTGAATAC
1 AGTTCACGAAGATGGGTTCTGAAGACAGTTCCTAAAAGGTATTTAAGAGTGAATCTGAAGAC
* * * * * * * *
17643 AGTTCACGAAGAT-GGATCTGAAGACAGTTCCTGAATGATATTAAAAAATGAATTTGAAGAC
1 AGTTCACGAAGATGGGTTCTGAAGACAGTTCCTAAAAGGTATTTAAGAGTGAATCTGAAGAC
17704 AGTTCA
1 AGTTCA
17710 TGAAAGTCAA
Statistics
Matches: 170, Mismatches: 21, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
61 45 0.26
62 125 0.74
ACGTcount: A:0.38, C:0.13, G:0.23, T:0.27
Consensus pattern (62 bp):
AGTTCACGAAGATGGGTTCTGAAGACAGTTCCTAAAAGGTATTTAAGAGTGAATCTGAAGAC
Found at i:18432 original size:10 final size:8
Alignment explanation
Indices: 18409--18435 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
18399 CATTTTTGTA
18409 TTAGAGAG
1 TTAGAGAG
18417 TTAGAGAG
1 TTAGAGAG
18425 TTAGAGAG
1 TTAGAGAG
18433 TTA
1 TTA
18436 AAAAAACAAA
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:0.37, C:0.00, G:0.33, T:0.30
Consensus pattern (8 bp):
TTAGAGAG
Found at i:22570 original size:24 final size:24
Alignment explanation
Indices: 22542--22597 Score: 112
Period size: 24 Copynumber: 2.3 Consensus size: 24
22532 AACAATAAAT
22542 AGGAAGCAAGAAAAGGCAAAAGAG
1 AGGAAGCAAGAAAAGGCAAAAGAG
22566 AGGAAGCAAGAAAAGGCAAAAGAG
1 AGGAAGCAAGAAAAGGCAAAAGAG
22590 AGGAAGCA
1 AGGAAGCA
22598 GAAGATGGAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.57, C:0.09, G:0.34, T:0.00
Consensus pattern (24 bp):
AGGAAGCAAGAAAAGGCAAAAGAG
Found at i:26808 original size:51 final size:50
Alignment explanation
Indices: 26753--26911 Score: 137
Period size: 59 Copynumber: 3.0 Consensus size: 50
26743 TATTCAAAGC
26753 ATTCAGTTCAAGTTTTTCAAAGGTTTTCAATTTAGGGAAAGATCCCATCAA
1 ATTCAGTTCAAGTTTTTC-AAGGTTTTCAATTTAGGGAAAGATCCCATCAA
*
26804 ATTCAAAGTATTCAATTCAAGTTTTTCAAGGTTTTCAATTTAGGGAAAGATCCCATTAA
1 ATTC--AG-------TTCAAGTTTTTCAAGGTTTTCAATTTAGGGAAAGATCCCATCAA
*
26863 GTT---TTCAAAGTATTCAGTTCAA-GTTTTCAATTTAGGGAAAGATCCCATC
1 ATTCAGTTC-AAGT-TT---TTCAAGGTTTTCAATTTAGGGAAAGATCCCATC
26912 CAGTTTTTCA
Statistics
Matches: 91, Mismatches: 3, Indels: 28
0.75 0.02 0.23
Matches are distributed among these distances:
47 3 0.03
48 4 0.04
49 2 0.02
51 30 0.33
52 5 0.05
53 2 0.02
59 33 0.36
60 12 0.13
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.36
Consensus pattern (50 bp):
ATTCAGTTCAAGTTTTTCAAGGTTTTCAATTTAGGGAAAGATCCCATCAA
Found at i:26891 original size:60 final size:61
Alignment explanation
Indices: 26738--26889 Score: 245
Period size: 59 Copynumber: 2.5 Consensus size: 61
26728 AAGAAAAAAT
*
26738 TCAAGTATTCAAAGCATTCAGTTCAAGTTTTTCAAAGGTTTTCAATTTAGGGAAAGATCCCA
1 TCAAGTATTCAAAGTATTCAGTTCAAGTTTTTC-AAGGTTTTCAATTTAGGGAAAGATCCCA
*
26800 TCAA--ATTCAAAGTATTCAATTCAAGTTTTTCAAGGTTTTCAATTTAGGGAAAGATCCCA
1 TCAAGTATTCAAAGTATTCAGTTCAAGTTTTTCAAGGTTTTCAATTTAGGGAAAGATCCCA
* *
26859 TTAAGTTTTCAAAGTATTCAGTTCAAGTTTT
1 TCAAGTATTCAAAGTATTCAGTTCAAGTTTT
26890 CAATTTAGGG
Statistics
Matches: 83, Mismatches: 5, Indels: 5
0.89 0.05 0.05
Matches are distributed among these distances:
59 31 0.37
60 25 0.30
61 23 0.28
62 4 0.05
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (61 bp):
TCAAGTATTCAAAGTATTCAGTTCAAGTTTTTCAAGGTTTTCAATTTAGGGAAAGATCCCA
Found at i:26929 original size:39 final size:39
Alignment explanation
Indices: 26883--27241 Score: 450
Period size: 39 Copynumber: 8.9 Consensus size: 39
26873 TATTCAGTTC
26883 AAGTTTTCAATTTAGGGAAAGATCCCATCCAGTTTTTCA
1 AAGTTTTCAATTTAGGGAAAGATCCCATCCAGTTTTTCA
* **
26922 AACTTTTCAATTTAGGGAAAGATCCCATTAAGAAGTTTTTCA
1 AAGTTTTCAATTTAGGGAAAGATCCCA-T--CCAGTTTTTCA
*
26964 AAGTTTTCAATTTAGGGAAAGATCCCATCCAGTTTTTTA
1 AAGTTTTCAATTTAGGGAAAGATCCCATCCAGTTTTTCA
* *
27003 AAGTTTTCAATTTAGGGAAAGATCCCATTAACAAGTTATTCA
1 AAGTTTTCAATTTAGGGAAAGATCCCA-T--CCAGTTTTTCA
* *
27045 AAGTTTTCAATTTTGGGAAAGATCCCGTCCAG-TTTTCAA
1 AAGTTTTCAATTTAGGGAAAGATCCCATCCAGTTTTTC-A
*
27084 AAGTTTTCAATTTAGGGAAAGATCCCATCATCATGTTCTTCA
1 AAGTTTTCAATTTAGGGAAAGATCCCATC--CA-GTTTTTCA
* **
27126 AAGTTTTCAATTTAGGGAAATATATCCCATCTTGTTTTTCA
1 AAGTTTTCAATTTAGGG-AA-AGATCCCATCCAGTTTTTCA
* *
27167 AAGTTTTCAATTTAGGGAAAGATCCCATCAAGTTTTTTA
1 AAGTTTTCAATTTAGGGAAAGATCCCATCCAGTTTTTCA
* * *
27206 AGGTTCTCAATTTAGGGAAAGATCCCATTCAGTTTT
1 AAGTTTTCAATTTAGGGAAAGATCCCATCCAGTTTT
27242 CAATTAAGGG
Statistics
Matches: 278, Mismatches: 29, Indels: 26
0.83 0.09 0.08
Matches are distributed among these distances:
38 4 0.01
39 140 0.50
40 4 0.01
41 28 0.10
42 87 0.31
43 6 0.02
44 9 0.03
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.37
Consensus pattern (39 bp):
AAGTTTTCAATTTAGGGAAAGATCCCATCCAGTTTTTCA
Found at i:26970 original size:81 final size:81
Alignment explanation
Indices: 26909--27241 Score: 458
Period size: 81 Copynumber: 4.1 Consensus size: 81
26899 GAAAGATCCC
* *
26909 ATCCAGTTTTTCAAACTTTTCAATTTAGGGAAAGATCCCATTAAGAAGTTTTTCAAAGTTTTCAA
1 ATCCAGTTTTTCAAAGTTTTCAATTTAGGGAAAGATCCCATTAACAAGTTTTTCAAAGTTTTCAA
26974 TTTAGGGAAAGATCCC
66 TTTAGGGAAAGATCCC
* *
26990 ATCCAGTTTTTTAAAGTTTTCAATTTAGGGAAAGATCCCATTAACAAGTTATTCAAAGTTTTCAA
1 ATCCAGTTTTTCAAAGTTTTCAATTTAGGGAAAGATCCCATTAACAAGTTTTTCAAAGTTTTCAA
*
27055 TTTTGGGAAAGATCCC
66 TTTAGGGAAAGATCCC
* * * * *
27071 GTCCAG-TTTTCAAAAGTTTTCAATTTAGGGAAAGATCCCATCATCATGTTCTTCAAAGTTTTCA
1 ATCCAGTTTTTC-AAAGTTTTCAATTTAGGGAAAGATCCCATTAACAAGTTTTTCAAAGTTTTCA
*
27135 ATTTAGGGAAATATATCCC
65 ATTTAGGG-AA-AGATCCC
** * * *
27154 ATCTTGTTTTTCAAAGTTTTCAATTTAGGGAAAGATCCCA-T--CAAGTTTTTTAAGGTTCTCAA
1 ATCCAGTTTTTCAAAGTTTTCAATTTAGGGAAAGATCCCATTAACAAGTTTTTCAAAGTTTTCAA
27216 TTTAGGGAAAGATCCC
66 TTTAGGGAAAGATCCC
*
27232 ATTCAGTTTT
1 ATCCAGTTTT
27242 CAATTAAGGG
Statistics
Matches: 222, Mismatches: 26, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
78 13 0.06
79 2 0.01
80 27 0.12
81 136 0.61
82 2 0.01
83 37 0.17
84 5 0.02
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.38
Consensus pattern (81 bp):
ATCCAGTTTTTCAAAGTTTTCAATTTAGGGAAAGATCCCATTAACAAGTTTTTCAAAGTTTTCAA
TTTAGGGAAAGATCCC
Found at i:27093 original size:162 final size:164
Alignment explanation
Indices: 26823--27244 Score: 534
Period size: 162 Copynumber: 2.5 Consensus size: 164
26813 ATTCAATTCA
*
26823 AGTTTTTCAAGGTTTTCAATTTAGGGAAAGATCCCATTAAGTTTTCAAAG-TATTCAGTTCAAGT
1 AGTTTTTCAAAGTTTTCAATTTAGGGAAAGATCCCATTAA-----C-AAGTTATTCA----AAGT
*
26887 TTTCAATTTAGGGAAAGATCCCATCCAGTTTTTC-AAACTTTTCAATTTAGGGAAAGATCCCATT
56 TTTCAATTTAGGGAAAGATCCCATCCAG-TTTTCAAAACTTTTCAATTTAGGGAAAGATCCCATC
* *
26951 AAGAAGTTTTTCAAAGTTTTCAATTTAGGG-AA-AGATCCCATCC
120 AACAAGTTCTTCAAAGTTTTCAATTTAGGGAAATAGATCCCATCC
* *
26994 AGTTTTTTAAAGTTTTCAATTTAGGGAAAGATCCCATTAACAAGTTATTCAAAGTTTTCAATTTT
1 AGTTTTTCAAAGTTTTCAATTTAGGGAAAGATCCCATTAACAAGTTATTCAAAGTTTTCAATTTA
* * * *
27059 GGGAAAGATCCCGTCCAGTTTTCAAAAGTTTTCAATTTAGGGAAAGATCCCATCATCATGTTCTT
66 GGGAAAGATCCCATCCAGTTTTCAAAACTTTTCAATTTAGGGAAAGATCCCATCAACAAGTTCTT
* *
27124 CAAAGTTTTCAATTTAGGGAAATATATCCCATCT
131 CAAAGTTTTCAATTTAGGGAAATAGATCCCATCC
* * * * *
27158 TGTTTTTCAAAGTTTTCAATTTAGGGAAAGATCCCA-T--CAAGTTTTTTAAGGTTCTCAATTTA
1 AGTTTTTCAAAGTTTTCAATTTAGGGAAAGATCCCATTAACAAGTTATTCAAAGTTTTCAATTTA
*
27220 GGGAAAGATCCCATTCAGTTTTCAA
66 GGGAAAGATCCCATCCAGTTTTCAA
27245 TTAAGGGAAA
Statistics
Matches: 226, Mismatches: 21, Indels: 18
0.85 0.08 0.07
Matches are distributed among these distances:
161 48 0.21
162 84 0.37
163 3 0.01
164 43 0.19
165 3 0.01
166 7 0.03
171 38 0.17
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.37
Consensus pattern (164 bp):
AGTTTTTCAAAGTTTTCAATTTAGGGAAAGATCCCATTAACAAGTTATTCAAAGTTTTCAATTTA
GGGAAAGATCCCATCCAGTTTTCAAAACTTTTCAATTTAGGGAAAGATCCCATCAACAAGTTCTT
CAAAGTTTTCAATTTAGGGAAATAGATCCCATCC
Found at i:32437 original size:25 final size:24
Alignment explanation
Indices: 32406--32466 Score: 70
Period size: 25 Copynumber: 2.5 Consensus size: 24
32396 TTGCAGAGGA
32406 TGGCGCAGGGCAT-ATGATAGAAAAG
1 TGGCGCAGGGCATAATGA-AG-AAAG
* *
32431 TGGCGCAGGGCCTGAATGAAGGAAG
1 TGGCGCAGGGCAT-AATGAAGAAAG
32456 TGGCGCAGGGC
1 TGGCGCAGGGC
32467 CTGGAGAAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
25 26 0.81
26 2 0.06
27 4 0.12
ACGTcount: A:0.28, C:0.16, G:0.43, T:0.13
Consensus pattern (24 bp):
TGGCGCAGGGCATAATGAAGAAAG
Done.