Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01001807.1 Corchorus capsularis cultivar CVL-1 contig01808, 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, 625
Length: 1042
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Found at i:797 original size:428 final size:427
Alignment explanation
Indices: 1--1042 Score: 1949
Period size: 428 Copynumber: 2.4 Consensus size: 427
1 CTTTGAGCGGTTGTATGCAAAACATCATTTTTAGCGAAAGGCTCATTCCAGATGCTTTTTTTGCG
1 CTTTGAGCGGTTGTATGCAAAACATCATTTTTAGCGAAAGGCTCATTCCAGATGCTTTTTTTGCG
*
66 CAACGAGTACTCAAATGTCGTGCGTCGAATTGCGATGAGATTGTTGGACAGCCCTGTGCACAAAA
66 CAACGAGTACTCAAATGTCGTGCGTCGAATTGCGATGAGATTGTTGGACAGCCCTGTGCACAAAC
* * * **
131 AAAGCTTTCACGAAGTCCAAAGCCTCAACTTTGCGCGTTTTTGTGCTATTCATAGTTCTTAGCAA
131 AAAGCTTTCACGAAGTCCAAAGCCTCAAGTTTGCACATTTTTGTGCTAAACATAGTTCTTAGCAA
* *
196 AACTCTTTCTGGATGCGCTTTTTCGCGCAACAAGTGCTCAGAAGTCGTGTGTCGGAATGAGATGA
196 AACTCTTTCTGGATGCGCTTTTTCGCGAAACAAGTGCTCAAAAGTCGTGTGTCGGAATGAGATGA
*
261 GCTTGTTAGACAGCGCTACACACAAACAAAGCTCTCCTCGAAGTCTAATGCATCAACTTTGCGAG
261 GCTTGTTAGACAGCGCTACACACAAACAAAGCTCTCCTCGAAGTCTAAAGCATCAACTTTGCGAG
326 TTTGTATGCAACACTTCGTTCTTAGAGGTTTGTCGGAGTGAGATGAACTTTTTGGACAGCCCTGT
326 TTTGTATGCAACACTTCGTTCTTAGAGGTTTGTCGGAGTGAGATGAACTTTTTGGACAGCCCTGT
391 GCAGAAACAAAGCTTACCAAGATGCCCAAAACCTCAA
391 GCAGAAACAAAGCTTACCAAGATGCCCAAAACCTCAA
428 CTTTGAGCGGTTGTATGCAAAACATCATTTTTAGCGAAAGGCTCATTCCAGATGCCTTTTTTTGC
1 CTTTGAGCGGTTGTATGCAAAACATCATTTTTAGCGAAAGGCTCATTCCAGATG-CTTTTTTTGC
493 GCAACGAGTACTCAAATGTCGTGCGTCGAATTGCGATGAGATTGTTGGACAGCCCTGTGCACAAA
65 GCAACGAGTACTCAAATGTCGTGCGTCGAATTGCGATGAGATTGTTGGACAGCCCTGTGCACAAA
558 CAAAGCTTTCACGAAGTCCAAAGCCTCAAGTTTGCACATTTTTGTGCTAAACATAGTTCTTAGCA
130 CAAAGCTTTCACGAAGTCCAAAGCCTCAAGTTTGCACATTTTTGTGCTAAACATAGTTCTTAGCA
* * * *
623 GAACTCTTTTTGGATGCGTTTTTTCGCGAAACTAGTGCTCAAAAGTCGTGTGTCGGAATGAGATG
195 AAACTCTTTCTGGATGCGCTTTTTCGCGAAACAAGTGCTCAAAAGTCGTGTGTCGGAATGAGATG
688 AGCTTGTTAGACAGCGCTACACACAAACAAAGCTCTCCTCGAAGTCTAAAGCATCAACTTTGCGA
260 AGCTTGTTAGACAGCGCTACACACAAACAAAGCTCTCCTCGAAGTCTAAAGCATCAACTTTGCGA
*
753 GTTTGTATGCAACACTTCGTTCTTAGTGGTTTGTCGGAGTGAGATGAACTTTTTGGACAGCCCTG
325 GTTTGTATGCAACACTTCGTTCTTAGAGGTTTGTCGGAGTGAGATGAACTTTTTGGACAGCCCTG
818 TGCAGAAACAAAGCTTACCAAGATGCCCAAAACCTCAA
390 TGCAGAAACAAAGCTTACCAAGATGCCCAAAACCTCAA
856 CTTTGAGCGGTTGTATGCAAAACATCATTTTTAGCGAAAGGCTCATTCCAGATGCTTTTTTTGCG
1 CTTTGAGCGGTTGTATGCAAAACATCATTTTTAGCGAAAGGCTCATTCCAGATGCTTTTTTTGCG
921 CAACGAGTACTCAAATGTCGTGCGTCGAATTGCGATGAGATTGTTGGACAGCCCTGTGCACAAAC
66 CAACGAGTACTCAAATGTCGTGCGTCGAATTGCGATGAGATTGTTGGACAGCCCTGTGCACAAAC
986 AAAGCTTTCACGAAGTCCAAAGCCTCAAGTTTGCACATTTTTGTGCTAAACATAGTT
131 AAAGCTTTCACGAAGTCCAAAGCCTCAAGTTTGCACATTTTTGTGCTAAACATAGTT
Statistics
Matches: 600, Mismatches: 14, Indels: 2
0.97 0.02 0.00
Matches are distributed among these distances:
427 187 0.31
428 413 0.69
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (427 bp):
CTTTGAGCGGTTGTATGCAAAACATCATTTTTAGCGAAAGGCTCATTCCAGATGCTTTTTTTGCG
CAACGAGTACTCAAATGTCGTGCGTCGAATTGCGATGAGATTGTTGGACAGCCCTGTGCACAAAC
AAAGCTTTCACGAAGTCCAAAGCCTCAAGTTTGCACATTTTTGTGCTAAACATAGTTCTTAGCAA
AACTCTTTCTGGATGCGCTTTTTCGCGAAACAAGTGCTCAAAAGTCGTGTGTCGGAATGAGATGA
GCTTGTTAGACAGCGCTACACACAAACAAAGCTCTCCTCGAAGTCTAAAGCATCAACTTTGCGAG
TTTGTATGCAACACTTCGTTCTTAGAGGTTTGTCGGAGTGAGATGAACTTTTTGGACAGCCCTGT
GCAGAAACAAAGCTTACCAAGATGCCCAAAACCTCAA
Done.