Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01005247.1 Corchorus capsularis cultivar CVL-1 contig05265, 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: 5861
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.36


Found at i:1847 original size:33 final size:31

Alignment explanation


    Indices: 1805--1873  Score: 84
    Period size: 31  Copynumber: 2.2  Consensus size: 31

       1795 ATGATCTTCA

                         *               *   
       1805 CCTGAGACTGCATGTACCTTCAACACTCCGCCT
          1 CCTGAGACTG--TATACCTTCAACACTCCACCT

                *              *           
       1838 CCTGGGACTGTATACCTTCGACACTCCACCT
          1 CCTGAGACTGTATACCTTCAACACTCCACCT

                 
       1869 CCTGA
          1 CCTGA

       1874 ACTTACCTCA


Statistics
Matches: 31,  Mismatches: 5, Indels: 2
        0.82            0.13        0.05

Matches are distributed among these distances:
  31   22  0.71
  33    9  0.29

ACGTcount: A:0.20, C:0.39, G:0.16, T:0.25


Consensus pattern (31 bp):   
CCTGAGACTGTATACCTTCAACACTCCACCT

Found at i:4304 original size:21 final size:20

Alignment explanation


    Indices: 4280--4318  Score: 51
    Period size: 20  Copynumber: 1.9  Consensus size: 20

       4270 CGTATATAAG

                                 
       4280 ATTAGTAAAAAAGCTATACAC
          1 ATTA-TAAAAAAGCTATACAC

                 *    *       
       4301 ATTATGAAAATGCTATAC
          1 ATTATAAAAAAGCTATAC

       4319 TCTTATTAAC


Statistics
Matches: 16,  Mismatches: 2, Indels: 1
        0.84            0.11        0.05

Matches are distributed among these distances:
  20   12  0.75
  21    4  0.25

ACGTcount: A:0.49, C:0.13, G:0.10, T:0.28


Consensus pattern (20 bp):   
ATTATAAAAAAGCTATACAC
Done.