Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01012699.1 Corchorus capsularis cultivar CVL-1 contig12720, 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: 4447
ACGTcount: A:0.36, C:0.20, G:0.15, T:0.29

Warning! 1 characters in sequence are not A, C, G, or T


Found at i:270 original size:33 final size:33

Alignment explanation


    Indices: 233--337  Score: 104
    Period size: 33  Copynumber: 3.2  Consensus size: 33

        223 ATTAGCATCC

                          *         *        
        233 AAAACAGATTTAGTTTCATTACAAGCAACACCT
          1 AAAACAGATTTAGTGTCATTACAAACAACACCT

                                *            
        266 AAAACAGATTTAGTGTCATTGCAAACAACA-CT
          1 AAAACAGATTTAGTGTCATTACAAACAACACCT

                **  *      *    **         *  
        298 CAAATTAGGTTTAGTATCATCGCAAACAACATCT
          1 -AAAACAGATTTAGTGTCATTACAAACAACACCT

                  
        332 AAAACA
          1 AAAACA

        338 CAGTTCGCAA


Statistics
Matches: 60,  Mismatches: 10, Indels: 4
        0.81            0.14        0.05

Matches are distributed among these distances:
  32    2  0.03
  33   56  0.93
  34    2  0.03

ACGTcount: A:0.44, C:0.20, G:0.10, T:0.26


Consensus pattern (33 bp):   
AAAACAGATTTAGTGTCATTACAAACAACACCT

Found at i:3540 original size:21 final size:21

Alignment explanation


    Indices: 3498--3540  Score: 59
    Period size: 21  Copynumber: 2.0  Consensus size: 21

       3488 AGATGCCATT

                       *     *   
       3498 AAGATGCCATTTGATTCTTTG
          1 AAGATGCCATTAGATTCGTTG

                         *       
       3519 AAGATGCCATTAGGTTCGTTG
          1 AAGATGCCATTAGATTCGTTG

             
       3540 A
          1 A

       3541 CAAGAGCAAG


Statistics
Matches: 19,  Mismatches: 3, Indels: 0
        0.86            0.14        0.00

Matches are distributed among these distances:
  21   19  1.00

ACGTcount: A:0.26, C:0.14, G:0.23, T:0.37


Consensus pattern (21 bp):   
AAGATGCCATTAGATTCGTTG
Done.