Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01006811.1 Corchorus capsularis cultivar CVL-1 contig06832, 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: 3505
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.35


Found at i:3328 original size:241 final size:240

Alignment explanation


    Indices: 2906--3484  Score: 1059
    Period size: 241  Copynumber: 2.4  Consensus size: 240

       2896 CGATCAGCCA

                                                                       *     
       2906 CGATCTTTAATTTTTCTCCGAGGAAGGCAAATTGGGTAAAAATGAAGGCTAAAAGATAGTGGCGT
          1 CGATCTTTAATTTTTCTCCGAGGAAGGCAAATTGGGTAAAAATGAAGGCTAAAAGATAGCGGCGT

                   *                             *                           
       2971 CTTGGCCTCATACGCCGCTAAATGGAGGCGTCTAAACCACAAAACGCCGCGATCTTTAATTTTTC
         66 CTTGGCCCCATACGCCGCTAAATGGAGGCGTCTAAACAACAAAACGCCGCGATCTTTAATTTTTC

                                                                        *    
       3036 TCCAAGGAAGGCAAATTGGGTCAAATTGTGAAGGCTAAAAGATAGCGGCGTCATAAACGCGGTTG
        131 TCCAAGGAAGGCAAATTGGGTCAAATTGTGAAGGCTAAAAGATAGCGGCGTCATAAACGCAGTTG

                                                         
       3101 GGTCTAGACGCCGCTAAATGGAGGCGTCTGAAACTTAAGACGCCG
        196 GGTCTAGACGCCGCTAAATGGAGGCGTCTGAAACTTAAGACGCCG

                                                                             
       3146 CGATCTTTAATTTTTCTCCGAGGAAGGCAAATTGGGTAGAAAATGAAGGCTAAAAGATAGCGGCG
          1 CGATCTTTAATTTTTCTCCGAGGAAGGCAAATTGGGTA-AAAATGAAGGCTAAAAGATAGCGGCG

                                                                             
       3211 TCTTGGCCCCATACGCCGCTAAATGGAGGCGTCTAAACAACAAAACGCCGCGATCTTTAATTTTT
         65 TCTTGGCCCCATACGCCGCTAAATGGAGGCGTCTAAACAACAAAACGCCGCGATCTTTAATTTTT

                                                                             
       3276 CTCCAAGGAAGGCAAATTGGGTCAAATTGTGAAGGCTAAAAGATAGCGGCGTCATAAACGCAGTT
        130 CTCCAAGGAAGGCAAATTGGGTCAAATTGTGAAGGCTAAAAGATAGCGGCGTCATAAACGCAGTT

                *                            *            
       3341 GGGTTTAGACGCCGCTAAATGGAGGCGTCTGAACCTTAAGACGCCG
        195 GGGTCTAGACGCCGCTAAATGGAGGCGTCTGAAACTTAAGACGCCG

                                                                             
       3387 CGATCTTTAATTTTTCTCCGAGGAAGGCAAATTGGGTAAAAATGAAGGCTAAAAGATAGCGGCGT
          1 CGATCTTTAATTTTTCTCCGAGGAAGGCAAATTGGGTAAAAATGAAGGCTAAAAGATAGCGGCGT

                 ** * *                      
       3452 CTTGGGTCAAAACGCCGCTAAATGGAGGCGTCT
         66 CTTGGCCCCATACGCCGCTAAATGGAGGCGTCT

       3485 GAACCTTAAT


Statistics
Matches: 328,  Mismatches: 10, Indels: 2
        0.96            0.03        0.01

Matches are distributed among these distances:
 240   94  0.29
 241  234  0.71

ACGTcount: A:0.31, C:0.20, G:0.26, T:0.23


Consensus pattern (240 bp):   
CGATCTTTAATTTTTCTCCGAGGAAGGCAAATTGGGTAAAAATGAAGGCTAAAAGATAGCGGCGT
CTTGGCCCCATACGCCGCTAAATGGAGGCGTCTAAACAACAAAACGCCGCGATCTTTAATTTTTC
TCCAAGGAAGGCAAATTGGGTCAAATTGTGAAGGCTAAAAGATAGCGGCGTCATAAACGCAGTTG
GGTCTAGACGCCGCTAAATGGAGGCGTCTGAAACTTAAGACGCCG
Done.