Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01000899.1 Corchorus olitorius cultivar O-4 contig00899, 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, 603

Length: 1006
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38


Found at i:371 original size:200 final size:194

Alignment explanation


    Indices: 10--373  Score: 505
    Period size: 200  Copynumber: 1.8  Consensus size: 194

          1 ATCAACTTG

                 *                                             *        *  **
         10 TTTAATATTAATACATATTCCCTAAGGGGACACATGTCAACCCTTAAATCCTGCACGTGCGATTT
          1 TTTAACATTAATACATATTCCCTAAGGGGACACATGTCAACCCTTAAATCCCGCACGTGCAATCG

                                   *     *          *                  **    
         75 GCTAAAATCCACTGACGGGTATTGTATAATTTTTCTTATAGGATTATTATACAATACACTTTCAG
         66 GCTAAAATCCACTGACGGGTATTATATAAATTTTCTTATAAGATTATTATACAATACACCGTCAG

                                                                            
        140 TATAAATTTTGGACTCCATAAGAGAGTTAAGAAGTTGACACTTACCCCATTTCATAATTAGATA
        131 TATAAATTTTGGACTCCATAAGAGAGTTAAGAAGTTGACACTTACCCCATTTCATAATTAGATA

                     *                  *                                    
        204 TTTAACATTTATACATATTCCCTAAGGGTACACATGTCAACCCTTAAAGTTAAACCCCGCACGTG
          1 TTTAACATTAATACATATTCCCTAAGGGGACACATGTCAACCCTTAAA--T----CCCGCACGTG

            *           *                                                    
        269 TAATCGGCTAAACTCCACTGACGGCGTATTATATAAATTTTCTTATAAGATTATTATACAATACA
         60 CAATCGGCTAAAATCCACTGACGG-GTATTATATAAATTTTCTTATAAGATTATTATACAATACA

                    *                    * *         
        334 CCGTCAGTGT-AATTTTGGACTCCATAAGTGGGTTAAGAAG
        124 CCGTCAGTATAAATTTTGGACTCCATAAGAGAGTTAAGAAG

        374 ATTTTGTGAC


Statistics
Matches: 146,  Mismatches: 17, Indels: 8
        0.85            0.10        0.05

Matches are distributed among these distances:
 194   45  0.31
 196    1  0.01
 200   56  0.38
 201   44  0.30

ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33


Consensus pattern (194 bp):   
TTTAACATTAATACATATTCCCTAAGGGGACACATGTCAACCCTTAAATCCCGCACGTGCAATCG
GCTAAAATCCACTGACGGGTATTATATAAATTTTCTTATAAGATTATTATACAATACACCGTCAG
TATAAATTTTGGACTCCATAAGAGAGTTAAGAAGTTGACACTTACCCCATTTCATAATTAGATA
Done.