Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01011340.1 Corchorus olitorius cultivar O-4 contig11373, 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: 2395
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33


Found at i:1966 original size:302 final size:303

Alignment explanation


    Indices: 1367--1972  Score: 910
    Period size: 302  Copynumber: 2.0  Consensus size: 303

       1357 TCTGTTTTAA

                       *     *     *   *                        *        *   
       1367 CAAGCGGAGTCGTTTCAGCTGCAGAAACCCCAGACTTGATTATTAAGCAAAATAATTGCAAGACA
          1 CAAGCGGAGTCATTTCACCTGCACAAAACCCAGACTTGATTATTAAGCAAAACAATTGCAAAACA

             *     **         *                          * *                 
       1432 AGAATGGGTCTGGCCTGTTCCAGGGAACTTTTCACAAGTATATTCTATACCGGAGCTGTCACTAA
         66 AAAATGGAACTGGCCTGTGCCAGGGAACTTTTCACAAGTATATTCAAAACCGGAGCTGTCACTAA

                       *      * *                                            
       1497 GAAGTGTTGCGGTGAACTCATGGAATTGGGTAAAGTTTGTCACGATGCATTTGTTAAGAAGACTC
        131 GAAGTGTTGCGCTGAACTAAAGGAATTGGGTAAAGTTTGTCACGATGCATTTGTTAAGAAGACTC

                   *   *        *                      *          *          
       1562 ATGAAGATCCTTTATATAAAGACTTAAGCGAGTCAACAATTGCGAAGAAGAGTATAAAAACATGG
        196 ATGAAGACCCTATATATAAAAACTTAAGCGAGTCAACAATTGCAAAGAAGAGTACAAAAACATGG

                                                       
       1627 AACACATGTGCCTCAGTCATCGACATTTCACCATCTTCTTCTG
        261 AACACATGTGCCTCAGTCATCGACATTTCACCATCTTCTTCTG

                   *                       *                *                
       1670 CAAGCGGGGTCATTTCACCTGCACAAAACCCGGACTTGATTATTAAG-GAAACAATTGCAAAACA
          1 CAAGCGGAGTCATTTCACCTGCACAAAACCCAGACTTGATTATTAAGCAAAACAATTGCAAAACA

                                        *                                    
       1734 AAAATGGAACT-GCCATGTGCCAGGGAAGTTTTCACAAGTATATTCAAAACCGGAGCTGTCACTA
         66 AAAATGGAACTGGCC-TGTGCCAGGGAACTTTTCACAAGTATATTCAAAACCGGAGCTGTCACTA

                *                   *                                        
       1798 AGAATTGTTGCGCTGAACTAAAGGTATTGGGTAAAGTTTGTCACGATGCATTTGTTAAGAAGACT
        130 AGAAGTGTTGCGCTGAACTAAAGGAATTGGGTAAAGTTTGTCACGATGCATTTGTTAAGAAGACT

             *                           *      *                         *  
       1863 CTTGAAGACCCTATATATAAAAACTTAAGTGAGTCAGCAATTGCAAAGAAGAGTACAAAAACGTG
        195 CATGAAGACCCTATATATAAAAACTTAAGCGAGTCAACAATTGCAAAGAAGAGTACAAAAACATG

                  *                                     
       1928 GAACACTTGTGCCTCAGTCATCGACATTTCACCATCTTCTTCTG
        260 GAACACATGTGCCTCAGTCATCGACATTTCACCATCTTCTTCTG

             
       1972 C
          1 C

       1973 TTGAGAAGCA


Statistics
Matches: 271,  Mismatches: 31, Indels: 3
        0.89            0.10        0.01

Matches are distributed among these distances:
 301    3  0.01
 302  227  0.84
 303   41  0.15

ACGTcount: A:0.33, C:0.19, G:0.21, T:0.26


Consensus pattern (303 bp):   
CAAGCGGAGTCATTTCACCTGCACAAAACCCAGACTTGATTATTAAGCAAAACAATTGCAAAACA
AAAATGGAACTGGCCTGTGCCAGGGAACTTTTCACAAGTATATTCAAAACCGGAGCTGTCACTAA
GAAGTGTTGCGCTGAACTAAAGGAATTGGGTAAAGTTTGTCACGATGCATTTGTTAAGAAGACTC
ATGAAGACCCTATATATAAAAACTTAAGCGAGTCAACAATTGCAAAGAAGAGTACAAAAACATGG
AACACATGTGCCTCAGTCATCGACATTTCACCATCTTCTTCTG
Done.