Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01010460.1 Corchorus olitorius cultivar O-4 contig10492, 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: 2629
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35


Found at i:2530 original size:333 final size:333

Alignment explanation


    Indices: 1924--2613  Score: 1163
    Period size: 333  Copynumber: 2.1  Consensus size: 333

       1914 CGAAACACGT

                                                                 *      *    
       1924 GATTTCGGCTAAAATTTTGCAAAAAACTGACCCGAAAAGTTTTTCCCCAATTTTTTGCCAGAATA
          1 GATTTCGGCTAAAATTTTGCAAAAAACTGACCCGAAAAGTTTTTCCCCAATTTCTTGCCACAATA

                                                                             
       1989 CTCAGAAAAATCATATAAATTCAACGCCAAAACTATTTTAGGGTTTTTCACGCTTTTAATATCGT
         66 CTCAGAAAAATCATATAAATTCAACGCCAAAACTATTTTAGGGTTTTTCACGCTTTTAATATCGT

                                                           *                 
       2054 TTTTCCATTTTTTCTGAATTTATTTTAATAAATCGAAACAAGATACAGACACTTGTAAAAATAAA
        131 TTTTCCATTTTTTCTGAATTTATTTTAATAAATCGAAACAAGATACAAACACTTGTAAAAATAAA

              *                                                              
       2119 TCTGTAAATGCATTGTGGCTGAGAGATTTGATTAGATGAATATAAATATTTCGAGAAGTCATTCT
        196 TCCGTAAATGCATTGTGGCTGAGAGATTTGATTAGATGAATATAAATATTTCGAGAAGTCATTCT

            *                               *     *                 *        
       2184 TCCAAAAATCATGCAAAACTGAGCCAGGGACTCGAAACGCATTTTTAGCC-AAAAATCGTGATGG
        261 GCCAAAAATCATGCAAAACTGAGCCAGGGACTAGAAACACATTTTTAGCCAAAAAACCGTGATGG

                  *  
       2248 TTAGTACAC
        326 -TAGTAAAC

                                        *     *                              
       2257 GATTTCGGCTAAAATTTTGCAAAAAACTTACCCGTAAAG-TTTTCCCTCAATTTCTTGCCACAAT
          1 GATTTCGGCTAAAATTTTGCAAAAAACTGACCCGAAAAGTTTTTCCC-CAATTTCTTGCCACAAT

                                  *                                          
       2321 ACTCAGAAAAATCATAT-AATTTAACGCCAAAACTATTTTAGGGTTTTTCACGCTTTTAATATCG
         65 ACTCAGAAAAATCATATAAATTCAACGCCAAAACTATTTTAGGGTTTTTCACGCTTTTAATATCG

                                                           *    *            
       2385 TTTTTCCA-TTTTTCTGAATTTATTTCTAAATAAATCGAAACAAGATTCAAATACTTGTAAAAAT
        130 TTTTTCCATTTTTTCTGAATTTATTT-T-AATAAATCGAAACAAGATACAAACACTTGTAAAAAT

                                                           *                 
       2449 AAATCCGTAAATGCATTGTGGCTGAGAGATTTGATTAGATGAATATAGATATTTCGAGAAGTCAT
        193 AAATCCGTAAATGCATTGTGGCTGAGAGATTTGATTAGATGAATATAAATATTTCGAGAAGTCAT

                                      *     *                                
       2514 TCTGCCAAAAATCATGCAAAACTGAGTCAGGGCCTAGAAACACATTTTTAGCCAAAAAACCGTGA
        258 TCTGCCAAAAATCATGCAAAACTGAGCCAGGGACTAGAAACACATTTTTAGCCAAAAAACCGTGA

                       
       2579 TGGTAGTAAAC
        323 TGGTAGTAAAC

                                    
       2590 GATTTCGGCTAAAATTTTGCAAAA
          1 GATTTCGGCTAAAATTTTGCAAAA

       2614 TGAATATAGA


Statistics
Matches: 336,  Mismatches: 17, Indels: 8
        0.93            0.05        0.02

Matches are distributed among these distances:
 331   17  0.05
 332   62  0.18
 333  244  0.73
 334   13  0.04

ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33


Consensus pattern (333 bp):   
GATTTCGGCTAAAATTTTGCAAAAAACTGACCCGAAAAGTTTTTCCCCAATTTCTTGCCACAATA
CTCAGAAAAATCATATAAATTCAACGCCAAAACTATTTTAGGGTTTTTCACGCTTTTAATATCGT
TTTTCCATTTTTTCTGAATTTATTTTAATAAATCGAAACAAGATACAAACACTTGTAAAAATAAA
TCCGTAAATGCATTGTGGCTGAGAGATTTGATTAGATGAATATAAATATTTCGAGAAGTCATTCT
GCCAAAAATCATGCAAAACTGAGCCAGGGACTAGAAACACATTTTTAGCCAAAAAACCGTGATGG
TAGTAAAC
Done.