Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01005429.1 Corchorus capsularis cultivar CVL-1 contig05447, 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: 5011
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.28


Found at i:212 original size:119 final size:119

Alignment explanation


    Indices: 1--311  Score: 469
    Period size: 119  Copynumber: 2.6  Consensus size: 119

                                                         *                   
          1 AATGAAGAGTGCCAACCGCGCGAATGAAGACTGATTAATGAAGAGAACCGAATGCTCCCCTGAAC
          1 AATGAAGAGTGCCAACCGCGCGAATGAAGACTGATTAATGAAGAGCACCGAATGCTCCCCTGAAC

                                              *    *              
         66 ACGTGCAACTCCCCCAAGCACGTGCAATCACCAATGCACGAAAGAAGAGTGCTC
         66 ACGTGCAACTCCCCCAAGCACGTGCAATCACCAACGCACAAAAGAAGAGTGCTC

                                   *      *  *                        *      
        120 AATGAAGAGTGCCAACCGCGCGACTGAAGAATGCTTAATGAAGAGCACCGAATGCTCCTCTGAAC
          1 AATGAAGAGTGCCAACCGCGCGAATGAAGACTGATTAATGAAGAGCACCGAATGCTCCCCTGAAC

             *     *      *             *        *                
        185 ATGTGCAGCTCCCCTAAGCACGTGCAATTACCAACGCGCAAAAGAAGAGTGCTC
         66 ACGTGCAACTCCCCCAAGCACGTGCAATCACCAACGCACAAAAGAAGAGTGCTC

               **        * *       *                                         
        239 AATTTAGAGTGCCGATCGCGCGAGTGAAGACTGATTAATGAAGAGCACCGAATGCTCCCCTGAAC
          1 AATGAAGAGTGCCAACCGCGCGAATGAAGACTGATTAATGAAGAGCACCGAATGCTCCCCTGAAC

                    
        304 ACGTGCAA
         66 ACGTGCAA

        312 TCACCAACGC


Statistics
Matches: 170,  Mismatches: 22, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
 119  170  1.00

ACGTcount: A:0.33, C:0.26, G:0.24, T:0.16


Consensus pattern (119 bp):   
AATGAAGAGTGCCAACCGCGCGAATGAAGACTGATTAATGAAGAGCACCGAATGCTCCCCTGAAC
ACGTGCAACTCCCCCAAGCACGTGCAATCACCAACGCACAAAAGAAGAGTGCTC
Done.