Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01008619.1 Corchorus capsularis cultivar CVL-1 contig08640, 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: 14481
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.33


Found at i:2087 original size:82 final size:82

Alignment explanation


    Indices: 1929--2087  Score: 239
    Period size: 82  Copynumber: 1.9  Consensus size: 82

       1919 TTCACAAAAT

                                   *                              *          
       1929 GTTTCAAAAAATGTCTCAACTACTCGTCTCAACAACTGTCTCTACCTAGAAACATAATCTGAGAC
          1 GTTTCAAAAAATGTCTCAACTACCCGTCTCAACAACTGTCTCTACCTAGAAACAGAATCTGAGAC

            * *   *          
       1994 GTGCTATTGGCAAGAAC
         66 ATACTAATGGCAAGAAC

                             *                                         *     
       2011 GTTTCAAAAAATGTCTCTACTTACCCGTCTCAACAACTGTCTCTA-CTAGAAACAGAATTTGAGA
          1 GTTTCAAAAAATGTCTCAAC-TACCCGTCTCAACAACTGTCTCTACCTAGAAACAGAATCTGAGA

                         
       2075 CATACTAATGGCA
         65 CATACTAATGGCA

       2088 GGAGAAGCGC


Statistics
Matches: 69,  Mismatches: 7, Indels: 2
        0.88            0.09        0.03

Matches are distributed among these distances:
  82   46  0.67
  83   23  0.33

ACGTcount: A:0.35, C:0.24, G:0.14, T:0.28


Consensus pattern (82 bp):   
GTTTCAAAAAATGTCTCAACTACCCGTCTCAACAACTGTCTCTACCTAGAAACAGAATCTGAGAC
ATACTAATGGCAAGAAC

Found at i:12211 original size:32 final size:33

Alignment explanation


    Indices: 12174--12258  Score: 136
    Period size: 32  Copynumber: 2.6  Consensus size: 33

      12164 AATGTTATTG

                                          *  
      12174 AATTCTTAATCTTTTTTTTATGGC-AAAAACAA
          1 AATTCTTAATCTTTTTTTTATGGCAAAAAAAAA

                                             
      12206 AATTCTTAATCTTTTTTTTATGGCAAAAAAAAA
          1 AATTCTTAATCTTTTTTTTATGGCAAAAAAAAA

                    *           
      12239 AACTTCTTTATCTTTTTTTT
          1 AA-TTCTTAATCTTTTTTTT

      12259 TTCCATGAAT


Statistics
Matches: 49,  Mismatches: 2, Indels: 2
        0.92            0.04        0.04

Matches are distributed among these distances:
  32   24  0.49
  33    9  0.18
  34   16  0.33

ACGTcount: A:0.34, C:0.12, G:0.05, T:0.49


Consensus pattern (33 bp):   
AATTCTTAATCTTTTTTTTATGGCAAAAAAAAA

Done.