Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01007691.1 Corchorus capsularis cultivar CVL-1 contig07712, 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: 6492
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32


Found at i:517 original size:87 final size:86

Alignment explanation


    Indices: 311--518  Score: 231
    Period size: 87  Copynumber: 2.4  Consensus size: 86

        301 GATTTTTAGG

                  *   *           **       *                    *            
        311 TGCAAATTCTGTGGAAACTGATAGGGTGGAGAATAATTTGAATTCAATTGATTGTGATCTTCCTA
          1 TGCAAAATCTTTGGAAACTGATTTGGTGGAGGATAATTTGAATTCAATT-ATAGTGATCTTCCTA

                      *   *  *   *
        376 ATGGAGTTATGGGTGGTTATGG
         65 ATGGAGTTATAGGTAGTAATGA

                         *   *          *                                    
        398 TGCAAAATCTTTGTAAAAT-ATTATGGTAGAGGATAATTTGAATTCAAATT-TCAGTGATCTTCC
          1 TGCAAAATCTTTGGAAACTGATT-TGGTGGAGGATAATTTGAATTC-AATTAT-AGTGATCTTCC

                      *   *         
        461 TAATGGAGTTTTAGTTAGTAATGA
         63 TAATGGAGTTATAGGTAGTAATGA

                                              
        485 TGCAAAATCTTTGGAAACTGATTTGGTGGAGGAT
          1 TGCAAAATCTTTGGAAACTGATTTGGTGGAGGAT

        519 TTTGTGCCTG


Statistics
Matches: 99,  Mismatches: 18, Indels: 8
        0.79            0.14        0.06

Matches are distributed among these distances:
  86    3  0.03
  87   89  0.90
  88    7  0.07

ACGTcount: A:0.31, C:0.08, G:0.25, T:0.37


Consensus pattern (86 bp):   
TGCAAAATCTTTGGAAACTGATTTGGTGGAGGATAATTTGAATTCAATTATAGTGATCTTCCTAA
TGGAGTTATAGGTAGTAATGA

Found at i:4569 original size:23 final size:23

Alignment explanation


    Indices: 4539--4586  Score: 96
    Period size: 23  Copynumber: 2.1  Consensus size: 23

       4529 AGCCACCTGT

                                   
       4539 ATATAGGACAAGCTTGTTATTTG
          1 ATATAGGACAAGCTTGTTATTTG

                                   
       4562 ATATAGGACAAGCTTGTTATTTG
          1 ATATAGGACAAGCTTGTTATTTG

              
       4585 AT
          1 AT

       4587 TCCAAAAAGA


Statistics
Matches: 25,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  23   25  1.00

ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40


Consensus pattern (23 bp):   
ATATAGGACAAGCTTGTTATTTG
Done.