Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01009506.1 Corchorus capsularis cultivar CVL-1 contig09527, 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: 21020
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34


Found at i:327 original size:78 final size:78

Alignment explanation


    Indices: 193--355  Score: 317
    Period size: 78  Copynumber: 2.1  Consensus size: 78

        183 AACCACATAC

                *                                                            
        193 GAATTCAGTCCAAAAGGTTTTTAAACCTGTTTAGCAGGTTAAAACTTATTGTATCGGACGATAAG
          1 GAATCCAGTCCAAAAGGTTTTTAAACCTGTTTAGCAGGTTAAAACTTATTGTATCGGACGATAAG

                         
        258 GAAATTAGATATT
         66 GAAATTAGATATT

                                                                             
        271 GAATCCAGTCCAAAAGGTTTTTAAACCTGTTTAGCAGGTTAAAACTTATTGTATCGGACGATAAG
          1 GAATCCAGTCCAAAAGGTTTTTAAACCTGTTTAGCAGGTTAAAACTTATTGTATCGGACGATAAG

                         
        336 GAAATTAGATATT
         66 GAAATTAGATATT

                   
        349 GAATCCA
          1 GAATCCA

        356 ATGGTCAGAA


Statistics
Matches: 84,  Mismatches: 1, Indels: 0
        0.99            0.01        0.00

Matches are distributed among these distances:
  78   84  1.00

ACGTcount: A:0.36, C:0.13, G:0.19, T:0.32


Consensus pattern (78 bp):   
GAATCCAGTCCAAAAGGTTTTTAAACCTGTTTAGCAGGTTAAAACTTATTGTATCGGACGATAAG
GAAATTAGATATT

Found at i:15264 original size:90 final size:90

Alignment explanation


    Indices: 15111--15294  Score: 368
    Period size: 90  Copynumber: 2.0  Consensus size: 90

      15101 TATTATAGTC

                                                                             
      15111 TCTGTTTGTGCTTACAACTCTTCACAAGATGTGCTAGATCAGCATAGATATTCAAATATTGATAT
          1 TCTGTTTGTGCTTACAACTCTTCACAAGATGTGCTAGATCAGCATAGATATTCAAATATTGATAT

                                     
      15176 AGATTAGCAAGTGGAATAATGGTGT
         66 AGATTAGCAAGTGGAATAATGGTGT

                                                                             
      15201 TCTGTTTGTGCTTACAACTCTTCACAAGATGTGCTAGATCAGCATAGATATTCAAATATTGATAT
          1 TCTGTTTGTGCTTACAACTCTTCACAAGATGTGCTAGATCAGCATAGATATTCAAATATTGATAT

                                     
      15266 AGATTAGCAAGTGGAATAATGGTGT
         66 AGATTAGCAAGTGGAATAATGGTGT

                
      15291 TCTG
          1 TCTG

      15295 CAAGTCTTCT


Statistics
Matches: 94,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  90   94  1.00

ACGTcount: A:0.32, C:0.14, G:0.20, T:0.35


Consensus pattern (90 bp):   
TCTGTTTGTGCTTACAACTCTTCACAAGATGTGCTAGATCAGCATAGATATTCAAATATTGATAT
AGATTAGCAAGTGGAATAATGGTGT
Done.