Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01010868.1 Corchorus capsularis cultivar CVL-1 contig10889, 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: 13401
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.31


Found at i:1873 original size:42 final size:42

Alignment explanation


    Indices: 1814--2111  Score: 404
    Period size: 42  Copynumber: 7.1  Consensus size: 42

       1804 GGATAGGAGC

                        *                        *    
       1814 CCATATTTTCAGATTTTTGCCATTTAGCCTCAGAAGCATCCT
          1 CCATATTTTCAGTTTTTTGCCATTTAGCCTCAGAAGCCTCCT

                                 *                    
       1856 CCATATTTTCAGTTTTTTGCCGTTTAGCCTCAGAAGCCTCCT
          1 CCATATTTTCAGTTTTTTGCCATTTAGCCTCAGAAGCCTCCT

              *               *  **                   
       1898 CCGTATTTTCAGTTTTTTCCCGGTTAGCCTCAGAAGCCTCCT
          1 CCATATTTTCAGTTTTTTGCCATTTAGCCTCAGAAGCCTCCT

                                                      
       1940 CCATATTTTCAGTTTTTTGCCATTTAGCCTCAGAAGCCTCCT
          1 CCATATTTTCAGTTTTTTGCCATTTAGCCTCAGAAGCCTCCT

             *                                          
       1982 CTATATTTTCAGTTTTTT-CC-TGGTTAGCCTCAGAAGCCTCCT
          1 CCATATTTTCAGTTTTTTGCCAT--TTAGCCTCAGAAGCCTCCT

                                 *         *          
       2024 CCATATTTTCAGTTTTTTGCCGTTTAGCCTCGGAAGCCTCCT
          1 CCATATTTTCAGTTTTTTGCCATTTAGCCTCAGAAGCCTCCT

                 *             *   **           *  *   
       2066 CCATAATTTCA-TTTCTTTTCCAACTAGCCTCAGAATCCACCT
          1 CCATATTTTCAGTTT-TTTGCCATTTAGCCTCAGAAGCCTCCT

                
       2108 CCAT
          1 CCAT

       2112 CACATTACGA


Statistics
Matches: 230,  Mismatches: 21, Indels: 10
        0.88            0.08        0.04

Matches are distributed among these distances:
  40    1  0.00
  41    5  0.02
  42  221  0.96
  43    2  0.01
  44    1  0.00

ACGTcount: A:0.19, C:0.29, G:0.13, T:0.39


Consensus pattern (42 bp):   
CCATATTTTCAGTTTTTTGCCATTTAGCCTCAGAAGCCTCCT

Found at i:9069 original size:6 final size:6

Alignment explanation


    Indices: 9058--9082  Score: 50
    Period size: 6  Copynumber: 4.2  Consensus size: 6

       9048 TACCCTCCTG

                                         
       9058 AAATTC AAATTC AAATTC AAATTC A
          1 AAATTC AAATTC AAATTC AAATTC A

       9083 GAAACAAATT


Statistics
Matches: 19,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   6   19  1.00

ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32


Consensus pattern (6 bp):   
AAATTC

Done.