Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01020634.1 Corchorus olitorius cultivar O-4 contig20667, 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: 2968
ACGTcount: A:0.31, C:0.14, G:0.18, T:0.37


Found at i:2461 original size:27 final size:27

Alignment explanation


    Indices: 2429--2494  Score: 87
    Period size: 27  Copynumber: 2.4  Consensus size: 27

       2419 GGTATTTTGG

                      *  *            *
       2429 GTCATTTGCATGTTCAGAGGCATTTTT
          1 GTCATTTGCACGTCCAGAGGCATTTTA

                             *         
       2456 GTCATTTGCACGTCCAGGGGCATTTTA
          1 GTCATTTGCACGTCCAGAGGCATTTTA

                        
       2483 GTCATTTTGCAC
          1 GTCA-TTTGCAC

       2495 ATTCAAGGGC


Statistics
Matches: 34,  Mismatches: 4, Indels: 1
        0.87            0.10        0.03

Matches are distributed among these distances:
  27   27  0.79
  28    7  0.21

ACGTcount: A:0.18, C:0.20, G:0.23, T:0.39


Consensus pattern (27 bp):   
GTCATTTGCACGTCCAGAGGCATTTTA

Found at i:2504 original size:28 final size:28

Alignment explanation


    Indices: 2447--2519  Score: 85
    Period size: 28  Copynumber: 2.6  Consensus size: 28

       2437 CATGTTCAGA

                    *            *    * 
       2447 GGCATTTTTGTCA-TTTGCACGTCCAGG
          1 GGCATTTTAGTCATTTTGCACATCCAAG

                                   *    
       2474 GGCATTTTAGTCATTTTGCACATTCAAG
          1 GGCATTTTAGTCATTTTGCACATCCAAG

                   **         
       2502 GGCATTTCGGTCATTTTG
          1 GGCATTTTAGTCATTTTG

       2520 AGCTCATTTT


Statistics
Matches: 39,  Mismatches: 6, Indels: 1
        0.85            0.13        0.02

Matches are distributed among these distances:
  27   12  0.31
  28   27  0.69

ACGTcount: A:0.18, C:0.19, G:0.23, T:0.40


Consensus pattern (28 bp):   
GGCATTTTAGTCATTTTGCACATCCAAG
Done.