Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01015115.1 Corchorus capsularis cultivar CVL-1 contig15136, 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: 3375
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35


Found at i:2834 original size:27 final size:27

Alignment explanation


    Indices: 2756--2834  Score: 113
    Period size: 27  Copynumber: 2.9  Consensus size: 27

       2746 AAGGTGAACT

                      *            *   
       2756 CAAAAATGACTAAAATGCCCCTGAGTA
          1 CAAAAATGACCAAAATGCCCCTGGGTA

                                      *
       2783 CAAAAATGACCAAAATGCCCCTGGGTG
          1 CAAAAATGACCAAAATGCCCCTGGGTA

                            *   *    
       2810 CAAAAATGACCAAAATACCCTTGGG
          1 CAAAAATGACCAAAATGCCCCTGGG

       2835 CGACCCTAAT


Statistics
Matches: 47,  Mismatches: 5, Indels: 0
        0.90            0.10        0.00

Matches are distributed among these distances:
  27   47  1.00

ACGTcount: A:0.42, C:0.24, G:0.18, T:0.16


Consensus pattern (27 bp):   
CAAAAATGACCAAAATGCCCCTGGGTA

Found at i:3040 original size:28 final size:27

Alignment explanation


    Indices: 2973--3078  Score: 149
    Period size: 27  Copynumber: 3.9  Consensus size: 27

       2963 ATTAGGGTTG

                *   *                  
       2973 CCCAAGGGTATTTTGGTCATTTTTGCA
          1 CCCAGGGGCATTTTGGTCATTTTTGCA

              *                        
       3000 CCTAGGGGCATTTTGGTCATTTTTGCA
          1 CCCAGGGGCATTTTGGTCATTTTTGCA

                     *                  
       3027 CCCAGGGGGAATTTTGGTCATTTTTGCA
          1 CCCA-GGGGCATTTTGGTCATTTTTGCA

             *            *         
       3055 CTCAGGGGCATTTTAGTCATTTTT
          1 CCCAGGGGCATTTTGGTCATTTTT

       3079 AAGTTCACCT


Statistics
Matches: 70,  Mismatches: 8, Indels: 2
        0.88            0.10        0.03

Matches are distributed among these distances:
  27   45  0.64
  28   25  0.36

ACGTcount: A:0.17, C:0.18, G:0.25, T:0.41


Consensus pattern (27 bp):   
CCCAGGGGCATTTTGGTCATTTTTGCA
Done.