Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01007541.1 Corchorus capsularis cultivar CVL-1 contig07562, 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: 3331
ACGTcount: A:0.35, C:0.14, G:0.15, T:0.36


Found at i:1685 original size:25 final size:25

Alignment explanation


    Indices: 1655--1706  Score: 95
    Period size: 25  Copynumber: 2.1  Consensus size: 25

       1645 ATATCTTAGA

                          *          
       1655 ATTTAATAAATTTAGATTAATTTGG
          1 ATTTAATAAATTTAAATTAATTTGG

                                     
       1680 ATTTAATAAATTTAAATTAATTTGG
          1 ATTTAATAAATTTAAATTAATTTGG

              
       1705 AT
          1 AT

       1707 GAAAGTATAT


Statistics
Matches: 26,  Mismatches: 1, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  25   26  1.00

ACGTcount: A:0.42, C:0.00, G:0.10, T:0.48


Consensus pattern (25 bp):   
ATTTAATAAATTTAAATTAATTTGG

Found at i:2201 original size:56 final size:55

Alignment explanation


    Indices: 2073--2232  Score: 178
    Period size: 54  Copynumber: 2.9  Consensus size: 55

       2063 AAAAAGCATT

                                    *    *       *              ** 
       2073 TCATTGTACATGCATGGTCAAACCTCAAAGTTTAATAGTCAACCCACAAAAACGA
          1 TCATTGTACATGCATGGTCAAACCCCAAAATTTAATAATCAACCCACAAAAAAAA

                         *     * *           *           *          
       2128 -CATTGTACATGCGTGGTCTACCCCCAAAATTTGATAATCAACCCGCAAAAAAAAA
          1 TCATTGTACATGCATGGTCAAACCCCAAAATTTAATAATCAACCCAC-AAAAAAAA

                    *                    *        *   *       
       2183 TCATTGTAGATGCATGGTCAAACCCCAAATTTTAATAAGCAAACCACAAA
          1 TCATTGTACATGCATGGTCAAACCCCAAAATTTAATAATCAACCCACAAA

       2233 GTTTGATAGG


Statistics
Matches: 84,  Mismatches: 19, Indels: 4
        0.79            0.18        0.04

Matches are distributed among these distances:
  54   38  0.45
  55    9  0.11
  56   37  0.44

ACGTcount: A:0.41, C:0.24, G:0.12, T:0.23


Consensus pattern (55 bp):   
TCATTGTACATGCATGGTCAAACCCCAAAATTTAATAATCAACCCACAAAAAAAA
Done.