Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga02g00804.F2

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: 4786
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.30


Found at i:3933 original size:46 final size:47

Alignment explanation


    Indices: 3832--3957  Score: 152
    Period size: 46  Copynumber: 2.7  Consensus size: 47

       3822 TGTGGTATGT

                                         *           *      
       3832 GAGCTAGTGTAAGACATGTCTGAGACATGTATCAGCCATATTATGAAA
          1 GAGCTAGTGTAAGACATGTCTGAGACATGCATC-GCCATATGATGAAA

                *                             *             
       3880 -A-CCAGTGTAAGACATGTCTGAGACATGCATCGGCAT-TGA-GACAA
          1 GAGCTAGTGTAAGACATGTCTGAGACATGCATCGCCATATGATGA-AA

                                  *     *     
       3924 GAGCTAGTGTAAGACATGTCTGGGACATACATCG
          1 GAGCTAGTGTAAGACATGTCTGAGACATGCATCG

       3958 ACCTCGGGAT


Statistics
Matches: 68,  Mismatches: 7, Indels: 8
        0.82            0.08        0.10

Matches are distributed among these distances:
  43    2  0.03
  44    4  0.06
  45    5  0.07
  46   56  0.82
  47    1  0.01

ACGTcount: A:0.33, C:0.17, G:0.25, T:0.24


Consensus pattern (47 bp):   
GAGCTAGTGTAAGACATGTCTGAGACATGCATCGCCATATGATGAAA

Found at i:4127 original size:49 final size:49

Alignment explanation


    Indices: 4023--4140  Score: 130
    Period size: 49  Copynumber: 2.4  Consensus size: 49

       4013 TGTGTGTCAG

                   *                               *  *     *
       4023 TGTAAGATCTGTCTGGGACATAGCATCGACACTGATAGATGAGAGCCAG
          1 TGTAAGACCTGTCTGGGACATAGCATCGACACTGATAGACGAAAGCCAA

                                 *      *         *       *   
       4072 TGTAAGACCTGTCTGGGACATGGCATCGGC-CTCGATATACGAAAGTCAA
          1 TGTAAGACCTGTCTGGGACATAGCATCGACACT-GATAGACGAAAGCCAA

             *            *     
       4121 TTTAAGACCTGTCTAGGACA
          1 TGTAAGACCTGTCTGGGACA

       4141 CGTCATCGAC


Statistics
Matches: 58,  Mismatches: 10, Indels: 2
        0.83            0.14        0.03

Matches are distributed among these distances:
  48    2  0.03
  49   56  0.97

ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24


Consensus pattern (49 bp):   
TGTAAGACCTGTCTGGGACATAGCATCGACACTGATAGACGAAAGCCAA
Done.