Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga07g01639.N2

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: 2761
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.31


Found at i:69 original size:43 final size:42

Alignment explanation


    Indices: 4--145  Score: 151
    Period size: 43  Copynumber: 3.3  Consensus size: 42

          1 ACA

                           *          * *    *        *
          4 TTTAGCGGCGTTTGTTGAAAAAGCGTTGTTAAAGGTCATGACT
          1 TTTAGCGGCGTTTGTAG-AAAAGCGTCGCTAAAAGTCATGACC

                                   *                   
         47 TTTAGCGGCGTTTGTAAGAAAAGTGTCGCTAAAAGTCATGACC
          1 TTTAGCGGCGTTTGT-AGAAAAGCGTCGCTAAAAGTCATGACC

                            *                    *      
         90 TTTAGCGGCGTTTGTGGGAAAAGCG-CTGCTAAAAGTTATGACC
          1 TTTAGCGGCGTTTGT-AGAAAAGCGTC-GCTAAAAGTCATGACC

                *   *    
        133 TTTAACGGTGTTT
          1 TTTAGCGGCGTTT

        146 TTTCAAATAA


Statistics
Matches: 85,  Mismatches: 12, Indels: 4
        0.84            0.12        0.04

Matches are distributed among these distances:
  42    1  0.01
  43   83  0.98
  44    1  0.01

ACGTcount: A:0.26, C:0.14, G:0.27, T:0.32


Consensus pattern (42 bp):   
TTTAGCGGCGTTTGTAGAAAAGCGTCGCTAAAAGTCATGACC

Found at i:768 original size:21 final size:21

Alignment explanation


    Indices: 744--783  Score: 62
    Period size: 21  Copynumber: 1.9  Consensus size: 21

        734 AAGGAGAACC

                          *      
        744 GAAGCCATTTTCAATGTTGAA
          1 GAAGCCATTTTCAAAGTTGAA

                *              
        765 GAAGTCATTTTCAAAGTTG
          1 GAAGCCATTTTCAAAGTTG

        784 GCTTATCTTA


Statistics
Matches: 17,  Mismatches: 2, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  21   17  1.00

ACGTcount: A:0.33, C:0.12, G:0.20, T:0.35


Consensus pattern (21 bp):   
GAAGCCATTTTCAAAGTTGAA
Done.