Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga07g01639.N4

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: 2989
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33


Found at i:241 original size:43 final size:43

Alignment explanation


    Indices: 180--329  Score: 151
    Period size: 43  Copynumber: 3.5  Consensus size: 43

        170 TTTTTTACTT

                                              * *    * 
        180 TCATGACATTTAGCGGCGTTTGTTGAAAAAGCGTTGTTAAAGG
          1 TCATGACATTTAGCGGCGTTTGTTGAAAAAGCGTCGCTAAAAG

                   *                *       *           
        223 TCATGACTTTTAGCGGCGTTTG-TAAGAAAAGTGTCGCTAAAAG
          1 TCATGACATTTAGCGGCGTTTGTTGA-AAAAGCGTCGCTAAAAG

                   *               * *                  
        266 TCATGACCTTTAGCGGCGTTTGTGGGAAAAGCG-CTGCTAAAAG
          1 TCATGACATTTAGCGGCGTTTGTTGAAAAAGCGTC-GCTAAAAG

             *     *    *   *    
        309 TTATGACCTTTAACGGTGTTT
          1 TCATGACATTTAGCGGCGTTT

        330 TTTCAAATAA


Statistics
Matches: 90,  Mismatches: 14, Indels: 6
        0.82            0.13        0.05

Matches are distributed among these distances:
  42    3  0.03
  43   87  0.97

ACGTcount: A:0.27, C:0.15, G:0.27, T:0.32


Consensus pattern (43 bp):   
TCATGACATTTAGCGGCGTTTGTTGAAAAAGCGTCGCTAAAAG

Found at i:952 original size:21 final size:21

Alignment explanation


    Indices: 928--967  Score: 62
    Period size: 21  Copynumber: 1.9  Consensus size: 21

        918 AAGGAGAACC

                          *      
        928 GAAGCCATTTTCAATGTTGAA
          1 GAAGCCATTTTCAAAGTTGAA

                *              
        949 GAAGTCATTTTCAAAGTTG
          1 GAAGCCATTTTCAAAGTTG

        968 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.