Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga14g01083.F1

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: 4706
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.34


Found at i:90 original size:44 final size:44

Alignment explanation


    Indices: 1--139  Score: 140
    Period size: 46  Copynumber: 3.1  Consensus size: 44

                  *                    *     *             
          1 ACATGCATCGGCCT-CGAGATGATAGCCAGTGTCAGACATGTCTGGG
          1 ACATGCGTCGG-CTACGAGATG-T-GCTAGTGTAAGACATGTCTGGG

                                                        
         47 ACATGCGTCGGCTACGAGATGTGCTAGTGTAAGACATGTCTGGG
          1 ACATGCGTCGGCTACGAGATGTGCTAGTGTAAGACATGTCTGGG

                     *          *                  *        
         91 ACATGCGTCAGC-ACGGTTACATGTG-TCAGTGTAAGACCTGTCTGGG
          1 ACATGCGTCGGCTAC-G--AGATGTGCT-AGTGTAAGACATGTCTGGG

               
        137 ACA
          1 ACA

        140 CGGCATCGAC


Statistics
Matches: 82,  Mismatches: 6, Indels: 10
        0.84            0.06        0.10

Matches are distributed among these distances:
  43    2  0.02
  44   32  0.39
  45    4  0.05
  46   44  0.54

ACGTcount: A:0.24, C:0.22, G:0.31, T:0.24


Consensus pattern (44 bp):   
ACATGCGTCGGCTACGAGATGTGCTAGTGTAAGACATGTCTGGG

Found at i:133 original size:46 final size:43

Alignment explanation


    Indices: 27--139  Score: 138
    Period size: 44  Copynumber: 2.5  Consensus size: 43

         17 AGATGATAGC

                  *                      *       *     
         27 CAGTGTCAGACATGTCTGGGACATGCGTCGGCTACGAGATGTG
          1 CAGTGTAAGACATGTCTGGGACATGCGTCAGCTACGACATGTG

                                                           
         70 CTAGTGTAAGACATGTCTGGGACATGCGTCAGC-ACGGTTACATGTG
          1 C-AGTGTAAGACATGTCTGGGACATGCGTCAGCTAC-G--ACATGTG

                        *           
        116 TCAGTGTAAGACCTGTCTGGGACA
          1 -CAGTGTAAGACATGTCTGGGACA

        140 CGGCATCGAC


Statistics
Matches: 61,  Mismatches: 4, Indels: 7
        0.85            0.06        0.10

Matches are distributed among these distances:
  43    3  0.05
  44   30  0.49
  46   27  0.44
  47    1  0.02

ACGTcount: A:0.23, C:0.20, G:0.32, T:0.25


Consensus pattern (43 bp):   
CAGTGTAAGACATGTCTGGGACATGCGTCAGCTACGACATGTG
Done.