Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga13g01349.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: 4108
ACGTcount: A:0.32, C:0.12, G:0.20, T:0.35


Found at i:1028 original size:69 final size:69

Alignment explanation


    Indices: 947--1139  Score: 208
    Period size: 71  Copynumber: 2.8  Consensus size: 69

        937 AATTGATGAG

                   *          *             *                   *          * 
        947 TTGTTATATTAAAAATGTCTTCATTTACGTTCGA-TTTAAATGCTTAATGTGTTGCTGTAAAGTG
          1 TTGTTATCTTAAAAATGTGTTCATTTACGTT-AATTTTAAATGCTTAATGTGCTGCTGTAAAGGG

                 
       1011 CTAAT
         65 CTAAT

                                     * *  *         *                        
       1016 TTGTTATCTTAAAAAAATGTGTTCACTCACATTAATTTTAGATGCTTAATGTGCTGCTGTAAAGG
          1 TTGTTATCTT--AAAAATGTGTTCATTTACGTTAATTTTAAATGCTTAATGTGCTGCTGTAAAGG

               *  
       1081 GCTGAT
         64 GCTAAT

                 *    *                   **      *       *      
       1087 TTGTTGTCTTGAAAATGTGTTCATTTACGTCCATTTTATATGCTTAGTGTGCT
          1 TTGTTATCTTAAAAATGTGTTCATTTACGTTAATTTTAAATGCTTAATGTGCT

       1140 TTCCAGAAAT


Statistics
Matches: 102,  Mismatches: 19, Indels: 6
        0.80            0.15        0.05

Matches are distributed among these distances:
  69   44  0.43
  70    1  0.01
  71   57  0.56

ACGTcount: A:0.26, C:0.12, G:0.18, T:0.44


Consensus pattern (69 bp):   
TTGTTATCTTAAAAATGTGTTCATTTACGTTAATTTTAAATGCTTAATGTGCTGCTGTAAAGGGC
TAAT

Found at i:2204 original size:67 final size:68

Alignment explanation


    Indices: 2063--2214  Score: 195
    Period size: 67  Copynumber: 2.2  Consensus size: 68

       2053 CATCATGTGT

                                                      *       *   * *        
       2063 ACAAGAGAGCTACGAGACATTATGATGTAGCTAGGTCGCATGGGAGATACTATGTGTACACCATG
          1 ACAAGAGAGCTACGAGACATTATGATGTAGCTAGGTCGCATGCGAGATACCATGAGGACACCATG

               
       2128 TAG
         66 TAG

                                                        *   *                
       2131 ACAAGAGAGCTACGA-A-A-TAT-ATGTAGCTAGGTCGCATGCGTGATTCCAGGTGAAGGACACC
          1 ACAAGAGAGCTACGAGACATTATGATGTAGCTAGGTCGCATGCGAGATACCA--TG-AGGACACC

                  
       2192 ATGTAG
         63 ATGTAG

                             
       2198 ACAAGAGAGCTACGAGA
          1 ACAAGAGAGCTACGAGA

       2215 TAAACTGGCT


Statistics
Matches: 74,  Mismatches: 6, Indels: 8
        0.84            0.07        0.09

Matches are distributed among these distances:
  64   24  0.32
  65    3  0.04
  66    3  0.04
  67   28  0.38
  68   16  0.22

ACGTcount: A:0.34, C:0.17, G:0.28, T:0.20


Consensus pattern (68 bp):   
ACAAGAGAGCTACGAGACATTATGATGTAGCTAGGTCGCATGCGAGATACCATGAGGACACCATG
TAG
Done.