Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga12g00100.N77

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: 1906
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.39


Found at i:1618 original size:41 final size:41

Alignment explanation


    Indices: 1561--1639  Score: 149
    Period size: 41  Copynumber: 1.9  Consensus size: 41

       1551 TTTTCTTGCA

                                *                    
       1561 GCTAAGGGCATTATGTTACTTACTTTCCTCTGCGTCAAACC
          1 GCTAAGGGCATTATGTTACTCACTTTCCTCTGCGTCAAACC

                                                  
       1602 GCTAAGGGCATTATGTTACTCACTTTCCTCTGCGTCAA
          1 GCTAAGGGCATTATGTTACTCACTTTCCTCTGCGTCAA

       1640 GCCGGTATAT


Statistics
Matches: 37,  Mismatches: 1, Indels: 0
        0.97            0.03        0.00

Matches are distributed among these distances:
  41   37  1.00

ACGTcount: A:0.22, C:0.27, G:0.18, T:0.34


Consensus pattern (41 bp):   
GCTAAGGGCATTATGTTACTCACTTTCCTCTGCGTCAAACC

Found at i:1662 original size:41 final size:41

Alignment explanation


    Indices: 1569--1662  Score: 100
    Period size: 41  Copynumber: 2.3  Consensus size: 41

       1559 CAGCTAAGGG

                  *     *                          **
       1569 CATTATGTTACTTACTTTCCTCTGCGTCAAACCGCTAAGGG
          1 CATTATATTACTCACTTTCCTCTGCGTCAAACCGCTAAGAA

                  *                       *   *    *  
       1610 CATTATGTTACTCACTTTCCTCTGCGTCAAGCCGGTATATAA
          1 CATTATATTACTCACTTTCCTCTGCGTCAAACCGCTA-AGAA

                        
       1652 CATT-TATTACT
          1 CATTATATTACT

       1663 AAAACTAATT


Statistics
Matches: 45,  Mismatches: 7, Indels: 2
        0.83            0.13        0.04

Matches are distributed among these distances:
  41   40  0.89
  42    5  0.11

ACGTcount: A:0.23, C:0.26, G:0.14, T:0.37


Consensus pattern (41 bp):   
CATTATATTACTCACTTTCCTCTGCGTCAAACCGCTAAGAA
Done.