Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga13g00892.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: 3784
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.35


Found at i:2398 original size:25 final size:25

Alignment explanation


    Indices: 2370--2444  Score: 87
    Period size: 25  Copynumber: 3.0  Consensus size: 25

       2360 TCCGCATCGT

                      *              
       2370 CGTTGGCAGCTCTATGCTACATCTC
          1 CGTTGGCAGCCCTATGCTACATCTC

                    *    *           
       2395 CGTTGGCATCCCTCTGCTACATCTC
          1 CGTTGGCAGCCCTATGCTACATCTC

               *    *    *      *    
       2420 CGTCGGCATCCCTCTGCTACTTCTC
          1 CGTTGGCAGCCCTATGCTACATCTC

       2445 TAGTTTTCTG


Statistics
Matches: 45,  Mismatches: 5, Indels: 0
        0.90            0.10        0.00

Matches are distributed among these distances:
  25   45  1.00

ACGTcount: A:0.12, C:0.39, G:0.17, T:0.32


Consensus pattern (25 bp):   
CGTTGGCAGCCCTATGCTACATCTC

Found at i:2852 original size:32 final size:31

Alignment explanation


    Indices: 2816--2883  Score: 91
    Period size: 31  Copynumber: 2.2  Consensus size: 31

       2806 GAATGAATGT

                     *     *                
       2816 TTTTGGCTGTATTTTTATGCTAAATTTGTTGA
          1 TTTTGGCTGCA-TTTCATGCTAAATTTGTTGA

                  *              *         
       2848 TTTTGGTTGCATTTCATGCTATATTTGTTGA
          1 TTTTGGCTGCATTTCATGCTAAATTTGTTGA

                 
       2879 TTTTG
          1 TTTTG

       2884 ATTGGATTTA


Statistics
Matches: 32,  Mismatches: 4, Indels: 1
        0.86            0.11        0.03

Matches are distributed among these distances:
  31   23  0.72
  32    9  0.28

ACGTcount: A:0.16, C:0.07, G:0.19, T:0.57


Consensus pattern (31 bp):   
TTTTGGCTGCATTTCATGCTAAATTTGTTGA

Found at i:2868 original size:31 final size:31

Alignment explanation


    Indices: 2832--2897  Score: 96
    Period size: 31  Copynumber: 2.1  Consensus size: 31

       2822 CTGTATTTTT

                                 *        *
       2832 ATGCTAAATTTGTTGATTTTGGTTGCATTTC
          1 ATGCTAAATTTGTTGATTTTGATTGCATTTA

                  *                  *     
       2863 ATGCTATATTTGTTGATTTTGATTGGATTTA
          1 ATGCTAAATTTGTTGATTTTGATTGCATTTA

                
       2894 ATGC
          1 ATGC

       2898 AAGAAGGGTT


Statistics
Matches: 31,  Mismatches: 4, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  31   31  1.00

ACGTcount: A:0.21, C:0.08, G:0.20, T:0.52


Consensus pattern (31 bp):   
ATGCTAAATTTGTTGATTTTGATTGCATTTA
Done.