Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Gorai.005G018100.6-JGI_221_v2.1

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: 3279
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28


Found at i:1937 original size:33 final size:33

Alignment explanation


    Indices: 1882--1957  Score: 82
    Period size: 33  Copynumber: 2.3  Consensus size: 33

       1872 CAGGCACAAT

                        **                    
       1882 CAAGTGCTAATATGTACAGCCAACC-GACACAGC
          1 CAAGTGCTAATACATACAGCCAACCTG-CACAGC

                       *     *               
       1915 CAAGTGCTAATCCATACGGCCAACCTGCACAGC
          1 CAAGTGCTAATACATACAGCCAACCTGCACAGC

             **       
       1948 CTGGTGCTAA
          1 CAAGTGCTAA

       1958 CGCATATGAC


Statistics
Matches: 36,  Mismatches: 6, Indels: 2
        0.82            0.14        0.05

Matches are distributed among these distances:
  33   35  0.97
  34    1  0.03

ACGTcount: A:0.32, C:0.32, G:0.20, T:0.17


Consensus pattern (33 bp):   
CAAGTGCTAATACATACAGCCAACCTGCACAGC

Found at i:2655 original size:6 final size:6

Alignment explanation


    Indices: 2644--2674  Score: 53
    Period size: 6  Copynumber: 5.2  Consensus size: 6

       2634 AGTATGGGTA

                                         *      
       2644 GCATGG GCATGG GCATGG GCATGG GAATGG G
          1 GCATGG GCATGG GCATGG GCATGG GCATGG G

       2675 TGGTGGACCT


Statistics
Matches: 24,  Mismatches: 1, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
   6   24  1.00

ACGTcount: A:0.19, C:0.13, G:0.52, T:0.16


Consensus pattern (6 bp):   
GCATGG

Done.