Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga05g01751.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: 2104
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.26


Found at i:1660 original size:18 final size:18

Alignment explanation


    Indices: 1637--1671  Score: 52
    Period size: 18  Copynumber: 1.9  Consensus size: 18

       1627 AAAAAGCTAA

                  *   *       
       1637 AGAAAACAAAGGAAAAGG
          1 AGAAAAAAAAAGAAAAGG

                             
       1655 AGAAAAAAAAAGAAAAG
          1 AGAAAAAAAAAGAAAAG

       1672 AAAAAGGAAG


Statistics
Matches: 15,  Mismatches: 2, Indels: 0
        0.88            0.12        0.00

Matches are distributed among these distances:
  18   15  1.00

ACGTcount: A:0.74, C:0.03, G:0.23, T:0.00


Consensus pattern (18 bp):   
AGAAAAAAAAAGAAAAGG

Found at i:1726 original size:27 final size:29

Alignment explanation


    Indices: 1696--1753  Score: 75
    Period size: 29  Copynumber: 2.1  Consensus size: 29

       1686 GATTCGAAGG

                                         
       1696 TGGAAAG-T-ACAGAGACGAAGGGTGTGC
          1 TGGAAAGCTGACAGAGACGAAGGGTGTGC

                **    *                  
       1723 TGGAGTGCTGGCAGAGACGAAGGGTGTGC
          1 TGGAAAGCTGACAGAGACGAAGGGTGTGC

              
       1752 TG
          1 TG

       1754 AAGTGCTCGG


Statistics
Matches: 26,  Mismatches: 3, Indels: 2
        0.84            0.10        0.06

Matches are distributed among these distances:
  27    5  0.19
  28    1  0.04
  29   20  0.77

ACGTcount: A:0.26, C:0.12, G:0.45, T:0.17


Consensus pattern (29 bp):   
TGGAAAGCTGACAGAGACGAAGGGTGTGC

Found at i:1738 original size:29 final size:29

Alignment explanation


    Indices: 1705--1760  Score: 103
    Period size: 29  Copynumber: 1.9  Consensus size: 29

       1695 GTGGAAAGTA

                                *        
       1705 CAGAGACGAAGGGTGTGCTGGAGTGCTGG
          1 CAGAGACGAAGGGTGTGCTGAAGTGCTGG

                                       
       1734 CAGAGACGAAGGGTGTGCTGAAGTGCT
          1 CAGAGACGAAGGGTGTGCTGAAGTGCT

       1761 CGGCCAAGGG


Statistics
Matches: 26,  Mismatches: 1, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  29   26  1.00

ACGTcount: A:0.23, C:0.14, G:0.45, T:0.18


Consensus pattern (29 bp):   
CAGAGACGAAGGGTGTGCTGAAGTGCTGG
Done.