Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga01g00097.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, 699

Length: 1165
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35


Found at i:542 original size:22 final size:22

Alignment explanation


    Indices: 516--566  Score: 61
    Period size: 22  Copynumber: 2.3  Consensus size: 22

        506 GTTTTAAATG

                                   
        516 ATTTTAGAACAC-AGCTTGTGAA
          1 ATTTTAG-ACACGAGCTTGTGAA

                                   
        538 ATTTT-GACACGTAGCTTGTGAA
          1 ATTTTAGACACG-AGCTTGTGAA

              *    
        560 ATCTTAG
          1 ATTTTAG

        567 TCATTCATAG


Statistics
Matches: 25,  Mismatches: 1, Indels: 5
        0.81            0.03        0.16

Matches are distributed among these distances:
  20    4  0.16
  21    1  0.04
  22   19  0.76
  23    1  0.04

ACGTcount: A:0.31, C:0.14, G:0.20, T:0.35


Consensus pattern (22 bp):   
ATTTTAGACACGAGCTTGTGAA

Found at i:696 original size:31 final size:28

Alignment explanation


    Indices: 644--705  Score: 72
    Period size: 31  Copynumber: 2.1  Consensus size: 28

        634 AAATTGGTCG

                                         
        644 TTAAATTTTAAAATATTTAATTACA-TCC
          1 TTAAATTTTAAAATATTTAATTA-AGTCC

                          *                
        672 TTAAACTTTTAAGATTATGTTAATTAAGTCC
          1 TTAAA-TTTTAA-AATAT-TTAATTAAGTCC

               
        703 TTA
          1 TTA

        706 TGATACTAAA


Statistics
Matches: 29,  Mismatches: 1, Indels: 5
        0.83            0.03        0.14

Matches are distributed among these distances:
  28    5  0.17
  29    6  0.21
  30    5  0.17
  31   13  0.45

ACGTcount: A:0.39, C:0.10, G:0.05, T:0.47


Consensus pattern (28 bp):   
TTAAATTTTAAAATATTTAATTAAGTCC
Done.