Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga08g01938.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: 5172
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32


Found at i:4932 original size:10 final size:10

Alignment explanation


    Indices: 4919--4952  Score: 52
    Period size: 10  Copynumber: 3.5  Consensus size: 10

       4909 CTTTTGTTGA

                      
       4919 CTTTTTTTTT
          1 CTTTTTTTTT

                 *    
       4929 CTTTTCTTTT
          1 CTTTTTTTTT

                      
       4939 CTTTTTTTTT
          1 CTTTTTTTTT

                 
       4949 -TTTT
          1 CTTTT

       4953 AATTTTTAAA


Statistics
Matches: 22,  Mismatches: 2, Indels: 1
        0.88            0.08        0.04

Matches are distributed among these distances:
   9    4  0.18
  10   18  0.82

ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88


Consensus pattern (10 bp):   
CTTTTTTTTT

Found at i:4958 original size:20 final size:20

Alignment explanation


    Indices: 4919--4958  Score: 55
    Period size: 20  Copynumber: 2.0  Consensus size: 20

       4909 CTTTTGTTGA

                           *    
       4919 CTTTTTTTTTCTTTTCTTTT
          1 CTTTTTTTTTCTTTTATTTT

                                 
       4939 CTTTTTTTTT-TTTTAATTTT
          1 CTTTTTTTTTCTTTT-ATTTT

       4959 TAAAAGTGTA


Statistics
Matches: 18,  Mismatches: 1, Indels: 2
        0.86            0.05        0.10

Matches are distributed among these distances:
  19    4  0.22
  20   14  0.78

ACGTcount: A:0.05, C:0.10, G:0.00, T:0.85


Consensus pattern (20 bp):   
CTTTTTTTTTCTTTTATTTT
Done.