Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga05g01842.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: 1724
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.27


Found at i:1407 original size:15 final size:15

Alignment explanation


    Indices: 1389--1445  Score: 55
    Period size: 15  Copynumber: 3.9  Consensus size: 15

       1379 GGAAAACAAG

                           
       1389 GAAGAAGAGAAGAAA
          1 GAAGAAGAGAAGAAA

                *          
       1404 GAAGCAGAGAAGAAA
          1 GAAGAAGAGAAGAAA

            *    *    *  * 
       1419 CAAGATGA-AGGAGA
          1 GAAGAAGAGAAGAAA

                          
       1433 GAAGAA-AGAAGAA
          1 GAAGAAGAGAAGAA

       1446 GATCAAGGCA


Statistics
Matches: 31,  Mismatches: 10, Indels: 3
        0.70            0.23        0.07

Matches are distributed among these distances:
  13    1  0.03
  14   11  0.35
  15   19  0.61

ACGTcount: A:0.61, C:0.04, G:0.33, T:0.02


Consensus pattern (15 bp):   
GAAGAAGAGAAGAAA

Found at i:1433 original size:21 final size:21

Alignment explanation


    Indices: 1404--1444  Score: 64
    Period size: 21  Copynumber: 2.0  Consensus size: 21

       1394 AGAGAAGAAA

                                 
       1404 GAAGCAGAGAAGAAACAAGAT
          1 GAAGCAGAGAAGAAACAAGAT

                *          *    
       1425 GAAGGAGAGAAGAAAGAAGA
          1 GAAGCAGAGAAGAAACAAGA

       1445 AGATCAAGGC


Statistics
Matches: 18,  Mismatches: 2, Indels: 0
        0.90            0.10        0.00

Matches are distributed among these distances:
  21   18  1.00

ACGTcount: A:0.59, C:0.05, G:0.34, T:0.02


Consensus pattern (21 bp):   
GAAGCAGAGAAGAAACAAGAT
Done.