Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga12g01354.N3

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, 362

Length: 604
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.27


Found at i:63 original size:16 final size:14

Alignment explanation


    Indices: 23--86  Score: 60
    Period size: 14  Copynumber: 4.4  Consensus size: 14

         13 ATGAAATAAA

                  *       
         23 AGAAAGAAAGAAAC
          1 AGAAAGGAAGAAAC

                             
         37 AGAATAAGGAACGAAAC
          1 AG-A-AAGGAA-GAAAC

                           
         54 AGAGAAGGAAGAAA-
          1 AGA-AAGGAAGAAAC

                           
         68 AGAAAGGAGAGAAA-
          1 AGAAAGGA-AGAAAC

                 
         82 AGAAA
          1 AGAAA

         87 AAGGGAAAAT


Statistics
Matches: 44,  Mismatches: 2, Indels: 8
        0.81            0.04        0.15

Matches are distributed among these distances:
  13    5  0.11
  14   15  0.34
  15    5  0.11
  16   12  0.27
  17    7  0.16

ACGTcount: A:0.66, C:0.05, G:0.28, T:0.02


Consensus pattern (14 bp):   
AGAAAGGAAGAAAC
Done.