Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_25829

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: 2390
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.26


Found at i:301 original size:17 final size:16

Alignment explanation


    Indices: 275--309  Score: 52
    Period size: 17  Copynumber: 2.1  Consensus size: 16

        265 TTGGGGAAAG

                         *  
        275 AGGAGGGGAGGAGTAA
          1 AGGAGGGGAGGAGGAA

                             
        291 AGGAGGGGGAGGAGGAA
          1 AGGA-GGGGAGGAGGAA

              
        308 AG
          1 AG

        310 AGAAGGTGGG


Statistics
Matches: 17,  Mismatches: 1, Indels: 1
        0.89            0.05        0.05

Matches are distributed among these distances:
  16    4  0.24
  17   13  0.76

ACGTcount: A:0.37, C:0.00, G:0.60, T:0.03


Consensus pattern (16 bp):   
AGGAGGGGAGGAGGAA
Done.