Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga11g00597.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: 3038
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34


Found at i:55 original size:25 final size:25

Alignment explanation


    Indices: 1--75  Score: 104
    Period size: 25  Copynumber: 3.2  Consensus size: 25

                             *       
          1 TCGCTCCCTCTTCTTCTTATCT---
          1 TCGCTCCCTCTTCTTCTCATCTCCA

              *                      
         23 T-ACTCCCTCTTCTTCTCATCTCCA
          1 TCGCTCCCTCTTCTTCTCATCTCCA

                                     
         47 TCGCTCCCTCTTCTTCTCATCTCCA
          1 TCGCTCCCTCTTCTTCTCATCTCCA

                
         72 TCGC
          1 TCGC

         76 GCGCCCTAAA


Statistics
Matches: 46,  Mismatches: 3, Indels: 5
        0.85            0.06        0.09

Matches are distributed among these distances:
  21   18  0.39
  22    1  0.02
  24    1  0.02
  25   26  0.57

ACGTcount: A:0.08, C:0.45, G:0.04, T:0.43


Consensus pattern (25 bp):   
TCGCTCCCTCTTCTTCTCATCTCCA

Found at i:2493 original size:15 final size:16

Alignment explanation


    Indices: 2473--2505  Score: 59
    Period size: 15  Copynumber: 2.1  Consensus size: 16

       2463 TATTATTTTT

                            
       2473 AATATATATGAT-TAA
          1 AATATATATGATCTAA

                            
       2488 AATATATATGATCTAA
          1 AATATATATGATCTAA

              
       2504 AA
          1 AA

       2506 GCAAGAGAGA


Statistics
Matches: 17,  Mismatches: 0, Indels: 1
        0.94            0.00        0.06

Matches are distributed among these distances:
  15   12  0.71
  16    5  0.29

ACGTcount: A:0.55, C:0.03, G:0.06, T:0.36


Consensus pattern (16 bp):   
AATATATATGATCTAA
Done.