Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold_727 ID=scaffold_727-JGI_221_v2.0

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: 4227
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.30


Found at i:309 original size:1 final size:1

Alignment explanation


    Indices: 305--334  Score: 60
    Period size: 1  Copynumber: 30.0  Consensus size: 1

        295 ATGACGACCC

                                          
        305 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
          1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA

        335 GACGGGTGGC


Statistics
Matches: 29,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   1   29  1.00

ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00


Consensus pattern (1 bp):   
A

Found at i:1166 original size:28 final size:28

Alignment explanation


    Indices: 1126--1179  Score: 90
    Period size: 28  Copynumber: 1.9  Consensus size: 28

       1116 AATATTTAAT

                 *                      
       1126 TAATACGAAGAAGATAGATTAATTGAAA
          1 TAATAAGAAGAAGATAGATTAATTGAAA

                    *                 
       1154 TAATAAGATGAAGATAGATTAATTGA
          1 TAATAAGAAGAAGATAGATTAATTGA

       1180 TGCGTGTTTC


Statistics
Matches: 24,  Mismatches: 2, Indels: 0
        0.92            0.08        0.00

Matches are distributed among these distances:
  28   24  1.00

ACGTcount: A:0.52, C:0.02, G:0.19, T:0.28


Consensus pattern (28 bp):   
TAATAAGAAGAAGATAGATTAATTGAAA
Done.