Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold_347 ID=scaffold_347-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: 8011
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.33


Found at i:7428 original size:28 final size:29

Alignment explanation


    Indices: 7371--7428  Score: 66
    Period size: 28  Copynumber: 2.0  Consensus size: 29

       7361 TGAAATAATC

                         *    *      *   
       7371 ATAGAAAAATTAAGTAAATAAAGATTTAA
          1 ATAGAAAAATTAAATAAACAAAGATGTAA

                                          
       7400 ATAGAAAAA-TAAATAAACCAAA-ATGTAA
          1 ATAGAAAAATTAAATAAA-CAAAGATGTAA

             
       7428 A
          1 A

       7429 AACAAATTCA


Statistics
Matches: 25,  Mismatches: 3, Indels: 3
        0.81            0.10        0.10

Matches are distributed among these distances:
  28   13  0.52
  29   12  0.48

ACGTcount: A:0.66, C:0.03, G:0.09, T:0.22


Consensus pattern (29 bp):   
ATAGAAAAATTAAATAAACAAAGATGTAA
Done.