Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold_683 ID=scaffold_683-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: 4848
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.30

Warning! 200 characters in sequence are not A, C, G, or T


Found at i:1300 original size:49 final size:49

Alignment explanation


    Indices: 1247--1352  Score: 203
    Period size: 49  Copynumber: 2.2  Consensus size: 49

       1237 TCTAAAAACT

                                                             
       1247 AAGGTTTTTCGCAAATAGAAACGATTTTCCCTAAATTAATTGGTTACAA
          1 AAGGTTTTTCGCAAATAGAAACGATTTTCCCTAAATTAATTGGTTACAA

                                                             
       1296 AAGGTTTTTCGCAAATAGAAACGATTTTCCCTAAATTAATTGGTTACAA
          1 AAGGTTTTTCGCAAATAGAAACGATTTTCCCTAAATTAATTGGTTACAA

               *    
       1345 AAGCTTTT
          1 AAGGTTTT

       1353 ACTAAGAGAC


Statistics
Matches: 56,  Mismatches: 1, Indels: 0
        0.98            0.02        0.00

Matches are distributed among these distances:
  49   56  1.00

ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36


Consensus pattern (49 bp):   
AAGGTTTTTCGCAAATAGAAACGATTTTCCCTAAATTAATTGGTTACAA
Done.