Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold_690 ID=scaffold_690-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: 4603
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.32


Found at i:343 original size:6 final size:6

Alignment explanation


    Indices: 332--366  Score: 52
    Period size: 6  Copynumber: 5.7  Consensus size: 6

        322 CATATTTAAC

                                         *          
        332 GTATAT GTATAT GTATAT GTATAAT ATATAT GTAT
          1 GTATAT GTATAT GTATAT GTAT-AT GTATAT GTAT

        367 TGATTTTGAT


Statistics
Matches: 26,  Mismatches: 2, Indels: 2
        0.87            0.07        0.07

Matches are distributed among these distances:
   6   21  0.81
   7    5  0.19

ACGTcount: A:0.37, C:0.00, G:0.14, T:0.49


Consensus pattern (6 bp):   
GTATAT

Found at i:4464 original size:28 final size:28

Alignment explanation


    Indices: 4416--4469  Score: 83
    Period size: 28  Copynumber: 1.9  Consensus size: 28

       4406 ATATTATTAA

                                        
       4416 TATAATATATATATATATTATAATAAGG
          1 TATAATATATATATATATTATAATAAGG

                             *         
       4444 TATAATATAT-TATTATGTTATAATAA
          1 TATAATATATATA-TATATTATAATAA

       4470 ACATTAAAAA


Statistics
Matches: 24,  Mismatches: 1, Indels: 2
        0.89            0.04        0.07

Matches are distributed among these distances:
  27    2  0.08
  28   22  0.92

ACGTcount: A:0.48, C:0.00, G:0.06, T:0.46


Consensus pattern (28 bp):   
TATAATATATATATATATTATAATAAGG
Done.