Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold_400 ID=scaffold_400-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: 7474
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.36


Found at i:5007 original size:123 final size:123

Alignment explanation


    Indices: 4875--5120  Score: 483
    Period size: 123  Copynumber: 2.0  Consensus size: 123

       4865 GCAACAATTC

                                                                             
       4875 TAACTTTCTAAACTATTGATGTTTTTAACAAAGCTAAAATGATCTTAAAATTTTAAGACATAATT
          1 TAACTTTCTAAACTATTGATGTTTTTAACAAAGCTAAAATGATCTTAAAATTTTAAGACATAATT

                          *                                           
       4940 TGAGACAGTGAAATCTTGAAGGCCAAAGTTTAAGTCACATTATGAATAAATTAAATGT
         66 TGAGACAGTGAAATATTGAAGGCCAAAGTTTAAGTCACATTATGAATAAATTAAATGT

                                                                             
       4998 TAACTTTCTAAACTATTGATGTTTTTAACAAAGCTAAAATGATCTTAAAATTTTAAGACATAATT
          1 TAACTTTCTAAACTATTGATGTTTTTAACAAAGCTAAAATGATCTTAAAATTTTAAGACATAATT

                                                                      
       5063 TGAGACAGTGAAATATTGAAGGCCAAAGTTTAAGTCACATTATGAATAAATTAAATGT
         66 TGAGACAGTGAAATATTGAAGGCCAAAGTTTAAGTCACATTATGAATAAATTAAATGT

       5121 ATGCCATACT


Statistics
Matches: 122,  Mismatches: 1, Indels: 0
        0.99            0.01        0.00

Matches are distributed among these distances:
 123  122  1.00

ACGTcount: A:0.42, C:0.10, G:0.13, T:0.35


Consensus pattern (123 bp):   
TAACTTTCTAAACTATTGATGTTTTTAACAAAGCTAAAATGATCTTAAAATTTTAAGACATAATT
TGAGACAGTGAAATATTGAAGGCCAAAGTTTAAGTCACATTATGAATAAATTAAATGT
Done.