Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold_482 ID=scaffold_482-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: 6637
ACGTcount: A:0.32, C:0.22, G:0.13, T:0.32

Warning! 100 characters in sequence are not A, C, G, or T


Found at i:4865 original size:20 final size:21

Alignment explanation


    Indices: 4826--4865  Score: 64
    Period size: 21  Copynumber: 2.0  Consensus size: 21

       4816 AAATTATGAC

                         *       
       4826 TATAATTATTTCTGTAAAATT
          1 TATAATTATTTCTCTAAAATT

                                
       4847 TATAATTATTT-TCTAAAAT
          1 TATAATTATTTCTCTAAAAT

       4866 CAGAACAGGC


Statistics
Matches: 18,  Mismatches: 1, Indels: 1
        0.90            0.05        0.05

Matches are distributed among these distances:
  20    7  0.39
  21   11  0.61

ACGTcount: A:0.40, C:0.05, G:0.03, T:0.53


Consensus pattern (21 bp):   
TATAATTATTTCTCTAAAATT

Found at i:5654 original size:23 final size:23

Alignment explanation


    Indices: 5629--5719  Score: 155
    Period size: 23  Copynumber: 4.0  Consensus size: 23

       5619 CCACATTGAT

                                 **
       5629 ATGTAGCCGAAGCTACCACTGTT
          1 ATGTAGCCGAAGCTACCACTGAA

                                   
       5652 ATGTAGCCGAAGCTACCACTGAA
          1 ATGTAGCCGAAGCTACCACTGAA

                                   
       5675 ATGTAGCCGAAGCTACCACTGAA
          1 ATGTAGCCGAAGCTACCACTGAA

                  *               
       5698 ATGTAGTCGAAGCTACCACTGA
          1 ATGTAGCCGAAGCTACCACTGA

       5720 TCAATAACAC


Statistics
Matches: 65,  Mismatches: 3, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  23   65  1.00

ACGTcount: A:0.32, C:0.25, G:0.22, T:0.21


Consensus pattern (23 bp):   
ATGTAGCCGAAGCTACCACTGAA

Done.