Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold_605 ID=scaffold_605-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: 5837
ACGTcount: A:0.26, C:0.15, G:0.16, T:0.34

Warning! 516 characters in sequence are not A, C, G, or T


Found at i:929 original size:19 final size:19

Alignment explanation


    Indices: 892--943  Score: 56
    Period size: 19  Copynumber: 2.8  Consensus size: 19

        882 TATTAAAATA

                *               
        892 TTTATTAATTTTT-TGATTT
          1 TTTAATAATTTTTAT-ATTT

                               
        911 TTTAATAATTTTTATATTT
          1 TTTAATAATTTTTATATTT

             *              
        930 TGT-A-AATTTTTATA
          1 TTTAATAATTTTTATA

        944 AAGCACATGT


Statistics
Matches: 30,  Mismatches: 2, Indels: 4
        0.83            0.06        0.11

Matches are distributed among these distances:
  17   10  0.33
  18    1  0.03
  19   18  0.60
  20    1  0.03

ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67


Consensus pattern (19 bp):   
TTTAATAATTTTTATATTT

Found at i:3019 original size:33 final size:33

Alignment explanation


    Indices: 2982--3049  Score: 109
    Period size: 33  Copynumber: 2.1  Consensus size: 33

       2972 TTTCTTTTCT

                  *         *                
       2982 TTTCTGTCGATTTGCTGCCTCTGTTTCTCACAG
          1 TTTCTGCCGATTTGCTCCCTCTGTTTCTCACAG

                                          *  
       3015 TTTCTGCCGATTTGCTCCCTCTGTTTCTCATAG
          1 TTTCTGCCGATTTGCTCCCTCTGTTTCTCACAG

              
       3048 TT
          1 TT

       3050 CTCCACACGC


Statistics
Matches: 32,  Mismatches: 3, Indels: 0
        0.91            0.09        0.00

Matches are distributed among these distances:
  33   32  1.00

ACGTcount: A:0.09, C:0.28, G:0.16, T:0.47


Consensus pattern (33 bp):   
TTTCTGCCGATTTGCTCCCTCTGTTTCTCACAG
Done.