Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold_513 ID=scaffold_513-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: 7074
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.27

Warning! 813 characters in sequence are not A, C, G, or T


Found at i:5085 original size:3 final size:3

Alignment explanation


    Indices: 5077--5131  Score: 110
    Period size: 3  Copynumber: 18.3  Consensus size: 3

       5067 GGGAAAAATA

                                                                           
       5077 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
          1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT

                     
       5125 AAT AAT A
          1 AAT AAT A

       5132 GGAAAAGAAG


Statistics
Matches: 52,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   3   52  1.00

ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33


Consensus pattern (3 bp):   
AAT

Found at i:5233 original size:22 final size:23

Alignment explanation


    Indices: 5182--5233  Score: 72
    Period size: 22  Copynumber: 2.3  Consensus size: 23

       5172 TTTTGTGGTT

                                   
       5182 TTTTTTTGCGTTTTTGCTTTCTA
          1 TTTTTTTGCGTTTTTGCTTTCTA

                           *        
       5205 TTTTTTT-C-TTTTTTCTTTGCTA
          1 TTTTTTTGCGTTTTTGCTTT-CTA

                   
       5227 TTTTTTT
          1 TTTTTTT

       5234 AAAGAATAAG


Statistics
Matches: 27,  Mismatches: 1, Indels: 3
        0.87            0.03        0.10

Matches are distributed among these distances:
  21    9  0.33
  22   11  0.41
  23    7  0.26

ACGTcount: A:0.04, C:0.12, G:0.08, T:0.77


Consensus pattern (23 bp):   
TTTTTTTGCGTTTTTGCTTTCTA
Done.