Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold_240 ID=scaffold_240-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: 9521
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.30

Warning! 458 characters in sequence are not A, C, G, or T


Found at i:1475 original size:6 final size:6

Alignment explanation


    Indices: 1466--1493  Score: 56
    Period size: 6  Copynumber: 4.7  Consensus size: 6

       1456 CCAAATTCGT

                                            
       1466 ACCAAA ACCAAA ACCAAA ACCAAA ACCA
          1 ACCAAA ACCAAA ACCAAA ACCAAA ACCA

       1494 TTTCCTAATT


Statistics
Matches: 22,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   6   22  1.00

ACGTcount: A:0.64, C:0.36, G:0.00, T:0.00


Consensus pattern (6 bp):   
ACCAAA

Found at i:8192 original size:24 final size:24

Alignment explanation


    Indices: 8158--8219  Score: 88
    Period size: 24  Copynumber: 2.6  Consensus size: 24

       8148 CCTTTTTGAG

                        *          *
       8158 CCATTTCGTACCGAAAATCCCATT
          1 CCATTTCGTACCAAAAATCCCATA

                  *             *   
       8182 CCATTTTGTACCAAAAATCCGATA
          1 CCATTTCGTACCAAAAATCCCATA

                          
       8206 CCATTTCGTACCAA
          1 CCATTTCGTACCAA

       8220 TACCCAATTC


Statistics
Matches: 33,  Mismatches: 5, Indels: 0
        0.87            0.13        0.00

Matches are distributed among these distances:
  24   33  1.00

ACGTcount: A:0.32, C:0.31, G:0.08, T:0.29


Consensus pattern (24 bp):   
CCATTTCGTACCAAAAATCCCATA
Done.