Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold_972 ID=scaffold_972-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: 2917
ACGTcount: A:0.19, C:0.09, G:0.11, T:0.23

Warning! 1121 characters in sequence are not A, C, G, or T


Found at i:2793 original size:42 final size:42

Alignment explanation


    Indices: 2714--2878  Score: 233
    Period size: 42  Copynumber: 3.9  Consensus size: 42

       2704 TTTTCCATGA

                               *                        
       2714 TCTTTAGCGGCGTTTTTGAAAAAAGCG-CTGCTAAAGGTCTTGT
          1 TCTTTAGCGGCGTTTTTG-GAAAAGCGTC-GCTAAAGGTCTTGT

                     *                              * 
       2757 TCTTTAGCGACGTTTTTGGAAAAGCGTCGCTAAAGGTCTTAT
          1 TCTTTAGCGGCGTTTTTGGAAAAGCGTCGCTAAAGGTCTTGT

                *        *     *      *               
       2799 TCTTCAGCGGCGTCTTTGGGAAAGCGCCGCTAAAGGTCTTGT
          1 TCTTTAGCGGCGTTTTTGGAAAAGCGTCGCTAAAGGTCTTGT

                               *                  
       2841 TCTTTAGCGGCGTTTTTGGGAAAGCGTCGCTAAAGGTC
          1 TCTTTAGCGGCGTTTTTGGAAAAGCGTCGCTAAAGGTC

       2879 ACGACCGGTT


Statistics
Matches: 109,  Mismatches: 12, Indels: 3
        0.88            0.10        0.02

Matches are distributed among these distances:
  42   91  0.83
  43   18  0.17

ACGTcount: A:0.21, C:0.19, G:0.28, T:0.33


Consensus pattern (42 bp):   
TCTTTAGCGGCGTTTTTGGAAAAGCGTCGCTAAAGGTCTTGT
Done.