Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold_706 ID=scaffold_706-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: 4565
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.32

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


Found at i:108 original size:28 final size:31

Alignment explanation


    Indices: 76--134  Score: 79
    Period size: 28  Copynumber: 2.0  Consensus size: 31

         66 TGTTTTGTTT

                                           
         76 TTATTATAATAA-CATTAT-AAT-ATATAAA
          1 TTATTATAATAACCATTATAAATAATATAAA

                   *      *                
        104 TTATTATTATAACCTTTATAAATAATATAAA
          1 TTATTATAATAACCATTATAAATAATATAAA

        135 AACTATATAT


Statistics
Matches: 26,  Mismatches: 2, Indels: 3
        0.84            0.06        0.10

Matches are distributed among these distances:
  28   11  0.42
  29    5  0.19
  30    3  0.12
  31    7  0.27

ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44


Consensus pattern (31 bp):   
TTATTATAATAACCATTATAAATAATATAAA

Found at i:3414 original size:14 final size:15

Alignment explanation


    Indices: 3395--3428  Score: 52
    Period size: 14  Copynumber: 2.3  Consensus size: 15

       3385 TCATACAGCA

                           
       3395 TCATAACTCAAATG-
          1 TCATAACTCAAATGC

                      *    
       3409 TCATAACTCATATGC
          1 TCATAACTCAAATGC

                 
       3424 TCATA
          1 TCATA

       3429 TAATCATAAC


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

Matches are distributed among these distances:
  14   13  0.72
  15    5  0.28

ACGTcount: A:0.38, C:0.24, G:0.06, T:0.32


Consensus pattern (15 bp):   
TCATAACTCAAATGC
Done.