Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold_682 ID=scaffold_682-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: 4653
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.32


Found at i:43 original size:4 final size:4

Alignment explanation


    Indices: 29--69  Score: 66
    Period size: 4  Copynumber: 10.2  Consensus size: 4

         19 CGTAACCGTA

                                                                
         29 ACGT AACGT ACGT ACGT ACGT ACGT ACGT ACGT -CGT ACGT A
          1 ACGT -ACGT ACGT ACGT ACGT ACGT ACGT ACGT ACGT ACGT A

         70 TATTTTTTCG


Statistics
Matches: 35,  Mismatches: 0, Indels: 3
        0.92            0.00        0.08

Matches are distributed among these distances:
   3    3  0.09
   4   28  0.80
   5    4  0.11

ACGTcount: A:0.27, C:0.24, G:0.24, T:0.24


Consensus pattern (4 bp):   
ACGT

Found at i:1166 original size:37 final size:37

Alignment explanation


    Indices: 1125--1198  Score: 139
    Period size: 37  Copynumber: 2.0  Consensus size: 37

       1115 ACAATGAGTT

                         *                       
       1125 GTGTTTGTGTCCCTTCCTTATTAACATACAATTTTGG
          1 GTGTTTGTGTCCCATCCTTATTAACATACAATTTTGG

                                                 
       1162 GTGTTTGTGTCCCATCCTTATTAACATACAATTTTGG
          1 GTGTTTGTGTCCCATCCTTATTAACATACAATTTTGG

       1199 CTCACTCTTG


Statistics
Matches: 36,  Mismatches: 1, Indels: 0
        0.97            0.03        0.00

Matches are distributed among these distances:
  37   36  1.00

ACGTcount: A:0.20, C:0.19, G:0.16, T:0.45


Consensus pattern (37 bp):   
GTGTTTGTGTCCCATCCTTATTAACATACAATTTTGG
Done.