Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga09g02599.M1

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: 5204
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36


Found at i:4230 original size:13 final size:13

Alignment explanation


    Indices: 4212--4245  Score: 59
    Period size: 13  Copynumber: 2.5  Consensus size: 13

       4202 CACTTCGGAG

                         
       4212 CGTGTGCTCAAGC
          1 CGTGTGCTCAAGC

                         
       4225 CGTGTGCTCAAGC
          1 CGTGTGCTCAAGC

                    
       4238 CGGTGTGC
          1 C-GTGTGC

       4246 CCCTTTGATG


Statistics
Matches: 20,  Mismatches: 0, Indels: 1
        0.95            0.00        0.05

Matches are distributed among these distances:
  13   14  0.70
  14    6  0.30

ACGTcount: A:0.12, C:0.29, G:0.35, T:0.24


Consensus pattern (13 bp):   
CGTGTGCTCAAGC

Found at i:4894 original size:21 final size:21

Alignment explanation


    Indices: 4850--4897  Score: 62
    Period size: 21  Copynumber: 2.3  Consensus size: 21

       4840 CAAGGCTAGC

                                 
       4850 TCACACAGGCGTGTACCTTAG
          1 TCACACAGGCGTGTACCTTAG

                 *        *       
       4871 TCACATAGGCGTGTCCCTCT-G
          1 TCACACAGGCGTGTACCT-TAG

                  
       4892 TCACAC
          1 TCACAC

       4898 GGTCTGGACC


Statistics
Matches: 23,  Mismatches: 3, Indels: 2
        0.82            0.11        0.07

Matches are distributed among these distances:
  21   22  0.96
  22    1  0.04

ACGTcount: A:0.21, C:0.33, G:0.21, T:0.25


Consensus pattern (21 bp):   
TCACACAGGCGTGTACCTTAG
Done.