Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga02g00790.N1

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, 731

Length: 1219
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31


Found at i:604 original size:24 final size:21

Alignment explanation


    Indices: 570--658  Score: 90
    Period size: 21  Copynumber: 4.1  Consensus size: 21

        560 ACAAAAAAGA

                  *                 
        570 TTTGTCTAAGTCACTTCGTTTCTT
          1 TTTGTCCAAGTCACTTC---TCTT

                       *         
        594 TTTGTCCAAGTTACTTCTCTT
          1 TTTGTCCAAGTCACTTCTCTT

                       **        
        615 TTTGTCCAAGTTGCTTCTCTT
          1 TTTGTCCAAGTCACTTCTCTT

                  *  *           
        636 TTTGTCTAACTCACTTC-CTT
          1 TTTGTCCAAGTCACTTCTCTT

               
        656 TTT
          1 TTT

        659 TCTTTGTGAG


Statistics
Matches: 58,  Mismatches: 7, Indels: 4
        0.84            0.10        0.06

Matches are distributed among these distances:
  20    6  0.10
  21   37  0.64
  24   15  0.26

ACGTcount: A:0.12, C:0.24, G:0.10, T:0.54


Consensus pattern (21 bp):   
TTTGTCCAAGTCACTTCTCTT

Found at i:656 original size:20 final size:21

Alignment explanation


    Indices: 590--658  Score: 95
    Period size: 21  Copynumber: 3.3  Consensus size: 21

        580 TCACTTCGTT

                                 
        590 TCTTTTTGTCCAAGTTACTTC
          1 TCTTTTTGTCCAAGTTACTTC

                            *    
        611 TCTTTTTGTCCAAGTTGCTTC
          1 TCTTTTTGTCCAAGTTACTTC

                      *  * *     
        632 TCTTTTTGTCTAACTCACTTC
          1 TCTTTTTGTCCAAGTTACTTC

                   
        653 -CTTTTT
          1 TCTTTTT

        659 TCTTTGTGAG


Statistics
Matches: 43,  Mismatches: 5, Indels: 1
        0.88            0.10        0.02

Matches are distributed among these distances:
  20    6  0.14
  21   37  0.86

ACGTcount: A:0.12, C:0.25, G:0.09, T:0.55


Consensus pattern (21 bp):   
TCTTTTTGTCCAAGTTACTTC
Done.