Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga10g00031.N2

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: 1727
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30


Found at i:1656 original size:30 final size:30

Alignment explanation


    Indices: 1622--1684  Score: 108
    Period size: 30  Copynumber: 2.1  Consensus size: 30

       1612 TGCATTTTCT

                                          
       1622 TTTTGTTGGTTTTGTTTTGCCTCAGTTGTA
          1 TTTTGTTGGTTTTGTTTTGCCTCAGTTGTA

                                *  *      
       1652 TTTTGTTGGTTTTGTTTTGCTTCGGTTGTA
          1 TTTTGTTGGTTTTGTTTTGCCTCAGTTGTA

               
       1682 TTT
          1 TTT

       1685 GTAAGGTGAT


Statistics
Matches: 31,  Mismatches: 2, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  30   31  1.00

ACGTcount: A:0.05, C:0.08, G:0.24, T:0.63


Consensus pattern (30 bp):   
TTTTGTTGGTTTTGTTTTGCCTCAGTTGTA

Found at i:1678 original size:16 final size:16

Alignment explanation


    Indices: 1629--1678  Score: 50
    Period size: 16  Copynumber: 3.2  Consensus size: 16

       1619 TCTTTTTGTT

                         *  
       1629 GGTTTTGTTTTGCCTC
          1 GGTTTTGTTTTGCTTC

            *   * *         
       1645 AGTTGTATTTTG-TT-
          1 GGTTTTGTTTTGCTTC

                            
       1659 GGTTTTGTTTTGCTTC
          1 GGTTTTGTTTTGCTTC

                
       1675 GGTT
          1 GGTT

       1679 GTATTTGTAA


Statistics
Matches: 25,  Mismatches: 7, Indels: 4
        0.69            0.19        0.11

Matches are distributed among these distances:
  14    9  0.36
  15    3  0.12
  16   13  0.52

ACGTcount: A:0.04, C:0.10, G:0.26, T:0.60


Consensus pattern (16 bp):   
GGTTTTGTTTTGCTTC
Done.