Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga02g00839.F3

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: 2575
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30


Found at i:130 original size:6 final size:6

Alignment explanation


    Indices: 89--129  Score: 52
    Period size: 6  Copynumber: 7.3  Consensus size: 6

         79 GCAGATATTT

                                                        *      
         89 CCTT-C CCTTCC CCTTCC CCTTCC CC-TCC CC-TCC CCCTCC CC
          1 CCTTCC CCTTCC CCTTCC CCTTCC CCTTCC CCTTCC CCTTCC CC

        130 CCTCTCCTTC


Statistics
Matches: 34,  Mismatches: 0, Indels: 3
        0.92            0.00        0.08

Matches are distributed among these distances:
   5   14  0.41
   6   20  0.59

ACGTcount: A:0.00, C:0.73, G:0.00, T:0.27


Consensus pattern (6 bp):   
CCTTCC

Found at i:130 original size:12 final size:11

Alignment explanation


    Indices: 93--129  Score: 56
    Period size: 11  Copynumber: 3.3  Consensus size: 11

         83 ATATTTCCTT

                        
         93 CCCTTCCCCTTC
          1 CCCTTCCCC-TC

                       
        105 CCCTTCCCCTC
          1 CCCTTCCCCTC

                *      
        116 CCCTCCCCCTC
          1 CCCTTCCCCTC

               
        127 CCC
          1 CCC

        130 CCTCTCCTTC


Statistics
Matches: 24,  Mismatches: 1, Indels: 1
        0.92            0.04        0.04

Matches are distributed among these distances:
  11   15  0.62
  12    9  0.38

ACGTcount: A:0.00, C:0.76, G:0.00, T:0.24


Consensus pattern (11 bp):   
CCCTTCCCCTC

Found at i:130 original size:17 final size:17

Alignment explanation


    Indices: 97--130  Score: 50
    Period size: 17  Copynumber: 2.0  Consensus size: 17

         87 TTCCTTCCCT

                  *     *    
         97 TCCCCTTCCCCTTCCCC
          1 TCCCCTCCCCCTCCCCC

                             
        114 TCCCCTCCCCCTCCCCC
          1 TCCCCTCCCCCTCCCCC

        131 CTCTCCTTCA


Statistics
Matches: 15,  Mismatches: 2, Indels: 0
        0.88            0.12        0.00

Matches are distributed among these distances:
  17   15  1.00

ACGTcount: A:0.00, C:0.76, G:0.00, T:0.24


Consensus pattern (17 bp):   
TCCCCTCCCCCTCCCCC
Done.