Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga04g01723.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: 5677
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32


Found at i:3984 original size:6 final size:6

Alignment explanation


    Indices: 3969--4006  Score: 51
    Period size: 6  Copynumber: 6.2  Consensus size: 6

       3959 CATCTCGCTT

                                                         
       3969 CCCC-C CCCCTC CCCCTC CCCCTTC CCCCTTC CCCCTC C
          1 CCCCTC CCCCTC CCCCTC CCCC-TC CCCC-TC CCCCTC C

       4007 TCTCTCGCTC


Statistics
Matches: 31,  Mismatches: 0, Indels: 3
        0.91            0.00        0.09

Matches are distributed among these distances:
   5    4  0.13
   6   14  0.45
   7   13  0.42

ACGTcount: A:0.00, C:0.82, G:0.00, T:0.18


Consensus pattern (6 bp):   
CCCCTC

Found at i:3994 original size:13 final size:12

Alignment explanation


    Indices: 3969--4006  Score: 51
    Period size: 13  Copynumber: 3.1  Consensus size: 12

       3959 CATCTCGCTT

                        
       3969 CCCC-CCCCCTC
          1 CCCCTCCCCCTC

                         
       3980 CCCCTCCCCCTTC
          1 CCCCTCCCCC-TC

                         
       3993 CCCCTTCCCCCTC
          1 CCCC-TCCCCCTC

             
       4006 C
          1 C

       4007 TCTCTCGCTC


Statistics
Matches: 24,  Mismatches: 0, Indels: 4
        0.86            0.00        0.14

Matches are distributed among these distances:
  11    4  0.17
  12    5  0.21
  13    9  0.38
  14    6  0.25

ACGTcount: A:0.00, C:0.82, G:0.00, T:0.18


Consensus pattern (12 bp):   
CCCCTCCCCCTC

Found at i:4004 original size:7 final size:7

Alignment explanation


    Indices: 3972--4004  Score: 50
    Period size: 7  Copynumber: 4.9  Consensus size: 7

       3962 CTCGCTTCCC

                 * 
       3972 CCCCCCT
          1 CCCCCTT

                   
       3979 CCCCC-T
          1 CCCCCTT

                   
       3985 CCCCCTT
          1 CCCCCTT

                   
       3992 CCCCCTT
          1 CCCCCTT

                  
       3999 CCCCCT
          1 CCCCCT

       4005 CCTCTCTCGC


Statistics
Matches: 25,  Mismatches: 0, Indels: 2
        0.93            0.00        0.07

Matches are distributed among these distances:
   6    6  0.24
   7   19  0.76

ACGTcount: A:0.00, C:0.79, G:0.00, T:0.21


Consensus pattern (7 bp):   
CCCCCTT
Done.