Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga13g00668.F1

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, 580

Length: 968
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31


Found at i:155 original size:6 final size:6

Alignment explanation


    Indices: 140--178  Score: 53
    Period size: 6  Copynumber: 6.7  Consensus size: 6

        130 AAAATCGGTT

                                         *      *         
        140 CCCT-C CCCTCC CCCTCC CCCTCC CTCTCC CTCTCC CCCT
          1 CCCTCC CCCTCC CCCTCC CCCTCC CCCTCC CCCTCC CCCT

        179 TCCGCTGCTG


Statistics
Matches: 31,  Mismatches: 2, Indels: 1
        0.91            0.06        0.03

Matches are distributed among these distances:
   5    4  0.13
   6   27  0.87

ACGTcount: A:0.00, C:0.77, G:0.00, T:0.23


Consensus pattern (6 bp):   
CCCTCC

Found at i:170 original size:16 final size:18

Alignment explanation


    Indices: 140--176  Score: 51
    Period size: 16  Copynumber: 2.2  Consensus size: 18

        130 AAAATCGGTT

                              
        140 CCCTCCCCTCCCCCTC-C
          1 CCCTCCCCTCCCCCTCTC

                      *       
        157 CCCT-CCCTCTCCCTCTC
          1 CCCTCCCCTCCCCCTCTC

               
        174 CCC
          1 CCC

        177 CTTCCGCTGC


Statistics
Matches: 18,  Mismatches: 1, Indels: 2
        0.86            0.05        0.10

Matches are distributed among these distances:
  16   10  0.56
  17    8  0.44

ACGTcount: A:0.00, C:0.78, G:0.00, T:0.22


Consensus pattern (18 bp):   
CCCTCCCCTCCCCCTCTC

Found at i:174 original size:18 final size:17

Alignment explanation


    Indices: 140--178  Score: 60
    Period size: 18  Copynumber: 2.2  Consensus size: 17

        130 AAAATCGGTT

                             
        140 CCCTCCCCTCCCCCTCC
          1 CCCTCCCCTCCCCCTCC

                         *    
        157 CCCTCCCTCTCCCTCTCC
          1 CCCTCCC-CTCCCCCTCC

                
        175 CCCT
          1 CCCT

        179 TCCGCTGCTG


Statistics
Matches: 20,  Mismatches: 1, Indels: 1
        0.91            0.05        0.05

Matches are distributed among these distances:
  17    7  0.35
  18   13  0.65

ACGTcount: A:0.00, C:0.77, G:0.00, T:0.23


Consensus pattern (17 bp):   
CCCTCCCCTCCCCCTCC
Done.