Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga11g00570.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, 467

Length: 779
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.23


Found at i:549 original size:9 final size:9

Alignment explanation


    Indices: 529--570  Score: 63
    Period size: 8  Copynumber: 5.0  Consensus size: 9

        519 GCCACCAGCA

                     
        529 CACCTG-TC
          1 CACCTGCTC

                     
        537 CACCTGCTC
          1 CACCTGCTC

                     
        546 CACCTGC-C
          1 CACCTGCTC

                     
        554 CACCTGCTC
          1 CACCTGCTC

                     
        563 CACC-GCTC
          1 CACCTGCTC

        571 GTGTCAGCAC


Statistics
Matches: 32,  Mismatches: 0, Indels: 4
        0.89            0.00        0.11

Matches are distributed among these distances:
   8   18  0.56
   9   14  0.44

ACGTcount: A:0.12, C:0.57, G:0.12, T:0.19


Consensus pattern (9 bp):   
CACCTGCTC

Found at i:549 original size:25 final size:25

Alignment explanation


    Indices: 520--570  Score: 68
    Period size: 25  Copynumber: 2.0  Consensus size: 25

        510 CTACTGCCTG

                                      
        520 CCACCAGCACACCTG-TCCACCTGCT
          1 CCACCAGCACACCTGCTCCACC-GCT

                 *  *                
        545 CCACCTGCCCACCTGCTCCACCGCT
          1 CCACCAGCACACCTGCTCCACCGCT

             
        570 C
          1 C

        571 GTGTCAGCAC


Statistics
Matches: 23,  Mismatches: 2, Indels: 2
        0.85            0.07        0.07

Matches are distributed among these distances:
  25   17  0.74
  26    6  0.26

ACGTcount: A:0.16, C:0.57, G:0.12, T:0.16


Consensus pattern (25 bp):   
CCACCAGCACACCTGCTCCACCGCT

Found at i:551 original size:17 final size:17

Alignment explanation


    Indices: 529--566  Score: 67
    Period size: 17  Copynumber: 2.2  Consensus size: 17

        519 GCCACCAGCA

                  *          
        529 CACCTGTCCACCTGCTC
          1 CACCTGCCCACCTGCTC

                             
        546 CACCTGCCCACCTGCTC
          1 CACCTGCCCACCTGCTC

                
        563 CACC
          1 CACC

        567 GCTCGTGTCA


Statistics
Matches: 20,  Mismatches: 1, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  17   20  1.00

ACGTcount: A:0.13, C:0.58, G:0.11, T:0.18


Consensus pattern (17 bp):   
CACCTGCCCACCTGCTC
Done.