Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga08g01834.F4

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: 4270
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33


Found at i:23 original size:6 final size:6

Alignment explanation


    Indices: 14--53  Score: 62
    Period size: 6  Copynumber: 6.7  Consensus size: 6

          4 AAAAAAAAAA

                           **                             
         14 CTCATT CTCATT CAAATT CTCATT CTCATT CTCATT CTCA
          1 CTCATT CTCATT CTCATT CTCATT CTCATT CTCATT CTCA

         54 ACCGAAAAGT


Statistics
Matches: 30,  Mismatches: 4, Indels: 0
        0.88            0.12        0.00

Matches are distributed among these distances:
   6   30  1.00

ACGTcount: A:0.23, C:0.33, G:0.00, T:0.45


Consensus pattern (6 bp):   
CTCATT

Found at i:3075 original size:32 final size:32

Alignment explanation


    Indices: 3033--3099  Score: 107
    Period size: 32  Copynumber: 2.1  Consensus size: 32

       3023 GAGGTAGGTC

                                  *         
       3033 TTGAGATGTCAATTCGTTTACTGAAGCATTTT
          1 TTGAGATGTCAATTCGTTTACTAAAGCATTTT

                *              *            
       3065 TTGATATGTCAATTCGTTTGCTAAAGCATTTT
          1 TTGAGATGTCAATTCGTTTACTAAAGCATTTT

               
       3097 TTG
          1 TTG

       3100 CAGAATGGTG


Statistics
Matches: 32,  Mismatches: 3, Indels: 0
        0.91            0.09        0.00

Matches are distributed among these distances:
  32   32  1.00

ACGTcount: A:0.24, C:0.12, G:0.18, T:0.46


Consensus pattern (32 bp):   
TTGAGATGTCAATTCGTTTACTAAAGCATTTT

Found at i:3294 original size:3 final size:3

Alignment explanation


    Indices: 3286--3347  Score: 106
    Period size: 3  Copynumber: 20.7  Consensus size: 3

       3276 TATTGATATT

                                          *         *                      
       3286 TTG TTG TTG TTG TTG TTG TTG TTA TTG TTG CTG TTG TTG TTG TTG TTG
          1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG

                              
       3334 TTG TTG TTG TTG TT
          1 TTG TTG TTG TTG TT

       3348 ATGATACGCC


Statistics
Matches: 55,  Mismatches: 4, Indels: 0
        0.93            0.07        0.00

Matches are distributed among these distances:
   3   55  1.00

ACGTcount: A:0.02, C:0.02, G:0.31, T:0.66


Consensus pattern (3 bp):   
TTG

Done.