Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga11g00230.F2

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: 3305
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27


Found at i:2694 original size:9 final size:9

Alignment explanation


    Indices: 2680--2704  Score: 50
    Period size: 9  Copynumber: 2.8  Consensus size: 9

       2670 ACAAAGAGCT

                     
       2680 GCAGCTTTA
          1 GCAGCTTTA

                     
       2689 GCAGCTTTA
          1 GCAGCTTTA

                   
       2698 GCAGCTT
          1 GCAGCTT

       2705 CATTTAATCC


Statistics
Matches: 16,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   9   16  1.00

ACGTcount: A:0.20, C:0.24, G:0.24, T:0.32


Consensus pattern (9 bp):   
GCAGCTTTA

Found at i:3016 original size:66 final size:65

Alignment explanation


    Indices: 2908--3039  Score: 183
    Period size: 66  Copynumber: 2.0  Consensus size: 65

       2898 TGCAGACTCA

                   *                         **  *               *           
       2908 AGTGAAGTGAACCCTTCTGAAGCTGATGATTCTGTAGGGGTTGCCAAAACCAATAAGGAAGACTT
          1 AGTGAAGCGAACCCTTCTGAAGCTGATGATTCTCAAGAGGTTGCCAAAACCAACAAGGAAGA-TT

             
       2973 G
         65 G

                               *        *               *                    
       2974 AGTGAAGCGAACCCTTCTGGAGCTGATGGTTCTCAAGAGGTTGCTAAAACCAACAAGGAAGATTG
          1 AGTGAAGCGAACCCTTCTGAAGCTGATGATTCTCAAGAGGTTGCCAAAACCAACAAGGAAGATTG

             
       3039 A
          1 A

       3040 AAACCGAAGG


Statistics
Matches: 58,  Mismatches: 8, Indels: 1
        0.87            0.12        0.01

Matches are distributed among these distances:
  65    4  0.07
  66   54  0.93

ACGTcount: A:0.33, C:0.17, G:0.27, T:0.23


Consensus pattern (65 bp):   
AGTGAAGCGAACCCTTCTGAAGCTGATGATTCTCAAGAGGTTGCCAAAACCAACAAGGAAGATTG
Done.