Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga11g03383.P8

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: 5000
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.29


Found at i:2887 original size:9 final size:9

Alignment explanation


    Indices: 2873--2897  Score: 50
    Period size: 9  Copynumber: 2.8  Consensus size: 9

       2863 CAATAATATT

                     
       2873 AAAAAAAGA
          1 AAAAAAAGA

                     
       2882 AAAAAAAGA
          1 AAAAAAAGA

                   
       2891 AAAAAAA
          1 AAAAAAA

       2898 AAGAAAGGGA


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:0.92, C:0.00, G:0.08, T:0.00


Consensus pattern (9 bp):   
AAAAAAAGA

Found at i:3006 original size:33 final size:33

Alignment explanation


    Indices: 2943--3008  Score: 96
    Period size: 33  Copynumber: 2.0  Consensus size: 33

       2933 CCAACGACCA

                             * * *           
       2943 AACAAACATAATCTAAGTGTACAATATGAAGGT
          1 AACAAACATAATCTAAGAGAAAAATATGAAGGT

                                     *       
       2976 AACAAACATAATCTAAGAGAAAAATTTGAAGGT
          1 AACAAACATAATCTAAGAGAAAAATATGAAGGT

       3009 CTGCGATGAA


Statistics
Matches: 29,  Mismatches: 4, Indels: 0
        0.88            0.12        0.00

Matches are distributed among these distances:
  33   29  1.00

ACGTcount: A:0.52, C:0.11, G:0.15, T:0.23


Consensus pattern (33 bp):   
AACAAACATAATCTAAGAGAAAAATATGAAGGT

Found at i:4672 original size:4 final size:4

Alignment explanation


    Indices: 4663--4689  Score: 54
    Period size: 4  Copynumber: 6.8  Consensus size: 4

       4653 TATACCAAAT

                                             
       4663 ATAC ATAC ATAC ATAC ATAC ATAC ATA
          1 ATAC ATAC ATAC ATAC ATAC ATAC ATA

       4690 TATAAACATT


Statistics
Matches: 23,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   4   23  1.00

ACGTcount: A:0.52, C:0.22, G:0.00, T:0.26


Consensus pattern (4 bp):   
ATAC

Done.