Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga13g00779.F12

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: 5202
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.35


Found at i:5058 original size:10 final size:9

Alignment explanation


    Indices: 5045--5088  Score: 52
    Period size: 10  Copynumber: 4.4  Consensus size: 9

       5035 GGAAATTTAT

                      
       5045 AAAAATGATA
          1 AAAAAT-ATA

                      
       5055 AAAAGATATA
          1 AAAA-ATATA

                       
       5065 GAAAAATAATA
          1 -AAAAAT-ATA

                     
       5076 AAAAATATA
          1 AAAAATATA

                
       5085 AAAA
          1 AAAA

       5089 TTCTATAACA


Statistics
Matches: 31,  Mismatches: 0, Indels: 7
        0.82            0.00        0.18

Matches are distributed among these distances:
   9    7  0.23
  10   15  0.48
  11    9  0.29

ACGTcount: A:0.75, C:0.00, G:0.07, T:0.18


Consensus pattern (9 bp):   
AAAAATATA

Found at i:5069 original size:21 final size:19

Alignment explanation


    Indices: 5045--5088  Score: 61
    Period size: 21  Copynumber: 2.2  Consensus size: 19

       5035 GGAAATTTAT

                  *             
       5045 AAAAATGATAAAAAGATATA
          1 AAAAATAATAAAAA-ATATA

                                
       5065 GAAAAATAATAAAAAATATA
          1 -AAAAATAATAAAAAATATA

                
       5085 AAAA
          1 AAAA

       5089 TTCTATAACA


Statistics
Matches: 22,  Mismatches: 1, Indels: 2
        0.88            0.04        0.08

Matches are distributed among these distances:
  19    4  0.18
  20    5  0.23
  21   13  0.59

ACGTcount: A:0.75, C:0.00, G:0.07, T:0.18


Consensus pattern (19 bp):   
AAAAATAATAAAAAATATA
Done.