Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga04g01070.F1

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: 5080
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26


Found at i:4881 original size:47 final size:47

Alignment explanation


    Indices: 4828--4921  Score: 154
    Period size: 47  Copynumber: 2.0  Consensus size: 47

       4818 AAGGTCAAGT

                                  *                         
       4828 TAGCCAACTC-CTCCTCCATTGTGCATAAGAAGAAATAACAGGCCGTG
          1 TAGCCAACTCTC-CCTCCATTGCGCATAAGAAGAAATAACAGGCCGTG

                                                      *    
       4875 TAGCCAACTCTCCCTCCATTGCGCATAAGAAGAAATAACAGGTCGTG
          1 TAGCCAACTCTCCCTCCATTGCGCATAAGAAGAAATAACAGGCCGTG

       4922 CCAAACAAAA


Statistics
Matches: 44,  Mismatches: 2, Indels: 2
        0.92            0.04        0.04

Matches are distributed among these distances:
  47   43  0.98
  48    1  0.02

ACGTcount: A:0.32, C:0.28, G:0.19, T:0.21


Consensus pattern (47 bp):   
TAGCCAACTCTCCCTCCATTGCGCATAAGAAGAAATAACAGGCCGTG

Found at i:5007 original size:24 final size:26

Alignment explanation


    Indices: 4972--5024  Score: 74
    Period size: 24  Copynumber: 2.1  Consensus size: 26

       4962 TCAAAAAACC

                          *    *      
       4972 AAAACCCCGTGTCACACGATAGAC-G
          1 AAAACCCCGTGTCAAACGACAGACTG

                                      
       4997 AAAA-CCCGTGTCAAACGACAGACTG
          1 AAAACCCCGTGTCAAACGACAGACTG

               
       5022 AAA
          1 AAA

       5025 GGATTGAAAG


Statistics
Matches: 25,  Mismatches: 2, Indels: 2
        0.86            0.07        0.07

Matches are distributed among these distances:
  24   17  0.68
  25    8  0.32

ACGTcount: A:0.42, C:0.28, G:0.19, T:0.11


Consensus pattern (26 bp):   
AAAACCCCGTGTCAAACGACAGACTG
Done.