Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga06g00713.P2

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: 3528
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.33


Found at i:1484 original size:31 final size:32

Alignment explanation


    Indices: 1446--1510  Score: 123
    Period size: 31  Copynumber: 2.1  Consensus size: 32

       1436 GTTCCATTTC

                                            
       1446 ACTACATAATGAATTTGG-AAAAGAAAACATG
          1 ACTACATAATGAATTTGGAAAAAGAAAACATG

                                            
       1477 ACTACATAATGAATTTGGAAAAAGAAAACATG
          1 ACTACATAATGAATTTGGAAAAAGAAAACATG

              
       1509 AC
          1 AC

       1511 ATCATGTAAA


Statistics
Matches: 33,  Mismatches: 0, Indels: 1
        0.97            0.00        0.03

Matches are distributed among these distances:
  31   18  0.55
  32   15  0.45

ACGTcount: A:0.52, C:0.11, G:0.15, T:0.22


Consensus pattern (32 bp):   
ACTACATAATGAATTTGGAAAAAGAAAACATG

Found at i:1940 original size:29 final size:30

Alignment explanation


    Indices: 1898--1975  Score: 104
    Period size: 30  Copynumber: 2.6  Consensus size: 30

       1888 AGTGCTGGAA

                                 *   * *  
       1898 AGAAAATGAGAGAAGAAAAA-TATGTTGGG
          1 AGAAAATGAGAGAAGAAAAAGGATGCTAGG

                    *                     
       1927 AGAAAATGGGAGAAGAAAAAGGATGCTAGG
          1 AGAAAATGAGAGAAGAAAAAGGATGCTAGG

                 *             
       1957 AGAAATTGAGAGAAGAAAA
          1 AGAAAATGAGAGAAGAAAA

       1976 TTTCCTTTTT


Statistics
Matches: 42,  Mismatches: 6, Indels: 1
        0.86            0.12        0.02

Matches are distributed among these distances:
  29   19  0.45
  30   23  0.55

ACGTcount: A:0.54, C:0.01, G:0.32, T:0.13


Consensus pattern (30 bp):   
AGAAAATGAGAGAAGAAAAAGGATGCTAGG

Found at i:2066 original size:13 final size:13

Alignment explanation


    Indices: 2048--2072  Score: 50
    Period size: 13  Copynumber: 1.9  Consensus size: 13

       2038 AATTGTGTAA

                         
       2048 TATTCAAAACTAT
          1 TATTCAAAACTAT

                        
       2061 TATTCAAAACTA
          1 TATTCAAAACTA

       2073 ACAATTAACT


Statistics
Matches: 12,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  13   12  1.00

ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36


Consensus pattern (13 bp):   
TATTCAAAACTAT

Found at i:2685 original size:15 final size:15

Alignment explanation


    Indices: 2662--2697  Score: 63
    Period size: 15  Copynumber: 2.4  Consensus size: 15

       2652 ATTTTATCAT

                *          
       2662 TCAAATTCATTTAGA
          1 TCAATTTCATTTAGA

                           
       2677 TCAATTTCATTTAGA
          1 TCAATTTCATTTAGA

                  
       2692 TCAATT
          1 TCAATT

       2698 CTTTCAATTC


Statistics
Matches: 20,  Mismatches: 1, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  15   20  1.00

ACGTcount: A:0.36, C:0.14, G:0.06, T:0.44


Consensus pattern (15 bp):   
TCAATTTCATTTAGA
Done.