Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga08g00082.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: 4331
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33


Found at i:2211 original size:17 final size:17

Alignment explanation


    Indices: 2189--2235  Score: 55
    Period size: 15  Copynumber: 2.9  Consensus size: 17

       2179 TTGAAAACCT

                             
       2189 CAAAATTAATATTTTTA
          1 CAAAATTAATATTTTTA

                           * 
       2206 CAAAATT--TATTTTAA
          1 CAAAATTAATATTTTTA

               *            
       2221 CAATATTAAT-TTTTT
          1 CAAAATTAATATTTTT

       2236 CTTAAAATTT


Statistics
Matches: 25,  Mismatches: 3, Indels: 5
        0.76            0.09        0.15

Matches are distributed among these distances:
  15   13  0.52
  16    4  0.16
  17    8  0.32

ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51


Consensus pattern (17 bp):   
CAAAATTAATATTTTTA

Found at i:2759 original size:7 final size:7

Alignment explanation


    Indices: 2747--2775  Score: 58
    Period size: 7  Copynumber: 4.1  Consensus size: 7

       2737 GGTATGAACC

                   
       2747 CTTTCGA
          1 CTTTCGA

                   
       2754 CTTTCGA
          1 CTTTCGA

                   
       2761 CTTTCGA
          1 CTTTCGA

                   
       2768 CTTTCGA
          1 CTTTCGA

             
       2775 C
          1 C

       2776 ACCTCAATGT


Statistics
Matches: 22,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   7   22  1.00

ACGTcount: A:0.14, C:0.31, G:0.14, T:0.41


Consensus pattern (7 bp):   
CTTTCGA

Found at i:3808 original size:43 final size:43

Alignment explanation


    Indices: 3747--3830  Score: 159
    Period size: 43  Copynumber: 2.0  Consensus size: 43

       3737 AAAAATATGT

                                                *      
       3747 ACCTACTATACAAGCATAAAACATATTTAGAATATAGGAATCA
          1 ACCTACTATACAAGCATAAAACATATTTAGAATATACGAATCA

                                                     
       3790 ACCTACTATACAAGCATAAAACATATTTAGAATATACGAAT
          1 ACCTACTATACAAGCATAAAACATATTTAGAATATACGAAT

       3831 TAAATTGTAA


Statistics
Matches: 40,  Mismatches: 1, Indels: 0
        0.98            0.02        0.00

Matches are distributed among these distances:
  43   40  1.00

ACGTcount: A:0.49, C:0.17, G:0.08, T:0.26


Consensus pattern (43 bp):   
ACCTACTATACAAGCATAAAACATATTTAGAATATACGAATCA
Done.