Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga01g00081.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: 1895
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33


Found at i:564 original size:69 final size:69

Alignment explanation


    Indices: 453--592  Score: 217
    Period size: 69  Copynumber: 2.0  Consensus size: 69

        443 CCGGAAGGTA

                   *      **                                *                
        453 AACAAATTGAAAACTGAAATCGAAGTGTCATATTTTGCATGTACTAGGGTAAGATATGTTTTGAT
          1 AACAAATCGAAAACCAAAATCGAAGTGTCATATTTTGCATGTACTAGGATAAGATATGTTTTGAT

                
        518 GAAT
         66 GAAT

                                    *      *                  *              
        522 AACAAATCGAAAACCAAAATCGAATTGTCATTTTTTGCATGTACTAGGATGAGATATGTTTTGAT
          1 AACAAATCGAAAACCAAAATCGAAGTGTCATATTTTGCATGTACTAGGATAAGATATGTTTTGAT

                
        587 GAAT
         66 GAAT

              
        591 AA
          1 AA

        593 TCTCTAGCGG


Statistics
Matches: 64,  Mismatches: 7, Indels: 0
        0.90            0.10        0.00

Matches are distributed among these distances:
  69   64  1.00

ACGTcount: A:0.39, C:0.10, G:0.19, T:0.33


Consensus pattern (69 bp):   
AACAAATCGAAAACCAAAATCGAAGTGTCATATTTTGCATGTACTAGGATAAGATATGTTTTGAT
GAAT

Found at i:1575 original size:21 final size:21

Alignment explanation


    Indices: 1506--1603  Score: 97
    Period size: 21  Copynumber: 4.7  Consensus size: 21

       1496 TCCTTCATCT

                       *        *
       1506 GCATACCCTCCTCCACCTTCG
          1 GCATACCCTCCACCACCTTCC

              *  *     ** * *   *
       1527 GCTTATCCTCCGTCGCATTCA
          1 GCATACCCTCCACCACCTTCC

              *                  
       1548 GCTTACCCTCCACCACCTTCC
          1 GCATACCCTCCACCACCTTCC

                                 
       1569 GCATACCCTCCACCACCTTCC
          1 GCATACCCTCCACCACCTTCC

            *             
       1590 ACATACCCTCCACC
          1 GCATACCCTCCACC

       1604 TCCGCCACAT


Statistics
Matches: 62,  Mismatches: 15, Indels: 0
        0.81            0.19        0.00

Matches are distributed among these distances:
  21   62  1.00

ACGTcount: A:0.17, C:0.52, G:0.07, T:0.23


Consensus pattern (21 bp):   
GCATACCCTCCACCACCTTCC

Found at i:1779 original size:25 final size:25

Alignment explanation


    Indices: 1745--1794  Score: 82
    Period size: 25  Copynumber: 2.0  Consensus size: 25

       1735 CCAAGGGTTT

                           *         
       1745 CACATGTCAACCAAATGCAAAAATG
          1 CACATGTCAACCAAAAGCAAAAATG

                              *      
       1770 CACATGTCAACCAAAAGCTAAAATG
          1 CACATGTCAACCAAAAGCAAAAATG

       1795 AGAAGTATTT


Statistics
Matches: 23,  Mismatches: 2, Indels: 0
        0.92            0.08        0.00

Matches are distributed among these distances:
  25   23  1.00

ACGTcount: A:0.48, C:0.24, G:0.12, T:0.16


Consensus pattern (25 bp):   
CACATGTCAACCAAAAGCAAAAATG
Done.