Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga11g02160.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: 1722
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26


Found at i:167 original size:18 final size:18

Alignment explanation


    Indices: 144--183  Score: 62
    Period size: 18  Copynumber: 2.2  Consensus size: 18

        134 GCTGTTGGTG

                              
        144 GTGCTCAACCTGCTGGAA
          1 GTGCTCAACCTGCTGGAA

                    *        *
        162 GTGCTCAATCTGCTGGAG
          1 GTGCTCAACCTGCTGGAA

                
        180 GTGC
          1 GTGC

        184 GCAGGGTGGA


Statistics
Matches: 20,  Mismatches: 2, Indels: 0
        0.91            0.09        0.00

Matches are distributed among these distances:
  18   20  1.00

ACGTcount: A:0.17, C:0.25, G:0.33, T:0.25


Consensus pattern (18 bp):   
GTGCTCAACCTGCTGGAA

Found at i:1379 original size:18 final size:18

Alignment explanation


    Indices: 1353--1466  Score: 82
    Period size: 18  Copynumber: 6.7  Consensus size: 18

       1343 CCTGCCGCAA

                              
       1353 CAAGCCCCGGTGGCCAAG
          1 CAAGCCCCGGTGGCCAAG

              *                
       1371 CAGGCCCC----GCCAAAG
          1 CAAGCCCCGGTGGCC-AAG

                   *  *   *   
       1386 CAAGCCCTGGCGGCAAAG
          1 CAAGCCCCGGTGGCCAAG

                              
       1404 CAAGCCCCGGTGGCCAAG
          1 CAAGCCCCGGTGGCCAAG

              * *              
       1422 CAGGGCCC--T--CCAAAG
          1 CAAGCCCCGGTGGCC-AAG

                      *   *   
       1437 CAAGCCCCGGCGGCAAAG
          1 CAAGCCCCGGTGGCCAAG

                        
       1455 CAAGCCCCGGTG
          1 CAAGCCCCGGTG

       1467 CAACTGCTTA


Statistics
Matches: 72,  Mismatches: 14, Indels: 20
        0.68            0.13        0.19

Matches are distributed among these distances:
  14    5  0.07
  15   18  0.25
  16    1  0.01
  18   45  0.62
  19    3  0.04

ACGTcount: A:0.25, C:0.39, G:0.32, T:0.04


Consensus pattern (18 bp):   
CAAGCCCCGGTGGCCAAG

Found at i:1408 original size:51 final size:51

Alignment explanation


    Indices: 1353--1466  Score: 201
    Period size: 51  Copynumber: 2.2  Consensus size: 51

       1343 CCTGCCGCAA

                                                    *          
       1353 CAAGCCCCGGTGGCCAAGCAGGCCCCGCCAAAGCAAGCCCTGGCGGCAAAG
          1 CAAGCCCCGGTGGCCAAGCAGGCCCCGCCAAAGCAAGCCCCGGCGGCAAAG

                                  *   *                        
       1404 CAAGCCCCGGTGGCCAAGCAGGGCCCTCCAAAGCAAGCCCCGGCGGCAAAG
          1 CAAGCCCCGGTGGCCAAGCAGGCCCCGCCAAAGCAAGCCCCGGCGGCAAAG

                        
       1455 CAAGCCCCGGTG
          1 CAAGCCCCGGTG

       1467 CAACTGCTTA


Statistics
Matches: 60,  Mismatches: 3, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  51   60  1.00

ACGTcount: A:0.25, C:0.39, G:0.32, T:0.04


Consensus pattern (51 bp):   
CAAGCCCCGGTGGCCAAGCAGGCCCCGCCAAAGCAAGCCCCGGCGGCAAAG
Done.