Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga13g01846.P1

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: 2930
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.33


Found at i:1579 original size:27 final size:27

Alignment explanation


    Indices: 1538--1650  Score: 129
    Period size: 27  Copynumber: 4.2  Consensus size: 27

       1528 GAGGAAGCGT

                      *                
       1538 TCTGGTGGCTATGCCACAAATATCTGA
          1 TCTGGTGGCTCTGCCACAAATATCTGA

                              *       *
       1565 TCTGGTGGCTCTGCCACATATATCTGT
          1 TCTGGTGGCTCTGCCACAAATATCTGA

                             * *        
       1592 TCTGGTGGCTCTGCCACGATTATCTGTA
          1 TCTGGTGGCTCTGCCACAAATATCTG-A

                   *     *     *      *
       1620 TCTGGTGACTCTGTCAC-ATTATCTGT
          1 TCTGGTGGCTCTGCCACAAATATCTGA

                 
       1646 TCTGG
          1 TCTGG

       1651 CAGCCATGCT


Statistics
Matches: 75,  Mismatches: 10, Indels: 3
        0.85            0.11        0.03

Matches are distributed among these distances:
  26    5  0.07
  27   55  0.73
  28   15  0.20

ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36


Consensus pattern (27 bp):   
TCTGGTGGCTCTGCCACAAATATCTGA

Found at i:1643 original size:54 final size:54

Alignment explanation


    Indices: 1536--1650  Score: 169
    Period size: 54  Copynumber: 2.1  Consensus size: 54

       1526 TGGAGGAAGC

                                                *                 
       1536 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCT
          1 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT

                        *      * *                     *           
       1590 GTTCTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCT
          1 GTTCTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATATCT

                   
       1644 GTTCTGG
          1 GTTCTGG

       1651 CAGCCATGCT


Statistics
Matches: 55,  Mismatches: 5, Indels: 2
        0.89            0.08        0.03

Matches are distributed among these distances:
  54   37  0.67
  55   18  0.33

ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37


Consensus pattern (54 bp):   
GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT

Found at i:1736 original size:19 final size:22

Alignment explanation


    Indices: 1712--1751  Score: 59
    Period size: 19  Copynumber: 2.0  Consensus size: 22

       1702 CTCCCCACAC

                                  
       1712 GGTGTA-A-GGTTGG-TATGGG
          1 GGTGTATACGGTTGGATATGGG

                                 
       1731 GGTGTATACGGTTGGATATGG
          1 GGTGTATACGGTTGGATATGG

       1752 TTGGGTTTCT


Statistics
Matches: 18,  Mismatches: 0, Indels: 3
        0.86            0.00        0.14

Matches are distributed among these distances:
  19    6  0.33
  20    1  0.06
  21    6  0.33
  22    5  0.28

ACGTcount: A:0.17, C:0.03, G:0.47, T:0.33


Consensus pattern (22 bp):   
GGTGTATACGGTTGGATATGGG

Done.