Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: evm.model.Scaffold167.444

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, 959

Length: 1599
ACGTcount: A:0.34, C:0.13, G:0.30, T:0.22


Found at i:552 original size:12 final size:12

Alignment explanation


    Indices: 536--606  Score: 97
    Period size: 12  Copynumber: 5.7  Consensus size: 12

        526 GACGATGATT

                        
        536 ATGATGAGTTTG
          1 ATGATGAGTTTG

            *           
        548 GTGATGAGTTTG
          1 ATGATGAGTTTG

                   *    
        560 ATGATGAATTTG
          1 ATGATGAGTTTG

                           
        572 ATGATGAGTTTGAAG
          1 ATGATGAGTTT---G

                        
        587 ATGATGAGTTTG
          1 ATGATGAGTTTG

                    
        599 ATGATGAG
          1 ATGATGAG

        607 GAGGAATTTG


Statistics
Matches: 52,  Mismatches: 4, Indels: 6
        0.84            0.06        0.10

Matches are distributed among these distances:
  12   40  0.77
  15   12  0.23

ACGTcount: A:0.28, C:0.00, G:0.34, T:0.38


Consensus pattern (12 bp):   
ATGATGAGTTTG

Found at i:578 original size:15 final size:14

Alignment explanation


    Indices: 514--605  Score: 64
    Period size: 12  Copynumber: 7.4  Consensus size: 14

        504 AGATGGAAGC

                          
        514 GATGATGA-TT-AT
          1 GATGATGATTTGAT

              *           
        526 GACGATGA-TT-AT
          1 GATGATGATTTGAT

                        * 
        538 GATGA-G-TTTGGT
          1 GATGATGATTTGAT

                          
        550 GATGA-G-TTTGAT
          1 GATGATGATTTGAT

                          
        562 GATGA--ATTTGAT
          1 GATGATGATTTGAT

                         *
        574 GATGA-G-TTTGAA
          1 GATGATGATTTGAT

                           
        586 GATGATGAGTTTGAT
          1 GATGATGA-TTTGAT

                 
        601 GATGA
          1 GATGA

        606 GGAGGAATTT


Statistics
Matches: 67,  Mismatches: 6, Indels: 11
        0.80            0.07        0.13

Matches are distributed among these distances:
  11    3  0.04
  12   53  0.79
  13    1  0.01
  15   10  0.15

ACGTcount: A:0.29, C:0.01, G:0.32, T:0.38


Consensus pattern (14 bp):   
GATGATGATTTGAT
Done.