Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga10g01200.F2

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: 2737
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.32


Found at i:1275 original size:16 final size:17

Alignment explanation


    Indices: 1250--1282  Score: 50
    Period size: 16  Copynumber: 2.0  Consensus size: 17

       1240 TCATGTCAGC

                 *           
       1250 ATTTTTAAAAT-ATTTT
          1 ATTTTAAAAATGATTTT

                             
       1266 ATTTTAAAAATGATTTT
          1 ATTTTAAAAATGATTTT

       1283 TTTATCTTAG


Statistics
Matches: 15,  Mismatches: 1, Indels: 1
        0.88            0.06        0.06

Matches are distributed among these distances:
  16   10  0.67
  17    5  0.33

ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58


Consensus pattern (17 bp):   
ATTTTAAAAATGATTTT

Found at i:1469 original size:2 final size:2

Alignment explanation


    Indices: 1415--1459  Score: 90
    Period size: 2  Copynumber: 22.5  Consensus size: 2

       1405 AGAAGGAATT

                                                                          
       1415 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
          1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG

                
       1457 AG A
          1 AG A

       1460 AGGGGAGAGA


Statistics
Matches: 43,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   43  1.00

ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00


Consensus pattern (2 bp):   
AG

Found at i:1915 original size:34 final size:34

Alignment explanation


    Indices: 1872--1939  Score: 127
    Period size: 34  Copynumber: 2.0  Consensus size: 34

       1862 ACCACCTATT

                                              
       1872 CATGTATTAACCCTTAGAATATATTTCTGGATTA
          1 CATGTATTAACCCTTAGAATATATTTCTGGATTA

                                      *       
       1906 CATGTATTAACCCTTAGAATATATTTTTGGATTA
          1 CATGTATTAACCCTTAGAATATATTTCTGGATTA

       1940 TTCTTCTGTT


Statistics
Matches: 33,  Mismatches: 1, Indels: 0
        0.97            0.03        0.00

Matches are distributed among these distances:
  34   33  1.00

ACGTcount: A:0.32, C:0.13, G:0.12, T:0.43


Consensus pattern (34 bp):   
CATGTATTAACCCTTAGAATATATTTCTGGATTA
Done.