Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga13g01415.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: 3967
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.33


Found at i:360 original size:18 final size:19

Alignment explanation


    Indices: 339--377  Score: 62
    Period size: 18  Copynumber: 2.1  Consensus size: 19

        329 ATATATAGAT

                               
        339 ATATATATTGAATA-TTGA
          1 ATATATATTGAATATTTGA

                       *       
        357 ATATATATTGATTATTTGA
          1 ATATATATTGAATATTTGA

              
        376 AT
          1 AT

        378 TGAATTGAAA


Statistics
Matches: 19,  Mismatches: 1, Indels: 1
        0.90            0.05        0.05

Matches are distributed among these distances:
  18   13  0.68
  19    6  0.32

ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49


Consensus pattern (19 bp):   
ATATATATTGAATATTTGA

Found at i:895 original size:18 final size:19

Alignment explanation


    Indices: 874--914  Score: 59
    Period size: 19  Copynumber: 2.2  Consensus size: 19

        864 AATGAAATGA

                                
        874 GAAATTGA-AT-TGAGAATT
          1 GAAATTGAGATATGAG-ATT

                               
        892 GAAATTGAGATATGAGATT
          1 GAAATTGAGATATGAGATT

                
        911 GAAA
          1 GAAA

        915 ACATGAACCA


Statistics
Matches: 21,  Mismatches: 0, Indels: 3
        0.88            0.00        0.12

Matches are distributed among these distances:
  18    8  0.38
  19    9  0.43
  20    4  0.19

ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29


Consensus pattern (19 bp):   
GAAATTGAGATATGAGATT

Found at i:3342 original size:13 final size:14

Alignment explanation


    Indices: 3305--3342  Score: 51
    Period size: 14  Copynumber: 2.8  Consensus size: 14

       3295 CCTAAGTTAC

                 *        
       3305 ATATTTCATATCAA
          1 ATATTACATATCAA

                  *       
       3319 ATATTATATATCAA
          1 ATATTACATATCAA

                       
       3333 A-ATTACATAT
          1 ATATTACATAT

       3343 AATTTACATT


Statistics
Matches: 21,  Mismatches: 3, Indels: 1
        0.84            0.12        0.04

Matches are distributed among these distances:
  13    8  0.38
  14   13  0.62

ACGTcount: A:0.47, C:0.11, G:0.00, T:0.42


Consensus pattern (14 bp):   
ATATTACATATCAA
Done.