Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga12g01321.P4

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: 8915
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.31


Found at i:807 original size:52 final size:50

Alignment explanation


    Indices: 701--809  Score: 132
    Period size: 50  Copynumber: 2.1  Consensus size: 50

        691 AATTAACCCA

                *                         *                   
        701 GGATGGATTAAACTGCTATGTCCTAATTAGTACATTCACAATGATAAAAT
          1 GGATAGATTAAACTGCTATGTCCTAATTAGAACATTCACAATGATAAAAT

                       *          *                               
        751 GGATAGATTAACCTGCTATGT-TTAATTAGGAACATATGCACAATGA-AAAGAT
          1 GGATAGATTAAACTGCTATGTCCTAATTA-GAACAT-T-CACAATGATAAA-AT

                   
        803 GGATAGA
          1 GGATAGA

        810 CACAGAACTT


Statistics
Matches: 51,  Mismatches: 4, Indels: 6
        0.84            0.07        0.10

Matches are distributed among these distances:
  49    6  0.12
  50   24  0.47
  51    4  0.08
  52   17  0.33

ACGTcount: A:0.39, C:0.12, G:0.19, T:0.29


Consensus pattern (50 bp):   
GGATAGATTAAACTGCTATGTCCTAATTAGAACATTCACAATGATAAAAT

Found at i:2159 original size:79 final size:78

Alignment explanation


    Indices: 2003--2160  Score: 192
    Period size: 79  Copynumber: 2.0  Consensus size: 78

       1993 CCTACATGTG

                       *    *    *      *                                    
       2003 AACAACCACACTAGGGTCGTGTACCTTACATACGATTAGGCGAGAAGAACAACATTACAAAACCT
          1 AACAACCACACCAGGGCCGTGCACCTTAAATACGATTAGGCGAGAAGAACAACATTACAAAACCT

                  **     
       2068 AGGTTTTTATACC
         66 AGGTTTAGATACC

                                             *                **             
       2081 AACAACCACACCAGAGGCCGTGCACCTTAAATAGGATTAGGC-AGGAAGAGTAACATTACAAAAC
          1 AACAACCACACCAG-GGCCGTGCACCTTAAATACGATTAGGCGA-GAAGAACAACATTACAAAAC

            * *            
       2145 TTGGGTTTAGATACC
         64 CTAGGTTTAGATACC

             
       2160 A
          1 A

       2161 TGTTCAGCAT


Statistics
Matches: 67,  Mismatches: 11, Indels: 3
        0.83            0.14        0.04

Matches are distributed among these distances:
  78   14  0.21
  79   53  0.79

ACGTcount: A:0.38, C:0.22, G:0.19, T:0.21


Consensus pattern (78 bp):   
AACAACCACACCAGGGCCGTGCACCTTAAATACGATTAGGCGAGAAGAACAACATTACAAAACCT
AGGTTTAGATACC
Done.