Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga04g00602.N1

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: 2314
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.38


Found at i:70 original size:5 final size:5

Alignment explanation


    Indices: 60--96  Score: 56
    Period size: 5  Copynumber: 7.2  Consensus size: 5

         50 GCTCAAAAGA

                                        *               
         60 TTTAT TTTAT TTTAT TTTAT TTTAA TTTAT TGTTAT T
          1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT T-TTAT T

         97 GCTATTGCTA


Statistics
Matches: 29,  Mismatches: 2, Indels: 1
        0.91            0.06        0.03

Matches are distributed among these distances:
   5   24  0.83
   6    5  0.17

ACGTcount: A:0.22, C:0.00, G:0.03, T:0.76


Consensus pattern (5 bp):   
TTTAT

Found at i:128 original size:6 final size:6

Alignment explanation


    Indices: 87--128  Score: 75
    Period size: 6  Copynumber: 7.0  Consensus size: 6

         77 TATTTTAATT

                 *                                          
         87 TATTGT TATTGC TATTGC TATTGC TATTGC TATTGC TATTGC
          1 TATTGC TATTGC TATTGC TATTGC TATTGC TATTGC TATTGC

        129 AATTTCTCAC


Statistics
Matches: 35,  Mismatches: 1, Indels: 0
        0.97            0.03        0.00

Matches are distributed among these distances:
   6   35  1.00

ACGTcount: A:0.17, C:0.14, G:0.17, T:0.52


Consensus pattern (6 bp):   
TATTGC

Found at i:1008 original size:111 final size:110

Alignment explanation


    Indices: 815--1039  Score: 369
    Period size: 111  Copynumber: 2.0  Consensus size: 110

        805 GGTGTTTATA

                  *   *                   *                                  
        815 TTGGATGTTCGTTGCTTAATAGATGGTTCTGTATTGAATATTAATAATGGCTCCTACAGTAATGA
          1 TTGGATATTCATTGCTTAATAGATGGTTCTATATTGAATATTAATAATGGCTCCTACAGTAATGA

               * *                               *       
        880 AAAGTGACTATTGTTCTTTTTTCTTCTTCAAGCTTTTTAGATATT
         66 AAAATAACTATTGTTCTTTTTTCTTCTTCAAGCTTTTAAGATATT

                                                                             
        925 TTGGATATTCATTGCTTAATTAGATGGTTCTATATTGAATATTAATAATGGCTCCTACAGTAATG
          1 TTGGATATTCATTGCTTAA-TAGATGGTTCTATATTGAATATTAATAATGGCTCCTACAGTAATG

                    * *                                   
        990 AAAAATAATTGTTGTTCTTTTTTCTTCTTCAAGCTTTTAAGATATT
         65 AAAAATAACTATTGTTCTTTTTTCTTCTTCAAGCTTTTAAGATATT

                
       1036 TTGG
          1 TTGG

       1040 TTATATATGT


Statistics
Matches: 106,  Mismatches: 8, Indels: 1
        0.92            0.07        0.01

Matches are distributed among these distances:
 110   17  0.16
 111   89  0.84

ACGTcount: A:0.27, C:0.11, G:0.16, T:0.46


Consensus pattern (110 bp):   
TTGGATATTCATTGCTTAATAGATGGTTCTATATTGAATATTAATAATGGCTCCTACAGTAATGA
AAAATAACTATTGTTCTTTTTTCTTCTTCAAGCTTTTAAGATATT
Done.