Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga11g00138.N2

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, 961

Length: 1602
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32


Found at i:1350 original size:18 final size:18

Alignment explanation


    Indices: 1327--1398  Score: 99
    Period size: 18  Copynumber: 4.0  Consensus size: 18

       1317 ATCGTTTACG

                              
       1327 GTACTATTCACGTATACA
          1 GTACTATTCACGTATACA

                       *     *
       1345 GTACTATTCACATATACG
          1 GTACTATTCACGTATACA

             *               *
       1363 GCACTATTCACGTATACG
          1 GTACTATTCACGTATACA

                 *            
       1381 GTACTGTTCACGTATACA
          1 GTACTATTCACGTATACA

       1399 ATAGTTGGGA


Statistics
Matches: 47,  Mismatches: 7, Indels: 0
        0.87            0.13        0.00

Matches are distributed among these distances:
  18   47  1.00

ACGTcount: A:0.31, C:0.24, G:0.14, T:0.32


Consensus pattern (18 bp):   
GTACTATTCACGTATACA

Found at i:1370 original size:36 final size:36

Alignment explanation


    Indices: 1323--1397  Score: 114
    Period size: 36  Copynumber: 2.1  Consensus size: 36

       1313 TACGATCGTT

                 *                              
       1323 TACGGTACTATTCACGTATACAGTACTATTCACATA
          1 TACGGCACTATTCACGTATACAGTACTATTCACATA

                                 *     *     *  
       1359 TACGGCACTATTCACGTATACGGTACTGTTCACGTA
          1 TACGGCACTATTCACGTATACAGTACTATTCACATA

               
       1395 TAC
          1 TAC

       1398 AATAGTTGGG


Statistics
Matches: 35,  Mismatches: 4, Indels: 0
        0.90            0.10        0.00

Matches are distributed among these distances:
  36   35  1.00

ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32


Consensus pattern (36 bp):   
TACGGCACTATTCACGTATACAGTACTATTCACATA
Done.