Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga11g02113.C1

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, 960

Length: 1600
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30


Found at i:1112 original size:42 final size:42

Alignment explanation


    Indices: 1046--1129  Score: 114
    Period size: 42  Copynumber: 2.0  Consensus size: 42

       1036 GCTATGCATC

                           *                *         
       1046 GTAACGAGTGGGTGGGAAACGCTGACCGCTGGGTTGCCGGAT
          1 GTAACGAGTGGGTGGAAAACGCTGACCGCTGGCTTGCCGGAT

                *    *         *     *                
       1088 GTAATGAGTTGGTGGAAAATGCTGATCGCTGGCTTGCCGGAT
          1 GTAACGAGTGGGTGGAAAACGCTGACCGCTGGCTTGCCGGAT

       1130 TTCTTGAGGT


Statistics
Matches: 36,  Mismatches: 6, Indels: 0
        0.86            0.14        0.00

Matches are distributed among these distances:
  42   36  1.00

ACGTcount: A:0.20, C:0.17, G:0.39, T:0.24


Consensus pattern (42 bp):   
GTAACGAGTGGGTGGAAAACGCTGACCGCTGGCTTGCCGGAT

Found at i:1390 original size:12 final size:12

Alignment explanation


    Indices: 1352--1397  Score: 51
    Period size: 12  Copynumber: 3.8  Consensus size: 12

       1342 TATGACCAGA

                         
       1352 AAGACAGAAAAA-
          1 AAGA-AGAAAAAG

             *           
       1364 ATGAA-AAAAAGG
          1 AAGAAGAAAAA-G

                        
       1376 AAGAAGAAAAAG
          1 AAGAAGAAAAAG

                      
       1388 AAGAAGAAAA
          1 AAGAAGAAAA

       1398 CAAACAAACT


Statistics
Matches: 29,  Mismatches: 2, Indels: 6
        0.78            0.05        0.16

Matches are distributed among these distances:
  10    5  0.17
  11    1  0.03
  12   18  0.62
  13    5  0.17

ACGTcount: A:0.74, C:0.02, G:0.22, T:0.02


Consensus pattern (12 bp):   
AAGAAGAAAAAG
Done.