Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga01g01538.F1

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: 3450
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.38


Found at i:21 original size:14 final size:14

Alignment explanation


    Indices: 2--31  Score: 51
    Period size: 14  Copynumber: 2.1  Consensus size: 14

          1 C

                     *    
          2 CCCCAAATCGAAAT
          1 CCCCAAATCAAAAT

                          
         16 CCCCAAATCAAAAT
          1 CCCCAAATCAAAAT

              
         30 CC
          1 CC

         32 TTCCACCATT


Statistics
Matches: 15,  Mismatches: 1, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  14   15  1.00

ACGTcount: A:0.43, C:0.40, G:0.03, T:0.13


Consensus pattern (14 bp):   
CCCCAAATCAAAAT

Found at i:118 original size:14 final size:14

Alignment explanation


    Indices: 99--142  Score: 70
    Period size: 14  Copynumber: 3.1  Consensus size: 14

         89 ATTTCTTGCT

                          
         99 TCTCTAAATCTCCA
          1 TCTCTAAATCTCCA

                        **
        113 TCTCTAAATCTCTT
          1 TCTCTAAATCTCCA

                          
        127 TCTCTAAATCTCCA
          1 TCTCTAAATCTCCA

              
        141 TC
          1 TC

        143 CCTTTGATTT


Statistics
Matches: 26,  Mismatches: 4, Indels: 0
        0.87            0.13        0.00

Matches are distributed among these distances:
  14   26  1.00

ACGTcount: A:0.25, C:0.34, G:0.00, T:0.41


Consensus pattern (14 bp):   
TCTCTAAATCTCCA

Found at i:2621 original size:22 final size:23

Alignment explanation


    Indices: 2570--2622  Score: 67
    Period size: 22  Copynumber: 2.4  Consensus size: 23

       2560 AGAAAACCAT

                                   
       2570 TTTAT-GTGTTAAATGCTGAAAA
          1 TTTATGGTGTTAAATGCTGAAAA

                              * *  
       2592 TTTA-GGTGTTAAATG-TTATAA
          1 TTTATGGTGTTAAATGCTGAAAA

                      
       2613 TTTATGGTGT
          1 TTTATGGTGT

       2623 CTGAAAGTTG


Statistics
Matches: 27,  Mismatches: 2, Indels: 4
        0.82            0.06        0.12

Matches are distributed among these distances:
  21    8  0.30
  22   19  0.70

ACGTcount: A:0.30, C:0.02, G:0.21, T:0.47


Consensus pattern (23 bp):   
TTTATGGTGTTAAATGCTGAAAA
Done.