Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga12g02397.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, 658

Length: 1097
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.38


Found at i:409 original size:21 final size:20

Alignment explanation


    Indices: 371--410  Score: 55
    Period size: 20  Copynumber: 1.9  Consensus size: 20

        361 ACGTTCCTCT

                                
        371 TATTTCTTTTTTTTTCTTTA
          1 TATTTCTTTTTTTTTCTTTA

                                 
        391 TATTT-TTTTCTTCTTTCTTT
          1 TATTTCTTTT-TT-TTTCTTT

        411 GACTTTGTTT


Statistics
Matches: 18,  Mismatches: 0, Indels: 3
        0.86            0.00        0.14

Matches are distributed among these distances:
  19    4  0.22
  20    7  0.39
  21    7  0.39

ACGTcount: A:0.07, C:0.12, G:0.00, T:0.80


Consensus pattern (20 bp):   
TATTTCTTTTTTTTTCTTTA

Found at i:1072 original size:28 final size:29

Alignment explanation


    Indices: 1001--1072  Score: 71
    Period size: 28  Copynumber: 2.5  Consensus size: 29

        991 TGTTAATGAT

                                          
       1001 TGTTTTGTTATTTTCGTAAAGTTTAGTGAC
          1 TGTTTTGTTATTTTCG-AAAGTTTAGTGAC

                     *                      
       1031 TAG--TTGTAACTTTTC-AAAGTTTAGT-ATC
          1 T-GTTTTGTTA-TTTTCGAAAGTTTAGTGA-C

                          
       1059 TGTTTTGTTATTTT
          1 TGTTTTGTTATTTT

       1073 AATCAAAGTT


Statistics
Matches: 35,  Mismatches: 2, Indels: 12
        0.71            0.04        0.24

Matches are distributed among these distances:
  27    2  0.06
  28   16  0.46
  29   10  0.29
  30    6  0.17
  31    1  0.03

ACGTcount: A:0.21, C:0.07, G:0.17, T:0.56


Consensus pattern (29 bp):   
TGTTTTGTTATTTTCGAAAGTTTAGTGAC
Done.