Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_02160

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, 853

Length: 1422
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31


Found at i:831 original size:3 final size:3

Alignment explanation


    Indices: 823--874  Score: 104
    Period size: 3  Copynumber: 17.3  Consensus size: 3

        813 GGAGAACTTA

                                                                           
        823 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
          1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT

                 
        871 GAT G
          1 GAT G

        875 GTGGTGGTGG


Statistics
Matches: 49,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   3   49  1.00

ACGTcount: A:0.33, C:0.00, G:0.35, T:0.33


Consensus pattern (3 bp):   
GAT

Found at i:879 original size:3 final size:3

Alignment explanation


    Indices: 873--910  Score: 76
    Period size: 3  Copynumber: 12.7  Consensus size: 3

        863 ATGATGATGA

                                                              
        873 TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TG
          1 TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TG

        911 ATGATGATGA


Statistics
Matches: 35,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   3   35  1.00

ACGTcount: A:0.00, C:0.00, G:0.66, T:0.34


Consensus pattern (3 bp):   
TGG

Done.