Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01001217.1 Corchorus olitorius cultivar O-4 contig01217, whole genome shotgun sequence

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, 813

Length: 1355
ACGTcount: A:0.41, C:0.13, G:0.09, T:0.37


Found at i:62 original size:2 final size:2

Alignment explanation


    Indices: 12--48  Score: 74
    Period size: 2  Copynumber: 18.5  Consensus size: 2

          2 ACTATAATAG

                                                                   
         12 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
          1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T

         49 CTTACTACTA


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

Matches are distributed among these distances:
   2   35  1.00

ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51


Consensus pattern (2 bp):   
TA

Found at i:1124 original size:6 final size:6

Alignment explanation


    Indices: 1104--1188  Score: 109
    Period size: 6  Copynumber: 13.5  Consensus size: 6

       1094 TAGCTTTCGT

                                             *                          
       1104 AAAA-A AAAACAA AAAACA AAAACA AAAGCCAA AAAACAA AAAACAA AAAACA
          1 AAAACA AAAAC-A AAAACA AAAACA AAA-AC-A AAAAC-A AAAAC-A AAAACA

                                                  
       1156 AAAACA AAAACA AAAACA AAAACA AAAACA AAA
          1 AAAACA AAAACA AAAACA AAAACA AAAACA AAA

       1189 GTACGTAATT


Statistics
Matches: 74,  Mismatches: 2, Indels: 7
        0.89            0.02        0.08

Matches are distributed among these distances:
   5    4  0.05
   6   44  0.59
   7   22  0.30
   8    4  0.05

ACGTcount: A:0.84, C:0.15, G:0.01, T:0.00


Consensus pattern (6 bp):   
AAAACA

Done.