Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01024401.1 Corchorus olitorius cultivar O-4 contig24434, 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, 1000

Length: 4346
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.35


Found at i:3119 original size:18 final size:18

Alignment explanation


    Indices: 3084--3120  Score: 56
    Period size: 18  Copynumber: 2.1  Consensus size: 18

       3074 TAATTAAAAT

                         *    
       3084 TTAAAATTTCCAACTTAA
          1 TTAAAATTTCCAAATTAA

                      *       
       3102 TTAAAATTTCTAAATTAA
          1 TTAAAATTTCCAAATTAA

             
       3120 T
          1 T

       3121 ATAGAGGTGA


Statistics
Matches: 17,  Mismatches: 2, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  18   17  1.00

ACGTcount: A:0.46, C:0.11, G:0.00, T:0.43


Consensus pattern (18 bp):   
TTAAAATTTCCAAATTAA

Found at i:4059 original size:2 final size:2

Alignment explanation


    Indices: 4040--4085  Score: 60
    Period size: 2  Copynumber: 24.0  Consensus size: 2

       4030 AGTTTAGACT

                              *  *                                        
       4040 TA TA TA -A TA TA AA GA TA TA TA TA TA TA TA TA TA TA TA TA TA
          1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA

                    
       4081 -A TA TA
          1 TA TA TA

       4086 CAAGAGGCGG


Statistics
Matches: 39,  Mismatches: 3, Indels: 4
        0.85            0.07        0.09

Matches are distributed among these distances:
   1    2  0.05
   2   37  0.95

ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43


Consensus pattern (2 bp):   
TA

Done.