Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01015371.1 Corchorus olitorius cultivar O-4 contig15404, 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: 7663
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31


Found at i:722 original size:83 final size:83

Alignment explanation


    Indices: 583--802  Score: 325
    Period size: 83  Copynumber: 2.7  Consensus size: 83

        573 TATAAAGGCA

                               * *                                         * 
        583 TGGTGCATTTGGAAAGCTAGGGATGCTAGAATCTTTCAAGGAGAAATCACTACTTTTAATATGTT
          1 TGGTGCATTTGGAAAGCTAAGAATGCTAGAATCTTTCAAGGAGAAATCACTACTTTTAATATGCT

                   *          
        648 ATTTTTGTTTATTCTTGT
         66 ATTTTTGCTTATTCTTGT

                       *            *                                 * *    
        666 TGGTGCATTTGAAAAGCTAAGAATACTAGAATCTTTCAAGGAGAAATCACTACTTTTAGTTTGCT
          1 TGGTGCATTTGGAAAGCTAAGAATGCTAGAATCTTTCAAGGAGAAATCACTACTTTTAATATGCT

                         *    
        731 ATTTTTGCTTATTGTTGT
         66 ATTTTTGCTTATTCTTGT

                              *       *                            
        749 TGGTGCATTTGGAAAG-TTAGAAATGTTAGAATCTTTCAAGGAGAAATCACTACT
          1 TGGTGCATTTGGAAAGCTAAG-AATGCTAGAATCTTTCAAGGAGAAATCACTACT

        803 CCTAGCCCTG


Statistics
Matches: 123,  Mismatches: 13, Indels: 2
        0.89            0.09        0.01

Matches are distributed among these distances:
  82    3  0.02
  83  120  0.98

ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39


Consensus pattern (83 bp):   
TGGTGCATTTGGAAAGCTAAGAATGCTAGAATCTTTCAAGGAGAAATCACTACTTTTAATATGCT
ATTTTTGCTTATTCTTGT

Found at i:5532 original size:20 final size:20

Alignment explanation


    Indices: 5491--5533  Score: 59
    Period size: 20  Copynumber: 2.1  Consensus size: 20

       5481 CTCTCACAAG

                        *    *  
       5491 TTTCTAGCCGTTGGAGCTCT
          1 TTTCTAGCCGTTAGAGCACT

                         *      
       5511 TTTCTAGCCGTTATAGCACT
          1 TTTCTAGCCGTTAGAGCACT

               
       5531 TTT
          1 TTT

       5534 TCACTTTTCC


Statistics
Matches: 20,  Mismatches: 3, Indels: 0
        0.87            0.13        0.00

Matches are distributed among these distances:
  20   20  1.00

ACGTcount: A:0.14, C:0.23, G:0.19, T:0.44


Consensus pattern (20 bp):   
TTTCTAGCCGTTAGAGCACT
Done.