Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01024142.1 Corchorus olitorius cultivar O-4 contig24175, 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: 15087
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.33


Found at i:3624 original size:30 final size:30

Alignment explanation


    Indices: 3590--3653  Score: 119
    Period size: 30  Copynumber: 2.1  Consensus size: 30

       3580 TATGTATGTT

                                          
       3590 CATTATCATGTATCTAAATTAATTAAGATA
          1 CATTATCATGTATCTAAATTAATTAAGATA

                            *             
       3620 CATTATCATGTATCTACATTAATTAAGATA
          1 CATTATCATGTATCTAAATTAATTAAGATA

                
       3650 CATT
          1 CATT

       3654 GTGATAAGGA


Statistics
Matches: 33,  Mismatches: 1, Indels: 0
        0.97            0.03        0.00

Matches are distributed among these distances:
  30   33  1.00

ACGTcount: A:0.41, C:0.12, G:0.06, T:0.41


Consensus pattern (30 bp):   
CATTATCATGTATCTAAATTAATTAAGATA

Found at i:13383 original size:21 final size:21

Alignment explanation


    Indices: 13357--13400  Score: 61
    Period size: 21  Copynumber: 2.1  Consensus size: 21

      13347 TTCATGTTGT

                  *   *          
      13357 TTTTCTTCAATTCCTTTTCCC
          1 TTTTCTACAACTCCTTTTCCC

                   *             
      13378 TTTTCTAGAACTCCTTTTCCC
          1 TTTTCTACAACTCCTTTTCCC

              
      13399 TT
          1 TT

      13401 GCATTGTTTA


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

Matches are distributed among these distances:
  21   20  1.00

ACGTcount: A:0.11, C:0.32, G:0.02, T:0.55


Consensus pattern (21 bp):   
TTTTCTACAACTCCTTTTCCC

Found at i:14458 original size:33 final size:33

Alignment explanation


    Indices: 14408--14476  Score: 111
    Period size: 33  Copynumber: 2.1  Consensus size: 33

      14398 ACAAAGTTTA

                    *   *       *            
      14408 TTTATCATGCATGATCTCCTTCTTCTACCTTTC
          1 TTTATCATACATAATCTCCTCCTTCTACCTTTC

                                             
      14441 TTTATCATACATAATCTCCTCCTTCTACCTTTC
          1 TTTATCATACATAATCTCCTCCTTCTACCTTTC

               
      14474 TTT
          1 TTT

      14477 TATTATTAAA


Statistics
Matches: 33,  Mismatches: 3, Indels: 0
        0.92            0.08        0.00

Matches are distributed among these distances:
  33   33  1.00

ACGTcount: A:0.17, C:0.30, G:0.03, T:0.49


Consensus pattern (33 bp):   
TTTATCATACATAATCTCCTCCTTCTACCTTTC
Done.