Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01006438.1 Corchorus capsularis cultivar CVL-1 contig06459, 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: 19396
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.33


Found at i:3733 original size:23 final size:23

Alignment explanation


    Indices: 3707--3753  Score: 76
    Period size: 23  Copynumber: 2.0  Consensus size: 23

       3697 AATTAAATTG

                           *       
       3707 CATCAAAACAGTCACTAATAACC
          1 CATCAAAACAGTCACCAATAACC

                             *     
       3730 CATCAAAACAGTCACCACTAACC
          1 CATCAAAACAGTCACCAATAACC

             
       3753 C
          1 C

       3754 TCTTCCTCCA


Statistics
Matches: 22,  Mismatches: 2, Indels: 0
        0.92            0.08        0.00

Matches are distributed among these distances:
  23   22  1.00

ACGTcount: A:0.45, C:0.36, G:0.04, T:0.15


Consensus pattern (23 bp):   
CATCAAAACAGTCACCAATAACC

Found at i:9756 original size:23 final size:21

Alignment explanation


    Indices: 9726--9769  Score: 61
    Period size: 22  Copynumber: 2.0  Consensus size: 21

       9716 AAGCTTCATA

                                  
       9726 TATATTAAACTAAAAAACTTTT
          1 TATATT-AACTAAAAAACTTTT

                            *     
       9748 TATAGTTAACTAAAAAGCTTTT
          1 TATA-TTAACTAAAAAACTTTT

       9770 GAGCAATTGT


Statistics
Matches: 20,  Mismatches: 1, Indels: 2
        0.87            0.04        0.09

Matches are distributed among these distances:
  22   18  0.90
  23    2  0.10

ACGTcount: A:0.45, C:0.09, G:0.05, T:0.41


Consensus pattern (21 bp):   
TATATTAACTAAAAAACTTTT

Found at i:13947 original size:8 final size:8

Alignment explanation


    Indices: 13934--13960  Score: 54
    Period size: 8  Copynumber: 3.4  Consensus size: 8

      13924 TATTTTATTT

                    
      13934 TTAAAAAG
          1 TTAAAAAG

                    
      13942 TTAAAAAG
          1 TTAAAAAG

                    
      13950 TTAAAAAG
          1 TTAAAAAG

               
      13958 TTA
          1 TTA

      13961 TTGTGATTTA


Statistics
Matches: 19,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   8   19  1.00

ACGTcount: A:0.59, C:0.00, G:0.11, T:0.30


Consensus pattern (8 bp):   
TTAAAAAG
Done.