Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01004979.1 Corchorus capsularis cultivar CVL-1 contig04997, 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: 2773
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.30


Found at i:1873 original size:2 final size:2

Alignment explanation


    Indices: 1866--1891  Score: 52
    Period size: 2  Copynumber: 13.0  Consensus size: 2

       1856 GTAAGATAAG

                                                  
       1866 AT AT AT AT AT AT AT AT AT AT AT AT AT
          1 AT AT AT AT AT AT AT AT AT AT AT AT AT

       1892 TTGATAAATT


Statistics
Matches: 24,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   24  1.00

ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50


Consensus pattern (2 bp):   
AT

Found at i:2757 original size:10 final size:11

Alignment explanation


    Indices: 2740--2771  Score: 57
    Period size: 10  Copynumber: 3.0  Consensus size: 11

       2730 TCGTATAATG

                       
       2740 TAAAAATAAAA
          1 TAAAAATAAAA

                       
       2751 T-AAAATAAAA
          1 TAAAAATAAAA

                       
       2761 TAAAAATAAAA
          1 TAAAAATAAAA

       2772 AA


Statistics
Matches: 20,  Mismatches: 0, Indels: 2
        0.91            0.00        0.09

Matches are distributed among these distances:
  10   10  0.50
  11   10  0.50

ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19


Consensus pattern (11 bp):   
TAAAAATAAAA

Found at i:2772 original size:6 final size:5

Alignment explanation


    Indices: 2742--2771  Score: 51
    Period size: 5  Copynumber: 5.8  Consensus size: 5

       2732 GTATAATGTA

                                               
       2742 AAAAT AAAAT AAAAT AAAAT AAAAAT AAAA
          1 AAAAT AAAAT AAAAT AAAAT -AAAAT AAAA

       2772 AA


Statistics
Matches: 24,  Mismatches: 0, Indels: 2
        0.92            0.00        0.08

Matches are distributed among these distances:
   5   19  0.79
   6    5  0.21

ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17


Consensus pattern (5 bp):   
AAAAT
Done.