Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01011868.1 Corchorus capsularis cultivar CVL-1 contig11889, 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: 25757
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32


Found at i:12823 original size:22 final size:22

Alignment explanation


    Indices: 12797--12842  Score: 92
    Period size: 22  Copynumber: 2.1  Consensus size: 22

      12787 ATTCCTTCTT

                                  
      12797 ATAACCATTCTTCCTGTCCATG
          1 ATAACCATTCTTCCTGTCCATG

                                  
      12819 ATAACCATTCTTCCTGTCCATG
          1 ATAACCATTCTTCCTGTCCATG

              
      12841 AT
          1 AT

      12843 TATTAGTATG


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

Matches are distributed among these distances:
  22   24  1.00

ACGTcount: A:0.24, C:0.30, G:0.09, T:0.37


Consensus pattern (22 bp):   
ATAACCATTCTTCCTGTCCATG

Found at i:20005 original size:11 final size:11

Alignment explanation


    Indices: 19991--20028  Score: 51
    Period size: 11  Copynumber: 3.5  Consensus size: 11

      19981 ATTCATAACA

                       
      19991 AATTTATAATT
          1 AATTTATAATT

                       
      20002 AATTTATAATT
          1 AATTTATAATT

                        
      20013 -ATTTGATAATT
          1 AATTT-ATAATT

            *    
      20024 TATTT
          1 AATTT

      20029 TATATAGGAA


Statistics
Matches: 25,  Mismatches: 0, Indels: 3
        0.89            0.00        0.11

Matches are distributed among these distances:
  10    4  0.16
  11   17  0.68
  12    4  0.16

ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58


Consensus pattern (11 bp):   
AATTTATAATT

Found at i:25719 original size:2 final size:2

Alignment explanation


    Indices: 25709--25751  Score: 79
    Period size: 2  Copynumber: 22.0  Consensus size: 2

      25699 TTTTTTTAAG

                                                                          
      25709 AT AT A- AT AT AT AT AT 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 AT AT AT AT AT AT AT AT

              
      25750 AT
          1 AT

      25752 TAATAC


Statistics
Matches: 40,  Mismatches: 0, Indels: 2
        0.95            0.00        0.05

Matches are distributed among these distances:
   1    1  0.03
   2   39  0.98

ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49


Consensus pattern (2 bp):   
AT

Done.