Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01003692.1 Corchorus capsularis cultivar CVL-1 contig03700, 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, 624

Length: 1041
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.35


Found at i:431 original size:8 final size:8

Alignment explanation


    Indices: 418--451  Score: 50
    Period size: 8  Copynumber: 4.1  Consensus size: 8

        408 CACCTTCTTG

                    
        418 AAAAATTC
          1 AAAAATTC

                    
        426 AAAAATTC
          1 AAAAATTC

                 *   
        434 AGAAACTTC
          1 A-AAAATTC

                    
        443 AAAAATTC
          1 AAAAATTC

             
        451 A
          1 A

        452 TAGCCGATTC


Statistics
Matches: 23,  Mismatches: 2, Indels: 2
        0.85            0.07        0.07

Matches are distributed among these distances:
   8   16  0.70
   9    7  0.30

ACGTcount: A:0.59, C:0.15, G:0.03, T:0.24


Consensus pattern (8 bp):   
AAAAATTC

Found at i:538 original size:9 final size:9

Alignment explanation


    Indices: 524--555  Score: 55
    Period size: 9  Copynumber: 3.4  Consensus size: 9

        514 AGTTATATCG

                     
        524 AAAAATAAA
          1 AAAAATAAA

                      
        533 AAAAATAAAA
          1 AAAAAT-AAA

                     
        543 AAAAATAAA
          1 AAAAATAAA

                
        552 AAAA
          1 AAAA

        556 TTTCGACCAG


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

Matches are distributed among these distances:
   9   13  0.59
  10    9  0.41

ACGTcount: A:0.91, C:0.00, G:0.00, T:0.09


Consensus pattern (9 bp):   
AAAAATAAA

Found at i:543 original size:10 final size:10

Alignment explanation


    Indices: 524--555  Score: 57
    Period size: 10  Copynumber: 3.3  Consensus size: 10

        514 AGTTATATCG

                      
        524 AAAAAT-AAA
          1 AAAAATAAAA

                      
        533 AAAAATAAAA
          1 AAAAATAAAA

                      
        543 AAAAATAAAA
          1 AAAAATAAAA

               
        553 AAA
          1 AAA

        556 TTTCGACCAG


Statistics
Matches: 22,  Mismatches: 0, Indels: 1
        0.96            0.00        0.04

Matches are distributed among these distances:
   9    6  0.27
  10   16  0.73

ACGTcount: A:0.91, C:0.00, G:0.00, T:0.09


Consensus pattern (10 bp):   
AAAAATAAAA
Done.