Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01001211.1 Corchorus capsularis cultivar CVL-1 contig01211, 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: 10881
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.30


Found at i:2005 original size:13 final size:12

Alignment explanation


    Indices: 1987--2019  Score: 57
    Period size: 13  Copynumber: 2.7  Consensus size: 12

       1977 GCTAATTTAC

                        
       1987 AAAAAATAAAAA
          1 AAAAAATAAAAA

                         
       1999 TAAAAAATAAAAA
          1 -AAAAAATAAAAA

                    
       2012 AAAAAATA
          1 AAAAAATA

       2020 TCCAAAATGA


Statistics
Matches: 20,  Mismatches: 0, Indels: 1
        0.95            0.00        0.05

Matches are distributed among these distances:
  12    8  0.40
  13   12  0.60

ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12


Consensus pattern (12 bp):   
AAAAAATAAAAA

Found at i:9964 original size:15 final size:15

Alignment explanation


    Indices: 9914--9977  Score: 60
    Period size: 15  Copynumber: 4.3  Consensus size: 15

       9904 AAATAATATT

                     *     
       9914 TTAATTATTCCATTA
          1 TTAATTATTACATTA

               *  *      * 
       9929 TT-TTTTTTA-ATCA
          1 TTAATTATTACATTA

             *             
       9942 TAAATTATTACATTA
          1 TTAATTATTACATTA

                           
       9957 TTAATTATTACATTA
          1 TTAATTATTACATTA

                  
       9972 TATAAT
          1 T-TAAT

       9978 ACGTATATTA


Statistics
Matches: 37,  Mismatches: 9, Indels: 5
        0.73            0.18        0.10

Matches are distributed among these distances:
  13    4  0.11
  14    9  0.24
  15   20  0.54
  16    4  0.11

ACGTcount: A:0.38, C:0.08, G:0.00, T:0.55


Consensus pattern (15 bp):   
TTAATTATTACATTA
Done.