Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01005803.1 Corchorus capsularis cultivar CVL-1 contig05821, 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: 2126
ACGTcount: A:0.37, C:0.14, G:0.25, T:0.24


Found at i:2069 original size:22 final size:22

Alignment explanation


    Indices: 2042--2111  Score: 79
    Period size: 22  Copynumber: 3.2  Consensus size: 22

       2032 ATGCAAACAA

                          *       
       2042 TAAAAAGTAAAAAGATAATCAG
          1 TAAAAAGTAAAAAGGTAATCAG

                                 * 
       2064 TAAAAAGTAAAAAAGGT-ATCTG
          1 TAAAAAGT-AAAAAGGTAATCAG

                *       *      *  
       2086 TAAAGAGTAAAATGGTAATTAG
          1 TAAAAAGTAAAAAGGTAATCAG

                
       2108 TAAA
          1 TAAA

       2112 GAATAAAGTG


Statistics
Matches: 40,  Mismatches: 6, Indels: 4
        0.80            0.12        0.08

Matches are distributed among these distances:
  21    7  0.17
  22   26  0.65
  23    7  0.17

ACGTcount: A:0.57, C:0.03, G:0.17, T:0.23


Consensus pattern (22 bp):   
TAAAAAGTAAAAAGGTAATCAG

Found at i:2126 original size:22 final size:22

Alignment explanation


    Indices: 2085--2126  Score: 57
    Period size: 22  Copynumber: 1.9  Consensus size: 22

       2075 AAAGGTATCT

                   *       *      
       2085 GTAAAGAGTAAAATGGTAATTA
          1 GTAAAGAATAAAATGATAATTA

                        *       
       2107 GTAAAGAATAAAGTGATAAT
          1 GTAAAGAATAAAATGATAAT


Statistics
Matches: 17,  Mismatches: 3, Indels: 0
        0.85            0.15        0.00

Matches are distributed among these distances:
  22   17  1.00

ACGTcount: A:0.52, C:0.00, G:0.21, T:0.26


Consensus pattern (22 bp):   
GTAAAGAATAAAATGATAATTA
Done.