Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01013271.1 Corchorus olitorius cultivar O-4 contig13304, 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: 4777
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33


Found at i:2764 original size:22 final size:22

Alignment explanation


    Indices: 2739--2787  Score: 73
    Period size: 22  Copynumber: 2.2  Consensus size: 22

       2729 AAGTTTTGTG

                                   
       2739 TTTTGCGTCGAAAAAAAAATTAT
          1 TTTTGCGTC-AAAAAAAAATTAT

                      *           
       2762 TTTTGCGTCATAAAAAAATT-T
          1 TTTTGCGTCAAAAAAAAATTAT

                 
       2783 TTTTG
          1 TTTTG

       2788 TTTCTGCGTC


Statistics
Matches: 25,  Mismatches: 1, Indels: 2
        0.89            0.04        0.07

Matches are distributed among these distances:
  21    6  0.24
  22   10  0.40
  23    9  0.36

ACGTcount: A:0.37, C:0.08, G:0.12, T:0.43


Consensus pattern (22 bp):   
TTTTGCGTCAAAAAAAAATTAT

Found at i:2815 original size:50 final size:48

Alignment explanation


    Indices: 2724--2819  Score: 115
    Period size: 50  Copynumber: 1.9  Consensus size: 48

       2714 GTCAAAGAAA

                                                             
       2724 AAAAAAAGTTTTGTGTTTTGCGTCGAAAAAAAAATTATTTTTGCGTCAT
          1 AAAAAAAGTTTTGTGTTTTGCGTCGAAAAAAAAA-TATTTTTGCGTCAT

                   *    *                                    
       2773 AAAAAAATTTTTTTGTTTCTGCGTC-ATAAAAAAGAA-AGTTTTTGCGT
          1 AAAAAAAGTTTTGTGTTT-TGCGTCGA-AAAAAA-AATA-TTTTTGCGT

       2820 TTTTCTAAAA


Statistics
Matches: 41,  Mismatches: 2, Indels: 7
        0.82            0.04        0.14

Matches are distributed among these distances:
  49   18  0.44
  50   21  0.51
  51    2  0.05

ACGTcount: A:0.36, C:0.08, G:0.16, T:0.40


Consensus pattern (48 bp):   
AAAAAAAGTTTTGTGTTTTGCGTCGAAAAAAAAATATTTTTGCGTCAT
Done.