Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01000634.1 Corchorus capsularis cultivar CVL-1 contig00634, 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: 24513
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.33


Found at i:743 original size:2 final size:2

Alignment explanation


    Indices: 736--760  Score: 50
    Period size: 2  Copynumber: 12.5  Consensus size: 2

        726 CAATATCTTG

                                                 
        736 AT AT AT AT AT AT AT AT AT AT AT AT A
          1 AT AT AT AT AT AT AT AT AT AT AT AT A

        761 GAGTTAACTT


Statistics
Matches: 23,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   23  1.00

ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48


Consensus pattern (2 bp):   
AT

Found at i:2214 original size:11 final size:11

Alignment explanation


    Indices: 2181--2205  Score: 50
    Period size: 11  Copynumber: 2.3  Consensus size: 11

       2171 ATTTTCCAAG

                       
       2181 AACACAAAGAA
          1 AACACAAAGAA

                       
       2192 AACACAAAGAA
          1 AACACAAAGAA

               
       2203 AAC
          1 AAC

       2206 CCAAGGAAAT


Statistics
Matches: 14,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  11   14  1.00

ACGTcount: A:0.72, C:0.20, G:0.08, T:0.00


Consensus pattern (11 bp):   
AACACAAAGAA

Found at i:21002 original size:13 final size:13

Alignment explanation


    Indices: 20984--21009  Score: 52
    Period size: 13  Copynumber: 2.0  Consensus size: 13

      20974 TGTTGTTATT

                         
      20984 TTGTAGATCTAAA
          1 TTGTAGATCTAAA

                         
      20997 TTGTAGATCTAAA
          1 TTGTAGATCTAAA

      21010 ACTGTGTAAA


Statistics
Matches: 13,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  13   13  1.00

ACGTcount: A:0.38, C:0.08, G:0.15, T:0.38


Consensus pattern (13 bp):   
TTGTAGATCTAAA
Done.