Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01013490.1 Corchorus capsularis cultivar CVL-1 contig13511, 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: 11334
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33


Found at i:3905 original size:14 final size:14

Alignment explanation


    Indices: 3886--3914  Score: 58
    Period size: 14  Copynumber: 2.1  Consensus size: 14

       3876 TTTCTTAAAT

                          
       3886 AGTATTATTTACCC
          1 AGTATTATTTACCC

                          
       3900 AGTATTATTTACCC
          1 AGTATTATTTACCC

             
       3914 A
          1 A

       3915 TCCTTTGTTT


Statistics
Matches: 15,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  14   15  1.00

ACGTcount: A:0.31, C:0.21, G:0.07, T:0.41


Consensus pattern (14 bp):   
AGTATTATTTACCC

Found at i:10497 original size:11 final size:11

Alignment explanation


    Indices: 10481--10524  Score: 61
    Period size: 11  Copynumber: 4.0  Consensus size: 11

      10471 CTATATATAT

                      *
      10481 CTAATTAATAG
          1 CTAATTAATAA

                      *
      10492 CTAATTAATAT
          1 CTAATTAATAA

                       
      10503 CTAATTAATAA
          1 CTAATTAATAA

            *          
      10514 TTAATTAATAA
          1 CTAATTAATAA

      10525 TGAATAAATT


Statistics
Matches: 30,  Mismatches: 3, Indels: 0
        0.91            0.09        0.00

Matches are distributed among these distances:
  11   30  1.00

ACGTcount: A:0.50, C:0.07, G:0.02, T:0.41


Consensus pattern (11 bp):   
CTAATTAATAA

Found at i:10502 original size:22 final size:22

Alignment explanation


    Indices: 10477--10523  Score: 76
    Period size: 22  Copynumber: 2.1  Consensus size: 22

      10467 TATACTATAT

                          *       
      10477 ATATCTAATTAATAGCTAATTA
          1 ATATCTAATTAATAACTAATTA

                           *      
      10499 ATATCTAATTAATAATTAATTA
          1 ATATCTAATTAATAACTAATTA

               
      10521 ATA
          1 ATA

      10524 ATGAATAAAT


Statistics
Matches: 23,  Mismatches: 2, Indels: 0
        0.92            0.08        0.00

Matches are distributed among these distances:
  22   23  1.00

ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43


Consensus pattern (22 bp):   
ATATCTAATTAATAACTAATTA

Done.