Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01013744.1 Corchorus capsularis cultivar CVL-1 contig13765, 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: 3791
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30


Found at i:1985 original size:33 final size:33

Alignment explanation


    Indices: 1935--2058  Score: 144
    Period size: 33  Copynumber: 3.7  Consensus size: 33

       1925 CCGCGCAACA

                                              *
       1935 CCGGCCACAAGACCGGCCACGCGACATGGACATGT
          1 CCGGCCAC-A-ACCGGCCACGCGACATGGACATGC

                                             *
       1970 CCGGCCATC-ACCGGCCACGCGACATGGACATGG
          1 CCGGCCA-CAACCGGCCACGCGACATGGACATGC

                 *           **         *     
       2003 CCGGCTACAACCGGCCAAACGAC-TCGGCCATGC
          1 CCGGCCACAACCGGCCACGCGACAT-GGACATGC

                                   
       2036 CCGGCCACAACCGGCCACGCGAC
          1 CCGGCCACAACCGGCCACGCGAC

       2059 CCTTTGTCTA


Statistics
Matches: 77,  Mismatches: 9, Indels: 8
        0.82            0.10        0.09

Matches are distributed among these distances:
  32    2  0.03
  33   67  0.87
  35    7  0.09
  36    1  0.01

ACGTcount: A:0.23, C:0.42, G:0.27, T:0.07


Consensus pattern (33 bp):   
CCGGCCACAACCGGCCACGCGACATGGACATGC

Found at i:3081 original size:5 final size:5

Alignment explanation


    Indices: 3064--3097  Score: 59
    Period size: 5  Copynumber: 6.6  Consensus size: 5

       3054 GTTATATCGA

                                                    
       3064 AAAAT ATAAAT AAAAT AAAAT AAAAT AAAAT AAA
          1 AAAAT A-AAAT AAAAT AAAAT AAAAT AAAAT AAA

       3098 TTTTCGATCA


Statistics
Matches: 28,  Mismatches: 0, Indels: 2
        0.93            0.00        0.07

Matches are distributed among these distances:
   5   23  0.82
   6    5  0.18

ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21


Consensus pattern (5 bp):   
AAAAT

Done.