Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01008842.1 Corchorus capsularis cultivar CVL-1 contig08863, 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: 2165
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.34


Found at i:660 original size:28 final size:28

Alignment explanation


    Indices: 629--684  Score: 112
    Period size: 28  Copynumber: 2.0  Consensus size: 28

        619 CACTTAGTGA

                                        
        629 ATTGTTGAATGATATTGCATATATTTAG
          1 ATTGTTGAATGATATTGCATATATTTAG

                                        
        657 ATTGTTGAATGATATTGCATATATTTAG
          1 ATTGTTGAATGATATTGCATATATTTAG

        685 GGGGAGCTCT


Statistics
Matches: 28,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  28   28  1.00

ACGTcount: A:0.32, C:0.04, G:0.18, T:0.46


Consensus pattern (28 bp):   
ATTGTTGAATGATATTGCATATATTTAG

Found at i:1092 original size:18 final size:19

Alignment explanation


    Indices: 1047--1092  Score: 51
    Period size: 18  Copynumber: 2.5  Consensus size: 19

       1037 ATGGATTCCC

                                
       1047 TTGGAGAAATATTCAAAGAA
          1 TTGGA-AAATATTCAAAGAA

            *   *              
       1067 AT-GCAAATATTCAAA-AA
          1 TTGGAAAATATTCAAAGAA

                     
       1084 TTGGAAAAT
          1 TTGGAAAAT

       1093 GGACAATTTC


Statistics
Matches: 21,  Mismatches: 4, Indels: 4
        0.72            0.14        0.14

Matches are distributed among these distances:
  17    3  0.14
  18   16  0.76
  19    1  0.05
  20    1  0.05

ACGTcount: A:0.52, C:0.07, G:0.15, T:0.26


Consensus pattern (19 bp):   
TTGGAAAATATTCAAAGAA
Done.