Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01003238.1 Corchorus capsularis cultivar CVL-1 contig03246, 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, 774

Length: 1290
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30


Found at i:21 original size:13 final size:13

Alignment explanation


    Indices: 3--37  Score: 61
    Period size: 13  Copynumber: 2.7  Consensus size: 13

          1 TC

                   *     
          3 TAAAGCAGATTAA
          1 TAAAGCAAATTAA

                         
         16 TAAAGCAAATTAA
          1 TAAAGCAAATTAA

                     
         29 TAAAGCAAA
          1 TAAAGCAAA

         38 CAATAATTAT


Statistics
Matches: 21,  Mismatches: 1, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  13   21  1.00

ACGTcount: A:0.60, C:0.09, G:0.11, T:0.20


Consensus pattern (13 bp):   
TAAAGCAAATTAA

Found at i:965 original size:10 final size:10

Alignment explanation


    Indices: 950--975  Score: 52
    Period size: 10  Copynumber: 2.6  Consensus size: 10

        940 GAGGACTCTA

                      
        950 GAATTTTCTG
          1 GAATTTTCTG

                      
        960 GAATTTTCTG
          1 GAATTTTCTG

                  
        970 GAATTT
          1 GAATTT

        976 GGCAGCAACT


Statistics
Matches: 16,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  10   16  1.00

ACGTcount: A:0.23, C:0.08, G:0.19, T:0.50


Consensus pattern (10 bp):   
GAATTTTCTG

Found at i:1019 original size:11 final size:11

Alignment explanation


    Indices: 1003--1027  Score: 50
    Period size: 11  Copynumber: 2.3  Consensus size: 11

        993 CAATTTCGGG

                       
       1003 CTTCTTCTGGA
          1 CTTCTTCTGGA

                       
       1014 CTTCTTCTGGA
          1 CTTCTTCTGGA

               
       1025 CTT
          1 CTT

       1028 GGCTTCAATC


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:0.08, C:0.28, G:0.16, T:0.48


Consensus pattern (11 bp):   
CTTCTTCTGGA
Done.