Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01006488.1 Corchorus capsularis cultivar CVL-1 contig06509, 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: 5386
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32


Found at i:964 original size:6 final size:6

Alignment explanation


    Indices: 953--979  Score: 54
    Period size: 6  Copynumber: 4.5  Consensus size: 6

        943 ATTAATCTGC

                                           
        953 TTTAGA TTTAGA TTTAGA TTTAGA TTT
          1 TTTAGA TTTAGA TTTAGA TTTAGA TTT

        980 GCTTTGCTTT


Statistics
Matches: 21,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   6   21  1.00

ACGTcount: A:0.30, C:0.00, G:0.15, T:0.56


Consensus pattern (6 bp):   
TTTAGA

Found at i:2114 original size:21 final size:21

Alignment explanation


    Indices: 2090--2129  Score: 80
    Period size: 21  Copynumber: 1.9  Consensus size: 21

       2080 ACTGGCTAGC

                                 
       2090 TTTACTTGCTGAGGAAGGCAT
          1 TTTACTTGCTGAGGAAGGCAT

                               
       2111 TTTACTTGCTGAGGAAGGC
          1 TTTACTTGCTGAGGAAGGC

       2130 GAACTCTTCT


Statistics
Matches: 19,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  21   19  1.00

ACGTcount: A:0.23, C:0.15, G:0.30, T:0.33


Consensus pattern (21 bp):   
TTTACTTGCTGAGGAAGGCAT

Found at i:2317 original size:17 final size:17

Alignment explanation


    Indices: 2279--2311  Score: 66
    Period size: 17  Copynumber: 1.9  Consensus size: 17

       2269 CTCATAGTAC

                             
       2279 CTAGGTAGTATGAGGTA
          1 CTAGGTAGTATGAGGTA

                            
       2296 CTAGGTAGTATGAGGT
          1 CTAGGTAGTATGAGGT

       2312 GATAGGCTGC


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

Matches are distributed among these distances:
  17   16  1.00

ACGTcount: A:0.27, C:0.06, G:0.36, T:0.30


Consensus pattern (17 bp):   
CTAGGTAGTATGAGGTA
Done.