Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01014825.1 Corchorus capsularis cultivar CVL-1 contig14846, 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: 9390
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32

Warning! 1 characters in sequence are not A, C, G, or T


Found at i:852 original size:11 final size:11

Alignment explanation


    Indices: 829--871  Score: 61
    Period size: 11  Copynumber: 4.0  Consensus size: 11

        819 CCTTTATTTT

                       
        829 TTCTTCC-TTC
          1 TTCTTCCTTTC

                 **    
        839 TTCTTTTTTTC
          1 TTCTTCCTTTC

                       
        850 TTCTTCCTTTC
          1 TTCTTCCTTTC

                       
        861 TTCTTCCTTTC
          1 TTCTTCCTTTC

        872 CTTTCCTAAC


Statistics
Matches: 28,  Mismatches: 4, Indels: 1
        0.85            0.12        0.03

Matches are distributed among these distances:
  10    5  0.18
  11   23  0.82

ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67


Consensus pattern (11 bp):   
TTCTTCCTTTC

Found at i:854 original size:14 final size:14

Alignment explanation


    Indices: 828--876  Score: 53
    Period size: 14  Copynumber: 3.3  Consensus size: 14

        818 CCCTTTATTT

                          *
        828 TTTCTTCCTTCTTCT
          1 TTTCTT-CTTCTTCC

               *          
        843 TTTTTTCTTCTTCC
          1 TTTCTTCTTCTTCC

                            
        857 TTTCTTCTTCCTTTCC
          1 TTTCTTCTT-C-TTCC

                
        873 TTTC
          1 TTTC

        877 CTAACCGAAA


Statistics
Matches: 29,  Mismatches: 3, Indels: 3
        0.83            0.09        0.09

Matches are distributed among these distances:
  14   15  0.52
  15    6  0.21
  16    8  0.28

ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67


Consensus pattern (14 bp):   
TTTCTTCTTCTTCC

Found at i:2425 original size:28 final size:28

Alignment explanation


    Indices: 2393--2447  Score: 101
    Period size: 28  Copynumber: 2.0  Consensus size: 28

       2383 TAAGTGTGTA

                                 *      
       2393 AGTGCTGTGATTGATGCACGTTACTTGC
          1 AGTGCTGTGATTGATGCACGTAACTTGC

                                       
       2421 AGTGCTGTGATTGATGCACGTAACTTG
          1 AGTGCTGTGATTGATGCACGTAACTTG

       2448 TAGGAAGTGA


Statistics
Matches: 26,  Mismatches: 1, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  28   26  1.00

ACGTcount: A:0.20, C:0.16, G:0.29, T:0.35


Consensus pattern (28 bp):   
AGTGCTGTGATTGATGCACGTAACTTGC
Done.