Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01023297.1 Corchorus olitorius cultivar O-4 contig23330, 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: 6659
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29


Found at i:3525 original size:17 final size:18

Alignment explanation


    Indices: 3488--3525  Score: 51
    Period size: 18  Copynumber: 2.2  Consensus size: 18

       3478 ACCCTTGCCT

                            * 
       3488 AAAACTAGAAGAAAACTA
          1 AAAACTAGAAGAAAACGA

                  *           
       3506 AAAACTTGAAGAAAA-GA
          1 AAAACTAGAAGAAAACGA

               
       3523 AAA
          1 AAA

       3526 TACCTATGTG


Statistics
Matches: 18,  Mismatches: 2, Indels: 1
        0.86            0.10        0.05

Matches are distributed among these distances:
  17    4  0.22
  18   14  0.78

ACGTcount: A:0.68, C:0.08, G:0.13, T:0.11


Consensus pattern (18 bp):   
AAAACTAGAAGAAAACGA

Found at i:4146 original size:29 final size:30

Alignment explanation


    Indices: 4109--4168  Score: 86
    Period size: 29  Copynumber: 2.0  Consensus size: 30

       4099 AATTCTTTCC

                *      *                  
       4109 TCTTGAAATAATTCTTCAAT-GTCTTCAAA
          1 TCTTCAAATAAGTCTTCAATAGTCTTCAAA

                                           
       4138 TCTTCAAATAAGTCTTCAATGAGTCTTCAAA
          1 TCTTCAAATAAGTCTTCAAT-AGTCTTCAAA

       4169 CACGAACTTC


Statistics
Matches: 27,  Mismatches: 2, Indels: 2
        0.87            0.06        0.06

Matches are distributed among these distances:
  29   18  0.67
  31    9  0.33

ACGTcount: A:0.35, C:0.18, G:0.08, T:0.38


Consensus pattern (30 bp):   
TCTTCAAATAAGTCTTCAATAGTCTTCAAA
Done.