Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01013610.1 Corchorus olitorius cultivar O-4 contig13643, 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: 5721
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30


Found at i:1433 original size:21 final size:21

Alignment explanation


    Indices: 1394--1442  Score: 55
    Period size: 21  Copynumber: 2.3  Consensus size: 21

       1384 TCAATGCTTT

                         **       
       1394 AGGAATGCAAGAGGGATTTCAA
          1 AGGAA-GCAAGAGCCATTTCAA

                               * 
       1416 AGGAAGCAAGAGCCATTTCCA
          1 AGGAAGCAAGAGCCATTTCAA

                   
       1437 A-GAAGC
          1 AGGAAGC

       1443 TACAATTCTT


Statistics
Matches: 24,  Mismatches: 3, Indels: 2
        0.83            0.10        0.07

Matches are distributed among these distances:
  20    5  0.21
  21   14  0.58
  22    5  0.21

ACGTcount: A:0.41, C:0.16, G:0.29, T:0.14


Consensus pattern (21 bp):   
AGGAAGCAAGAGCCATTTCAA

Found at i:4113 original size:8 final size:8

Alignment explanation


    Indices: 4091--4124  Score: 50
    Period size: 8  Copynumber: 4.1  Consensus size: 8

       4081 ACCTTTTCCA

                    
       4091 TCAAATTT
          1 TCAAATTT

                     
       4099 CTCAAATTT
          1 -TCAAATTT

                    
       4108 TCAAATTT
          1 TCAAATTT

                *   
       4116 TCAAGTTT
          1 TCAAATTT

             
       4124 T
          1 T

       4125 GGAGAAGTTG


Statistics
Matches: 24,  Mismatches: 1, Indels: 1
        0.92            0.04        0.04

Matches are distributed among these distances:
   8   16  0.67
   9    8  0.33

ACGTcount: A:0.32, C:0.15, G:0.03, T:0.50


Consensus pattern (8 bp):   
TCAAATTT

Done.