Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01014210.1 Corchorus olitorius cultivar O-4 contig14243, 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: 11093
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33


Found at i:2087 original size:27 final size:28

Alignment explanation


    Indices: 2048--2100  Score: 83
    Period size: 27  Copynumber: 1.9  Consensus size: 28

       2038 CTTACCCTTA

                                         
       2048 TCTTTATATTTTTCG-TTATTTTTCTTTT
          1 TCTTTATATTTTT-GTTTATTTTTCTTTT

                                      
       2076 TCTTT-TATTTTTGTTTATTTTTCTT
          1 TCTTTATATTTTTGTTTATTTTTCTT

       2101 AGTTACTTTT


Statistics
Matches: 24,  Mismatches: 0, Indels: 3
        0.89            0.00        0.11

Matches are distributed among these distances:
  26    1  0.04
  27   18  0.75
  28    5  0.21

ACGTcount: A:0.09, C:0.09, G:0.04, T:0.77


Consensus pattern (28 bp):   
TCTTTATATTTTTGTTTATTTTTCTTTT

Found at i:3265 original size:21 final size:21

Alignment explanation


    Indices: 3226--3274  Score: 55
    Period size: 21  Copynumber: 2.3  Consensus size: 21

       3216 TCAATGCTTT

                         **       
       3226 AGGAATGCAAGAGGGATTTCAA
          1 AGGAA-GCAAGAGCCATTTCAA

                               * 
       3248 AGGAAGCAAGAGCCATTTCCA
          1 AGGAAGCAAGAGCCATTTCAA

                   
       3269 A-GAAGC
          1 AGGAAGC

       3275 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
Done.