Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01014057.1 Corchorus olitorius cultivar O-4 contig14090, 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: 35826
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.32


Found at i:6888 original size:11 final size:11

Alignment explanation


    Indices: 6872--6901  Score: 51
    Period size: 11  Copynumber: 2.6  Consensus size: 11

       6862 GAAACAAATC

                       
       6872 CTAAATTCCTA
          1 CTAAATTCCTA

                       
       6883 CTAAATTCCTA
          1 CTAAATTCCTA

                    
       6894 CTACAATT
          1 CTA-AATT

       6902 GATGAAGGGA


Statistics
Matches: 18,  Mismatches: 0, Indels: 1
        0.95            0.00        0.05

Matches are distributed among these distances:
  11   14  0.78
  12    4  0.22

ACGTcount: A:0.37, C:0.27, G:0.00, T:0.37


Consensus pattern (11 bp):   
CTAAATTCCTA

Found at i:7247 original size:33 final size:34

Alignment explanation


    Indices: 7195--7261  Score: 118
    Period size: 33  Copynumber: 2.0  Consensus size: 34

       7185 TCTACGATAA

                                              
       7195 AAACCACATCCCCACAAATCATCAAGATCAAAGG
          1 AAACCACATCCCCACAAATCATCAAGATCAAAGG

                  *                           
       7229 AAACCATAT-CCCACAAATCATCAAGATCAAAGG
          1 AAACCACATCCCCACAAATCATCAAGATCAAAGG

       7262 TCTGAAAAGC


Statistics
Matches: 32,  Mismatches: 1, Indels: 1
        0.94            0.03        0.03

Matches are distributed among these distances:
  33   24  0.75
  34    8  0.25

ACGTcount: A:0.48, C:0.30, G:0.09, T:0.13


Consensus pattern (34 bp):   
AAACCACATCCCCACAAATCATCAAGATCAAAGG

Found at i:21431 original size:50 final size:50

Alignment explanation


    Indices: 21372--21470  Score: 180
    Period size: 50  Copynumber: 2.0  Consensus size: 50

      21362 AGCTTCTAAT

                                                     *        
      21372 CAAGATTTGGGTCCAAGTTTATCTAGGGCAAAACCTTCACTTACCATAAC
          1 CAAGATTTGGGTCCAAGTTTATCTAGGGCAAAACCTTCACTCACCATAAC

                                            *                
      21422 CAAGATTTGGGTCCAAGTTTATCTAGGGCAAAGCCTTCACTCACCATAA
          1 CAAGATTTGGGTCCAAGTTTATCTAGGGCAAAACCTTCACTCACCATAA

      21471 TCAGGTGGTT


Statistics
Matches: 47,  Mismatches: 2, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  50   47  1.00

ACGTcount: A:0.31, C:0.24, G:0.17, T:0.27


Consensus pattern (50 bp):   
CAAGATTTGGGTCCAAGTTTATCTAGGGCAAAACCTTCACTCACCATAAC
Done.