Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01021003.1 Corchorus olitorius cultivar O-4 contig21036, 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: 14752
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35


Found at i:4895 original size:123 final size:123

Alignment explanation


    Indices: 4745--4993  Score: 462
    Period size: 123  Copynumber: 2.0  Consensus size: 123

       4735 AGTTCGGGGA

                                                            *                
       4745 CACCACCTCTTTCATCAGGAGATTCTTCAACTGTATAAGAAGGTAGACTTAATATCTTTTTGCAG
          1 CACCACCTCTTTCATCAGGAGATTCTTCAACTGTATAAGAAGGTAGACCTAATATCTTTTTGCAG

                *                                  *                  
       4810 AATGGTGAATTTCAATGATAGATTGACTGCTGAAAATTTGAAATATAATCAAGTGAAT
         66 AATGATGAATTTCAATGATAGATTGACTGCTGAAAATTTAAAATATAATCAAGTGAAT

                                                                             
       4868 CACCACCTCTTTCATCAGGAGATTCTTCAACTGTATAAGAAGGTAGACCTAATATCTTTTTGCAG
          1 CACCACCTCTTTCATCAGGAGATTCTTCAACTGTATAAGAAGGTAGACCTAATATCTTTTTGCAG

                               *                                      
       4933 AATGATGAATTTCAATGATGGATTGACTGCTGAAAATTTAAAATATAATCAAGTGAAT
         66 AATGATGAATTTCAATGATAGATTGACTGCTGAAAATTTAAAATATAATCAAGTGAAT

               
       4991 CAC
          1 CAC

       4994 TGCTATATAT


Statistics
Matches: 122,  Mismatches: 4, Indels: 0
        0.97            0.03        0.00

Matches are distributed among these distances:
 123  122  1.00

ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33


Consensus pattern (123 bp):   
CACCACCTCTTTCATCAGGAGATTCTTCAACTGTATAAGAAGGTAGACCTAATATCTTTTTGCAG
AATGATGAATTTCAATGATAGATTGACTGCTGAAAATTTAAAATATAATCAAGTGAAT

Found at i:5232 original size:2 final size:2

Alignment explanation


    Indices: 5225--5251  Score: 54
    Period size: 2  Copynumber: 13.5  Consensus size: 2

       5215 ATTAAAATCT

                                                    
       5225 TA TA TA TA TA TA TA TA TA TA TA TA TA T
          1 TA TA TA TA TA TA TA TA TA TA TA TA TA T

       5252 TACTTTCTTC


Statistics
Matches: 25,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   25  1.00

ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52


Consensus pattern (2 bp):   
TA

Done.