Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01013332.1 Corchorus olitorius cultivar O-4 contig13365, 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: 28821
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.34


Found at i:1758 original size:137 final size:136

Alignment explanation


    Indices: 1602--1868  Score: 394
    Period size: 137  Copynumber: 2.0  Consensus size: 136

       1592 CCAGAATAGC

                 *                                                           
       1602 GAAAGTAAAGTTCAAAACAAAATATCCTAGGTAAACCCTTCACATGCAAGGAAACAACCGT-TGC
          1 GAAAGCAAAGTTCAAAACAAAATATCCTAGGTAAACCCTTCACATGCAAGGAAACAACC-TCTGC

                     *                           *     *                     
       1666 GATTCTCAATTCCCATGAAT-CCATTAACTCAACAATGTCAACTTTTCTGATACATCCATTTGAT
         65 GATTCTCAAATCCCATG-ATGCCATTAACTCAACAATCTCAACCTTTCTGATACATCCA-TTGAT

                     
       1730 TTAAACCCA
        128 TTAAACCCA

                                     **  *       *                        *  
       1739 GAAAGCAAAGTTCAAAACAAAATATTGTATGTAAACCTTTCACATGCAAGGAAACAACCTCTTCG
          1 GAAAGCAAAGTTCAAAACAAAATATCCTAGGTAAACCCTTCACATGCAAGGAAACAACCTCTGCG

                       *                    *                                
       1804 ATTCTCAAATCGCATGATGCCATTAACTCAACTATCTCAACCTTTCTGATACATCCATTGATTTA
         66 ATTCTCAAATCCCATGATGCCATTAACTCAACAATCTCAACCTTTCTGATACATCCATTGATTTA

       1869 CATGCATATA


Statistics
Matches: 117,  Mismatches: 11, Indels: 5
        0.88            0.08        0.04

Matches are distributed among these distances:
 136   11  0.09
 137  106  0.91

ACGTcount: A:0.37, C:0.24, G:0.11, T:0.28


Consensus pattern (136 bp):   
GAAAGCAAAGTTCAAAACAAAATATCCTAGGTAAACCCTTCACATGCAAGGAAACAACCTCTGCG
ATTCTCAAATCCCATGATGCCATTAACTCAACAATCTCAACCTTTCTGATACATCCATTGATTTA
AACCCA

Found at i:5541 original size:48 final size:48

Alignment explanation


    Indices: 5470--5572  Score: 206
    Period size: 48  Copynumber: 2.1  Consensus size: 48

       5460 CCAACAAATA

                                                            
       5470 CGCTTTCAGAGGATTAAACTTGTATTTTCACCCTTATCGGGTGGAAGC
          1 CGCTTTCAGAGGATTAAACTTGTATTTTCACCCTTATCGGGTGGAAGC

                                                            
       5518 CGCTTTCAGAGGATTAAACTTGTATTTTCACCCTTATCGGGTGGAAGC
          1 CGCTTTCAGAGGATTAAACTTGTATTTTCACCCTTATCGGGTGGAAGC

                   
       5566 CGCTTTC
          1 CGCTTTC

       5573 TATCTCGATC


Statistics
Matches: 55,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  48   55  1.00

ACGTcount: A:0.21, C:0.22, G:0.22, T:0.34


Consensus pattern (48 bp):   
CGCTTTCAGAGGATTAAACTTGTATTTTCACCCTTATCGGGTGGAAGC
Done.