Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01021725.1 Corchorus olitorius cultivar O-4 contig21758, 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: 8623
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.30


Found at i:1340 original size:15 final size:15

Alignment explanation


    Indices: 1322--1351  Score: 51
    Period size: 15  Copynumber: 2.0  Consensus size: 15

       1312 CAAAAACATT

                           
       1322 AAAGAAAAAAAAAGA
          1 AAAGAAAAAAAAAGA

                     *     
       1337 AAAGAAAAAGAAAGA
          1 AAAGAAAAAAAAAGA

       1352 TCCAGCCATC


Statistics
Matches: 14,  Mismatches: 1, Indels: 0
        0.93            0.07        0.00

Matches are distributed among these distances:
  15   14  1.00

ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00


Consensus pattern (15 bp):   
AAAGAAAAAAAAAGA

Found at i:7898 original size:21 final size:21

Alignment explanation


    Indices: 7875--7987  Score: 183
    Period size: 21  Copynumber: 5.4  Consensus size: 21

       7865 CTTAGGCAAT

                                *
       7875 TCCAATGAGCTTGAAACCTTT
          1 TCCAATGAGCTTGAAACCTTC

                                 
       7896 TCCAATGAGCTTGAAACCTTC
          1 TCCAATGAGCTTGAAACCTTC

                                 
       7917 TCCAATGAGCTTGAAACCTTC
          1 TCCAATGAGCTTGAAACCTTC

                         *       
       7938 TCCAATGAGCTTGGAACCTTC
          1 TCCAATGAGCTTGAAACCTTC

                         *        
       7959 TCCAATGAGCTTGGAA-CTTGC
          1 TCCAATGAGCTTGAAACCTT-C

                    
       7980 TCCAATGA
          1 TCCAATGA

       7988 TCTCCTAGCA


Statistics
Matches: 89,  Mismatches: 2, Indels: 2
        0.96            0.02        0.02

Matches are distributed among these distances:
  20    3  0.03
  21   86  0.97

ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29


Consensus pattern (21 bp):   
TCCAATGAGCTTGAAACCTTC

Done.