Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01018862.1 Corchorus olitorius cultivar O-4 contig18895, 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: 5909
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34


Found at i:4142 original size:26 final size:23

Alignment explanation


    Indices: 4112--4158  Score: 67
    Period size: 26  Copynumber: 1.9  Consensus size: 23

       4102 CTTGAAAAAT

                                      
       4112 TGAAAAACTTTGATGGATGAGATGGA
          1 TGAAAAAC-TTGAT-GAT-AGATGGA

                                 
       4138 TGAAAAACTTGATGATAGATG
          1 TGAAAAACTTGATGATAGATG

       4159 AATAGAAGGA


Statistics
Matches: 21,  Mismatches: 0, Indels: 3
        0.88            0.00        0.12

Matches are distributed among these distances:
  23    5  0.24
  24    3  0.14
  25    5  0.24
  26    8  0.38

ACGTcount: A:0.40, C:0.04, G:0.28, T:0.28


Consensus pattern (23 bp):   
TGAAAAACTTGATGATAGATGGA

Found at i:5050 original size:21 final size:21

Alignment explanation


    Indices: 5026--5117  Score: 143
    Period size: 21  Copynumber: 4.4  Consensus size: 21

       5016 CTTAGGCAAT

                         *       
       5026 TCCAATGAGCTTGAAACCTTC
          1 TCCAATGAGCTTGGAACCTTC

                                 
       5047 TCCAATGAGCTTGGAACCTTC
          1 TCCAATGAGCTTGGAACCTTC

                                  
       5068 -CACAATGAGCTTGGAACCTTC
          1 TC-CAATGAGCTTGGAACCTTC

                                  
       5089 TCCAATGAGCTTGGAA-CTTGC
          1 TCCAATGAGCTTGGAACCTT-C

                    
       5110 TCCAATGA
          1 TCCAATGA

       5118 TCTCCTAGCA


Statistics
Matches: 67,  Mismatches: 1, Indels: 6
        0.91            0.01        0.08

Matches are distributed among these distances:
  20    4  0.06
  21   62  0.93
  22    1  0.01

ACGTcount: A:0.27, C:0.27, G:0.18, T:0.27


Consensus pattern (21 bp):   
TCCAATGAGCTTGGAACCTTC

Done.