Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01014358.1 Corchorus olitorius cultivar O-4 contig14391, 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: 10749
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.31


Found at i:4914 original size:27 final size:27

Alignment explanation


    Indices: 4830--4918  Score: 124
    Period size: 27  Copynumber: 3.3  Consensus size: 27

       4820 GGAATTTTGG

                                       
       4830 GGTCATTTGCATGTTCAGGGGCATTTT
          1 GGTCATTTGCATGTTCAGGGGCATTTT

            *             *            
       4857 AGTCATTTGCATGTCCAGGGGCATTTT
          1 GGTCATTTGCATGTTCAGGGGCATTTT

                       *     *      * *
       4884 GGTCATTTGCACGTTCAAGGGCATCTC
          1 GGTCATTTGCATGTTCAGGGGCATTTT

                    
       4911 GGTCATTT
          1 GGTCATTT

       4919 TAAGCACTTT


Statistics
Matches: 54,  Mismatches: 8, Indels: 0
        0.87            0.13        0.00

Matches are distributed among these distances:
  27   54  1.00

ACGTcount: A:0.17, C:0.19, G:0.27, T:0.37


Consensus pattern (27 bp):   
GGTCATTTGCATGTTCAGGGGCATTTT

Found at i:7030 original size:20 final size:21

Alignment explanation


    Indices: 6996--7037  Score: 61
    Period size: 21  Copynumber: 2.0  Consensus size: 21

       6986 TAATTTTGCT

                                 
       6996 AAAAGTTTGGATTTTT-ATTA
          1 AAAAGTTTGGATTTTTGATTA

                                  
       7016 AAAATGTTTGG-TTTTTGATTA
          1 AAAA-GTTTGGATTTTTGATTA

             
       7037 A
          1 A

       7038 TTAAATGTAG


Statistics
Matches: 20,  Mismatches: 0, Indels: 3
        0.87            0.00        0.13

Matches are distributed among these distances:
  20    9  0.45
  21   11  0.55

ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50


Consensus pattern (21 bp):   
AAAAGTTTGGATTTTTGATTA
Done.