Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01010488.1 Corchorus olitorius cultivar O-4 contig10520, 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: 3473
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32


Found at i:652 original size:2 final size:2

Alignment explanation


    Indices: 645--707  Score: 90
    Period size: 2  Copynumber: 31.5  Consensus size: 2

        635 AAGTTTAGAC

                                                          *  *  *     *   
        645 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TG TG TA TG TA
          1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA

                                           
        687 TA TA TA TA TA TA TA TA TA TA T
          1 TA TA TA TA TA TA TA TA TA TA T

        708 GGATAATAAG


Statistics
Matches: 57,  Mismatches: 4, Indels: 0
        0.93            0.07        0.00

Matches are distributed among these distances:
   2   57  1.00

ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51


Consensus pattern (2 bp):   
TA

Found at i:2799 original size:31 final size:28

Alignment explanation


    Indices: 2744--2808  Score: 114
    Period size: 27  Copynumber: 2.4  Consensus size: 28

       2734 GAGTTTGTTT

                                        
       2744 GTAATTTGTTTGTTTATTTAGTAGGTAG
          1 GTAATTTGTTTGTTTATTTAGTAGGTAG

                                        
       2772 GTAATTTG-TTGTTTATTTAGTAGGTAG
          1 GTAATTTGTTTGTTTATTTAGTAGGTAG

               *      
       2799 GTAGTTTGTT
          1 GTAATTTGTT

       2809 GGCTCATAGA


Statistics
Matches: 35,  Mismatches: 1, Indels: 2
        0.92            0.03        0.05

Matches are distributed among these distances:
  27   26  0.74
  28    9  0.26

ACGTcount: A:0.20, C:0.00, G:0.26, T:0.54


Consensus pattern (28 bp):   
GTAATTTGTTTGTTTATTTAGTAGGTAG
Done.