Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01006741.1 Corchorus olitorius cultivar O-4 contig06766, 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, 859

Length: 1433
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.38


Found at i:812 original size:2 final size:2

Alignment explanation


    Indices: 805--864  Score: 59
    Period size: 2  Copynumber: 29.5  Consensus size: 2

        795 TACAGTTTTA

                                                          *  *  *          
        805 AT AT AT AT AT AT AT AT AT AT AT AT AT AT GAT TT CT CT -T AT AT
          1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT

                  *                   
        847 AT AT TT AT AT ACT AT AT A
          1 AT AT AT AT AT A-T AT AT A

        865 AGTCTAAACT


Statistics
Matches: 51,  Mismatches: 4, Indels: 6
        0.84            0.07        0.10

Matches are distributed among these distances:
   1    1  0.02
   2   46  0.90
   3    4  0.08

ACGTcount: A:0.42, C:0.05, G:0.02, T:0.52


Consensus pattern (2 bp):   
AT

Found at i:1136 original size:39 final size:40

Alignment explanation


    Indices: 1080--1160  Score: 137
    Period size: 39  Copynumber: 2.0  Consensus size: 40

       1070 TTTAATTCCT

                                                    
       1080 ATGTAATATATATAATAACTAAAATACTTACATTAATTAA
          1 ATGTAATATATATAATAACTAAAATACTTACATTAATTAA

                     *          *                   
       1120 ATGTAATA-CTATAATAACTGAAATACTTACATTAATTAA
          1 ATGTAATATATATAATAACTAAAATACTTACATTAATTAA

              
       1159 AT
          1 AT

       1161 TCTTAGGTAT


Statistics
Matches: 39,  Mismatches: 2, Indels: 1
        0.93            0.05        0.02

Matches are distributed among these distances:
  39   31  0.79
  40    8  0.21

ACGTcount: A:0.51, C:0.09, G:0.04, T:0.37


Consensus pattern (40 bp):   
ATGTAATATATATAATAACTAAAATACTTACATTAATTAA
Done.