Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01002668.1 Corchorus olitorius cultivar O-4 contig02670, 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, 714

Length: 1190
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34


Found at i:595 original size:16 final size:17

Alignment explanation


    Indices: 574--609  Score: 65
    Period size: 16  Copynumber: 2.2  Consensus size: 17

        564 TTGAAAAAAA

                             
        574 AATTACATTTCTAG-CT
          1 AATTACATTTCTAGACT

                             
        590 AATTACATTTCTAGACT
          1 AATTACATTTCTAGACT

               
        607 AAT
          1 AAT

        610 ATAGAATATA


Statistics
Matches: 19,  Mismatches: 0, Indels: 1
        0.95            0.00        0.05

Matches are distributed among these distances:
  16   14  0.74
  17    5  0.26

ACGTcount: A:0.36, C:0.17, G:0.06, T:0.42


Consensus pattern (17 bp):   
AATTACATTTCTAGACT

Found at i:777 original size:14 final size:13

Alignment explanation


    Indices: 749--773  Score: 50
    Period size: 13  Copynumber: 1.9  Consensus size: 13

        739 AAAGTGATAC

                         
        749 AATACAAAAATAG
          1 AATACAAAAATAG

                        
        762 AATACAAAAATA
          1 AATACAAAAATA

        774 AGAACCGAGT


Statistics
Matches: 12,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  13   12  1.00

ACGTcount: A:0.72, C:0.08, G:0.04, T:0.16


Consensus pattern (13 bp):   
AATACAAAAATAG

Found at i:819 original size:17 final size:16

Alignment explanation


    Indices: 797--830  Score: 59
    Period size: 17  Copynumber: 2.1  Consensus size: 16

        787 TTGTTTTTGT

                             
        797 AGTCTATCTAAAAGAAA
          1 AGTCTATCTAAAA-AAA

                            
        814 AGTCTATCTAAAAAAA
          1 AGTCTATCTAAAAAAA

             
        830 A
          1 A

        831 TAGGAGATCA


Statistics
Matches: 17,  Mismatches: 0, Indels: 1
        0.94            0.00        0.06

Matches are distributed among these distances:
  16    4  0.24
  17   13  0.76

ACGTcount: A:0.56, C:0.12, G:0.09, T:0.24


Consensus pattern (16 bp):   
AGTCTATCTAAAAAAA
Done.