Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01019347.1 Corchorus olitorius cultivar O-4 contig19380, 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: 15195
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33


Found at i:1662 original size:24 final size:25

Alignment explanation


    Indices: 1629--1685  Score: 82
    Period size: 25  Copynumber: 2.4  Consensus size: 25

       1619 GTCAGCCTTG

                                 *   
       1629 AATTT-TTTAATGT-TTAATTCTTA
          1 AATTTATTTAATGTCTTAATTATTA

                                    *
       1652 AATTTATTTAATGTCTTAATTATTC
          1 AATTTATTTAATGTCTTAATTATTA

                     
       1677 AATTTATTT
          1 AATTTATTT

       1686 TACAATCCAC


Statistics
Matches: 30,  Mismatches: 2, Indels: 2
        0.88            0.06        0.06

Matches are distributed among these distances:
  23    5  0.17
  24    8  0.27
  25   17  0.57

ACGTcount: A:0.32, C:0.05, G:0.04, T:0.60


Consensus pattern (25 bp):   
AATTTATTTAATGTCTTAATTATTA

Found at i:14817 original size:6 final size:6

Alignment explanation


    Indices: 14803--14848  Score: 83
    Period size: 6  Copynumber: 7.5  Consensus size: 6

      14793 TTCTATTTCT

                                                                 
      14803 TATATGA TATAGA TATAGA TATAGA TATAGA TATAGA TATAGA TAT
          1 TATA-GA TATAGA TATAGA TATAGA TATAGA TATAGA TATAGA TAT

      14849 GCTAACGATG


Statistics
Matches: 39,  Mismatches: 0, Indels: 1
        0.98            0.00        0.03

Matches are distributed among these distances:
   6   35  0.90
   7    4  0.10

ACGTcount: A:0.48, C:0.00, G:0.15, T:0.37


Consensus pattern (6 bp):   
TATAGA

Done.