Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01020278.1 Corchorus olitorius cultivar O-4 contig20311, 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: 8516
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32


Found at i:1689 original size:22 final size:22

Alignment explanation


    Indices: 1663--1706  Score: 88
    Period size: 22  Copynumber: 2.0  Consensus size: 22

       1653 AAAAAACCAA

                                  
       1663 TATAATTAGCAAATAATGAAGC
          1 TATAATTAGCAAATAATGAAGC

                                  
       1685 TATAATTAGCAAATAATGAAGC
          1 TATAATTAGCAAATAATGAAGC

       1707 AAGAGGAGTA


Statistics
Matches: 22,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  22   22  1.00

ACGTcount: A:0.50, C:0.09, G:0.14, T:0.27


Consensus pattern (22 bp):   
TATAATTAGCAAATAATGAAGC

Found at i:4887 original size:4 final size:4

Alignment explanation


    Indices: 4878--4911  Score: 54
    Period size: 4  Copynumber: 9.0  Consensus size: 4

       4868 ATATAAGGAA

                                                        
       4878 TTCT TTCT TTCT TTCT TTCT TTCT TT-T TT-T TTCT
          1 TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT

       4912 ATAGCAGGAA


Statistics
Matches: 29,  Mismatches: 0, Indels: 2
        0.94            0.00        0.06

Matches are distributed among these distances:
   3    6  0.21
   4   23  0.79

ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79


Consensus pattern (4 bp):   
TTCT

Found at i:5626 original size:1 final size:1

Alignment explanation


    Indices: 5620--5646  Score: 54
    Period size: 1  Copynumber: 27.0  Consensus size: 1

       5610 AGTGGTAGAG

                                       
       5620 TTTTTTTTTTTTTTTTTTTTTTTTTTT
          1 TTTTTTTTTTTTTTTTTTTTTTTTTTT

       5647 ACAACAAGTG


Statistics
Matches: 26,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   1   26  1.00

ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00


Consensus pattern (1 bp):   
T

Done.