Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01018021.1 Corchorus olitorius cultivar O-4 contig18054, 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: 9310
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37


Found at i:968 original size:18 final size:17

Alignment explanation


    Indices: 934--969  Score: 72
    Period size: 17  Copynumber: 2.1  Consensus size: 17

        924 TTATTAAATG

                             
        934 TATTAAATGTATTTTTT
          1 TATTAAATGTATTTTTT

                             
        951 TATTAAATGTATTTTTT
          1 TATTAAATGTATTTTTT

              
        968 TA
          1 TA

        970 AGTTGTTTAT


Statistics
Matches: 19,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  17   19  1.00

ACGTcount: A:0.31, C:0.00, G:0.06, T:0.64


Consensus pattern (17 bp):   
TATTAAATGTATTTTTT

Found at i:978 original size:26 final size:27

Alignment explanation


    Indices: 949--1007  Score: 111
    Period size: 27  Copynumber: 2.2  Consensus size: 27

        939 AATGTATTTT

                                       
        949 TTTATTAAATGTA-TTTTTTTAAGTTG
          1 TTTATTAAATGTATTTTTTTTAAGTTG

                                       
        975 TTTATTAAATGTATTTTTTTTAAGTTG
          1 TTTATTAAATGTATTTTTTTTAAGTTG

                  
       1002 TTTATT
          1 TTTATT

       1008 TTTTATTAAG


Statistics
Matches: 32,  Mismatches: 0, Indels: 1
        0.97            0.00        0.03

Matches are distributed among these distances:
  26   13  0.41
  27   19  0.59

ACGTcount: A:0.25, C:0.00, G:0.10, T:0.64


Consensus pattern (27 bp):   
TTTATTAAATGTATTTTTTTTAAGTTG

Found at i:5024 original size:2 final size:2

Alignment explanation


    Indices: 5017--5044  Score: 56
    Period size: 2  Copynumber: 14.0  Consensus size: 2

       5007 ATAAGATTCT

                                                     
       5017 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
          1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA

       5045 ATAACAAGAA


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

Matches are distributed among these distances:
   2   26  1.00

ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50


Consensus pattern (2 bp):   
TA

Done.