Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01014252.1 Corchorus capsularis cultivar CVL-1 contig14273, 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: 15357
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.32


Found at i:1648 original size:18 final size:18

Alignment explanation


    Indices: 1625--1662  Score: 76
    Period size: 18  Copynumber: 2.1  Consensus size: 18

       1615 CTCAATTATG

                              
       1625 TAATAAATTAATTATATA
          1 TAATAAATTAATTATATA

                              
       1643 TAATAAATTAATTATATA
          1 TAATAAATTAATTATATA

              
       1661 TA
          1 TA

       1663 CCCCACATCC


Statistics
Matches: 20,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  18   20  1.00

ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45


Consensus pattern (18 bp):   
TAATAAATTAATTATATA

Found at i:1658 original size:16 final size:16

Alignment explanation


    Indices: 1618--1660  Score: 59
    Period size: 18  Copynumber: 2.6  Consensus size: 16

       1608 TTCCCAACTC

                  *         
       1618 AATTATGTAATAAATT
          1 AATTATATAATAAATT

                              
       1634 AATTATATATAATAAATT
          1 AA-T-TATATAATAAATT

                     
       1652 AATTATATA
          1 AATTATATA

       1661 TACCCCACAT


Statistics
Matches: 24,  Mismatches: 1, Indels: 4
        0.83            0.03        0.14

Matches are distributed among these distances:
  16    8  0.33
  17    2  0.08
  18   14  0.58

ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44


Consensus pattern (16 bp):   
AATTATATAATAAATT

Found at i:10800 original size:13 final size:13

Alignment explanation


    Indices: 10782--10810  Score: 58
    Period size: 13  Copynumber: 2.2  Consensus size: 13

      10772 ACATTAGAGC

                         
      10782 TTTCATGGGGATG
          1 TTTCATGGGGATG

                         
      10795 TTTCATGGGGATG
          1 TTTCATGGGGATG

               
      10808 TTT
          1 TTT

      10811 GAAGTGTTAG


Statistics
Matches: 16,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  13   16  1.00

ACGTcount: A:0.14, C:0.07, G:0.34, T:0.45


Consensus pattern (13 bp):   
TTTCATGGGGATG
Done.