Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01007528.1 Corchorus capsularis cultivar CVL-1 contig07549, 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: 11814
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.32


Found at i:5953 original size:23 final size:23

Alignment explanation


    Indices: 5923--5968  Score: 83
    Period size: 23  Copynumber: 2.0  Consensus size: 23

       5913 TGTTAGTTTG

                                   
       5923 TAGAGACCGAACGAGAGTGCTCA
          1 TAGAGACCGAACGAGAGTGCTCA

                      *            
       5946 TAGAGACCGAGCGAGAGTGCTCA
          1 TAGAGACCGAACGAGAGTGCTCA

       5969 AGCTTGTTTA


Statistics
Matches: 22,  Mismatches: 1, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  23   22  1.00

ACGTcount: A:0.33, C:0.22, G:0.33, T:0.13


Consensus pattern (23 bp):   
TAGAGACCGAACGAGAGTGCTCA

Found at i:6877 original size:23 final size:23

Alignment explanation


    Indices: 6847--6892  Score: 92
    Period size: 23  Copynumber: 2.0  Consensus size: 23

       6837 TGTTAGTTTG

                                   
       6847 TAGAGACCGAGCGAGAGTGCTCA
          1 TAGAGACCGAGCGAGAGTGCTCA

                                   
       6870 TAGAGACCGAGCGAGAGTGCTCA
          1 TAGAGACCGAGCGAGAGTGCTCA

       6893 AGCTTGTTAA


Statistics
Matches: 23,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  23   23  1.00

ACGTcount: A:0.30, C:0.22, G:0.35, T:0.13


Consensus pattern (23 bp):   
TAGAGACCGAGCGAGAGTGCTCA

Found at i:10554 original size:16 final size:17

Alignment explanation


    Indices: 10524--10561  Score: 60
    Period size: 16  Copynumber: 2.3  Consensus size: 17

      10514 TTTTTTTTTC

                             
      10524 TTTTTGATCTTTTTG-A
          1 TTTTTGATCTTTTTGAA

                    *        
      10540 TTTTTGATTTTTTTGAA
          1 TTTTTGATCTTTTTGAA

                 
      10557 TTTTT
          1 TTTTT

      10562 TTTTAGAAAA


Statistics
Matches: 20,  Mismatches: 1, Indels: 1
        0.91            0.05        0.05

Matches are distributed among these distances:
  16   14  0.70
  17    6  0.30

ACGTcount: A:0.13, C:0.03, G:0.11, T:0.74


Consensus pattern (17 bp):   
TTTTTGATCTTTTTGAA
Done.