Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01012312.1 Corchorus capsularis cultivar CVL-1 contig12333, 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: 9672
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32


Found at i:3874 original size:27 final size:27

Alignment explanation


    Indices: 3837--3911  Score: 96
    Period size: 27  Copynumber: 2.8  Consensus size: 27

       3827 AAGTGAACTT

                          *        *   
       3837 AAAATGACCAAAATACCCCTAAATGCA
          1 AAAATGACCAAAATGCCCCTAAACGCA

                         *      *    **
       3864 AAAATGACCAAAAGGCCCCTGAACGTG
          1 AAAATGACCAAAATGCCCCTAAACGCA

                                 
       3891 AAAATGACCAAAATGCCCCTA
          1 AAAATGACCAAAATGCCCCTA

       3912 TGTGACCCTA


Statistics
Matches: 40,  Mismatches: 8, Indels: 0
        0.83            0.17        0.00

Matches are distributed among these distances:
  27   40  1.00

ACGTcount: A:0.47, C:0.27, G:0.13, T:0.13


Consensus pattern (27 bp):   
AAAATGACCAAAATGCCCCTAAACGCA

Found at i:6707 original size:41 final size:42

Alignment explanation


    Indices: 6643--6723  Score: 103
    Period size: 41  Copynumber: 2.0  Consensus size: 42

       6633 TTTTATTTTA

                              *          *            
       6643 AAAAAAAATTAATTTTTCTTTTTCCGTTTTTCCTTTTAATAT
          1 AAAAAAAATTAATTTTTCATTTTCCGTTTCTCCTTTTAATAT

                                     *      *        
       6685 AAAAAAAA-TATATTTTT-ATTTTCTGTTTCTGCTTTTAAT
          1 AAAAAAAATTA-ATTTTTCATTTTCCGTTTCTCCTTTTAAT

       6724 TTTTATTTAA


Statistics
Matches: 34,  Mismatches: 4, Indels: 3
        0.83            0.10        0.07

Matches are distributed among these distances:
  41   20  0.59
  42   14  0.41

ACGTcount: A:0.32, C:0.10, G:0.04, T:0.54


Consensus pattern (42 bp):   
AAAAAAAATTAATTTTTCATTTTCCGTTTCTCCTTTTAATAT
Done.