Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01011123.1 Corchorus capsularis cultivar CVL-1 contig11144, 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: 12146
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.33


Found at i:11420 original size:2 final size:2

Alignment explanation


    Indices: 11413--11442  Score: 60
    Period size: 2  Copynumber: 15.0  Consensus size: 2

      11403 TTCGTAGCAA

                                                        
      11413 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
          1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT

      11443 GTCCAATTGT


Statistics
Matches: 28,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   28  1.00

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


Consensus pattern (2 bp):   
AT

Found at i:12099 original size:29 final size:30

Alignment explanation


    Indices: 12056--12131  Score: 100
    Period size: 29  Copynumber: 2.6  Consensus size: 30

      12046 TGTTTAGACG

                      *                   
      12056 TTTTGCCCCCCGAACTTCAATCTT-GGACA
          1 TTTTGCCCCCTGAACTTCAATCTTGGGACA

                  *              *       *
      12085 TTTTGCTCCCTGAACTTCAATTTTGGGACG
          1 TTTTGCCCCCTGAACTTCAATCTTGGGACA

                       *     
      12115 TTTTGCCCCCTCAACTT
          1 TTTTGCCCCCTGAACTT

      12132 AACGGATCCG


Statistics
Matches: 40,  Mismatches: 6, Indels: 1
        0.85            0.13        0.02

Matches are distributed among these distances:
  29   21  0.52
  30   19  0.47

ACGTcount: A:0.17, C:0.32, G:0.14, T:0.37


Consensus pattern (30 bp):   
TTTTGCCCCCTGAACTTCAATCTTGGGACA

Done.