Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01015844.1 Corchorus capsularis cultivar CVL-1 contig15865, 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: 19573
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28


Found at i:5688 original size:27 final size:27

Alignment explanation


    Indices: 5658--5726  Score: 111
    Period size: 27  Copynumber: 2.6  Consensus size: 27

       5648 GCCGAAGGGT

                               *       
       5658 ATTTTGGTCATTTTTGCACCCAGGGGC
          1 ATTTTGGTCATTTTTGCACACAGGGGC

                          *            
       5685 ATTTTGGTCATTTTCGCACACAGGGGC
          1 ATTTTGGTCATTTTTGCACACAGGGGC

                 *         
       5712 ATTTTAGTCATTTTT
          1 ATTTTGGTCATTTTT

       5727 AATTTCACCT


Statistics
Matches: 38,  Mismatches: 4, Indels: 0
        0.90            0.10        0.00

Matches are distributed among these distances:
  27   38  1.00

ACGTcount: A:0.17, C:0.19, G:0.22, T:0.42


Consensus pattern (27 bp):   
ATTTTGGTCATTTTTGCACACAGGGGC

Found at i:18927 original size:16 final size:16

Alignment explanation


    Indices: 18905--18952  Score: 71
    Period size: 16  Copynumber: 3.1  Consensus size: 16

      18895 AACGGGGGCC

                            
      18905 ACTAGGGTTTTTGAAA
          1 ACTAGGGTTTTTGAAA

            *        *      
      18921 TCTAGGGTTCTTGAAA
          1 ACTAGGGTTTTTGAAA

                            
      18937 ACTAGGG-TTTTGAAA
          1 ACTAGGGTTTTTGAAA

             
      18952 A
          1 A

      18953 AAAAAGAAGA


Statistics
Matches: 28,  Mismatches: 4, Indels: 1
        0.85            0.12        0.03

Matches are distributed among these distances:
  15    8  0.29
  16   20  0.71

ACGTcount: A:0.31, C:0.08, G:0.25, T:0.35


Consensus pattern (16 bp):   
ACTAGGGTTTTTGAAA

Done.