Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01005262.1 Corchorus capsularis cultivar CVL-1 contig05280, 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: 4021
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.38


Found at i:40 original size:15 final size:14

Alignment explanation


    Indices: 15--67  Score: 56
    Period size: 15  Copynumber: 3.7  Consensus size: 14

          5 AACAAAGCTT

                           
         15 TTCTGTTTCTTCTTC
          1 TTCT-TTTCTTCTTC

                           
         30 TTCCTTTTC-T-TTC
          1 TT-CTTTTCTTCTTC

              *            
         43 TTTTTTTCTATCTTC
          1 TTCTTTTCT-TCTTC

                      
         58 TTCTTTTCTT
          1 TTCTTTTCTT

         68 TTCCATTAAC


Statistics
Matches: 32,  Mismatches: 2, Indels: 9
        0.74            0.05        0.21

Matches are distributed among these distances:
  12    5  0.16
  13    5  0.16
  14    3  0.09
  15   17  0.53
  16    2  0.06

ACGTcount: A:0.02, C:0.25, G:0.02, T:0.72


Consensus pattern (14 bp):   
TTCTTTTCTTCTTC

Found at i:1851 original size:2 final size:2

Alignment explanation


    Indices: 1844--1874  Score: 53
    Period size: 2  Copynumber: 15.5  Consensus size: 2

       1834 CTACAAATTT

                              *                           
       1844 TA TA TA TA TA TA GA TA TA TA TA TA TA TA TA T
          1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T

       1875 TTAGGACTGT


Statistics
Matches: 27,  Mismatches: 2, Indels: 0
        0.93            0.07        0.00

Matches are distributed among these distances:
   2   27  1.00

ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48


Consensus pattern (2 bp):   
TA

Done.