Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01001705.1 Corchorus capsularis cultivar CVL-1 contig01705, 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: 3581
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35


Found at i:325 original size:15 final size:15

Alignment explanation


    Indices: 301--367  Score: 54
    Period size: 15  Copynumber: 4.7  Consensus size: 15

        291 AGTCTCGATT

                 *         
        301 AAATATATCCTTCAA
          1 AAATAAATCCTTCAA

                         *  
        316 AAATAAATCCATTAAA
          1 AAATAAATCC-TTCAA

                 *  *      
        332 AAATACATTCTT---
          1 AAATAAATCCTTCAA

                           
        344 AAAT--ATCCTTCAA
          1 AAATAAATCCTTCAA

                       
        357 AAATAAATCCT
          1 AAATAAATCCT

        368 AGGAATGCAA


Statistics
Matches: 41,  Mismatches: 5, Indels: 12
        0.71            0.09        0.21

Matches are distributed among these distances:
  10    5  0.12
  12    4  0.10
  13    4  0.10
  15   16  0.39
  16   12  0.29

ACGTcount: A:0.51, C:0.18, G:0.00, T:0.31


Consensus pattern (15 bp):   
AAATAAATCCTTCAA

Found at i:742 original size:13 final size:13

Alignment explanation


    Indices: 724--750  Score: 54
    Period size: 13  Copynumber: 2.1  Consensus size: 13

        714 AAATATAATA

                         
        724 AATATGATTTATG
          1 AATATGATTTATG

                         
        737 AATATGATTTATG
          1 AATATGATTTATG

             
        750 A
          1 A

        751 GGTTATAAAG


Statistics
Matches: 14,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  13   14  1.00

ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44


Consensus pattern (13 bp):   
AATATGATTTATG
Done.