Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01003697.1 Corchorus capsularis cultivar CVL-1 contig03705, 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: 1961
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33


Found at i:895 original size:160 final size:160

Alignment explanation


    Indices: 709--1030  Score: 608
    Period size: 160  Copynumber: 2.0  Consensus size: 160

        699 AATAAAAAAA

                                                                      *      
        709 TCCTCACAAGTGTGTGTGTGCTTATACCTTTAACTTGTGCTCTCGTGTTTGTACTCAAGTCCTAT
          1 TCCTCACAAGTGTGTGTGTGCTTATACCTTTAACTTGTGCTCTCGTGTTTGTACTCAAATCCTAT

                                                                        *    
        774 GGATTGGCGGTCCACTACTCTCTTAATGATCTCACAAGATTTGCCTTTTACTAGCTTCAATAGGC
         66 GGATTGGCGGTCCACTACTCTCTTAATGATCTCACAAGATTTGCCTTTTACTAGCTTCAAAAGGC

                                      *   
        839 CTAATAAGAGCAACTCCTAGAGCACTTCTT
        131 CTAATAAGAGCAACTCCTAGAGCACTCCTT

                                           *                                 
        869 TCCTCACAAGTGTGTGTGTGCTTATACCTTTGACTTGTGCTCTCGTGTTTGTACTCAAATCCTAT
          1 TCCTCACAAGTGTGTGTGTGCTTATACCTTTAACTTGTGCTCTCGTGTTTGTACTCAAATCCTAT

                                                                             
        934 GGATTGGCGGTCCACTACTCTCTTAATGATCTCACAAGATTTGCCTTTTACTAGCTTCAAAAGGC
         66 GGATTGGCGGTCCACTACTCTCTTAATGATCTCACAAGATTTGCCTTTTACTAGCTTCAAAAGGC

                                          
        999 CTAATAAGAGCAACTCCTAGAGCACTCCTT
        131 CTAATAAGAGCAACTCCTAGAGCACTCCTT

              
       1029 TC
          1 TC

       1031 TTCTCGTGAC


Statistics
Matches: 158,  Mismatches: 4, Indels: 0
        0.98            0.02        0.00

Matches are distributed among these distances:
 160  158  1.00

ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35


Consensus pattern (160 bp):   
TCCTCACAAGTGTGTGTGTGCTTATACCTTTAACTTGTGCTCTCGTGTTTGTACTCAAATCCTAT
GGATTGGCGGTCCACTACTCTCTTAATGATCTCACAAGATTTGCCTTTTACTAGCTTCAAAAGGC
CTAATAAGAGCAACTCCTAGAGCACTCCTT

Found at i:1583 original size:10 final size:9

Alignment explanation


    Indices: 1567--1592  Score: 52
    Period size: 9  Copynumber: 2.9  Consensus size: 9

       1557 TCTGGTCGAA

                     
       1567 ATTTTTTTT
          1 ATTTTTTTT

                     
       1576 ATTTTTTTT
          1 ATTTTTTTT

                    
       1585 ATTTTTTT
          1 ATTTTTTT

       1593 ATGTTTTTCG


Statistics
Matches: 17,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   9   17  1.00

ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88


Consensus pattern (9 bp):   
ATTTTTTTT
Done.