Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01017218.1 Corchorus olitorius cultivar O-4 contig17251, 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: 7925
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31


Found at i:1597 original size:15 final size:16

Alignment explanation


    Indices: 1565--1601  Score: 58
    Period size: 15  Copynumber: 2.4  Consensus size: 16

       1555 CGACACTAGC

                 *          
       1565 TCCTTATCGACGTTGA
          1 TCCTTGTCGACGTTGA

                            
       1581 TCCTTGTCGAC-TTGA
          1 TCCTTGTCGACGTTGA

                  
       1596 TCCTTG
          1 TCCTTG

       1602 AAGTCGACAA


Statistics
Matches: 20,  Mismatches: 1, Indels: 1
        0.91            0.05        0.05

Matches are distributed among these distances:
  15   10  0.50
  16   10  0.50

ACGTcount: A:0.14, C:0.27, G:0.19, T:0.41


Consensus pattern (16 bp):   
TCCTTGTCGACGTTGA

Found at i:3465 original size:16 final size:15

Alignment explanation


    Indices: 3427--3468  Score: 57
    Period size: 15  Copynumber: 2.7  Consensus size: 15

       3417 ACAGAGATTG

                    *   *  
       3427 ACAGAAAATAATTAA
          1 ACAGAAAACAATGAA

                           
       3442 ACAGAAAACAATGAA
          1 ACAGAAAACAATGAA

                        
       3457 ACTAGAAAACAA
          1 AC-AGAAAACAA

       3469 AGCAAAGTAA


Statistics
Matches: 24,  Mismatches: 2, Indels: 1
        0.89            0.07        0.04

Matches are distributed among these distances:
  15   15  0.62
  16    9  0.38

ACGTcount: A:0.67, C:0.12, G:0.10, T:0.12


Consensus pattern (15 bp):   
ACAGAAAACAATGAA
Done.