Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01012718.1 Corchorus capsularis cultivar CVL-1 contig12739, 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: 4584
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32


Found at i:1900 original size:5 final size:5

Alignment explanation


    Indices: 1885--1915  Score: 55
    Period size: 5  Copynumber: 6.4  Consensus size: 5

       1875 CTGGTCGAAA

                                                  
       1885 ATTTT -TTTT ATTTT ATTTT ATTTT ATTTT AT
          1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT AT

       1916 ATTTTTCGAT


Statistics
Matches: 25,  Mismatches: 0, Indels: 2
        0.93            0.00        0.07

Matches are distributed among these distances:
   4    4  0.16
   5   21  0.84

ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81


Consensus pattern (5 bp):   
ATTTT

Found at i:1908 original size:15 final size:14

Alignment explanation


    Indices: 1885--1921  Score: 56
    Period size: 15  Copynumber: 2.5  Consensus size: 14

       1875 CTGGTCGAAA

                          
       1885 ATTTTTTTTATTTT
          1 ATTTTTTTTATTTT

                           
       1899 ATTTTATTTTATTTT
          1 ATTTT-TTTTATTTT

                    
       1914 ATATTTTT
          1 AT-TTTTT

       1922 CGATATAACT


Statistics
Matches: 21,  Mismatches: 0, Indels: 3
        0.88            0.00        0.12

Matches are distributed among these distances:
  14    5  0.24
  15   13  0.62
  16    3  0.14

ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81


Consensus pattern (14 bp):   
ATTTTTTTTATTTT

Found at i:3061 original size:33 final size:33

Alignment explanation


    Indices: 3024--3094  Score: 97
    Period size: 33  Copynumber: 2.2  Consensus size: 33

       3014 ACATGTCCAT

                                           * 
       3024 GTCGCGTGGCCGATGATGGCCGGGCTTCACCGA
          1 GTCGCGTGGCCGATGATGGCCGGGCTTCACCAA

                        *  *    *       *    
       3057 GTCGCGTGGCCGGTGTTGGCGGGGCTTCTCCAA
          1 GTCGCGTGGCCGATGATGGCCGGGCTTCACCAA

                 
       3090 GTCGC
          1 GTCGC

       3095 ATGGTCGGTC


Statistics
Matches: 33,  Mismatches: 5, Indels: 0
        0.87            0.13        0.00

Matches are distributed among these distances:
  33   33  1.00

ACGTcount: A:0.08, C:0.30, G:0.41, T:0.21


Consensus pattern (33 bp):   
GTCGCGTGGCCGATGATGGCCGGGCTTCACCAA
Done.