Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01013194.1 Corchorus olitorius cultivar O-4 contig13227, 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: 2420
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.37

Warning! 1 characters in sequence are not A, C, G, or T


Found at i:1891 original size:32 final size:32

Alignment explanation


    Indices: 1855--1943  Score: 151
    Period size: 32  Copynumber: 2.8  Consensus size: 32

       1845 CATTATCACC

                  *   *        *            
       1855 TTGGTCTGACATGGCATTGCCACATGGCATTT
          1 TTGGTCCGACGTGGCATTGTCACATGGCATTT

                                            
       1887 TTGGTCCGACGTGGCATTGTCACATGGCATTT
          1 TTGGTCCGACGTGGCATTGTCACATGGCATTT

                                     
       1919 TTGGTCCGACGTGGCATTGTCACAT
          1 TTGGTCCGACGTGGCATTGTCACAT

       1944 CAGCAATATC


Statistics
Matches: 54,  Mismatches: 3, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  32   54  1.00

ACGTcount: A:0.17, C:0.22, G:0.27, T:0.34


Consensus pattern (32 bp):   
TTGGTCCGACGTGGCATTGTCACATGGCATTT

Found at i:1903 original size:19 final size:19

Alignment explanation


    Indices: 1879--1936  Score: 65
    Period size: 19  Copynumber: 3.4  Consensus size: 19

       1869 CATTGCCACA

                               
       1879 TGGCATTTTTGGTCCGACG
          1 TGGCATTTTTGGTCCGACG

                              *
       1898 TGGCA---TT-GT-C-ACA
          1 TGGCATTTTTGGTCCGACG

                               
       1911 TGGCATTTTTGGTCCGACG
          1 TGGCATTTTTGGTCCGACG

                   
       1930 TGGCATT
          1 TGGCATT

       1937 GTCACATCAG


Statistics
Matches: 31,  Mismatches: 2, Indels: 12
        0.69            0.04        0.27

Matches are distributed among these distances:
  13    7  0.23
  14    1  0.03
  15    2  0.06
  16    4  0.13
  17    2  0.06
  18    1  0.03
  19   14  0.45

ACGTcount: A:0.14, C:0.21, G:0.29, T:0.36


Consensus pattern (19 bp):   
TGGCATTTTTGGTCCGACG

Found at i:2231 original size:2 final size:2

Alignment explanation


    Indices: 2226--2251  Score: 52
    Period size: 2  Copynumber: 13.0  Consensus size: 2

       2216 TTATGACGGC

                                                  
       2226 AT AT AT AT AT AT AT AT AT AT AT AT AT
          1 AT AT AT AT AT AT AT AT AT AT AT AT AT

       2252 CACAAGTCTA


Statistics
Matches: 24,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   24  1.00

ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50


Consensus pattern (2 bp):   
AT

Done.