Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01020471.1 Corchorus olitorius cultivar O-4 contig20504, 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: 2607
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.28


Found at i:2258 original size:33 final size:33

Alignment explanation


    Indices: 2187--2261  Score: 123
    Period size: 33  Copynumber: 2.3  Consensus size: 33

       2177 TAGGCCTTAA

                 *                           
       2187 ACGCCACTAATTTAGCGGCATTTTGTTCATTAG
          1 ACGCCGCTAATTTAGCGGCATTTTGTTCATTAG

                           *            *    
       2220 ACGCCGCTAATTTAGTGGCATTTTGTTCGTTAG
          1 ACGCCGCTAATTTAGCGGCATTTTGTTCATTAG

                     
       2253 ACGCCGCTA
          1 ACGCCGCTA

       2262 TTTTCTAGCA


Statistics
Matches: 39,  Mismatches: 3, Indels: 0
        0.93            0.07        0.00

Matches are distributed among these distances:
  33   39  1.00

ACGTcount: A:0.21, C:0.23, G:0.21, T:0.35


Consensus pattern (33 bp):   
ACGCCGCTAATTTAGCGGCATTTTGTTCATTAG

Found at i:2276 original size:33 final size:33

Alignment explanation


    Indices: 2187--2276  Score: 94
    Period size: 33  Copynumber: 2.7  Consensus size: 33

       2177 TAGGCCTTAA

                 *           *                
       2187 ACGCCACTAATTTAGC-GGCATTTTGTTCATTAG
          1 ACGCCGCTAATTTA-CTAGCATTTTGTTCATTAG

                          * *           *    
       2220 ACGCCGCTAATTTAGTGGCATTTTGTTCGTTAG
          1 ACGCCGCTAATTTACTAGCATTTTGTTCATTAG

                         *           
       2253 ACGCCGCT-ATTTTCTAGCAATTTT
          1 ACGCCGCTAATTTACTAGC-ATTTT

       2277 TGGGCAGTAA


Statistics
Matches: 49,  Mismatches: 6, Indels: 4
        0.83            0.10        0.07

Matches are distributed among these distances:
  32    7  0.14
  33   42  0.86

ACGTcount: A:0.21, C:0.21, G:0.19, T:0.39


Consensus pattern (33 bp):   
ACGCCGCTAATTTACTAGCATTTTGTTCATTAG
Done.