Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01007662.1 Corchorus olitorius cultivar O-4 contig07688, 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, 811

Length: 1352
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.35


Found at i:251 original size:18 final size:18

Alignment explanation


    Indices: 228--262  Score: 61
    Period size: 18  Copynumber: 1.9  Consensus size: 18

        218 ACAAAAACTG

                              
        228 AAATTGTTCATAAACAAA
          1 AAATTGTTCATAAACAAA

                       *     
        246 AAATTGTTCATGAACAA
          1 AAATTGTTCATAAACAA

        263 TGTAATAAAA


Statistics
Matches: 16,  Mismatches: 1, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  18   16  1.00

ACGTcount: A:0.51, C:0.11, G:0.09, T:0.29


Consensus pattern (18 bp):   
AAATTGTTCATAAACAAA

Found at i:313 original size:13 final size:13

Alignment explanation


    Indices: 291--323  Score: 59
    Period size: 13  Copynumber: 2.6  Consensus size: 13

        281 AACAAAATAT

                         
        291 TATATA-ATTATA
          1 TATATATATTATA

                         
        303 TATATATATTATA
          1 TATATATATTATA

                    
        316 TATATATA
          1 TATATATA

        324 ATAATTAAAT


Statistics
Matches: 20,  Mismatches: 0, Indels: 1
        0.95            0.00        0.05

Matches are distributed among these distances:
  12    6  0.30
  13   14  0.70

ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52


Consensus pattern (13 bp):   
TATATATATTATA

Found at i:498 original size:35 final size:35

Alignment explanation


    Indices: 452--526  Score: 132
    Period size: 35  Copynumber: 2.1  Consensus size: 35

        442 TTATATAAAC

                                  *            
        452 GAACACTTAAATGAACAATAAATGAGCCTGTTCGT
          1 GAACACTTAAATGAACAATAAACGAGCCTGTTCGT

                                      *        
        487 GAACACTTAAATGAACAATAAACGAGGCTGTTCGT
          1 GAACACTTAAATGAACAATAAACGAGCCTGTTCGT

                 
        522 GAACA
          1 GAACA

        527 TAAACGAACT


Statistics
Matches: 38,  Mismatches: 2, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  35   38  1.00

ACGTcount: A:0.41, C:0.17, G:0.19, T:0.23


Consensus pattern (35 bp):   
GAACACTTAAATGAACAATAAACGAGCCTGTTCGT
Done.