Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01011480.1 Corchorus olitorius cultivar O-4 contig11513, 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: 3008
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.27


Found at i:1699 original size:26 final size:25

Alignment explanation


    Indices: 1653--1703  Score: 66
    Period size: 25  Copynumber: 2.0  Consensus size: 25

       1643 ACAAAAAACC

                        *            
       1653 CAAGGATGAATGTAACCGAAAACAA
          1 CAAGGATGAATGAAACCGAAAACAA

                            **        
       1678 CAAGGATGAATCGAAATTGAAAACAA
          1 CAAGGATGAAT-GAAACCGAAAACAA

       1704 AAATTGTTTT


Statistics
Matches: 22,  Mismatches: 3, Indels: 1
        0.85            0.12        0.04

Matches are distributed among these distances:
  25   11  0.50
  26   11  0.50

ACGTcount: A:0.53, C:0.14, G:0.20, T:0.14


Consensus pattern (25 bp):   
CAAGGATGAATGAAACCGAAAACAA

Found at i:2187 original size:32 final size:32

Alignment explanation


    Indices: 2166--2255  Score: 162
    Period size: 32  Copynumber: 2.8  Consensus size: 32

       2156 ACTAATTAGT

                   *                        
       2166 GGCGTTTATTTCAATAGACGCCGCTAAATAAG
          1 GGCGTTTGTTTCAATAGACGCCGCTAAATAAG

                       *                    
       2198 GGCGTTTGTTTGAATAGACGCCGCTAAATAAG
          1 GGCGTTTGTTTCAATAGACGCCGCTAAATAAG

                                      
       2230 GGCGTTTGTTTCAATAGACGCCGCTA
          1 GGCGTTTGTTTCAATAGACGCCGCTA

       2256 TTTTCCAGCA


Statistics
Matches: 55,  Mismatches: 3, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  32   55  1.00

ACGTcount: A:0.27, C:0.19, G:0.26, T:0.29


Consensus pattern (32 bp):   
GGCGTTTGTTTCAATAGACGCCGCTAAATAAG
Done.