Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01013877.1 Corchorus olitorius cultivar O-4 contig13910, 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: 3471
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29

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


Found at i:1975 original size:20 final size:20

Alignment explanation


    Indices: 1946--2001  Score: 85
    Period size: 20  Copynumber: 2.8  Consensus size: 20

       1936 ATGAATGGTC

                                
       1946 GTCGACGGTGAAGGATAAGT
          1 GTCGACGGTGAAGGATAAGT

                 *          *   
       1966 GTCGATGGTGAAGGATGAGT
          1 GTCGACGGTGAAGGATAAGT

               *            
       1986 GTCTACGGTGAAGGAT
          1 GTCGACGGTGAAGGAT

       2002 TGGGGTACTA


Statistics
Matches: 32,  Mismatches: 4, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  20   32  1.00

ACGTcount: A:0.27, C:0.09, G:0.41, T:0.23


Consensus pattern (20 bp):   
GTCGACGGTGAAGGATAAGT

Found at i:2345 original size:21 final size:22

Alignment explanation


    Indices: 2331--2372  Score: 68
    Period size: 22  Copynumber: 2.0  Consensus size: 22

       2321 TCGAGCTCGG

                                  
       2331 CTCGAAATTT-TTCGAGTCGAA
          1 CTCGAAATTTCTTCGAGTCGAA

                  *              
       2352 CTCGAATTTTCTTCGAGTCGA
          1 CTCGAAATTTCTTCGAGTCGA

       2373 GCCCGAATAG


Statistics
Matches: 19,  Mismatches: 1, Indels: 1
        0.90            0.05        0.05

Matches are distributed among these distances:
  21    9  0.47
  22   10  0.53

ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36


Consensus pattern (22 bp):   
CTCGAAATTTCTTCGAGTCGAA

Found at i:2379 original size:22 final size:21

Alignment explanation


    Indices: 2333--2380  Score: 60
    Period size: 22  Copynumber: 2.2  Consensus size: 21

       2323 GAGCTCGGCT

                *               *
       2333 CGAAATTTTTCGAGTCGAACT
          1 CGAATTTTTTCGAGTCGAACC

                               *  
       2354 CGAATTTTCTTCGAGTCGAGCC
          1 CGAATTTT-TTCGAGTCGAACC

                 
       2376 CGAAT
          1 CGAAT

       2381 AGCTCACGAG


Statistics
Matches: 23,  Mismatches: 3, Indels: 1
        0.85            0.11        0.04

Matches are distributed among these distances:
  21    7  0.30
  22   16  0.70

ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31


Consensus pattern (21 bp):   
CGAATTTTTTCGAGTCGAACC
Done.