Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01023538.1 Corchorus olitorius cultivar O-4 contig23571, 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: 2266
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.29


Found at i:705 original size:20 final size:20

Alignment explanation


    Indices: 680--720  Score: 82
    Period size: 20  Copynumber: 2.0  Consensus size: 20

        670 GTGGGCTTTT

                                
        680 AAATCAACAATAAAGGAAGG
          1 AAATCAACAATAAAGGAAGG

                                
        700 AAATCAACAATAAAGGAAGG
          1 AAATCAACAATAAAGGAAGG

             
        720 A
          1 A

        721 GATGGGTTTC


Statistics
Matches: 21,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  20   21  1.00

ACGTcount: A:0.61, C:0.10, G:0.20, T:0.10


Consensus pattern (20 bp):   
AAATCAACAATAAAGGAAGG

Found at i:2111 original size:74 final size:75

Alignment explanation


    Indices: 1987--2184  Score: 326
    Period size: 76  Copynumber: 2.6  Consensus size: 75

       1977 AGGACGGACA

                                      * **              *                    
       1987 GGGGTGCCAGTCTAGGCACTCAGCCGCTAAGTGAGCAGCGTCTGTATGAACGC-TGTCTCAAAAA
          1 GGGGTGCCAGTCTAGGCACTCAGCCGTTGGGTGAGCAGCGTCTGCATGAACGCTTGTCTCAAAAA

                      
       2051 TAGACGAACG
         66 TAGACGAACG

                                                         *                *  
       2061 GGGGTGCCAGTCTAGGCACTCAGCCGTTGGGTGAGCAGCGTCTGCGTGAACGCTTTGTCTCACAA
          1 GGGGTGCCAGTCTAGGCACTCAGCCGTTGGGTGAGCAGCGTCTGCATGAACGC-TTGTCTCAAAA

                       
       2126 ATAGACGAACG
         65 ATAGACGAACG

                                                            
       2137 GGGGTGCCAGTCTAGGCACTCAGCCGTTGGGTGAGCAGCGTCTGCATG
          1 GGGGTGCCAGTCTAGGCACTCAGCCGTTGGGTGAGCAGCGTCTGCATG

       2185 GACATTTCGT


Statistics
Matches: 115,  Mismatches: 7, Indels: 2
        0.93            0.06        0.02

Matches are distributed among these distances:
  74   48  0.42
  76   67  0.58

ACGTcount: A:0.22, C:0.25, G:0.33, T:0.20


Consensus pattern (75 bp):   
GGGGTGCCAGTCTAGGCACTCAGCCGTTGGGTGAGCAGCGTCTGCATGAACGCTTGTCTCAAAAA
TAGACGAACG

Done.