Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01013578.1 Corchorus olitorius cultivar O-4 contig13611, 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: 2488
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32


Found at i:385 original size:11 final size:11

Alignment explanation


    Indices: 369--394  Score: 52
    Period size: 11  Copynumber: 2.4  Consensus size: 11

        359 CCTTTGCCTA

                       
        369 AAAACTAGAAG
          1 AAAACTAGAAG

                       
        380 AAAACTAGAAG
          1 AAAACTAGAAG

                
        391 AAAA
          1 AAAA

        395 GAAATTATCT


Statistics
Matches: 15,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  11   15  1.00

ACGTcount: A:0.69, C:0.08, G:0.15, T:0.08


Consensus pattern (11 bp):   
AAAACTAGAAG

Found at i:744 original size:15 final size:15

Alignment explanation


    Indices: 724--755  Score: 64
    Period size: 15  Copynumber: 2.1  Consensus size: 15

        714 TTCAAAGGAA

                           
        724 AGTTGTAGATCTCGG
          1 AGTTGTAGATCTCGG

                           
        739 AGTTGTAGATCTCGG
          1 AGTTGTAGATCTCGG

              
        754 AG
          1 AG

        756 GTCTGAGCAG


Statistics
Matches: 17,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  15   17  1.00

ACGTcount: A:0.22, C:0.12, G:0.34, T:0.31


Consensus pattern (15 bp):   
AGTTGTAGATCTCGG

Found at i:2382 original size:33 final size:33

Alignment explanation


    Indices: 2304--2371  Score: 100
    Period size: 33  Copynumber: 2.1  Consensus size: 33

       2294 AAATTGCTAG

                                      *      
       2304 AAAATAGCGGCGTCTAACGAACAAAATGCCACT
          1 AAAATAGCGGCGTCTAACGAACAAAACGCCACT

                            **            *  
       2337 AAAATAGCGGCGTCTATTGAACAAAACGCCGCT
          1 AAAATAGCGGCGTCTAACGAACAAAACGCCACT

              
       2370 AA
          1 AA

       2372 TTTAGTGGCG


Statistics
Matches: 31,  Mismatches: 4, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  33   31  1.00

ACGTcount: A:0.41, C:0.24, G:0.19, T:0.16


Consensus pattern (33 bp):   
AAAATAGCGGCGTCTAACGAACAAAACGCCACT
Done.