Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01007529.1 Corchorus olitorius cultivar O-4 contig07554, 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, 836

Length: 1394
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.33


Found at i:373 original size:66 final size:66

Alignment explanation


    Indices: 266--392  Score: 175
    Period size: 66  Copynumber: 1.9  Consensus size: 66

        256 AGTAATTCTG

                 *    *                                                      
        266 AACCTGATTTGAGTGTTGTTTGCAATGACATGAAATCTGTTTTAGATGTTGTTAGTGATGATACT
          1 AACCTAATTTAAGTGTTGTTTGCAATGACATGAAATCTGTTTTAGATGTTGTTAGTGATGATACT

             
        331 A
         66 A

                                  **             *        *       *       
        332 AACCTAATTTAAGTGTTGTTTGTGATGACACT-AAATTTGTTTTAGGTGTTGTTTGTGATGA
          1 AACCTAATTTAAGTGTTGTTTGCAATGACA-TGAAATCTGTTTTAGATGTTGTTAGTGATGA

        393 ACAAATTCTG


Statistics
Matches: 53,  Mismatches: 7, Indels: 2
        0.85            0.11        0.03

Matches are distributed among these distances:
  66   52  0.98
  67    1  0.02

ACGTcount: A:0.26, C:0.08, G:0.23, T:0.43


Consensus pattern (66 bp):   
AACCTAATTTAAGTGTTGTTTGCAATGACATGAAATCTGTTTTAGATGTTGTTAGTGATGATACT
A

Found at i:381 original size:33 final size:33

Alignment explanation


    Indices: 278--406  Score: 129
    Period size: 33  Copynumber: 3.9  Consensus size: 33

        268 CCTGATTTGA

                      **                      
        278 GTGTTGTTTGCAATGACA-TGAAATCTGTTTTAG
          1 GTGTTGTTTGTGATGACACT-AAATCTGTTTTAG

            *       *       *      *  **    *
        311 ATGTTGTTAGTGATGATACTAAACCTAATTTAA
          1 GTGTTGTTTGTGATGACACTAAATCTGTTTTAG

                                    *        
        344 GTGTTGTTTGTGATGACACTAAATTTGTTTTAG
          1 GTGTTGTTTGTGATGACACTAAATCTGTTTTAG

                                            
        377 GTGTTGTTTGTGATGA-AC-AAATTCTGTTTT
          1 GTGTTGTTTGTGATGACACTAAA-TCTGTTTT

        407 GGATGCTAAT


Statistics
Matches: 76,  Mismatches: 18, Indels: 5
        0.77            0.18        0.05

Matches are distributed among these distances:
  31    3  0.04
  32    9  0.12
  33   63  0.83
  34    1  0.01

ACGTcount: A:0.26, C:0.08, G:0.22, T:0.45


Consensus pattern (33 bp):   
GTGTTGTTTGTGATGACACTAAATCTGTTTTAG
Done.