Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01006745.1 Corchorus olitorius cultivar O-4 contig06770, 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, 628

Length: 1047
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.37


Found at i:195 original size:36 final size:36

Alignment explanation


    Indices: 148--217  Score: 113
    Period size: 36  Copynumber: 1.9  Consensus size: 36

        138 GAGATTTTGG

                         *      *               
        148 AGAAATATGATAATCAAAATTACAAAAAATGTAATA
          1 AGAAATATGATAACCAAAATCACAAAAAATGTAATA

                                       *      
        184 AGAAATATGATAACCAAAATCACAAAAGATGTAA
          1 AGAAATATGATAACCAAAATCACAAAAAATGTAA

        218 GGTTATTGAA


Statistics
Matches: 31,  Mismatches: 3, Indels: 0
        0.91            0.09        0.00

Matches are distributed among these distances:
  36   31  1.00

ACGTcount: A:0.60, C:0.09, G:0.10, T:0.21


Consensus pattern (36 bp):   
AGAAATATGATAACCAAAATCACAAAAAATGTAATA

Found at i:340 original size:116 final size:116

Alignment explanation


    Indices: 213--441  Score: 316
    Period size: 116  Copynumber: 2.0  Consensus size: 116

        203 TCACAAAAGA

                        *               **    *      *            *          
        213 TGTAAGGTTATTGAATTAGTGGATAGTATTATACCTCATTTGTGATCATTATAGGTTTTTCAGTA
          1 TGTAAGGTTATTAAATTAGTGGATAGTACAATACATCATTTATGATCATTATAGCTTTTTCAGTA

                                              *                 
        278 ACTTTTGAGAAAAAAAAAT-GACAAATATTCACCGTTGATGAAAGTTTATTG
         66 ACTTTTGAGAAAAAAAAATGGA-AAATATTCACCATTGATGAAAGTTTATTG

                                *               **        *              *   
        329 TGTAAGGTTATTAAATTAGTTGATAGTACAATACATTTTTTATGATTATTATAGCTTTTTCGGTA
          1 TGTAAGGTTATTAAATTAGTGGATAGTACAATACATCATTTATGATCATTATAGCTTTTTCAGTA

                     *                *                     
        394 ACTTTTGAGGAAAAAAAATGGAAAATCTTCACCATTGATGAAAGTTTA
         66 ACTTTTGAGAAAAAAAAATGGAAAATATTCACCATTGATGAAAGTTTA

        442 CTAATGTTAT


Statistics
Matches: 98,  Mismatches: 14, Indels: 2
        0.86            0.12        0.02

Matches are distributed among these distances:
 116   96  0.98
 117    2  0.02

ACGTcount: A:0.35, C:0.08, G:0.17, T:0.39


Consensus pattern (116 bp):   
TGTAAGGTTATTAAATTAGTGGATAGTACAATACATCATTTATGATCATTATAGCTTTTTCAGTA
ACTTTTGAGAAAAAAAAATGGAAAATATTCACCATTGATGAAAGTTTATTG
Done.