Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01013232.1 Corchorus olitorius cultivar O-4 contig13265, 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: 9314
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.34


Found at i:2725 original size:31 final size:31

Alignment explanation


    Indices: 2687--2767  Score: 128
    Period size: 31  Copynumber: 2.6  Consensus size: 31

       2677 AAAGCATTAA

                                            
       2687 AACAATTGGT-CTCGATATTCCGTCAGGACCC
          1 AACAATTGGTCCT-GATATTCCGTCAGGACCC

                               *           
       2718 AACAATTGGTCCTGATATTTCGTCAGGACCC
          1 AACAATTGGTCCTGATATTCCGTCAGGACCC

              *                
       2749 AATAATTGGTCCTGATATT
          1 AACAATTGGTCCTGATATT

       2768 AGATTATCTT


Statistics
Matches: 47,  Mismatches: 2, Indels: 2
        0.92            0.04        0.04

Matches are distributed among these distances:
  31   45  0.96
  32    2  0.04

ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31


Consensus pattern (31 bp):   
AACAATTGGTCCTGATATTCCGTCAGGACCC

Found at i:2930 original size:44 final size:44

Alignment explanation


    Indices: 2869--2980  Score: 138
    Period size: 45  Copynumber: 2.5  Consensus size: 44

       2859 CGGAACAACC

                *     *                                   
       2869 CAATAGGTCCCGATATTAGCTTTA-TATATA-TCGTCAAGACCCAA
          1 CAATTGGTCCTGATATTAGCTTTACT-TA-AGTCGTCAAGACCCAA

                                  *              *       
       2913 CAATTGGTCCTGATATTAGCTTGACTTAAGTTCGTCAGGACCCAA
          1 CAATTGGTCCTGATATTAGCTTTACTTAAG-TCGTCAAGACCCAA

                              *    
       2958 CAATTGGTCCTGATATTAACTTT
          1 CAATTGGTCCTGATATTAGCTTT

       2981 GTTATTTATT


Statistics
Matches: 59,  Mismatches: 6, Indels: 5
        0.84            0.09        0.07

Matches are distributed among these distances:
  43    1  0.02
  44   23  0.39
  45   35  0.59

ACGTcount: A:0.29, C:0.21, G:0.16, T:0.33


Consensus pattern (44 bp):   
CAATTGGTCCTGATATTAGCTTTACTTAAGTCGTCAAGACCCAA
Done.