Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01023562.1 Corchorus olitorius cultivar O-4 contig23595, 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: 8430
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.31


Found at i:7310 original size:91 final size:92

Alignment explanation


    Indices: 7140--7310  Score: 231
    Period size: 91  Copynumber: 1.9  Consensus size: 92

       7130 ACGGTTCAGC

                                  *             * **    **                   
       7140 CAATATTTCTCCAAGGATTGGAGTTCGGTGAGCTCGGTGCAGCATGTTTTCAAATAAATTAGGGT
          1 CAATATTTCTCCAAGGATTGGAATTCGGTGAGCTCGATAAAGCACATTTTCAAATAAATTAGGGT

                                       
       7205 GATTCGGTGAATCAATTTGGTACAGTG
         66 GATTCGGTGAATCAATTTGGTACAGTG

                                                                    * *      
       7232 CAATATTTCGT-CAA-GATTGGAATTCGGTGAGCTCGATAAAGCACATTTTCAAA-CAGTTCAGG
          1 CAATATTTC-TCCAAGGATTGGAATTCGGTGAGCTCGATAAAGCACATTTTCAAATAAATT-AGG

                             
       7294 GTGATTCGGTGAATCAA
         64 GTGATTCGGTGAATCAA

       7311 GTTAACGCGG


Statistics
Matches: 69,  Mismatches: 8, Indels: 5
        0.84            0.10        0.06

Matches are distributed among these distances:
  90    3  0.04
  91   53  0.77
  92   12  0.17
  93    1  0.01

ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31


Consensus pattern (92 bp):   
CAATATTTCTCCAAGGATTGGAATTCGGTGAGCTCGATAAAGCACATTTTCAAATAAATTAGGGT
GATTCGGTGAATCAATTTGGTACAGTG

Found at i:7324 original size:91 final size:90

Alignment explanation


    Indices: 7140--7346  Score: 218
    Period size: 91  Copynumber: 2.3  Consensus size: 90

       7130 ACGGTTCAGC

                                  *             * **    **                   
       7140 CAATATTTCTCCAAGGATTGGAGTTCGGTGAGCTCGGTGCAGCATGTTTTCAAATAAATTAGGGT
          1 CAATATTTCT-CAA-GATTGGAATTCGGTGAGCTCGATAAAGCACATTTTCAAATAAATTAGGGT

                           *  ***      
       7205 GATTCGGTGAATCAATTTGGTACAGTG
         64 GATTCGGTGAATCAAGTTAACACAGTG

                                                                  * *        
       7232 CAATATTTCGTCAAGATTGGAATTCGGTGAGCTCGATAAAGCACATTTTCAAA-CAGTTCAGGGT
          1 CAATATTTC-TCAAGATTGGAATTCGGTGAGCTCGATAAAGCACATTTTCAAATAAATT-AGGGT

                                 * *   
       7296 GATTCGGTGAATCAAGTTAACGCGGTG
         64 GATTCGGTGAATCAAGTTAACACAGTG

              *              *      
       7323 CATTATTTCTTCAAGATAGGAATT
          1 CAATATTTC-TCAAGATTGGAATT

       7347 TGACAACTCG


Statistics
Matches: 96,  Mismatches: 17, Indels: 5
        0.81            0.14        0.04

Matches are distributed among these distances:
  90    3  0.03
  91   80  0.83
  92   12  0.12
  93    1  0.01

ACGTcount: A:0.29, C:0.15, G:0.25, T:0.32


Consensus pattern (90 bp):   
CAATATTTCTCAAGATTGGAATTCGGTGAGCTCGATAAAGCACATTTTCAAATAAATTAGGGTGA
TTCGGTGAATCAAGTTAACACAGTG
Done.