Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01022639.1 Corchorus olitorius cultivar O-4 contig22672, 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: 19374
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29


Found at i:6454 original size:29 final size:29

Alignment explanation


    Indices: 6408--6463  Score: 69
    Period size: 29  Copynumber: 1.9  Consensus size: 29

       6398 ACAAATATTT

                      *         *        
       6408 GCAATTCAATTAATCAATAGCAAGATATG
          1 GCAATTCAATCAATCAATAGAAAGATATG

                               *        
       6437 GCAATTCAAATCAA-CAATTGAAAGATA
          1 GCAATTC-AATCAATCAATAGAAAGATA

       6464 GAATAAGCAA


Statistics
Matches: 23,  Mismatches: 3, Indels: 2
        0.82            0.11        0.07

Matches are distributed among these distances:
  29   18  0.78
  30    5  0.22

ACGTcount: A:0.48, C:0.14, G:0.12, T:0.25


Consensus pattern (29 bp):   
GCAATTCAATCAATCAATAGAAAGATATG

Found at i:11767 original size:51 final size:52

Alignment explanation


    Indices: 11666--11767  Score: 120
    Period size: 51  Copynumber: 2.0  Consensus size: 52

      11656 ATTCATCAAA

                                                     * **       
      11666 TTCTCCTTGTTTAGATCTTGTCTCAGGACAAACAAACACTCTTTTAGTGTTT
          1 TTCTCCTTGTTTAGATCTTGTCTCAGGACAAACAAACACTCGTACAGTGTTT

                                     *     *                     
      11718 TTCT-CTTGTTTCA-ATCTTGTCTCCGGACATACAAACACT-GTACACGTGTT
          1 TTCTCCTTGTTT-AGATCTTGTCTCAGGACAAACAAACACTCGTACA-GTGTT

      11768 CTTCATTCAG


Statistics
Matches: 43,  Mismatches: 5, Indels: 5
        0.81            0.09        0.09

Matches are distributed among these distances:
  50    2  0.05
  51   36  0.84
  52    5  0.12

ACGTcount: A:0.23, C:0.24, G:0.14, T:0.40


Consensus pattern (52 bp):   
TTCTCCTTGTTTAGATCTTGTCTCAGGACAAACAAACACTCGTACAGTGTTT
Done.