Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01018670.1 Corchorus olitorius cultivar O-4 contig18703, 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: 2795
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27


Found at i:669 original size:51 final size:50

Alignment explanation


    Indices: 568--669  Score: 111
    Period size: 51  Copynumber: 2.0  Consensus size: 50

        558 GTTCTTCATA

                                                     * **     
        568 TTTTCCTTGTTTAGATCTTGTCTCCGGACAAACAAACACTCTTTTAGTGT
          1 TTTTCCTTGTTTAGATCTTGTCTCCGGACAAACAAACACTCGTACAGTGT

                                             *                    
        618 TTTTCTCTTGTTTCA-ATCTAT-TCTCCGGACATACAAACACT-GTACACGTGT
          1 TTTTC-CTTGTTT-AGATCT-TGTCTCCGGACAAACAAACACTCGTACA-GTGT

             
        669 T
          1 T

        670 CTTCATTCAG


Statistics
Matches: 44,  Mismatches: 4, Indels: 7
        0.80            0.07        0.13

Matches are distributed among these distances:
  50    7  0.16
  51   35  0.80
  52    2  0.05

ACGTcount: A:0.23, C:0.24, G:0.13, T:0.41


Consensus pattern (50 bp):   
TTTTCCTTGTTTAGATCTTGTCTCCGGACAAACAAACACTCGTACAGTGT

Found at i:1882 original size:6 final size:6

Alignment explanation


    Indices: 1871--1899  Score: 58
    Period size: 6  Copynumber: 4.8  Consensus size: 6

       1861 TCATGTGAGA

                                             
       1871 AATGGT AATGGT AATGGT AATGGT AATGG
          1 AATGGT AATGGT AATGGT AATGGT AATGG

       1900 CGGAAGGAAT


Statistics
Matches: 23,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   6   23  1.00

ACGTcount: A:0.34, C:0.00, G:0.34, T:0.31


Consensus pattern (6 bp):   
AATGGT

Done.