Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01020314.1 Corchorus olitorius cultivar O-4 contig20347, 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: 13154
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27


Found at i:10516 original size:13 final size:13

Alignment explanation


    Indices: 10498--10523  Score: 52
    Period size: 13  Copynumber: 2.0  Consensus size: 13

      10488 CTTGGCATGA

                         
      10498 GTGATGATTTTTG
          1 GTGATGATTTTTG

                         
      10511 GTGATGATTTTTG
          1 GTGATGATTTTTG

      10524 TTGTTACCTT


Statistics
Matches: 13,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  13   13  1.00

ACGTcount: A:0.15, C:0.00, G:0.31, T:0.54


Consensus pattern (13 bp):   
GTGATGATTTTTG

Found at i:12341 original size:51 final size:50

Alignment explanation


    Indices: 12240--12341  Score: 118
    Period size: 51  Copynumber: 2.0  Consensus size: 50

      12230 GTTCTTCATA

                                                     * **     
      12240 TTTTCCTTGTTTAGATCTTGTCTCAGGACAAACAAACACTCTTTTAGTGT
          1 TTTTCCTTGTTTAGATCTTGTCTCAGGACAAACAAACACTCGTACAGTGT

                                      *     *                    
      12290 TTTTCTCTTGTTTCA-ATCTTGTCTCCGGACATACAAACACT-GTACACGTGT
          1 TTTTC-CTTGTTT-AGATCTTGTCTCAGGACAAACAAACACTCGTACA-GTGT

             
      12341 T
          1 T

      12342 CTTCATTCAG


Statistics
Matches: 44,  Mismatches: 5, Indels: 5
        0.81            0.09        0.09

Matches are distributed among these distances:
  50    7  0.16
  51   36  0.82
  52    1  0.02

ACGTcount: A:0.23, C:0.23, G:0.14, T:0.41


Consensus pattern (50 bp):   
TTTTCCTTGTTTAGATCTTGTCTCAGGACAAACAAACACTCGTACAGTGT
Done.