Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01018847.1 Corchorus olitorius cultivar O-4 contig18880, 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: 6915
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.30


Found at i:2410 original size:13 final size:13

Alignment explanation


    Indices: 2392--2416  Score: 50
    Period size: 13  Copynumber: 1.9  Consensus size: 13

       2382 TTTTTACCAC

                         
       2392 CTTAAAATTATTG
          1 CTTAAAATTATTG

                        
       2405 CTTAAAATTATT
          1 CTTAAAATTATT

       2417 TTTTGGCAAA


Statistics
Matches: 12,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  13   12  1.00

ACGTcount: A:0.40, C:0.08, G:0.04, T:0.48


Consensus pattern (13 bp):   
CTTAAAATTATTG

Found at i:5829 original size:51 final size:52

Alignment explanation


    Indices: 5728--5829  Score: 120
    Period size: 51  Copynumber: 2.0  Consensus size: 52

       5718 GTTCTTCATA

                                     *               * **       
       5728 TTCTCCTTGTTTAGATCTTGTCTCCGGACAAACAAACACTCTTTTAGTGTTT
          1 TTCTCCTTGTTTAGATCTTGTCTCCAGACAAACAAACACTCGTACAGTGTTT

                                           *                     
       5780 TTCT-CTTGTTTCA-ATCTTGTCTCCAGACATACAAACACT-GTACACGTGTT
          1 TTCTCCTTGTTT-AGATCTTGTCTCCAGACAAACAAACACTCGTACA-GTGTT

       5830 CTTCATCCAG


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:0.25, G:0.13, T:0.40


Consensus pattern (52 bp):   
TTCTCCTTGTTTAGATCTTGTCTCCAGACAAACAAACACTCGTACAGTGTTT
Done.