Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01014482.1 Corchorus olitorius cultivar O-4 contig14515, 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: 3176
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33


Found at i:1778 original size:25 final size:24

Alignment explanation


    Indices: 1741--1787  Score: 69
    Period size: 26  Copynumber: 1.9  Consensus size: 24

       1731 CTAGAAAATT

                                      
       1741 TGAAAAACTTTGATGGATGAGATGGA
          1 TGAAAAACTTTGAT-GAT-AGATGGA

                                  
       1767 TGAAAAAC-TTGATGATAGATG
          1 TGAAAAACTTTGATGATAGATG

       1788 AATAGAAGGA


Statistics
Matches: 21,  Mismatches: 0, Indels: 3
        0.88            0.00        0.12

Matches are distributed among these distances:
  23    5  0.24
  24    3  0.14
  25    5  0.24
  26    8  0.38

ACGTcount: A:0.40, C:0.04, G:0.28, T:0.28


Consensus pattern (24 bp):   
TGAAAAACTTTGATGATAGATGGA

Found at i:1879 original size:15 final size:15

Alignment explanation


    Indices: 1859--1887  Score: 58
    Period size: 15  Copynumber: 1.9  Consensus size: 15

       1849 ATTAATTAGC

                           
       1859 TTAATTAGCTTATTT
          1 TTAATTAGCTTATTT

                          
       1874 TTAATTAGCTTATT
          1 TTAATTAGCTTATT

       1888 CAAAATAACT


Statistics
Matches: 14,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  15   14  1.00

ACGTcount: A:0.28, C:0.07, G:0.07, T:0.59


Consensus pattern (15 bp):   
TTAATTAGCTTATTT
Done.