Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01020545.1 Corchorus olitorius cultivar O-4 contig20578, 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: 4317
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34


Found at i:968 original size:78 final size:78

Alignment explanation


    Indices: 839--1001  Score: 308
    Period size: 78  Copynumber: 2.1  Consensus size: 78

        829 CAAGTTAATT

                                                                             
        839 GCAATTTGTAGGTTCCTACTCATCACTTTCAACAAAGCGATCAAATTTATTATTCGCTTTTGATC
          1 GCAATTTGTAGGTTCCTACTCATCACTTTCAACAAAGCGATCAAATTTATTATTCGCTTTTGATC

                         
        904 AAGACCCAAGCGA
         66 AAGACCCAAGCGA

                                                  *                          
        917 GCAATTTGTAGGTTCCTACTCATCACTTTCAACAAAGCTATCAAATTTATTATTCGCTTTTGATC
          1 GCAATTTGTAGGTTCCTACTCATCACTTTCAACAAAGCGATCAAATTTATTATTCGCTTTTGATC

                         
        982 AAGACCCAAGCGA
         66 AAGACCCAAGCGA

            *      
        995 TCAATTT
          1 GCAATTT

       1002 CATTATTCGC


Statistics
Matches: 83,  Mismatches: 2, Indels: 0
        0.98            0.02        0.00

Matches are distributed among these distances:
  78   83  1.00

ACGTcount: A:0.31, C:0.23, G:0.13, T:0.34


Consensus pattern (78 bp):   
GCAATTTGTAGGTTCCTACTCATCACTTTCAACAAAGCGATCAAATTTATTATTCGCTTTTGATC
AAGACCCAAGCGA

Found at i:1095 original size:38 final size:38

Alignment explanation


    Indices: 951--1099  Score: 219
    Period size: 38  Copynumber: 3.9  Consensus size: 38

        941 ACTTTCAACA

                *                     **  *        
        951 AAGCTATCAAATTT-ATTATTCGCTTTTGATCAAGACCC
          1 AAGCGATC-AATTTCATTATTCGCTTGGGACCAAGACCC

                                                 *
        989 AAGCGATCAATTTCATTATTCGCTTGGGACCAAGACCT
          1 AAGCGATCAATTTCATTATTCGCTTGGGACCAAGACCC

                                     *            
       1027 AAGCGATCAATTTCATTATTCGCTTAGGACCAAGACCC
          1 AAGCGATCAATTTCATTATTCGCTTGGGACCAAGACCC

                          *                    
       1065 AAGCGATCAATTTCTTTATTCGCTTGGGACCAAGA
          1 AAGCGATCAATTTCATTATTCGCTTGGGACCAAGA

       1100 TTAATAAATT


Statistics
Matches: 101,  Mismatches: 9, Indels: 2
        0.90            0.08        0.02

Matches are distributed among these distances:
  37    5  0.05
  38   96  0.95

ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31


Consensus pattern (38 bp):   
AAGCGATCAATTTCATTATTCGCTTGGGACCAAGACCC
Done.