Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01012704.1 Corchorus olitorius cultivar O-4 contig12737, 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: 4441
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34


Found at i:1048 original size:21 final size:21

Alignment explanation


    Indices: 1024--1063  Score: 71
    Period size: 21  Copynumber: 1.9  Consensus size: 21

       1014 GTTCTCTTCT

                                 
       1024 TATATTTGAATTTTCTTAACA
          1 TATATTTGAATTTTCTTAACA

                   *           
       1045 TATATTTTAATTTTCTTAA
          1 TATATTTGAATTTTCTTAA

       1064 TTTGATTAAA


Statistics
Matches: 18,  Mismatches: 1, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  21   18  1.00

ACGTcount: A:0.33, C:0.07, G:0.03, T:0.57


Consensus pattern (21 bp):   
TATATTTGAATTTTCTTAACA

Found at i:1182 original size:21 final size:21

Alignment explanation


    Indices: 1157--1196  Score: 80
    Period size: 21  Copynumber: 1.9  Consensus size: 21

       1147 CTATATGATT

                                 
       1157 TATATTTGAATTTTCTTAACA
          1 TATATTTGAATTTTCTTAACA

                               
       1178 TATATTTGAATTTTCTTAA
          1 TATATTTGAATTTTCTTAA

       1197 TTTGGGTTTG


Statistics
Matches: 19,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  21   19  1.00

ACGTcount: A:0.33, C:0.07, G:0.05, T:0.55


Consensus pattern (21 bp):   
TATATTTGAATTTTCTTAACA

Found at i:4163 original size:19 final size:19

Alignment explanation


    Indices: 4141--4193  Score: 70
    Period size: 19  Copynumber: 2.8  Consensus size: 19

       4131 TTGATTATGA

                 *             
       4141 GTAATTTTTAAATAAAAAT
          1 GTAATATTTAAATAAAAAT

                   *           
       4160 GTAATATATAAATAAAAAT
          1 GTAATATTTAAATAAAAAT

            *       *      
       4179 ATAATATTAAAATAA
          1 GTAATATTTAAATAA

       4194 TTAATAAATA


Statistics
Matches: 29,  Mismatches: 5, Indels: 0
        0.85            0.15        0.00

Matches are distributed among these distances:
  19   29  1.00

ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36


Consensus pattern (19 bp):   
GTAATATTTAAATAAAAAT
Done.