Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01014824.1 Corchorus olitorius cultivar O-4 contig14857, 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: 4164
ACGTcount: A:0.36, C:0.19, G:0.13, T:0.32


Found at i:7 original size:2 final size:2

Alignment explanation


    Indices: 1--36  Score: 72
    Period size: 2  Copynumber: 18.0  Consensus size: 2

                                                                 
          1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
          1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA

         37 AGCATTTTGT


Statistics
Matches: 34,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   34  1.00

ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50


Consensus pattern (2 bp):   
TA

Found at i:1591 original size:13 final size:13

Alignment explanation


    Indices: 1573--1599  Score: 54
    Period size: 13  Copynumber: 2.1  Consensus size: 13

       1563 AATGTTTCTA

                         
       1573 AATAAAGTGTTCG
          1 AATAAAGTGTTCG

                         
       1586 AATAAAGTGTTCG
          1 AATAAAGTGTTCG

             
       1599 A
          1 A

       1600 GTATAAGACA


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

Matches are distributed among these distances:
  13   14  1.00

ACGTcount: A:0.41, C:0.07, G:0.22, T:0.30


Consensus pattern (13 bp):   
AATAAAGTGTTCG

Found at i:3364 original size:23 final size:21

Alignment explanation


    Indices: 3338--3381  Score: 52
    Period size: 23  Copynumber: 2.0  Consensus size: 21

       3328 TCACAATATG

                                   
       3338 TTTTGAAAAGTTTAAGTTTTAAA
          1 TTTTGAAAAGTTT-A-TTTTAAA

                **               
       3361 TTTTTCAAAGTTTATTTTAAA
          1 TTTTGAAAAGTTTATTTTAAA

       3382 AAATTTTTAA


Statistics
Matches: 19,  Mismatches: 2, Indels: 2
        0.83            0.09        0.09

Matches are distributed among these distances:
  21    7  0.37
  22    1  0.05
  23   11  0.58

ACGTcount: A:0.36, C:0.02, G:0.09, T:0.52


Consensus pattern (21 bp):   
TTTTGAAAAGTTTATTTTAAA
Done.