Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01001354.1 Corchorus olitorius cultivar O-4 contig01354, 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, 631

Length: 1052
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.26


Found at i:496 original size:3 final size:3

Alignment explanation


    Indices: 490--519  Score: 51
    Period size: 3  Copynumber: 9.7  Consensus size: 3

        480 AGGAAAAAAA

                                                   
        490 AAT AAT AAT AAT AAAT AAT AAT AAT AAT AA
          1 AAT AAT AAT AAT -AAT AAT AAT AAT AAT AA

        520 ATAAAAGGGA


Statistics
Matches: 26,  Mismatches: 0, Indels: 2
        0.93            0.00        0.07

Matches are distributed among these distances:
   3   23  0.88
   4    3  0.12

ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30


Consensus pattern (3 bp):   
AAT

Found at i:509 original size:16 final size:16

Alignment explanation


    Indices: 490--523  Score: 68
    Period size: 16  Copynumber: 2.1  Consensus size: 16

        480 AGGAAAAAAA

                            
        490 AATAATAATAATAAAT
          1 AATAATAATAATAAAT

                            
        506 AATAATAATAATAAAT
          1 AATAATAATAATAAAT

              
        522 AA
          1 AA

        524 AAGGGAAGGA


Statistics
Matches: 18,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  16   18  1.00

ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29


Consensus pattern (16 bp):   
AATAATAATAATAAAT

Found at i:523 original size:13 final size:13

Alignment explanation


    Indices: 489--516  Score: 56
    Period size: 13  Copynumber: 2.2  Consensus size: 13

        479 AAGGAAAAAA

                         
        489 AAATAATAATAAT
          1 AAATAATAATAAT

                         
        502 AAATAATAATAAT
          1 AAATAATAATAAT

              
        515 AA
          1 AA

        517 TAAATAAAAG


Statistics
Matches: 15,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  13   15  1.00

ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29


Consensus pattern (13 bp):   
AAATAATAATAAT
Done.