Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01014318.1 Corchorus olitorius cultivar O-4 contig14351, 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: 20917
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31


Found at i:12799 original size:30 final size:30

Alignment explanation


    Indices: 12765--12827  Score: 99
    Period size: 30  Copynumber: 2.1  Consensus size: 30

      12755 GATGTCTAAC

                                          
      12765 TTGTTGCCGCCGACAGACGATGTTGAAACT
          1 TTGTTGCCGCCGACAGACGATGTTGAAACT

                   *           *       *  
      12795 TTGTTGCGGCCGACAGACGGTGTTGAAGCT
          1 TTGTTGCCGCCGACAGACGATGTTGAAACT

               
      12825 TTG
          1 TTG

      12828 CCGTCAGATT


Statistics
Matches: 30,  Mismatches: 3, Indels: 0
        0.91            0.09        0.00

Matches are distributed among these distances:
  30   30  1.00

ACGTcount: A:0.19, C:0.21, G:0.32, T:0.29


Consensus pattern (30 bp):   
TTGTTGCCGCCGACAGACGATGTTGAAACT

Found at i:15324 original size:6 final size:6

Alignment explanation


    Indices: 15313--15337  Score: 50
    Period size: 6  Copynumber: 4.2  Consensus size: 6

      15303 CAGCTACAAA

                                         
      15313 TTCTGC TTCTGC TTCTGC TTCTGC T
          1 TTCTGC TTCTGC TTCTGC TTCTGC T

      15338 CGATCTCCAT


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

Matches are distributed among these distances:
   6   19  1.00

ACGTcount: A:0.00, C:0.32, G:0.16, T:0.52


Consensus pattern (6 bp):   
TTCTGC

Found at i:17837 original size:26 final size:27

Alignment explanation


    Indices: 17808--17861  Score: 92
    Period size: 28  Copynumber: 2.0  Consensus size: 27

      17798 ATAATATTGA

                                       
      17808 TCTTGA-TCATAAAAACTCAAAAGAAG
          1 TCTTGACTCATAAAAACTCAAAAGAAG

                                        
      17834 TCTTGATCTCATAAAAACTCAAAAGAAG
          1 TCTTGA-CTCATAAAAACTCAAAAGAAG

      17862 AAACAAAGGT


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

Matches are distributed among these distances:
  26    6  0.23
  28   20  0.77

ACGTcount: A:0.48, C:0.17, G:0.11, T:0.24


Consensus pattern (27 bp):   
TCTTGACTCATAAAAACTCAAAAGAAG
Done.