Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01011306.1 Corchorus olitorius cultivar O-4 contig11339, 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: 10189
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33


Found at i:7323 original size:14 final size:16

Alignment explanation


    Indices: 7304--7337  Score: 54
    Period size: 14  Copynumber: 2.2  Consensus size: 16

       7294 AGAAGAAGTA

                            
       7304 TGCTTTC-TTATT-AT
          1 TGCTTTCTTTATTAAT

                            
       7318 TGCTTTCTTTATTAAT
          1 TGCTTTCTTTATTAAT

                
       7334 TGCT
          1 TGCT

       7338 ATAGTTTAGA


Statistics
Matches: 18,  Mismatches: 0, Indels: 2
        0.90            0.00        0.10

Matches are distributed among these distances:
  14    7  0.39
  15    5  0.28
  16    6  0.33

ACGTcount: A:0.15, C:0.15, G:0.09, T:0.62


Consensus pattern (16 bp):   
TGCTTTCTTTATTAAT

Found at i:8054 original size:10 final size:11

Alignment explanation


    Indices: 8030--8062  Score: 50
    Period size: 11  Copynumber: 3.1  Consensus size: 11

       8020 AAGTTCGTGT

                       
       8030 TTGAAGACTTA
          1 TTGAAGACTTA

                       
       8041 TTGAAGAC-TA
          1 TTGAAGACTTA

                   *   
       8051 TTGAAGAATTA
          1 TTGAAGACTTA

             
       8062 T
          1 T

       8063 CTCAAGAGGC


Statistics
Matches: 20,  Mismatches: 1, Indels: 2
        0.87            0.04        0.09

Matches are distributed among these distances:
  10    9  0.45
  11   11  0.55

ACGTcount: A:0.39, C:0.06, G:0.18, T:0.36


Consensus pattern (11 bp):   
TTGAAGACTTA
Done.