Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01019734.1 Corchorus olitorius cultivar O-4 contig19767, 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: 36985
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32


Found at i:7990 original size:11 final size:11

Alignment explanation


    Indices: 7961--7990  Score: 51
    Period size: 11  Copynumber: 2.7  Consensus size: 11

       7951 CTCAGCCACC

                   *   
       7961 CCATTTCCGGG
          1 CCATTTCTGGG

                       
       7972 CCATTTCTGGG
          1 CCATTTCTGGG

                    
       7983 CCATTTCT
          1 CCATTTCT

       7991 CTAAAATATC


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

Matches are distributed among these distances:
  11   18  1.00

ACGTcount: A:0.10, C:0.33, G:0.20, T:0.37


Consensus pattern (11 bp):   
CCATTTCTGGG

Found at i:21157 original size:65 final size:65

Alignment explanation


    Indices: 21075--21202  Score: 247
    Period size: 65  Copynumber: 2.0  Consensus size: 65

      21065 ATGTTGGAAC

                    *                                                        
      21075 TTGGACGCTAGAACAAACTCAAAAGCCAGTCTCATTTCAAGTTGCAGCTAAAGAATTAGAAGAAG
          1 TTGGACGCCAGAACAAACTCAAAAGCCAGTCTCATTTCAAGTTGCAGCTAAAGAATTAGAAGAAG

                                                                           
      21140 TTGGACGCCAGAACAAACTCAAAAGCCAGTCTCATTTCAAGTTGCAGCTAAAGAATTAGAAGA
          1 TTGGACGCCAGAACAAACTCAAAAGCCAGTCTCATTTCAAGTTGCAGCTAAAGAATTAGAAGA

      21203 GTACTTGCAA


Statistics
Matches: 62,  Mismatches: 1, Indels: 0
        0.98            0.02        0.00

Matches are distributed among these distances:
  65   62  1.00

ACGTcount: A:0.40, C:0.20, G:0.20, T:0.21


Consensus pattern (65 bp):   
TTGGACGCCAGAACAAACTCAAAAGCCAGTCTCATTTCAAGTTGCAGCTAAAGAATTAGAAGAAG

Found at i:33311 original size:66 final size:66

Alignment explanation


    Indices: 33205--33340  Score: 272
    Period size: 66  Copynumber: 2.1  Consensus size: 66

      33195 CAAGTCCAGA

                                                                             
      33205 ACCACTGCATCATCAGTTCCATTGGGATGACCCTAAGTACATCCCCAGTTTTAAGCTGATAGAAT
          1 ACCACTGCATCATCAGTTCCATTGGGATGACCCTAAGTACATCCCCAGTTTTAAGCTGATAGAAT

             
      33270 C
         66 C

                                                                             
      33271 ACCACTGCATCATCAGTTCCATTGGGATGACCCTAAGTACATCCCCAGTTTTAAGCTGATAGAAT
          1 ACCACTGCATCATCAGTTCCATTGGGATGACCCTAAGTACATCCCCAGTTTTAAGCTGATAGAAT

             
      33336 C
         66 C

                
      33337 ACCA
          1 ACCA

      33341 TAATGGTGAC


Statistics
Matches: 70,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  66   70  1.00

ACGTcount: A:0.29, C:0.28, G:0.16, T:0.26


Consensus pattern (66 bp):   
ACCACTGCATCATCAGTTCCATTGGGATGACCCTAAGTACATCCCCAGTTTTAAGCTGATAGAAT
C
Done.