Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01018509.1 Corchorus olitorius cultivar O-4 contig18542, 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: 17201
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32


Found at i:6324 original size:21 final size:21

Alignment explanation


    Indices: 6298--6346  Score: 89
    Period size: 21  Copynumber: 2.3  Consensus size: 21

       6288 CCACTTTCCT

                                 
       6298 CTTGTTCATCACGAGTTCTTA
          1 CTTGTTCATCACGAGTTCTTA

                                 
       6319 CTTGTTCATCACGAGTTCTTA
          1 CTTGTTCATCACGAGTTCTTA

              *    
       6340 CTCGTTC
          1 CTTGTTC

       6347 TTCATATTTT


Statistics
Matches: 27,  Mismatches: 1, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  21   27  1.00

ACGTcount: A:0.16, C:0.27, G:0.14, T:0.43


Consensus pattern (21 bp):   
CTTGTTCATCACGAGTTCTTA

Found at i:8288 original size:32 final size:32

Alignment explanation


    Indices: 8221--8297  Score: 91
    Period size: 32  Copynumber: 2.4  Consensus size: 32

       8211 TACTATGTAA

                            ***    *   *    
       8221 TTTTCCATTTTTTTGGGGGACTACTATGCAAT
          1 TTTTCCATTTTTTTGGAAAACTAATATACAAT

                                          * 
       8253 TTTTCCATTTTTTTGGAAAACTAATATACAGT
          1 TTTTCCATTTTTTTGGAAAACTAATATACAAT

                *        
       8285 TTTTTCATTTTTT
          1 TTTTCCATTTTTT

       8298 GGCCCCTCAA


Statistics
Matches: 38,  Mismatches: 7, Indels: 0
        0.84            0.16        0.00

Matches are distributed among these distances:
  32   38  1.00

ACGTcount: A:0.22, C:0.13, G:0.12, T:0.53


Consensus pattern (32 bp):   
TTTTCCATTTTTTTGGAAAACTAATATACAAT

Found at i:16449 original size:23 final size:22

Alignment explanation


    Indices: 16407--16449  Score: 59
    Period size: 23  Copynumber: 1.9  Consensus size: 22

      16397 TTGCTTTCTT

                          **      
      16407 TTTTTCATTTTTTTTTAAGAAC
          1 TTTTTCATTTTTTTAAAAGAAC

                                 
      16429 TTTTTCATCTTTTTTAAAAGA
          1 TTTTTCAT-TTTTTTAAAAGA

      16450 CTAAAAGTTC


Statistics
Matches: 18,  Mismatches: 2, Indels: 1
        0.86            0.10        0.05

Matches are distributed among these distances:
  22    8  0.44
  23   10  0.56

ACGTcount: A:0.26, C:0.09, G:0.05, T:0.60


Consensus pattern (22 bp):   
TTTTTCATTTTTTTAAAAGAAC
Done.