Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01013219.1 Corchorus olitorius cultivar O-4 contig13252, 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: 7808
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32


Found at i:5111 original size:36 final size:37

Alignment explanation


    Indices: 5061--5132  Score: 110
    Period size: 37  Copynumber: 2.0  Consensus size: 37

       5051 CATTTATAAG

                     *                           
       5061 GCTACTTTCTCTTCCA-TCTCGAACCAACTGGCTTGA
          1 GCTACTTTCCCTTCCATTCTCGAACCAACTGGCTTGA

                              *         *       
       5097 GCTACTTTCCCTTCCATTTTCGAACCAATTGGCTTG
          1 GCTACTTTCCCTTCCATTCTCGAACCAACTGGCTTG

       5133 GACTCTTTCA


Statistics
Matches: 32,  Mismatches: 3, Indels: 1
        0.89            0.08        0.03

Matches are distributed among these distances:
  36   15  0.47
  37   17  0.53

ACGTcount: A:0.18, C:0.32, G:0.14, T:0.36


Consensus pattern (37 bp):   
GCTACTTTCCCTTCCATTCTCGAACCAACTGGCTTGA

Found at i:5238 original size:72 final size:72

Alignment explanation


    Indices: 5153--5302  Score: 255
    Period size: 72  Copynumber: 2.1  Consensus size: 72

       5143 CCTGTTGCAT

                                                        *         *          
       5153 TTGGACTTATATTGCTTCAAGTGGGCTGATCATTTCTTGGCATTGTCTGCTTGGGCTTGTATTGT
          1 TTGGACTTATATTGCTTCAAGTGGGCTGATCATTTCTTGGCATTATCTGCTTGGCCTTGTATTGT

                   
       5218 TAACATC
         66 TAACATC

                                                          *                  
       5225 TTGGACTTATATTGCTTCAAGTGGGCTGATCATTTCTTGGCATTATTTGCTTGGCCTTGTATTGT
          1 TTGGACTTATATTGCTTCAAGTGGGCTGATCATTTCTTGGCATTATCTGCTTGGCCTTGTATTGT

                *  
       5290 TAACGTC
         66 TAACATC

            *     
       5297 CTGGAC
          1 TTGGAC

       5303 CTTGGGTCTT


Statistics
Matches: 73,  Mismatches: 5, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  72   73  1.00

ACGTcount: A:0.17, C:0.17, G:0.23, T:0.43


Consensus pattern (72 bp):   
TTGGACTTATATTGCTTCAAGTGGGCTGATCATTTCTTGGCATTATCTGCTTGGCCTTGTATTGT
TAACATC
Done.