Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01022944.1 Corchorus olitorius cultivar O-4 contig22977, 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: 3030
ACGTcount: A:0.39, C:0.10, G:0.13, T:0.38


Found at i:82 original size:36 final size:36

Alignment explanation


    Indices: 28--97  Score: 104
    Period size: 36  Copynumber: 1.9  Consensus size: 36

         18 GAGATTTTGG

                         *      *               
         28 AGAAATATAATAATCAAAATTACAAAAGATGTAATA
          1 AGAAATATAATAACCAAAATCACAAAAGATGTAATA

                  * *                         
         64 AGAAATTTGATAACCAAAATCACAAAAGATGTAA
          1 AGAAATATAATAACCAAAATCACAAAAGATGTAA

         98 GGTTATTGAA


Statistics
Matches: 30,  Mismatches: 4, Indels: 0
        0.88            0.12        0.00

Matches are distributed among these distances:
  36   30  1.00

ACGTcount: A:0.59, C:0.09, G:0.10, T:0.23


Consensus pattern (36 bp):   
AGAAATATAATAACCAAAATCACAAAAGATGTAATA

Found at i:1463 original size:58 final size:58

Alignment explanation


    Indices: 1357--1471  Score: 169
    Period size: 58  Copynumber: 2.0  Consensus size: 58

       1347 ATAGCATCAT

                      *                                *              
       1357 GCCTCGGTCCTAAAACGTCTTTTTTAGGCATCTAATAAAAAAATATGTCACTTGATAA
          1 GCCTCGGTCCGAAAACGTCTTTTTTAGGCATCTAATAAAAAAACATGTCACTTGATAA

                *                      *             *                
       1415 GCCTTGGTCCGAAAACGTCTTTTTTTATGCATCTAAT-AAAGAACATGTCACTTGATA
          1 GCCTCGGTCCGAAAACGTC-TTTTTTAGGCATCTAATAAAAAAACATGTCACTTGATA

       1472 TTTGATTAAT


Statistics
Matches: 51,  Mismatches: 5, Indels: 2
        0.88            0.09        0.03

Matches are distributed among these distances:
  58   35  0.69
  59   16  0.31

ACGTcount: A:0.32, C:0.19, G:0.15, T:0.34


Consensus pattern (58 bp):   
GCCTCGGTCCGAAAACGTCTTTTTTAGGCATCTAATAAAAAAACATGTCACTTGATAA
Done.