Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01013377.1 Corchorus olitorius cultivar O-4 contig13410, 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: 14383
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31

Warning! 1 characters in sequence are not A, C, G, or T


Found at i:8449 original size:11 final size:11

Alignment explanation


    Indices: 8433--8464  Score: 55
    Period size: 11  Copynumber: 2.8  Consensus size: 11

       8423 CTAGATGATC

                       
       8433 ATATATATACT
          1 ATATATATACT

                       
       8444 ATATATATACT
          1 ATATATATACT

                      
       8455 ATATACTATA
          1 ATATA-TATA

       8465 AAAGTTGTTT


Statistics
Matches: 20,  Mismatches: 0, Indels: 1
        0.95            0.00        0.05

Matches are distributed among these distances:
  11   16  0.80
  12    4  0.20

ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44


Consensus pattern (11 bp):   
ATATATATACT

Found at i:9060 original size:109 final size:110

Alignment explanation


    Indices: 8861--9069  Score: 262
    Period size: 109  Copynumber: 1.9  Consensus size: 110

       8851 TCGAATTTGC

                   *             *                                        *  
       8861 TAACCACTTACTCACATATATGATAAGATACGAGAGAGAGAAAAAAAAACTCTAACTAAAATGAT
          1 TAACCACCTACTCACATATATAATAAGATACGAGAGAGAG-AAAAAAAACTCTAACTAAAATAAT

              *       * *             *                   
       8926 TTGCTAGCCACATATCAAGAATGCTCGACACGCCAGCGATAGCCAA
         65 TTACTAGCCAAAAATCAAGAATGCTCAACACGCCAGCGATAGCCAA

                                            * *      *                       
       8972 TAACCACCTACTCACATATATAATAAGA-AC-CGCGAGAG-TAAAAAACTCTAAAACTAAAATAA
          1 TAACCACCTACTCACATATATAATAAGATACGAGAGAGAGAAAAAAAACTCT--AACTAAAATAA

                                 *        *     
       9034 TTTACTAGCCAAAAATCAAGAGTGCTCAACGCGCCA
         64 TTTACTAGCCAAAAATCAAGAATGCTCAACACGCCA

       9070 ACGTGAGCTG


Statistics
Matches: 84,  Mismatches: 12, Indels: 6
        0.82            0.12        0.06

Matches are distributed among these distances:
 107   10  0.12
 109   46  0.55
 110    2  0.02
 111   26  0.31

ACGTcount: A:0.44, C:0.22, G:0.13, T:0.20


Consensus pattern (110 bp):   
TAACCACCTACTCACATATATAATAAGATACGAGAGAGAGAAAAAAAACTCTAACTAAAATAATT
TACTAGCCAAAAATCAAGAATGCTCAACACGCCAGCGATAGCCAA

Found at i:14301 original size:2 final size:2

Alignment explanation


    Indices: 14294--14330  Score: 58
    Period size: 2  Copynumber: 19.0  Consensus size: 2

      14284 CATGAATAAG

                                                         *          
      14294 AT AT AT AT AT AT AT AT AT AT AT -T AT AT AT TT AT AT AT
          1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT

      14331 TNTAAGAAAG


Statistics
Matches: 32,  Mismatches: 2, Indels: 2
        0.89            0.06        0.06

Matches are distributed among these distances:
   1    1  0.03
   2   31  0.97

ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54


Consensus pattern (2 bp):   
AT

Done.