Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01007373.1 Corchorus olitorius cultivar O-4 contig07398, 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, 928

Length: 1548
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.35


Found at i:933 original size:16 final size:16

Alignment explanation


    Indices: 912--943  Score: 55
    Period size: 16  Copynumber: 2.0  Consensus size: 16

        902 TCAACTTTCA

                   *        
        912 GTGAAAGTGATGAAGC
          1 GTGAAAGCGATGAAGC

                            
        928 GTGAAAGCGATGAAGC
          1 GTGAAAGCGATGAAGC

        944 AAACGAAGCA


Statistics
Matches: 15,  Mismatches: 1, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  16   15  1.00

ACGTcount: A:0.38, C:0.09, G:0.38, T:0.16


Consensus pattern (16 bp):   
GTGAAAGCGATGAAGC

Found at i:1469 original size:100 final size:99

Alignment explanation


    Indices: 1326--1546  Score: 293
    Period size: 100  Copynumber: 2.2  Consensus size: 99

       1316 TAAATAATTT

                 *                                                           
       1326 TTTTTAATTTCATTTGGAAACGGAATTTTAACACGAAAACTACATATCAGTGTCTAAATCCGCTT
          1 TTTTTCATTTCATTTGGAAACGGAATTTTAACACGAAAACTACATATCAGTGTCTAAATCCGC-T

                          **         *    *     
       1391 TCAAAT-GATAATATTTAATAAATTCCATAGATAAA
         65 TCAAATCGATAATAAGTAATAAATTACATAAAT-AA

                                  *                *         *               
       1426 TTTTTCATTTCATTTGGAAAC-TAATTTTAACACGGAAATCTACATATCCGTGTCTAAATCCGCT
          1 TTTTTCATTTCATTTGGAAACGGAATTTTAACAC-GAAAACTACATATCAGTGTCTAAATCCGCT

              *               *       *        
       1490 TCCAATCGATAATAAGTACTAAATTATATAAATAA
         65 TCAAATCGATAATAAGTAATAAATTACATAAATAA

                                  
       1525 TTTTTCTATTTCATTTGGAAAC
          1 TTTTTC-ATTTCATTTGGAAAC

       1547 AG


Statistics
Matches: 107,  Mismatches: 11, Indels: 6
        0.86            0.09        0.05

Matches are distributed among these distances:
  99   25  0.23
 100   82  0.77

ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38


Consensus pattern (99 bp):   
TTTTTCATTTCATTTGGAAACGGAATTTTAACACGAAAACTACATATCAGTGTCTAAATCCGCTT
CAAATCGATAATAAGTAATAAATTACATAAATAA
Done.