Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01000049.1 Corchorus olitorius cultivar O-4 contig00049, 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, 800

Length: 1334
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.41


Found at i:660 original size:24 final size:24

Alignment explanation


    Indices: 611--663  Score: 63
    Period size: 25  Copynumber: 2.2  Consensus size: 24

        601 ATATATAATT

                                 *   
        611 TATAAAAATTAATTATTATTTGTTA
          1 TATAAAAATTAATTATTA-TTCTTA

                   *                 
        636 TATAAAAGTTAATTATTCA-TCTTA
          1 TATAAAAATTAATTATT-ATTCTTA

                
        660 TATA
          1 TATA

        664 TATATTACAA


Statistics
Matches: 25,  Mismatches: 2, Indels: 3
        0.83            0.07        0.10

Matches are distributed among these distances:
  24    8  0.32
  25   16  0.64
  26    1  0.04

ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49


Consensus pattern (24 bp):   
TATAAAAATTAATTATTATTCTTA

Found at i:1321 original size:38 final size:40

Alignment explanation


    Indices: 1250--1329  Score: 137
    Period size: 38  Copynumber: 2.0  Consensus size: 40

       1240 TTTAATTCCT

                                                    
       1250 ATGTAATATATATAATAACTAAAATACTTACATTAATTAA
          1 ATGTAATATATATAATAACTAAAATACTTACATTAATTAA

                     *                              
       1290 ATGTAATA-CTATAATAACT-AAATACTTACATTAATTAA
          1 ATGTAATATATATAATAACTAAAATACTTACATTAATTAA

              
       1328 AT
          1 AT

       1330 TATTA


Statistics
Matches: 39,  Mismatches: 1, Indels: 2
        0.93            0.02        0.05

Matches are distributed among these distances:
  38   21  0.54
  39   10  0.26
  40    8  0.21

ACGTcount: A:0.51, C:0.09, G:0.03, T:0.38


Consensus pattern (40 bp):   
ATGTAATATATATAATAACTAAAATACTTACATTAATTAA
Done.