Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01010062.1 Corchorus olitorius cultivar O-4 contig10094, 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: 3013
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.30


Found at i:1113 original size:56 final size:56

Alignment explanation


    Indices: 998--1148  Score: 241
    Period size: 56  Copynumber: 2.7  Consensus size: 56

        988 GCTGATATGG

                              *                       *       *       
        998 TCATGTATAAAATATGGGGGATAGAAAATTAAAAAA-AGAGAGTTATGGTCAGGAATC
          1 TCATGTATAAAATATGGGAGATAGAAAA--AAAAAAGAGAGACTTATGGTAAGGAATC

                                                                    
       1055 TCATGTATAAAATATGGGAGATAGAAAAAAAAAAGAGAGACTTATGGTAAGGAATC
          1 TCATGTATAAAATATGGGAGATAGAAAAAAAAAAGAGAGACTTATGGTAAGGAATC

                  *                               
       1111 TCATGTCTAAAATATGGGAGATAGAAAAAAAAAAGAGA
          1 TCATGTATAAAATATGGGAGATAGAAAAAAAAAAGAGA

       1149 AAAGAAAAAC


Statistics
Matches: 89,  Mismatches: 4, Indels: 3
        0.93            0.04        0.03

Matches are distributed among these distances:
  55    6  0.07
  56   56  0.63
  57   27  0.30

ACGTcount: A:0.50, C:0.05, G:0.23, T:0.22


Consensus pattern (56 bp):   
TCATGTATAAAATATGGGAGATAGAAAAAAAAAAGAGAGACTTATGGTAAGGAATC

Found at i:1646 original size:16 final size:16

Alignment explanation


    Indices: 1625--1655  Score: 62
    Period size: 16  Copynumber: 1.9  Consensus size: 16

       1615 CAGGAACATT

                            
       1625 ATTGATTTAATTAATG
          1 ATTGATTTAATTAATG

                           
       1641 ATTGATTTAATTAAT
          1 ATTGATTTAATTAAT

       1656 TTCACTTAAT


Statistics
Matches: 15,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  16   15  1.00

ACGTcount: A:0.39, C:0.00, G:0.10, T:0.52


Consensus pattern (16 bp):   
ATTGATTTAATTAATG
Done.