Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01013399.1 Corchorus olitorius cultivar O-4 contig13432, 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: 9119
ACGTcount: A:0.31, C:0.14, G:0.21, T:0.33


Found at i:998 original size:24 final size:24

Alignment explanation


    Indices: 966--1016  Score: 93
    Period size: 24  Copynumber: 2.1  Consensus size: 24

        956 ACCTCCTCCT

                                    
        966 TCACCGGAAAATCCATAACAACCC
          1 TCACCGGAAAATCCATAACAACCC

                          *         
        990 TCACCGGAAAATCCCTAACAACCC
          1 TCACCGGAAAATCCATAACAACCC

               
       1014 TCA
          1 TCA

       1017 AATTCACCTC


Statistics
Matches: 26,  Mismatches: 1, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  24   26  1.00

ACGTcount: A:0.39, C:0.39, G:0.08, T:0.14


Consensus pattern (24 bp):   
TCACCGGAAAATCCATAACAACCC

Found at i:1188 original size:43 final size:44

Alignment explanation


    Indices: 1140--1227  Score: 142
    Period size: 43  Copynumber: 2.0  Consensus size: 44

       1130 GCAATAAACT

                                             *          
       1140 TCATCCATTAGAAAAACAGGAATTTGAAGGATGTGTTGAA-AAA
          1 TCATCCATTAGAAAAACAGGAATTTGAAGGATGAGTTGAAGAAA

                            *           *               
       1183 TCATCCATTAGAAAAATAGGAATTTGAATGATGAGTTGAAGAAA
          1 TCATCCATTAGAAAAACAGGAATTTGAAGGATGAGTTGAAGAAA

             
       1227 T
          1 T

       1228 GGGGAATGAC


Statistics
Matches: 41,  Mismatches: 3, Indels: 1
        0.91            0.07        0.02

Matches are distributed among these distances:
  43   37  0.90
  44    4  0.10

ACGTcount: A:0.44, C:0.08, G:0.20, T:0.27


Consensus pattern (44 bp):   
TCATCCATTAGAAAAACAGGAATTTGAAGGATGAGTTGAAGAAA

Found at i:2277 original size:14 final size:15

Alignment explanation


    Indices: 2253--2281  Score: 51
    Period size: 14  Copynumber: 2.0  Consensus size: 15

       2243 AAGTCCAATC

                           
       2253 CTTGTTTATTTATTT
          1 CTTGTTTATTTATTT

                           
       2268 CTTG-TTATTTATTT
          1 CTTGTTTATTTATTT

       2282 TTCCTAGTTG


Statistics
Matches: 14,  Mismatches: 0, Indels: 1
        0.93            0.00        0.07

Matches are distributed among these distances:
  14   10  0.71
  15    4  0.29

ACGTcount: A:0.14, C:0.07, G:0.07, T:0.72


Consensus pattern (15 bp):   
CTTGTTTATTTATTT
Done.