Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01005418.1 Corchorus olitorius cultivar O-4 contig05442, 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, 733

Length: 1222
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.26


Found at i:1092 original size:21 final size:21

Alignment explanation


    Indices: 1068--1134  Score: 57
    Period size: 21  Copynumber: 3.2  Consensus size: 21

       1058 TGCTGCGGGT

                                 
       1068 ATCAAGGCCAATCAGCAGAAC
          1 ATCAAGGCCAATCAGCAGAAC

                   *       *     **
       1089 ATC-AGCACCAATGCTGCAG-GT
          1 ATCAAG-GCCAAT-CAGCAGAAC

                       *         
       1110 ATCAAGGCCAACCAGCAGAAC
          1 ATCAAGGCCAATCAGCAGAAC

                
       1131 ATCA
          1 ATCA

       1135 GCATCAATGC


Statistics
Matches: 33,  Mismatches: 9, Indels: 8
        0.66            0.18        0.16

Matches are distributed among these distances:
  20    7  0.21
  21   19  0.58
  22    7  0.21

ACGTcount: A:0.39, C:0.30, G:0.19, T:0.12


Consensus pattern (21 bp):   
ATCAAGGCCAATCAGCAGAAC

Found at i:1096 original size:42 final size:42

Alignment explanation


    Indices: 1050--1222  Score: 301
    Period size: 42  Copynumber: 4.1  Consensus size: 42

       1040 TCAAAAGATT

                                         *            
       1050 AGCACCAATGCTGCGGGTATCAAGGCCAATCAGCAGAACATC
          1 AGCACCAATGCTGCGGGTATCAAGGCCAACCAGCAGAACATC

                          *                           
       1092 AGCACCAATGCTGCAGGTATCAAGGCCAACCAGCAGAACATC
          1 AGCACCAATGCTGCGGGTATCAAGGCCAACCAGCAGAACATC

                *                   *                 
       1134 AGCATCAATGCTGCGGGTATCAAGTCCAACCAGCAGAACATC
          1 AGCACCAATGCTGCGGGTATCAAGGCCAACCAGCAGAACATC

                                                       
       1176 AGCACCGAATGCTGCGGGTATCAAGGCCAACCAGCAGAACATC
          1 AGCACC-AATGCTGCGGGTATCAAGGCCAACCAGCAGAACATC

                
       1219 AGCA
          1 AGCA


Statistics
Matches: 123,  Mismatches: 7, Indels: 1
        0.94            0.05        0.01

Matches are distributed among these distances:
  42   84  0.68
  43   39  0.32

ACGTcount: A:0.34, C:0.29, G:0.23, T:0.13


Consensus pattern (42 bp):   
AGCACCAATGCTGCGGGTATCAAGGCCAACCAGCAGAACATC

Done.