Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01011176.1 Corchorus olitorius cultivar O-4 contig11209, 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: 2423
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.32


Found at i:1176 original size:26 final size:23

Alignment explanation


    Indices: 1146--1192  Score: 67
    Period size: 26  Copynumber: 1.9  Consensus size: 23

       1136 CTTGAAAATT

                                      
       1146 TGAAAAACTTTGATGGATGAGATGGA
          1 TGAAAAAC-TTGAT-GAT-AGATGGA

                                 
       1172 TGAAAAACTTGATGATAGATG
          1 TGAAAAACTTGATGATAGATG

       1193 AATAGAAGGA


Statistics
Matches: 21,  Mismatches: 0, Indels: 3
        0.88            0.00        0.12

Matches are distributed among these distances:
  23    5  0.24
  24    3  0.14
  25    5  0.24
  26    8  0.38

ACGTcount: A:0.40, C:0.04, G:0.28, T:0.28


Consensus pattern (23 bp):   
TGAAAAACTTGATGATAGATGGA

Found at i:2077 original size:21 final size:21

Alignment explanation


    Indices: 2053--2127  Score: 114
    Period size: 21  Copynumber: 3.6  Consensus size: 21

       2043 CTTAGGCAAT

                         *       
       2053 TCCAATGAGCTTGAAACCTTC
          1 TCCAATGAGCTTGGAACCTTC

                                 
       2074 TCCAATGAGCTTGGAACCTTC
          1 TCCAATGAGCTTGGAACCTTC

                 *           * * 
       2095 TCCAAGGAGCTTGGAACATGC
          1 TCCAATGAGCTTGGAACCTTC

                        
       2116 TCCAATGAGCTT
          1 TCCAATGAGCTT

       2128 CTTTCACATC


Statistics
Matches: 49,  Mismatches: 5, Indels: 0
        0.91            0.09        0.00

Matches are distributed among these distances:
  21   49  1.00

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


Consensus pattern (21 bp):   
TCCAATGAGCTTGGAACCTTC
Done.