Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01008087.1 Corchorus olitorius cultivar O-4 contig08114, 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, 982

Length: 1638
ACGTcount: A:0.23, C:0.24, G:0.20, T:0.32


Found at i:1112 original size:21 final size:21

Alignment explanation


    Indices: 1086--1261  Score: 241
    Period size: 21  Copynumber: 8.4  Consensus size: 21

       1076 TGCTAGAAGT

                                 
       1086 TCATTGGAGCAAGTTCCAAGC
          1 TCATTGGAGCAAGTTCCAAGC

                                 
       1107 TCATTGGAGCAAGTTCCAAGC
          1 TCATTGGAGCAAGTTCCAAGC

                       *        *
       1128 TCATTGGAGCAGGTTCCAAGT
          1 TCATTGGAGCAAGTTCCAAGC

                                 *
       1149 TCATTGGAG-AAGGTTCCAAGA
          1 TCATTGGAGCAA-GTTCCAAGC

                                 
       1170 TCATTGGAGCAAGTTCCAAGC
          1 TCATTGGAGCAAGTTCCAAGC

                       *        *
       1191 TCATTGGAGCAGGTTCCAAGT
          1 TCATTGGAGCAAGTTCCAAGC

                                 *
       1212 TCATTGGAG-AAGGTTCCAAGA
          1 TCATTGGAGCAA-GTTCCAAGC

                            *     
       1233 TCATTGGAG-AAGGTTTCAAGC
          1 TCATTGGAGCAA-GTTCCAAGC

                    
       1254 TCATTGGA
          1 TCATTGGA

       1262 ATTGCCTAAG


Statistics
Matches: 141,  Mismatches: 11, Indels: 6
        0.89            0.07        0.04

Matches are distributed among these distances:
  20    2  0.01
  21  137  0.97
  22    2  0.01

ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26


Consensus pattern (21 bp):   
TCATTGGAGCAAGTTCCAAGC

Found at i:1155 original size:63 final size:63

Alignment explanation


    Indices: 1082--1261  Score: 310
    Period size: 63  Copynumber: 2.9  Consensus size: 63

       1072 AAGATGCTAG

                                     *                                      
       1082 AAGTTCATTGGAGCAA-GTTCCAAGCTCATTGGAGCAAGTTCCAAGCTCATTGGAGCAGGTTCC
          1 AAGTTCATTGGAG-AAGGTTCCAAGATCATTGGAGCAAGTTCCAAGCTCATTGGAGCAGGTTCC

                                                                           
       1145 AAGTTCATTGGAGAAGGTTCCAAGATCATTGGAGCAAGTTCCAAGCTCATTGGAGCAGGTTCC
          1 AAGTTCATTGGAGAAGGTTCCAAGATCATTGGAGCAAGTTCCAAGCTCATTGGAGCAGGTTCC

                                                     *             
       1208 AAGTTCATTGGAGAAGGTTCCAAGATCATTGGAG-AAGGTTTCAAGCTCATTGGA
          1 AAGTTCATTGGAGAAGGTTCCAAGATCATTGGAGCAA-GTTCCAAGCTCATTGGA

       1262 ATTGCCTAAG


Statistics
Matches: 113,  Mismatches: 2, Indels: 4
        0.95            0.02        0.03

Matches are distributed among these distances:
  62    4  0.04
  63  109  0.96

ACGTcount: A:0.29, C:0.18, G:0.27, T:0.26


Consensus pattern (63 bp):   
AAGTTCATTGGAGAAGGTTCCAAGATCATTGGAGCAAGTTCCAAGCTCATTGGAGCAGGTTCC
Done.