Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01014903.1 Corchorus olitorius cultivar O-4 contig14936, 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: 3088
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.32


Found at i:1161 original size:30 final size:30

Alignment explanation


    Indices: 1119--1176  Score: 82
    Period size: 30  Copynumber: 1.9  Consensus size: 30

       1109 CCTCACTCTA

                         *                
       1119 ATTCTCTACCTTTGTTTTCAACAAAAAAAC
          1 ATTCTCTACCTTTATTTTCAACAAAAAAAC

                                 *       
       1149 ATTCT-TAGCCTTTATTTTCACCAAAAAA
          1 ATTCTCTA-CCTTTATTTTCAACAAAAAA

       1177 TTCTCTGCCT


Statistics
Matches: 25,  Mismatches: 2, Indels: 2
        0.86            0.07        0.07

Matches are distributed among these distances:
  29    2  0.08
  30   23  0.92

ACGTcount: A:0.36, C:0.22, G:0.03, T:0.38


Consensus pattern (30 bp):   
ATTCTCTACCTTTATTTTCAACAAAAAAAC

Found at i:1186 original size:27 final size:29

Alignment explanation


    Indices: 1118--1188  Score: 76
    Period size: 30  Copynumber: 2.5  Consensus size: 29

       1108 ACCTCACTCT

                    *     *              
       1118 AATTCTCTACCTTTGTTTTCAACAAAAAA
          1 AATTCTCTGCCTTTATTTTCAACAAAAAA

                                      *    
       1147 ACATTCT-TAGCCTTTATTTTC-AC-CAAAA
          1 A-ATTCTCT-GCCTTTATTTTCAACAAAAAA

                          
       1175 AATTCTCTGCCTTT
          1 AATTCTCTGCCTTT

       1189 GTGAATACAC


Statistics
Matches: 36,  Mismatches: 3, Indels: 8
        0.77            0.06        0.17

Matches are distributed among these distances:
  27   11  0.31
  28    6  0.17
  29    4  0.11
  30   15  0.42

ACGTcount: A:0.31, C:0.24, G:0.04, T:0.41


Consensus pattern (29 bp):   
AATTCTCTGCCTTTATTTTCAACAAAAAA
Done.