Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01009746.1 Corchorus olitorius cultivar O-4 contig09778, 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: 4404
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34


Found at i:1091 original size:20 final size:21

Alignment explanation


    Indices: 1038--1093  Score: 64
    Period size: 20  Copynumber: 2.8  Consensus size: 21

       1028 TTTCTTTTCC

                *                
       1038 TTGCATTGATTTGAATGATTA
          1 TTGCTTTGATTTGAATGATTA

                          *       
       1059 TTGCTTTGA-TTGATTG-TCTA
          1 TTGCTTTGATTTGAATGAT-TA

                            
       1079 TT-CTTTGATTTGAAT
          1 TTGCTTTGATTTGAAT

       1094 TAGTTGTTTG


Statistics
Matches: 30,  Mismatches: 3, Indels: 5
        0.79            0.08        0.13

Matches are distributed among these distances:
  19    7  0.23
  20   15  0.50
  21    8  0.27

ACGTcount: A:0.21, C:0.07, G:0.18, T:0.54


Consensus pattern (21 bp):   
TTGCTTTGATTTGAATGATTA

Found at i:1646 original size:17 final size:18

Alignment explanation


    Indices: 1624--1659  Score: 56
    Period size: 18  Copynumber: 2.1  Consensus size: 18

       1614 AAAGGGTAGT

                              
       1624 TAAAAA-AAATGTTTTCA
          1 TAAAAAGAAATGTTTTCA

                     *        
       1641 TAAAAAGAAGTGTTTTCA
          1 TAAAAAGAAATGTTTTCA

             
       1659 T
          1 T

       1660 GCAAGAGGAG


Statistics
Matches: 17,  Mismatches: 1, Indels: 1
        0.89            0.05        0.05

Matches are distributed among these distances:
  17    6  0.35
  18   11  0.65

ACGTcount: A:0.47, C:0.06, G:0.11, T:0.36


Consensus pattern (18 bp):   
TAAAAAGAAATGTTTTCA

Done.