Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01019559.1 Corchorus olitorius cultivar O-4 contig19592, 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, 867

Length: 1445
ACGTcount: A:0.38, C:0.18, G:0.14, T:0.31


Found at i:1379 original size:33 final size:33

Alignment explanation


    Indices: 1340--1444  Score: 174
    Period size: 34  Copynumber: 3.1  Consensus size: 33

       1330 AGTGATATCA

                                             
       1340 AAAACCATGTATCAGAATCCAAATATTTCTTTC
          1 AAAACCATGTATCAGAATCCAAATATTTCTTTC

                                              
       1373 AAAACCATGTATCAGAATCCAAATAATTTCTTTC
          1 AAAACCATGTATCAGAATCCAAAT-ATTTCTTTC

                                         *   *
       1407 AAAACCATGTATCAAGAATCCAAATATTTTTTTA
          1 AAAACCATGTATC-AGAATCCAAATATTTCTTTC

                
       1441 AAAA
          1 AAAA

       1445 A


Statistics
Matches: 68,  Mismatches: 2, Indels: 3
        0.93            0.03        0.04

Matches are distributed among these distances:
  33   24  0.35
  34   33  0.49
  35   11  0.16

ACGTcount: A:0.44, C:0.18, G:0.06, T:0.32


Consensus pattern (33 bp):   
AAAACCATGTATCAGAATCCAAATATTTCTTTC

Found at i:1402 original size:34 final size:34

Alignment explanation


    Indices: 1340--1432  Score: 170
    Period size: 33  Copynumber: 2.7  Consensus size: 34

       1330 AGTGATATCA

                                              
       1340 AAAACCATGTATCAGAATCCAAAT-ATTTCTTTC
          1 AAAACCATGTATCAGAATCCAAATAATTTCTTTC

                                              
       1373 AAAACCATGTATCAGAATCCAAATAATTTCTTTC
          1 AAAACCATGTATCAGAATCCAAATAATTTCTTTC

                                      
       1407 AAAACCATGTATCAAGAATCCAAATA
          1 AAAACCATGTATC-AGAATCCAAATA

       1433 TTTTTTTAAA


Statistics
Matches: 58,  Mismatches: 0, Indels: 2
        0.97            0.00        0.03

Matches are distributed among these distances:
  33   24  0.41
  34   22  0.38
  35   12  0.21

ACGTcount: A:0.44, C:0.20, G:0.06, T:0.29


Consensus pattern (34 bp):   
AAAACCATGTATCAGAATCCAAATAATTTCTTTC
Done.