Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01012699.1 Corchorus olitorius cultivar O-4 contig12732, 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: 7352
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31


Found at i:1107 original size:21 final size:21

Alignment explanation


    Indices: 1068--1116  Score: 55
    Period size: 21  Copynumber: 2.3  Consensus size: 21

       1058 TCAATGCTTT

                         **       
       1068 AGGAATGCAAGAGGGATTTCAA
          1 AGGAA-GCAAGAGCCATTTCAA

                               * 
       1090 AGGAAGCAAGAGCCATTTCCA
          1 AGGAAGCAAGAGCCATTTCAA

                   
       1111 A-GAAGC
          1 AGGAAGC

       1117 TACAATTCTT


Statistics
Matches: 24,  Mismatches: 3, Indels: 2
        0.83            0.10        0.07

Matches are distributed among these distances:
  20    5  0.21
  21   14  0.58
  22    5  0.21

ACGTcount: A:0.41, C:0.16, G:0.29, T:0.14


Consensus pattern (21 bp):   
AGGAAGCAAGAGCCATTTCAA

Found at i:7230 original size:35 final size:35

Alignment explanation


    Indices: 7190--7264  Score: 141
    Period size: 35  Copynumber: 2.1  Consensus size: 35

       7180 AGTTCGTTTA

                        *                      
       7190 TGTTCACGAACATGCTCGTTTATTGTTCATTTAAG
          1 TGTTCACGAACAAGCTCGTTTATTGTTCATTTAAG

                                               
       7225 TGTTCACGAACAAGCTCGTTTATTGTTCATTTAAG
          1 TGTTCACGAACAAGCTCGTTTATTGTTCATTTAAG

                 
       7260 TGTTC
          1 TGTTC

       7265 GTTTATATAA


Statistics
Matches: 39,  Mismatches: 1, Indels: 0
        0.98            0.03        0.00

Matches are distributed among these distances:
  35   39  1.00

ACGTcount: A:0.23, C:0.17, G:0.17, T:0.43


Consensus pattern (35 bp):   
TGTTCACGAACAAGCTCGTTTATTGTTCATTTAAG
Done.