Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01009929.1 Corchorus olitorius cultivar O-4 contig09961, 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, 855

Length: 1425
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30


Found at i:1286 original size:21 final size:21

Alignment explanation


    Indices: 1260--1300  Score: 64
    Period size: 21  Copynumber: 2.0  Consensus size: 21

       1250 AAATACAGGA

                           *     
       1260 CAACTTCGGCCCAGATGTTGT
          1 CAACTTCGGCCCAGAAGTTGT

                   *            
       1281 CAACTTCTGCCCAGAAGTTG
          1 CAACTTCGGCCCAGAAGTTG

       1301 GCCTGTTGAA


Statistics
Matches: 18,  Mismatches: 2, Indels: 0
        0.90            0.10        0.00

Matches are distributed among these distances:
  21   18  1.00

ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27


Consensus pattern (21 bp):   
CAACTTCGGCCCAGAAGTTGT

Found at i:1368 original size:22 final size:22

Alignment explanation


    Indices: 1332--1375  Score: 61
    Period size: 22  Copynumber: 2.0  Consensus size: 22

       1322 AATTGCAGGA

                      *           
       1332 CAACTTCGGCCCAGAACTTGTT
          1 CAACTTCGGCACAGAACTTGTT

                     *      *     
       1354 CAACTTCGGGACAGAAGTTGTT
          1 CAACTTCGGCACAGAACTTGTT

       1376 GCGCAGGACA


Statistics
Matches: 19,  Mismatches: 3, Indels: 0
        0.86            0.14        0.00

Matches are distributed among these distances:
  22   19  1.00

ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27


Consensus pattern (22 bp):   
CAACTTCGGCACAGAACTTGTT

Found at i:1389 original size:52 final size:52

Alignment explanation


    Indices: 1326--1425  Score: 191
    Period size: 52  Copynumber: 1.9  Consensus size: 52

       1316 AACAAGAATT

                                                                
       1326 GCAGGACAACTTCGGCCCAGAACTTGTTCAACTTCGGGACAGAAGTTGTTGC
          1 GCAGGACAACTTCGGCCCAGAACTTGTTCAACTTCGGGACAGAAGTTGTTGC

                                                     *      
       1378 GCAGGACAACTTCGGCCCAGAACTTGTTCAACTTCGGGACATAAGTTG
          1 GCAGGACAACTTCGGCCCAGAACTTGTTCAACTTCGGGACAGAAGTTG


Statistics
Matches: 47,  Mismatches: 1, Indels: 0
        0.98            0.02        0.00

Matches are distributed among these distances:
  52   47  1.00

ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23


Consensus pattern (52 bp):   
GCAGGACAACTTCGGCCCAGAACTTGTTCAACTTCGGGACAGAAGTTGTTGC
Done.