Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01024577.1 Corchorus olitorius cultivar O-4 contig24610, 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: 6692
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31


Found at i:1338 original size:12 final size:12

Alignment explanation


    Indices: 1323--1350  Score: 56
    Period size: 12  Copynumber: 2.3  Consensus size: 12

       1313 ATCATAATCT

                        
       1323 TAATCAATGCCA
          1 TAATCAATGCCA

                        
       1335 TAATCAATGCCA
          1 TAATCAATGCCA

                
       1347 TAAT
          1 TAAT

       1351 TTTTTTTTGA


Statistics
Matches: 16,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  12   16  1.00

ACGTcount: A:0.43, C:0.21, G:0.07, T:0.29


Consensus pattern (12 bp):   
TAATCAATGCCA

Found at i:1667 original size:17 final size:18

Alignment explanation


    Indices: 1647--1682  Score: 56
    Period size: 18  Copynumber: 2.1  Consensus size: 18

       1637 AAAGGGTAGT

                     *        
       1647 TAAAAA-AATTGTTTTCA
          1 TAAAAAGAAGTGTTTTCA

                              
       1664 TAAAAAGAAGTGTTTTCA
          1 TAAAAAGAAGTGTTTTCA

             
       1682 T
          1 T

       1683 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:0.44, C:0.06, G:0.11, T:0.39


Consensus pattern (18 bp):   
TAAAAAGAAGTGTTTTCA

Found at i:1761 original size:15 final size:15

Alignment explanation


    Indices: 1741--1770  Score: 60
    Period size: 15  Copynumber: 2.0  Consensus size: 15

       1731 TTGTTGTCAC

                           
       1741 TCTTTTCTCTAACAA
          1 TCTTTTCTCTAACAA

                           
       1756 TCTTTTCTCTAACAA
          1 TCTTTTCTCTAACAA

       1771 AAGGAGTTAG


Statistics
Matches: 15,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  15   15  1.00

ACGTcount: A:0.27, C:0.27, G:0.00, T:0.47


Consensus pattern (15 bp):   
TCTTTTCTCTAACAA
Done.