Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01011972.1 Corchorus olitorius cultivar O-4 contig12005, 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: 11666
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32


Found at i:7319 original size:17 final size:17

Alignment explanation


    Indices: 7280--7312  Score: 57
    Period size: 17  Copynumber: 1.9  Consensus size: 17

       7270 GCTATAAGTT

                             
       7280 TAAGATCACCAGTGATG
          1 TAAGATCACCAGTGATG

                      *     
       7297 TAAGATCACCGGTGAT
          1 TAAGATCACCAGTGAT

       7313 TAAAGATTAC


Statistics
Matches: 15,  Mismatches: 1, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  17   15  1.00

ACGTcount: A:0.33, C:0.18, G:0.24, T:0.24


Consensus pattern (17 bp):   
TAAGATCACCAGTGATG

Found at i:7865 original size:45 final size:45

Alignment explanation


    Indices: 7813--7938  Score: 216
    Period size: 45  Copynumber: 2.8  Consensus size: 45

       7803 ATTATACTTT

                                                         
       7813 ATCTCTAGGTAATTCATCAAAATAAAGCTAATATTATACTCCTCC
          1 ATCTCTAGGTAATTCATCAAAATAAAGCTAATATTATACTCCTCC

                                               *         
       7858 ATCTCTAGGTAATTCATCAAAATAAAGCTAATATTCTACTCCTCC
          1 ATCTCTAGGTAATTCATCAAAATAAAGCTAATATTATACTCCTCC

                *           *         *         
       7903 ATCTTTAGGTAATTCACCAAAATAAACCTAATATTA
          1 ATCTCTAGGTAATTCATCAAAATAAAGCTAATATTA

       7939 ATTGTTGCTT


Statistics
Matches: 76,  Mismatches: 5, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  45   76  1.00

ACGTcount: A:0.39, C:0.21, G:0.06, T:0.33


Consensus pattern (45 bp):   
ATCTCTAGGTAATTCATCAAAATAAAGCTAATATTATACTCCTCC
Done.