Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01009992.1 Corchorus olitorius cultivar O-4 contig10024, 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: 4179
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.35


Found at i:1228 original size:23 final size:23

Alignment explanation


    Indices: 1198--1242  Score: 81
    Period size: 23  Copynumber: 2.0  Consensus size: 23

       1188 TAAAAACCAC

                                   
       1198 TTTTTTTTTTCGTTTCATGACAA
          1 TTTTTTTTTTCGTTTCATGACAA

                      *           
       1221 TTTTTTTTTTGGTTTCATGACA
          1 TTTTTTTTTTCGTTTCATGACA

       1243 GTTGACACCA


Statistics
Matches: 21,  Mismatches: 1, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  23   21  1.00

ACGTcount: A:0.16, C:0.11, G:0.11, T:0.62


Consensus pattern (23 bp):   
TTTTTTTTTTCGTTTCATGACAA

Found at i:3648 original size:37 final size:37

Alignment explanation


    Indices: 3577--3648  Score: 85
    Period size: 37  Copynumber: 1.9  Consensus size: 37

       3567 CTATAATCAA

                                     **  *       
       3577 AATATTAAAATCAATTTATTATATATTATCATAAATC
          1 AATATTAAAATCAATTTATTATATAAAATAATAAATC

                                                 
       3614 AATATTAAAATCAATTATAATT-T-TAAAATAATAAA
          1 AATATTAAAATCAATT-T-ATTATATAAAATAATAAA

       3649 ACAACAAATC


Statistics
Matches: 30,  Mismatches: 3, Indels: 4
        0.81            0.08        0.11

Matches are distributed among these distances:
  37   25  0.83
  38    2  0.07
  39    3  0.10

ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40


Consensus pattern (37 bp):   
AATATTAAAATCAATTTATTATATAAAATAATAAATC
Done.