Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01015596.1 Corchorus olitorius cultivar O-4 contig15629, 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: 10425
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.33


Found at i:4941 original size:21 final size:21

Alignment explanation


    Indices: 4915--4957  Score: 86
    Period size: 21  Copynumber: 2.0  Consensus size: 21

       4905 TCCATCTGGC

                                 
       4915 ATGTAATTTTTGCATTTGTAA
          1 ATGTAATTTTTGCATTTGTAA

                                 
       4936 ATGTAATTTTTGCATTTGTAA
          1 ATGTAATTTTTGCATTTGTAA

             
       4957 A
          1 A

       4958 ACAACCACTT


Statistics
Matches: 22,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  21   22  1.00

ACGTcount: A:0.30, C:0.05, G:0.14, T:0.51


Consensus pattern (21 bp):   
ATGTAATTTTTGCATTTGTAA

Found at i:6236 original size:30 final size:30

Alignment explanation


    Indices: 6200--6259  Score: 120
    Period size: 30  Copynumber: 2.0  Consensus size: 30

       6190 AACCAAAACT

                                          
       6200 CATGATCCGAAATTGTTTTACCTACATATA
          1 CATGATCCGAAATTGTTTTACCTACATATA

                                          
       6230 CATGATCCGAAATTGTTTTACCTACATATA
          1 CATGATCCGAAATTGTTTTACCTACATATA

       6260 TATTTAAGAT


Statistics
Matches: 30,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  30   30  1.00

ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37


Consensus pattern (30 bp):   
CATGATCCGAAATTGTTTTACCTACATATA

Found at i:8302 original size:15 final size:15

Alignment explanation


    Indices: 8282--8314  Score: 57
    Period size: 15  Copynumber: 2.2  Consensus size: 15

       8272 CAATAAACTC

                           
       8282 TTCCCATAATCTTCG
          1 TTCCCATAATCTTCG

                         * 
       8297 TTCCCATAATCTTTG
          1 TTCCCATAATCTTCG

               
       8312 TTC
          1 TTC

       8315 TGGAAATTCA


Statistics
Matches: 17,  Mismatches: 1, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  15   17  1.00

ACGTcount: A:0.18, C:0.30, G:0.06, T:0.45


Consensus pattern (15 bp):   
TTCCCATAATCTTCG
Done.