Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01016422.1 Corchorus capsularis cultivar CVL-1 contig16443, 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: 8236
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.31


Found at i:3900 original size:23 final size:23

Alignment explanation


    Indices: 3870--3915  Score: 92
    Period size: 23  Copynumber: 2.0  Consensus size: 23

       3860 ACTCAATTCA

                                   
       3870 TGAGTGAGTAATCCTTTTCTTTT
          1 TGAGTGAGTAATCCTTTTCTTTT

                                   
       3893 TGAGTGAGTAATCCTTTTCTTTT
          1 TGAGTGAGTAATCCTTTTCTTTT

       3916 CTCCAATGTA


Statistics
Matches: 23,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  23   23  1.00

ACGTcount: A:0.17, C:0.13, G:0.17, T:0.52


Consensus pattern (23 bp):   
TGAGTGAGTAATCCTTTTCTTTT

Found at i:7410 original size:18 final size:17

Alignment explanation


    Indices: 7377--7417  Score: 64
    Period size: 18  Copynumber: 2.4  Consensus size: 17

       7367 AAAAGCAAGC

                       *     
       7377 AAGAAAAGAAAGAAATA
          1 AAGAAAAGAAAAAAATA

                              
       7394 AAGAAAAGGAAAAAAATA
          1 AAGAAAA-GAAAAAAATA

                  
       7412 AAGAAA
          1 AAGAAA

       7418 GATCAATCGA


Statistics
Matches: 22,  Mismatches: 1, Indels: 1
        0.92            0.04        0.04

Matches are distributed among these distances:
  17    7  0.32
  18   15  0.68

ACGTcount: A:0.78, C:0.00, G:0.17, T:0.05


Consensus pattern (17 bp):   
AAGAAAAGAAAAAAATA

Found at i:7911 original size:2 final size:2

Alignment explanation


    Indices: 7904--7928  Score: 50
    Period size: 2  Copynumber: 12.5  Consensus size: 2

       7894 AAGAATATGC

                                                 
       7904 TA TA TA TA TA TA TA TA TA TA TA TA T
          1 TA TA TA TA TA TA TA TA TA TA TA TA T

       7929 GCGAAAGTTG


Statistics
Matches: 23,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   23  1.00

ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52


Consensus pattern (2 bp):   
TA

Done.