Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01018593.1 Corchorus olitorius cultivar O-4 contig18626, 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: 1758
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.26


Found at i:1343 original size:21 final size:21

Alignment explanation


    Indices: 1319--1373  Score: 74
    Period size: 21  Copynumber: 2.6  Consensus size: 21

       1309 CGCCCATTAA

                        * *      
       1319 CGTGCCACCACCGGTTAAGCC
          1 CGTGCCACCACCAGCTAAGCC

                             *   
       1340 CGTGCCACCACCAGCTATGCC
          1 CGTGCCACCACCAGCTAAGCC

                   *     
       1361 CGTGCCATCACCA
          1 CGTGCCACCACCA

       1374 TTCAATGCCA


Statistics
Matches: 30,  Mismatches: 4, Indels: 0
        0.88            0.12        0.00

Matches are distributed among these distances:
  21   30  1.00

ACGTcount: A:0.20, C:0.45, G:0.20, T:0.15


Consensus pattern (21 bp):   
CGTGCCACCACCAGCTAAGCC

Found at i:1748 original size:15 final size:14

Alignment explanation


    Indices: 1728--1757  Score: 51
    Period size: 15  Copynumber: 2.1  Consensus size: 14

       1718 ATCTCTTTAA

                           
       1728 TTTTCCTTGCATTAT
          1 TTTTCCTTG-ATTAT

                          
       1743 TTTTCCTTGATTAT
          1 TTTTCCTTGATTAT

             
       1757 T
          1 T

       1758 G


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

Matches are distributed among these distances:
  14    6  0.40
  15    9  0.60

ACGTcount: A:0.13, C:0.17, G:0.07, T:0.63


Consensus pattern (14 bp):   
TTTTCCTTGATTAT
Done.