Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01014055.1 Corchorus capsularis cultivar CVL-1 contig14076, 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: 19706
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34


Found at i:5626 original size:26 final size:26

Alignment explanation


    Indices: 5596--5648  Score: 106
    Period size: 26  Copynumber: 2.0  Consensus size: 26

       5586 ACTTGATTAT

                                      
       5596 TATAGATTCTTCTTCATGTTTAACAA
          1 TATAGATTCTTCTTCATGTTTAACAA

                                      
       5622 TATAGATTCTTCTTCATGTTTAACAA
          1 TATAGATTCTTCTTCATGTTTAACAA

             
       5648 T
          1 T

       5649 TAACATATGC


Statistics
Matches: 27,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  26   27  1.00

ACGTcount: A:0.30, C:0.15, G:0.08, T:0.47


Consensus pattern (26 bp):   
TATAGATTCTTCTTCATGTTTAACAA

Found at i:10924 original size:7 final size:7

Alignment explanation


    Indices: 10912--10942  Score: 53
    Period size: 7  Copynumber: 4.4  Consensus size: 7

      10902 TCAGCCGACC

                   
      10912 AAACCCA
          1 AAACCCA

                   
      10919 AAACCCA
          1 AAACCCA

                   
      10926 AAACCCA
          1 AAACCCA

                *  
      10933 AAACTCA
          1 AAACCCA

               
      10940 AAA
          1 AAA

      10943 ACAAAACAAA


Statistics
Matches: 23,  Mismatches: 1, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
   7   23  1.00

ACGTcount: A:0.61, C:0.35, G:0.00, T:0.03


Consensus pattern (7 bp):   
AAACCCA

Found at i:12190 original size:2 final size:2

Alignment explanation


    Indices: 12141--12174  Score: 52
    Period size: 2  Copynumber: 17.5  Consensus size: 2

      12131 TTTCATTTTC

                                                       *        
      12141 AT AT AT AT AT AT AT AT AT AT AT AT -T AT AC AT AT A
          1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A

      12175 CATACTCCTA


Statistics
Matches: 29,  Mismatches: 2, Indels: 2
        0.88            0.06        0.06

Matches are distributed among these distances:
   1    1  0.03
   2   28  0.97

ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47


Consensus pattern (2 bp):   
AT

Done.