Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01015136.1 Corchorus capsularis cultivar CVL-1 contig15157, 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: 36599
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32


Found at i:28704 original size:15 final size:15

Alignment explanation


    Indices: 28684--28712  Score: 58
    Period size: 15  Copynumber: 1.9  Consensus size: 15

      28674 AGATTGTTCC

                           
      28684 TCTTCCTCTTCCTGA
          1 TCTTCCTCTTCCTGA

                          
      28699 TCTTCCTCTTCCTG
          1 TCTTCCTCTTCCTG

      28713 TTCTACATCT


Statistics
Matches: 14,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  15   14  1.00

ACGTcount: A:0.03, C:0.41, G:0.07, T:0.48


Consensus pattern (15 bp):   
TCTTCCTCTTCCTGA

Found at i:30890 original size:6 final size:6

Alignment explanation


    Indices: 30879--30911  Score: 66
    Period size: 6  Copynumber: 5.5  Consensus size: 6

      30869 GGAACCATCG

                                                  
      30879 CTGTGA CTGTGA CTGTGA CTGTGA CTGTGA CTG
          1 CTGTGA CTGTGA CTGTGA CTGTGA CTGTGA CTG

      30912 GATGGTTCAT


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

Matches are distributed among these distances:
   6   27  1.00

ACGTcount: A:0.15, C:0.18, G:0.33, T:0.33


Consensus pattern (6 bp):   
CTGTGA

Found at i:33415 original size:21 final size:21

Alignment explanation


    Indices: 33389--33430  Score: 75
    Period size: 21  Copynumber: 2.0  Consensus size: 21

      33379 AGTCCATAAA

                                 
      33389 GCTCTAGTTTCCGACTCTTTT
          1 GCTCTAGTTTCCGACTCTTTT

                        *        
      33410 GCTCTAGTTTCCTACTCTTTT
          1 GCTCTAGTTTCCGACTCTTTT

      33431 CAACTTTATC


Statistics
Matches: 20,  Mismatches: 1, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  21   20  1.00

ACGTcount: A:0.10, C:0.29, G:0.12, T:0.50


Consensus pattern (21 bp):   
GCTCTAGTTTCCGACTCTTTT
Done.