Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01004993.1 Corchorus capsularis cultivar CVL-1 contig05011, 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: 12840
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35


Found at i:4861 original size:16 final size:16

Alignment explanation


    Indices: 4840--4871  Score: 64
    Period size: 16  Copynumber: 2.0  Consensus size: 16

       4830 AGCGCAGGAA

                            
       4840 GGAAAAAAAAAAAAAG
          1 GGAAAAAAAAAAAAAG

                            
       4856 GGAAAAAAAAAAAAAG
          1 GGAAAAAAAAAAAAAG

       4872 AAGAAGAAGA


Statistics
Matches: 16,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  16   16  1.00

ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00


Consensus pattern (16 bp):   
GGAAAAAAAAAAAAAG

Found at i:6074 original size:16 final size:16

Alignment explanation


    Indices: 6053--6084  Score: 64
    Period size: 16  Copynumber: 2.0  Consensus size: 16

       6043 TTTATACCTA

                            
       6053 GACTTACTATGTTCAC
          1 GACTTACTATGTTCAC

                            
       6069 GACTTACTATGTTCAC
          1 GACTTACTATGTTCAC

       6085 CATATTATCT


Statistics
Matches: 16,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  16   16  1.00

ACGTcount: A:0.25, C:0.25, G:0.12, T:0.38


Consensus pattern (16 bp):   
GACTTACTATGTTCAC

Found at i:10715 original size:14 final size:15

Alignment explanation


    Indices: 10690--10718  Score: 51
    Period size: 14  Copynumber: 2.0  Consensus size: 15

      10680 GAACTATTTG

                           
      10690 CTTTCATCAGTTTCT
          1 CTTTCATCAGTTTCT

                           
      10705 CTTTC-TCAGTTTCT
          1 CTTTCATCAGTTTCT

      10719 ATAGCTAAAG


Statistics
Matches: 14,  Mismatches: 0, Indels: 1
        0.93            0.00        0.07

Matches are distributed among these distances:
  14    9  0.64
  15    5  0.36

ACGTcount: A:0.10, C:0.28, G:0.07, T:0.55


Consensus pattern (15 bp):   
CTTTCATCAGTTTCT
Done.