Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01010110.1 Corchorus capsularis cultivar CVL-1 contig10131, 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: 36453
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32


Found at i:13142 original size:18 final size:18

Alignment explanation


    Indices: 13119--13154  Score: 72
    Period size: 18  Copynumber: 2.0  Consensus size: 18

      13109 ATCCATCTTC

                              
      13119 TTTAGTGGAATAGACTAG
          1 TTTAGTGGAATAGACTAG

                              
      13137 TTTAGTGGAATAGACTAG
          1 TTTAGTGGAATAGACTAG

      13155 AGTGAGAGGG


Statistics
Matches: 18,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  18   18  1.00

ACGTcount: A:0.33, C:0.06, G:0.28, T:0.33


Consensus pattern (18 bp):   
TTTAGTGGAATAGACTAG

Found at i:24919 original size:6 final size:6

Alignment explanation


    Indices: 24908--24934  Score: 54
    Period size: 6  Copynumber: 4.5  Consensus size: 6

      24898 AAAAAGGTGG

                                           
      24908 AAAACA AAAACA AAAACA AAAACA AAA
          1 AAAACA AAAACA AAAACA AAAACA AAA

      24935 CCCTGAAACA


Statistics
Matches: 21,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   6   21  1.00

ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00


Consensus pattern (6 bp):   
AAAACA

Found at i:34331 original size:20 final size:20

Alignment explanation


    Indices: 34306--34350  Score: 90
    Period size: 20  Copynumber: 2.2  Consensus size: 20

      34296 GACTTAAGTG

                                
      34306 CTCAATTTCTCTCTCTGTTT
          1 CTCAATTTCTCTCTCTGTTT

                                
      34326 CTCAATTTCTCTCTCTGTTT
          1 CTCAATTTCTCTCTCTGTTT

                 
      34346 CTCAA
          1 CTCAA

      34351 ATTCCTCTGT


Statistics
Matches: 25,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  20   25  1.00

ACGTcount: A:0.13, C:0.31, G:0.04, T:0.51


Consensus pattern (20 bp):   
CTCAATTTCTCTCTCTGTTT
Done.