Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01009662.1 Corchorus capsularis cultivar CVL-1 contig09683, 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: 29426
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.30


Found at i:17245 original size:1 final size:1

Alignment explanation


    Indices: 17239--17272  Score: 68
    Period size: 1  Copynumber: 34.0  Consensus size: 1

      17229 GATAGATGAG

                                              
      17239 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
          1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT

      17273 CAGAAGATAG


Statistics
Matches: 33,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   1   33  1.00

ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00


Consensus pattern (1 bp):   
T

Found at i:27181 original size:2 final size:2

Alignment explanation


    Indices: 27174--27203  Score: 60
    Period size: 2  Copynumber: 15.0  Consensus size: 2

      27164 TCTCGCCTTA

                                                        
      27174 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
          1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT

      27204 CTATTTACTA


Statistics
Matches: 28,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   28  1.00

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


Consensus pattern (2 bp):   
AT

Found at i:29066 original size:23 final size:22

Alignment explanation


    Indices: 29017--29066  Score: 91
    Period size: 22  Copynumber: 2.3  Consensus size: 22

      29007 ACAAAACATC

                *                 
      29017 CAAACACTACAAGTTTAGGGGG
          1 CAAAAACTACAAGTTTAGGGGG

                                  
      29039 CAAAAACTACAAGTTTAGGGGG
          1 CAAAAACTACAAGTTTAGGGGG

                  
      29061 CAAAAA
          1 CAAAAA

      29067 GGATATTAAA


Statistics
Matches: 27,  Mismatches: 1, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  22   27  1.00

ACGTcount: A:0.44, C:0.16, G:0.24, T:0.16


Consensus pattern (22 bp):   
CAAAAACTACAAGTTTAGGGGG
Done.