Navigation

 ·   Wiki Home
 ·   Data Processing
 ·   Hemileia vastatrix
 ·   Hypothenemus hampei
 ·   Coffea
 ·   Beauveria bassiana
 ·  
 ·   Title List
 ·   Uncategorized Pages
 ·   Random Page
 ·   Recent Changes
 ·   Wiki Help
 ·   What Links Here

Active Members:

Search:

 

Create or Find Page:

 

View Assembly of Assemblies

Previous assembled contigs:

grep -c ‘>’ BbAllAsmContigsCLC.fasta
44932

CAP3 Assembly

/opt/CAP3/cap3 BbAllAsmContigsCLC.fasta > BbAllAsmContigsCLC.fasta.cap3.log

sequence_info -n -r BbAllAsmContigsCLC.fasta.cap.contigs

File                           BbAllAsmContigsCLC.fasta.cap.contigs

Number of sequences                  4815

Residue counts:
  Number of A's                  10203538   24.78 %
  Number of C's                  10287941   24.99 %
  Number of G's                  10280002   24.97 %
  Number of T's                  10196411   24.77 %
  Number of N's                    202463    0.49 %
  Total                          41170355

Sequence lengths:
  Minimum                             201
  Maximum                           65791
  Average                            8550.44
  N50                               16372

grep -c ‘>’ BbAllAsmContigsCLC.fasta.cap.singlets
26720

sequence_info -n -r BbAllAsmContigsCLC.fasta.cap.singlets 

File                           BbAllAsmContigsCLC.fasta.cap.singlets

Number of sequences                 26720

Residue counts:
  Number of A's                  21907194   25.01 %
  Number of C's                  21581221   24.64 %
  Number of G's                  21581388   24.64 %
  Number of T's                  21860026   24.96 %
  Number of N's                    656937    0.75 %
  Total                          87586766

Sequence lengths:
  Minimum                             200
  Maximum                          148910
  Average                            3277.95
  N50                               13666