JGI IMPROVED QUALITY DRAFT QC AND ASSEMBLY REPORT

1) RAW DATA:

LibraryName	NumReads	ReadType	AvgReadLength	FileName
ABPYH	246,814	PacBio	3946.0	filtered_subreads.fasta

2) PACBIO READ FILTERING STATS:

Raw reads:	681,608 (100%)
Quality and adapter removed reads:	434,794 (63.8%)
Error corrected reads:	14,157 (2.1%)
Total reads remaining:	246,814 (36.2%)

3) NCBI SCREENING STATS

This step identifies potential contaminants screened by NCBI for submission.

** No potential contaminants found.

4) ASSEMBLY STATS:

Assembly stats of the HGAP assembly.

Avg GC Content: 47.21 +/- 8.01%

Largest Contig: 3,241.0 Kbp

Main genome scaffold total:         	755
Main genome contig total:           	755
Main genome scaffold sequence total:	17.419 MB
Main genome contig sequence total:  	17.419 MB  	0.000% gap
Main genome scaffold N/L50:         	8/258.431 KB
Main genome contig N/L50:           	8/258.431 KB
Max scaffold length:                	3.241 MB
Max contig length:                  	3.241 MB
Number of scaffolds > 50 KB:        	40
% main genome in scaffolds > 50 KB: 	74.85%


Minimum 	Number        	Number        	Total         	Total         	Scaffold
Scaffold	of            	of            	Scaffold      	Contig        	Contig  
Length  	Scaffolds     	Contigs       	Length        	Length        	Coverage
--------	--------------	--------------	--------------	--------------	--------
    All 	           755	           755	    17,418,998	    17,418,998	 100.00%
    500 	           755	           755	    17,418,998	    17,418,998	 100.00%
   1 KB 	           721	           721	    17,390,913	    17,390,913	 100.00%
 2.5 KB 	           543	           543	    17,070,564	    17,070,564	 100.00%
   5 KB 	           333	           333	    16,330,047	    16,330,047	 100.00%
  10 KB 	           158	           158	    15,088,018	    15,088,018	 100.00%
  25 KB 	            54	            54	    13,589,655	    13,589,655	 100.00%
  50 KB 	            40	            40	    13,038,041	    13,038,041	 100.00%
 100 KB 	            30	            30	    12,362,031	    12,362,031	 100.00%
 250 KB 	             9	             9	     9,015,208	     9,015,208	 100.00%
 500 KB 	             3	             3	     7,136,615	     7,136,615	 100.00%
   1 MB 	             3	             3	     7,136,615	     7,136,615	 100.00%
 2.5 MB 	             2	             2	     5,910,896	     5,910,896	 100.00%


5) ASSEMBLERS USED:
HGAP (v.2.3.0,protocol version=2.3.0 method=RS_HGAP_Assembly.3,smrtpipe.py v1.87.139483,)

6) ASSESSED GENOME PROJECT STANDARD:
Improved High-Quality Draft

7) RELEASE DATE:
06/13/2015

8) AUTHORS:
For additional information, please contact:
Alexander Spunde - ayspunde@lbl.gov
Bryce Foster - brycefoster@lbl.gov
Stephan Trong - strong@lbl.gov
Alex Copeland - accopeland@lbl.gov

This file was automatically generated by the hacksaw pipeline software (version 2.3.3).