JGI IMPROVED QUALITY DRAFT QC AND ASSEMBLY REPORT

1) RAW DATA:

LibraryName	NumReads	ReadType	AvgReadLength	FileName
ABPYA	681,096	PacBio	3993.5	filtered_subreads.fasta

2) PACBIO READ FILTERING STATS:

Raw reads:	1,492,529 (100%)
Quality and adapter removed reads:	811,433 (54.4%)
Error corrected reads:	10,127 (0.7%)
Total reads remaining:	681,096 (45.6%)

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: 56.25 +/- 8.69%

Largest Contig: 4,101.0 Kbp

Main genome scaffold total:         	286
Main genome contig total:           	286
Main genome scaffold sequence total:	18.430 MB
Main genome contig sequence total:  	18.430 MB  	0.000% gap
Main genome scaffold N/L50:         	11/302.205 KB
Main genome contig N/L50:           	11/302.205 KB
Max scaffold length:                	4.101 MB
Max contig length:                  	4.101 MB
Number of scaffolds > 50 KB:        	52
% main genome in scaffolds > 50 KB: 	76.77%


Minimum 	Number        	Number        	Total         	Total         	Scaffold
Scaffold	of            	of            	Scaffold      	Contig        	Contig  
Length  	Scaffolds     	Contigs       	Length        	Length        	Coverage
--------	--------------	--------------	--------------	--------------	--------
    All 	           286	           286	    18,430,244	    18,430,244	 100.00%
    500 	           286	           286	    18,430,244	    18,430,244	 100.00%
   1 KB 	           282	           282	    18,427,254	    18,427,254	 100.00%
 2.5 KB 	           259	           259	    18,389,678	    18,389,678	 100.00%
   5 KB 	           236	           236	    18,306,119	    18,306,119	 100.00%
  10 KB 	           205	           205	    18,089,956	    18,089,956	 100.00%
  25 KB 	           124	           124	    16,597,304	    16,597,304	 100.00%
  50 KB 	            52	            52	    14,148,925	    14,148,925	 100.00%
 100 KB 	            28	            28	    12,533,239	    12,533,239	 100.00%
 250 KB 	            14	            14	    10,240,814	    10,240,814	 100.00%
 500 KB 	             5	             5	     7,383,892	     7,383,892	 100.00%
   1 MB 	             2	             2	     5,552,374	     5,552,374	 100.00%
 2.5 MB 	             1	             1	     4,100,976	     4,100,976	 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:
06/07/2015

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).