QD/SAG JGI SINGLE-CELL QC AND ASSEMBLY REPORT - <PROJECT_ID> <BIOCLASS_NAME>

1) RAW DATA:

LibraryName	NumReads	RunType	ReadType	FileName
LIB	100312	2x149	Illumina Std PE (cassava 1.8)	ZHZH.15M.bbqc.fq.gz.fastq

a) SPAdes assembly:
Assembly stats of the SPAdes assembly.

Estimated Genome Recovery using Single-copy Gene Analysis:
archaea HMM: 0%
bacteria HMM: 0%

Avg GC Content: 37.20 +/- 4.58%

Largest Contig: 14.6 KB

Main genome scaffold total: 14
Main genome contig total:   16
Main genome scaffold sequence total: 112.6 KB
Main genome contig sequence total:   112.6 KB (->  0.0% gap)
Main genome scaffold N/L50: 5/10.9 KB
Main genome contig N/L50:   5/8.9 KB
Number of scaffolds > 50 KB: 0
% main genome in scaffolds > 50 KB:  0.0%

 Minimum    Number    Number     Total        Total     Scaffold
Scaffold      of        of      Scaffold      Contig     Contig
 Length   Scaffolds  Contigs     Length       Length    Coverage
--------  ---------  -------  -----------  -----------  --------
    All        14         16      112,642      112,628    99.99%
   1 kb        14         16      112,642      112,628    99.99%
 2.5 kb        12         14      107,897      107,883    99.99%
   5 kb        10         12      100,331      100,317    99.99%
  10 kb         5          6       62,555       62,543    99.98%

2) NCBI SCREENING STATS

This step identifies potential contaminants screened by NCBI for submission.

** No potential contaminants found.

3) KEY PIPELINE CMDS:

a) SPAdes assembly step:
SPAdes version: 3.0.0
SPAdes params: -t 16 -m 120 --sc --careful --12

4) WORKFLOW STEPS:
1. Created SPAdes assembly.

5) ASSEMBLERS USED:
SPAdes (v.3.0.0)

6) ASSESSED GENOME PROJECT STANDARD:
Standard Draft

7) RELEASE DATE:
03/28/2015

8) AUTHORS:
For additional information, please contact:
NAME_OF_ANALYST - ANALYST@lbl.gov
Stephan Trong - strong@lbl.gov
Alex Copeland - accopeland@lbl.gov

This file was automatically generated by the jigsaw pipeline software (version 2.4.2).