QD/SAG JGI SINGLE-CELL QC AND ASSEMBLY REPORT - 1) RAW DATA: LibraryName NumReads RunType ReadType FileName LIB 28766796 2x150 Illumina Std PE (cassava 1.8) ZHYX.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: 40.78 +/- 5.34% Largest Contig: 53.3 KB Main genome scaffold total: 29 Main genome contig total: 29 Main genome scaffold sequence total: 214.0 KB Main genome contig sequence total: 214.0 KB (-> 0.0% gap) Main genome scaffold N/L50: 3/21.5 KB Main genome contig N/L50: 3/21.5 KB Number of scaffolds > 50 KB: 1 % main genome in scaffolds > 50 KB: 24.9% Minimum Number Number Total Total Scaffold Scaffold of of Scaffold Contig Contig Length Scaffolds Contigs Length Length Coverage -------- --------- ------- ----------- ----------- -------- All 29 29 214,008 214,008 100.00% 1 kb 29 29 214,008 214,008 100.00% 2.5 kb 16 16 184,951 184,951 100.00% 5 kb 8 8 156,382 156,382 100.00% 10 kb 5 5 136,452 136,452 100.00% 25 kb 2 2 90,462 90,462 100.00% 50 kb 1 1 53,280 53,280 100.00% 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 8 -m 40 --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: 03/25/2015 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).