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SRX109958: Whole Genome Sequencing and Assembly
10 PACBIO_SMRT (PacBio RS) runs: 817,410 spots, 941.8M bases, 4Gb downloads

UUID: 13a1ae24-0fb8-40e2-b8db-68dc51e57810
Design: Fragment library
Submitted by: Broad Institute (BI)
Study: Genome sequencing with short reads
show Abstracthide Abstract
To test methods for de novo genome assembly using Illumina and Pacific Biosciences shotgun data, microbial genomes with finished reference sequences were selected. Streptococcus pneumoniae TIGR4 was one of these microbial genomes. At least one Pacific Biosciences library (long fragment) and two Illumina libraries (short fragment and jumping) were generated and sequenced. Genomic DNA from Claudette Thompson. Two different genome assemblies are part of this project. The assembly in AKBW00000000 is the complete chromosome assembled from Illumina reads. The assembly in AKVY00000000 is the complete chromosome assembled from reads used to assemble AE005672 plus reads from a different isolate of the strain.
Sample: Generic sample from Streptococcus pneumoniae TIGR4
SAMN00103527 • SRS107442 • All experiments • All runs
Library:
Name: LR_59_Spnuemoniae
Instrument: PacBio RS
Strategy: WGS
Source: GENOMIC
Selection: RANDOM
Layout: SINGLE
Construction protocol: Pacific Biosciences
Spot descriptor:
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Experiment attributes: (show all 13 attributes...) (hide...)
gssr_id: 60912.4
lsid: BROAD:SEQUENCING_SAMPLE:60912.4
material_type: Genomic DNA
pacbio_rs_binding_kit: DNA/Polymerase Binding Kit 1.0 (24 rxn)
pacbio_rs_binding_kit_barcode: 110125001359802061511
pacbio_rs_template_prep_kit: DNA Template Prep Kit (8 rxn)
pacbio_rs_template_prep_kit_barcode: 104889000640391031011
project: G11233
sequencing_protocol: Standard Sequencing
template_preparation_adaptor_sequence: ATCTCTCTCttttcctcctcctccgttgttgttgttGAGAGAGAT
template_preparation_kit_insert_size: 2000
used_binding_kit_control: true
work_request: 24802
Pipeline: show...hide...
NameStepProgramVersion
2011-05-02 20:40:53.0Instrument Control Version1.2.0.1.81002
base caller2011-05-03 01:24:49.0Primary AnalysisNRT@172.31.128.10:8082, SwVer=1201.81002, HwVer=1.0
Runs: 10 runs, 817,410 spots, 941.8M bases, 4Gb
Run# of Spots# of BasesSizePublished
SRR38678381,74179.9M350.5Mb2011-12-01
SRR38678481,741107.3M465.1Mb2011-12-01
SRR38678581,741108.8M471.2Mb2011-12-01
SRR38678681,74174M327Mb2011-12-01
SRR38678781,741117.3M506.8Mb2011-12-01
SRR38678981,741112.3M487.5Mb2011-12-01
SRR38679181,741116.5M503.9Mb2011-12-01
SRR38679281,74177.3M340.3Mb2011-12-01
SRR38679481,74174.3M326.5Mb2011-12-01
SRR38679581,74174.1M325.2Mb2011-12-01

ID:
127235

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