Data
The sequence data of E. coli K12 MG1655 were available at http://www.cbcb.umd.edu/software/PBcR/closure/index.html. A reference paper "Reducing assembly complexity of microbial genomes with single-molecule sequencing" was posted on http://arxiv.org/abs/1304.3752.
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Short Reads
Raw
Paired reads are available at Illumina Miseq (Mate1, Mate2)
Read length: 151bp
Read amount: 5,729,470 X2
Insert size ~ 300bp
100X
The data in frg format were downloaded from Miseq100X
118X (HQ)
We have trimmed the sequence reads to be of error probability less than 0.05. The paired-end reads were discarded if one read is shorter than 150bp.
We therefore obtained 1,839,935 paired-end reads (~118X) with high quality for further analysis.
Long Reads
Raw
Although the PacBio sequence reads are available at SRA, we can not handle adapters correctly by using fastq-dump. We therefore requested for the h5 files from NCBI help desk. Files are listed below: m120208_071634_42139_c100288480630000001523009507231245_s1_p0.bas.h5(1.2GB) m120208_122534_42139_c100290260310000001523009507231262_s1_p0.bas.h5(1010MB) m120208_160812_42139_c100290260310000001523009507231264_s1_p0.bas.h5(733MB) m120228_082105_42139_c100301722550000001523012308061200_s1_p0.bas.h5(1.2GB) m120228_100807_42139_c100301722550000001523012308061201_s1_p0.bas.h5(1.0GB) m120228_115504_42139_c100301722550000001523012308061202_s1_p0.bas.h5(1.0GB) m120228_134222_42139_c100301722550000001523012308061203_s1_p0.bas.h5(985MB) m120228_152936_42139_c100301722550000001523012308061204_s1_p0.bas.h5(1.1GB) m120228_171636_42139_c100301722550000001523012308061205_s1_p0.bas.h5(1.1GB) m120228_190630_42139_c100301722550000001523012308061206_s1_p0.bas.h5(984MB) m120228_192221_42129_c100298890010000001523009207231260_s1_p0.bas.h5(1.1GB) m120228_205404_42139_c100301722550000001523012308061207_s1_p0.bas.h5(879MB) m120228_210845_42129_c000304152550000001500000112311370_s1_p0.bas.h5(1.2GB) m120228_223624_richard_c001202352550000001500000112311330_s1_p0.bas.h5(833MB) m120229_004752_42129_c000304192550000001500000112311350_s1_p0.bas.h5(936MB) m120229_012852_42139_c000301732550000001500000112311360_s1_p0.bas.h5(1.0GB) m120229_193409_42129_c000304212550000001500000112311380_s1_p0.bas.h5(1000MB)