Data Received - Additional C.gigas Whole Genome Bisulfite Sequencing Data from Genewiz

The FastQC analysis of the intitial data we received from Genewiz (on 20190408)showed consistent failures in the “Per Tile Sequence Quality” for all of Roberto’s Crassostrea gigas sequencing. After discussing with Genewiz, they offered to generate an additional 25% reads for each of those libraries.

The data became available today. The additional reads were appended to the previous sequencing results, so the filenames remain the same as before.

Data was downloaded to owl/nightingales/C_gigas:

http://owl.fish.washington.edu/nightingales/C_gigas

Roberto’s samples match the following filename pattern:

[035]*.gz

Will generate new FastQC analysis for these files. Since the additional data was simply appended to the previous data, I fully expect the “Per Tile Sequence Quality” to fail again. However, this additional data should help compensate for data loss we will experience after quality trimming.

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Updated sequencing report:

Table 2.1 Sample Sequencing Statistics
GENEWIZ NGS Data Report
Project	Sample ID	Barcode Sequence	# Reads	Yield (Mbases)	Mean Quality Score	% Bases >= 30
30_183897003	Tank2-025-026	GCCAAT	66223383	19867	37.04	87.98
30_183897003	0502	CAGATC	62707839	18813	35.43	82.96
30_183897003	5201	ACAGTG	60125207	18037	35.67	83.78
30_183897003	3503	CCGTCC	59836967	17951	35	81.35
30_183897003	5902	AGTTCC	64657824	19397	35.43	83.09
30_183897003	5202	AGTCAA	54986647	16496	35.45	83.07
30_183897003	3501	TGACCA	59575535	17873	35.57	83.51
30_183897003	YRVL	TGACCA	66590575	19977	37.05	87.99
30_183897003	3502	CTTGTA	62881856	18864	35.51	83.18
30_183897003	5903	GTGAAA	54173403	16252	37.06	88.07
30_183897003	0503	ATGTCA	60779896	18234	35.24	82.18
30_183897003	YRVA	CGATGT	67542867	20263	37.1	88.14
30_183897003	Tank3-15-16	ACAGTG	49500297	14850	36.96	87.73
30_183897003	0501	CGATGT	69631899	20890	35.42	83.2
30_183897003	5203	GTCCGC	63065336	18920	35.12	81.9
30_183897003	5901	GCCAAT	72859227	21858	35.42	82.92