Analysis of the distribution of assimilation products and the characteristics of transcriptomes in rice by submergence during the ripening stage

Table 2 Statistics of read mapping to reference gene set

Sample description		Total cleaned reads (ea)	Aligned 0 times		Aligned exactly 1 time		Aligned ≥1 times		Mapping rate
Sample description		Total cleaned reads (ea)	Reads (ea)	%	Reads (ea)	%	Reads (ea)	%	Reads (ea)	%
Seed	control	11,032,891	1,399,412 ± 8197	13	4,775,660 ± 1047	43	4,857,820 ± 7150	44	9,633,480	87
Seed	submergence	11,032,891	1,622,211 ± 2966	15	4,797,957 ± 1901	43	4,612,724 ± 4867	42	9,410,680	85
Stem	control	11,032,891	1,738,721 ± 780	16	4,665,276 ± 1318	42	4,628,895 ± 2098	42	9,294,171	84
Stem	submergence	11,032,891	1,917,617 ± 6293	17	4,463,265 ± 1225	40	4,652,010 ± 5068	42	9,115,274	83
Leaf	control	11,032,891	1,471,592 ± 6163	13	4,785,651 ± 3852	43	4,775,648 ± 2311	43	9,561,299	87
Leaf	submergence	11,032,891	1,790,521 ± 6763	16	4,385,443 ± 9853	40	4,852,428 ± 3275	44	9,242,371	84

Because the total number of reads between samples varied by 1.1 to 1.17 times, reads were randomly extracted to minimize errors during read counts and normalization, and the total number of reads was 11,032,891 based on the smallest number of seed control treatments. The mapping rate was 83 to 87%, with an average of 84.98%

ISSN: 1471-2164