We use an expression for the error variance of geostatistical predictions, which includes the effect of uncertainty in the spatial covariance parameters, to examine the performance of sample designs in which a proportion of the total number of observations are distributed according to a spatial coverage design, and the remaining observations are added at supplementary close locations.
No clear enrichment for substrate functional category, cellular localization, chromosomal location (supplementary fig. 1, Supplementary Material online), protein domain (supplementary table 2, Supplementary Material online), or sequence motif (supplementary table 3, Supplementary Material online) was found among the modules.
For a control, tanks were held at 29 °C, approximately ambient temperature on the reef at this location (supplementary fig. S1, Supplementary Material online).
In Aethionema, the TAR formed by 1) CYP79C2 (andG85260) and 2) the CYP-like locus AT1G58265 transposed an additional copy of the TAR to a different genomic location (supplementary fig. S2, Supplementary Material online).
The SXT/R391 ICE family shares the same chromosomal integration site, the 5′-end of prfC, which encodes peptide chain release factor 3. However, in strain U4 of CF2, a 15-kb ICE-like region, similar to the ICE AmaAS1, was found at a different genomic location (supplementary fig. S5, Supplementary Material online).
Sanger sequencing the putative DanaITG region from strains TB43 (D. ananassae line with wAnaITG) and KMJ1 (D. ananassae line with wAnaINF) indicated that the reference genome contained a unique DNA sequence at this location (supplementary fig. S1 B, Supplementary Material online).
Most of the rice is grown through the traditional practice of swidden, or shifting, cultivation where areas on the mountain sides are cleared and sown with upland rice for 1 year and then left fallow for a long period (usually more than 7 years) before the farmers return to the same location (Supplementary Fig. 1).
Of them, 96.9% (∼31.3 M reads) were mapped back to the reference genome with 74.8% (∼24.2 M reads) mapped to a unique genomic location (Supplementary information file, Table S1).
Supplementary Table 2 Location of pre-miRNAs in the genome of I. tridecemlineatus.
Identified tDMCs were mapped to 1,897 genes on the basis of their genomic location (Supplementary Fig. S9).
