Figure S3. Genome scaffold mapping between neem and other species. Genome scaffolds of neem were compared against those of Citrus sinensis. (a), Citrus ...
Figure S1 kMer frequency curve. The numbers of kMers are plotted against the frequency at which the kMer occurs. The size of each kMer is 31. The statistics were obtained during the course of genome assembly using SOAP de novo while using the 76 bp short insert read library with the kMer frequency cutoff option (-d) turned off. kMers with a frequency of 1 were omitted in this graph.
Figure S1
Figure S2 Frequency histograms for symmetric 4-mers. The neem scaffolds and chromosomes in Arabidopsis thaliana were divided into overlapping 4-mers. The frequency ratio of each 4-mer with its reverse complementary counterpart was estimated across the genome and plotted as histograms for the two species.
Figure S2
Figure S3 Genome scaffold mapping between neem and other species. Genome scaffolds of neem were compared against those of Citrus sinensis (a), Citrus clementine (b), Arabidopsis thaliana (c), Oryza sativa (d), Theobroma cacao (e), Vitis vinifera (f), Ricinus communis (g) and Sorghum bicolor (h), using TblastX, with an Expect value cutoff of 0. The mapped scaffold pairs were short-listed to contain only those scaffolds with lengths greater than the scaffold N50 of the respective assembly. These scaffolds and the mappings between them are represented here using Circos (yellow indicating the neem scaffolds and blue indicating chromosomes/scaffolds from other species).
Figure S3 a
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Figure S4 Gene ontology based functional categorization of annotated transcripts. Blastx ( Expect value cut off of 0.001) hits for transcripts of each organ (root, leaf, stem and flower) were formatted as xml, and subject to Blast2GO mappings. The GO terms and scores are categorized based on biological processes, molecular function and cellular components. The pie charts depict the categorization at the top and bottom two levels for each organ.
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