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Fig. 1 | BMC Bioinformatics

Fig. 1

From: Helitron distribution in Brassicaceae and whole Genome Helitron density as a character for distinguishing plant species

Fig. 1

Overview of EAHelitron workflow. Left: the input data of EAHelitron. EAHelitron supports inputs of separate FASTA files or a whole genome FASTA. Middle: the method of EAHelitron. EAHelitron searches the left part of GC-rich hairpin. Next using Perl regular expressing engine’s embedded-code with TRSeq function to get the reverse complementary sequence of left part hairpin, which as the right part to complete the regular expression to continue the full-length hairpin searching. Then get the up and downstream sequences of hairpin to search 5′ TC ends and 3′ CTAG ends (S means G or C, W means A or T, ‘.’ Means A, T, G or C). Right: outputs of EAHelitron. FASTA files of ends or full length Helitrons, summary of Helitron numbers and GFF annotation

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BMC Bioinformatics

ISSN: 1471-2105

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