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The manual inspection of the assembly confirmed that there was evidence (multiple high quality reads) supporting all 10 of the predicted photoprotein genes, therefore confirming 10 out of 10 full-length genes.
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When we examined the new assembly in Hawkeye, all four piles of mis-oriented reads were gone and no significant inconsistencies were found in the assembly, confirming our inversion hypothesis.
Alignment of the high-density linkage map in this study with the Btau_2.0 assembly confirmed the overall quality of Btau_2.0 but indicated there were 133 incorrectly assigned loci and localized inversions in scaffold ordering within the assembly.
The match of the corresponding primer sequences on the PN40024 assembly confirmed they amplified the same locus.
The transcript assembly confirmed the presence of three GBP5 alternatively spliced transcripts (wild-type, +5 bps and retained intron).
A second round of visual inspection of CEP sequences identified in the hybrid assembly confirmed that version 4.0 pseudomolecule CEPs and version 3.5.2 unanchored BAC/unplaced contig CEPs were mutually exclusive.
The perfect identity of the sequences to those resulting from assembly confirmed the reliability of assembled plastomes (data not shown).
Comparison of poplar FLcDNAs and the poplar genome sequence assembly confirmed both the overall high accuracy of the current genome assembly, as well as the quality of the FLcDNA resource described here.
Examination of the draft R. stricta de novo nuclear genome assembly confirmed the presence of the nuclear-encoded sdh3 gene containing two exons totaling 960 bp separated by a 105 bp intron.
The new transcriptome assembly confirmed 52,516 of 84,899 exon junctions derived from N. vitripennis transcripts (61.9%) and defined 64,743 novel exon junctions, significantly increasing the splicing complexity of the N. vitripennis transcriptome.
The new transcriptome assembly confirmed 47,841 of 48,089 junctions derived from previously annotated AAEL transcripts (99.48%) and defined 29,242 novel junctions, significantly increasing potential splicing complexity of Aedes transcriptome.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com