Mitochondrial COI Sequence for GenBank Submission

$100-200 USD

Completed

Posted 7 days ago

$100-200 USD

Paid on delivery

I am looking for an experienced person to process 18 unassembled mitochondrial COI/cox1 Sanger sequence sets for GenBank submission. The sequences are from digenean trematodes, probably Diplostomum spp. (Platyhelminthes: Trematoda). The current COI submission was rejected by GenBank because of possible frameshift warnings, so I need someone who can work with raw Sanger chromatograms, not only FASTA files. I will provide: raw .ab1 chromatogram files for forward and reverse reads, current FASTA files, primer sequences, GenBank validation report with frameshift warnings. Required work: Inspect raw .ab1 chromatograms for all forward and reverse reads. Trim low-quality ends and remove primer sequences. Assemble forward and reverse reads into reliable consensus sequences. Export only high-quality consensus regions, preferably regions supported by both reads. Check ambiguous bases, double peaks, possible sequencing errors and problematic regions. Translate the COI/cox1 sequences using the correct mitochondrial genetic code for the taxon. Check for internal stop codons and frameshifts. Prepare clean partial COI/cox1 sequences suitable for GenBank submission. Provide a short summary table/report explaining what was done for each sequence and which sequences, if any, are too poor-quality to submit. Important: Please do not manually delete or add nucleotides only to force the reading frame unless this is clearly supported by the chromatogram data. I prefer shorter, reliable partial COI sequences over longer sequences containing uncertain regions. Final deliverables: cleaned consensus sequences in FASTA format, assembled files/project files if available, a summary table/report for all 18 sequence sets, notes about any sequences that cannot be confidently corrected. Please apply only if you have previous experience with: Sanger chromatogram analysis, .ab1 files, forward/reverse read assembly, mitochondrial COI/cox1 sequences, frameshift/stop codon checking, GenBank sequence preparation.

Project ID: 40525446

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@Specgi

Dear Hiring Manager, I am pleased to submit my proposal for your Mitochondrial COI Sequence and GenBank Submission project. With experience in molecular biology, DNA sequence analysis, and bioinformatics, I can efficiently process, validate, and prepare COI sequence data for successful submission to GenBank. I am familiar with sequence quality assessment, annotation requirements, metadata organization, and ensuring compliance with NCBI submission standards. My expertise includes sequence editing and verification, alignment analysis, species identification through DNA barcoding, and preparation of submission files using NCBI tools. I have worked with mitochondrial gene datasets and understand the importance of accurate sequence formatting, specimen information, and supporting documentation to facilitate smooth acceptance into GenBank. I pay close attention to detail to ensure data integrity and submission accuracy. I am committed to delivering a reliable and timely service, providing clear communication throughout the project. Whether you require assistance with sequence validation, annotation, metadata preparation, or the complete GenBank submission process, I am ready to support your research objectives and ensure a successful submission. I look forward to the opportunity to contribute to your project.

$200 USD in 3 days

4.9

(3 reviews)

4.1

4 freelancers are bidding on average $165 USD for this job

@mobasherreza10

As an experienced professional in data analysis, I have the necessary skills and expertise required for the successful completion of your mitochondrial COI sequence project. My proficiency in working with Sanger chromatograms and .ab1 files, as well as my knowledge of forward/reverse read assembly, make me an ideal candidate. Additionally, I am well-versed in determining frameshift warnings and ensuring sequences comply with GenBank's standards. With a keen eye for detail, I will meticulously inspect and process your 18 unassembled mitochondrial COI/cox1 Sanger sequence sets. I will precisely trim low-quality ends and remove primer sequences while assembling the forward and reverse reads into reliable consensus sequences. Special attention will be paid to removing ambiguous bases, double peaks, sequencing errors, and problematic regions.

$150 USD in 3 days

5.0

(3 reviews)

2.9

@saadhey

Greetings, It looks like you need someone to help process mitochondrial COI sequence data for GenBank submission, especially after a previous rejection due to frameshift warnings. I can definitely assist with inspecting and analyzing your raw Sanger chromatograms, ensuring that the consensus sequences are reliable and ready for submission. My approach will involve carefully examining the .ab1 files, trimming low-quality ends, and assembling the forward and reverse reads into high-quality sequences. I will also check for any sequencing errors or ambiguous bases, making sure to adhere to the guidelines for mitochondrial genetic code. By preparing clean sequences and a summary report, I’ll ensure that everything aligns with GenBank requirements. With experience in Sanger chromatogram analysis and sequence preparation, I can help streamline this process for you.

$150 USD in 7 days