Sequencing calculators

Single-purpose tools that compute as you type. Everything runs in your browser — nothing is uploaded.

Sequencing

• Sequencing coverage calculator Work out mean depth of coverage from genome size, read length and read count — or the number of reads you need to hit a target depth.
• Coverage gap estimator Use the Lander–Waterman model to estimate what fraction of a genome is left uncovered at a given mean depth, and how many gaps to expect.
• Variant detection power Compute the probability of seeing at least k alternate reads for a variant at a given allele fraction and depth — or the minimum depth to reach a target power.

Library prep

• ng/µL ⇄ nM converter Convert dsDNA concentration between mass units (ng/µL) and molarity (nM) for a fragment of a given length. Essential for library pooling and loading.
• Library dilution calculator Work out how much stock and diluent to mix to reach a target loading concentration in a target final volume. Stock can be in ng/µL or nM.
• Molarity to copy number Convert a molar concentration (nM) and a sample volume into the number of molecules (copies), using Avogadro’s number.
• Library pooling calculator Pool several libraries to equimolar (or read-share weighted) ratios. Enter each sample’s concentration and fragment length to get the volume of each to add for a target pool volume.

PCR & primers

• Primer melting temperature (Wallace rule) Estimate the melting temperature of a short DNA oligo with the Wallace "2 + 4" rule, plus GC content, length and reverse complement.
• Primer-dimer checker Check a primer pair for self- and cross-dimer risk by scanning 3′ ends for complementary runs, and report each primer’s 3′ GC clamp.

Sequence utilities

• Reverse complement Get the reverse complement of a DNA sequence (5′ → 3′), with its length and GC content. Accepts A, C, G, T and N.
• GC content calculator Calculate the percentage of G and C bases in a DNA sequence, with base counts. Handy for primer design and assessing sequence composition.
• ORF finder Find open reading frames (ATG to stop) in the three forward frames of a DNA sequence and translate each to protein, with frame, position and length.

Quality scores

• Phred quality score converter Convert between a Phred quality score (Q) and base-call accuracy / error probability, both directions. Q30 means 99.9% accuracy.

Quality control

• FASTQ quality check Drop in a .fastq or .fastq.gz file to see read count, read-length distribution, GC content and per-base quality — computed entirely in your browser.
• FASTQ size estimator Estimate the raw and gzip-compressed size of a FASTQ dataset from read count, read length and single- or paired-end layout.

Planning

• Sequencing cost calculator Turn your own quoted run price into cost per sample, per Gb and per genome. All prices are your inputs — no vendor pricing is built in or implied.