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Independence of the four insertion events is verified by multiple nucleotide indels in the microsatellite and poly A/T segments.
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The only exception is Artemisia annua, where each of two genes - the orthologs of AT4G08230 and AT5G63135 - is represented by two sequences with high similarity to the Arabidopsis gene but differing one from another by multiple nucleotide substitutions and indels.
A SFP may be caused by a SNP, a multiple nucleotide polymorphism, or an indel.
The remaining 52% of polymorphisms consists of 1 bp or longer indels and multiple nucleotide polymorphisms.
Using WT-EBV as a reference, the single nucleotide variations (SNVs), inserts and deletions (indels) and multiple nucleotide variations (MNVs) were identified from the K4413-Mi and K4123-Mi cell lines.
While both these regions contained small indel events and multiple nucleotide degenerate sites, resulting in multiple plausible evolutionary histories, the posterior alignment distribution from BigFoot exhibited how our joint model reliably aligned all instances of the binding site together.
In the 88 unigenes with SFPs, 75% of the sequence variations were SNPs, 10% were multiple nucleotide polymorphisms (adjacent SNPs), and 15% were indels.
On average, every 112-bp of sequenced partial unigenes had a SNP, every 733-bp had a multiple nucleotide polymorphism and every 1048-bp han an indel.
Single nucleotide indels has also been used in similar studies [25].
Homeolog sequence variants (HSVs) were single nucleotide polymorphisms (SNPs; 89%) and single nucleotide indels (SNIs 10%).
The insertions and deletions (indels) were found with lower frequency than SNPs: single nucleotide indels occurred with frequency 0.19% while multinucleotide indels with only 0.08% frequency.
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