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For the E1-E2 region, 11746 cloned sequences were obtained and average number of sequenced clones per sample for the treatment-naïve mono-infected group (HCV 0) was 105.74±21.43 whereas the average for HCV treated mono-infected patients who did not respond to a combined antiviral treatment with IFN-α plus ribavirin (HCV T) was 106.15±5.24.
In the three populations of larger sample size, the average number of sequenced individuals was 20 in SE-61 and 16 in both SE-64 and FI-67.
Roche 454 sequencing of two full plates yielded a total of 1.47 million sequences, and an average number of sequenced reads from each library of 177,822 (Additional file 1: Table S1).
RNAP II occupancy was calculated similarly to the nucleosome occupancy, but the score represents the average number of sequenced reads uniquely mapped to the sense strand 300 bases upstream and to the antisense strand 300 bases downstream of one locus.
Nucleosome scores calculated as previously described [ 33], represent the average number of sequenced reads uniquely mapping to the sense strand 80 bases upstream and to the antisense strand 80 bases downstream of one locus with a step size of 10 bp.
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The average number of sequences was 22,331, 23,923, and 30,636 for groups 1, 2, and 3, respectively.
The differences between the sequence distributions also became apparent when the average number of sequences showing similarities to each section of the genome was compared.
The average number of sequence reads per individual was 425,000, although there was high variability amongst the 24 individuals (16K-842K) (Table 1).
The average number of sequence tag per 20 kb bin, Mi, was calculated for every 0.1% GC content, ignoring bins with no reads, bins with zero GC percent, and bins with over-abundant reads.
The average number of sequencing reads was around 4.9 million.
The average number of sequences used in the cluster of the contigs varied slightly between libraries.
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