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Exact(4)
Up to this stage, the alignment consists of aligned representatives of NCIV clusters.
The alignment consists of 26 pairs of aligned ORFs, spanning one third of the protein interaction networks of VZV and KSHV.
The alignment consists of ~1250 representatives (919 unique sequences) from the marine metagenome and ' Cand.
For network pairs with low link similarity, we have found two different alignment regimes depending on the initial noise level T. In the high-fidelity regime for values of T well below a threshold value T D, the alignment consists mainly of the nodes with sequence similarity, but does not extend much beyond.
Similar(56)
Contigs were aligned locally in both directions and clustered together if the alignment consisted of ≥20% of the total length of each contig and the sequence was ≥99% identical over the alignment.
A block is then defined as a region in the alignment consisting of at least 3 columns, in which the NorMD is above the threshold value of 0.2.
nAij and nBij are the number of sites in the alignment consist of codons i and j for gene A and gene B, respectively.
An ambiguous region of the alignment consisting mainly of short runs of C and/or T (positions 67 109), and two regions affected by transposon activity (690 771 and 1035 1119), were excluded from the analysis.
The alignment consisted of 538 nt coding for 179 amino acids using the invertebrate mitochondrial code (Supplementary Alignment A1).
The alignment consisted of 20 taxa and positive selection was detected in 3.34% of sites (ω = 6.5), again unique to the Rabbit lineage.
The alignment consisting of the four questionable peaks discussed above (shown as black dashed lines in Fig. 2) disappears when clustering-based peak alignment (see Methods) is applied to the normalized electropherograms.
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