Sentence examples for probability of alignment from inspiring English sources

E-value, minimum e-value (probability of alignment occurring by chance) recorded for a hit.

In the MAPQ field of SAM [ 24] we use the formula −100 log2 p where p is the probability of alignment being incorrect.

We can calculate the reference alignment probability P ref(A) in Equation (1) by randomly sampling a set of protein pairs, each with the same lengths as the sequence S and template T, respectively, and then estimate the probability of alignment A based on these randomly sampled protein pairs.

One major difference between the two approaches is that Lähdesmäki et al. aims to identify the posterior probability of alignments of one or more motifs in a given promoter region, while BaSeTraM computes the probability that a single motif is found at a given site, and uses this to annotate a sequence with probable sites.

To asses the significance of each alignment score, we use a Monte Carlo simulation method to sample from the underlying probability distribution of alignment scores.

An algorithm by Hudek [ 7] is an intermediate between the Viterbi and posterior decoding, summarizing probabilities of alignments within short blocks.

The optimal alignment under this gain function can be found by computing the posterior probability of each alignment column using the forward and backward algorithms for PHMMs, and then finding the alignment as a collection of compatible columns with the highest sum of posterior probabilities.

The blue curve represents the posterior probability of each alignment column: higher values indicate greater confidence in the alignment.

To analyze a given alignment A of extant sequences, we first determine the probability of the alignment under the maximum likelihood estimate (MLE) of the parameters for the coding model, p C =maxθ C Pr(A|Coding,θ C ).

The CRF here models the conditional probability of the alignment given the pair of sequences to be aligned.

For each alignment, BWA calculates a mapping quality score, which is the Phred-scaled probability of the alignment being incorrect.