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. 2010 Aug 4;48(10):3708–3718. doi: 10.1128/JCM.00989-10

TABLE 3.

Tree statistics for the individual and combined partitions

Locus No. of bp PICa PIC/no. of bp AUTb No. of MPTsc MPT length CId RIe
EF-1αf 632 284 0.45 43 >10,000 1,183 0.47 0.869
RPB1 1,607 603 0.38 52 24 2,590 0.34 0.851
RPB2 5 × 7g 882 379 0.43 26 13 1,475 0.43 0.879
RPB2 7 × 11h 860 265 0.31 30 618 1,272 0.35 0.83
RPB2 5 × 7 and 7 × 11 1,742 644 0.37 56 1,000 2,789 0.39 0.855
RPB1 + RPB2 3,349 1,247 0.37 108 1 5,447 0.38 0.85
EF-1α + RPB1 + RPB2 3,981 1,531 0.38 151 4 6,683 0.4 0.852
a

PIC, parsimony-informative character (i.e., shared derived nucleotide position or synapomorphy).

b

AUT, autapomorphy or a derived character unique to a particular taxon (i.e., not parsimony informative).

c

MPT, most parsimonious tree (i.e., shortest tree inferred from the DNA sequence data).

d

CI, consistency index. This index provides a metric of how much noise is in a data set. The CI is calculated by dividing the minimum possible number of steps by the observed number of steps.

e

RI, retention index. Like the CI, this metric provides a measure of how much noise is in a data set. Unlike the CI, the RI measures the amount of parsimony-informative characters from a data set that are reflected in the phylogenetic tree.

f

Ninety-two ambiguously aligned positions were excluded from the EF-1α partition.

g

Region PCR amplified by primers 5f2 and 7cr (Table 2).

h

Region PCR amplified by primers 7cf and 11ar (Table 2).