Skip to main content

Table 1 Data set characteristics

From: Potential pitfalls of modelling ribosomal RNA data in phylogenetic tree reconstruction: Evidence from case studies in the Metazoa

Taxon Gene(s) Species Alignment length* Partition Saturatio Iss n Iss.c S P Iss.c A P
Chilopoda 18S 61 2576 (1822) stems 0.062 0.715 0.000 0.398 0.000
     loops 0.806 0.710 0.426 0.390 0.001
Hexapoda 18S+28S 94 9217 (4413) stems 0.181 0.765 0.000 0.476 0.000
     loops 0.549 0.758 0.000 0.465 0.101
Echinodermata 18S 144 2045 (1706) stems 0.129 0.721 0.000 0.406 0.000
     loops 0.457 0.722 0.000 0.408 0.418
Heterobranchia 28S 50 3609 (2388) stems 0.033 0.652 0.000 0.302 0.000
     loops 0.473 0.649 0.491 0.297 0.492
Tunicata 18S 88 1990 (1960) stems 0.239 0.729 0.000 0.419 0.000
     loops 0.444 0.741 0.000 0.438 0.898
Primates 12S+16S 54 1788 (1362) stems 0.115 0.743 0.000 0.441 0.000
     loops 0.327 0.762 0.000 0.471 0.000
Mammalia 12S+16S 126 3102 (1875) stems 0.168 0.775 0.000 0.492 0.000
     loops 0.393 0.764 0.000 0.474 0.027
Anisoptera 12S+16S+28S 108 5968 (5239) stems 0.043 0.756 0.000 0.460 0.000
     loops 0.059 0.733 0.000 0.425 0.000
  1. Characteristics of the applied test data sets including the results of the test for substitution saturation in loop and stem partitions. Iss: estimated index of substitution saturation for the data set. Iss.c S and Iss.c A: critical values for the index of substitution saturation (ISS) if the true tree is symmetrical (S) or asymmetrical (A). Iss > Iss.c indicates saturation.
  2. *original (ambiguous positions excluded)