Table 1

Statistics based on a Maximum Parsimony Ratchet analysis showing the retention index as a measure of homoplasy.

total characters (with indels)

Trees found (with indels)

Steps (with indels)

RI (with indels)


agt1 full sampling

coding

1088 (1088)

1253 (N/A)

405 (N/A)

0.827 (N/A)

non-coding

1009 (1192)

1721 (1539)

978 (1205)

0.799 (0.794)

total

2097 (2280)

232 (362)

1395 (1622)

0.802 (0.798)

agt1 reduced sampling

coding

1088 (1088)

206 (N/A)

260 (N/A)

0.742 (N/A)

non-coding

856 (971)

323 (55)

613 (746)

0.636 (0.628)

total

1944 (2059)

50 (64)

876 (1010)

0.667 (0.658)

matK-trnK-psbA full sampling

coding

1609 (1621)

158 (172)

448 (461)

0.882 (0.883)

non-coding

1475 (1554)

39 (85)

422 (518)

0.879 (0.877)

total

3085 (3174)

1007 (1356)

881 (990)

0.874 (0.873)

matK-trnK-psbA reduced sampling

coding

1606 (1614)

18 (15)

303 (312)

0.840 (0.383)

non-coding

1310 (1361)

9 (28)

287 (343)

0.837 (0.831)

total

2916 (2974)

12 (21)

587 (651)

0.832 (0.828)

ndhF-rpl32-trnL reduced sampling

coding

362 (367)

2 (2)

58 (63)

0.962 (0.964)

non-coding

1668 (1783)

10 (8)

246 (382)

0.822 (0.823)

total

2030 (2150)

1 (65)

305 (448)

0.847 (0.836)

psbA-trnH reduced sampling

coding

29 (29)

1 (N/A)

2 (N/A)

1.000 (N/A)

non-coding

324 (370)

810 (28)

46 (100)

0.727 (0.714)

total

353 (399)

1044 (38)

49 (103)

0.696 (0.700)


Naumann et al. BMC Evolutionary Biology 2011 11:357   doi:10.1186/1471-2148-11-357

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