Microsatellite abundance across the Anthozoa and Hydrozoa in the phylum Cnidaria

BMC Genomics

Table 1 Total number of sequences and percentage of sequences containing microsatellites and associated statistics

Species	Symbiodinium present	Total sequences	Mean raw sequence length (bp)	Sequences with msats	% Sequences with msats	% Sequences with msats (after bootstrapped mean)	Bootstrapped mean of total msat	Bca CI (95%)	Total msat (count/Mbp)
E. flexuosa ^s	Y	128422	452.9	1686	1.3	0.01	14.2	(7.13, 19.54)	85.3
A. fenestrafer ^s	Y	132680	430.4	2169	1.6	0.01	17.2	(9.52, 28.43)	103.1
M. alcicornis ^f	Y	114916	550.6	2081	1.8	0.02	19.5	(10.07, 43.78)	117.1
Mean		125339	478	1979⁺	1.6^#	0.01	16.9^{^}
L. glaberrima ^s	N	132680	418.9	10177	7.7	0.08	104.6	(58.30, 148.30)	627.9
Tanacetipathes sp ^s	N	117973	470.2	6544	5.6	0.05	60.6	(31.25, 91.05)	363.7
Plumarella sp ^s	N	108495	500.1	4594	4.2	0.05	51.3	(28.06, 71.87)	307.6
C. californica ^s	N	100639	462.4	1797	1.8	0.02	17.6	(10.91, 24.65)	105.7
M. senile ^s	N	109046	505.4	7519	6.9	0.08	88.6	(28.19, 176.72)	531.7
Mean		113767	471.4	6126	5.2	0.06	64.6
N. vectensis* ^s	Y	59149		3418	5.8	0.29	173.8	(98.60, 265.90)	1042.9
H. magnipapillata* ^f	Y	126667		5438	4.3	0.22	277.7	(63.60, 868.30)	1666.1
A. digitifera* ^s	Y	29765		225	0.8	0.68	201.8	(99.60, 446.30)	1210.7
Mean		71860		3027	3.6	0.40	217.8		1306.6
Symbiodinium
Clade C		82331		12174					565.2
A3		94810		2674					154.9
B1		33816		19426					326.5
Mean		70319		11424					348.9

*Whole genome sequences downloaded from GenBank. Bootstrapped mean of % sequences with msats = the mean % of sequences with microsatellites calculated via bootstrapping (10000 iterations). Bootstrapped mean of total msat = the mean total count of microsatellites calculated via bootstrapping (10000 iterations). Bca CI: Bias corrected confidence interval calculated from 10000 bootstraps. H. magnipapillata and M. alcicornis have fast mutation rates (superscript ^f), the remainder of the species has slow mutation rates (superscript ^s). Symbiotic state is indicated by Y = yes and N = no. The symbiotic species have lower numbers of sequences with microsatellites⁺, percent of sequences with microsatellites^#, and a lower bound for the bootstrapped mean of total microsatellites^{^} (t-tests, p <0.05, equal variances not assumed). Neither the total number of sequences not the mean raw sequence length differed between symbiotic and nonsymbiotic species (t-tests, p >0.05, equal variances not assumed).

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