. 2014 Jun 21;99(1):3–18. doi: 10.1007/s00253-014-5868-3

Table 3.

Summary of raw and processed sequences from 454 pyrosequencing, including diversity indices and richness estimators from replicate samples (replicate 1 = R1, replicate 2 = R2) for each of the four sampling time points

Sample	Raw reads	Sequences post-processing	Normalized sequences	OTUs^a	Inverse Simpson (1/D)	Shannon diversity (H′)	Chao1 richness estimation	ACE richness estimation	Good’s coverage (%)	Evenness (E)^c	Evenness (J′)^d
105 days R1	17,630	12,816	10,813	492	21.2 (20.3–22.1)^b	4.12 (4.08–4.15)^b	784 (691–921)^b	925 (847–1,022)^b	98.2	0.0430	0.664
105 days R2	19,466	15,793	10,813	431	18.6 (17.7–19.6)^b	4.11 (4.07–4.14)^b	619 (552–722)^b	702 (646–774)^b	98.7	0.0432	0.677
142 days R1	14,443	10,813	10,813	572	40.5 (38.9–42.2)^b	4.59 (4.56–4.63)^b	787 (722–881)^b	825 (762–910)^b	98.1	0.0708	0.724
142 days R2	22,390	18,876	10,813	601	49.6 (47.7–51.7)^b	4.75 (4.72–4.78)^b	865 (786–978)^b	986 (914–1,074)^b	98.0	0.0825	0.743
156 days R1	31,167	24,018	10,813	455	19.7 (19.1–20.5)^b	3.92 (3.88–3.95)^b	769 (668–919)^b	943 (855–1,049)^b	98.2	0.0434	0.640
156 days R2	25,691	21,274	10,813	444	18.5 (17.7–19.3)^b	3.95 (3.91–3.98)^b	638 (574–735)^b	669 (612–746)^b	98.5	0.0416	0.648
239 days R1	17,579	14,131	10,813	425	9.9 (9.5–10.2)^b	3.44 (3.40–3.48)^b	692 (605–822)^b	882 (799–984)^b	98.3	0.0232	0.568
239 days R2	21,179	17,887	10,813	542	34.8 (33.5–36.2)^b	4.48 (4.45–4.51)^b	776 (702–885)^b	764 (708–841)^b	98.3	0.0641	0.712

^aOperational taxonomic units observed after normalization

^b95 % confidence intervals of respective estimators shown in parentheses

^cEvenness based on Inverse Simpson index

^dEvenness based on Shannon index