Table 5.

The alignment rate and precision of Bowtie2 on single-end simulated data with different initial values of K.

	50-bp		75-bp		100-bp
K	Align.Rate(%)	Prec(%)	Align.Rate(%)	Prec(%)	Align.Rate(%)	Prec(%)
10	0.870362	0.981524	0.858727	0.981852	0.834774	0.981529
9	0.869464	0.981703	0.856311	0.982638	0.832754	0.982217
8	0.868262	0.982009	0.853695	0.983442	0.830495	0.982984
7	0.866564	0.982608	0.85074	0.984281	0.827873	0.983787
6	0.864261	0.983586	0.847368	0.985199	0.824662	0.984629
5	0.861039	0.985146	0.84329	0.98618	0.820193	0.985421
4	0.856596	0.987344	0.837615	0.987297	0.812949	0.986246
3	0.850384	0.990075	0.828366	0.988768	0.800774	0.987542
2	0.841539	0.993	0.813271	0.991168	0.782962	0.990233
1	0.825283	0.995516	0.794526	0.994829	0.763764	0.993865

There are 7,740,912 simulated single-end reads with length 50-bp, 5,156,962 with length 75-bp, and 3,868,843 with length 100-bp.