#pattern name	sequence name	start	stop	score	p-value	q-value	matched sequence
1	NS7a	160	181	37.2577	6.49e-14	6.46e-11	GCGTTCGAGTTCAAGAGCTCGG
1	NS7b	6	27	37.2577	6.49e-14	6.46e-11	GCGTTCGAGTTCAAGAGCTCGG
1	orf1ab	108	129	31.3318	5.03e-11	3.34e-08	GCGTTGGCTTGCCAGTGCTCGG
1	N	114	135	25.0308	1.68e-09	8.34e-07	GGGTGTGAGTGCTAGACATAGA
1	orf1ab	154	175	-14.2752	0.000944	0.376	GGGCTCGCTGGGCTCTCCTCGT
2	S	53	61	15.6163	4.22e-06	0.00361	TGACACCAA
2	N	184	192	15.6163	4.22e-06	0.00361	TGACACCAA
2	M	176	184	14.663	9.15e-06	0.00465	TTACACCAA
2	NS7a	188	196	13.9697	1.36e-05	0.00465	AGACACCAA
2	NS7b	34	42	13.9697	1.36e-05	0.00465	AGACACCAA
2	orf1ab	62	70	13.363	2.66e-05	0.00756	CGACACCAA
2	NS7c	168	176	11.803	6.51e-05	0.0159	TTACACCAT
2	E	147	155	11.1963	7.91e-05	0.0169	TCACAACAA
2	NS6	186	194	9.63635	0.000153	0.029	TTACAACTA
2	orf1ab	137	145	7.29636	0.000314	0.0537	TGCCACCAA
2	S	6	14	5.1297	0.000661	0.103	ATACAACTT
3	S	145	192	58.411	6.04e-20	6.04e-17	AAACCGATACTTAAGTATCTTGTTGCATCTGGCCGCCTGCTAGTCAGA
3	NS6	90	137	55.7856	9.41e-19	4.7e-16	TGACCGTGATTTAGCTGTCTTGATCTATCAGGGAGACCGCTCCTCAAA
3	NS7c	87	134	54.0603	4.25e-18	1.42e-15	AGGCCATTGCATCACTGTCTTCCAGAAACAGGGCATCCGCTCAGGCGA
3	NS7a	50	97	46.1841	9.11e-16	2.28e-13	AGCCTGAATCTGACCAATCCTCCAAGCCCAAGCAGCCGAGGAAGCAGA
3	NS7a	41	88	-30.8527	0.000158	0.0317	AGGCCAAGAAGCCTGAATCTGACCAATCCTCCAAGCCCAAGCAGCCGA
3	E	126	173	-35.8035	0.000397	0.0662	TGGCTGTTTTGGGCTCTTCTCTCACAACAAGAGAAACACCGAGTCCAT