Table 1.

CopraRNA prediction of candidate mRNAs that interact with NsrR1.

fdr	p-value	Locus tag	Annotation
2.63 × 10-05	6.11 × 10-09	all1871	Unknown
1.58 ×10-03	8.45 × 10-07	asr4517	nblA
1.58 × 10-03	1.10 × 10-06	all1043	Hypothetical protein
7.46 × 10-02	9.11 × 10-05	all7229	Unknown
7.46 × 10-02	1.04 × 10-04	asr2666	Hypothetical protein
9.92 × 10-02	1.61 × 10-04	alr3099	GCN5-related N-acetyltransferase
9.97 × 10-02	1.85 × 10-04	all4613	Acetohydroxy acid synthase; IlvG
0.110	2.63 × 10-04	alr4291	Photosystem II CP43 protein
0.110	2.92 × 10-04	alr5103	LL-Diaminopimelate aminotransferase apoenzyme
0.110	3.04 × 10-04	alr2079	Cl- channel, voltage gated
0.110	3.05 × 10-04	alr3594	Response regulator receiver domain protein (CheY)
0.136	4.40 × 10-04	alr4814	Hypothetical protein
0.136	4.51 × 10-04	all3970	Endonuclease III
0.136	4.75 × 10-04	all3794	Tryptophan synthase beta subunit
0.141	5.23 × 10-04	all0330	GAF sensor signal transduction histidine kinase
0.162	6.40 × 10-04	all7229	Unknown
0.165	6.92 × 10-04	all1228	Hypothetical protein
0.165	7.26 × 10-04	alr0309	Hypothetical protein
0.305	1.43 × 10-03	alr4953	Hypothetical protein
0.305	1.49 × 10-03	alr4696	Class I peptide chain release factor

CopraRNA (Wright et al., 2013, 2014) was implemented at the Freiburg RNA Tools Server with default options. NsrR1 from Nostoc sp. PCC 7120 was used as reference together with the NsrR1 sequences from Anabaena cylindrica PCC 7122, Anabaena variabilis ATCC 29413 (recently renamed Trichormus variabilis NIES-23), Cylindrospermum stagnale PCC 7417, Nodularia spumigena CCY9414, ‘Nostoc azollae’ 0708, Nostoc punctiforme PCC 73102, Nostoc sp. PCC 7524, Rivularia sp. PCC 7116, Nostoc sp. PCC 7107, and Calothrix sp. PCC 7507. The nblA gene studied in this work is shown in bold. Only the 20 genes with the highest scores are shown.