Table 2. List of spacers found in S. thermophilus CRISPR3 loci.

Spacera	Positionb	Length	Sequence (5′→3′)	PAMc	ORF; functiond
S61	2095–2066	30	CAAAATATCTCTATCGTAGAATTTGCCCTT	GGGCG	ORF3; large terminase
S62	3181–3152	30	TCTTGAATGCGTGGGGCTTGTCTCAATTTA	TGGTG	ORF5; portal protein
S63	3713–3742	30	TACGGAATATTTAAATAATATTGATGGCAT	TGGTG	ORF5; portal protein
S64	6300–6329	30	TATCAAAGCAGGTACCCTCGTAGCAGGTGA	TGGCG	ORF8; capsid protein
S65	6515–6544	30	CACTCGTTAAATTTATCTCTAAGAAATAAG	AGGAG	ORF8; capsid protein
S66	6978–7007	30	TGCTACTGGTAAAATTGCATTTACGAGCGA	TGGAG	ORF9; capsid protein
S67	13,754–13,783	30	CAGGGTTGACCATGTTCAGCGCAGTAGCGA	TGGCG	ORF18; MTP
S68	17,665–17,636	30	CTCAACGGCACGCGATCTTATGTCAAGCGC	TGGTG	ORF20; RBP
S69	21,076–21,105	30	TCAGCGGGTATCAACCATTGCTAAGGAATT	AGGTG	ORF20; RBP
S70	21,346–21,375	30	TAACCCAGACATGAATGTCATTCGCTATGT	AGGAG	ORF20; RBP
S71	21,670–21,699	30	TTTCTCTTTTTCAGCGCAGTTTAATGGTTC	TGGTG	ORF21; tail protein
S72	23,182–23,211	30	TCTGACGGTTAGATATAATTTTACTGGTAA	TGGGG	ORF21; tail protein
S73	23,329–23,300	30	TATTTGGGCGTGAGTATTGTAACTTCCGCT	AGGGG	ORF21; tail protein
S74	24,038–24,067	30	CATGAGGGCAACTTGGACGATTGATAAGGT	TGGCG	ORF24; unknown
S75	24,325–24,354	30	AAACACAGATGTTTTAGACCATGCGCAGAA	GGGAG	ORF24; unknown
S76	25,297–25,326	30	TCAGTATAAACTAAGTGAACGCAAACAAAG	CGGTG	ORF26–ORF27**
S77	26,729–26,758	30	TAAACCGTTCTTCAATCCGTAGCCACACCC	TGGTG	ORF32–ORF33**
S78	26,917–26,946	30	CCATGAAAACATTTAAAATTACAACAATTA	GGGAG	ORF32–ORF33**
S79	27,975–28,004	30	TGCTCGACTTGTTAAAAAAACTACTGAAGA	TGGCG	ORF34; SSAP
S80	28,087–28,058	30	TACACCCCTTTCGCTCATCTAAGCGGTTTT	TGGCG	ORF34; SSAP
S81	29,120–29,091	30	TATTAACACCTTTTAGTGACCATTCACGGT	CGGCG	ORF35; helicase
S82	29,121–29,091	31	TTATTAACACCTTTTAGTGACCATTCACGGT	CGGCG	ORF35; helicase
S83	30,033–30,004	30	CCACACCCTCCGAATGTCGTTTTCAGTCAT	TGGTG	ORF37; replication
S84	34,662–34,633	30	CACTTTCCTTTTCAAGACCTAGATCACCTT	TGGTG	ORF44; unknown
S85*	16,681–16,652	30	TGTTTCAAGGTTTCGGGTCCAAGTATCATT	ATAGAAA	ORF20; RBP
S86*	29,923–29,894	30	TTATGGAGATGGTTGATTACGCAATCAACT	TTAGAAT	ORF37; replication

^aThese spacers from CRISPR1 locus are specified (*) since they were acquired in BIMs having double spacer acquisitions in this study.

^bThe position of the protospacer in the phage 2972 genome.

^cPAMs are 5′-NNAGAAW-3′ and 5′-NGGNG-3′ for CRISPR1 and CRISPR3 protospacers, respectively. Consensus nucleotides are underlined.

^dSpacers found in intergenic regions are also specified (**).

MTP: major tail protein; RBP: Receptor Binding Protein; SSAP: Single Strand Annealing Protein.