Spotted Oligonucleotide array

The oligonucleotides spotted onto the array were designed by MWG from the EMBL release (accession number AL645882) of the Streptomyces coelicolor genome and the SCP1 sequences.

Coverage

Genes with a	Chromosome	SCP1	Total
Unique probe	7563	195	7758
Non-unique probe*	60	77	137
Alternative probe**	64	75	121
Cross_hybridising probe***	120	8	128
No probe	33	3	36

*Probes that have matches of 35-50bp out of 50bp in multiple genes. **Genes that have not been assigned to any probe as they cross-hybridise to existing gene probes (these hybridise to probes in the non-unique probe list). ***Probes that have matches of 35-49bp out of 50bp in multiple genes.

Controls

Positives - Oligos for the 16s and 23s rRNA genes

Negatives - Oligos vs PA0079, PA3222 and MWG's Arabidopsis control mwgaracontrol#003. MWG have included at least one Arabidopsis control per plate.

Mismatch - mismatches of 5, 10 and 15 spread evenly across a probe and a stretch of 5 and 10 contiguous non-homology in the centre of a probe. The probe used as the basis for these mismatch oligos was the one for SCO4721. See table below for details (lower case sequence letters indicate mismatch).

Oligo	Sequence	Mismatch
mwgsco4548m5	CCTGcTGGCCAAGGcTGCCGTTCGgAAGAACAGCgTCGTCAAGGgCCTCG	mismatch at pos 5, 15, 25, 35 and 45 to SCO4721
mwgsco4548m10	CCaGGTGcCCAAcGGTGgCGTTgGCAAcAACAcCCTCcTCAAtGTCCaCG	mismatch at pos 3, 8, 13, 18, 23, 28, 33, 38, 43 and 48 to SCO4721
mwgsco4548m15	CCTGcTGcCCtAGcGTcCCcTTgGCtAGtACtGCgTCcTCtAGcTCgTCG	mismatch at pos 5, 8, 11, 14, 17, 20, 23, 26, 29, 32, 35, 38, 41, 44 and 47 to SCO4721
mwgsco4548s5	CCTGGTGGCCAAGGGTGCCGTTgcgttGAACAGCCTCGTCAAGGTCCTCG	mismatch at pos 23-28 to SCO4721
mwgsco4548s10	CCTGGTGGCCAAGGGTaaagcgttcttCAGCCTCGTCAAGGTCCTCG	mismatch at pos 18-28 to SCO4721