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Table 2 Comparison of targeting ability between two newly designed degenerate primers and pmoA189

From: Survey of methanotrophic diversity in various ecosystems by degenerate methane monooxygenase gene primers

Phylum pmoC374 pmoA344 pmoA189
Mismatches Mismatches Mismatches
0 1 2 3 0 1 2 3 0 1 2 3
Gammaproteobacteria 10/18 18/18 18/18 18/18 16/18 18/18 18/18 18/18 7/18 18/18 18/18 18/18
Alphaproteobacteria 16/16 16/16 16/16 16/16 14/16 16/16 16/16 16/16 16/16 16/16 16/16 16/16
Verrucomicrobia 3/7 5/7 5/7 6/7 0/7 0/7 1/7 3/7 0/7 0/7 0/7 3/7
NC10 1/1 1/1 1/1 1/1 0/1 0/1 0/1 0/1 1/1 1/1 1/1 1/1
  1. Percent sequence coverage of all pmoCAB available sequences within each phylum were calculated by looking at how many sequences each primer could target. Targeting ability is also shown for zero, one, two and three mismatches within each primer