MOESM3 of The discovery of novel LPMO families with a new Hidden Markov model

Additional file 3. The Hidden Markov model constructed in this study. This Hidden Markov model, can be used in combination with the HMMER tool version 3 [19]. When searching with the hmmsearch program, using a trusted e-value (-E option in hmmsearch) of 1.2e−15 (lowest scoring true positive) will limit the results to mainly AA9, AA10, AA11 and AA13 LPMOs. To also allow the detection of the LPMO14 family, a lower trusted e-value of 0.001 is necessary. However, it should be noted that a lower e-value will also increase the theoretical chance of finding false positives (an e-value of 0.001, has a 1 in a 1000 chance to find a false positive). However, in our search using this e-value no false positives were identified in the 8 genomes searched.