MOESM3 of The discovery of novel LPMO families with a new Hidden Markov model
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 1.2eâ 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.
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