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Side effect machines operate by associating side effects with the states of a finite state machine. The use of side effect machines permits the researcher to leverage information stored in the state transition structure, making machines that might be identical as recognizers behave differently as classifiers. The side effect machines in this study associate a counter with each state so that the number...
Cytochrome c oxidase subunit 1 (cox1) is unusual among mitochondrial genes in that instead of using AUG or one of the recognized alternative start codons it often appears to use an unknown means for initiating translation. However, the frequency of this unusual behavior as well as the underlying molecular mechanism are unknown. In this paper we use side effect machines to probe for signal in the sequence...
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