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Table 1 Comparing structure prediction performance of single sequence methods to pairSCFG. A comparison of the single sequence G s grammar and mfold to the pairSCFG.

From: Efficient pairwise RNA structure prediction and alignment using sequence alignment constraints

 

Full Set

5S

tRNA

Method

Sens

PPV

Sens

PPV

Sens

PPV

mfold v3.1.2

58 ± 2

56 ± 2

52 ± 3

49 ± 3

65 ± 3

62 ± 3

G s

48 ± 2

51 ± 2

39 ± 2

42 ± 2

61 ± 3

65 ± 3

self vs self G s

47 ± 2

42 ± 2

38 ± 3

35 ± 2

61 ± 3

55 ± 3

pairwise

67 ± 2

68 ± 2

56 ± 2

57 ± 2

85 ± 2

84 ± 2

  1. Using the pairSCFG to compare a sequence to itself (self vs self) shows that the pairwise grammar performs roughly equivalent to its single sequence counterpart in the absence of alignment information.