> SSTRAND_ID=Bt_PrP; TYPE=mRNA; EXT_SOURCE=van Batenburg et al 2001; GCCCCAUGGAGGUGGCUGGGGCCAGCCUCAUGGAGGUGGCUGGGG ...[[[[[[............((((((]]]]]]....)))))).. ((((((((..(.((((....)))).)..))))).)))........ ((((((((..(.((((....)))).)..))))).)))........ Energy of known structure: -11.27 Initial sens: 0.417, Initial ppv: 0.385, Initial F-measure: 0.400, Initial Energy: -21.64 New DP sens: 0.417, New DP ppv: 0.385, New DP F-measure: 0.400, New DP Energy: -21.64 ((((((((..(.((((....)))).)..)))))....)))..... New DP sens: 0.417, New DP ppv: 0.385, New DP F-measure: 0.400, New DP Energy: -20.44 (((((.....)).)))...(((((.((((...))))))))).... New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -18.60 (((((((((....(((((....)))))))))))....)))..... New DP sens: 0.500, New DP ppv: 0.429, New DP F-measure: 0.462, New DP Energy: -18.50 ((((((((.....(((((....))))).))))).)))........ New DP sens: 0.417, New DP ppv: 0.385, New DP F-measure: 0.400, New DP Energy: -18.30 .(((((..((((((((....)))).))))...........))))) New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -18.02 (((((.....)).))).....((((((..........)))))).. New DP sens: 0.500, New DP ppv: 0.545, New DP F-measure: 0.522, New DP Energy: -17.79 ((((((..........))))))(((((.(......).)))))... New DP sens: 0.417, New DP ppv: 0.417, New DP F-measure: 0.417, New DP Energy: -17.69 .(((((..((((((((....))).)))))...........))))) New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -17.62 New DP F-measure-avg: 0.289, New DP F-measure-best: 0.522, New DP best-subopt: 6, New DP num-subopt: 8 > SSTRAND_ID=BWYV; TYPE=viral ribosomal RNA frame-shifting signals; EXT_SOURCE=Giedroc et al 2000; GGCGCGGCACCGUCCGCGGAACAAACGG ..(((((..[[[[)))))......]]]] ..(((((......))))).......... ..(((((......))))).......... Energy of known structure: -7.30 Initial sens: 0.556, Initial ppv: 1.000, Initial F-measure: 0.714, Initial Energy: -8.10 New DP sens: 0.556, New DP ppv: 1.000, New DP F-measure: 0.714, New DP Energy: -8.10 ..(((((..[[[[)))))......]]]] New DP sens: 1.000, New DP ppv: 1.000, New DP F-measure: 1.000, New DP Energy: -7.30 .(((.(((...))))))........... New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -5.30 .(((((....))..)))........... New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -4.40 New DP F-measure-avg: 0.429, New DP F-measure-best: 1.000, New DP best-subopt: 1, New DP num-subopt: 3 > SSTRAND_ID=Ec_PK1; TYPE=tmRNA; EXT_SOURCE=van Batenburg et al 2001; CGAGGGGCGGUUGGCCUCGUAAAAAGCCGC [[[[[.((((((..]]]]].....)))))) (((((.[[[[[[..))))).....]]]]]] (((((.[[[[[[..))))).....]]]]]] Energy of known structure: -8.39 Initial sens: 1.000, Initial ppv: 1.000, Initial F-measure: 1.000, Initial Energy: -8.39 New DP sens: 1.000, New DP ppv: 1.000, New DP F-measure: 1.000, New DP Energy: -8.39 ...(((((.....)))))............ New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -8.20 ......((((((............)))))) New DP sens: 0.545, New DP ppv: 1.000, New DP F-measure: 0.706, New DP Energy: -6.89 (((((.........)))))........... New DP sens: 0.455, New DP ppv: 1.000, New DP F-measure: 0.625, New DP Energy: -5.80 ((((([[[......)))))......]]].. New DP sens: 0.455, New DP ppv: 0.625, New DP F-measure: 0.526, New DP Energy: -5.13 New DP F-measure-avg: 0.571, New DP F-measure-best: 1.000, New DP best-subopt: 0, New DP num-subopt: 4 > SSTRAND_ID=Ec_PK4; TYPE=tmRNA; EXT_SOURCE=van Batenburg et al 2001; GUUUGUUAGUGGCGUGUCCGUCCGCAGCUGGCAAGCGAAUGUAAAGACUGAC ((((((((((.(((.[[[.[[[))).)))))))))).........]]].]]] ((((((((((.(((........))).))))))))))................ ((((((((((.(((........))).))))))))))................ Energy of known structure: -14.15 Initial sens: 0.684, Initial ppv: 1.000, Initial F-measure: 0.812, Initial Energy: -16.55 New DP sens: 0.684, New DP ppv: 1.000, New DP F-measure: 0.812, New DP Energy: -16.55 ((((((((((((((....))))....))))))))))................ New DP sens: 0.526, New DP ppv: 0.714, New DP F-measure: 0.606, New DP Energy: -14.10 New DP F-measure-avg: 0.709, New DP F-measure-best: 0.812, New DP best-subopt: 0, New DP num-subopt: 1 > SSTRAND_ID=EC_S15; TYPE=mRNA; EXT_SOURCE=van Batenburg et al 2001; GGGAUCGCUGAAUUAGAGAUCGGCGUCCUUUCAUUCUAUAUACUUUGGAGUUUUAAAAUGUCUCUAA ((((.((((((.[[[[[[[))))))))))...............................]]]]]]] ((((.((((((........))))))))))...............((((((...........)))))) ((((.((((((........))))))))))...............((((((...........)))))) Energy of known structure: -10.05 Initial sens: 0.588, Initial ppv: 0.625, Initial F-measure: 0.606, Initial Energy: -15.19 New DP sens: 0.588, New DP ppv: 0.625, New DP F-measure: 0.606, New DP Energy: -15.19 ((((.((((((........))))))))))...((((((.......))))))................ New DP sens: 0.588, New DP ppv: 0.625, New DP F-measure: 0.606, New DP Energy: -14.60 (((((.(((((........))))))))))...............((((((...........)))))) New DP sens: 0.529, New DP ppv: 0.562, New DP F-measure: 0.545, New DP Energy: -13.39 (((((((((((........)))))).......((((((.......))))))........)))))... New DP sens: 0.353, New DP ppv: 0.353, New DP F-measure: 0.353, New DP Energy: -13.00 ((((.((((((.[[[[[[.))))))))))...............((((((]]]]]].....)))))) New DP sens: 0.588, New DP ppv: 0.455, New DP F-measure: 0.513, New DP Energy: -12.91 (((((.(((((........))))))))))...((((((.......))))))................ New DP sens: 0.529, New DP ppv: 0.562, New DP F-measure: 0.545, New DP Energy: -12.80 ((((.((((((..[[[[[.))))))))))....]]]]]......((((((...........)))))) New DP sens: 0.588, New DP ppv: 0.476, New DP F-measure: 0.526, New DP Energy: -12.26 (((..((((((........)))))))))................((((((...........)))))) New DP sens: 0.353, New DP ppv: 0.400, New DP F-measure: 0.375, New DP Energy: -12.09 (((..((((((........)))))))))....((((((.......))))))................ New DP sens: 0.353, New DP ppv: 0.400, New DP F-measure: 0.375, New DP Energy: -11.50 New DP F-measure-avg: 0.494, New DP F-measure-best: 0.606, New DP best-subopt: 0, New DP num-subopt: 8 > SSTRAND_ID=HDV; TYPE=hepatitis delta virus ribozyme; EXT_SOURCE=Isambert and Siggia 2000; ggccggcatggtcccagcctcctcgctggcgccggctgggcaacauuccgaggggaccguccccucgguaauggcgaaugggaccca [[[[[[[..((((((((((........)))]]]]]]]......(((((((((((((...))))))))).)))).....))))))).. .((((((..[[[[[[[[[[[...{{{{...)))))).]]]]......(((((((((...)))))))))....}}}}..]]]]]]].. .((((((..[[[[[[[[[[[...{{{{...)))))).]]]]......(((((((((...)))))))))....}}}}..]]]]]]].. Energy of known structure: -42.04 Initial sens: 0.733, Initial ppv: 0.733, Initial F-measure: 0.733, Initial Energy: -48.85 New DP sens: 0.733, New DP ppv: 0.733, New DP F-measure: 0.733, New DP Energy: -48.85 (.(((((.((((.(((((......))))).))))))))).)..((((((((((((.....)))))))).)))).............. New DP sens: 0.400, New DP ppv: 0.444, New DP F-measure: 0.421, New DP Energy: -45.95 .........(((((((((((....((((....)))).))))..((((((((((((.....)))))))).)))).....))))))).. New DP sens: 0.633, New DP ppv: 0.704, New DP F-measure: 0.667, New DP Energy: -44.45 .((((((..[[[[[[[[[[[((.....)).)))))).]]]]..((((((((((((.....)))))))).)))).....]]]]]]].. New DP sens: 0.833, New DP ppv: 0.806, New DP F-measure: 0.820, New DP Energy: -43.00 .((((((..[[[[[[[(((........)))))))))...((..((((((((((((.....)))))))).))))))...]]]]]]].. New DP sens: 0.933, New DP ppv: 0.933, New DP F-measure: 0.933, New DP Energy: -42.59 .((((((......(((((......))))).)))))).((((..((((((((((((.....)))))))).))))........).))). New DP sens: 0.600, New DP ppv: 0.667, New DP F-measure: 0.632, New DP Energy: -42.59 .((((((..[[[[[[[[[[[....)))))).......]]]]..((((((((((((.....)))))))).)))).....]]]]]]].. New DP sens: 0.633, New DP ppv: 0.655, New DP F-measure: 0.644, New DP Energy: -42.37 (.(((((.((((.(((((......))))).))))))))).)......(((((((((...)))))))))................... New DP sens: 0.300, New DP ppv: 0.375, New DP F-measure: 0.333, New DP Energy: -41.85 .((((((..[[[[[[[(((........))))))))).......((((((((((((.....)))))))).)))).....]]]]]]].. New DP sens: 0.933, New DP ppv: 1.000, New DP F-measure: 0.966, New DP Energy: -41.49 .........(((((((((((....((((....)))).))))......(((((((((...)))))))))..........))))))).. New DP sens: 0.533, New DP ppv: 0.667, New DP F-measure: 0.593, New DP Energy: -40.35 ..(((((..(((.(((((......))))).))).)))))....((((((((((((.....)))))))).)))).............. New DP sens: 0.400, New DP ppv: 0.480, New DP F-measure: 0.436, New DP Energy: -39.95 .((((((......(((((......))))).)))))).......((((((((((((.....)))))))).)))).............. New DP sens: 0.600, New DP ppv: 0.783, New DP F-measure: 0.679, New DP Energy: -39.84 .((((((..[[[[[[[........))))))(((.....)))..((((((((((((.....)))))))).)))).....]]]]]]].. New DP sens: 0.633, New DP ppv: 0.679, New DP F-measure: 0.655, New DP Energy: -39.47 ..(((((..(((.(((((......))))).))).)))))((..((((((((((((.....)))))))).))))))............ New DP sens: 0.400, New DP ppv: 0.444, New DP F-measure: 0.421, New DP Energy: -39.15 .((((....[[[[[[[((((....((((....)))).))))......(((((((((...)))))))))...))))...]]]]]]].. New DP sens: 0.533, New DP ppv: 0.571, New DP F-measure: 0.552, New DP Energy: -38.95 .((((((..[[[[[[[[[[[((.....)).)))))).]]]]......(((((((((...)))))))))..........]]]]]]].. New DP sens: 0.733, New DP ppv: 0.786, New DP F-measure: 0.759, New DP Energy: -38.90 ..(((((..[[[[[[[(((........)))....)))))....((((((((((((.....)))))))).)))).....]]]]]]].. New DP sens: 0.733, New DP ppv: 0.815, New DP F-measure: 0.772, New DP Energy: -38.74 ..(((((..[[[[[[[(((........)))....)))))((..((((((((((((.....)))))))).))))))...]]]]]]].. New DP sens: 0.733, New DP ppv: 0.759, New DP F-measure: 0.746, New DP Energy: -38.54 .........(((((((((......))...(((((....(....)...(((((((((...)))))))))...)))))..))))))).. New DP sens: 0.533, New DP ppv: 0.667, New DP F-measure: 0.593, New DP Energy: -38.50 .((((((..[[[[[[[[[[[....)))))).......]]]]......(((((((((...)))))))))..........]]]]]]].. New DP sens: 0.533, New DP ppv: 0.615, New DP F-measure: 0.571, New DP Energy: -38.27 New DP F-measure-avg: 0.646, New DP F-measure-best: 0.966, New DP best-subopt: 8, New DP num-subopt: 19 > SSTRAND_ID=HDV_anti; TYPE=anti-genomic HDV; EXT_SOURCE=Ferre-D'Amareand et al 1998; GGGUCGGCAUGGCAUCUCCACCUCCUCGCGGUCCGACCUGGGCAUCCGAAGGAGGACGCACGUCCACUCGGAUGGCUAAGGGAGAGCCACU .((((((........[[[[(((.......)))))))))....(((((((....((((....))))..)))))))......]]]]....... .........((((.(((((.((((((((..((((.....))))...)).))))))..((.(((((....)))))))....))))))))).. .........((((.(((((.((((((((..((((.....))))...)).))))))..((.(((((....)))))))....))))))))).. Energy of known structure: -24.51 Initial sens: 0.167, Initial ppv: 0.143, Initial F-measure: 0.154, Initial Energy: -40.20 New DP sens: 0.167, New DP ppv: 0.143, New DP F-measure: 0.154, New DP Energy: -40.20 (((((((..[[[[.[[[[[.[[[[[[......)))))))...(((((((]]]]]]............)))))))......]]]]]]]]].. New DP sens: 0.708, New DP ppv: 0.586, New DP F-measure: 0.642, New DP Energy: -39.42 .........((((.(((((.((((((((..((((.....))))...)).)))))).....(((((....)))))......))))))))).. New DP sens: 0.167, New DP ppv: 0.154, New DP F-measure: 0.160, New DP Energy: -37.80 .........((((.(((((.((((((....(((((...)))))......))))))..((.(((((....)))))))....))))))))).. New DP sens: 0.167, New DP ppv: 0.148, New DP F-measure: 0.157, New DP Energy: -37.00 (((((((..[[[[.[[[[[(((.......))))))))))((.(((((((.(..((((....)))).)))))))).))...]]]]]]]]].. New DP sens: 1.000, New DP ppv: 0.727, New DP F-measure: 0.842, New DP Energy: -36.89 (((((((..[[[[.[[[[[...[[[[[.....)))))))...(((((((..]]]]]...........)))))))......]]]]]]]]].. New DP sens: 0.708, New DP ppv: 0.607, New DP F-measure: 0.654, New DP Energy: -35.73 (((((((..[[[[.[[[[[.[[[[[[[[....))))))).......]].]]]]]]..((.(((((....)))))))....]]]]]]]]].. New DP sens: 0.417, New DP ppv: 0.323, New DP F-measure: 0.364, New DP Energy: -35.18 .........((((.(((((.((((((....(((((...)))))......)))))).....(((((....)))))......))))))))).. New DP sens: 0.167, New DP ppv: 0.160, New DP F-measure: 0.163, New DP Energy: -34.60 (((((((..[[[[.[[[[[.[[[[[[......)))))))((....))..]]]]]]..((.(((((....)))))))....]]]]]]]]].. New DP sens: 0.417, New DP ppv: 0.323, New DP F-measure: 0.364, New DP Energy: -34.45 ..(((.....))).(((((.((((((((..((((.....))))...)).))))))..((.(((((....)))))))....)))))...... New DP sens: 0.167, New DP ppv: 0.148, New DP F-measure: 0.157, New DP Energy: -34.30 (((((((..[[[[.[[[[[(((.......))))))))))...(((((((....((((....))))..)))))))......]]]]]]]]].. New DP sens: 1.000, New DP ppv: 0.800, New DP F-measure: 0.889, New DP Energy: -32.94 .........((((.(((((.((...(((.....)))...)).(((((((....((((....))))..)))))))......))))))))).. New DP sens: 0.625, New DP ppv: 0.600, New DP F-measure: 0.612, New DP Energy: -32.90 (((((((..[[[[.[[[[[.[[[[[[[[....))))))).......]].]]]]]].....(((((....)))))......]]]]]]]]].. New DP sens: 0.417, New DP ppv: 0.345, New DP F-measure: 0.377, New DP Energy: -32.78 (((((((.((.((..............)).))))))))).....(((((.(..((((....)))).))))))(((((.......))))).. New DP sens: 0.625, New DP ppv: 0.577, New DP F-measure: 0.600, New DP Energy: -32.68 .........((((.......((((((((..((((.....))))...)).))))))..((.(((((....))))))).........)))).. New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -32.40 .........((((.(((((...(((((...((((.....))))........))))).((.(((((....)))))))....))))))))).. New DP sens: 0.167, New DP ppv: 0.160, New DP F-measure: 0.163, New DP Energy: -32.25 New DP F-measure-avg: 0.394, New DP F-measure-best: 0.889, New DP best-subopt: 10, New DP num-subopt: 15 > SSTRAND_ID=HIVRT32; TYPE=HIV-1-RT ligand RNA; EXT_SOURCE=Turek et al 1992; UCAAGUAUUCCGAAGCUCAACGGGAAAAUGAGCUA .......[[[[[.((((((.]]]]]...)))))). .......(((((.[[[[[[.)))))...]]]]]]. .......(((((.[[[[[[.)))))...]]]]]]. Energy of known structure: -7.40 Initial sens: 1.000, Initial ppv: 1.000, Initial F-measure: 1.000, Initial Energy: -7.40 New DP sens: 1.000, New DP ppv: 1.000, New DP F-measure: 1.000, New DP Energy: -7.40 .............((((((.........)))))). New DP sens: 0.545, New DP ppv: 1.000, New DP F-measure: 0.706, New DP Energy: -6.50 .......((((..[[[[[[...))))..]]]]]]. New DP sens: 0.545, New DP ppv: 0.600, New DP F-measure: 0.571, New DP Energy: -5.92 (((....(((((........)))))...))).... New DP sens: 0.455, New DP ppv: 0.625, New DP F-measure: 0.526, New DP Energy: -4.84 .......(((((........))))).......... New DP sens: 0.455, New DP ppv: 1.000, New DP F-measure: 0.625, New DP Energy: -4.60 ...(((.(((((........)))))......))). New DP sens: 0.455, New DP ppv: 0.625, New DP F-measure: 0.526, New DP Energy: -3.14 New DP F-measure-avg: 0.659, New DP F-measure-best: 1.000, New DP best-subopt: 0, New DP num-subopt: 5 > SSTRAND_ID=HIVRT322; TYPE=HIV-1-RT ligand RNA; EXT_SOURCE=Turek et al 1992; UCAAGUAUUCCGAAGGGUAACGGGAAAAUGCCCUA .......[[[[[.((((((.]]]]]...)))))). .......(((((.[[[[[[.)))))...]]]]]]. .......(((((.[[[[[[.)))))...]]]]]]. Energy of known structure: -7.48 Initial sens: 1.000, Initial ppv: 1.000, Initial F-measure: 1.000, Initial Energy: -7.48 New DP sens: 1.000, New DP ppv: 1.000, New DP F-measure: 1.000, New DP Energy: -7.48 .............((((((.........)))))). New DP sens: 0.545, New DP ppv: 1.000, New DP F-measure: 0.706, New DP Energy: -6.60 .........((....))....(((......))).. New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -6.30 .......((((..[[[[[[...))))..]]]]]]. New DP sens: 0.545, New DP ppv: 0.600, New DP F-measure: 0.571, New DP Energy: -6.00 .......(((((........))))).......... New DP sens: 0.455, New DP ppv: 1.000, New DP F-measure: 0.625, New DP Energy: -4.60 .....(((((....)))))..(((......))).. New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -4.40 ....((((((((........)))...))))).... New DP sens: 0.273, New DP ppv: 0.375, New DP F-measure: 0.316, New DP Energy: -4.00 .........((....))....(((.......))). New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -3.80 ........(((...)))....(((......))).. New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -3.10 New DP F-measure-avg: 0.358, New DP F-measure-best: 1.000, New DP best-subopt: 0, New DP num-subopt: 8 > SSTRAND_ID=HIVRT33; TYPE=HIV-1-RT ligand RNA; EXT_SOURCE=Turek et al 1992; UCAAGUAUUCCGAAGCUUGACGGGAAAAUAAGCUA .......[[[[[.((((((.]]]]]...)))))). .......(((((.[[[[[[.)))))...]]]]]]. .......(((((.[[[[[[.)))))...]]]]]]. Energy of known structure: -5.24 Initial sens: 1.000, Initial ppv: 1.000, Initial F-measure: 1.000, Initial Energy: -5.24 New DP sens: 1.000, New DP ppv: 1.000, New DP F-measure: 1.000, New DP Energy: -5.24 ((((((........))))))............... New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -4.90 ((((((.[[[[[..))))))]]]]].......... New DP sens: 0.455, New DP ppv: 0.455, New DP F-measure: 0.455, New DP Energy: -4.86 .......(((((........))))).......... New DP sens: 0.455, New DP ppv: 1.000, New DP F-measure: 0.625, New DP Energy: -4.60 .......((((..[[[[[[...))))..]]]]]]. New DP sens: 0.545, New DP ppv: 0.600, New DP F-measure: 0.571, New DP Energy: -3.76 ((((((.[[[[...))))))..]]]]......... New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -3.48 .............((((((.........)))))). New DP sens: 0.545, New DP ppv: 1.000, New DP F-measure: 0.706, New DP Energy: -3.40 ...(((.(((((........)))))......))). New DP sens: 0.455, New DP ppv: 0.625, New DP F-measure: 0.526, New DP Energy: -3.14 .......((((...........))))......... New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -2.19 ...(((.((((...........)))).....))). New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -1.39 .....(((((((........)))...))))..... New DP sens: 0.273, New DP ppv: 0.429, New DP F-measure: 0.333, New DP Energy: -1.30 New DP F-measure-avg: 0.383, New DP F-measure-best: 1.000, New DP best-subopt: 0, New DP num-subopt: 10 > SSTRAND_ID=Hs_Prp; TYPE=mRNA; EXT_SOURCE=van Batenburg et al 2001; GCCUCAUGGUGGUGGCUGGGGGCAGCCUCAUGGUGGUGGCUGGGG ...((((((.............[[[[[))))))....]]]]]... (((((((.((((.(((((....))))))))).)))).)))..... (((((((.((((.(((((....))))))))).)))).)))..... Energy of known structure: -5.94 Initial sens: 0.000, Initial ppv: 0.000, Initial F-measure: 0.000, Initial Energy: -21.60 New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -21.60 New DP F-measure-avg: 0.000, New DP F-measure-best: 0.000, New DP best-subopt: 0, New DP num-subopt: 0 > SSTRAND_ID=LP_PK1; TYPE=tmRNA; EXT_SOURCE=van Batenburg et al 2001; CGAGAAGGAGAUCUCUCGUAAAUAAGACUC [[[[[..(((.((]]]]].......))))) (((((........)))))............ (((((........)))))............ Energy of known structure: -1.82 Initial sens: 0.500, Initial ppv: 1.000, Initial F-measure: 0.667, Initial Energy: -4.80 New DP sens: 0.500, New DP ppv: 1.000, New DP F-measure: 0.667, New DP Energy: -4.80 .((((......))))............... New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -3.10 .......(((....)))............. New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -2.70 New DP F-measure-avg: 0.222, New DP F-measure-best: 0.667, New DP best-subopt: 0, New DP num-subopt: 2 > SSTRAND_ID=minimalIBV; TYPE=viral ribosomal RNA frame-shifting signals; EXT_SOURCE=Giedroc et al 2000; GGGGUAUCAGUCAGGCUCGGCUGGUACCCCUUGCAAAGCGAGCCU (((((((((((..[[[[[[)))))))))))........]]]]]]. ((((((((((((......))))))))))))............... ((((((((((((......))))))))))))............... Energy of known structure: -21.98 Initial sens: 0.647, Initial ppv: 0.917, Initial F-measure: 0.759, Initial Energy: -21.80 New DP sens: 0.647, New DP ppv: 0.917, New DP F-measure: 0.759, New DP Energy: -21.80 ((((((((((((......))))))))))))((((...)))).... New DP sens: 0.647, New DP ppv: 0.688, New DP F-measure: 0.667, New DP Energy: -21.30 .(((((((((((......)))))))))))(((((...)))))... New DP sens: 0.588, New DP ppv: 0.625, New DP F-measure: 0.606, New DP Energy: -20.20 New DP F-measure-avg: 0.677, New DP F-measure-best: 0.759, New DP best-subopt: 0, New DP num-subopt: 2 > SSTRAND_ID=MMTV; TYPE=viral ribosomal RNA frame-shifting signals; EXT_SOURCE=Giedroc et al 2000; GGGGCAGUCCCCUAGCCCCACUCAAAAGGGGGAU [[[[[..((((((.]]]]]........)))))). (((((.[[[[[[[.)))))........]]]]]]] (((((.[[[[[[[.)))))........]]]]]]] Energy of known structure: -13.89 Initial sens: 1.000, Initial ppv: 0.917, Initial F-measure: 0.957, Initial Energy: -14.35 New DP sens: 1.000, New DP ppv: 0.917, New DP F-measure: 0.957, New DP Energy: -14.35 (((((..[[[[[[.))))).......]]]]]].. New DP sens: 0.455, New DP ppv: 0.455, New DP F-measure: 0.455, New DP Energy: -13.44 ((((....))))...((((.((....)))))).. New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -13.40 ((((....))))...((((........))))... New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -13.30 ((((...))))....((((.((....)))))).. New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -12.30 ((((...))))....((((........))))... New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -12.20 ((((....))))...((((.........)))).. New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -12.20 (((((((....)).))))).(((....))).... New DP sens: 0.455, New DP ppv: 0.500, New DP F-measure: 0.476, New DP Energy: -11.60 ((((([[[.{{{{.)))))]]]......}}}}.. New DP sens: 0.455, New DP ppv: 0.417, New DP F-measure: 0.435, New DP Energy: -11.53 ((((.....))))..((((.((....)))))).. New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -11.40 ((((.....))))..((((........))))... New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -11.30 ((((.[[[))))...((((]]].....))))... New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -11.20 ((((...))))....((((.........)))).. New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -11.10 ((((.[[[))))...((((]]]......)))).. New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -10.90 (((((.........))))).(((....))).... New DP sens: 0.455, New DP ppv: 0.625, New DP F-measure: 0.526, New DP Energy: -10.90 ((((.....))))..((((.........)))).. New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -10.20 (((....))).....((((.((....)))))).. New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -9.90 (((....))).....((((........))))... New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -9.80 (((((....[[[[.))))).........]]]].. New DP sens: 0.455, New DP ppv: 0.556, New DP F-measure: 0.500, New DP Energy: -9.76 New DP F-measure-avg: 0.176, New DP F-measure-best: 0.957, New DP best-subopt: 0, New DP num-subopt: 18 > SSTRAND_ID=MMTV_vpk; TYPE=viral ribosomal RNA frame-shifting signals; EXT_SOURCE=Giedroc et al 2000; GGCGCAGUGGGUCAGCGCCACUCAAAAGGCCCAU [[[[[..((((((.]]]]]........)))))). (((((.[[[[[[[.)))))........]]]]]]] (((((.[[[[[[[.)))))........]]]]]]] Energy of known structure: -11.82 Initial sens: 1.000, Initial ppv: 0.917, Initial F-measure: 0.957, Initial Energy: -12.28 New DP sens: 1.000, New DP ppv: 0.917, New DP F-measure: 0.957, New DP Energy: -12.28 (((((.........)))))............... New DP sens: 0.455, New DP ppv: 1.000, New DP F-measure: 0.625, New DP Energy: -9.30 ......(((((((..............))))))) New DP sens: 0.545, New DP ppv: 0.857, New DP F-measure: 0.667, New DP Energy: -8.53 ((((.((((((....).)))))).....)))... New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -7.90 (((....(((((.......)))))....)))... New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -7.74 (((..(((((.......)))))......)))... New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -7.74 (((((..[[[[[..)))))]]]]].......... New DP sens: 0.455, New DP ppv: 0.500, New DP F-measure: 0.476, New DP Energy: -7.03 New DP F-measure-avg: 0.389, New DP F-measure-best: 0.957, New DP best-subopt: 0, New DP num-subopt: 6 > SSTRAND_ID=pKA_A; TYPE=viral ribosomal RNA frame-shifting signals; EXT_SOURCE=Giedroc et al 2000; GGCCGCCAGGCUCCAGCGGCCUUGCAAAAGGAGCCU [[[[[[..((((((.]]]]]]........)))))). ((((((.[[[[[[[.))))))........]]]]]]] ((((((.[[[[[[[.))))))........]]]]]]] Energy of known structure: -16.65 Initial sens: 1.000, Initial ppv: 0.923, Initial F-measure: 0.960, Initial Energy: -16.59 New DP sens: 1.000, New DP ppv: 0.923, New DP F-measure: 0.960, New DP Energy: -16.59 .......(((((((....((...))....))))))) New DP sens: 0.500, New DP ppv: 0.667, New DP F-measure: 0.571, New DP Energy: -12.69 .......(((((((.(((....)))....))))))) New DP sens: 0.500, New DP ppv: 0.600, New DP F-measure: 0.545, New DP Energy: -12.10 ((((((.........))))))............... New DP sens: 0.500, New DP ppv: 1.000, New DP F-measure: 0.667, New DP Energy: -11.60 ((((....))))...((..((((....)))).)).. New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -11.10 (((.((.(((((.....))))).)).......))). New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -10.34 ((((....)))).....((((((....)))..))). New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -9.00 ((((((..(....).))).((((....)))).))). New DP sens: 0.250, New DP ppv: 0.273, New DP F-measure: 0.261, New DP Energy: -8.80 New DP F-measure-avg: 0.376, New DP F-measure-best: 0.960, New DP best-subopt: 0, New DP num-subopt: 7 > SSTRAND_ID=satRPV; TYPE=ribozyme; EXT_SOURCE=van Batenburg et al 2001; ACAGAGCGCGUACUGUCUGACGACGUAUCCGCGCGGACUAGAAGGCUGGUGCCUCGUCCAACAAAUAGAUACA ((((.[[[[[..))))........(((((]]]]]((((....((((....)))).))))........))))). ((((.[[[[[..))))..(((((.{{{{{]]]]](((((((....))))).))))))).........}}}}}. ((((.[[[[[..))))..(((((.{{{{{]]]]](((((((....))))).))))))).........}}}}}. Energy of known structure: -20.80 Initial sens: 0.636, Initial ppv: 0.538, Initial F-measure: 0.583, Initial Energy: -23.65 New DP sens: 0.636, New DP ppv: 0.538, New DP F-measure: 0.583, New DP Energy: -23.65 ((((.[[[[[..))))..(((((.{{{{{]]]]]..(((((....)))))...))))).........}}}}}. New DP sens: 0.636, New DP ppv: 0.583, New DP F-measure: 0.609, New DP Energy: -23.55 .(((([[[[[.....)))).....(((((]]]]]((((....((((....)))).))))........))))). New DP sens: 0.818, New DP ppv: 0.818, New DP F-measure: 0.818, New DP Energy: -23.07 .....((((((((.(((....))))))..)))))((((....((((....)))).)))).............. New DP sens: 0.591, New DP ppv: 0.684, New DP F-measure: 0.634, New DP Energy: -21.85 ((((.[[[[[..))))........(((((]]]]]((((....((((....)))).))))........))))). New DP sens: 1.000, New DP ppv: 1.000, New DP F-measure: 1.000, New DP Energy: -20.80 .....(((((....[[[[{{{{{.<<<<<)))))........]]]].......}}}}}.........>>>>>. New DP sens: 0.455, New DP ppv: 0.526, New DP F-measure: 0.488, New DP Energy: -20.60 .....(((((........[[[[[.{{{{{)))))(((((((....))))).))]]]]].........}}}}}. New DP sens: 0.455, New DP ppv: 0.455, New DP F-measure: 0.455, New DP Energy: -18.84 .....(((((........[[[[[.{{{{{)))))..(((((....)))))...]]]]].........}}}}}. New DP sens: 0.455, New DP ppv: 0.500, New DP F-measure: 0.476, New DP Energy: -18.74 .....(((((....[[[[......{{{{{)))))((((....]]]].........))))........}}}}}. New DP sens: 0.636, New DP ppv: 0.778, New DP F-measure: 0.700, New DP Energy: -18.46 .....((((((((.(((....))))))..)))))........((((....))))................... New DP sens: 0.409, New DP ppv: 0.600, New DP F-measure: 0.486, New DP Energy: -17.80 .(((([[[[[.....)))).....(((((]]]]]........((((....)))).............))))). New DP sens: 0.636, New DP ppv: 0.778, New DP F-measure: 0.700, New DP Energy: -17.72 New DP F-measure-avg: 0.632, New DP F-measure-best: 1.000, New DP best-subopt: 4, New DP num-subopt: 10 > SSTRAND_ID=SRV_1; TYPE=viral ribosomal RNA frame-shifting signals; EXT_SOURCE=Giedroc et al 2000; GGGGCCAGCCCCAGGCCCCGAAACAAGCUUAUGGGGCA ((((((.[[[[[.)))))).............]]]]]. ((((((.[[[[[[))))))............]]]]]]. ((((((.[[[[[[))))))............]]]]]]. Energy of known structure: -16.72 Initial sens: 1.000, Initial ppv: 0.917, Initial F-measure: 0.957, Initial Energy: -18.66 New DP sens: 1.000, New DP ppv: 0.917, New DP F-measure: 0.957, New DP Energy: -18.66 ((((....))))..((((((.((.....)).)))))). New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -18.60 ((((....))))..((((((...........)))))). New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -17.99 ((((((.......)))))).......(((.....))). New DP sens: 0.545, New DP ppv: 0.667, New DP F-measure: 0.600, New DP Energy: -16.30 New DP F-measure-avg: 0.389, New DP F-measure-best: 0.957, New DP best-subopt: 0, New DP num-subopt: 3 > SSTRAND_ID=T2_gene32; TYPE=viral ribosomal RNA frame-shifting signals; EXT_SOURCE=Giedroc et al 2000; CUGACCAGCUAUGAGGUCAUACAUCGUCAUAGC .[[[[[.(((((((]]]]].......))))))) .......(((((((.(........).))))))) .......(((((((.(........).))))))) Energy of known structure: -7.99 Initial sens: 0.583, Initial ppv: 0.875, Initial F-measure: 0.700, Initial Energy: -9.55 New DP sens: 0.583, New DP ppv: 0.875, New DP F-measure: 0.700, New DP Energy: -9.55 .......((((((((((.....))).))))))) New DP sens: 0.583, New DP ppv: 0.700, New DP F-measure: 0.636, New DP Energy: -8.30 .(((((.[[[[[[[))))).......]]]]]]] New DP sens: 1.000, New DP ppv: 1.000, New DP F-measure: 1.000, New DP Energy: -7.99 .(((((........))))).............. New DP sens: 0.417, New DP ppv: 1.000, New DP F-measure: 0.588, New DP Energy: -6.10 New DP F-measure-avg: 0.731, New DP F-measure-best: 1.000, New DP best-subopt: 2, New DP num-subopt: 3 > SSTRAND_ID=T4_gene32; TYPE=mRNA; EXT_SOURCE=van Batenburg et al 2001; UGCCAGCUAUGAGGUAAAGUGUCAUAGC [[[[.(((((((]]]].....))))))) .....(((((((.(.....).))))))) .....(((((((.(.....).))))))) Energy of known structure: -5.64 Initial sens: 0.636, Initial ppv: 0.875, Initial F-measure: 0.737, Initial Energy: -7.80 New DP sens: 0.636, New DP ppv: 0.875, New DP F-measure: 0.737, New DP Energy: -7.80 ((((.[[[[[[[)))).....]]]]]]] New DP sens: 1.000, New DP ppv: 1.000, New DP F-measure: 1.000, New DP Energy: -5.64 New DP F-measure-avg: 0.868, New DP F-measure-best: 1.000, New DP best-subopt: 1, New DP num-subopt: 1 > SSTRAND_ID=TMV.L; TYPE=viral RNA; EXT_SOURCE=van Belkum et al 1985; AUAAUAAAUAACGGAUUGUGUCCGUAAUCACACGUGGUGCGUACGAUAACGCAUAGUGUUUUUCCCUCCACUUAAAUCGAAGGG ............[[[.((((]]].....))))[[[.((((((]]]...))))))[[[[.....(((((]]]]......).)))) ................(((((.((((...[[[[{{{{))))..<<<<.)))))..]]]]....((((}}}}....>>>>.)))) ................(((((.((((...[[[[{{{{))))..<<<<.)))))..]]]]....((((}}}}....>>>>.)))) Energy of known structure: -4.28 Initial sens: 0.160, Initial ppv: 0.160, Initial F-measure: 0.160, Initial Energy: -25.22 New DP sens: 0.160, New DP ppv: 0.160, New DP F-measure: 0.160, New DP Energy: -25.22 ..........((((((...))))))...........((((((.[[[[.))))))((((.....{{{{.))))...]]]].}}}} New DP sens: 0.680, New DP ppv: 0.708, New DP F-measure: 0.694, New DP Energy: -20.98 ..............(((((((.((((.......[[[[))))..{{{{...)))))))......((((]]]]....}}}}.)))) New DP sens: 0.160, New DP ppv: 0.174, New DP F-measure: 0.167, New DP Energy: -20.89 ................((((..[[[[..)))).((((]]]]..[[[[(((((...)))))...{{{{))))....]]]].}}}} New DP sens: 0.320, New DP ppv: 0.320, New DP F-measure: 0.320, New DP Energy: -19.93 ................(((((.((((.......[[[[))))..{{{{.)))))..........((((]]]]....}}}}.)))) New DP sens: 0.160, New DP ppv: 0.190, New DP F-measure: 0.174, New DP Energy: -19.63 ..........((((((...))))))....(((([[[[(((((......)))))..))))....((((]]]].........)))) New DP sens: 0.480, New DP ppv: 0.522, New DP F-measure: 0.500, New DP Energy: -19.42 ................(((((........[[[[{{{{......<<<<.)))))..]]]]....((((}}}}....>>>>.)))) New DP sens: 0.160, New DP ppv: 0.190, New DP F-measure: 0.174, New DP Energy: -19.13 ..........((((((...))))))....(((([[[[......{{{{........))))....((((]]]]....}}}}.)))) New DP sens: 0.280, New DP ppv: 0.318, New DP F-measure: 0.298, New DP Energy: -18.62 ..........((((((...))))))....((((...((((((.[[[[.)))))).))))....((((........]]]].)))) New DP sens: 0.520, New DP ppv: 0.542, New DP F-measure: 0.531, New DP Energy: -18.38 ..........((((((...))))))....((((...((((((......)))))).))))....((((.(.........).)))) New DP sens: 0.520, New DP ppv: 0.619, New DP F-measure: 0.565, New DP Energy: -18.30 ......................((((...[[[[{{{{))))..((((........]]]]....[[[[}}}}....)))).]]]] New DP sens: 0.160, New DP ppv: 0.200, New DP F-measure: 0.178, New DP Energy: -18.12 ................(((((........)))))..((((((.[[[[.))))))((((.....{{{{.))))...]]]].}}}} New DP sens: 0.560, New DP ppv: 0.609, New DP F-measure: 0.583, New DP Energy: -17.57 ................((((........))))....((((((.[[[[.))))))((((.....{{{{.))))...]]]].}}}} New DP sens: 0.720, New DP ppv: 0.818, New DP F-measure: 0.766, New DP Energy: -17.38 ..........((((((...))))))...........((((((.[[[[.)))))).........((((........]]]].)))) New DP sens: 0.520, New DP ppv: 0.650, New DP F-measure: 0.578, New DP Energy: -16.16 ..........((((((...))))))...........((((((......)))))).........((((.(.........).)))) New DP sens: 0.520, New DP ppv: 0.765, New DP F-measure: 0.619, New DP Energy: -16.05 ..........((((((...))))))........((((......[[[[(((((...)))))...{{{{))))....]]]].}}}} New DP sens: 0.280, New DP ppv: 0.304, New DP F-measure: 0.292, New DP Energy: -15.53 ..............(((((((............[[[[......{{{{...)))))))......((((]]]]....}}}}.)))) New DP sens: 0.160, New DP ppv: 0.211, New DP F-measure: 0.182, New DP Energy: -14.80 ......................((((.......[[[[))))..(((((((((...)))))...{{{{]]]]....)))).}}}} New DP sens: 0.160, New DP ppv: 0.190, New DP F-measure: 0.174, New DP Energy: -14.62 New DP F-measure-avg: 0.386, New DP F-measure-best: 0.766, New DP best-subopt: 12, New DP num-subopt: 17 > SSTRAND_ID=Tt_LSU_P3P7; TYPE=ribozyme; EXT_SOURCE=van Batenburg et al 2001; AGACCGUCAAACACAGACUAAAUGUCGGUCGGGGAAGAUGUAUUCUUCUCAUAAGAUAUAGUCGG .(((((.((....[.[[[[[..)).))))).(((((((.....)))))))........]]]]]]. .(((((.((......[[[[[..)).))))).(((((((.....)))))))........]]]]].. .(((((.((......[[[[[..)).))))).(((((((.....)))))))........]]]]].. Energy of known structure: -17.05 Initial sens: 0.950, Initial ppv: 1.000, Initial F-measure: 0.974, Initial Energy: -18.11 New DP sens: 0.950, New DP ppv: 1.000, New DP F-measure: 0.974, New DP Energy: -18.11 .(((((.((.............)).))))).(((((((.....)))))))............... New DP sens: 0.700, New DP ppv: 1.000, New DP F-measure: 0.824, New DP Energy: -17.11 ...............(((((..((((.....(((((((.....)))))))....))))))))).. New DP sens: 0.600, New DP ppv: 0.750, New DP F-measure: 0.667, New DP Energy: -17.07 .(((.(((.......)))...(((((.....(((((((.....)))))))....))))).))).. New DP sens: 0.350, New DP ppv: 0.389, New DP F-measure: 0.368, New DP Energy: -16.67 .(((((.........[[[[[.....))))).(((((((.....)))))))........]]]]].. New DP sens: 0.850, New DP ppv: 1.000, New DP F-measure: 0.919, New DP Energy: -15.19 .(((((...................))))).(((((((.....)))))))............... New DP sens: 0.600, New DP ppv: 1.000, New DP F-measure: 0.750, New DP Energy: -15.10 .(((...........((((.......)))).(((((((.....)))))))..........))).. New DP sens: 0.350, New DP ppv: 0.500, New DP F-measure: 0.412, New DP Energy: -14.50 .(((...........(((.....))).....(((((((.....)))))))..........))).. New DP sens: 0.350, New DP ppv: 0.538, New DP F-measure: 0.424, New DP Energy: -14.40 .....(((.......)))...(((((.....(((((((.....)))))))....)))))...... New DP sens: 0.350, New DP ppv: 0.467, New DP F-measure: 0.400, New DP Energy: -14.07 ...(((.........((((.......)))).(((((((.....)))))))............))) New DP sens: 0.350, New DP ppv: 0.500, New DP F-measure: 0.412, New DP Energy: -13.90 ...(((.........(((.....))).....(((((((.....)))))))............))) New DP sens: 0.350, New DP ppv: 0.538, New DP F-measure: 0.424, New DP Energy: -13.80 ...(((..........((((..((((.....(((((((.....)))))))....))))))))))) New DP sens: 0.550, New DP ppv: 0.611, New DP F-measure: 0.579, New DP Energy: -13.52 New DP F-measure-avg: 0.596, New DP F-measure-best: 0.974, New DP best-subopt: 0, New DP num-subopt: 11 > SSTRAND_ID=TYMV; TYPE=viral RNA; EXT_SOURCE=Deiman et al 1997; UUAGCUCGCCAGUUAGCGAGGUCUGUCCCCACACGACAGAUAAUCGGGUGCAACUCCCGCCCCUCUUCCGAGGGUCAUCGGAACCA ....(((((......)))))(((((((.......)))))))...((((.......))))[[[...((((((]]]...))))))... ....(((((......)))))(((((((.......)))))))....(((.((....[[[)))))..((((((]]]...))))))... ....(((((......)))))(((((((.......)))))))....(((.((....[[[)))))..((((((]]]...))))))... Energy of known structure: -23.64 Initial sens: 0.720, Initial ppv: 0.692, Initial F-measure: 0.706, Initial Energy: -27.73 New DP sens: 0.720, New DP ppv: 0.692, New DP F-measure: 0.706, New DP Energy: -27.73 ....(((((......)))))(((((((.......)))))))....(((.((.......)))))..((((((......))))))... New DP sens: 0.720, New DP ppv: 0.783, New DP F-measure: 0.750, New DP Energy: -27.50 ....(((((......)))))(((((((.......)))))))....(((((.......)))))...((((((......))))))... New DP sens: 0.720, New DP ppv: 0.783, New DP F-measure: 0.750, New DP Energy: -27.30 ....(((((......)))))((((((([[[....)))))))....(((.((.......)))))..((((((]]]...))))))... New DP sens: 0.720, New DP ppv: 0.692, New DP F-measure: 0.706, New DP Energy: -27.20 ....(((((......)))))((((((([[[....)))))))....(((((.......)))))...((((((]]]...))))))... New DP sens: 0.720, New DP ppv: 0.692, New DP F-measure: 0.706, New DP Energy: -26.90 ....(((((......)))))(((((((.......)))))))...((((.......)))).(((((....)))))............ New DP sens: 0.640, New DP ppv: 0.762, New DP F-measure: 0.696, New DP Energy: -26.50 ....(((((......)))))(((((((.......)))))))...((((.......))))......((((((......))))))... New DP sens: 0.880, New DP ppv: 1.000, New DP F-measure: 0.936, New DP Energy: -26.20 ....(((((......)))))((((((([[[....)))))))...((((.......))))......((((((]]]...))))))... New DP sens: 0.880, New DP ppv: 0.880, New DP F-measure: 0.880, New DP Energy: -25.60 (((((([[[[))))))....((((((({{{....))))))).....]]]]...............((((((}}}...))))))... New DP sens: 0.520, New DP ppv: 0.500, New DP F-measure: 0.510, New DP Energy: -25.27 ....(((((......)))))(((((((.......)))))))....(((.......[[[..)))..((((((]]]...))))))... New DP sens: 0.720, New DP ppv: 0.750, New DP F-measure: 0.735, New DP Energy: -24.82 ((((((....))))))....(((((((.......)))))))....(((.((....[[[)))))..((((((]]]...))))))... New DP sens: 0.520, New DP ppv: 0.481, New DP F-measure: 0.500, New DP Energy: -23.62 ((((((....))))))....(((((((.......)))))))....(((.((.......)))))..((((((......))))))... New DP sens: 0.520, New DP ppv: 0.542, New DP F-measure: 0.531, New DP Energy: -23.40 ((((((....)))))).((((((((((.......))))))....((((.......))))..))))((((((......))))))... New DP sens: 0.640, New DP ppv: 0.615, New DP F-measure: 0.627, New DP Energy: -23.40 ....(((((......)))))(((((((.......)))))))....(((............)))..((((((......))))))... New DP sens: 0.720, New DP ppv: 0.857, New DP F-measure: 0.783, New DP Energy: -23.29 ((((((....))))))....(((((((.......)))))))....(((((.......)))))...((((((......))))))... New DP sens: 0.520, New DP ppv: 0.542, New DP F-measure: 0.531, New DP Energy: -23.20 ((((((....))))))....((((((([[[....)))))))....(((.((.......)))))..((((((]]]...))))))... New DP sens: 0.520, New DP ppv: 0.481, New DP F-measure: 0.500, New DP Energy: -23.10 ......((((......(((.(((((((.......)))))))..)))))))......(((.(((((....)))))....)))..... New DP sens: 0.280, New DP ppv: 0.318, New DP F-measure: 0.298, New DP Energy: -23.00 ....(((((......)))))((((((([[[....)))))))....(((............)))..((((((]]]...))))))... New DP sens: 0.720, New DP ppv: 0.750, New DP F-measure: 0.735, New DP Energy: -22.99 ....(((((......)))))(((((((.......)))))))....(((......))).((((...[[[[[[))))..]]]]]]... New DP sens: 0.840, New DP ppv: 0.840, New DP F-measure: 0.840, New DP Energy: -22.91 ((((((....))))))....((((((([[[....)))))))....(((((.......)))))...((((((]]]...))))))... New DP sens: 0.520, New DP ppv: 0.481, New DP F-measure: 0.500, New DP Energy: -22.80 New DP F-measure-avg: 0.661, New DP F-measure-best: 0.936, New DP best-subopt: 6, New DP num-subopt: 19 > AKV-MuLV GGGUCAGGAGCCCCCCCCUGAACCCAGGAUAACCCUCACUGUCGGGGGGC ((((((((.[[[[[[[)))).))))..................]]]]]]] ((((.....))))((((((((....(((.....))).....)))))))). ((((.....))))((((((((....(((.....))).....)))))))). Energy of known structure: -18.68 Initial sens: 0.000, Initial ppv: 0.000, Initial F-measure: 0.000, Initial Energy: -21.37 New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -21.37 ((((((((........)))).)))).......(((((......))))).. New DP sens: 0.533, New DP ppv: 0.615, New DP F-measure: 0.571, New DP Energy: -20.60 ((((.....))))((((((((...(((((......)).))))))))))). New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -20.50 ((((((((........)))).)))).......(((((.......))))). New DP sens: 0.533, New DP ppv: 0.615, New DP F-measure: 0.571, New DP Energy: -19.10 .........(((((((((((....))))...............))))))) New DP sens: 0.467, New DP ppv: 0.636, New DP F-measure: 0.538, New DP Energy: -18.12 ((((.....[[[[[[[((((....))))...))))........]]]]]]] New DP sens: 0.467, New DP ppv: 0.467, New DP F-measure: 0.467, New DP Energy: -18.02 ((((.....))))...((((....))))....(((((......))))).. New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -17.20 ((((((((........)))).)))).......((((.......))))... New DP sens: 0.533, New DP ppv: 0.667, New DP F-measure: 0.593, New DP Energy: -17.20 New DP F-measure-avg: 0.343, New DP F-measure-best: 0.593, New DP best-subopt: 7, New DP num-subopt: 7 > BaEV GGGCUCUGGAGCCCCCCCCGAGCCCCGGCUAACUCUAUCUGUAGGGGGGC ((((((.((.[[[[[[[))))))))..................]]]]]]] (((((....)))))(((((.(((....))).((.......)).))))).. (((((....)))))(((((.(((....))).((.......)).))))).. Energy of known structure: -19.03 Initial sens: 0.000, Initial ppv: 0.000, Initial F-measure: 0.000, Initial Energy: -20.80 New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -20.80 (((((....)))))(((((.(((....))).............))))).. New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -18.44 ((((((.((.......)).)))))).......(((((....))))).... New DP sens: 0.400, New DP ppv: 0.462, New DP F-measure: 0.429, New DP Energy: -17.60 ((((((.((......))..))))))..(((..(((((....))))).))) New DP sens: 0.400, New DP ppv: 0.375, New DP F-measure: 0.387, New DP Energy: -17.55 .((((....))))((((((.(((....))).............)))))). New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -17.54 (((((....)))))(((((.(((....)))..............))))). New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -17.47 ..........(((((((...(((....))).............))))))) New DP sens: 0.467, New DP ppv: 0.700, New DP F-measure: 0.560, New DP Energy: -17.30 ((((((....[[[[[[[..))))))..................]]]]]]] New DP sens: 0.867, New DP ppv: 1.000, New DP F-measure: 0.929, New DP Energy: -17.15 New DP F-measure-avg: 0.288, New DP F-measure-best: 0.929, New DP best-subopt: 7, New DP num-subopt: 7 > BLV GGGGGGACUUAGCGCCCCCCAAACCGU ((((((.....[[[))))))....]]] ((((((........))))))....... ((((((........))))))....... Energy of known structure: -8.36 Initial sens: 0.667, Initial ppv: 1.000, Initial F-measure: 0.800, Initial Energy: -13.90 New DP sens: 0.667, New DP ppv: 1.000, New DP F-measure: 0.800, New DP Energy: -13.90 .(((((.........)))))....... New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -10.00 New DP F-measure-avg: 0.400, New DP F-measure-best: 0.800, New DP best-subopt: 0, New DP num-subopt: 1 > Bp_PK2 CCGCUGCACUGAUCUGUCCUUGGGUCAGGCGGGGGAAGGCAACUUCCCAGGGGGCAACCCCGAACCGCAGCAGCGACAUUCACAAGGAAU .((((((..(((....[[[[[[..))).((((((((((....)))))).((((....))))...)))).)))))).......]]]]]].. .((((((.(((((((......)))))))((((((((((....)))))).((((....))))...)))).))))))............... .((((((.(((((((......)))))))((((((((((....)))))).((((....))))...)))).))))))............... Energy of known structure: -41.52 Initial sens: 0.793, Initial ppv: 0.852, Initial F-measure: 0.821, Initial Energy: -49.20 New DP sens: 0.793, New DP ppv: 0.852, New DP F-measure: 0.821, New DP Energy: -49.20 .((((((.(((((((......)))))))((((((((((....))))))..((((...))))...)))).))))))............... New DP sens: 0.655, New DP ppv: 0.704, New DP F-measure: 0.679, New DP Energy: -44.20 .((((((.(((((((......)))))))....((((((....)))))).((((....))))........))))))............... New DP sens: 0.655, New DP ppv: 0.826, New DP F-measure: 0.731, New DP Energy: -43.60 ..(((((.(((((((......)))))))....((((((....)))))).((((....)))).....)))))................... New DP sens: 0.448, New DP ppv: 0.591, New DP F-measure: 0.510, New DP Energy: -41.70 ...((((.(((((((......)))))))))))((((((....)))))).((((....))))....(((....)))............... New DP sens: 0.448, New DP ppv: 0.542, New DP F-measure: 0.491, New DP Energy: -40.30 New DP F-measure-avg: 0.646, New DP F-measure-best: 0.821, New DP best-subopt: 0, New DP num-subopt: 4 > BVDV_IRES GGGUAGCAACAGUGGUGAACAGCCUGAUAGGGUGCUGCAGAGGCCCACUGUAUUGCUACUAAAAAUCUCUGCU .((((((((((((((......((((....))))...[[[[[[[.)))))))..))))))).....]]]]]]]. .((((((((((((((......((((....))))...[[[[[[[.)))))))..))))))).....]]]]]]]. .((((((((((((((......((((....))))...[[[[[[[.)))))))..))))))).....]]]]]]]. Energy of known structure: -24.51 Initial sens: 1.000, Initial ppv: 1.000, Initial F-measure: 1.000, Initial Energy: -24.51 New DP sens: 1.000, New DP ppv: 1.000, New DP F-measure: 1.000, New DP Energy: -24.51 .((((((((((((((.(..((((((.....)).))))......))))))))..)))))))............. New DP sens: 0.560, New DP ppv: 0.667, New DP F-measure: 0.609, New DP Energy: -24.19 .((((((((((((((......((((....))))(((.....))))))))))..)))))))............. New DP sens: 0.720, New DP ppv: 0.857, New DP F-measure: 0.783, New DP Energy: -23.60 .((((((((((((((.(..((((((.....)).))))......)))))))..))))))))............. New DP sens: 0.520, New DP ppv: 0.619, New DP F-measure: 0.565, New DP Energy: -23.39 .((((((((((((((.(....((((....))))..........))))))))..)))))))............. New DP sens: 0.720, New DP ppv: 0.947, New DP F-measure: 0.818, New DP Energy: -22.24 .((((((((((((((......((((...............)))))))))))..)))))))............. New DP sens: 0.560, New DP ppv: 0.778, New DP F-measure: 0.651, New DP Energy: -22.15 .((((((((((((((....((((..........)))).......)))))))..)))))))............. New DP sens: 0.560, New DP ppv: 0.778, New DP F-measure: 0.651, New DP Energy: -21.74 New DP F-measure-avg: 0.725, New DP F-measure-best: 1.000, New DP best-subopt: 0, New DP num-subopt: 6 > BYDV-NY-RPV GGCGGCGGCGUCCGCCGUAACAAACGC (((((..[[[[))))).......]]]] .(((((((...)))))))......... .(((((((...)))))))......... Energy of known structure: -7.73 Initial sens: 0.000, Initial ppv: 0.000, Initial F-measure: 0.000, Initial Energy: -12.20 New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -12.20 (((((......)))))........... New DP sens: 0.556, New DP ppv: 1.000, New DP F-measure: 0.714, New DP Energy: -9.20 .((((((((....)))))......))) New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -8.90 ....(((((....)))))......... New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -8.60 New DP F-measure-avg: 0.179, New DP F-measure-best: 0.714, New DP best-subopt: 1, New DP num-subopt: 3 > Cas-Br-E-MuLv GGGUCAGGAGCCCCCCCCUGAACCCAGGAUAACCCUCAAAGUCGGGGGGC ((((((((.[[[[[[[)))).))))..................]]]]]]] ((((.....))))((((((((....(((.....))).....)))))))). ((((.....))))((((((((....(((.....))).....)))))))). Energy of known structure: -18.68 Initial sens: 0.000, Initial ppv: 0.000, Initial F-measure: 0.000, Initial Energy: -21.37 New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -21.37 ((((((((........)))).)))).......(((((......))))).. New DP sens: 0.533, New DP ppv: 0.615, New DP F-measure: 0.571, New DP Energy: -20.60 ((((((((........)))).)))).......(((((.......))))). New DP sens: 0.533, New DP ppv: 0.615, New DP F-measure: 0.571, New DP Energy: -19.10 .........(((((((((((....))))...............))))))) New DP sens: 0.467, New DP ppv: 0.636, New DP F-measure: 0.538, New DP Energy: -18.12 ((((.....[[[[[[[((((....))))...))))........]]]]]]] New DP sens: 0.467, New DP ppv: 0.467, New DP F-measure: 0.467, New DP Energy: -18.02 ((((.....))))...((((....))))....(((((......))))).. New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -17.20 ((((((((........)))).)))).......((((.......))))... New DP sens: 0.533, New DP ppv: 0.667, New DP F-measure: 0.593, New DP Energy: -17.20 New DP F-measure-avg: 0.392, New DP F-measure-best: 0.593, New DP best-subopt: 6, New DP num-subopt: 6 > CoxB3 ACCCUACUGUGCUAACCGAACCAGAUAACGGUACAGUAGGGGUAAAUUCUCCGCAUUCGGUGCGGAAAAAAAA .((((((((((((.[[[[[[.........)))))))))))).....((.(((((.]]]]]]))))).)).... .((((((((((((................))))))))))))........(((((((...)))))))....... .((((((((((((................))))))))))))........(((((((...)))))))....... Energy of known structure: -28.36 Initial sens: 0.680, Initial ppv: 0.895, Initial F-measure: 0.773, Initial Energy: -28.48 New DP sens: 0.680, New DP ppv: 0.895, New DP F-measure: 0.773, New DP Energy: -28.48 (((((((((((((................)))))))).)))))......(((((((...)))))))....... New DP sens: 0.520, New DP ppv: 0.650, New DP F-measure: 0.578, New DP Energy: -24.98 New DP F-measure-avg: 0.675, New DP F-measure-best: 0.773, New DP best-subopt: 0, New DP num-subopt: 1 > CSFV_IRES GACUAGCCGUAGUGGCGAACGACCUGAUAGGGUGCUGCAGAGGCCCACUAUUAGGCUAGUAUAAAAAUCUCUGCUG .((((((((((((((......((((....))))...[[[[[[[.)))))))..))))))).......]]]]]]].. .((((((((((((((......((((....))))...[[[[[[[.)))))))..))))))).......]]]]]]].. .((((((((((((((......((((....))))...[[[[[[[.)))))))..))))))).......]]]]]]].. Energy of known structure: -24.19 Initial sens: 1.000, Initial ppv: 1.000, Initial F-measure: 1.000, Initial Energy: -24.19 New DP sens: 1.000, New DP ppv: 1.000, New DP F-measure: 1.000, New DP Energy: -24.19 .((((((((((((((......((((....))))(((.....))))))))))..)))))))................ New DP sens: 0.720, New DP ppv: 0.857, New DP F-measure: 0.783, New DP Energy: -23.30 .((((((((((((((......((((....))))...........)))))))..)))))))................ New DP sens: 0.720, New DP ppv: 1.000, New DP F-measure: 0.837, New DP Energy: -20.63 .....((((...))))..((..((((((((((.(((.....))))).))))))))...))................ New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -20.50 .....(((.....)))......((((((((((.(((.....))))).))))))))..................... New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -20.20 .....((((...))))......((((((((((.(((.....))))).)))))))).(((((..........))))) New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -19.79 ...(((((((....))).((..((((((((((.(((.....))))).))))))))...))............)))) New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -18.90 New DP F-measure-avg: 0.374, New DP F-measure-best: 1.000, New DP best-subopt: 0, New DP num-subopt: 6 > EIAV GGGGCUCAAGGGAGGCCCCAGAAACAAACUUUCCC ((((((...[[[[))))))............]]]] (((((((....)).)))))................ (((((((....)).)))))................ Energy of known structure: -10.65 Initial sens: 0.500, Initial ppv: 0.714, Initial F-measure: 0.588, Initial Energy: -11.50 New DP sens: 0.500, New DP ppv: 0.714, New DP F-measure: 0.588, New DP Energy: -11.50 ((((((.......))))))................ New DP sens: 0.600, New DP ppv: 1.000, New DP F-measure: 0.750, New DP Energy: -11.40 (((((((....)).))))).((((.....)))).. New DP sens: 0.500, New DP ppv: 0.455, New DP F-measure: 0.476, New DP Energy: -11.10 ((((((.......)))))).((((.....)))).. New DP sens: 0.600, New DP ppv: 0.600, New DP F-measure: 0.600, New DP Energy: -11.00 (((.(((....))).)))................. New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -9.80 (((.(((....))).)))..((((.....)))).. New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -9.60 New DP F-measure-avg: 0.402, New DP F-measure-best: 0.750, New DP best-subopt: 1, New DP num-subopt: 5 > FeLV GGGCCAGGACCCCCCCCCCUGAGCCCAGGAUAACCUUAAGAAUAGGGGGG ((((((((...[[[[[[)))).))))..................]]]]]] (((......))).((((((((..(..(((....)))...)..)))))))) (((......))).((((((((..(..(((....)))...)..)))))))) Energy of known structure: -17.50 Initial sens: 0.000, Initial ppv: 0.000, Initial F-measure: 0.000, Initial Energy: -19.90 New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -19.90 ((((((((.........)))).)))).......(((((....)))))... New DP sens: 0.571, New DP ppv: 0.615, New DP F-measure: 0.593, New DP Energy: -17.60 ((((((((..[[[[[[.)))).))))(((....)))........]]]]]] New DP sens: 0.571, New DP ppv: 0.471, New DP F-measure: 0.516, New DP Energy: -17.20 ((((((((...[[[[[[)))).))))(((....)))........]]]]]] New DP sens: 1.000, New DP ppv: 0.824, New DP F-measure: 0.903, New DP Energy: -17.20 ((((((((.[[[[[[..)))).))))(((....)))........]]]]]] New DP sens: 0.571, New DP ppv: 0.471, New DP F-measure: 0.516, New DP Energy: -17.11 (((........)))(((((((..(..(((....)))...)..))))))). New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -16.50 New DP F-measure-avg: 0.421, New DP F-measure-best: 0.903, New DP best-subopt: 3, New DP num-subopt: 5 > FIV GGGGCGAGCUGCAGCCCCAGUGAAUCAAAUGCAGC [[[[[..((((((]]]]]...........)))))) (((((..[[[[[[)))))...........]]]]]] (((((..[[[[[[)))))...........]]]]]] Energy of known structure: -12.51 Initial sens: 1.000, Initial ppv: 1.000, Initial F-measure: 1.000, Initial Energy: -12.51 New DP sens: 1.000, New DP ppv: 1.000, New DP F-measure: 1.000, New DP Energy: -12.51 (((((........)))))................. New DP sens: 0.455, New DP ppv: 1.000, New DP F-measure: 0.625, New DP Energy: -11.60 New DP F-measure-avg: 0.812, New DP F-measure-best: 1.000, New DP best-subopt: 0, New DP num-subopt: 1 > HCV_229E CGGGGCUCUAGUGCCGCUCGACUAGAGCCCUGUAACAGUUAUGGACCACGAGCAGUCCAUG ((((((((((((...[[[[[)))))))))))).......(((((((..]]]]].))))))) ((((((((((((...[[[[[)))))))))))).......(((((((..]]]]].))))))) ((((((((((((...[[[[[)))))))))))).......(((((((..]]]]].))))))) Energy of known structure: -28.72 Initial sens: 1.000, Initial ppv: 1.000, Initial F-measure: 1.000, Initial Energy: -28.72 New DP sens: 1.000, New DP ppv: 1.000, New DP F-measure: 1.000, New DP Energy: -28.72 ((((((((((((........)))))))))))).......(((((((........))))))) New DP sens: 0.792, New DP ppv: 1.000, New DP F-measure: 0.884, New DP Energy: -28.50 New DP F-measure-avg: 0.942, New DP F-measure-best: 1.000, New DP best-subopt: 0, New DP num-subopt: 1 > HCV_Ires CCUCCCGGGAGAACUGCCUGAUAGGGUGCUUGCGAGUGCCCCGGGAGGUCUCGUAG (((((((((......(((......)))((.[[[[[[.))))))))))).]]]]]]. (((((((((.(.(((((((....)))).......))).))))))))))........ (((((((((.(.(((((((....)))).......))).))))))))))........ Energy of known structure: -19.98 Initial sens: 0.600, Initial ppv: 0.706, Initial F-measure: 0.649, Initial Energy: -24.29 New DP sens: 0.600, New DP ppv: 0.706, New DP F-measure: 0.649, New DP Energy: -24.29 (((((((((.......(((...)))(..((....))..))))))))))........ New DP sens: 0.450, New DP ppv: 0.600, New DP F-measure: 0.514, New DP Energy: -21.80 ........((((.((.((((...(((..((....))..))))))))).)))).... New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -20.35 (((((((((......((((....))))............)))))))))........ New DP sens: 0.600, New DP ppv: 0.923, New DP F-measure: 0.727, New DP Energy: -20.27 (((((((((......((((....))))..[[[[[[[...))))))))).]]]]]]] New DP sens: 0.900, New DP ppv: 0.900, New DP F-measure: 0.900, New DP Energy: -20.25 (((((((((.(.(((.(((...))).........))).))))))))))........ New DP sens: 0.450, New DP ppv: 0.562, New DP F-measure: 0.500, New DP Energy: -19.75 ........((((....((((...(((..((....))..)))))))...)))).... New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -19.59 New DP F-measure-avg: 0.470, New DP F-measure-best: 0.900, New DP best-subopt: 4, New DP num-subopt: 6 > HDV-It_g UGGCCGGCAUGGUCCCAGCCUCCUCGCUGGCGCCGGCUGGGCAACAUUCCGAGGGGACCGUCCCCUCGGUAAUGGCGAAUGGGACCCA .(((((((..[[[[[[[(((.[[.....))))))))))]]....(((((((((((((...))))))))).)))).....]]]]]]].. ((.(((((.((((.(((((......))))).))))))))).)).((((((((((((.....)))))))).)))).............. ((.(((((.((((.(((((......))))).))))))))).)).((((((((((((.....)))))))).)))).............. Energy of known structure: -47.24 Initial sens: 0.375, Initial ppv: 0.429, Initial F-measure: 0.400, Initial Energy: -46.15 New DP sens: 0.375, New DP ppv: 0.429, New DP F-measure: 0.400, New DP Energy: -46.15 ..........(((((((((((....((((....)))).))))..((((((((((((.....)))))))).)))).....))))))).. New DP sens: 0.594, New DP ppv: 0.704, New DP F-measure: 0.644, New DP Energy: -44.45 ((((((((..[[[[[[[(((........))))))))))).((..((((((((((((.....)))))))).))))))...]]]]]]].. New DP sens: 0.906, New DP ppv: 0.906, New DP F-measure: 0.906, New DP Energy: -43.39 ((.(((((.((((.(((((......))))).))))))))).)).....(((((((((...)))))))))................... New DP sens: 0.281, New DP ppv: 0.360, New DP F-measure: 0.316, New DP Energy: -42.55 ..((((((..[[[[[[[[[[[....)))))).......]]]]..((((((((((((.....)))))))).)))).....]]]]]]].. New DP sens: 0.594, New DP ppv: 0.655, New DP F-measure: 0.623, New DP Energy: -42.37 ((((((((..[[[[[[[(((........))))))))))).....((((((((((((.....)))))))).)))).....]]]]]]].. New DP sens: 0.906, New DP ppv: 0.967, New DP F-measure: 0.935, New DP Energy: -42.29 ((((((((......(((((......))))).)))))))).((..((((((((((((.....)))))))).))))))............ New DP sens: 0.594, New DP ppv: 0.704, New DP F-measure: 0.644, New DP Energy: -41.24 ((((((((......(((((......))))).)))))))).....((((((((((((.....)))))))).)))).............. New DP sens: 0.594, New DP ppv: 0.760, New DP F-measure: 0.667, New DP Energy: -40.74 ..........(((((((((((....((((....)))).))))......(((((((((...)))))))))..........))))))).. New DP sens: 0.500, New DP ppv: 0.667, New DP F-measure: 0.571, New DP Energy: -40.35 ..((((((......(((((......))))).))))))((((...((((((((((((.....)))))))).))))..........)))) New DP sens: 0.562, New DP ppv: 0.667, New DP F-measure: 0.610, New DP Energy: -40.31 ...(((((..(((.(((((......))))).))).)))))....((((((((((((.....)))))))).)))).............. New DP sens: 0.375, New DP ppv: 0.480, New DP F-measure: 0.421, New DP Energy: -39.95 ..((((((..[[[[[[[........))))))(((.....)))..((((((((((((.....)))))))).)))).....]]]]]]].. New DP sens: 0.594, New DP ppv: 0.679, New DP F-measure: 0.633, New DP Energy: -39.47 ...(((((..(((.(((((......))))).))).)))))((..((((((((((((.....)))))))).))))))............ New DP sens: 0.375, New DP ppv: 0.444, New DP F-measure: 0.407, New DP Energy: -39.15 ..........(((((((......((((((..(((.....)))......(((((((((...)))))))))...)))))).))))))).. New DP sens: 0.500, New DP ppv: 0.640, New DP F-measure: 0.561, New DP Energy: -38.94 ((((((((..[[[[[[[......[[[[[...))))))))(....)...(((((((((...)))))))))....]]]]].]]]]]]].. New DP sens: 0.719, New DP ppv: 0.767, New DP F-measure: 0.742, New DP Energy: -38.89 ...(((((..[[[[[[[(((........)))....)))))....((((((((((((.....)))))))).)))).....]]]]]]].. New DP sens: 0.688, New DP ppv: 0.815, New DP F-measure: 0.746, New DP Energy: -38.74 ...(((((..[[[[[[[(((........)))....)))))((..((((((((((((.....)))))))).))))))...]]]]]]].. New DP sens: 0.688, New DP ppv: 0.759, New DP F-measure: 0.721, New DP Energy: -38.54 ..........(((((((((......))...(((((....(....)...(((((((((...)))))))))...)))))..))))))).. New DP sens: 0.500, New DP ppv: 0.667, New DP F-measure: 0.571, New DP Energy: -38.50 ..........(((((((......((((((..(((.....)))..)...(((((((((...)))))))))....))))).))))))).. New DP sens: 0.500, New DP ppv: 0.640, New DP F-measure: 0.561, New DP Energy: -38.44 ..((((((..[[[[[[[[[[[....)))))).......]]]]......(((((((((...)))))))))..........]]]]]]].. New DP sens: 0.500, New DP ppv: 0.615, New DP F-measure: 0.552, New DP Energy: -38.27 New DP F-measure-avg: 0.612, New DP F-measure-best: 0.935, New DP best-subopt: 5, New DP num-subopt: 19 > HIV-1-RT-1-1 ucaagAAUUCCGUUUUCAGUCGGGAAAAACUGAACAa .......[[[[[..((((((]]]]]...))))))... .......(((((..[[[[[[)))))...]]]]]]... .......(((((..[[[[[[)))))...]]]]]]... Energy of known structure: -5.31 Initial sens: 1.000, Initial ppv: 1.000, Initial F-measure: 1.000, Initial Energy: -5.31 New DP sens: 1.000, New DP ppv: 1.000, New DP F-measure: 1.000, New DP Energy: -5.31 .......(((((........)))))............ New DP sens: 0.455, New DP ppv: 1.000, New DP F-measure: 0.625, New DP Energy: -5.00 (((....(((((........))))).....))).... New DP sens: 0.455, New DP ppv: 0.625, New DP F-measure: 0.526, New DP Energy: -4.97 ..............((((((........))))))... New DP sens: 0.545, New DP ppv: 1.000, New DP F-measure: 0.706, New DP Energy: -4.40 ....(((.......)))..((((......)))).... New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -3.80 .......((((...[[[[[[..))))..]]]]]]... New DP sens: 0.545, New DP ppv: 0.600, New DP F-measure: 0.571, New DP Energy: -3.53 .......(((..(((((......)))))...)))... New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -2.85 (((....((((...........))))....))).... New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -2.78 .......((((...........))))........... New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -2.19 .......(((.(((((.........))))).)))... New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -1.90 ............(((((......)))))......... New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -1.60 ....((([[[[[..)))...]]]]]............ New DP sens: 0.455, New DP ppv: 0.625, New DP F-measure: 0.526, New DP Energy: -1.49 .......(((..(((((.....)))))....)))... New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -1.45 ...(((((...)))))...((((......)))).... New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -1.30 New DP F-measure-avg: 0.282, New DP F-measure-best: 1.000, New DP best-subopt: 0, New DP num-subopt: 13 > HIV-1-RT-1-3a gAAUAUCUUCCGAAGCCGAACGGGAAAACCGGCaucu .......(((((..[[[[..)))))....]]]].... ...........((.((((...........)))).)). ...........((.((((...........)))).)). Energy of known structure: -6.11 Initial sens: 0.444, Initial ppv: 0.667, Initial F-measure: 0.533, Initial Energy: -6.64 New DP sens: 0.444, New DP ppv: 0.667, New DP F-measure: 0.533, New DP Energy: -6.64 .......(((((..[[[[..)))))....]]]].... New DP sens: 1.000, New DP ppv: 1.000, New DP F-measure: 1.000, New DP Energy: -6.11 ..............((((...........)))).... New DP sens: 0.444, New DP ppv: 1.000, New DP F-measure: 0.615, New DP Energy: -5.89 (((....))).((.((((...........)))).)). New DP sens: 0.444, New DP ppv: 0.444, New DP F-measure: 0.444, New DP Energy: -5.34 .......(((([[.[[[[....))))...]]]].]]. New DP sens: 0.444, New DP ppv: 0.400, New DP F-measure: 0.421, New DP Energy: -5.05 (((....)))....((((...........)))).... New DP sens: 0.444, New DP ppv: 0.571, New DP F-measure: 0.500, New DP Energy: -4.69 .......(((((........)))))............ New DP sens: 0.556, New DP ppv: 1.000, New DP F-measure: 0.714, New DP Energy: -4.40 .......((((...[[[[....))))...]]]].... New DP sens: 0.444, New DP ppv: 0.500, New DP F-measure: 0.471, New DP Energy: -4.33 ....................(((.....)))...... New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -4.30 .....((((..[[.[[[[...))))....]]]].]]. New DP sens: 0.444, New DP ppv: 0.400, New DP F-measure: 0.421, New DP Energy: -3.82 (((....)))..........(((.....)))...... New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -3.10 .....((((.....[[[[...))))....]]]].... New DP sens: 0.444, New DP ppv: 0.500, New DP F-measure: 0.471, New DP Energy: -3.00 New DP F-measure-avg: 0.466, New DP F-measure-best: 1.000, New DP best-subopt: 1, New DP num-subopt: 11 > HIV-1-RT-1-6 gAAGAAGAUUACCCAAGCGCAGGGGAGAAGCGCaucu ...........[[[..((((.]]].....)))).... ...........(((..[[[[.))).(((.]]]].))) ...........(((..[[[[.))).(((.]]]].))) Energy of known structure: -6.01 Initial sens: 1.000, Initial ppv: 0.700, Initial F-measure: 0.824, Initial Energy: -7.55 New DP sens: 1.000, New DP ppv: 0.700, New DP F-measure: 0.824, New DP Energy: -7.55 ...........(((..[[[[..)))(((.]]]].))) New DP sens: 0.571, New DP ppv: 0.400, New DP F-measure: 0.471, New DP Energy: -6.25 ................((((.........)))).... New DP sens: 0.571, New DP ppv: 1.000, New DP F-measure: 0.727, New DP Energy: -6.20 ...........(((..[[[[.))).....]]]].... New DP sens: 1.000, New DP ppv: 1.000, New DP F-measure: 1.000, New DP Energy: -6.01 ...........(((..[[[[..)))....]]]].... New DP sens: 0.571, New DP ppv: 0.571, New DP F-measure: 0.571, New DP Energy: -5.81 .....((((.......((((.........)))))))) New DP sens: 0.571, New DP ppv: 0.500, New DP F-measure: 0.533, New DP Energy: -4.64 ...........(((........)))............ New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -4.00 ...........(((.......)))............. New DP sens: 0.429, New DP ppv: 1.000, New DP F-measure: 0.600, New DP Energy: -4.00 ...........(((.......))).(((......))) New DP sens: 0.429, New DP ppv: 0.500, New DP F-measure: 0.462, New DP Energy: -2.90 .....((((..(((.......))).........)))) New DP sens: 0.429, New DP ppv: 0.429, New DP F-measure: 0.429, New DP Energy: -2.40 ..(((...........((((.........)))).))) New DP sens: 0.571, New DP ppv: 0.571, New DP F-measure: 0.571, New DP Energy: -2.21 New DP F-measure-avg: 0.563, New DP F-measure-best: 1.000, New DP best-subopt: 3, New DP num-subopt: 10 > HIV-1-RT-1-7 agGAAUCGACCCAAGCCAAAGGGGAUAAUGCGGCauc .........[[[..(((...]]]........)))... .((.......))..(((...(.(.....).))))... .((.......))..(((...(.(.....).))))... Energy of known structure: -3.44 Initial sens: 0.500, Initial ppv: 0.429, Initial F-measure: 0.462, Initial Energy: -4.75 New DP sens: 0.500, New DP ppv: 0.429, New DP F-measure: 0.462, New DP Energy: -4.75 .........(((........))).............. New DP sens: 0.500, New DP ppv: 1.000, New DP F-measure: 0.667, New DP Energy: -4.30 .((.......))..(((..............)))... New DP sens: 0.500, New DP ppv: 0.600, New DP F-measure: 0.545, New DP Energy: -4.03 ....(((..(((........))))))........... New DP sens: 0.500, New DP ppv: 0.500, New DP F-measure: 0.500, New DP Energy: -3.70 .........(((..[[[...)))(((.....]]]))) New DP sens: 1.000, New DP ppv: 0.667, New DP F-measure: 0.800, New DP Energy: -3.44 .........(((..[[[...)))........]]]... New DP sens: 1.000, New DP ppv: 1.000, New DP F-measure: 1.000, New DP Energy: -3.44 .........(((..[[[....))).......]]]... New DP sens: 0.500, New DP ppv: 0.500, New DP F-measure: 0.500, New DP Energy: -3.24 .........(((.........)))............. New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -3.20 ....(((..(((..[[[...)))))).....]]]... New DP sens: 1.000, New DP ppv: 0.667, New DP F-measure: 0.800, New DP Energy: -3.02 .........(((........)))....(((...))). New DP sens: 0.500, New DP ppv: 0.500, New DP F-measure: 0.500, New DP Energy: -1.70 .....(((.(((........))).......))).... New DP sens: 0.500, New DP ppv: 0.500, New DP F-measure: 0.500, New DP Energy: -1.39 .........(((........)))(((........))) New DP sens: 0.500, New DP ppv: 0.500, New DP F-measure: 0.500, New DP Energy: -1.20 .....(((.(((.........)))......))).... New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -1.14 ....(((..(((........)))))).(((...))). New DP sens: 0.500, New DP ppv: 0.333, New DP F-measure: 0.400, New DP Energy: -0.80 New DP F-measure-avg: 0.512, New DP F-measure-best: 1.000, New DP best-subopt: 5, New DP num-subopt: 13 > HIV-1-RT-1-8 ucaagGAUUAACCGACGCCAACGGGAGAAUGGCAGGGau ...........[[[..((((.]]].....))))...... ...........((...((((.(....)..))))..)).. ...........((...((((.(....)..))))..)).. Energy of known structure: -4.83 Initial sens: 0.571, Initial ppv: 0.571, Initial F-measure: 0.571, Initial Energy: -6.36 New DP sens: 0.571, New DP ppv: 0.571, New DP F-measure: 0.571, New DP Energy: -6.36 ....((.....))...((((.........))))...... New DP sens: 0.571, New DP ppv: 0.667, New DP F-measure: 0.615, New DP Energy: -5.20 ...........(((..[[[[.))).....]]]]...... New DP sens: 1.000, New DP ppv: 1.000, New DP F-measure: 1.000, New DP Energy: -4.83 ...........(((.......)))............... New DP sens: 0.429, New DP ppv: 1.000, New DP F-measure: 0.600, New DP Energy: -2.70 New DP F-measure-avg: 0.697, New DP F-measure-best: 1.000, New DP best-subopt: 2, New DP num-subopt: 3 > HIV-1-RT-1-9b gAGAGUAUCAUCCGUGCCGGCGGGAUAUCGGCGaucu ..........[[[[((((((]]]]...)))))).... ((..((....(((((....)))))......))..)). ((..((....(((((....)))))......))..)). Energy of known structure: -6.54 Initial sens: 0.400, Initial ppv: 0.444, Initial F-measure: 0.421, Initial Energy: -6.95 New DP sens: 0.400, New DP ppv: 0.444, New DP F-measure: 0.421, New DP Energy: -6.95 ..............((((((.......)))))).... New DP sens: 0.600, New DP ppv: 1.000, New DP F-measure: 0.750, New DP Energy: -6.70 ....(((((..((((....)))))))))......... New DP sens: 0.300, New DP ppv: 0.333, New DP F-measure: 0.316, New DP Energy: -6.20 .((((((((..((((....)))))))))......))) New DP sens: 0.300, New DP ppv: 0.250, New DP F-measure: 0.273, New DP Energy: -5.30 .........((((.[[[[[[..)))).]]]]]].... New DP sens: 0.600, New DP ppv: 0.600, New DP F-measure: 0.600, New DP Energy: -5.10 ..........(((((....)))))............. New DP sens: 0.400, New DP ppv: 0.800, New DP F-measure: 0.533, New DP Energy: -5.00 ....(((((..(((...)))...)))))......... New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -4.90 .........(((...(((((.......)))))))).. New DP sens: 0.500, New DP ppv: 0.625, New DP F-measure: 0.556, New DP Energy: -4.80 ......(((..(((..((....))....))).))).. New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -4.80 ....((((.....))))((.(((....))).)).... New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -4.40 ...........(((..((....))....)))...... New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -4.30 .(((.......(((..((....))....)))...))) New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -4.10 .((((((((..(((...)))...)))))......))) New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -4.00 ..............((((((..[[[[.))))))]]]] New DP sens: 0.600, New DP ppv: 0.600, New DP F-measure: 0.600, New DP Energy: -3.91 .(((..........((((((.......)))))).))) New DP sens: 0.600, New DP ppv: 0.667, New DP F-measure: 0.632, New DP Energy: -3.65 .(((......(((((....)))))..........))) New DP sens: 0.400, New DP ppv: 0.500, New DP F-measure: 0.444, New DP Energy: -3.55 .(((((((.....))))((.(((....))).)).))) New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -3.50 New DP F-measure-avg: 0.301, New DP F-measure-best: 0.750, New DP best-subopt: 1, New DP num-subopt: 16 > HIV-1-RT-2-10 agUAAAUGAGUCCGUAGGAGGCGGGAUAUCUCCaAcu ..........[[[[..(((((]]]]...))))).... .............((.(((((.......))))).)). .............((.(((((.......))))).)). Energy of known structure: -5.60 Initial sens: 0.556, Initial ppv: 0.714, Initial F-measure: 0.625, Initial Energy: -5.95 New DP sens: 0.556, New DP ppv: 0.714, New DP F-measure: 0.625, New DP Energy: -5.95 .......((((((((.....)))))....)))..... New DP sens: 0.444, New DP ppv: 0.500, New DP F-measure: 0.471, New DP Energy: -5.90 ................(((((.......))))).... New DP sens: 0.556, New DP ppv: 1.000, New DP F-measure: 0.714, New DP Energy: -5.40 .........(((([[.[[[[[..)))).]]]]].]]. New DP sens: 0.556, New DP ppv: 0.455, New DP F-measure: 0.500, New DP Energy: -5.27 (((....((((((((.....)))))....)))..))) New DP sens: 0.444, New DP ppv: 0.364, New DP F-measure: 0.400, New DP Energy: -5.25 ..........(((((.....)))))............ New DP sens: 0.444, New DP ppv: 0.800, New DP F-measure: 0.571, New DP Energy: -5.20 .........((((...[[[[[..)))).]]]]].... New DP sens: 0.556, New DP ppv: 0.556, New DP F-measure: 0.556, New DP Energy: -4.71 (((.......(((((.....))))).........))) New DP sens: 0.444, New DP ppv: 0.500, New DP F-measure: 0.471, New DP Energy: -4.25 ..........(((...)))...(((.....))).... New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -4.20 ...........((......)).(((.....))).... New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -4.20 (((.......(((...)))...(((.....))).))) New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -3.60 (((........((......)).(((.....))).))) New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -3.60 ........(((((......)).(((.....))).))) New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -3.20 .........(((.......))).(((....))).... New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -3.10 ........(((.....(((((.......))))).))) New DP sens: 0.556, New DP ppv: 0.625, New DP F-measure: 0.588, New DP Energy: -3.05 .........(((.......)))(((.....))).... New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -2.90 .........((((..........)))).......... New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -2.69 ..........(((...)))....(((....))).... New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -2.60 (((......(((.......))).(((....))).))) New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -2.50 (((......(((.......)))(((.....))).))) New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -2.30 New DP F-measure-avg: 0.245, New DP F-measure-best: 0.714, New DP best-subopt: 2, New DP num-subopt: 19 > HIV-1-RT-2-11 gUCAUAUUACCGUUACUCCUCGGGAUAAAGGAGaucu .........[[[...(((((]]].....))))).... ...............(((((........))))).... ...............(((((........))))).... Energy of known structure: -5.55 Initial sens: 0.625, Initial ppv: 1.000, Initial F-measure: 0.769, Initial Energy: -6.10 New DP sens: 0.625, New DP ppv: 1.000, New DP F-measure: 0.769, New DP Energy: -6.10 .........(((...[[[[[))).....]]]]].... New DP sens: 1.000, New DP ppv: 1.000, New DP F-measure: 1.000, New DP Energy: -5.55 ....((((.(((...[[[[[))))))).]]]]].... New DP sens: 1.000, New DP ppv: 0.667, New DP F-measure: 0.800, New DP Energy: -5.11 (((......(((...[[[[[))))))..]]]]].... New DP sens: 1.000, New DP ppv: 0.727, New DP F-measure: 0.842, New DP Energy: -3.75 ....((((.(((........))))))).......... New DP sens: 0.375, New DP ppv: 0.429, New DP F-measure: 0.400, New DP Energy: -3.60 .........(((........))).............. New DP sens: 0.375, New DP ppv: 1.000, New DP F-measure: 0.545, New DP Energy: -3.40 ...............(((((..[[[[..)))))]]]] New DP sens: 0.625, New DP ppv: 0.556, New DP F-measure: 0.588, New DP Energy: -2.87 New DP F-measure-avg: 0.706, New DP F-measure-best: 1.000, New DP best-subopt: 1, New DP num-subopt: 6 > HIV-1-RT-2-12 ucaagAAUAAUCCGACUCGCGGGAUAACGAGAAGaGc ..........[[[[.((((]]]]....))))...... ...............((((........))))...... ...............((((........))))...... Energy of known structure: -2.90 Initial sens: 0.500, Initial ppv: 1.000, Initial F-measure: 0.667, Initial Energy: -4.00 New DP sens: 0.500, New DP ppv: 1.000, New DP F-measure: 0.667, New DP Energy: -4.00 ..........((((.....)))).............. New DP sens: 0.500, New DP ppv: 1.000, New DP F-measure: 0.667, New DP Energy: -3.50 .........((((........))))............ New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -3.30 ..........((((.[[[[))))....]]]]...... New DP sens: 1.000, New DP ppv: 1.000, New DP F-measure: 1.000, New DP Energy: -2.90 .........((((..[[[[..))))..]]]]...... New DP sens: 0.500, New DP ppv: 0.500, New DP F-measure: 0.500, New DP Energy: -2.87 ...............(((.((......))....))). New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -1.50 New DP F-measure-avg: 0.472, New DP F-measure-best: 1.000, New DP best-subopt: 3, New DP num-subopt: 5 > HIV-1-RT-2-1b caagAAUAUAUCCGAACUCGACGGGAUAACGAGAAGaGc ..........[[[[..((((.]]]]....))))...... ........(((((..........)))))........... ........(((((..........)))))........... Energy of known structure: -3.20 Initial sens: 0.000, Initial ppv: 0.000, Initial F-measure: 0.000, Initial Energy: -3.79 New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -3.79 ..........((((..[[[[.))))....]]]]...... New DP sens: 1.000, New DP ppv: 1.000, New DP F-measure: 1.000, New DP Energy: -3.20 ................((((.........))))...... New DP sens: 0.500, New DP ppv: 1.000, New DP F-measure: 0.667, New DP Energy: -3.20 ........(((((...[[[[...))))).]]]]...... New DP sens: 0.500, New DP ppv: 0.444, New DP F-measure: 0.471, New DP Energy: -3.15 ..........((((.......)))).............. New DP sens: 0.500, New DP ppv: 1.000, New DP F-measure: 0.667, New DP Energy: -3.00 ................(((..((......))....))). New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -2.90 ........(((((...[[[....))))).......]]]. New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -0.56 ..........((((..[[[..))))..........]]]. New DP sens: 0.500, New DP ppv: 0.571, New DP F-measure: 0.533, New DP Energy: 0.19 New DP F-measure-avg: 0.417, New DP F-measure-best: 1.000, New DP best-subopt: 1, New DP num-subopt: 7 > HIV-1-RT-2-2b gacaaucaagUACCUAGGUGAUAAAAGGGAGAACACGUGUGa ............[[[..(((.....]]].....)))...... .(((........(((..........))).........))).. .(((........(((..........))).........))).. Energy of known structure: -0.35 Initial sens: 0.500, Initial ppv: 0.500, Initial F-measure: 0.500, Initial Energy: -2.22 New DP sens: 0.500, New DP ppv: 0.500, New DP F-measure: 0.500, New DP Energy: -2.22 .(((........(((...........)))........))).. New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -1.59 ............(((..........))).............. New DP sens: 0.500, New DP ppv: 1.000, New DP F-measure: 0.667, New DP Energy: -1.19 ..........(((....)))...................... New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -1.00 ............(((...........)))............. New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -0.89 ....((((....[[[...))))...]]].............. New DP sens: 0.500, New DP ppv: 0.429, New DP F-measure: 0.462, New DP Energy: -0.43 ............(((..[[[.....))).....]]]...... New DP sens: 1.000, New DP ppv: 1.000, New DP F-measure: 1.000, New DP Energy: -0.35 .................(((.............)))...... New DP sens: 0.500, New DP ppv: 1.000, New DP F-measure: 0.667, New DP Energy: -0.31 ............(((..[[[......)))....]]]...... New DP sens: 0.500, New DP ppv: 0.500, New DP F-measure: 0.500, New DP Energy: -0.15 ....((((....[[[...))))....]]]............. New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -0.13 ....((((..........)))).................... New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: 0.11 .(((......(((....))).................))).. New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: 0.14 .....(((..(((....)))...................))) New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: 0.65 ..........(((....(((.............)))..))). New DP sens: 0.500, New DP ppv: 0.500, New DP F-measure: 0.500, New DP Energy: 0.69 .....(((....(((..........)))...........))) New DP sens: 0.500, New DP ppv: 0.500, New DP F-measure: 0.500, New DP Energy: 0.74 New DP F-measure-avg: 0.320, New DP F-measure-best: 1.000, New DP best-subopt: 6, New DP num-subopt: 14 > HIV-1-RT-2-3a gUUAAACAUAAUCCGUGAUCUUUCACACGGGAGaucuaugaaaga ...........[[[[[[.(((((((]]]]]].......))))))) .............((((((((..(....)..))))).)))..... .............((((((((..(....)..))))).)))..... Energy of known structure: -7.81 Initial sens: 0.000, Initial ppv: 0.000, Initial F-measure: 0.000, Initial Energy: -9.69 New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -9.69 ................((((((((....))))))))......... New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -8.40 ......((((......((((((((....))))))))))))..... New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -8.40 ...........((((((.[[[[[[[)))))).......]]]]]]] New DP sens: 1.000, New DP ppv: 1.000, New DP F-measure: 1.000, New DP Energy: -7.81 ......((((.((((((........)))))).....))))..... New DP sens: 0.462, New DP ppv: 0.600, New DP F-measure: 0.522, New DP Energy: -7.80 ...........((((((........)))))).............. New DP sens: 0.462, New DP ppv: 1.000, New DP F-measure: 0.632, New DP Energy: -7.60 ((((....)))).((((((((..(....)..))))).)))..... New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -7.49 .............((((((((..(....)..)))).))))..... New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -7.49 ...........((((((........))))))...(((.....))) New DP sens: 0.462, New DP ppv: 0.667, New DP F-measure: 0.545, New DP Energy: -6.80 ((((....))))....((((((((....))))))))......... New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -6.30 ......((((.(((((((....))))...)))....))))..... New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -6.20 ......(((.....))).(((((((...(((...))).))))))) New DP sens: 0.538, New DP ppv: 0.538, New DP F-measure: 0.538, New DP Energy: -5.70 New DP F-measure-avg: 0.270, New DP F-measure-best: 1.000, New DP best-subopt: 3, New DP num-subopt: 11 > HIV-1-RT-2-4a agUAGAUAUCCGAAGCUCAACGGGAUAAUGAGCaucu ........[[[[..(((((.]]]]....))))).... ......((((([[.[[[[[...))))).]]]]].]]. ......((((([[.[[[[[...))))).]]]]].]]. Energy of known structure: -6.08 Initial sens: 0.556, Initial ppv: 0.417, Initial F-measure: 0.476, Initial Energy: -6.74 New DP sens: 0.556, New DP ppv: 0.417, New DP F-measure: 0.476, New DP Energy: -6.74 ...........((.(((((.........))))).)). New DP sens: 0.556, New DP ppv: 0.714, New DP F-measure: 0.625, New DP Energy: -6.55 ........((((..[[[[[.))))....]]]]].... New DP sens: 1.000, New DP ppv: 1.000, New DP F-measure: 1.000, New DP Energy: -6.08 ......(((((...[[[[[...))))).]]]]].... New DP sens: 0.556, New DP ppv: 0.500, New DP F-measure: 0.526, New DP Energy: -6.02 ..............(((((.........))))).... New DP sens: 0.556, New DP ppv: 1.000, New DP F-measure: 0.714, New DP Energy: -5.80 ...((((.......(((((.........))))))))) New DP sens: 0.556, New DP ppv: 0.556, New DP F-measure: 0.556, New DP Energy: -4.04 ......(((((...........))))).......... New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -3.69 ........((((........))))............. New DP sens: 0.444, New DP ppv: 1.000, New DP F-measure: 0.615, New DP Energy: -3.30 New DP F-measure-avg: 0.564, New DP F-measure-best: 1.000, New DP best-subopt: 2, New DP num-subopt: 7 > HIV-1-RT-2-5a ucaagAUAGUAUCCGUUCUUGAUCAUCGGGACAAAUGaucu ...........[[[[.....((((((]]]]....)))))). ..............(((((.[[[[[[.)))))..]]]]]]. ..............(((((.[[[[[[.)))))..]]]]]]. Energy of known structure: -4.43 Initial sens: 0.600, Initial ppv: 0.545, Initial F-measure: 0.571, Initial Energy: -6.05 New DP sens: 0.600, New DP ppv: 0.545, New DP F-measure: 0.571, New DP Energy: -6.05 ((((((.....[[[..))))))..((((]]]....)))).. New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -5.62 ....................((((((........)))))). New DP sens: 0.600, New DP ppv: 1.000, New DP F-measure: 0.750, New DP Energy: -4.90 ...........((((.....[[[[[[))))....]]]]]]. New DP sens: 1.000, New DP ppv: 1.000, New DP F-measure: 1.000, New DP Energy: -4.43 ((((((..........))))))((((........))))... New DP sens: 0.400, New DP ppv: 0.400, New DP F-measure: 0.400, New DP Energy: -4.29 ....(((...))).(((((.[[[[[[.)))))..]]]]]]. New DP sens: 0.600, New DP ppv: 0.429, New DP F-measure: 0.500, New DP Energy: -4.25 ((((((..........))))))..((((.......)))).. New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -4.19 ((((((..........)))))).....(((........))) New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -4.19 ((((((.....[[[[.))))))....]]]]........... New DP sens: 0.400, New DP ppv: 0.400, New DP F-measure: 0.400, New DP Energy: -3.89 ...((((.......(((((........))))).....)))) New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -3.71 ..............(((((........)))))......... New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -3.40 ...((((.........((((((...))))))......)))) New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -3.32 ....(((...))).......((((((........)))))). New DP sens: 0.600, New DP ppv: 0.667, New DP F-measure: 0.632, New DP Energy: -3.20 ((((((..........))))))......(((.......))) New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -3.19 ...((((....((((...........)))).......)))) New DP sens: 0.400, New DP ppv: 0.500, New DP F-measure: 0.444, New DP Energy: -3.14 ................((((((...)))))).......... New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -2.70 ...........((((...........))))........... New DP sens: 0.400, New DP ppv: 1.000, New DP F-measure: 0.571, New DP Energy: -2.69 ...........(((......[[[[[[..)))...]]]]]]. New DP sens: 0.600, New DP ppv: 0.667, New DP F-measure: 0.632, New DP Energy: -2.68 ...((((.((.((((...........)))))).....)))) New DP sens: 0.400, New DP ppv: 0.400, New DP F-measure: 0.400, New DP Energy: -2.54 (((.....((.((((...........))))))...)))... New DP sens: 0.400, New DP ppv: 0.444, New DP F-measure: 0.421, New DP Energy: -2.43 New DP F-measure-avg: 0.336, New DP F-measure-best: 1.000, New DP best-subopt: 3, New DP num-subopt: 19 > HIV-1-RT-2-6b agUGAAACUUAACCGUUAUCAUAGAUCGGGACAAaucuauga ............[[[...((((((((]]].....)))))))) ..................((((((((........)))))))) ..................((((((((........)))))))) Energy of known structure: -5.91 Initial sens: 0.727, Initial ppv: 1.000, Initial F-measure: 0.842, Initial Energy: -6.90 New DP sens: 0.727, New DP ppv: 1.000, New DP F-measure: 0.842, New DP Energy: -6.90 .....(((......))).((((((((........)))))))) New DP sens: 0.727, New DP ppv: 0.727, New DP F-measure: 0.727, New DP Energy: -6.20 ............(((...[[[[[[[[))).....]]]]]]]] New DP sens: 1.000, New DP ppv: 1.000, New DP F-measure: 1.000, New DP Energy: -5.91 (((...))).........((((((((........)))))))) New DP sens: 0.727, New DP ppv: 0.727, New DP F-measure: 0.727, New DP Energy: -4.60 ..............(((.[[[[[[[[...)))..]]]]]]]] New DP sens: 0.727, New DP ppv: 0.727, New DP F-measure: 0.727, New DP Energy: -3.98 (((...)))...(((...[[[[[[[[))).....]]]]]]]] New DP sens: 1.000, New DP ppv: 0.786, New DP F-measure: 0.880, New DP Energy: -3.61 .((((..........))))(((((((........))))))). New DP sens: 0.636, New DP ppv: 0.636, New DP F-measure: 0.636, New DP Energy: -3.09 New DP F-measure-avg: 0.791, New DP F-measure-best: 1.000, New DP best-subopt: 2, New DP num-subopt: 6 > HIV-1-RT-2-7a agAUAUGAUCCGUAAGAGGACGGGAUAAACCUCAac ........[[[[...((((.]]]].....))))... ........(((((..[[[[))))).....]]]]... ........(((((..[[[[))))).....]]]]... Energy of known structure: -4.05 Initial sens: 1.000, Initial ppv: 0.889, Initial F-measure: 0.941, Initial Energy: -6.08 New DP sens: 1.000, New DP ppv: 0.889, New DP F-measure: 0.941, New DP Energy: -6.08 ........(((((......)))))............ New DP sens: 0.500, New DP ppv: 0.800, New DP F-measure: 0.615, New DP Energy: -5.20 ........(((......))).((......))..... New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -4.30 ...............((((..........))))... New DP sens: 0.500, New DP ppv: 1.000, New DP F-measure: 0.667, New DP Energy: -4.29 ........(((......))).(((......)))... New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -4.20 .....((((((((......))))).......))).. New DP sens: 0.500, New DP ppv: 0.500, New DP F-measure: 0.500, New DP Energy: -4.14 .......((((....[[[[...))))...]]]]... New DP sens: 0.500, New DP ppv: 0.500, New DP F-measure: 0.500, New DP Energy: -3.62 ........(((......))).(((.....))).... New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -3.30 ...((((...)))).((((..........))))... New DP sens: 0.500, New DP ppv: 0.500, New DP F-measure: 0.500, New DP Energy: -3.09 .....((((((......))).((......))))).. New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -2.80 .(((...))).....((((..........))))... New DP sens: 0.500, New DP ppv: 0.571, New DP F-measure: 0.533, New DP Energy: -2.59 .......((((...........)))).......... New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -2.39 New DP F-measure-avg: 0.355, New DP F-measure-best: 0.941, New DP best-subopt: 0, New DP num-subopt: 11 > HIV-1-RT-2-9 ucaagGUUUCCGAAAGAAAUCGGGAAAACUGucu .......(((((..[[[...)))))......]]] .((...(((((((......)))))))...))... .((...(((((((......)))))))...))... Energy of known structure: 0.11 Initial sens: 0.625, Initial ppv: 0.556, Initial F-measure: 0.588, Initial Energy: -7.30 New DP sens: 0.625, New DP ppv: 0.556, New DP F-measure: 0.588, New DP Energy: -7.30 ......(((((((......)))))))........ New DP sens: 0.625, New DP ppv: 0.714, New DP F-measure: 0.667, New DP Energy: -7.20 ....(((((((((......))))..))))).... New DP sens: 0.375, New DP ppv: 0.333, New DP F-measure: 0.353, New DP Energy: -6.30 ...((((((((((......))))))).....))) New DP sens: 0.625, New DP ppv: 0.500, New DP F-measure: 0.556, New DP Energy: -5.10 ....((((((.....))))))............. New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -4.40 ....(((((.(....)))))).(((......))) New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -3.70 New DP F-measure-avg: 0.361, New DP F-measure-best: 0.667, New DP best-subopt: 1, New DP num-subopt: 5 > Hs_SRP_pkn GCCGGGCGCGGUGGCGCGUGCCUGUAGUCCCAGCUACUCGGGAGGCU (((.((((((.[[[[.)))))).....((((.]]]]...))))))). (((.((((((......)))))).....((((........))))))). (((.((((((......)))))).....((((........))))))). Energy of known structure: -11.55 Initial sens: 0.765, Initial ppv: 1.000, Initial F-measure: 0.867, Initial Energy: -19.80 New DP sens: 0.765, New DP ppv: 1.000, New DP F-measure: 0.867, New DP Energy: -19.80 ..((((((((......))))))))...((((........)))).... New DP sens: 0.588, New DP ppv: 0.833, New DP F-measure: 0.690, New DP Energy: -18.60 (((..((((....))))...((((((((....)))))..))).))). New DP sens: 0.176, New DP ppv: 0.200, New DP F-measure: 0.188, New DP Energy: -18.00 (((..(((((....))))).((((((((....)))))..))).))). New DP sens: 0.176, New DP ppv: 0.188, New DP F-measure: 0.182, New DP Energy: -18.00 ((((((((((......)))))))(((((....)))))......))). New DP sens: 0.529, New DP ppv: 0.600, New DP F-measure: 0.562, New DP Energy: -18.00 (((..((((....))))...((((((((....))))..)))).))). New DP sens: 0.176, New DP ppv: 0.200, New DP F-measure: 0.188, New DP Energy: -17.20 (((..(((((....))))).((((((((....))))..)))).))). New DP sens: 0.176, New DP ppv: 0.188, New DP F-measure: 0.182, New DP Energy: -17.20 (((..(((((....)))))........((((........))))))). New DP sens: 0.412, New DP ppv: 0.583, New DP F-measure: 0.483, New DP Energy: -16.70 ....((((((......)))))).((..((((........)))).)). New DP sens: 0.588, New DP ppv: 0.833, New DP F-measure: 0.690, New DP Energy: -16.50 (((..((((....))))..........((((........))))))). New DP sens: 0.412, New DP ppv: 0.636, New DP F-measure: 0.500, New DP Energy: -16.50 (((..(((((....)))))....(((((....)))))......))). New DP sens: 0.176, New DP ppv: 0.231, New DP F-measure: 0.200, New DP Energy: -16.20 (((..((((....))))......(((((....)))))......))). New DP sens: 0.176, New DP ppv: 0.250, New DP F-measure: 0.207, New DP Energy: -16.00 New DP F-measure-avg: 0.411, New DP F-measure-best: 0.867, New DP best-subopt: 0, New DP num-subopt: 11 > MMTVgag-pro GGGGCAGUCCCCUAGCCCCGCUCAAAAGGGGGAU [[[[[.(((((((.]]]]]........))))))) (((((.[[[[[[[.)))))........]]]]]]] (((((.[[[[[[[.)))))........]]]]]]] Energy of known structure: -14.35 Initial sens: 1.000, Initial ppv: 1.000, Initial F-measure: 1.000, Initial Energy: -14.35 New DP sens: 1.000, New DP ppv: 1.000, New DP F-measure: 1.000, New DP Energy: -14.35 ((((....))))...((((........))))... New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -14.00 (((((..[[[[[[.))))).......]]]]]].. New DP sens: 0.417, New DP ppv: 0.455, New DP F-measure: 0.435, New DP Energy: -13.44 ((((...))))....((((........))))... New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -12.90 ((((....))))...((((.........)))).. New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -12.40 ((((.....))))..((((........))))... New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -12.00 ((((...))))....((((.........)))).. New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -11.30 (((((.........))))).(((....))).... New DP sens: 0.417, New DP ppv: 0.625, New DP F-measure: 0.500, New DP Energy: -10.90 (((....))).....((((........))))... New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -10.50 ((((.....))))..((((.........)))).. New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -10.40 New DP F-measure-avg: 0.193, New DP F-measure-best: 1.000, New DP best-subopt: 0, New DP num-subopt: 9 > Ni_VS GGGCGUCGUCGCCCCGAGUCGUAGCAGUUGACUACUGUUAUG ((((...[[[)))).....(((((((((.]]].))))))))) (((((....))))).....(((((((((.....))))))))) (((((....))))).....(((((((((.....))))))))) Energy of known structure: -13.21 Initial sens: 0.812, Initial ppv: 0.929, Initial F-measure: 0.867, Initial Energy: -18.00 New DP sens: 0.812, New DP ppv: 0.929, New DP F-measure: 0.867, New DP Energy: -18.00 New DP F-measure-avg: 0.867, New DP F-measure-best: 0.867, New DP best-subopt: 0, New DP num-subopt: 0 > PEMV UUCCGGUCGACUCCGGAGAAACAAAGUC ((((((..[[[[))))))......]]]] ((((((......)))))).......... ((((((......)))))).......... Energy of known structure: -5.12 Initial sens: 0.600, Initial ppv: 1.000, Initial F-measure: 0.750, Initial Energy: -8.40 New DP sens: 0.600, New DP ppv: 1.000, New DP F-measure: 0.750, New DP Energy: -8.40 ((((((..[[[[))))))......]]]] New DP sens: 1.000, New DP ppv: 1.000, New DP F-measure: 1.000, New DP Energy: -5.12 New DP F-measure-avg: 0.875, New DP F-measure-best: 1.000, New DP best-subopt: 1, New DP num-subopt: 1 > PLRV-S GCGGCACCGUCCGCCAAAACAAACGG [[[[..((((]]]]........)))) ((((......))))............ ((((......))))............ Energy of known structure: -4.41 Initial sens: 0.500, Initial ppv: 1.000, Initial F-measure: 0.667, Initial Energy: -5.00 New DP sens: 0.500, New DP ppv: 1.000, New DP F-measure: 0.667, New DP Energy: -5.00 ((((..[[[[))))........]]]] New DP sens: 1.000, New DP ppv: 1.000, New DP F-measure: 1.000, New DP Energy: -4.41 ..(((.......)))........... New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -4.10 ..(((.[[[[..))).......]]]] New DP sens: 0.500, New DP ppv: 0.571, New DP F-measure: 0.533, New DP Energy: -2.92 (((....)))(((..........))) New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -1.99 ......((((............)))) New DP sens: 0.500, New DP ppv: 1.000, New DP F-measure: 0.667, New DP Energy: -1.89 New DP F-measure-avg: 0.478, New DP F-measure-best: 1.000, New DP best-subopt: 1, New DP num-subopt: 5 > PRRSV-16244B GCCGCCAGCGGCUUGACCCGCUGUGGUCGCGGCGGCUUGGUUGUUACUGAGACAGCGG ((((((.((((((....[[[[[[[))))))))))))...............]]]]]]] ((((((.((((((...........))))))))))))...((((((.....)))))).. ((((((.((((((...........))))))))))))...((((((.....)))))).. Energy of known structure: -24.09 Initial sens: 0.632, Initial ppv: 0.667, Initial F-measure: 0.649, Initial Energy: -26.99 New DP sens: 0.632, New DP ppv: 0.667, New DP F-measure: 0.649, New DP Energy: -26.99 ((((((.((((((....[[[[[[[))))))))))))(..((....))..).]]]]]]] New DP sens: 1.000, New DP ppv: 0.864, New DP F-measure: 0.927, New DP Energy: -24.64 ((((....)))).....((((((((((.(((((......))))).)))...))))))) New DP sens: 0.368, New DP ppv: 0.368, New DP F-measure: 0.368, New DP Energy: -24.20 (((((((((((......)))))).....)))))......((((((.....)))))).. New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -24.10 .((((((((((......))))))..(((.(((..((......))..))).))).)))) New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -23.85 ((((....))))..((.(((((((....))))))).)).((((((.....)))))).. New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -23.65 ((((....)))).....(((((((....)))))))....((((((.....)))))).. New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -23.60 (((((.(((((......))))))))))(((.....((..((....))..))...))). New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -23.04 (((((((((((......)))))).....)))))..((((((....))))))....... New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -22.70 (((((..(((((.......)))))....)))))......((((((.....)))))).. New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -21.85 ((((....)))).....(((((((....)))))))((((((....))))))....... New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -21.60 New DP F-measure-avg: 0.177, New DP F-measure-best: 0.927, New DP best-subopt: 1, New DP num-subopt: 10 > PRRSV-LV GCCGCCAGCGGCUUGACCCGCUGUGGCCGCGGCGGCCUAGUUGUGACUGAAACGGCGG ((((((.((((((....[[[[[[[))))))))))))...............]]]]]]] ((((((.((((((...........))))))))))))...(((((.......))))).. ((((((.((((((...........))))))))))))...(((((.......))))).. Energy of known structure: -25.35 Initial sens: 0.632, Initial ppv: 0.706, Initial F-measure: 0.667, Initial Energy: -27.99 New DP sens: 0.632, New DP ppv: 0.706, New DP F-measure: 0.667, New DP Energy: -27.99 ((((((.((((((....[[[[[[[)))))))))))).((((....))))..]]]]]]] New DP sens: 1.000, New DP ppv: 0.826, New DP F-measure: 0.905, New DP Energy: -26.95 ((((....)))).....(((((((((.((((((......)))))).))...))))))) New DP sens: 0.368, New DP ppv: 0.368, New DP F-measure: 0.368, New DP Energy: -24.60 ((((....)))).....((((((((((((...)))))((((....))))..))))))) New DP sens: 0.368, New DP ppv: 0.350, New DP F-measure: 0.359, New DP Energy: -24.40 ((((....)))).....(((((((...((((((......))))))......))))))) New DP sens: 0.368, New DP ppv: 0.412, New DP F-measure: 0.389, New DP Energy: -23.62 .(((((.((((((....(((((((....)))))))...)))))).........))))) New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -23.49 .(((((.((((......))))...(((((...)))))................))))) New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -23.30 (((((((((((......)))))).....))))).(((((((....))))....))).. New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -23.30 (((((.(((((......))))))))))..((.((...((((....))))...)).)). New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -23.25 ((((...((((((....(((((((....)))))))...))))))........)))).. New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -23.19 ((((.((((((......)))))).(((((...)))))((((....))))...)))).. New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -23.10 ((((....)))).....((((((((((((...)))))..............))))))) New DP sens: 0.368, New DP ppv: 0.438, New DP F-measure: 0.400, New DP Energy: -22.89 (((((((((((......)))))).....)))))......(((((.......))))).. New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -22.80 (((((((((((......)))))).)..((((((......)))))).......)))).. New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -22.40 New DP F-measure-avg: 0.221, New DP F-measure-best: 0.905, New DP best-subopt: 1, New DP num-subopt: 13 > SARS-CoV UGCGGUGUAAGUGCAGCCCGUCUUACACCGUGCGGCACAGGCACUAGUACUGAUGUCGUCUACAGGGCU (((((((((((...[[[[[[[)))))))))))((((((((.........))).)))))...]].]]]]] .((((((((((.((.....))))))))))))(((((((((((....)).))).)))))).......... .((((((((((.((.....))))))))))))(((((((((((....)).))).)))))).......... Energy of known structure: -22.33 Initial sens: 0.692, Initial ppv: 0.783, Initial F-measure: 0.735, Initial Energy: -24.00 New DP sens: 0.692, New DP ppv: 0.783, New DP F-measure: 0.735, New DP Energy: -24.00 .((((((((((.(([[[[[))))))))))))(((((((((((....)).))).)))))).....]]]]] New DP sens: 0.885, New DP ppv: 0.821, New DP F-measure: 0.852, New DP Energy: -23.78 (((((((((((.((.....)))))))))))))((((((((((....)).))).)))))........... New DP sens: 0.731, New DP ppv: 0.826, New DP F-measure: 0.776, New DP Energy: -22.10 (((((((((((.(([[[[[)))))))))))))((((((((((....)).))).)))))......]]]]] New DP sens: 0.923, New DP ppv: 0.857, New DP F-measure: 0.889, New DP Energy: -21.83 (((((((((((...[[[[[..)))))))))))((((((((((....)).))).)))))......]]]]] New DP sens: 0.923, New DP ppv: 0.923, New DP F-measure: 0.923, New DP Energy: -21.26 (((((((((((((.....)).)))))))))))((((((((((....)).))).)))))........... New DP sens: 0.731, New DP ppv: 0.826, New DP F-measure: 0.776, New DP Energy: -21.20 (((((((((((..........)))))))))))((((((((((....)).))).)))))........... New DP sens: 0.731, New DP ppv: 0.905, New DP F-measure: 0.809, New DP Energy: -20.99 .((((((((((.((.[[[.))))))))))))((((((..]]]...........)))))).......... New DP sens: 0.577, New DP ppv: 0.714, New DP F-measure: 0.638, New DP Energy: -19.83 New DP F-measure-avg: 0.800, New DP F-measure-best: 0.923, New DP best-subopt: 4, New DP num-subopt: 7 > SNV GGGUUCUCCCGCCCUCCGUGAACCCAGGCUAAAAGUUAAGGUAGGGGGGC [[[[[[.[..(((((((].]]]]]]..................))))))) (((....)))(((((((....(((..(((.....)))..))).))))))) (((....)))(((((((....(((..(((.....)))..))).))))))) Energy of known structure: -14.12 Initial sens: 0.500, Initial ppv: 0.438, Initial F-measure: 0.467, Initial Energy: -18.10 New DP sens: 0.500, New DP ppv: 0.438, New DP F-measure: 0.467, New DP Energy: -18.10 (((....)))(((((((.((..((..(((.....)))..))))))))))) New DP sens: 0.500, New DP ppv: 0.412, New DP F-measure: 0.452, New DP Energy: -15.85 (((....)))(((((((....(((...............))).))))))) New DP sens: 0.500, New DP ppv: 0.538, New DP F-measure: 0.519, New DP Energy: -15.00 New DP F-measure-avg: 0.479, New DP F-measure-best: 0.519, New DP best-subopt: 2, New DP num-subopt: 2 > TMV-L GGGAUUCGAAUUCCCCCGGAACCCCCGGUUGGGGCCCA ...............[[[...((((]]]..)))).... (((........((((((((.....))))..))))))). (((........((((((((.....))))..))))))). Energy of known structure: -4.05 Initial sens: 0.429, Initial ppv: 0.273, Initial F-measure: 0.333, Initial Energy: -13.29 New DP sens: 0.429, New DP ppv: 0.273, New DP F-measure: 0.333, New DP Energy: -13.29 ((((.......))))..((..(((......)))..)). New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -12.95 (((.........(((((((.....)))...))))))). New DP sens: 0.286, New DP ppv: 0.200, New DP F-measure: 0.235, New DP Energy: -11.77 (((.((((........))))..((((....))))))). New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -11.70 (((.((((........)))).((((.....))))))). New DP sens: 0.571, New DP ppv: 0.364, New DP F-measure: 0.444, New DP Energy: -11.30 ((((.......))))......((((.....)))).... New DP sens: 0.571, New DP ppv: 0.500, New DP F-measure: 0.533, New DP Energy: -11.00 ((((.......)))).......((((....)))).... New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -10.90 (((((....)))))...((..(((......)))..)). New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -10.65 ...........((((((((.....))))..)))).... New DP sens: 0.429, New DP ppv: 0.375, New DP F-measure: 0.400, New DP Energy: -10.30 (((..........))).((..(((......)))..)). New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -10.24 (((.......((((...)))).((((....))))))). New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -10.00 ((((.......))))((((.....)))).......... New DP sens: 0.429, New DP ppv: 0.375, New DP F-measure: 0.400, New DP Energy: -9.70 (((.((((........)))).(((......))).))). New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -9.50 (((...........)))((..(((......)))..)). New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -9.34 New DP F-measure-avg: 0.168, New DP F-measure-best: 0.533, New DP best-subopt: 5, New DP num-subopt: 13 > BChV GCGGCGCCGACCGCCAAACAACCGGC [[[[.((((.]]]]........)))) ..((((.....))))........... ..((((.....))))........... Energy of known structure: -4.91 Initial sens: 0.000, Initial ppv: 0.000, Initial F-measure: 0.000, Initial Energy: -6.00 New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -6.00 ((((......))))............ New DP sens: 0.500, New DP ppv: 1.000, New DP F-measure: 0.667, New DP Energy: -5.60 ((((.[[[[.))))........]]]] New DP sens: 1.000, New DP ppv: 1.000, New DP F-measure: 1.000, New DP Energy: -4.91 .....((((.............)))) New DP sens: 0.500, New DP ppv: 1.000, New DP F-measure: 0.667, New DP Energy: -3.91 .((....))...(((........))) New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -3.70 New DP F-measure-avg: 0.467, New DP F-measure-best: 1.000, New DP best-subopt: 2, New DP num-subopt: 4 > CABYV GGCGGCGGCGACCGCCGAAACAACCGC (((((..[[[.)))))........]]] ..((((((...)))))).......... ..((((((...)))))).......... Energy of known structure: -5.71 Initial sens: 0.000, Initial ppv: 0.000, Initial F-measure: 0.000, Initial Energy: -10.40 New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -10.40 .((((((((....))))......)))) New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -10.20 (((((......)))))........... New DP sens: 0.625, New DP ppv: 1.000, New DP F-measure: 0.769, New DP Energy: -9.80 .....((((....)))).......... New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -6.80 New DP F-measure-avg: 0.192, New DP F-measure-best: 0.769, New DP best-subopt: 2, New DP num-subopt: 3 > GaLV GGGUUCGGACCCCCUCCCCGAACCUAGGGUAACACUGACUGUGGAGGGG ((((((((..[[[[[[[)))))))).................]]]]]]] (((((((([[[[.{{{{)))))))).]]]]..(((.....)))..}}}} (((((((([[[[.{{{{)))))))).]]]]..(((.....)))..}}}} Energy of known structure: -16.87 Initial sens: 0.533, Initial ppv: 0.421, Initial F-measure: 0.471, Initial Energy: -18.11 New DP sens: 0.533, New DP ppv: 0.421, New DP F-measure: 0.471, New DP Energy: -18.11 (((((((([[[[{{{{.)))))))).]]]]..(((.....)))..}}}} New DP sens: 0.533, New DP ppv: 0.421, New DP F-measure: 0.471, New DP Energy: -18.11 ((((((((..[[[[[[[)))))))).................]]]]]]] New DP sens: 1.000, New DP ppv: 1.000, New DP F-measure: 1.000, New DP Energy: -16.87 ((((((((..[[[{{{{)))))))).]]]...(((.....)))..}}}} New DP sens: 0.533, New DP ppv: 0.444, New DP F-measure: 0.485, New DP Energy: -16.58 ((((((((..[[[[[[.)))))))).......(((.....)))]]]]]] New DP sens: 0.933, New DP ppv: 0.824, New DP F-measure: 0.875, New DP Energy: -16.13 ..........(((((((((.......)))...(((.....))))))))) New DP sens: 0.400, New DP ppv: 0.500, New DP F-measure: 0.444, New DP Energy: -14.60 ((((....))))...((((..(((...)))..(((.....)))..)))) New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -14.60 ((((((((.........)))))))).......(((.....)))...... New DP sens: 0.533, New DP ppv: 0.727, New DP F-measure: 0.615, New DP Energy: -14.40 ((((....))))...((((....(((.(((.......))).))).)))) New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -13.70 (((........))).((((..(((...)))..(((.....)))..)))) New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -13.20 ((((((((...[[[[..))))))))]]]]...(((.....)))...... New DP sens: 0.533, New DP ppv: 0.533, New DP F-measure: 0.533, New DP Energy: -13.20 ((((((((.[[[[....)))))))).......(((.....)))..]]]] New DP sens: 0.533, New DP ppv: 0.533, New DP F-measure: 0.533, New DP Energy: -13.20 .........((((...(((.......)))...(((.....)))..)))) New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -12.90 (((((((([[[[.....)))))))).]]]]..(((.....)))...... New DP sens: 0.533, New DP ppv: 0.533, New DP F-measure: 0.533, New DP Energy: -12.68 (((.......)))..((((..(((...)))..(((.....)))..)))) New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -12.60 (((........))).((((....(((.(((.......))).))).)))) New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -12.30 ((((((((...[[[[..)))))))).......(((.....)))..]]]] New DP sens: 0.533, New DP ppv: 0.533, New DP F-measure: 0.533, New DP Energy: -12.30 ((((....))))(((((((.......)))...(((.....)))..)))) New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -12.20 ..........(((((((((.......))..............))))))) New DP sens: 0.467, New DP ppv: 0.778, New DP F-measure: 0.583, New DP Energy: -12.09 .........((((..(((........)))...(((.....)))..)))) New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -12.00 New DP F-measure-avg: 0.354, New DP F-measure-best: 1.000, New DP best-subopt: 2, New DP num-subopt: 19 > HIV-1-RT-1-17 agUAAUGACCAGAGGCCCAACUGGUAAACGGGCGGuc .......(((((..[[[[..)))))....]]]].... ......((((....((((...........)))))))) ......((((....((((...........)))))))) Energy of known structure: -7.85 Initial sens: 0.444, Initial ppv: 0.500, Initial F-measure: 0.471, Initial Energy: -9.19 New DP sens: 0.444, New DP ppv: 0.500, New DP F-measure: 0.471, New DP Energy: -9.19 .......(((((..[[[[..)))))....]]]].... New DP sens: 1.000, New DP ppv: 1.000, New DP F-measure: 1.000, New DP Energy: -7.85 .............((((...(((.....)))..)))) New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -6.60 ..............((((...........)))).... New DP sens: 0.444, New DP ppv: 1.000, New DP F-measure: 0.615, New DP Energy: -6.59 .......(((((........)))))............ New DP sens: 0.556, New DP ppv: 1.000, New DP F-measure: 0.714, New DP Energy: -5.80 New DP F-measure-avg: 0.560, New DP F-measure-best: 1.000, New DP best-subopt: 1, New DP num-subopt: 4 > PLRV-W GCGGCACCGCCCGCCAAAACAAACGG ((((..[[[.)))).........]]] ((((......))))............ ((((......))))............ Energy of known structure: -2.38 Initial sens: 0.571, Initial ppv: 1.000, Initial F-measure: 0.727, Initial Energy: -5.20 New DP sens: 0.571, New DP ppv: 1.000, New DP F-measure: 0.727, New DP Energy: -5.20 ..(((.......)))........... New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -4.10 (((....)))(((..........))) New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -3.39 ((((..[[[.)))).........]]] New DP sens: 1.000, New DP ppv: 1.000, New DP F-measure: 1.000, New DP Energy: -2.38 ..(((...)))............... New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -1.90 New DP F-measure-avg: 0.345, New DP F-measure-best: 1.000, New DP best-subopt: 3, New DP num-subopt: 4 > SSTRAND_ID=PDB_00716; TYPE=Other Ribozyme; EXT_SOURCE=RCSB Protein Data Bank; EXT_ID=1SJF; ORGANISM=HOMO SAPIENS AUGGCCGGCAUGGUCCCAGCCUCCUCGCUGGCGCCGGCUGGGCAACACCAUUGCACUCCGGUGGUGAAUGGGAC ..(((((((...[[[[[[(((.{{.....))))))))))}}....((((..........)))).....]]]]]] .((.(((((.((((.(((((......))))).))))))))).)).((((((((.....))))))))........ .((.(((((.((((.(((((......))))).))))))))).)).((((((((.....))))))))........ Energy of known structure: -27.19 Initial sens: 0.000, Initial ppv: 0.000, Initial F-measure: 0.000, Initial Energy: -35.05 New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -35.05 .((.(((((.((((.(((((.[[[[.))))).))))))))).)).((((((((.....))))))))...]]]]. New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -30.27 .((.(((((.((((.(((((......))))).))))))))).)).((((..........))))........... New DP sens: 0.182, New DP ppv: 0.200, New DP F-measure: 0.190, New DP Energy: -29.74 .((((((((......(((((......))))).)))))))).....((((((((.....))))))))........ New DP sens: 0.318, New DP ppv: 0.333, New DP F-measure: 0.326, New DP Energy: -29.64 ............((((((((((....((((....)))).))))..((((((((.....))))))))..)))))) New DP sens: 0.273, New DP ppv: 0.273, New DP F-measure: 0.273, New DP Energy: -28.95 ....(((((..(((.(((((......))))).))).)))))....((((((((.....))))))))........ New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -28.55 New DP F-measure-avg: 0.131, New DP F-measure-best: 0.326, New DP best-subopt: 3, New DP num-subopt: 5 > SSTRAND_ID=PDB_00944; TYPE=Synthetic RNA; EXT_SOURCE=RCSB Protein Data Bank; EXT_ID=2B57; ORGANISM=SYNTHETIC GACAUAUAAUCGCGUGGAUAUGGCACGCAAGUUUCUACCGGGCACCGUAAAUGUCCGAUUAUGUC ((((((.....(((((..[..[[)))))..........((((((]]...].))))))..)))))) ((((((.....(((((.......)))))..........((((((.......))))))..)))))) ((((((.....(((((.......)))))..........((((((.......))))))..)))))) Energy of known structure: -9.47 Initial sens: 0.850, Initial ppv: 1.000, Initial F-measure: 0.919, Initial Energy: -19.30 New DP sens: 0.850, New DP ppv: 1.000, New DP F-measure: 0.919, New DP Energy: -19.30 ...........(((((..[[[[[)))))..........((((((]]]]]..))))))........ New DP sens: 0.650, New DP ppv: 0.812, New DP F-measure: 0.722, New DP Energy: -16.32 ((((((.....(((((..[[[[[)))))..........((((((]]]]]..))))))..)))))) New DP sens: 0.950, New DP ppv: 0.864, New DP F-measure: 0.905, New DP Energy: -16.02 ((((((.......(((((......((....)).)))))((((((.......))))))..)))))) New DP sens: 0.600, New DP ppv: 0.632, New DP F-measure: 0.615, New DP Energy: -15.44 New DP F-measure-avg: 0.790, New DP F-measure-best: 0.919, New DP best-subopt: 0, New DP num-subopt: 3 > SSTRAND_ID=PDB_01009; TYPE=Other RNA; EXT_SOURCE=RCSB Protein Data Bank; EXT_ID=2DU3; ORGANISM=ARCHAEOGLOBUS FULGIDUS GCCAGGGUGGCAGAGGGGCUUUGCGGCGGACUGCAGAUCCGCUUUACCCCGGUUCGAAUCCGGGCCCUGGC ((((((([.(((.].......)))..((((.......))))......(((((.......)))))))))))) (((((((....((((.((.(((((((....))))))).)).))))..(((((.......)))))))))))) (((((((....((((.((.(((((((....))))))).)).))))..(((((.......)))))))))))) Energy of known structure: -13.66 Initial sens: 0.600, Initial ppv: 0.480, Initial F-measure: 0.533, Initial Energy: -36.15 New DP sens: 0.600, New DP ppv: 0.480, New DP F-measure: 0.533, New DP Energy: -36.15 ((((((((((.((((.((.(((((((....))))))).)).)))).))((((.......)))))))))))) New DP sens: 0.550, New DP ppv: 0.407, New DP F-measure: 0.468, New DP Energy: -36.10 ((((((((...((((.((.(((((((....))))))).)).))))...((((.......)))))))))))) New DP sens: 0.550, New DP ppv: 0.440, New DP F-measure: 0.489, New DP Energy: -34.95 (((((((..((((((...))))))((((((.......))))))....(((((.......)))))))))))) New DP sens: 0.950, New DP ppv: 0.792, New DP F-measure: 0.864, New DP Energy: -32.30 ((((((((.((((((...))))))((((((.......)))))).....((((.......)))))))))))) New DP sens: 0.900, New DP ppv: 0.750, New DP F-measure: 0.818, New DP Energy: -31.10 ((((((((.((((((...))))))..((((.....((.(((........))).))...)))).)))))))) New DP sens: 0.500, New DP ppv: 0.435, New DP F-measure: 0.465, New DP Energy: -30.04 ((((((((......((((......((((((.......))))))...))))((.......))..)))))))) New DP sens: 0.650, New DP ppv: 0.650, New DP F-measure: 0.650, New DP Energy: -29.92 New DP F-measure-avg: 0.612, New DP F-measure-best: 0.864, New DP best-subopt: 3, New DP num-subopt: 6 > SSTRAND_ID=PDB_01021; TYPE=Synthetic RNA; EXT_SOURCE=RCSB Protein Data Bank; EXT_ID=2EET; ORGANISM=SYNTHETIC GGACAUGUAAUCGCGUGGAUAUGGCACGCAAGUUUCUACCGGGCACCGUAAAUGUCCGACCAUGUCCa .((((((...(.(((((..[..[[))))).)........((((((]]...].))))))..)))))).. (((((((.....(((((.......)))))..........((((((.......))))))..))))))). (((((((.....(((((.......)))))..........((((((.......))))))..))))))). Energy of known structure: -9.70 Initial sens: 0.810, Initial ppv: 0.944, Initial F-measure: 0.872, Initial Energy: -25.60 New DP sens: 0.810, New DP ppv: 0.944, New DP F-measure: 0.872, New DP Energy: -25.60 (((((((.....(((((..[[[[[)))))..........((((((]]]]]..))))))..))))))). New DP sens: 0.905, New DP ppv: 0.826, New DP F-measure: 0.864, New DP Energy: -22.32 (((((((.......(((((......((....)).)))))((((((.......))))))..))))))). New DP sens: 0.571, New DP ppv: 0.600, New DP F-measure: 0.585, New DP Energy: -21.74 ...............(((((((((.((....))......((((((.......)))))).))))))))) New DP sens: 0.286, New DP ppv: 0.353, New DP F-measure: 0.316, New DP Energy: -20.80 New DP F-measure-avg: 0.659, New DP F-measure-best: 0.872, New DP best-subopt: 0, New DP num-subopt: 3 > SSTRAND_ID=PDB_01023; TYPE=Synthetic RNA; EXT_SOURCE=RCSB Protein Data Bank; EXT_ID=2EEV; ORGANISM=SYNTHETIC GGACAUACAAUCGCGUGGAUAUGGCACGCAAGUUUCUGCCGGGCACCGUAAAUGUCCGACUAUGUCCa (((((((...(.(((((..[..[[))))).)........((((((]]...].))))))..))))))). (((((((.....(((((.......)))))..........((((((.......))))))..))))))). (((((((.....(((((.......)))))..........((((((.......))))))..))))))). Energy of known structure: -12.50 Initial sens: 0.818, Initial ppv: 1.000, Initial F-measure: 0.900, Initial Energy: -24.20 New DP sens: 0.818, New DP ppv: 1.000, New DP F-measure: 0.900, New DP Energy: -24.20 (((((((.....(((((..[[[[[)))))..........((((((]]]]]..))))))..))))))). New DP sens: 0.909, New DP ppv: 0.870, New DP F-measure: 0.889, New DP Energy: -20.92 New DP F-measure-avg: 0.894, New DP F-measure-best: 0.900, New DP best-subopt: 0, New DP num-subopt: 1 > SSTRAND_ID=RFA_00632; TYPE=Hepatitis Delta Virus Ribozyme; EXT_SOURCE=Rfam Database; EXT_ID=RF00094 AB037947.1/775-685; ORGANISM=Hepatitis delta virus GUGGCCGGCAUGGCCCCAGCCUCCUCGCUGGCGCCGGCUGGGCAACGAUCCGAGGGGACUGUCCCUCUCGAGAAUCGGCAAAUGGGGCCCC ...[[[[[[...(((((((((........)))]]]]]].......(((((.(((((((...).))))))..).)))).....))))))... .((.(((((.((((.(((((......))))).))))))))).)).((((((((((((......))))))).).))))......((....)) .((.(((((.((((.(((((......))))).))))))))).)).((((((((((((......))))))).).))))......((....)) Energy of known structure: -25.40 Initial sens: 0.407, Initial ppv: 0.367, Initial F-measure: 0.386, Initial Energy: -43.00 New DP sens: 0.407, New DP ppv: 0.367, New DP F-measure: 0.386, New DP Energy: -43.00 .((.(((((.((((.(((((......))))).))))))))).))......(((((((......)))))))......(((.......))).. New DP sens: 0.222, New DP ppv: 0.231, New DP F-measure: 0.226, New DP Energy: -41.40 ...........(((((((((((....((((....)))).))))..((((((((((((......))))))).).)))).....))))))).. New DP sens: 0.630, New DP ppv: 0.630, New DP F-measure: 0.630, New DP Energy: -41.15 .((.(((((.((((.(((((......))))).))))))))).)).......((((((....)))))).........(((.......))).. New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -41.10 ..(((((((......(((((......))))).)))))))((((..((((((((((((......))))))).).)))).........)))). New DP sens: 0.630, New DP ppv: 0.607, New DP F-measure: 0.618, New DP Energy: -40.49 ..(((((((.((((.(((((......))))).)))))))..((..((((((((((((......))))))).).))))))......)))).. New DP sens: 0.407, New DP ppv: 0.367, New DP F-measure: 0.386, New DP Energy: -40.40 .((((((((..[[[[[[[(((........))))))))))).((..((((((((((((......))))))).).))))))...]]]]]]].. New DP sens: 0.963, New DP ppv: 0.812, New DP F-measure: 0.881, New DP Energy: -39.93 ..(((((((.((((.(((((......))))).)))))))......((((((((((((......))))))).).))))........)))).. New DP sens: 0.407, New DP ppv: 0.393, New DP F-measure: 0.400, New DP Energy: -39.90 ...........((((((((((........)))(((((...(....)..(((((((((......))))))).)).)))))...))))))).. New DP sens: 0.593, New DP ppv: 0.640, New DP F-measure: 0.615, New DP Energy: -38.90 .((((((((..[[[[[[[(((........))))))))))).....((((((((((((......))))))).).)))).....]]]]]]].. New DP sens: 0.963, New DP ppv: 0.867, New DP F-measure: 0.912, New DP Energy: -38.83 ...........((((((((((........)))(((((..(((......)))((((((....)))))).......)))))...))))))).. New DP sens: 0.333, New DP ppv: 0.375, New DP F-measure: 0.353, New DP Energy: -38.20 ..((((........(((((((.((.....))....)))))))...((((((((((((......))))))).).))))........)))).. New DP sens: 0.407, New DP ppv: 0.440, New DP F-measure: 0.423, New DP Energy: -38.00 ...........((((((((((........)))(((((...(....)....(((((((......)))))))....)))))...))))))).. New DP sens: 0.556, New DP ppv: 0.652, New DP F-measure: 0.600, New DP Energy: -37.90 ...(((((...[[[[[[[((((....((((....)))).)))).....(((((((((......))))))).)).)))))...]]]]]]].. New DP sens: 0.481, New DP ppv: 0.448, New DP F-measure: 0.464, New DP Energy: -37.77 .((.(((((.((((.(((((......))))).))))))))).))....(((....)))..(((((..(((.....))).....)))))... New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -37.39 ...((((((..[[[[[[[........))))))(((((...(....)..(((((((((......))))))).)).)))))...]]]]]]].. New DP sens: 0.481, New DP ppv: 0.464, New DP F-measure: 0.473, New DP Energy: -37.31 ..(((((((......(((((......))))).)))))))((((........((((((....))))))(((.....)))........)))). New DP sens: 0.222, New DP ppv: 0.240, New DP F-measure: 0.231, New DP Energy: -37.14 .((((((((......(((((......))))).))))))))(((..((((((((((((......))))))).).)))).........))).. New DP sens: 0.630, New DP ppv: 0.607, New DP F-measure: 0.618, New DP Energy: -36.99 ...(((((...[[[[[[[((((....((((....)))).)))).......(((((((......)))))))....)))))...]]]]]]].. New DP sens: 0.444, New DP ppv: 0.444, New DP F-measure: 0.444, New DP Energy: -36.77 .((.(((((.((((.(((((......))))).))))))))).)).........((((.....(((..(((.....))).....))).)))) New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -36.69 New DP F-measure-avg: 0.433, New DP F-measure-best: 0.912, New DP best-subopt: 9, New DP num-subopt: 19 > SSTRAND_ID=RFA_00636; TYPE=Hepatitis Delta Virus Ribozyme; EXT_SOURCE=Rfam Database; EXT_ID=RF00094 M84917.1/773-684; ORGANISM=Hepatitis delta virus GUGGCCGGCAUGGUCCCAGCCUCCUCGCUGGCGCCGGCUGGGCAACAUUCCGAGGGGACCGUCCUCCUCGGUAAUGGCGAAUGGGACCCA ...[[[[[[...(((((((((........)))]]]]]].......(((((((((((((...).)))))))).)))).....))))))... .((.(((((.((((.(((((......))))).))))))))).)).((((((((((((......)))))))).)))).............. .((.(((((.((((.(((((......))))).))))))))).)).((((((((((((......)))))))).)))).............. Energy of known structure: -31.55 Initial sens: 0.429, Initial ppv: 0.429, Initial F-measure: 0.429, Initial Energy: -42.95 New DP sens: 0.429, New DP ppv: 0.429, New DP F-measure: 0.429, New DP Energy: -42.95 ...........(((((((((((....((((....)))).))))..((((((((((((......)))))))).)))).....))))))).. New DP sens: 0.643, New DP ppv: 0.667, New DP F-measure: 0.655, New DP Energy: -41.05 .((((((((..[[[[[[[(((........))))))))))).((..((((((((((((......)))))))).))))))...]]]]]]].. New DP sens: 0.964, New DP ppv: 0.844, New DP F-measure: 0.900, New DP Energy: -40.19 .((.(((((.((((.(((((......))))).))))))))).)).....((((((((......))))))))................... New DP sens: 0.286, New DP ppv: 0.333, New DP F-measure: 0.308, New DP Energy: -39.65 .((((((((..[[[[[[[(((........))))))))))).....((((((((((((......)))))))).)))).....]]]]]]].. New DP sens: 0.964, New DP ppv: 0.900, New DP F-measure: 0.931, New DP Energy: -39.09 ...((((((..[[[[[[[[[[[....)))))).......]]]]..((((((((((((......)))))))).)))).....]]]]]]].. New DP sens: 0.643, New DP ppv: 0.621, New DP F-measure: 0.632, New DP Energy: -38.97 .((((((((......(((((......))))).)))))))).((..((((((((((((......)))))))).))))))............ New DP sens: 0.643, New DP ppv: 0.667, New DP F-measure: 0.655, New DP Energy: -38.04 .((((((((......(((((......))))).)))))))).....((((((((((((......)))))))).)))).............. New DP sens: 0.643, New DP ppv: 0.720, New DP F-measure: 0.679, New DP Energy: -37.54 ...........(((((((((((....((((....)))).))))......((((((((......))))))))..........))))))).. New DP sens: 0.500, New DP ppv: 0.609, New DP F-measure: 0.549, New DP Energy: -37.25 ....(((((..(((.(((((......))))).))).)))))....((((((((((((......)))))))).)))).............. New DP sens: 0.429, New DP ppv: 0.480, New DP F-measure: 0.453, New DP Energy: -36.55 .((.(((((.((((.(((((......))))).))))))))).))....(((....)))..(((((..(((.......)))..)))))... New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -36.40 ...((((((..[[[[[[[[[[[....))))))(((((..]]]]........(((((.....))))).))))).........]]]]]]].. New DP sens: 0.214, New DP ppv: 0.222, New DP F-measure: 0.218, New DP Energy: -36.32 ...((((((..[[[[[[[........))))))(((.....)))..((((((((((((......)))))))).)))).....]]]]]]].. New DP sens: 0.643, New DP ppv: 0.643, New DP F-measure: 0.643, New DP Energy: -36.07 .((((((((..[[[[[[[......[[[[[...))))))))(....)...((((((((......))))))))....]]]]].]]]]]]].. New DP sens: 0.714, New DP ppv: 0.690, New DP F-measure: 0.702, New DP Energy: -35.99 ...........(((((((......((((((..(((.....)))......((((((((......))))))))...)))))).))))))).. New DP sens: 0.500, New DP ppv: 0.583, New DP F-measure: 0.538, New DP Energy: -35.84 ....(((((..(((.(((((......))))).))).)))))((..((((((((((((......)))))))).))))))............ New DP sens: 0.429, New DP ppv: 0.444, New DP F-measure: 0.436, New DP Energy: -35.75 ...........(((((((((......))...(((((....(....)...((((((((......))))))))...)))))..))))))).. New DP sens: 0.500, New DP ppv: 0.609, New DP F-measure: 0.549, New DP Energy: -35.40 ....(((((..[[[[[[[(((........)))....)))))....((((((((((((......)))))))).)))).....]]]]]]].. New DP sens: 0.750, New DP ppv: 0.778, New DP F-measure: 0.764, New DP Energy: -35.34 ...........(((((((......((((((..(((.....)))..)...((((((((......))))))))....))))).))))))).. New DP sens: 0.500, New DP ppv: 0.583, New DP F-measure: 0.538, New DP Energy: -35.34 ...((((((..[[[[[[[[[[[....)))))).......]]]]......((((((((......))))))))..........]]]]]]].. New DP sens: 0.500, New DP ppv: 0.560, New DP F-measure: 0.528, New DP Energy: -35.17 New DP F-measure-avg: 0.555, New DP F-measure-best: 0.931, New DP best-subopt: 4, New DP num-subopt: 19 > SSTRAND_ID=TMR_00007; TYPE=Transfer Messenger RNA; EXT_SOURCE=tmRNA Database; EXT_ID=Acid.caps._TRW-240015_1-352; ORGANISM=NULL CGGGGGGUGGGCACCCGUAAUCGCUCGCA [[[[..((((((.]]]].....)))))). ((((..[[[[[[.)))).....]]]]]]. ((((..[[[[[[.)))).....]]]]]]. Energy of known structure: -8.02 Initial sens: 1.000, Initial ppv: 1.000, Initial F-measure: 1.000, Initial Energy: -8.02 New DP sens: 1.000, New DP ppv: 1.000, New DP F-measure: 1.000, New DP Energy: -8.02 ((((.(((((....))...))).)))).. New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -7.90 ......((((((..........)))))). New DP sens: 0.600, New DP ppv: 1.000, New DP F-measure: 0.750, New DP Energy: -7.59 ...((([[[[[[.)))......]]]]]]. New DP sens: 0.600, New DP ppv: 0.667, New DP F-measure: 0.632, New DP Energy: -7.22 ..(((.[[[[[[.)))......]]]]]]. New DP sens: 0.600, New DP ppv: 0.667, New DP F-measure: 0.632, New DP Energy: -7.12 (((([[[[[[...))))...]]]]]]... New DP sens: 0.400, New DP ppv: 0.400, New DP F-measure: 0.400, New DP Energy: -6.64 ((((((((....)))).......)))).. New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -6.24 ....((((....))))............. New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -6.10 ((((.........))))............ New DP sens: 0.400, New DP ppv: 1.000, New DP F-measure: 0.571, New DP Energy: -5.60 ..(((........)))............. New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -5.10 ....((((((..........))))))... New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -5.09 ...(((.......)))............. New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -4.80 (((.((((....))))....)))...... New DP sens: 0.000, New DP ppv: 0.000, New DP F-measure: 0.000, New DP Energy: -4.75 New DP F-measure-avg: 0.307, New DP F-measure-best: 1.000, New DP best-subopt: 0, New DP num-subopt: 12