///////////////////////////////////////////////////////////////// // GetDefaultComplementaryValues() // // Retrieve default parameter values. ///////////////////////////////////////////////////////////////// template std::vector GetDefaultComplementaryValues() { RealT values[] = { 0.0000000000, // base_pair_AA 0.0000000000, // base_pair_AC 0.0000000000, // base_pair_AG 0.5979119900, // base_pair_AU 0.0000000000, // base_pair_CC 1.5442906410, // base_pair_CG 0.0000000000, // base_pair_CU 0.0000000000, // base_pair_GG -0.0130475499, // base_pair_GU 0.0000000000, // base_pair_UU 0.0000000000, // terminal_mismatch_AAAA 0.0000000000, // terminal_mismatch_AAAC 0.0000000000, // terminal_mismatch_AAAG 0.0000000000, // terminal_mismatch_AAAU 0.0000000000, // terminal_mismatch_AACA 0.0000000000, // terminal_mismatch_AACC 0.0000000000, // terminal_mismatch_AACG 0.0000000000, // terminal_mismatch_AACU 0.0000000000, // terminal_mismatch_AAGA 0.0000000000, // terminal_mismatch_AAGC 0.0000000000, // terminal_mismatch_AAGG 0.0000000000, // terminal_mismatch_AAGU 0.0000000000, // terminal_mismatch_AAUA 0.0000000000, // terminal_mismatch_AAUC 0.0000000000, // terminal_mismatch_AAUG 0.0000000000, // terminal_mismatch_AAUU 0.0000000000, // terminal_mismatch_ACAA 0.0000000000, // terminal_mismatch_ACAC 0.0000000000, // terminal_mismatch_ACAG 0.0000000000, // terminal_mismatch_ACAU 0.0000000000, // terminal_mismatch_ACCA 0.0000000000, // terminal_mismatch_ACCC 0.0000000000, // terminal_mismatch_ACCG 0.0000000000, // terminal_mismatch_ACCU 0.0000000000, // terminal_mismatch_ACGA 0.0000000000, // terminal_mismatch_ACGC 0.0000000000, // terminal_mismatch_ACGG 0.0000000000, // terminal_mismatch_ACGU 0.0000000000, // terminal_mismatch_ACUA 0.0000000000, // terminal_mismatch_ACUC 0.0000000000, // terminal_mismatch_ACUG 0.0000000000, // terminal_mismatch_ACUU 0.0000000000, // terminal_mismatch_AGAA 0.0000000000, // terminal_mismatch_AGAC 0.0000000000, // terminal_mismatch_AGAG 0.0000000000, // terminal_mismatch_AGAU 0.0000000000, // terminal_mismatch_AGCA 0.0000000000, // terminal_mismatch_AGCC 0.0000000000, // terminal_mismatch_AGCG 0.0000000000, // terminal_mismatch_AGCU 0.0000000000, // terminal_mismatch_AGGA 0.0000000000, // terminal_mismatch_AGGC 0.0000000000, // terminal_mismatch_AGGG 0.0000000000, // terminal_mismatch_AGGU 0.0000000000, // terminal_mismatch_AGUA 0.0000000000, // terminal_mismatch_AGUC 0.0000000000, // terminal_mismatch_AGUG 0.0000000000, // terminal_mismatch_AGUU -0.1845460640, // terminal_mismatch_AUAA -0.1181844187, // terminal_mismatch_AUAC -0.4461469607, // terminal_mismatch_AUAG -0.6175254495, // terminal_mismatch_AUAU 0.0047884587, // terminal_mismatch_AUCA 0.0831939515, // terminal_mismatch_AUCC -0.2249479995, // terminal_mismatch_AUCG -0.3981327204, // terminal_mismatch_AUCU 0.5191110288, // terminal_mismatch_AUGA -0.3524119307, // terminal_mismatch_AUGC -0.4056429433, // terminal_mismatch_AUGG -0.7733932162, // terminal_mismatch_AUGU -0.0157440352, // terminal_mismatch_AUUA 0.2685700420, // terminal_mismatch_AUUC -0.0934388741, // terminal_mismatch_AUUG 0.3373711531, // terminal_mismatch_AUUU 0.0000000000, // terminal_mismatch_CAAA 0.0000000000, // terminal_mismatch_CAAC 0.0000000000, // terminal_mismatch_CAAG 0.0000000000, // terminal_mismatch_CAAU 0.0000000000, // terminal_mismatch_CACA 0.0000000000, // terminal_mismatch_CACC 0.0000000000, // terminal_mismatch_CACG 0.0000000000, // terminal_mismatch_CACU 0.0000000000, // terminal_mismatch_CAGA 0.0000000000, // terminal_mismatch_CAGC 0.0000000000, // terminal_mismatch_CAGG 0.0000000000, // terminal_mismatch_CAGU 0.0000000000, // terminal_mismatch_CAUA 0.0000000000, // terminal_mismatch_CAUC 0.0000000000, // terminal_mismatch_CAUG 0.0000000000, // terminal_mismatch_CAUU 0.0000000000, // terminal_mismatch_CCAA 0.0000000000, // terminal_mismatch_CCAC 0.0000000000, // terminal_mismatch_CCAG 0.0000000000, // terminal_mismatch_CCAU 0.0000000000, // terminal_mismatch_CCCA 0.0000000000, // terminal_mismatch_CCCC 0.0000000000, // terminal_mismatch_CCCG 0.0000000000, // terminal_mismatch_CCCU 0.0000000000, // terminal_mismatch_CCGA 0.0000000000, // terminal_mismatch_CCGC 0.0000000000, // terminal_mismatch_CCGG 0.0000000000, // terminal_mismatch_CCGU 0.0000000000, // terminal_mismatch_CCUA 0.0000000000, // terminal_mismatch_CCUC 0.0000000000, // terminal_mismatch_CCUG 0.0000000000, // terminal_mismatch_CCUU 0.0838642353, // terminal_mismatch_CGAA -0.2520716816, // terminal_mismatch_CGAC -0.6711841881, // terminal_mismatch_CGAG -0.3816350028, // terminal_mismatch_CGAU 0.1117852189, // terminal_mismatch_CGCA -0.1704393624, // terminal_mismatch_CGCC -0.2179987732, // terminal_mismatch_CGCG -0.4592676350, // terminal_mismatch_CGCU 0.8520640313, // terminal_mismatch_CGGA -0.9332488517, // terminal_mismatch_CGGC -0.3289551692, // terminal_mismatch_CGGG -0.7778822056, // terminal_mismatch_CGGU -0.2422339958, // terminal_mismatch_CGUA -0.0378050925, // terminal_mismatch_CGUC -0.4322334143, // terminal_mismatch_CGUG -0.2419976114, // terminal_mismatch_CGUU 0.0000000000, // terminal_mismatch_CUAA 0.0000000000, // terminal_mismatch_CUAC 0.0000000000, // terminal_mismatch_CUAG 0.0000000000, // terminal_mismatch_CUAU 0.0000000000, // terminal_mismatch_CUCA 0.0000000000, // terminal_mismatch_CUCC 0.0000000000, // terminal_mismatch_CUCG 0.0000000000, // terminal_mismatch_CUCU 0.0000000000, // terminal_mismatch_CUGA 0.0000000000, // terminal_mismatch_CUGC 0.0000000000, // terminal_mismatch_CUGG 0.0000000000, // terminal_mismatch_CUGU 0.0000000000, // terminal_mismatch_CUUA 0.0000000000, // terminal_mismatch_CUUC 0.0000000000, // terminal_mismatch_CUUG 0.0000000000, // terminal_mismatch_CUUU 0.0000000000, // terminal_mismatch_GAAA 0.0000000000, // terminal_mismatch_GAAC 0.0000000000, // terminal_mismatch_GAAG 0.0000000000, // terminal_mismatch_GAAU 0.0000000000, // terminal_mismatch_GACA 0.0000000000, // terminal_mismatch_GACC 0.0000000000, // terminal_mismatch_GACG 0.0000000000, // terminal_mismatch_GACU 0.0000000000, // terminal_mismatch_GAGA 0.0000000000, // terminal_mismatch_GAGC 0.0000000000, // terminal_mismatch_GAGG 0.0000000000, // terminal_mismatch_GAGU 0.0000000000, // terminal_mismatch_GAUA 0.0000000000, // terminal_mismatch_GAUC 0.0000000000, // terminal_mismatch_GAUG 0.0000000000, // terminal_mismatch_GAUU -0.1703136025, // terminal_mismatch_GCAA -0.0915405636, // terminal_mismatch_GCAC -0.2522413002, // terminal_mismatch_GCAG -0.8520314799, // terminal_mismatch_GCAU 0.0476322419, // terminal_mismatch_GCCA -0.2428654283, // terminal_mismatch_GCCC -0.2079275061, // terminal_mismatch_GCCG -0.1874270053, // terminal_mismatch_GCCU 0.6540033983, // terminal_mismatch_GCGA -0.7823988605, // terminal_mismatch_GCGC 0.1995898255, // terminal_mismatch_GCGG -0.4432169392, // terminal_mismatch_GCGU -0.1736921762, // terminal_mismatch_GCUA 0.2884943620, // terminal_mismatch_GCUC -0.0163823806, // terminal_mismatch_GCUG 0.6757988971, // terminal_mismatch_GCUU 0.0000000000, // terminal_mismatch_GGAA 0.0000000000, // terminal_mismatch_GGAC 0.0000000000, // terminal_mismatch_GGAG 0.0000000000, // terminal_mismatch_GGAU 0.0000000000, // terminal_mismatch_GGCA 0.0000000000, // terminal_mismatch_GGCC 0.0000000000, // terminal_mismatch_GGCG 0.0000000000, // terminal_mismatch_GGCU 0.0000000000, // terminal_mismatch_GGGA 0.0000000000, // terminal_mismatch_GGGC 0.0000000000, // terminal_mismatch_GGGG 0.0000000000, // terminal_mismatch_GGGU 0.0000000000, // terminal_mismatch_GGUA 0.0000000000, // terminal_mismatch_GGUC 0.0000000000, // terminal_mismatch_GGUG 0.0000000000, // terminal_mismatch_GGUU -0.4871607613, // terminal_mismatch_GUAA 0.1105031953, // terminal_mismatch_GUAC 0.3633739160, // terminal_mismatch_GUAG -0.6193199348, // terminal_mismatch_GUAU 0.3451056056, // terminal_mismatch_GUCA 0.0314944976, // terminal_mismatch_GUCC -0.3799172956, // terminal_mismatch_GUCG -0.0322297318, // terminal_mismatch_GUCU 0.4948638637, // terminal_mismatch_GUGA -0.2821952552, // terminal_mismatch_GUGC -0.2702227211, // terminal_mismatch_GUGG -0.0665839529, // terminal_mismatch_GUGU -0.4306154451, // terminal_mismatch_GUUA -0.0949786347, // terminal_mismatch_GUUC -0.3130794485, // terminal_mismatch_GUUG -0.2283242981, // terminal_mismatch_GUUU 0.0115363879, // terminal_mismatch_UAAA -0.3923408221, // terminal_mismatch_UAAC 0.0566106360, // terminal_mismatch_UAAG -0.1251485388, // terminal_mismatch_UAAU -0.0654507476, // terminal_mismatch_UACA -0.3167200568, // terminal_mismatch_UACC 0.0022583840, // terminal_mismatch_UACG -0.4222177240, // terminal_mismatch_UACU 0.5458416646, // terminal_mismatch_UAGA -0.2085887954, // terminal_mismatch_UAGC -0.1971766062, // terminal_mismatch_UAGG -0.4722410132, // terminal_mismatch_UAGU -0.1779642496, // terminal_mismatch_UAUA 0.1643454344, // terminal_mismatch_UAUC -0.5005617032, // terminal_mismatch_UAUG 0.1333867679, // terminal_mismatch_UAUU 0.0000000000, // terminal_mismatch_UCAA 0.0000000000, // terminal_mismatch_UCAC 0.0000000000, // terminal_mismatch_UCAG 0.0000000000, // terminal_mismatch_UCAU 0.0000000000, // terminal_mismatch_UCCA 0.0000000000, // terminal_mismatch_UCCC 0.0000000000, // terminal_mismatch_UCCG 0.0000000000, // terminal_mismatch_UCCU 0.0000000000, // terminal_mismatch_UCGA 0.0000000000, // terminal_mismatch_UCGC 0.0000000000, // terminal_mismatch_UCGG 0.0000000000, // terminal_mismatch_UCGU 0.0000000000, // terminal_mismatch_UCUA 0.0000000000, // terminal_mismatch_UCUC 0.0000000000, // terminal_mismatch_UCUG 0.0000000000, // terminal_mismatch_UCUU 0.1218741278, // terminal_mismatch_UGAA 0.1990260141, // terminal_mismatch_UGAC 0.0468189393, // terminal_mismatch_UGAG 0.3256264491, // terminal_mismatch_UGAU 0.1186812326, // terminal_mismatch_UGCA -0.1851065102, // terminal_mismatch_UGCC -0.0431151268, // terminal_mismatch_UGCG -0.6150608139, // terminal_mismatch_UGCU 0.7549332180, // terminal_mismatch_UGGA -0.3150708483, // terminal_mismatch_UGGC 0.1569582926, // terminal_mismatch_UGGG -0.5149700070, // terminal_mismatch_UGGU -0.2926246029, // terminal_mismatch_UGUA 0.1373068149, // terminal_mismatch_UGUC -0.0542233336, // terminal_mismatch_UGUG 0.0308677692, // terminal_mismatch_UGUU 0.0000000000, // terminal_mismatch_UUAA 0.0000000000, // terminal_mismatch_UUAC 0.0000000000, // terminal_mismatch_UUAG 0.0000000000, // terminal_mismatch_UUAU 0.0000000000, // terminal_mismatch_UUCA 0.0000000000, // terminal_mismatch_UUCC 0.0000000000, // terminal_mismatch_UUCG 0.0000000000, // terminal_mismatch_UUCU 0.0000000000, // terminal_mismatch_UUGA 0.0000000000, // terminal_mismatch_UUGC 0.0000000000, // terminal_mismatch_UUGG 0.0000000000, // terminal_mismatch_UUGU 0.0000000000, // terminal_mismatch_UUUA 0.0000000000, // terminal_mismatch_UUUC 0.0000000000, // terminal_mismatch_UUUG 0.0000000000, // terminal_mismatch_UUUU -5.9931801580, // hairpin_length_at_least_0 -3.1081057620, // hairpin_length_at_least_1 0.4168976347, // hairpin_length_at_least_2 2.2054190660, // hairpin_length_at_least_3 1.9267496920, // hairpin_length_at_least_4 -0.5873245329, // hairpin_length_at_least_5 -0.0827571778, // hairpin_length_at_least_6 0.5783889844, // hairpin_length_at_least_7 -0.7220883372, // hairpin_length_at_least_8 -0.1725874624, // hairpin_length_at_least_9 -0.3025089867, // hairpin_length_at_least_10 -0.0296315939, // hairpin_length_at_least_11 -0.9268995948, // hairpin_length_at_least_12 -0.0315775398, // hairpin_length_at_least_13 -0.1022472101, // hairpin_length_at_least_14 0.1901407346, // hairpin_length_at_least_15 -0.0928090983, // hairpin_length_at_least_16 0.1690448408, // hairpin_length_at_least_17 -0.0817256647, // hairpin_length_at_least_18 -0.3445939031, // hairpin_length_at_least_19 -0.1091502940, // hairpin_length_at_least_20 -0.2903523693, // hairpin_length_at_least_21 -0.3393713667, // hairpin_length_at_least_22 -0.1915364117, // hairpin_length_at_least_23 -0.0501920938, // hairpin_length_at_least_24 -0.0387462092, // hairpin_length_at_least_25 0.0475147075, // hairpin_length_at_least_26 0.0674432193, // hairpin_length_at_least_27 0.0972187573, // hairpin_length_at_least_28 0.1673131733, // hairpin_length_at_least_29 0.2329937249, // hairpin_length_at_least_30 -0.1754591076, // internal_explicit_1_1 0.0308378710, // internal_explicit_1_2 -0.1715654350, // internal_explicit_1_3 -0.2294680983, // internal_explicit_1_4 -0.1304072693, // internal_explicit_2_2 -0.0773032955, // internal_explicit_2_3 0.2782767264, // internal_explicit_2_4 -0.0289894962, // internal_explicit_3_3 0.3112350694, // internal_explicit_3_4 -0.3226348245, // internal_explicit_4_4 -2.3995484720, // bulge_length_at_least_1 -0.8945183117, // bulge_length_at_least_2 -0.9088550909, // bulge_length_at_least_3 -0.8412474755, // bulge_length_at_least_4 -0.4365479343, // bulge_length_at_least_5 -0.5699187801, // bulge_length_at_least_6 0.2002834224, // bulge_length_at_least_7 0.7538761358, // bulge_length_at_least_8 -0.6045045455, // bulge_length_at_least_9 -0.7200948098, // bulge_length_at_least_10 -0.5136721921, // bulge_length_at_least_11 -0.3614726679, // bulge_length_at_least_12 -0.2614454392, // bulge_length_at_least_13 -0.1593926893, // bulge_length_at_least_14 -0.0862466828, // bulge_length_at_least_15 -0.0310709100, // bulge_length_at_least_16 -0.0109722203, // bulge_length_at_least_17 0.0300122028, // bulge_length_at_least_18 0.0475912379, // bulge_length_at_least_19 -0.0429617207, // bulge_length_at_least_20 -0.0179189966, // bulge_length_at_least_21 -0.0780055152, // bulge_length_at_least_22 -0.0709932643, // bulge_length_at_least_23 -0.0576795290, // bulge_length_at_least_24 -0.0463379468, // bulge_length_at_least_25 -0.0355942046, // bulge_length_at_least_26 -0.0267493439, // bulge_length_at_least_27 -0.0181895797, // bulge_length_at_least_28 -0.0105230073, // bulge_length_at_least_29 -0.0051536268, // bulge_length_at_least_30 -0.4290614430, // internal_length_at_least_2 -0.3532111501, // internal_length_at_least_3 -0.3963797535, // internal_length_at_least_4 -0.3111199175, // internal_length_at_least_5 -0.2551945472, // internal_length_at_least_6 -0.0514911690, // internal_length_at_least_7 -0.0431900241, // internal_length_at_least_8 0.0019854895, // internal_length_at_least_9 -0.1761513136, // internal_length_at_least_10 -0.2639686207, // internal_length_at_least_11 -0.3460613577, // internal_length_at_least_12 -0.2926603079, // internal_length_at_least_13 -0.0362425031, // internal_length_at_least_14 -0.1199953761, // internal_length_at_least_15 -0.0435477193, // internal_length_at_least_16 -0.0820929313, // internal_length_at_least_17 -0.0071132260, // internal_length_at_least_18 0.0235482485, // internal_length_at_least_19 0.0306697357, // internal_length_at_least_20 -0.0661824109, // internal_length_at_least_21 -0.1316092383, // internal_length_at_least_22 -0.1407995514, // internal_length_at_least_23 -0.0660029186, // internal_length_at_least_24 -0.0777920474, // internal_length_at_least_25 -0.0508420126, // internal_length_at_least_26 -0.0413987560, // internal_length_at_least_27 0.0032765834, // internal_length_at_least_28 0.0059245828, // internal_length_at_least_29 0.0068757380, // internal_length_at_least_30 -0.5467082599, // internal_symmetric_length_at_least_1 -0.3854701647, // internal_symmetric_length_at_least_2 -0.2588466401, // internal_symmetric_length_at_least_3 -0.2340836745, // internal_symmetric_length_at_least_4 0.1450577765, // internal_symmetric_length_at_least_5 -0.6562932515, // internal_symmetric_length_at_least_6 -0.3021088369, // internal_symmetric_length_at_least_7 -0.0303227527, // internal_symmetric_length_at_least_8 -0.3517944058, // internal_symmetric_length_at_least_9 -0.2159132506, // internal_symmetric_length_at_least_10 -0.1228270454, // internal_symmetric_length_at_least_11 -0.1552208595, // internal_symmetric_length_at_least_12 -0.0854112074, // internal_symmetric_length_at_least_13 -0.0459210980, // internal_symmetric_length_at_least_14 -0.0223223424, // internal_symmetric_length_at_least_15 -2.1056467190, // internal_asymmetry_at_least_1 -0.5520140431, // internal_asymmetry_at_least_2 -0.5770707670, // internal_asymmetry_at_least_3 -0.6136667847, // internal_asymmetry_at_least_4 -0.3057156841, // internal_asymmetry_at_least_5 -0.1155052001, // internal_asymmetry_at_least_6 -0.2105612231, // internal_asymmetry_at_least_7 -0.3145743130, // internal_asymmetry_at_least_8 -0.3148961681, // internal_asymmetry_at_least_9 -0.0901818949, // internal_asymmetry_at_least_10 -0.2200026794, // internal_asymmetry_at_least_11 -0.1406483243, // internal_asymmetry_at_least_12 -0.2162411259, // internal_asymmetry_at_least_13 -0.1725531435, // internal_asymmetry_at_least_14 -0.1558911866, // internal_asymmetry_at_least_15 -0.1040858663, // internal_asymmetry_at_least_16 -0.0696768423, // internal_asymmetry_at_least_17 -0.0410597749, // internal_asymmetry_at_least_18 -0.0157062432, // internal_asymmetry_at_least_19 0.0138200064, // internal_asymmetry_at_least_20 0.0413198856, // internal_asymmetry_at_least_21 0.0359418595, // internal_asymmetry_at_least_22 0.0282218628, // internal_asymmetry_at_least_23 0.0163658587, // internal_asymmetry_at_least_24 0.0255005618, // internal_asymmetry_at_least_25 0.0334803279, // internal_asymmetry_at_least_26 0.0397192441, // internal_asymmetry_at_least_27 -0.0025451139, // internal_asymmetry_at_least_28 -0.1216861662, // bulge_0x1_nucleotides_A -0.0711124113, // bulge_0x1_nucleotides_C 0.0089470266, // bulge_0x1_nucleotides_G -0.0026857637, // bulge_0x1_nucleotides_U 0.2944404686, // internal_1x1_nucleotides_AA 0.0864136097, // internal_1x1_nucleotides_AC -0.3664197228, // internal_1x1_nucleotides_AG -0.2053107048, // internal_1x1_nucleotides_AU -0.1582543624, // internal_1x1_nucleotides_CC 0.4175273724, // internal_1x1_nucleotides_CG 0.1368762582, // internal_1x1_nucleotides_CU -0.1193514754, // internal_1x1_nucleotides_GG -0.4188101413, // internal_1x1_nucleotides_GU 0.1471406530, // internal_1x1_nucleotides_UU 0.0000000000, // helix_stacking_AAAA 0.0000000000, // helix_stacking_AAAC 0.0000000000, // helix_stacking_AAAG 0.0000000000, // helix_stacking_AAAU 0.0000000000, // helix_stacking_AACA 0.0000000000, // helix_stacking_AACC 0.0000000000, // helix_stacking_AACG 0.0000000000, // helix_stacking_AACU 0.0000000000, // helix_stacking_AAGA 0.0000000000, // helix_stacking_AAGC 0.0000000000, // helix_stacking_AAGG 0.0000000000, // helix_stacking_AAGU 0.0000000000, // helix_stacking_AAUA 0.0000000000, // helix_stacking_AAUC 0.0000000000, // helix_stacking_AAUG 0.0000000000, // helix_stacking_AAUU 0.0000000000, // helix_stacking_ACAC 0.0000000000, // helix_stacking_ACAG 0.0000000000, // helix_stacking_ACAU 0.0000000000, // helix_stacking_ACCA 0.0000000000, // helix_stacking_ACCC 0.0000000000, // helix_stacking_ACCG 0.0000000000, // helix_stacking_ACCU 0.0000000000, // helix_stacking_ACGA 0.0000000000, // helix_stacking_ACGC 0.0000000000, // helix_stacking_ACGG 0.0000000000, // helix_stacking_ACGU 0.0000000000, // helix_stacking_ACUA 0.0000000000, // helix_stacking_ACUC 0.0000000000, // helix_stacking_ACUG 0.0000000000, // helix_stacking_ACUU 0.0000000000, // helix_stacking_AGAC 0.0000000000, // helix_stacking_AGAG 0.0000000000, // helix_stacking_AGAU 0.0000000000, // helix_stacking_AGCC 0.0000000000, // helix_stacking_AGCG 0.0000000000, // helix_stacking_AGCU 0.0000000000, // helix_stacking_AGGA 0.0000000000, // helix_stacking_AGGC 0.0000000000, // helix_stacking_AGGG 0.0000000000, // helix_stacking_AGGU 0.0000000000, // helix_stacking_AGUA 0.0000000000, // helix_stacking_AGUC 0.0000000000, // helix_stacking_AGUG 0.0000000000, // helix_stacking_AGUU 0.0000000000, // helix_stacking_AUAC 0.0000000000, // helix_stacking_AUAG 0.1482005248, // helix_stacking_AUAU 0.0000000000, // helix_stacking_AUCC 0.4343497127, // helix_stacking_AUCG 0.0000000000, // helix_stacking_AUCU 0.7079642577, // helix_stacking_AUGC 0.0000000000, // helix_stacking_AUGG -0.1010777582, // helix_stacking_AUGU 0.2432566560, // helix_stacking_AUUA 0.0000000000, // helix_stacking_AUUC 0.1623654243, // helix_stacking_AUUG 0.0000000000, // helix_stacking_AUUU 0.0000000000, // helix_stacking_CAAC 0.0000000000, // helix_stacking_CAAG 0.0000000000, // helix_stacking_CAAU 0.0000000000, // helix_stacking_CACC 0.0000000000, // helix_stacking_CACG 0.0000000000, // helix_stacking_CACU 0.0000000000, // helix_stacking_CAGC 0.0000000000, // helix_stacking_CAGG 0.0000000000, // helix_stacking_CAGU 0.0000000000, // helix_stacking_CAUC 0.0000000000, // helix_stacking_CAUG 0.0000000000, // helix_stacking_CAUU 0.0000000000, // helix_stacking_CCAG 0.0000000000, // helix_stacking_CCAU 0.0000000000, // helix_stacking_CCCC 0.0000000000, // helix_stacking_CCCG 0.0000000000, // helix_stacking_CCCU 0.0000000000, // helix_stacking_CCGC 0.0000000000, // helix_stacking_CCGG 0.0000000000, // helix_stacking_CCGU 0.0000000000, // helix_stacking_CCUC 0.0000000000, // helix_stacking_CCUG 0.0000000000, // helix_stacking_CCUU 0.0000000000, // helix_stacking_CGAG 0.4878707793, // helix_stacking_CGAU 0.8481320247, // helix_stacking_CGCG 0.0000000000, // helix_stacking_CGCU 0.4784248478, // helix_stacking_CGGC 0.0000000000, // helix_stacking_CGGG -0.1811268205, // helix_stacking_CGGU 0.0000000000, // helix_stacking_CGUC 0.4849351028, // helix_stacking_CGUG 0.0000000000, // helix_stacking_CGUU 0.0000000000, // helix_stacking_CUAG 0.0000000000, // helix_stacking_CUAU 0.0000000000, // helix_stacking_CUCG 0.0000000000, // helix_stacking_CUCU 0.0000000000, // helix_stacking_CUGG 0.0000000000, // helix_stacking_CUGU 0.0000000000, // helix_stacking_CUUC 0.0000000000, // helix_stacking_CUUG 0.0000000000, // helix_stacking_CUUU 0.0000000000, // helix_stacking_GAAG 0.0000000000, // helix_stacking_GAAU 0.0000000000, // helix_stacking_GACG 0.0000000000, // helix_stacking_GACU 0.0000000000, // helix_stacking_GAGG 0.0000000000, // helix_stacking_GAGU 0.0000000000, // helix_stacking_GAUG 0.0000000000, // helix_stacking_GAUU 0.5551785831, // helix_stacking_GCAU 0.5008324248, // helix_stacking_GCCG 0.0000000000, // helix_stacking_GCCU 0.0000000000, // helix_stacking_GCGG 0.2165962476, // helix_stacking_GCGU 0.4864603589, // helix_stacking_GCUG 0.0000000000, // helix_stacking_GCUU 0.0000000000, // helix_stacking_GGAU 0.0000000000, // helix_stacking_GGCU 0.0000000000, // helix_stacking_GGGG 0.0000000000, // helix_stacking_GGGU 0.0000000000, // helix_stacking_GGUG 0.0000000000, // helix_stacking_GGUU -0.0466536503, // helix_stacking_GUAU 0.0000000000, // helix_stacking_GUCU 0.1833447295, // helix_stacking_GUGU -0.2858970755, // helix_stacking_GUUG 0.0000000000, // helix_stacking_GUUU 0.3897593783, // helix_stacking_UAAU 0.0000000000, // helix_stacking_UACU -0.1157333764, // helix_stacking_UAGU 0.0000000000, // helix_stacking_UAUU 0.0000000000, // helix_stacking_UCCU 0.0000000000, // helix_stacking_UCGU 0.0000000000, // helix_stacking_UCUU 0.1202965380, // helix_stacking_UGGU 0.0000000000, // helix_stacking_UGUU 0.0000000000, // helix_stacking_UUUU 0.0000000000, // helix_closing_AA 0.0000000000, // helix_closing_AC 0.0000000000, // helix_closing_AG -0.9770893163, // helix_closing_AU 0.0000000000, // helix_closing_CA 0.0000000000, // helix_closing_CC -0.4574650937, // helix_closing_CG 0.0000000000, // helix_closing_CU 0.0000000000, // helix_closing_GA -0.8265995623, // helix_closing_GC 0.0000000000, // helix_closing_GG -1.0516789280, // helix_closing_GU -0.9246140521, // helix_closing_UA 0.0000000000, // helix_closing_UC -0.3698708172, // helix_closing_UG 0.0000000000, // helix_closing_UU -1.1990550760, // multi_base -0.1983300391, // multi_unpaired -0.9253883752, // multi_paired 0.0000000000, // dangle_left_AAA 0.0000000000, // dangle_left_AAC 0.0000000000, // dangle_left_AAG 0.0000000000, // dangle_left_AAU 0.0000000000, // dangle_left_ACA 0.0000000000, // dangle_left_ACC 0.0000000000, // dangle_left_ACG 0.0000000000, // dangle_left_ACU 0.0000000000, // dangle_left_AGA 0.0000000000, // dangle_left_AGC 0.0000000000, // dangle_left_AGG 0.0000000000, // dangle_left_AGU -0.1251037681, // dangle_left_AUA 0.0441606708, // dangle_left_AUC -0.0254187908, // dangle_left_AUG 0.0078509847, // dangle_left_AUU 0.0000000000, // dangle_left_CAA 0.0000000000, // dangle_left_CAC 0.0000000000, // dangle_left_CAG 0.0000000000, // dangle_left_CAU 0.0000000000, // dangle_left_CCA 0.0000000000, // dangle_left_CCC 0.0000000000, // dangle_left_CCG 0.0000000000, // dangle_left_CCU 0.0722438137, // dangle_left_CGA 0.0527928187, // dangle_left_CGC 0.1009554299, // dangle_left_CGG -0.1515059013, // dangle_left_CGU 0.0000000000, // dangle_left_CUA 0.0000000000, // dangle_left_CUC 0.0000000000, // dangle_left_CUG 0.0000000000, // dangle_left_CUU 0.0000000000, // dangle_left_GAA 0.0000000000, // dangle_left_GAC 0.0000000000, // dangle_left_GAG 0.0000000000, // dangle_left_GAU -0.1829535099, // dangle_left_GCA 0.0339300039, // dangle_left_GCC 0.1335339061, // dangle_left_GCG -0.1604274506, // dangle_left_GCU 0.0000000000, // dangle_left_GGA 0.0000000000, // dangle_left_GGC 0.0000000000, // dangle_left_GGG 0.0000000000, // dangle_left_GGU -0.0651751134, // dangle_left_GUA -0.0425088242, // dangle_left_GUC 0.0287597181, // dangle_left_GUG -0.0435972743, // dangle_left_GUU -0.0337384766, // dangle_left_UAA -0.0050703243, // dangle_left_UAC -0.1186861149, // dangle_left_UAG -0.0116235773, // dangle_left_UAU 0.0000000000, // dangle_left_UCA 0.0000000000, // dangle_left_UCC 0.0000000000, // dangle_left_UCG 0.0000000000, // dangle_left_UCU -0.0804713915, // dangle_left_UGA 0.0016080007, // dangle_left_UGC 0.1016272216, // dangle_left_UGG -0.0920084283, // dangle_left_UGU 0.0000000000, // dangle_left_UUA 0.0000000000, // dangle_left_UUC 0.0000000000, // dangle_left_UUG 0.0000000000, // dangle_left_UUU 0.0000000000, // dangle_right_AAA 0.0000000000, // dangle_right_AAC 0.0000000000, // dangle_right_AAG 0.0000000000, // dangle_right_AAU 0.0000000000, // dangle_right_ACA 0.0000000000, // dangle_right_ACC 0.0000000000, // dangle_right_ACG 0.0000000000, // dangle_right_ACU 0.0000000000, // dangle_right_AGA 0.0000000000, // dangle_right_AGC 0.0000000000, // dangle_right_AGG 0.0000000000, // dangle_right_AGU 0.0323257820, // dangle_right_AUA -0.0909681949, // dangle_right_AUC -0.0740750973, // dangle_right_AUG -0.0162115738, // dangle_right_AUU 0.0000000000, // dangle_right_CAA 0.0000000000, // dangle_right_CAC 0.0000000000, // dangle_right_CAG 0.0000000000, // dangle_right_CAU 0.0000000000, // dangle_right_CCA 0.0000000000, // dangle_right_CCC 0.0000000000, // dangle_right_CCG 0.0000000000, // dangle_right_CCU 0.2133964379, // dangle_right_CGA -0.0623481099, // dangle_right_CGC -0.0700853104, // dangle_right_CGG -0.2141912285, // dangle_right_CGU 0.0000000000, // dangle_right_CUA 0.0000000000, // dangle_right_CUC 0.0000000000, // dangle_right_CUG 0.0000000000, // dangle_right_CUU 0.0000000000, // dangle_right_GAA 0.0000000000, // dangle_right_GAC 0.0000000000, // dangle_right_GAG 0.0000000000, // dangle_right_GAU 0.0158195755, // dangle_right_GCA 0.0056443201, // dangle_right_GCC -0.0094329769, // dangle_right_GCG -0.2597793095, // dangle_right_GCU 0.0000000000, // dangle_right_GGA 0.0000000000, // dangle_right_GGC 0.0000000000, // dangle_right_GGG 0.0000000000, // dangle_right_GGU -0.0448027178, // dangle_right_GUA -0.0732121300, // dangle_right_GUC 0.0127049487, // dangle_right_GUG -0.0571703399, // dangle_right_GUU -0.1631918513, // dangle_right_UAA 0.0676930499, // dangle_right_UAC -0.0878907441, // dangle_right_UAG -0.0552557001, // dangle_right_UAU 0.0000000000, // dangle_right_UCA 0.0000000000, // dangle_right_UCC 0.0000000000, // dangle_right_UCG 0.0000000000, // dangle_right_UCU 0.0410545819, // dangle_right_UGA -0.0081366426, // dangle_right_UGC -0.0380859202, // dangle_right_UGG -0.0862937343, // dangle_right_UGU 0.0000000000, // dangle_right_UUA 0.0000000000, // dangle_right_UUC 0.0000000000, // dangle_right_UUG 0.0000000000, // dangle_right_UUU -0.0097288309, // external_unpaired -0.0009674111 // external_paired }; return std::vector(values, values + 708); } ///////////////////////////////////////////////////////////////// // GetDefaultNoncomplementaryValues() // // Retrieve default parameter values. ///////////////////////////////////////////////////////////////// template std::vector GetDefaultNoncomplementaryValues() { RealT values[] = { -1.4553810520, // base_pair_AA -1.6811729540, // base_pair_AC -1.4749457500, // base_pair_AG -0.0876653056, // base_pair_AU -1.4522350750, // base_pair_CC 0.8402649820, // base_pair_CG -1.7459919730, // base_pair_CU -1.3034063060, // base_pair_GG -0.3219267076, // base_pair_GU -1.1196768820, // base_pair_UU 0.0354865073, // terminal_mismatch_AAAA -0.1530635317, // terminal_mismatch_AAAC -0.1376895893, // terminal_mismatch_AAAG -0.0976081047, // terminal_mismatch_AAAU -0.0901562693, // terminal_mismatch_AACA -0.0173477569, // terminal_mismatch_AACC -0.0511912910, // terminal_mismatch_AACG -0.0276276206, // terminal_mismatch_AACU 0.1157343804, // terminal_mismatch_AAGA 0.0480545698, // terminal_mismatch_AAGC -0.1768981931, // terminal_mismatch_AAGG -0.0413001097, // terminal_mismatch_AAGU -0.0564212344, // terminal_mismatch_AAUA 0.0402627577, // terminal_mismatch_AAUC -0.1131403360, // terminal_mismatch_AAUG 0.2857400342, // terminal_mismatch_AAUU -0.0317494979, // terminal_mismatch_ACAA -0.0558409921, // terminal_mismatch_ACAC -0.1095104674, // terminal_mismatch_ACAG 0.0788614779, // terminal_mismatch_ACAU 0.2040702031, // terminal_mismatch_ACCA 0.0242609466, // terminal_mismatch_ACCC -0.0673221061, // terminal_mismatch_ACCG -0.0337625797, // terminal_mismatch_ACCU 0.0144758186, // terminal_mismatch_ACGA -0.0181655414, // terminal_mismatch_ACGC -0.0123244933, // terminal_mismatch_ACGG 0.0220538040, // terminal_mismatch_ACGU -0.0954346345, // terminal_mismatch_ACUA 0.0249455833, // terminal_mismatch_ACUC -0.0518815910, // terminal_mismatch_ACUG -0.0927614943, // terminal_mismatch_ACUU -0.0848231848, // terminal_mismatch_AGAA -0.0794464582, // terminal_mismatch_AGAC -0.1037895444, // terminal_mismatch_AGAG -0.0949604634, // terminal_mismatch_AGAU -0.0420234813, // terminal_mismatch_AGCA 0.0434131739, // terminal_mismatch_AGCC 0.2132451101, // terminal_mismatch_AGCG 0.1819992194, // terminal_mismatch_AGCU -0.1623879358, // terminal_mismatch_AGGA -0.0888318631, // terminal_mismatch_AGGC -0.0829075809, // terminal_mismatch_AGGG 0.0594955867, // terminal_mismatch_AGGU -0.0611732190, // terminal_mismatch_AGUA -0.0612852178, // terminal_mismatch_AGUC -0.1054431644, // terminal_mismatch_AGUG 0.0694935639, // terminal_mismatch_AGUU -0.0045851066, // terminal_mismatch_AUAA -0.0787888743, // terminal_mismatch_AUAC -0.0261926842, // terminal_mismatch_AUAG -0.3376671294, // terminal_mismatch_AUAU 0.1407209183, // terminal_mismatch_AUCA 0.1963991331, // terminal_mismatch_AUCC 0.0982888945, // terminal_mismatch_AUCG -0.3588639465, // terminal_mismatch_AUCU 0.4005052091, // terminal_mismatch_AUGA 0.0178195832, // terminal_mismatch_AUGC 0.0494665502, // terminal_mismatch_AUGG -0.2847832400, // terminal_mismatch_AUGU 0.0082631685, // terminal_mismatch_AUUA 0.1196292682, // terminal_mismatch_AUUC -0.1635291659, // terminal_mismatch_AUUG 0.2247224398, // terminal_mismatch_AUUU -0.1898713443, // terminal_mismatch_CAAA -0.0333566729, // terminal_mismatch_CAAC 0.0872316791, // terminal_mismatch_CAAG -0.0717281695, // terminal_mismatch_CAAU -0.0219850401, // terminal_mismatch_CACA -0.0553786664, // terminal_mismatch_CACC -0.0970147097, // terminal_mismatch_CACG -0.0890545223, // terminal_mismatch_CACU 0.1678518209, // terminal_mismatch_CAGA -0.0635231872, // terminal_mismatch_CAGC 0.0618238264, // terminal_mismatch_CAGG -0.0490267003, // terminal_mismatch_CAGU -0.0613188256, // terminal_mismatch_CAUA -0.0792933062, // terminal_mismatch_CAUC -0.1723035626, // terminal_mismatch_CAUG 0.1880000212, // terminal_mismatch_CAUU -0.0017250768, // terminal_mismatch_CCAA -0.1354308286, // terminal_mismatch_CCAC 0.1624126758, // terminal_mismatch_CCAG -0.0692794425, // terminal_mismatch_CCAU -0.1537286390, // terminal_mismatch_CCCA -0.0734554444, // terminal_mismatch_CCCC 0.0068614142, // terminal_mismatch_CCCG -0.0773961705, // terminal_mismatch_CCCU 0.1364828673, // terminal_mismatch_CCGA -0.0516673223, // terminal_mismatch_CCGC 0.2693659476, // terminal_mismatch_CCGG 0.1065688311, // terminal_mismatch_CCGU -0.1021275330, // terminal_mismatch_CCUA -0.0470691918, // terminal_mismatch_CCUC 0.0453145799, // terminal_mismatch_CCUG -0.1436397983, // terminal_mismatch_CCUU 0.3029696819, // terminal_mismatch_CGAA -0.0941403715, // terminal_mismatch_CGAC -0.1515946813, // terminal_mismatch_CGAG -0.2189502915, // terminal_mismatch_CGAU 0.2069876839, // terminal_mismatch_CGCA 0.0294577389, // terminal_mismatch_CGCC 0.1520809123, // terminal_mismatch_CGCG 0.2517091925, // terminal_mismatch_CGCU 0.4215461402, // terminal_mismatch_CGGA -0.3878585773, // terminal_mismatch_CGGC 0.1308663325, // terminal_mismatch_CGGG -0.4961206727, // terminal_mismatch_CGGU -0.2549457084, // terminal_mismatch_CGUA -0.1386448896, // terminal_mismatch_CGUC -0.1523039446, // terminal_mismatch_CGUG 0.0879390997, // terminal_mismatch_CGUU 0.0638783798, // terminal_mismatch_CUAA -0.0781217458, // terminal_mismatch_CUAC 0.1052978704, // terminal_mismatch_CUAG -0.0824793182, // terminal_mismatch_CUAU -0.0745853021, // terminal_mismatch_CUCA -0.1149551661, // terminal_mismatch_CUCC -0.0746381790, // terminal_mismatch_CUCG 0.0037041991, // terminal_mismatch_CUCU -0.0561484947, // terminal_mismatch_CUGA -0.0797613716, // terminal_mismatch_CUGC 0.0529088365, // terminal_mismatch_CUGG -0.0961321157, // terminal_mismatch_CUGU 0.1260507476, // terminal_mismatch_CUUA 0.0596327155, // terminal_mismatch_CUUC 0.0325063751, // terminal_mismatch_CUUG -0.0550074397, // terminal_mismatch_CUUU 0.3319532212, // terminal_mismatch_GAAA -0.0232540841, // terminal_mismatch_GAAC -0.0788848188, // terminal_mismatch_GAAG -0.0491212286, // terminal_mismatch_GAAU -0.1480164013, // terminal_mismatch_GACA 0.0971988160, // terminal_mismatch_GACC -0.0819417006, // terminal_mismatch_GACG -0.0307180827, // terminal_mismatch_GACU 0.1596878404, // terminal_mismatch_GAGA -0.0313071233, // terminal_mismatch_GAGC -0.1694026596, // terminal_mismatch_GAGG -0.0293065150, // terminal_mismatch_GAGU -0.0635010819, // terminal_mismatch_GAUA -0.0213256998, // terminal_mismatch_GAUC 0.0031648068, // terminal_mismatch_GAUG 0.0414446294, // terminal_mismatch_GAUU -0.0107456522, // terminal_mismatch_GCAA -0.2344372673, // terminal_mismatch_GCAC 0.1235368250, // terminal_mismatch_GCAG -0.3240115044, // terminal_mismatch_GCAU -0.2463240629, // terminal_mismatch_GCCA 0.0812993583, // terminal_mismatch_GCCC -0.3418477741, // terminal_mismatch_GCCG 0.1141264232, // terminal_mismatch_GCCU 0.4502405743, // terminal_mismatch_GCGA -0.1295241897, // terminal_mismatch_GCGC 0.1976837690, // terminal_mismatch_GCGG -0.5725821693, // terminal_mismatch_GCGU -0.2527075422, // terminal_mismatch_GCUA 0.1861584031, // terminal_mismatch_GCUC 0.1973216517, // terminal_mismatch_GCUG 0.5585036196, // terminal_mismatch_GCUU -0.0447027731, // terminal_mismatch_GGAA -0.0172432983, // terminal_mismatch_GGAC -0.1217482982, // terminal_mismatch_GGAG -0.1684999018, // terminal_mismatch_GGAU 0.0280178196, // terminal_mismatch_GGCA -0.0167422392, // terminal_mismatch_GGCC -0.0350423273, // terminal_mismatch_GGCG -0.0327612057, // terminal_mismatch_GGCU -0.0133016361, // terminal_mismatch_GGGA 0.0104729725, // terminal_mismatch_GGGC 0.3582150361, // terminal_mismatch_GGGG -0.0301061889, // terminal_mismatch_GGGU -0.1529902536, // terminal_mismatch_GGUA -0.0770899002, // terminal_mismatch_GGUC -0.0201977032, // terminal_mismatch_GGUG 0.0585588028, // terminal_mismatch_GGUU -0.0825799796, // terminal_mismatch_GUAA 0.1861922864, // terminal_mismatch_GUAC 0.0300896357, // terminal_mismatch_GUAG -0.3405347249, // terminal_mismatch_GUAU 0.3747115441, // terminal_mismatch_GUCA 0.1923350740, // terminal_mismatch_GUCC -0.1968330458, // terminal_mismatch_GUCG 0.0706461954, // terminal_mismatch_GUCU -0.1505860398, // terminal_mismatch_GUGA -0.1310959680, // terminal_mismatch_GUGC 0.0688261318, // terminal_mismatch_GUGG -0.0310167970, // terminal_mismatch_GUGU -0.0882400497, // terminal_mismatch_GUUA 0.1283837462, // terminal_mismatch_GUUC -0.1385590960, // terminal_mismatch_GUUG -0.0300234821, // terminal_mismatch_GUUU 0.0228308237, // terminal_mismatch_UAAA -0.1983025729, // terminal_mismatch_UAAC 0.0974699976, // terminal_mismatch_UAAG -0.1433175754, // terminal_mismatch_UAAU 0.1996635373, // terminal_mismatch_UACA 0.1225010573, // terminal_mismatch_UACC 0.2514404349, // terminal_mismatch_UACG -0.0435151795, // terminal_mismatch_UACU 0.2185566232, // terminal_mismatch_UAGA -0.0067251441, // terminal_mismatch_UAGC -0.0490701609, // terminal_mismatch_UAGG -0.2602507314, // terminal_mismatch_UAGU 0.0218557215, // terminal_mismatch_UAUA 0.1683684793, // terminal_mismatch_UAUC -0.1971153840, // terminal_mismatch_UAUG 0.0999160464, // terminal_mismatch_UAUU 0.0475439701, // terminal_mismatch_UCAA -0.1076421324, // terminal_mismatch_UCAC 0.0005462953, // terminal_mismatch_UCAG -0.0907500387, // terminal_mismatch_UCAU -0.0099295948, // terminal_mismatch_UCCA 0.0862504944, // terminal_mismatch_UCCC 0.0101638720, // terminal_mismatch_UCCG -0.0388469035, // terminal_mismatch_UCCU 0.0793779168, // terminal_mismatch_UCGA 0.0733326335, // terminal_mismatch_UCGC -0.0579450991, // terminal_mismatch_UCGG -0.0696754661, // terminal_mismatch_UCGU -0.0174492557, // terminal_mismatch_UCUA -0.1543539480, // terminal_mismatch_UCUC -0.0964656697, // terminal_mismatch_UCUG 0.1799949698, // terminal_mismatch_UCUU 0.2216946906, // terminal_mismatch_UGAA 0.2816462956, // terminal_mismatch_UGAC 0.3821923258, // terminal_mismatch_UGAG -0.1799939484, // terminal_mismatch_UGAU -0.0259164049, // terminal_mismatch_UGCA 0.0965678065, // terminal_mismatch_UGCC 0.1574431837, // terminal_mismatch_UGCG -0.1959233487, // terminal_mismatch_UGCU 0.4898105659, // terminal_mismatch_UGGA -0.3450962473, // terminal_mismatch_UGGC -0.0184266528, // terminal_mismatch_UGGG -0.3829115707, // terminal_mismatch_UGGU -0.3351997341, // terminal_mismatch_UGUA 0.1524349141, // terminal_mismatch_UGUC -0.1513850177, // terminal_mismatch_UGUG 0.0431779248, // terminal_mismatch_UGUU 0.0276986574, // terminal_mismatch_UUAA -0.0916596157, // terminal_mismatch_UUAC 0.0667501263, // terminal_mismatch_UUAG -0.1342800896, // terminal_mismatch_UUAU -0.0218788541, // terminal_mismatch_UUCA -0.0952206190, // terminal_mismatch_UUCC -0.0201863033, // terminal_mismatch_UUCG -0.0642781539, // terminal_mismatch_UUCU 0.1835869429, // terminal_mismatch_UUGA -0.0436922833, // terminal_mismatch_UUGC 0.0895434092, // terminal_mismatch_UUGG -0.0345348559, // terminal_mismatch_UUGU 0.0058818715, // terminal_mismatch_UUUA -0.0592426431, // terminal_mismatch_UUUC -0.0957648610, // terminal_mismatch_UUUG 0.0951280272, // terminal_mismatch_UUUU -7.0018938340, // hairpin_length_at_least_0 -0.8108827120, // hairpin_length_at_least_1 0.9459053555, // hairpin_length_at_least_2 1.9431663380, // hairpin_length_at_least_3 0.9552748326, // hairpin_length_at_least_4 -0.3580276865, // hairpin_length_at_least_5 -0.0958231689, // hairpin_length_at_least_6 -0.0964579392, // hairpin_length_at_least_7 -0.2889275791, // hairpin_length_at_least_8 -0.2894783109, // hairpin_length_at_least_9 0.1273574641, // hairpin_length_at_least_10 -0.2948182011, // hairpin_length_at_least_11 -0.7491577273, // hairpin_length_at_least_12 0.0439780943, // hairpin_length_at_least_13 -0.1619802369, // hairpin_length_at_least_14 -0.1588823981, // hairpin_length_at_least_15 -0.0418693521, // hairpin_length_at_least_16 0.1708840763, // hairpin_length_at_least_17 0.1565663030, // hairpin_length_at_least_18 -0.5294077573, // hairpin_length_at_least_19 0.0375850154, // hairpin_length_at_least_20 -0.1840024096, // hairpin_length_at_least_21 -0.4869328207, // hairpin_length_at_least_22 -0.2177204558, // hairpin_length_at_least_23 -0.0871135986, // hairpin_length_at_least_24 -0.2041734367, // hairpin_length_at_least_25 -0.2576012642, // hairpin_length_at_least_26 -0.1732091363, // hairpin_length_at_least_27 0.0030304683, // hairpin_length_at_least_28 0.1243949244, // hairpin_length_at_least_29 0.3326705310, // hairpin_length_at_least_30 0.0303202931, // internal_explicit_1_1 -0.1078180662, // internal_explicit_1_2 0.0203262414, // internal_explicit_1_3 -0.0583460487, // internal_explicit_1_4 -0.0504598348, // internal_explicit_2_2 0.0675303095, // internal_explicit_2_3 0.0955525727, // internal_explicit_2_4 0.0824593448, // internal_explicit_3_3 0.1746772079, // internal_explicit_3_4 -0.0600452627, // internal_explicit_4_4 -1.0890671250, // bulge_length_at_least_1 -1.4563128720, // bulge_length_at_least_2 -0.8642668045, // bulge_length_at_least_3 -0.7684476691, // bulge_length_at_least_4 -0.7987608753, // bulge_length_at_least_5 -0.4559018916, // bulge_length_at_least_6 0.1718975607, // bulge_length_at_least_7 0.1122889416, // bulge_length_at_least_8 -0.0090528401, // bulge_length_at_least_9 -0.3528021103, // bulge_length_at_least_10 -0.6210992298, // bulge_length_at_least_11 -0.4667844678, // bulge_length_at_least_12 -0.3545731643, // bulge_length_at_least_13 -0.1869129881, // bulge_length_at_least_14 -0.1029032471, // bulge_length_at_least_15 0.0124336094, // bulge_length_at_least_16 -0.0580629422, // bulge_length_at_least_17 0.0304866416, // bulge_length_at_least_18 0.0697462601, // bulge_length_at_least_19 -0.1053239465, // bulge_length_at_least_20 -0.0080276181, // bulge_length_at_least_21 -0.1693063411, // bulge_length_at_least_22 -0.1869480197, // bulge_length_at_least_23 -0.1338882236, // bulge_length_at_least_24 -0.0891294118, // bulge_length_at_least_25 -0.0444939799, // bulge_length_at_least_26 -0.0045356025, // bulge_length_at_least_27 -0.0638784923, // bulge_length_at_least_28 -0.0406102973, // bulge_length_at_least_29 -0.0196666910, // bulge_length_at_least_30 -0.8384982243, // internal_length_at_least_2 -0.8145392134, // internal_length_at_least_3 -0.4274419136, // internal_length_at_least_4 -0.3196080489, // internal_length_at_least_5 -0.3482691295, // internal_length_at_least_6 -0.0146731023, // internal_length_at_least_7 -0.1704908718, // internal_length_at_least_8 -0.2747498090, // internal_length_at_least_9 -0.2816993027, // internal_length_at_least_10 -0.0501309420, // internal_length_at_least_11 -0.1157513247, // internal_length_at_least_12 -0.3261911703, // internal_length_at_least_13 -0.0979074061, // internal_length_at_least_14 -0.2117025949, // internal_length_at_least_15 -0.2165291009, // internal_length_at_least_16 -0.0706027938, // internal_length_at_least_17 -0.0262894508, // internal_length_at_least_18 0.0818008512, // internal_length_at_least_19 0.1028309860, // internal_length_at_least_20 -0.1224144603, // internal_length_at_least_21 -0.3109183699, // internal_length_at_least_22 -0.2718499691, // internal_length_at_least_23 -0.0010460064, // internal_length_at_least_24 -0.1323005654, // internal_length_at_least_25 -0.1094109113, // internal_length_at_least_26 -0.0541578866, // internal_length_at_least_27 0.0376283763, // internal_length_at_least_28 0.0424713902, // internal_length_at_least_29 0.0664362943, // internal_length_at_least_30 -0.0291561738, // internal_symmetric_length_at_least_1 -0.0593842325, // internal_symmetric_length_at_least_2 -0.0100989593, // internal_symmetric_length_at_least_3 -0.0903255551, // internal_symmetric_length_at_least_4 -0.0318324532, // internal_symmetric_length_at_least_5 -0.0313158534, // internal_symmetric_length_at_least_6 -0.0788036172, // internal_symmetric_length_at_least_7 -0.0977018705, // internal_symmetric_length_at_least_8 -0.0698358738, // internal_symmetric_length_at_least_9 -0.0384446362, // internal_symmetric_length_at_least_10 -0.0093797905, // internal_symmetric_length_at_least_11 -0.0172839398, // internal_symmetric_length_at_least_12 -0.0137997314, // internal_symmetric_length_at_least_13 -0.0137042633, // internal_symmetric_length_at_least_14 -0.0079166876, // internal_symmetric_length_at_least_15 -0.6248854515, // internal_asymmetry_at_least_1 -0.2130110176, // internal_asymmetry_at_least_2 -0.4388708483, // internal_asymmetry_at_least_3 -0.4577389008, // internal_asymmetry_at_least_4 -0.1073350387, // internal_asymmetry_at_least_5 -0.0815262583, // internal_asymmetry_at_least_6 -0.2498828148, // internal_asymmetry_at_least_7 -0.3261732738, // internal_asymmetry_at_least_8 -0.2648834833, // internal_asymmetry_at_least_9 -0.1413539627, // internal_asymmetry_at_least_10 -0.1611720656, // internal_asymmetry_at_least_11 -0.0840318467, // internal_asymmetry_at_least_12 -0.2796784443, // internal_asymmetry_at_least_13 -0.2315456117, // internal_asymmetry_at_least_14 -0.2250828215, // internal_asymmetry_at_least_15 -0.1790093214, // internal_asymmetry_at_least_16 -0.1394856705, // internal_asymmetry_at_least_17 -0.1088535885, // internal_asymmetry_at_least_18 -0.0775250547, // internal_asymmetry_at_least_19 -0.0595936208, // internal_asymmetry_at_least_20 -0.0414244511, // internal_asymmetry_at_least_21 -0.0315535456, // internal_asymmetry_at_least_22 -0.0228581872, // internal_asymmetry_at_least_23 -0.0167659612, // internal_asymmetry_at_least_24 -0.0109717742, // internal_asymmetry_at_least_25 -0.0071090679, // internal_asymmetry_at_least_26 -0.0034974650, // internal_asymmetry_at_least_27 -0.0016707264, // internal_asymmetry_at_least_28 -0.0608527161, // bulge_0x1_nucleotides_A 0.0010527308, // bulge_0x1_nucleotides_C 0.0791970190, // bulge_0x1_nucleotides_G -0.0078854073, // bulge_0x1_nucleotides_U -0.0398465706, // internal_1x1_nucleotides_AA 0.1799238798, // internal_1x1_nucleotides_AC -0.1776183674, // internal_1x1_nucleotides_AG 0.0964356335, // internal_1x1_nucleotides_AU 0.0111219169, // internal_1x1_nucleotides_CC 0.1783947299, // internal_1x1_nucleotides_CG -0.1259603120, // internal_1x1_nucleotides_CU 0.0128763988, // internal_1x1_nucleotides_GG 0.0040905055, // internal_1x1_nucleotides_GU -0.1064232283, // internal_1x1_nucleotides_UU 0.3546221768, // helix_stacking_AAAA -0.0431544699, // helix_stacking_AAAC 0.5016203773, // helix_stacking_AAAG -0.5307966490, // helix_stacking_AAAU 0.2872436178, // helix_stacking_AACA 0.3691829843, // helix_stacking_AACC -0.9953433048, // helix_stacking_AACG 0.0808715712, // helix_stacking_AACU 0.1677825197, // helix_stacking_AAGA -0.6782658720, // helix_stacking_AAGC -0.0938366968, // helix_stacking_AAGG -0.5104866535, // helix_stacking_AAGU -0.8089949963, // helix_stacking_AAUA 0.0375592566, // helix_stacking_AAUC -0.5472344567, // helix_stacking_AAUG 0.5539306686, // helix_stacking_AAUU 0.2589964621, // helix_stacking_ACAC -0.3522259076, // helix_stacking_ACAG -0.3266392301, // helix_stacking_ACAU 0.1047725635, // helix_stacking_ACCA 0.0311510280, // helix_stacking_ACCC -0.5174541432, // helix_stacking_ACCG -0.0014882129, // helix_stacking_ACCU 0.4064263760, // helix_stacking_ACGA -0.1867679593, // helix_stacking_ACGC 0.3704147668, // helix_stacking_ACGG -0.0447509633, // helix_stacking_ACGU -0.4204688848, // helix_stacking_ACUA -0.0814710979, // helix_stacking_ACUC -0.2525676388, // helix_stacking_ACUG 0.1202721996, // helix_stacking_ACUU -0.0543602383, // helix_stacking_AGAC 0.1845945852, // helix_stacking_AGAG -0.6334949651, // helix_stacking_AGAU 0.1641296660, // helix_stacking_AGCC -0.2877376098, // helix_stacking_AGCG 0.4098605924, // helix_stacking_AGCU -0.1055221936, // helix_stacking_AGGA -0.2921646674, // helix_stacking_AGGC 0.0101876429, // helix_stacking_AGGG 0.1931504062, // helix_stacking_AGGU -0.4943545079, // helix_stacking_AGUA 0.0620168631, // helix_stacking_AGUC -0.2403228316, // helix_stacking_AGUG 0.2978012208, // helix_stacking_AGUU -0.1929017687, // helix_stacking_AUAC -0.3754001328, // helix_stacking_AUAG 0.8097237953, // helix_stacking_AUAU -0.4891632689, // helix_stacking_AUCC 1.1320303350, // helix_stacking_AUCG -0.2122122383, // helix_stacking_AUCU 1.1309634150, // helix_stacking_AUGC -0.4156413885, // helix_stacking_AUGG 0.1489146395, // helix_stacking_AUGU 0.9217793712, // helix_stacking_AUUA -0.5209762190, // helix_stacking_AUUC 0.4958919356, // helix_stacking_AUUG -0.6967771576, // helix_stacking_AUUU 0.3516155114, // helix_stacking_CAAC -0.2006481968, // helix_stacking_CAAG -0.2214284327, // helix_stacking_CAAU -0.0800719763, // helix_stacking_CACC -0.2421687057, // helix_stacking_CACG -0.0821491856, // helix_stacking_CACU -0.4295873116, // helix_stacking_CAGC -0.1981385431, // helix_stacking_CAGG -0.1313833772, // helix_stacking_CAGU 0.1792984608, // helix_stacking_CAUC -0.0461268061, // helix_stacking_CAUG 0.1948754160, // helix_stacking_CAUU 0.0157146570, // helix_stacking_CCAG -0.4249477318, // helix_stacking_CCAU -0.1256736814, // helix_stacking_CCCC -0.8566085239, // helix_stacking_CCCG -0.1141455454, // helix_stacking_CCCU -0.8614197122, // helix_stacking_CCGC 0.5770731595, // helix_stacking_CCGG -0.0133855091, // helix_stacking_CCGU 0.0606503170, // helix_stacking_CCUC 0.0108723871, // helix_stacking_CCUG 0.0819399538, // helix_stacking_CCUU -0.6764832054, // helix_stacking_CGAG 1.0245114360, // helix_stacking_CGAU 1.5780362300, // helix_stacking_CGCG -0.3538203962, // helix_stacking_CGCU 1.0800983920, // helix_stacking_CGGC -0.8315727806, // helix_stacking_CGGG 0.2329343463, // helix_stacking_CGGU -0.3528944225, // helix_stacking_CGUC 0.8098234766, // helix_stacking_CGUG -0.6244259092, // helix_stacking_CGUU 0.3519082557, // helix_stacking_CUAG -0.6877454743, // helix_stacking_CUAU -0.6612901629, // helix_stacking_CUCG 0.1733793766, // helix_stacking_CUCU 0.2222988309, // helix_stacking_CUGG -0.1138509130, // helix_stacking_CUGU 0.4351153974, // helix_stacking_CUUC -0.1156703626, // helix_stacking_CUUG 0.0673595683, // helix_stacking_CUUU 1.0196612530, // helix_stacking_GAAG -0.5917556439, // helix_stacking_GAAU -0.9041064326, // helix_stacking_GACG -0.0336163103, // helix_stacking_GACU 0.1934827478, // helix_stacking_GAGG -0.2383785167, // helix_stacking_GAGU 0.0235960299, // helix_stacking_GAUG 0.1306743273, // helix_stacking_GAUU 1.1943561520, // helix_stacking_GCAU 1.1134312100, // helix_stacking_GCCG -0.1722298720, // helix_stacking_GCCU -0.6672644747, // helix_stacking_GCGG 0.7230014783, // helix_stacking_GCGU 0.8610183195, // helix_stacking_GCUG -0.5428076909, // helix_stacking_GCUU -0.5509451391, // helix_stacking_GGAU 0.2107153820, // helix_stacking_GGCU 0.0696024740, // helix_stacking_GGGG -0.1636600385, // helix_stacking_GGGU -0.2597428596, // helix_stacking_GGUG -0.0244723945, // helix_stacking_GGUU 0.3621158768, // helix_stacking_GUAU -0.2341237246, // helix_stacking_GUCU 0.3424878938, // helix_stacking_GUGU 0.1039838924, // helix_stacking_GUUG -0.4995377850, // helix_stacking_GUUU 1.0129740860, // helix_stacking_UAAU -0.4726399200, // helix_stacking_UACU 0.5340581688, // helix_stacking_UAGU -0.5309098207, // helix_stacking_UAUU 0.1344187062, // helix_stacking_UCCU -0.4078546373, // helix_stacking_UCGU 0.3822876695, // helix_stacking_UCUU 0.3340793140, // helix_stacking_UGGU -0.6872220771, // helix_stacking_UGUU 0.4541580212, // helix_stacking_UUUU -1.9770341200, // helix_closing_AA -1.5596341140, // helix_closing_AC -1.5289066660, // helix_closing_AG -1.3616015140, // helix_closing_AU -1.4594615590, // helix_closing_CA -1.5557533040, // helix_closing_CC -1.1036086480, // helix_closing_CG -1.6230847810, // helix_closing_CU -2.0038603260, // helix_closing_GA -1.2543274470, // helix_closing_GC -1.5949373590, // helix_closing_GG -1.5969532650, // helix_closing_GU -1.3371253030, // helix_closing_UA -1.5803682180, // helix_closing_UC -1.1138363510, // helix_closing_UG -1.8476353300, // helix_closing_UU -0.4432287566, // multi_base -0.1661807958, // multi_unpaired -1.0393510460, // multi_paired 0.0308052690, // dangle_left_AAA -0.0155781224, // dangle_left_AAC 0.0057333793, // dangle_left_AAG -0.0302715908, // dangle_left_AAU 0.0321287855, // dangle_left_ACA 0.0044790954, // dangle_left_ACC -0.0132928680, // dangle_left_ACG -0.0475763929, // dangle_left_ACU 0.0486914612, // dangle_left_AGA 0.0610111825, // dangle_left_AGC 0.0234047612, // dangle_left_AGG -0.0541594636, // dangle_left_AGU -0.1555170799, // dangle_left_AUA -0.1584186333, // dangle_left_AUC 0.1049449411, // dangle_left_AUG 0.0588720686, // dangle_left_AUU 0.1688104162, // dangle_left_CAA -0.0351565540, // dangle_left_CAC 0.0040939771, // dangle_left_CAG -0.0595153955, // dangle_left_CAU -0.0227679388, // dangle_left_CCA -0.0124855532, // dangle_left_CCC -0.0186710573, // dangle_left_CCG -0.0100314617, // dangle_left_CCU 0.1356012710, // dangle_left_CGA 0.0722031943, // dangle_left_CGC -0.0599346265, // dangle_left_CGG -0.1386561816, // dangle_left_CGU 0.0192937469, // dangle_left_CUA -0.0121379923, // dangle_left_CUC 0.0249046487, // dangle_left_CUG -0.0454296359, // dangle_left_CUU 0.0336977299, // dangle_left_GAA -0.0276456539, // dangle_left_GAC -0.0557562163, // dangle_left_GAG -0.0255651518, // dangle_left_GAU -0.0331197126, // dangle_left_GCA -0.0392125109, // dangle_left_GCC 0.1555398170, // dangle_left_GCG -0.1536314435, // dangle_left_GCU -0.0242016250, // dangle_left_GGA 0.0362640400, // dangle_left_GGC -0.0100751419, // dangle_left_GGG -0.0216986383, // dangle_left_GGU -0.0135206863, // dangle_left_GUA -0.0837476885, // dangle_left_GUC -0.0046323265, // dangle_left_GUG 0.0471571955, // dangle_left_GUU 0.0590768209, // dangle_left_UAA -0.0012780666, // dangle_left_UAC -0.1736001705, // dangle_left_UAG -0.1902719183, // dangle_left_UAU 0.0021598296, // dangle_left_UCA -0.0123460867, // dangle_left_UCC -0.0206367473, // dangle_left_UCG 0.0077814291, // dangle_left_UCU -0.0664420362, // dangle_left_UGA -0.0238917026, // dangle_left_UGC 0.1574534200, // dangle_left_UGG -0.2585948344, // dangle_left_UGU 0.0742935756, // dangle_left_UUA -0.0317544729, // dangle_left_UUC -0.0657958948, // dangle_left_UUG 0.0121319924, // dangle_left_UUU -0.0143044921, // dangle_right_AAA 0.0483192634, // dangle_right_AAC -0.0512676379, // dangle_right_AAG -0.0103701333, // dangle_right_AAU -0.0174310203, // dangle_right_ACA -0.0315053194, // dangle_right_ACC -0.0137226276, // dangle_right_ACG -0.0065502290, // dangle_right_ACU -0.0021064953, // dangle_right_AGA 0.0312282017, // dangle_right_AGC -0.0207387633, // dangle_right_AGG 0.0795797111, // dangle_right_AGU 0.1347319363, // dangle_right_AUA -0.0813449484, // dangle_right_AUC 0.0201754745, // dangle_right_AUG -0.2190612231, // dangle_right_AUU 0.0698070688, // dangle_right_CAA -0.0039713310, // dangle_right_CAC 0.0031809808, // dangle_right_CAG 0.0038852667, // dangle_right_CAU -0.0350723472, // dangle_right_CCA -0.0043524048, // dangle_right_CCC 0.0042837869, // dangle_right_CCG -0.0308381136, // dangle_right_CCU 0.0514556340, // dangle_right_CGA -0.0641658904, // dangle_right_CGC -0.0752839708, // dangle_right_CGG -0.2239441833, // dangle_right_CGU -0.0469553491, // dangle_right_CUA -0.0391343946, // dangle_right_CUC 0.0307872079, // dangle_right_CUG -0.0122169923, // dangle_right_CUU 0.0262763255, // dangle_right_GAA -0.0458147860, // dangle_right_GAC -0.0512891399, // dangle_right_GAG -0.0206673532, // dangle_right_GAU 0.0115277732, // dangle_right_GCA 0.0655267521, // dangle_right_GCC -0.1032959984, // dangle_right_GCG -0.1965599296, // dangle_right_GCU -0.0496631161, // dangle_right_GGA -0.0142087721, // dangle_right_GGC 0.0590157038, // dangle_right_GGG -0.0169253333, // dangle_right_GGU 0.1957498321, // dangle_right_GUA -0.1568392687, // dangle_right_GUC -0.0812000038, // dangle_right_GUG -0.1048127001, // dangle_right_GUU -0.1921468549, // dangle_right_UAA 0.0659908574, // dangle_right_UAC 0.0875506286, // dangle_right_UAG -0.2545133106, // dangle_right_UAU -0.0439937912, // dangle_right_UCA 0.0536797881, // dangle_right_UCC -0.0492375296, // dangle_right_UCG -0.0156349331, // dangle_right_UCU 0.0413621662, // dangle_right_UGA 0.1933397566, // dangle_right_UGC -0.2310365581, // dangle_right_UGG -0.2098640295, // dangle_right_UGU 0.0116755758, // dangle_right_UUA 0.0282697957, // dangle_right_UUC -0.0194941615, // dangle_right_UUG -0.0459807978, // dangle_right_UUU -0.0491202270, // external_unpaired -0.0266953775 // external_paired }; return std::vector(values, values + 708); } ///////////////////////////////////////////////////////////////// // GetDefaultProfileValues() // // Retrieve default parameter values. ///////////////////////////////////////////////////////////////// template std::vector GetDefaultProfileValues() { RealT values[] = { -3.4035165040, // base_pair_AA -3.8624326980, // base_pair_AC -3.5032995850, // base_pair_AG 1.5537137200, // base_pair_AU -2.7206835790, // base_pair_CC 2.9802365170, // base_pair_CG -3.1543133400, // base_pair_CU -2.9545150740, // base_pair_GG 0.3889900071, // base_pair_GU -3.3301468480, // base_pair_UU -0.0190497026, // terminal_mismatch_AAAA -0.0017191794, // terminal_mismatch_AAAC 0.0063566207, // terminal_mismatch_AAAG 0.0068675746, // terminal_mismatch_AAAU -0.0051783002, // terminal_mismatch_AACA -0.0004470034, // terminal_mismatch_AACC 0.0019510575, // terminal_mismatch_AACG 0.0087476945, // terminal_mismatch_AACU -0.0076670698, // terminal_mismatch_AAGA -0.0044550862, // terminal_mismatch_AAGC -0.0030179067, // terminal_mismatch_AAGG 0.0008812458, // terminal_mismatch_AAGU -0.0079242638, // terminal_mismatch_AAUA 0.0007074860, // terminal_mismatch_AAUC -0.0055504683, // terminal_mismatch_AAUG 0.0268638911, // terminal_mismatch_AAUU 0.0128377416, // terminal_mismatch_ACAA 0.0015327260, // terminal_mismatch_ACAC 0.0051020360, // terminal_mismatch_ACAG 0.0098367236, // terminal_mismatch_ACAU 0.0158278493, // terminal_mismatch_ACCA -0.0035901716, // terminal_mismatch_ACCC -0.0017600843, // terminal_mismatch_ACCG -0.0026689643, // terminal_mismatch_ACCU 0.0089206931, // terminal_mismatch_ACGA -0.0015967478, // terminal_mismatch_ACGC 0.0178306936, // terminal_mismatch_ACGG 0.0103125131, // terminal_mismatch_ACGU 0.0089484575, // terminal_mismatch_ACUA 0.0014831187, // terminal_mismatch_ACUC -0.0078127213, // terminal_mismatch_ACUG -0.0037866022, // terminal_mismatch_ACUU -0.0109747928, // terminal_mismatch_AGAA 0.0088069856, // terminal_mismatch_AGAC -0.0039354768, // terminal_mismatch_AGAG -0.0106212367, // terminal_mismatch_AGAU 0.0011727156, // terminal_mismatch_AGCA -0.0015765259, // terminal_mismatch_AGCC 0.0042905281, // terminal_mismatch_AGCG 0.0033291839, // terminal_mismatch_AGCU -0.0091685027, // terminal_mismatch_AGGA -0.0022236553, // terminal_mismatch_AGGC -0.0016975056, // terminal_mismatch_AGGG -0.0021646656, // terminal_mismatch_AGGU 0.0052921062, // terminal_mismatch_AGUA 0.0059450697, // terminal_mismatch_AGUC -0.0099094980, // terminal_mismatch_AGUG -0.0053380258, // terminal_mismatch_AGUU -0.1339459170, // terminal_mismatch_AUAA 0.0266646733, // terminal_mismatch_AUAC -0.1274129643, // terminal_mismatch_AUAG -0.1310489237, // terminal_mismatch_AUAU 0.0288894348, // terminal_mismatch_AUCA -0.1391051810, // terminal_mismatch_AUCC -0.0191187483, // terminal_mismatch_AUCG -0.0518206712, // terminal_mismatch_AUCU 0.0332720215, // terminal_mismatch_AUGA 0.0053513605, // terminal_mismatch_AUGC 0.0571618347, // terminal_mismatch_AUGG -0.0448400438, // terminal_mismatch_AUGU 0.0027692998, // terminal_mismatch_AUUA -0.0175033554, // terminal_mismatch_AUUC -0.0300298631, // terminal_mismatch_AUUG 0.1241301829, // terminal_mismatch_AUUU -0.0077412743, // terminal_mismatch_CAAA -0.0111352674, // terminal_mismatch_CAAC 0.0106337871, // terminal_mismatch_CAAG -0.0012032234, // terminal_mismatch_CAAU 0.0013062820, // terminal_mismatch_CACA 0.0035514826, // terminal_mismatch_CACC 0.0161002404, // terminal_mismatch_CACG -0.0006937631, // terminal_mismatch_CACU -0.0083370930, // terminal_mismatch_CAGA -0.0081633680, // terminal_mismatch_CAGC 0.0009161382, // terminal_mismatch_CAGG -0.0037325675, // terminal_mismatch_CAGU -0.0025062896, // terminal_mismatch_CAUA 0.0117023594, // terminal_mismatch_CAUC -0.0007243619, // terminal_mismatch_CAUG 0.0184975593, // terminal_mismatch_CAUU -0.0040091266, // terminal_mismatch_CCAA -0.0096220613, // terminal_mismatch_CCAC 0.0050335579, // terminal_mismatch_CCAG -0.0003158385, // terminal_mismatch_CCAU -0.0003843902, // terminal_mismatch_CCCA -0.0018155818, // terminal_mismatch_CCCC -0.0096961411, // terminal_mismatch_CCCG 0.0062711858, // terminal_mismatch_CCCU -0.0034714197, // terminal_mismatch_CCGA -0.0016427660, // terminal_mismatch_CCGC 0.0077191782, // terminal_mismatch_CCGG 0.0004860521, // terminal_mismatch_CCGU 0.0033564207, // terminal_mismatch_CCUA -0.0020628768, // terminal_mismatch_CCUC -0.0028476084, // terminal_mismatch_CCUG -0.0030593921, // terminal_mismatch_CCUU 0.1257942724, // terminal_mismatch_CGAA -0.0909093871, // terminal_mismatch_CGAC -0.1530280212, // terminal_mismatch_CGAG -0.0739788960, // terminal_mismatch_CGAU -0.0501961890, // terminal_mismatch_CGCA -0.0598274495, // terminal_mismatch_CGCC 0.0280456704, // terminal_mismatch_CGCG 0.0779298847, // terminal_mismatch_CGCU -0.0921230088, // terminal_mismatch_CGGA -0.1428512254, // terminal_mismatch_CGGC 0.0780068896, // terminal_mismatch_CGGG -0.1724080214, // terminal_mismatch_CGGU -0.1867967474, // terminal_mismatch_CGUA -0.0277365764, // terminal_mismatch_CGUC -0.1486660582, // terminal_mismatch_CGUG 0.1957108536, // terminal_mismatch_CGUU -0.0125525295, // terminal_mismatch_CUAA -0.0028749755, // terminal_mismatch_CUAC -0.0002115998, // terminal_mismatch_CUAG 0.0013563163, // terminal_mismatch_CUAU -0.0023284722, // terminal_mismatch_CUCA -0.0025604108, // terminal_mismatch_CUCC 0.0004526658, // terminal_mismatch_CUCG 0.0041761321, // terminal_mismatch_CUCU -0.0000260386, // terminal_mismatch_CUGA 0.0102409562, // terminal_mismatch_CUGC -0.0062609184, // terminal_mismatch_CUGG -0.0024398981, // terminal_mismatch_CUGU -0.0015076566, // terminal_mismatch_CUUA -0.0082568909, // terminal_mismatch_CUUC 0.0006283881, // terminal_mismatch_CUUG -0.0077356375, // terminal_mismatch_CUUU 0.0011295503, // terminal_mismatch_GAAA 0.0234500204, // terminal_mismatch_GAAC -0.0067680904, // terminal_mismatch_GAAG 0.0046884536, // terminal_mismatch_GAAU -0.0040529662, // terminal_mismatch_GACA 0.0014120626, // terminal_mismatch_GACC 0.0053665859, // terminal_mismatch_GACG -0.0029737312, // terminal_mismatch_GACU 0.0060282184, // terminal_mismatch_GAGA 0.0014782205, // terminal_mismatch_GAGC -0.0018691235, // terminal_mismatch_GAGG 0.0016539854, // terminal_mismatch_GAGU -0.0021598572, // terminal_mismatch_GAUA -0.0059513682, // terminal_mismatch_GAUC 0.0012252456, // terminal_mismatch_GAUG -0.0034800043, // terminal_mismatch_GAUU -0.0789613072, // terminal_mismatch_GCAA -0.2472491533, // terminal_mismatch_GCAC -0.0542143859, // terminal_mismatch_GCAG -0.1537956801, // terminal_mismatch_GCAU -0.2045648428, // terminal_mismatch_GCCA -0.1627529082, // terminal_mismatch_GCCC -0.1987055124, // terminal_mismatch_GCCG 0.0117581656, // terminal_mismatch_GCCU -0.0350850014, // terminal_mismatch_GCGA 0.0290017671, // terminal_mismatch_GCGC 0.1226421100, // terminal_mismatch_GCGG -0.2183733722, // terminal_mismatch_GCGU -0.1588111192, // terminal_mismatch_GCUA 0.0109259675, // terminal_mismatch_GCUC 0.2014929454, // terminal_mismatch_GCUG 0.1266862807, // terminal_mismatch_GCUU 0.0119229023, // terminal_mismatch_GGAA -0.0009572412, // terminal_mismatch_GGAC -0.0041350257, // terminal_mismatch_GGAG -0.0048454088, // terminal_mismatch_GGAU -0.0016079024, // terminal_mismatch_GGCA -0.0053172409, // terminal_mismatch_GGCC -0.0045031561, // terminal_mismatch_GGCG -0.0117163741, // terminal_mismatch_GGCU -0.0094933884, // terminal_mismatch_GGGA 0.0054653056, // terminal_mismatch_GGGC 0.0001936641, // terminal_mismatch_GGGG 0.0021824981, // terminal_mismatch_GGGU 0.0026606744, // terminal_mismatch_GGUA -0.0042004900, // terminal_mismatch_GGUC 0.0089433752, // terminal_mismatch_GGUG -0.0028940251, // terminal_mismatch_GGUU -0.0851492327, // terminal_mismatch_GUAA -0.0347547334, // terminal_mismatch_GUAC -0.0438203410, // terminal_mismatch_GUAG -0.0960298878, // terminal_mismatch_GUAU 0.1353368763, // terminal_mismatch_GUCA -0.0165138502, // terminal_mismatch_GUCC -0.0149790406, // terminal_mismatch_GUCG -0.0008423759, // terminal_mismatch_GUCU -0.0918709173, // terminal_mismatch_GUGA -0.0408946937, // terminal_mismatch_GUGC -0.0281552411, // terminal_mismatch_GUGG -0.0452228859, // terminal_mismatch_GUGU -0.0244486575, // terminal_mismatch_GUUA 0.0469007815, // terminal_mismatch_GUUC -0.0605549722, // terminal_mismatch_GUUG -0.0353766571, // terminal_mismatch_GUUU 0.0086735077, // terminal_mismatch_UAAA -0.0859383357, // terminal_mismatch_UAAC -0.0505508818, // terminal_mismatch_UAAG -0.0798670384, // terminal_mismatch_UAAU -0.0212775677, // terminal_mismatch_UACA -0.1184051629, // terminal_mismatch_UACC 0.0465571889, // terminal_mismatch_UACG -0.0360538886, // terminal_mismatch_UACU -0.0796027801, // terminal_mismatch_UAGA -0.0261777048, // terminal_mismatch_UAGC -0.0108680505, // terminal_mismatch_UAGG -0.0783379455, // terminal_mismatch_UAGU -0.0814672485, // terminal_mismatch_UAUA -0.0197234843, // terminal_mismatch_UAUC -0.0795511833, // terminal_mismatch_UAUG 0.0810935803, // terminal_mismatch_UAUU -0.0006883735, // terminal_mismatch_UCAA -0.0054030618, // terminal_mismatch_UCAC -0.0022463295, // terminal_mismatch_UCAG -0.0024436110, // terminal_mismatch_UCAU 0.0024838696, // terminal_mismatch_UCCA -0.0029560400, // terminal_mismatch_UCCC 0.0020057342, // terminal_mismatch_UCCG 0.0113499652, // terminal_mismatch_UCCU -0.0046007993, // terminal_mismatch_UCGA 0.0022285001, // terminal_mismatch_UCGC -0.0018159605, // terminal_mismatch_UCGG -0.0024886819, // terminal_mismatch_UCGU -0.0031193962, // terminal_mismatch_UCUA -0.0003355943, // terminal_mismatch_UCUC -0.0027120580, // terminal_mismatch_UCUG -0.0010601994, // terminal_mismatch_UCUU -0.0292953107, // terminal_mismatch_UGAA 0.0818298913, // terminal_mismatch_UGAC 0.0803829262, // terminal_mismatch_UGAG -0.0585376978, // terminal_mismatch_UGAU 0.0051498706, // terminal_mismatch_UGCA -0.0003422259, // terminal_mismatch_UGCC 0.0416446163, // terminal_mismatch_UGCG -0.0177370156, // terminal_mismatch_UGCU 0.0819460155, // terminal_mismatch_UGGA -0.0117229195, // terminal_mismatch_UGGC -0.0771779150, // terminal_mismatch_UGGG -0.1379654806, // terminal_mismatch_UGGU -0.0444412724, // terminal_mismatch_UGUA 0.0411467341, // terminal_mismatch_UGUC -0.0703302600, // terminal_mismatch_UGUG 0.0862048110, // terminal_mismatch_UGUU 0.0078812763, // terminal_mismatch_UUAA 0.0031430967, // terminal_mismatch_UUAC -0.0041700433, // terminal_mismatch_UUAG 0.0007948167, // terminal_mismatch_UUAU -0.0126293434, // terminal_mismatch_UUCA -0.0070303496, // terminal_mismatch_UUCC 0.0039955171, // terminal_mismatch_UUCG 0.0140589323, // terminal_mismatch_UUCU -0.0042134790, // terminal_mismatch_UUGA 0.0026454558, // terminal_mismatch_UUGC 0.0065009181, // terminal_mismatch_UUGG 0.0047173953, // terminal_mismatch_UUGU 0.0204692437, // terminal_mismatch_UUUA -0.0065207354, // terminal_mismatch_UUUC -0.0035457757, // terminal_mismatch_UUUG -0.0099112907, // terminal_mismatch_UUUU -11.2745404400, // hairpin_length_at_least_0 -0.7049874787, // hairpin_length_at_least_1 1.6584078500, // hairpin_length_at_least_2 2.5488887390, // hairpin_length_at_least_3 0.9944638313, // hairpin_length_at_least_4 0.1114930516, // hairpin_length_at_least_5 -0.0816401894, // hairpin_length_at_least_6 -0.2314032079, // hairpin_length_at_least_7 0.0841901663, // hairpin_length_at_least_8 -0.4135353798, // hairpin_length_at_least_9 -0.0545040748, // hairpin_length_at_least_10 0.1352513403, // hairpin_length_at_least_11 0.0500538242, // hairpin_length_at_least_12 -0.2420180411, // hairpin_length_at_least_13 -0.1932403432, // hairpin_length_at_least_14 -0.4459876615, // hairpin_length_at_least_15 0.0740179845, // hairpin_length_at_least_16 1.1453867310, // hairpin_length_at_least_17 -0.1552747600, // hairpin_length_at_least_18 -1.1221540710, // hairpin_length_at_least_19 -0.4596125450, // hairpin_length_at_least_20 0.8845817922, // hairpin_length_at_least_21 -0.4798837150, // hairpin_length_at_least_22 0.2232373651, // hairpin_length_at_least_23 0.3528749640, // hairpin_length_at_least_24 -0.6952888987, // hairpin_length_at_least_25 -0.1241539300, // hairpin_length_at_least_26 -0.2405423305, // hairpin_length_at_least_27 -0.0095265298, // hairpin_length_at_least_28 0.3154128371, // hairpin_length_at_least_29 0.9702676486, // hairpin_length_at_least_30 -0.1002141570, // internal_explicit_1_1 -0.1388267427, // internal_explicit_1_2 -0.0690085675, // internal_explicit_1_3 -0.0762692721, // internal_explicit_1_4 0.1272754652, // internal_explicit_2_2 0.0845233646, // internal_explicit_2_3 0.1113771719, // internal_explicit_2_4 0.0372082679, // internal_explicit_3_3 0.1607708252, // internal_explicit_3_4 -0.0494480936, // internal_explicit_4_4 -4.2581537570, // bulge_length_at_least_1 -1.8164929190, // bulge_length_at_least_2 -0.3008950692, // bulge_length_at_least_3 -1.0375758050, // bulge_length_at_least_4 -1.0541611930, // bulge_length_at_least_5 -0.7583329783, // bulge_length_at_least_6 0.0616421592, // bulge_length_at_least_7 0.6588945757, // bulge_length_at_least_8 0.8794927911, // bulge_length_at_least_9 -0.1800467105, // bulge_length_at_least_10 -0.8482388288, // bulge_length_at_least_11 -0.4888415235, // bulge_length_at_least_12 -0.0740585685, // bulge_length_at_least_13 0.1024246688, // bulge_length_at_least_14 -0.3298852888, // bulge_length_at_least_15 -0.1539144958, // bulge_length_at_least_16 -0.0687176012, // bulge_length_at_least_17 -0.0086018873, // bulge_length_at_least_18 0.0493621686, // bulge_length_at_least_19 0.0953932951, // bulge_length_at_least_20 0.1569528946, // bulge_length_at_least_21 -0.0069046314, // bulge_length_at_least_22 0.0350278827, // bulge_length_at_least_23 0.1004819585, // bulge_length_at_least_24 0.1317053650, // bulge_length_at_least_25 0.1748203998, // bulge_length_at_least_26 0.2117574286, // bulge_length_at_least_27 0.0800126973, // bulge_length_at_least_28 -0.0375842188, // bulge_length_at_least_29 -0.0153600410, // bulge_length_at_least_30 -2.5785411020, // internal_length_at_least_2 -1.7321130210, // internal_length_at_least_3 -0.4426925225, // internal_length_at_least_4 -0.4436652728, // internal_length_at_least_5 -0.4464306446, // internal_length_at_least_6 0.5028354199, // internal_length_at_least_7 -0.2544300290, // internal_length_at_least_8 -0.3709535245, // internal_length_at_least_9 -0.1894424283, // internal_length_at_least_10 -0.1533676121, // internal_length_at_least_11 0.0500754240, // internal_length_at_least_12 -0.4638130633, // internal_length_at_least_13 0.3620488764, // internal_length_at_least_14 -0.3155004838, // internal_length_at_least_15 0.1757922455, // internal_length_at_least_16 -0.1475837316, // internal_length_at_least_17 -0.3435837159, // internal_length_at_least_18 -0.2127962066, // internal_length_at_least_19 0.3934874237, // internal_length_at_least_20 -0.1285002250, // internal_length_at_least_21 -0.1626272610, // internal_length_at_least_22 0.0372511741, // internal_length_at_least_23 0.2345360224, // internal_length_at_least_24 -0.4777910787, // internal_length_at_least_25 -0.2184981220, // internal_length_at_least_26 0.0035252974, // internal_length_at_least_27 0.1565818883, // internal_length_at_least_28 0.2632979177, // internal_length_at_least_29 -0.0866325867, // internal_length_at_least_30 0.0124604131, // internal_symmetric_length_at_least_1 0.0904299395, // internal_symmetric_length_at_least_2 0.0062570559, // internal_symmetric_length_at_least_3 -0.0183078277, // internal_symmetric_length_at_least_4 0.0186149498, // internal_symmetric_length_at_least_5 -0.0759050261, // internal_symmetric_length_at_least_6 -0.0454983394, // internal_symmetric_length_at_least_7 -0.0612458550, // internal_symmetric_length_at_least_8 -0.0554688099, // internal_symmetric_length_at_least_9 -0.0364355397, // internal_symmetric_length_at_least_10 -0.0283552606, // internal_symmetric_length_at_least_11 -0.0199783782, // internal_symmetric_length_at_least_12 -0.0065044098, // internal_symmetric_length_at_least_13 -0.0102099161, // internal_symmetric_length_at_least_14 -0.0066432921, // internal_symmetric_length_at_least_15 -0.3398337864, // internal_asymmetry_at_least_1 -0.2327646341, // internal_asymmetry_at_least_2 -0.2742544636, // internal_asymmetry_at_least_3 -0.2714034775, // internal_asymmetry_at_least_4 -0.1066829219, // internal_asymmetry_at_least_5 -0.0703413442, // internal_asymmetry_at_least_6 -0.1077694713, // internal_asymmetry_at_least_7 -0.1191531781, // internal_asymmetry_at_least_8 -0.1191905600, // internal_asymmetry_at_least_9 -0.0601995580, // internal_asymmetry_at_least_10 -0.0728717115, // internal_asymmetry_at_least_11 -0.0386492178, // internal_asymmetry_at_least_12 -0.1195306559, // internal_asymmetry_at_least_13 -0.0746196700, // internal_asymmetry_at_least_14 -0.0694505082, // internal_asymmetry_at_least_15 -0.0501239643, // internal_asymmetry_at_least_16 -0.0386114112, // internal_asymmetry_at_least_17 -0.0297402379, // internal_asymmetry_at_least_18 -0.0095023409, // internal_asymmetry_at_least_19 0.0008804241, // internal_asymmetry_at_least_20 0.0080101695, // internal_asymmetry_at_least_21 0.0119467032, // internal_asymmetry_at_least_22 0.0149031878, // internal_asymmetry_at_least_23 0.0171015516, // internal_asymmetry_at_least_24 0.0187685883, // internal_asymmetry_at_least_25 0.0200709956, // internal_asymmetry_at_least_26 0.0170542682, // internal_asymmetry_at_least_27 0.0192648588, // internal_asymmetry_at_least_28 -0.1607307825, // bulge_0x1_nucleotides_A -0.1430249970, // bulge_0x1_nucleotides_C -0.1132349177, // bulge_0x1_nucleotides_G -0.0738884437, // bulge_0x1_nucleotides_U -0.7463309510, // internal_1x1_nucleotides_AA -0.5734758932, // internal_1x1_nucleotides_AC -0.7056134096, // internal_1x1_nucleotides_AG 0.5549172931, // internal_1x1_nucleotides_AU -0.7817824419, // internal_1x1_nucleotides_CC 1.8613706260, // internal_1x1_nucleotides_CG -0.8061017588, // internal_1x1_nucleotides_CU -0.3909273675, // internal_1x1_nucleotides_GG -0.2337333892, // internal_1x1_nucleotides_GU -0.5427783767, // internal_1x1_nucleotides_UU 0.0011665170, // helix_stacking_AAAA 0.0026406280, // helix_stacking_AAAC -0.0019667881, // helix_stacking_AAAG -0.0055691533, // helix_stacking_AAAU -0.0037462466, // helix_stacking_AACA 0.0022503872, // helix_stacking_AACC -0.0058251217, // helix_stacking_AACG 0.0024192783, // helix_stacking_AACU 0.0029353271, // helix_stacking_AAGA -0.0178482873, // helix_stacking_AAGC 0.0002872313, // helix_stacking_AAGG 0.0013987373, // helix_stacking_AAGU -0.0220383821, // helix_stacking_AAUA 0.0008496010, // helix_stacking_AAUC 0.0082153041, // helix_stacking_AAUG -0.0016802554, // helix_stacking_AAUU 0.0003182845, // helix_stacking_ACAC 0.0023315870, // helix_stacking_ACAG -0.0115595853, // helix_stacking_ACAU 0.0021395415, // helix_stacking_ACCA -0.0001087925, // helix_stacking_ACCC -0.0155477107, // helix_stacking_ACCG 0.0016300031, // helix_stacking_ACCU 0.0018885978, // helix_stacking_ACGA -0.0274352456, // helix_stacking_ACGC 0.0003814573, // helix_stacking_ACGG -0.0018305559, // helix_stacking_ACGU -0.0098723535, // helix_stacking_ACUA 0.0005562194, // helix_stacking_ACUC -0.0034450973, // helix_stacking_ACUG 0.0033718359, // helix_stacking_ACUU 0.0021708980, // helix_stacking_AGAC 0.0040003212, // helix_stacking_AGAG 0.0013682127, // helix_stacking_AGAU 0.0015728342, // helix_stacking_AGCC -0.0144248931, // helix_stacking_AGCG 0.0008485224, // helix_stacking_AGCU -0.0003380934, // helix_stacking_AGGA -0.0023256888, // helix_stacking_AGGC 0.0016051973, // helix_stacking_AGGG 0.0011905400, // helix_stacking_AGGU -0.0043204529, // helix_stacking_AGUA 0.0000123507, // helix_stacking_AGUC 0.0024923143, // helix_stacking_AGUG 0.0001247495, // helix_stacking_AGUU -0.0215966767, // helix_stacking_AUAC -0.0035255476, // helix_stacking_AUAG 0.0518027390, // helix_stacking_AUAU -0.0050229039, // helix_stacking_AUCC 0.1459431996, // helix_stacking_AUCG 0.0033990804, // helix_stacking_AUCU 0.0612094217, // helix_stacking_AUGC -0.0031012150, // helix_stacking_AUGG -0.1303183556, // helix_stacking_AUGU 0.0094534785, // helix_stacking_AUUA 0.0004138047, // helix_stacking_AUUC -0.0146550034, // helix_stacking_AUUG -0.0278698572, // helix_stacking_AUUU 0.0046359114, // helix_stacking_CAAC 0.0026829630, // helix_stacking_CAAG 0.0045091952, // helix_stacking_CAAU 0.0014853523, // helix_stacking_CACC -0.0223658128, // helix_stacking_CACG -0.0004636247, // helix_stacking_CACU -0.0315287895, // helix_stacking_CAGC -0.0021407162, // helix_stacking_CAGG 0.0024342401, // helix_stacking_CAGU -0.0045481666, // helix_stacking_CAUC 0.0046849945, // helix_stacking_CAUG 0.0012066444, // helix_stacking_CAUU -0.0024135547, // helix_stacking_CCAG -0.0143992421, // helix_stacking_CCAU -0.0002994048, // helix_stacking_CCCC -0.0068061458, // helix_stacking_CCCG -0.0009760749, // helix_stacking_CCCU -0.0093360932, // helix_stacking_CCGC 0.0003024764, // helix_stacking_CCGG -0.0080543399, // helix_stacking_CCGU 0.0026715008, // helix_stacking_CCUC -0.0022915962, // helix_stacking_CCUG 0.0020985332, // helix_stacking_CCUU -0.0002736467, // helix_stacking_CGAG -0.0361610261, // helix_stacking_CGAU 0.2500883770, // helix_stacking_CGCG -0.0145487915, // helix_stacking_CGCU 0.0078506732, // helix_stacking_CGGC -0.0064911443, // helix_stacking_CGGG -0.1026917617, // helix_stacking_CGGU -0.0050867480, // helix_stacking_CGUC 0.0636203774, // helix_stacking_CGUG -0.0386540932, // helix_stacking_CGUU -0.0002186997, // helix_stacking_CUAG -0.0171955042, // helix_stacking_CUAU 0.0001908408, // helix_stacking_CUCG 0.0039647056, // helix_stacking_CUCU 0.0049134545, // helix_stacking_CUGG 0.0040977477, // helix_stacking_CUGU 0.0062326786, // helix_stacking_CUUC -0.0052770091, // helix_stacking_CUUG 0.0084782464, // helix_stacking_CUUU 0.0039577367, // helix_stacking_GAAG -0.0041512595, // helix_stacking_GAAU -0.0236371976, // helix_stacking_GACG 0.0010720887, // helix_stacking_GACU 0.0058963802, // helix_stacking_GAGG -0.0033430223, // helix_stacking_GAGU 0.0045630315, // helix_stacking_GAUG 0.0011977718, // helix_stacking_GAUU 0.1377929899, // helix_stacking_GCAU -0.0732114682, // helix_stacking_GCCG -0.0061849929, // helix_stacking_GCCU -0.0297868529, // helix_stacking_GCGG 0.0314882386, // helix_stacking_GCGU 0.0853319371, // helix_stacking_GCUG -0.0116524623, // helix_stacking_GCUU 0.0027814463, // helix_stacking_GGAU 0.0024832337, // helix_stacking_GGCU 0.0020626924, // helix_stacking_GGGG -0.0017532709, // helix_stacking_GGGU -0.0030321095, // helix_stacking_GGUG 0.0046032693, // helix_stacking_GGUU 0.0041422641, // helix_stacking_GUAU -0.0055971561, // helix_stacking_GUCU -0.0048565614, // helix_stacking_GUGU -0.0111410303, // helix_stacking_GUUG 0.0072147313, // helix_stacking_GUUU -0.0230543450, // helix_stacking_UAAU 0.0147200830, // helix_stacking_UACU 0.1366622997, // helix_stacking_UAGU -0.0009717172, // helix_stacking_UAUU 0.0010344013, // helix_stacking_UCCU -0.0073020854, // helix_stacking_UCGU 0.0076172862, // helix_stacking_UCUU -0.0428702348, // helix_stacking_UGGU -0.0037930703, // helix_stacking_UGUU 0.0086971490, // helix_stacking_UUUU 0.0111290732, // helix_closing_AA 0.0270247430, // helix_closing_AC -0.0028423321, // helix_closing_AG 0.0390189624, // helix_closing_AU 0.0211701415, // helix_closing_CA -0.0013545861, // helix_closing_CC 0.0176597530, // helix_closing_CG -0.0048870347, // helix_closing_CU 0.0024511733, // helix_closing_GA -0.1668369921, // helix_closing_GC -0.0045296329, // helix_closing_GG -0.0370629739, // helix_closing_GU -0.0747603115, // helix_closing_UA -0.0042515938, // helix_closing_UC 0.1652654756, // helix_closing_UG 0.0124018913, // helix_closing_UU -1.7430959250, // multi_base -0.0430181711, // multi_unpaired -1.9913186970, // multi_paired 0.0059484586, // dangle_left_AAA -0.0049336344, // dangle_left_AAC 0.0204145569, // dangle_left_AAG -0.0128266511, // dangle_left_AAU -0.0027087191, // dangle_left_ACA 0.0119099526, // dangle_left_ACC -0.0043594271, // dangle_left_ACG -0.0014592214, // dangle_left_ACU 0.0020318568, // dangle_left_AGA -0.0046416364, // dangle_left_AGC 0.0025956860, // dangle_left_AGG 0.0004582146, // dangle_left_AGU -0.0399550283, // dangle_left_AUA -0.0393332446, // dangle_left_AUC 0.0084976262, // dangle_left_AUG 0.0285409363, // dangle_left_AUU -0.0008038518, // dangle_left_CAA -0.0018285619, // dangle_left_CAC 0.0043056902, // dangle_left_CAG -0.0006153586, // dangle_left_CAU -0.0085119900, // dangle_left_CCA 0.0088225020, // dangle_left_CCC -0.0028637441, // dangle_left_CCG -0.0030859801, // dangle_left_CCU 0.1969440519, // dangle_left_CGA -0.0559775852, // dangle_left_CGC -0.0716728342, // dangle_left_CGG -0.0601406211, // dangle_left_CGU 0.0087569866, // dangle_left_CUA -0.0017690716, // dangle_left_CUC -0.0000717762, // dangle_left_CUG -0.0053524871, // dangle_left_CUU 0.0013403218, // dangle_left_GAA -0.0014500232, // dangle_left_GAC -0.0044922283, // dangle_left_GAG -0.0049318446, // dangle_left_GAU -0.0281446778, // dangle_left_GCA -0.1196813055, // dangle_left_GCC 0.0276093334, // dangle_left_GCG -0.1151969255, // dangle_left_GCU 0.0067863632, // dangle_left_GGA -0.0077898484, // dangle_left_GGC -0.0025365572, // dangle_left_GGG -0.0022597446, // dangle_left_GGU 0.0177611804, // dangle_left_GUA 0.0187004959, // dangle_left_GUC -0.0015319172, // dangle_left_GUG 0.0173535396, // dangle_left_GUU 0.0787220482, // dangle_left_UAA 0.0345397075, // dangle_left_UAC -0.0912635895, // dangle_left_UAG -0.1141568474, // dangle_left_UAU -0.0015421884, // dangle_left_UCA 0.0001140509, // dangle_left_UCC -0.0064963988, // dangle_left_UCG -0.0006285923, // dangle_left_UCU 0.0629823003, // dangle_left_UGA -0.0414548628, // dangle_left_UGC 0.1677199451, // dangle_left_UGG -0.0551510026, // dangle_left_UGU 0.0118813392, // dangle_left_UUA -0.0057919347, // dangle_left_UUC -0.0099113140, // dangle_left_UUG 0.0029648344, // dangle_left_UUU -0.0086526685, // dangle_right_AAA 0.0065100646, // dangle_right_AAC -0.0020008295, // dangle_right_AAG 0.0005196107, // dangle_right_AAU -0.0110463344, // dangle_right_ACA 0.0034727923, // dangle_right_ACC 0.0047011131, // dangle_right_ACG 0.0023581747, // dangle_right_ACU 0.0084856542, // dangle_right_AGA -0.0008570779, // dangle_right_AGC -0.0020194887, // dangle_right_AGG -0.0038615974, // dangle_right_AGU 0.0955302314, // dangle_right_AUA -0.0406921612, // dangle_right_AUC 0.0204608955, // dangle_right_AUG -0.1201069678, // dangle_right_AUU 0.0019942146, // dangle_right_CAA 0.0022125209, // dangle_right_CAC -0.0017300964, // dangle_right_CAG 0.0016799291, // dangle_right_CAU 0.0074264479, // dangle_right_CCA -0.0041222471, // dangle_right_CCC -0.0004970750, // dangle_right_CCG -0.0059403146, // dangle_right_CCU 0.0349666395, // dangle_right_CGA 0.0084934348, // dangle_right_CGC 0.0218719383, // dangle_right_CGG -0.1189782197, // dangle_right_CGU 0.0000083639, // dangle_right_CUA -0.0043548711, // dangle_right_CUC 0.0022738498, // dangle_right_CUG -0.0035945182, // dangle_right_CUU -0.0026194444, // dangle_right_GAA -0.0063562732, // dangle_right_GAC -0.0059790190, // dangle_right_GAG 0.0015943826, // dangle_right_GAU 0.0229991813, // dangle_right_GCA -0.0373967608, // dangle_right_GCC -0.1860843714, // dangle_right_GCG -0.0376274758, // dangle_right_GCU -0.0061922724, // dangle_right_GGA 0.0077674626, // dangle_right_GGC -0.0068004395, // dangle_right_GGG -0.0035016427, // dangle_right_GGU 0.0686692897, // dangle_right_GUA -0.0223187205, // dangle_right_GUC 0.0044172360, // dangle_right_GUG -0.0419975662, // dangle_right_GUU -0.1152577330, // dangle_right_UAA 0.0430268951, // dangle_right_UAC 0.1803824889, // dangle_right_UAG -0.1840398136, // dangle_right_UAU -0.0044671635, // dangle_right_UCA 0.0055419306, // dangle_right_UCC -0.0039851961, // dangle_right_UCG -0.0051780076, // dangle_right_UCU 0.1569276650, // dangle_right_UGA 0.0888593233, // dangle_right_UGC -0.1080537799, // dangle_right_UGG 0.0313180684, // dangle_right_UGU 0.0038559609, // dangle_right_UUA 0.0065810819, // dangle_right_UUC -0.0063469793, // dangle_right_UUG -0.0109881502, // dangle_right_UUU 0.0388346167, // external_unpaired -0.2577193192 // external_paired }; return std::vector(values, values + 708); }