Origin IGS: acctgttattttaagtaatttgtggtacaatagaaagagtttaataaaggagaaaagatggttttagaaagcagttgggcaatggttgtacctggatagaccttgatgtggataagattaaaat .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 attttaatcttatccacatcaaggtctatccaggtacaaccattgcccaactgctttctaaaaccatcttttctcctttattaaactctttctattgtaccacaaattacttaaaataacaggt Mask Tandem Repeat Region ================================================ acctgttattttaagtaatttgtggtacaatagaaagagtttaataaaggagaaaagatggttttagaaagcagttgggcaatggttgtacctggatagaccttgatgtggataagattaaaat Find is-nt database================================================ Query_seq: SMT_1819:SMT_1820|SMT_1819:SMT_1820:K03442 small conductance mechanosensitive ion channel, MscS family:cation transporter CorA family:->->:1793616..1793739 124 acctgttattttaagtaatttgtggtacaatagaaagagtttaataaaggagaaaagatggttttagaaagcagttgggcaatggttgtacctggatagaccttgatgtggataagattaaaat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_1819:SMT_1820|SMT_1819:SMT_1820:K03442 small conductance mechanosensitive ion channel, MscS family:cation transporter CorA family:->->:1793616..1793739 124 acctgttattttaagtaatttgtggtacaatagaaagagtttaataaaggagaaaagatggttttagaaagcagttgggcaatggttgtacctggatagaccttgatgtggataagattaaaat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_1819:SMT_1820|SMT_1819:SMT_1820:K03442 small conductance mechanosensitive ion channel, MscS family:cation transporter CorA family:->->:1793616..1793739 124 acctgttattttaagtaatttgtggtacaatagaaagagtttaataaaggagaaaagatggttttagaaagcagttgggcaatggttgtacctggatagaccttgatgtggataagattaaaat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 acctgttattttaagtaatttgtggtacaatagaaagagtttaataaaggagaaaagatggttttagaaagcagttgggcaatggttgtacctggatagaccttgatgtggataagattaaaat Predict ORF larger than 30AA ================================================ Protein_Len: 35 Strand: - Start: 9 End: 113 ........ K L Y N T T C Y F S N L L P S F I T K S L L Q A I T T G P Y V K I H M ........... acctgttattttaagtaatttgtggtacaatagaaagagtttaataaaggagaaaagatggttttagaaagcagttgggcaatggttgtacctggatagaccttgatgtggataagattaaaat Predict Promoter with matrix: RpoD-15 score > 80================================================ Predict Promoter with matrix: RpoD-16 score > 80================================================ Predict Promoter with matrix: RpoD-17 score > 80================================================ PromScan Matrix: RpoD-17 Strand: + Score: 82 Start: 2 End: 31 .CCTGTTATTTTAAGTAATTTGTGGTACAAT............................................................................................. Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ acctgttattttaagtaatttgtggtacaatagaaagagtttaataaaggagaaaagatggttttagaaagcagttgggcaatggttgtacctggatagaccttgatgtggataagattaaaat Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SMT_1819:SMT_1820|SMT_1819:SMT_1820:K03442 small conductance mechanosensitive ion channel, MscS family:cation transporter CorA family:->->:1793616..1793739 124 acctgttattttaagtaatttgtggtacaatagaaagagtttaataaaggagaaaagatggttttagaaagcagttgggcaatggttgtacctggatagaccttgatgtggataagattaaaat Intra-Species Hit: Count: 1 Min: 1 Max: 124 Len: 124 Subject: smit_SMT_1819_SMT_1820|K03442 small conductance mechanosensitive ion channel, MscS family:cation transporter CorA family|POSITIVE:POSITIVE|[1793616,1793739]|124 HSP 1 e-value: 1.0E-64 bit: 246.0 Len: 124 Query Start:1 Query End:124 Subject Strand: POSITIVE Subject Start: 1 Subject End: 124 acctgttattttaagtaatttgtggtacaatagaaagagtttaataaaggagaaaagatggttttagaaagcagttgggcaatggttgtacctggatagaccttgatgtggataagattaaaat acctgttattttaagtaatttgtggtacaatagaaagagtttaataaaggagaaaagatggttttagaaagcagttgggcaatggttgtacctggatagaccttgatgtggataagattaaaat Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ ACCUGUUAUUUUAAGUAAUUUGUGGUACAAUAGAAAGAGUUUAAUAAAGGAGAAAAGAUGGUUUUAGAAAGCAGUUGGGCAAUGGUUGUACCUGGAUAGACCUUGAUGUGGAUAAGAUUAAAAU ..((.((((.(((((..((..(.((((((((....(..(((((((.......((((.....))))........)))))))..).)))))))))..))....))))).))))...))........ (-15.86) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUUUUAAUCUUAUCCACAUCAAGGUCUAUCCAGGUACAACCAUUGCCCAACUGCUUUCUAAAACCAUCUUUUCUCCUUUAUUAAACUCUUUCUAUUGUACCACAAAUUACUUAAAAUAACAGGU (((((((...............((.....)).(((((((.....((......)).....((((.....))))......................))))))).........)))))))....... ( -9.40) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 296 109 70 88 44 smit:SMT_1971|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1903282..1903512_POSITIVE 296 109 70 61 17 smit:SMT_1219|5end_hypothetical_protein_1179392..1179622_POSITIVE 295 99 57 63 26 smit:SMT_2010|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1929514..1929744_POSITIVE 289 118 77 31 1 smit:SMT_596|5end_K03976_putative_transcription_regulator_513075..513305_NEGATIVE 287 58 19 229 183 smit:SMT_1803|5end_K03693_penicillin_binding_protein_1776804..1777034_POSITIVE 281 110 68 40 1 smit:SMT_1134|5end_glutamyl-tRNA_synthetase_1076464..1076694_NEGATIVE 280 116 71 73 19 smit:SMT_1248|5end_Na+/H+_antiporter_1210529..1210759_NEGATIVE 278 102 72 166 138 smit:SMT_953|5end_hypothetical_protein_901576..901806_NEGATIVE 263 115 71 55 6 smit:SMT_480|5end_K03308_neurotransmitter:Na+_symporter,_NSS_family_417433..417663_NEGATIVE 263 115 71 55 6 smit:SMT_475|5end_K03308_neurotransmitter:Na+_symporter,_NSS_family_412997..413227_NEGATIVE 263 115 71 55 6 smit:SMT_474|5end_K03308_neurotransmitter:Na+_symporter,_NSS_family_411894..412124_NEGATIVE 263 115 71 55 6 smit:SMT_473|5end_K03308_neurotransmitter:Na+_symporter,_NSS_family_410614..410844_NEGATIVE 263 115 71 154 105 smit:SMT_472|5end_K03308_neurotransmitter:Na+_symporter,_NSS_family_409494..409724_NEGATIVE 263 115 71 55 6 smit:SMT_471|5end_K03308_neurotransmitter:Na+_symporter,_NSS_family_408351..408581_NEGATIVE 259 86 48 218 168 smit:SMT_1477|5end_K02077_zinc/manganese_transport_system_substrate-binding_protein_1460376..1460606_NEGATIVE 257 98 60 57 23 smit:SMT_1382|5end_glutamate_5-kinase_1360744..1360974_NEGATIVE 255 115 71 164 120 smit:SMT_1610|5end_tyrosine_recombinase_1598565..1598795_POSITIVE 255 100 52 196 153 smit:SMT_1467|5end_hydroxyacylglutathione_hydrolase_1448633..1448863_NEGATIVE 250 89 48 103 59 smit:SMT_1928|5end_O-methyltransferase_family_protein_1869652..1869882_NEGATIVE 250 115 71 154 105 smit:SMT_469|5end_K03308_neurotransmitter:Na+_symporter,_NSS_family_405812..406042_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 289 118 77 31 1 smit:SMT_597|3end_K08974_putative_membrane_protein_513075..513225_NEGATIVE 287 96 57 47 8 smit:SMT_2111|3end_hypothetical_protein_predicted_by_Glimmer/Critica_2000036..2000186_POSITIVE 286 112 76 151 119 smit:SMT_1467|3end_hydroxyacylglutathione_hydrolase_1448004..1448154_NEGATIVE 280 116 71 61 7 smit:SMT_1249|3end_hypothetical_protein_1210541..1210691_NEGATIVE 278 102 72 65 37 smit:SMT_954|3end_cation-transporting_ATPase,_E1-E2_family_901677..901827_NEGATIVE 265 95 56 136 102 smit:SMT_116|3end_beta-N-acetylhexosaminidase_68356..68506_POSITIVE 256 99 57 60 9 smit:SMT_1879|3end_K06147_ATP-binding_cassette,_subfamily_B,_bacterial_1836567..1836717_NEGATIVE 255 100 52 54 11 smit:SMT_1468|3end_pneumococcal_surface_protein,_putative_1448775..1448925_NEGATIVE 253 120 71 53 4 smit:SMT_1512|3end_hypothetical_protein_1493896..1494046_NEGATIVE 253 120 76 137 82 smit:SMT_346|3end_K01992_ABC-2_type_transport_system_permease_protein_285849..285999_POSITIVE 250 89 48 65 21 smit:SMT_1929|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1869690..1869840_NEGATIVE 245 109 61 134 72 smit:SMT_1000|3end_glutamyl-tRNA_Gln_amidotransferase_subunit_C_942241..942391_POSITIVE 244 59 11 66 22 smit:SMT_687|3end_carbamoyl-phosphate_synthase,_large_subunit_596088..596238_NEGATIVE 241 87 48 81 29 smit:SMT_479|3end_K03308_neurotransmitter:Na+_symporter,_NSS_family_415604..415754_NEGATIVE 238 95 58 143 103 smit:SMT_1848|3end_K03458_nucleobase:cation_symporter-2,_NCS2_family_1812694..1812844_NEGATIVE 238 86 52 42 4 smit:SMT_552|3end_DNA_polymerase_III,_gamma_and_tau_subunits_471180..471330_POSITIVE 234 115 73 45 3 smit:SMT_1379|3end_thymidylate_kinase_1356800..1356950_NEGATIVE 233 87 48 124 82 smit:SMT_1885|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1839830..1839980_NEGATIVE 232 111 73 62 15 smit:SMT_1964|3end_sodium/hydrogen_exchanger_family_protein_1896596..1896746_NEGATIVE 230 116 85 144 117 smit:SMT_458|3end_hypothetical_protein_predicted_by_Glimmer/Critica_396729..396879_NEGATIVE