Origin IGS: nnnnnagaaaagagatccctttccctgtgcaatctataaaaaaatccmgtaaaggagagagactcctatatgaaatattctccaaatgttgacgagcagataactaattaaaaatatagttccaataacgtttttataaattctgggraaattgagcacccaaataaatagtaggcaccatggtgraaacgactaccaaccagaatatatagcacagaaactaagaattctaaaataatcatagaataaaacgactcctaatttatttaagcgaaataatatttatctccccgatacaactctctagtttttcatactttctgaaaaacaatacatccacaaaaggctttagtttcttttaaaatacaagaaatctaaagcctcttgaaaatgatttgcacgttttaattttatattcgttgtgaagattgcttatctat .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 atagataagcaatcttcacaacgaatataaaattaaaacgtgcaaatcattttcaagaggctttagatttcttgtattttaaaagaaactaaagccttttgtggatgtattgtttttcagaaagtatgaaaaactagagagttgtatcggggagataaatattatttcgcttaaataaattaggagtcgttttattctatgattattttagaattcttagtttctgtgctatatattctggttggtagtcgtttycaccatggtgcctactatttatttgggtgctcaatttycccagaatttataaaaacgttattggaactatatttttaattagttatctgctcgtcaacatttggagaatatttcatataggagtctctctcctttackggatttttttatagattgcacagggaaagggatctcttttctnnnnn Mask Tandem Repeat Region ================================================ nnnnnagaaaagagatccctttccctgtgcaatctataaaaaaatccmgtaaaggagagagactcctatatgaaatattctccaaatgttgacgagcagataactaattaaaaatatagttccaataacgtttttataaattctgggraaattgagcacccaaataaatagtaggcaccatggtgraaacgactaccaaccagaatatatagcacagaaactaagaattctaaaataatcatagaataaaacgactcctaatttatttaagcgaaataatatttatctccccgatacaactctctagtttttcatactttctgaaaaacaatacatccacaaaaggctttagtttcttttaaaatacaagaaatctaaagcctcttgaaaatgatttgcacgttttaattttatattcgttgtgaagattgcttatctat Find is-nt database================================================ Query_seq: SMT_1986:SMT_1987|SMT_1986:SMT_1987:mercuric reductase:hypothetical protein predicted by Glimmer/Critica:-><-:1915622..1916061 440 nnnnnagaaaagagatccctttccctgtgcaatctataaaaaaatccmgtaaaggagagagactcctatatgaaatattctccaaatgttgacgagcagataactaattaaaaatatagttccaataacgtttttataaattctgggraaattgagcacccaaataaatagtaggcaccatggtgraaacgactaccaaccagaatatatagcacagaaactaagaattctaaaataatcatagaataaaacgactcctaatttatttaagcgaaataatatttatctccccgatacaactctctagtttttcatactttctgaaaaacaatacatccacaaaaggctttagtttcttttaaaatacaagaaatctaaagcctcttgaaaatgatttgcacgttttaattttatattcgttgtgaagattgcttatctat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_1986:SMT_1987|SMT_1986:SMT_1987:mercuric reductase:hypothetical protein predicted by Glimmer/Critica:-><-:1915622..1916061 440 nnnnnagaaaagagatccctttccctgtgcaatctataaaaaaatccmgtaaaggagagagactcctatatgaaatattctccaaatgttgacgagcagataactaattaaaaatatagttccaataacgtttttataaattctgggraaattgagcacccaaataaatagtaggcaccatggtgraaacgactaccaaccagaatatatagcacagaaactaagaattctaaaataatcatagaataaaacgactcctaatttatttaagcgaaataatatttatctccccgatacaactctctagtttttcatactttctgaaaaacaatacatccacaaaaggctttagtttcttttaaaatacaagaaatctaaagcctcttgaaaatgatttgcacgttttaattttatattcgttgtgaagattgcttatctat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_1986:SMT_1987|SMT_1986:SMT_1987:mercuric reductase:hypothetical protein predicted by Glimmer/Critica:-><-:1915622..1916061 440 nnnnnagaaaagagatccctttccctgtgcaatctataaaaaaatccmgtaaaggagagagactcctatatgaaatattctccaaatgttgacgagcagataactaattaaaaatatagttccaataacgtttttataaattctgggraaattgagcacccaaataaatagtaggcaccatggtgraaacgactaccaaccagaatatatagcacagaaactaagaattctaaaataatcatagaataaaacgactcctaatttatttaagcgaaataatatttatctccccgatacaactctctagtttttcatactttctgaaaaacaatacatccacaaaaggctttagtttcttttaaaatacaagaaatctaaagcctcttgaaaatgatttgcacgttttaattttatattcgttgtgaagattgcttatctat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 nnnnnagaaaagagatccctttccctgtgcaatctataaaaaaatccmgtaaaggagagagactcctatatgaaatattctccaaatgttgacgagcagataactaattaaaaatatagttccaataacgtttttataaattctgggraaattgagcacccaaataaatagtaggcaccatggtgraaacgactaccaaccagaatatatagcacagaaactaagaattctaaaataatcatagaataaaacgactcctaatttatttaagcgaaataatatttatctccccgatacaactctctagtttttcatactttctgaaaaacaatacatccacaaaaggctttagtttcttttaaaatacaagaaatctaaagcctcttgaaaatgatttgcacgttttaattttatattcgttgtgaagattgcttatctat Predict ORF larger than 30AA ================================================ Protein_Len: 32 Strand: + Start: 140 End: 235 ........................................................................................................................................... M L G K L S T Q I N S R H H G X N D Y Q P E Y I A Q K L R I L K ............................................................................................................................................................................................................. Protein_Len: 38 Strand: + Start: 246 End: 359 ..................................................................................................................................................................................................................................................... M K R L L I Y L S E I I F I S P I Q L S S F S Y F L K N N T S T K G F S F F ................................................................................. Protein_Len: 44 Strand: - Start: 111 End: 242 .............................................................................................................. F Y L E L L T K I F E P X I S C G F L Y Y A G H H F R S G V L I Y L V S V L F E L I I M ...................................................................................................................................................................................................... Protein_Len: 43 Strand: - Start: 37 End: 165 .................................... L F I X Y L L S V G I H F I R W I N V L L Y S I L F I T G I V N K Y I R P F N L V W M ................................................................................................................................................................................................................................................................................... nnnnnagaaaagagatccctttccctgtgcaatctataaaaaaatccmgtaaaggagagagactcctatatgaaatattctccaaatgttgacgagcagataactaattaaaaatatagttccaataacgtttttataaattctgggraaattgagcacccaaataaatagtaggcaccatggtgraaacgactaccaaccagaatatatagcacagaaactaagaattctaaaataatcatagaataaaacgactcctaatttatttaagcgaaataatatttatctccccgatacaactctctagtttttcatactttctgaaaaacaatacatccacaaaaggctttagtttcttttaaaatacaagaaatctaaagcctcttgaaaatgatttgcacgttttaattttatattcgttgtgaagattgcttatctat Predict Promoter with matrix: RpoD-15 score > 80================================================ Predict Promoter with matrix: RpoD-16 score > 80================================================ Predict Promoter with matrix: RpoD-17 score > 80================================================ Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ nnnnnagaaaagagatccctttccctgtgcaatctataaaaaaatccmgtaaaggagagagactcctatatgaaatattctccaaatgttgacgagcagataactaattaaaaatatagttccaataacgtttttataaattctgggraaattgagcacccaaataaatagtaggcaccatggtgraaacgactaccaaccagaatatatagcacagaaactaagaattctaaaataatcatagaataaaacgactcctaatttatttaagcgaaataatatttatctccccgatacaactctctagtttttcatactttctgaaaaacaatacatccacaaaaggctttagtttcttttaaaatacaagaaatctaaagcctcttgaaaatgatttgcacgttttaattttatattcgttgtgaagattgcttatctat Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 100 HP_score: -10.9 Tail_Score: -4.46757 Start: 345 End: 382 Full_Region: aaatcattttcaaga ggctttagatttcttgta ttt taaaagaaactaaagcc ttttgtggatgtatt ........................................................................................................................................................................................................................................................................................................................................................ggctttagatttcttgtattttaaaagaaactaaagcc.......................................................... Find igs database================================================ Query_seq: SMT_1986:SMT_1987|SMT_1986:SMT_1987:mercuric reductase:hypothetical protein predicted by Glimmer/Critica:-><-:1915622..1916061 440 nnnnnagaaaagagatccctttccctgtgcaatctataaaaaaatccmgtaaaggagagagactcctatatgaaatattctccaaatgttgacgagcagataactaattaaaaatatagttccaataacgtttttataaattctgggraaattgagcacccaaataaatagtaggcaccatggtgraaacgactaccaaccagaatatatagcacagaaactaagaattctaaaataatcatagaataaaacgactcctaatttatttaagcgaaataatatttatctccccgatacaactctctagtttttcatactttctgaaaaacaatacatccacaaaaggctttagtttcttttaaaatacaagaaatctaaagcctcttgaaaatgatttgcacgttttaattttatattcgttgtgaagattgcttatctat Intra-Species Hit: Count: 2 Min: 6 Max: 440 Len: 435 Subject: smit_SMT_1986_SMT_1987|mercuric reductase:hypothetical protein predicted by Glimmer/Critica|POSITIVE:NEGATIVE|[1915622,1916061]|440 HSP 1 e-value: 0.0 bit: 813.0 Len: 435 Query Start:6 Query End:440 Subject Strand: POSITIVE Subject Start: 6 Subject End: 440 .....agaaaagagatccctttccctgtgcaatctatnnnnnnntccmgtaaaggagagagactcctatatgaaatattctccaaatgttgacgagcagataactaattaaaaatatagttccaataacgtttttataaattctgggraaattgagcacccaaataaatagtaggcaccatggtgraaacgactaccaaccagaatatatagcacagaaactaagaattctaaaataatcatagaataaaacgactcctaatttatttaagcgaaataatatttatctccccgatacaactctctagtttttcatactttctgaaaaacaatacatccacaaaaggctttagtttcttttaaaatacaagaaatctaaagcctcttgaaaatgatttgcacgttttaattttatattcgttgtgaagattgcttatctat .....agaaaagagatccctttccctgtgcaatctataaaaaaatccmgtaaaggagagagactcctatatgaaatattctccaaatgttgacgagcagataactaattaaaaatatagttccaataacgtttttataaattctgggraaattgagcacccaaataaatagtaggcaccatggtgraaacgactaccaaccagaatatatagcacagaaactaagaattctaaaataatcatagaataaaacgactcctaatttatttaagcgaaataatatttatctccccgatacaactctctagtttttcatactttctgaaaaacaatacatccacaaaaggctttagtttcttttaaaatacaagaaatctaaagcctcttgaaaatgatttgcacgttttaattttatattcgttgtgaagattgcttatctat Subject: smit_SMT_1206_SMT_1207|similar to sensor histidine kinase (AgrC from Staphylococcus):choline binding protein A|NEGATIVE:NEGATIVE|[1167134,1167331]|198 HSP 1 e-value: 1.0E-108 bit: 394.0 Len: 198 Query Start:243 Query End:440 Subject Strand: POSITIVE Subject Start: 1 Subject End: 198 ..................................................................................................................................................................................................................................................agaataaaacgactcctaatttatttaagcgaaataatatttatctccccgatacaactctctagtttttcatactttctgaaaaacaatacatccacaaaaggctttagtttcttttaaaatacaagaaatctaaagcctcttgaaaatgatttgcacgttttaattttatattcgttgtgaagattgcttatctat ..................................................................................................................................................................................................................................................agaataaaacgactcctaatttatttaagcgaaataatatttatctccccgatacaactctctagtttttcatactttctgaaaaacaatacatccacaaaaggctttagtttcttttaaaatacaagaaatctaaagcctcttgaaaatgatttgcacgttttaattttatattcgttgtgaagattgcttatctat Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGAAAAGAGAUCCCUUUCCCUGUGCAAUCUAUAAAAAAAUCCMGUAAAGGAGAGAGACUCCUAUAUGAAAUAUUCUCCAAAUGUUGACGAGCAGAUAACUAAUUAAAAAUAUAGUUCCAAUAACGUUUUUAUAAAUUCUGGGRAAAUUGAGCACCCAAAUAAAUAGUAGGCACCAUGGUGRAAACGACUACCAACCAGAAUAUAUAGCACAGAAACUAAGAAUUCUAAAAUAAUCAUAGAAUAAAACGACUCCUAAUUUAUUUAAGCGAAAUAAUAUUUAUCUCCCCGAUACAACUCUCUAGUUUUUCAUACUUUCUGAAAAACAAUACAUCCACAAAAGGCUUUAGUUUCUUUUAAAAUACAAGAAAUCUAAAGCCUCUUGAAAAUGAUUUGCACGUUUUAAUUUUAUAUUCGUUGUGAAGAUUGCUUAUCUAU (((.(((..(((.......((((((....((((((((...........((((((....((......))....))))))...(((((..((((.....................)))))))))...)))))))).(((((((.....(((......))).....((((.(.(((....)))....).))))....))))))).....))))))..........(((...((..(..(((((((((((((.....(((.....))).(((((........((((.....))))..........((((((((.......))))))))....(((...(((.(((((((((((((((.........)))))).))))))))).)))...))).))))).)))))).)))))))..)..))..))))))..))).))).. (-80.20) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUAGAUAAGCAAUCUUCACAACGAAUAUAAAAUUAAAACGUGCAAAUCAUUUUCAAGAGGCUUUAGAUUUCUUGUAUUUUAAAAGAAACUAAAGCCUUUUGUGGAUGUAUUGUUUUUCAGAAAGUAUGAAAAACUAGAGAGUUGUAUCGGGGAGAUAAAUAUUAUUUCGCUUAAAUAAAUUAGGAGUCGUUUUAUUCUAUGAUUAUUUUAGAAUUCUUAGUUUCUGUGCUAUAUAUUCUGGUUGGUAGUCGUUUYCACCAUGGUGCCUACUAUUUAUUUGGGUGCUCAAUUUYCCCAGAAUUUAUAAAAACGUUAUUGGAACUAUAUUUUUAAUUAGUUAUCUGCUCGUCAACAUUUGGAGAAUAUUUCAUAUAGGAGUCUCUCUCCUUUACKGGAUUUUUUUAUAGAUUGCACAGGGAAAGGGAUCUCUUUUCU ........(((((((..(((((.........................((((..(((((((((((((.((((((.........)))))))))))))))))))..))))....((((((((.......))))))))......)))))..((((.((((((..((((...(((((((((((((((((..((((........((((((((((((((((...((((......))))...)))))))..))))))))).......))))..))))..)))))))))))))..........(((((((..........))).))))...........))))...)))))).))))..........(((((.((((..((.(((((.....))))).))..)))).)))))..)))))))...((((((((....)))))))) (-107.46) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 804 330 281 184 135 smit:SMT_1206|5end_similar_to_sensor_histidine_kinase_(AgrC_from_Staphylococcus)_1167043..1167273_NEGATIVE 269 353 324 54 20 smit:SMT_1160|5end_K03152_4-methyl-5(b-hydroxyethyl)-thiazole_monophosphate_biosynthesis_1105174..1105404_NEGATIVE 268 65 37 107 79 smit:SMT_1125|5end_K08987_putative_membrane_protein_1061145..1061375_NEGATIVE 263 325 281 127 85 smit:SMT_711|5end_choline_kinase_620170..620400_NEGATIVE 263 325 281 127 85 smit:SMT_681|5end_choline_kinase_590821..591051_NEGATIVE 249 210 163 166 102 smit:SMT_680|5end_choline_transport_protein_589962..590192_NEGATIVE 245 200 165 220 184 smit:SMT_2109|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1999099..1999329_NEGATIVE 241 310 263 160 114 smit:SMT_98|5end_hypothetical_protein_28924..29154_POSITIVE 240 193 151 178 131 smit:SMT_608|5end_laminin-binding_surface_protein_520757..520987_POSITIVE 239 100 52 74 33 smit:SMT_1859|5end_serine_protease_1822394..1822624_NEGATIVE 232 401 364 128 93 smit:SMT_1012|5end_xanthine_permease_949154..949384_POSITIVE 227 119 73 90 33 smit:SMT_1483|5end_GTP-binding_protein_1463676..1463906_NEGATIVE 227 119 73 90 33 smit:SMT_1408|5end_GTP-binding_protein_1387147..1387377_NEGATIVE 226 25 8 220 202 smit:SMT_2045|5end_K+_transport_system,_NAD-binding_component_1956139..1956369_POSITIVE 226 25 8 174 156 smit:SMT_1986|5end_mercuric_reductase_1914843..1915073_POSITIVE 226 294 261 206 176 smit:SMT_576|5end_transcriptional_regulator,_LysR_family_495157..495387_POSITIVE 226 25 8 207 189 smit:SMT_325|5end_K02029_polar_amino_acid_transport_system_permease_protein_263023..263253_NEGATIVE 225 209 166 215 179 smit:SMT_323|5end_amino_acid_transport_ATP-binding_protein_261872..262102_NEGATIVE 224 365 334 228 195 smit:SMT_1731|5end_K06442_putative_hemolysin_1715643..1715873_POSITIVE 223 222 182 205 154 smit:SMT_355|5end_hypothetical_protein_291622..291852_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 732 420 371 75 26 smit:SMT_1207|3end_choline_binding_protein_A_1167242..1167392_NEGATIVE 289 95 55 114 81 smit:SMT_603|3end_hypothetical_protein_518532..518682_POSITIVE 269 353 324 43 9 smit:SMT_1161|3end_K05837_rod_shape_determining_protein_RodA_1105185..1105335_NEGATIVE 268 65 37 95 67 smit:SMT_1126|3end_K08987_putative_membrane_protein_1061157..1061307_NEGATIVE 263 325 281 110 68 smit:SMT_712|3end_alcohol_dehydrogenase,_zinc-containing_620187..620337_NEGATIVE 263 325 281 110 68 smit:SMT_682|3end_hypothetical_protein_590838..590988_NEGATIVE 252 89 58 32 2 smit:SMT_228|3end_hypothetical_protein_165093..165243_POSITIVE 252 89 58 32 2 smit:SMT_224|3end_hypothetical_protein_159599..159749_POSITIVE 240 209 169 60 24 smit:SMT_213|3end_leucyl-tRNA_synthetase_146167..146317_POSITIVE 232 401 364 128 93 smit:SMT_1011|3end_xanthine_phosphoribosyltransferase_949234..949384_POSITIVE 228 320 274 75 23 smit:SMT_1804|3end_hypothetical_protein_1780314..1780464_POSITIVE 227 64 21 59 11 smit:SMT_1015|3end_galactose_operon_repressor_953019..953169_POSITIVE 227 217 174 147 100 smit:SMT_330|3end_membrane-associated_phospholipid_phosphatase_266187..266337_POSITIVE 224 178 151 142 110 smit:SMT_607|3end_K03294_basic_amino_acid/polyamine_antiporter,_APA_family_520816..520966_POSITIVE 223 180 146 139 106 smit:SMT_1248|3end_Na+/H+_antiporter_1208667..1208817_NEGATIVE 222 59 12 70 29 smit:SMT_836|3end_cell_surface_protein_precursor_777664..777814_NEGATIVE 216 155 111 73 31 smit:SMT_379|3end_acetyltransferase,_GNAT_family_316456..316606_POSITIVE 216 155 111 73 31 smit:SMT_370|3end_acetyltransferase,_GNAT_family_305328..305478_POSITIVE 214 139 107 91 58 smit:SMT_2019|3end_dTDP-glucose_4,6-dehydratase_1937643..1937793_POSITIVE 214 139 107 91 58 smit:SMT_1316|3end_dTDP-glucose_4,6-dehydratase_1281969..1282119_POSITIVE