Origin IGS: gaacctgaaccataagaactcctaaaatttccaagaacaaaagatagagactagtttatcaaaagtacatagccatcaccttcccacaactataaaataaatccttttttatatctacattatagtcctgtaaaaaaggaaagtcaattaaaattgtgactatattaacaatttcattctagcagaaactcattgatattttcatttgatctttatttcttatttccttt .........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 aaaggaaataagaaataaagatcaaatgaaaatatcaatgagtttctgctagaatgaaattgttaatatagtcacaattttaattgactttccttttttacaggactataatgtagatataaaaaaggatttattttatagttgtgggaaggtgatggctatgtacttttgataaactagtctctatcttttgttcttggaaattttaggagttcttatggttcaggttc Mask Tandem Repeat Region ================================================ gaacctgaaccataagaactcctaaaatttccaagaacaaaagatagagactagtttatcaaaagtacatagccatcaccttcccacaactataaaataaatccttttttatatctacattatagtcctgtaaaaaaggaaagtcaattaaaattgtgactatattaacaatttcattctagcagaaactcattgatattttcatttgatctttatttcttatttccttt Find is-nt database================================================ Query_seq: SMT_1210:SMT_1211|SMT_1210:SMT_1211:hypothetical protein predicted by Glimmer/Critica:hypothetical protein predicted by Glimmer/Critica:<-->:1171142..1171371 230 gaacctgaaccataagaactcctaaaatttccaagaacaaaagatagagactagtttatcaaaagtacatagccatcaccttcccacaactataaaataaatccttttttatatctacattatagtcctgtaaaaaaggaaagtcaattaaaattgtgactatattaacaatttcattctagcagaaactcattgatattttcatttgatctttatttcttatttccttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_1210:SMT_1211|SMT_1210:SMT_1211:hypothetical protein predicted by Glimmer/Critica:hypothetical protein predicted by Glimmer/Critica:<-->:1171142..1171371 230 gaacctgaaccataagaactcctaaaatttccaagaacaaaagatagagactagtttatcaaaagtacatagccatcaccttcccacaactataaaataaatccttttttatatctacattatagtcctgtaaaaaaggaaagtcaattaaaattgtgactatattaacaatttcattctagcagaaactcattgatattttcatttgatctttatttcttatttccttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_1210:SMT_1211|SMT_1210:SMT_1211:hypothetical protein predicted by Glimmer/Critica:hypothetical protein predicted by Glimmer/Critica:<-->:1171142..1171371 230 gaacctgaaccataagaactcctaaaatttccaagaacaaaagatagagactagtttatcaaaagtacatagccatcaccttcccacaactataaaataaatccttttttatatctacattatagtcctgtaaaaaaggaaagtcaattaaaattgtgactatattaacaatttcattctagcagaaactcattgatattttcatttgatctttatttcttatttccttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gaacctgaaccataagaactcctaaaatttccaagaacaaaagatagagactagtttatcaaaagtacatagccatcaccttcccacaactataaaataaatccttttttatatctacattatagtcctgtaaaaaaggaaagtcaattaaaattgtgactatattaacaatttcattctagcagaaactcattgatattttcatttgatctttatttcttatttccttt Predict ORF larger than 30AA ================================================ Protein_Len: 37 Strand: - Start: 62 End: 172 ............................................................. F Y M A M V K G C S Y F L D K K I D V N Y D Q L F P F D I L I T V I N V M .......................................................... gaacctgaaccataagaactcctaaaatttccaagaacaaaagatagagactagtttatcaaaagtacatagccatcaccttcccacaactataaaataaatccttttttatatctacattatagtcctgtaaaaaaggaaagtcaattaaaattgtgactatattaacaatttcattctagcagaaactcattgatattttcatttgatctttatttcttatttccttt 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: 88 Start: 119 End: 148 ......................................................................................................................ATTGACTTTCCTTTTTTACAGGACTATAAT.................................................................................. Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ gaacctgaaccataagaactcctaaaatttccaagaacaaaagatagagactagtttatcaaaagtacatagccatcaccttcccacaactataaaataaatccttttttatatctacattatagtcctgtaaaaaaggaaagtcaattaaaattgtgactatattaacaatttcattctagcagaaactcattgatattttcatttgatctttatttcttatttccttt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SMT_1210:SMT_1211|SMT_1210:SMT_1211:hypothetical protein predicted by Glimmer/Critica:hypothetical protein predicted by Glimmer/Critica:<-->:1171142..1171371 230 gaacctgaaccataagaactcctaaaatttccaagaacaaaagatagagactagtttatcaaaagtacatagccatcaccttcccacaactataaaataaatccttttttatatctacattatagtcctgtaaaaaaggaaagtcaattaaaattgtgactatattaacaatttcattctagcagaaactcattgatattttcatttgatctttatttcttatttccttt Intra-Species Hit: Count: 1 Min: 1 Max: 230 Len: 230 Subject: smit_SMT_1210_SMT_1211|hypothetical protein predicted by Glimmer/Critica:hypothetical protein predicted by Glimmer/Critica|NEGATIVE:POSITIVE|[1171142,1171371]|230 HSP 1 e-value: 1.0E-127 bit: 456.0 Len: 230 Query Start:1 Query End:230 Subject Strand: POSITIVE Subject Start: 1 Subject End: 230 gaacctgaaccataagaactcctaaaatttccaagaacaaaagatagagactagtttatcaaaagtacatagccatcaccttcccacaactataaaataaatccttttttatatctacattatagtcctgtaaaaaaggaaagtcaattaaaattgtgactatattaacaatttcattctagcagaaactcattgatattttcatttgatctttatttcttatttccttt gaacctgaaccataagaactcctaaaatttccaagaacaaaagatagagactagtttatcaaaagtacatagccatcaccttcccacaactataaaataaatccttttttatatctacattatagtcctgtaaaaaaggaaagtcaattaaaattgtgactatattaacaatttcattctagcagaaactcattgatattttcatttgatctttatttcttatttccttt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GAACCUGAACCAUAAGAACUCCUAAAAUUUCCAAGAACAAAAGAUAGAGACUAGUUUAUCAAAAGUACAUAGCCAUCACCUUCCCACAACUAUAAAAUAAAUCCUUUUUUAUAUCUACAUUAUAGUCCUGUAAAAAAGGAAAGUCAAUUAAAAUUGUGACUAUAUUAACAAUUUCAUUCUAGCAGAAACUCAUUGAUAUUUUCAUUUGAUCUUUAUUUCUUAUUUCCUUU ................................(((((..((((((...((((................((((.................))))........((((((((((((.(((.....)))...)))))))))))).))))..........((((..(((((((...((((.........))))....)))))))..))))...))))))..)))))......... (-28.13) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAAGGAAAUAAGAAAUAAAGAUCAAAUGAAAAUAUCAAUGAGUUUCUGCUAGAAUGAAAUUGUUAAUAUAGUCACAAUUUUAAUUGACUUUCCUUUUUUACAGGACUAUAAUGUAGAUAUAAAAAAGGAUUUAUUUUAUAGUUGUGGGAAGGUGAUGGCUAUGUACUUUUGAUAAACUAGUCUCUAUCUUUUGUUCUUGGAAAUUUUAGGAGUUCUUAUGGUUCAGGUUC ...(((.(((((((.......((....)).....((...((((((((...((((..(((......(((((((((..........(.(((((((.......((.((((((((.((((((..........)))))).)))))))).))))))))).))))))))))......(((......)))......)))..)))).))))))))...)).)))))))..)))...... (-45.81) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 855 90 41 181 132 smit:SMT_1210|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1171051..1171281_NEGATIVE 796 50 1 220 171 smit:SMT_1209|5end_choline_binding_protein_PcpA_1170972..1171202_NEGATIVE 260 48 4 43 9 smit:SMT_445|5end_hypothetical_protein_384309..384539_POSITIVE 250 149 102 145 100 smit:SMT_334|5end_K03713_MerR_family_transcriptional_regulator,_glutamine_synthetase_repressor_273360..273590_POSITIVE 244 230 187 107 60 smit:SMT_1567|5end_transketolase,_N-terminal_subunit_1559268..1559498_POSITIVE 239 88 43 200 160 smit:SMT_1719|5end_DNA_mismatch_repair_protein_1706842..1707072_NEGATIVE 239 73 31 208 167 smit:SMT_965|5end_putative_transposase_911366..911596_NEGATIVE 226 48 3 80 17 smit:SMT_2106|5end_unknown,_predicted_membrane_protein_(TMS5)_1997163..1997393_POSITIVE 226 48 3 80 17 smit:SMT_1771|5end_unknown,_predicted_membrane_protein_(TMS5)_1747437..1747667_POSITIVE 225 141 111 179 150 smit:SMT_1620|5end_hypothetical_protein_1607240..1607470_NEGATIVE 223 229 186 72 33 smit:SMT_1089|5end_hypothetical_protein_1024561..1024791_NEGATIVE 219 89 41 231 194 smit:SMT_1566|5end_K03475_PTS_system,_unknown_pentitol_phosphotransferase_enzyme_IIC_component_1557918..1558148_POSITIVE 218 145 104 174 127 smit:SMT_683|5end_similar_to_CDP-ribitol_pyrophosphorylase_592572..592802_NEGATIVE 217 86 44 102 68 smit:SMT_1872|5end_K03217_preprotein_translocase_YidC_subunit_1831764..1831994_NEGATIVE 217 88 41 106 52 smit:SMT_1813|5end_amino_acid_transporter_1787142..1787372_POSITIVE 217 115 73 138 85 smit:SMT_1428|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1414622..1414852_NEGATIVE 215 91 54 215 164 smit:SMT_1541|5end_isopentenyl-diphosphate_delta-isomerase_1526093..1526323_NEGATIVE 213 80 32 82 38 smit:SMT_2053|5end_hypothetical_membrane_associated_protein_1964422..1964652_NEGATIVE 210 228 182 103 54 smit:SMT_1586|5end_K07177_PDZ_domain-containing_protein_1575714..1575944_POSITIVE 210 73 41 229 199 smit:SMT_898|5end_polyribonucleotide_nucleotidyltransferase_846861..847091_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 250 149 102 68 23 smit:SMT_333|3end_hypothetical_protein_273363..273513_POSITIVE 244 230 187 103 56 smit:SMT_1566|3end_K03475_PTS_system,_unknown_pentitol_phosphotransferase_enzyme_IIC_component_1559344..1559494_POSITIVE 235 59 14 94 54 smit:SMT_393|3end_hypothetical_protein_predicted_by_Glimmer/Critica_324193..324343_POSITIVE 223 83 41 151 105 smit:SMT_2119|3end_mercuric_reductase_2006145..2006295_POSITIVE 223 83 41 151 105 smit:SMT_1236|3end_mercuric_reductase_1197698..1197848_POSITIVE 217 88 41 77 23 smit:SMT_1812|3end_K07485_transposase_1787193..1787343_POSITIVE 213 85 41 148 113 smit:SMT_1254|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1220574..1220724_NEGATIVE 210 228 182 119 70 smit:SMT_1585|3end_phosphopantetheine_adenylyltransferase_1575810..1575960_POSITIVE 208 99 63 135 100 smit:SMT_1439|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1423262..1423412_NEGATIVE 201 146 104 60 8 smit:SMT_1220|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1180509..1180659_NEGATIVE 199 90 49 77 48 smit:SMT_2070|3end_K02035_peptide/nickel_transport_system_substrate-binding_protein_1975627..1975777_POSITIVE 199 61 27 43 12 smit:SMT_1101|3end_K03210_preprotein_translocase_YajC_subunit_1042614..1042764_NEGATIVE 199 117 71 58 8 smit:SMT_808|3end_hypothetical_protein_predicted_by_Glimmer/Critica_717897..718047_NEGATIVE 197 85 51 117 77 smit:SMT_1455|3end_deoxyribose-phosphate_aldolase_1437873..1438023_NEGATIVE 195 140 113 121 97 smit:SMT_1992|3end_carboxynorspermidine_decarboxylase_1918557..1918707_NEGATIVE 192 116 81 103 64 smit:SMT_1498|3end_transcriptional_regulator,_LytR_family_1483093..1483243_POSITIVE 192 75 31 45 7 smit:SMT_1383|3end_ribonucleoside-diphosphate_reductase_alpha_chain_1360795..1360945_NEGATIVE 192 230 181 65 21 smit:SMT_1292|3end_K02050_sulfonate/nitrate/taurine_transport_system_permease_protein_1255017..1255167_POSITIVE 192 87 47 106 67 smit:SMT_379|3end_acetyltransferase,_GNAT_family_316456..316606_POSITIVE 192 87 47 106 67 smit:SMT_370|3end_acetyltransferase,_GNAT_family_305328..305478_POSITIVE