Origin IGS: atttccataacttaagaaagttcatcatttttaattatctctgtaaaatgattgaaagtatgaaatttccaaacaaaatatttgaaaagttttgaaaaaagagttaagatatttttgtaacatacaaagtaaacgcttacttattaaggagggcatttt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aaaatgccctccttaataagtaagcgtttactttgtatgttacaaaaatatcttaactcttttttcaaaacttttcaaatattttgtttggaaatttcatactttcaatcattttacagagataattaaaaatgatgaactttcttaagttatggaaat Mask Tandem Repeat Region ================================================ atttccataacttaagaaagttcatcatttttaattatctctgtaaaatgattgaaagtatgaaatttccaaacaaaatatttgaaaagttttgaaaaaagagttaagatatttttgtaacatacaaagtaaacgcttacttattaaggagggcatttt Find is-nt database================================================ Query_seq: SMT_440:SMT_441|SMT_440:SMT_441:hypothetical protein predicted by Glimmer/Critica:L-lactate oxidase:->->:380044..380202 159 atttccataacttaagaaagttcatcatttttaattatctctgtaaaatgattgaaagtatgaaatttccaaacaaaatatttgaaaagttttgaaaaaagagttaagatatttttgtaacatacaaagtaaacgcttacttattaaggagggcatttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_440:SMT_441|SMT_440:SMT_441:hypothetical protein predicted by Glimmer/Critica:L-lactate oxidase:->->:380044..380202 159 atttccataacttaagaaagttcatcatttttaattatctctgtaaaatgattgaaagtatgaaatttccaaacaaaatatttgaaaagttttgaaaaaagagttaagatatttttgtaacatacaaagtaaacgcttacttattaaggagggcatttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_440:SMT_441|SMT_440:SMT_441:hypothetical protein predicted by Glimmer/Critica:L-lactate oxidase:->->:380044..380202 159 atttccataacttaagaaagttcatcatttttaattatctctgtaaaatgattgaaagtatgaaatttccaaacaaaatatttgaaaagttttgaaaaaagagttaagatatttttgtaacatacaaagtaaacgcttacttattaaggagggcatttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 atttccataacttaagaaagttcatcatttttaattatctctgtaaaatgattgaaagtatgaaatttccaaacaaaatatttgaaaagttttgaaaaaagagttaagatatttttgtaacatacaaagtaaacgcttacttattaaggagggcatttt Predict ORF larger than 30AA ================================================ Protein_Len: 41 Strand: - Start: 34 End: 156 ................................. N D R Y F S Q F Y S I E L C F I Q F T K F F S N L Y K Q L M C L L R K S I L S P M ... Protein_Len: 32 Strand: - Start: 15 End: 110 .............. S L E D N K I I E T F H N F T H F K W V F Y K F L K S F L T L M ................................................. atttccataacttaagaaagttcatcatttttaattatctctgtaaaatgattgaaagtatgaaatttccaaacaaaatatttgaaaagttttgaaaaaagagttaagatatttttgtaacatacaaagtaaacgcttacttattaaggagggcatttt 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: 84 Start: 81 End: 110 ................................................................................TTTGAAAAGTTTTGAAAAAAGAGTTAAGAT................................................. Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ atttccataacttaagaaagttcatcatttttaattatctctgtaaaatgattgaaagtatgaaatttccaaacaaaatatttgaaaagttttgaaaaaagagttaagatatttttgtaacatacaaagtaaacgcttacttattaaggagggcatttt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SMT_440:SMT_441|SMT_440:SMT_441:hypothetical protein predicted by Glimmer/Critica:L-lactate oxidase:->->:380044..380202 159 atttccataacttaagaaagttcatcatttttaattatctctgtaaaatgattgaaagtatgaaatttccaaacaaaatatttgaaaagttttgaaaaaagagttaagatatttttgtaacatacaaagtaaacgcttacttattaaggagggcatttt Intra-Species Hit: Count: 1 Min: 1 Max: 159 Len: 159 Subject: smit_SMT_440_SMT_441|hypothetical protein predicted by Glimmer/Critica:L-lactate oxidase|POSITIVE:POSITIVE|[380044,380202]|159 HSP 1 e-value: 1.0E-25 bit: 117.0 Len: 59 Query Start:101 Query End:159 Subject Strand: POSITIVE Subject Start: 101 Subject End: 159 ....................................................................................................gagttaagatatttttgtaacatacaaagtaaacgcttacttattaaggagggcatttt ....................................................................................................gagttaagatatttttgtaacatacaaagtaaacgcttacttattaaggagggcatttt HSP 2 e-value: 1.0E-16 bit: 87.7 Len: 44 Query Start:1 Query End:44 Subject Strand: POSITIVE Subject Start: 1 Subject End: 44 atttccataacttaagaaagttcatcatttttaattatctctgt................................................................................................................... atttccataacttaagaaagttcatcatttttaattatctctgt................................................................................................................... Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUUUCCAUAACUUAAGAAAGUUCAUCAUUUUUAAUUAUCUCUGUAAAAUGAUUGAAAGUAUGAAAUUUCCAAACAAAAUAUUUGAAAAGUUUUGAAAAAAGAGUUAAGAUAUUUUUGUAACAUACAAAGUAAACGCUUACUUAUUAAGGAGGGCAUUUU .(((((.........((((.(((((.((((((((((((.........))))))))))))))))).))))...(((((((((((..((..((((....))))..)).))))).))))))........((((((....)))))).....)))))....... (-26.80) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAAAUGCCCUCCUUAAUAAGUAAGCGUUUACUUUGUAUGUUACAAAAAUAUCUUAACUCUUUUUUCAAAACUUUUCAAAUAUUUUGUUUGGAAAUUUCAUACUUUCAAUCAUUUUACAGAGAUAAUUAAAAAUGAUGAACUUUCUUAAGUUAUGGAAAU .((((((...(........)...))))))..((((((...))))))...............((((((.((((((((((((.....))))))))..........((((.(((((((.............)))))))))))........)))).)))))). (-19.02) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 231 90 41 69 21 smit:SMT_1145|5end_maltodextrose_utilization_protein_MalA_1089326..1089556_POSITIVE 219 150 102 120 67 smit:SMT_1671|5end_hypothetical_protein_1659757..1659987_NEGATIVE 198 139 101 86 49 smit:SMT_738|5end_hypothetical_protein_predicted_by_Glimmer/Critica_643042..643272_NEGATIVE 182 54 11 214 171 smit:SMT_1190|5end_phosphoribosylaminoimidazole_carboxylase,_catalytic_subunit_1148232..1148462_NEGATIVE 172 43 1 156 112 smit:SMT_721|5end_Tn5252,_relaxase_628754..628984_NEGATIVE 171 76 37 110 62 smit:SMT_1021|5end_K05846_osmoprotectant_transport_system_permease_protein_957999..958229_NEGATIVE 169 87 41 73 25 smit:SMT_355|5end_hypothetical_protein_291622..291852_POSITIVE 168 43 6 213 163 smit:SMT_1969|5end_transcription-repair_coupling_factor_1901691..1901921_NEGATIVE 168 45 2 64 23 smit:SMT_1118|5end_hypothetical_protein_1055150..1055380_NEGATIVE 166 32 4 83 54 smit:SMT_351|5end_hypothetical_protein_290289..290519_POSITIVE 165 76 34 130 95 smit:SMT_220|5end_Hypothetical_zinc_metalloprotease_151747..151977_POSITIVE 164 42 6 112 65 smit:SMT_84|5end_predicted_signal_transduction_protein_with_a_C-terminal_ATPase_domain_16617..16847_NEGATIVE 163 59 19 52 6 smit:SMT_2163|5end_cell_division_protein_FtsA_2037643..2037873_POSITIVE 163 59 19 52 6 smit:SMT_2159|5end_cell_division_protein_FtsA_2032010..2032240_POSITIVE 163 59 19 52 6 smit:SMT_2158|5end_cell_division_protein_2031534..2031764_POSITIVE 163 50 1 126 81 smit:SMT_1792|5end_K03307_solute:Na+_symporter,_SSS_family_1767774..1768004_NEGATIVE 163 59 19 52 6 smit:SMT_1707|5end_cell_division_protein_FtsA_1690945..1691175_POSITIVE 163 59 19 52 6 smit:SMT_1547|5end_cell_division_protein_FtsA_1530987..1531217_POSITIVE 163 50 1 126 81 smit:SMT_1175|5end_K03307_solute:Na+_symporter,_SSS_family_1127660..1127890_NEGATIVE 163 60 16 44 1 smit:SMT_963|5end_K02015_iron_complex_transport_system_permease_protein_909632..909862_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 219 150 102 71 18 smit:SMT_1672|3end_hypothetical_protein_1659806..1659956_NEGATIVE 176 149 101 45 6 smit:SMT_130|3end_capsular_polysaccharide_biosynthesis_protein_82925..83075_POSITIVE 171 76 37 117 69 smit:SMT_1022|3end_glycine_betaine_transport_ATP-binding_protein_957992..958142_NEGATIVE 170 45 2 82 41 smit:SMT_120|3end_hypothetical_protein_72943..73093_POSITIVE 166 32 4 62 33 smit:SMT_350|3end_immunity_protein_BlpL_290348..290498_POSITIVE 165 76 34 108 73 smit:SMT_219|3end_phosphatidate_cytidylyltransferase_151805..151955_POSITIVE 164 69 21 75 27 smit:SMT_440|3end_hypothetical_protein_predicted_by_Glimmer/Critica_379983..380133_POSITIVE 164 42 6 99 52 smit:SMT_85|3end_hypothetical_protein_predicted_by_Glimmer/Critica_16630..16780_NEGATIVE 163 50 1 124 79 smit:SMT_1176|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1127662..1127812_NEGATIVE 161 44 16 110 79 smit:SMT_1310|3end_D-alanine-activating_enzyme_1275867..1276017_POSITIVE 158 70 25 69 24 smit:SMT_240|3end_glutamate_synthase_small_subunit,_putative_178200..178350_POSITIVE 153 48 18 53 13 smit:SMT_808|3end_hypothetical_protein_predicted_by_Glimmer/Critica_717897..718047_NEGATIVE 153 150 112 39 8 smit:SMT_775|3end_alpha-acetolactate_decarboxylase_685241..685391_NEGATIVE 151 70 25 148 107 smit:SMT_1051|3end_K01990_ABC-2_type_transport_system_ATP-binding_protein_991920..992070_POSITIVE 150 43 4 53 16 smit:SMT_1161|3end_K05837_rod_shape_determining_protein_RodA_1105185..1105335_NEGATIVE 149 51 20 39 4 smit:SMT_2017|3end_exonuclease_RexA_1935862..1936012_NEGATIVE 148 47 2 110 65 smit:SMT_439|3end_hypothetical_protein_predicted_by_Glimmer/Critica_379658..379808_POSITIVE 145 45 18 110 80 smit:SMT_2113|3end_peptidyl-tRNA_hydrolase_2000694..2000844_NEGATIVE 145 45 18 110 80 smit:SMT_1905|3end_peptidyl-tRNA_hydrolase_1853359..1853509_NEGATIVE 145 45 18 110 80 smit:SMT_93|3end_peptidyl-tRNA_hydrolase_24695..24845_POSITIVE