Origin IGS: taataaaaaggaagccaaattgcttccttttttctatgcagtcgatttttatagggagatgttcctatttttaaggtataaataaaaagccctataataagggctaagtgtatttaggaga .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tctcctaaatacacttagcccttattatagggctttttatttataccttaaaaataggaacatctccctataaaaatcgactgcatagaaaaaaggaagcaatttggcttcctttttatta Mask Tandem Repeat Region ================================================ taataaaaaggaagccaaattgcttccttttttctatgcagtcgatttttatagggagatgttcctatttttaaggtataaataaaaagccctataataagggctaagtgtatttaggaga Find is-nt database================================================ Query_seq: SMT_1279:SMT_1280|SMT_1279:SMT_1280:translation elongation factor Ts:cysteine synthase:-><-:1243512..1243632 121 taataaaaaggaagccaaattgcttccttttttctatgcagtcgatttttatagggagatgttcctatttttaaggtataaataaaaagccctataataagggctaagtgtatttaggaga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_1279:SMT_1280|SMT_1279:SMT_1280:translation elongation factor Ts:cysteine synthase:-><-:1243512..1243632 121 taataaaaaggaagccaaattgcttccttttttctatgcagtcgatttttatagggagatgttcctatttttaaggtataaataaaaagccctataataagggctaagtgtatttaggaga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_1279:SMT_1280|SMT_1279:SMT_1280:translation elongation factor Ts:cysteine synthase:-><-:1243512..1243632 121 taataaaaaggaagccaaattgcttccttttttctatgcagtcgatttttatagggagatgttcctatttttaaggtataaataaaaagccctataataagggctaagtgtatttaggaga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taataaaaaggaagccaaattgcttccttttttctatgcagtcgatttttatagggagatgttcctatttttaaggtataaataaaaagccctataataagggctaagtgtatttaggaga Predict ORF larger than 30AA ================================================ Protein_Len: 37 Strand: - Start: 3 End: 113 .. Y F P L W I A E K K R H L R N K Y P S T G I K L T Y I F L G I I L A L H M ........ taataaaaaggaagccaaattgcttccttttttctatgcagtcgatttttatagggagatgttcctatttttaaggtataaataaaaagccctataataagggctaagtgtatttaggaga 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: 81 Start: 69 End: 98 ....................................................................TTTTAAGGTATAAATAAAAAGCCCTATAAT....................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ taataaaaaggaagccaaattgcttccttttttctatgcagtcgatttttatagggagatgttcctatttttaaggtataaataaaaagccctataataagggctaagtgtatttaggaga Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SMT_1279:SMT_1280|SMT_1279:SMT_1280:translation elongation factor Ts:cysteine synthase:-><-:1243512..1243632 121 taataaaaaggaagccaaattgcttccttttttctatgcagtcgatttttatagggagatgttcctatttttaaggtataaataaaaagccctataataagggctaagtgtatttaggaga Intra-Species Hit: Count: 1 Min: 1 Max: 121 Len: 121 Subject: smit_SMT_1279_SMT_1280|translation elongation factor Ts:cysteine synthase|POSITIVE:NEGATIVE|[1243512,1243632]|121 HSP 1 e-value: 8.0E-63 bit: 240.0 Len: 121 Query Start:1 Query End:121 Subject Strand: POSITIVE Subject Start: 1 Subject End: 121 taataaaaaggaagccaaattgcttccttttttctatgcagtcgatttttatagggagatgttcctatttttaaggtataaataaaaagccctataataagggctaagtgtatttaggaga taataaaaaggaagccaaattgcttccttttttctatgcagtcgatttttatagggagatgttcctatttttaaggtataaataaaaagccctataataagggctaagtgtatttaggaga Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUAAAAAGGAAGCCAAAUUGCUUCCUUUUUUCUAUGCAGUCGAUUUUUAUAGGGAGAUGUUCCUAUUUUUAAGGUAUAAAUAAAAAGCCCUAUAAUAAGGGCUAAGUGUAUUUAGGAGA .....((((((((((......))))))))))(((((((((....(((((.(((((((....)))))))....)))))..........((((((......))))))...))))..))))).. (-32.00) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UCUCCUAAAUACACUUAGCCCUUAUUAUAGGGCUUUUUAUUUAUACCUUAAAAAUAGGAACAUCUCCCUAUAAAAAUCGACUGCAUAGAAAAAAGGAAGCAAUUUGGCUUCCUUUUUAUUA .....((((((.....((((((......))))))...))))))..........(((((........)))))..................(((((((((((......))))))))))).... (-29.80) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 270 63 22 84 42 smit:SMT_1555|5end_hypothetical_protein_1541014..1541244_NEGATIVE 263 57 13 141 86 smit:SMT_1731|5end_K06442_putative_hemolysin_1715643..1715873_POSITIVE 258 61 24 157 108 smit:SMT_1192|5end_phosphoribosylaminoimidazolecarboxamide_formyltransferase_/_IMP_cyclohydrolase_1151406..1151636_NEGATIVE 258 65 22 105 65 smit:SMT_479|5end_K03308_neurotransmitter:Na+_symporter,_NSS_family_416656..416886_NEGATIVE 258 65 22 105 65 smit:SMT_462|5end_K03308_neurotransmitter:Na+_symporter,_NSS_family_401658..401888_NEGATIVE 257 50 4 218 159 smit:SMT_1324|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1293801..1294031_POSITIVE 251 45 15 121 88 smit:SMT_1697|5end_hypothetical_protein_1678846..1679076_POSITIVE 250 45 13 43 7 smit:SMT_1792|5end_K03307_solute:Na+_symporter,_SSS_family_1767774..1768004_NEGATIVE 250 45 13 43 7 smit:SMT_1175|5end_K03307_solute:Na+_symporter,_SSS_family_1127660..1127890_NEGATIVE 245 60 24 66 22 smit:SMT_1741|5end_surface_protein_PspA_precursor_1723394..1723624_NEGATIVE 245 56 20 127 95 smit:SMT_1595|5end_oligopeptide_transport_system_permease_protein_OppC_1584968..1585198_POSITIVE 242 73 34 160 117 smit:SMT_1624|5end_formate_acetyltransferase_1613772..1614002_NEGATIVE 241 65 32 144 115 smit:SMT_578|5end_lipoprotein_signal_peptidase_496061..496291_POSITIVE 239 50 9 228 183 smit:SMT_1264|5end_oligoendopeptidase_F_1228858..1229088_POSITIVE 236 67 21 199 149 smit:SMT_1562|5end_hypothetical_protein_1554992..1555222_NEGATIVE 235 56 12 190 139 smit:SMT_973|5end_signal_transduction_histidine_kinase_922177..922407_NEGATIVE 233 70 22 204 141 smit:SMT_850|5end_hypothetical_protein_797014..797244_NEGATIVE 232 57 13 82 39 smit:SMT_152|5end_sensor_histidine_kinase,_putative_100759..100989_POSITIVE 230 56 20 108 67 smit:SMT_323|5end_amino_acid_transport_ATP-binding_protein_261872..262102_NEGATIVE 229 59 12 58 15 smit:SMT_1459|5end_K02037_phosphate_transport_system_permease_protein_1440522..1440752_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 280 45 6 115 65 smit:SMT_494|3end_K04767_acetoin_utilization_protein_AcuB_428891..429041_POSITIVE 268 77 34 64 25 smit:SMT_1961|3end_K07485_transposase_1894885..1895035_POSITIVE 263 57 13 148 93 smit:SMT_1730|3end_geranyltranstransferase_1715730..1715880_POSITIVE 257 50 4 109 50 smit:SMT_1323|3end_K02077_zinc/manganese_transport_system_substrate-binding_protein_1293772..1293922_POSITIVE 254 42 7 65 24 smit:SMT_447|3end_ABC-type_cobalt_transport_system,_permease_component_CbiQ_related_transporter_386987..387137_POSITIVE 251 45 15 119 86 smit:SMT_1696|3end_hypothetical_protein_1678924..1679074_POSITIVE 250 45 1 108 57 smit:SMT_1217|3end_hypothetical_protein_1176166..1176316_NEGATIVE 250 45 13 41 5 smit:SMT_1176|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1127662..1127812_NEGATIVE 249 32 5 86 59 smit:SMT_1279|3end_translation_elongation_factor_Ts_1243451..1243601_POSITIVE 245 56 20 127 95 smit:SMT_1594|3end_oligopeptide_transport_system_permease_protein_OppB_1585048..1585198_POSITIVE 245 58 12 130 76 smit:SMT_759|3end_K01992_ABC-2_type_transport_system_permease_protein_664078..664228_NEGATIVE 243 65 22 148 94 smit:SMT_882|3end_acetyl_esterase_829662..829812_NEGATIVE 241 65 32 147 118 smit:SMT_577|3end_transcriptional_regulator,_LysR_family_496144..496294_POSITIVE 236 67 21 137 87 smit:SMT_1563|3end_hypothetical_protein_1555054..1555204_NEGATIVE 230 56 20 68 27 smit:SMT_324|3end_K02029_polar_amino_acid_transport_system_permease_protein_261912..262062_NEGATIVE 229 59 12 58 15 smit:SMT_1458|3end_K02040_phosphate_transport_system_substrate-binding_protein_1440602..1440752_POSITIVE 229 50 8 139 105 smit:SMT_1259|3end_hypothetical_protein_1225578..1225728_POSITIVE 229 31 6 76 48 smit:SMT_231|3end_translation_elongation_factor_G_168222..168372_POSITIVE 227 61 22 133 99 smit:SMT_315|3end_acetyl-coenzyme_A_carboxylase_carboxyl_transferase_subunit_beta_256627..256777_POSITIVE 225 66 27 48 4 smit:SMT_1753|3end_tryptophan_synthase_beta_chain_1731652..1731802_POSITIVE