Origin IGS: cttatctctccattcctaactatgctaggataaattgtttaaaagtcgtcaatcaacttttagtggaataaattttacttttagatataatgctaaattactcctaatttatctattaaaattatatgaaaatt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aattttcatataattttaatagataaattaggagtaatttagcattatatctaaaagtaaaatttattccactaaaagttgattgacgacttttaaacaatttatcctagcatagttaggaatggagagataag Mask Tandem Repeat Region ================================================ cttatctctccattcctaactatgctaggataaattgtttaaaagtcgtcaatcaacttttagtggaataaattttacttttagatataatgctaaattactcctaatttatctattaaaattatatgaaaatt Find is-nt database================================================ Query_seq: SMT_1439:SMT_1440|SMT_1439:SMT_1440:hypothetical protein predicted by Glimmer/Critica:hypothetical protein predicted by Glimmer/Critica:<-<-:1423823..1423956 134 cttatctctccattcctaactatgctaggataaattgtttaaaagtcgtcaatcaacttttagtggaataaattttacttttagatataatgctaaattactcctaatttatctattaaaattatatgaaaatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_1439:SMT_1440|SMT_1439:SMT_1440:hypothetical protein predicted by Glimmer/Critica:hypothetical protein predicted by Glimmer/Critica:<-<-:1423823..1423956 134 cttatctctccattcctaactatgctaggataaattgtttaaaagtcgtcaatcaacttttagtggaataaattttacttttagatataatgctaaattactcctaatttatctattaaaattatatgaaaatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_1439:SMT_1440|SMT_1439:SMT_1440:hypothetical protein predicted by Glimmer/Critica:hypothetical protein predicted by Glimmer/Critica:<-<-:1423823..1423956 134 cttatctctccattcctaactatgctaggataaattgtttaaaagtcgtcaatcaacttttagtggaataaattttacttttagatataatgctaaattactcctaatttatctattaaaattatatgaaaatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 cttatctctccattcctaactatgctaggataaattgtttaaaagtcgtcaatcaacttttagtggaataaattttacttttagatataatgctaaattactcctaatttatctattaaaattatatgaaaatt Predict ORF larger than 30AA ================================================ Protein_Len: 33 Strand: + Start: 35 End: 133 .................................. M F K S R Q S T F S G I N F T F R Y N A K L L L I Y L L K L Y E N . cttatctctccattcctaactatgctaggataaattgtttaaaagtcgtcaatcaacttttagtggaataaattttacttttagatataatgctaaattactcctaatttatctattaaaattatatgaaaatt 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: 62 End: 91 .............................................................AGTGGAATAAATTTTACTTTTAGATATAAT........................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ cttatctctccattcctaactatgctaggataaattgtttaaaagtcgtcaatcaacttttagtggaataaattttacttttagatataatgctaaattactcctaatttatctattaaaattatatgaaaatt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SMT_1439:SMT_1440|SMT_1439:SMT_1440:hypothetical protein predicted by Glimmer/Critica:hypothetical protein predicted by Glimmer/Critica:<-<-:1423823..1423956 134 cttatctctccattcctaactatgctaggataaattgtttaaaagtcgtcaatcaacttttagtggaataaattttacttttagatataatgctaaattactcctaatttatctattaaaattatatgaaaatt Intra-Species Hit: Count: 1 Min: 1 Max: 134 Len: 134 Subject: smit_SMT_1439_SMT_1440|hypothetical protein predicted by Glimmer/Critica:hypothetical protein predicted by Glimmer/Critica|NEGATIVE:NEGATIVE|[1423823,1423956]|134 HSP 1 e-value: 2.0E-70 bit: 266.0 Len: 134 Query Start:1 Query End:134 Subject Strand: POSITIVE Subject Start: 1 Subject End: 134 cttatctctccattcctaactatgctaggataaattgtttaaaagtcgtcaatcaacttttagtggaataaattttacttttagatataatgctaaattactcctaatttatctattaaaattatatgaaaatt cttatctctccattcctaactatgctaggataaattgtttaaaagtcgtcaatcaacttttagtggaataaattttacttttagatataatgctaaattactcctaatttatctattaaaattatatgaaaatt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CUUAUCUCUCCAUUCCUAACUAUGCUAGGAUAAAUUGUUUAAAAGUCGUCAAUCAACUUUUAGUGGAAUAAAUUUUACUUUUAGAUAUAAUGCUAAAUUACUCCUAAUUUAUCUAUUAAAAUUAUAUGAAAAUU ........(((..(((((.......)))))........((((((((.(.....).)))))))).)))...(((((((....((((((......................)))))).)))))))........... (-15.65) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAUUUUCAUAUAAUUUUAAUAGAUAAAUUAGGAGUAAUUUAGCAUUAUAUCUAAAAGUAAAAUUUAUUCCACUAAAAGUUGAUUGACGACUUUUAAACAAUUUAUCCUAGCAUAGUUAGGAAUGGAGAGAUAAG ..(((((((.(((((....((((((((((.((((((((((.((.............)).))).)))))))..(((((((((.....)))))))))...))))))).)))....)))))...)))))))...... (-25.02) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 804 50 1 141 92 smit:SMT_1439|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1423732..1423962_NEGATIVE 266 50 1 151 87 smit:SMT_1205|5end_response_regulator_1165700..1165930_NEGATIVE 229 50 1 179 125 smit:SMT_851|5end_conserved_hypothetical_protein,_translation_initiation_inhibitor_protein_797446..797676_NEGATIVE 228 47 5 144 99 smit:SMT_316|5end_acetyl-CoA_carboxylase_carboxyl_transferase_subunit_alpha_256544..256774_POSITIVE 217 66 23 84 49 smit:SMT_1454|5end_cytidine_deaminase_1437886..1438116_NEGATIVE 215 60 11 85 40 smit:SMT_922|5end_RNA-binding_protein_876566..876796_NEGATIVE 211 67 29 125 80 smit:SMT_301|5end_hypothetical_protein_244086..244316_POSITIVE 210 50 8 137 100 smit:SMT_2162|5end_hypothetical_protein_2036931..2037161_POSITIVE 207 32 4 117 93 smit:SMT_1891|5end_putative_dihydrolipoamide_S-acetyltransferase_1844373..1844603_POSITIVE 207 32 4 117 93 smit:SMT_1402|5end_pyruvate_dehydrogenase_E2_component_(dihydrolipoamide_acetyltransferase)_1378115..1378345_POSITIVE 206 82 42 143 92 smit:SMT_1260|5end_hypothetical_protein_1225517..1225747_POSITIVE 199 47 6 80 39 smit:SMT_426|5end_hypothetical_protein_368344..368574_POSITIVE 198 49 9 91 56 smit:SMT_1644|5end_3-isopropylmalate_dehydrogenase_1630704..1630934_POSITIVE 197 50 5 92 48 smit:SMT_1783|5end_peptide_methionine_sulfoxide_reductase_1759756..1759986_POSITIVE 197 50 1 147 92 smit:SMT_1697|5end_hypothetical_protein_1678846..1679076_POSITIVE 196 68 24 189 153 smit:SMT_423|5end_sensory_transduction_protein_kinase_366012..366242_POSITIVE 195 50 7 52 9 smit:SMT_909|5end_type_I_restriction_enzyme_M_protein_858827..859057_NEGATIVE 194 47 6 141 94 smit:SMT_860|5end_homoserine_O-succinyltransferase_805011..805241_NEGATIVE 194 35 4 41 12 smit:SMT_597|5end_K08974_putative_membrane_protein_513917..514147_NEGATIVE 192 30 1 118 87 smit:SMT_841|5end_dihydrodipicolinate_reductase_788025..788255_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 228 47 5 147 102 smit:SMT_315|3end_acetyl-coenzyme_A_carboxylase_carboxyl_transferase_subunit_beta_256627..256777_POSITIVE 217 66 23 97 62 smit:SMT_1455|3end_deoxyribose-phosphate_aldolase_1437873..1438023_NEGATIVE 215 60 11 92 47 smit:SMT_923|3end_methionyl-tRNA_formyltransferase_876559..876709_NEGATIVE 211 67 29 72 27 smit:SMT_300|3end_hypothetical_protein_244113..244263_POSITIVE 206 82 42 124 73 smit:SMT_1259|3end_hypothetical_protein_1225578..1225728_POSITIVE 201 41 5 103 70 smit:SMT_1648|3end_hypothetical_protein_1634883..1635033_POSITIVE 199 47 6 80 39 smit:SMT_425|3end_hypothetical_cytosolic_protein_368424..368574_POSITIVE 198 49 9 79 44 smit:SMT_1643|3end_2-isopropylmalate_synthase_1630772..1630922_POSITIVE 197 50 1 145 90 smit:SMT_1696|3end_hypothetical_protein_1678924..1679074_POSITIVE 195 50 7 52 9 smit:SMT_910|3end_type_I_restriction_enzyme_R_protein_858827..858977_NEGATIVE 193 46 7 97 49 smit:SMT_872|3end_hypothetical_protein_820331..820481_NEGATIVE 193 46 7 97 49 smit:SMT_385|3end_hypothetical_protein_320262..320412_POSITIVE 190 47 1 151 90 smit:SMT_1206|3end_similar_to_sensor_histidine_kinase_(AgrC_from_Staphylococcus)_1165697..1165847_NEGATIVE 189 37 2 135 104 smit:SMT_126|3end_hypothetical_membrane_associated_protein_77657..77807_NEGATIVE 188 50 3 118 65 smit:SMT_1826|3end_ATP_synthase_beta_chain_1797622..1797772_POSITIVE 188 49 11 135 85 smit:SMT_1433|3end_hypothetical_protein_1417472..1417622_NEGATIVE 186 50 6 56 6 smit:SMT_1864|3end_integral_membrane_protein_1827172..1827322_POSITIVE 184 49 9 142 102 smit:SMT_960|3end_putative_esterase_906126..906276_NEGATIVE 182 58 12 142 94 smit:SMT_2047|3end_choline_binding_protein_F_1957597..1957747_NEGATIVE 180 56 11 116 72 smit:SMT_817|3end_aminotransferase_727533..727683_NEGATIVE