Origin IGS: tgatttataatgaattagttctcaattttgttttttataaagagactgaactttttttctttcacttcgtctaacgcattacaagggcttgctggctttgaaattaaagcttgttagacgtgattatgaggttat .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 ataacctcataatcacgtctaacaagctttaatttcaaagccagcaagcccttgtaatgcgttagacgaagtgaaagaaaaaaagttcagtctctttataaaaaacaaaattgagaactaattcattataaatca Mask Tandem Repeat Region ================================================ tgatttataatgaattagttctcaattttgttttttataaagagactgaactttttttctttcacttcgtctaacgcattacaagggcttgctggctttgaaattaaagcttgttagacgtgattatgaggttat Find is-nt database================================================ Query_seq: AA00900:AA00902|AA00900:AA00902:conserved hypothetical protein:RNA polymerase sigma-E factor sigma-24:->->:623834..623968 135 tgatttataatgaattagttctcaattttgttttttataaagagactgaactttttttctttcacttcgtctaacgcattacaagggcttgctggctttgaaattaaagcttgttagacgtgattatgaggttat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA00900:AA00902|AA00900:AA00902:conserved hypothetical protein:RNA polymerase sigma-E factor sigma-24:->->:623834..623968 135 tgatttataatgaattagttctcaattttgttttttataaagagactgaactttttttctttcacttcgtctaacgcattacaagggcttgctggctttgaaattaaagcttgttagacgtgattatgaggttat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA00900:AA00902|AA00900:AA00902:conserved hypothetical protein:RNA polymerase sigma-E factor sigma-24:->->:623834..623968 135 tgatttataatgaattagttctcaattttgttttttataaagagactgaactttttttctttcacttcgtctaacgcattacaagggcttgctggctttgaaattaaagcttgttagacgtgattatgaggttat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tgatttataatgaattagttctcaattttgttttttataaagagactgaactttttttctttcacttcgtctaacgcattacaagggcttgctggctttgaaattaaagcttgttagacgtgattatgaggttat Predict ORF larger than 30AA ================================================ Protein_Len: 30 Strand: + Start: 25 End: 114 ........................ M L F F I K R L N F F S F T S S N A L Q G L A G F E I K A C ..................... tgatttataatgaattagttctcaattttgttttttataaagagactgaactttttttctttcacttcgtctaacgcattacaagggcttgctggctttgaaattaaagcttgttagacgtgattatgaggttat 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================================================ tgatttataatgaattagttctcaattttgttttttataaagagactgaactttttttctttcacttcgtctaacgcattacaagggcttgctggctttgaaattaaagcttgttagacgtgattatgaggttat Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: AA00900:AA00902|AA00900:AA00902:conserved hypothetical protein:RNA polymerase sigma-E factor sigma-24:->->:623834..623968 135 tgatttataatgaattagttctcaattttgttttttataaagagactgaactttttttctttcacttcgtctaacgcattacaagggcttgctggctttgaaattaaagcttgttagacgtgattatgaggttat Intra-Species Hit: Count: 1 Min: 1 Max: 135 Len: 135 Subject: aact_AA00900_AA00902|conserved hypothetical protein:RNA polymerase sigma-E factor sigma-24|POSITIVE:POSITIVE|[623834,623968]|135 HSP 1 e-value: 1.0E-58 bit: 226.0 Len: 135 Query Start:1 Query End:135 Subject Strand: POSITIVE Subject Start: 1 Subject End: 135 tgatttataatgaattagttctcaattttgttttttataaagagactgaacnnnnnnnctttcacttcgtctaacgcattacaagggcttgctggctttgaaattaaagcttgttagacgtgattatgaggttat tgatttataatgaattagttctcaattttgttttttataaagagactgaactttttttctttcacttcgtctaacgcattacaagggcttgctggctttgaaattaaagcttgttagacgtgattatgaggttat Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAUUUAUAAUGAAUUAGUUCUCAAUUUUGUUUUUUAUAAAGAGACUGAACUUUUUUUCUUUCACUUCGUCUAACGCAUUACAAGGGCUUGCUGGCUUUGAAAUUAAAGCUUGUUAGACGUGAUUAUGAGGUUAU ...((((((((...(((((.(((...(((((.....)))))))))))))..................((((((((((.((((((((.(.....).)))))....))).))..))))))))..))))))))..... (-25.90) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUAACCUCAUAAUCACGUCUAACAAGCUUUAAUUUCAAAGCCAGCAAGCCCUUGUAAUGCGUUAGACGAAGUGAAAGAAAAAAAGUUCAGUCUCUUUAUAAAAAACAAAAUUGAGAACUAAUUCAUUAUAAAUCA ...............((((((((..(((((......)))))..((((....)))).....)))))))).((((((.(((......)))..((((..................)))).....))))))........ (-23.07) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 308 110 63 124 82 aact:AA00329|5end_molybdopterin-guanine_dinucleotide_biosynthesis_protein_222737..222967_POSITIVE 294 100 59 181 141 aact:AA00735|5end_citrate_lyase,_beta_chain_502674..502904_POSITIVE 290 115 71 99 52 aact:AA00652|5end_arginyl-tRNA_synthetase_(arginine--tRNA_ligase)_445718..445948_POSITIVE 283 122 81 225 180 aact:AA00351|5end_50S_ribosomal_protein_L7/L12_234155..234385_POSITIVE 283 122 81 221 176 aact:AA00353|5end_hypothetical_protein_234151..234381_POSITIVE 279 120 75 186 135 aact:AA01553|5end_conserved_hypothetical_protein_1039220..1039450_POSITIVE 279 96 54 230 183 aact:AA01008|5end_mazG_beta-lactamase_regulatory_protein_homolog_703470..703700_POSITIVE 277 96 62 228 189 aact:AA02507|5end_penicillin-insensitive_murein_endopeptidase_A_1740058..1740288_POSITIVE 271 99 67 152 124 aact:AA02196|5end_oxaloacetate_decarboxylase_beta_chain_1496308..1496538_POSITIVE 267 118 75 211 160 aact:AA02355|5end_nicotinamide_phosphoribosyl_transferase_1612924..1613154_POSITIVE 265 100 57 61 13 aact:AA02872|5end_conserved_hypothetical_protein_2015539..2015769_POSITIVE 265 100 61 179 126 aact:AA01626|5end_N_utilization_substance_protein_B_1100444..1100674_POSITIVE 265 95 51 184 135 aact:AA01338|5end_hypothetical_protein_904967..905197_POSITIVE 258 96 65 48 13 aact:AA01872|5end_conserved_hypothetical_protein_1258804..1259034_POSITIVE 258 99 56 141 99 aact:AA01616|5end_lipoprotein_releasing_system_ATP-binding_protein_1092385..1092615_POSITIVE 253 94 52 184 134 aact:AA01589|5end_conserved_hypothetical_protein_1070300..1070530_POSITIVE 252 100 54 229 188 aact:AA01490|5end_ATP_synthase_F0,_subunit_a_1001504..1001734_POSITIVE 251 99 65 170 135 aact:AA01904|5end_hypothetical_protein_1284448..1284678_POSITIVE 251 122 84 198 153 aact:AA01203|5end_diaminopimelate_epimerase_824140..824370_POSITIVE 249 99 51 139 82 aact:AA02035|5end_translation_initiation_factor_IF-3_1386349..1386579_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 279 96 54 126 79 aact:AA01006|3end_conserved_hypothetical_protein_(possible_cytosine_deaminas)_703446..703596_POSITIVE 271 99 67 138 110 aact:AA02195|3end_oxaloacetate_decarboxylase_alpha_chain_1496374..1496524_POSITIVE 268 90 44 111 76 aact:AA02913|3end_ribosomal_large_subunit_pseudouridine_synthase_2040527..2040677_POSITIVE 264 100 60 148 102 aact:AA00726|3end_apolipoprotein_N-acyltransferase,_copper_499886..500036_POSITIVE 258 99 56 123 81 aact:AA01615|3end_lipoprotein_releasing_system_transmembrane_1092447..1092597_POSITIVE 253 96 64 149 118 aact:AA00396|3end_conserved_hypothetical_protein_265952..266102_POSITIVE 249 96 57 85 41 aact:AA01818|3end_high-affinity_zinc_uptake_system_membrane_protein_1225078..1225228_POSITIVE 246 118 72 111 70 aact:AA01654|3end_periplasmic_maltose-binding_protein_precursor_1121163..1121313_POSITIVE 242 100 51 127 75 aact:AA01690|3end_penicillin-binding_protein_1C_1149142..1149292_POSITIVE 237 100 67 89 50 aact:AA00511|3end_nicotinamide_mononucleotide_transporter_354482..354632_POSITIVE 237 96 67 122 89 aact:AA00047|3end_formate_dependent_nitrite_reductase,_cytochrome_c552_38353..38503_POSITIVE 236 105 61 146 94 aact:AA01085|3end_mutator_mutT_protein_(7,8-dihydro-8-oxoguanine-triphosphatase)_(8-oxo-dGTPase)_(dGTP_pyrophosphohydrolase)_751451..751601_POSITIVE 235 90 42 143 82 aact:AA00981|3end_carboxylesterase_686377..686527_POSITIVE 232 94 61 149 116 aact:AA01625|3end_riboflavin_synthase,_beta_chain_1100514..1100664_POSITIVE 231 100 57 147 103 aact:AA02402|3end_O-sialoglycoprotein_endopeptidase_1652442..1652592_POSITIVE 231 113 73 140 104 aact:AA02017|3end_conserved_hypothetical_protein_1372092..1372242_POSITIVE 231 110 67 60 6 aact:AA01679|3end_aspartate-semialdehyde_dehydrogenase;_PTS_system_enzyme_II_A_component_1135236..1135386_POSITIVE 229 100 51 148 111 aact:AA02111|3end_killing_protein_suppressor_1437694..1437844_POSITIVE 229 101 70 35 11 aact:AA01393|3end_ABC_transporter,_ATP-binding_protein_942029..942179_POSITIVE 229 120 75 109 71 aact:AA00170|3end_hypothetical_protein_121407..121557_POSITIVE