Origin IGS: taacccgttcaggtgttaataaaaacaaaaatcaataaaaacaccttgaggcatatcaaggtgtttttgtttatttgagggcataattaacccatccataaaaataagcaaaattattgattcaaatactcggagtaagct .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 agcttactccgagtatttgaatcaataattttgcttatttttatggatgggttaattatgccctcaaataaacaaaaacaccttgatatgcctcaaggtgtttttattgatttttgtttttattaacacctgaacgggtta Mask Tandem Repeat Region ================================================ taacccgttcaggtgttaataaaaacaaaaatcaataaaaacaccttgaggcatatcaaggtgtttttgtttatttgagggcataattaacccatccataaaaataagcaaaattattgattcaaatactcggagtaagct Find is-nt database================================================ Query_seq: AA02436:AA02437|AA02436:AA02437:periplasmic protein:integral membrane protein:->->:1681156..1681296 141 taacccgttcaggtgttaataaaaacaaaaatcaataaaaacaccttgaggcatatcaaggtgtttttgtttatttgagggcataattaacccatccataaaaataagcaaaattattgattcaaatactcggagtaagct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA02436:AA02437|AA02436:AA02437:periplasmic protein:integral membrane protein:->->:1681156..1681296 141 taacccgttcaggtgttaataaaaacaaaaatcaataaaaacaccttgaggcatatcaaggtgtttttgtttatttgagggcataattaacccatccataaaaataagcaaaattattgattcaaatactcggagtaagct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA02436:AA02437|AA02436:AA02437:periplasmic protein:integral membrane protein:->->:1681156..1681296 141 taacccgttcaggtgttaataaaaacaaaaatcaataaaaacaccttgaggcatatcaaggtgtttttgtttatttgagggcataattaacccatccataaaaataagcaaaattattgattcaaatactcggagtaagct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taacccgttcaggtgttaataaaaacaaaaatcaataaaaacaccttgaggcatatcaaggtgtttttgtttatttgagggcataattaacccatccataaaaataagcaaaattattgattcaaatactcggagtaagct Predict ORF larger than 30AA ================================================ Protein_Len: 33 Strand: - Start: 19 End: 117 .................. Y F C F D I F V G Q P M D L H K Q K N S P M I L G D M F I L L I M ........................ taacccgttcaggtgttaataaaaacaaaaatcaataaaaacaccttgaggcatatcaaggtgtttttgtttatttgagggcataattaacccatccataaaaataagcaaaattattgattcaaatactcggagtaagct 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================================================ taacccgttcaggtgttaataaaaacaaaaatcaataaaaacaccttgaggcatatcaaggtgtttttgtttatttgagggcataattaacccatccataaaaataagcaaaattattgattcaaatactcggagtaagct Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 93 HP_score: -11.2 Tail_Score: -3.54919 Start: 32 End: 73 Full_Region: TAATAAAAACAAAAA TCAATAAAAACACCTTGA GGCATA TCAAGGTGTTTTTGTTTA TTTGAGGGCATAATT ...............................TCAATAAAAACACCTTGAGGCATATCAAGGTGTTTTTGTTTA.................................................................... TransTerm Strand: - Conf: 100 HP_score: -9.0 Tail_Score: -5.74684 Start: 32 End: 73 Full_Region: aattatgccctcaaa taaacaaaaacaccttga tatgcc tcaaggtgtttttattga tttttgtttttatta ...............................taaacaaaaacaccttgatatgcctcaaggtgtttttattga.................................................................... Find igs database================================================ Query_seq: AA02436:AA02437|AA02436:AA02437:periplasmic protein:integral membrane protein:->->:1681156..1681296 141 taacccgttcaggtgttaataaaaacaaaaatcaataaaaacaccttgaggcatatcaaggtgtttttgtttatttgagggcataattaacccatccataaaaataagcaaaattattgattcaaatactcggagtaagct Intra-Species Hit: Count: 1 Min: 42 Max: 141 Len: 100 Subject: aact_AA02436_AA02437|periplasmic protein:integral membrane protein|POSITIVE:POSITIVE|[1681156,1681296]|141 HSP 1 e-value: 3.0E-50 bit: 198.0 Len: 100 Query Start:42 Query End:141 Subject Strand: POSITIVE Subject Start: 42 Subject End: 141 .........................................caccttgaggcatatcaaggtgtttttgtttatttgagggcataattaacccatccataaaaataagcaaaattattgattcaaatactcggagtaagct .........................................caccttgaggcatatcaaggtgtttttgtttatttgagggcataattaacccatccataaaaataagcaaaattattgattcaaatactcggagtaagct Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CACCUUGAGGCAUAUCAAGGUGUUUUUGUUUAUUUGAGGGCAUAAUUAACCCAUCCAUAAAAAUAAGCAAAAUUAUUGAUUCAAAUACUCGGAGUAAGCU ((((((((......)))))))).(((((((((((((((((.........))).)).....)))))))))))).............(((.....))).... (-22.20) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGCUUACUCCGAGUAUUUGAAUCAAUAAUUUUGCUUAUUUUUAUGGAUGGGUUAAUUAUGCCCUCAAAUAAACAAAAACACCUUGAUAUGCCUCAAGGUG ..........(..(((((((....((((((..((((((((....)))))))).))))))....)))))))..).....((((((((......)))))))) (-24.50) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 282 50 1 214 155 aact:AA01019|5end_conserved_hypothetical_protein_712223..712453_POSITIVE 259 41 1 155 110 aact:AA01549|5end_hypothetical_protein_1037444..1037674_POSITIVE 247 36 1 108 74 aact:AA00492|5end_conserved_hypothetical_protein_343578..343808_POSITIVE 231 56 14 193 149 aact:AA01286|5end_5,10-methylenetetrahydrofolate_dehydrogenase_(bifunctional_protein)_870309..870539_POSITIVE 230 58 16 155 116 aact:AA02386|5end_hypothetical_protein_1634546..1634776_POSITIVE 228 42 2 156 115 aact:AA02024|5end_acyl_carrier_protein_phosphodiesterase_1378144..1378374_POSITIVE 225 54 19 169 122 aact:AA02323|5end_conserved_hypothetical_protein_1585662..1585892_POSITIVE 220 47 4 229 165 aact:AA00983|5end_aldo-keto_reductase_687570..687800_POSITIVE 220 55 20 164 129 aact:AA00878|5end_tight_adherence_protein_E_609392..609622_POSITIVE 214 57 19 142 101 aact:AA02869|5end_hypothetical_protein_2013788..2014018_POSITIVE 212 50 6 183 135 aact:AA01610|5end_hypothetical_protein_1088811..1089041_POSITIVE 211 42 1 153 119 aact:AA01162|5end_conserved_hypothetical_protein_(possible_transmembrane_protein)_795073..795303_POSITIVE 210 57 14 196 147 aact:AA01429|5end_conserved_hypothetical_protein_959581..959811_POSITIVE 207 53 13 224 182 aact:AA02589|5end_NAD(P)H_oxidoreductase_1800493..1800723_POSITIVE 207 22 3 145 120 aact:AA01192|5end_conserved_hypothetical_protein_(possible_membrane_protein)_817358..817588_POSITIVE 206 55 15 135 75 aact:AA00803|5end_hypothetical_protein_549526..549756_POSITIVE 205 49 1 66 20 aact:AA02419|5end_hypothetical_protein_1661731..1661961_POSITIVE 203 41 1 214 175 aact:AA02731|5end_outer_membrane_lipoprotein_carrier_precursor_1911498..1911728_POSITIVE 202 38 3 80 48 aact:AA00434|5end_VgrG-like_protein_(Rhs_accessory_genetic_element)_294825..295055_POSITIVE 200 40 11 159 128 aact:AA01814|5end_endonuclease_III_1221881..1222111_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 283 36 4 81 44 aact:AA02419|3end_hypothetical_protein_1661954..1662104_POSITIVE 261 35 1 62 28 aact:AA02436|3end_periplasmic_protein_1681095..1681245_POSITIVE 231 56 14 98 54 aact:AA01284|3end_heat_shock_protein_(hsp60)_870294..870444_POSITIVE 228 42 2 47 6 aact:AA02023|3end_NADH_dehydrogenase_1378115..1378265_POSITIVE 220 55 20 147 112 aact:AA00877|3end_tight_adherence_protein_D_609455..609605_POSITIVE 217 42 5 119 79 aact:AA00747|3end_UTP--hexose-1-phosphate_uridylyltransferase_/_UDPglucose-hexose-1-phosphate_uridylyltransferas_513504..513654_POSITIVE 214 57 19 122 81 aact:AA02867|3end_ribonuclease_T_2013848..2013998_POSITIVE 212 50 6 114 66 aact:AA01609|3end_p-aminobenzoate_synthase_component_I_homolog_1088822..1088972_POSITIVE 211 42 1 79 45 aact:AA01161|3end_araC-like_transcriptional_regulator_795079..795229_POSITIVE 207 22 3 145 120 aact:AA01191|3end_AMP-binding_enzyme_817438..817588_POSITIVE 206 55 15 68 8 aact:AA00801|3end_lysine--tRNA_ligase_549539..549689_POSITIVE 205 49 1 66 20 aact:AA02418|3end_peptidyl-tRNA_hydrolase_1661811..1661961_POSITIVE 202 60 19 125 80 aact:AA02253|3end_hypothetical_protein_1534786..1534936_POSITIVE 200 41 3 109 59 aact:AA01078|3end_transcriptional_regulator_(probable_MerR_family)_747453..747603_POSITIVE 195 78 33 138 104 aact:AA00575|3end_shikimate_5-dehydrogenase_394093..394243_POSITIVE 193 40 19 21 2 aact:AA02857|3end_conserved_hypothetical_protein_2005271..2005421_POSITIVE 192 50 1 92 41 aact:AA00725|3end_translation_initiation_factor_1_498276..498426_POSITIVE 191 57 12 113 67 aact:AA00447|3end_conserved_hypothetical_protein_312221..312371_POSITIVE 191 49 5 51 13 aact:AA00221|3end_NADP-specific_glutamate_dehydrogenase_153865..154015_POSITIVE 188 42 5 80 37 aact:AA02601|3end_ATP-dependent_helicase_1813309..1813459_POSITIVE