Origin IGS: aaatttaagtagttattttaaataggttttttacgtttatagaactgagcgggataatatcgtaaatttaagtaaaaatccactttaatttaataaaaatatcgtactttttagcatatatagtgcataaatggaattttatgcactatatgttgaatgtatatcgaatgctgaaaggatta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taatcctttcagcattcgatatacattcaacatatagtgcataaaattccatttatgcactatatatgctaaaaagtacgatatttttattaaattaaagtggatttttacttaaatttacgatattatcccgctcagttctataaacgtaaaaaacctatttaaaataactacttaaattt Mask Tandem Repeat Region ================================================ aaatttaagtagttattttaaataggttttttacgtttatagaactgagcgggataatatcgtaaatttaagtaaaaatccactttaatttaataaaaatatcgtactttttagcatatatagtgcataaatggaattttatgcactatatgttgaatgtatatcgaatgctgaaaggatta Find is-nt database================================================ Query_seq: AA00644:AA00646|AA00644:AA00646:lipoprotein:2-dehydro-3-deoxyphosphooctonate aldolase:->->:441432..441613 182 aaatttaagtagttattttaaataggttttttacgtttatagaactgagcgggataatatcgtaaatttaagtaaaaatccactttaatttaataaaaatatcgtactttttagcatatatagtgcataaatggaattttatgcactatatgttgaatgtatatcgaatgctgaaaggatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA00644:AA00646|AA00644:AA00646:lipoprotein:2-dehydro-3-deoxyphosphooctonate aldolase:->->:441432..441613 182 aaatttaagtagttattttaaataggttttttacgtttatagaactgagcgggataatatcgtaaatttaagtaaaaatccactttaatttaataaaaatatcgtactttttagcatatatagtgcataaatggaattttatgcactatatgttgaatgtatatcgaatgctgaaaggatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA00644:AA00646|AA00644:AA00646:lipoprotein:2-dehydro-3-deoxyphosphooctonate aldolase:->->:441432..441613 182 aaatttaagtagttattttaaataggttttttacgtttatagaactgagcgggataatatcgtaaatttaagtaaaaatccactttaatttaataaaaatatcgtactttttagcatatatagtgcataaatggaattttatgcactatatgttgaatgtatatcgaatgctgaaaggatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aaatttaagtagttattttaaataggttttttacgtttatagaactgagcgggataatatcgtaaatttaagtaaaaatccactttaatttaataaaaatatcgtactttttagcatatatagtgcataaatggaattttatgcactatatgttgaatgtatatcgaatgctgaaaggatta Predict ORF larger than 30AA ================================================ Protein_Len: 35 Strand: + Start: 78 End: 182 ............................................................................. M H F N L I K I S Y F L A Y I V H K W N F M H Y M L N V Y R M L K G L aaatttaagtagttattttaaataggttttttacgtttatagaactgagcgggataatatcgtaaatttaagtaaaaatccactttaatttaataaaaatatcgtactttttagcatatatagtgcataaatggaattttatgcactatatgttgaatgtatatcgaatgctgaaaggatta 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: 82 Start: 29 End: 58 ............................TTTTACGTTTATAGAACTGAGCGGGATAAT............................................................................................................................ PromScan Matrix: RpoD-17 Strand: - Score: 81 Start: 54 End: 83 .....................................................GTGGATTTTTACTTAAATTTACGATATTAT................................................................................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ aaatttaagtagttattttaaataggttttttacgtttatagaactgagcgggataatatcgtaaatttaagtaaaaatccactttaatttaataaaaatatcgtactttttagcatatatagtgcataaatggaattttatgcactatatgttgaatgtatatcgaatgctgaaaggatta Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 86 HP_score: -11.5 Tail_Score: -3.17797 Start: 117 End: 152 Full_Region: TCGTACTTTTTAGCA TATATAGTGCATAAA TGGAAT TTTATGCACTATATG TTGAATGTATATCGA ....................................................................................................................TATATAGTGCATAAATGGAATTTTATGCACTATATG.............................. TransTerm Strand: + Conf: 89 HP_score: -11.9 Tail_Score: -3.14839 Start: 119 End: 150 Full_Region: GTACTTTTTAGCATA TATAGTGCATAAA TGGAAT TTTATGCACTATA TGTTGAATGTATATC ......................................................................................................................TATAGTGCATAAATGGAATTTTATGCACTATA................................ TransTerm Strand: - Conf: 88 HP_score: -11.9 Tail_Score: -2.78816 Start: 119 End: 150 Full_Region: gatatacattcaaca tatagtgcataaa attcca tttatgcactata tatgctaaaaagtac ......................................................................................................................tatagtgcataaaattccatttatgcactata................................ TransTerm Strand: - Conf: 79 HP_score: -10.1 Tail_Score: -2.94218 Start: 121 End: 148 Full_Region: tatacattcaacata tagtgcataaa attcca tttatgcacta tatatgctaaaaagt ........................................................................................................................tagtgcataaaattccatttatgcacta.................................. TransTerm Strand: - Conf: 70 HP_score: -8.3 Tail_Score: -3.02471 Start: 123 End: 146 Full_Region: tacattcaacatata gtgcataaa attcca tttatgcac tatatatgctaaaaa ..........................................................................................................................gtgcataaaattccatttatgcac.................................... Find igs database================================================ Query_seq: AA00644:AA00646|AA00644:AA00646:lipoprotein:2-dehydro-3-deoxyphosphooctonate aldolase:->->:441432..441613 182 aaatttaagtagttattttaaataggttttttacgtttatagaactgagcgggataatatcgtaaatttaagtaaaaatccactttaatttaataaaaatatcgtactttttagcatatatagtgcataaatggaattttatgcactatatgttgaatgtatatcgaatgctgaaaggatta Intra-Species Hit: Count: 1 Min: 1 Max: 182 Len: 182 Subject: aact_AA00644_AA00646|lipoprotein:2-dehydro-3-deoxyphosphooctonate aldolase|POSITIVE:POSITIVE|[441432,441613]|182 HSP 1 e-value: 5.0E-99 bit: 361.0 Len: 182 Query Start:1 Query End:182 Subject Strand: POSITIVE Subject Start: 1 Subject End: 182 aaatttaagtagttattttaaataggttttttacgtttatagaactgagcgggataatatcgtaaatttaagtaaaaatccactttaatttaataaaaatatcgtactttttagcatatatagtgcataaatggaattttatgcactatatgttgaatgtatatcgaatgctgaaaggatta aaatttaagtagttattttaaataggttttttacgtttatagaactgagcgggataatatcgtaaatttaagtaaaaatccactttaatttaataaaaatatcgtactttttagcatatatagtgcataaatggaattttatgcactatatgttgaatgtatatcgaatgctgaaaggatta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAAUUUAAGUAGUUAUUUUAAAUAGGUUUUUUACGUUUAUAGAACUGAGCGGGAUAAUAUCGUAAAUUUAAGUAAAAAUCCACUUUAAUUUAAUAAAAAUAUCGUACUUUUUAGCAUAUAUAGUGCAUAAAUGGAAUUUUAUGCACUAUAUGUUGAAUGUAUAUCGAAUGCUGAAAGGAUUA ..(((((((.......)))))))..........((((((......)))))).((((......((((((.((((........)))).)))))).......))))...((((((((((.((((((((((((((......)))))))))))))).((((.......)))).)))))))))).... (-40.12) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUCCUUUCAGCAUUCGAUAUACAUUCAACAUAUAGUGCAUAAAAUUCCAUUUAUGCACUAUAUAUGCUAAAAAGUACGAUAUUUUUAUUAAAUUAAAGUGGAUUUUUACUUAAAUUUACGAUAUUAUCCCGCUCAGUUCUAUAAACGUAAAAAACCUAUUUAAAAUAACUACUUAAAUUU ..........((((...((.......))...((((((((((((((......)))))))))))))).))))...(((((.(.((((((............((((((((......))))))))................(((.....)))...............)))))).))))))...... (-28.80) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 262 139 101 162 124 aact:AA02987|5end_histidine_triad_protein_homolog_2088767..2088997_POSITIVE 246 146 101 216 162 aact:AA01117|5end_signal_recognition_particle_protein_54_(GTP-binding_export_factor)_767919..768149_POSITIVE 245 179 143 163 119 aact:AA02041|5end_hypothetical_protein_1389043..1389273_POSITIVE 241 53 15 223 183 aact:AA02875|5end_conserved_hypothetical_protein_(2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol_hydroxylase)_2017930..2018160_POSITIVE 240 86 42 170 112 aact:AA00663|5end_cystathionine_beta-lyase_455540..455770_POSITIVE 232 73 33 39 7 aact:AA02052|5end_probable_exodeoxyribonuclease_VII_small_subunit_1398461..1398691_POSITIVE 227 58 12 197 151 aact:AA00292|5end_dihydrofolate_reductase_201800..202030_POSITIVE 227 58 12 112 66 aact:AA00291|5end_hypothetical_protein_201715..201945_POSITIVE 222 180 141 76 38 aact:AA00947|5end_hypothetical_protein_655241..655471_POSITIVE 221 180 134 179 132 aact:AA01342|5end_conserved_hypotheticl_protein_(possible_ribosomal_RNA_adenine_dimethylase)_910208..910438_POSITIVE 220 177 131 191 141 aact:AA00339|5end_hypothetical_protein_228687..228917_POSITIVE 219 179 131 185 128 aact:AA00199|5end_hypothetical_protein_138575..138805_POSITIVE 217 72 35 88 53 aact:AA01480|5end_ATP_synthase_F1,_epsilon_995815..996045_POSITIVE 216 125 99 193 168 aact:AA02288|5end_conserved_hypothetical_protein_1558590..1558820_POSITIVE 215 73 46 34 2 aact:AA01239|5end_30S_ribosomal_protein_S13_844503..844733_POSITIVE 214 176 153 164 142 aact:AA01920|5end_N_utilization_substance_protein_A_1293198..1293428_POSITIVE 214 173 143 33 6 aact:AA01156|5end_chaperonin_heat_shock_protein_33_homolog_791459..791689_POSITIVE 212 134 95 187 146 aact:AA00239|5end_hypothetical_protein_171213..171443_POSITIVE 211 180 132 75 23 aact:AA02648|5end_lytic_transglycosylase_1844430..1844660_POSITIVE 211 63 24 85 45 aact:AA02486|5end_topoisomerase_IV,_subunit_B_1724337..1724567_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 246 146 101 57 3 aact:AA01116|3end_hypothetical_protein_767840..767990_POSITIVE 241 53 15 112 72 aact:AA02874|3end_hypothetical_protein_2017899..2018049_POSITIVE 240 86 42 77 19 aact:AA00662|3end_cystathionine_beta-lyase_455527..455677_POSITIVE 227 58 12 130 84 aact:AA00290|3end_conserved_hypothetical_protein_201813..201963_POSITIVE 216 125 99 59 34 aact:AA02286|3end_sugar_ABC_transporter,_ATP-binding_protein_1558536..1558686_POSITIVE 214 176 153 137 115 aact:AA01919|3end_conserved_hypothetical_protein_1293251..1293401_POSITIVE 213 180 131 148 94 aact:AA01097|3end_conserved_hypothetical_protein_757685..757835_POSITIVE 212 134 95 63 22 aact:AA00237|3end_hypothetical_protein_171169..171319_POSITIVE 211 144 101 71 23 aact:AA00506|3end_ATP-dependent_RNA_helicase_protein_353089..353239_POSITIVE 210 63 25 96 60 aact:AA01284|3end_heat_shock_protein_(hsp60)_870294..870444_POSITIVE 210 149 101 80 25 aact:AA01138|3end_anaerobic_dimethyl_sulfoxide_reductase,_chain_B_781685..781835_POSITIVE 207 60 25 92 56 aact:AA02382|3end_glucuronate/uronate_isomerase_1631322..1631472_POSITIVE 206 62 24 50 15 aact:AA01174|3end_hypothetical_protein_804923..805073_POSITIVE 206 86 45 58 6 aact:AA00849|3end_MraZ_cell_division_protein_586786..586936_POSITIVE 204 63 22 51 9 aact:AA02101|3end_penicillin-binding_protein_7_1431188..1431338_POSITIVE 202 180 133 121 69 aact:AA01673|3end_riboflavin_synthase,_alpha_chain_1132093..1132243_POSITIVE 202 126 81 101 56 aact:AA01089|3end_hypothetical_protein_753597..753747_POSITIVE 198 127 101 98 73 aact:AA02870|3end_conserved_hypothetical_protein_2015552..2015702_POSITIVE 197 64 25 62 21 aact:AA01663|3end_GTP_cyclohydrolase_I_1128204..1128354_POSITIVE 197 179 140 83 43 aact:AA01480|3end_ATP_synthase_F1,_epsilon_996320..996470_POSITIVE