Origin IGS: taaatcgtcatgctaggtaacgacctgttgtgtatagttctcaatacgttgagagtcactaattatggggtatttctatatgataagaataaatcccttatgaaaataaggggatataaaacgccaataaaaatgaccgcacttttggaacaggggcgaaaaagaaaacagcccggaagggctgtattgtgcgtgaataaaaacgattta .........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 taaatcgtttttattcacgcacaatacagcccttccgggctgttttctttttcgcccctgttccaaaagtgcggtcatttttattggcgttttatatccccttattttcataagggatttattcttatcatatagaaataccccataattagtgactctcaacgtattgagaactatacacaacaggtcgttacctagcatgacgattta Mask Tandem Repeat Region ================================================ taaatcgtcatgctaggtaacgacctgttgtgtatagttctcaatacgttgagagtcactaattatggggtatttctatatgataagaataaatcccttatgaaaataaggggatataaaacgccaataaaaatgaccgcacttttggaacaggggcgaaaaagaaaacagcccggaagggctgtattgtgcgtgaataaaaacgattta Find is-nt database================================================ Query_seq: AA01989:AA01991|AA01989:AA01991:hypothetical protein:conserved hypothetical protein (possible nitroreductase):->->:1352302..1352511 210 taaatcgtcatgctaggtaacgacctgttgtgtatagttctcaatacgttgagagtcactaattatggggtatttctatatgataagaataaatcccttatgaaaataaggggatataaaacgccaataaaaatgaccgcacttttggaacaggggcgaaaaagaaaacagcccggaagggctgtattgtgcgtgaataaaaacgattta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA01989:AA01991|AA01989:AA01991:hypothetical protein:conserved hypothetical protein (possible nitroreductase):->->:1352302..1352511 210 taaatcgtcatgctaggtaacgacctgttgtgtatagttctcaatacgttgagagtcactaattatggggtatttctatatgataagaataaatcccttatgaaaataaggggatataaaacgccaataaaaatgaccgcacttttggaacaggggcgaaaaagaaaacagcccggaagggctgtattgtgcgtgaataaaaacgattta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA01989:AA01991|AA01989:AA01991:hypothetical protein:conserved hypothetical protein (possible nitroreductase):->->:1352302..1352511 210 taaatcgtcatgctaggtaacgacctgttgtgtatagttctcaatacgttgagagtcactaattatggggtatttctatatgataagaataaatcccttatgaaaataaggggatataaaacgccaataaaaatgaccgcacttttggaacaggggcgaaaaagaaaacagcccggaagggctgtattgtgcgtgaataaaaacgattta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taaatcgtcatgctaggtaacgacctgttgtgtatagttctcaatacgttgagagtcactaattatggggtatttctatatgataagaataaatcccttatgaaaataaggggatataaaacgccaataaaaatgaccgcacttttggaacaggggcgaaaaagaaaacagcccggaagggctgtattgtgcgtgaataaaaacgattta Predict ORF larger than 30AA ================================================ Protein_Len: 60 Strand: + Start: 4 End: 210 ... M V M L G N D L L C I V L N T L R V T N Y G V F L Y D K N K S L M K I R G Y K T P I K M T A L L E Q G R K R K Q P G R A Protein_Len: 43 Strand: - Start: 79 End: 207 .............................................................................. I I L I F G K H F Y P S I F R W Y F H G C K Q F L P S F S F L G S P S Y Q A H I F V M ... taaatcgtcatgctaggtaacgacctgttgtgtatagttctcaatacgttgagagtcactaattatggggtatttctatatgataagaataaatcccttatgaaaataaggggatataaaacgccaataaaaatgaccgcacttttggaacaggggcgaaaaagaaaacagcccggaagggctgtattgtgcgtgaataaaaacgattta 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================================================ taaatcgtcatgctaggtaacgacctgttgtgtatagttctcaatacgttgagagtcactaattatggggtatttctatatgataagaataaatcccttatgaaaataaggggatataaaacgccaataaaaatgaccgcacttttggaacaggggcgaaaaagaaaacagcccggaagggctgtattgtgcgtgaataaaaacgattta Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 70 HP_score: -5.0 Tail_Score: -4.53419 Start: 94 End: 113 Full_Region: attggcgttttatat ccccttat tttc ataaggga tttattcttatcata .............................................................................................ccccttattttcataaggga................................................................................................. TransTerm Strand: - Conf: 70 HP_score: -8.5 Tail_Score: -3.30967 Start: 95 End: 112 Full_Region: ttggcgttttatatc cccttat tttc ataaggg atttattcttatcat ..............................................................................................cccttattttcataaggg.................................................................................................. TransTerm Strand: + Conf: 79 HP_score: -10.4 Tail_Score: -3.254 Start: 169 End: 184 Full_Region: GGGCGAAAAAGAAAA CAGCCC GGAA GGGCTG TATTGTGCGTGAATA ........................................................................................................................................................................CAGCCCGGAAGGGCTG.......................... Find igs database================================================ Query_seq: AA01989:AA01991|AA01989:AA01991:hypothetical protein:conserved hypothetical protein (possible nitroreductase):->->:1352302..1352511 210 taaatcgtcatgctaggtaacgacctgttgtgtatagttctcaatacgttgagagtcactaattatggggtatttctatatgataagaataaatcccttatgaaaataaggggatataaaacgccaataaaaatgaccgcacttttggaacaggggcgaaaaagaaaacagcccggaagggctgtattgtgcgtgaataaaaacgattta Intra-Species Hit: Count: 1 Min: 1 Max: 210 Len: 210 Subject: aact_AA01989_AA01991|hypothetical protein:conserved hypothetical protein (possible nitroreductase)|POSITIVE:POSITIVE|[1352302,1352511]|210 HSP 1 e-value: 1.0E-115 bit: 416.0 Len: 210 Query Start:1 Query End:210 Subject Strand: POSITIVE Subject Start: 1 Subject End: 210 taaatcgtcatgctaggtaacgacctgttgtgtatagttctcaatacgttgagagtcactaattatggggtatttctatatgataagaataaatcccttatgaaaataaggggatataaaacgccaataaaaatgaccgcacttttggaacaggggcgaaaaagaaaacagcccggaagggctgtattgtgcgtgaataaaaacgattta taaatcgtcatgctaggtaacgacctgttgtgtatagttctcaatacgttgagagtcactaattatggggtatttctatatgataagaataaatcccttatgaaaataaggggatataaaacgccaataaaaatgaccgcacttttggaacaggggcgaaaaagaaaacagcccggaagggctgtattgtgcgtgaataaaaacgattta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAUCGUCAUGCUAGGUAACGACCUGUUGUGUAUAGUUCUCAAUACGUUGAGAGUCACUAAUUAUGGGGUAUUUCUAUAUGAUAAGAAUAAAUCCCUUAUGAAAAUAAGGGGAUAUAAAACGCCAAUAAAAAUGACCGCACUUUUGGAACAGGGGCGAAAAAGAAAACAGCCCGGAAGGGCUGUAUUGUGCGUGAAUAAAAACGAUUUA (((((((((((((.......((.((((((((((.....((((((....))))))((((.......(((.((..((((........))))....((((((((....)))))))).......)).))).......)))).))))......))))))..)).........(((((((....))))))).....)))))).......))))))) (-63.95) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAUCGUUUUUAUUCACGCACAAUACAGCCCUUCCGGGCUGUUUUCUUUUUCGCCCCUGUUCCAAAAGUGCGGUCAUUUUUAUUGGCGUUUUAUAUCCCCUUAUUUUCAUAAGGGAUUUAUUCUUAUCAUAUAGAAAUACCCCAUAAUUAGUGACUCUCAACGUAUUGAGAACUAUACACAACAGGUCGUUACCUAGCAUGACGAUUUA (((((((((.........((.....(((((((....))))))).............((((((......(((.(((.((((((((((..(....(((..(((((((....)))))))...)))...)..)).))))))))))).)))...((((...((((((....)))))))))).....))))))..))..........))))))))) (-49.81) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 426 159 111 146 88 aact:AA01537|5end_possible_glucokinase_regulatory_protein_1030616..1030846_POSITIVE 402 159 118 134 95 aact:AA01603|5end_oligopeptidase_A_1082898..1083128_POSITIVE 395 156 113 139 93 aact:AA02716|5end_peptidase_T_1899789..1900019_POSITIVE 388 160 111 150 101 aact:AA02814|5end_hypothetical_protein_1980180..1980410_POSITIVE 386 194 152 164 117 aact:AA00982|5end_aldo-keto_reductase_686526..686756_POSITIVE 381 196 153 201 161 aact:AA02466|5end_N-acetylneuraminate_lyase_1704963..1705193_POSITIVE 378 157 111 140 88 aact:AA01832|5end_formate_dehydrogenase_formation_protein_E_1233609..1233839_POSITIVE 375 160 119 75 34 aact:AA02442|5end_thioredoxin-family_protein_1685704..1685934_POSITIVE 374 180 134 230 181 aact:AA02367|5end_conserved_hypothetical_protein_1623174..1623404_POSITIVE 374 180 134 76 27 aact:AA02366|5end_hypothetical_protein_1623020..1623250_POSITIVE 374 145 110 122 87 aact:AA01315|5end_DNA/pantothenate_metabolism_flavoprotein_890091..890321_POSITIVE 374 145 110 52 17 aact:AA01314|5end_hypothetical_protein_890021..890251_POSITIVE 354 160 118 154 109 aact:AA01027|5end_Na(+)-translocating_NADH-quinone_reductase_subunit_F_717676..717906_POSITIVE 354 157 111 129 88 aact:AA00390|5end_permease_263689..263919_POSITIVE 353 159 118 135 98 aact:AA01692|5end_hexulose-6-phosphate_synthase_1149178..1149408_POSITIVE 352 158 118 144 95 aact:AA02937|5end_conserved_hypothetical_protein_2056379..2056609_POSITIVE 350 158 118 189 147 aact:AA03011|5end_inner_membrane_protein,_60_kDa_2102585..2102815_POSITIVE 350 160 111 138 88 aact:AA01704|5end_tyrosine-specific_transport_protein_1156170..1156400_POSITIVE 349 158 118 157 115 aact:AA01416|5end_2C-methyl-D-erythritol_2,4-cyclodiphosphate_952780..953010_POSITIVE 348 152 118 231 196 aact:AA00579|5end_probable_DNA_recombination_protein_395265..395495_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 395 156 113 57 11 aact:AA02715|3end_paraquat-inducible_protein_pqiB_homolog_1899787..1899937_POSITIVE 382 160 118 99 52 aact:AA00578|3end_DNA_topoisomerase_395201..395351_POSITIVE 381 196 153 43 3 aact:AA02465|3end_glucosamine-6-phosphate_isomerase_1704885..1705035_POSITIVE 378 157 111 60 8 aact:AA01830|3end_2,3-cyclic-nucleotide_2-phosphodiesterase_1233609..1233759_POSITIVE 375 160 119 82 41 aact:AA02440|3end_ABC_transporter,_ATP-binding_protein_1685791..1685941_POSITIVE 374 145 110 147 112 aact:AA01314|3end_hypothetical_protein_890196..890346_POSITIVE 374 145 110 50 15 aact:AA01313|3end_deoxyuridinetriphosphatase;_deoxyuridine_5'-triphosphate_nucleotidohydrolase_890099..890249_POSITIVE 361 160 111 128 73 aact:AA01021|3end_hypothetical_protein_714276..714426_POSITIVE 352 158 118 58 9 aact:AA02936|3end_lipoprotein_E_precursor;_outer_membrane_protein_P4_precursor;_acid_phosphatase_2056373..2056523_POSITIVE 350 158 118 58 16 aact:AA03010|3end_thiophene_and_furan_oxidation_protein_2102534..2102684_POSITIVE 346 145 101 110 68 aact:AA01201|3end_phosphatase;_hydrolase_823303..823453_POSITIVE 337 157 118 68 27 aact:AA02964|3end_opacity_associated_protein_A_2074128..2074278_POSITIVE 337 157 118 82 41 aact:AA02587|3end_conserved_hypothetical_protein_1800570..1800720_POSITIVE 337 160 118 70 34 aact:AA01945|3end_selenophosphate_synthase_1316022..1316172_POSITIVE 337 147 110 108 66 aact:AA00732|3end_citrate_lyase_ligase_502427..502577_POSITIVE 335 157 129 88 56 aact:AA00543|3end_ADP-heptose--LPS_heptosyltransferase_II_372407..372557_POSITIVE 332 154 111 137 88 aact:AA01044|3end_A/G-specific_adenine_glycosylase_727978..728128_POSITIVE 330 158 118 150 115 aact:AA01413|3end_conserved_hypothetical_protein_952860..953010_POSITIVE 328 175 136 101 57 aact:AA01439|3end_probable_ferredoxin_(fdx-2)_966498..966648_POSITIVE 328 147 109 60 16 aact:AA00849|3end_MraZ_cell_division_protein_586786..586936_POSITIVE