Origin IGS: aaataaactcctctaatttatggggaacagtttgctaatcatagcttgaacgtgttgatatttccatgtgttagatcacagaacgaagatttacttaaaaatattcacagaaaataaaagggtgaatcaatttcttcgcccttaaaaacatttaaaaaaaacaccgcacttta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taaagtgcggtgttttttttaaatgtttttaagggcgaagaaattgattcacccttttattttctgtgaatatttttaagtaaatcttcgttctgtgatctaacacatggaaatatcaacacgttcaagctatgattagcaaactgttccccataaattagaggagtttattt Mask Tandem Repeat Region ================================================ aaataaactcctctaatttatggggaacagtttgctaatcatagcttgaacgtgttgatatttccatgtgttagatcacagaacgaagatttacttaaaaatattcacagaaaataaaagggtgaatcaatttcttcgcccttaaaaacatttaaaaaaaacaccgcacttta Find is-nt database================================================ Query_seq: AA01871:AA01872|AA01871:AA01872:conserved hypothetical protein:conserved hypothetical protein:->->:1258771..1258943 173 aaataaactcctctaatttatggggaacagtttgctaatcatagcttgaacgtgttgatatttccatgtgttagatcacagaacgaagatttacttaaaaatattcacagaaaataaaagggtgaatcaatttcttcgcccttaaaaacatttaaaaaaaacaccgcacttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA01871:AA01872|AA01871:AA01872:conserved hypothetical protein:conserved hypothetical protein:->->:1258771..1258943 173 aaataaactcctctaatttatggggaacagtttgctaatcatagcttgaacgtgttgatatttccatgtgttagatcacagaacgaagatttacttaaaaatattcacagaaaataaaagggtgaatcaatttcttcgcccttaaaaacatttaaaaaaaacaccgcacttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA01871:AA01872|AA01871:AA01872:conserved hypothetical protein:conserved hypothetical protein:->->:1258771..1258943 173 aaataaactcctctaatttatggggaacagtttgctaatcatagcttgaacgtgttgatatttccatgtgttagatcacagaacgaagatttacttaaaaatattcacagaaaataaaagggtgaatcaatttcttcgcccttaaaaacatttaaaaaaaacaccgcacttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aaataaactcctctaatttatggggaacagtttgctaatcatagcttgaacgtgttgatatttccatgtgttagatcacagaacgaagatttacttaaaaatattcacagaaaataaaagggtgaatcaatttcttcgcccttaaaaacatttaaaaaaaacaccgcacttta Predict ORF larger than 30AA ================================================ Protein_Len: 33 Strand: + Start: 16 End: 114 ............... M Y G E Q F A N H S L N V L I F P C V R S Q N E D L L K N I H R K ........................................................... aaataaactcctctaatttatggggaacagtttgctaatcatagcttgaacgtgttgatatttccatgtgttagatcacagaacgaagatttacttaaaaatattcacagaaaataaaagggtgaatcaatttcttcgcccttaaaaacatttaaaaaaaacaccgcacttta 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: 83 Start: 38 End: 67 .....................................ATGGAAATATCAACACGTTCAAGCTATGAT.......................................................................................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ aaataaactcctctaatttatggggaacagtttgctaatcatagcttgaacgtgttgatatttccatgtgttagatcacagaacgaagatttacttaaaaatattcacagaaaataaaagggtgaatcaatttcttcgcccttaaaaacatttaaaaaaaacaccgcacttta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: AA01871:AA01872|AA01871:AA01872:conserved hypothetical protein:conserved hypothetical protein:->->:1258771..1258943 173 aaataaactcctctaatttatggggaacagtttgctaatcatagcttgaacgtgttgatatttccatgtgttagatcacagaacgaagatttacttaaaaatattcacagaaaataaaagggtgaatcaatttcttcgcccttaaaaacatttaaaaaaaacaccgcacttta Intra-Species Hit: Count: 1 Min: 1 Max: 153 Len: 153 Subject: aact_AA01871_AA01872|conserved hypothetical protein:conserved hypothetical protein|POSITIVE:POSITIVE|[1258771,1258943]|173 HSP 1 e-value: 1.0E-81 bit: 303.0 Len: 153 Query Start:1 Query End:153 Subject Strand: POSITIVE Subject Start: 1 Subject End: 153 aaataaactcctctaatttatggggaacagtttgctaatcatagcttgaacgtgttgatatttccatgtgttagatcacagaacgaagatttacttaaaaatattcacagaaaataaaagggtgaatcaatttcttcgcccttaaaaacattt.................... aaataaactcctctaatttatggggaacagtttgctaatcatagcttgaacgtgttgatatttccatgtgttagatcacagaacgaagatttacttaaaaatattcacagaaaataaaagggtgaatcaatttcttcgcccttaaaaacattt.................... Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAAUAAACUCCUCUAAUUUAUGGGGAACAGUUUGCUAAUCAUAGCUUGAACGUGUUGAUAUUUCCAUGUGUUAGAUCACAGAACGAAGAUUUACUUAAAAAUAUUCACAGAAAAUAAAAGGGUGAAUCAAUUUCUUCGCCCUUAAAAACAUUU ...........((((((.(((((..((((((((((((....))))..)))).))).....)..))))).)))))).........(((.((((......)))).)))...........(((((((((........))))))))).......... (-31.40) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAAUGUUUUUAAGGGCGAAGAAAUUGAUUCACCCUUUUAUUUUCUGUGAAUAUUUUUAAGUAAAUCUUCGUUCUGUGAUCUAACACAUGGAAAUAUCAACACGUUCAAGCUAUGAUUAGCAAACUGUUCCCCAUAAAUUAGAGGAGUUUAUUU ((((((((..(((((.(((........))).)))))...........))))))))..((((((((((((.(((((((........))))))).....((((.(((...((((....)))).)))))))............))))).))))))) (-27.72) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 272 90 49 231 190 aact:AA01552|5end_hypothetical_protein_1038993..1039223_POSITIVE 271 72 34 133 93 aact:AA00292|5end_dihydrofolate_reductase_201800..202030_POSITIVE 271 72 34 48 8 aact:AA00291|5end_hypothetical_protein_201715..201945_POSITIVE 265 78 33 168 118 aact:AA02719|5end_ABC-related_spermidine/putrescine_transport_system_permease_1902396..1902626_POSITIVE 261 70 25 153 112 aact:AA01088|5end_rare_lipoprotein_B_precursor_752903..753133_POSITIVE 261 85 43 45 2 aact:AA00363|5end_50S_ribosomal_protein_L22_245571..245801_POSITIVE 238 130 97 159 126 aact:AA00218|5end_argininosuccinate_lyase_150758..150988_POSITIVE 238 130 97 57 24 aact:AA00217|5end_hypothetical_protein_150656..150886_POSITIVE 237 69 21 208 160 aact:AA02939|5end_phosphoserine_phosphatase_2056881..2057111_POSITIVE 235 57 16 225 184 aact:AA01418|5end_conserved_hypothetical_protein_953951..954181_POSITIVE 235 128 84 222 186 aact:AA01304|5end_penicillin-binding_protein_1A_882936..883166_POSITIVE 234 76 32 177 125 aact:AA00987|5end_tetracenomycin_polyketide_synthesis_O-methyltransferase_689745..689975_POSITIVE 233 64 21 137 92 aact:AA00368|5end_50S_ribosomal_protein_L4_247356..247586_POSITIVE 231 62 21 153 115 aact:AA00981|5end_carboxylesterase_685245..685475_POSITIVE 230 47 8 139 98 aact:AA02230|5end_sugar_kinase_1515984..1516214_POSITIVE 230 70 21 53 1 aact:AA00971|5end_conserved_hypothetical_protein_677208..677438_POSITIVE 227 70 21 215 169 aact:AA01777|5end_conserved_hypothetical_protein_1197146..1197376_POSITIVE 227 89 42 192 142 aact:AA01772|5end_shikimate_5-dehydrogenase_protein_1194050..1194280_POSITIVE 227 143 103 128 94 aact:AA00782|5end_conserved_hypothetical_protein_538723..538953_POSITIVE 226 68 22 59 1 aact:AA02196|5end_oxaloacetate_decarboxylase_beta_chain_1496308..1496538_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 271 72 34 66 26 aact:AA00290|3end_conserved_hypothetical_protein_201813..201963_POSITIVE 261 70 25 150 109 aact:AA01087|3end_DNA_polymerase_III,_delta_subunit_752980..753130_POSITIVE 238 130 97 146 113 aact:AA00217|3end_hypothetical_protein_150825..150975_POSITIVE 238 130 97 43 10 aact:AA00216|3end_conserved_hypothetical_protein_150722..150872_POSITIVE 235 128 84 88 52 aact:AA01303|3end_competence_protein_A_882882..883032_POSITIVE 234 76 32 93 41 aact:AA00985|3end_transcriptional_regulator_(LysR_family)_689741..689891_POSITIVE 233 64 21 137 92 aact:AA00367|3end_50S_ribosomal_protein_L23_247436..247586_POSITIVE 230 47 8 86 45 aact:AA02228|3end_regulatory_protein,_sorC_family_1516011..1516161_POSITIVE 227 41 8 69 26 aact:AA02296|3end_conserved_hypothetical_protein_(possible_cell_wall-associated_hydrolase)_1566581..1566731_POSITIVE 227 41 8 69 26 aact:AA00620|3end_hydrolase_425693..425843_POSITIVE 227 41 8 46 3 aact:AA00411|3end_hydrolase_276288..276438_POSITIVE 224 89 42 125 68 aact:AA00170|3end_hypothetical_protein_121407..121557_POSITIVE 224 76 34 98 61 aact:AA00140|3end_hypothetical_protein_100872..101022_POSITIVE 223 78 31 68 18 aact:AA01721|3end_hypothetical_protein_1163517..1163667_POSITIVE 221 76 31 144 90 aact:AA00110|3end_ATPase_involved_in_DNA_replication_79839..79989_POSITIVE 218 65 21 149 103 aact:AA00291|3end_hypothetical_protein_201905..202055_POSITIVE 217 79 32 123 64 aact:AA00892|3end_selenocysteine-specific_elongation_factor_(SelB_translation_factor)_619959..620109_POSITIVE 211 77 33 141 97 aact:AA02737|3end_conserved_hypothetical_protein_1919423..1919573_POSITIVE 209 90 41 115 58 aact:AA00813|3end_hypothetical_protein_559021..559171_POSITIVE 205 49 2 127 71 aact:AA00321|3end_hypothetical_protein_219352..219502_POSITIVE