Origin IGS: aaatattccttatattgtttggggaacttggtctctatgattcgttgattgttgaaaaccatcacacgtattttatatttacgctgacggtacttcttccgtttatcgatacgctcctgtttatatttccta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taggaaatataaacaggagcgtatcgataaacggaagaagtaccgtcagcgtaaatataaaatacgtgtgatggttttcaacaatcaacgaatcatagagaccaagttccccaaacaatataaggaatattt Mask Tandem Repeat Region ================================================ aaatattccttatattgtttggggaacttggtctctatgattcgttgattgttgaaaaccatcacacgtattttatatttacgctgacggtacttcttccgtttatcgatacgctcctgtttatatttccta Find is-nt database================================================ Query_seq: AA00026:AA00028|AA00026:AA00028:conserved hypothetical protein:conserved hypothetical protein (possible type III restriction-modification system restriction subunit):->->:20603..20734 132 aaatattccttatattgtttggggaacttggtctctatgattcgttgattgttgaaaaccatcacacgtattttatatttacgctgacggtacttcttccgtttatcgatacgctcctgtttatatttccta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA00026:AA00028|AA00026:AA00028:conserved hypothetical protein:conserved hypothetical protein (possible type III restriction-modification system restriction subunit):->->:20603..20734 132 aaatattccttatattgtttggggaacttggtctctatgattcgttgattgttgaaaaccatcacacgtattttatatttacgctgacggtacttcttccgtttatcgatacgctcctgtttatatttccta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA00026:AA00028|AA00026:AA00028:conserved hypothetical protein:conserved hypothetical protein (possible type III restriction-modification system restriction subunit):->->:20603..20734 132 aaatattccttatattgtttggggaacttggtctctatgattcgttgattgttgaaaaccatcacacgtattttatatttacgctgacggtacttcttccgtttatcgatacgctcctgtttatatttccta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aaatattccttatattgtttggggaacttggtctctatgattcgttgattgttgaaaaccatcacacgtattttatatttacgctgacggtacttcttccgtttatcgatacgctcctgtttatatttccta Predict ORF larger than 30AA ================================================ Protein_Len: 43 Strand: + Start: 3 End: 131 .. M F L I L F G E L G L Y D S L I V E N H H T Y F I F T L T V L L P F I D T L L F I F P . Protein_Len: 36 Strand: - Start: 3 End: 110 .. Y E K Y Q K P F K T E I I R Q N N F V M V R I K Y K R Q R Y K K R K D M ...................... aaatattccttatattgtttggggaacttggtctctatgattcgttgattgttgaaaaccatcacacgtattttatatttacgctgacggtacttcttccgtttatcgatacgctcctgtttatatttccta 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================================================ aaatattccttatattgtttggggaacttggtctctatgattcgttgattgttgaaaaccatcacacgtattttatatttacgctgacggtacttcttccgtttatcgatacgctcctgtttatatttccta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: AA00026:AA00028|AA00026:AA00028:conserved hypothetical protein:conserved hypothetical protein (possible type III restriction-modification system restriction subunit):->->:20603..20734 132 aaatattccttatattgtttggggaacttggtctctatgattcgttgattgttgaaaaccatcacacgtattttatatttacgctgacggtacttcttccgtttatcgatacgctcctgtttatatttccta Intra-Species Hit: Count: 1 Min: 1 Max: 132 Len: 132 Subject: aact_AA00026_AA00028|conserved hypothetical protein:conserved hypothetical protein (possible type III restriction-modification system restriction subunit)|POSITIVE:POSITIVE|[20603,20734]|132 HSP 1 e-value: 3.0E-69 bit: 262.0 Len: 132 Query Start:1 Query End:132 Subject Strand: POSITIVE Subject Start: 1 Subject End: 132 aaatattccttatattgtttggggaacttggtctctatgattcgttgattgttgaaaaccatcacacgtattttatatttacgctgacggtacttcttccgtttatcgatacgctcctgtttatatttccta aaatattccttatattgtttggggaacttggtctctatgattcgttgattgttgaaaaccatcacacgtattttatatttacgctgacggtacttcttccgtttatcgatacgctcctgtttatatttccta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAAUAUUCCUUAUAUUGUUUGGGGAACUUGGUCUCUAUGAUUCGUUGAUUGUUGAAAACCAUCACACGUAUUUUAUAUUUACGCUGACGGUACUUCUUCCGUUUAUCGAUACGCUCCUGUUUAUAUUUCCUA .....(((((((.......)))))))...((....(((((..(((((((.((.....)).)))).)))....)))))....((..(((((........)))))...)).......))............... (-18.80) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGGAAAUAUAAACAGGAGCGUAUCGAUAAACGGAAGAAGUACCGUCAGCGUAAAUAUAAAAUACGUGUGAUGGUUUUCAACAAUCAACGAAUCAUAGAGACCAAGUUCCCCAAACAAUAUAAGGAAUAUUU ...............(((((...(((.....)))..((((.((((((((((((.........))))).)))))))))))..........................)))))...................... (-22.30) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 335 120 76 152 103 aact:AA01991|5end_conserved_hypothetical_protein_(possible_nitroreductase)_1352372..1352602_POSITIVE 324 122 82 61 19 aact:AA01818|5end_high-affinity_zinc_uptake_system_membrane_protein_1224306..1224536_POSITIVE 323 129 83 223 164 aact:AA01730|5end_conserved_hypothetical_protein_(possible_transcriptional_regulator)_1168725..1168955_POSITIVE 323 129 83 83 24 aact:AA01729|5end_hypothetical_protein_1168585..1168815_POSITIVE 320 118 81 217 180 aact:AA01688|5end_conserved_hypothetical_protein;_possible_membrane_protein_1139635..1139865_POSITIVE 306 118 81 105 72 aact:AA00596|5end_uridylate_kinase_407496..407726_POSITIVE 290 117 81 93 48 aact:AA01066|5end_conserved_hypothetical_protein_738380..738610_POSITIVE 285 126 81 57 12 aact:AA02724|5end_seryl-tRNA_ligase_1906357..1906587_POSITIVE 285 60 15 154 105 aact:AA01067|5end_30S_ribosomal_protein_S2_738898..739128_POSITIVE 278 128 83 202 158 aact:AA00003|5end_DNA_replication_and_repair_protein_2337..2567_POSITIVE 275 68 21 199 144 aact:AA00790|5end_recombination_DNA_repair_protein_542455..542685_POSITIVE 272 119 81 230 193 aact:AA01408|5end_conserved_hypothetical_protein_950191..950421_POSITIVE 263 129 83 63 20 aact:AA02321|5end_conserved_hypothetical_protein_1585163..1585393_POSITIVE 262 121 83 206 146 aact:AA00770|5end_outer_membrane_protein_precursor_530788..531018_POSITIVE 261 124 98 142 118 aact:AA02236|5end_stringent_starvation_protein_A_1521919..1522149_POSITIVE 257 110 63 70 29 aact:AA01071|5end_RNA_methyltransferase_741707..741937_POSITIVE 253 57 16 103 56 aact:AA01453|5end_D-xylose_isomerase_973457..973687_POSITIVE 253 129 82 228 161 aact:AA00208|5end_D-ribose_ABC_transporter,_permease_protein_/_Galactoside_transport_system_permease_protein_144097..144327_POSITIVE 251 97 59 190 144 aact:AA02193|5end_oxaloacetate_decarboxylase_gamma_chain_1494219..1494449_POSITIVE 251 114 82 180 151 aact:AA00675|5end_glutaredoxin_2_462524..462754_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 324 122 82 75 33 aact:AA01817|3end_hypothetical_protein_1224400..1224550_POSITIVE 323 129 83 83 24 aact:AA01728|3end_conserved_hypothetical_protein(related_to_HipA_protein)_1168665..1168815_POSITIVE 285 126 81 73 28 aact:AA02723|3end_hypothetical_protein_1906453..1906603_POSITIVE 285 60 15 76 27 aact:AA01066|3end_conserved_hypothetical_protein_738900..739050_POSITIVE 263 129 83 54 11 aact:AA02320|3end_ABC_transporter_ATP-binding_protein_1585234..1585384_POSITIVE 261 124 98 127 103 aact:AA02235|3end_stringent_starvation_protein_B_1521984..1522134_POSITIVE 260 117 82 72 34 aact:AA00933|3end_ribose_ABC_transporter,_ATP-binding_protein_645197..645347_POSITIVE 259 118 81 109 63 aact:AA00789|3end_DNA_topoisomerase_III_542545..542695_POSITIVE 256 117 72 106 71 aact:AA00977|3end_transcriptional_regulator_(LysR_family)_683334..683484_POSITIVE 253 57 16 50 3 aact:AA01451|3end_D-xylulokinase_973484..973634_POSITIVE 250 119 81 44 12 aact:AA01260|3end_hypothetical_protein_855758..855908_POSITIVE 248 88 43 101 67 aact:AA01301|3end_competence_protein_B_882095..882245_POSITIVE 247 104 64 107 67 aact:AA01351|3end_probable_sulfatase_916393..916543_POSITIVE 246 120 72 74 30 aact:AA02171|3end_polysialic_acid_capsule_expression_protein_1486096..1486246_POSITIVE 242 117 88 127 97 aact:AA02619|3end_GTP_cyclohydrolase_II_1826193..1826343_POSITIVE 241 129 82 57 2 aact:AA01866|3end_thiamin_ABC_transporter,_permease_protein_1254946..1255096_POSITIVE 240 118 84 66 22 aact:AA01986|3end_pyruvate_dehydrogenase_complex_E2_1350500..1350650_POSITIVE 240 126 85 117 57 aact:AA00427|3end_hypothetical_protein_289956..290106_POSITIVE 239 90 43 66 24 aact:AA02142|3end_outer_membrane_protein_OprM_precursor_1467532..1467682_POSITIVE 239 117 76 49 14 aact:AA01387|3end_primosomal_protein_N_936641..936791_POSITIVE