Origin IGS: gaataatttgacctttattggtatcttttaatatattttgacagctatttgtagcttttgtgccattaaatagtatcttctaagggtaaaaaaataggctaaagccttattctatcgttctaagtt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aacttagaacgatagaataaggctttagcctatttttttacccttagaagatactatttaatggcacaaaagctacaaatagctgtcaaaatatattaaaagataccaataaaggtcaaattattc Mask Tandem Repeat Region ================================================ gaataatttgacctttattggtatcttttaatatattttgacagctatttgtagcttttgtgccattaaatagtatcttctaagggtaaaaaaataggctaaagccttattctatcgttctaagtt Find is-nt database================================================ Query_seq: AA00447:AA00448|AA00447:AA00448:conserved hypothetical protein:C-terminal region of competence protein M:->->:312282..312407 126 gaataatttgacctttattggtatcttttaatatattttgacagctatttgtagcttttgtgccattaaatagtatcttctaagggtaaaaaaataggctaaagccttattctatcgttctaagtt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA00447:AA00448|AA00447:AA00448:conserved hypothetical protein:C-terminal region of competence protein M:->->:312282..312407 126 gaataatttgacctttattggtatcttttaatatattttgacagctatttgtagcttttgtgccattaaatagtatcttctaagggtaaaaaaataggctaaagccttattctatcgttctaagtt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA00447:AA00448|AA00447:AA00448:conserved hypothetical protein:C-terminal region of competence protein M:->->:312282..312407 126 gaataatttgacctttattggtatcttttaatatattttgacagctatttgtagcttttgtgccattaaatagtatcttctaagggtaaaaaaataggctaaagccttattctatcgttctaagtt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gaataatttgacctttattggtatcttttaatatattttgacagctatttgtagcttttgtgccattaaatagtatcttctaagggtaaaaaaataggctaaagccttattctatcgttctaagtt Predict ORF larger than 30AA ================================================ gaataatttgacctttattggtatcttttaatatattttgacagctatttgtagcttttgtgccattaaatagtatcttctaagggtaaaaaaataggctaaagccttattctatcgttctaagtt 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================================================ gaataatttgacctttattggtatcttttaatatattttgacagctatttgtagcttttgtgccattaaatagtatcttctaagggtaaaaaaataggctaaagccttattctatcgttctaagtt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: AA00447:AA00448|AA00447:AA00448:conserved hypothetical protein:C-terminal region of competence protein M:->->:312282..312407 126 gaataatttgacctttattggtatcttttaatatattttgacagctatttgtagcttttgtgccattaaatagtatcttctaagggtaaaaaaataggctaaagccttattctatcgttctaagtt Intra-Species Hit: Count: 1 Min: 1 Max: 126 Len: 126 Subject: aact_AA00447_AA00448|conserved hypothetical protein:C-terminal region of competence protein M|POSITIVE:POSITIVE|[312282,312407]|126 HSP 1 e-value: 3.0E-53 bit: 208.0 Len: 126 Query Start:1 Query End:126 Subject Strand: POSITIVE Subject Start: 1 Subject End: 126 gaataatttgacctttattggtatcttttaatatattttgacagctatttgtagcttttgtgccattaaatagtatcttctaagggtnnnnnnntaggctaaagccttattctatcgttctaagtt gaataatttgacctttattggtatcttttaatatattttgacagctatttgtagcttttgtgccattaaatagtatcttctaagggtaaaaaaataggctaaagccttattctatcgttctaagtt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GAAUAAUUUGACCUUUAUUGGUAUCUUUUAAUAUAUUUUGACAGCUAUUUGUAGCUUUUGUGCCAUUAAAUAGUAUCUUCUAAGGGUAAAAAAAUAGGCUAAAGCCUUAUUCUAUCGUUCUAAGUU (((((.....(((((((..(((((..((((((......(((.(((((....))))).)))....))))))..)))))...)))))))........((((....))))))))).............. (-24.40) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AACUUAGAACGAUAGAAUAAGGCUUUAGCCUAUUUUUUUACCCUUAGAAGAUACUAUUUAAUGGCACAAAAGCUACAAAUAGCUGUCAAAAUAUAUUAAAAGAUACCAAUAAAGGUCAAAUUAUUC ..((.((......((((((.(((....)))))))))......)).))..((((((((((..((((......)))).)))))).)))).................(((......))).......... (-19.20) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 260 86 41 224 180 aact:AA02961|5end_pyrroline-5-carboxylate_reductase_2070785..2071015_POSITIVE 239 99 59 82 49 aact:AA01344|5end_magnesium_and_cobalt_transport_protein_911661..911891_POSITIVE 239 72 36 171 141 aact:AA00805|5end_fumarate_reductase_iron-sulfur_protein_551583..551813_POSITIVE 232 86 49 169 127 aact:AA01451|5end_D-xylulokinase_971935..972165_POSITIVE 232 86 49 94 52 aact:AA01450|5end_hypothetical_protein_971860..972090_POSITIVE 229 86 41 202 160 aact:AA01355|5end_large_subunit_pseudouridylate_synthase_D_917228..917458_POSITIVE 226 87 42 112 59 aact:AA00347|5end_50S_ribosomal_protein_L11_232137..232367_POSITIVE 215 109 72 187 148 aact:AA01136|5end_hypothetical_protein_778285..778515_POSITIVE 211 67 38 202 181 aact:AA02052|5end_probable_exodeoxyribonuclease_VII_small_subunit_1398461..1398691_POSITIVE 211 75 33 105 58 aact:AA00158|5end_ampD_signalling_protein_(N-acetylmuramyl-L-alanine_amidase)_112232..112462_POSITIVE 208 106 61 190 136 aact:AA00782|5end_conserved_hypothetical_protein_538723..538953_POSITIVE 208 88 42 81 26 aact:AA00447|5end_conserved_hypothetical_protein_311482..311712_POSITIVE 204 90 44 76 18 aact:AA00663|5end_cystathionine_beta-lyase_455540..455770_POSITIVE 204 75 39 72 39 aact:AA00163|5end_type_IV_prepilin_peptidase;_type_II_secretion_pathway_related_protein_116006..116236_POSITIVE 201 89 41 202 152 aact:AA00936|5end_ribose_ABC_transporter,_permease_protein,_C-terminal_646289..646519_POSITIVE 201 81 54 121 95 aact:AA00574|5end_regulatory_protein_392113..392343_POSITIVE 200 70 36 157 121 aact:AA02999|5end_conserved_hypothetical_protein_2094275..2094505_POSITIVE 200 89 45 161 120 aact:AA02135|5end_hypothetical_protein_1458886..1459116_POSITIVE 200 89 45 87 46 aact:AA02135.1|5end_hypothetical_protein_1458812..1459042_POSITIVE 199 87 47 108 70 aact:AA01874|5end_conserved_hypothetical_protein_1262036..1262266_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 220 77 36 55 11 aact:AA02954|3end_penicillin_tolerance_protein;_hydroxymethylbutenyl_pyrophosphate_reductase_2066631..2066781_POSITIVE 211 75 33 117 70 aact:AA00157|3end_hypothetical_protein_112324..112474_POSITIVE 208 88 42 85 30 aact:AA00446|3end_transposase_311566..311716_POSITIVE 207 68 27 73 31 aact:AA01272|3end_hypothetical_protein_864211..864361_POSITIVE 204 75 39 72 39 aact:AA00162|3end_pilin_C_biogenesis_protein/protein_transport_protein_116086..116236_POSITIVE 201 119 75 144 103 aact:AA02480|3end_excinuclease_ABC_subunit_B_1718442..1718592_POSITIVE 200 119 79 129 95 aact:AA02783|3end_hypothetical_protein_1949078..1949228_POSITIVE 200 89 45 62 21 aact:AA02134|3end_aminopeptidase_N_1458867..1459017_POSITIVE 196 87 41 52 7 aact:AA02253|3end_hypothetical_protein_1534786..1534936_POSITIVE 193 86 43 119 69 aact:AA01056|3end_conserved_hypothetical_protein_734168..734318_POSITIVE 193 56 15 83 45 aact:AA00610|3end_UDP-3-O-[3-hydroxymyristoyl]_glucosamine_N-acetyltransferase_417349..417499_POSITIVE 193 65 35 46 13 aact:AA00451|3end_hypothetical_protein_315348..315498_POSITIVE 192 106 84 55 36 aact:AA01164|3end_conserved_hypothetical_protein_(possible_integral_membrane_protein)_798148..798298_POSITIVE 192 68 40 146 110 aact:AA00935|3end_ribose_ABC_transporter,_permease_protein,_N-terminal_646328..646478_POSITIVE 191 69 36 151 116 aact:AA02998|3end_conserved_hypothetical_protein_2094350..2094500_POSITIVE 191 60 14 150 104 aact:AA01401|3end_3-deoxy-D-manno-octulosonic-acid_transferase_947525..947675_POSITIVE 188 120 84 72 32 aact:AA02393|3end_conserved_hypothetical_protein;_possible_sulfate_transporter_1644262..1644412_POSITIVE 186 110 61 91 28 aact:AA00713|3end_chaperone_protein_hscA,_heat_shock_cognate_66_490697..490847_POSITIVE 185 110 84 32 6 aact:AA00795|3end_iron(III)_dicitrate-binding_periplasmic_protein_precursor_545763..545913_POSITIVE 184 93 56 72 34 aact:AA01170|3end_hypothetical_protein_802639..802789_POSITIVE