Origin IGS: ttagcataaattctcggacattcattattattcttaatcttcgcaatccccttattcaggttctcttgtagggtttagcctactttaaaaacgcttagaaaaatcaccgcacttttta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taaaaagtgcggtgatttttctaagcgtttttaaagtaggctaaaccctacaagagaacctgaataaggggattgcgaagattaagaataataatgaatgtccgagaatttatgctaa Mask Tandem Repeat Region ================================================ ttagcataaattctcggacattcattattattcttaatcttcgcaatccccttattcaggttctcttgtagggtttagcctactttaaaaacgcttagaaaaatcaccgcacttttta Find is-nt database================================================ Query_seq: AA00853:AA00854|AA00853:AA00854:hypothetical protein:arginine transport system permease protein:->->:588920..589037 118 ttagcataaattctcggacattcattattattcttaatcttcgcaatccccttattcaggttctcttgtagggtttagcctactttaaaaacgcttagaaaaatcaccgcacttttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA00853:AA00854|AA00853:AA00854:hypothetical protein:arginine transport system permease protein:->->:588920..589037 118 ttagcataaattctcggacattcattattattcttaatcttcgcaatccccttattcaggttctcttgtagggtttagcctactttaaaaacgcttagaaaaatcaccgcacttttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA00853:AA00854|AA00853:AA00854:hypothetical protein:arginine transport system permease protein:->->:588920..589037 118 ttagcataaattctcggacattcattattattcttaatcttcgcaatccccttattcaggttctcttgtagggtttagcctactttaaaaacgcttagaaaaatcaccgcacttttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ttagcataaattctcggacattcattattattcttaatcttcgcaatccccttattcaggttctcttgtagggtttagcctactttaaaaacgcttagaaaaatcaccgcacttttta Predict ORF larger than 30AA ================================================ ttagcataaattctcggacattcattattattcttaatcttcgcaatccccttattcaggttctcttgtagggtttagcctactttaaaaacgcttagaaaaatcaccgcacttttta 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================================================ ttagcataaattctcggacattcattattattcttaatcttcgcaatccccttattcaggttctcttgtagggtttagcctactttaaaaacgcttagaaaaatcaccgcacttttta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: AA00853:AA00854|AA00853:AA00854:hypothetical protein:arginine transport system permease protein:->->:588920..589037 118 ttagcataaattctcggacattcattattattcttaatcttcgcaatccccttattcaggttctcttgtagggtttagcctactttaaaaacgcttagaaaaatcaccgcacttttta Intra-Species Hit: Count: 1 Min: 1 Max: 118 Len: 118 Subject: aact_AA00853_AA00854|hypothetical protein:arginine transport system permease protein|POSITIVE:POSITIVE|[588920,589037]|118 HSP 1 e-value: 5.0E-61 bit: 234.0 Len: 118 Query Start:1 Query End:118 Subject Strand: POSITIVE Subject Start: 1 Subject End: 118 ttagcataaattctcggacattcattattattcttaatcttcgcaatccccttattcaggttctcttgtagggtttagcctactttaaaaacgcttagaaaaatcaccgcacttttta ttagcataaattctcggacattcattattattcttaatcttcgcaatccccttattcaggttctcttgtagggtttagcctactttaaaaacgcttagaaaaatcaccgcacttttta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUAGCAUAAAUUCUCGGACAUUCAUUAUUAUUCUUAAUCUUCGCAAUCCCCUUAUUCAGGUUCUCUUGUAGGGUUUAGCCUACUUUAAAAACGCUUAGAAAAAUCACCGCACUUUUUA ..............(((.........................((.(..((((....((((....)))).))))..).))....(((((......))))).......)))......... (-13.20) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAAAGUGCGGUGAUUUUUCUAAGCGUUUUUAAAGUAGGCUAAACCCUACAAGAGAACCUGAAUAAGGGGAUUGCGAAGAUUAAGAAUAAUAAUGAAUGUCCGAGAAUUUAUGCUAA ........(((.(((.(((((..((.((((((...(((((......)))))..))))))))......(((.(((.((...((((....))))..))))).)))))))).))))))... (-18.90) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 328 110 73 139 108 aact:AA02066|5end_hypothetical_protein_1405115..1405345_POSITIVE 315 110 72 187 150 aact:AA00213|5end_cold_shock_protein_(negative_regulator_of_cspA_transcription)_147071..147301_POSITIVE 312 110 87 172 149 aact:AA02030|5end_threonyl-tRNA_synthetase_1382171..1382401_POSITIVE 304 110 68 229 172 aact:AA01614|5end_D-isomer_specific_2-hydroxyacid_dehydrogenase_family_protein_1089698..1089928_POSITIVE 302 110 73 160 124 aact:AA00250|5end_lipoate_biosynthesis_protein_A_175496..175726_POSITIVE 300 110 71 163 122 aact:AA02597|5end_ribonuclease_D_1807124..1807354_POSITIVE 289 110 61 165 119 aact:AA00451|5end_hypothetical_protein_315068..315298_POSITIVE 286 110 61 199 157 aact:AA00296|5end_conserved_hypothetical_protein_(possible_hemolysin_/_transport_protein)_202384..202614_POSITIVE 286 110 61 82 40 aact:AA00295|5end_hypothetical_protein_202267..202497_POSITIVE 278 110 61 175 134 aact:AA00561|5end_DNA_transformation_protein_384584..384814_POSITIVE 271 73 38 221 172 aact:AA01563|5end_transketolase_isozyme_1_1046969..1047199_POSITIVE 268 110 73 214 182 aact:AA01607|5end_oligopeptide_transporter,_periplasmic-binding_protein_1085644..1085874_POSITIVE 264 110 72 178 136 aact:AA01824|5end_iron(III)_ABC_transporter,_ATP-binding_protein_1227705..1227935_POSITIVE 261 110 63 186 125 aact:AA01635|5end_ribonucleoside_diphosphate_reductase,_beta_chain_1104615..1104845_POSITIVE 259 110 66 195 153 aact:AA02944|5end_30S_ribosomal_protein_S20_2058688..2058918_POSITIVE 257 80 42 105 65 aact:AA01260|5end_hypothetical_protein_855550..855780_POSITIVE 251 94 53 185 153 aact:AA00357|5end_transposase_(probable_IS200-like_)_243334..243564_POSITIVE 250 110 67 42 1 aact:AA02941|5end_hypothetical_protein_2058535..2058765_POSITIVE 250 80 36 54 21 aact:AA00780|5end_monofunctional_biosynthetic_peptidoglycan_transglycosylase_536854..537084_POSITIVE 249 110 75 36 1 aact:AA01823|5end_hypothetical_protein_1227563..1227793_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 315 110 72 83 46 aact:AA00212|3end_ribokinase_147047..147197_POSITIVE 312 110 87 136 113 aact:AA02029|3end_hypothetical_protein_1382215..1382365_POSITIVE 304 110 68 70 13 aact:AA01611|3end_anthranilate_synthase_component_II_1089619..1089769_POSITIVE 300 110 71 69 28 aact:AA02595|3end_cytochrome_c_peroxidase_1807110..1807260_POSITIVE 286 110 61 73 31 aact:AA00292|3end_dihydrofolate_reductase_202338..202488_POSITIVE 278 80 42 76 36 aact:AA01565|3end_conserved_hypothetical_protein_1050967..1051117_POSITIVE 278 110 61 102 61 aact:AA00560|3end_RNA_polymerase_sigma-32_factor_384591..384741_POSITIVE 271 73 38 143 94 aact:AA01561|3end_conserved_hypothetical_protein_1046971..1047121_POSITIVE 268 110 73 144 112 aact:AA01605|3end_hypothetical_protein_1085654..1085804_POSITIVE 264 110 72 140 98 aact:AA01823|3end_hypothetical_protein_1227747..1227897_POSITIVE 264 110 72 64 22 aact:AA01822|3end_lysostaphin_precursor_1227671..1227821_POSITIVE 259 110 66 79 37 aact:AA02940|3end_conserved_hypothetical_protein_2058652..2058802_POSITIVE 251 94 53 53 21 aact:AA00356|3end_DNA-directed_RNA_polymerase,_beta'_chain_243282..243432_POSITIVE 250 80 36 73 40 aact:AA00778|3end_trp_operon_repressor_536953..537103_POSITIVE 249 85 42 58 12 aact:AA01546|3end_deoxyribose_operon_repressor_1036320..1036470_POSITIVE 247 110 66 62 9 aact:AA02440|3end_ABC_transporter,_ATP-binding_protein_1685791..1685941_POSITIVE 247 110 64 114 56 aact:AA00340|3end_NADP(H)_oxidoreductase_(NAD(P)H_dehydrogenase_(quinone))_229425..229575_POSITIVE 244 80 31 72 21 aact:AA02480|3end_excinuclease_ABC_subunit_B_1718442..1718592_POSITIVE 238 110 61 127 73 aact:AA02597|3end_ribonuclease_D_1808358..1808508_POSITIVE 235 79 33 65 9 aact:AA01857|3end_glutamate-ammonia-ligase_adenylyltransferase_1250357..1250507_POSITIVE