Origin IGS: taaaaatcagagaaaaagacaatttgaaaggtttatttttacgcattattgcgggcttatgcctattgttatgggcaattgatatggtatttccgtggcagcaaatt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aatttgctgccacggaaataccatatcaattgcccataacaataggcataagcccgcaataatgcgtaaaaataaacctttcaaattgtctttttctctgattttta Mask Tandem Repeat Region ================================================ taaaaatcagagaaaaagacaatttgaaaggtttatttttacgcattattgcgggcttatgcctattgttatgggcaattgatatggtatttccgtggcagcaaatt Find is-nt database================================================ Query_seq: AA00076:AA00077|AA00076:AA00077:dihydroneopterin aldolase:conserved hypothetical protein (possible periplasmic binding transport protein):->->:56144..56250 107 taaaaatcagagaaaaagacaatttgaaaggtttatttttacgcattattgcgggcttatgcctattgttatgggcaattgatatggtatttccgtggcagcaaatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA00076:AA00077|AA00076:AA00077:dihydroneopterin aldolase:conserved hypothetical protein (possible periplasmic binding transport protein):->->:56144..56250 107 taaaaatcagagaaaaagacaatttgaaaggtttatttttacgcattattgcgggcttatgcctattgttatgggcaattgatatggtatttccgtggcagcaaatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA00076:AA00077|AA00076:AA00077:dihydroneopterin aldolase:conserved hypothetical protein (possible periplasmic binding transport protein):->->:56144..56250 107 taaaaatcagagaaaaagacaatttgaaaggtttatttttacgcattattgcgggcttatgcctattgttatgggcaattgatatggtatttccgtggcagcaaatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taaaaatcagagaaaaagacaatttgaaaggtttatttttacgcattattgcgggcttatgcctattgttatgggcaattgatatggtatttccgtggcagcaaatt Predict ORF larger than 30AA ================================================ Protein_Len: 34 Strand: + Start: 6 End: 107 ..... M R E K D N L K G L F L R I I A G L C L L L W A I D M V F P W Q Q I Protein_Len: 35 Strand: - Start: 2 End: 106 . F I L S F S L K F P K N K R M I A P K H R N N H A I S I T N G H C C M . taaaaatcagagaaaaagacaatttgaaaggtttatttttacgcattattgcgggcttatgcctattgttatgggcaattgatatggtatttccgtggcagcaaatt 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================================================ taaaaatcagagaaaaagacaatttgaaaggtttatttttacgcattattgcgggcttatgcctattgttatgggcaattgatatggtatttccgtggcagcaaatt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: AA00076:AA00077|AA00076:AA00077:dihydroneopterin aldolase:conserved hypothetical protein (possible periplasmic binding transport protein):->->:56144..56250 107 taaaaatcagagaaaaagacaatttgaaaggtttatttttacgcattattgcgggcttatgcctattgttatgggcaattgatatggtatttccgtggcagcaaatt Intra-Species Hit: Count: 1 Min: 1 Max: 107 Len: 107 Subject: aact_AA00076_AA00077|dihydroneopterin aldolase:conserved hypothetical protein (possible periplasmic binding transport protein)|POSITIVE:POSITIVE|[56144,56250]|107 HSP 1 e-value: 2.0E-54 bit: 212.0 Len: 107 Query Start:1 Query End:107 Subject Strand: POSITIVE Subject Start: 1 Subject End: 107 taaaaatcagagaaaaagacaatttgaaaggtttatttttacgcattattgcgggcttatgcctattgttatgggcaattgatatggtatttccgtggcagcaaatt taaaaatcagagaaaaagacaatttgaaaggtttatttttacgcattattgcgggcttatgcctattgttatgggcaattgatatggtatttccgtggcagcaaatt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAAAUCAGAGAAAAAGACAAUUUGAAAGGUUUAUUUUUACGCAUUAUUGCGGGCUUAUGCCUAUUGUUAUGGGCAAUUGAUAUGGUAUUUCCGUGGCAGCAAAUU ......(((((...........)))))..............((((....)))).(((..(((((((....))))))).....(((((.....)))))..)))..... (-21.60) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAUUUGCUGCCACGGAAAUACCAUAUCAAUUGCCCAUAACAAUAGGCAUAAGCCCGCAAUAAUGCGUAAAAAUAAACCUUUCAAAUUGUCUUUUUCUCUGAUUUUUA ((((((.((((..((.....))......((((.......)))).))))......((((....))))...............)))))).................... (-12.10) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 366 100 51 200 148 aact:AA01526|5end_amino_acid_ABC_transporter,_periplasmic_amino_acid-binding_protein_1024983..1025213_POSITIVE 364 99 60 157 109 aact:AA02827|5end_conserved_hypothetical_protein_1987021..1987251_POSITIVE 323 99 53 151 111 aact:AA01068|5end_hypothetical_protein_739669..739899_POSITIVE 319 99 51 94 36 aact:AA00292|5end_dihydrofolate_reductase_201800..202030_POSITIVE 307 100 51 196 135 aact:AA03013|5end_ribonuclease_P_protein_component_2104434..2104664_POSITIVE 307 87 41 71 16 aact:AA00422|5end_LapB_membrane_protein_285528..285758_POSITIVE 299 98 51 230 173 aact:AA02906|5end_hypothetical_protein_2033304..2033534_POSITIVE 297 99 51 75 5 aact:AA02666|5end_DNA_helicase_II_1854410..1854640_POSITIVE 296 76 40 82 45 aact:AA01873|5end_mannose-6-phosphate_isomerase_1260658..1260888_POSITIVE 295 99 51 211 168 aact:AA02976|5end_UDP-2,3-diacylglucosamine_hydrolase_2080229..2080459_POSITIVE 294 90 41 75 20 aact:AA01551|5end_hypothetical_protein_1038190..1038420_POSITIVE 290 99 51 84 39 aact:AA01473|5end_type_I_restriction-modification_system_S_(specificity_subunit)_989025..989255_POSITIVE 287 100 51 194 143 aact:AA00953|5end_uroporphyrinogen_III_methylase_658831..659061_POSITIVE 286 99 59 210 164 aact:AA01432|5end_lysophospholipase_L2_960715..960945_POSITIVE 284 77 32 77 18 aact:AA01774|5end_5,10-methylenetetrahydrofolate_reductase_1195015..1195245_POSITIVE 280 100 51 224 172 aact:AA01760|5end_hydrogenase_isoenzymes_formation_protein_1189787..1190017_POSITIVE 279 100 51 83 14 aact:AA01438|5end_conserved_hypothetical_protein_(possible_ribonuclease_)_965401..965631_POSITIVE 279 96 51 229 191 aact:AA00894|5end_selenium_transferase_(Cysteinyl-tRNA(Sec)_selenium_transferase)_619879..620109_POSITIVE 279 87 42 164 112 aact:AA00381|5end_ornithine_carbamoyltransferase_257470..257700_POSITIVE 276 88 45 178 137 aact:AA01959|5end_tetraacyldisaccharide_4'-kinase_1323412..1323642_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 323 99 53 99 59 aact:AA01067|3end_30S_ribosomal_protein_S2_739697..739847_POSITIVE 319 99 51 119 61 aact:AA00291|3end_hypothetical_protein_201905..202055_POSITIVE 294 90 41 97 42 aact:AA01550|3end_hypothetical_protein_1038292..1038442_POSITIVE 290 99 51 137 92 aact:AA01472|3end_hypothetical_protein_989158..989308_POSITIVE 284 77 32 94 35 aact:AA01773|3end_hypothetical_protein_1195112..1195262_POSITIVE 281 59 15 138 94 aact:AA01654|3end_periplasmic_maltose-binding_protein_precursor_1121163..1121313_POSITIVE 279 87 42 151 99 aact:AA00380|3end_carbamate_kinase_257537..257687_POSITIVE 273 99 51 64 15 aact:AA00686|3end_hypothetical_protein_469219..469369_POSITIVE 271 76 36 131 85 aact:AA02195|3end_oxaloacetate_decarboxylase_alpha_chain_1496374..1496524_POSITIVE 270 81 41 37 2 aact:AA00550|3end_ferredoxin-type_protein_377201..377351_POSITIVE 268 74 41 147 117 aact:AA00087|3end_possible_hydrolase_(alpha/beta_fold_family)_66022..66172_POSITIVE 267 82 43 139 107 aact:AA02417|3end_GTP-binding_protein_1660978..1661128_POSITIVE 267 100 51 86 34 aact:AA01299|3end_competence_protein_C_881502..881652_POSITIVE 265 99 51 73 23 aact:AA02324|3end_ABC_transporter_ATP_binding_protein_1587392..1587542_POSITIVE 261 99 54 53 12 aact:AA02454|3end_ATP-dependent_helicase_1694433..1694583_POSITIVE 260 88 41 142 93 aact:AA00218|3end_argininosuccinate_lyase_152211..152361_POSITIVE 257 96 51 88 28 aact:AA01141|3end_conserved_hypothetical_protein_(possible_component_of_anaerobic_dehydrogenase/oxidoreductase)_783188..783338_POSITIVE 256 88 41 148 105 aact:AA00539|3end_ADP-L-glycero-D-manno-heptose-6-epimerase_370047..370197_POSITIVE 254 64 22 141 99 aact:AA02305|3end_guanosine-3',5'-bis(diphosphate)3'-_pyrophosphohydrolase_1576978..1577128_POSITIVE 254 97 51 99 55 aact:AA01428|3end_acetolactate_synthase_959625..959775_POSITIVE