Origin IGS: taatttaaaaatttaggcgtagcgggcatttttgtattgactatgccctctttttgctttactttttttccttcaaaaaattactttctattaattcaacataacttatttaactcagaaggaaaaaca .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tgtttttccttctgagttaaataagttatgttgaattaatagaaagtaattttttgaaggaaaaaaagtaaagcaaaaagagggcatagtcaatacaaaaatgcccgctacgcctaaatttttaaatta Mask Tandem Repeat Region ================================================ taatttaaaaatttaggcgtagcgggcatttttgtattgactatgccctctttttgctttactttttttccttcaaaaaattactttctattaattcaacataacttatttaactcagaaggaaaaaca Find is-nt database================================================ Query_seq: AA02125:AA02126|AA02125:AA02126:conserved hypothetical protein; possible universal stress protein:conserved hypothetical protein:->->:1450482..1450610 129 taatttaaaaatttaggcgtagcgggcatttttgtattgactatgccctctttttgctttactttttttccttcaaaaaattactttctattaattcaacataacttatttaactcagaaggaaaaaca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA02125:AA02126|AA02125:AA02126:conserved hypothetical protein; possible universal stress protein:conserved hypothetical protein:->->:1450482..1450610 129 taatttaaaaatttaggcgtagcgggcatttttgtattgactatgccctctttttgctttactttttttccttcaaaaaattactttctattaattcaacataacttatttaactcagaaggaaaaaca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA02125:AA02126|AA02125:AA02126:conserved hypothetical protein; possible universal stress protein:conserved hypothetical protein:->->:1450482..1450610 129 taatttaaaaatttaggcgtagcgggcatttttgtattgactatgccctctttttgctttactttttttccttcaaaaaattactttctattaattcaacataacttatttaactcagaaggaaaaaca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taatttaaaaatttaggcgtagcgggcatttttgtattgactatgccctctttttgctttactttttttccttcaaaaaattactttctattaattcaacataacttatttaactcagaaggaaaaaca Predict ORF larger than 30AA ================================================ Protein_Len: 34 Strand: + Start: 28 End: 129 ........................... M F V L T M P S F C F T F F P S K N Y F L L I Q H N L F N S E G K T taatttaaaaatttaggcgtagcgggcatttttgtattgactatgccctctttttgctttactttttttccttcaaaaaattactttctattaattcaacataacttatttaactcagaaggaaaaaca 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: 81 Start: 36 End: 65 ...................................ATTGACTATGCCCTCTTTTTGCTTTACTTT................................................................ Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ taatttaaaaatttaggcgtagcgggcatttttgtattgactatgccctctttttgctttactttttttccttcaaaaaattactttctattaattcaacataacttatttaactcagaaggaaaaaca Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: AA02125:AA02126|AA02125:AA02126:conserved hypothetical protein; possible universal stress protein:conserved hypothetical protein:->->:1450482..1450610 129 taatttaaaaatttaggcgtagcgggcatttttgtattgactatgccctctttttgctttactttttttccttcaaaaaattactttctattaattcaacataacttatttaactcagaaggaaaaaca Intra-Species Hit: Count: 1 Min: 1 Max: 129 Len: 129 Subject: aact_AA02125_AA02126|conserved hypothetical protein; possible universal stress protein:conserved hypothetical protein|POSITIVE:POSITIVE|[1450482,1450610]|129 HSP 1 e-value: 5.0E-55 bit: 214.0 Len: 129 Query Start:1 Query End:129 Subject Strand: POSITIVE Subject Start: 1 Subject End: 129 taatttaaaaatttaggcgtagcgggcatttttgtattgactatgccctctttttgctttacnnnnnnnccttcaaaaaattactttctattaattcaacataacttatttaactcagaaggaaaaaca taatttaaaaatttaggcgtagcgggcatttttgtattgactatgccctctttttgctttactttttttccttcaaaaaattactttctattaattcaacataacttatttaactcagaaggaaaaaca Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUUUAAAAAUUUAGGCGUAGCGGGCAUUUUUGUAUUGACUAUGCCCUCUUUUUGCUUUACUUUUUUUCCUUCAAAAAAUUACUUUCUAUUAAUUCAACAUAACUUAUUUAACUCAGAAGGAAAAACA ..............(((((.((.((((((..((.....))..)))))).))...))))).....((((((((((...........................................)))))))))).. (-23.03) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGUUUUUCCUUCUGAGUUAAAUAAGUUAUGUUGAAUUAAUAGAAAGUAAUUUUUUGAAGGAAAAAAAGUAAAGCAAAAAGAGGGCAUAGUCAAUACAAAAAUGCCCGCUACGCCUAAAUUUUUAAAUUA ..((((((((((.((((((.....((((........))))......))))))...)))))))))).......((....((.((((((.............)))))).))..))................ (-24.22) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 359 58 15 66 26 aact:AA00387|5end_transcription_regulatory_protein_262305..262535_POSITIVE 288 45 18 39 10 aact:AA02371|5end_oxygen-independent_coproporphyrinogen_III_oxidase_1624580..1624810_POSITIVE 284 60 16 48 6 aact:AA01182|5end_3-oxoacyl-(acyl-carrier-protein)_synthase_809210..809440_POSITIVE 282 60 13 203 142 aact:AA00274|5end_50S_ribosomal_protein_L32_192449..192679_POSITIVE 281 60 17 167 116 aact:AA00529|5end_outer_membrane_protein,_Omp_18/16_361730..361960_POSITIVE 275 56 14 41 1 aact:AA00419|5end_conserved_hypothetical_protein_(possible_phosphatidylethanolamine-binding_protein)_284337..284567_POSITIVE 271 58 21 42 1 aact:AA01649|5end_maltose_ABC_transporter,_permease_protein_1117316..1117546_POSITIVE 271 58 17 98 52 aact:AA01071|5end_RNA_methyltransferase_741707..741937_POSITIVE 263 59 18 200 156 aact:AA01857|5end_glutamate-ammonia-ligase_adenylyltransferase_1247347..1247577_POSITIVE 260 59 19 109 75 aact:AA01242|5end_DNA-directed_RNA_polymerase_alpha_subunit_845943..846173_POSITIVE 257 47 15 43 1 aact:AA01296|5end_shikimate_kinase_(shikimic_acid_kinase_I)_878384..878614_POSITIVE 257 60 16 182 136 aact:AA00595|5end_hypothetical_protein_407194..407424_POSITIVE 251 59 16 177 135 aact:AA00207|5end_D-ribose_ABC_transporter,_ATP-binding_protein_/_galactoside_ABC_transporter,_ATP-binding_protein_142592..142822_POSITIVE 250 57 16 101 47 aact:AA01598|5end_conserved_hypothetical_protein_1078954..1079184_POSITIVE 247 59 13 53 6 aact:AA01748|5end_thiol:disulfide_interchange_protein_1183062..1183292_POSITIVE 245 57 12 117 69 aact:AA00467|5end_hypothetical_protein_324565..324795_POSITIVE 244 58 11 183 124 aact:AA00196|5end_conserved_hypothetical_protein_137378..137608_POSITIVE 240 57 16 185 142 aact:AA01197|5end_conserved_hypothetical_protein_820863..821093_POSITIVE 237 59 16 224 167 aact:AA00737|5end_citrate_lyase,_alpha_chain_(citrase)_503564..503794_POSITIVE 235 56 17 80 33 aact:AA01113|5end_transcriptional_regulator_(merR_family)_764900..765130_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 284 60 16 52 10 aact:AA01181|3end_conserved_hypothetical_protein_809294..809444_POSITIVE 281 60 17 60 9 aact:AA00528|3end_conserved_hypothetical_protein_361703..361853_POSITIVE 260 59 19 77 43 aact:AA01241|3end_30S_ribosomal_protein_S4_845991..846141_POSITIVE 245 57 12 72 24 aact:AA00465|3end_hypothetical_protein_324600..324750_POSITIVE 235 56 17 73 26 aact:AA01111|3end_conserved_hypothetical_protein_764973..765123_POSITIVE 232 57 16 151 97 aact:AA00927|3end_ATP-dependent_DNA_helicase_637777..637927_POSITIVE 231 45 19 27 2 aact:AA02369|3end_conserved_hypothetical_protein_1624648..1624798_POSITIVE 227 48 15 77 46 aact:AA02101|3end_penicillin-binding_protein_7_1431188..1431338_POSITIVE 226 58 11 81 36 aact:AA01621|3end_replicative_DNA_helicase_1097130..1097280_POSITIVE 225 60 18 114 71 aact:AA02796|3end_possible_transcriptional_regulator,_RpiR_family_1963917..1964067_POSITIVE 221 57 12 50 1 aact:AA00077|3end_conserved_hypothetical_protein_(possible_periplasmic_binding_transport_protein)_57534..57684_POSITIVE 218 56 12 147 101 aact:AA00143|3end_gluconate_permease_(GntP_family)_103796..103946_POSITIVE 217 47 8 100 57 aact:AA02280|3end_conserved_hypothetical_protein_1552767..1552917_POSITIVE 217 59 12 143 87 aact:AA01985|3end_pyruvate_dehydrogenase,_E1_component_1348801..1348951_POSITIVE 216 57 16 121 78 aact:AA01616|3end_lipoprotein_releasing_system_ATP-binding_protein_1093148..1093298_POSITIVE 216 51 15 60 32 aact:AA00776|3end_conserved_hypothetical_protein_533869..534019_POSITIVE 215 70 22 50 3 aact:AA02564|3end_transketolase_N-terminal_section_1786783..1786933_POSITIVE 215 106 81 90 67 aact:AA01832|3end_formate_dehydrogenase_formation_protein_E_1234603..1234753_POSITIVE 212 48 12 51 10 aact:AA00601|3end_hypothetical_protein_409119..409269_POSITIVE 212 50 16 51 18 aact:AA00573|3end_chloramphenicol-sensitive_protein_RarD_393295..393445_POSITIVE