Origin IGS: ttttctgcaatccttattttttagtgaaaaataataatgcgcgccatcttacacaaaaaaatccatagaagcaaacttattttaaaataaaaaataagataccgaaaaaagtaacaacttagattggggtaataagaaaaatcatgtaatgtacgaaaaatccaccgagttagttctcatagaaaaacaactttatttttgaccgcacttttta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taaaaagtgcggtcaaaaataaagttgtttttctatgagaactaactcggtggatttttcgtacattacatgatttttcttattaccccaatctaagttgttacttttttcggtatcttattttttattttaaaataagtttgcttctatggatttttttgtgtaagatggcgcgcattattatttttcactaaaaaataaggattgcagaaaa Mask Tandem Repeat Region ================================================ ttttctgcaatccttattttttagtgaaaaataataatgcgcgccatcttacacaaaaaaatccatagaagcaaacttattttaaaataaaaaataagataccgaaaaaagtaacaacttagattggggtaataagaaaaatcatgtaatgtacgaaaaatccaccgagttagttctcatagaaaaacaactttatttttgaccgcacttttta Find is-nt database================================================ Query_seq: AA02904:AA02905|AA02904:AA02905:50S ribosomal protein L31:conserved hypothetical protein:->->:2032694..2032907 214 ttttctgcaatccttattttttagtgaaaaataataatgcgcgccatcttacacaaaaaaatccatagaagcaaacttattttaaaataaaaaataagataccgaaaaaagtaacaacttagattggggtaataagaaaaatcatgtaatgtacgaaaaatccaccgagttagttctcatagaaaaacaactttatttttgaccgcacttttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA02904:AA02905|AA02904:AA02905:50S ribosomal protein L31:conserved hypothetical protein:->->:2032694..2032907 214 ttttctgcaatccttattttttagtgaaaaataataatgcgcgccatcttacacaaaaaaatccatagaagcaaacttattttaaaataaaaaataagataccgaaaaaagtaacaacttagattggggtaataagaaaaatcatgtaatgtacgaaaaatccaccgagttagttctcatagaaaaacaactttatttttgaccgcacttttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA02904:AA02905|AA02904:AA02905:50S ribosomal protein L31:conserved hypothetical protein:->->:2032694..2032907 214 ttttctgcaatccttattttttagtgaaaaataataatgcgcgccatcttacacaaaaaaatccatagaagcaaacttattttaaaataaaaaataagataccgaaaaaagtaacaacttagattggggtaataagaaaaatcatgtaatgtacgaaaaatccaccgagttagttctcatagaaaaacaactttatttttgaccgcacttttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ttttctgcaatccttattttttagtgaaaaataataatgcgcgccatcttacacaaaaaaatccatagaagcaaacttattttaaaataaaaaataagataccgaaaaaagtaacaacttagattggggtaataagaaaaatcatgtaatgtacgaaaaatccaccgagttagttctcatagaaaaacaactttatttttgaccgcacttttta Predict ORF larger than 30AA ================================================ Protein_Len: 46 Strand: - Start: 24 End: 161 ....................... H F I I I R A M K C L F I W L L L S I K F Y F I L Y R F F Y C S L N P Y Y S F D H L T R F M ..................................................... ttttctgcaatccttattttttagtgaaaaataataatgcgcgccatcttacacaaaaaaatccatagaagcaaacttattttaaaataaaaaataagataccgaaaaaagtaacaacttagattggggtaataagaaaaatcatgtaatgtacgaaaaatccaccgagttagttctcatagaaaaacaactttatttttgaccgcacttttta 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: 46 End: 75 .............................................TTTGCTTCTATGGATTTTTTTGTGTAAGAT........................................................................................................................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ ttttctgcaatccttattttttagtgaaaaataataatgcgcgccatcttacacaaaaaaatccatagaagcaaacttattttaaaataaaaaataagataccgaaaaaagtaacaacttagattggggtaataagaaaaatcatgtaatgtacgaaaaatccaccgagttagttctcatagaaaaacaactttatttttgaccgcacttttta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: AA02904:AA02905|AA02904:AA02905:50S ribosomal protein L31:conserved hypothetical protein:->->:2032694..2032907 214 ttttctgcaatccttattttttagtgaaaaataataatgcgcgccatcttacacaaaaaaatccatagaagcaaacttattttaaaataaaaaataagataccgaaaaaagtaacaacttagattggggtaataagaaaaatcatgtaatgtacgaaaaatccaccgagttagttctcatagaaaaacaactttatttttgaccgcacttttta Intra-Species Hit: Count: 1 Min: 1 Max: 214 Len: 214 Subject: aact_AA02904_AA02905|50S ribosomal protein L31:conserved hypothetical protein|POSITIVE:POSITIVE|[2032694,2032907]|214 HSP 1 e-value: 2.0E-52 bit: 206.0 Len: 104 Query Start:111 Query End:214 Subject Strand: POSITIVE Subject Start: 111 Subject End: 214 ..............................................................................................................gtaacaacttagattggggtaataagaaaaatcatgtaatgtacgaaaaatccaccgagttagttctcatagaaaaacaactttatttttgaccgcacttttta ..............................................................................................................gtaacaacttagattggggtaataagaaaaatcatgtaatgtacgaaaaatccaccgagttagttctcatagaaaaacaactttatttttgaccgcacttttta HSP 2 e-value: 2.0E-22 bit: 107.0 Len: 54 Query Start:1 Query End:54 Subject Strand: POSITIVE Subject Start: 1 Subject End: 54 ttttctgcaatccttattttttagtgaaaaataataatgcgcgccatcttacac................................................................................................................................................................ ttttctgcaatccttattttttagtgaaaaataataatgcgcgccatcttacac................................................................................................................................................................ Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUUCUGCAAUCCUUAUUUUUUAGUGAAAAAUAAUAAUGCGCGCCAUCUUACACAAAAAAAUCCAUAGAAGCAAACUUAUUUUAAAAUAAAAAAUAAGAUACCGAAAAAAGUAACAACUUAGAUUGGGGUAAUAAGAAAAAUCAUGUAAUGUACGAAAAAUCCACCGAGUUAGUUCUCAUAGAAAAACAACUUUAUUUUUGACCGCACUUUUUA (((((((((...(((((((((((....(((((((...(((..............................)))...)))))))....)))))))))))...((((...((((....))))...))))......................)))).))))).......(((......))).................................... (-25.01) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAAAGUGCGGUCAAAAAUAAAGUUGUUUUUCUAUGAGAACUAACUCGGUGGAUUUUUCGUACAUUACAUGAUUUUUCUUAUUACCCCAAUCUAAGUUGUUACUUUUUUCGGUAUCUUAUUUUUUAUUUUAAAAUAAGUUUGCUUCUAUGGAUUUUUUUGUGUAAGAUGGCGCGCAUUAUUAUUUUUCACUAAAAAAUAAGGAUUGCAGAAAA ......((((((......((..((((((((((....)))))).))))..)).......))))))..........((((((...((((.......((((....)))).....)))).(((((((((((....(((((((...(((.((....)).......((((......)))))))...)))))))....)))))))))))......)))))) (-35.22) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 301 210 161 132 72 aact:AA02710|5end_conserved_hypothetical_protein_1890642..1890872_POSITIVE 296 210 167 192 151 aact:AA00460|5end_ATP-dependent_ClpY-related_protease;_heat_shock_protein_321023..321253_POSITIVE 293 210 183 200 173 aact:AA00990|5end_conserved_hypothetical_protein_692559..692789_POSITIVE 290 210 170 132 95 aact:AA02047|5end_galactitol-1-phosphate_5-dehydrogenase_1393633..1393863_POSITIVE 282 210 164 180 129 aact:AA01251|5end_hypothetical_protein_851825..852055_POSITIVE 278 210 167 131 88 aact:AA01554|5end_conserved_hypothetical_protein;_hypothetical_membrane_protein_1042061..1042291_POSITIVE 275 210 179 169 136 aact:AA02486|5end_topoisomerase_IV,_subunit_B_1724337..1724567_POSITIVE 269 210 181 134 105 aact:AA02999|5end_conserved_hypothetical_protein_2094275..2094505_POSITIVE 268 210 167 155 113 aact:AA01559|5end_RecA_regulatory_protein,_RecX_1045970..1046200_POSITIVE 267 210 162 53 1 aact:AA00697|5end_hypothetical_protein_476999..477229_POSITIVE 263 210 165 109 72 aact:AA01563|5end_transketolase_isozyme_1_1046969..1047199_POSITIVE 262 210 171 214 178 aact:AA02479|5end_outer_membrane_protein_34_1715134..1715364_POSITIVE 259 210 173 207 173 aact:AA01349|5end_NAD(P)H_nitroreductase/H-flavin_oxidoreductase_913619..913849_POSITIVE 259 210 173 82 48 aact:AA01348|5end_hypothetical_protein_913494..913724_POSITIVE 254 210 173 169 133 aact:AA01374|5end_tRNA/rRNA_methyltransferase_930283..930513_POSITIVE 252 45 3 132 97 aact:AA02504|5end_lipid_A_biosynthesis_(kdo)2-(lauroyl)-lipid_IVA_acyltransferase_1738215..1738445_POSITIVE 252 210 177 153 123 aact:AA02113|5end_conserved_hypothetical_protein_1442183..1442413_POSITIVE 249 210 180 161 131 aact:AA02128|5end_DNA_topoisomerase_I_1451395..1451625_POSITIVE 245 209 161 170 124 aact:AA00997|5end_response_regulatory_protein_697788..698018_POSITIVE 241 210 161 187 137 aact:AA00112|5end_uracil_permease_79909..80139_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 290 210 170 106 69 aact:AA02046|3end_PTS_system_galactitol-specific_enzyme_IIC_1393687..1393837_POSITIVE 282 210 164 55 4 aact:AA01250|3end_nadAB_transcriptional_regulator_851780..851930_POSITIVE 272 210 161 135 80 aact:AA00528|3end_conserved_hypothetical_protein_361703..361853_POSITIVE 269 210 181 129 100 aact:AA02998|3end_conserved_hypothetical_protein_2094350..2094500_POSITIVE 268 210 167 70 28 aact:AA01557|3end_recombinase_A_1045965..1046115_POSITIVE 267 210 167 51 6 aact:AA02708|3end_probable_glyoxalase_II_family_protein_1890641..1890791_POSITIVE 267 210 162 148 96 aact:AA00697|3end_hypothetical_protein_477174..477324_POSITIVE 267 210 162 80 28 aact:AA00696|3end_iron(III)_ABC_transporter,_periplasmic_iron-compound-binding_protein_477106..477256_POSITIVE 259 210 173 87 53 aact:AA01347|3end_conserved_hypothetical_protein_913579..913729_POSITIVE 252 45 3 107 72 aact:AA02502|3end_adenine_phosphoribosyltransferase_1738270..1738420_POSITIVE 252 210 177 74 44 aact:AA02112|3end_cell_division_protein_1442184..1442334_POSITIVE 249 210 180 70 40 aact:AA02126|3end_conserved_hypothetical_protein_1451384..1451534_POSITIVE 242 48 5 44 3 aact:AA02954|3end_penicillin_tolerance_protein;_hydroxymethylbutenyl_pyrophosphate_reductase_2066631..2066781_POSITIVE 240 210 173 82 48 aact:AA02443|3end_cytochrome_C_related_protein_1686590..1686740_POSITIVE 240 210 173 127 93 aact:AA02444|3end_hypothetical_protein_1686635..1686785_POSITIVE 240 48 4 106 68 aact:AA01660|3end_hypothetical_protein_1125282..1125432_POSITIVE 240 210 161 146 94 aact:AA01068|3end_hypothetical_protein_739850..740000_POSITIVE 238 210 181 31 4 aact:AA01561|3end_conserved_hypothetical_protein_1046971..1047121_POSITIVE 232 210 165 80 27 aact:AA02899|3end_oligopeptide_ABC_transporter,_ATP-binding_protein_2031138..2031288_POSITIVE 232 80 36 104 34 aact:AA00473|3end_tryptophanyl-tRNA_synthetase_330077..330227_POSITIVE