Origin IGS: tagaatccgcaccctatccattatgggtaggttcgtcccgcaagggtggttttttaatttaacggagcactaatatgatccaagaacagactatgctggatgttgctgataactcaggggctcgtagcgta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tacgctacgagcccctgagttatcagcaacatccagcatagtctgttcttggatcatattagtgctccgttaaattaaaaaaccacccttgcgggacgaacctacccataatggatagggtgcggattcta Mask Tandem Repeat Region ================================================ tagaatccgcaccctatccattatgggtaggttcgtcccgcaagggtggttttttaatttaacggagcactaatatgatccaagaacagactatgctggatgttgctgataactcaggggctcgtagcgta Find is-nt database================================================ Query_seq: AA01227:AA01228|AA01227:AA01228:hypothetical protein:50S ribosomal protein L14:->->:838906..839036 131 tagaatccgcaccctatccattatgggtaggttcgtcccgcaagggtggttttttaatttaacggagcactaatatgatccaagaacagactatgctggatgttgctgataactcaggggctcgtagcgta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA01227:AA01228|AA01227:AA01228:hypothetical protein:50S ribosomal protein L14:->->:838906..839036 131 tagaatccgcaccctatccattatgggtaggttcgtcccgcaagggtggttttttaatttaacggagcactaatatgatccaagaacagactatgctggatgttgctgataactcaggggctcgtagcgta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA01227:AA01228|AA01227:AA01228:hypothetical protein:50S ribosomal protein L14:->->:838906..839036 131 tagaatccgcaccctatccattatgggtaggttcgtcccgcaagggtggttttttaatttaacggagcactaatatgatccaagaacagactatgctggatgttgctgataactcaggggctcgtagcgta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tagaatccgcaccctatccattatgggtaggttcgtcccgcaagggtggttttttaatttaacggagcactaatatgatccaagaacagactatgctggatgttgctgataactcaggggctcgtagcgta Predict ORF larger than 30AA ================================================ tagaatccgcaccctatccattatgggtaggttcgtcccgcaagggtggttttttaatttaacggagcactaatatgatccaagaacagactatgctggatgttgctgataactcaggggctcgtagcgta 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================================================ tagaatccgcaccctatccattatgggtaggttcgtcccgcaagggtggttttttaatttaacggagcactaatatgatccaagaacagactatgctggatgttgctgataactcaggggctcgtagcgta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: AA01227:AA01228|AA01227:AA01228:hypothetical protein:50S ribosomal protein L14:->->:838906..839036 131 tagaatccgcaccctatccattatgggtaggttcgtcccgcaagggtggttttttaatttaacggagcactaatatgatccaagaacagactatgctggatgttgctgataactcaggggctcgtagcgta Intra-Species Hit: Count: 1 Min: 1 Max: 131 Len: 131 Subject: aact_AA01227_AA01228|hypothetical protein:50S ribosomal protein L14|POSITIVE:POSITIVE|[838906,839036]|131 HSP 1 e-value: 1.0E-68 bit: 260.0 Len: 131 Query Start:1 Query End:131 Subject Strand: POSITIVE Subject Start: 1 Subject End: 131 tagaatccgcaccctatccattatgggtaggttcgtcccgcaagggtggttttttaatttaacggagcactaatatgatccaagaacagactatgctggatgttgctgataactcaggggctcgtagcgta tagaatccgcaccctatccattatgggtaggttcgtcccgcaagggtggttttttaatttaacggagcactaatatgatccaagaacagactatgctggatgttgctgataactcaggggctcgtagcgta Inter-species Hit: Count: 2 Min: 28 Max: 131 Len: 104 Subject: NC_009053_APL_1769_APL_1770|30S ribosomal protein S17:50S ribosomal protein L24|POSITIVE:POSITIVE|[2001740,2002360]|621 HSP 1 e-value: 5.0E-43 bit: 174.0 Len: 100 Query Start:32 Query End:131 Subject Strand: POSITIVE Subject Start: 198 Subject End: 296 ...............................ttcgtcccgcaagggtggttttttaatttaacggagcactaatatgatccaagaacagactatgctggatgttgctgataactcaggggctcgtagcgta ...............................ttcgtcccgaaagggtg-ttttttaatttaacggagcactaatatgatccaagaacagactatgctggatgttgctgataactcaggggctcgtagcgta Subject: NC_006300_MS2037_MS2038|50S ribosomal protein L24:hypothetical protein|NEGATIVE:NEGATIVE|[2000930,2001392]|463 HSP 1 e-value: 2.0E-33 bit: 143.0 Len: 104 Query Start:28 Query End:131 Subject Strand: NEGATIVE Subject Start: 331 Subject End: 434 ...........................taggttcgtcccgcaagggtggttttttaatttaacggagcactaatatgatccaagaacagactatgctggatgttgctgataactcaggggctcgtagcgta ...........................taggttcgtcccgaaagggtgtattattaacttaacggagcactaatatgatccaagaacagactatgctggatgttgctgataattcaggcgctcgcagcgta Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGGUUCGUCCCGCAAGGGUGGUUUUUUAAUUUAACGGAGCACUAAUAUGAUCCAAGAACAGACUAUGCUGGAUGUUGCUGAUAACUCAGGGGCUCGUAGCGUA ...((((..(((....))).................(((.((......)).)))..))))....(((((((((.(((.((((....)))).))))).))))))) (-29.30) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UACGCUACGAGCCCCUGAGUUAUCAGCAACAUCCAGCAUAGUCUGUUCUUGGAUCAUAUUAGUGCUCCGUUAAAUUAAAAAACCACCCUUGCGGGACGAACCUA ...(((..((....((((....)))).....)).))).......((((..(((.(((....))).))).................(((....)))..))))... (-18.40) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 303 98 60 206 165 aact:AA00175|5end_cell_filamentation_protein_123922..124152_POSITIVE 302 100 51 46 2 aact:AA01165|5end_conserved_hypothetical_protein_798133..798363_POSITIVE 297 97 54 189 150 aact:AA00164|5end_dephospho-CoA_kinase_(dephosphocoenzyme_A_kinase)_116745..116975_POSITIVE 294 99 54 223 169 aact:AA00552|5end_periplasmic_nitrate_reductase_precursor_377331..377561_POSITIVE 294 99 54 117 63 aact:AA00551|5end_hypothetical_protein_377225..377455_POSITIVE 293 38 1 142 99 aact:AA00194|5end_oxygen-independent_coproporphyrinogen_III_oxidase_135545..135775_POSITIVE 285 98 63 87 50 aact:AA02536|5end_conserved_hypothetical_protein_1764854..1765084_POSITIVE 273 97 53 40 7 aact:AA02678|5end_formate_dehydrogenase,_gamma_subunit_1865021..1865251_POSITIVE 269 100 53 83 32 aact:AA02500|5end_conserved_hypothetical_protein_1734611..1734841_POSITIVE 268 23 1 221 197 aact:AA02990|5end_beta_hexosaminadase_2089473..2089703_POSITIVE 267 98 52 74 24 aact:AA02218|5end_deoxyribose-phosphate_aldolase_(fragment?)_1509758..1509988_POSITIVE 266 54 11 224 181 aact:AA02699|5end_formate_dehydrogenase_H,_selenopolypeptide_subunit_1881397..1881627_POSITIVE 266 42 1 156 103 aact:AA01116|5end_hypothetical_protein_767629..767859_POSITIVE 265 99 52 142 85 aact:AA01389|5end_hypothetical_protein_936956..937186_POSITIVE 264 97 55 51 8 aact:AA02961|5end_pyrroline-5-carboxylate_reductase_2070785..2071015_POSITIVE 263 98 53 170 133 aact:AA02687|5end_hydrogenase-4_component_D_1872521..1872751_POSITIVE 261 57 12 149 97 aact:AA00570|5end_hypothetical_protein_391613..391843_POSITIVE 259 95 51 109 59 aact:AA00308|5end_glycerol-3-phosphate_regulon_repressor_208337..208567_POSITIVE 258 23 1 224 198 aact:AA00543|5end_ADP-heptose--LPS_heptosyltransferase_II_371287..371517_POSITIVE 257 97 53 220 168 aact:AA02703|5end_hypothetical_protein_1885365..1885595_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 300 100 51 148 100 aact:AA01423|3end_cell_division_protein_X,_ABC_system_permease_957680..957830_POSITIVE 297 97 54 136 97 aact:AA00163|3end_type_IV_prepilin_peptidase;_type_II_secretion_pathway_related_protein_116772..116922_POSITIVE 293 38 1 62 19 aact:AA00191|3end_conserved_hypothetical_protein_(possible_acetyltransferase,_GNAT_family)_135545..135695_POSITIVE 273 97 53 44 11 aact:AA02677|3end_formate_dehydrogenase,_beta_subunit_1865105..1865255_POSITIVE 267 98 52 71 21 aact:AA02217|3end_deoxyribose-phosphate_aldolase_1509835..1509985_POSITIVE 265 99 52 90 33 aact:AA01388|3end_30S_ribosomal_protein_S6_936984..937134_POSITIVE 260 86 41 144 109 aact:AA02686|3end_hydrogenase_4_component_C_1872585..1872735_POSITIVE 252 97 52 64 17 aact:AA00974|3end_glucosamine-fructose-6-phosphate_681127..681277_POSITIVE 250 97 70 57 31 aact:AA02536|3end_conserved_hypothetical_protein_1765263..1765413_POSITIVE 249 42 3 139 93 aact:AA00190|3end_triosephosphate_isomerase_134932..135082_POSITIVE 249 94 55 138 90 aact:AA00160|3end_pilA-like_biogenesis_protein_/_prepilin_peptidase_dependent_proteinD_113434..113584_POSITIVE 249 50 2 71 18 aact:AA00141|3end_hypoxanthine_phosphoribosyl_transferase_(HPRT)_101313..101463_POSITIVE 248 99 60 131 96 aact:AA01242|3end_DNA-directed_RNA_polymerase_alpha_subunit_847009..847159_POSITIVE 245 50 3 93 27 aact:AA02219|3end_LACI-type_transcriptional_regulator_1511207..1511357_POSITIVE 241 49 3 82 32 aact:AA02101|3end_penicillin-binding_protein_7_1431188..1431338_POSITIVE 240 97 59 51 8 aact:AA00541|3end_conserved_hypothetical_protein_371344..371494_POSITIVE 239 43 10 141 108 aact:AA01810|3end_electron_transport_complex_protein_1220406..1220556_POSITIVE 238 94 51 58 16 aact:AA00985|3end_transcriptional_regulator_(LysR_family)_689741..689891_POSITIVE 238 40 2 89 54 aact:AA00449|3end_conserved_hypothetical_protein_313909..314059_POSITIVE 237 79 37 68 23 aact:AA00846|3end_cell_division_protein_L_585037..585187_POSITIVE