Origin IGS: ttcacttcgaatttgtagctcctgtcaagttaatgtggcaggagttttcttaaattagaaagtttaattatgacttgccttgtttgcagtaacaaatggacggtttgtctatcaactctttaagctggtcgagctagacgcttctattagcggaataaaacatcccaaattttgggctttcttaacaactggcggatggcttgatcctctatctcttgaaacggaataaggccattttttcc .........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 ggaaaaaatggccttattccgtttcaagagatagaggatcaagccatccgccagttgttaagaaagcccaaaatttgggatgttttattccgctaatagaagcgtctagctcgaccagcttaaagagttgatagacaaaccgtccatttgttactgcaaacaaggcaagtcataattaaactttctaatttaagaaaactcctgccacattaacttgacaggagctacaaattcgaagtgaa Mask Tandem Repeat Region ================================================ ttcacttcgaatttgtagctcctgtcaagttaatgtggcaggagttttcttaaattagaaagtttaattatgacttgccttgtttgcagtaacaaatggacggtttgtctatcaactctttaagctggtcgagctagacgcttctattagcggaataaaacatcccaaattttgggctttcttaacaactggcggatggcttgatcctctatctcttgaaacggaataaggccattttttcc Find is-nt database================================================ Query_seq: SSA_0696:SSA_0697|SSA_0696:SSA_0697:hypothetical protein:hypothetical protein:->->:679981..680222 242 ttcacttcgaatttgtagctcctgtcaagttaatgtggcaggagttttcttaaattagaaagtttaattatgacttgccttgtttgcagtaacaaatggacggtttgtctatcaactctttaagctggtcgagctagacgcttctattagcggaataaaacatcccaaattttgggctttcttaacaactggcggatggcttgatcctctatctcttgaaacggaataaggccattttttcc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SSA_0696:SSA_0697|SSA_0696:SSA_0697:hypothetical protein:hypothetical protein:->->:679981..680222 242 ttcacttcgaatttgtagctcctgtcaagttaatgtggcaggagttttcttaaattagaaagtttaattatgacttgccttgtttgcagtaacaaatggacggtttgtctatcaactctttaagctggtcgagctagacgcttctattagcggaataaaacatcccaaattttgggctttcttaacaactggcggatggcttgatcctctatctcttgaaacggaataaggccattttttcc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SSA_0696:SSA_0697|SSA_0696:SSA_0697:hypothetical protein:hypothetical protein:->->:679981..680222 242 ttcacttcgaatttgtagctcctgtcaagttaatgtggcaggagttttcttaaattagaaagtttaattatgacttgccttgtttgcagtaacaaatggacggtttgtctatcaactctttaagctggtcgagctagacgcttctattagcggaataaaacatcccaaattttgggctttcttaacaactggcggatggcttgatcctctatctcttgaaacggaataaggccattttttcc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ttcacttcgaatttgtagctcctgtcaagttaatgtggcaggagttttcttaaattagaaagtttaattatgacttgccttgtttgcagtaacaaatggacggtttgtctatcaactctttaagctggtcgagctagacgcttctattagcggaataaaacatcccaaattttgggctttcttaacaactggcggatggcttgatcctctatctcttgaaacggaataaggccattttttcc Predict ORF larger than 30AA ================================================ Protein_Len: 49 Strand: + Start: 80 End: 226 ............................................................................... M F A V T N G R F V Y Q L F K L V E L D A S I S G I K H P K F W A F L T T G G W L D P L S L E T E ................ ttcacttcgaatttgtagctcctgtcaagttaatgtggcaggagttttcttaaattagaaagtttaattatgacttgccttgtttgcagtaacaaatggacggtttgtctatcaactctttaagctggtcgagctagacgcttctattagcggaataaaacatcccaaattttgggctttcttaacaactggcggatggcttgatcctctatctcttgaaacggaataaggccattttttcc 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================================================ ttcacttcgaatttgtagctcctgtcaagttaatgtggcaggagttttcttaaattagaaagtttaattatgacttgccttgtttgcagtaacaaatggacggtttgtctatcaactctttaagctggtcgagctagacgcttctattagcggaataaaacatcccaaattttgggctttcttaacaactggcggatggcttgatcctctatctcttgaaacggaataaggccattttttcc Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SSA_0696:SSA_0697|SSA_0696:SSA_0697:hypothetical protein:hypothetical protein:->->:679981..680222 242 ttcacttcgaatttgtagctcctgtcaagttaatgtggcaggagttttcttaaattagaaagtttaattatgacttgccttgtttgcagtaacaaatggacggtttgtctatcaactctttaagctggtcgagctagacgcttctattagcggaataaaacatcccaaattttgggctttcttaacaactggcggatggcttgatcctctatctcttgaaacggaataaggccattttttcc Intra-Species Hit: Count: 1 Min: 1 Max: 242 Len: 242 Subject: NC_009009_SSA_0696_SSA_0697|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[679981,680222]|242 HSP 1 e-value: 1.0E-134 bit: 480.0 Len: 242 Query Start:1 Query End:242 Subject Strand: POSITIVE Subject Start: 1 Subject End: 242 ttcacttcgaatttgtagctcctgtcaagttaatgtggcaggagttttcttaaattagaaagtttaattatgacttgccttgtttgcagtaacaaatggacggtttgtctatcaactctttaagctggtcgagctagacgcttctattagcggaataaaacatcccaaattttgggctttcttaacaactggcggatggcttgatcctctatctcttgaaacggaataaggccattttttcc ttcacttcgaatttgtagctcctgtcaagttaatgtggcaggagttttcttaaattagaaagtttaattatgacttgccttgtttgcagtaacaaatggacggtttgtctatcaactctttaagctggtcgagctagacgcttctattagcggaataaaacatcccaaattttgggctttcttaacaactggcggatggcttgatcctctatctcttgaaacggaataaggccattttttcc Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUCACUUCGAAUUUGUAGCUCCUGUCAAGUUAAUGUGGCAGGAGUUUUCUUAAAUUAGAAAGUUUAAUUAUGACUUGCCUUGUUUGCAGUAACAAAUGGACGGUUUGUCUAUCAACUCUUUAAGCUGGUCGAGCUAGACGCUUCUAUUAGCGGAAUAAAACAUCCCAAAUUUUGGGCUUUCUUAACAACUGGCGGAUGGCUUGAUCCUCUAUCUCUUGAAACGGAAUAAGGCCAUUUUUUCC .....(((.((((((.(((((((((((........)))))))))))....)))))).)))................(((((((((..........((((((.....))))))..........((..((((((((((..((((.........((((........((((.....))))..))))........))))..))))))))))..)).............))))))))).......... (-61.33) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GGAAAAAAUGGCCUUAUUCCGUUUCAAGAGAUAGAGGAUCAAGCCAUCCGCCAGUUGUUAAGAAAGCCCAAAAUUUGGGAUGUUUUAUUCCGCUAAUAGAAGCGUCUAGCUCGACCAGCUUAAAGAGUUGAUAGACAAACCGUCCAUUUGUUACUGCAAACAAGGCAAGUCAUAAUUAAACUUUCUAAUUUAAGAAAACUCCUGCCACAUUAACUUGACAGGAGCUACAAAUUCGAAGUGAA ((.....(((((.((..(((...((....))....)))..)))))))...))......(((((...((((.....))))...)))))...((((..(((((..(((((..((((((........).)))))))))).....(((..(((((....)))))...)))................)))))...........((((((.((........)).))))))............)))).. (-48.40) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 389 153 111 54 17 NC_009009:SSA_0473|5end_Precorrin-6x_reductase,_putative_475502..475732_POSITIVE 358 154 116 131 97 NC_009009:SSA_1743|5end_ABC-type_Fe3+-siderophore_transport_system,_permease_component,_putative_1730170..1730400_POSITIVE 320 154 116 61 12 NC_009009:SSA_0585|5end_hypothetical_protein_576937..577167_POSITIVE 299 130 81 180 127 NC_009009:SSA_1831|5end_hypothetical_protein_1821138..1821368_POSITIVE 299 210 171 203 157 NC_009009:SSA_1439|5end_hypothetical_protein_1444373..1444603_NEGATIVE 297 115 71 207 170 NC_009009:SSA_0878|5end_DNA_gyrase,_putative_871596..871826_POSITIVE 296 219 172 160 91 NC_009009:SSA_0785|5end_Proton-translocating_ATPase,_F1_sector,_delta_subunit,_putative_768044..768274_POSITIVE 296 210 161 139 94 NC_009009:SSA_0486|5end_Uroporphyrinogen-III_synthase,_putative_486637..486867_POSITIVE 294 180 131 222 158 NC_009009:SSA_1528|5end_Phosphoglycerate_mutase,_putative_1535135..1535365_POSITIVE 294 209 161 63 19 NC_009009:SSA_1149|5end_Glycosyl_hydrolase,_family_1,_putative_1178399..1178629_POSITIVE 292 148 120 196 168 NC_009009:SSA_1084|5end_Conserved_uncharacterized_protein_1101675..1101905_POSITIVE 290 232 191 74 37 NC_009009:SSA_1443|5end_1-(5-phosphoribosyl)-5-[(5-_phosphoribosylamino)methylideneamino]_imidazole-4-carboxamide_isomerase,_putative_1446672..1446902_NEGATIVE 290 152 116 139 97 NC_009009:SSA_0954|5end_hypothetical_protein_958024..958254_POSITIVE 286 210 163 230 181 NC_009009:SSA_2315|5end_Conserved_uncharacterized_protein_2316945..2317175_NEGATIVE 286 196 151 229 191 NC_009009:SSA_2285|5end_hypothetical_protein_2287404..2287634_POSITIVE 286 118 74 177 128 NC_009009:SSA_0469|5end_Precorrin-6B_methylase_2,putative_472310..472540_POSITIVE 285 218 173 144 91 NC_009009:SSA_0043|5end_hypothetical_protein_48801..49031_POSITIVE 284 145 103 193 144 NC_009009:SSA_1869|5end_ATP-dependent_RNA_helicase,_putative_1865495..1865725_NEGATIVE 284 199 151 69 17 NC_009009:SSA_1824|5end_hypothetical_protein_1812746..1812976_NEGATIVE 284 219 174 204 154 NC_009009:SSA_0504|5end_Peptide_ABC_transporter,_ATP-binding_protein,_putative_503009..503239_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 389 153 111 57 20 NC_009009:SSA_0472|3end_Precorrin-3B_C17-methyltransferase,_putative_475585..475735_POSITIVE 356 138 94 111 73 NC_009009:SSA_1845|3end_Serine/threonine_protein_kinase,_putative_1838328..1838478_NEGATIVE 353 217 173 54 3 NC_009009:SSA_0255|3end_Multiple_antibiotic_resistance_operon_transcription_repressor_(MarR),_putative_247485..247635_NEGATIVE 327 149 101 146 88 NC_009009:SSA_0593|3end_Rhodanese-like_sulfurtransferase,_putative_585551..585701_POSITIVE 294 209 161 57 13 NC_009009:SSA_1148|3end_Beta-glucosides_PTS,_EIIC,_putative_1178473..1178623_POSITIVE 294 200 151 75 15 NC_009009:SSA_0617|3end_Membrane_protease_subunits,_stomatin/prohibitin-like_protein_(SPFH_domain/band_7_family),_putative_611438..611588_POSITIVE 290 232 191 102 65 NC_009009:SSA_1444|3end_Imidazole_glycerol-phosphate_synthase_subunit_hisH,_putative_1446644..1446794_NEGATIVE 290 152 116 130 88 NC_009009:SSA_0952|3end_hypothetical_protein_958095..958245_POSITIVE 286 210 163 59 10 NC_009009:SSA_2316|3end_General_secretory_pathway_protein_F,_putative_2317116..2317266_NEGATIVE 285 201 170 150 120 NC_009009:SSA_1615|3end_Alanine_dehydrogenase,_putative_1619318..1619468_POSITIVE 285 46 17 74 45 NC_009009:SSA_0696|3end_hypothetical_protein_679920..680070_POSITIVE 284 145 103 88 39 NC_009009:SSA_1870|3end_Phospho-N-acetylmuramoyl-pentapeptide-_transferase,_putative_1865600..1865750_NEGATIVE 284 165 123 140 93 NC_009009:SSA_0613|3end_Glucosyltransferase,_putative_606633..606783_POSITIVE 284 224 186 117 69 NC_009009:SSA_0413|3end_Anthranilate/para-aminobenzoate_synthases_component_I/_Chorismate_binding_enzyme,_putative_408315..408465_NEGATIVE 281 155 111 124 57 NC_009009:SSA_0819|3end_hypothetical_protein_801181..801331_POSITIVE 281 116 75 67 18 NC_009009:SSA_0269|3end_Phosphotransferase_system_(PTS)_cellobiose-specific_component_IIA,_putative_262947..263097_POSITIVE 277 135 97 109 70 NC_009009:SSA_1036|3end_Deoxyribose-phosphate_aldolase,_putative_1052211..1052361_POSITIVE 277 134 97 47 12 NC_009009:SSA_0512|3end_Nicotinate-nucleotide--dimethylbenzimidazole_phosphoribosyltransferase,_putative_511625..511775_POSITIVE 276 49 5 82 39 NC_009009:SSA_2139|3end_Membrane_protein_(preprotein_translocase)_oxaA_1_precursor,_putative_2139509..2139659_NEGATIVE 276 153 116 151 115 NC_009009:SSA_0837|3end_Glucosyltransferase,_putative_825502..825652_POSITIVE