Origin IGS: taattaatttgaatatcttatttcaagcattttatttttattacttatataaatggacagttcacttttaataaagatattcctaaaaaaaaccgaaaagaacccaataaagttaaataaaatagctagtccgggatgtaatgcatttgctagtcctgtattatagaacattgatgaataatcatcggtataaagtttatattttatcccattactataaaaataatggcttaattcatcataaagtaaagagatattttcaacatcgttaaaagacacattatttccattcctaatttcatttaacaaatctgaattaatatattggcacatataataccctcttaatta .........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.........1.........2.........3.........4.........5.........6.........7.........8.........9 taattaagagggtattatatgtgccaatatattaattcagatttgttaaatgaaattaggaatggaaataatgtgtcttttaacgatgttgaaaatatctctttactttatgatgaattaagccattatttttatagtaatgggataaaatataaactttataccgatgattattcatcaatgttctataatacaggactagcaaatgcattacatcccggactagctattttatttaactttattgggttcttttcggttttttttaggaatatctttattaaaagtgaactgtccatttatataagtaataaaaataaaatgcttgaaataagatattcaaattaatta Mask Tandem Repeat Region ================================================ taattaatttgaatatcttatttcaagcattttatttttattacttatataaatggacagttcacttttaataaagatattcctaaaaaaaaccgaaaagaacccaataaagttaaataaaatagctagtccgggatgtaatgcatttgctagtcctgtattatagaacattgatgaataatcatcggtataaagtttatattttatcccattactataaaaataatggcttaattcatcataaagtaaagagatattttcaacatcgttaaaagacacattatttccattcctaatttcatttaacaaatctgaattaatatattggcacatataataccctcttaatta Find is-nt database================================================ Query_seq: AA02331:AA02332|AA02331:AA02332:ABC transporter, ATP-binding protein; possible leukotoxin secretion ATP-binding protein:conserved hypothetical protein; possible glycosyltransferase:->->:1593040..1593390 351 taattaatttgaatatcttatttcaagcattttatttttattacttatataaatggacagttcacttttaataaagatattcctaaaaaaaaccgaaaagaacccaataaagttaaataaaatagctagtccgggatgtaatgcatttgctagtcctgtattatagaacattgatgaataatcatcggtataaagtttatattttatcccattactataaaaataatggcttaattcatcataaagtaaagagatattttcaacatcgttaaaagacacattatttccattcctaatttcatttaacaaatctgaattaatatattggcacatataataccctcttaatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA02331:AA02332|AA02331:AA02332:ABC transporter, ATP-binding protein; possible leukotoxin secretion ATP-binding protein:conserved hypothetical protein; possible glycosyltransferase:->->:1593040..1593390 351 taattaatttgaatatcttatttcaagcattttatttttattacttatataaatggacagttcacttttaataaagatattcctaaaaaaaaccgaaaagaacccaataaagttaaataaaatagctagtccgggatgtaatgcatttgctagtcctgtattatagaacattgatgaataatcatcggtataaagtttatattttatcccattactataaaaataatggcttaattcatcataaagtaaagagatattttcaacatcgttaaaagacacattatttccattcctaatttcatttaacaaatctgaattaatatattggcacatataataccctcttaatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA02331:AA02332|AA02331:AA02332:ABC transporter, ATP-binding protein; possible leukotoxin secretion ATP-binding protein:conserved hypothetical protein; possible glycosyltransferase:->->:1593040..1593390 351 taattaatttgaatatcttatttcaagcattttatttttattacttatataaatggacagttcacttttaataaagatattcctaaaaaaaaccgaaaagaacccaataaagttaaataaaatagctagtccgggatgtaatgcatttgctagtcctgtattatagaacattgatgaataatcatcggtataaagtttatattttatcccattactataaaaataatggcttaattcatcataaagtaaagagatattttcaacatcgttaaaagacacattatttccattcctaatttcatttaacaaatctgaattaatatattggcacatataataccctcttaatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taattaatttgaatatcttatttcaagcattttatttttattacttatataaatggacagttcacttttaataaagatattcctaaaaaaaaccgaaaagaacccaataaagttaaataaaatagctagtccgggatgtaatgcatttgctagtcctgtattatagaacattgatgaataatcatcggtataaagtttatattttatcccattactataaaaataatggcttaattcatcataaagtaaagagatattttcaacatcgttaaaagacacattatttccattcctaatttcatttaacaaatctgaattaatatattggcacatataataccctcttaatta Predict ORF larger than 30AA ================================================ Protein_Len: 35 Strand: + Start: 13 End: 117 ............ M S Y F K H F I F I T Y I N G Q F T F N K D I P K K N R K E P N K V K .......................................................................................................................................................................................................................................... Protein_Len: 37 Strand: + Start: 53 End: 163 .................................................... M D S S L L I K I F L K K T E K N P I K L N K I A S P G C N A F A S P V L ............................................................................................................................................................................................ Protein_Len: 43 Strand: + Start: 141 End: 269 ............................................................................................................................................ M H L L V L Y Y R T L M N N H R Y K V Y I L S H Y Y K N N G L I H H K V K R Y F Q H R .................................................................................. Protein_Len: 60 Strand: - Start: 7 End: 333 ...... G T N Y F M S S Y D D T Y L K Y K I G N S Y F Y H S L E D Y L L S I N E V D N F S V N N G N R I E N L L D S N I Y Q C M .................. taattaatttgaatatcttatttcaagcattttatttttattacttatataaatggacagttcacttttaataaagatattcctaaaaaaaaccgaaaagaacccaataaagttaaataaaatagctagtccgggatgtaatgcatttgctagtcctgtattatagaacattgatgaataatcatcggtataaagtttatattttatcccattactataaaaataatggcttaattcatcataaagtaaagagatattttcaacatcgttaaaagacacattatttccattcctaatttcatttaacaaatctgaattaatatattggcacatataataccctcttaatta 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================================================ taattaatttgaatatcttatttcaagcattttatttttattacttatataaatggacagttcacttttaataaagatattcctaaaaaaaaccgaaaagaacccaataaagttaaataaaatagctagtccgggatgtaatgcatttgctagtcctgtattatagaacattgatgaataatcatcggtataaagtttatattttatcccattactataaaaataatggcttaattcatcataaagtaaagagatattttcaacatcgttaaaagacacattatttccattcctaatttcatttaacaaatctgaattaatatattggcacatataataccctcttaatta Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 39 HP_score: -2.6 Tail_Score: -2.64695 Start: 209 End: 229 Full_Region: AGTTTATATTTTATC CCATTACT ATAAA AATAATGG CTTAATTCATCATAA ................................................................................................................................................................................................................CCATTACTATAAAAATAATGG.......................................................................................................................... Find igs database================================================ Query_seq: AA02331:AA02332|AA02331:AA02332:ABC transporter, ATP-binding protein; possible leukotoxin secretion ATP-binding protein:conserved hypothetical protein; possible glycosyltransferase:->->:1593040..1593390 351 taattaatttgaatatcttatttcaagcattttatttttattacttatataaatggacagttcacttttaataaagatattcctaaaaaaaaccgaaaagaacccaataaagttaaataaaatagctagtccgggatgtaatgcatttgctagtcctgtattatagaacattgatgaataatcatcggtataaagtttatattttatcccattactataaaaataatggcttaattcatcataaagtaaagagatattttcaacatcgttaaaagacacattatttccattcctaatttcatttaacaaatctgaattaatatattggcacatataataccctcttaatta Intra-Species Hit: Count: 1 Min: 1 Max: 351 Len: 351 Subject: aact_AA02331_AA02332|ABC transporter, ATP-binding protein; possible leukotoxin secretion ATP-binding protein:conserved hypothetical protein; possible glycosyltransferase|POSITIVE:POSITIVE|[1593040, 1593390]|351 HSP 1 e-value: 0.0 bit: 648.0 Len: 351 Query Start:1 Query End:351 Subject Strand: POSITIVE Subject Start: 1 Subject End: 351 taattaatttgaatatcttatttcaagcattttatttttattacttatataaatggacagttcacttttaataaagatattcctnnnnnnnnccgaaaagaacccaataaagttaaataaaatagctagtccgggatgtaatgcatttgctagtcctgtattatagaacattgatgaataatcatcggtataaagtttatattttatcccattactataaaaataatggcttaattcatcataaagtaaagagatattttcaacatcgttaaaagacacattatttccattcctaatttcatttaacaaatctgaattaatatattggcacatataataccctcttaatta taattaatttgaatatcttatttcaagcattttatttttattacttatataaatggacagttcacttttaataaagatattcctaaaaaaaaccgaaaagaacccaataaagttaaataaaatagctagtccgggatgtaatgcatttgctagtcctgtattatagaacattgatgaataatcatcggtataaagtttatattttatcccattactataaaaataatggcttaattcatcataaagtaaagagatattttcaacatcgttaaaagacacattatttccattcctaatttcatttaacaaatctgaattaatatattggcacatataataccctcttaatta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUUAAUUUGAAUAUCUUAUUUCAAGCAUUUUAUUUUUAUUACUUAUAUAAAUGGACAGUUCACUUUUAAUAAAGAUAUUCCUAAAAAAAACCGAAAAGAACCCAAUAAAGUUAAAUAAAAUAGCUAGUCCGGGAUGUAAUGCAUUUGCUAGUCCUGUAUUAUAGAACAUUGAUGAAUAAUCAUCGGUAUAAAGUUUAUAUUUUAUCCCAUUACUAUAAAAAUAAUGGCUUAAUUCAUCAUAAAGUAAAGAGAUAUUUUCAACAUCGUUAAAAGACACAUUAUUUCCAUUCCUAAUUUCAUUUAACAAAUCUGAAUUAAUAUAUUGGCACAUAUAAUACCCUCUUAAUUA (((((((...((((((((((((..(((...(((((((.(((.....))).))))))).......)))..))).))))))))).....................((((((..............(((((...((((((.....((....))..))))))..((((((......(((((....)))))((.(((((((....))))))).))....))))))......)))))(((((((............((((...))))......((((((.((...((((..........)))).)).)))))).....)))))))...))))))................))))))) (-49.30) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUUAAGAGGGUAUUAUAUGUGCCAAUAUAUUAAUUCAGAUUUGUUAAAUGAAAUUAGGAAUGGAAAUAAUGUGUCUUUUAACGAUGUUGAAAAUAUCUCUUUACUUUAUGAUGAAUUAAGCCAUUAUUUUUAUAGUAAUGGGAUAAAAUAUAAACUUUAUACCGAUGAUUAUUCAUCAAUGUUCUAUAAUACAGGACUAGCAAAUGCAUUACAUCCCGGACUAGCUAUUUUAUUUAACUUUAUUGGGUUCUUUUCGGUUUUUUUUAGGAAUAUCUUUAUUAAAAGUGAACUGUCCAUUUAUAUAAGUAAUAAAAAUAAAAUGCUUGAAAUAAGAUAUUCAAAUUAAUUA (((((((...(((((.....)))))........(((((((....(((((((((((((((....(((..((((((((.(((((((...))))))).((((((.(((((..((((((........))))))......))))).))))))..................(((((....)))))...(((((.......)))))......))))))))..)))....)))...))))))))))))....)))))))..................(((((((((......(((((.......)))))...((((((............))))))....)))))))))...))))))) (-62.50) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 278 160 125 63 20 aact:AA02416|5end_conserved_hypothetical_protein_1658920..1659150_POSITIVE 269 162 130 47 8 aact:AA00929|5end_DNA_gyrase_subunit_B_637797..638027_POSITIVE 266 162 124 83 46 aact:AA02119|5end_hypothetical_protein_1446372..1446602_POSITIVE 263 175 132 120 85 aact:AA02912|5end_hypothetical_protein_2039295..2039525_POSITIVE 251 268 223 38 1 aact:AA02395|5end_ATP-dependent_proteinase_1644613..1644843_POSITIVE 251 230 181 204 146 aact:AA01855|5end_transcriptional_regulator,_Cro/CI_family_1247009..1247239_POSITIVE 238 166 121 66 9 aact:AA01078|5end_transcriptional_regulator_(probable_MerR_family)_746873..747103_POSITIVE 234 191 158 194 161 aact:AA02353|5end_spermidine_/_putrescine_transport_ATP-binding_1611352..1611582_POSITIVE 232 160 111 122 67 aact:AA01227|5end_hypothetical_protein_838619..838849_POSITIVE 230 158 123 155 116 aact:AA00943|5end_conserved_hypothetical_protein_654331..654561_POSITIVE 229 172 132 100 61 aact:AA02417|5end_GTP-binding_protein_1659810..1660040_POSITIVE 229 156 115 160 115 aact:AA00887|5end_hypothetical_protein_616739..616969_POSITIVE 225 176 131 95 49 aact:AA00574|5end_regulatory_protein_392113..392343_POSITIVE 224 168 125 210 170 aact:AA02954|5end_penicillin_tolerance_protein;_hydroxymethylbutenyl_pyrophosphate_reductase_2065610..2065840_POSITIVE 223 189 143 187 142 aact:AA01408|5end_conserved_hypothetical_protein_950191..950421_POSITIVE 223 176 132 153 115 aact:AA01025|5end_hypothetical_protein_717522..717752_POSITIVE 223 155 124 217 181 aact:AA00302|5end_DNA_polymerase_III,_delta'_subunit_205127..205357_POSITIVE 222 178 132 119 66 aact:AA01114|5end_alcohol_dehydrogenase,_class_III;_glutathione-dependent_formaldehyde_dehydrogenase_765307..765537_POSITIVE 222 162 121 157 113 aact:AA01088|5end_rare_lipoprotein_B_precursor_752903..753133_POSITIVE 222 174 131 46 1 aact:AA00807|5end_fumarate_reductase_13_kD_hydrophobic_protein_552767..552997_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 237 189 141 71 19 aact:AA01495|3end_probable_oxidoreductase_1004927..1005077_POSITIVE 224 158 113 51 4 aact:AA00257|3end_rod-shape-determining_protein_180904..181054_POSITIVE 217 169 123 66 23 aact:AA00373|3end_CoA-transferase_(beta)_251755..251905_POSITIVE 215 160 121 61 23 aact:AA00861|3end_transcription_repair_coupling_factor_596150..596300_POSITIVE 214 188 141 98 47 aact:AA01873|3end_mannose-6-phosphate_isomerase_1261940..1262090_POSITIVE 210 160 125 88 46 aact:AA02545|3end_conserved_hypothetical_protein_1774221..1774371_POSITIVE 209 158 124 108 80 aact:AA01249|3end_conserved_hypothetical_protein_(possible_phosphoesterase)_850423..850573_POSITIVE 208 168 122 113 70 aact:AA01248|3end_conserved_hypothetical_protein_(possible_phosphoesterase)_850302..850452_POSITIVE 208 189 148 46 12 aact:AA00806|3end_fumarate_reductase_15_kD_hydrophobic_protein_552834..552984_POSITIVE 208 168 123 114 68 aact:AA00790|3end_recombination_DNA_repair_protein_543134..543284_POSITIVE 207 160 120 47 1 aact:AA01868|3end_biotin_synthetase_1256626..1256776_POSITIVE 206 150 120 48 9 aact:AA01369|3end_rod_shape-determining_protein_925513..925663_POSITIVE 204 180 131 63 15 aact:AA01747|3end_single-stranded-DNA-specific_exonuclease_1183130..1183280_POSITIVE 202 189 141 113 57 aact:AA01679|3end_aspartate-semialdehyde_dehydrogenase;_PTS_system_enzyme_II_A_component_1135236..1135386_POSITIVE 202 149 119 40 14 aact:AA00576|3end_conserved_hypothetical_protein_(possible_translation_factor)_394648..394798_POSITIVE 199 166 132 140 107 aact:AA02193|3end_oxaloacetate_decarboxylase_gamma_chain_1494562..1494712_POSITIVE 199 159 121 149 110 aact:AA01087|3end_DNA_polymerase_III,_delta_subunit_752980..753130_POSITIVE 199 147 110 114 76 aact:AA01081|3end_hypothetical_protein_748189..748339_POSITIVE 198 159 125 71 40 aact:AA02217|3end_deoxyribose-phosphate_aldolase_1509835..1509985_POSITIVE 197 158 124 95 55 aact:AA02977|3end_1-acyl-sn-glycerol-3-phosphate_acyltransferase_2081888..2082038_POSITIVE