Origin IGS: attaatttttattatttttgtcagattataaccttgacaagttcagtatagcagaacaacagagatttttaccgctaagtcttaaaatgtacgattttcatcacgaaacgtattttttcatgatttgtaacctttcaagattaaaaataaatcattttaaaatttattccacaaatcgctgctagatattgtgaagtcgtcactctagcttttttgcccagttttattgttatgactatttcctaactcatttacaggaactagctaaaaaataatgtatataaagtcataacaaaagaatcccccttaaaatattctatagaatattttaagggggattctt .........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 aagaatcccccttaaaatattctatagaatattttaagggggattcttttgttatgactttatatacattattttttagctagttcctgtaaatgagttaggaaatagtcataacaataaaactgggcaaaaaagctagagtgacgacttcacaatatctagcagcgatttgtggaataaattttaaaatgatttatttttaatcttgaaaggttacaaatcatgaaaaaatacgtttcgtgatgaaaatcgtacattttaagacttagcggtaaaaatctctgttgttctgctatactgaacttgtcaaggttataatctgacaaaaataataaaaattaat Mask Tandem Repeat Region ================================================ attaatttttattatttttgtcagattataaccttgacaagttcagtatagcagaacaacagagatttttaccgctaagtcttaaaatgtacgattttcatcacgaaacgtattttttcatgatttgtaacctttcaagattaaaaataaatcattttaaaatttattccacaaatcgctgctagatattgtgaagtcgtcactctagcttttttgcccagttttattgttatgactatttcctaactcatttacaggaactagctaaaaaataatgtatataaagtcataacaaaagaatcccccttaaaatattctatagaatattttaagggggattctt Find is-nt database================================================ Query_seq: SMT_808:SMT_809|SMT_808:SMT_809:hypothetical protein predicted by Glimmer/Critica:sensor histidine kinase (homolog to BlpH Spn):<-<-:718167..718509 343 attaatttttattatttttgtcagattataaccttgacaagttcagtatagcagaacaacagagatttttaccgctaagtcttaaaatgtacgattttcatcacgaaacgtattttttcatgatttgtaacctttcaagattaaaaataaatcattttaaaatttattccacaaatcgctgctagatattgtgaagtcgtcactctagcttttttgcccagttttattgttatgactatttcctaactcatttacaggaactagctaaaaaataatgtatataaagtcataacaaaagaatcccccttaaaatattctatagaatattttaagggggattctt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_808:SMT_809|SMT_808:SMT_809:hypothetical protein predicted by Glimmer/Critica:sensor histidine kinase (homolog to BlpH Spn):<-<-:718167..718509 343 attaatttttattatttttgtcagattataaccttgacaagttcagtatagcagaacaacagagatttttaccgctaagtcttaaaatgtacgattttcatcacgaaacgtattttttcatgatttgtaacctttcaagattaaaaataaatcattttaaaatttattccacaaatcgctgctagatattgtgaagtcgtcactctagcttttttgcccagttttattgttatgactatttcctaactcatttacaggaactagctaaaaaataatgtatataaagtcataacaaaagaatcccccttaaaatattctatagaatattttaagggggattctt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_808:SMT_809|SMT_808:SMT_809:hypothetical protein predicted by Glimmer/Critica:sensor histidine kinase (homolog to BlpH Spn):<-<-:718167..718509 343 attaatttttattatttttgtcagattataaccttgacaagttcagtatagcagaacaacagagatttttaccgctaagtcttaaaatgtacgattttcatcacgaaacgtattttttcatgatttgtaacctttcaagattaaaaataaatcattttaaaatttattccacaaatcgctgctagatattgtgaagtcgtcactctagcttttttgcccagttttattgttatgactatttcctaactcatttacaggaactagctaaaaaataatgtatataaagtcataacaaaagaatcccccttaaaatattctatagaatattttaagggggattctt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 attaatttttattatttttgtcagattataaccttgacaagttcagtatagcagaacaacagagatttttaccgctaagtcttaaaatgtacgattttcatcacgaaacgtattttttcatgatttgtaacctttcaagattaaaaataaatcattttaaaatttattccacaaatcgctgctagatattgtgaagtcgtcactctagcttttttgcccagttttattgttatgactatttcctaactcatttacaggaactagctaaaaaataatgtatataaagtcataacaaaagaatcccccttaaaatattctatagaatattttaagggggattctt Predict ORF larger than 30AA ================================================ Protein_Len: 55 Strand: + Start: 18 End: 182 ................. M S D Y N L D K F S I A E Q Q R F L P L S L K M Y D F H H E T Y F F M I C N L S R L K I N H F K I Y S T N R C ................................................................................................................................................................. Protein_Len: 31 Strand: + Start: 151 End: 243 ...................................................................................................................................................... M I L K F I P Q I A A R Y C E V V T L A F L P S F I V M T I S .................................................................................................... Protein_Len: 32 Strand: - Start: 144 End: 239 ............................................................................................................................................... F Y I M K F N I G C I A A L Y Q S T T V R A K K G L K I T I V M ........................................................................................................ attaatttttattatttttgtcagattataaccttgacaagttcagtatagcagaacaacagagatttttaccgctaagtcttaaaatgtacgattttcatcacgaaacgtattttttcatgatttgtaacctttcaagattaaaaataaatcattttaaaatttattccacaaatcgctgctagatattgtgaagtcgtcactctagcttttttgcccagttttattgttatgactatttcctaactcatttacaggaactagctaaaaaataatgtatataaagtcataacaaaagaatcccccttaaaatattctatagaatattttaagggggattctt 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================================================ attaatttttattatttttgtcagattataaccttgacaagttcagtatagcagaacaacagagatttttaccgctaagtcttaaaatgtacgattttcatcacgaaacgtattttttcatgatttgtaacctttcaagattaaaaataaatcattttaaaatttattccacaaatcgctgctagatattgtgaagtcgtcactctagcttttttgcccagttttattgttatgactatttcctaactcatttacaggaactagctaaaaaataatgtatataaagtcataacaaaagaatcccccttaaaatattctatagaatattttaagggggattctt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SMT_808:SMT_809|SMT_808:SMT_809:hypothetical protein predicted by Glimmer/Critica:sensor histidine kinase (homolog to BlpH Spn):<-<-:718167..718509 343 attaatttttattatttttgtcagattataaccttgacaagttcagtatagcagaacaacagagatttttaccgctaagtcttaaaatgtacgattttcatcacgaaacgtattttttcatgatttgtaacctttcaagattaaaaataaatcattttaaaatttattccacaaatcgctgctagatattgtgaagtcgtcactctagcttttttgcccagttttattgttatgactatttcctaactcatttacaggaactagctaaaaaataatgtatataaagtcataacaaaagaatcccccttaaaatattctatagaatattttaagggggattctt Intra-Species Hit: Count: 1 Min: 1 Max: 343 Len: 343 Subject: smit_SMT_808_SMT_809|hypothetical protein predicted by Glimmer/Critica:sensor histidine kinase (homolog to BlpH Spn)|NEGATIVE:NEGATIVE|[718167,718509]|343 HSP 1 e-value: 0.0 bit: 680.0 Len: 343 Query Start:1 Query End:343 Subject Strand: POSITIVE Subject Start: 1 Subject End: 343 attaatttttattatttttgtcagattataaccttgacaagttcagtatagcagaacaacagagatttttaccgctaagtcttaaaatgtacgattttcatcacgaaacgtattttttcatgatttgtaacctttcaagattaaaaataaatcattttaaaatttattccacaaatcgctgctagatattgtgaagtcgtcactctagcttttttgcccagttttattgttatgactatttcctaactcatttacaggaactagctaaaaaataatgtatataaagtcataacaaaagaatcccccttaaaatattctatagaatattttaagggggattctt attaatttttattatttttgtcagattataaccttgacaagttcagtatagcagaacaacagagatttttaccgctaagtcttaaaatgtacgattttcatcacgaaacgtattttttcatgatttgtaacctttcaagattaaaaataaatcattttaaaatttattccacaaatcgctgctagatattgtgaagtcgtcactctagcttttttgcccagttttattgttatgactatttcctaactcatttacaggaactagctaaaaaataatgtatataaagtcataacaaaagaatcccccttaaaatattctatagaatattttaagggggattctt HSP 2 e-value: 1.0E-18 bit: 95.6 Len: 48 Query Start:296 Query End:343 Subject Strand: NEGATIVE Subject Start: 296 Subject End: 343 .......................................................................................................................................................................................................................................................................................................aagaatcccccttaaaatattctatagaatattttaagggggattctt .......................................................................................................................................................................................................................................................................................................aagaatcccccttaaaatattctatagaatattttaagggggattctt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUUAAUUUUUAUUAUUUUUGUCAGAUUAUAACCUUGACAAGUUCAGUAUAGCAGAACAACAGAGAUUUUUACCGCUAAGUCUUAAAAUGUACGAUUUUCAUCACGAAACGUAUUUUUUCAUGAUUUGUAACCUUUCAAGAUUAAAAAUAAAUCAUUUUAAAAUUUAUUCCACAAAUCGCUGCUAGAUAUUGUGAAGUCGUCACUCUAGCUUUUUUGCCCAGUUUUAUUGUUAUGACUAUUUCCUAACUCAUUUACAGGAACUAGCUAAAAAAUAAUGUAUAUAAAGUCAUAACAAAAGAAUCCCCCUUAAAAUAUUCUAUAGAAUAUUUUAAGGGGGAUUCUU .........((((...((((((((.........))))))))...))))..((((((....((.(((((.......(((((.((((((((....(((((.((((.((((.......)))).))))(((........))).....)))))....)))))))).)))))......))))).))((((((....((((.....))))))))))..)))))).........(((((((((((..(((((...........)))))...((...........))......))))))))))).(((((((((((((((((((((....))))))))))))))))))))). (-80.02) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAGAAUCCCCCUUAAAAUAUUCUAUAGAAUAUUUUAAGGGGGAUUCUUUUGUUAUGACUUUAUAUACAUUAUUUUUUAGCUAGUUCCUGUAAAUGAGUUAGGAAAUAGUCAUAACAAUAAAACUGGGCAAAAAAGCUAGAGUGACGACUUCACAAUAUCUAGCAGCGAUUUGUGGAAUAAAUUUUAAAAUGAUUUAUUUUUAAUCUUGAAAGGUUACAAAUCAUGAAAAAAUACGUUUCGUGAUGAAAAUCGUACAUUUUAAGACUUAGCGGUAAAAAUCUCUGUUGUUCUGCUAUACUGAACUUGUCAAGGUUAUAAUCUGACAAAAAUAAUAAAAAUUAAU ((((((((((((((((((((((....))))))))))))))))))))))(((((((((((...........(((((((((((.(((......))).)))))))))))))))))))))).................((((((((((.....))))....)))))).....(((((.(((((((((.......))))))))).(((((((((.(((((.((.(((((((((.......)))))))))......................((((((....(((....)))...))))))...))))))).))))))))).......)))))................ (-93.70) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 857 80 31 171 122 smit:SMT_808|5end_hypothetical_protein_predicted_by_Glimmer/Critica_718076..718306_NEGATIVE 379 44 14 231 200 smit:SMT_807|5end_hypothetical_protein_predicted_by_Glimmer/Critica_716815..717045_NEGATIVE 288 220 178 87 33 smit:SMT_607|5end_K03294_basic_amino_acid/polyamine_antiporter,_APA_family_520119..520349_POSITIVE 282 244 202 101 54 smit:SMT_1574|5end_K02529_LacI_family_transcriptional_regulator_1567090..1567320_POSITIVE 279 220 174 212 160 smit:SMT_311|5end_3-oxoacyl-_252123..252353_POSITIVE 273 250 207 62 8 smit:SMT_352|5end_hypothetical_protein_290531..290761_POSITIVE 272 209 164 55 12 smit:SMT_1029|5end_K02027_multiple_sugar_transport_system_substrate-binding_protein_965632..965862_NEGATIVE 268 229 197 181 148 smit:SMT_2015|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1932655..1932885_POSITIVE 264 223 181 53 8 smit:SMT_141|5end_K03495_glucose_inhibited_division_protein_A_91408..91638_POSITIVE 257 220 178 221 182 smit:SMT_1287|5end_50S_ribosomal_protein_L9_1250358..1250588_POSITIVE 257 120 71 230 182 smit:SMT_1129|5end_hypothetical_protein_1063926..1064156_NEGATIVE 257 209 168 52 14 smit:SMT_485|5end_hypothetical_protein_421401..421631_NEGATIVE 254 78 32 198 140 smit:SMT_1647|5end_3-isopropylmalate_dehydratase_small_subunit_1633403..1633633_POSITIVE 249 258 218 164 135 smit:SMT_1866|5end_extramembranal_protein_1827290..1827520_POSITIVE 249 258 218 164 135 smit:SMT_1313|5end_extramembranal_protein_1277274..1277504_POSITIVE 245 218 171 138 88 smit:SMT_1444|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1427979..1428209_NEGATIVE 245 218 171 190 140 smit:SMT_1443|5end_23S_rRNA_m(5)U_1939_methyltransferase_1427927..1428157_NEGATIVE 245 231 191 121 79 smit:SMT_826|5end_hypothetical_protein_750022..750252_NEGATIVE 242 219 172 115 56 smit:SMT_2145|5end_K05832_putative_ABC_transport_system_permease_protein_2022019..2022249_NEGATIVE 242 209 167 50 2 smit:SMT_1221|5end_choline_binding_protein_A_1185539..1185769_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 264 223 181 63 18 smit:SMT_140|3end_NUDIX_family_hydrolase_91498..91648_POSITIVE 258 222 182 119 68 smit:SMT_1628|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1616610..1616760_NEGATIVE 234 218 175 80 23 smit:SMT_955|3end_acyltransferase_family_protein_904703..904853_POSITIVE 233 55 17 145 107 smit:SMT_1426|3end_K03095_SprT-like_protein_1410864..1411014_NEGATIVE 231 222 189 76 38 smit:SMT_810|3end_oxidoreductase_721108..721258_POSITIVE 230 229 193 61 28 smit:SMT_447|3end_ABC-type_cobalt_transport_system,_permease_component_CbiQ_related_transporter_386987..387137_POSITIVE 228 218 177 124 77 smit:SMT_330|3end_membrane-associated_phospholipid_phosphatase_266187..266337_POSITIVE 227 242 201 63 8 smit:SMT_1457|3end_16S_rRNA_m(2)G_1207_methyltransferase_1439829..1439979_NEGATIVE 227 224 189 121 81 smit:SMT_1452|3end_ABC-type_uncharacterized_transport_system,_ATPase_component_1434676..1434826_NEGATIVE 227 210 161 48 1 smit:SMT_209|3end_acetyltransferase,_GNAT_family_143448..143598_POSITIVE 226 228 181 51 9 smit:SMT_875|3end_nitroreductase_family_protein_822779..822929_NEGATIVE 226 205 167 96 47 smit:SMT_660|3end_two-component_sensor_histidine_kinase_570538..570688_NEGATIVE 225 243 210 66 22 smit:SMT_1179|3end_aldose_1-epimerase_1136775..1136925_NEGATIVE 224 208 164 60 16 smit:SMT_777|3end_hypothetical_protein_686618..686768_NEGATIVE 224 206 168 44 8 smit:SMT_383|3end_cysteinyl-tRNA_synthetase_319407..319557_POSITIVE 221 278 237 146 103 smit:SMT_1170|3end_acetyltransferase,_CysE/LacA/LpxA/NodL_family_1117569..1117719_NEGATIVE 219 249 207 69 34 smit:SMT_407|3end_para-aminobenzoate_synthetase_component_I_/_4-amino-4-deoxychorismate_lyase_353166..353316_POSITIVE 217 221 181 50 1 smit:SMT_1287|3end_50S_ribosomal_protein_L9_1250890..1251040_POSITIVE 216 209 164 150 91 smit:SMT_431|3end_UDP-N-acetylmuramoyl-L-alanyl-D-glutamate_synthetase_373631..373781_POSITIVE 213 217 181 82 52 smit:SMT_1876|3end_transcriptional_regulator,_MarR_family_1834135..1834285_POSITIVE