Origin IGS: gtcaaataccagagttgccaatccgacaattctggtattgtgttataatgatattaaagtagttcaggaagtggatacatatgaaacagtttgtcaaatcgctctcgaaaaactcacttttattgtggtggttgacgatttttaatcatctagctttaatgatttatatttattataggattcctctggacttttcgacagatttttccttgcag .........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 ctgcaaggaaaaatctgtcgaaaagtccagaggaatcctataataaatataaatcattaaagctagatgattaaaaatcgtcaaccaccacaataaaagtgagtttttcgagagcgatttgacaaactgtttcatatgtatccacttcctgaactactttaatatcattataacacaataccagaattgtcggattggcaactctggtatttgac Mask Tandem Repeat Region ================================================ gtcaaataccagagttgccaatccgacaattctggtattgtgttataatgatattaaagtagttcaggaagtggatacatatgaaacagtttgtcaaatcgctctcgaaaaactcacttttattgtggtggttgacgatttttaatcatctagctttaatgatttatatttattataggattcctctggacttttcgacagatttttccttgcag Find is-nt database================================================ Query_seq: SMT_422:SMT_423|SMT_422:SMT_423:K02004:sensory transduction protein kinase:->->:365937..366151 215 gtcaaataccagagttgccaatccgacaattctggtattgtgttataatgatattaaagtagttcaggaagtggatacatatgaaacagtttgtcaaatcgctctcgaaaaactcacttttattgtggtggttgacgatttttaatcatctagctttaatgatttatatttattataggattcctctggacttttcgacagatttttccttgcag Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_422:SMT_423|SMT_422:SMT_423:K02004:sensory transduction protein kinase:->->:365937..366151 215 gtcaaataccagagttgccaatccgacaattctggtattgtgttataatgatattaaagtagttcaggaagtggatacatatgaaacagtttgtcaaatcgctctcgaaaaactcacttttattgtggtggttgacgatttttaatcatctagctttaatgatttatatttattataggattcctctggacttttcgacagatttttccttgcag Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_422:SMT_423|SMT_422:SMT_423:K02004:sensory transduction protein kinase:->->:365937..366151 215 gtcaaataccagagttgccaatccgacaattctggtattgtgttataatgatattaaagtagttcaggaagtggatacatatgaaacagtttgtcaaatcgctctcgaaaaactcacttttattgtggtggttgacgatttttaatcatctagctttaatgatttatatttattataggattcctctggacttttcgacagatttttccttgcag Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gtcaaataccagagttgccaatccgacaattctggtattgtgttataatgatattaaagtagttcaggaagtggatacatatgaaacagtttgtcaaatcgctctcgaaaaactcacttttattgtggtggttgacgatttttaatcatctagctttaatgatttatatttattataggattcctctggacttttcgacagatttttccttgcag Predict ORF larger than 30AA ================================================ Protein_Len: 38 Strand: + Start: 29 End: 142 ............................ M L V L C Y N D I K V V Q E V D T Y E T V C Q I A L E K L T F I V V V D D F ......................................................................... Protein_Len: 47 Strand: + Start: 75 End: 215 .......................................................................... M H M K Q F V K S L S K N S L L L W W L T I F N H L A L M I Y I Y Y R I P L D F S T D F S L Q Protein_Len: 46 Strand: - Start: 5 End: 139 .... * I G S N G I R C N Q Y Q T I I I N F Y N L F H I C I F C N T L D S E F F E S K N H H N V M ............................................................................ gtcaaataccagagttgccaatccgacaattctggtattgtgttataatgatattaaagtagttcaggaagtggatacatatgaaacagtttgtcaaatcgctctcgaaaaactcacttttattgtggtggttgacgatttttaatcatctagctttaatgatttatatttattataggattcctctggacttttcgacagatttttccttgcag 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: 83 Start: 131 End: 160 ..................................................................................................................................GTTGACGATTTTTAATCATCTAGCTTTAAT....................................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ gtcaaataccagagttgccaatccgacaattctggtattgtgttataatgatattaaagtagttcaggaagtggatacatatgaaacagtttgtcaaatcgctctcgaaaaactcacttttattgtggtggttgacgatttttaatcatctagctttaatgatttatatttattataggattcctctggacttttcgacagatttttccttgcag Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SMT_422:SMT_423|SMT_422:SMT_423:K02004:sensory transduction protein kinase:->->:365937..366151 215 gtcaaataccagagttgccaatccgacaattctggtattgtgttataatgatattaaagtagttcaggaagtggatacatatgaaacagtttgtcaaatcgctctcgaaaaactcacttttattgtggtggttgacgatttttaatcatctagctttaatgatttatatttattataggattcctctggacttttcgacagatttttccttgcag Intra-Species Hit: Count: 1 Min: 1 Max: 215 Len: 215 Subject: smit_SMT_422_SMT_423|K02004:sensory transduction protein kinase|POSITIVE:POSITIVE|[365937,366151]|215 HSP 1 e-value: 1.0E-118 bit: 426.0 Len: 215 Query Start:1 Query End:215 Subject Strand: POSITIVE Subject Start: 1 Subject End: 215 gtcaaataccagagttgccaatccgacaattctggtattgtgttataatgatattaaagtagttcaggaagtggatacatatgaaacagtttgtcaaatcgctctcgaaaaactcacttttattgtggtggttgacgatttttaatcatctagctttaatgatttatatttattataggattcctctggacttttcgacagatttttccttgcag gtcaaataccagagttgccaatccgacaattctggtattgtgttataatgatattaaagtagttcaggaagtggatacatatgaaacagtttgtcaaatcgctctcgaaaaactcacttttattgtggtggttgacgatttttaatcatctagctttaatgatttatatttattataggattcctctggacttttcgacagatttttccttgcag Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GUCAAAUACCAGAGUUGCCAAUCCGACAAUUCUGGUAUUGUGUUAUAAUGAUAUUAAAGUAGUUCAGGAAGUGGAUACAUAUGAAACAGUUUGUCAAAUCGCUCUCGAAAAACUCACUUUUAUUGUGGUGGUUGACGAUUUUUAAUCAUCUAGCUUUAAUGAUUUAUAUUUAUUAUAGGAUUCCUCUGGACUUUUCGACAGAUUUUUCCUUGCAG ....(((((((((((((.(.....).)))))))))))))....(((((...(((((((((..((((....(((....))).)))).....(((((((.(((((..(((.(((......))).))).))))))))))))..............)))))))))..)))))........((((....((((..........))))....))))..... (-45.80) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CUGCAAGGAAAAAUCUGUCGAAAAGUCCAGAGGAAUCCUAUAAUAAAUAUAAAUCAUUAAAGCUAGAUGAUUAAAAAUCGUCAACCACCACAAUAAAAGUGAGUUUUUCGAGAGCGAUUUGACAAACUGUUUCAUAUGUAUCCACUUCCUGAACUACUUUAAUAUCAUUAUAACACAAUACCAGAAUUGUCGGAUUGGCAACUCUGGUAUUUGAC .((((..((((....(((((((..(..(.(((((((.............................((((((.....))))))......(((.......))).)))))))..)..)..))))))).....))))...)))).................................((.(((((((((.(((((.....))))).))))))))))).. (-40.90) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 348 137 100 118 80 smit:SMT_1259|5end_hypothetical_protein_1225139..1225369_POSITIVE 287 135 93 188 155 smit:SMT_463|5end_para-aminobenzoate_synthetase_component_I_/_4-amino-4-deoxychorismate_lyase_401926..402156_POSITIVE 278 155 112 157 118 smit:SMT_206|5end_K07720_two-component_system,_response_regulator_YesN_138237..138467_NEGATIVE 257 41 9 76 46 smit:SMT_1189|5end_phosphoribosylaminoimidazole_carboxylase_ATPase_subunit_1147754..1147984_NEGATIVE 254 48 1 77 20 smit:SMT_1607|5end_K03341_putative_deoxyribonucleotide_triphosphate_pyrophosphatase_1596648..1596878_POSITIVE 243 53 11 150 114 smit:SMT_217|5end_hypothetical_protein_149236..149466_POSITIVE 237 76 31 155 104 smit:SMT_345|5end_K01990_ABC-2_type_transport_system_ATP-binding_protein_283992..284222_POSITIVE 232 121 81 114 78 smit:SMT_380|5end_hypothetical_protein_316376..316606_POSITIVE 232 121 81 114 78 smit:SMT_371|5end_hypothetical_protein_305248..305478_POSITIVE 231 209 168 88 46 smit:SMT_1351|5end_dephospho-CoA_kinase_1329817..1330047_NEGATIVE 231 127 87 216 172 smit:SMT_624|5end_K07584_hypothetical_protein_529870..530100_POSITIVE 230 66 21 90 41 smit:SMT_513|5end_16S_rRNA_processing_protein_RimM_440869..441099_POSITIVE 229 136 94 119 73 smit:SMT_1889|5end_hypothetical_protein_1842935..1843165_POSITIVE 229 196 153 113 70 smit:SMT_1274|5end_K02008_cobalt_transport_system_permease_protein_1237741..1237971_POSITIVE 229 210 168 123 73 smit:SMT_355|5end_hypothetical_protein_291622..291852_POSITIVE 228 48 1 93 32 smit:SMT_987|5end_N-acetylmannosamine_kinase_/_transcriptional_regulator_932224..932454_NEGATIVE 228 195 163 71 41 smit:SMT_102|5end_competence-specific_global_transcription_modulator_34108..34338_POSITIVE 227 198 156 225 173 smit:SMT_812|5end_acetyltransferase,_GNAT_family_721858..722088_NEGATIVE 222 130 86 57 21 smit:SMT_1120|5end_hypothetical_protein_1057063..1057293_NEGATIVE 222 36 8 183 160 smit:SMT_118|5end_K02026_multiple_sugar_transport_system_permease_protein_69430..69660_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 281 39 5 86 52 smit:SMT_422|3end_K02004_365876..366026_POSITIVE 257 41 9 89 59 smit:SMT_1190|3end_phosphoribosylaminoimidazole_carboxylase,_catalytic_subunit_1147741..1147891_NEGATIVE 254 48 1 80 23 smit:SMT_1606|3end_glutamate_racemase_1596731..1596881_POSITIVE 238 135 93 61 22 smit:SMT_262|3end_glutathione_peroxidase_201906..202056_NEGATIVE 236 129 87 76 20 smit:SMT_458|3end_hypothetical_protein_predicted_by_Glimmer/Critica_396729..396879_NEGATIVE 232 108 63 94 49 smit:SMT_1806|3end_aminoacylase/N-acyl-L-amino_acid_amidohydrolase/hippurate_hydrolase_1781644..1781794_POSITIVE 232 121 81 114 78 smit:SMT_379|3end_acetyltransferase,_GNAT_family_316456..316606_POSITIVE 232 121 81 114 78 smit:SMT_370|3end_acetyltransferase,_GNAT_family_305328..305478_POSITIVE 231 209 168 88 46 smit:SMT_1352|3end_formamidopyrimidine-DNA_glycosylase_1329817..1329967_NEGATIVE 231 127 87 78 34 smit:SMT_623|3end_50S_ribosomal_protein_L21_529812..529962_POSITIVE 230 66 21 59 10 smit:SMT_512|3end_hypothetical_protein_440918..441068_POSITIVE 230 153 116 150 107 smit:SMT_138|3end_tRNA_(5-methylaminomethyl-2-thiouridylate)-methyltransferase_90463..90613_POSITIVE 229 196 153 120 77 smit:SMT_1273|3end_K02006_cobalt_transport_system_ATP-binding_protein_1237828..1237978_POSITIVE 229 210 168 92 42 smit:SMT_354|3end_hypothetical_protein_291671..291821_POSITIVE 228 48 1 75 14 smit:SMT_988|3end_N-acetylneuraminate_lyase_932242..932392_NEGATIVE 227 157 111 127 72 smit:SMT_461|3end_mannose-6-phosphate_isomerase_400403..400553_POSITIVE 221 133 99 66 28 smit:SMT_1704|3end_D-alanine-D-alanine_ligase_1688554..1688704_POSITIVE 220 106 61 143 94 smit:SMT_886|3end_single-stranded-DNA-specific_exonuclease_RecJ_832599..832749_NEGATIVE 217 40 7 115 78 smit:SMT_2014|3end_tryptophan_synthase_beta_chain_1932727..1932877_POSITIVE 214 105 61 80 26 smit:SMT_1307|3end_glycerol_uptake_facilitator_protein_1272448..1272598_POSITIVE