Origin IGS: ttttagcctcacggaaattcataattaagtggatgatacgaaacctttagcggttatttacctaagtagaattaggtttggtgaactatatcggatatttaagataaataaattgatatgctccaagattccttactattgatactaaaacagatgaacttaagattataacgatgtcctgcggctatttattttgctaccgagtagacgccaatgaaagagtcgtaattagaaatatattaaaaaatacgatataaatttaaataaaattcaatttaagtaaaataaactga .........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 tcagtttattttacttaaattgaattttatttaaatttatatcgtattttttaatatatttctaattacgactctttcattggcgtctactcggtagcaaaataaatagccgcaggacatcgttataatcttaagttcatctgttttagtatcaatagtaaggaatcttggagcatatcaatttatttatcttaaatatccgatatagttcaccaaacctaattctacttaggtaaataaccgctaaaggtttcgtatcatccacttaattatgaatttccgtgaggctaaaa Mask Tandem Repeat Region ================================================ ttttagcctcacggaaattcataattaagtggatgatacgaaacctttagcggttatttacctaagtagaattaggtttggtgaactatatcggatatttaagataaataaattgatatgctccaagattccttactattgatactaaaacagatgaacttaagattataacgatgtcctgcggctatttattttgctaccgagtagacgccaatgaaagagtcgtaattagaaatatattaaaaaatacgatataaatttaaataaaattcaatttaagtaaaataaactga Find is-nt database================================================ Query_seq: AA01162:AA01164|AA01162:AA01164:conserved hypothetical protein (possible transmembrane protein):conserved hypothetical protein (possible integral membrane protein):->->:795837..796129 293 ttttagcctcacggaaattcataattaagtggatgatacgaaacctttagcggttatttacctaagtagaattaggtttggtgaactatatcggatatttaagataaataaattgatatgctccaagattccttactattgatactaaaacagatgaacttaagattataacgatgtcctgcggctatttattttgctaccgagtagacgccaatgaaagagtcgtaattagaaatatattaaaaaatacgatataaatttaaataaaattcaatttaagtaaaataaactga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA01162:AA01164|AA01162:AA01164:conserved hypothetical protein (possible transmembrane protein):conserved hypothetical protein (possible integral membrane protein):->->:795837..796129 293 ttttagcctcacggaaattcataattaagtggatgatacgaaacctttagcggttatttacctaagtagaattaggtttggtgaactatatcggatatttaagataaataaattgatatgctccaagattccttactattgatactaaaacagatgaacttaagattataacgatgtcctgcggctatttattttgctaccgagtagacgccaatgaaagagtcgtaattagaaatatattaaaaaatacgatataaatttaaataaaattcaatttaagtaaaataaactga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA01162:AA01164|AA01162:AA01164:conserved hypothetical protein (possible transmembrane protein):conserved hypothetical protein (possible integral membrane protein):->->:795837..796129 293 ttttagcctcacggaaattcataattaagtggatgatacgaaacctttagcggttatttacctaagtagaattaggtttggtgaactatatcggatatttaagataaataaattgatatgctccaagattccttactattgatactaaaacagatgaacttaagattataacgatgtcctgcggctatttattttgctaccgagtagacgccaatgaaagagtcgtaattagaaatatattaaaaaatacgatataaatttaaataaaattcaatttaagtaaaataaactga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ttttagcctcacggaaattcataattaagtggatgatacgaaacctttagcggttatttacctaagtagaattaggtttggtgaactatatcggatatttaagataaataaattgatatgctccaagattccttactattgatactaaaacagatgaacttaagattataacgatgtcctgcggctatttattttgctaccgagtagacgccaatgaaagagtcgtaattagaaatatattaaaaaatacgatataaatttaaataaaattcaatttaagtaaaataaactga Predict ORF larger than 30AA ================================================ Protein_Len: 37 Strand: + Start: 29 End: 139 ............................ M D D T K P L A V I Y L S R I R F G E L Y R I F K I N K L I C S K I P Y Y .......................................................................................................................................................... Protein_Len: 39 Strand: + Start: 138 End: 254 ......................................................................................................................................... M D T K T D E L K I I T M S C G Y L F C Y R V D A N E R V V I R N I L K N T I ....................................... ttttagcctcacggaaattcataattaagtggatgatacgaaacctttagcggttatttacctaagtagaattaggtttggtgaactatatcggatatttaagataaataaattgatatgctccaagattccttactattgatactaaaacagatgaacttaagattataacgatgtcctgcggctatttattttgctaccgagtagacgccaatgaaagagtcgtaattagaaatatattaaaaaatacgatataaatttaaataaaattcaatttaagtaaaataaactga 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================================================ ttttagcctcacggaaattcataattaagtggatgatacgaaacctttagcggttatttacctaagtagaattaggtttggtgaactatatcggatatttaagataaataaattgatatgctccaagattccttactattgatactaaaacagatgaacttaagattataacgatgtcctgcggctatttattttgctaccgagtagacgccaatgaaagagtcgtaattagaaatatattaaaaaatacgatataaatttaaataaaattcaatttaagtaaaataaactga Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 52 HP_score: -3.3 Tail_Score: -3.75933 Start: 61 End: 76 Full_Region: TTTAGCGGTTATTTA CCTAA GTAGAA TTAGG TTTGGTGAACTATAT ............................................................CCTAAGTAGAATTAGG......................................................................................................................................................................................................................... Find igs database================================================ Query_seq: AA01162:AA01164|AA01162:AA01164:conserved hypothetical protein (possible transmembrane protein):conserved hypothetical protein (possible integral membrane protein):->->:795837..796129 293 ttttagcctcacggaaattcataattaagtggatgatacgaaacctttagcggttatttacctaagtagaattaggtttggtgaactatatcggatatttaagataaataaattgatatgctccaagattccttactattgatactaaaacagatgaacttaagattataacgatgtcctgcggctatttattttgctaccgagtagacgccaatgaaagagtcgtaattagaaatatattaaaaaatacgatataaatttaaataaaattcaatttaagtaaaataaactga Intra-Species Hit: Count: 1 Min: 1 Max: 225 Len: 225 Subject: aact_AA01162_AA01164|conserved hypothetical protein (possible transmembrane protein):conserved hypothetical protein (possible integral membrane protein)|POSITIVE:POSITIVE|[795837,796129]|293 HSP 1 e-value: 1.0E-124 bit: 446.0 Len: 225 Query Start:1 Query End:225 Subject Strand: POSITIVE Subject Start: 1 Subject End: 225 ttttagcctcacggaaattcataattaagtggatgatacgaaacctttagcggttatttacctaagtagaattaggtttggtgaactatatcggatatttaagataaataaattgatatgctccaagattccttactattgatactaaaacagatgaacttaagattataacgatgtcctgcggctatttattttgctaccgagtagacgccaatgaaagagtcg.................................................................... ttttagcctcacggaaattcataattaagtggatgatacgaaacctttagcggttatttacctaagtagaattaggtttggtgaactatatcggatatttaagataaataaattgatatgctccaagattccttactattgatactaaaacagatgaacttaagattataacgatgtcctgcggctatttattttgctaccgagtagacgccaatgaaagagtcg.................................................................... Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUUAGCCUCACGGAAAUUCAUAAUUAAGUGGAUGAUACGAAACCUUUAGCGGUUAUUUACCUAAGUAGAAUUAGGUUUGGUGAACUAUAUCGGAUAUUUAAGAUAAAUAAAUUGAUAUGCUCCAAGAUUCCUUACUAUUGAUACUAAAACAGAUGAACUUAAGAUUAUAACGAUGUCCUGCGGCUAUUUAUUUUGCUACCGAGUAGACGCCAAUGAAAGAGUCG .....(.(((.((...((((((......))))))....)).((((......))))....((((((......))))))((((((..((((.((((.((..(((((((((((.........(((.((.(((((.(((..(((.......................)))..))).)).))).)).)))))))))))))).)))))))))).)))))).....))).). (-37.40) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CGACUCUUUCAUUGGCGUCUACUCGGUAGCAAAAUAAAUAGCCGCAGGACAUCGUUAUAAUCUUAAGUUCAUCUGUUUUAGUAUCAAUAGUAAGGAAUCUUGGAGCAUAUCAAUUUAUUUAUCUUAAAUAUCCGAUAUAGUUCACCAAACCUAAUUCUACUUAGGUAAAUAACCGCUAAAGGUUUCGUAUCAUCCACUUAAUUAUGAAUUUCCGUGAGGCUAAAA .(((.((......)).)))...................(((((.(((((.....(((((((..(((((....(((((........)))))...((((((((.(((((((((....((((((...))))))...))))).)))).....((((((......))))))............)))))))).........))))))))))))...))).)).)))))... (-42.80) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 304 48 4 160 110 aact:AA01153|5end_sec-independent_protein_translocase_790166..790396_POSITIVE 297 211 172 172 132 aact:AA00805|5end_fumarate_reductase_iron-sulfur_protein_551583..551813_POSITIVE 296 212 172 211 169 aact:AA00668|5end_cytolethal_distending_toxin_protein_B_458514..458744_POSITIVE 286 212 172 172 135 aact:AA02266|5end_exodeoxyribonuclease_V_beta_chain_1541680..1541910_POSITIVE 281 215 175 127 69 aact:AA00449|5end_conserved_hypothetical_protein_312996..313226_POSITIVE 278 216 172 77 37 aact:AA00452|5end_phosphomannomutase;_phosphoglucomutase_315288..315518_POSITIVE 274 220 172 61 14 aact:AA01658|5end_maltose_operon_periplasmic_protein_precursor_1124104..1124334_POSITIVE 273 214 179 195 168 aact:AA00615|5end_cation_transport_protein_420529..420759_POSITIVE 271 212 171 35 3 aact:AA00325|5end_conserved_hypothetical_protein_221314..221544_POSITIVE 268 214 171 216 169 aact:AA00803|5end_hypothetical_protein_549526..549756_POSITIVE 267 215 173 180 138 aact:AA01253|5end_hypothetical_protein_852189..852419_POSITIVE 264 212 172 62 22 aact:AA00993|5end_possible_D-tyrosyl-tRNA(Tyr)_deacylase_694488..694718_POSITIVE 263 213 172 217 168 aact:AA01556|5end_ABC_transporter_ATP-binding_protein_1044218..1044448_POSITIVE 261 219 179 72 37 aact:AA01688|5end_conserved_hypothetical_protein;_possible_membrane_protein_1139635..1139865_POSITIVE 260 216 172 179 129 aact:AA03006|5end_ribonuclease_III_2099410..2099640_POSITIVE 259 212 171 197 147 aact:AA02972|5end_conserved_hypothetical_protein_(tyrosine_phenol_lyase-related_protein)_2077381..2077611_POSITIVE 257 219 171 71 29 aact:AA01615|5end_lipoprotein_releasing_system_transmembrane_1091186..1091416_POSITIVE 255 212 174 204 163 aact:AA01815|5end_probable_sodium-dependent_transmembrane_transport_protein_1222541..1222771_POSITIVE 254 218 171 101 54 aact:AA01169|5end_hypothetical_protein_801985..802215_POSITIVE 254 217 181 48 18 aact:AA00680|5end_sodium/proline_symporter_(proline_permease)_464899..465129_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 304 48 4 119 69 aact:AA01152|3end_sec-independent_protein_translocase_protein_790205..790355_POSITIVE 281 215 175 109 51 aact:AA00448|3end_C-terminal_region_of_competence_protein_M_313058..313208_POSITIVE 278 216 172 57 17 aact:AA00451|3end_hypothetical_protein_315348..315498_POSITIVE 268 214 171 149 102 aact:AA00801|3end_lysine--tRNA_ligase_549539..549689_POSITIVE 264 212 172 62 22 aact:AA00992|3end_ribonuclease_BN_694568..694718_POSITIVE 264 213 179 151 125 aact:AA00614|3end_ribonuclease_HII_(RNase_HII)_420566..420716_POSITIVE 259 212 171 127 77 aact:AA02970|3end_tyrosine_phenol-lyase_2077391..2077541_POSITIVE 256 219 178 34 2 aact:AA00507|3end_hypothetical_protein_353201..353351_POSITIVE 254 218 171 54 7 aact:AA01168|3end_6-phosphogluconolactonase_802018..802168_POSITIVE 253 213 171 91 48 aact:AA02810|3end_glycine_hydroxymethyltransferase;_serine_hydroxymethyltransferase_1979524..1979674_POSITIVE 252 217 171 72 19 aact:AA02874|3end_hypothetical_protein_2017899..2018049_POSITIVE 249 212 172 128 85 aact:AA02217|3end_deoxyribose-phosphate_aldolase_1509835..1509985_POSITIVE 249 211 171 139 91 aact:AA00558|3end_UDP-n-acetylenolpyruvoylglucosamine_reductase_383228..383378_POSITIVE 248 218 172 130 69 aact:AA00985|3end_transcriptional_regulator_(LysR_family)_689741..689891_POSITIVE 247 211 172 77 32 aact:AA00534|3end_hypothetical_protein_365594..365744_POSITIVE 245 213 172 116 73 aact:AA01252|3end_conserved_hypothetical_protein_(probable_SirA_homolog)_852282..852432_POSITIVE 244 210 172 53 7 aact:AA00961|3end_conserved_hypothetical_protein_671134..671284_POSITIVE 243 213 172 82 30 aact:AA02268|3end_hypothetical_protein_1545973..1546123_POSITIVE 240 217 179 122 75 aact:AA02108|3end_2-acylglycerophosphoethanolamine_acyltransferase;_acyl-acyl_carrier_protein_synthetase_1436643..1436793_POSITIVE 239 216 171 148 108 aact:AA01273|3end_hypothetical_protein_864588..864738_POSITIVE