Origin IGS: gttacttcctaatgttattcaattacagaaaggctacattatagagattattcgacaaatttgaattttttttaccccggggcggcaaatttcaggcaaaaaaaacgcctcttttgtgggggaggaggcgctaaatgttggagtgattatctattttattgtttgaatggtctaaatgataattgttctcaaatatgaagtcaagcaccttaatgaaaataattatcaaataaatggcgattcaaactta .........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 taagtttgaatcgccatttatttgataattattttcattaaggtgcttgacttcatatttgagaacaattatcatttagaccattcaaacaataaaatagataatcactccaacatttagcgcctcctcccccacaaaagaggcgttttttttgcctgaaatttgccgccccggggtaaaaaaaattcaaatttgtcgaataatctctataatgtagcctttctgtaattgaataacattaggaagtaac Mask Tandem Repeat Region ================================================ gttacttcctaatgttattcaattacagaaaggctacattatagagattattcgacaaatttgaattttttttaccccggggcggcaaatttcaggcaaaaaaaacgcctcttttgtgggggaggaggcgctaaatgttggagtgattatctattttattgtttgaatggtctaaatgataattgttctcaaatatgaagtcaagcaccttaatgaaaataattatcaaataaatggcgattcaaactta Find is-nt database================================================ Query_seq: AA01936:AA01937|AA01936:AA01937:tyrosyl-tRNA synthetase:sugar fermentation stimulation protein:->->:1308368..1308617 250 gttacttcctaatgttattcaattacagaaaggctacattatagagattattcgacaaatttgaattttttttaccccggggcggcaaatttcaggcaaaaaaaacgcctcttttgtgggggaggaggcgctaaatgttggagtgattatctattttattgtttgaatggtctaaatgataattgttctcaaatatgaagtcaagcaccttaatgaaaataattatcaaataaatggcgattcaaactta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA01936:AA01937|AA01936:AA01937:tyrosyl-tRNA synthetase:sugar fermentation stimulation protein:->->:1308368..1308617 250 gttacttcctaatgttattcaattacagaaaggctacattatagagattattcgacaaatttgaattttttttaccccggggcggcaaatttcaggcaaaaaaaacgcctcttttgtgggggaggaggcgctaaatgttggagtgattatctattttattgtttgaatggtctaaatgataattgttctcaaatatgaagtcaagcaccttaatgaaaataattatcaaataaatggcgattcaaactta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA01936:AA01937|AA01936:AA01937:tyrosyl-tRNA synthetase:sugar fermentation stimulation protein:->->:1308368..1308617 250 gttacttcctaatgttattcaattacagaaaggctacattatagagattattcgacaaatttgaattttttttaccccggggcggcaaatttcaggcaaaaaaaacgcctcttttgtgggggaggaggcgctaaatgttggagtgattatctattttattgtttgaatggtctaaatgataattgttctcaaatatgaagtcaagcaccttaatgaaaataattatcaaataaatggcgattcaaactta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gttacttcctaatgttattcaattacagaaaggctacattatagagattattcgacaaatttgaattttttttaccccggggcggcaaatttcaggcaaaaaaaacgcctcttttgtgggggaggaggcgctaaatgttggagtgattatctattttattgtttgaatggtctaaatgataattgttctcaaatatgaagtcaagcaccttaatgaaaataattatcaaataaatggcgattcaaactta Predict ORF larger than 30AA ================================================ Protein_Len: 33 Strand: + Start: 65 End: 163 ................................................................ M F F T P G R Q I S G K K N A S F V G E E A L N V G V I I Y F I V ....................................................................................... Protein_Len: 58 Strand: + Start: 22 End: 195 ..................... M T E R L H Y R D Y S T N L N F F Y P G A A N F R Q K K R L F C G G G G A K C W S D Y L F Y C L N G L N D N C S Q I ....................................................... Protein_Len: 36 Strand: - Start: 134 End: 241 ..................................................................................................................................... I N S H N D I K N N S H D L H Y N N E F I F D L V K I F I I I L Y I A M ......... Protein_Len: 38 Strand: - Start: 37 End: 150 .................................... M I S I I R C I Q I K K V G P R C I E P L F F A E K T P S S A S F T P T I M .................................................................................................... gttacttcctaatgttattcaattacagaaaggctacattatagagattattcgacaaatttgaattttttttaccccggggcggcaaatttcaggcaaaaaaaacgcctcttttgtgggggaggaggcgctaaatgttggagtgattatctattttattgtttgaatggtctaaatgataattgttctcaaatatgaagtcaagcaccttaatgaaaataattatcaaataaatggcgattcaaactta 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: 85 Start: 176 End: 205 ...............................................................................................................................................................................CTTGACTTCATATTTGAGAACAATTATCAT............................................. Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ gttacttcctaatgttattcaattacagaaaggctacattatagagattattcgacaaatttgaattttttttaccccggggcggcaaatttcaggcaaaaaaaacgcctcttttgtgggggaggaggcgctaaatgttggagtgattatctattttattgtttgaatggtctaaatgataattgttctcaaatatgaagtcaagcaccttaatgaaaataattatcaaataaatggcgattcaaactta Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 86 HP_score: -2.8 Tail_Score: -5.81412 Start: 106 End: 130 Full_Region: cactccaacatttag cgcctcct cccccacaa aagaggcg ttttttttgcctgaa .........................................................................................................cgcctcctcccccacaaaagaggcg........................................................................................................................ Find igs database================================================ Query_seq: AA01936:AA01937|AA01936:AA01937:tyrosyl-tRNA synthetase:sugar fermentation stimulation protein:->->:1308368..1308617 250 gttacttcctaatgttattcaattacagaaaggctacattatagagattattcgacaaatttgaattttttttaccccggggcggcaaatttcaggcaaaaaaaacgcctcttttgtgggggaggaggcgctaaatgttggagtgattatctattttattgtttgaatggtctaaatgataattgttctcaaatatgaagtcaagcaccttaatgaaaataattatcaaataaatggcgattcaaactta Intra-Species Hit: Count: 1 Min: 1 Max: 250 Len: 250 Subject: aact_AA01936_AA01937|tyrosyl-tRNA synthetase:sugar fermentation stimulation protein|POSITIVE:POSITIVE|[1308368,1308617]|250 HSP 1 e-value: 1.0E-111 bit: 400.0 Len: 250 Query Start:1 Query End:250 Subject Strand: POSITIVE Subject Start: 1 Subject End: 250 gttacttcctaatgttattcaattacagaaaggctacattatagagattattcgacaaatttgaannnnnnnnaccccggggcggcaaatttcaggcnnnnnnnncgcctcttttgtgggggaggaggcgctaaatgttggagtgattatctattttattgtttgaatggtctaaatgataattgttctcaaatatgaagtcaagcaccttaatgaaaataattatcaaataaatggcgattcaaactta gttacttcctaatgttattcaattacagaaaggctacattatagagattattcgacaaatttgaattttttttaccccggggcggcaaatttcaggcaaaaaaaacgcctcttttgtgggggaggaggcgctaaatgttggagtgattatctattttattgtttgaatggtctaaatgataattgttctcaaatatgaagtcaagcaccttaatgaaaataattatcaaataaatggcgattcaaactta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GUUACUUCCUAAUGUUAUUCAAUUACAGAAAGGCUACAUUAUAGAGAUUAUUCGACAAAUUUGAAUUUUUUUUACCCCGGGGCGGCAAAUUUCAGGCAAAAAAAACGCCUCUUUUGUGGGGGAGGAGGCGCUAAAUGUUGGAGUGAUUAUCUAUUUUAUUGUUUGAAUGGUCUAAAUGAUAAUUGUUCUCAAAUAUGAAGUCAAGCACCUUAAUGAAAAUAAUUAUCAAAUAAAUGGCGAUUCAAACUUA ((((((.((.((((((...........((((.(((......((((((..((((((.....))))))..))))))((....)).)))...))))............((((((((((.....))))))))))...)))))))))))))).............((((((((.(((....(((((((((((.(((......(((........)))..))).))))))))))).......))).))))))))... (-56.80) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAGUUUGAAUCGCCAUUUAUUUGAUAAUUAUUUUCAUUAAGGUGCUUGACUUCAUAUUUGAGAACAAUUAUCAUUUAGACCAUUCAAACAAUAAAAUAGAUAAUCACUCCAACAUUUAGCGCCUCCUCCCCCACAAAAGAGGCGUUUUUUUUGCCUGAAAUUUGCCGCCCCGGGGUAAAAAAAAUUCAAAUUUGUCGAAUAAUCUCUAUAAUGUAGCCUUUCUGUAAUUGAAUAACAUUAGGAAGUAAC ...((((((((.(...((((..((((((((.((((((.....(((........)))...)))))).))))))))..))))).)))))))).........(((((...............(((((((.............)))))))(((((((((((................)))))))))))........)))))........(((.((((((.....(((.......)))..)))))))))...... (-46.71) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 405 118 71 220 164 aact:AA02220|5end_ABC_transport_system_permease_protein_1511155..1511385_POSITIVE 369 120 75 153 103 aact:AA01902|5end_conserved_hypothetical_protein_1282997..1283227_POSITIVE 352 120 71 189 132 aact:AA02929|5end_hypothetical_protein_2049189..2049419_POSITIVE 344 118 71 76 20 aact:AA01953|5end_hypothetical_protein_1320132..1320362_POSITIVE 329 146 105 171 127 aact:AA01837|5end_transcriptional_regulatory_protein_1235450..1235680_POSITIVE 327 137 106 177 132 aact:AA00113|5end_uracil_phosphoribosyltransferase_81286..81516_POSITIVE 320 128 82 168 126 aact:AA02484|5end_ABC_transporter,_ATP-binding_protein_1721077..1721307_POSITIVE 320 148 106 176 133 aact:AA00534|5end_hypothetical_protein_365419..365649_POSITIVE 320 148 106 80 37 aact:AA00533|5end_conserved_hypothetical_protein_365323..365553_POSITIVE 315 145 107 218 174 aact:AA01174|5end_hypothetical_protein_804700..804930_POSITIVE 312 148 114 191 157 aact:AA02601|5end_ATP-dependent_helicase_1811397..1811627_POSITIVE 308 129 81 218 181 aact:AA02696|5end_formate_hydrogenlyase_maturation_protein_1879476..1879706_POSITIVE 306 130 81 59 11 aact:AA01718|5end_DNA_polymerase_III,_chi_subunit_1162790..1163020_POSITIVE 306 117 71 196 142 aact:AA00054|5end_cytochrome_c_biogenesis_protein_41393..41623_POSITIVE 305 142 109 198 161 aact:AA01187|5end_conserved_hypothetical_protein_813331..813561_POSITIVE 305 129 81 118 80 aact:AA00401|5end_FKBP-type_peptidyl-prolyl_cis-trans_isomerase_slyD_(PPiase)_268361..268591_POSITIVE 299 130 83 177 133 aact:AA01988|5end_dihydrolipoamide_dehydrogenase;_lipoamide_dehydrogenase_1350517..1350747_POSITIVE 299 130 83 75 31 aact:AA01987|5end_hypothetical_protein_1350415..1350645_POSITIVE 298 142 106 230 198 aact:AA01313|5end_deoxyuridinetriphosphatase;_deoxyuridine_5'-triphosphate_nucleotidohydrolase_889567..889797_POSITIVE 298 120 77 74 27 aact:AA00527|5end_ATP-dependent_DNA_helicase_359371..359601_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 327 137 106 50 5 aact:AA00112|3end_uracil_permease_81239..81389_POSITIVE 323 99 71 134 107 aact:AA02928|3end_conserved_hypothetical_protein_2049244..2049394_POSITIVE 320 128 82 72 30 aact:AA02483|3end_hypothetical_protein_1721061..1721211_POSITIVE 320 148 106 62 19 aact:AA00531|3end_DNA_polymerase_I_365385..365535_POSITIVE 308 129 81 80 43 aact:AA02695|3end_hydrogenase-3_component_G_1879418..1879568_POSITIVE 305 130 81 39 2 aact:AA00399|3end_conserved_hypothetical_protein_268363..268513_POSITIVE 303 88 48 81 40 aact:AA00691|3end_conserved_hypothetical_protein_(possible_multidrug/sugar_efflux_transporter)_473155..473305_POSITIVE 299 130 83 80 36 aact:AA01986|3end_pyruvate_dehydrogenase_complex_E2_1350500..1350650_POSITIVE 298 120 77 82 35 aact:AA00525|3end_hypothetical_protein_359459..359609_POSITIVE 296 140 91 105 50 aact:AA01927|3end_conserved_hypothetical_protein_1301991..1302141_POSITIVE 295 120 74 149 102 aact:AA00384|3end_conserved_hypothetical_protein_(possible_nitrogen_fixation_protein)_261168..261318_POSITIVE 291 146 103 76 37 aact:AA01903|3end_hypothetical_protein_1284215..1284365_POSITIVE 289 129 81 65 27 aact:AA01269|3end_hypothetical_protein_863413..863563_POSITIVE 289 140 93 96 38 aact:AA00361|3end_50S_ribosomal_protein_L16_244910..245060_POSITIVE 284 130 81 126 80 aact:AA00549|3end_ferredoxin-type_protein_376521..376671_POSITIVE 283 122 81 139 93 aact:AA00976|3end_conserved_hypothetical_protein_682278..682428_POSITIVE 282 144 104 78 45 aact:AA01301|3end_competence_protein_B_882095..882245_POSITIVE 281 82 42 151 104 aact:AA02219|3end_LACI-type_transcriptional_regulator_1511207..1511357_POSITIVE 280 98 75 145 122 aact:AA03010|3end_thiophene_and_furan_oxidation_protein_2102534..2102684_POSITIVE 280 109 65 90 42 aact:AA01934|3end_conserved_hypothetical_protein_1306993..1307143_POSITIVE