Origin IGS: tgccgactctccaatcatacaaaattcacgcaagctgggcgtaagcttatcatatttttgcaaaattgatgatagacaaagtttgatttttttcaccgtactttgtatcctgaacctcttttttcttagggataacgct .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 agcgttatccctaagaaaaaagaggttcaggatacaaagtacggtgaaaaaaatcaaactttgtctatcatcaattttgcaaaaatatgataagcttacgcccagcttgcgtgaattttgtatgattggagagtcggca Mask Tandem Repeat Region ================================================ tgccgactctccaatcatacaaaattcacgcaagctgggcgtaagcttatcatatttttgcaaaattgatgatagacaaagtttgatttttttcaccgtactttgtatcctgaacctcttttttcttagggataacgct Find is-nt database================================================ Query_seq: AA02410:AA02411|AA02410:AA02411:cell division protein:cysteine synthetase:->->:1656604..1656742 139 tgccgactctccaatcatacaaaattcacgcaagctgggcgtaagcttatcatatttttgcaaaattgatgatagacaaagtttgatttttttcaccgtactttgtatcctgaacctcttttttcttagggataacgct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA02410:AA02411|AA02410:AA02411:cell division protein:cysteine synthetase:->->:1656604..1656742 139 tgccgactctccaatcatacaaaattcacgcaagctgggcgtaagcttatcatatttttgcaaaattgatgatagacaaagtttgatttttttcaccgtactttgtatcctgaacctcttttttcttagggataacgct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA02410:AA02411|AA02410:AA02411:cell division protein:cysteine synthetase:->->:1656604..1656742 139 tgccgactctccaatcatacaaaattcacgcaagctgggcgtaagcttatcatatttttgcaaaattgatgatagacaaagtttgatttttttcaccgtactttgtatcctgaacctcttttttcttagggataacgct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tgccgactctccaatcatacaaaattcacgcaagctgggcgtaagcttatcatatttttgcaaaattgatgatagacaaagtttgatttttttcaccgtactttgtatcctgaacctcttttttcttagggataacgct Predict ORF larger than 30AA ================================================ Protein_Len: 42 Strand: + Start: 14 End: 139 ............. M I Q N S R K L G V S L S Y F C K I D D R Q S L I F F T V L C I L N L F F L R D N A Protein_Len: 36 Strand: - Start: 1 End: 108 A S E G I M C F E R L S P T L K D Y K Q L I S S L C L K I K K V T S Q M ............................... tgccgactctccaatcatacaaaattcacgcaagctgggcgtaagcttatcatatttttgcaaaattgatgatagacaaagtttgatttttttcaccgtactttgtatcctgaacctcttttttcttagggataacgct 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: 82 Start: 24 End: 53 .......................ATTCACGCAAGCTGGGCGTAAGCTTATCAT...................................................................................... PromScan Matrix: RpoD-17 Strand: + Score: 82 Start: 82 End: 111 .................................................................................TTTGATTTTTTTCACCGTACTTTGTATCCT............................ Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ tgccgactctccaatcatacaaaattcacgcaagctgggcgtaagcttatcatatttttgcaaaattgatgatagacaaagtttgatttttttcaccgtactttgtatcctgaacctcttttttcttagggataacgct Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: AA02410:AA02411|AA02410:AA02411:cell division protein:cysteine synthetase:->->:1656604..1656742 139 tgccgactctccaatcatacaaaattcacgcaagctgggcgtaagcttatcatatttttgcaaaattgatgatagacaaagtttgatttttttcaccgtactttgtatcctgaacctcttttttcttagggataacgct Intra-Species Hit: Count: 1 Min: 1 Max: 139 Len: 139 Subject: aact_AA02410_AA02411|cell division protein:cysteine synthetase|POSITIVE:POSITIVE|[1656604,1656742]|139 HSP 1 e-value: 6.0E-61 bit: 234.0 Len: 139 Query Start:1 Query End:139 Subject Strand: POSITIVE Subject Start: 1 Subject End: 139 tgccgactctccaatcatacaaaattcacgcaagctgggcgtaagcttatcatatttttgcaaaattgatgatagacaaagtttgannnnnnncaccgtactttgtatcctgaacctcttttttcttagggataacgct tgccgactctccaatcatacaaaattcacgcaagctgggcgtaagcttatcatatttttgcaaaattgatgatagacaaagtttgatttttttcaccgtactttgtatcctgaacctcttttttcttagggataacgct Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGCCGACUCUCCAAUCAUACAAAAUUCACGCAAGCUGGGCGUAAGCUUAUCAUAUUUUUGCAAAAUUGAUGAUAGACAAAGUUUGAUUUUUUUCACCGUACUUUGUAUCCUGAACCUCUUUUUUCUUAGGGAUAACGCU .((....((((..(((((.(((......(....).(((((....)))))................))))))))..(((((((.(((......)))....)))))))......................))))....)). (-22.20) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGCGUUAUCCCUAAGAAAAAAGAGGUUCAGGAUACAAAGUACGGUGAAAAAAAUCAAACUUUGUCUAUCAUCAAUUUUGCAAAAAUAUGAUAAGCUUACGCCCAGCUUGCGUGAAUUUUGUAUGAUUGGAGAGUCGGCA .((....((.....)).......(..((..((((((((((..(((.......)))..)))))))..))).((((((.(((((((.((((.((((((.......))))))))))..))))))).)))))).))..).)). (-28.20) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 393 42 2 213 181 aact:AA02533|5end_zinc_protease;_peptidase_1762010..1762240_POSITIVE 308 118 73 165 123 aact:AA00632|5end_inner_membrane_protein_ImpA_434127..434357_POSITIVE 299 46 14 215 187 aact:AA02439|5end_integral_membrane_protein;_possible_ABC_transporter_permease_1683902..1684132_POSITIVE 286 48 1 204 151 aact:AA00820|5end_succinyl-diaminopimelate_desuccinylase_563326..563556_POSITIVE 284 75 34 215 170 aact:AA02507|5end_penicillin-insensitive_murein_endopeptidase_A_1740058..1740288_POSITIVE 264 48 1 193 135 aact:AA01146|5end_conserved_hypothetical_protein_784433..784663_POSITIVE 262 120 73 174 121 aact:AA02920|5end_hypothetical_protein_2045394..2045624_POSITIVE 262 42 4 206 161 aact:AA01914|5end_conserved_hypothetical_protein_1290126..1290356_POSITIVE 262 62 30 229 191 aact:AA01880|5end_N-acetylglucosamine_repressor_1267083..1267313_POSITIVE 261 47 2 200 145 aact:AA02524|5end_orotidine_5'-phosphate_decarboxylase_1753313..1753543_POSITIVE 259 41 2 63 25 aact:AA01476|5end_hypothetical_protein_991402..991632_POSITIVE 259 63 24 55 5 aact:AA01393|5end_ABC_transporter,_ATP-binding_protein_940369..940599_POSITIVE 258 46 25 192 170 aact:AA00862|5end_conserved_hypothetical_protein_596465..596695_POSITIVE 257 66 26 102 56 aact:AA02154|5end_possible_ATP-binding_protein_of_ABC_transporter_1473543..1473773_POSITIVE 253 42 24 173 157 aact:AA01413|5end_conserved_hypothetical_protein_951773..952003_POSITIVE 253 57 13 68 20 aact:AA00579|5end_probable_DNA_recombination_protein_395265..395495_POSITIVE 252 112 78 148 114 aact:AA02344|5end_GTP-binding_protein,_elongation_factor_typA/bipA_1601966..1602196_POSITIVE 252 53 11 163 124 aact:AA01892|5end_hypothetical_protein_1276688..1276918_POSITIVE 251 118 78 150 110 aact:AA02695|5end_hydrogenase-3_component_G_1878565..1878795_POSITIVE 251 69 29 191 153 aact:AA02501|5end_DNA_polymerase_III,_subunits_gamma_and_tau_1735504..1735734_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 393 42 2 132 100 aact:AA02532|3end_conserved_hypothetical_protein_1762009..1762159_POSITIVE 314 41 1 126 78 aact:AA00574|3end_regulatory_protein_392381..392531_POSITIVE 264 48 1 140 82 aact:AA01145|3end_glycyl-tRNA_synthetase_alpha_subunit_784460..784610_POSITIVE 257 66 26 99 53 aact:AA02153|3end_iron(III)_ABC_transporter,_permease_protein_1473620..1473770_POSITIVE 253 42 24 137 121 aact:AA01411|3end_stationary-phase_survival_protein_951817..951967_POSITIVE 251 118 78 150 110 aact:AA02693|3end_hydrogenase-4_component_H_1878645..1878795_POSITIVE 249 117 71 88 37 aact:AA01557|3end_recombinase_A_1045965..1046115_POSITIVE 248 43 1 77 16 aact:AA02792|3end_GlpT/UhpT_family_transporter_(hexosphosphate_transport)_1961037..1961187_POSITIVE 247 41 3 59 32 aact:AA00978|3end_conserved_hypothetical_protein_684585..684735_POSITIVE 246 40 4 151 118 aact:AA02076|3end_conserved_hypothetical_protein_1411094..1411244_POSITIVE 241 48 1 149 97 aact:AA01561|3end_conserved_hypothetical_protein_1046971..1047121_POSITIVE 240 43 1 134 92 aact:AA02806|3end_leukotoxin_A;_hemolysin_A_1977166..1977316_POSITIVE 239 48 3 146 98 aact:AA01284|3end_heat_shock_protein_(hsp60)_870294..870444_POSITIVE 239 60 14 150 109 aact:AA01211|3end_ATP-dependent_Clp_protease,_ATPase_subunit_829682..829832_POSITIVE 234 63 24 87 55 aact:AA01994|3end_chorismate_mutase;_prephenate_dehydrogenase_1355251..1355401_POSITIVE 233 117 89 79 44 aact:AA01289|3end_hypothetical_protein_872848..872998_POSITIVE 233 47 1 60 13 aact:AA01233|3end_50S_ribosomal_protein_L6_841463..841613_POSITIVE 233 103 63 144 103 aact:AA00449|3end_conserved_hypothetical_protein_313909..314059_POSITIVE 231 69 22 67 24 aact:AA02278|3end_conserved_hypothetical_protein_1551033..1551183_POSITIVE 227 103 66 114 62 aact:AA02074|3end_hypothetical_protein_1409656..1409806_POSITIVE