Origin IGS: taaactttgctcataacagaacgttaacaaacaagccacaaaaacactacatcttgtgtcttgaaatcctaaaaatatctatatatagtattatccaattttttataacactaaatatggacatctctc .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 gagagatgtccatatttagtgttataaaaaattggataatactatatatagatatttttaggatttcaagacacaagatgtagtgtttttgtggcttgtttgttaacgttctgttatgagcaaagttta Mask Tandem Repeat Region ================================================ taaactttgctcataacagaacgttaacaaacaagccacaaaaacactacatcttgtgtcttgaaatcctaaaaatatctatatatagtattatccaattttttataacactaaatatggacatctctc Find is-nt database================================================ Query_seq: AA00235:AA00236|AA00235:AA00236:hypothetical protein:anaerobic ribonucleoside-triphosphate reductase:->->:168829..168957 129 taaactttgctcataacagaacgttaacaaacaagccacaaaaacactacatcttgtgtcttgaaatcctaaaaatatctatatatagtattatccaattttttataacactaaatatggacatctctc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA00235:AA00236|AA00235:AA00236:hypothetical protein:anaerobic ribonucleoside-triphosphate reductase:->->:168829..168957 129 taaactttgctcataacagaacgttaacaaacaagccacaaaaacactacatcttgtgtcttgaaatcctaaaaatatctatatatagtattatccaattttttataacactaaatatggacatctctc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA00235:AA00236|AA00235:AA00236:hypothetical protein:anaerobic ribonucleoside-triphosphate reductase:->->:168829..168957 129 taaactttgctcataacagaacgttaacaaacaagccacaaaaacactacatcttgtgtcttgaaatcctaaaaatatctatatatagtattatccaattttttataacactaaatatggacatctctc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taaactttgctcataacagaacgttaacaaacaagccacaaaaacactacatcttgtgtcttgaaatcctaaaaatatctatatatagtattatccaattttttataacactaaatatggacatctctc Predict ORF larger than 30AA ================================================ taaactttgctcataacagaacgttaacaaacaagccacaaaaacactacatcttgtgtcttgaaatcctaaaaatatctatatatagtattatccaattttttataacactaaatatggacatctctc 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: 60 End: 89 ...........................................................CTTGAAATCCTAAAAATATCTATATATAGT........................................ Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ taaactttgctcataacagaacgttaacaaacaagccacaaaaacactacatcttgtgtcttgaaatcctaaaaatatctatatatagtattatccaattttttataacactaaatatggacatctctc Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 58 HP_score: -3.8 Tail_Score: -4.21989 Start: 32 End: 63 Full_Region: atatttttaggattt caagacacaaga tgtagtgt ttttgtggcttg tttgttaacgttctg ...............................caagacacaagatgtagtgtttttgtggcttg.................................................................. Find igs database================================================ Query_seq: AA00235:AA00236|AA00235:AA00236:hypothetical protein:anaerobic ribonucleoside-triphosphate reductase:->->:168829..168957 129 taaactttgctcataacagaacgttaacaaacaagccacaaaaacactacatcttgtgtcttgaaatcctaaaaatatctatatatagtattatccaattttttataacactaaatatggacatctctc Intra-Species Hit: Count: 1 Min: 1 Max: 129 Len: 129 Subject: aact_AA00235_AA00236|hypothetical protein:anaerobic ribonucleoside-triphosphate reductase|POSITIVE:POSITIVE|[168829,168957]|129 HSP 1 e-value: 2.0E-67 bit: 256.0 Len: 129 Query Start:1 Query End:129 Subject Strand: POSITIVE Subject Start: 1 Subject End: 129 taaactttgctcataacagaacgttaacaaacaagccacaaaaacactacatcttgtgtcttgaaatcctaaaaatatctatatatagtattatccaattttttataacactaaatatggacatctctc taaactttgctcataacagaacgttaacaaacaagccacaaaaacactacatcttgtgtcttgaaatcctaaaaatatctatatatagtattatccaattttttataacactaaatatggacatctctc Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAACUUUGCUCAUAACAGAACGUUAACAAACAAGCCACAAAAACACUACAUCUUGUGUCUUGAAAUCCUAAAAAUAUCUAUAUAUAGUAUUAUCCAAUUUUUUAUAACACUAAAUAUGGACAUCUCUC .............((((.....)))).....((((.(((((............))))).))))..............(((((((.((((.((((..........)))).)))).)))))))........ (-16.60) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GAGAGAUGUCCAUAUUUAGUGUUAUAAAAAAUUGGAUAAUACUAUAUAUAGAUAUUUUUAGGAUUUCAAGACACAAGAUGUAGUGUUUUUGUGGCUUGUUUGUUAACGUUCUGUUAUGAGCAAAGUUUA .(((((((((.((((.(((((((((..........))))))))).)))).)))))))))..(((..((((.(((((((........))))))).))))...)))...((((......))))........ (-31.80) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 249 69 21 89 44 aact:AA02811|5end_hypothetical_protein_1979582..1979812_POSITIVE 230 40 5 191 159 aact:AA01332|5end_galactosyltransferase_II_898875..899105_POSITIVE 223 44 1 214 162 aact:AA01025|5end_hypothetical_protein_717522..717752_POSITIVE 220 38 3 215 185 aact:AA00616|5end_phosphatidate_cytidylyltransferase_421965..422195_POSITIVE 217 70 22 41 1 aact:AA00585|5end_glycerol-3-phosphate_regulon_repressor_399195..399425_POSITIVE 214 60 18 84 52 aact:AA00363|5end_50S_ribosomal_protein_L22_245571..245801_POSITIVE 213 39 13 149 126 aact:AA00179|5end_conserved_hypothetical_protein_(possible_outer_membrane_protein)_126260..126490_POSITIVE 199 37 8 225 194 aact:AA02984|5end_formate_transporter_2087606..2087836_POSITIVE 199 60 35 41 16 aact:AA01866|5end_thiamin_ABC_transporter,_permease_protein_1253313..1253543_POSITIVE 197 47 4 230 190 aact:AA01033|5end_Na(+)-translocating_NADH-quinone_reductase_subunit_A_722168..722398_POSITIVE 197 60 18 182 138 aact:AA00250|5end_lipoate_biosynthesis_protein_A_175496..175726_POSITIVE 195 60 17 229 184 aact:AA01681|5end_molybdate-binding_periplasmic_protein_1135159..1135389_POSITIVE 195 58 12 193 153 aact:AA00977|5end_transcriptional_regulator_(LysR_family)_682367..682597_POSITIVE 194 41 9 82 44 aact:AA00050|5end_cytochrome_c-type_biogenesis_protein_precursor_(reductase)_39919..40149_POSITIVE 192 61 28 217 183 aact:AA01477|5end_type_I_restriction_enzyme_R_protein_992249..992479_POSITIVE 190 68 21 228 193 aact:AA01957|5end_conserved_hypothetical_protein_1323211..1323441_POSITIVE 190 58 13 204 157 aact:AA01347|5end_conserved_hypothetical_protein_913209..913439_POSITIVE 189 48 1 160 114 aact:AA01709|5end_glutathione-S-transferase-nitroreductase_A_fusion_protein;_modulator_of_drug_activity_A_1158523..1158753_POSITIVE 189 49 6 62 19 aact:AA01115|5end_carboxylesterase_766545..766775_POSITIVE 188 40 7 208 163 aact:AA02472|5end_conserved_hypothetical_protein_1707631..1707861_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 214 60 18 64 32 aact:AA00362|3end_30S_ribosomal_protein_S3_245631..245781_POSITIVE 213 39 13 122 99 aact:AA00177|3end_conserved_hypothetical_protein_126313..126463_POSITIVE 199 37 8 123 92 aact:AA02983|3end_formate_acetyltransferase_2087584..2087734_POSITIVE 195 60 19 138 95 aact:AA01922|3end_translation_initiation_factor_IF2_1297279..1297429_POSITIVE 192 61 28 149 115 aact:AA01476|3end_hypothetical_protein_992261..992411_POSITIVE 189 48 1 150 104 aact:AA01708|3end_glutaredoxin_1158593..1158743_POSITIVE 188 60 18 123 85 aact:AA01477|3end_type_I_restriction_enzyme_R_protein_994479..994629_POSITIVE 187 63 36 135 105 aact:AA02443|3end_cytochrome_C_related_protein_1686590..1686740_POSITIVE 183 39 8 131 98 aact:AA01590|3end_hypothetical_protein_1070971..1071121_POSITIVE 179 49 3 54 2 aact:AA01880|3end_N-acetylglucosamine_repressor_1268383..1268533_POSITIVE 178 63 22 48 9 aact:AA01748|3end_thiol:disulfide_interchange_protein_1183810..1183960_POSITIVE 176 37 4 36 6 aact:AA00332|3end_PTS_system,_fructose-specific_IIA/FPr_component_(diphosphoryl_transfer_protein)_225617..225767_POSITIVE 176 68 32 64 14 aact:AA00309|3end_3-hydroxyisobutyrate_dehydrogenase;_2-hydroxy-3-oxopropionate_reductase_210267..210417_POSITIVE 175 58 18 74 24 aact:AA01221|3end_transformation_locus_protein_orfG_homolog_834239..834389_POSITIVE 174 45 3 134 84 aact:AA01859|3end_hypothetical_protein_1251890..1252040_POSITIVE 174 60 12 97 31 aact:AA00162|3end_pilin_C_biogenesis_protein/protein_transport_protein_116086..116236_POSITIVE 172 60 23 39 3 aact:AA01138|3end_anaerobic_dimethyl_sulfoxide_reductase,_chain_B_781685..781835_POSITIVE 167 120 74 94 51 aact:AA02191|3end_hypothetical_protein_1493772..1493922_POSITIVE 166 40 7 108 74 aact:AA02315|3end_conserved_hypothetical_protein_1581752..1581902_POSITIVE 164 70 46 103 80 aact:AA01557|3end_recombinase_A_1045965..1046115_POSITIVE