Origin IGS: ttaacgtaatttgagtgtcattgggcgatagccatctcgttttctgttccttttataccgcaacaagatagtttcttttatctcacgataatcgtgtttaacttgctgataataaaagatagaacgaggcattttagccacacgaagtaagtcattcaacgcgtgatttggcttca .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tgaagccaaatcacgcgttgaatgacttacttcgtgtggctaaaatgcctcgttctatcttttattatcagcaagttaaacacgattatcgtgagataaaagaaactatcttgttgcggtataaaaggaacagaaaacgagatggctatcgcccaatgacactcaaattacgttaa Mask Tandem Repeat Region ================================================ ttaacgtaatttgagtgtcattgggcgatagccatctcgttttctgttccttttataccgcaacaagatagtttcttttatctcacgataatcgtgtttaacttgctgataataaaagatagaacgaggcattttagccacacgaagtaagtcattcaacgcgtgatttggcttca Find is-nt database================================================ Query_seq: AA01288:AA01289|AA01288:AA01289:hypothetical protein:hypothetical protein:->->:872349..872524 176 ttaacgtaatttgagtgtcattgggcgatagccatctcgttttctgttccttttataccgcaacaagatagtttcttttatctcacgataatcgtgtttaacttgctgataataaaagatagaacgaggcattttagccacacgaagtaagtcattcaacgcgtgatttggcttca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA01288:AA01289|AA01288:AA01289:hypothetical protein:hypothetical protein:->->:872349..872524 176 ttaacgtaatttgagtgtcattgggcgatagccatctcgttttctgttccttttataccgcaacaagatagtttcttttatctcacgataatcgtgtttaacttgctgataataaaagatagaacgaggcattttagccacacgaagtaagtcattcaacgcgtgatttggcttca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA01288:AA01289|AA01288:AA01289:hypothetical protein:hypothetical protein:->->:872349..872524 176 ttaacgtaatttgagtgtcattgggcgatagccatctcgttttctgttccttttataccgcaacaagatagtttcttttatctcacgataatcgtgtttaacttgctgataataaaagatagaacgaggcattttagccacacgaagtaagtcattcaacgcgtgatttggcttca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ttaacgtaatttgagtgtcattgggcgatagccatctcgttttctgttccttttataccgcaacaagatagtttcttttatctcacgataatcgtgtttaacttgctgataataaaagatagaacgaggcattttagccacacgaagtaagtcattcaacgcgtgatttggcttca Predict ORF larger than 30AA ================================================ Protein_Len: 40 Strand: + Start: 28 End: 147 ........................... M A I S F S V P F I P Q Q D S F F Y L T I I V F N L L I I K D R T R H F S H T K ............................. Protein_Len: 53 Strand: - Start: 4 End: 159 ... * R L K L T M P R Y G D R K R N R K Y R L L I T E K I E R Y D H K V Q Q Y Y F I S R P M K A V R L L D N M ................. ttaacgtaatttgagtgtcattgggcgatagccatctcgttttctgttccttttataccgcaacaagatagtttcttttatctcacgataatcgtgtttaacttgctgataataaaagatagaacgaggcattttagccacacgaagtaagtcattcaacgcgtgatttggcttca 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 ..................................................................................................................................GTTGAATGACTTACTTCGTGTGGCTAAAAT................ Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ ttaacgtaatttgagtgtcattgggcgatagccatctcgttttctgttccttttataccgcaacaagatagtttcttttatctcacgataatcgtgtttaacttgctgataataaaagatagaacgaggcattttagccacacgaagtaagtcattcaacgcgtgatttggcttca Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 72 HP_score: -7.7 Tail_Score: -3.79043 Start: 84 End: 96 Full_Region: TAGTTTCTTTTATCT CACGA TAA TCGTG TTTAACTTGCTGATA ...................................................................................CACGATAATCGTG................................................................................ Find igs database================================================ Query_seq: AA01288:AA01289|AA01288:AA01289:hypothetical protein:hypothetical protein:->->:872349..872524 176 ttaacgtaatttgagtgtcattgggcgatagccatctcgttttctgttccttttataccgcaacaagatagtttcttttatctcacgataatcgtgtttaacttgctgataataaaagatagaacgaggcattttagccacacgaagtaagtcattcaacgcgtgatttggcttca Intra-Species Hit: Count: 4 Min: 1 Max: 176 Len: 176 Subject: aact_AA02340_AA02341|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[1599402,1599585]|184 HSP 1 e-value: 2.0E-95 bit: 349.0 Len: 176 Query Start:1 Query End:176 Subject Strand: NEGATIVE Subject Start: 9 Subject End: 184 ttaacgtaatttgagtgtcattgggcgatagccatctcgttttctgttccttttataccgcaacaagatagtttcttttatctcacgataatcgtgtttaacttgctgataataaaagatagaacgaggcattttagccacacgaagtaagtcattcaacgcgtgatttggcttca ttaacgtaatttgagtgtcattgggcgatagccatctcgttttctgttccttttataccgcaacaagatagtttcttttatctcacgataatcgtgtttaacttgctgataataaaagatagaacgaggcattttagccacacgaagtaagtcattcaacgcgtgatttggcttca Subject: aact_AA02115_AA02116|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[1445052,1445227]|176 HSP 1 e-value: 2.0E-95 bit: 349.0 Len: 176 Query Start:1 Query End:176 Subject Strand: NEGATIVE Subject Start: 1 Subject End: 176 ttaacgtaatttgagtgtcattgggcgatagccatctcgttttctgttccttttataccgcaacaagatagtttcttttatctcacgataatcgtgtttaacttgctgataataaaagatagaacgaggcattttagccacacgaagtaagtcattcaacgcgtgatttggcttca ttaacgtaatttgagtgtcattgggcgatagccatctcgttttctgttccttttataccgcaacaagatagtttcttttatctcacgataatcgtgtttaacttgctgataataaaagatagaacgaggcattttagccacacgaagtaagtcattcaacgcgtgatttggcttca Subject: aact_AA01288_AA01289|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[872349,872524]|176 HSP 1 e-value: 2.0E-95 bit: 349.0 Len: 176 Query Start:1 Query End:176 Subject Strand: POSITIVE Subject Start: 1 Subject End: 176 ttaacgtaatttgagtgtcattgggcgatagccatctcgttttctgttccttttataccgcaacaagatagtttcttttatctcacgataatcgtgtttaacttgctgataataaaagatagaacgaggcattttagccacacgaagtaagtcattcaacgcgtgatttggcttca ttaacgtaatttgagtgtcattgggcgatagccatctcgttttctgttccttttataccgcaacaagatagtttcttttatctcacgataatcgtgtttaacttgctgataataaaagatagaacgaggcattttagccacacgaagtaagtcattcaacgcgtgatttggcttca Subject: aact_AA01075_AA01076|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[746129,746304]|176 HSP 1 e-value: 2.0E-95 bit: 349.0 Len: 176 Query Start:1 Query End:176 Subject Strand: NEGATIVE Subject Start: 1 Subject End: 176 ttaacgtaatttgagtgtcattgggcgatagccatctcgttttctgttccttttataccgcaacaagatagtttcttttatctcacgataatcgtgtttaacttgctgataataaaagatagaacgaggcattttagccacacgaagtaagtcattcaacgcgtgatttggcttca ttaacgtaatttgagtgtcattgggcgatagccatctcgttttctgttccttttataccgcaacaagatagtttcttttatctcacgataatcgtgtttaacttgctgataataaaagatagaacgaggcattttagccacacgaagtaagtcattcaacgcgtgatttggcttca Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUAACGUAAUUUGAGUGUCAUUGGGCGAUAGCCAUCUCGUUUUCUGUUCCUUUUAUACCGCAACAAGAUAGUUUCUUUUAUCUCACGAUAAUCGUGUUUAACUUGCUGAUAAUAAAAGAUAGAACGAGGCAUUUUAGCCACACGAAGUAAGUCAUUCAACGCGUGAUUUGGCUUCA .....((.....(((((((....(((....)))...((((..(((((..(((((((.(.((((..((((((......))))))((((.....))))......)))).)...))))))))))))))))))))))).....))..((((((((((((.......))))))).))))). (-41.10) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAAGCCAAAUCACGCGUUGAAUGACUUACUUCGUGUGGCUAAAAUGCCUCGUUCUAUCUUUUAUUAUCAGCAAGUUAAACACGAUUAUCGUGAGAUAAAAGAAACUAUCUUGUUGCGGUAUAAAAGGAACAGAAAACGAGAUGGCUAUCGCCCAAUGACACUCAAAUUACGUUAA .(((((((..(((((((...............))))))).........((((((((.((((((((...(((((((.......(..(((((....)))))..).......)))))))....))))))))...)))..))))).))))).)).......................... (-40.30) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 918 60 11 151 102 aact:AA02341|5end_hypothetical_protein_1599446..1599676_POSITIVE 918 60 11 151 102 aact:AA02116|5end_hypothetical_protein_1445088..1445318_POSITIVE 918 60 11 151 102 aact:AA01076|5end_hypothetical_protein_746165..746395_POSITIVE 918 60 11 151 102 aact:AA00009|5end_hypothetical_protein_(possible_transposase_fragment)_5592..5822_POSITIVE 367 41 3 37 2 aact:AA02286|5end_sugar_ABC_transporter,_ATP-binding_protein_1557578..1557808_POSITIVE 342 49 6 55 3 aact:AA01141|5end_conserved_hypothetical_protein_(possible_component_of_anaerobic_dehydrogenase/oxidoreductase)_782497..782727_POSITIVE 320 52 15 69 26 aact:AA00475|5end_conserved_hypothetical_protein_(possible_N6-adenine-specific_methylase)_331621..331851_POSITIVE 304 167 125 53 11 aact:AA00634|5end_DNA_polymerase_IV_(Pol_IV)_435182..435412_POSITIVE 293 162 123 194 157 aact:AA01054|5end_conserved_hypothetical_protein_733678..733908_POSITIVE 288 62 22 219 176 aact:AA02271|5end_hypothetical_protein_1548623..1548853_POSITIVE 281 49 3 145 99 aact:AA00409|5end_methionyl-tRNA_formyltransferase_273611..273841_POSITIVE 280 49 21 40 5 aact:AA01650|5end_maltose_transport_inner_membrane_protein_1118228..1118458_POSITIVE 280 69 25 117 68 aact:AA00295|5end_hypothetical_protein_202267..202497_POSITIVE 278 54 16 63 16 aact:AA00715|5end_[2Fe-2S]_ferredoxin_490632..490862_POSITIVE 277 42 10 56 20 aact:AA02088|5end_glycogen_operon_protein_1421282..1421512_POSITIVE 275 58 14 110 60 aact:AA02338|5end_conserved_hypothetical_protein;_possible_integral_membrane_protein_1598083..1598313_POSITIVE 275 68 22 230 167 aact:AA00290|5end_conserved_hypothetical_protein_201272..201502_POSITIVE 267 52 15 39 6 aact:AA01155|5end_hypothetical_protein_791227..791457_POSITIVE 266 170 137 97 61 aact:AA01510|5end_ABC_transporter,_ATP-binding_protein/permease_1016430..1016660_POSITIVE 264 140 91 174 123 aact:AA00492|5end_conserved_hypothetical_protein_343578..343808_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 915 170 121 76 27 aact:AA02340|3end_hypothetical_protein_1599341..1599491_POSITIVE 915 170 121 84 35 aact:AA02115|3end_hypothetical_protein_1444991..1445141_POSITIVE 915 170 121 84 35 aact:AA01075|3end_hypothetical_protein_746068..746218_POSITIVE 915 170 121 84 35 aact:AA00008|3end_hypothetical_protein_(possible_transposase_fragment)_5495..5645_POSITIVE 365 129 89 43 3 aact:AA00631|3end_hypothetical_protein_433928..434078_POSITIVE 320 52 15 92 49 aact:AA00474|3end_cell_division_protein_Y_(GTP-binding_signal_recognition_particle)_331724..331874_POSITIVE 281 49 3 142 96 aact:AA00408|3end_SUN_protein_(FMU_protein)_273688..273838_POSITIVE 280 69 25 108 59 aact:AA00292|3end_dihydrofolate_reductase_202338..202488_POSITIVE 278 54 16 48 1 aact:AA00713|3end_chaperone_protein_hscA,_heat_shock_cognate_66_490697..490847_POSITIVE 267 52 15 143 110 aact:AA01155|3end_hypothetical_protein_791411..791561_POSITIVE 266 170 137 101 65 aact:AA01509|3end_ABC_system_transport_protein,_ATP_binding/permease_1016514..1016664_POSITIVE 257 50 8 59 26 aact:AA01995|3end_conserved_hypothetical_protein_(possible_chorismate_mutase)_1355394..1355544_POSITIVE 255 168 122 67 19 aact:AA01138|3end_anaerobic_dimethyl_sulfoxide_reductase,_chain_B_781685..781835_POSITIVE 254 49 6 70 21 aact:AA01967|3end_hypothetical_protein_1331734..1331884_POSITIVE 254 44 5 77 41 aact:AA00978|3end_conserved_hypothetical_protein_684585..684735_POSITIVE 254 78 31 126 76 aact:AA00434|3end_VgrG-like_protein_(Rhs_accessory_genetic_element)_300877..301027_POSITIVE 251 170 128 98 53 aact:AA02818|3end_ribosomal_RNA_small_subunit_methyltransferase_C_1981820..1981970_POSITIVE 251 48 5 120 76 aact:AA00733|3end_hypothetical_protein_502513..502663_POSITIVE 251 53 21 92 64 aact:AA00110|3end_ATPase_involved_in_DNA_replication_79839..79989_POSITIVE 249 63 23 98 50 aact:AA01199|3end_conserved_hypothetical_protein_822486..822636_POSITIVE