Origin IGS: ggtgtagggctggagtttgcgtagcagtccgtcgatttaatcagcgtggtgcaggctgtcgataaaggtttcagtgtcactgccaaacaggatagtcaatagctgcgtagctttctatcattccgaaacagtaggcaatagtttaattggataaaaaacagcactaaaaagtagcgaacgctaaggttcataacaggagaattgacataataaggatcattttctaaacaagacatgatagcttcccttagattttaacaccgaagatgatcttcggataagtagatagcattattgtcattcatttttttgaataatttacccgtccatcttccatagtcaatagcagaaaattatttaatctactgaaattattaaatttatttaatcttctta .........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.........1.........2.........3.........4.........5.........6.........7.........8.........9 taagaagattaaataaatttaataatttcagtagattaaataattttctgctattgactatggaagatggacgggtaaattattcaaaaaaatgaatgacaataatgctatctacttatccgaagatcatcttcggtgttaaaatctaagggaagctatcatgtcttgtttagaaaatgatccttattatgtcaattctcctgttatgaaccttagcgttcgctactttttagtgctgttttttatccaattaaactattgcctactgtttcggaatgatagaaagctacgcagctattgactatcctgtttggcagtgacactgaaacctttatcgacagcctgcaccacgctgattaaatcgacggactgctacgcaaactccagccctacacc Mask Tandem Repeat Region ================================================ ggtgtagggctggagtttgcgtagcagtccgtcgatttaatcagcgtggtgcaggctgtcgataaaggtttcagtgtcactgccaaacaggatagtcaatagctgcgtagctttctatcattccgaaacagtaggcaatagtttaattggataaaaaacagcactaaaaagtagcgaacgctaaggttcataacaggagaattgacataataaggatcattttctaaacaagacatgatagcttcccttagattttaacaccgaagatgatcttcggataagtagatagcattattgtcattcatttttttgaataatttacccgtccatcttccatagtcaatagcagaaaattatttaatctactgaaattattaaatttatttaatcttctta Find is-nt database================================================ Query_seq: AA02545:AA02546|AA02545:AA02546:conserved hypothetical protein:hypothetical protein:->->:1774282..1774677 396 ggtgtagggctggagtttgcgtagcagtccgtcgatttaatcagcgtggtgcaggctgtcgataaaggtttcagtgtcactgccaaacaggatagtcaatagctgcgtagctttctatcattccgaaacagtaggcaatagtttaattggataaaaaacagcactaaaaagtagcgaacgctaaggttcataacaggagaattgacataataaggatcattttctaaacaagacatgatagcttcccttagattttaacaccgaagatgatcttcggataagtagatagcattattgtcattcatttttttgaataatttacccgtccatcttccatagtcaatagcagaaaattatttaatctactgaaattattaaatttatttaatcttctta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA02545:AA02546|AA02545:AA02546:conserved hypothetical protein:hypothetical protein:->->:1774282..1774677 396 ggtgtagggctggagtttgcgtagcagtccgtcgatttaatcagcgtggtgcaggctgtcgataaaggtttcagtgtcactgccaaacaggatagtcaatagctgcgtagctttctatcattccgaaacagtaggcaatagtttaattggataaaaaacagcactaaaaagtagcgaacgctaaggttcataacaggagaattgacataataaggatcattttctaaacaagacatgatagcttcccttagattttaacaccgaagatgatcttcggataagtagatagcattattgtcattcatttttttgaataatttacccgtccatcttccatagtcaatagcagaaaattatttaatctactgaaattattaaatttatttaatcttctta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA02545:AA02546|AA02545:AA02546:conserved hypothetical protein:hypothetical protein:->->:1774282..1774677 396 ggtgtagggctggagtttgcgtagcagtccgtcgatttaatcagcgtggtgcaggctgtcgataaaggtttcagtgtcactgccaaacaggatagtcaatagctgcgtagctttctatcattccgaaacagtaggcaatagtttaattggataaaaaacagcactaaaaagtagcgaacgctaaggttcataacaggagaattgacataataaggatcattttctaaacaagacatgatagcttcccttagattttaacaccgaagatgatcttcggataagtagatagcattattgtcattcatttttttgaataatttacccgtccatcttccatagtcaatagcagaaaattatttaatctactgaaattattaaatttatttaatcttctta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ggtgtagggctggagtttgcgtagcagtccgtcgatttaatcagcgtggtgcaggctgtcgataaaggtttcagtgtcactgccaaacaggatagtcaatagctgcgtagctttctatcattccgaaacagtaggcaatagtttaattggataaaaaacagcactaaaaagtagcgaacgctaaggttcataacaggagaattgacataataaggatcattttctaaacaagacatgatagcttcccttagattttaacaccgaagatgatcttcggataagtagatagcattattgtcattcatttttttgaataatttacccgtccatcttccatagtcaatagcagaaaattatttaatctactgaaattattaaatttatttaatcttctta Predict ORF larger than 30AA ================================================ Protein_Len: 32 Strand: + Start: 56 End: 151 ....................................................... M S I K V S V S L P N R I V N S C V A F Y H S E T V G N S L I G ..................................................................................................................................................................................................................................................... Protein_Len: 47 Strand: - Start: 99 End: 239 .................................................................................................. Y S R L K R D N R F L L C Y N L Q I F F L V L F Y R V S L N M V P S N V Y Y P D N E L C S M M ............................................................................................................................................................. ggtgtagggctggagtttgcgtagcagtccgtcgatttaatcagcgtggtgcaggctgtcgataaaggtttcagtgtcactgccaaacaggatagtcaatagctgcgtagctttctatcattccgaaacagtaggcaatagtttaattggataaaaaacagcactaaaaagtagcgaacgctaaggttcataacaggagaattgacataataaggatcattttctaaacaagacatgatagcttcccttagattttaacaccgaagatgatcttcggataagtagatagcattattgtcattcatttttttgaataatttacccgtccatcttccatagtcaatagcagaaaattatttaatctactgaaattattaaatttatttaatcttctta 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================================================ ggtgtagggctggagtttgcgtagcagtccgtcgatttaatcagcgtggtgcaggctgtcgataaaggtttcagtgtcactgccaaacaggatagtcaatagctgcgtagctttctatcattccgaaacagtaggcaatagtttaattggataaaaaacagcactaaaaagtagcgaacgctaaggttcataacaggagaattgacataataaggatcattttctaaacaagacatgatagcttcccttagattttaacaccgaagatgatcttcggataagtagatagcattattgtcattcatttttttgaataatttacccgtccatcttccatagtcaatagcagaaaattatttaatctactgaaattattaaatttatttaatcttctta Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 80 HP_score: -10.9 Tail_Score: -3.07962 Start: 261 End: 277 Full_Region: atgctatctacttat ccgaaga tca tcttcgg tgttaaaatctaagg ....................................................................................................................................................................................................................................................................ccgaagatcatcttcgg....................................................................................................................... Find igs database================================================ Query_seq: AA02545:AA02546|AA02545:AA02546:conserved hypothetical protein:hypothetical protein:->->:1774282..1774677 396 ggtgtagggctggagtttgcgtagcagtccgtcgatttaatcagcgtggtgcaggctgtcgataaaggtttcagtgtcactgccaaacaggatagtcaatagctgcgtagctttctatcattccgaaacagtaggcaatagtttaattggataaaaaacagcactaaaaagtagcgaacgctaaggttcataacaggagaattgacataataaggatcattttctaaacaagacatgatagcttcccttagattttaacaccgaagatgatcttcggataagtagatagcattattgtcattcatttttttgaataatttacccgtccatcttccatagtcaatagcagaaaattatttaatctactgaaattattaaatttatttaatcttctta Intra-Species Hit: Count: 1 Min: 1 Max: 396 Len: 396 Subject: aact_AA02545_AA02546|conserved hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[1774282,1774677]|396 HSP 1 e-value: 0.0 bit: 743.0 Len: 396 Query Start:1 Query End:396 Subject Strand: POSITIVE Subject Start: 1 Subject End: 396 ggtgtagggctggagtttgcgtagcagtccgtcgatttaatcagcgtggtgcaggctgtcgataaaggtttcagtgtcactgccaaacaggatagtcaatagctgcgtagctttctatcattccgaaacagtaggcaatagtttaattggataaaaaacagcactaaaaagtagcgaacgctaaggttcataacaggagaattgacataataaggatcattttctaaacaagacatgatagcttcccttagattttaacaccgaagatgatcttcggataagtagatagcattattgtcattcannnnnnngaataatttacccgtccatcttccatagtcaatagcagaaaattatttaatctactgaaattattaaatttatttaatcttctta ggtgtagggctggagtttgcgtagcagtccgtcgatttaatcagcgtggtgcaggctgtcgataaaggtttcagtgtcactgccaaacaggatagtcaatagctgcgtagctttctatcattccgaaacagtaggcaatagtttaattggataaaaaacagcactaaaaagtagcgaacgctaaggttcataacaggagaattgacataataaggatcattttctaaacaagacatgatagcttcccttagattttaacaccgaagatgatcttcggataagtagatagcattattgtcattcatttttttgaataatttacccgtccatcttccatagtcaatagcagaaaattatttaatctactgaaattattaaatttatttaatcttctta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GGUGUAGGGCUGGAGUUUGCGUAGCAGUCCGUCGAUUUAAUCAGCGUGGUGCAGGCUGUCGAUAAAGGUUUCAGUGUCACUGCCAAACAGGAUAGUCAAUAGCUGCGUAGCUUUCUAUCAUUCCGAAACAGUAGGCAAUAGUUUAAUUGGAUAAAAAACAGCACUAAAAAGUAGCGAACGCUAAGGUUCAUAACAGGAGAAUUGACAUAAUAAGGAUCAUUUUCUAAACAAGACAUGAUAGCUUCCCUUAGAUUUUAACACCGAAGAUGAUCUUCGGAUAAGUAGAUAGCAUUAUUGUCAUUCAUUUUUUUGAAUAAUUUACCCGUCCAUCUUCCAUAGUCAAUAGCAGAAAAUUAUUUAAUCUACUGAAAUUAUUAAAUUUAUUUAAUCUUCUUA ......(((((((.((((((...(((.(.(((.(((...))).))).).)))..(((((.((((((((((.((((.(.((((((.....)).)))).)...))))...)))))).))))..(((((.....(((((....))))).)))))......)))))...........)))))).))..))))).....((((((((((((......((((((((((((....((.....))....((......))...........)))))))))))).((((..((((((.(((....))).(((((......))))).))))))..))))..........))))))......((((.(((((((...........)))))))..))))..)))))).. (-80.80) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAGAAGAUUAAAUAAAUUUAAUAAUUUCAGUAGAUUAAAUAAUUUUCUGCUAUUGACUAUGGAAGAUGGACGGGUAAAUUAUUCAAAAAAAUGAAUGACAAUAAUGCUAUCUACUUAUCCGAAGAUCAUCUUCGGUGUUAAAAUCUAAGGGAAGCUAUCAUGUCUUGUUUAGAAAAUGAUCCUUAUUAUGUCAAUUCUCCUGUUAUGAACCUUAGCGUUCGCUACUUUUUAGUGCUGUUUUUUAUCCAAUUAAACUAUUGCCUACUGUUUCGGAAUGAUAGAAAGCUACGCAGCUAUUGACUAUCCUGUUUGGCAGUGACACUGAAACCUUUAUCGACAGCCUGCACCACGCUGAUUAAAUCGACGGACUGCUACGCAAACUCCAGCCCUACACC .......((((((....))))))....(((((((...(((....)))...)))))))...((((.....((((((..(((.(((((......)))))((((.(((((..(((.......((((((.....))))))........((((((.((..(......)..)).))))))....)))...))))))))).)))..))))))..........((((..((....((((((((..((((((((((.....((((...........))))......))))))))))..(((.((((..(((......))))))).))).))))))))..((..((((((((.((...)).))))......))))..))..)).))))....)))).......... (-77.10) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 384 68 24 154 99 aact:AA00033|5end_conserved_hypothetical_protein_25643..25873_POSITIVE 375 85 41 71 24 aact:AA01738|5end_enoyl-(acyl-carrier-protein)_reductase_1174699..1174929_POSITIVE 367 84 42 46 3 aact:AA00241|5end_formate_acetyltransferase_activating_enzyme_(anaerobic_ribonucleoside-triphosphate_reductase_activating_protein)_171546..171776_POSITIVE 360 68 23 193 139 aact:AA01183|5end_conserved_hypothetical_protein_810442..810672_POSITIVE 359 110 78 151 120 aact:AA02807|5end_leukotoxin_activator_(leukotoxin_C)_1977102..1977332_POSITIVE 356 84 42 157 112 aact:AA02511|5end_transmembrane_protein_1742047..1742277_POSITIVE 354 82 45 160 118 aact:AA00333|5end_1-phosphofructokinase;_tagatose-6-phosphate_kinase_225543..225773_POSITIVE 352 70 21 91 41 aact:AA02961|5end_pyrroline-5-carboxylate_reductase_2070785..2071015_POSITIVE 347 60 11 107 52 aact:AA01193|5end_AMP-binding_enzyme_817928..818158_POSITIVE 347 63 21 226 175 aact:AA00129|5end_hypothetical_protein_94122..94352_POSITIVE 346 99 53 84 16 aact:AA02410|5end_cell_division_protein_1655429..1655659_POSITIVE 346 38 1 78 40 aact:AA01249|5end_conserved_hypothetical_protein_(possible_phosphoesterase)_849987..850217_POSITIVE 345 84 42 182 141 aact:AA00606|5end_membrane-associated_zinc_metalloprotease_411808..412038_POSITIVE 343 52 17 203 172 aact:AA01684|5end_ABC_transporter,_ATP-binding_protein;_possible_ATP-binding_component_of_sulfate_permease_A_protein_1136302..1136532_POSITIVE 341 85 42 194 148 aact:AA02407|5end_thymidine_kinase_1652666..1652896_POSITIVE 341 90 44 68 24 aact:AA01876|5end_PTS_system,_IIBC_components_1263365..1263595_POSITIVE 338 49 1 199 139 aact:AA01210|5end_hypothetical_protein_826903..827133_POSITIVE 335 58 15 65 18 aact:AA00591|5end_ABC_transporter,_ATP-binding_protein_403613..403843_POSITIVE 334 46 1 77 26 aact:AA02682|5end_hydrogenase_maturation_protein_1866304..1866534_POSITIVE 333 50 3 203 163 aact:AA01475|5end_conserved_hypothetical_protein_(possible_cytoplasmic_protein;_DNA_binding_protein)_990364..990594_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 384 68 24 148 93 aact:AA00031|3end_conserved_hypothetical_protein_25717..25867_POSITIVE 359 110 78 135 104 aact:AA02806|3end_leukotoxin_A;_hemolysin_A_1977166..1977316_POSITIVE 356 84 42 132 87 aact:AA02509|3end_chorismate_synthase_1742102..1742252_POSITIVE 347 60 11 76 21 aact:AA01192|3end_conserved_hypothetical_protein_(possible_membrane_protein)_817977..818127_POSITIVE 341 90 44 129 85 aact:AA01875|3end_PTS_system,_glucose-specific_enzyme_II,_A_component_1263506..1263656_POSITIVE 325 59 11 58 2 aact:AA01182|3end_3-oxoacyl-(acyl-carrier-protein)_synthase_810510..810660_POSITIVE 325 70 25 136 97 aact:AA00332|3end_PTS_system,_fructose-specific_IIA/FPr_component_(diphosphoryl_transfer_protein)_225617..225767_POSITIVE 324 67 24 52 7 aact:AA00538|3end_hypothetical_protein_369111..369261_POSITIVE 323 89 44 59 8 aact:AA00258|3end_penicillin_binding_protein_2_182852..183002_POSITIVE 322 69 24 66 8 aact:AA00383|3end_chloride_channel_protein_260182..260332_POSITIVE 319 87 41 61 20 aact:AA00957|3end_porphobilinogen_deaminase_(hydroxymethylbilane_synthase)_661943..662093_POSITIVE 319 49 1 149 96 aact:AA00573|3end_chloramphenicol-sensitive_protein_RarD_393295..393445_POSITIVE 316 48 1 105 49 aact:AA02502|3end_adenine_phosphoribosyltransferase_1738270..1738420_POSITIVE 316 347 301 57 12 aact:AA01962|3end_recombination_protein_rec2_1328706..1328856_POSITIVE 316 68 22 133 89 aact:AA00426|3end_conserved_hypothetical_protein_288205..288355_POSITIVE 308 55 17 147 103 aact:AA02935|3end_high-affinity_zinc_uptake_system_periplasmic_binding_protein_2055433..2055583_POSITIVE 307 46 1 52 3 aact:AA00575|3end_shikimate_5-dehydrogenase_394093..394243_POSITIVE 306 77 31 146 95 aact:AA00273|3end_fatty_acid/phospholipid_synthesis_protein_192499..192649_POSITIVE 305 90 44 65 7 aact:AA00205|3end_ribose_ABC_transporter_protein_/_high_affinity_D-ribose_transport_protein_142658..142808_POSITIVE 303 49 1 149 84 aact:AA00325|3end_conserved_hypothetical_protein_221720..221870_POSITIVE