Origin IGS: ataagcatcctacagagagagaaaagtgaatttaatgaatcagagaaatcatcggttcgggttgatttaaactcgaaaccgagcaagcgaagctattttagggtgcggttactattaagtaaataaactatgatccttcgcttcaaaatatctttacaaaatgtgatattaatcacattttc .........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 gaaaatgtgattaatatcacattttgtaaagatattttgaagcgaaggatcatagtttatttacttaatagtaaccgcaccctaaaatagcttcgcttgctcggtttcgagtttaaatcaacccgaaccgatgatttctctgattcattaaattcacttttctctctctgtaggatgcttat Mask Tandem Repeat Region ================================================ ataagcatcctacagagagagaaaagtgaatttaatgaatcagagaaatcatcggttcgggttgatttaaactcgaaaccgagcaagcgaagctattttagggtgcggttactattaagtaaataaactatgatccttcgcttcaaaatatctttacaaaatgtgatattaatcacattttc Find is-nt database================================================ Query_seq: AA00851:AA00852|AA00851:AA00852:carbon starvation protein:hypothetical protein:->->:588496..588677 182 ataagcatcctacagagagagaaaagtgaatttaatgaatcagagaaatcatcggttcgggttgatttaaactcgaaaccgagcaagcgaagctattttagggtgcggttactattaagtaaataaactatgatccttcgcttcaaaatatctttacaaaatgtgatattaatcacattttc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA00851:AA00852|AA00851:AA00852:carbon starvation protein:hypothetical protein:->->:588496..588677 182 ataagcatcctacagagagagaaaagtgaatttaatgaatcagagaaatcatcggttcgggttgatttaaactcgaaaccgagcaagcgaagctattttagggtgcggttactattaagtaaataaactatgatccttcgcttcaaaatatctttacaaaatgtgatattaatcacattttc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA00851:AA00852|AA00851:AA00852:carbon starvation protein:hypothetical protein:->->:588496..588677 182 ataagcatcctacagagagagaaaagtgaatttaatgaatcagagaaatcatcggttcgggttgatttaaactcgaaaccgagcaagcgaagctattttagggtgcggttactattaagtaaataaactatgatccttcgcttcaaaatatctttacaaaatgtgatattaatcacattttc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ataagcatcctacagagagagaaaagtgaatttaatgaatcagagaaatcatcggttcgggttgatttaaactcgaaaccgagcaagcgaagctattttagggtgcggttactattaagtaaataaactatgatccttcgcttcaaaatatctttacaaaatgtgatattaatcacattttc Predict ORF larger than 30AA ================================================ Protein_Len: 41 Strand: + Start: 1 End: 123 M S I L Q R E K S E F N E S E K S S V R V D L N S K P S K R S Y F R V R L L L S K ........................................................... ataagcatcctacagagagagaaaagtgaatttaatgaatcagagaaatcatcggttcgggttgatttaaactcgaaaccgagcaagcgaagctattttagggtgcggttactattaagtaaataaactatgatccttcgcttcaaaatatctttacaaaatgtgatattaatcacattttc 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: 95 End: 124 ..............................................................................................ATTTACTTAATAGTAACCGCACCCTAAAAT.......................................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ ataagcatcctacagagagagaaaagtgaatttaatgaatcagagaaatcatcggttcgggttgatttaaactcgaaaccgagcaagcgaagctattttagggtgcggttactattaagtaaataaactatgatccttcgcttcaaaatatctttacaaaatgtgatattaatcacattttc Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: AA00851:AA00852|AA00851:AA00852:carbon starvation protein:hypothetical protein:->->:588496..588677 182 ataagcatcctacagagagagaaaagtgaatttaatgaatcagagaaatcatcggttcgggttgatttaaactcgaaaccgagcaagcgaagctattttagggtgcggttactattaagtaaataaactatgatccttcgcttcaaaatatctttacaaaatgtgatattaatcacattttc Intra-Species Hit: Count: 1 Min: 1 Max: 182 Len: 182 Subject: aact_AA00851_AA00852|carbon starvation protein:hypothetical protein|POSITIVE:POSITIVE|[588496,588677]|182 HSP 1 e-value: 5.0E-99 bit: 361.0 Len: 182 Query Start:1 Query End:182 Subject Strand: POSITIVE Subject Start: 1 Subject End: 182 ataagcatcctacagagagagaaaagtgaatttaatgaatcagagaaatcatcggttcgggttgatttaaactcgaaaccgagcaagcgaagctattttagggtgcggttactattaagtaaataaactatgatccttcgcttcaaaatatctttacaaaatgtgatattaatcacattttc ataagcatcctacagagagagaaaagtgaatttaatgaatcagagaaatcatcggttcgggttgatttaaactcgaaaccgagcaagcgaagctattttagggtgcggttactattaagtaaataaactatgatccttcgcttcaaaatatctttacaaaatgtgatattaatcacattttc Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUAAGCAUCCUACAGAGAGAGAAAAGUGAAUUUAAUGAAUCAGAGAAAUCAUCGGUUCGGGUUGAUUUAAACUCGAAACCGAGCAAGCGAAGCUAUUUUAGGGUGCGGUUACUAUUAAGUAAAUAAACUAUGAUCCUUCGCUUCAAAAUAUCUUUACAAAAUGUGAUAUUAAUCACAUUUUC ...............(((((......(((.............((....)).((((((((((((......)))))).))))))...(((((((..(((.(((..((...(((((....))))).))..))).))).)))))))))).....)))))..((((((((((....)))))))))). (-44.70) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GAAAAUGUGAUUAAUAUCACAUUUUGUAAAGAUAUUUUGAAGCGAAGGAUCAUAGUUUAUUUACUUAAUAGUAACCGCACCCUAAAAUAGCUUCGCUUGCUCGGUUUCGAGUUUAAAUCAACCCGAACCGAUGAUUUCUCUGAUUCAUUAAAUUCACUUUUCUCUCUCUGUAGGAUGCUUAU .((((((((((....))))))))))...(((.(((((((((((((((.((..(((.....(((((....))))).......)))..))..))))))))..((((((.((.(((......))).)))))))).......................................)))))))))).. (-34.50) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 358 109 61 73 16 aact:AA01054|5end_conserved_hypothetical_protein_733678..733908_POSITIVE 315 108 72 52 16 aact:AA02409|5end_DNA_ligase_1653315..1653545_POSITIVE 311 86 47 44 11 aact:AA02043|5end_tagatose_6-phosphate_kinase_1390218..1390448_POSITIVE 302 57 12 216 173 aact:AA02453|5end_conserved_hypothetical_protein_1688947..1689177_POSITIVE 298 109 61 58 16 aact:AA02350|5end_possible_lipoprotein_1608398..1608628_POSITIVE 296 111 74 65 21 aact:AA00303|5end_thymidylate_kinase_(DTMP)_206107..206337_POSITIVE 294 111 73 63 16 aact:AA02689|5end_hydrogenase-4_component_F_1874620..1874850_POSITIVE 294 112 71 192 147 aact:AA00895|5end_hypothetical_protein_621285..621515_POSITIVE 290 89 45 55 10 aact:AA01585|5end_tRNA_delta(2)-isopentenylpyrophosphate_1066007..1066237_POSITIVE 289 96 51 170 128 aact:AA01646|5end_hypothetical_protein_1115069..1115299_POSITIVE 285 99 54 51 3 aact:AA02581|5end_conserved_hypothetical_protein_1796966..1797196_POSITIVE 284 109 68 173 122 aact:AA00912|5end_short-chain_dehydrogenase_627200..627430_POSITIVE 284 109 68 61 10 aact:AA00910|5end_hypothetical_protein_627088..627318_POSITIVE 283 94 51 121 79 aact:AA00890|5end_conserved_hypothetical_protein_617075..617305_POSITIVE 283 111 74 153 112 aact:AA00383|5end_chloride_channel_protein_258894..259124_POSITIVE 282 100 51 194 137 aact:AA01718|5end_DNA_polymerase_III,_chi_subunit_1162790..1163020_POSITIVE 281 100 51 191 123 aact:AA01388|5end_30S_ribosomal_protein_S6_936530..936760_POSITIVE 280 45 4 154 117 aact:AA00257|5end_rod-shape-determining_protein_179706..179936_POSITIVE 279 95 51 93 44 aact:AA01032|5end_Na(+)-translocating_NADH-quinone_reductase_subunit_B_720930..721160_POSITIVE 277 119 79 56 20 aact:AA02439|5end_integral_membrane_protein;_possible_ABC_transporter_permease_1683902..1684132_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 358 109 61 62 5 aact:AA01053|3end_conserved_hypothetical_protein_733747..733897_POSITIVE 302 57 12 115 72 aact:AA02451|3end_conserved_hypothetical_protein_1688926..1689076_POSITIVE 296 111 74 83 39 aact:AA00302|3end_DNA_polymerase_III,_delta'_subunit_206205..206355_POSITIVE 294 111 73 55 8 aact:AA02688|3end_hydrogenase_4_component_E_1874692..1874842_POSITIVE 285 99 54 51 3 aact:AA02579|3end_aminotransferase_nifS_protein_1797046..1797196_POSITIVE 284 109 68 76 25 aact:AA00909|3end_molybdopterin-guanine_dinucleotide_biosynthesis_protein_B_627183..627333_POSITIVE 283 94 51 76 34 aact:AA00889|3end_conserved_hypothetical_protein_617110..617260_POSITIVE 283 111 74 64 23 aact:AA00382|3end_hypothetical_protein_258885..259035_POSITIVE 280 45 4 102 65 aact:AA00256|3end_rare_lipoprotein_A_precursor_179734..179884_POSITIVE 277 119 79 66 30 aact:AA02438|3end_membrane_protein;_possible_ABC_transporter_permease_protein_1683992..1684142_POSITIVE 277 90 41 60 5 aact:AA00055|3end_cytochrome_c-type_biogenesis_protein_44002..44152_POSITIVE 276 110 74 42 4 aact:AA01855|3end_transcriptional_regulator,_Cro/CI_family_1247385..1247535_POSITIVE 272 100 52 78 21 aact:AA02816|3end_hypothetical_protein_1980760..1980910_POSITIVE 268 110 72 60 19 aact:AA00831|3end_cell_division_protein_Q_572849..572999_POSITIVE 267 113 75 68 27 aact:AA02263|3end_conserved_hypothetical_protein_1539765..1539915_POSITIVE 267 109 70 146 107 aact:AA01563|3end_transketolase_isozyme_1_1049043..1049193_POSITIVE 264 111 72 62 36 aact:AA02409|3end_DNA_ligase_1655404..1655554_POSITIVE 264 113 73 47 8 aact:AA00623|3end_hypothetical_protein_430632..430782_POSITIVE 259 113 72 101 60 aact:AA01891|3end_pyridoxine_kinase_1276784..1276934_POSITIVE 258 90 42 63 19 aact:AA01629|3end_phosphatidylglycerophosphatase_A_1102449..1102599_POSITIVE