Origin IGS: aatttctttccttttgaataaaataactgcgggctagtatagccctttttagcggtgaagcaaaatcacggcaatggtgtttagctccaatgagcggatttatacgttaaatcaacatagagtcattgcttattttattcagaatgaataaaattcagctccctttcacttattataataaggagcctaaaaa .........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 tttttaggctccttattataataagtgaaagggagctgaattttattcattctgaataaaataagcaatgactctatgttgatttaacgtataaatccgctcattggagctaaacaccattgccgtgattttgcttcaccgctaaaaagggctatactagcccgcagttattttattcaaaaggaaagaaatt Mask Tandem Repeat Region ================================================ aatttctttccttttgaataaaataactgcgggctagtatagccctttttagcggtgaagcaaaatcacggcaatggtgtttagctccaatgagcggatttatacgttaaatcaacatagagtcattgcttattttattcagaatgaataaaattcagctccctttcacttattataataaggagcctaaaaa Find is-nt database================================================ Query_seq: AA01886:AA01887|AA01886:AA01887:UDP-glucose-4-epimerase:conserved hypothetical protein (possible cytochrome:->->:1272618..1272810 193 aatttctttccttttgaataaaataactgcgggctagtatagccctttttagcggtgaagcaaaatcacggcaatggtgtttagctccaatgagcggatttatacgttaaatcaacatagagtcattgcttattttattcagaatgaataaaattcagctccctttcacttattataataaggagcctaaaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA01886:AA01887|AA01886:AA01887:UDP-glucose-4-epimerase:conserved hypothetical protein (possible cytochrome:->->:1272618..1272810 193 aatttctttccttttgaataaaataactgcgggctagtatagccctttttagcggtgaagcaaaatcacggcaatggtgtttagctccaatgagcggatttatacgttaaatcaacatagagtcattgcttattttattcagaatgaataaaattcagctccctttcacttattataataaggagcctaaaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA01886:AA01887|AA01886:AA01887:UDP-glucose-4-epimerase:conserved hypothetical protein (possible cytochrome:->->:1272618..1272810 193 aatttctttccttttgaataaaataactgcgggctagtatagccctttttagcggtgaagcaaaatcacggcaatggtgtttagctccaatgagcggatttatacgttaaatcaacatagagtcattgcttattttattcagaatgaataaaattcagctccctttcacttattataataaggagcctaaaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aatttctttccttttgaataaaataactgcgggctagtatagccctttttagcggtgaagcaaaatcacggcaatggtgtttagctccaatgagcggatttatacgttaaatcaacatagagtcattgcttattttattcagaatgaataaaattcagctccctttcacttattataataaggagcctaaaaa Predict ORF larger than 30AA ================================================ Protein_Len: 34 Strand: - Start: 2 End: 103 . N R E K Q I F Y S R A L I A R K L P S A F D R C H H K A G I L P N M .......................................................................................... aatttctttccttttgaataaaataactgcgggctagtatagccctttttagcggtgaagcaaaatcacggcaatggtgtttagctccaatgagcggatttatacgttaaatcaacatagagtcattgcttattttattcagaatgaataaaattcagctccctttcacttattataataaggagcctaaaaa 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: 81 Start: 125 End: 154 ............................................................................................................................ATTGCTTATTTTATTCAGAATGAATAAAAT....................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ aatttctttccttttgaataaaataactgcgggctagtatagccctttttagcggtgaagcaaaatcacggcaatggtgtttagctccaatgagcggatttatacgttaaatcaacatagagtcattgcttattttattcagaatgaataaaattcagctccctttcacttattataataaggagcctaaaaa Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: AA01886:AA01887|AA01886:AA01887:UDP-glucose-4-epimerase:conserved hypothetical protein (possible cytochrome:->->:1272618..1272810 193 aatttctttccttttgaataaaataactgcgggctagtatagccctttttagcggtgaagcaaaatcacggcaatggtgtttagctccaatgagcggatttatacgttaaatcaacatagagtcattgcttattttattcagaatgaataaaattcagctccctttcacttattataataaggagcctaaaaa Intra-Species Hit: Count: 1 Min: 1 Max: 193 Len: 193 Subject: aact_AA01886_AA01887|UDP-glucose-4-epimerase:conserved hypothetical protein (possible cytochrome|POSITIVE:POSITIVE|[1272618,1272810]|193 HSP 1 e-value: 1.0E-105 bit: 383.0 Len: 193 Query Start:1 Query End:193 Subject Strand: POSITIVE Subject Start: 1 Subject End: 193 aatttctttccttttgaataaaataactgcgggctagtatagccctttttagcggtgaagcaaaatcacggcaatggtgtttagctccaatgagcggatttatacgttaaatcaacatagagtcattgcttattttattcagaatgaataaaattcagctccctttcacttattataataaggagcctaaaaa aatttctttccttttgaataaaataactgcgggctagtatagccctttttagcggtgaagcaaaatcacggcaatggtgtttagctccaatgagcggatttatacgttaaatcaacatagagtcattgcttattttattcagaatgaataaaattcagctccctttcacttattataataaggagcctaaaaa Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAUUUCUUUCCUUUUGAAUAAAAUAACUGCGGGCUAGUAUAGCCCUUUUUAGCGGUGAAGCAAAAUCACGGCAAUGGUGUUUAGCUCCAAUGAGCGGAUUUAUACGUUAAAUCAACAUAGAGUCAUUGCUUAUUUUAUUCAGAAUGAAUAAAAUUCAGCUCCCUUUCACUUAUUAUAAUAAGGAGCCUAAAAA (((((..(((.(((((((((((((((((((((((((...))))))......))))).............((((((((......((((....)))).((((((.....)))))).........)))))))))))))))))))))).)))..)))))..(((((...................)))))....... (-50.61) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUUUAGGCUCCUUAUUAUAAUAAGUGAAAGGGAGCUGAAUUUUAUUCAUUCUGAAUAAAAUAAGCAAUGACUCUAUGUUGAUUUAACGUAUAAAUCCGCUCAUUGGAGCUAAACACCAUUGCCGUGAUUUUGCUUCACCGCUAAAAAGGGCUAUACUAGCCCGCAGUUAUUUUAUUCAAAAGGAAAGAAAUU ......((((((((.((((.....)))).)))))))).((((((.(((.((.((((((((((((((((((....(((((((...))))))).......((((....)))).......)))))).((((.......)))).........((((((...))))))....)))))))))))).)).))).)))))) (-52.60) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 430 63 26 156 117 aact:AA00135|5end_S-adenosylmethionine:_2-demethylmenaquinone_methyltransferase_(menaquinone_biosynthesis_protein)_96303..96533_POSITIVE 355 70 27 221 179 aact:AA02316|5end_exodeoxyribonuclease_VII_large_subunit_1581682..1581912_POSITIVE 335 88 42 145 93 aact:AA02049|5end_hypothetical_protein_1395526..1395756_POSITIVE 326 99 52 82 10 aact:AA01365|5end_30S_ribosomal_protein_S16_922843..923073_POSITIVE 323 97 51 63 12 aact:AA00374|5end_short-chain_fatty_acids_transporter_251681..251911_POSITIVE 321 79 32 197 158 aact:AA01056|5end_conserved_hypothetical_protein_733867..734097_POSITIVE 315 98 51 169 114 aact:AA00459|5end_hypothetical_protein_320851..321081_POSITIVE 313 98 52 168 126 aact:AA00381|5end_ornithine_carbamoyltransferase_257470..257700_POSITIVE 312 97 52 77 32 aact:AA02702|5end_succinyl-CoA_synthetase,_beta_chain_1884139..1884369_POSITIVE 312 60 27 56 27 aact:AA00383|5end_chloride_channel_protein_258894..259124_POSITIVE 308 100 52 64 8 aact:AA00809|5end_possible_oxidoreductase_553211..553441_POSITIVE 303 80 32 222 175 aact:AA00302|5end_DNA_polymerase_III,_delta'_subunit_205127..205357_POSITIVE 300 98 52 172 118 aact:AA01730|5end_conserved_hypothetical_protein_(possible_transcriptional_regulator)_1168725..1168955_POSITIVE 299 61 27 186 154 aact:AA00583|5end_GlpG_protein_398258..398488_POSITIVE 298 77 33 48 5 aact:AA01875|5end_PTS_system,_glucose-specific_enzyme_II,_A_component_1262563..1262793_POSITIVE 297 61 21 120 72 aact:AA01841|5end_conserved_hypothetical_protein_1237514..1237744_POSITIVE 297 97 54 51 1 aact:AA00384|5end_conserved_hypothetical_protein_(possible_nitrogen_fixation_protein)_260108..260338_POSITIVE 294 97 52 230 184 aact:AA02906|5end_hypothetical_protein_2033304..2033534_POSITIVE 292 99 51 208 155 aact:AA01184|5end_hypothetical_protein_810838..811068_POSITIVE 292 97 51 78 36 aact:AA00796|5end_iron(III)_dicitrate_transport_system_permease_protein_545686..545916_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 430 63 26 102 63 aact:AA00134|3end_1,4-dihydroxy-2-naphthoate_octaprenyltransferase_(menaquinone_biosynthetic_protein)_96329..96479_POSITIVE 335 88 42 118 66 aact:AA02048|3end_galactitol_utilization_operon_repressor_1395579..1395729_POSITIVE 325 97 51 134 80 aact:AA00618|3end_molybdopterin_biosynthesis_protein_423642..423792_POSITIVE 323 97 51 57 6 aact:AA00373|3end_CoA-transferase_(beta)_251755..251905_POSITIVE 315 98 51 122 67 aact:AA00458|3end_nickel-binding_periplasmic_protein_320884..321034_POSITIVE 313 84 44 55 6 aact:AA00184|3end_hypothetical_protein_130911..131061_POSITIVE 312 97 52 63 18 aact:AA02700|3end_succinyl-CoA_synthase,_alpha_subunit_1884205..1884355_POSITIVE 304 75 31 40 8 aact:AA00474|3end_cell_division_protein_Y_(GTP-binding_signal_recognition_particle)_331724..331874_POSITIVE 299 61 27 143 111 aact:AA00582|3end_conserved_hypothetical_protein_398295..398445_POSITIVE 297 62 32 144 114 aact:AA01962|3end_recombination_protein_rec2_1328706..1328856_POSITIVE 297 61 21 80 32 aact:AA01840|3end_conserved_hypothetical_protein_1237554..1237704_POSITIVE 292 97 51 75 33 aact:AA00795|3end_iron(III)_dicitrate-binding_periplasmic_protein_precursor_545763..545913_POSITIVE 290 90 41 68 19 aact:AA00740|3end_citrate_lyase_related_biosynthesis_protein_(2-(5'-triphosphoribosyl)-3'-dephosphocoenzyme-A_synthase)_506749..506899_POSITIVE 289 98 51 111 54 aact:AA00585|3end_glycerol-3-phosphate_regulon_repressor_399778..399928_POSITIVE 289 97 54 59 12 aact:AA00251|3end_lipoate_biosynthesis_protein_B_177238..177388_POSITIVE 288 79 32 102 56 aact:AA01927|3end_conserved_hypothetical_protein_1301991..1302141_POSITIVE 286 97 52 117 70 aact:AA02601|3end_ATP-dependent_helicase_1813309..1813459_POSITIVE 286 80 31 148 96 aact:AA01965|3end_poly(A)_polymerase_1331021..1331171_POSITIVE 286 98 52 90 46 aact:AA01370|3end_rod_shape-determining_protein_926586..926736_POSITIVE 285 63 27 140 111 aact:AA02150|3end_conserved_hypothetical_protein_1470985..1471135_POSITIVE