Origin IGS: taactattccctatccccatacgagccgtctggggttaattaaaccaagccgttctacggcttttatatcgcctccggaggaggcgaggattatcgaacctagcacgcctcgtgctaggtgtgtatgaacaatacgtta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taacgtattgttcatacacacctagcacgaggcgtgctaggttcgataatcctcgcctcctccggaggcgatataaaagccgtagaacggcttggtttaattaaccccagacggctcgtatggggatagggaatagtta Mask Tandem Repeat Region ================================================ taactattccctatccccatacgagccgtctggggttaattaaaccaagccgttctacggcttttatatcgcctccggaggaggcgaggattatcgaacctagcacgcctcgtgctaggtgtgtatgaacaatacgtta Find is-nt database================================================ Query_seq: AA00820:AA00822|AA00820:AA00822:succinyl-diaminopimelate desuccinylase:conserved hypothetical protein (possible arsenate reductase):->->:564597..564735 139 taactattccctatccccatacgagccgtctggggttaattaaaccaagccgttctacggcttttatatcgcctccggaggaggcgaggattatcgaacctagcacgcctcgtgctaggtgtgtatgaacaatacgtta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA00820:AA00822|AA00820:AA00822:succinyl-diaminopimelate desuccinylase:conserved hypothetical protein (possible arsenate reductase):->->:564597..564735 139 taactattccctatccccatacgagccgtctggggttaattaaaccaagccgttctacggcttttatatcgcctccggaggaggcgaggattatcgaacctagcacgcctcgtgctaggtgtgtatgaacaatacgtta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA00820:AA00822|AA00820:AA00822:succinyl-diaminopimelate desuccinylase:conserved hypothetical protein (possible arsenate reductase):->->:564597..564735 139 taactattccctatccccatacgagccgtctggggttaattaaaccaagccgttctacggcttttatatcgcctccggaggaggcgaggattatcgaacctagcacgcctcgtgctaggtgtgtatgaacaatacgtta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taactattccctatccccatacgagccgtctggggttaattaaaccaagccgttctacggcttttatatcgcctccggaggaggcgaggattatcgaacctagcacgcctcgtgctaggtgtgtatgaacaatacgtta Predict ORF larger than 30AA ================================================ Protein_Len: 40 Strand: + Start: 6 End: 125 ..... M P Y P H T S R L G L I K P S R S T A F I S P P E E A R I I E P S T P R A R C V .............. Protein_Len: 40 Strand: - Start: 14 End: 133 ............. G W V L R R P N I L G L R E V A K I D G G S S A L I I S G L V G R A L H T H V M ...... taactattccctatccccatacgagccgtctggggttaattaaaccaagccgttctacggcttttatatcgcctccggaggaggcgaggattatcgaacctagcacgcctcgtgctaggtgtgtatgaacaatacgtta 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================================================ PromScan Matrix: RpoN Strand: + Score: 83 Start: 100 End: 116 ...................................................................................................CTAGCACGCCTCGTGCT....................... taactattccctatccccatacgagccgtctggggttaattaaaccaagccgttctacggcttttatatcgcctccggaggaggcgaggattatcgaacctagcacgcctcgtgctaggtgtgtatgaacaatacgtta Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 90 HP_score: -9.1 Tail_Score: -4.54047 Start: 49 End: 61 Full_Region: GGTTAATTAAACCAA GCCGT TCT ACGGC TTTTATATCGCCTCC ................................................GCCGTTCTACGGC.............................................................................. TransTerm Strand: - Conf: 73 HP_score: -9.1 Tail_Score: -3.61468 Start: 49 End: 61 Full_Region: ggaggcgatataaaa gccgt aga acggc ttggtttaattaacc ................................................gccgtagaacggc.............................................................................. TransTerm Strand: + Conf: 95 HP_score: -15.5 Tail_Score: -2.9914 Start: 99 End: 119 Full_Region: GCGAGGATTATCGAA CCTAGCACG CCT CGTGCTAGG TGTGTATGAACAATA ..................................................................................................CCTAGCACGCCTCGTGCTAGG.................... Find igs database================================================ Query_seq: AA00820:AA00822|AA00820:AA00822:succinyl-diaminopimelate desuccinylase:conserved hypothetical protein (possible arsenate reductase):->->:564597..564735 139 taactattccctatccccatacgagccgtctggggttaattaaaccaagccgttctacggcttttatatcgcctccggaggaggcgaggattatcgaacctagcacgcctcgtgctaggtgtgtatgaacaatacgtta Intra-Species Hit: Count: 1 Min: 1 Max: 139 Len: 139 Subject: aact_AA00820_AA00822|succinyl-diaminopimelate desuccinylase:conserved hypothetical protein (possible arsenate reductase)|POSITIVE:POSITIVE|[564597,564735]|139 HSP 1 e-value: 2.0E-73 bit: 276.0 Len: 139 Query Start:1 Query End:139 Subject Strand: POSITIVE Subject Start: 1 Subject End: 139 taactattccctatccccatacgagccgtctggggttaattaaaccaagccgttctacggcttttatatcgcctccggaggaggcgaggattatcgaacctagcacgcctcgtgctaggtgtgtatgaacaatacgtta taactattccctatccccatacgagccgtctggggttaattaaaccaagccgttctacggcttttatatcgcctccggaggaggcgaggattatcgaacctagcacgcctcgtgctaggtgtgtatgaacaatacgtta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAACUAUUCCCUAUCCCCAUACGAGCCGUCUGGGGUUAAUUAAACCAAGCCGUUCUACGGCUUUUAUAUCGCCUCCGGAGGAGGCGAGGAUUAUCGAACCUAGCACGCCUCGUGCUAGGUGUGUAUGAACAAUACGUUA .......(((....(((((.(((...))).)))))...........((((((.....)))))).....((((((((...))))))))))).......((((((((((...))))))))))..((((.....)))).... (-51.40) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAACGUAUUGUUCAUACACACCUAGCACGAGGCGUGCUAGGUUCGAUAAUCCUCGCCUCCUCCGGAGGCGAUAUAAAAGCCGUAGAACGGCUUGGUUUAAUUAACCCCAGACGGCUCGUAUGGGGAUAGGGAAUAGUUA ......(((((((......((((((((((...))))))))))....(((.((((((((((...)))))))).....((((((.....)))))))).))).....(((((.(((...))).))))).....))))))).. (-52.70) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 396 90 43 161 99 aact:AA00515|5end_hypothetical_protein_355730..355960_POSITIVE 388 120 74 165 108 aact:AA01450|5end_hypothetical_protein_971860..972090_POSITIVE 381 109 61 195 134 aact:AA02678|5end_formate_dehydrogenase,_gamma_subunit_1865021..1865251_POSITIVE 374 86 42 103 59 aact:AA02586|5end_lipid_A_biosynthesis_lauroyl_acyltransferase_1799207..1799437_POSITIVE 366 123 83 219 184 aact:AA01825|5end_iron(III)_ABC_transporter,_permease_protein_1228475..1228705_POSITIVE 365 89 45 88 22 aact:AA01845|5end_gamma-glutamyltranspeptidase_precursor_1239841..1240071_POSITIVE 365 90 48 229 192 aact:AA00200|5end_thymidylate_synthase_138892..139122_POSITIVE 364 118 74 225 183 aact:AA01451|5end_D-xylulokinase_971935..972165_POSITIVE 363 90 48 210 173 aact:AA02415|5end_hypothetical_protein_1658443..1658673_POSITIVE 361 127 82 202 150 aact:AA02845|5end_Holliday_junction_DNA_helicase_1997970..1998200_POSITIVE 355 85 44 198 165 aact:AA01553|5end_conserved_hypothetical_protein_1039220..1039450_POSITIVE 355 77 31 214 168 aact:AA00545|5end_glutathionylspermidine_synthetase;amidase_373607..373837_POSITIVE 352 90 49 90 50 aact:AA01738|5end_enoyl-(acyl-carrier-protein)_reductase_1174699..1174929_POSITIVE 351 100 53 156 116 aact:AA02972|5end_conserved_hypothetical_protein_(tyrosine_phenol_lyase-related_protein)_2077381..2077611_POSITIVE 351 109 69 210 161 aact:AA00046|5end_formate_dependent_nitrite_reductase,_cytochrome-c_type_protein_36014..36244_POSITIVE 350 96 51 201 158 aact:AA00123|5end_hypothetical_protein_90221..90451_POSITIVE 350 96 51 192 149 aact:AA00122|5end_hypothetical_protein_90212..90442_POSITIVE 347 89 45 205 144 aact:AA00269|5end_3-oxoacyl-(acyl-carrier-protein)_reductase/short-chain_alcohol_dehydrogenase_188608..188838_POSITIVE 346 107 61 56 10 aact:AA02367|5end_conserved_hypothetical_protein_1623174..1623404_POSITIVE 343 70 21 224 170 aact:AA01338|5end_hypothetical_protein_904967..905197_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 393 117 73 146 91 aact:AA02891|3end_oligopeptide-binding_protein_precursor_2026370..2026520_POSITIVE 370 116 75 135 102 aact:AA02874|3end_hypothetical_protein_2017899..2018049_POSITIVE 369 89 50 139 98 aact:AA01284|3end_heat_shock_protein_(hsp60)_870294..870444_POSITIVE 363 90 45 82 34 aact:AA02947|3end_riboflavin_biosynthesis_protein_2061874..2062024_POSITIVE 351 100 53 86 46 aact:AA02970|3end_tyrosine_phenol-lyase_2077391..2077541_POSITIVE 346 107 61 54 8 aact:AA02366|3end_hypothetical_protein_1623252..1623402_POSITIVE 343 120 72 71 21 aact:AA01357|3end_5-formyltetrahydrofolate_cyclo-ligase-family_protein_919785..919935_POSITIVE 342 119 71 73 25 aact:AA01059|3end_orotate_phosphoribosyltransferase_735773..735923_POSITIVE 342 90 44 48 2 aact:AA00491|3end_haemin_storage_system_343493..343643_POSITIVE 340 86 49 56 7 aact:AA02560|3end_integral_membrane_protein_1783630..1783780_POSITIVE 334 120 76 126 74 aact:AA00366|3end_50S_ribosomal_protein_L2_247113..247263_POSITIVE 333 86 44 64 22 aact:AA02723|3end_hypothetical_protein_1906453..1906603_POSITIVE 333 99 58 56 18 aact:AA01088|3end_rare_lipoprotein_B_precursor_753483..753633_POSITIVE 332 89 43 143 99 aact:AA00038|3end_conserved_hypothetical_protein_30392..30542_POSITIVE 331 90 48 46 6 aact:AA00789|3end_DNA_topoisomerase_III_542545..542695_POSITIVE 328 117 71 148 95 aact:AA01889|3end_conserved_hypothetical_protein_(possible_permease)_1274590..1274740_POSITIVE 325 89 45 67 10 aact:AA02952|3end_lipoprotein_signal_peptidase_2065687..2065837_POSITIVE 323 120 71 82 38 aact:AA01987|3end_hypothetical_protein_1350620..1350770_POSITIVE 323 123 83 86 46 aact:AA00521|3end_phosphatase_358324..358474_POSITIVE 319 96 51 49 1 aact:AA01421|3end_phosphoglycolate_phosphatase_955806..955956_POSITIVE