Origin IGS: ataattcgcctgccataatgccaagggactttggcgggtggctatttttaagcttttttgcgtcatgctgatgaaatatttcttaatgatataataagcacttatcctatcattgttaaccaagaatgtcagtttccatttaatttttttgctttcgcgacattacgatggtagagtaagcgccaactcagtattgccgttgtcacaggttaggatattacttgaagcttgatctcaataaagccagaaaacgc .........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 gcgttttctggctttattgagatcaagcttcaagtaatatcctaacctgtgacaacggcaatactgagttggcgcttactctaccatcgtaatgtcgcgaaagcaaaaaaattaaatggaaactgacattcttggttaacaatgataggataagtgcttattatatcattaagaaatatttcatcagcatgacgcaaaaaagcttaaaaatagccacccgccaaagtcccttggcattatggcaggcgaattat Mask Tandem Repeat Region ================================================ ataattcgcctgccataatgccaagggactttggcgggtggctatttttaagcttttttgcgtcatgctgatgaaatatttcttaatgatataataagcacttatcctatcattgttaaccaagaatgtcagtttccatttaatttttttgctttcgcgacattacgatggtagagtaagcgccaactcagtattgccgttgtcacaggttaggatattacttgaagcttgatctcaataaagccagaaaacgc Find is-nt database================================================ Query_seq: AA00957:AA00958|AA00957:AA00958:porphobilinogen deaminase (hydroxymethylbilane synthase):adenylate cyclase:->->:662004..662257 254 ataattcgcctgccataatgccaagggactttggcgggtggctatttttaagcttttttgcgtcatgctgatgaaatatttcttaatgatataataagcacttatcctatcattgttaaccaagaatgtcagtttccatttaatttttttgctttcgcgacattacgatggtagagtaagcgccaactcagtattgccgttgtcacaggttaggatattacttgaagcttgatctcaataaagccagaaaacgc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA00957:AA00958|AA00957:AA00958:porphobilinogen deaminase (hydroxymethylbilane synthase):adenylate cyclase:->->:662004..662257 254 ataattcgcctgccataatgccaagggactttggcgggtggctatttttaagcttttttgcgtcatgctgatgaaatatttcttaatgatataataagcacttatcctatcattgttaaccaagaatgtcagtttccatttaatttttttgctttcgcgacattacgatggtagagtaagcgccaactcagtattgccgttgtcacaggttaggatattacttgaagcttgatctcaataaagccagaaaacgc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA00957:AA00958|AA00957:AA00958:porphobilinogen deaminase (hydroxymethylbilane synthase):adenylate cyclase:->->:662004..662257 254 ataattcgcctgccataatgccaagggactttggcgggtggctatttttaagcttttttgcgtcatgctgatgaaatatttcttaatgatataataagcacttatcctatcattgttaaccaagaatgtcagtttccatttaatttttttgctttcgcgacattacgatggtagagtaagcgccaactcagtattgccgttgtcacaggttaggatattacttgaagcttgatctcaataaagccagaaaacgc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ataattcgcctgccataatgccaagggactttggcgggtggctatttttaagcttttttgcgtcatgctgatgaaatatttcttaatgatataataagcacttatcctatcattgttaaccaagaatgtcagtttccatttaatttttttgctttcgcgacattacgatggtagagtaagcgccaactcagtattgccgttgtcacaggttaggatattacttgaagcttgatctcaataaagccagaaaacgc Predict ORF larger than 30AA ================================================ Protein_Len: 38 Strand: + Start: 58 End: 171 ......................................................... M R H A D E I F L N D I I S T Y P I I V N Q E C Q F P F N F F A F A T L R W ................................................................................... Protein_Len: 42 Strand: + Start: 104 End: 229 ....................................................................................................... M L S L L T K N V S F H L I F L L S R H Y D G R V S A N S V L P L S Q V R I L L E A ......................... Protein_Len: 48 Strand: - Start: 1 End: 144 Y N A Q W L A L P S Q R T A I K L S K Q T M S I F Y K K I I Y Y A S I R D N N V L F T L K W K M .............................................................................................................. ataattcgcctgccataatgccaagggactttggcgggtggctatttttaagcttttttgcgtcatgctgatgaaatatttcttaatgatataataagcacttatcctatcattgttaaccaagaatgtcagtttccatttaatttttttgctttcgcgacattacgatggtagagtaagcgccaactcagtattgccgttgtcacaggttaggatattacttgaagcttgatctcaataaagccagaaaacgc 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: 91 End: 120 ..........................................................................................GTTAACAATGATAGGATAAGTGCTTATTAT...................................................................................................................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ ataattcgcctgccataatgccaagggactttggcgggtggctatttttaagcttttttgcgtcatgctgatgaaatatttcttaatgatataataagcacttatcctatcattgttaaccaagaatgtcagtttccatttaatttttttgctttcgcgacattacgatggtagagtaagcgccaactcagtattgccgttgtcacaggttaggatattacttgaagcttgatctcaataaagccagaaaacgc Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 49 HP_score: -4.7 Tail_Score: -2.57132 Start: 20 End: 35 Full_Region: taaaaatagccaccc gccaa agtccc ttggc attatggcaggcgaa ...................gccaaagtcccttggc........................................................................................................................................................................................................................... Find igs database================================================ Query_seq: AA00957:AA00958|AA00957:AA00958:porphobilinogen deaminase (hydroxymethylbilane synthase):adenylate cyclase:->->:662004..662257 254 ataattcgcctgccataatgccaagggactttggcgggtggctatttttaagcttttttgcgtcatgctgatgaaatatttcttaatgatataataagcacttatcctatcattgttaaccaagaatgtcagtttccatttaatttttttgctttcgcgacattacgatggtagagtaagcgccaactcagtattgccgttgtcacaggttaggatattacttgaagcttgatctcaataaagccagaaaacgc Intra-Species Hit: Count: 1 Min: 1 Max: 254 Len: 254 Subject: aact_AA00957_AA00958|porphobilinogen deaminase (hydroxymethylbilane synthase):adenylate cyclase|POSITIVE:POSITIVE|[662004,662257]|254 HSP 1 e-value: 1.0E-129 bit: 462.0 Len: 254 Query Start:1 Query End:254 Subject Strand: POSITIVE Subject Start: 1 Subject End: 254 ataattcgcctgccataatgccaagggactttggcgggtggctatttttaagcttttttgcgtcatgctgatgaaatatttcttaatgatataataagcacttatcctatcattgttaaccaagaatgtcagtttccatttaannnnnnngctttcgcgacattacgatggtagagtaagcgccaactcagtattgccgttgtcacaggttaggatattacttgaagcttgatctcaataaagccagaaaacgc ataattcgcctgccataatgccaagggactttggcgggtggctatttttaagcttttttgcgtcatgctgatgaaatatttcttaatgatataataagcacttatcctatcattgttaaccaagaatgtcagtttccatttaatttttttgctttcgcgacattacgatggtagagtaagcgccaactcagtattgccgttgtcacaggttaggatattacttgaagcttgatctcaataaagccagaaaacgc Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUAAUUCGCCUGCCAUAAUGCCAAGGGACUUUGGCGGGUGGCUAUUUUUAAGCUUUUUUGCGUCAUGCUGAUGAAAUAUUUCUUAAUGAUAUAAUAAGCACUUAUCCUAUCAUUGUUAACCAAGAAUGUCAGUUUCCAUUUAAUUUUUUUGCUUUCGCGACAUUACGAUGGUAGAGUAAGCGCCAACUCAGUAUUGCCGUUGUCACAGGUUAGGAUAUUACUUGAAGCUUGAUCUCAAUAAAGCCAGAAAACGC .....((((((((((.....((...))....))))))))))...(((((..(((((.(((.((((.(((..............((((((((..((((....))))..)))))))).....((((((((((.....((...........((((....))))....(((((((((((((........)))).....)))))))))....))....)))))).)))).))).))).).))).)))))..)))))... (-63.10) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GCGUUUUCUGGCUUUAUUGAGAUCAAGCUUCAAGUAAUAUCCUAACCUGUGACAACGGCAAUACUGAGUUGGCGCUUACUCUACCAUCGUAAUGUCGCGAAAGCAAAAAAAUUAAAUGGAAACUGACAUUCUUGGUUAACAAUGAUAGGAUAAGUGCUUAUUAUAUCAUUAAGAAAUAUUUCAUCAGCAUGACGCAAAAAAGCUUAAAAAUAGCCACCCGCCAAAGUCCCUUGGCAUUAUGGCAGGCGAAUUAU ((.((((..((((((.(((.(.(((.(((..(((((.(((((((....(((.((((..((....)).)))).))).......((((....((((((((....)).............(....).))))))..)))).........)))))))..))))).............(((....)))...))).)))).))).))))))..))))..((((...(((((......)))))....))))..))....... (-60.30) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 388 42 7 67 10 aact:AA02616|5end_transcriptional_regulator_1823684..1823914_POSITIVE 373 209 163 54 15 aact:AA02886|5end_OBG-related_GTP-binding_protein_2023382..2023612_POSITIVE 361 44 5 193 147 aact:AA02821|5end_ribosomal-protein-alanine_acetyltransferase_1982255..1982485_POSITIVE 355 215 180 75 36 aact:AA01547|5end_deoxyribose-phosphate_aldolase_1036271..1036501_POSITIVE 353 42 7 40 1 aact:AA00596|5end_uridylate_kinase_407496..407726_POSITIVE 348 210 163 163 104 aact:AA02687|5end_hydrogenase-4_component_D_1872521..1872751_POSITIVE 348 197 157 203 161 aact:AA02241|5end_molybdenum_cofactor_biosynthesis_protein_C_1523464..1523694_POSITIVE 341 200 154 184 129 aact:AA01054|5end_conserved_hypothetical_protein_733678..733908_POSITIVE 340 39 10 91 53 aact:AA02260|5end_pseudouridylate_synthase_I_1537067..1537297_POSITIVE 338 200 151 204 157 aact:AA01464|5end_hypothetical_protein_984210..984440_POSITIVE 337 199 153 117 76 aact:AA00047|5end_formate_dependent_nitrite_reductase,_cytochrome_c552_36753..36983_POSITIVE 334 41 7 46 10 aact:AA01064|5end_conserved_hypothetical_protein_(possible_aminomethyltransferase)_737428..737658_POSITIVE 334 200 152 182 136 aact:AA00482|5end_hydrolase_(haloacid_dehalogenase-like)_(HAD_superfamily)_335232..335462_POSITIVE 330 199 154 219 154 aact:AA02678|5end_formate_dehydrogenase,_gamma_subunit_1865021..1865251_POSITIVE 328 68 25 82 46 aact:AA01598|5end_conserved_hypothetical_protein_1078954..1079184_POSITIVE 326 42 6 104 60 aact:AA00142|5end_glycerate_kinase_101309..101539_POSITIVE 324 40 5 159 131 aact:AA01681|5end_molybdate-binding_periplasmic_protein_1135159..1135389_POSITIVE 324 197 151 209 160 aact:AA00636|5end_MrsA_protein_(phosphoglucomutase/phosphomannomutase)_436780..437010_POSITIVE 323 37 1 176 135 aact:AA01141|5end_conserved_hypothetical_protein_(possible_component_of_anaerobic_dehydrogenase/oxidoreductase)_782497..782727_POSITIVE 321 230 181 100 34 aact:AA01715|5end_conserved_hypothetical_protein_1160480..1160710_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 355 215 180 44 5 aact:AA01546|3end_deoxyribose_operon_repressor_1036320..1036470_POSITIVE 348 210 163 147 88 aact:AA02686|3end_hydrogenase_4_component_C_1872585..1872735_POSITIVE 340 39 10 72 34 aact:AA02259|3end_possible_RelE-like_protein_1537128..1537278_POSITIVE 338 200 151 114 67 aact:AA01463|3end_probable_transport_protein_984200..984350_POSITIVE 334 200 152 69 23 aact:AA00480|3end_mannose-specific_phosphotransferase_system_IID_335199..335349_POSITIVE 325 77 31 56 5 aact:AA02545|3end_conserved_hypothetical_protein_1774221..1774371_POSITIVE 323 37 1 125 84 aact:AA01140|3end_anaerobic_dimethyl_sulfoxide_reductase,_chain_C_782526..782676_POSITIVE 318 199 151 83 41 aact:AA01829|3end_hypothetical_protein_1231662..1231812_POSITIVE 318 42 8 84 49 aact:AA01304|3end_penicillin-binding_protein_1A_885580..885730_POSITIVE 315 90 42 133 88 aact:AA02940|3end_conserved_hypothetical_protein_2058652..2058802_POSITIVE 313 228 181 83 27 aact:AA01859|3end_hypothetical_protein_1251890..1252040_POSITIVE 311 70 22 148 90 aact:AA01393|3end_ABC_transporter,_ATP-binding_protein_942029..942179_POSITIVE 311 230 181 53 3 aact:AA00550|3end_ferredoxin-type_protein_377201..377351_POSITIVE 308 68 21 149 111 aact:AA01145|3end_glycyl-tRNA_synthetase_alpha_subunit_784460..784610_POSITIVE 305 45 6 42 9 aact:AA02705|3end_hypothetical_protein_1886928..1887078_POSITIVE 305 48 6 71 36 aact:AA01416|3end_2C-methyl-D-erythritol_2,4-cyclodiphosphate_953336..953486_POSITIVE 302 45 7 114 60 aact:AA00521|3end_phosphatase_358324..358474_POSITIVE 301 209 166 63 15 aact:AA01167|3end_glucose-6-phosphate_1-dehydrogenase_801067..801217_POSITIVE 300 45 6 92 52 aact:AA01890|3end_cell-cycle_protein_1275967..1276117_POSITIVE 299 42 7 48 6 aact:AA00241|3end_formate_acetyltransferase_activating_enzyme_(anaerobic_ribonucleoside-triphosphate_reductase_activating_protein)_172090..172240_POSITIVE