Origin IGS: aagtaaatcctctataatagacatgagtaaaatgaaaaagaaacgctacaaaaatagcatactattcataaaattcaagttatttttaaacaaaaattaatgataaaaataaatacttagataaaatacaataaaattgtaatttcacaatataaaaaatcaaaaacaaccttattctttatatacgcgttatttaatttcatgaatctttaatgtgatcacgatcaccatttttgtctcttttcttctgatttcgttcaaattttccaccattatttaatagctgatcatgttaaaacgttgtataatctgcgcccttccgccttccacaggacaaaagtgcggtggaaaaacacagaatttttaactcactccaagaattttca .........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 tgaaaattcttggagtgagttaaaaattctgtgtttttccaccgcacttttgtcctgtggaaggcggaagggcgcagattatacaacgttttaacatgatcagctattaaataatggtggaaaatttgaacgaaatcagaagaaaagagacaaaaatggtgatcgtgatcacattaaagattcatgaaattaaataacgcgtatataaagaataaggttgtttttgattttttatattgtgaaattacaattttattgtattttatctaagtatttatttttatcattaatttttgtttaaaaataacttgaattttatgaatagtatgctatttttgtagcgtttctttttcattttactcatgtctattatagaggatttactt Mask Tandem Repeat Region ================================================ aagtaaatcctctataatagacatgagtaaaatgaaaaagaaacgctacaaaaatagcatactattcataaaattcaagttatttttaaacaaaaattaatgataaaaataaatacttagataaaatacaataaaattgtaatttcacaatataaaaaatcaaaaacaaccttattctttatatacgcgttatttaatttcatgaatctttaatgtgatcacgatcaccatttttgtctcttttcttctgatttcgttcaaattttccaccattatttaatagctgatcatgttaaaacgttgtataatctgcgcccttccgccttccacaggacaaaagtgcggtggaaaaacacagaatttttaactcactccaagaattttca Find is-nt database================================================ Query_seq: AA02343:AA02344|AA02343:AA02344:glutamine synthetase:GTP-binding protein, elongation factor typA/bipA:->->:1601720..1602105 386 aagtaaatcctctataatagacatgagtaaaatgaaaaagaaacgctacaaaaatagcatactattcataaaattcaagttatttttaaacaaaaattaatgataaaaataaatacttagataaaatacaataaaattgtaatttcacaatataaaaaatcaaaaacaaccttattctttatatacgcgttatttaatttcatgaatctttaatgtgatcacgatcaccatttttgtctcttttcttctgatttcgttcaaattttccaccattatttaatagctgatcatgttaaaacgttgtataatctgcgcccttccgccttccacaggacaaaagtgcggtggaaaaacacagaatttttaactcactccaagaattttca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA02343:AA02344|AA02343:AA02344:glutamine synthetase:GTP-binding protein, elongation factor typA/bipA:->->:1601720..1602105 386 aagtaaatcctctataatagacatgagtaaaatgaaaaagaaacgctacaaaaatagcatactattcataaaattcaagttatttttaaacaaaaattaatgataaaaataaatacttagataaaatacaataaaattgtaatttcacaatataaaaaatcaaaaacaaccttattctttatatacgcgttatttaatttcatgaatctttaatgtgatcacgatcaccatttttgtctcttttcttctgatttcgttcaaattttccaccattatttaatagctgatcatgttaaaacgttgtataatctgcgcccttccgccttccacaggacaaaagtgcggtggaaaaacacagaatttttaactcactccaagaattttca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA02343:AA02344|AA02343:AA02344:glutamine synthetase:GTP-binding protein, elongation factor typA/bipA:->->:1601720..1602105 386 aagtaaatcctctataatagacatgagtaaaatgaaaaagaaacgctacaaaaatagcatactattcataaaattcaagttatttttaaacaaaaattaatgataaaaataaatacttagataaaatacaataaaattgtaatttcacaatataaaaaatcaaaaacaaccttattctttatatacgcgttatttaatttcatgaatctttaatgtgatcacgatcaccatttttgtctcttttcttctgatttcgttcaaattttccaccattatttaatagctgatcatgttaaaacgttgtataatctgcgcccttccgccttccacaggacaaaagtgcggtggaaaaacacagaatttttaactcactccaagaattttca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aagtaaatcctctataatagacatgagtaaaatgaaaaagaaacgctacaaaaatagcatactattcataaaattcaagttatttttaaacaaaaattaatgataaaaataaatacttagataaaatacaataaaattgtaatttcacaatataaaaaatcaaaaacaaccttattctttatatacgcgttatttaatttcatgaatctttaatgtgatcacgatcaccatttttgtctcttttcttctgatttcgttcaaattttccaccattatttaatagctgatcatgttaaaacgttgtataatctgcgcccttccgccttccacaggacaaaagtgcggtggaaaaacacagaatttttaactcactccaagaattttca Predict ORF larger than 30AA ================================================ Protein_Len: 30 Strand: + Start: 121 End: 210 ........................................................................................................................ M K Y N K I V I S Q Y K K S K T T L F F I Y A L F N F M N L ................................................................................................................................................................................ Protein_Len: 41 Strand: + Start: 262 End: 384 ..................................................................................................................................................................................................................................................................... M F H H Y L I A D H V K T L Y N L R P S A F H R T K V R W K N T E F L T H S K N F .. aagtaaatcctctataatagacatgagtaaaatgaaaaagaaacgctacaaaaatagcatactattcataaaattcaagttatttttaaacaaaaattaatgataaaaataaatacttagataaaatacaataaaattgtaatttcacaatataaaaaatcaaaaacaaccttattctttatatacgcgttatttaatttcatgaatctttaatgtgatcacgatcaccatttttgtctcttttcttctgatttcgttcaaattttccaccattatttaatagctgatcatgttaaaacgttgtataatctgcgcccttccgccttccacaggacaaaagtgcggtggaaaaacacagaatttttaactcactccaagaattttca 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================================================ aagtaaatcctctataatagacatgagtaaaatgaaaaagaaacgctacaaaaatagcatactattcataaaattcaagttatttttaaacaaaaattaatgataaaaataaatacttagataaaatacaataaaattgtaatttcacaatataaaaaatcaaaaacaaccttattctttatatacgcgttatttaatttcatgaatctttaatgtgatcacgatcaccatttttgtctcttttcttctgatttcgttcaaattttccaccattatttaatagctgatcatgttaaaacgttgtataatctgcgcccttccgccttccacaggacaaaagtgcggtggaaaaacacagaatttttaactcactccaagaattttca Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 73 HP_score: -5.8 Tail_Score: -4.56961 Start: 127 End: 141 Full_Region: tttatattgtgaaat tacaat ttt attgta ttttatctaagtatt ..............................................................................................................................tacaattttattgta..................................................................................................................................................................................................................................................... Find igs database================================================ Query_seq: AA02343:AA02344|AA02343:AA02344:glutamine synthetase:GTP-binding protein, elongation factor typA/bipA:->->:1601720..1602105 386 aagtaaatcctctataatagacatgagtaaaatgaaaaagaaacgctacaaaaatagcatactattcataaaattcaagttatttttaaacaaaaattaatgataaaaataaatacttagataaaatacaataaaattgtaatttcacaatataaaaaatcaaaaacaaccttattctttatatacgcgttatttaatttcatgaatctttaatgtgatcacgatcaccatttttgtctcttttcttctgatttcgttcaaattttccaccattatttaatagctgatcatgttaaaacgttgtataatctgcgcccttccgccttccacaggacaaaagtgcggtggaaaaacacagaatttttaactcactccaagaattttca Intra-Species Hit: Count: 1 Min: 1 Max: 386 Len: 386 Subject: aact_AA02343_AA02344|glutamine synthetase:GTP-binding protein, elongation factor typA/bipA|POSITIVE:POSITIVE|[1601720,1602105]|386 HSP 1 e-value: 1.0E-121 bit: 436.0 Len: 220 Query Start:167 Query End:386 Subject Strand: POSITIVE Subject Start: 167 Subject End: 386 ......................................................................................................................................................................caaccttattctttatatacgcgttatttaatttcatgaatctttaatgtgatcacgatcaccatttttgtctcttttcttctgatttcgttcaaattttccaccattatttaatagctgatcatgttaaaacgttgtataatctgcgcccttccgccttccacaggacaaaagtgcggtggaaaaacacagaatttttaactcactccaagaattttca ......................................................................................................................................................................caaccttattctttatatacgcgttatttaatttcatgaatctttaatgtgatcacgatcaccatttttgtctcttttcttctgatttcgttcaaattttccaccattatttaatagctgatcatgttaaaacgttgtataatctgcgcccttccgccttccacaggacaaaagtgcggtggaaaaacacagaatttttaactcactccaagaattttca HSP 2 e-value: 3.0E-19 bit: 97.6 Len: 49 Query Start:1 Query End:49 Subject Strand: POSITIVE Subject Start: 1 Subject End: 49 aagtaaatcctctataatagacatgagtaaaatgaaaaagaaacgctac................................................................................................................................................................................................................................................................................................................................................. aagtaaatcctctataatagacatgagtaaaatgaaaaagaaacgctac................................................................................................................................................................................................................................................................................................................................................. Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAGUAAAUCCUCUAUAAUAGACAUGAGUAAAAUGAAAAAGAAACGCUACAAAAAUAGCAUACUAUUCAUAAAAUUCAAGUUAUUUUUAAACAAAAAUUAAUGAUAAAAAUAAAUACUUAGAUAAAAUACAAUAAAAUUGUAAUUUCACAAUAUAAAAAAUCAAAAACAACCUUAUUCUUUAUAUACGCGUUAUUUAAUUUCAUGAAUCUUUAAUGUGAUCACGAUCACCAUUUUUGUCUCUUUUCUUCUGAUUUCGUUCAAAUUUUCCACCAUUAUUUAAUAGCUGAUCAUGUUAAAACGUUGUAUAAUCUGCGCCCUUCCGCCUUCCACAGGACAAAAGUGCGGUGGAAAAACACAGAAUUUUUAACUCACUCCAAGAAUUUUCA .......................(((((..(((((((((((((.(..((((((((........((((((..........(((((((((..((........)).)))))))))....((((((((..((((((...))))))........(((((((.(((.((........))))).))))))).....))))))))....)))))).......(((((....))))).))))))))..).))))))....)))))))....(((((((((....(((((((........)))))))..............((((.......(((.....)))......)))))))))))))..............)))))............... (-54.52) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAAAAUUCUUGGAGUGAGUUAAAAAUUCUGUGUUUUUCCACCGCACUUUUGUCCUGUGGAAGGCGGAAGGGCGCAGAUUAUACAACGUUUUAACAUGAUCAGCUAUUAAAUAAUGGUGGAAAAUUUGAACGAAAUCAGAAGAAAAGAGACAAAAAUGGUGAUCGUGAUCACAUUAAAGAUUCAUGAAAUUAAAUAACGCGUAUAUAAAGAAUAAGGUUGUUUUUGAUUUUUUAUAUUGUGAAAUUACAAUUUUAUUGUAUUUUAUCUAAGUAUUUAUUUUUAUCAUUAAUUUUUGUUUAAAAAUAACUUGAAUUUUAUGAAUAGUAUGCUAUUUUUGUAGCGUUUCUUUUUCAUUUUACUCAUGUCUAUUAUAGAGGAUUUACUU ...(((((((((((((((((.((((..(((((((((((((.((.(((.........)))...)).)))))))))))))........(((((....((..((.((((((....)))))).))..))..))))).....((((((((.(..((((((((((((((....))).........((((((((((((......((((.(((((((((((((((....)))).)))))))))))))))....((((((...)))))).......(((((...((((((((.((........))..))))))))))))))))))))))))).....)))))))))))..).))))))))...)))))))))).)))......)))))))).... (-87.20) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 455 356 313 140 105 aact:AA00194|5end_oxygen-independent_coproporphyrinogen_III_oxidase_135545..135775_POSITIVE 434 373 331 79 29 aact:AA02378|5end_hypothetical_protein_1627753..1627983_POSITIVE 425 350 308 200 151 aact:AA00507|5end_hypothetical_protein_352996..353226_POSITIVE 388 359 318 132 88 aact:AA02249|5end_thiamine_biosynthesis_protein_1528365..1528595_POSITIVE 378 359 312 62 8 aact:AA01642|5end_possible_iron(III)_ABC_transporter_1110970..1111200_POSITIVE 373 357 311 59 21 aact:AA02213|5end_hypothetical_protein_1506996..1507226_POSITIVE 363 346 301 67 3 aact:AA02250|5end_possible_cytochrome_c-type_protein_1530125..1530355_POSITIVE 360 349 307 173 127 aact:AA00579|5end_probable_DNA_recombination_protein_395265..395495_POSITIVE 358 373 332 211 167 aact:AA01145|5end_glycyl-tRNA_synthetase_alpha_subunit_783478..783708_POSITIVE 354 347 302 76 27 aact:AA01634|5end_hypothetical_protein_1104324..1104554_POSITIVE 351 346 311 115 74 aact:AA02076|5end_conserved_hypothetical_protein_1409926..1410156_POSITIVE 350 356 311 64 18 aact:AA01188|5end_conserved_hypothetical_protein_813912..814142_POSITIVE 347 349 308 231 181 aact:AA00713|5end_chaperone_protein_hscA,_heat_shock_cognate_66_488770..489000_POSITIVE 343 349 309 44 6 aact:AA01710|5end_ribosomal_protein_S6_modification_protein_1159348..1159578_POSITIVE 340 352 311 76 26 aact:AA02745|5end_isopentenyl_monophosphate_kinase_1923279..1923509_POSITIVE 338 324 285 216 183 aact:AA00540|5end_hypothetical_protein_370050..370280_POSITIVE 336 373 336 92 53 aact:AA00233|5end_hypothetical_protein_162339..162569_POSITIVE 333 350 310 143 97 aact:AA01071|5end_RNA_methyltransferase_741707..741937_POSITIVE 333 373 332 139 97 aact:AA00126|5end_conserved_hypothetical_protein_91053..91283_POSITIVE 332 373 331 72 24 aact:AA02037|5end_hypothetical_protein_1386832..1387062_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 455 356 313 60 25 aact:AA00191|3end_conserved_hypothetical_protein_(possible_acetyltransferase,_GNAT_family)_135545..135695_POSITIVE 393 351 311 142 100 aact:AA00909.1|3end_hypothetical_protein_626550..626700_POSITIVE 373 357 311 148 110 aact:AA02213|3end_hypothetical_protein_1507165..1507315_POSITIVE 373 357 311 61 23 aact:AA02212|3end_ribonucleoside-diphosphate_reductase_beta_chain_1507078..1507228_POSITIVE 358 359 322 42 6 aact:AA02246|3end_peptidase_E_1528355..1528505_POSITIVE 354 368 322 141 95 aact:AA00697|3end_hypothetical_protein_477174..477324_POSITIVE 354 368 322 73 27 aact:AA00696|3end_iron(III)_ABC_transporter,_periplasmic_iron-compound-binding_protein_477106..477256_POSITIVE 351 346 311 88 47 aact:AA02075|3end_conserved_hypothetical_protein_1409979..1410129_POSITIVE 350 375 332 85 35 aact:AA02748|3end_conserved_hypothetical_protein_1925582..1925732_POSITIVE 350 356 311 64 18 aact:AA01187|3end_conserved_hypothetical_protein_813992..814142_POSITIVE 340 352 311 73 23 aact:AA02743|3end_outer_membrane_lipoprotein_precursor/glutamyl-tRNA_reductase_subunit_1923356..1923506_POSITIVE 338 324 285 133 100 aact:AA00539|3end_ADP-L-glycero-D-manno-heptose-6-epimerase_370047..370197_POSITIVE 336 373 336 72 33 aact:AA00231|3end_long-chain-fatty-acid--CoA_ligase_162399..162549_POSITIVE 332 373 331 65 17 aact:AA02035|3end_translation_initiation_factor_IF-3_1386905..1387055_POSITIVE 328 352 313 89 36 aact:AA01962|3end_recombination_protein_rec2_1328706..1328856_POSITIVE 327 352 320 73 45 aact:AA00345|3end_transcription_antitermination_protein_232058..232208_POSITIVE 326 350 306 68 7 aact:AA00551|3end_hypothetical_protein_377403..377553_POSITIVE 320 348 312 72 36 aact:AA02952|3end_lipoprotein_signal_peptidase_2065687..2065837_POSITIVE 319 336 292 107 56 aact:AA01751|3end_conserved_hypothetical_protein_1185392..1185542_POSITIVE 317 347 315 148 120 aact:AA00500|3end_hypothetical_protein_347356..347506_POSITIVE