Origin IGS: tgaatcatagtctattgtaatggtatcagtttaaatttttacaagaattgtatttttattaattcctgagccgccacgtaacttttctcacgcgggaataatcggaatattttacatattggtatagttgagattaatttctcttacatgtagggtgcttttttcgatgtaattggttccgtagataaacctaaagaggaacattaatgtcttccactagatacagcaaatcgaagaagtgaaaatgaaatataattcatatctatctgatggggaaatagaaggtgaagagattcagtatgtagaaaagaggtgcttagctctaatgtcttattttcattgagtatattttaaattccaaaagcggattggtttctataatcatatttttaatgtattctaaaaatcacttcctaaacagcttttttagaaaatcacctagtagatacccttttttgttttgcgaagaaattgctttcaactaatgaatccttagtgcgagagggctataatcatgtggttcattgataaaaaaggagcgaaa .........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.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tttcgctccttttttatcaatgaaccacatgattatagccctctcgcactaaggattcattagttgaaagcaatttcttcgcaaaacaaaaaagggtatctactaggtgattttctaaaaaagctgtttaggaagtgatttttagaatacattaaaaatatgattatagaaaccaatccgcttttggaatttaaaatatactcaatgaaaataagacattagagctaagcacctcttttctacatactgaatctcttcaccttctatttccccatcagatagatatgaattatatttcattttcacttcttcgatttgctgtatctagtggaagacattaatgttcctctttaggtttatctacggaaccaattacatcgaaaaaagcaccctacatgtaagagaaattaatctcaactataccaatatgtaaaatattccgattattcccgcgtgagaaaagttacgtggcggctcaggaattaataaaaatacaattcttgtaaaaatttaaactgataccattacaatagactatgattca Mask Tandem Repeat Region ================================================ tgaatcatagtctattgtaatggtatcagtttaaatttttacaagaattgtatttttattaattcctgagccgccacgtaacttttctcacgcgggaataatcggaatattttacatattggtatagttgagattaatttctcttacatgtagggtgcttttttcgatgtaattggttccgtagataaacctaaagaggaacattaatgtcttccactagatacagcaaatcgaagaagtgaaaatgaaatataattcatatctatctgatggggaaatagaaggtgaagagattcagtatgtagaaaagaggtgcttagctctaatgtcttattttcattgagtatattttaaattccaaaagcggattggtttctataatcatatttttaatgtattctaaaaatcacttcctaaacagcttttttagaaaatcacctagtagatacccttttttgttttgcgaagaaattgctttcaactaatgaatccttagtgcgagagggctataatcatgtggttcattgataaaaaaggagcgaaa Find is-nt database================================================ Query_seq: AA01944:AA01945|AA01944:AA01945:conserved hypothetical protein:selenophosphate synthase:->->:1314462..1315005 544 tgaatcatagtctattgtaatggtatcagtttaaatttttacaagaattgtatttttattaattcctgagccgccacgtaacttttctcacgcgggaataatcggaatattttacatattggtatagttgagattaatttctcttacatgtagggtgcttttttcgatgtaattggttccgtagataaacctaaagaggaacattaatgtcttccactagatacagcaaatcgaagaagtgaaaatgaaatataattcatatctatctgatggggaaatagaaggtgaagagattcagtatgtagaaaagaggtgcttagctctaatgtcttattttcattgagtatattttaaattccaaaagcggattggtttctataatcatatttttaatgtattctaaaaatcacttcctaaacagcttttttagaaaatcacctagtagatacccttttttgttttgcgaagaaattgctttcaactaatgaatccttagtgcgagagggctataatcatgtggttcattgataaaaaaggagcgaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA01944:AA01945|AA01944:AA01945:conserved hypothetical protein:selenophosphate synthase:->->:1314462..1315005 544 tgaatcatagtctattgtaatggtatcagtttaaatttttacaagaattgtatttttattaattcctgagccgccacgtaacttttctcacgcgggaataatcggaatattttacatattggtatagttgagattaatttctcttacatgtagggtgcttttttcgatgtaattggttccgtagataaacctaaagaggaacattaatgtcttccactagatacagcaaatcgaagaagtgaaaatgaaatataattcatatctatctgatggggaaatagaaggtgaagagattcagtatgtagaaaagaggtgcttagctctaatgtcttattttcattgagtatattttaaattccaaaagcggattggtttctataatcatatttttaatgtattctaaaaatcacttcctaaacagcttttttagaaaatcacctagtagatacccttttttgttttgcgaagaaattgctttcaactaatgaatccttagtgcgagagggctataatcatgtggttcattgataaaaaaggagcgaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA01944:AA01945|AA01944:AA01945:conserved hypothetical protein:selenophosphate synthase:->->:1314462..1315005 544 tgaatcatagtctattgtaatggtatcagtttaaatttttacaagaattgtatttttattaattcctgagccgccacgtaacttttctcacgcgggaataatcggaatattttacatattggtatagttgagattaatttctcttacatgtagggtgcttttttcgatgtaattggttccgtagataaacctaaagaggaacattaatgtcttccactagatacagcaaatcgaagaagtgaaaatgaaatataattcatatctatctgatggggaaatagaaggtgaagagattcagtatgtagaaaagaggtgcttagctctaatgtcttattttcattgagtatattttaaattccaaaagcggattggtttctataatcatatttttaatgtattctaaaaatcacttcctaaacagcttttttagaaaatcacctagtagatacccttttttgttttgcgaagaaattgctttcaactaatgaatccttagtgcgagagggctataatcatgtggttcattgataaaaaaggagcgaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tgaatcatagtctattgtaatggtatcagtttaaatttttacaagaattgtatttttattaattcctgagccgccacgtaacttttctcacgcgggaataatcggaatattttacatattggtatagttgagattaatttctcttacatgtagggtgcttttttcgatgtaattggttccgtagataaacctaaagaggaacattaatgtcttccactagatacagcaaatcgaagaagtgaaaatgaaatataattcatatctatctgatggggaaatagaaggtgaagagattcagtatgtagaaaagaggtgcttagctctaatgtcttattttcattgagtatattttaaattccaaaagcggattggtttctataatcatatttttaatgtattctaaaaatcacttcctaaacagcttttttagaaaatcacctagtagatacccttttttgttttgcgaagaaattgctttcaactaatgaatccttagtgcgagagggctataatcatgtggttcattgataaaaaaggagcgaaa Predict ORF larger than 30AA ================================================ Protein_Len: 30 Strand: + Start: 35 End: 124 .................................. M F T R I V F L L I P E P P R N F S H A G I I G I F Y I L V .................................................................................................................................................................................................................................................................................................................................................................................................................................... Protein_Len: 40 Strand: + Start: 221 End: 340 ............................................................................................................................................................................................................................ M Q Q I E E V K M K Y N S Y L S D G E I E G E E I Q Y V E K R C L A L M S Y F H ............................................................................................................................................................................................................ Protein_Len: 50 Strand: + Start: 333 End: 482 ............................................................................................................................................................................................................................................................................................................................................ M F I E Y I L N S K S G L V S I I I F L M Y S K N H F L N S F F R K S P S R Y P F L F C E E I A F N .............................................................. Protein_Len: 47 Strand: - Start: 207 End: 347 .............................................................................................................................................................................................................. H R G S S V A F R L L S F S I Y N M D I Q H P F L L H L S E T H L F S T S L E L T K N E N L M ..................................................................................................................................................................................................... Protein_Len: 30 Strand: - Start: 115 End: 204 .................................................................................................................. M N T Y N L N I E R V H L T S K E I Y N T G Y I F R F L F M .................................................................................................................................................................................................................................................................................................................................................... Protein_Len: 31 Strand: - Start: 42 End: 134 ......................................... L F Q I K I L E Q A A V Y S K E R P F L R F I K C I P I T S M .......................................................................................................................................................................................................................................................................................................................................................................................................................... tgaatcatagtctattgtaatggtatcagtttaaatttttacaagaattgtatttttattaattcctgagccgccacgtaacttttctcacgcgggaataatcggaatattttacatattggtatagttgagattaatttctcttacatgtagggtgcttttttcgatgtaattggttccgtagataaacctaaagaggaacattaatgtcttccactagatacagcaaatcgaagaagtgaaaatgaaatataattcatatctatctgatggggaaatagaaggtgaagagattcagtatgtagaaaagaggtgcttagctctaatgtcttattttcattgagtatattttaaattccaaaagcggattggtttctataatcatatttttaatgtattctaaaaatcacttcctaaacagcttttttagaaaatcacctagtagatacccttttttgttttgcgaagaaattgctttcaactaatgaatccttagtgcgagagggctataatcatgtggttcattgataaaaaaggagcgaaa 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: 484 End: 513 ...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AATGAATCCTTAGTGCGAGAGGGCTATAAT............................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ tgaatcatagtctattgtaatggtatcagtttaaatttttacaagaattgtatttttattaattcctgagccgccacgtaacttttctcacgcgggaataatcggaatattttacatattggtatagttgagattaatttctcttacatgtagggtgcttttttcgatgtaattggttccgtagataaacctaaagaggaacattaatgtcttccactagatacagcaaatcgaagaagtgaaaatgaaatataattcatatctatctgatggggaaatagaaggtgaagagattcagtatgtagaaaagaggtgcttagctctaatgtcttattttcattgagtatattttaaattccaaaagcggattggtttctataatcatatttttaatgtattctaaaaatcacttcctaaacagcttttttagaaaatcacctagtagatacccttttttgttttgcgaagaaattgctttcaactaatgaatccttagtgcgagagggctataatcatgtggttcattgataaaaaaggagcgaaa Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 43 HP_score: -2.4 Tail_Score: -3.12999 Start: 130 End: 143 Full_Region: CATATTGGTATAGTT GAGA TTAATT TCTC TTACATGTAGGGTGC .................................................................................................................................GAGATTAATTTCTC................................................................................................................................................................................................................................................................................................................................................................................................................. Find igs database================================================ Query_seq: AA01944:AA01945|AA01944:AA01945:conserved hypothetical protein:selenophosphate synthase:->->:1314462..1315005 544 tgaatcatagtctattgtaatggtatcagtttaaatttttacaagaattgtatttttattaattcctgagccgccacgtaacttttctcacgcgggaataatcggaatattttacatattggtatagttgagattaatttctcttacatgtagggtgcttttttcgatgtaattggttccgtagataaacctaaagaggaacattaatgtcttccactagatacagcaaatcgaagaagtgaaaatgaaatataattcatatctatctgatggggaaatagaaggtgaagagattcagtatgtagaaaagaggtgcttagctctaatgtcttattttcattgagtatattttaaattccaaaagcggattggtttctataatcatatttttaatgtattctaaaaatcacttcctaaacagcttttttagaaaatcacctagtagatacccttttttgttttgcgaagaaattgctttcaactaatgaatccttagtgcgagagggctataatcatgtggttcattgataaaaaaggagcgaaa Intra-Species Hit: Count: 1 Min: 1 Max: 544 Len: 544 Subject: aact_AA01944_AA01945|conserved hypothetical protein:selenophosphate synthase|POSITIVE:POSITIVE|[1314462,1315005]|544 HSP 1 e-value: 0.0 bit: 1078.0 Len: 544 Query Start:1 Query End:544 Subject Strand: POSITIVE Subject Start: 1 Subject End: 544 tgaatcatagtctattgtaatggtatcagtttaaatttttacaagaattgtatttttattaattcctgagccgccacgtaacttttctcacgcgggaataatcggaatattttacatattggtatagttgagattaatttctcttacatgtagggtgcttttttcgatgtaattggttccgtagataaacctaaagaggaacattaatgtcttccactagatacagcaaatcgaagaagtgaaaatgaaatataattcatatctatctgatggggaaatagaaggtgaagagattcagtatgtagaaaagaggtgcttagctctaatgtcttattttcattgagtatattttaaattccaaaagcggattggtttctataatcatatttttaatgtattctaaaaatcacttcctaaacagcttttttagaaaatcacctagtagatacccttttttgttttgcgaagaaattgctttcaactaatgaatccttagtgcgagagggctataatcatgtggttcattgataaaaaaggagcgaaa tgaatcatagtctattgtaatggtatcagtttaaatttttacaagaattgtatttttattaattcctgagccgccacgtaacttttctcacgcgggaataatcggaatattttacatattggtatagttgagattaatttctcttacatgtagggtgcttttttcgatgtaattggttccgtagataaacctaaagaggaacattaatgtcttccactagatacagcaaatcgaagaagtgaaaatgaaatataattcatatctatctgatggggaaatagaaggtgaagagattcagtatgtagaaaagaggtgcttagctctaatgtcttattttcattgagtatattttaaattccaaaagcggattggtttctataatcatatttttaatgtattctaaaaatcacttcctaaacagcttttttagaaaatcacctagtagatacccttttttgttttgcgaagaaattgctttcaactaatgaatccttagtgcgagagggctataatcatgtggttcattgataaaaaaggagcgaaa Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAAUCAUAGUCUAUUGUAAUGGUAUCAGUUUAAAUUUUUACAAGAAUUGUAUUUUUAUUAAUUCCUGAGCCGCCACGUAACUUUUCUCACGCGGGAAUAAUCGGAAUAUUUUACAUAUUGGUAUAGUUGAGAUUAAUUUCUCUUACAUGUAGGGUGCUUUUUUCGAUGUAAUUGGUUCCGUAGAUAAACCUAAAGAGGAACAUUAAUGUCUUCCACUAGAUACAGCAAAUCGAAGAAGUGAAAAUGAAAUAUAAUUCAUAUCUAUCUGAUGGGGAAAUAGAAGGUGAAGAGAUUCAGUAUGUAGAAAAGAGGUGCUUAGCUCUAAUGUCUUAUUUUCAUUGAGUAUAUUUUAAAUUCCAAAAGCGGAUUGGUUUCUAUAAUCAUAUUUUUAAUGUAUUCUAAAAAUCACUUCCUAAACAGCUUUUUUAGAAAAUCACCUAGUAGAUACCCUUUUUUGUUUUGCGAAGAAAUUGCUUUCAACUAAUGAAUCCUUAGUGCGAGAGGGCUAUAAUCAUGUGGUUCAUUGAUAAAAAAGGAGCGAAA (((((((((....((((((.((((.((((.((((.....((((.....))))......))))...))))...)))).....((((((.(((..((((........(((((.....)))))....(((((((((.(((((((((..(((...((((((((.((((((((.......(((((.(((......)))....))))).....(((((......)))))......)))))))).((((..(((((......))))).....(((((..(((...(((.((((((((((....(((((.(.......).)))))...)))).................(((((((((..(((((((......))).(((((.....))))).))))..)))))))))......)))))).))).....)))..)))))...)))).....)).))))))....))).....).)))))))).))))))))).....))))..))).))))))..))))))..))))))))).................... (-114.00) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUCGCUCCUUUUUUAUCAAUGAACCACAUGAUUAUAGCCCUCUCGCACUAAGGAUUCAUUAGUUGAAAGCAAUUUCUUCGCAAAACAAAAAAGGGUAUCUACUAGGUGAUUUUCUAAAAAAGCUGUUUAGGAAGUGAUUUUUAGAAUACAUUAAAAAUAUGAUUAUAGAAACCAAUCCGCUUUUGGAAUUUAAAAUAUACUCAAUGAAAAUAAGACAUUAGAGCUAAGCACCUCUUUUCUACAUACUGAAUCUCUUCACCUUCUAUUUCCCCAUCAGAUAGAUAUGAAUUAUAUUUCAUUUUCACUUCUUCGAUUUGCUGUAUCUAGUGGAAGACAUUAAUGUUCCUCUUUAGGUUUAUCUACGGAACCAAUUACAUCGAAAAAAGCACCCUACAUGUAAGAGAAAUUAAUCUCAACUAUACCAAUAUGUAAAAUAUUCCGAUUAUUCCCGCGUGAGAAAAGUUACGUGGCGGCUCAGGAAUUAAUAAAAAUACAAUUCUUGUAAAAAUUUAAACUGAUACCAUUACAAUAGACUAUGAUUCA ..............................((((((((...((((((.(...(((.((..(((((((.(..((((((((......(((....(((((.(((((((((((............(((.(((.(((((((((.(((((((...(((.......)))..........((((.......))))..))))))).......(((((((...(((....((((........))))..)))..............((((...(((((((.......)))))))..)))).....))))))).))))))))).)))..))).)))))))))))..........(((((....((((....)))).)))))...................)))))...)))..))))))))..).)))))))....(((((.....)))))..))....))).).))))))........((((.((.((((...((((......((((.....)))).....)))).))))..)).))))......)))))))).. (-94.12) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 314 110 65 168 128 aact:AA01295|5end_3-dehydroquinate_synthase_877272..877502_POSITIVE 312 99 64 220 169 aact:AA00091|5end_short-patch_reverse_transcription_protein_67741..67971_POSITIVE 304 105 65 125 78 aact:AA02109|5end_2-acylglycerophosphoethanolamine_acyltransferase;_acyl-acyl_carrier_protein_synthetase_1436563..1436793_POSITIVE 300 520 475 67 22 aact:AA02151|5end_ferric_enterobactin_receptor;_TonB-dependent_outer_membrane_siderophore_receptor_protein_1470856..1471086_POSITIVE 296 529 481 110 57 aact:AA01573|5end_peptide_transport_periplasmic_protein_1059761..1059991_POSITIVE 295 105 67 124 82 aact:AA01767|5end_conserved_hypothetical_protein_1192528..1192758_POSITIVE 294 200 151 142 91 aact:AA01165|5end_conserved_hypothetical_protein_798133..798363_POSITIVE 293 509 462 209 162 aact:AA01125|5end_hypothetical_protein_772192..772422_POSITIVE 293 105 65 143 107 aact:AA00909.1|5end_hypothetical_protein_625970..626200_POSITIVE 289 105 65 52 12 aact:AA00212|5end_ribokinase_146056..146286_POSITIVE 288 330 281 133 71 aact:AA00056|5end_cytochrome_c-type_biogenesis_protein_43925..44155_POSITIVE 281 507 463 181 135 aact:AA01988|5end_dihydrolipoamide_dehydrogenase;_lipoamide_dehydrogenase_1350517..1350747_POSITIVE 281 507 463 79 33 aact:AA01987|5end_hypothetical_protein_1350415..1350645_POSITIVE 276 105 63 216 163 aact:AA00813|5end_hypothetical_protein_558807..559037_POSITIVE 275 96 64 172 129 aact:AA02705|5end_hypothetical_protein_1886717..1886947_POSITIVE 275 105 69 193 161 aact:AA01998|5end_16S_rRNA_pseudouridine_synthase_1356842..1357072_POSITIVE 274 104 65 121 70 aact:AA01274|5end_hypothetical_protein_864519..864749_POSITIVE 273 105 65 210 177 aact:AA01338|5end_hypothetical_protein_904967..905197_POSITIVE 271 298 262 212 174 aact:AA01938|5end_NAD(P)_transhydrogenase_subunit_alpha_1309493..1309723_POSITIVE 270 540 491 203 143 aact:AA00586|5end_glycerol-3-phosphate_regulon_repressor_399581..399811_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 312 99 64 148 97 aact:AA00089|3end_S-adenosylmethionine_synthase;_methionine_adenosyltransferase_67749..67899_POSITIVE 304 105 65 125 78 aact:AA02108|3end_2-acylglycerophosphoethanolamine_acyltransferase;_acyl-acyl_carrier_protein_synthetase_1436643..1436793_POSITIVE 300 520 475 116 71 aact:AA02150|3end_conserved_hypothetical_protein_1470985..1471135_POSITIVE 296 529 481 107 54 aact:AA01572|3end_peptide_ABC_transporter,_permease_protein_1059838..1059988_POSITIVE 294 200 151 77 26 aact:AA01164|3end_conserved_hypothetical_protein_(possible_integral_membrane_protein)_798148..798298_POSITIVE 289 105 65 79 39 aact:AA00211|3end_hypothetical_protein_146163..146313_POSITIVE 288 519 491 56 31 aact:AA02421|3end_conserved_hypothetical_protein_1667300..1667450_POSITIVE 288 519 491 85 60 aact:AA02297|3end_conserved_hypothetical_protein_1569900..1570050_POSITIVE 288 519 491 85 60 aact:AA00621|3end_conserved_hypothetical_protein_429007..429157_POSITIVE 288 519 491 85 60 aact:AA00412|3end_conserved_hypothetical_protein_279454..279604_POSITIVE 288 330 281 130 68 aact:AA00055|3end_cytochrome_c-type_biogenesis_protein_44002..44152_POSITIVE 287 518 476 147 100 aact:AA02504|3end_lipid_A_biosynthesis_(kdo)2-(lauroyl)-lipid_IVA_acyltransferase_1739248..1739398_POSITIVE 281 507 463 84 38 aact:AA01986|3end_pyruvate_dehydrogenase_complex_E2_1350500..1350650_POSITIVE 275 105 69 135 103 aact:AA01997|3end_probable_translation_factor_1356864..1357014_POSITIVE 274 96 67 136 110 aact:AA01765|3end_Mu-like_prophage_FluMu_transposase_A_1192636..1192786_POSITIVE 274 104 65 110 59 aact:AA01273|3end_hypothetical_protein_864588..864738_POSITIVE 266 318 271 87 32 aact:AA02392|3end_permease_1642479..1642629_POSITIVE 265 530 493 134 88 aact:AA00899|3end_possible_quaternary_ammonium_compound_resistance_protein_623479..623629_POSITIVE 262 95 64 95 65 aact:AA02946|3end_virulence_factor_protein_2060870..2061020_POSITIVE 261 500 454 53 2 aact:AA02243|3end_conserved_hypothetical_protein_1526411..1526561_POSITIVE