Origin IGS: taaaggaaaaacatgcctcaaatgacttgctgcaagtgtccgaaatacctcgttcaaccttttattatcaacaggttaagcaagattacagccgggtaaatttggtgtattaaaaccaaaacgaattaaactcgatttaaaagtattgagcccggtacagtaccgagctcaatacttaagttaactaacctgtccaacttttgggaggcagatcaaagtgcggtcgaaaaaagaattaaattttctaccgcactttttttgctttatattcaatatta .........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 taatattgaatataaagcaaaaaaagtgcggtagaaaatttaattcttttttcgaccgcactttgatctgcctcccaaaagttggacaggttagttaacttaagtattgagctcggtactgtaccgggctcaatacttttaaatcgagtttaattcgttttggttttaatacaccaaatttacccggctgtaatcttgcttaacctgttgataataaaaggttgaacgaggtatttcggacacttgcagcaagtcatttgaggcatgtttttccttta Mask Tandem Repeat Region ================================================ taaaggaaaaacatgcctcaaatgacttgctgcaagtgtccgaaatacctcgttcaaccttttattatcaacaggttaagcaagattacagccgggtaaatttggtgtattaaaaccaaaacgaattaaactcgatttaaaagtattgagcccggtacagtaccgagctcaatacttaagttaactaacctgtccaacttttgggaggcagatcaaagtgcggtcgaaaaaagaattaaattttctaccgcactttttttgctttatattcaatatta Find is-nt database================================================ Query_seq: AA00631:AA00632|AA00631:AA00632:hypothetical protein:inner membrane protein ImpA:->->:433989..434266 278 taaaggaaaaacatgcctcaaatgacttgctgcaagtgtccgaaatacctcgttcaaccttttattatcaacaggttaagcaagattacagccgggtaaatttggtgtattaaaaccaaaacgaattaaactcgatttaaaagtattgagcccggtacagtaccgagctcaatacttaagttaactaacctgtccaacttttgggaggcagatcaaagtgcggtcgaaaaaagaattaaattttctaccgcactttttttgctttatattcaatatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA00631:AA00632|AA00631:AA00632:hypothetical protein:inner membrane protein ImpA:->->:433989..434266 278 taaaggaaaaacatgcctcaaatgacttgctgcaagtgtccgaaatacctcgttcaaccttttattatcaacaggttaagcaagattacagccgggtaaatttggtgtattaaaaccaaaacgaattaaactcgatttaaaagtattgagcccggtacagtaccgagctcaatacttaagttaactaacctgtccaacttttgggaggcagatcaaagtgcggtcgaaaaaagaattaaattttctaccgcactttttttgctttatattcaatatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA00631:AA00632|AA00631:AA00632:hypothetical protein:inner membrane protein ImpA:->->:433989..434266 278 taaaggaaaaacatgcctcaaatgacttgctgcaagtgtccgaaatacctcgttcaaccttttattatcaacaggttaagcaagattacagccgggtaaatttggtgtattaaaaccaaaacgaattaaactcgatttaaaagtattgagcccggtacagtaccgagctcaatacttaagttaactaacctgtccaacttttgggaggcagatcaaagtgcggtcgaaaaaagaattaaattttctaccgcactttttttgctttatattcaatatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taaaggaaaaacatgcctcaaatgacttgctgcaagtgtccgaaatacctcgttcaaccttttattatcaacaggttaagcaagattacagccgggtaaatttggtgtattaaaaccaaaacgaattaaactcgatttaaaagtattgagcccggtacagtaccgagctcaatacttaagttaactaacctgtccaacttttgggaggcagatcaaagtgcggtcgaaaaaagaattaaattttctaccgcactttttttgctttatattcaatatta Predict ORF larger than 30AA ================================================ Protein_Len: 44 Strand: + Start: 145 End: 276 ................................................................................................................................................ M E P G T V P S S I L K L T N L S N F W E A D Q S A V E K R I K F S T A L F L L Y I Q Y .. Protein_Len: 31 Strand: - Start: 184 End: 276 ....................................................................................................................................................................................... S V Q G V K P L C I L T R D F F S N F K R G C K K Q K I N L M .. taaaggaaaaacatgcctcaaatgacttgctgcaagtgtccgaaatacctcgttcaaccttttattatcaacaggttaagcaagattacagccgggtaaatttggtgtattaaaaccaaaacgaattaaactcgatttaaaagtattgagcccggtacagtaccgagctcaatacttaagttaactaacctgtccaacttttgggaggcagatcaaagtgcggtcgaaaaaagaattaaattttctaccgcactttttttgctttatattcaatatta 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================================================ taaaggaaaaacatgcctcaaatgacttgctgcaagtgtccgaaatacctcgttcaaccttttattatcaacaggttaagcaagattacagccgggtaaatttggtgtattaaaaccaaaacgaattaaactcgatttaaaagtattgagcccggtacagtaccgagctcaatacttaagttaactaacctgtccaacttttgggaggcagatcaaagtgcggtcgaaaaaagaattaaattttctaccgcactttttttgctttatattcaatatta Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 100 HP_score: -17.9 Tail_Score: -3.19192 Start: 143 End: 175 Full_Region: AAACTCGATTTAAAA GTATTGAGCCCGGTA CAG TACCGAGCTCAATAC TTAAGTTAACTAACC ..............................................................................................................................................GTATTGAGCCCGGTACAGTACCGAGCTCAATAC....................................................................................................... TransTerm Strand: - Conf: 100 HP_score: -20.1 Tail_Score: -4.20106 Start: 143 End: 175 Full_Region: ggttagttaacttaa gtattgagctcggta ctg taccgggctcaatac ttttaaatcgagttt ..............................................................................................................................................gtattgagctcggtactgtaccgggctcaatac....................................................................................................... TransTerm Strand: + Conf: 100 HP_score: -7.7 Tail_Score: -5.75822 Start: 218 End: 253 Full_Region: GGGAGGCAGATCAAA GTGCGGTCGAAAA AAGAATTAAA TTTTCTACCGCAC TTTTTTTGCTTTATA .........................................................................................................................................................................................................................GTGCGGTCGAAAAAAGAATTAAATTTTCTACCGCAC......................... TransTerm Strand: - Conf: 72 HP_score: -7.7 Tail_Score: -3.84825 Start: 218 End: 253 Full_Region: tataaagcaaaaaaa gtgcggtagaaaa tttaattctt ttttcgaccgcac tttgatctgcctccc .........................................................................................................................................................................................................................gtgcggtagaaaatttaattcttttttcgaccgcac......................... Find igs database================================================ Query_seq: AA00631:AA00632|AA00631:AA00632:hypothetical protein:inner membrane protein ImpA:->->:433989..434266 278 taaaggaaaaacatgcctcaaatgacttgctgcaagtgtccgaaatacctcgttcaaccttttattatcaacaggttaagcaagattacagccgggtaaatttggtgtattaaaaccaaaacgaattaaactcgatttaaaagtattgagcccggtacagtaccgagctcaatacttaagttaactaacctgtccaacttttgggaggcagatcaaagtgcggtcgaaaaaagaattaaattttctaccgcactttttttgctttatattcaatatta Intra-Species Hit: Count: 2 Min: 1 Max: 278 Len: 278 Subject: aact_AA00631_AA00632|hypothetical protein:inner membrane protein ImpA|POSITIVE:POSITIVE|[433989,434266]|278 HSP 1 e-value: 1.0E-143 bit: 509.0 Len: 278 Query Start:1 Query End:278 Subject Strand: POSITIVE Subject Start: 1 Subject End: 278 taaaggaaaaacatgcctcaaatgacttgctgcaagtgtccgaaatacctcgttcaaccttttattatcaacaggttaagcaagattacagccgggtaaatttggtgtattaaaaccaaaacgaattaaactcgatttaaaagtattgagcccggtacagtaccgagctcaatacttaagttaactaacctgtccaacttttgggaggcagatcaaagtgcggtcgaaaaaagaattaaattttctaccgcacnnnnnnngctttatattcaatatta taaaggaaaaacatgcctcaaatgacttgctgcaagtgtccgaaatacctcgttcaaccttttattatcaacaggttaagcaagattacagccgggtaaatttggtgtattaaaaccaaaacgaattaaactcgatttaaaagtattgagcccggtacagtaccgagctcaatacttaagttaactaacctgtccaacttttgggaggcagatcaaagtgcggtcgaaaaaagaattaaattttctaccgcactttttttgctttatattcaatatta Subject: aact_AA01404_AA01407|hypothetical protein:outer membrane antigenic lipoprotein b precursor|POSITIVE:POSITIVE|[948895,949144]|250 HSP 1 e-value: 3.0E-89 bit: 329.0 Len: 203 Query Start:23 Query End:225 Subject Strand: POSITIVE Subject Start: 1 Subject End: 199 ......................tgacttgctgcaagtgtccgaaatacctcgttcaaccttttattatcaacaggttaagcaagattacagccgggtaaatttggtgtattaaaaccaaaacgaattaaactcgatttaaaagtattgagcccggtacagtaccgagctcaatacttaagttaactaacctgtccaacttttgggaggcagatcaaagtgcggtc..................................................... ......................tgacctgctgcaagtgtccgaaatacctagttcaaccttttattatcaacagg----gcaggattacagccgggtaaatttggtgtattacaaccaaaacgaattaaacccgatttaaaagtattgagcccggtacagtaccgagctcaatacttaagttaactaacctgtccaacttttgggaggcagatcaaagtgcggtc..................................................... Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAGGAAAAACAUGCCUCAAAUGACUUGCUGCAAGUGUCCGAAAUACCUCGUUCAACCUUUUAUUAUCAACAGGUUAAGCAAGAUUACAGCCGGGUAAAUUUGGUGUAUUAAAACCAAAACGAAUUAAACUCGAUUUAAAAGUAUUGAGCCCGGUACAGUACCGAGCUCAAUACUUAAGUUAACUAACCUGUCCAACUUUUGGGAGGCAGAUCAAAGUGCGGUCGAAAAAAGAAUUAAAUUUUCUACCGCACUUUUUUUGCUUUAUAUUCAAUAUUA (((((.((((...((((((.....(((((...)))))..((((((...((.(((.(((((.((......)).))))).))).))........(((((...((((((........)))))).............((((((..((((((((((.(((((...))))).)))))))))))))))).....)))))......))))))))))))....((((((((((.(((((..........))))).)))))))))))))).)))))............ (-79.00) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUAUUGAAUAUAAAGCAAAAAAAGUGCGGUAGAAAAUUUAAUUCUUUUUUCGACCGCACUUUGAUCUGCCUCCCAAAAGUUGGACAGGUUAGUUAACUUAAGUAUUGAGCUCGGUACUGUACCGGGCUCAAUACUUUUAAAUCGAGUUUAAUUCGUUUUGGUUUUAAUACACCAAAUUUACCCGGCUGUAAUCUUGCUUAACCUGUUGAUAAUAAAAGGUUGAACGAGGUAUUUCGGACACUUGCAGCAAGUCAUUUGAGGCAUGUUUUUCCUUUA ......((((...((((((...((((((((((.(((((..........))))).)))))))))).....(((((...(((....(((.(((.((((((((((((((((((((((((((...))))))))))))))))).......))).))))))...((((((........))))))...)))..((((((((((((.(((((((............))))))).))))))............))))))..))).)))))))).))))))...)))) (-83.21) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 768 200 151 110 61 aact:AA01444|5end_ISRS011/IS150_related_transposase,_orfB_969159..969389_POSITIVE 768 200 151 110 61 aact:AA01287|5end_transposase_871583..871813_POSITIVE 718 200 151 154 105 aact:AA00226|5end_hypothetical_protein_156276..156506_POSITIVE 717 60 11 151 102 aact:AA00227|5end_hypothetical_sequence_156407..156637_POSITIVE 618 227 191 60 24 aact:AA01176|5end_hypothetical_protein_806309..806539_POSITIVE 559 225 190 141 105 aact:AA00145|5end_probable_degenerate_transposase_fragment_105046..105276_POSITIVE 542 224 191 81 48 aact:AA02681|5end_hypothetical_protein_1865749..1865979_POSITIVE 498 260 212 151 103 aact:AA00825|5end_P-protein_(chorismate_mutase/prephenate_dehydratase)_567020..567250_POSITIVE 498 260 212 51 3 aact:AA00824|5end_hypothetical_protein_566920..567150_POSITIVE 487 231 191 152 112 aact:AA01267|5end_degenerate_transposase_fragment_862267..862497_POSITIVE 485 177 141 227 191 aact:AA01407|5end_outer_membrane_antigenic_lipoprotein_b_precursor_949005..949235_POSITIVE 472 224 190 74 36 aact:AA02419|5end_hypothetical_protein_1661731..1661961_POSITIVE 441 258 215 81 39 aact:AA02213|5end_hypothetical_protein_1506996..1507226_POSITIVE 425 225 191 132 98 aact:AA01075|5end_hypothetical_protein_745605..745835_POSITIVE 417 229 191 136 98 aact:AA02340|5end_hypothetical_protein_1598887..1599117_POSITIVE 412 177 141 188 152 aact:AA00536|5end_5'-nucleotidase_precursor_366151..366381_POSITIVE 403 256 215 140 99 aact:AA03010|5end_thiophene_and_furan_oxidation_protein_2101102..2101332_POSITIVE 403 257 215 95 54 aact:AA00233|5end_hypothetical_protein_162339..162569_POSITIVE 398 257 215 189 146 aact:AA02893|5end_oligopeptide_transport_system_permease_protein,_N-terminal_2027201..2027431_POSITIVE 391 224 187 146 109 aact:AA02937|5end_conserved_hypothetical_protein_2056379..2056609_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 768 200 151 64 15 aact:AA01442|3end_phosphatidylserine_synthetase_969193..969343_POSITIVE 717 60 11 115 66 aact:AA00226|3end_hypothetical_protein_156451..156601_POSITIVE 618 227 191 66 30 aact:AA01175|3end_6-phosphogluconate_dehydrogenase_806395..806545_POSITIVE 542 224 191 63 30 aact:AA02679|3end_formate_dehydrogenase,_gamma_subunit_1865811..1865961_POSITIVE 487 231 191 56 16 aact:AA01266|3end_hypothetical_protein_862251..862401_POSITIVE 472 224 190 74 36 aact:AA02418|3end_peptidyl-tRNA_hydrolase_1661811..1661961_POSITIVE 458 233 191 53 8 aact:AA00629|3end_inosine_5'_monophosphate_dehydrogenase_(IMP_dehydrogenase)_433469..433619_POSITIVE 441 258 215 83 41 aact:AA02212|3end_ribonucleoside-diphosphate_reductase_beta_chain_1507078..1507228_POSITIVE 435 250 201 86 35 aact:AA00221|3end_NADP-specific_glutamate_dehydrogenase_153865..154015_POSITIVE 425 225 191 70 36 aact:AA01074|3end_diacylglycerol_kinase_745623..745773_POSITIVE 417 229 191 54 16 aact:AA02338|3end_conserved_hypothetical_protein;_possible_integral_membrane_protein_1598885..1599035_POSITIVE 412 177 141 76 40 aact:AA00535|3end_hypothetical_protein_366119..366269_POSITIVE 403 257 215 75 34 aact:AA00231|3end_long-chain-fatty-acid--CoA_ligase_162399..162549_POSITIVE 398 257 215 85 42 aact:AA02892|3end_oligopeptide_ABC_transporter,_periplasmic-binding_protein_2027177..2027327_POSITIVE 391 224 187 60 23 aact:AA02936|3end_lipoprotein_E_precursor;_outer_membrane_protein_P4_precursor;_acid_phosphatase_2056373..2056523_POSITIVE 388 260 215 48 4 aact:AA02751|3end_L-lactate_permease_1928868..1929018_POSITIVE 388 258 215 73 30 aact:AA02126|3end_conserved_hypothetical_protein_1451384..1451534_POSITIVE 383 260 215 79 35 aact:AA02112|3end_cell_division_protein_1442184..1442334_POSITIVE 382 259 215 80 36 aact:AA00896|3end_prolyl-tRNA_synthetase_(proline-tRNA_ligase)_623206..623356_POSITIVE 380 256 215 60 19 aact:AA02721|3end_spermidine/putrescine_ABC_transporter,_periplasmic-binding_protein_1905334..1905484_POSITIVE