Origin IGS: tagtttacgggaatggtaaaagtgcggtggtgttttacataaagcatcggcactcactactgtagaggacgatcgttgagcttgagtcagagcttgtggagcttctggctatcaaaacattgggcctgttccactgggacatgaaatagcaatgtaatacctaagggtggttaaaaaataatcaccctataacttaggggggacatataaaagcaaaaacggcacttttcataaagcaccgttgtatgctaaacacataagcgcggttgtttcacatta .........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 taatgtgaaacaaccgcgcttatgtgtttagcatacaacggtgctttatgaaaagtgccgtttttgcttttatatgtcccccctaagttatagggtgattattttttaaccacccttaggtattacattgctatttcatgtcccagtggaacaggcccaatgttttgatagccagaagctccacaagctctgactcaagctcaacgatcgtcctctacagtagtgagtgccgatgctttatgtaaaacaccaccgcacttttaccattcccgtaaacta Mask Tandem Repeat Region ================================================ tagtttacgggaatggtaaaagtgcggtggtgttttacataaagcatcggcactcactactgtagaggacgatcgttgagcttgagtcagagcttgtggagcttctggctatcaaaacattgggcctgttccactgggacatgaaatagcaatgtaatacctaagggtggttaaaaaataatcaccctataacttaggggggacatataaaagcaaaaacggcacttttcataaagcaccgttgtatgctaaacacataagcgcggttgtttcacatta Find is-nt database================================================ Query_seq: AA02076:AA02077|AA02076:AA02077:conserved hypothetical protein:probable outer membrane protein:->->:1411155..1411433 279 tagtttacgggaatggtaaaagtgcggtggtgttttacataaagcatcggcactcactactgtagaggacgatcgttgagcttgagtcagagcttgtggagcttctggctatcaaaacattgggcctgttccactgggacatgaaatagcaatgtaatacctaagggtggttaaaaaataatcaccctataacttaggggggacatataaaagcaaaaacggcacttttcataaagcaccgttgtatgctaaacacataagcgcggttgtttcacatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA02076:AA02077|AA02076:AA02077:conserved hypothetical protein:probable outer membrane protein:->->:1411155..1411433 279 tagtttacgggaatggtaaaagtgcggtggtgttttacataaagcatcggcactcactactgtagaggacgatcgttgagcttgagtcagagcttgtggagcttctggctatcaaaacattgggcctgttccactgggacatgaaatagcaatgtaatacctaagggtggttaaaaaataatcaccctataacttaggggggacatataaaagcaaaaacggcacttttcataaagcaccgttgtatgctaaacacataagcgcggttgtttcacatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA02076:AA02077|AA02076:AA02077:conserved hypothetical protein:probable outer membrane protein:->->:1411155..1411433 279 tagtttacgggaatggtaaaagtgcggtggtgttttacataaagcatcggcactcactactgtagaggacgatcgttgagcttgagtcagagcttgtggagcttctggctatcaaaacattgggcctgttccactgggacatgaaatagcaatgtaatacctaagggtggttaaaaaataatcaccctataacttaggggggacatataaaagcaaaaacggcacttttcataaagcaccgttgtatgctaaacacataagcgcggttgtttcacatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tagtttacgggaatggtaaaagtgcggtggtgttttacataaagcatcggcactcactactgtagaggacgatcgttgagcttgagtcagagcttgtggagcttctggctatcaaaacattgggcctgttccactgggacatgaaatagcaatgtaatacctaagggtggttaaaaaataatcaccctataacttaggggggacatataaaagcaaaaacggcacttttcataaagcaccgttgtatgctaaacacataagcgcggttgtttcacatta Predict ORF larger than 30AA ================================================ Protein_Len: 32 Strand: + Start: 46 End: 141 ............................................. M G T H Y C R G R S L S L S Q S L W S F W L S K H W A C S T G T .......................................................................................................................................... Protein_Len: 35 Strand: - Start: 38 End: 142 ..................................... M F C R C E S S Y L V I T S S S D S S T S S R A I L V N P R N W Q S M ......................................................................................................................................... Protein_Len: 30 Strand: - Start: 1 End: 90 L K R S H Y F H P P T K C L A D A S V V T S S S R Q A Q T M ............................................................................................................................................................................................. tagtttacgggaatggtaaaagtgcggtggtgttttacataaagcatcggcactcactactgtagaggacgatcgttgagcttgagtcagagcttgtggagcttctggctatcaaaacattgggcctgttccactgggacatgaaatagcaatgtaatacctaagggtggttaaaaaataatcaccctataacttaggggggacatataaaagcaaaaacggcacttttcataaagcaccgttgtatgctaaacacataagcgcggttgtttcacatta 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================================================ tagtttacgggaatggtaaaagtgcggtggtgttttacataaagcatcggcactcactactgtagaggacgatcgttgagcttgagtcagagcttgtggagcttctggctatcaaaacattgggcctgttccactgggacatgaaatagcaatgtaatacctaagggtggttaaaaaataatcaccctataacttaggggggacatataaaagcaaaaacggcacttttcataaagcaccgttgtatgctaaacacataagcgcggttgtttcacatta Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 52 HP_score: -5.9 Tail_Score: -2.52464 Start: 163 End: 189 Full_Region: AGCAATGTAATACCT AAGGGTGGTTA AAAAA TAATCACCCTA TAACTTAGGGGGGAC ..................................................................................................................................................................AAGGGTGGTTAAAAAATAATCACCCTA.......................................................................................... TransTerm Strand: - Conf: 57 HP_score: -6.3 Tail_Score: -3.20236 Start: 165 End: 187 Full_Region: cccccctaagttata gggtgatta ttttt taaccaccc ttaggtattacattg ....................................................................................................................................................................gggtgattattttttaaccaccc............................................................................................ TransTerm Strand: - Conf: 90 HP_score: -7.3 Tail_Score: -5.15526 Start: 220 End: 241 Full_Region: gtgtttagcatacaa cggtgcttt atga aaagtgccg tttttgcttttatat ...........................................................................................................................................................................................................................cggtgctttatgaaaagtgccg...................................... Find igs database================================================ Query_seq: AA02076:AA02077|AA02076:AA02077:conserved hypothetical protein:probable outer membrane protein:->->:1411155..1411433 279 tagtttacgggaatggtaaaagtgcggtggtgttttacataaagcatcggcactcactactgtagaggacgatcgttgagcttgagtcagagcttgtggagcttctggctatcaaaacattgggcctgttccactgggacatgaaatagcaatgtaatacctaagggtggttaaaaaataatcaccctataacttaggggggacatataaaagcaaaaacggcacttttcataaagcaccgttgtatgctaaacacataagcgcggttgtttcacatta Intra-Species Hit: Count: 1 Min: 1 Max: 279 Len: 279 Subject: aact_AA02076_AA02077|conserved hypothetical protein:probable outer membrane protein|POSITIVE:POSITIVE|[1411155,1411433]|279 HSP 1 e-value: 1.0E-156 bit: 553.0 Len: 279 Query Start:1 Query End:279 Subject Strand: POSITIVE Subject Start: 1 Subject End: 279 tagtttacgggaatggtaaaagtgcggtggtgttttacataaagcatcggcactcactactgtagaggacgatcgttgagcttgagtcagagcttgtggagcttctggctatcaaaacattgggcctgttccactgggacatgaaatagcaatgtaatacctaagggtggttaaaaaataatcaccctataacttaggggggacatataaaagcaaaaacggcacttttcataaagcaccgttgtatgctaaacacataagcgcggttgtttcacatta tagtttacgggaatggtaaaagtgcggtggtgttttacataaagcatcggcactcactactgtagaggacgatcgttgagcttgagtcagagcttgtggagcttctggctatcaaaacattgggcctgttccactgggacatgaaatagcaatgtaatacctaagggtggttaaaaaataatcaccctataacttaggggggacatataaaagcaaaaacggcacttttcataaagcaccgttgtatgctaaacacataagcgcggttgtttcacatta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGUUUACGGGAAUGGUAAAAGUGCGGUGGUGUUUUACAUAAAGCAUCGGCACUCACUACUGUAGAGGACGAUCGUUGAGCUUGAGUCAGAGCUUGUGGAGCUUCUGGCUAUCAAAACAUUGGGCCUGUUCCACUGGGACAUGAAAUAGCAAUGUAAUACCUAAGGGUGGUUAAAAAAUAAUCACCCUAUAACUUAGGGGGGACAUAUAAAAGCAAAAACGGCACUUUUCAUAAAGCACCGUUGUAUGCUAAACACAUAAGCGCGGUUGUUUCACAUUA ...(((((((...((((...(((((..(((((((((....)))))))))))))).))))))))))).(((((((((...(((((..(((...((((((((((....((((..(((....))))))).))))))).)))...))).......((((....((((((((((((((.....))))))))))......))))....)))).....((((..(((((..((((....))))..)))))...)))).......))))))))))))))........ (-83.20) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUGUGAAACAACCGCGCUUAUGUGUUUAGCAUACAACGGUGCUUUAUGAAAAGUGCCGUUUUUGCUUUUAUAUGUCCCCCCUAAGUUAUAGGGUGAUUAUUUUUUAACCACCCUUAGGUAUUACAUUGCUAUUUCAUGUCCCAGUGGAACAGGCCCAAUGUUUUGAUAGCCAGAAGCUCCACAAGCUCUGACUCAAGCUCAACGAUCGUCCUCUACAGUAGUGAGUGCCGAUGCUUUAUGUAAAACACCACCGCACUUUUACCAUUCCCGUAAACUA ....((((((.....(((.....((((((.(((((.(((((..((((....))))..)))))...((........................((((((.(((.....))).))))))..((((((.(((((((.((((((......)))))).(((.(...((((..(..((.((((.(((.....))))))).))....)..))))...).)))....)))))))))))))...))..))))).))))))...)))..))))))............... (-63.90) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 440 50 2 126 89 aact:AA00789|5end_DNA_topoisomerase_III_540486..540716_POSITIVE 381 86 41 195 140 aact:AA01954|5end_excinuclease_ABC,_subunit_C_1320468..1320698_POSITIVE 372 64 21 56 12 aact:AA00927|5end_ATP-dependent_DNA_helicase_635811..636041_POSITIVE 347 38 7 112 77 aact:AA02231|5end_probable_dethiobiotin_synthetase_1_1517650..1517880_POSITIVE 343 266 221 169 121 aact:AA02554|5end_conserved_hypothetical_protein_1779735..1779965_POSITIVE 341 60 18 175 119 aact:AA01981|5end_4-alpha-glucanotransferase_1337202..1337432_POSITIVE 338 50 7 39 1 aact:AA01511|5end_probable_transcriptional_regulator_1018203..1018433_POSITIVE 331 50 3 192 135 aact:AA00515|5end_hypothetical_protein_355730..355960_POSITIVE 331 50 3 71 14 aact:AA00514|5end_hypothetical_protein_355609..355839_POSITIVE 330 130 83 212 157 aact:AA02528|5end_30S_ribosomal_protein_S1_1755969..1756199_POSITIVE 324 49 1 209 141 aact:AA00711|5end_conserved_hypothetical_protein_487893..488123_POSITIVE 314 108 70 67 28 aact:AA01997|5end_probable_translation_factor_1356164..1356394_POSITIVE 314 109 61 224 163 aact:AA01858|5end_conserved_hypothetical_protein_1250699..1250929_POSITIVE 311 110 67 101 45 aact:AA01197|5end_conserved_hypothetical_protein_820863..821093_POSITIVE 311 51 11 49 14 aact:AA00744|5end_aldose_1-epimerase_(mutarotase)_510138..510368_POSITIVE 310 99 56 145 98 aact:AA00613|5end_lipid-A-disaccharide_synthase_418713..418943_POSITIVE 308 270 221 166 107 aact:AA01173|5end_VapD-homolog_803850..804080_POSITIVE 308 50 3 153 102 aact:AA00794|5end_phosphohydrolase_543653..543883_POSITIVE 308 37 7 231 197 aact:AA00452|5end_phosphomannomutase;_phosphoglucomutase_315288..315518_POSITIVE 306 49 4 152 97 aact:AA02707|5end_hypothetical_protein_1889639..1889869_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 372 64 21 56 12 aact:AA00926|3end_CyaY_protein_635891..636041_POSITIVE 341 60 18 150 94 aact:AA01978|3end_hypothetical_protein_1337257..1337407_POSITIVE 338 110 65 138 80 aact:AA00047|3end_formate_dependent_nitrite_reductase,_cytochrome_c552_38353..38503_POSITIVE 331 50 3 68 11 aact:AA00513|3end_pseudouridylate_synthase_(pseudouridine_synthase)_355686..355836_POSITIVE 330 130 83 147 92 aact:AA02527|3end_integration_host_factor,beta-subunit_1755984..1756134_POSITIVE 324 49 1 74 6 aact:AA00709|3end_metallocluster_assembly_(NifU_protein)_487838..487988_POSITIVE 322 133 91 127 69 aact:AA00649|3end_peptide_chain_release_factor_1_(RF-1)_444355..444505_POSITIVE 311 110 67 113 57 aact:AA01196|3end_1-acyl-sn-glycerol-3-phosphate_acetyltransferase_820955..821105_POSITIVE 310 99 56 57 10 aact:AA00612|3end_acyl-(acyl-carrier-protein)-UDP-N-acetylglucosami_ne_418705..418855_POSITIVE 308 270 221 83 24 aact:AA01172|3end_conserved_hypothetical_protein_803847..803997_POSITIVE 308 50 3 82 31 aact:AA00792|3end_conserved_hypothetical_protein_543662..543812_POSITIVE 303 106 65 100 62 aact:AA00680|3end_sodium/proline_symporter_(proline_permease)_466496..466646_POSITIVE 298 87 44 88 49 aact:AA02187|3end_hypothetical_protein_1492847..1492997_POSITIVE 297 138 92 102 57 aact:AA00057|3end_cytochrome_c-type_biogenesis_protein_44741..44891_POSITIVE 294 128 84 123 74 aact:AA02966|3end_conserved_hypothetical_protein_2075271..2075421_POSITIVE 291 46 3 95 45 aact:AA02743|3end_outer_membrane_lipoprotein_precursor/glutamyl-tRNA_reductase_subunit_1923356..1923506_POSITIVE 289 50 7 45 4 aact:AA02193|3end_oxaloacetate_decarboxylase_gamma_chain_1494562..1494712_POSITIVE 289 66 21 87 37 aact:AA02076|3end_conserved_hypothetical_protein_1411094..1411244_POSITIVE 288 45 7 40 9 aact:AA02595|3end_cytochrome_c_peroxidase_1807110..1807260_POSITIVE 284 107 64 80 37 aact:AA01106|3end_conserved_hypothetical_protein_762363..762513_POSITIVE