Origin IGS: cgccatttcctgctgttccgcgcggggacgaaagcccttgatgtacgcacttaactcgccatcatgggaaaagaccttgctaatttgttccgaatacgccattatttttttcatctgttaaaaagtcggcacagtatagcagatttcccctctttctgaatcaacaaggacaagatg .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 catcttgtccttgttgattcagaaagaggggaaatctgctatactgtgccgactttttaacagatgaaaaaaataatggcgtattcggaacaaattagcaaggtcttttcccatgatggcgagttaagtgcgtacatcaagggctttcgtccccgcgcggaacagcaggaaatggcg Mask Tandem Repeat Region ================================================ cgccatttcctgctgttccgcgcggggacgaaagcccttgatgtacgcacttaactcgccatcatgggaaaagaccttgctaatttgttccgaatacgccattatttttttcatctgttaaaaagtcggcacagtatagcagatttcccctctttctgaatcaacaaggacaagatg Find is-nt database================================================ Query_seq: AA02601:AA02602|AA02601:AA02602:ATP-dependent helicase:conserved hypothetical protein:->->:1813370..1813546 177 cgccatttcctgctgttccgcgcggggacgaaagcccttgatgtacgcacttaactcgccatcatgggaaaagaccttgctaatttgttccgaatacgccattatttttttcatctgttaaaaagtcggcacagtatagcagatttcccctctttctgaatcaacaaggacaagatg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA02601:AA02602|AA02601:AA02602:ATP-dependent helicase:conserved hypothetical protein:->->:1813370..1813546 177 cgccatttcctgctgttccgcgcggggacgaaagcccttgatgtacgcacttaactcgccatcatgggaaaagaccttgctaatttgttccgaatacgccattatttttttcatctgttaaaaagtcggcacagtatagcagatttcccctctttctgaatcaacaaggacaagatg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA02601:AA02602|AA02601:AA02602:ATP-dependent helicase:conserved hypothetical protein:->->:1813370..1813546 177 cgccatttcctgctgttccgcgcggggacgaaagcccttgatgtacgcacttaactcgccatcatgggaaaagaccttgctaatttgttccgaatacgccattatttttttcatctgttaaaaagtcggcacagtatagcagatttcccctctttctgaatcaacaaggacaagatg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 cgccatttcctgctgttccgcgcggggacgaaagcccttgatgtacgcacttaactcgccatcatgggaaaagaccttgctaatttgttccgaatacgccattatttttttcatctgttaaaaagtcggcacagtatagcagatttcccctctttctgaatcaacaaggacaagatg Predict ORF larger than 30AA ================================================ Protein_Len: 38 Strand: + Start: 5 End: 118 .... M S C C S A R G R K P L M Y A L N S P S W E K T L L I C S E Y A I I F F I C ........................................................... Protein_Len: 32 Strand: + Start: 61 End: 156 ............................................................ M M G K D L A N L F R I R H Y F F H L L K S R H S I A D F P S F ..................... Protein_Len: 38 Strand: - Start: 1 End: 114 A M E Q Q E A R P R F G K I Y A S L E G D H S F V K S I Q E S Y A M I K K M ............................................................... cgccatttcctgctgttccgcgcggggacgaaagcccttgatgtacgcacttaactcgccatcatgggaaaagaccttgctaatttgttccgaatacgccattatttttttcatctgttaaaaagtcggcacagtatagcagatttcccctctttctgaatcaacaaggacaagatg 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================================================ cgccatttcctgctgttccgcgcggggacgaaagcccttgatgtacgcacttaactcgccatcatgggaaaagaccttgctaatttgttccgaatacgccattatttttttcatctgttaaaaagtcggcacagtatagcagatttcccctctttctgaatcaacaaggacaagatg Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: AA02601:AA02602|AA02601:AA02602:ATP-dependent helicase:conserved hypothetical protein:->->:1813370..1813546 177 cgccatttcctgctgttccgcgcggggacgaaagcccttgatgtacgcacttaactcgccatcatgggaaaagaccttgctaatttgttccgaatacgccattatttttttcatctgttaaaaagtcggcacagtatagcagatttcccctctttctgaatcaacaaggacaagatg Intra-Species Hit: Count: 1 Min: 1 Max: 177 Len: 177 Subject: aact_AA02601_AA02602|ATP-dependent helicase:conserved hypothetical protein|POSITIVE:POSITIVE|[1813370,1813546]|177 HSP 1 e-value: 2.0E-83 bit: 309.0 Len: 177 Query Start:1 Query End:177 Subject Strand: POSITIVE Subject Start: 1 Subject End: 177 cgccatttcctgctgttccgcgcggggacgaaagcccttgatgtacgcacttaactcgccatcatgggaaaagaccttgctaatttgttccgaatacgccattannnnnnncatctgttaaaaagtcggcacagtatagcagatttcccctctttctgaatcaacaaggacaagatg cgccatttcctgctgttccgcgcggggacgaaagcccttgatgtacgcacttaactcgccatcatgggaaaagaccttgctaatttgttccgaatacgccattatttttttcatctgttaaaaagtcggcacagtatagcagatttcccctctttctgaatcaacaaggacaagatg Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CGCCAUUUCCUGCUGUUCCGCGCGGGGACGAAAGCCCUUGAUGUACGCACUUAACUCGCCAUCAUGGGAAAAGACCUUGCUAAUUUGUUCCGAAUACGCCAUUAUUUUUUUCAUCUGUUAAAAAGUCGGCACAGUAUAGCAGAUUUCCCCUCUUUCUGAAUCAACAAGGACAAGAUG ...((((((((..(((((.(.(.(((((......(((.(((((...((.........))))))).)))........((((((..((((.((((...........(((((..(....)..))))).)))).))))..))))))...))))).)...).))).))...))))...)))) (-37.90) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CAUCUUGUCCUUGUUGAUUCAGAAAGAGGGGAAAUCUGCUAUACUGUGCCGACUUUUUAACAGAUGAAAAAAAUAAUGGCGUAUUCGGAACAAAUUAGCAAGGUCUUUUCCCAUGAUGGCGAGUUAAGUGCGUACAUCAAGGGCUUUCGUCCCCGCGCGGAACAGCAGGAAAUGGCG (((....((((.((((.(((.(...(.(((((.((((((((...(((.((((........((..............))......)))).)))...)))).)))).....(((.((((((((.........))).))))).)))......))))).).).))))))))))).)))... (-43.68) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 398 60 12 104 53 aact:AA02151|5end_ferric_enterobactin_receptor;_TonB-dependent_outer_membrane_siderophore_receptor_protein_1470856..1471086_POSITIVE 386 50 3 202 141 aact:AA01152|5end_sec-independent_protein_translocase_protein_789364..789594_POSITIVE 376 49 6 231 166 aact:AA01032|5end_Na(+)-translocating_NADH-quinone_reductase_subunit_B_720930..721160_POSITIVE 374 49 1 81 34 aact:AA00884|5end_sodium-dependent_transporter_614392..614622_POSITIVE 371 49 9 137 97 aact:AA02998|5end_conserved_hypothetical_protein_2093707..2093937_POSITIVE 370 60 11 55 4 aact:AA01422|5end_cell_division_protein_E,_ABC_system_ATP-binding_protein_956009..956239_POSITIVE 368 69 22 64 14 aact:AA02421|5end_conserved_hypothetical_protein_1667044..1667274_POSITIVE 368 69 22 70 20 aact:AA02297|5end_conserved_hypothetical_protein_1569620..1569850_POSITIVE 368 69 22 70 20 aact:AA00621|5end_conserved_hypothetical_protein_428727..428957_POSITIVE 368 69 22 70 20 aact:AA00412|5end_conserved_hypothetical_protein_279174..279404_POSITIVE 360 67 21 72 17 aact:AA02964|5end_opacity_associated_protein_A_2072738..2072968_POSITIVE 355 69 21 122 61 aact:AA02758|5end_3-phosphoshikimate_1-carboxyvinyltransferase_1931802..1932032_POSITIVE 349 59 11 98 33 aact:AA00286|5end_glutamate_5-kinase_(gamma-glutamyl_kinase)_199965..200195_POSITIVE 348 41 1 186 136 aact:AA00993|5end_possible_D-tyrosyl-tRNA(Tyr)_deacylase_694488..694718_POSITIVE 346 50 1 206 156 aact:AA00086|5end_2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxy_late_synthase_63437..63667_POSITIVE 343 26 3 69 45 aact:AA01704|5end_tyrosine-specific_transport_protein_1156170..1156400_POSITIVE 343 59 11 178 114 aact:AA00117|5end_hypothetical_protein_88246..88476_POSITIVE 340 47 1 220 172 aact:AA00535|5end_hypothetical_protein_365695..365925_POSITIVE 337 59 18 177 138 aact:AA02972|5end_conserved_hypothetical_protein_(tyrosine_phenol_lyase-related_protein)_2077381..2077611_POSITIVE 335 48 1 161 107 aact:AA01429|5end_conserved_hypothetical_protein_959581..959811_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 381 60 11 69 8 aact:AA01773|3end_hypothetical_protein_1195112..1195262_POSITIVE 374 49 1 76 29 aact:AA00883|3end_hypothetical_protein_614467..614617_POSITIVE 371 49 9 134 94 aact:AA02996|3end_probable_cation_transport_protein_2093784..2093934_POSITIVE 357 36 2 150 115 aact:AA00377|3end_acetyl-CoA_acetyltransferase_(Beta-ketothiolase,3-ketoacyl-CoA_thiolase)_254300..254450_POSITIVE 356 49 1 44 6 aact:AA01151|3end_porphobilinogen_synthase_(delta-aminolevulinic_acid_dehydratase)_789422..789572_POSITIVE 353 60 12 97 30 aact:AA01342|3end_conserved_hypotheticl_protein_(possible_ribosomal_RNA_adenine_dimethylase)_911085..911235_POSITIVE 349 59 11 68 3 aact:AA00283|3end_glutamate_5-kinase_(gamma-glutamyl_kinase)_200015..200165_POSITIVE 338 59 11 138 92 aact:AA02666|3end_DNA_helicase_II_1856583..1856733_POSITIVE 338 48 1 69 8 aact:AA01301|3end_competence_protein_B_882095..882245_POSITIVE 337 59 18 107 68 aact:AA02970|3end_tyrosine_phenol-lyase_2077391..2077541_POSITIVE 335 48 1 125 71 aact:AA01428|3end_acetolactate_synthase_959625..959775_POSITIVE 334 48 3 135 96 aact:AA00332|3end_PTS_system,_fructose-specific_IIA/FPr_component_(diphosphoryl_transfer_protein)_225617..225767_POSITIVE 333 48 1 81 31 aact:AA00184|3end_hypothetical_protein_130911..131061_POSITIVE 332 158 111 87 48 aact:AA01449|3end_prophage_CP4-57_integrase_971569..971719_POSITIVE 331 58 12 151 102 aact:AA02150|3end_conserved_hypothetical_protein_1470985..1471135_POSITIVE 330 49 1 147 97 aact:AA00682|3end_S-adenosylmethionine-dependent_methyltransferase_467475..467625_POSITIVE 326 48 5 46 2 aact:AA02536|3end_conserved_hypothetical_protein_1765263..1765413_POSITIVE 325 58 13 143 103 aact:AA00015|3end_malate_dehydrogenase_8333..8483_POSITIVE 322 58 14 100 43 aact:AA01064|3end_conserved_hypothetical_protein_(possible_aminomethyltransferase)_738392..738542_POSITIVE 321 47 1 59 9 aact:AA02677|3end_formate_dehydrogenase,_beta_subunit_1865105..1865255_POSITIVE