Origin IGS: aaacaattttccccaccaataaaggtctgaatgtttggctcgggtatttaccggctactaccaaaacgccctcgcctcatccattagggcggcaaggtttggggtaatgcttcattcagcacatgattttgactgatataagtttggaataaacgtgactgccacaatcacaacaactgcgattaaaataagctatttttcatttcttattatcaaatctgactacataaaaaaagacctaaactttcgtttaggtctttattatctctatttgctaacaattaacaaatgaatta .........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 taattcatttgttaattgttagcaaatagagataataaagacctaaacgaaagtttaggtctttttttatgtagtcagatttgataataagaaatgaaaaatagcttattttaatcgcagttgttgtgattgtggcagtcacgtttattccaaacttatatcagtcaaaatcatgtgctgaatgaagcattaccccaaaccttgccgccctaatggatgaggcgagggcgttttggtagtagccggtaaatacccgagccaaacattcagacctttattggtggggaaaattgttt Mask Tandem Repeat Region ================================================ aaacaattttccccaccaataaaggtctgaatgtttggctcgggtatttaccggctactaccaaaacgccctcgcctcatccattagggcggcaaggtttggggtaatgcttcattcagcacatgattttgactgatataagtttggaataaacgtgactgccacaatcacaacaactgcgattaaaataagctatttttcatttcttattatcaaatctgactacataaaaaaagacctaaactttcgtttaggtctttattatctctatttgctaacaattaacaaatgaatta Find is-nt database================================================ Query_seq: AA02457:AA02458|AA02457:AA02458:conserved hypothetical protein:outer membrane protein 34:->->:1695835..1696130 296 aaacaattttccccaccaataaaggtctgaatgtttggctcgggtatttaccggctactaccaaaacgccctcgcctcatccattagggcggcaaggtttggggtaatgcttcattcagcacatgattttgactgatataagtttggaataaacgtgactgccacaatcacaacaactgcgattaaaataagctatttttcatttcttattatcaaatctgactacataaaaaaagacctaaactttcgtttaggtctttattatctctatttgctaacaattaacaaatgaatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA02457:AA02458|AA02457:AA02458:conserved hypothetical protein:outer membrane protein 34:->->:1695835..1696130 296 aaacaattttccccaccaataaaggtctgaatgtttggctcgggtatttaccggctactaccaaaacgccctcgcctcatccattagggcggcaaggtttggggtaatgcttcattcagcacatgattttgactgatataagtttggaataaacgtgactgccacaatcacaacaactgcgattaaaataagctatttttcatttcttattatcaaatctgactacataaaaaaagacctaaactttcgtttaggtctttattatctctatttgctaacaattaacaaatgaatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA02457:AA02458|AA02457:AA02458:conserved hypothetical protein:outer membrane protein 34:->->:1695835..1696130 296 aaacaattttccccaccaataaaggtctgaatgtttggctcgggtatttaccggctactaccaaaacgccctcgcctcatccattagggcggcaaggtttggggtaatgcttcattcagcacatgattttgactgatataagtttggaataaacgtgactgccacaatcacaacaactgcgattaaaataagctatttttcatttcttattatcaaatctgactacataaaaaaagacctaaactttcgtttaggtctttattatctctatttgctaacaattaacaaatgaatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aaacaattttccccaccaataaaggtctgaatgtttggctcgggtatttaccggctactaccaaaacgccctcgcctcatccattagggcggcaaggtttggggtaatgcttcattcagcacatgattttgactgatataagtttggaataaacgtgactgccacaatcacaacaactgcgattaaaataagctatttttcatttcttattatcaaatctgactacataaaaaaagacctaaactttcgtttaggtctttattatctctatttgctaacaattaacaaatgaatta Predict ORF larger than 30AA ================================================ Protein_Len: 33 Strand: + Start: 6 End: 104 ..... M F P T N K G L N V W L G Y L P A T T K T P S P H P L G R Q G L G ................................................................................................................................................................................................ Protein_Len: 33 Strand: + Start: 35 End: 133 .................................. M A R V F T G Y Y Q N A L A S S I R A A R F G V M L H S A H D F D ................................................................................................................................................................... Protein_Len: 47 Strand: + Start: 149 End: 289 .................................................................................................................................................... M N V T A T I T T T A I K I S Y F S F L I I K S D Y I K K D L N F R L G L Y Y L Y L L T I N K ....... aaacaattttccccaccaataaaggtctgaatgtttggctcgggtatttaccggctactaccaaaacgccctcgcctcatccattagggcggcaaggtttggggtaatgcttcattcagcacatgattttgactgatataagtttggaataaacgtgactgccacaatcacaacaactgcgattaaaataagctatttttcatttcttattatcaaatctgactacataaaaaaagacctaaactttcgtttaggtctttattatctctatttgctaacaattaacaaatgaatta 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================================================ aaacaattttccccaccaataaaggtctgaatgtttggctcgggtatttaccggctactaccaaaacgccctcgcctcatccattagggcggcaaggtttggggtaatgcttcattcagcacatgattttgactgatataagtttggaataaacgtgactgccacaatcacaacaactgcgattaaaataagctatttttcatttcttattatcaaatctgactacataaaaaaagacctaaactttcgtttaggtctttattatctctatttgctaacaattaacaaatgaatta Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 100 HP_score: -11.7 Tail_Score: -5.74122 Start: 236 End: 257 Full_Region: aatagagataataaa gacctaaac gaaa gtttaggtc tttttttatgtagtc ...........................................................................................................................................................................................................................................gacctaaacgaaagtttaggtc....................................... Find igs database================================================ Query_seq: AA02457:AA02458|AA02457:AA02458:conserved hypothetical protein:outer membrane protein 34:->->:1695835..1696130 296 aaacaattttccccaccaataaaggtctgaatgtttggctcgggtatttaccggctactaccaaaacgccctcgcctcatccattagggcggcaaggtttggggtaatgcttcattcagcacatgattttgactgatataagtttggaataaacgtgactgccacaatcacaacaactgcgattaaaataagctatttttcatttcttattatcaaatctgactacataaaaaaagacctaaactttcgtttaggtctttattatctctatttgctaacaattaacaaatgaatta Intra-Species Hit: Count: 1 Min: 1 Max: 296 Len: 296 Subject: aact_AA02457_AA02458|conserved hypothetical protein:outer membrane protein 34|POSITIVE:POSITIVE|[1695835,1696130]|296 HSP 1 e-value: 1.0E-154 bit: 545.0 Len: 296 Query Start:1 Query End:296 Subject Strand: POSITIVE Subject Start: 1 Subject End: 296 aaacaattttccccaccaataaaggtctgaatgtttggctcgggtatttaccggctactaccaaaacgccctcgcctcatccattagggcggcaaggtttggggtaatgcttcattcagcacatgattttgactgatataagtttggaataaacgtgactgccacaatcacaacaactgcgattaaaataagctatttttcatttcttattatcaaatctgactacatnnnnnnngacctaaactttcgtttaggtctttattatctctatttgctaacaattaacaaatgaatta aaacaattttccccaccaataaaggtctgaatgtttggctcgggtatttaccggctactaccaaaacgccctcgcctcatccattagggcggcaaggtttggggtaatgcttcattcagcacatgattttgactgatataagtttggaataaacgtgactgccacaatcacaacaactgcgattaaaataagctatttttcatttcttattatcaaatctgactacataaaaaaagacctaaactttcgtttaggtctttattatctctatttgctaacaattaacaaatgaatta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAACAAUUUUCCCCACCAAUAAAGGUCUGAAUGUUUGGCUCGGGUAUUUACCGGCUACUACCAAAACGCCCUCGCCUCAUCCAUUAGGGCGGCAAGGUUUGGGGUAAUGCUUCAUUCAGCACAUGAUUUUGACUGAUAUAAGUUUGGAAUAAACGUGACUGCCACAAUCACAACAACUGCGAUUAAAAUAAGCUAUUUUUCAUUUCUUAUUAUCAAAUCUGACUACAUAAAAAAAGACCUAAACUUUCGUUUAGGUCUUUAUUAUCUCUAUUUGCUAACAAUUAACAAAUGAAUUA ..........(((((....................((((.(((.......)))))))..(((....((((((.............))))))....))).)))))....((((....((((((...((((..(((......)).)..))))....))).)))....((((.((.....)).)))).....)))).....(((((((.((((((.(((((..((....((((..((((((((((((....)))))))))))).)))).)).))))).)))....))).)))))))... (-63.12) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUUCAUUUGUUAAUUGUUAGCAAAUAGAGAUAAUAAAGACCUAAACGAAAGUUUAGGUCUUUUUUUAUGUAGUCAGAUUUGAUAAUAAGAAAUGAAAAAUAGCUUAUUUUAAUCGCAGUUGUUGUGAUUGUGGCAGUCACGUUUAUUCCAAACUUAUAUCAGUCAAAAUCAUGUGCUGAAUGAAGCAUUACCCCAAACCUUGCCGCCCUAAUGGAUGAGGCGAGGGCGUUUUGGUAGUAGCCGGUAAAUACCCGAGCCAAACAUUCAGACCUUUAUUGGUGGGGAAAAUUGUUU ...(((((((.(((.(((((((.......(.((((.((((((((((((....))))))))))))..)))).)........)))))))))).))))))).....(((.....(((((((((...))))))))).)))...........((((..(((.(((...(((............((((((....((((((..((.(((((((..((....))....)))))))...))..)))))).(((((.......))).))....)))))))))...))).)))..))))........ (-79.06) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 403 97 52 194 146 aact:AA01335|5end_primosomal_protein_N'_901993..902223_POSITIVE 383 120 71 76 9 aact:AA02682|5end_hydrogenase_maturation_protein_1866304..1866534_POSITIVE 376 110 67 156 94 aact:AA01753|5end_conserved_hypothetical_protein_1185322..1185552_POSITIVE 373 110 61 87 30 aact:AA02034|5end_ferredoxin_NADP+_reductase_1385198..1385428_POSITIVE 371 98 52 85 33 aact:AA02702|5end_succinyl-CoA_synthetase,_beta_chain_1884139..1884369_POSITIVE 362 53 11 75 23 aact:AA00768|5end_conserved_hypothetical_protein_528100..528330_POSITIVE 360 106 66 152 99 aact:AA01071|5end_RNA_methyltransferase_741707..741937_POSITIVE 359 100 51 57 6 aact:AA01637|5end_ribonucleoside_diphosphate_reductase_1106657..1106887_POSITIVE 357 105 62 218 169 aact:AA01568|5end_dipeptide_transport_system_ATP-binding_protein_1056037..1056267_POSITIVE 354 90 41 219 169 aact:AA01408|5end_conserved_hypothetical_protein_950191..950421_POSITIVE 346 98 51 157 115 aact:AA02926|5end_hypothetical_protein_2048136..2048366_POSITIVE 344 98 51 162 116 aact:AA01295|5end_3-dehydroquinate_synthase_877272..877502_POSITIVE 343 97 54 213 171 aact:AA02025|5end_hypothetical_protein_1378667..1378897_POSITIVE 342 76 32 158 117 aact:AA02472|5end_conserved_hypothetical_protein_1707631..1707861_POSITIVE 342 90 41 167 108 aact:AA00894|5end_selenium_transferase_(Cysteinyl-tRNA(Sec)_selenium_transferase)_619879..620109_POSITIVE 342 98 52 57 10 aact:AA00325|5end_conserved_hypothetical_protein_221314..221544_POSITIVE 341 97 51 181 137 aact:AA01146|5end_conserved_hypothetical_protein_784433..784663_POSITIVE 339 110 61 70 8 aact:AA02337|5end_DNA_mismatch_repair_protein_1597350..1597580_POSITIVE 337 98 52 89 46 aact:AA01845|5end_gamma-glutamyltranspeptidase_precursor_1239841..1240071_POSITIVE 334 110 67 136 94 aact:AA00531|5end_DNA_polymerase_I_362621..362851_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 410 78 31 105 54 aact:AA00977|3end_transcriptional_regulator_(LysR_family)_683334..683484_POSITIVE 376 110 67 146 84 aact:AA01751|3end_conserved_hypothetical_protein_1185392..1185542_POSITIVE 373 110 61 103 46 aact:AA02032|3end_hypothetical_protein_1385294..1385444_POSITIVE 371 98 52 71 19 aact:AA02700|3end_succinyl-CoA_synthase,_alpha_subunit_1884205..1884355_POSITIVE 346 98 51 92 50 aact:AA02925|3end_conserved_hypothetical_protein_2048151..2048301_POSITIVE 342 76 32 141 100 aact:AA02470|3end_glucose_kinase_1707694..1707844_POSITIVE 341 97 51 128 84 aact:AA01145|3end_glycyl-tRNA_synthetase_alpha_subunit_784460..784610_POSITIVE 339 110 61 70 8 aact:AA02335|3end_6-O-methylguanine-DNA_methyltransferase_1597430..1597580_POSITIVE 334 110 67 103 61 aact:AA00530|3end_hypothetical_protein_362668..362818_POSITIVE 329 110 61 58 3 aact:AA00969|3end_conserved_hypothetical_protein_(possible_NADH_pyrophosphatase)_676206..676356_POSITIVE 329 94 52 151 101 aact:AA00036|3end_transposase_29254..29404_POSITIVE 328 95 54 58 16 aact:AA00613|3end_lipid-A-disaccharide_synthase_419974..420124_POSITIVE 327 120 73 45 8 aact:AA01407|3end_outer_membrane_antigenic_lipoprotein_b_precursor_950251..950401_POSITIVE 327 110 61 144 97 aact:AA01284|3end_heat_shock_protein_(hsp60)_870294..870444_POSITIVE 324 110 61 49 13 aact:AA00531|3end_DNA_polymerase_I_365385..365535_POSITIVE 323 106 67 85 43 aact:AA01194|3end_acyl_carrier_protein_819923..820073_POSITIVE 321 107 61 53 3 aact:AA01325|3end_formamidopyrimidine-DNA_glycosylase_895639..895789_POSITIVE 320 100 53 60 14 aact:AA02723|3end_hypothetical_protein_1906453..1906603_POSITIVE 319 105 68 46 8 aact:AA00455|3end_lipoprotein_precursor_319385..319535_POSITIVE 318 98 54 50 1 aact:AA01842|3end_conserved_hypothetical_protein_1238467..1238617_POSITIVE