Origin IGS: taattaacgtaacgataaacagataaaaaaggcttagagaattctaagccttttttgtgtgaagaaaaaacaccgaaaatttcaaccgcacttcatgcgttgcttatca .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tgataagcaacgcatgaagtgcggttgaaattttcggtgttttttcttcacacaaaaaaggcttagaattctctaagccttttttatctgtttatcgttacgttaatta Mask Tandem Repeat Region ================================================ taattaacgtaacgataaacagataaaaaaggcttagagaattctaagccttttttgtgtgaagaaaaaacaccgaaaatttcaaccgcacttcatgcgttgcttatca Find is-nt database================================================ Query_seq: AA02214:AA02215|AA02214:AA02215:pyruvate kinase II:conserved hypothetical protein:->->:1508831..1508939 109 taattaacgtaacgataaacagataaaaaaggcttagagaattctaagccttttttgtgtgaagaaaaaacaccgaaaatttcaaccgcacttcatgcgttgcttatca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA02214:AA02215|AA02214:AA02215:pyruvate kinase II:conserved hypothetical protein:->->:1508831..1508939 109 taattaacgtaacgataaacagataaaaaaggcttagagaattctaagccttttttgtgtgaagaaaaaacaccgaaaatttcaaccgcacttcatgcgttgcttatca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA02214:AA02215|AA02214:AA02215:pyruvate kinase II:conserved hypothetical protein:->->:1508831..1508939 109 taattaacgtaacgataaacagataaaaaaggcttagagaattctaagccttttttgtgtgaagaaaaaacaccgaaaatttcaaccgcacttcatgcgttgcttatca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taattaacgtaacgataaacagataaaaaaggcttagagaattctaagccttttttgtgtgaagaaaaaacaccgaaaatttcaaccgcacttcatgcgttgcttatca Predict ORF larger than 30AA ================================================ taattaacgtaacgataaacagataaaaaaggcttagagaattctaagccttttttgtgtgaagaaaaaacaccgaaaatttcaaccgcacttcatgcgttgcttatca 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================================================ taattaacgtaacgataaacagataaaaaaggcttagagaattctaagccttttttgtgtgaagaaaaaacaccgaaaatttcaaccgcacttcatgcgttgcttatca Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 100 HP_score: -13.3 Tail_Score: -4.07975 Start: 20 End: 61 Full_Region: tcggtgttttttctt cacacaaaaaaggcttaga attc tctaagccttttttatctg tttatcgttacgtta ...................cacacaaaaaaggcttagaattctctaagccttttttatctg................................................ TransTerm Strand: - Conf: 100 HP_score: -10.8 Tail_Score: -5.51046 Start: 31 End: 50 Full_Region: tcttcacacaaaaaa ggcttaga attc tctaagcc ttttttatctgttta ..............................ggcttagaattctctaagcc........................................................... Find igs database================================================ Query_seq: AA02214:AA02215|AA02214:AA02215:pyruvate kinase II:conserved hypothetical protein:->->:1508831..1508939 109 taattaacgtaacgataaacagataaaaaaggcttagagaattctaagccttttttgtgtgaagaaaaaacaccgaaaatttcaaccgcacttcatgcgttgcttatca Intra-Species Hit: Count: 1 Min: 1 Max: 109 Len: 109 Subject: aact_AA02214_AA02215|pyruvate kinase II:conserved hypothetical protein|POSITIVE:POSITIVE|[1508831,1508939]|109 HSP 1 e-value: 1.0E-55 bit: 216.0 Len: 109 Query Start:1 Query End:109 Subject Strand: POSITIVE Subject Start: 1 Subject End: 109 taattaacgtaacgataaacagataaaaaaggcttagagaattctaagccttttttgtgtgaagaaaaaacaccgaaaatttcaaccgcacttcatgcgttgcttatca taattaacgtaacgataaacagataaaaaaggcttagagaattctaagccttttttgtgtgaagaaaaaacaccgaaaatttcaaccgcacttcatgcgttgcttatca Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUUAACGUAACGAUAAACAGAUAAAAAAGGCUUAGAGAAUUCUAAGCCUUUUUUGUGUGAAGAAAAAACACCGAAAAUUUCAACCGCACUUCAUGCGUUGCUUAUCA .............(((((.((.(((((((((((((((......))))))))))))))).)).....................((((.(((.....))))))).))))). (-30.10) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAUAAGCAACGCAUGAAGUGCGGUUGAAAUUUUCGGUGUUUUUUCUUCACACAAAAAAGGCUUAGAAUUCUCUAAGCCUUUUUUAUCUGUUUAUCGUUACGUUAAUUA .((((((((.........(((.((..(((((.......)))))..)).)))..((((((((((((((....))))))))))))))...))))))))............. (-32.20) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 356 99 65 149 104 aact:AA00454|5end_conserved_hypothetical_protein_318020..318250_POSITIVE 353 98 51 160 109 aact:AA00324|5end_tRNA_(Uracil-5-)-methyltransferase_(tRNA(M-5-U54)-methyltransferase)_220147..220377_POSITIVE 352 97 52 219 168 aact:AA00084|5end_aminotransferase_60814..61044_POSITIVE 352 97 52 69 18 aact:AA00083|5end_hypothetical_protein_60664..60894_POSITIVE 348 100 51 194 148 aact:AA00453|5end_phosphoglyceromutase_317249..317479_POSITIVE 343 99 54 205 158 aact:AA03000|5end_uracil-DNA_glycosylase_(UDG)_2095076..2095306_POSITIVE 343 58 14 146 101 aact:AA02333|5end_conserved_hypothetical_protein_1594817..1595047_POSITIVE 338 93 57 153 119 aact:AA00660|5end_hypothetical_protein_453031..453261_POSITIVE 337 96 66 160 128 aact:AA02097|5end_DedA-family_integral_membrane_protein_1428823..1429053_POSITIVE 337 96 66 91 59 aact:AA02096|5end_hypothetical_protein_1428754..1428984_POSITIVE 333 97 53 116 70 aact:AA00160|5end_pilA-like_biogenesis_protein_/_prepilin_peptidase_dependent_proteinD_112836..113066_POSITIVE 329 100 65 46 10 aact:AA01041|5end_hypothetical_protein_724853..725083_POSITIVE 325 100 63 129 90 aact:AA01024|5end_thiamine_biosynthesis_lipoprotein_precursor_716437..716667_POSITIVE 317 96 52 172 128 aact:AA02706|5end_2-oxoglutarate_dehydrogenase_E1_component_(decarboxylase_component)_1886843..1887073_POSITIVE 317 96 52 46 2 aact:AA02705|5end_hypothetical_protein_1886717..1886947_POSITIVE 314 98 59 81 41 aact:AA00952|5end_hemY_protein_homolog_657541..657771_POSITIVE 299 90 41 183 129 aact:AA00113|5end_uracil_phosphoribosyltransferase_81286..81516_POSITIVE 293 68 28 151 111 aact:AA01498|5end_conserved_hypothetical_protein_1007957..1008187_POSITIVE 289 93 66 130 103 aact:AA01532|5end_hypothetical_protein_1028771..1029001_POSITIVE 289 93 66 64 37 aact:AA01531|5end_hypothetical_protein_1028705..1028935_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 362 58 23 68 33 aact:AA02214|3end_pyruvate_kinase_II_1508770..1508920_POSITIVE 356 99 65 58 13 aact:AA00453|3end_phosphoglyceromutase_318009..318159_POSITIVE 352 97 52 92 41 aact:AA00081|3end_fatty_acid_metabolism_regulator_protein_60767..60917_POSITIVE 347 100 51 59 4 aact:AA01040|3end_possible_lipoprotein_724946..725096_POSITIVE 341 93 51 144 104 aact:AA00323|3end_conserved_hypothetical_protein_(possible_SAM-dependent_methyltransferase)_220222..220372_POSITIVE 338 93 57 69 35 aact:AA00659|3end_heat_shock_protein_453027..453177_POSITIVE 337 96 66 35 3 aact:AA02094|3end_glycogen_phosphorylase;_glycogen_synthase_1428778..1428928_POSITIVE 333 97 53 135 89 aact:AA00158|3end_ampD_signalling_protein_(N-acetylmuramyl-L-alanine_amidase)_112935..113085_POSITIVE 328 97 58 46 2 aact:AA02491|3end_topoisomerase_IV,_subunit_A_1729159..1729309_POSITIVE 325 100 63 47 8 aact:AA01023|3end_conserved_hypothetical_protein_716435..716585_POSITIVE 308 96 53 44 1 aact:AA02704|3end_dihydrolipoamide_succinyltransferase_1886795..1886945_POSITIVE 299 90 41 56 2 aact:AA00112|3end_uracil_permease_81239..81389_POSITIVE 293 68 28 91 51 aact:AA01497|3end_MioC_protein_1007977..1008127_POSITIVE 289 93 66 28 1 aact:AA01530|3end_conserved_hypothetical_protein_1028749..1028899_POSITIVE 288 63 26 87 48 aact:AA01368|3end_50S_ribosomal_protein_L19_924912..925062_POSITIVE 283 99 66 68 33 aact:AA01945|3end_selenophosphate_synthase_1316022..1316172_POSITIVE 278 97 57 78 37 aact:AA00231|3end_long-chain-fatty-acid--CoA_ligase_162399..162549_POSITIVE 277 93 57 80 44 aact:AA02212|3end_ribonucleoside-diphosphate_reductase_beta_chain_1507078..1507228_POSITIVE 277 98 55 70 27 aact:AA01439|3end_probable_ferredoxin_(fdx-2)_966498..966648_POSITIVE 275 100 57 77 32 aact:AA01624|3end_glucose-6-phosphate_isomerase_1099901..1100051_POSITIVE