Origin IGS: agtatttcatggatattgggacgtttttctcctaaatatgtctatttataaagagcttcgggcagatcgtatgctcgtcccaatgcctcgcacggatgtaactgctctgatttcataactttgacttcctaaacggtataaaattgttttcg .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 cgaaaacaattttataccgtttaggaagtcaaagttatgaaatcagagcagttacatccgtgcgaggcattgggacgagcatacgatctgcccgaagctctttataaatagacatatttaggagaaaaacgtcccaatatccatgaaatact Mask Tandem Repeat Region ================================================ agtatttcatggatattgggacgtttttctcctaaatatgtctatttataaagagcttcgggcagatcgtatgctcgtcccaatgcctcgcacggatgtaactgctctgatttcataactttgacttcctaaacggtataaaattgttttcg Find is-nt database================================================ Query_seq: PG0351:PG0352|PG0351:PG0352:hypothetical protein:sialidase, putative:->->:387175..387326 152 agtatttcatggatattgggacgtttttctcctaaatatgtctatttataaagagcttcgggcagatcgtatgctcgtcccaatgcctcgcacggatgtaactgctctgatttcataactttgacttcctaaacggtataaaattgttttcg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG0351:PG0352|PG0351:PG0352:hypothetical protein:sialidase, putative:->->:387175..387326 152 agtatttcatggatattgggacgtttttctcctaaatatgtctatttataaagagcttcgggcagatcgtatgctcgtcccaatgcctcgcacggatgtaactgctctgatttcataactttgacttcctaaacggtataaaattgttttcg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG0351:PG0352|PG0351:PG0352:hypothetical protein:sialidase, putative:->->:387175..387326 152 agtatttcatggatattgggacgtttttctcctaaatatgtctatttataaagagcttcgggcagatcgtatgctcgtcccaatgcctcgcacggatgtaactgctctgatttcataactttgacttcctaaacggtataaaattgttttcg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 agtatttcatggatattgggacgtttttctcctaaatatgtctatttataaagagcttcgggcagatcgtatgctcgtcccaatgcctcgcacggatgtaactgctctgatttcataactttgacttcctaaacggtataaaattgttttcg Predict ORF larger than 30AA ================================================ Protein_Len: 32 Strand: - Start: 49 End: 144 ................................................ L S S R A S R I S T G I G R V S T V A R I E Y S Q S G L R Y L M ........ agtatttcatggatattgggacgtttttctcctaaatatgtctatttataaagagcttcgggcagatcgtatgctcgtcccaatgcctcgcacggatgtaactgctctgatttcataactttgacttcctaaacggtataaaattgttttcg 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================================================ agtatttcatggatattgggacgtttttctcctaaatatgtctatttataaagagcttcgggcagatcgtatgctcgtcccaatgcctcgcacggatgtaactgctctgatttcataactttgacttcctaaacggtataaaattgttttcg Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PG0351:PG0352|PG0351:PG0352:hypothetical protein:sialidase, putative:->->:387175..387326 152 agtatttcatggatattgggacgtttttctcctaaatatgtctatttataaagagcttcgggcagatcgtatgctcgtcccaatgcctcgcacggatgtaactgctctgatttcataactttgacttcctaaacggtataaaattgttttcg Intra-Species Hit: Count: 1 Min: 1 Max: 152 Len: 152 Subject: NC_002950_PG0351_PG0352|hypothetical protein:sialidase, putative|POSITIVE:POSITIVE|[387175,387326]|152 HSP 1 e-value: 3.0E-81 bit: 301.0 Len: 152 Query Start:1 Query End:152 Subject Strand: POSITIVE Subject Start: 1 Subject End: 152 agtatttcatggatattgggacgtttttctcctaaatatgtctatttataaagagcttcgggcagatcgtatgctcgtcccaatgcctcgcacggatgtaactgctctgatttcataactttgacttcctaaacggtataaaattgttttcg agtatttcatggatattgggacgtttttctcctaaatatgtctatttataaagagcttcgggcagatcgtatgctcgtcccaatgcctcgcacggatgtaactgctctgatttcataactttgacttcctaaacggtataaaattgttttcg Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGUAUUUCAUGGAUAUUGGGACGUUUUUCUCCUAAAUAUGUCUAUUUAUAAAGAGCUUCGGGCAGAUCGUAUGCUCGUCCCAAUGCCUCGCACGGAUGUAACUGCUCUGAUUUCAUAACUUUGACUUCCUAAACGGUAUAAAAUUGUUUUCG ..........((.(((((((((..........((((((....))))))....((((..(((.....)))...)))))))))))))))..(((.(.......))))...((..(((......)))..))..(((((((.....)))))))... (-29.20) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CGAAAACAAUUUUAUACCGUUUAGGAAGUCAAAGUUAUGAAAUCAGAGCAGUUACAUCCGUGCGAGGCAUUGGGACGAGCAUACGAUCUGCCCGAAGCUCUUUAUAAAUAGACAUAUUUAGGAGAAAAACGUCCCAAUAUCCAUGAAAUACU ........(((((((..(((...(((.((.(..(((.((....)).)))..).)).)))..))).(..(((((((((.(((.......)))......((((...((((((....)))))))))).....)))))))))..).)))))))... (-33.30) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 422 98 55 128 73 NC_002950:PG1594|5end_ComEC/Rec2-related_protein_1673587..1673817_NEGATIVE 392 109 67 196 133 NC_002950:PG0158|5end_competence_protein_F-related_protein_180175..180405_POSITIVE 376 94 51 166 123 NC_002950:PG1565|5end_3-deoxy-D-manno-octulosonic-acid_transferase,_putative_1645859..1646089_NEGATIVE 373 110 61 172 126 NC_002950:PG1995|5end_hypothetical_protein_2085584..2085814_POSITIVE 360 108 63 128 70 NC_002950:PG1735|5end_MutT/nudix_family_protein_1823082..1823312_NEGATIVE 354 108 67 115 78 NC_002950:PG0463|5end_folylpolyglutamate_synthase_507606..507836_NEGATIVE 349 108 61 54 13 NC_002950:PG0368|5end_DNA_topoisomerase_IV_subunit_B_401245..401475_POSITIVE 346 97 51 52 4 NC_002950:PG1946|5end_ABC_3_transporter_family_protein_2032133..2032363_POSITIVE 339 99 53 220 166 NC_002950:PG0074|5end_peptide_chain_release_factor_1_89172..89402_NEGATIVE 337 89 51 70 40 NC_002950:PG2043|5end_conserved_hypothetical_protein_TIGR00486_2142218..2142448_POSITIVE 335 96 59 220 170 NC_002950:PG1107|5end_hypothetical_protein_1178760..1178990_POSITIVE 332 100 52 157 106 NC_002950:PG0145|5end_hypothetical_protein_167831..168061_POSITIVE 330 100 51 176 122 NC_002950:PG1035|5end_hypothetical_protein_1096875..1097105_POSITIVE 330 110 61 208 162 NC_002950:PG0447|5end_hypothetical_protein_487278..487508_POSITIVE 329 109 61 67 13 NC_002950:PG0190|5end_undecaprenyl_diphosphate_synthase_226076..226306_POSITIVE 328 100 55 161 100 NC_002950:PG1739|5end_hypothetical_protein_1825709..1825939_NEGATIVE 328 109 61 212 158 NC_002950:PG1125|5end_hypothetical_protein_1201727..1201957_NEGATIVE 326 93 55 195 155 NC_002950:PG1368|5end_glucose-6-phosphate_isomerase_1449370..1449600_NEGATIVE 325 100 55 227 181 NC_002950:PG1842|5end_acetyltransferase,_GNAT_family_1938241..1938471_POSITIVE 325 98 52 58 9 NC_002950:PG1783|5end_glycosyl_transferase,_group_2_family_protein_1871868..1872098_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 422 98 55 121 66 NC_002950:PG1595|3end_ribulose-phosphate_3-epimerase_1673594..1673744_NEGATIVE 407 98 55 58 3 NC_002950:PG0636|3end_MATE_efflux_family_protein_687707..687857_NEGATIVE 376 94 51 141 98 NC_002950:PG1566|3end_glutamyl-tRNA_synthetase_1645884..1646034_NEGATIVE 365 109 61 123 77 NC_002950:PG1467|3end_methlytransferase,_UbiE/COQ5_family_1543901..1544051_POSITIVE 361 98 55 140 103 NC_002950:PG0443|3end_hemagglutinin-related_protein_483147..483297_POSITIVE 361 110 61 128 72 NC_002950:PG0384|3end_MutS2_family_protein_418697..418847_POSITIVE 359 99 51 81 30 NC_002950:PG2041|3end_hypothetical_protein_2139235..2139385_NEGATIVE 356 110 61 149 83 NC_002950:PG0740|3end_NLP/P60_family_protein_788485..788635_POSITIVE 354 108 67 118 81 NC_002950:PG0464|3end_adenylosuccinate_synthetase_507603..507753_NEGATIVE 352 91 55 149 101 NC_002950:PG1151|3end_alcohol_dehydrogenase,_iron-containing_1234378..1234528_POSITIVE 346 97 51 59 11 NC_002950:PG1945|3end_hypothetical_protein_2032220..2032370_POSITIVE 346 98 51 145 103 NC_002950:PG0445|3end_peptidase_T_486549..486699_POSITIVE 326 109 64 151 95 NC_002950:PG1134|3end_thioredoxin_reductase_1215371..1215521_POSITIVE 325 98 52 71 22 NC_002950:PG1782|3end_hypothetical_protein_1871961..1872111_POSITIVE 325 130 85 134 97 NC_002950:PG1372|3end_hypothetical_protein_1453301..1453451_NEGATIVE 323 92 55 66 26 NC_002950:PG1694|3end_hypothetical_protein_1777916..1778066_NEGATIVE 321 95 55 45 5 NC_002950:PG0439|3end_hypothetical_protein_478810..478960_POSITIVE 320 109 62 72 24 NC_002950:PG1498|3end_hypothetical_protein_1575650..1575800_POSITIVE 320 95 58 148 101 NC_002950:PG0336|3end_hypothetical_protein_370723..370873_NEGATIVE 318 100 57 143 111 NC_002950:PG1735|3end_MutT/nudix_family_protein_1822528..1822678_NEGATIVE