Origin IGS: agttttacttttctaagtgtatttttatacgtttaccaatagcctattcgctacacaaatgtaatgtaagaaatttgaacagccaaataattaggagagaaaagcgttagttctcctctcaaaaagccattgatcaaaaacaaataacagtctttttattatagagtattattataaaacgcttgggagaaataattcctttggcgaatctcgtagagcttttcatgtggtgtatctgcagagctgcaaagaagattctccggtaattttttccctgtatgcataattacttcgtaagcagagag .........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 ctctctgcttacgaagtaattatgcatacagggaaaaaattaccggagaatcttctttgcagctctgcagatacaccacatgaaaagctctacgagattcgccaaaggaattatttctcccaagcgttttataataatactctataataaaaagactgttatttgtttttgatcaatggctttttgagaggagaactaacgcttttctctcctaattatttggctgttcaaatttcttacattacatttgtgtagcgaataggctattggtaaacgtataaaaatacacttagaaaagtaaaact Mask Tandem Repeat Region ================================================ agttttacttttctaagtgtatttttatacgtttaccaatagcctattcgctacacaaatgtaatgtaagaaatttgaacagccaaataattaggagagaaaagcgttagttctcctctcaaaaagccattgatcaaaaacaaataacagtctttttattatagagtattattataaaacgcttgggagaaataattcctttggcgaatctcgtagagcttttcatgtggtgtatctgcagagctgcaaagaagattctccggtaattttttccctgtatgcataattacttcgtaagcagagag Find is-nt database================================================ Query_seq: PG0695:PG0698|PG0695:PG0698:immunoreactive 43 kDa antigen PG32:lipoprotein, putative:<-<-:752158..752462 305 agttttacttttctaagtgtatttttatacgtttaccaatagcctattcgctacacaaatgtaatgtaagaaatttgaacagccaaataattaggagagaaaagcgttagttctcctctcaaaaagccattgatcaaaaacaaataacagtctttttattatagagtattattataaaacgcttgggagaaataattcctttggcgaatctcgtagagcttttcatgtggtgtatctgcagagctgcaaagaagattctccggtaattttttccctgtatgcataattacttcgtaagcagagag Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG0695:PG0698|PG0695:PG0698:immunoreactive 43 kDa antigen PG32:lipoprotein, putative:<-<-:752158..752462 305 agttttacttttctaagtgtatttttatacgtttaccaatagcctattcgctacacaaatgtaatgtaagaaatttgaacagccaaataattaggagagaaaagcgttagttctcctctcaaaaagccattgatcaaaaacaaataacagtctttttattatagagtattattataaaacgcttgggagaaataattcctttggcgaatctcgtagagcttttcatgtggtgtatctgcagagctgcaaagaagattctccggtaattttttccctgtatgcataattacttcgtaagcagagag Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG0695:PG0698|PG0695:PG0698:immunoreactive 43 kDa antigen PG32:lipoprotein, putative:<-<-:752158..752462 305 agttttacttttctaagtgtatttttatacgtttaccaatagcctattcgctacacaaatgtaatgtaagaaatttgaacagccaaataattaggagagaaaagcgttagttctcctctcaaaaagccattgatcaaaaacaaataacagtctttttattatagagtattattataaaacgcttgggagaaataattcctttggcgaatctcgtagagcttttcatgtggtgtatctgcagagctgcaaagaagattctccggtaattttttccctgtatgcataattacttcgtaagcagagag Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 agttttacttttctaagtgtatttttatacgtttaccaatagcctattcgctacacaaatgtaatgtaagaaatttgaacagccaaataattaggagagaaaagcgttagttctcctctcaaaaagccattgatcaaaaacaaataacagtctttttattatagagtattattataaaacgcttgggagaaataattcctttggcgaatctcgtagagcttttcatgtggtgtatctgcagagctgcaaagaagattctccggtaattttttccctgtatgcataattacttcgtaagcagagag Predict ORF larger than 30AA ================================================ Protein_Len: 32 Strand: + Start: 168 End: 263 ....................................................................................................................................................................... M I I K R L G E I I P L A N L V E L F M W C I C R A A K K I L R .......................................... Protein_Len: 42 Strand: + Start: 158 End: 283 ............................................................................................................................................................. M I E Y Y Y K T L G R N N S F G E S R R A F H V V Y L Q S C K E D S P V I F S L Y A ...................... Protein_Len: 42 Strand: - Start: 162 End: 287 ................................................................................................................................................................. L T N N Y F A Q S F Y N R Q R I E Y L K E H P T D A S S C L L N E P L K K G T H M M .................. Protein_Len: 48 Strand: - Start: 137 End: 280 ........................................................................................................................................ F C I V T K K N Y L I I I F R K P S I I G K A F R T S S K M H H I Q L A A F F I R R Y N K G Q M ......................... Protein_Len: 30 Strand: - Start: 54 End: 143 ..................................................... V F T I Y S I Q V A L Y N P S F L T L E G R L F G N I L F M .................................................................................................................................................................. agttttacttttctaagtgtatttttatacgtttaccaatagcctattcgctacacaaatgtaatgtaagaaatttgaacagccaaataattaggagagaaaagcgttagttctcctctcaaaaagccattgatcaaaaacaaataacagtctttttattatagagtattattataaaacgcttgggagaaataattcctttggcgaatctcgtagagcttttcatgtggtgtatctgcagagctgcaaagaagattctccggtaattttttccctgtatgcataattacttcgtaagcagagag 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================================================ agttttacttttctaagtgtatttttatacgtttaccaatagcctattcgctacacaaatgtaatgtaagaaatttgaacagccaaataattaggagagaaaagcgttagttctcctctcaaaaagccattgatcaaaaacaaataacagtctttttattatagagtattattataaaacgcttgggagaaataattcctttggcgaatctcgtagagcttttcatgtggtgtatctgcagagctgcaaagaagattctccggtaattttttccctgtatgcataattacttcgtaagcagagag Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PG0695:PG0698|PG0695:PG0698:immunoreactive 43 kDa antigen PG32:lipoprotein, putative:<-<-:752158..752462 305 agttttacttttctaagtgtatttttatacgtttaccaatagcctattcgctacacaaatgtaatgtaagaaatttgaacagccaaataattaggagagaaaagcgttagttctcctctcaaaaagccattgatcaaaaacaaataacagtctttttattatagagtattattataaaacgcttgggagaaataattcctttggcgaatctcgtagagcttttcatgtggtgtatctgcagagctgcaaagaagattctccggtaattttttccctgtatgcataattacttcgtaagcagagag Intra-Species Hit: Count: 1 Min: 1 Max: 305 Len: 305 Subject: NC_002950_PG0695_PG0698|immunoreactive 43 kDa antigen PG32:lipoprotein, putative|NEGATIVE:NEGATIVE|[752158,752462]|305 HSP 1 e-value: 1.0E-172 bit: 605.0 Len: 305 Query Start:1 Query End:305 Subject Strand: POSITIVE Subject Start: 1 Subject End: 305 agttttacttttctaagtgtatttttatacgtttaccaatagcctattcgctacacaaatgtaatgtaagaaatttgaacagccaaataattaggagagaaaagcgttagttctcctctcaaaaagccattgatcaaaaacaaataacagtctttttattatagagtattattataaaacgcttgggagaaataattcctttggcgaatctcgtagagcttttcatgtggtgtatctgcagagctgcaaagaagattctccggtaattttttccctgtatgcataattacttcgtaagcagagag agttttacttttctaagtgtatttttatacgtttaccaatagcctattcgctacacaaatgtaatgtaagaaatttgaacagccaaataattaggagagaaaagcgttagttctcctctcaaaaagccattgatcaaaaacaaataacagtctttttattatagagtattattataaaacgcttgggagaaataattcctttggcgaatctcgtagagcttttcatgtggtgtatctgcagagctgcaaagaagattctccggtaattttttccctgtatgcataattacttcgtaagcagagag Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGUUUUACUUUUCUAAGUGUAUUUUUAUACGUUUACCAAUAGCCUAUUCGCUACACAAAUGUAAUGUAAGAAAUUUGAACAGCCAAAUAAUUAGGAGAGAAAAGCGUUAGUUCUCCUCUCAAAAAGCCAUUGAUCAAAAACAAAUAACAGUCUUUUUAUUAUAGAGUAUUAUUAUAAAACGCUUGGGAGAAAUAAUUCCUUUGGCGAAUCUCGUAGAGCUUUUCAUGUGGUGUAUCUGCAGAGCUGCAAAGAAGAUUCUCCGGUAAUUUUUUCCCUGUAUGCAUAAUUACUUCGUAAGCAGAGAG .(((((.(((((((((...........(((((((.....((((......))))...))))))).........(((((......)))))..))))))))).)))))..........(((((.(((((..((((...............)))))))))..((((..((((..(((((...(..(..((((((((.....((...((.(((((((...((((((....((..(.....)..))))))).)...).)))))).))))....)))))))).)..)..)))))))))..))))...))))) (-60.36) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CUCUCUGCUUACGAAGUAAUUAUGCAUACAGGGAAAAAAUUACCGGAGAAUCUUCUUUGCAGCUCUGCAGAUACACCACAUGAAAAGCUCUACGAGAUUCGCCAAAGGAAUUAUUUCUCCCAAGCGUUUUAUAAUAAUACUCUAUAAUAAAAAGACUGUUAUUUGUUUUUGAUCAAUGGCUUUUUGAGAGGAGAACUAACGCUUUUCUCUCCUAAUUAUUUGGCUGUUCAAAUUUCUUACAUUACAUUUGUGUAGCGAAUAGGCUAUUGGUAAACGUAUAAAAAUACACUUAGAAAAGUAAAACU .....(((((...((((.............((((((.((((.((((.(((((((.((((((....))))))..........((.....))...))))))).))...)))))).))))))....((((((...(((((((.(((.........))).)))))))........(((((((((((...(((((((((.(....).)))))))))........((.((((..(((((............)))))..)))).)).)))))))))))))))))..........))))....)))))..... (-62.90) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 860 130 81 221 172 NC_002950:PG0695|5end_immunoreactive_43_kDa_antigen_PG32_752067..752297_NEGATIVE 450 220 171 196 148 NC_002950:PG0279|5end_NADP-dependent_malic_enzyme_312954..313184_NEGATIVE 372 242 202 76 36 NC_002950:PG1603|5end_HAM1_protein_1682165..1682395_POSITIVE 365 247 203 178 119 NC_002950:PG1940|5end_elongation_factor_EF-2_2027220..2027450_NEGATIVE 356 247 201 80 33 NC_002950:PG0270|5end_redox-sensitive_transcriptional_activator_OxyR_302865..303095_POSITIVE 342 279 242 179 133 NC_002950:PG2096|5end_hypothetical_protein_2205415..2205645_NEGATIVE 339 270 222 230 175 NC_002950:PG1742|5end_hypothetical_protein_1827250..1827480_POSITIVE 335 248 205 231 166 NC_002950:PG1783|5end_glycosyl_transferase,_group_2_family_protein_1871868..1872098_POSITIVE 324 267 221 158 113 NC_002950:PG2081|5end_biotin_synthetase_2181661..2181891_NEGATIVE 321 240 194 80 33 NC_002950:PG2010|5end_phosphomannomutase,_putative_2099220..2099450_POSITIVE 315 247 202 129 76 NC_002950:PG0021|5end_TIM-barrel_protein,_putative,_NifR3_family_25123..25353_NEGATIVE 311 247 203 84 38 NC_002950:PG0343|5end_methionine_gamma-lyase_378362..378592_NEGATIVE 306 277 231 61 4 NC_002950:PG1057|5end_hypothetical_protein_1123419..1123649_POSITIVE 301 247 203 50 2 NC_002950:PG0146|5end_hypothetical_protein_169115..169345_NEGATIVE 300 260 211 231 182 NC_002950:PG2070|5end_hypothetical_protein_2165541..2165771_POSITIVE 298 239 197 61 11 NC_002950:PG1121|5end_asparaginyl-tRNA_synthetase_1197555..1197785_NEGATIVE 296 266 226 39 7 NC_002950:PG0195|5end_rubrerythrin_232046..232276_POSITIVE 295 273 231 166 120 NC_002950:PG0386|5end_site-specific_recombinase,_phage_integrase_family/ribosomal_subunit_interface_protein_419047..419277_POSITIVE 295 248 201 211 152 NC_002950:PG0305|5end_electron_transport_complex,_RnfABCDGE_type,_D_subunit_340906..341136_POSITIVE 292 260 211 151 94 NC_002950:PG2123|5end_hypothetical_protein_2229891..2230121_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 342 279 242 73 27 NC_002950:PG2097|3end_ribose-phosphate_pyrophosphokinase_2205521..2205671_NEGATIVE 333 247 203 147 100 NC_002950:PG0073|3end_orotidine_5'-monophosphate_decarboxylase_87240..87390_NEGATIVE 323 247 201 123 94 NC_002950:PG2206|3end_ABC_transporter,_ATP-binding_protein_2317250..2317400_NEGATIVE 315 247 202 132 79 NC_002950:PG0022|3end_sulfate_permease_family_protein_25120..25270_NEGATIVE 308 244 201 148 98 NC_002950:PG0522|3end_tRNA_delta(2)-isopentenylpyrophosphate_transferase_565993..566143_NEGATIVE 303 244 201 135 92 NC_002950:PG1788|3end_cysteine_peptidase,_putative_1877327..1877477_POSITIVE 296 227 181 130 90 NC_002950:PG1458|3end_hypothetical_protein_1539682..1539832_POSITIVE 295 273 231 89 43 NC_002950:PG0385|3end_ribosomal_protein_S21_419050..419200_POSITIVE 290 265 225 141 104 NC_002950:PG1888|3end_hypothetical_protein_1986290..1986440_POSITIVE 289 250 203 140 84 NC_002950:PG1585|3end_batD_protein_1664137..1664287_POSITIVE 288 243 203 89 40 NC_002950:PG0899|3end_cytochrome_d_ubiquinol_oxidase,_subunit_II_963497..963647_NEGATIVE 283 246 203 140 106 NC_002950:PG1859|3end_glycerate_kinase_family_protein_1957174..1957324_NEGATIVE 283 237 195 87 43 NC_002950:PG1115|3end_signal_recognition_particle_protein_1188887..1189037_POSITIVE 281 237 203 145 106 NC_002950:PG1941|3end_30S_ribosomal_protein_S7_2027233..2027383_NEGATIVE 281 248 202 122 80 NC_002950:PG0297|3end_hypothetical_protein_335297..335447_NEGATIVE 278 285 243 55 13 NC_002950:PG0338|3end_hypothetical_protein_375137..375287_POSITIVE 276 239 201 76 30 NC_002950:PG2047|3end_helicase,_putative_2145758..2145908_NEGATIVE 274 239 200 58 17 NC_002950:PG1410|3end_hypothetical_protein_1493436..1493586_POSITIVE 273 260 216 72 23 NC_002950:PG0917|3end_GtrA_family_protein_977702..977852_NEGATIVE 273 264 224 48 1 NC_002950:PG0231|3end_hypothetical_protein_267409..267559_POSITIVE