Origin IGS: ttcgtacttgtttgataaccgagtgtagcaatcgttagttaggtttataagtgtgttaacagttcaaatgcgattgccctgatctcgaccaataagagggggtagaagggttattgtgtaatggtctcgaatggacagatgacctaccctattccctggtgagcga .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tcgctcaccagggaatagggtaggtcatctgtccattcgagaccattacacaataacccttctaccccctcttattggtcgagatcagggcaatcgcatttgaactgttaacacacttataaacctaactaacgattgctacactcggttatcaaacaagtacgaa Mask Tandem Repeat Region ================================================ ttcgtacttgtttgataaccgagtgtagcaatcgttagttaggtttataagtgtgttaacagttcaaatgcgattgccctgatctcgaccaataagagggggtagaagggttattgtgtaatggtctcgaatggacagatgacctaccctattccctggtgagcga Find is-nt database================================================ Query_seq: PG1251:PG1252|PG1251:PG1252:hypothetical protein:hypothetical protein:-><-:1328273..1328438 166 ttcgtacttgtttgataaccgagtgtagcaatcgttagttaggtttataagtgtgttaacagttcaaatgcgattgccctgatctcgaccaataagagggggtagaagggttattgtgtaatggtctcgaatggacagatgacctaccctattccctggtgagcga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG1251:PG1252|PG1251:PG1252:hypothetical protein:hypothetical protein:-><-:1328273..1328438 166 ttcgtacttgtttgataaccgagtgtagcaatcgttagttaggtttataagtgtgttaacagttcaaatgcgattgccctgatctcgaccaataagagggggtagaagggttattgtgtaatggtctcgaatggacagatgacctaccctattccctggtgagcga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG1251:PG1252|PG1251:PG1252:hypothetical protein:hypothetical protein:-><-:1328273..1328438 166 ttcgtacttgtttgataaccgagtgtagcaatcgttagttaggtttataagtgtgttaacagttcaaatgcgattgccctgatctcgaccaataagagggggtagaagggttattgtgtaatggtctcgaatggacagatgacctaccctattccctggtgagcga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ttcgtacttgtttgataaccgagtgtagcaatcgttagttaggtttataagtgtgttaacagttcaaatgcgattgccctgatctcgaccaataagagggggtagaagggttattgtgtaatggtctcgaatggacagatgacctaccctattccctggtgagcga Predict ORF larger than 30AA ================================================ ttcgtacttgtttgataaccgagtgtagcaatcgttagttaggtttataagtgtgttaacagttcaaatgcgattgccctgatctcgaccaataagagggggtagaagggttattgtgtaatggtctcgaatggacagatgacctaccctattccctggtgagcga 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================================================ ttcgtacttgtttgataaccgagtgtagcaatcgttagttaggtttataagtgtgttaacagttcaaatgcgattgccctgatctcgaccaataagagggggtagaagggttattgtgtaatggtctcgaatggacagatgacctaccctattccctggtgagcga Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PG1251:PG1252|PG1251:PG1252:hypothetical protein:hypothetical protein:-><-:1328273..1328438 166 ttcgtacttgtttgataaccgagtgtagcaatcgttagttaggtttataagtgtgttaacagttcaaatgcgattgccctgatctcgaccaataagagggggtagaagggttattgtgtaatggtctcgaatggacagatgacctaccctattccctggtgagcga Intra-Species Hit: Count: 1 Min: 1 Max: 166 Len: 166 Subject: NC_002950_PG1251_PG1252|hypothetical protein:hypothetical protein|POSITIVE:NEGATIVE|[1328273,1328438]|166 HSP 1 e-value: 2.0E-89 bit: 329.0 Len: 166 Query Start:1 Query End:166 Subject Strand: POSITIVE Subject Start: 1 Subject End: 166 ttcgtacttgtttgataaccgagtgtagcaatcgttagttaggtttataagtgtgttaacagttcaaatgcgattgccctgatctcgaccaataagagggggtagaagggttattgtgtaatggtctcgaatggacagatgacctaccctattccctggtgagcga ttcgtacttgtttgataaccgagtgtagcaatcgttagttaggtttataagtgtgttaacagttcaaatgcgattgccctgatctcgaccaataagagggggtagaagggttattgtgtaatggtctcgaatggacagatgacctaccctattccctggtgagcga Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUCGUACUUGUUUGAUAACCGAGUGUAGCAAUCGUUAGUUAGGUUUAUAAGUGUGUUAACAGUUCAAAUGCGAUUGCCCUGAUCUCGACCAAUAAGAGGGGGUAGAAGGGUUAUUGUGUAAUGGUCUCGAAUGGACAGAUGACCUACCCUAUUCCCUGGUGAGCGA .((((..............((((....((((((((.......(((.(((....))).))).........))))))))......)))).........(((((((((..((((((((........((((.....)))).))))))))...))))))))).....)))) (-41.29) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UCGCUCACCAGGGAAUAGGGUAGGUCAUCUGUCCAUUCGAGACCAUUACACAAUAACCCUUCUACCCCCUCUUAUUGGUCGAGAUCAGGGCAAUCGCAUUUGAACUGUUAACACACUUAUAAACCUAACUAACGAUUGCUACACUCGGUUAUCAAACAAGUACGAA (((..(....(((...(((((.((((.((.........))))))...........)))))....)))........((..((((.....((((((((....................................))))))))...))))..))........)..))). (-30.22) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 575 40 1 226 187 NC_002950:PG2220|5end_hypothetical_protein_2334935..2335165_POSITIVE 574 80 33 181 135 NC_002950:PG1787|5end_hypothetical_protein_1875908..1876138_NEGATIVE 550 44 1 229 185 NC_002950:PG1363|5end_hypothetical_protein_1443804..1444034_POSITIVE 446 40 1 226 187 NC_002950:PG1059|5end_hypothetical_protein_1126495..1126725_NEGATIVE 431 128 83 141 96 NC_002950:PG0749|5end_hypothetical_protein_795654..795884_NEGATIVE 357 40 1 227 187 NC_002950:PG0499|5end_hypothetical_protein_538709..538939_POSITIVE 357 107 69 157 122 NC_002950:PG0444|5end_oligopeptide_transporter,_OPT_family_483256..483486_POSITIVE 346 126 84 193 154 NC_002950:PG2189|5end_aspartate_kinase_2297151..2297381_NEGATIVE 335 110 69 43 2 NC_002950:PG0932|5end_DNA_polymerase_III,_delta_prime_subunit,_putative_988503..988733_POSITIVE 328 160 115 75 32 NC_002950:PG1727|5end_yitL_protein_1816709..1816939_POSITIVE 324 120 71 140 81 NC_002950:PG1176|5end_ABC_transporter,_ATP-binding_protein,_putative_1257644..1257874_NEGATIVE 321 119 71 87 38 NC_002950:PG1753|5end_selenide,_water_dikinase_1838615..1838845_POSITIVE 313 108 69 77 40 NC_002950:PG0734|5end_nitroreductase_family_protein_783773..784003_POSITIVE 311 110 66 207 152 NC_002950:PG0594|5end_RNA_polymerase_sigma-70_factor_652048..652278_POSITIVE 310 113 75 48 11 NC_002950:PG1704|5end_thiol:disulfide_interchange_protein_dsbD,_putative_1792819..1793049_NEGATIVE 308 70 21 50 5 NC_002950:PG0879|5end_hypothetical_protein_942536..942766_NEGATIVE 307 110 68 156 118 NC_002950:PG0240|5end_hydrolase,_haloacid_dehalogenase-like_family_277093..277323_NEGATIVE 306 136 96 154 115 NC_002950:PG0145|5end_hypothetical_protein_167831..168061_POSITIVE 301 150 101 70 16 NC_002950:PG0735|5end_aminotransferase,_class_V_784383..784613_POSITIVE 296 139 98 165 121 NC_002950:PG0917|5end_GtrA_family_protein_978097..978327_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 428 83 51 34 2 NC_002950:PG2094|3end_hypothetical_protein_2193321..2193471_NEGATIVE 377 90 41 86 34 NC_002950:PG0078|3end_hypothetical_protein_91566..91716_NEGATIVE 346 144 101 42 1 NC_002950:PG1312|3end_capA_protein,_putative_1391553..1391703_POSITIVE 344 128 83 114 62 NC_002950:PG1847|3end_endoribonuclease_L-PSP,_putative_1946227..1946377_NEGATIVE 342 110 61 67 13 NC_002950:PG1977|3end_hypothetical_protein_2064687..2064837_NEGATIVE 328 160 115 65 22 NC_002950:PG1726|3end_PDZ_domain_protein_1816779..1816929_POSITIVE 323 129 84 118 60 NC_002950:PG0010|3end_ATP-dependent_Clp_protease,_ATP-binding_subunit_ClpC_11434..11584_POSITIVE 321 119 71 90 41 NC_002950:PG1752|3end_hypothetical_protein_1838698..1838848_POSITIVE 316 134 95 128 93 NC_002950:PG1022|3end_hypothetical_protein_1085098..1085248_POSITIVE 313 108 69 80 43 NC_002950:PG0733|3end_riboflavin_synthase_subunit_alpha_783856..784006_POSITIVE 313 110 70 98 60 NC_002950:PG0164|3end_hypothetical_protein_187081..187231_NEGATIVE 310 87 41 88 41 NC_002950:PG1807|3end_v-type_ATPase,_subunit_K_1902625..1902775_POSITIVE 299 130 87 87 33 NC_002950:PG1364|3end_1-deoxy-D-xylulose_5-phosphate_reductoisomerase_1444388..1444538_NEGATIVE 295 138 93 122 78 NC_002950:PG1326|3end_hemagglutinin,_putative_1405171..1405321_POSITIVE 293 112 71 43 4 NC_002950:PG1791|3end_hypothetical_protein_1880951..1881101_NEGATIVE 292 110 62 86 27 NC_002950:PG1359|3end_hypothetical_protein_1437644..1437794_NEGATIVE 290 112 76 142 96 NC_002950:PG1684|3end_hypothetical_protein_1771483..1771633_POSITIVE 290 110 61 115 66 NC_002950:PG0636|3end_MATE_efflux_family_protein_687707..687857_NEGATIVE 287 138 95 119 69 NC_002950:PG0932|3end_DNA_polymerase_III,_delta_prime_subunit,_putative_989833..989983_POSITIVE 285 118 71 131 74 NC_002950:PG2026|3end_phosphoglycerate_mutase_family_protein_2125545..2125695_POSITIVE