Origin IGS: cacacggcctttttctctcgtaaacaacattttaatccaaactaataggtaatgaacaaaaagatttttgttgcatcgcttgcgtttgctgctgcttccgtagcaggatcg .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 cgatcctgctacggaagcagcagcaaacgcaagcgatgcaacaaaaatctttttgttcattacctattagtttggattaaaatgttgtttacgagagaaaaaggccgtgtg Mask Tandem Repeat Region ================================================ cacacggcctttttctctcgtaaacaacattttaatccaaactaataggtaatgaacaaaaagatttttgttgcatcgcttgcgtttgctgctgcttccgtagcaggatcg Find is-nt database================================================ Query_seq: PG1604:PG1605|PG1604:PG1605:immunoreactive 84 kDa antigen PG93:aminopeptidase C:->->:1685208..1685318 111 cacacggcctttttctctcgtaaacaacattttaatccaaactaataggtaatgaacaaaaagatttttgttgcatcgcttgcgtttgctgctgcttccgtagcaggatcg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG1604:PG1605|PG1604:PG1605:immunoreactive 84 kDa antigen PG93:aminopeptidase C:->->:1685208..1685318 111 cacacggcctttttctctcgtaaacaacattttaatccaaactaataggtaatgaacaaaaagatttttgttgcatcgcttgcgtttgctgctgcttccgtagcaggatcg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG1604:PG1605|PG1604:PG1605:immunoreactive 84 kDa antigen PG93:aminopeptidase C:->->:1685208..1685318 111 cacacggcctttttctctcgtaaacaacattttaatccaaactaataggtaatgaacaaaaagatttttgttgcatcgcttgcgtttgctgctgcttccgtagcaggatcg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 cacacggcctttttctctcgtaaacaacattttaatccaaactaataggtaatgaacaaaaagatttttgttgcatcgcttgcgtttgctgctgcttccgtagcaggatcg Predict ORF larger than 30AA ================================================ cacacggcctttttctctcgtaaacaacattttaatccaaactaataggtaatgaacaaaaagatttttgttgcatcgcttgcgtttgctgctgcttccgtagcaggatcg 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================================================ cacacggcctttttctctcgtaaacaacattttaatccaaactaataggtaatgaacaaaaagatttttgttgcatcgcttgcgtttgctgctgcttccgtagcaggatcg Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PG1604:PG1605|PG1604:PG1605:immunoreactive 84 kDa antigen PG93:aminopeptidase C:->->:1685208..1685318 111 cacacggcctttttctctcgtaaacaacattttaatccaaactaataggtaatgaacaaaaagatttttgttgcatcgcttgcgtttgctgctgcttccgtagcaggatcg Intra-Species Hit: Count: 1 Min: 1 Max: 111 Len: 111 Subject: NC_002950_PG1604_PG1605|immunoreactive 84 kDa antigen PG93:aminopeptidase C|POSITIVE:POSITIVE|[1685208,1685318]|111 HSP 1 e-value: 7.0E-57 bit: 220.0 Len: 111 Query Start:1 Query End:111 Subject Strand: POSITIVE Subject Start: 1 Subject End: 111 cacacggcctttttctctcgtaaacaacattttaatccaaactaataggtaatgaacaaaaagatttttgttgcatcgcttgcgtttgctgctgcttccgtagcaggatcg cacacggcctttttctctcgtaaacaacattttaatccaaactaataggtaatgaacaaaaagatttttgttgcatcgcttgcgtttgctgctgcttccgtagcaggatcg Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CACACGGCCUUUUUCUCUCGUAAACAACAUUUUAAUCCAAACUAAUAGGUAAUGAACAAAAAGAUUUUUGUUGCAUCGCUUGCGUUUGCUGCUGCUUCCGUAGCAGGAUCG ...((((..........))))................(((((...((((..((((((((((....))))))).)))..)))).)))))(((((((....)))))))..... (-23.20) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CGAUCCUGCUACGGAAGCAGCAGCAAACGCAAGCGAUGCAACAAAAAUCUUUUUGUUCAUUACCUAUUAGUUUGGAUUAAAAUGUUGUUUACGAGAGAAAAAGGCCGUGUG .....(((((.(....).)))))...((((..(..(((.(((((((....))))))))))..)....................((..(((.(....).)))..)).)))). (-21.00) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 373 105 65 231 189 NC_002950:PG0999|5end_hypothetical_protein_1057026..1057256_POSITIVE 373 105 65 134 92 NC_002950:PG0998|5end_hypothetical_protein_1056929..1057159_POSITIVE 352 106 70 50 1 NC_002950:PG0143|5end_hydrolase,_carbon-nitrogen_family_166625..166855_NEGATIVE 347 106 64 205 160 NC_002950:PG0963|5end_hypothetical_protein_1024332..1024562_NEGATIVE 341 108 70 218 176 NC_002950:PG0221|5end_hypothetical_protein_255834..256064_NEGATIVE 340 108 73 66 18 NC_002950:PG1475|5end_conjugative_transposon_protein_TraN_1551835..1552065_NEGATIVE 340 107 64 163 116 NC_002950:PG1367|5end_hypothetical_protein_1448013..1448243_NEGATIVE 327 107 61 65 12 NC_002950:PG1848|5end_RNA_methyltransferase,_TrmH_family_1947382..1947612_NEGATIVE 327 110 70 215 166 NC_002950:PG1690|5end_Sua5/YciO/YrdC/YwlC_family_protein_1775773..1776003_NEGATIVE 326 107 62 182 133 NC_002950:PG0147|5end_hypothetical_protein_169667..169897_NEGATIVE 324 106 62 226 186 NC_002950:PG0321|5end_arginine/ornithine_transport_system_ATPase_354648..354878_POSITIVE 320 107 63 149 101 NC_002950:PG1145|5end_long-chain-fatty-acid--CoA_ligase,_putative_1230305..1230535_NEGATIVE 317 110 73 231 192 NC_002950:PG1640|5end_DNA-damage-inducible_protein_F_1721245..1721475_NEGATIVE 315 108 62 227 165 NC_002950:PG0009|5end_ISPg5_transposase_Orf1_8466..8696_NEGATIVE 314 110 73 40 3 NC_002950:PG0753|5end_protease_798301..798531_POSITIVE 314 110 61 74 26 NC_002950:PG0297|5end_hypothetical_protein_335518..335748_NEGATIVE 312 105 66 90 43 NC_002950:PG0980|5end_hypothetical_protein_1040897..1041127_POSITIVE 312 96 68 228 200 NC_002950:PG0528|5end_amidophosphoribosyltransferase,_putative_572720..572950_POSITIVE 308 108 61 223 158 NC_002950:PG0704|5end_phosphoglycerate_mutase_family_protein_758928..759158_POSITIVE 306 107 65 165 115 NC_002950:PG1485|5end_conjugative_transposon_protein_TraC_1560370..1560600_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 435 110 63 144 103 NC_002950:PG0443|3end_hemagglutinin-related_protein_483147..483297_POSITIVE 394 101 68 150 114 NC_002950:PG2062|3end_histidyl-tRNA_synthetase_2160415..2160565_POSITIVE 373 105 65 137 95 NC_002950:PG0997|3end_transcriptional_regulator,_putative_1057012..1057162_POSITIVE 367 108 65 77 37 NC_002950:PG1972|3end_hemagglutinin_protein_HagB_2061203..2061353_POSITIVE 351 107 65 70 31 NC_002950:PG1975|3end_hemagglutinin_protein_HagC_2064350..2064500_POSITIVE 342 103 68 150 109 NC_002950:PG0526|3end_putative_inner_membrane_protein_translocase_component_YidC_572709..572859_POSITIVE 341 108 70 139 97 NC_002950:PG0222|3end_DNA-binding_protein,_histone-like_family_255913..256063_NEGATIVE 340 107 64 143 96 NC_002950:PG1368|3end_glucose-6-phosphate_isomerase_1448033..1448183_NEGATIVE 335 110 61 133 73 NC_002950:PG1648|3end_RelA/SpoT_family_protein_1730082..1730232_POSITIVE 333 110 73 56 13 NC_002950:PG0752|3end_uracil_phosphoribosyltransferase_798397..798547_POSITIVE 332 107 62 122 78 NC_002950:PG1218|3end_hypothetical_protein_1296475..1296625_POSITIVE 328 110 62 149 95 NC_002950:PG1675|3end_hypothetical_protein_1760360..1760510_POSITIVE 328 108 62 148 110 NC_002950:PG0004|3end_NAD-dependent_deacetylase_3752..3902_POSITIVE 327 107 61 68 15 NC_002950:PG1849|3end_DNA_repair_protein_RecN_1947379..1947529_NEGATIVE 326 109 64 148 95 NC_002950:PG1296|3end_hypothetical_protein_1375329..1375479_POSITIVE 326 107 70 136 80 NC_002950:PG0334|3end_glycosyl_transferase,_group_2_family_protein_368792..368942_NEGATIVE 324 106 62 75 35 NC_002950:PG0320|3end_hypothetical_protein_354577..354727_POSITIVE 317 106 73 50 17 NC_002950:PG0754|3end_DNA_topoisomerase_I_803389..803539_POSITIVE 312 105 66 103 56 NC_002950:PG0979|3end_hypothetical_protein_1040990..1041140_POSITIVE 307 107 61 117 73 NC_002950:PG1027|3end_hypothetical_protein_1089197..1089347_NEGATIVE