Origin IGS: taatatgtgttgatgtaaatcaataaaattcaacttttgtgtcgttgtagctttgaagttgttagttttttatcaataaattagcttcattgagatatttaacgtatatttgcagcaagtaatagcagtttgttattatttacttca .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tgaagtaaataataacaaactgctattacttgctgcaaatatacgttaaatatctcaatgaagctaatttattgataaaaaactaacaacttcaaagctacaacgacacaaaagttgaattttattgatttacatcaacacatatta Mask Tandem Repeat Region ================================================ taatatgtgttgatgtaaatcaataaaattcaacttttgtgtcgttgtagctttgaagttgttagttttttatcaataaattagcttcattgagatatttaacgtatatttgcagcaagtaatagcagtttgttattatttacttca Find is-nt database================================================ Query_seq: PI0985:PI0987|PI0985:PI0987:aspartyl-tRNA synthetase:hypothetical protein:->->:911973..912119 147 taatatgtgttgatgtaaatcaataaaattcaacttttgtgtcgttgtagctttgaagttgttagttttttatcaataaattagcttcattgagatatttaacgtatatttgcagcaagtaatagcagtttgttattatttacttca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0985:PI0987|PI0985:PI0987:aspartyl-tRNA synthetase:hypothetical protein:->->:911973..912119 147 taatatgtgttgatgtaaatcaataaaattcaacttttgtgtcgttgtagctttgaagttgttagttttttatcaataaattagcttcattgagatatttaacgtatatttgcagcaagtaatagcagtttgttattatttacttca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0985:PI0987|PI0985:PI0987:aspartyl-tRNA synthetase:hypothetical protein:->->:911973..912119 147 taatatgtgttgatgtaaatcaataaaattcaacttttgtgtcgttgtagctttgaagttgttagttttttatcaataaattagcttcattgagatatttaacgtatatttgcagcaagtaatagcagtttgttattatttacttca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taatatgtgttgatgtaaatcaataaaattcaacttttgtgtcgttgtagctttgaagttgttagttttttatcaataaattagcttcattgagatatttaacgtatatttgcagcaagtaatagcagtttgttattatttacttca Predict ORF larger than 30AA ================================================ taatatgtgttgatgtaaatcaataaaattcaacttttgtgtcgttgtagctttgaagttgttagttttttatcaataaattagcttcattgagatatttaacgtatatttgcagcaagtaatagcagtttgttattatttacttca 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================================================ taatatgtgttgatgtaaatcaataaaattcaacttttgtgtcgttgtagctttgaagttgttagttttttatcaataaattagcttcattgagatatttaacgtatatttgcagcaagtaatagcagtttgttattatttacttca Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI0985:PI0987|PI0985:PI0987:aspartyl-tRNA synthetase:hypothetical protein:->->:911973..912119 147 taatatgtgttgatgtaaatcaataaaattcaacttttgtgtcgttgtagctttgaagttgttagttttttatcaataaattagcttcattgagatatttaacgtatatttgcagcaagtaatagcagtttgttattatttacttca Intra-Species Hit: Count: 1 Min: 1 Max: 147 Len: 147 Subject: pint_PI0985_PI0987|aspartyl-tRNA synthetase:hypothetical protein|POSITIVE:POSITIVE|[911973,912119]|147 HSP 1 e-value: 3.0E-78 bit: 291.0 Len: 147 Query Start:1 Query End:147 Subject Strand: POSITIVE Subject Start: 1 Subject End: 147 taatatgtgttgatgtaaatcaataaaattcaacttttgtgtcgttgtagctttgaagttgttagttttttatcaataaattagcttcattgagatatttaacgtatatttgcagcaagtaatagcagtttgttattatttacttca taatatgtgttgatgtaaatcaataaaattcaacttttgtgtcgttgtagctttgaagttgttagttttttatcaataaattagcttcattgagatatttaacgtatatttgcagcaagtaatagcagtttgttattatttacttca Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUAUGUGUUGAUGUAAAUCAAUAAAAUUCAACUUUUGUGUCGUUGUAGCUUUGAAGUUGUUAGUUUUUUAUCAAUAAAUUAGCUUCAUUGAGAUAUUUAACGUAUAUUUGCAGCAAGUAAUAGCAGUUUGUUAUUAUUUACUUCA ..((((((((((((....)))))).............(((.(((.((.((((.....((((.(((....))).)))).....)))).)).))).)))....))))))...((.((.((((((((((.....)))))))))).)).)) (-26.90) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAAGUAAAUAAUAACAAACUGCUAUUACUUGCUGCAAAUAUACGUUAAAUAUCUCAAUGAAGCUAAUUUAUUGAUAAAAAACUAACAACUUCAAAGCUACAACGACACAAAAGUUGAAUUUUAUUGAUUUACAUCAACACAUAUUA (((.(((((((((((................(((..........((((......((((((((.....))))))))........))))........))).....((((......))))....))))).)))))).))).......... (-17.31) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 243 128 86 211 168 pint:PI1832|5end_conserved_hypothetical_protein_1773161..1773391_POSITIVE 240 65 40 187 157 pint:PI0588|5end_hypothetical_protein_535016..535246_POSITIVE 235 89 41 98 47 pint:PI1599|5end_predicted_TPR-repeat-containing_protein_1527717..1527947_POSITIVE 229 70 37 143 111 pint:PI1483|5end_hypothetical_protein_1404310..1404540_POSITIVE 226 58 33 50 20 pint:PI0341|5end_conserved_hypothetical_protein_317038..317268_POSITIVE 225 127 81 77 18 pint:PI1844|5end_hypothetical_protein_1790092..1790322_POSITIVE 219 127 84 231 188 pint:PI1147|5end_conserved_hypothetical_protein_1073682..1073912_POSITIVE 218 130 81 191 148 pint:PI1364|5end_dipeptidyl_peptidase_IV_1281862..1282092_POSITIVE 214 79 33 93 47 pint:PI1327|5end_conserved_hypothetical_protein_1245563..1245793_POSITIVE 210 63 29 209 175 pint:PI1274|5end_possible_phosphoribosylanthranilate_isomerase_1192880..1193110_POSITIVE 209 62 31 171 136 pint:PI1603|5end_hypothetical_protein_1533779..1534009_POSITIVE 209 51 29 95 77 pint:PI0583|5end_hypothetical_protein_525948..526178_POSITIVE 207 86 41 215 179 pint:PI0529|5end_hypothetical_protein_483026..483256_POSITIVE 207 71 34 48 15 pint:PI0405|5end_hypothetical_protein_372534..372764_POSITIVE 206 117 80 45 15 pint:PI1872|5end_glycosyl_transferase,_group_2_family_protein_1817057..1817287_POSITIVE 206 65 31 133 89 pint:PI0113|5end_arginyl-tRNA_synthetase_108371..108601_POSITIVE 206 74 41 54 18 pint:PI0056|5end_conserved_hypothetical_protein;_possible_DNA_uptake_protein_54967..55197_POSITIVE 201 138 91 145 95 pint:PI1732|5end_hypothetical_protein_1651878..1652108_POSITIVE 199 66 34 228 184 pint:PI1985|5end_hypothetical_protein_1940291..1940521_POSITIVE 199 66 34 121 77 pint:PI1984|5end_MutT/nudix_family_protein_1940184..1940414_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 261 128 81 70 8 pint:PI0951|3end_hypothetical_protein_885448..885598_POSITIVE 258 77 31 125 75 pint:PI0615|3end_hydrolase,_haloacid_dehalogenase-like_family_565386..565536_POSITIVE 250 75 33 124 74 pint:PI1880|3end_phosphoenolpyruvate_carboxykinase_(ATP)_1823300..1823450_POSITIVE 243 128 86 137 94 pint:PI1831|3end_conserved_hypothetical_protein_1773167..1773317_POSITIVE 242 75 35 146 105 pint:PI1586|3end_possible_HesA/MoeB/ThiF_family_protein_1515183..1515333_POSITIVE 228 138 93 100 46 pint:PI1819|3end_hypothetical_protein_1759879..1760029_POSITIVE 224 74 33 141 94 pint:PI0563|3end_possible_integral_membrane_protein_511179..511329_POSITIVE 218 130 81 62 19 pint:PI1362|3end_60Kd_inner_membrane_protein_1281813..1281963_POSITIVE 216 77 31 140 96 pint:PI0618|3end_acyl-CoA_dehydrogenase_family_protein_569213..569363_POSITIVE 214 79 33 58 12 pint:PI1326|3end_Na+-driven_multidrug_efflux_pump_1245608..1245758_POSITIVE 214 57 19 124 90 pint:PI0620|3end_hypothetical_protein_570630..570780_POSITIVE 211 131 91 117 76 pint:PI1933|3end_hypothetical_protein_1880463..1880613_POSITIVE 209 62 31 131 96 pint:PI1602|3end_conserved_hypothetical_protein;_possible_internalin-related_protein_1533819..1533969_POSITIVE 206 117 80 41 11 pint:PI1871|3end_glycosyl_transferase,_group_1_family_protein_1817133..1817283_POSITIVE 206 52 17 82 42 pint:PI0233|3end_membrane_protein,_possible_exporter_233771..233921_POSITIVE 206 74 41 51 15 pint:PI0055|3end_hypothetical_protein_55044..55194_POSITIVE 206 74 41 131 95 pint:PI0053|3end_hypothetical_protein_55124..55274_POSITIVE 203 123 84 149 101 pint:PI0159|3end_hypothetical_protein_152120..152270_POSITIVE 202 76 34 102 60 pint:PI1713|3end_ABC_transporter,_ATP-binding_protein_1630192..1630342_POSITIVE 201 138 91 53 3 pint:PI1731|3end_formate--tetrahydrofolate_ligase_1651866..1652016_POSITIVE