Origin IGS: gattatttaatttataagattttaaagtacaaaggacgagaaaaaatctgatatattcaaataaatatttgtaaaaaccacatcttttctataaagagtctgtaatattgttaatttaacacaaaagtcttaagaggaattaagtttttccgaatttacttgtacctttacgattcaataacgccttgatacgatagtgtgtgaatgctttccgtatataaggatttatagatgaaatccagaaaatcacagaatagagaattggaaaatctgcaattattataatttaaacattaacttagatatcaatcatt .........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 aatgattgatatctaagttaatgtttaaattataataattgcagattttccaattctctattctgtgattttctggatttcatctataaatccttatatacggaaagcattcacacactatcgtatcaaggcgttattgaatcgtaaaggtacaagtaaattcggaaaaacttaattcctcttaagacttttgtgttaaattaacaatattacagactctttatagaaaagatgtggtttttacaaatatttatttgaatatatcagattttttctcgtcctttgtactttaaaatcttataaattaaataatc Mask Tandem Repeat Region ================================================ gattatttaatttataagattttaaagtacaaaggacgagaaaaaatctgatatattcaaataaatatttgtaaaaaccacatcttttctataaagagtctgtaatattgttaatttaacacaaaagtcttaagaggaattaagtttttccgaatttacttgtacctttacgattcaataacgccttgatacgatagtgtgtgaatgctttccgtatataaggatttatagatgaaatccagaaaatcacagaatagagaattggaaaatctgcaattattataatttaaacattaacttagatatcaatcatt Find is-nt database================================================ Query_seq: PI0078:PI0079|PI0078:PI0079:hypothetical protein:hypothetical protein:->->:78391..78704 314 gattatttaatttataagattttaaagtacaaaggacgagaaaaaatctgatatattcaaataaatatttgtaaaaaccacatcttttctataaagagtctgtaatattgttaatttaacacaaaagtcttaagaggaattaagtttttccgaatttacttgtacctttacgattcaataacgccttgatacgatagtgtgtgaatgctttccgtatataaggatttatagatgaaatccagaaaatcacagaatagagaattggaaaatctgcaattattataatttaaacattaacttagatatcaatcatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0078:PI0079|PI0078:PI0079:hypothetical protein:hypothetical protein:->->:78391..78704 314 gattatttaatttataagattttaaagtacaaaggacgagaaaaaatctgatatattcaaataaatatttgtaaaaaccacatcttttctataaagagtctgtaatattgttaatttaacacaaaagtcttaagaggaattaagtttttccgaatttacttgtacctttacgattcaataacgccttgatacgatagtgtgtgaatgctttccgtatataaggatttatagatgaaatccagaaaatcacagaatagagaattggaaaatctgcaattattataatttaaacattaacttagatatcaatcatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0078:PI0079|PI0078:PI0079:hypothetical protein:hypothetical protein:->->:78391..78704 314 gattatttaatttataagattttaaagtacaaaggacgagaaaaaatctgatatattcaaataaatatttgtaaaaaccacatcttttctataaagagtctgtaatattgttaatttaacacaaaagtcttaagaggaattaagtttttccgaatttacttgtacctttacgattcaataacgccttgatacgatagtgtgtgaatgctttccgtatataaggatttatagatgaaatccagaaaatcacagaatagagaattggaaaatctgcaattattataatttaaacattaacttagatatcaatcatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gattatttaatttataagattttaaagtacaaaggacgagaaaaaatctgatatattcaaataaatatttgtaaaaaccacatcttttctataaagagtctgtaatattgttaatttaacacaaaagtcttaagaggaattaagtttttccgaatttacttgtacctttacgattcaataacgccttgatacgatagtgtgtgaatgctttccgtatataaggatttatagatgaaatccagaaaatcacagaatagagaattggaaaatctgcaattattataatttaaacattaacttagatatcaatcatt Predict ORF larger than 30AA ================================================ Protein_Len: 48 Strand: - Start: 143 End: 286 .............................................................................................................................................. T K G F K S T G K R N L L A K I R Y H T F A K R I Y P N I S S I W F I V S Y L I P F D A I I I M ............................ gattatttaatttataagattttaaagtacaaaggacgagaaaaaatctgatatattcaaataaatatttgtaaaaaccacatcttttctataaagagtctgtaatattgttaatttaacacaaaagtcttaagaggaattaagtttttccgaatttacttgtacctttacgattcaataacgccttgatacgatagtgtgtgaatgctttccgtatataaggatttatagatgaaatccagaaaatcacagaatagagaattggaaaatctgcaattattataatttaaacattaacttagatatcaatcatt 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================================================ gattatttaatttataagattttaaagtacaaaggacgagaaaaaatctgatatattcaaataaatatttgtaaaaaccacatcttttctataaagagtctgtaatattgttaatttaacacaaaagtcttaagaggaattaagtttttccgaatttacttgtacctttacgattcaataacgccttgatacgatagtgtgtgaatgctttccgtatataaggatttatagatgaaatccagaaaatcacagaatagagaattggaaaatctgcaattattataatttaaacattaacttagatatcaatcatt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI0078:PI0079|PI0078:PI0079:hypothetical protein:hypothetical protein:->->:78391..78704 314 gattatttaatttataagattttaaagtacaaaggacgagaaaaaatctgatatattcaaataaatatttgtaaaaaccacatcttttctataaagagtctgtaatattgttaatttaacacaaaagtcttaagaggaattaagtttttccgaatttacttgtacctttacgattcaataacgccttgatacgatagtgtgtgaatgctttccgtatataaggatttatagatgaaatccagaaaatcacagaatagagaattggaaaatctgcaattattataatttaaacattaacttagatatcaatcatt Intra-Species Hit: Count: 1 Min: 1 Max: 314 Len: 314 Subject: pint_PI0078_PI0079|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[78391,78704]|314 HSP 1 e-value: 1.0E-177 bit: 622.0 Len: 314 Query Start:1 Query End:314 Subject Strand: POSITIVE Subject Start: 1 Subject End: 314 gattatttaatttataagattttaaagtacaaaggacgagaaaaaatctgatatattcaaataaatatttgtaaaaaccacatcttttctataaagagtctgtaatattgttaatttaacacaaaagtcttaagaggaattaagtttttccgaatttacttgtacctttacgattcaataacgccttgatacgatagtgtgtgaatgctttccgtatataaggatttatagatgaaatccagaaaatcacagaatagagaattggaaaatctgcaattattataatttaaacattaacttagatatcaatcatt gattatttaatttataagattttaaagtacaaaggacgagaaaaaatctgatatattcaaataaatatttgtaaaaaccacatcttttctataaagagtctgtaatattgttaatttaacacaaaagtcttaagaggaattaagtttttccgaatttacttgtacctttacgattcaataacgccttgatacgatagtgtgtgaatgctttccgtatataaggatttatagatgaaatccagaaaatcacagaatagagaattggaaaatctgcaattattataatttaaacattaacttagatatcaatcatt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GAUUAUUUAAUUUAUAAGAUUUUAAAGUACAAAGGACGAGAAAAAAUCUGAUAUAUUCAAAUAAAUAUUUGUAAAAACCACAUCUUUUCUAUAAAGAGUCUGUAAUAUUGUUAAUUUAACACAAAAGUCUUAAGAGGAAUUAAGUUUUUCCGAAUUUACUUGUACCUUUACGAUUCAAUAACGCCUUGAUACGAUAGUGUGUGAAUGCUUUCCGUAUAUAAGGAUUUAUAGAUGAAAUCCAGAAAAUCACAGAAUAGAGAAUUGGAAAAUCUGCAAUUAUUAUAAUUUAAACAUUAACUUAGAUAUCAAUCAUU (((.((((((.(((..(((((((...((.......)).....)))))))..............((((.(((((.........((...(((((((.(((((.((((...(((((...)))))...((((.......((((........))))......))))......))))))))).......((((((((((..(((((....)))))...))))).)))))..))))))).))..(((((....((........))...))))).....))))).)))).............))).)))))))))....... (-47.02) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAUGAUUGAUAUCUAAGUUAAUGUUUAAAUUAUAAUAAUUGCAGAUUUUCCAAUUCUCUAUUCUGUGAUUUUCUGGAUUUCAUCUAUAAAUCCUUAUAUACGGAAAGCAUUCACACACUAUCGUAUCAAGGCGUUAUUGAAUCGUAAAGGUACAAGUAAAUUCGGAAAAACUUAAUUCCUCUUAAGACUUUUGUGUUAAAUUAACAAUAUUACAGACUCUUUAUAGAAAAGAUGUGGUUUUUACAAAUAUUUAUUUGAAUAUAUCAGAUUUUUUCUCGUCCUUUGUACUUUAAAAUCUUAUAAAUUAAAUAAUC ...((((.........((.(((((((....((((..(((..((((................))))..)))....((((((.......))))))...))))....))))))).))........((((.((((((..........((((((((....((((....((((........))))..((((.((....)).))))..........))))..)).)))))).((((((((.((((.....(((((....))))).....)))).)))))))).)).)))).)))).....))))................. (-51.29) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 305 218 171 224 182 pint:PI0463|5end_50S_ribosomal_protein_L2_434158..434388_POSITIVE 278 213 171 126 88 pint:PI1931|5end_alpha_glycan_phosphorylase,_maltodextrin_phosphorylase_1875456..1875686_POSITIVE 273 226 182 86 29 pint:PI1943|5end_hypothetical_protein_1901296..1901526_POSITIVE 272 200 151 223 172 pint:PI0504|5end_hypothetical_protein_464459..464689_POSITIVE 266 227 181 215 176 pint:PI1951|5end_ABC_transporter,_ATP-binding_protein_1905823..1906053_POSITIVE 263 220 181 92 53 pint:PI1003|5end_conserved_hypothetical_protein_924694..924924_POSITIVE 261 240 192 71 27 pint:PI0733|5end_membrane_protein;_predicted_exporter_664389..664619_POSITIVE 260 229 181 163 111 pint:PI1172|5end_sensor_histidine_kinase_1091850..1092080_POSITIVE 259 278 239 155 105 pint:PI0275|5end_hypothetical_protein_263138..263368_POSITIVE 257 236 193 112 60 pint:PI1352|5end_conserved_hypothetical_protein_1268400..1268630_POSITIVE 249 37 12 230 205 pint:PI2141|5end_hypothetical_protein_2087169..2087399_POSITIVE 248 215 182 47 8 pint:PI1937|5end_hypothetical_protein_1889411..1889641_POSITIVE 247 175 133 58 16 pint:PI0389|5end_integrase_356107..356337_POSITIVE 238 214 172 141 93 pint:PI0198|5end_hypothetical_protein_190719..190949_POSITIVE 237 226 182 67 26 pint:PI0194|5end_2-amino-3-ketobutyrate_coenzyme_A_ligase_(glycine_C-acetyltransferase)_185804..186034_POSITIVE 236 169 121 206 157 pint:PI1436|5end_hypothetical_protein_1355961..1356191_POSITIVE 236 210 161 193 142 pint:PI0010|5end_conserved_hypothetical_protein_10628..10858_POSITIVE 235 214 171 161 101 pint:PI1646|5end_hypothetical_protein_1561954..1562184_POSITIVE 235 214 181 219 179 pint:PI1495|5end_conserved_hypothetical_protein_1414432..1414662_POSITIVE 234 205 171 166 134 pint:PI0108|5end_L-lactate_permease_104892..105122_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 277 223 181 49 17 pint:PI0363|3end_hypothetical_protein_333760..333910_POSITIVE 267 189 150 57 14 pint:PI1499|3end_hypothetical_protein_1420180..1420330_POSITIVE 260 229 181 69 17 pint:PI1171|3end_hypothetical_protein_1091836..1091986_POSITIVE 259 278 239 124 74 pint:PI0274|3end_conserved_hypothetical_protein_263187..263337_POSITIVE 257 236 193 118 66 pint:PI1351|3end_conserved_hypothetical_protein_1268486..1268636_POSITIVE 249 37 12 148 123 pint:PI2140|3end_conserved_hypothetical_protein_2087167..2087317_POSITIVE 248 215 182 44 5 pint:PI1936|3end_conserved_hypothetical_protein;_possible_serine-type_protease_1889488..1889638_POSITIVE 243 215 171 121 81 pint:PI0675|3end_hypothetical_protein_613957..614107_POSITIVE 241 228 191 119 76 pint:PI0133|3end_hypothetical_protein_124632..124782_POSITIVE 229 212 171 150 96 pint:PI1643|3end_conserved_hypothetical_protein_1562029..1562179_POSITIVE 224 198 151 144 99 pint:PI2154|3end_leucyl-tRNA_synthetase_2102829..2102979_POSITIVE 224 224 181 146 114 pint:PI1715|3end_conserved_hypothetical_protein;_possible_DNA-binding_protein,_histone-like_family_1632324..1632474_POSITIVE 220 188 149 138 93 pint:PI0009|3end_NAD-dependent_epimerase/dehydratase_family_protein_10674..10824_POSITIVE 218 237 191 96 52 pint:PI1952|3end_hypothetical_protein_1907039..1907189_POSITIVE 218 208 171 47 8 pint:PI0120|3end_glutamate_racemase_112697..112847_POSITIVE 216 209 165 110 64 pint:PI1835|3end_L-asparaginase_I_1777276..1777426_POSITIVE 216 208 182 150 126 pint:PI1527|3end_immunoreactive_46_kDa_antigen_PG99_1449520..1449670_POSITIVE 215 220 184 149 117 pint:PI0869|3end_possible_exodeoxyribonuclease_VII_(small_subunit)_805774..805924_POSITIVE 214 210 167 135 87 pint:PI0412|3end_primosomal_protein_N',_replication_factor_Y_382152..382302_POSITIVE 213 225 191 68 37 pint:PI0532|3end_ABC_transporter,_ATP-binding/permease_protein_487329..487479_POSITIVE