Origin IGS: ctttatcgcgctaataaatgttaattatacgatattttctattgtataacagtatagtacgaataattagtaataataacccctttatataaacagacaaatggcttagtttttctgaataaaaagaacttttactcactcacgtagctgcttctacgtaccttattatataggtgaaaataaagcgatacaagtgtaaatatttttcacaagcgcaactattgcgtaacta .........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 tagttacgcaatagttgcgcttgtgaaaaatatttacacttgtatcgctttattttcacctatataataaggtacgtagaagcagctacgtgagtgagtaaaagttctttttattcagaaaaactaagccatttgtctgtttatataaaggggttattattactaattattcgtactatactgttatacaatagaaaatatcgtataattaacatttattagcgcgataaag Mask Tandem Repeat Region ================================================ ctttatcgcgctaataaatgttaattatacgatattttctattgtataacagtatagtacgaataattagtaataataacccctttatataaacagacaaatggcttagtttttctgaataaaaagaacttttactcactcacgtagctgcttctacgtaccttattatataggtgaaaataaagcgatacaagtgtaaatatttttcacaagcgcaactattgcgtaacta Find is-nt database================================================ Query_seq: PI0181:PI0182|PI0181:PI0182:conserved hypothetical protein:hypothetical protein:->->:174001..174232 232 ctttatcgcgctaataaatgttaattatacgatattttctattgtataacagtatagtacgaataattagtaataataacccctttatataaacagacaaatggcttagtttttctgaataaaaagaacttttactcactcacgtagctgcttctacgtaccttattatataggtgaaaataaagcgatacaagtgtaaatatttttcacaagcgcaactattgcgtaacta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0181:PI0182|PI0181:PI0182:conserved hypothetical protein:hypothetical protein:->->:174001..174232 232 ctttatcgcgctaataaatgttaattatacgatattttctattgtataacagtatagtacgaataattagtaataataacccctttatataaacagacaaatggcttagtttttctgaataaaaagaacttttactcactcacgtagctgcttctacgtaccttattatataggtgaaaataaagcgatacaagtgtaaatatttttcacaagcgcaactattgcgtaacta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0181:PI0182|PI0181:PI0182:conserved hypothetical protein:hypothetical protein:->->:174001..174232 232 ctttatcgcgctaataaatgttaattatacgatattttctattgtataacagtatagtacgaataattagtaataataacccctttatataaacagacaaatggcttagtttttctgaataaaaagaacttttactcactcacgtagctgcttctacgtaccttattatataggtgaaaataaagcgatacaagtgtaaatatttttcacaagcgcaactattgcgtaacta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ctttatcgcgctaataaatgttaattatacgatattttctattgtataacagtatagtacgaataattagtaataataacccctttatataaacagacaaatggcttagtttttctgaataaaaagaacttttactcactcacgtagctgcttctacgtaccttattatataggtgaaaataaagcgatacaagtgtaaatatttttcacaagcgcaactattgcgtaacta Predict ORF larger than 30AA ================================================ Protein_Len: 42 Strand: - Start: 14 End: 139 ............. Y I N I I R Y K R N Y L L I T R I I L L L L G K I Y V S L H S L K E S Y F S S K S M ............................................................................................. ctttatcgcgctaataaatgttaattatacgatattttctattgtataacagtatagtacgaataattagtaataataacccctttatataaacagacaaatggcttagtttttctgaataaaaagaacttttactcactcacgtagctgcttctacgtaccttattatataggtgaaaataaagcgatacaagtgtaaatatttttcacaagcgcaactattgcgtaacta Predict Promoter with matrix: RpoD-15 score > 80================================================ Predict Promoter with matrix: RpoD-16 score > 80================================================ Predict Promoter with matrix: RpoD-17 score > 80================================================ PromScan Matrix: RpoD-17 Strand: - Score: 81 Start: 165 End: 194 ....................................................................................................................................................................CTTGTATCGCTTTATTTTCACCTATATAAT...................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ ctttatcgcgctaataaatgttaattatacgatattttctattgtataacagtatagtacgaataattagtaataataacccctttatataaacagacaaatggcttagtttttctgaataaaaagaacttttactcactcacgtagctgcttctacgtaccttattatataggtgaaaataaagcgatacaagtgtaaatatttttcacaagcgcaactattgcgtaacta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI0181:PI0182|PI0181:PI0182:conserved hypothetical protein:hypothetical protein:->->:174001..174232 232 ctttatcgcgctaataaatgttaattatacgatattttctattgtataacagtatagtacgaataattagtaataataacccctttatataaacagacaaatggcttagtttttctgaataaaaagaacttttactcactcacgtagctgcttctacgtaccttattatataggtgaaaataaagcgatacaagtgtaaatatttttcacaagcgcaactattgcgtaacta Intra-Species Hit: Count: 1 Min: 1 Max: 232 Len: 232 Subject: pint_PI0181_PI0182|conserved hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[174001,174232]|232 HSP 1 e-value: 1.0E-128 bit: 460.0 Len: 232 Query Start:1 Query End:232 Subject Strand: POSITIVE Subject Start: 1 Subject End: 232 ctttatcgcgctaataaatgttaattatacgatattttctattgtataacagtatagtacgaataattagtaataataacccctttatataaacagacaaatggcttagtttttctgaataaaaagaacttttactcactcacgtagctgcttctacgtaccttattatataggtgaaaataaagcgatacaagtgtaaatatttttcacaagcgcaactattgcgtaacta ctttatcgcgctaataaatgttaattatacgatattttctattgtataacagtatagtacgaataattagtaataataacccctttatataaacagacaaatggcttagtttttctgaataaaaagaacttttactcactcacgtagctgcttctacgtaccttattatataggtgaaaataaagcgatacaagtgtaaatatttttcacaagcgcaactattgcgtaacta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CUUUAUCGCGCUAAUAAAUGUUAAUUAUACGAUAUUUUCUAUUGUAUAACAGUAUAGUACGAAUAAUUAGUAAUAAUAACCCCUUUAUAUAAACAGACAAAUGGCUUAGUUUUUCUGAAUAAAAAGAACUUUUACUCACUCACGUAGCUGCUUCUACGUACCUUAUUAUAUAGGUGAAAAUAAAGCGAUACAAGUGUAAAUAUUUUUCACAAGCGCAACUAUUGCGUAACUA ...((((((...........((((((((.((.((((...(((((.....))))).)))))).))))))))........(((....(((((((.((((.((((......)))).))))........................((((((......))))))......)))))))))).........))))))...(((.(((....))))))..(((((.....)))))..... (-39.90) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGUUACGCAAUAGUUGCGCUUGUGAAAAAUAUUUACACUUGUAUCGCUUUAUUUUCACCUAUAUAAUAAGGUACGUAGAAGCAGCUACGUGAGUGAGUAAAAGUUCUUUUUAUUCAGAAAAACUAAGCCAUUUGUCUGUUUAUAUAAAGGGGUUAUUAUUACUAAUUAUUCGUACUAUACUGUUAUACAAUAGAAAAUAUCGUAUAAUUAACAUUUAUUAGCGCGAUAAAG .............((((((((.(((((...(((((((.........((((((((...........))))))))((((((......))))))..))))))).((.((((((.(((.((((.(((........))).))))...))).)))))).))........(((((((.((.......(((((....))))).......)).)))))))...))))).)))))))).... (-43.54) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 447 210 161 91 43 pint:PI0024|5end_hypothetical_protein_28378..28608_POSITIVE 445 230 182 180 128 pint:PI1272|5end_possible_transcriptional_regulator_1191702..1191932_POSITIVE 439 229 184 215 169 pint:PI1253|5end_hypothetical_protein_1175516..1175746_POSITIVE 420 216 171 122 74 pint:PI0561|5end_hypothetical_protein_508952..509182_POSITIVE 415 210 163 105 58 pint:PI0653|5end_hypothetical_protein_596046..596276_POSITIVE 381 224 183 231 190 pint:PI1065|5end_hypothetical_protein_983382..983612_POSITIVE 368 228 182 230 185 pint:PI1456|5end_conserved_hypothetical_protein_1378864..1379094_POSITIVE 361 230 185 188 143 pint:PI2057|5end_conserved_hypothetical_protein;_possible_metal-dependent_membrane_protease_2014939..2015169_POSITIVE 359 230 185 176 131 pint:PI0090|5end_amidophosphoribosyltransferase_88379..88609_POSITIVE 352 217 173 230 185 pint:PI0682|5end_hypothetical_protein_618972..619202_POSITIVE 349 214 171 135 92 pint:PI2024|5end_hypothetical_protein_1978804..1979034_POSITIVE 346 214 173 226 183 pint:PI1206|5end_ATP-dependent_DNA_helicase,_UvrD/PcrA/Rep_family_1124698..1124928_POSITIVE 337 230 183 105 57 pint:PI1437|5end_hypothetical_protein_1356088..1356318_POSITIVE 334 230 183 77 19 pint:PI1295|5end_hypothetical_protein_1208636..1208866_POSITIVE 334 230 192 175 137 pint:PI0096|5end_glycerol-3-phosphate_cytidylyltransferase_91885..92115_POSITIVE 330 230 185 105 60 pint:PI0991|5end_conserved_hypothetical_protein_915309..915539_POSITIVE 324 214 173 122 76 pint:PI1333|5end_conserved_hypothetical_protein_1250777..1251007_POSITIVE 320 213 173 53 13 pint:PI1804|5end_hypothetical_protein_1738109..1738339_POSITIVE 314 180 134 217 169 pint:PI0953|5end_hypothetical_protein_885119..885349_POSITIVE 309 230 182 199 147 pint:PI0660|5end_conserved_hypothetical_protein_603438..603668_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 511 230 183 99 52 pint:PI1064|3end_hypothetical_protein_983324..983474_POSITIVE 439 229 184 59 13 pint:PI1252|3end_hypothetical_protein_1175440..1175590_POSITIVE 385 230 182 99 51 pint:PI1204|3end_hypothetical_protein_1124635..1124785_POSITIVE 359 230 185 72 27 pint:PI0089|3end_hypothetical_protein_88355..88505_POSITIVE 355 230 185 72 27 pint:PI0866|3end_hypothetical_protein_803993..804143_POSITIVE 349 214 171 83 40 pint:PI2023|3end_hypothetical_protein_1978832..1978982_POSITIVE 348 230 184 133 80 pint:PI1786|3end_hypothetical_protein_1718380..1718530_POSITIVE 334 230 183 77 19 pint:PI1294|3end_hypothetical_protein_1208716..1208866_POSITIVE 334 230 192 60 22 pint:PI0095|3end_hypothetical_protein_91850..92000_POSITIVE 333 230 185 72 27 pint:PI0118|3end_hypothetical_protein_111640..111790_POSITIVE 327 230 185 85 39 pint:PI1072|3end_hypothetical_protein_990503..990653_POSITIVE 309 230 182 77 25 pint:PI0659|3end_hypothetical_protein_603396..603546_POSITIVE 301 215 171 132 88 pint:PI1371|3end_hypothetical_protein_1292546..1292696_POSITIVE 294 220 171 50 1 pint:PI0081|3end_hypothetical_protein_80700..80850_POSITIVE 291 210 163 151 103 pint:PI1804|3end_hypothetical_protein_1738290..1738440_POSITIVE 291 214 172 144 102 pint:PI0037|3end_hypothetical_protein_39616..39766_POSITIVE 289 230 185 72 27 pint:PI0820|3end_hypothetical_protein_759980..760130_POSITIVE 284 224 185 149 110 pint:PI0119|3end_hypothetical_protein_111723..111873_POSITIVE 274 230 195 99 64 pint:PI1308|3end_hypothetical_protein_1223717..1223867_POSITIVE 273 229 182 71 20 pint:PI1041|3end_hypothetical_protein_960675..960825_POSITIVE