Origin IGS: tagttatgtttgcgaaaaatatctacactattatagtttgtttttcaaggtatcttcatagttctgtatctattttaataaaagattaatgtgattttgtttatcatttgaagaattgttgttggatttgtatttggataaaaagaaatacgcctaaatagttatacgacactacaacctaatgtttttaatatagaggtacacaatgatggattccctttttcgacttgcctgcaacacagttgcgctgtttgggacactgtaaagaaagcagaagaaaaagctatttttttacttaatttataaaataaaagccttatctttgcagtacaagtaacaaaaaactaaaaata .........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 tatttttagttttttgttacttgtactgcaaagataaggcttttattttataaattaagtaaaaaaatagctttttcttctgctttctttacagtgtcccaaacagcgcaactgtgttgcaggcaagtcgaaaaagggaatccatcattgtgtacctctatattaaaaacattaggttgtagtgtcgtataactatttaggcgtatttctttttatccaaatacaaatccaacaacaattcttcaaatgataaacaaaatcacattaatcttttattaaaatagatacagaactatgaagataccttgaaaaacaaactataatagtgtagatatttttcgcaaacataacta Mask Tandem Repeat Region ================================================ tagttatgtttgcgaaaaatatctacactattatagtttgtttttcaaggtatcttcatagttctgtatctattttaataaaagattaatgtgattttgtttatcatttgaagaattgttgttggatttgtatttggataaaaagaaatacgcctaaatagttatacgacactacaacctaatgtttttaatatagaggtacacaatgatggattccctttttcgacttgcctgcaacacagttgcgctgtttgggacactgtaaagaaagcagaagaaaaagctatttttttacttaatttataaaataaaagccttatctttgcagtacaagtaacaaaaaactaaaaata Find is-nt database================================================ Query_seq: PI0069:PI0070|PI0069:PI0070:hypothetical protein:conserved hypothetical protein:->->:67440..67792 353 tagttatgtttgcgaaaaatatctacactattatagtttgtttttcaaggtatcttcatagttctgtatctattttaataaaagattaatgtgattttgtttatcatttgaagaattgttgttggatttgtatttggataaaaagaaatacgcctaaatagttatacgacactacaacctaatgtttttaatatagaggtacacaatgatggattccctttttcgacttgcctgcaacacagttgcgctgtttgggacactgtaaagaaagcagaagaaaaagctatttttttacttaatttataaaataaaagccttatctttgcagtacaagtaacaaaaaactaaaaata Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0069:PI0070|PI0069:PI0070:hypothetical protein:conserved hypothetical protein:->->:67440..67792 353 tagttatgtttgcgaaaaatatctacactattatagtttgtttttcaaggtatcttcatagttctgtatctattttaataaaagattaatgtgattttgtttatcatttgaagaattgttgttggatttgtatttggataaaaagaaatacgcctaaatagttatacgacactacaacctaatgtttttaatatagaggtacacaatgatggattccctttttcgacttgcctgcaacacagttgcgctgtttgggacactgtaaagaaagcagaagaaaaagctatttttttacttaatttataaaataaaagccttatctttgcagtacaagtaacaaaaaactaaaaata Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0069:PI0070|PI0069:PI0070:hypothetical protein:conserved hypothetical protein:->->:67440..67792 353 tagttatgtttgcgaaaaatatctacactattatagtttgtttttcaaggtatcttcatagttctgtatctattttaataaaagattaatgtgattttgtttatcatttgaagaattgttgttggatttgtatttggataaaaagaaatacgcctaaatagttatacgacactacaacctaatgtttttaatatagaggtacacaatgatggattccctttttcgacttgcctgcaacacagttgcgctgtttgggacactgtaaagaaagcagaagaaaaagctatttttttacttaatttataaaataaaagccttatctttgcagtacaagtaacaaaaaactaaaaata Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tagttatgtttgcgaaaaatatctacactattatagtttgtttttcaaggtatcttcatagttctgtatctattttaataaaagattaatgtgattttgtttatcatttgaagaattgttgttggatttgtatttggataaaaagaaatacgcctaaatagttatacgacactacaacctaatgtttttaatatagaggtacacaatgatggattccctttttcgacttgcctgcaacacagttgcgctgtttgggacactgtaaagaaagcagaagaaaaagctatttttttacttaatttataaaataaaagccttatctttgcagtacaagtaacaaaaaactaaaaata Predict ORF larger than 30AA ================================================ Protein_Len: 52 Strand: + Start: 148 End: 303 ................................................................................................................................................... M R L N S Y T T L Q P N V F N I E V H N D G F P F S T C L Q H S C A V W D T V K K A E E K A I F L L N L .................................................. Protein_Len: 52 Strand: - Start: 165 End: 320 .................................................................................................................................................................... V V S C G L T K L I S T C L S P N G K E V Q R C C L Q A T Q S V T F F A S S F A I K K S L K Y F L L R M ................................. tagttatgtttgcgaaaaatatctacactattatagtttgtttttcaaggtatcttcatagttctgtatctattttaataaaagattaatgtgattttgtttatcatttgaagaattgttgttggatttgtatttggataaaaagaaatacgcctaaatagttatacgacactacaacctaatgtttttaatatagaggtacacaatgatggattccctttttcgacttgcctgcaacacagttgcgctgtttgggacactgtaaagaaagcagaagaaaaagctatttttttacttaatttataaaataaaagccttatctttgcagtacaagtaacaaaaaactaaaaata 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================================================ tagttatgtttgcgaaaaatatctacactattatagtttgtttttcaaggtatcttcatagttctgtatctattttaataaaagattaatgtgattttgtttatcatttgaagaattgttgttggatttgtatttggataaaaagaaatacgcctaaatagttatacgacactacaacctaatgtttttaatatagaggtacacaatgatggattccctttttcgacttgcctgcaacacagttgcgctgtttgggacactgtaaagaaagcagaagaaaaagctatttttttacttaatttataaaataaaagccttatctttgcagtacaagtaacaaaaaactaaaaata Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI0069:PI0070|PI0069:PI0070:hypothetical protein:conserved hypothetical protein:->->:67440..67792 353 tagttatgtttgcgaaaaatatctacactattatagtttgtttttcaaggtatcttcatagttctgtatctattttaataaaagattaatgtgattttgtttatcatttgaagaattgttgttggatttgtatttggataaaaagaaatacgcctaaatagttatacgacactacaacctaatgtttttaatatagaggtacacaatgatggattccctttttcgacttgcctgcaacacagttgcgctgtttgggacactgtaaagaaagcagaagaaaaagctatttttttacttaatttataaaataaaagccttatctttgcagtacaagtaacaaaaaactaaaaata Intra-Species Hit: Count: 1 Min: 1 Max: 338 Len: 338 Subject: pint_PI0069_PI0070|hypothetical protein:conserved hypothetical protein|POSITIVE:POSITIVE|[67440,67792]|353 HSP 1 e-value: 1.0E-179 bit: 628.0 Len: 338 Query Start:1 Query End:338 Subject Strand: POSITIVE Subject Start: 1 Subject End: 338 tagttatgtttgcgaaaaatatctacactattatagtttgtttttcaaggtatcttcatagttctgtatctattttaataaaagattaatgtgattttgtttatcatttgaagaattgttgttggatttgtatttggataaaaagaaatacgcctaaatagttatacgacactacaacctaatgtttttaatatagaggtacacaatgatggattccctttttcgacttgcctgcaacacagttgcgctgtttgggacactgtaaagaaagcagaagaaaaagctannnnnnnacttaatttataaaataaaagccttatctttgcagtacaagtaac............... tagttatgtttgcgaaaaatatctacactattatagtttgtttttcaaggtatcttcatagttctgtatctattttaataaaagattaatgtgattttgtttatcatttgaagaattgttgttggatttgtatttggataaaaagaaatacgcctaaatagttatacgacactacaacctaatgtttttaatatagaggtacacaatgatggattccctttttcgacttgcctgcaacacagttgcgctgtttgggacactgtaaagaaagcagaagaaaaagctatttttttacttaatttataaaataaaagccttatctttgcagtacaagtaac............... Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGUUAUGUUUGCGAAAAAUAUCUACACUAUUAUAGUUUGUUUUUCAAGGUAUCUUCAUAGUUCUGUAUCUAUUUUAAUAAAAGAUUAAUGUGAUUUUGUUUAUCAUUUGAAGAAUUGUUGUUGGAUUUGUAUUUGGAUAAAAAGAAAUACGCCUAAAUAGUUAUACGACACUACAACCUAAUGUUUUUAAUAUAGAGGUACACAAUGAUGGAUUCCCUUUUUCGACUUGCCUGCAACACAGUUGCGCUGUUUGGGACACUGUAAAGAAAGCAGAAGAAAAAGCUAUUUUUUUACUUAAUUUAUAAAAUAAAAGCCUUAUCUUUGCAGUACAAGUAAC ..(((((......((((((((.(((........)))..))))))))........(((((.(((.(((((((........((((.((((..(((((.......)))))........(((((((((......(((((((................)))))))......)))))..))))..)))).))))........))))))).))).))))).((((......(((..((..(((((...))))))).))).)))).((((((((((((((...(((((((....)))))))......(((((...))))).).))).))))))))))....))))) (-55.98) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GUUACUUGUACUGCAAAGAUAAGGCUUUUAUUUUAUAAAUUAAGUAAAAAAAUAGCUUUUUCUUCUGCUUUCUUUACAGUGUCCCAAACAGCGCAACUGUGUUGCAGGCAAGUCGAAAAAGGGAAUCCAUCAUUGUGUACCUCUAUAUUAAAAACAUUAGGUUGUAGUGUCGUAUAACUAUUUAGGCGUAUUUCUUUUUAUCCAAAUACAAAUCCAACAACAAUUCUUCAAAUGAUAAACAAAAUCACAUUAAUCUUUUAUUAAAAUAGAUACAGAACUAUGAAGAUACCUUGAAAAACAAACUAUAAUAGUGUAGAUAUUUUUCGCAAACAUAACUA ((((...((((.(((((((.((((((.((.((((((.......)))))).)).)))))).)))).))).......((((((((((...((((((....))))))..((....))......))))......)))))))))).(((((((((.........(((((((......)))))))...(((..((((((..........))))))........(((....((((((..((((.......)))).....((((.((.....)).)))).........))))))....))).........)))...)))))))))...............)))).. (-57.00) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 408 46 1 148 103 pint:PI0004|5end_hypothetical_protein_6199..6429_POSITIVE 336 254 217 208 161 pint:PI1811|5end_conserved_hypothetical_protein_1749518..1749748_POSITIVE 336 266 221 207 150 pint:PI0845|5end_peptidyl-dipeptidase_778272..778502_POSITIVE 335 260 212 197 143 pint:PI0251|5end_hypothetical_protein_247551..247781_POSITIVE 328 264 226 227 193 pint:PI0092|5end_regulatory_protein_RecX_89080..89310_POSITIVE 327 46 1 107 62 pint:PI0928|5end_hypothetical_protein_859851..860081_POSITIVE 323 257 212 62 16 pint:PI0529|5end_hypothetical_protein_483026..483256_POSITIVE 306 255 212 141 96 pint:PI1185|5end_hypothetical_protein_1106076..1106306_POSITIVE 302 277 234 184 143 pint:PI1806|5end_integral_membrane_transport_protein;_possible_sugar_transport_proteins_1740777..1741007_POSITIVE 294 278 232 79 36 pint:PI1069|5end_hypothetical_protein_988067..988297_POSITIVE 294 257 213 225 154 pint:PI1005|5end_hypothetical_protein_926201..926431_POSITIVE 293 271 233 75 38 pint:PI1643|5end_conserved_hypothetical_protein_1560936..1561166_POSITIVE 291 264 224 45 4 pint:PI2017|5end_conserved_hypothetical_protein_1974862..1975092_POSITIVE 289 262 227 99 50 pint:PI1769|5end_hypothetical_protein_1696507..1696737_POSITIVE 284 267 227 60 17 pint:PI0241|5end_possible_tetracycline_resistance_element_/mobilization_regulatory_protein_239627..239857_POSITIVE 280 45 1 163 119 pint:PI1129|5end_hypothetical_protein_1055377..1055607_POSITIVE 277 70 26 163 116 pint:PI2044|5end_hypothetical_protein_1996999..1997229_POSITIVE 276 269 227 197 148 pint:PI1340|5end_hypothetical_protein_1256568..1256798_POSITIVE 274 284 242 130 79 pint:PI0018|5end_hypothetical_protein_23022..23252_POSITIVE 271 256 211 227 184 pint:PI2123|5end_adenine_phosphoribosyltransferase_2071711..2071941_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 323 257 212 78 32 pint:PI0528|3end_hypothetical_protein_483122..483272_POSITIVE 317 257 213 82 41 pint:PI1869|3end_hypothetical_protein_1815426..1815576_POSITIVE 306 255 212 148 103 pint:PI1184|3end_conserved_hypothetical_protein_1106163..1106313_POSITIVE 293 271 233 89 52 pint:PI1644|3end_hypothetical_protein_1561030..1561180_POSITIVE 289 262 227 151 102 pint:PI1768|3end_conserved_hypothetical_protein_1696639..1696789_POSITIVE 289 256 218 151 112 pint:PI0844|3end_cytidine/deoxycytidylate_deaminase_(dCMP_deaminase)_778316..778466_POSITIVE 282 270 228 122 79 pint:PI1827|3end_peptidase,_M23/M37_family,_N-terminal_1768602..1768752_POSITIVE 276 269 227 143 94 pint:PI1338|3end_phosphoserine_phosphatase_1256594..1256744_POSITIVE 276 263 225 150 108 pint:PI0407|3end_tryptophanyl-tRNA_synthetase_(tryptophan--tRNA_ligase)_374147..374297_POSITIVE 271 279 232 85 31 pint:PI0072|3end_conserved_hypothetical_protein_70992..71142_POSITIVE 268 286 242 49 3 pint:PI1720|3end_conserved_hypothetical_protein_1637992..1638142_POSITIVE 266 273 233 70 26 pint:PI1721|3end_peptidyl-prolyl_cis-trans_isomerase,_PPIC-type_1639596..1639746_POSITIVE 266 259 214 101 58 pint:PI0683|3end_hypothetical_protein_619797..619947_POSITIVE 265 280 234 55 8 pint:PI1966|3end_conserved_hypothetical_protein_1924091..1924241_POSITIVE 264 248 201 72 8 pint:PI0675|3end_hypothetical_protein_613957..614107_POSITIVE 263 266 224 129 91 pint:PI1141|3end_hypothetical_protein_1069713..1069863_POSITIVE 263 266 224 42 4 pint:PI0688|3end_hypothetical_protein_625750..625900_POSITIVE 263 273 231 112 63 pint:PI0056|3end_conserved_hypothetical_protein;_possible_DNA_uptake_protein_55907..56057_POSITIVE 261 240 193 143 95 pint:PI0362|3end_hypothetical_protein_333938..334088_POSITIVE 258 266 221 132 85 pint:PI0027|3end_aminopeptidase_C_31756..31906_POSITIVE