Origin IGS: taaacaacatagaaagagagtgtatttagcaaatacattctctttttttatttatcattcattccaccacaaaggtgtagcaagaacctctattgaaacgccctcccctcacaacaaccttttcctgccaccgtcgtttcgtacgttttattctcattctaaagaacttacacttgcaaaaggttttctcctccaaattacttacgtgtaaataattctttctttacgtgtaagtaaatatttattta .........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 taaataaatatttacttacacgtaaagaaagaattatttacacgtaagtaatttggaggagaaaaccttttgcaagtgtaagttctttagaatgagaataaaacgtacgaaacgacggtggcaggaaaaggttgttgtgaggggagggcgtttcaatagaggttcttgctacacctttgtggtggaatgaatgataaataaaaaaagagaatgtatttgctaaatacactctctttctatgttgttta Mask Tandem Repeat Region ================================================ taaacaacatagaaagagagtgtatttagcaaatacattctctttttttatttatcattcattccaccacaaaggtgtagcaagaacctctattgaaacgccctcccctcacaacaaccttttcctgccaccgtcgtttcgtacgttttattctcattctaaagaacttacacttgcaaaaggttttctcctccaaattacnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnn Find is-nt database================================================ Query_seq: PI1449:PI1450|PI1449:PI1450:conserved hypothetical protein:hypothetical protein:->->:1372575..1372822 248 taaacaacatagaaagagagtgtatttagcaaatacattctctttttttatttatcattcattccaccacaaaggtgtagcaagaacctctattgaaacgccctcccctcacaacaaccttttcctgccaccgtcgtttcgtacgttttattctcattctaaagaacttacacttgcaaaaggttttctcctccaaattacttacgtgtaaataattctttctttacgtgtaagtaaatatttattta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1449:PI1450|PI1449:PI1450:conserved hypothetical protein:hypothetical protein:->->:1372575..1372822 248 taaacaacatagaaagagagtgtatttagcaaatacattctctttttttatttatcattcattccaccacaaaggtgtagcaagaacctctattgaaacgccctcccctcacaacaaccttttcctgccaccgtcgtttcgtacgttttattctcattctaaagaacttacacttgcaaaaggttttctcctccaaattacttacgtgtaaataattctttctttacgtgtaagtaaatatttattta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1449:PI1450|PI1449:PI1450:conserved hypothetical protein:hypothetical protein:->->:1372575..1372822 248 taaacaacatagaaagagagtgtatttagcaaatacattctctttttttatttatcattcattccaccacaaaggtgtagcaagaacctctattgaaacgccctcccctcacaacaaccttttcctgccaccgtcgtttcgtacgttttattctcattctaaagaacttacacttgcaaaaggttttctcctccaaattacttacgtgtaaataattctttctttacgtgtaagtaaatatttattta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taaacaacatagaaagagagtgtatttagcaaatacattctctttttttatttatcattcattccaccacaaaggtgtagcaagaacctctattgaaacgccctcccctcacaacaaccttttcctgccaccgtcgtttcgtacgttttattctcattctaaagaacttacacttgcaaaaggttttctcctccaaattacttacgtgtaaataattctttctttacgtgtaagtaaatatttattta Predict ORF larger than 30AA ================================================ Protein_Len: 60 Strand: + Start: 20 End: 208 ................... M Y L A N T F S F F I Y H S F H H K G V A R T S I E T P S P H N N L F L P P S F R T F Y S H S K E L T L A K G F L L Q I ........................................ Protein_Len: 40 Strand: + Start: 93 End: 212 ............................................................................................ M K R P P L T T T F S C H R R F V R F I L I L K N L H L Q K V F S S K L L T C K .................................... Protein_Len: 45 Strand: - Start: 62 End: 196 ............................................................. E V V F T Y C S G R N F R G G R V V V K E Q W R R K T R K I R M R F F K C K C F T K E E M .................................................... taaacaacatagaaagagagtgtatttagcaaatacattctctttttttatttatcattcattccaccacaaaggtgtagcaagaacctctattgaaacgccctcccctcacaacaaccttttcctgccaccgtcgtttcgtacgttttattctcattctaaagaacttacacttgcaaaaggttttctcctccaaattacttacgtgtaaataattctttctttacgtgtaagtaaatatttattta 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================================================ taaacaacatagaaagagagtgtatttagcaaatacattctctttttttatttatcattcattccaccacaaaggtgtagcaagaacctctattgaaacgccctcccctcacaacaaccttttcctgccaccgtcgtttcgtacgttttattctcattctaaagaacttacacttgcaaaaggttttctcctccaaattacttacgtgtaaataattctttctttacgtgtaagtaaatatttattta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI1449:PI1450|PI1449:PI1450:conserved hypothetical protein:hypothetical protein:->->:1372575..1372822 248 taaacaacatagaaagagagtgtatttagcaaatacattctctttttttatttatcattcattccaccacaaaggtgtagcaagaacctctattgaaacgccctcccctcacaacaaccttttcctgccaccgtcgtttcgtacgttttattctcattctaaagaacttacacttgcaaaaggttttctcctccaaattacttacgtgtaaataattctttctttacgtgtaagtaaatatttattta Intra-Species Hit: Count: 1 Min: 1 Max: 248 Len: 248 Subject: pint_PI1449_PI1450|conserved hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[1372575,1372822]|248 HSP 1 e-value: 1.0E-125 bit: 450.0 Len: 248 Query Start:1 Query End:248 Subject Strand: POSITIVE Subject Start: 1 Subject End: 248 taaacaacatagaaagagagtgtatttagcaaatacattctcnnnnnnnatttatcattcattccaccacaaaggtgtagcaagaacctctattgaaacgccctcccctcacaacaaccttttcctgccaccgtcgtttcgtacgttttattctcattctaaagaacttacacttgcaaaaggttttctcctccaaattacttacgtgtaaataattctttctttacgtgtaagtaaatatttattta taaacaacatagaaagagagtgtatttagcaaatacattctctttttttatttatcattcattccaccacaaaggtgtagcaagaacctctattgaaacgccctcccctcacaacaaccttttcctgccaccgtcgtttcgtacgttttattctcattctaaagaacttacacttgcaaaaggttttctcctccaaattacttacgtgtaaataattctttctttacgtgtaagtaaatatttattta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAACAACAUAGAAAGAGAGUGUAUUUAGCAAAUACAUUCUCUUUUUUUAUUUAUCAUUCAUUCCACCACAAAGGUGUAGCAAGAACCUCUAUUGAAACGCCCUCCCCUCACAACAACCUUUUCCUGCCACCGUCGUUUCGUACGUUUUAUUCUCAUUCUAAAGAACUUACACUUGCAAAAGGUUUUCUCCUCCAAAUUACUUACGUGUAAAUAAUUCUUUCUUUACGUGUAAGUAAAUAUUUAUUUA ..........((((((((((((((((.....)))))))))))))))).................((((.....))))..(((((..........((((((.(..............................).))))))(((.(((((.............))))).))).)))))...(((......))).....(((((((((((((((.((....)).)))))))))))))))........... (-46.93) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAUAAAUAUUUACUUACACGUAAAGAAAGAAUUAUUUACACGUAAGUAAUUUGGAGGAGAAAACCUUUUGCAAGUGUAAGUUCUUUAGAAUGAGAAUAAAACGUACGAAACGACGGUGGCAGGAAAAGGUUGUUGUGAGGGGAGGGCGUUUCAAUAGAGGUUCUUGCUACACCUUUGUGGUGGAAUGAAUGAUAAAUAAAAAAAGAGAAUGUAUUUGCUAAAUACACUCUCUUUCUAUGUUGUUUA .............((((((((.........((((((((((....))))))))))(.(((((.....))))).)..))))))))((((......))))............(((((((.((((((((((....((((((.((.(......).)).))))))...))))))))))...(((((.((.......)).))))).....(((((((.((((((.....)))))).)))))))....))))))). (-59.00) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 416 240 195 227 182 pint:PI0311|5end_hypothetical_protein_294721..294951_POSITIVE 416 240 195 97 52 pint:PI0312|5end_hypothetical_protein_294591..294821_POSITIVE 342 118 72 173 115 pint:PI1884|5end_conserved_hypothetical_protein_1826883..1827113_POSITIVE 341 237 197 142 102 pint:PI1462|5end_hypothetical_protein_1385094..1385324_POSITIVE 341 240 194 135 89 pint:PI0619|5end_hypothetical_protein_569364..569594_POSITIVE 335 129 95 225 184 pint:PI0266|5end_DNA_primase_(bacterial_type)_257931..258161_POSITIVE 331 141 101 167 120 pint:PI1628|5end_hypothetical_protein_1551082..1551312_POSITIVE 327 237 203 164 130 pint:PI0130|5end_hypothetical_protein_122032..122262_POSITIVE 324 156 122 230 204 pint:PI0384|5end_probable_radical_SAM_domain_protein_352884..353114_POSITIVE 314 237 191 215 169 pint:PI0173|5end_hypothetical_protein_165305..165535_POSITIVE 297 240 201 190 152 pint:PI0115|5end_hypothetical_protein_108062..108292_POSITIVE 297 240 201 176 138 pint:PI0111|5end_hypothetical_protein_108048..108278_POSITIVE 297 240 201 141 103 pint:PI0112|5end_hypothetical_protein_108013..108243_POSITIVE 294 148 110 175 126 pint:PI0026|5end_two-component_system_response_regulator_29756..29986_POSITIVE 288 149 104 39 1 pint:PI1353|5end_conserved_hypothetical_protein_1269710..1269940_POSITIVE 284 143 118 93 60 pint:PI1637|5end_hypothetical_protein_1554500..1554730_POSITIVE 282 135 98 151 94 pint:PI1784|5end_possible_dTDP-glucose_4,6-dehydratase,_NAD-dependent_epimerase/dehydratase_family_1716201..1716431_POSITIVE 280 147 102 85 43 pint:PI0339|5end_hypothetical_protein_315735..315965_POSITIVE 279 240 191 123 73 pint:PI0579|5end_hypothetical_protein_523419..523649_POSITIVE 277 147 102 85 43 pint:PI1632|5end_hypothetical_protein_1552819..1553049_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 454 240 195 104 59 pint:PI2105|3end_hypothetical_protein_2059586..2059736_POSITIVE 370 47 11 80 44 pint:PI1449|3end_conserved_hypothetical_protein_1372514..1372664_POSITIVE 341 237 197 41 1 pint:PI1461|3end_conserved_hypothetical_protein_1385073..1385223_POSITIVE 327 237 203 54 20 pint:PI0598|3end_hypothetical_protein_547233..547383_POSITIVE 314 237 191 68 22 pint:PI0172|3end_ISPg3-related_transposase_165238..165388_POSITIVE 298 220 173 147 100 pint:PI2082|3end_hypothetical_protein_2040263..2040413_POSITIVE 277 147 102 141 99 pint:PI1633|3end_hypothetical_protein_1552955..1553105_POSITIVE 273 138 93 77 27 pint:PI0634|3end_conserved_hypothetical_protein_581121..581271_POSITIVE 271 155 111 98 41 pint:PI1090|3end_tRNA_uracil_5-methyltransferase_1015780..1015930_POSITIVE 268 139 93 69 3 pint:PI1623|3end_hypothetical_protein_1549261..1549411_POSITIVE 268 139 93 99 33 pint:PI0331|3end_hypothetical_protein_312575..312725_POSITIVE 268 139 93 69 3 pint:PI0330|3end_hypothetical_protein_312545..312695_POSITIVE 268 192 166 149 126 pint:PI0282|3end_hypothetical_protein_266826..266976_POSITIVE 266 155 114 98 56 pint:PI0351|3end_hypothetical_protein_324768..324918_POSITIVE 265 145 102 129 94 pint:PI0513|3end_ion_transporter_472371..472521_POSITIVE 260 129 83 147 103 pint:PI1574|3end_conserved_hypothetical_protein_1501226..1501376_POSITIVE 255 148 115 136 95 pint:PI0009|3end_NAD-dependent_epimerase/dehydratase_family_protein_10674..10824_POSITIVE 254 138 112 125 95 pint:PI0087|3end_conserved_hypothetical_protein_86733..86883_POSITIVE 252 149 108 36 2 pint:PI1352|3end_conserved_hypothetical_protein_1269787..1269937_POSITIVE 251 237 197 72 32 pint:PI0533|3end_ABC_transporter,_permease_protein_488421..488571_POSITIVE