Origin IGS: gtatcacacttaaacgcatacataattgctattcaataaattagaattgcacacaaatggctgcaatatttgaaaaaagaaaaatattcgtgcagaaaaagcccgttatttgccactttatggaggtttttataaacatttagcaacctttattaacacaacaaattcgccacgagagattatttccaagtaaaagaaaacagtggcaaggtgtgtaaaaaccgatttacgattgacattgttcggcgtgatacaacaatcgttttcagatttgcaaacgtttgcactcggttagccgaaaaacgtgcaaaaaggttttgctgtttcgttttattattgttacctttgagccaaaataactaacagctatatgaacttacaatttagcatagaatataagacatattacggacaagaacttgtcctgaatatcgtaaacggcaaggagtcgggaaccaattcggtgtgccagtacaga .........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.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tctgtactggcacaccgaattggttcccgactccttgccgtttacgatattcaggacaagttcttgtccgtaatatgtcttatattctatgctaaattgtaagttcatatagctgttagttattttggctcaaaggtaacaataataaaacgaaacagcaaaacctttttgcacgtttttcggctaaccgagtgcaaacgtttgcaaatctgaaaacgattgttgtatcacgccgaacaatgtcaatcgtaaatcggtttttacacaccttgccactgttttcttttacttggaaataatctctcgtggcgaatttgttgtgttaataaaggttgctaaatgtttataaaaacctccataaagtggcaaataacgggctttttctgcacgaatatttttcttttttcaaatattgcagccatttgtgtgcaattctaatttattgaatagcaattatgtatgcgtttaagtgtgatac Mask Tandem Repeat Region ================================================ gtatcacacttaaacgcatacataattgctattcaataaattagaattgcacacaaatggctgcaatatttgaaaaaagaaaaatattcgtgcagaaaaagcccgttatttgccactttatggaggtttttataaacatttagcaacctttattaacacaacaaattcgccacgagagattatttccaagtaaaagaaaacagtggcaaggtgtgtaaaaaccgatttacgattgacattgttcggcgtgatacaacaatcgttttcagatttgcaaacgtttgcactcggttagccgaaaaacgtgcaaaaaggttttgctgtttcgttttattattgttacctttgagccaaaataactaacagctatatgaacttacaatttagcatagaatataagacatattacggacaagaacttgtcctgaatatcgtaaacggcaaggagtcgggaaccaattcggtgtgccagtacaga Find is-nt database================================================ Query_seq: PI1769:PI1770|PI1769:PI1770:hypothetical protein:4-alpha-glucanotransferase:->->:1696998..1697475 478 gtatcacacttaaacgcatacataattgctattcaataaattagaattgcacacaaatggctgcaatatttgaaaaaagaaaaatattcgtgcagaaaaagcccgttatttgccactttatggaggtttttataaacatttagcaacctttattaacacaacaaattcgccacgagagattatttccaagtaaaagaaaacagtggcaaggtgtgtaaaaaccgatttacgattgacattgttcggcgtgatacaacaatcgttttcagatttgcaaacgtttgcactcggttagccgaaaaacgtgcaaaaaggttttgctgtttcgttttattattgttacctttgagccaaaataactaacagctatatgaacttacaatttagcatagaatataagacatattacggacaagaacttgtcctgaatatcgtaaacggcaaggagtcgggaaccaattcggtgtgccagtacaga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1769:PI1770|PI1769:PI1770:hypothetical protein:4-alpha-glucanotransferase:->->:1696998..1697475 478 gtatcacacttaaacgcatacataattgctattcaataaattagaattgcacacaaatggctgcaatatttgaaaaaagaaaaatattcgtgcagaaaaagcccgttatttgccactttatggaggtttttataaacatttagcaacctttattaacacaacaaattcgccacgagagattatttccaagtaaaagaaaacagtggcaaggtgtgtaaaaaccgatttacgattgacattgttcggcgtgatacaacaatcgttttcagatttgcaaacgtttgcactcggttagccgaaaaacgtgcaaaaaggttttgctgtttcgttttattattgttacctttgagccaaaataactaacagctatatgaacttacaatttagcatagaatataagacatattacggacaagaacttgtcctgaatatcgtaaacggcaaggagtcgggaaccaattcggtgtgccagtacaga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1769:PI1770|PI1769:PI1770:hypothetical protein:4-alpha-glucanotransferase:->->:1696998..1697475 478 gtatcacacttaaacgcatacataattgctattcaataaattagaattgcacacaaatggctgcaatatttgaaaaaagaaaaatattcgtgcagaaaaagcccgttatttgccactttatggaggtttttataaacatttagcaacctttattaacacaacaaattcgccacgagagattatttccaagtaaaagaaaacagtggcaaggtgtgtaaaaaccgatttacgattgacattgttcggcgtgatacaacaatcgttttcagatttgcaaacgtttgcactcggttagccgaaaaacgtgcaaaaaggttttgctgtttcgttttattattgttacctttgagccaaaataactaacagctatatgaacttacaatttagcatagaatataagacatattacggacaagaacttgtcctgaatatcgtaaacggcaaggagtcgggaaccaattcggtgtgccagtacaga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gtatcacacttaaacgcatacataattgctattcaataaattagaattgcacacaaatggctgcaatatttgaaaaaagaaaaatattcgtgcagaaaaagcccgttatttgccactttatggaggtttttataaacatttagcaacctttattaacacaacaaattcgccacgagagattatttccaagtaaaagaaaacagtggcaaggtgtgtaaaaaccgatttacgattgacattgttcggcgtgatacaacaatcgttttcagatttgcaaacgtttgcactcggttagccgaaaaacgtgcaaaaaggttttgctgtttcgttttattattgttacctttgagccaaaataactaacagctatatgaacttacaatttagcatagaatataagacatattacggacaagaacttgtcctgaatatcgtaaacggcaaggagtcgggaaccaattcggtgtgccagtacaga Predict ORF larger than 30AA ================================================ Protein_Len: 31 Strand: + Start: 40 End: 132 ....................................... M R I A H K W L Q Y L K K E K Y S C R K S P L F A T L W R F L .......................................................................................................................................................................................................................................................................................................................................................... Protein_Len: 35 Strand: + Start: 86 End: 190 ..................................................................................... M R A E K A R Y L P L Y G G F Y K H L A T F I N T T N S P R E I I S K ................................................................................................................................................................................................................................................................................................ Protein_Len: 30 Strand: + Start: 203 End: 292 .......................................................................................................................................................................................................... M A R C V K T D L R L T L F G V I Q Q S F S D L Q T F A L G .......................................................................................................................................................................................... Protein_Len: 50 Strand: + Start: 211 End: 360 .................................................................................................................................................................................................................. M C K N R F T I D I V R R D T T I V F R F A N V C T R L A E K R A K R F C C F V L L L L P L S Q N N ...................................................................................................................... Protein_Len: 41 Strand: + Start: 356 End: 478 ................................................................................................................................................................................................................................................................................................................................................................... M T N S Y M N L Q F S I E Y K T Y Y G Q E L V L N I V N G K E S G T N S V C Q Y R Protein_Len: 31 Strand: - Start: 380 End: 472 ........................................................................................................................................................................................................................................................................................................................................................................................... L K A Y F I L C I V S L F K D Q I D Y V A L L R S G I R H A M ...... Protein_Len: 34 Strand: - Start: 269 End: 370 ............................................................................................................................................................................................................................................................................ I Q L R K C E T L R F V H L F T K S N R K I I T V K S G F Y S V A M ............................................................................................................ Protein_Len: 35 Strand: - Start: 183 End: 287 ...................................................................................................................................................................................... K W T F S F L P L T H L F R N V I S M T R R S V V I T K L N A F T Q M ............................................................................................................................................................................................... Protein_Len: 40 Strand: - Start: 133 End: 252 .................................................................................................................................... L C K A V K I L V V F E G R S I I E L Y F F V T A L H T F V S K R N V N N P T M .................................................................................................................................................................................................................................. Protein_Len: 32 Strand: - Start: 44 End: 139 ........................................... F Q V C I A A I N S F L F I N T C F F G T I Q W K I S T K I F M ................................................................................................................................................................................................................................................................................................................................................... Protein_Len: 37 Strand: - Start: 36 End: 146 ................................... Y I L I A C L H S C Y K F F S F Y E H L F L G N N A V K H L N K Y V N L M ............................................................................................................................................................................................................................................................................................................................................ gtatcacacttaaacgcatacataattgctattcaataaattagaattgcacacaaatggctgcaatatttgaaaaaagaaaaatattcgtgcagaaaaagcccgttatttgccactttatggaggtttttataaacatttagcaacctttattaacacaacaaattcgccacgagagattatttccaagtaaaagaaaacagtggcaaggtgtgtaaaaaccgatttacgattgacattgttcggcgtgatacaacaatcgttttcagatttgcaaacgtttgcactcggttagccgaaaaacgtgcaaaaaggttttgctgtttcgttttattattgttacctttgagccaaaataactaacagctatatgaacttacaatttagcatagaatataagacatattacggacaagaacttgtcctgaatatcgtaaacggcaaggagtcgggaaccaattcggtgtgccagtacaga 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================================================ gtatcacacttaaacgcatacataattgctattcaataaattagaattgcacacaaatggctgcaatatttgaaaaaagaaaaatattcgtgcagaaaaagcccgttatttgccactttatggaggtttttataaacatttagcaacctttattaacacaacaaattcgccacgagagattatttccaagtaaaagaaaacagtggcaaggtgtgtaaaaaccgatttacgattgacattgttcggcgtgatacaacaatcgttttcagatttgcaaacgtttgcactcggttagccgaaaaacgtgcaaaaaggttttgctgtttcgttttattattgttacctttgagccaaaataactaacagctatatgaacttacaatttagcatagaatataagacatattacggacaagaacttgtcctgaatatcgtaaacggcaaggagtcgggaaccaattcggtgtgccagtacaga Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 70 HP_score: -7.2 Tail_Score: -3.7519 Start: 307 End: 321 Full_Region: TTAGCCGAAAAACGT GCAAAA AGG TTTTGC TGTTTCGTTTTATTA ..................................................................................................................................................................................................................................................................................................................GCAAAAAGGTTTTGC............................................................................................................................................................. Find igs database================================================ Query_seq: PI1769:PI1770|PI1769:PI1770:hypothetical protein:4-alpha-glucanotransferase:->->:1696998..1697475 478 gtatcacacttaaacgcatacataattgctattcaataaattagaattgcacacaaatggctgcaatatttgaaaaaagaaaaatattcgtgcagaaaaagcccgttatttgccactttatggaggtttttataaacatttagcaacctttattaacacaacaaattcgccacgagagattatttccaagtaaaagaaaacagtggcaaggtgtgtaaaaaccgatttacgattgacattgttcggcgtgatacaacaatcgttttcagatttgcaaacgtttgcactcggttagccgaaaaacgtgcaaaaaggttttgctgtttcgttttattattgttacctttgagccaaaataactaacagctatatgaacttacaatttagcatagaatataagacatattacggacaagaacttgtcctgaatatcgtaaacggcaaggagtcgggaaccaattcggtgtgccagtacaga Intra-Species Hit: Count: 1 Min: 1 Max: 478 Len: 478 Subject: pint_PI1769_PI1770|hypothetical protein:4-alpha- glucanotransferase|POSITIVE:POSITIVE|[1696998, 1697475]|478 HSP 1 e-value: 0.0 bit: 876.0 Len: 478 Query Start:1 Query End:478 Subject Strand: POSITIVE Subject Start: 1 Subject End: 478 gtatcacacttaaacgcatacataattgctattcaataaattagaattgcacacaaatggctgcaatatttgnnnnnnnnnnnntattcgtgcagaaaaagcccgttatttgccactttatggaggtttttataaacatttagcaacctttattaacacaacaaattcgccacgagagattatttccaagtaaaagaaaacagtggcaaggtgtgtaaaaaccgatttacgattgacattgttcggcgtgatacaacaatcgttttcagatttgcaaacgtttgcactcggttagccgaaaaacgtgcaaaaaggttttgctgtttcgttttattattgttacctttgagccaaaataactaacagctatatgaacttacaatttagcatagaatataagacatattacggacaagaacttgtcctgaatatcgtaaacggcaaggagtcgggaaccaattcggtgtgccagtacaga gtatcacacttaaacgcatacataattgctattcaataaattagaattgcacacaaatggctgcaatatttgaaaaaagaaaaatattcgtgcagaaaaagcccgttatttgccactttatggaggtttttataaacatttagcaacctttattaacacaacaaattcgccacgagagattatttccaagtaaaagaaaacagtggcaaggtgtgtaaaaaccgatttacgattgacattgttcggcgtgatacaacaatcgttttcagatttgcaaacgtttgcactcggttagccgaaaaacgtgcaaaaaggttttgctgtttcgttttattattgttacctttgagccaaaataactaacagctatatgaacttacaatttagcatagaatataagacatattacggacaagaacttgtcctgaatatcgtaaacggcaaggagtcgggaaccaattcggtgtgccagtacaga Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GUAUCACACUUAAACGCAUACAUAAUUGCUAUUCAAUAAAUUAGAAUUGCACACAAAUGGCUGCAAUAUUUGAAAAAAGAAAAAUAUUCGUGCAGAAAAAGCCCGUUAUUUGCCACUUUAUGGAGGUUUUUAUAAACAUUUAGCAACCUUUAUUAACACAACAAAUUCGCCACGAGAGAUUAUUUCCAAGUAAAAGAAAACAGUGGCAAGGUGUGUAAAAACCGAUUUACGAUUGACAUUGUUCGGCGUGAUACAACAAUCGUUUUCAGAUUUGCAAACGUUUGCACUCGGUUAGCCGAAAAACGUGCAAAAAGGUUUUGCUGUUUCGUUUUAUUAUUGUUACCUUUGAGCCAAAAUAACUAACAGCUAUAUGAACUUACAAUUUAGCAUAGAAUAUAAGACAUAUUACGGACAAGAACUUGUCCUGAAUAUCGUAAACGGCAAGGAGUCGGGAACCAAUUCGGUGUGCCAGUACAGA (((((((((......(((........)))..............(((((((((((.((((((((((((((((..........))))))...))))).......)))))..((((((((..(((((((((.(((........))).)))))))))....................((((.....))))...............)))))))).)))))......((((((((((((((...((((((.....)).))))))))))).......(((((..((((((....((((....)))).)))))))))))......(((((((((.(((((((....((((..((((...)))).)))).....((((..((......))...)))).......))))))).......((((((....))))))..........))))))))).)))))))....)))))).)))))...))))... (-106.31) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UCUGUACUGGCACACCGAAUUGGUUCCCGACUCCUUGCCGUUUACGAUAUUCAGGACAAGUUCUUGUCCGUAAUAUGUCUUAUAUUCUAUGCUAAAUUGUAAGUUCAUAUAGCUGUUAGUUAUUUUGGCUCAAAGGUAACAAUAAUAAAACGAAACAGCAAAACCUUUUUGCACGUUUUUCGGCUAACCGAGUGCAAACGUUUGCAAAUCUGAAAACGAUUGUUGUAUCACGCCGAACAAUGUCAAUCGUAAAUCGGUUUUUACACACCUUGCCACUGUUUUCUUUUACUUGGAAAUAAUCUCUCGUGGCGAAUUUGUUGUGUUAAUAAAGGUUGCUAAAUGUUUAUAAAAACCUCCAUAAAGUGGCAAAUAACGGGCUUUUUCUGCACGAAUAUUUUUCUUUUUUCAAAUAUUGCAGCCAUUUGUGUGCAAUUCUAAUUUAUUGAAUAGCAAUUAUGUAUGCGUUUAAGUGUGAUAC ....(((..((((((.((((.((..((((.....(((((.((((((((.....((((((....))))))...(((((.((((((.............))))))..)))))...((((.((((((((......))))))))...........((.(((((((......(((((((.....((((....)))))))))))(((((.((....)).))))).))))))).))......))))......))))))))..((((((((((((.(((((((((((((((........))))))).......)))))))....).)))))..(((((.(((....))).))))))))))))..........)))))....))))......(((((...((((((..........)))))))))))))))))))))))............((((((.(((........)))))))))..))).... (-107.43) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 409 330 283 57 4 pint:PI0694|5end_Na+/dicarboxylate_or_sulfate_symporter_629745..629975_POSITIVE 316 269 221 83 32 pint:PI0197|5end_acetate_kinase_188602..188832_POSITIVE 312 319 272 206 147 pint:PI1870|5end_hypothetical_protein_1815302..1815532_POSITIVE 309 320 274 230 180 pint:PI0965|5end_hypothetical_protein_894154..894384_POSITIVE 305 290 243 74 24 pint:PI0587|5end_conserved_hypothetical_protein_534416..534646_POSITIVE 303 247 201 55 13 pint:PI0113|5end_arginyl-tRNA_synthetase_108371..108601_POSITIVE 302 469 421 195 143 pint:PI0222|5end_conserved_hypothetical_protein_217808..218038_POSITIVE 300 332 295 67 28 pint:PI0567|5end_hypothetical_protein_512781..513011_POSITIVE 300 470 423 151 96 pint:PI0128|5end_dipeptidase,_pathogenicity_island-encoded_protein_D_120532..120762_POSITIVE 296 470 425 169 124 pint:PI2135|5end_conserved_hypothetical_protein_2082754..2082984_POSITIVE 295 299 261 55 20 pint:PI0492|5end_hypothetical_protein_451701..451931_POSITIVE 294 306 267 69 28 pint:PI1367|5end_redox-sensitive_transcriptional_activator,__OxyR_1286860..1287090_POSITIVE 292 299 251 48 3 pint:PI1032|5end_methylmalonyl-CoA_decarboxylase,_alpha_subunit_948463..948693_POSITIVE 292 469 421 183 130 pint:PI0520|5end_hypothetical_protein_478755..478985_POSITIVE 291 290 241 56 5 pint:PI1711|5end_ABC_transporter,_ATP-binding_protein_1627597..1627827_POSITIVE 290 470 424 89 31 pint:PI0581|5end_conserved_hypothetical_protein_525055..525285_POSITIVE 289 470 422 195 141 pint:PI1739|5end_Na+-driven_multidrug_efflux_pump,_MATE_efflux_family_protein_1660177..1660407_POSITIVE 286 329 284 171 123 pint:PI0221|5end_DNA_methylase,_site-specific_DNA-methyltransferase_(adenine-specific)_212356..212586_POSITIVE 284 470 421 78 26 pint:PI1083|5end_TPR-repeat-containing_protein_1001975..1002205_POSITIVE 284 468 432 68 33 pint:PI0258|5end_conjugative_transposon_protein,_TraG_249722..249952_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 320 248 202 151 104 pint:PI2001|3end_hypothetical_protein_1960478..1960628_POSITIVE 308 206 172 58 23 pint:PI0342|3end_hypothetical_protein_318049..318199_POSITIVE 304 315 271 84 38 pint:PI0059|3end_peptide_chain_release_factor_RF-2_58171..58321_POSITIVE 303 470 421 136 83 pint:PI0330|3end_hypothetical_protein_312545..312695_POSITIVE 303 247 201 131 89 pint:PI0114|3end_hypothetical_protein_108527..108677_POSITIVE 302 469 421 103 51 pint:PI0221|3end_DNA_methylase,_site-specific_DNA-methyltransferase_(adenine-specific)_217796..217946_POSITIVE 296 470 425 145 100 pint:PI2134|3end_hypothetical_protein_2082810..2082960_POSITIVE 295 469 429 149 97 pint:PI1708|3end_hypothetical_protein_1625562..1625712_POSITIVE 286 329 284 76 28 pint:PI0220|3end_conserved_hypothetical_protein_212341..212491_POSITIVE 285 249 201 56 14 pint:PI1790|3end_hypothetical_protein_1722762..1722912_POSITIVE 284 468 432 68 33 pint:PI0257|3end_conjugative_transposon_protein,_TraF_249802..249952_POSITIVE 283 469 438 67 39 pint:PI0369|3end_hypothetical_protein_340409..340559_POSITIVE 283 330 281 138 96 pint:PI0191|3end_O-methyltransferase_181785..181935_POSITIVE 280 285 241 148 102 pint:PI1712|3end_hypothetical_protein_1627774..1627924_POSITIVE 280 350 302 55 8 pint:PI1606|3end_conserved_hypothetical_protein_1535565..1535715_POSITIVE 278 458 422 146 111 pint:PI2073|3end_mobilization_protein_2033487..2033637_POSITIVE 277 447 408 49 3 pint:PI1006|3end_conserved_hypothetical_protein_927049..927199_POSITIVE 277 330 282 133 91 pint:PI0579|3end_hypothetical_protein_524209..524359_POSITIVE 276 470 434 145 109 pint:PI0624|3end_hypothetical_protein_574471..574621_POSITIVE 274 248 201 136 85 pint:PI1716|3end_hypothetical_protein_1632006..1632156_POSITIVE