Origin IGS: taacgttatcattataatagaaaccaaacaacgaatgccgtttatcccaaaagtggataagcggcattattgtttcagcaagcccatgaaataaaagataccgagcaatcgagtaaaagatatcgagtaaaccacaaaaagctcgcgaactttttataaaaagatattgagtaattttaagaaagctggcgagctttttataaagatatatatagtattctattaaaagataccgagcaaaccaccaaaagataccgagcaaaccaccgaaagataccgagcgaaccaccgaaagataccgagcaaataataaaaagctcctaagcttttaaagttatatctccacagtgatgctgttta .........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 taaacagcatcactgtggagatataactttaaaagcttaggagctttttattatttgctcggtatctttcggtggttcgctcggtatctttcggtggtttgctcggtatcttttggtggtttgctcggtatcttttaatagaatactatatatatctttataaaaagctcgccagctttcttaaaattactcaatatctttttataaaaagttcgcgagctttttgtggtttactcgatatcttttactcgattgctcggtatcttttatttcatgggcttgctgaaacaataatgccgcttatccacttttgggataaacggcattcgttgtttggtttctattataatgataacgtta Mask Tandem Repeat Region ================================================ taacgttatcattataatagaaaccaaacaacgaatgccgtttatcccaaaagtggataagcggcattattgtttcagcaagcccatgaaataaaagataccgagcaatcgagtaaaagatatcgagtaaaccacaaaaagctcgcgaactttttataaaaagatattgagtaattttaagaaagctggcgagctttttataaagatatatatagtattctattnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnntaataaaaagctcctaagcttttaaagttatatctccacagtgatgctgttta Find is-nt database================================================ Query_seq: PI1708:PI1709|PI1708:PI1709:hypothetical protein:ABC transporter, ATP-binding protein:->->:1625623..1625982 360 taacgttatcattataatagaaaccaaacaacgaatgccgtttatcccaaaagtggataagcggcattattgtttcagcaagcccatgaaataaaagataccgagcaatcgagtaaaagatatcgagtaaaccacaaaaagctcgcgaactttttataaaaagatattgagtaattttaagaaagctggcgagctttttataaagatatatatagtattctattaaaagataccgagcaaaccaccaaaagataccgagcaaaccaccgaaagataccgagcgaaccaccgaaagataccgagcaaataataaaaagctcctaagcttttaaagttatatctccacagtgatgctgttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1708:PI1709|PI1708:PI1709:hypothetical protein:ABC transporter, ATP-binding protein:->->:1625623..1625982 360 taacgttatcattataatagaaaccaaacaacgaatgccgtttatcccaaaagtggataagcggcattattgtttcagcaagcccatgaaataaaagataccgagcaatcgagtaaaagatatcgagtaaaccacaaaaagctcgcgaactttttataaaaagatattgagtaattttaagaaagctggcgagctttttataaagatatatatagtattctattaaaagataccgagcaaaccaccaaaagataccgagcaaaccaccgaaagataccgagcgaaccaccgaaagataccgagcaaataataaaaagctcctaagcttttaaagttatatctccacagtgatgctgttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1708:PI1709|PI1708:PI1709:hypothetical protein:ABC transporter, ATP-binding protein:->->:1625623..1625982 360 taacgttatcattataatagaaaccaaacaacgaatgccgtttatcccaaaagtggataagcggcattattgtttcagcaagcccatgaaataaaagataccgagcaatcgagtaaaagatatcgagtaaaccacaaaaagctcgcgaactttttataaaaagatattgagtaattttaagaaagctggcgagctttttataaagatatatatagtattctattaaaagataccgagcaaaccaccaaaagataccgagcaaaccaccgaaagataccgagcgaaccaccgaaagataccgagcaaataataaaaagctcctaagcttttaaagttatatctccacagtgatgctgttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taacgttatcattataatagaaaccaaacaacgaatgccgtttatcccaaaagtggataagcggcattattgtttcagcaagcccatgaaataaaagataccgagcaatcgagtaaaagatatcgagtaaaccacaaaaagctcgcgaactttttataaaaagatattgagtaattttaagaaagctggcgagctttttataaagatatatatagtattctattaaaagataccgagcaaaccaccaaaagataccgagcaaaccaccgaaagataccgagcgaaccaccgaaagataccgagcaaataataaaaagctcctaagcttttaaagttatatctccacagtgatgctgttta Predict ORF larger than 30AA ================================================ Protein_Len: 38 Strand: + Start: 208 End: 321 ............................................................................................................................................................................................................... M Y S I L L K D T E Q T T K R Y R A N H R K I P S E P P K D T E Q I I K S S ....................................... Protein_Len: 36 Strand: + Start: 222 End: 329 ............................................................................................................................................................................................................................. M K R Y R A N H Q K I P S K P P K D T E R T T E R Y R A N N K K L L S F ............................... Protein_Len: 41 Strand: - Start: 226 End: 348 ................................................................................................................................................................................................................................. F I G L L G G F S V S C V V S L Y R A F W R F I G L L Y Y F A G L S K F N Y R W M ............ Protein_Len: 37 Strand: - Start: 201 End: 311 ........................................................................................................................................................................................................ L S I Y L I R N F S V S C V V L L Y R A F W R F I G L S G G F S V S C I M ................................................. Protein_Len: 30 Strand: - Start: 78 End: 167 ............................................................................. C A W S I F S V S C D L L L Y R T F W L F S A F K K Y F S M ................................................................................................................................................................................................. Protein_Len: 60 Strand: - Start: 2 End: 289 . S Y F I D L L G C F A R S S K I F L Y Q T I K L F S A L K K Y L Y I Y Y E I L L Y R A F W W F I G L L G G F S V S R V M ....................................................................... taacgttatcattataatagaaaccaaacaacgaatgccgtttatcccaaaagtggataagcggcattattgtttcagcaagcccatgaaataaaagataccgagcaatcgagtaaaagatatcgagtaaaccacaaaaagctcgcgaactttttataaaaagatattgagtaattttaagaaagctggcgagctttttataaagatatatatagtattctattaaaagataccgagcaaaccaccaaaagataccgagcaaaccaccgaaagataccgagcgaaccaccgaaagataccgagcaaataataaaaagctcctaagcttttaaagttatatctccacagtgatgctgttta 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================================================ taacgttatcattataatagaaaccaaacaacgaatgccgtttatcccaaaagtggataagcggcattattgtttcagcaagcccatgaaataaaagataccgagcaatcgagtaaaagatatcgagtaaaccacaaaaagctcgcgaactttttataaaaagatattgagtaattttaagaaagctggcgagctttttataaagatatatatagtattctattaaaagataccgagcaaaccaccaaaagataccgagcaaaccaccgaaagataccgagcgaaccaccgaaagataccgagcaaataataaaaagctcctaagcttttaaagttatatctccacagtgatgctgttta Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 74 HP_score: -6.3 Tail_Score: -4.29304 Start: 24 End: 77 Full_Region: atttcatgggcttgc tgaaacaataatgccgcttatcc acttttg ggataaacggcattcgttgtttgg tttctattataatga .......................tgaaacaataatgccgcttatccacttttgggataaacggcattcgttgtttgg........................................................................................................................................................................................................................................................................................... TransTerm Strand: - Conf: 81 HP_score: -8.4 Tail_Score: -4.22226 Start: 29 End: 72 Full_Region: atgggcttgctgaaa caataatgccgcttatcc acttttg ggataaacggcattcgttg tttggtttctattat ............................caataatgccgcttatccacttttgggataaacggcattcgttg................................................................................................................................................................................................................................................................................................ TransTerm Strand: + Conf: 95 HP_score: -12.0 Tail_Score: -4.08557 Start: 36 End: 66 Full_Region: AAACCAAACAACGAA TGCCGTTTATCC CAAAAGT GGATAAGCGGCA TTATTGTTTCAGCAA ...................................TGCCGTTTATCCCAAAAGTGGATAAGCGGCA...................................................................................................................................................................................................................................................................................................... TransTerm Strand: - Conf: 82 HP_score: -9.8 Tail_Score: -3.66349 Start: 36 End: 66 Full_Region: ttgctgaaacaataa tgccgcttatcc acttttg ggataaacggca ttcgttgtttggttt ...................................tgccgcttatccacttttgggataaacggca...................................................................................................................................................................................................................................................................................................... Find igs database================================================ Query_seq: PI1708:PI1709|PI1708:PI1709:hypothetical protein:ABC transporter, ATP-binding protein:->->:1625623..1625982 360 taacgttatcattataatagaaaccaaacaacgaatgccgtttatcccaaaagtggataagcggcattattgtttcagcaagcccatgaaataaaagataccgagcaatcgagtaaaagatatcgagtaaaccacaaaaagctcgcgaactttttataaaaagatattgagtaattttaagaaagctggcgagctttttataaagatatatatagtattctattaaaagataccgagcaaaccaccaaaagataccgagcaaaccaccgaaagataccgagcgaaccaccgaaagataccgagcaaataataaaaagctcctaagcttttaaagttatatctccacagtgatgctgttta Intra-Species Hit: Count: 1 Min: 1 Max: 360 Len: 360 Subject: pint_PI1708_PI1709|hypothetical protein:ABC transporter, ATP-binding protein|POSITIVE:POSITIVE|[1625623,1625982]|360 HSP 1 e-value: 0.0 bit: 714.0 Len: 360 Query Start:1 Query End:360 Subject Strand: POSITIVE Subject Start: 1 Subject End: 360 taacgttatcattataatagaaaccaaacaacgaatgccgtttatcccaaaagtggataagcggcattattgtttcagcaagcccatgaaataaaagataccgagcaatcgagtaaaagatatcgagtaaaccacaaaaagctcgcgaactttttataaaaagatattgagtaattttaagaaagctggcgagctttttataaagatatatatagtattctattaaaagataccgagcaaaccaccaaaagataccgagcaaaccaccgaaagataccgagcgaaccaccgaaagataccgagcaaataataaaaagctcctaagcttttaaagttatatctccacagtgatgctgttta taacgttatcattataatagaaaccaaacaacgaatgccgtttatcccaaaagtggataagcggcattattgtttcagcaagcccatgaaataaaagataccgagcaatcgagtaaaagatatcgagtaaaccacaaaaagctcgcgaactttttataaaaagatattgagtaattttaagaaagctggcgagctttttataaagatatatatagtattctattaaaagataccgagcaaaccaccaaaagataccgagcaaaccaccgaaagataccgagcgaaccaccgaaagataccgagcaaataataaaaagctcctaagcttttaaagttatatctccacagtgatgctgttta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAACGUUAUCAUUAUAAUAGAAACCAAACAACGAAUGCCGUUUAUCCCAAAAGUGGAUAAGCGGCAUUAUUGUUUCAGCAAGCCCAUGAAAUAAAAGAUACCGAGCAAUCGAGUAAAAGAUAUCGAGUAAACCACAAAAAGCUCGCGAACUUUUUAUAAAAAGAUAUUGAGUAAUUUUAAGAAAGCUGGCGAGCUUUUUAUAAAGAUAUAUAUAGUAUUCUAUUAAAAGAUACCGAGCAAACCACCAAAAGAUACCGAGCAAACCACCGAAAGAUACCGAGCGAACCACCGAAAGAUACCGAGCAAAUAAUAAAAAGCUCCUAAGCUUUUAAAGUUAUAUCUCCACAGUGAUGCUGUUUA ...((.((((.((.((((((((...........(((((((((((((((....).)))))))))))))).((((((((.........))))))))....((((((....))).)))....(((((..(....)...(((((((((((.(.((((((.(((((..((.....))..))))))))))).).))))))))))).....)))))........)))))))).)))))).)).(((...(((....(((((...(((.......(....).....((((.......(....).....((((............))))....)))).....))).))))).....))).)))...... (-82.20) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAACAGCAUCACUGUGGAGAUAUAACUUUAAAAGCUUAGGAGCUUUUUAUUAUUUGCUCGGUAUCUUUCGGUGGUUCGCUCGGUAUCUUUCGGUGGUUUGCUCGGUAUCUUUUGGUGGUUUGCUCGGUAUCUUUUAAUAGAAUACUAUAUAUAUCUUUAUAAAAAGCUCGCCAGCUUUCUUAAAAUUACUCAAUAUCUUUUUAUAAAAAGUUCGCGAGCUUUUUGUGGUUUACUCGAUAUCUUUUACUCGAUUGCUCGGUAUCUUUUAUUUCAUGGGCUUGCUGAAACAAUAAUGCCGCUUAUCCACUUUUGGGAUAAACGGCAUUCGUUGUUUGGUUUCUAUUAUAAUGAUAACGUUA .....(((((((((...(((..((((....(((((((....)))))))..))))...)))((((((....((..(..(((.(((......))))))..)..)).))))))....)))))..))))((.((((...((((((((..((((........(((((((((((((((.((((((..(((((.............)))))...)))))).)))))))))))))))..(((.(((.(((........)))...))))))...........))))....(((.((((((((((((((.((((((.(....))))))).))))))).))))))))))))))))))....)))).))... (-93.62) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 540 298 251 149 102 pint:PI1953|5end_possible_ABC-type_permease_1907135..1907365_POSITIVE 371 79 35 82 33 pint:PI0412|5end_primosomal_protein_N',_replication_factor_Y_379751..379981_POSITIVE 337 300 255 96 55 pint:PI0945|5end_sodium:solute_symporter_family_protein_876249..876479_POSITIVE 327 76 31 137 96 pint:PI1618|5end_hypothetical_protein_1542670..1542900_POSITIVE 322 70 26 160 115 pint:PI2097|5end_conserved_hypothetical_protein_2050912..2051142_POSITIVE 322 68 23 114 74 pint:PI0759|5end_hypothetical_protein_693763..693993_POSITIVE 319 284 243 101 54 pint:PI1535|5end_response_regulator_1454096..1454326_POSITIVE 317 66 22 185 143 pint:PI0938|5end_hypothetical_protein_869345..869575_POSITIVE 317 66 22 75 33 pint:PI0937|5end_hypothetical_protein_869235..869465_POSITIVE 312 79 31 171 119 pint:PI1639|5end_conserved_hypothetical_protein_1556725..1556955_POSITIVE 307 290 243 198 151 pint:PI1448|5end_hypothetical_protein_1371579..1371809_POSITIVE 304 304 263 88 36 pint:PI0824|5end_large_conductance_mechanosensitive_channel_protein_763337..763567_POSITIVE 303 290 242 153 104 pint:PI1575|5end_LemA_protein_1501143..1501373_POSITIVE 303 295 251 91 38 pint:PI0751|5end_conserved_hypothetical_protein_680623..680853_POSITIVE 303 284 245 78 27 pint:PI0723|5end_conserved_hypothetical_protein_656043..656273_POSITIVE 298 357 316 178 131 pint:PI0932|5end_conserved_hypothetical_protein;_possible_hemin_receptor_863854..864084_POSITIVE 296 304 261 176 131 pint:PI0454|5end_hypothetical_protein_426653..426883_POSITIVE 293 80 32 208 153 pint:PI0737|5end_hypothetical_protein_671182..671412_POSITIVE 291 298 253 74 28 pint:PI2052|5end_hypothetical_protein_2008594..2008824_POSITIVE 290 298 256 203 158 pint:PI1421|5end_hypothetical_protein_1341801..1342031_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 412 75 31 65 18 pint:PI1708|3end_hypothetical_protein_1625562..1625712_POSITIVE 371 79 35 79 30 pint:PI0411|3end_conserved_hypothetial_protein;_possible_hydrolase_379828..379978_POSITIVE 327 76 31 56 15 pint:PI1616|3end_hypothetical_protein_1542669..1542819_POSITIVE 322 70 26 52 7 pint:PI2096|3end_conserved_hypothetical_protein;_possible_phosphoesterase_2050884..2051034_POSITIVE 319 284 243 91 44 pint:PI1534|3end_ATPase/GTPase_1454166..1454316_POSITIVE 279 300 253 126 89 pint:PI1574|3end_conserved_hypothetical_protein_1501226..1501376_POSITIVE 277 310 265 112 55 pint:PI0782|3end_beta-lactamase_induction_signal_transducer,_AmpG_protein_721927..722077_POSITIVE 275 79 41 150 107 pint:PI0011|3end_conserved_hypothetical_protein_13328..13478_POSITIVE 266 90 47 44 1 pint:PI1541|3end_hypothetical_protein_1461884..1462034_POSITIVE 264 305 263 46 10 pint:PI2016|3end_ribosomal_large_subunit_pseudouridine_synthase_D_1974933..1975083_POSITIVE 264 283 242 86 34 pint:PI0838|3end_DNA_replication_and_repair_protein_773927..774077_POSITIVE 260 300 264 52 17 pint:PI1692|3end_alanine_racemase_1608248..1608398_POSITIVE 259 292 255 71 32 pint:PI0706|3end_pyridoxal_phosphate_biosynthetic_protein_(4-hydroxythreonine-4-phosphate_dehydrogenase)_643394..643544_POSITIVE 258 84 48 109 65 pint:PI1761|3end_hypothetical_protein_1684543..1684693_POSITIVE 257 88 53 150 114 pint:PI1739|3end_Na+-driven_multidrug_efflux_pump,_MATE_efflux_family_protein_1661645..1661795_POSITIVE 256 110 61 103 41 pint:PI2146|3end_prolipoprotein_diacylglyceryl_transferase_2093321..2093471_POSITIVE 256 310 266 84 41 pint:PI1898|3end_S-adenosyl-methyltransferase_1842444..1842594_POSITIVE 247 66 28 55 12 pint:PI0264|3end_transfer_region-related_protein,_TraN_257371..257521_POSITIVE 245 64 25 100 67 pint:PI1663|3end_hypothetical_protein_1577347..1577497_POSITIVE 244 65 24 113 75 pint:PI0821|3end_conserved_hypothetical_protein_761213..761363_POSITIVE