Origin IGS: taatgctatcccatcttatataattaggatacacaaacatcgccaaaagcgtttcgcattcggcatattgccgagtatatagagcaagtctcggcggtatgataccgctgaacaacagtcgccattaggcttgtggcgcacccatagcctctcgcaatgcgaggggcttttttatataataacccctaatactattgtaaatatttttcacaaacatatttctatcttaattgcctaactatca .........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 tgatagttaggcaattaagatagaaatatgtttgtgaaaaatatttacaatagtattaggggttattatataaaaaagcccctcgcattgcgagaggctatgggtgcgccacaagcctaatggcgactgttgttcagcggtatcataccgccgagacttgctctatatactcggcaatatgccgaatgcgaaacgcttttggcgatgtttgtgtatcctaattatataagatgggatagcatta Mask Tandem Repeat Region ================================================ taatgctatcccatcttatataattaggatacacaaacatcgccaaaagcgtttcgcattcggcatattgccgagtatatagagcaagtctcggcggtatgataccgctgaacaacagtcgccattaggcttgtggcgcacccatagcctctcgcaatgcgaggggcttttttatataataacccctaatactattgtaaatatttttcacaaacatatttctatcttaattgcctaactatca Find is-nt database================================================ Query_seq: PI1527:PI1528|PI1527:PI1528:immunoreactive 46 kDa antigen PG99:hypothetical protein:->->:1449581..1449824 244 taatgctatcccatcttatataattaggatacacaaacatcgccaaaagcgtttcgcattcggcatattgccgagtatatagagcaagtctcggcggtatgataccgctgaacaacagtcgccattaggcttgtggcgcacccatagcctctcgcaatgcgaggggcttttttatataataacccctaatactattgtaaatatttttcacaaacatatttctatcttaattgcctaactatca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1527:PI1528|PI1527:PI1528:immunoreactive 46 kDa antigen PG99:hypothetical protein:->->:1449581..1449824 244 taatgctatcccatcttatataattaggatacacaaacatcgccaaaagcgtttcgcattcggcatattgccgagtatatagagcaagtctcggcggtatgataccgctgaacaacagtcgccattaggcttgtggcgcacccatagcctctcgcaatgcgaggggcttttttatataataacccctaatactattgtaaatatttttcacaaacatatttctatcttaattgcctaactatca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1527:PI1528|PI1527:PI1528:immunoreactive 46 kDa antigen PG99:hypothetical protein:->->:1449581..1449824 244 taatgctatcccatcttatataattaggatacacaaacatcgccaaaagcgtttcgcattcggcatattgccgagtatatagagcaagtctcggcggtatgataccgctgaacaacagtcgccattaggcttgtggcgcacccatagcctctcgcaatgcgaggggcttttttatataataacccctaatactattgtaaatatttttcacaaacatatttctatcttaattgcctaactatca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taatgctatcccatcttatataattaggatacacaaacatcgccaaaagcgtttcgcattcggcatattgccgagtatatagagcaagtctcggcggtatgataccgctgaacaacagtcgccattaggcttgtggcgcacccatagcctctcgcaatgcgaggggcttttttatataataacccctaatactattgtaaatatttttcacaaacatatttctatcttaattgcctaactatca Predict ORF larger than 30AA ================================================ Protein_Len: 35 Strand: + Start: 131 End: 235 .................................................................................................................................. M W R T H S L S Q C E G L F Y I I T P N T I V N I F H K H I S I L I A ......... Protein_Len: 30 Strand: - Start: 128 End: 217 ............................................................................................................................... A Q P A G M A E R L A L P K K I Y Y G R I S N Y I N K V F M ........................... Protein_Len: 44 Strand: - Start: 27 End: 158 .......................... S V C V D G F A N R M R C I A S Y I S C T E A T H Y R Q V V T A M L S T A C G Y G R A M ...................................................................................... Protein_Len: 41 Strand: - Start: 19 End: 141 .................. I I L I C L C R W F R K A N P M N G L I Y L L D R R Y S V A S C C D G N P K H R M ....................................................................................................... Protein_Len: 39 Strand: - Start: 2 End: 118 . I S D W R I Y N P Y V F M A L L T E C E A Y Q R T Y L A L R P P I I G S F L M .............................................................................................................................. taatgctatcccatcttatataattaggatacacaaacatcgccaaaagcgtttcgcattcggcatattgccgagtatatagagcaagtctcggcggtatgataccgctgaacaacagtcgccattaggcttgtggcgcacccatagcctctcgcaatgcgaggggcttttttatataataacccctaatactattgtaaatatttttcacaaacatatttctatcttaattgcctaactatca 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================================================ taatgctatcccatcttatataattaggatacacaaacatcgccaaaagcgtttcgcattcggcatattgccgagtatatagagcaagtctcggcggtatgataccgctgaacaacagtcgccattaggcttgtggcgcacccatagcctctcgcaatgcgaggggcttttttatataataacccctaatactattgtaaatatttttcacaaacatatttctatcttaattgcctaactatca Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 100 HP_score: -14.7 Tail_Score: -5.39721 Start: 147 End: 167 Full_Region: TGTGGCGCACCCATA GCCTCTCGC AAT GCGAGGGGC TTTTTTATATAATAA ..................................................................................................................................................GCCTCTCGCAATGCGAGGGGC............................................................................. Find igs database================================================ Query_seq: PI1527:PI1528|PI1527:PI1528:immunoreactive 46 kDa antigen PG99:hypothetical protein:->->:1449581..1449824 244 taatgctatcccatcttatataattaggatacacaaacatcgccaaaagcgtttcgcattcggcatattgccgagtatatagagcaagtctcggcggtatgataccgctgaacaacagtcgccattaggcttgtggcgcacccatagcctctcgcaatgcgaggggcttttttatataataacccctaatactattgtaaatatttttcacaaacatatttctatcttaattgcctaactatca Intra-Species Hit: Count: 1 Min: 1 Max: 244 Len: 244 Subject: pint_PI1527_PI1528|immunoreactive 46 kDa antigen PG99:hypothetical protein|POSITIVE:POSITIVE|[1449581,1449824]|244 HSP 1 e-value: 1.0E-136 bit: 484.0 Len: 244 Query Start:1 Query End:244 Subject Strand: POSITIVE Subject Start: 1 Subject End: 244 taatgctatcccatcttatataattaggatacacaaacatcgccaaaagcgtttcgcattcggcatattgccgagtatatagagcaagtctcggcggtatgataccgctgaacaacagtcgccattaggcttgtggcgcacccatagcctctcgcaatgcgaggggcttttttatataataacccctaatactattgtaaatatttttcacaaacatatttctatcttaattgcctaactatca taatgctatcccatcttatataattaggatacacaaacatcgccaaaagcgtttcgcattcggcatattgccgagtatatagagcaagtctcggcggtatgataccgctgaacaacagtcgccattaggcttgtggcgcacccatagcctctcgcaatgcgaggggcttttttatataataacccctaatactattgtaaatatttttcacaaacatatttctatcttaattgcctaactatca Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUGCUAUCCCAUCUUAUAUAAUUAGGAUACACAAACAUCGCCAAAAGCGUUUCGCAUUCGGCAUAUUGCCGAGUAUAUAGAGCAAGUCUCGGCGGUAUGAUACCGCUGAACAACAGUCGCCAUUAGGCUUGUGGCGCACCCAUAGCCUCUCGCAAUGCGAGGGGCUUUUUUAUAUAAUAACCCCUAAUACUAUUGUAAAUAUUUUUCACAAACAUAUUUCUAUCUUAAUUGCCUAACUAUCA ....................(((((((((((.........(((((.((((.(...((.((((((.....))))))............((.(((((((((...))))))))))).......))....).)))).))))).......((((((((((...))))))))))......(((((((...........))))))).......................)))))))))))........... (-63.80) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAUAGUUAGGCAAUUAAGAUAGAAAUAUGUUUGUGAAAAAUAUUUACAAUAGUAUUAGGGGUUAUUAUAUAAAAAAGCCCCUCGCAUUGCGAGAGGCUAUGGGUGCGCCACAAGCCUAAUGGCGACUGUUGUUCAGCGGUAUCAUACCGCCGAGACUUGCUCUAUAUACUCGGCAAUAUGCCGAAUGCGAAACGCUUUUGGCGAUGUUUGUGUAUCCUAAUUAUAUAAGAUGGGAUAGCAUUA .....((((..(............(((((..(((((((.....)))))))..)))))........((((((((...((((.(((((...))))).))))..((((((((.(((.(((....((((...((..(((.((((((...)))))).)))....)).........(((((.....)))))........))))...)))..)))..))))))))...))))))))....)..)))).... (-69.00) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 401 140 92 149 98 pint:PI0734|5end_ABC_transporter,_ATP-binding_/_permease_667052..667282_POSITIVE 396 99 51 74 12 pint:PI0605|5end_chloromuconate_cycloisomerase_551912..552142_POSITIVE 394 140 97 56 7 pint:PI0005|5end_hypothetical_protein_6984..7214_POSITIVE 388 168 127 66 23 pint:PI1823|5end_inorganic_polyphosphate/ATP-NAD_kinase_(Poly(P)/ATP_NAD_kinase)_1763238..1763468_POSITIVE 387 167 121 58 18 pint:PI0260|5end_conjugative_transposon_protein,_TraJ_253023..253253_POSITIVE 382 168 121 181 130 pint:PI0088|5end_S-adenosylmethionine_synthetase_86663..86893_POSITIVE 378 167 126 136 92 pint:PI0867|5end_hypothetical_protein_803859..804089_POSITIVE 378 167 126 53 9 pint:PI0866|5end_hypothetical_protein_803776..804006_POSITIVE 378 167 126 77 33 pint:PI0089|5end_hypothetical_protein_88162..88392_POSITIVE 376 167 121 218 178 pint:PI0655|5end_Na+/H+_anitporter_597290..597520_POSITIVE 370 167 121 215 156 pint:PI0355|5end_probable__N-acetylmuramoyl-L-alanine_amidase_326157..326387_POSITIVE 364 140 91 106 43 pint:PI1920|5end_hypothetical_protein_1864944..1865174_POSITIVE 364 159 116 216 160 pint:PI0266|5end_DNA_primase_(bacterial_type)_257931..258161_POSITIVE 362 170 127 211 164 pint:PI0784|5end_possible_amidase_enhancer_precursor_721892..722122_POSITIVE 361 149 103 198 146 pint:PI1628|5end_hypothetical_protein_1551082..1551312_POSITIVE 361 140 92 113 53 pint:PI1617|5end_hypothetical_protein_1542923..1543153_POSITIVE 359 167 121 51 3 pint:PI1480|5end_xanthine/uracil_permease_family_protein_1402675..1402905_POSITIVE 354 160 117 128 88 pint:PI0119|5end_hypothetical_protein_111506..111736_POSITIVE 351 169 121 69 27 pint:PI0139|5end_pyridoxine_biosynthesis_protein_131835..132065_POSITIVE 349 166 123 49 11 pint:PI1669|5end_hypothetical_protein_1581257..1581487_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 376 167 121 71 31 pint:PI0654|3end_K+-dependent_Na+/Ca+_exchanger_related-protein_597223..597373_POSITIVE 362 178 134 47 1 pint:PI1706|3end_GTP-binding_protein_1623668..1623818_POSITIVE 348 98 55 75 34 pint:PI1499|3end_hypothetical_protein_1420180..1420330_POSITIVE 346 119 72 78 28 pint:PI1224|3end_sensor_histidine_kinase_and_response_regulator_1147557..1147707_POSITIVE 337 167 127 107 64 pint:PI0311|3end_hypothetical_protein_294968..295118_POSITIVE 337 167 127 79 36 pint:PI0312|3end_hypothetical_protein_294940..295090_POSITIVE 333 167 123 81 26 pint:PI1136|3end_conserved_hypothetical_protein_1062541..1062691_POSITIVE 333 236 196 65 25 pint:PI0095|3end_hypothetical_protein_91850..92000_POSITIVE 332 133 91 151 99 pint:PI0036|3end_glutathione_peroxidase_39289..39439_POSITIVE 330 159 119 135 98 pint:PI1547|3end_hypothetical_protein_1466226..1466376_POSITIVE 327 139 93 75 17 pint:PI1734|3end_possible_carboxyl-terminal_protease-related_protein_1653829..1653979_POSITIVE 324 167 121 55 1 pint:PI1815|3end_polyphosphate-selective_porin_O_1754510..1754660_POSITIVE 322 109 63 87 38 pint:PI0249|3end_conserved_hypothetical_protein_247026..247176_POSITIVE 318 100 51 92 42 pint:PI0535|3end_hypothetical_protein_489779..489929_POSITIVE 317 98 54 55 8 pint:PI0698|3end_conserved_hypothetical_protein_636711..636861_POSITIVE 315 170 129 151 106 pint:PI1493|3end_conserved_hypothetical_protein_1412818..1412968_POSITIVE 314 167 126 102 58 pint:PI0567|3end_hypothetical_protein_513055..513205_POSITIVE 310 130 82 147 103 pint:PI0258|3end_conjugative_transposon_protein,_TraG_252285..252435_POSITIVE 309 167 127 43 2 pint:PI1479|3end_xanthine_phosphoribosyltransferase_1402747..1402897_POSITIVE 309 165 121 132 82 pint:PI0684|3end_coproporphyrinogen_III_oxidase_620507..620657_POSITIVE