Origin IGS: tagttatcactttttaacagaattatctttacaaagctgtaccaaaaagccttcactgcttcattaacgttgtgctaagtttcaacaagcctcacgaatgactattataaaagcaaagagacgaaaccttgtatggtttcgtctcttttttattttcattttcctgcacacctacaccgtaatta .........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 taattacggtgtaggtgtgcaggaaaatgaaaataaaaaagagacgaaaccatacaaggtttcgtctctttgcttttataatagtcattcgtgaggcttgttgaaacttagcacaacgttaatgaagcagtgaaggctttttggtacagctttgtaaagataattctgttaaaaagtgataacta Mask Tandem Repeat Region ================================================ tagttatcactttttaacagaattatctttacaaagctgtaccaaaaagccttcactgcttcattaacgttgtgctaagtttcaacaagcctcacgaatgactattataaaagcaaagagacgaaaccttgtatggtttcgtctcttttttattttcattttcctgcacacctacaccgtaatta Find is-nt database================================================ Query_seq: PI1922:PI1923|PI1922:PI1923:hypothetical protein:conserved hypothetical protein:->->:1865515..1865699 185 tagttatcactttttaacagaattatctttacaaagctgtaccaaaaagccttcactgcttcattaacgttgtgctaagtttcaacaagcctcacgaatgactattataaaagcaaagagacgaaaccttgtatggtttcgtctcttttttattttcattttcctgcacacctacaccgtaatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1922:PI1923|PI1922:PI1923:hypothetical protein:conserved hypothetical protein:->->:1865515..1865699 185 tagttatcactttttaacagaattatctttacaaagctgtaccaaaaagccttcactgcttcattaacgttgtgctaagtttcaacaagcctcacgaatgactattataaaagcaaagagacgaaaccttgtatggtttcgtctcttttttattttcattttcctgcacacctacaccgtaatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1922:PI1923|PI1922:PI1923:hypothetical protein:conserved hypothetical protein:->->:1865515..1865699 185 tagttatcactttttaacagaattatctttacaaagctgtaccaaaaagccttcactgcttcattaacgttgtgctaagtttcaacaagcctcacgaatgactattataaaagcaaagagacgaaaccttgtatggtttcgtctcttttttattttcattttcctgcacacctacaccgtaatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tagttatcactttttaacagaattatctttacaaagctgtaccaaaaagccttcactgcttcattaacgttgtgctaagtttcaacaagcctcacgaatgactattataaaagcaaagagacgaaaccttgtatggtttcgtctcttttttattttcattttcctgcacacctacaccgtaatta Predict ORF larger than 30AA ================================================ tagttatcactttttaacagaattatctttacaaagctgtaccaaaaagccttcactgcttcattaacgttgtgctaagtttcaacaagcctcacgaatgactattataaaagcaaagagacgaaaccttgtatggtttcgtctcttttttattttcattttcctgcacacctacaccgtaatta 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================================================ tagttatcactttttaacagaattatctttacaaagctgtaccaaaaagccttcactgcttcattaacgttgtgctaagtttcaacaagcctcacgaatgactattataaaagcaaagagacgaaaccttgtatggtttcgtctcttttttattttcattttcctgcacacctacaccgtaatta Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 100 HP_score: -14.3 Tail_Score: -5.85244 Start: 118 End: 145 Full_Region: TATTATAAAAGCAAA GAGACGAAACC TTGTAT GGTTTCGTCTC TTTTTTATTTTCATT .....................................................................................................................GAGACGAAACCTTGTATGGTTTCGTCTC........................................ TransTerm Strand: - Conf: 100 HP_score: -14.3 Tail_Score: -4.28487 Start: 118 End: 145 Full_Region: aatgaaaataaaaaa gagacgaaacc atacaa ggtttcgtctc tttgcttttataata .....................................................................................................................gagacgaaaccatacaaggtttcgtctc........................................ Find igs database================================================ Query_seq: PI1922:PI1923|PI1922:PI1923:hypothetical protein:conserved hypothetical protein:->->:1865515..1865699 185 tagttatcactttttaacagaattatctttacaaagctgtaccaaaaagccttcactgcttcattaacgttgtgctaagtttcaacaagcctcacgaatgactattataaaagcaaagagacgaaaccttgtatggtttcgtctcttttttattttcattttcctgcacacctacaccgtaatta Intra-Species Hit: Count: 1 Min: 1 Max: 145 Len: 145 Subject: pint_PI1922_PI1923|hypothetical protein:conserved hypothetical protein|POSITIVE:POSITIVE|[1865515,1865699]|185 HSP 1 e-value: 6.0E-77 bit: 287.0 Len: 145 Query Start:1 Query End:145 Subject Strand: POSITIVE Subject Start: 1 Subject End: 145 tagttatcactttttaacagaattatctttacaaagctgtaccaaaaagccttcactgcttcattaacgttgtgctaagtttcaacaagcctcacgaatgactattataaaagcaaagagacgaaaccttgtatggtttcgtctc........................................ tagttatcactttttaacagaattatctttacaaagctgtaccaaaaagccttcactgcttcattaacgttgtgctaagtttcaacaagcctcacgaatgactattataaaagcaaagagacgaaaccttgtatggtttcgtctc........................................ Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGUUAUCACUUUUUAACAGAAUUAUCUUUACAAAGCUGUACCAAAAAGCCUUCACUGCUUCAUUAACGUUGUGCUAAGUUUCAACAAGCCUCACGAAUGACUAUUAUAAAAGCAAAGAGACGAAACCUUGUAUGGUUUCGUCUC ((((((((.((((((.((((..((........))..))))...))))))........((((....(((..........))).....)))).....).))))))).............(((((((((((......))))))))))) (-28.80) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GAGACGAAACCAUACAAGGUUUCGUCUCUUUGCUUUUAUAAUAGUCAUUCGUGAGGCUUGUUGAAACUUAGCACAACGUUAAUGAAGCAGUGAAGGCUUUUUGGUACAGCUUUGUAAAGAUAAUUCUGUUAAAAAGUGAUAACUA (((((((((((......)))))))))))...((((((((.....((((((((...(((.((....))..)))...)))..)))))....))))))))....((((...(((((....(((....))).....)))))....)))) (-41.20) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 401 50 2 61 1 pint:PI1072|5end_hypothetical_protein_990220..990450_POSITIVE 378 56 11 133 88 pint:PI0568|5end_hypothetical_protein_512950..513180_POSITIVE 376 39 2 133 92 pint:PI1702|5end_hypothetical_protein_1620587..1620817_POSITIVE 363 40 3 38 1 pint:PI1308|5end_hypothetical_protein_1223419..1223649_POSITIVE 306 38 2 60 20 pint:PI1540|5end_hypothetical_protein_1461362..1461592_POSITIVE 285 37 2 74 34 pint:PI1041|5end_hypothetical_protein_960443..960673_POSITIVE 275 74 34 173 140 pint:PI0676|5end_hypothetical_protein_614576..614806_POSITIVE 275 77 36 213 170 pint:PI0092|5end_regulatory_protein_RecX_89080..89310_POSITIVE 267 91 51 73 30 pint:PI1935|5end_possible__internalin-related_protein_1883324..1883554_POSITIVE 265 34 2 191 154 pint:PI1371|5end_hypothetical_protein_1292359..1292589_POSITIVE 262 94 51 173 135 pint:PI0427|5end_conserved_hypothetical_protein_391140..391370_POSITIVE 261 38 7 179 142 pint:PI0867|5end_hypothetical_protein_803859..804089_POSITIVE 261 38 7 96 59 pint:PI0866|5end_hypothetical_protein_803776..804006_POSITIVE 261 40 2 141 97 pint:PI0037|5end_hypothetical_protein_39354..39584_POSITIVE 259 97 52 57 23 pint:PI0146|5end_transcription_elongation_factor_140338..140568_POSITIVE 257 83 42 228 192 pint:PI1697|5end_conserved_hypothetical_protein_1612217..1612447_POSITIVE 253 75 32 166 121 pint:PI0654|5end_K+-dependent_Na+/Ca+_exchanger_related-protein_596283..596513_POSITIVE 252 90 49 77 27 pint:PI1461|5end_conserved_hypothetical_protein_1384364..1384594_POSITIVE 251 90 43 51 7 pint:PI1045|5end_cytidine/deoxycytidylate_deaminase_family_protein_965104..965334_POSITIVE 250 90 49 187 150 pint:PI1364|5end_dipeptidyl_peptidase_IV_1281862..1282092_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 418 60 11 56 7 pint:PI1379|3end_hypothetical_protein_1302292..1302442_POSITIVE 350 66 21 47 2 pint:PI1881|3end_ISPg3-related_transposase_1824530..1824680_POSITIVE 338 38 2 43 2 pint:PI0010|3end_conserved_hypothetical_protein_11679..11829_POSITIVE 317 40 6 35 1 pint:PI1307|3end_possible_Fe-S_oxidoreductase_1223496..1223646_POSITIVE 256 48 2 151 98 pint:PI0567|3end_hypothetical_protein_513055..513205_POSITIVE 252 90 49 69 19 pint:PI1460|3end_ribonucleotide_reductase,_alpha_subunit,_N-terminal_region_1384436..1384586_POSITIVE 250 90 49 58 21 pint:PI1362|3end_60Kd_inner_membrane_protein_1281813..1281963_POSITIVE 248 80 33 113 68 pint:PI0184|3end_possible_fibronectin_type_III_domain_protein_176516..176666_POSITIVE 247 130 81 83 28 pint:PI1726|3end_ATP-dependent_DNA_helicase_1645542..1645692_POSITIVE 246 139 98 151 106 pint:PI0720|3end_conserved_hypothetical_protein_654460..654610_POSITIVE 240 90 41 53 7 pint:PI1231|3end_hypothetical_protein_1153464..1153614_POSITIVE 237 90 44 104 51 pint:PI0037|3end_hypothetical_protein_39616..39766_POSITIVE 236 39 15 24 1 pint:PI1701|3end_sensor_histidine_kinase_1620558..1620708_POSITIVE 236 78 32 37 2 pint:PI0472|3end_50S_ribosomal_protein_L5_438705..438855_POSITIVE 225 96 68 134 106 pint:PI0125|3end_undecaprenyl_pyrophosphate_synthase_117890..118040_POSITIVE 222 73 35 131 92 pint:PI1880|3end_phosphoenolpyruvate_carboxykinase_(ATP)_1823300..1823450_POSITIVE 222 103 61 150 106 pint:PI1224|3end_sensor_histidine_kinase_and_response_regulator_1147557..1147707_POSITIVE 220 84 41 139 90 pint:PI0473|3end_30S_ribosomal_protein_S14_439013..439163_POSITIVE 219 73 48 130 98 pint:PI0892|3end_acyl-ACP_thioesterase_823939..824089_POSITIVE 219 100 68 33 3 pint:PI0040|3end_conserved_hypothetical_protein_(possible_integral_membrane_protein)_41872..42022_POSITIVE