Origin IGS: tgaataatttataggtgaatagaatataaaagaaaaagtttcaatttgttagcatattgctgcttctgttatctttacgagttttgaaagcacgtcgaagaaaaacagtggtgagagaaatgaaatttaccaacatcttgaactaaacataaagagacaaacataaaatcagcacggcgcctatattaatgtatagacgtgcaagttaattaattaataacaaaagtataagaacg .........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 cgttcttatacttttgttattaattaattaacttgcacgtctatacattaatataggcgccgtgctgattttatgtttgtctctttatgtttagttcaagatgttggtaaatttcatttctctcaccactgtttttcttcgacgtgctttcaaaactcgtaaagataacagaagcagcaatatgctaacaaattgaaactttttcttttatattctattcacctataaattattca Mask Tandem Repeat Region ================================================ tgaataatttataggtgaatagaatataaaagaaaaagtttcaatttgttagcatattgctgcttctgttatctttacgagttttgaaagcacgtcgaagaaaaacagtggtgagagaaatgaaatttaccaacatcttgaactaaacataaagagacaaacataaaatcagcacggcgcctatattaatgtatagacgtgcaagttaattaattaataacaaaagtataagaacg Find is-nt database================================================ Query_seq: PI0619:PI0620|PI0619:PI0620:hypothetical protein:hypothetical protein:->->:569633..569868 236 tgaataatttataggtgaatagaatataaaagaaaaagtttcaatttgttagcatattgctgcttctgttatctttacgagttttgaaagcacgtcgaagaaaaacagtggtgagagaaatgaaatttaccaacatcttgaactaaacataaagagacaaacataaaatcagcacggcgcctatattaatgtatagacgtgcaagttaattaattaataacaaaagtataagaacg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0619:PI0620|PI0619:PI0620:hypothetical protein:hypothetical protein:->->:569633..569868 236 tgaataatttataggtgaatagaatataaaagaaaaagtttcaatttgttagcatattgctgcttctgttatctttacgagttttgaaagcacgtcgaagaaaaacagtggtgagagaaatgaaatttaccaacatcttgaactaaacataaagagacaaacataaaatcagcacggcgcctatattaatgtatagacgtgcaagttaattaattaataacaaaagtataagaacg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0619:PI0620|PI0619:PI0620:hypothetical protein:hypothetical protein:->->:569633..569868 236 tgaataatttataggtgaatagaatataaaagaaaaagtttcaatttgttagcatattgctgcttctgttatctttacgagttttgaaagcacgtcgaagaaaaacagtggtgagagaaatgaaatttaccaacatcttgaactaaacataaagagacaaacataaaatcagcacggcgcctatattaatgtatagacgtgcaagttaattaattaataacaaaagtataagaacg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tgaataatttataggtgaatagaatataaaagaaaaagtttcaatttgttagcatattgctgcttctgttatctttacgagttttgaaagcacgtcgaagaaaaacagtggtgagagaaatgaaatttaccaacatcttgaactaaacataaagagacaaacataaaatcagcacggcgcctatattaatgtatagacgtgcaagttaattaattaataacaaaagtataagaacg Predict ORF larger than 30AA ================================================ Protein_Len: 30 Strand: + Start: 54 End: 143 ..................................................... M L L L L L S L R V L K A R R R K T V V R E M K F T N I L N ............................................................................................. Protein_Len: 36 Strand: + Start: 56 End: 163 ....................................................... M A A S V I F T S F E S T S K K N S G E R N E I Y Q H L E L N I K R Q T ......................................................................... Protein_Len: 31 Strand: - Start: 44 End: 136 ........................................... N T L M N S S R N D K R T K F A R R L F V T T L S I F N V L M .................................................................................................... tgaataatttataggtgaatagaatataaaagaaaaagtttcaatttgttagcatattgctgcttctgttatctttacgagttttgaaagcacgtcgaagaaaaacagtggtgagagaaatgaaatttaccaacatcttgaactaaacataaagagacaaacataaaatcagcacggcgcctatattaatgtatagacgtgcaagttaattaattaataacaaaagtataagaacg 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================================================ tgaataatttataggtgaatagaatataaaagaaaaagtttcaatttgttagcatattgctgcttctgttatctttacgagttttgaaagcacgtcgaagaaaaacagtggtgagagaaatgaaatttaccaacatcttgaactaaacataaagagacaaacataaaatcagcacggcgcctatattaatgtatagacgtgcaagttaattaattaataacaaaagtataagaacg Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI0619:PI0620|PI0619:PI0620:hypothetical protein:hypothetical protein:->->:569633..569868 236 tgaataatttataggtgaatagaatataaaagaaaaagtttcaatttgttagcatattgctgcttctgttatctttacgagttttgaaagcacgtcgaagaaaaacagtggtgagagaaatgaaatttaccaacatcttgaactaaacataaagagacaaacataaaatcagcacggcgcctatattaatgtatagacgtgcaagttaattaattaataacaaaagtataagaacg Intra-Species Hit: Count: 1 Min: 1 Max: 236 Len: 236 Subject: pint_PI0619_PI0620|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[569633,569868]|236 HSP 1 e-value: 1.0E-131 bit: 468.0 Len: 236 Query Start:1 Query End:236 Subject Strand: POSITIVE Subject Start: 1 Subject End: 236 tgaataatttataggtgaatagaatataaaagaaaaagtttcaatttgttagcatattgctgcttctgttatctttacgagttttgaaagcacgtcgaagaaaaacagtggtgagagaaatgaaatttaccaacatcttgaactaaacataaagagacaaacataaaatcagcacggcgcctatattaatgtatagacgtgcaagttaattaattaataacaaaagtataagaacg tgaataatttataggtgaatagaatataaaagaaaaagtttcaatttgttagcatattgctgcttctgttatctttacgagttttgaaagcacgtcgaagaaaaacagtggtgagagaaatgaaatttaccaacatcttgaactaaacataaagagacaaacataaaatcagcacggcgcctatattaatgtatagacgtgcaagttaattaattaataacaaaagtataagaacg Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAAUAAUUUAUAGGUGAAUAGAAUAUAAAAGAAAAAGUUUCAAUUUGUUAGCAUAUUGCUGCUUCUGUUAUCUUUACGAGUUUUGAAAGCACGUCGAAGAAAAACAGUGGUGAGAGAAAUGAAAUUUACCAACAUCUUGAACUAAACAUAAAGAGACAAACAUAAAAUCAGCACGGCGCCUAUAUUAAUGUAUAGACGUGCAAGUUAAUUAAUUAAUAACAAAAGUAUAAGAACG .............(((((((...............((((..((((.((....)).))))..))))(((((.((((((((.(((.....))).))).)))))..)))))................)))))))....(((((.(((...........................(((((....((((((....)))))).)))))..((((.........))))...))).)))))... (-40.90) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CGUUCUUAUACUUUUGUUAUUAAUUAAUUAACUUGCACGUCUAUACAUUAAUAUAGGCGCCGUGCUGAUUUUAUGUUUGUCUCUUUAUGUUUAGUUCAAGAUGUUGGUAAAUUUCAUUUCUCUCACCACUGUUUUUCUUCGACGUGCUUUCAAAACUCGUAAAGAUAACAGAAGCAGCAAUAUGCUAACAAAUUGAAACUUUUUCUUUUAUAUUCUAUUCACCUAUAAAUUAUUCA .(((.(((....(((((((..................((((((((......))))))))...(((((.((((.((((....((((((((........((((((((((..((...((.............))...))..))))))).)))........)))))))).)))))))))))))......))))))).))))))..................................... (-34.31) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 335 110 63 85 27 pint:PI2148|5end_ribonuclease_III_2094505..2094735_POSITIVE 301 129 81 204 149 pint:PI0724|5end_DNA_polymerase_III,_delta_subunit_657403..657633_POSITIVE 300 144 104 117 73 pint:PI1043|5end_conserved_hypothetical_protein_960855..961085_POSITIVE 279 98 52 175 131 pint:PI1493|5end_conserved_hypothetical_protein_1412268..1412498_POSITIVE 278 120 75 138 85 pint:PI1175|5end_conserved_hypothetical_protein_1097372..1097602_POSITIVE 267 95 52 151 112 pint:PI1516|5end_multidrug_resistance_protein;_HlyD_family_secretion_protein_1434381..1434611_POSITIVE 264 98 53 138 89 pint:PI1623|5end_hypothetical_protein_1547163..1547393_POSITIVE 263 60 13 194 144 pint:PI0269|5end_conserved_hypothetical_protein_259835..260065_POSITIVE 262 97 52 83 42 pint:PI1401|5end_TPR-repeat-containing_protein_1322027..1322257_POSITIVE 258 203 170 184 148 pint:PI0520|5end_hypothetical_protein_478755..478985_POSITIVE 257 207 170 190 145 pint:PI0734|5end_ABC_transporter,_ATP-binding_/_permease_667052..667282_POSITIVE 257 120 86 53 23 pint:PI0608|5end_isochorismate_synthase_555487..555717_POSITIVE 256 100 52 157 109 pint:PI1651|5end_hypothetical_protein_1563845..1564075_POSITIVE 254 114 78 40 5 pint:PI1912|5end_possible_DNA_repair_protein_1856364..1856594_POSITIVE 254 79 31 206 162 pint:PI1671|5end_hypothetical_protein_1586397..1586627_POSITIVE 251 96 52 204 156 pint:PI1480|5end_xanthine/uracil_permease_family_protein_1402675..1402905_POSITIVE 250 100 57 88 29 pint:PI1763|5end_two-component_system_sensor_histidine_kinase/response_regulator_1685877..1686107_POSITIVE 250 96 57 46 4 pint:PI0838|5end_DNA_replication_and_repair_protein_772699..772929_POSITIVE 250 203 174 34 3 pint:PI0135|5end_internalin-related_protein_125849..126079_POSITIVE 248 203 161 105 66 pint:PI1008|5end_cytochrome_c_nitrite_reductase,_small_subunit_928784..929014_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 301 129 81 100 45 pint:PI0723|3end_conserved_hypothetical_protein_657379..657529_POSITIVE 294 99 52 58 12 pint:PI0053|3end_hypothetical_protein_55124..55274_POSITIVE 279 98 52 137 93 pint:PI1492|3end_triosephosphate_isomerase_1412310..1412460_POSITIVE 264 98 53 125 76 pint:PI1622|3end_hypothetical_protein_1547230..1547380_POSITIVE 264 118 77 125 81 pint:PI0701|3end_hypothetical_protein_638537..638687_POSITIVE 263 60 13 69 19 pint:PI0268|3end_lysozyme-related_protein_259790..259940_POSITIVE 259 96 51 151 97 pint:PI1835|3end_L-asparaginase_I_1777276..1777426_POSITIVE 257 120 86 34 4 pint:PI0607|3end_2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxy_lic_acid_synthase/2-oxoglutarate_decarboxylase_555548..555698_POSITIVE 256 100 52 133 85 pint:PI1650|3end_N-acetylmuramoyl-L-alanine_amidase_1563901..1564051_POSITIVE 248 96 57 147 104 pint:PI0700|3end_UDP-glucose_4-epimerase_638413..638563_POSITIVE 244 108 61 82 28 pint:PI0432|3end_hypothetical_protein_405037..405187_POSITIVE 244 108 61 118 64 pint:PI0433|3end_hypothetical_protein_405073..405223_POSITIVE 243 100 58 49 7 pint:PI1575|3end_LemA_protein_1501852..1502002_POSITIVE 242 100 52 88 29 pint:PI0684|3end_coproporphyrinogen_III_oxidase_620507..620657_POSITIVE 241 100 59 151 121 pint:PI1574|3end_conserved_hypothetical_protein_1501226..1501376_POSITIVE 241 115 74 126 79 pint:PI0556|3end_saccharopine_dehydrogenase_506160..506310_POSITIVE 235 182 141 40 2 pint:PI0562|3end_conserved_hypothetical_protein_510198..510348_POSITIVE 234 109 65 148 105 pint:PI1828|3end_peptidase,_M23/M37_family,_C-terminal_1769089..1769239_POSITIVE 233 117 71 50 5 pint:PI1735|3end_conserved_hypothetical_protein_1654323..1654473_POSITIVE 229 120 71 62 13 pint:PI0217|3end_conserved_hypothetical_protein;_possible_lipoprotein_210794..210944_POSITIVE