Origin IGS: ctgttatttcttttttacgtgtacctattattataagagtgcaaagttacggcaacatattcggataacaaaataaaagcaaaagatttagattttattagaacctgaaactatttaggttcagtagaaattgattgaggagcaattttctttttacgactcaagtcagatactgaaaacaacttcgattttgtaaagataattctcta .........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 tagagaattatctttacaaaatcgaagttgttttcagtatctgacttgagtcgtaaaaagaaaattgctcctcaatcaatttctactgaacctaaatagtttcaggttctaataaaatctaaatcttttgcttttattttgttatccgaatatgttgccgtaactttgcactcttataataataggtacacgtaaaaaagaaataacag Mask Tandem Repeat Region ================================================ ctgttatttcttttttacgtgtacctattattataagagtgcaaagttacggcaacatattcggataacaaaataaaagcaaaagatttagattttattagaacctgaaactatttaggttcagtagaaattgattgaggagcaattttctttttacgactcaagtcagatactgaaaacaacttcgattttgtaaagataattctcta Find is-nt database================================================ Query_seq: PI0088:PI0089|PI0088:PI0089:S-adenosylmethionine synthetase:hypothetical protein:->->:88093..88301 209 ctgttatttcttttttacgtgtacctattattataagagtgcaaagttacggcaacatattcggataacaaaataaaagcaaaagatttagattttattagaacctgaaactatttaggttcagtagaaattgattgaggagcaattttctttttacgactcaagtcagatactgaaaacaacttcgattttgtaaagataattctcta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0088:PI0089|PI0088:PI0089:S-adenosylmethionine synthetase:hypothetical protein:->->:88093..88301 209 ctgttatttcttttttacgtgtacctattattataagagtgcaaagttacggcaacatattcggataacaaaataaaagcaaaagatttagattttattagaacctgaaactatttaggttcagtagaaattgattgaggagcaattttctttttacgactcaagtcagatactgaaaacaacttcgattttgtaaagataattctcta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0088:PI0089|PI0088:PI0089:S-adenosylmethionine synthetase:hypothetical protein:->->:88093..88301 209 ctgttatttcttttttacgtgtacctattattataagagtgcaaagttacggcaacatattcggataacaaaataaaagcaaaagatttagattttattagaacctgaaactatttaggttcagtagaaattgattgaggagcaattttctttttacgactcaagtcagatactgaaaacaacttcgattttgtaaagataattctcta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ctgttatttcttttttacgtgtacctattattataagagtgcaaagttacggcaacatattcggataacaaaataaaagcaaaagatttagattttattagaacctgaaactatttaggttcagtagaaattgattgaggagcaattttctttttacgactcaagtcagatactgaaaacaacttcgattttgtaaagataattctcta Predict ORF larger than 30AA ================================================ Protein_Len: 30 Strand: - Start: 114 End: 203 ................................................................................................................. K P E T S I S Q P A I K K K R S L D S V S F L K S K T F I M ...... ctgttatttcttttttacgtgtacctattattataagagtgcaaagttacggcaacatattcggataacaaaataaaagcaaaagatttagattttattagaacctgaaactatttaggttcagtagaaattgattgaggagcaattttctttttacgactcaagtcagatactgaaaacaacttcgattttgtaaagataattctcta Predict Promoter with matrix: RpoD-15 score > 80================================================ Predict Promoter with matrix: RpoD-16 score > 80================================================ Predict Promoter with matrix: RpoD-17 score > 80================================================ PromScan Matrix: RpoD-17 Strand: - Score: 83 Start: 27 End: 56 ..........................GTTGCCGTAACTTTGCACTCTTATAATAAT......................................................................................................................................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ ctgttatttcttttttacgtgtacctattattataagagtgcaaagttacggcaacatattcggataacaaaataaaagcaaaagatttagattttattagaacctgaaactatttaggttcagtagaaattgattgaggagcaattttctttttacgactcaagtcagatactgaaaacaacttcgattttgtaaagataattctcta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI0088:PI0089|PI0088:PI0089:S-adenosylmethionine synthetase:hypothetical protein:->->:88093..88301 209 ctgttatttcttttttacgtgtacctattattataagagtgcaaagttacggcaacatattcggataacaaaataaaagcaaaagatttagattttattagaacctgaaactatttaggttcagtagaaattgattgaggagcaattttctttttacgactcaagtcagatactgaaaacaacttcgattttgtaaagataattctcta Intra-Species Hit: Count: 1 Min: 1 Max: 209 Len: 209 Subject: pint_PI0088_PI0089|S-adenosylmethionine synthetase:hypothetical protein|POSITIVE:POSITIVE|[88093,88301]|209 HSP 1 e-value: 1.0E-115 bit: 414.0 Len: 209 Query Start:1 Query End:209 Subject Strand: POSITIVE Subject Start: 1 Subject End: 209 ctgttatttcttttttacgtgtacctattattataagagtgcaaagttacggcaacatattcggataacaaaataaaagcaaaagatttagattttattagaacctgaaactatttaggttcagtagaaattgattgaggagcaattttctttttacgactcaagtcagatactgaaaacaacttcgattttgtaaagataattctcta ctgttatttcttttttacgtgtacctattattataagagtgcaaagttacggcaacatattcggataacaaaataaaagcaaaagatttagattttattagaacctgaaactatttaggttcagtagaaattgattgaggagcaattttctttttacgactcaagtcagatactgaaaacaacttcgattttgtaaagataattctcta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CUGUUAUUUCUUUUUUACGUGUACCUAUUAUUAUAAGAGUGCAAAGUUACGGCAACAUAUUCGGAUAACAAAAUAAAAGCAAAAGAUUUAGAUUUUAUUAGAACCUGAAACUAUUUAGGUUCAGUAGAAAUUGAUUGAGGAGCAAUUUUCUUUUUACGACUCAAGUCAGAUACUGAAAACAACUUCGAUUUUGUAAAGAUAAUUCUCUA .((((((((..........(((((((.........)).))))).......(....)......))))))))........((((((...((((.(((((((.(((((((((....)))))))))))))))).))))....((((...(((((.......(((....))).......)))))...))))..))))))............... (-36.64) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGAGAAUUAUCUUUACAAAAUCGAAGUUGUUUUCAGUAUCUGACUUGAGUCGUAAAAAGAAAAUUGCUCCUCAAUCAAUUUCUACUGAACCUAAAUAGUUUCAGGUUCUAAUAAAAUCUAAAUCUUUUGCUUUUAUUUUGUUAUCCGAAUAUGUUGCCGUAACUUUGCACUCUUAUAAUAAUAGGUACACGUAAAAAAGAAAUAACAG ((((((....))))))..........(((((((((((((..(((.(((((..((((........))))..)))))))).....))))).(((((....((..((.(((((((((((((..(((.(....).))).)))))))))...)))).))..)).(((....))).............)))))............)))))))).. (-32.30) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 311 89 41 54 11 pint:PI0283|5end_Zn-dependent_peptidase_267554..267784_POSITIVE 297 200 151 169 119 pint:PI0407|5end_tryptophanyl-tRNA_synthetase_(tryptophan--tRNA_ligase)_372973..373203_POSITIVE 295 169 121 170 117 pint:PI0781|5end_UDP-glucose/GDP-mannose_dehydrogenase_family;_probable__UDP-glucose_6-dehydrogenase_719260..719490_POSITIVE 282 59 11 92 39 pint:PI0212|5end_surface_protein/internalin-related_protein_204417..204647_POSITIVE 275 180 131 193 137 pint:PI1910|5end_hypothetical_protein_1855778..1856008_POSITIVE 255 177 134 160 123 pint:PI1081|5end_probable_endonuclease/resolvase_1000806..1001036_POSITIVE 253 200 156 219 177 pint:PI2012|5end_hypothetical_protein_1970807..1971037_POSITIVE 253 200 163 202 164 pint:PI1392|5end_hypothetical_protein_1311901..1312131_POSITIVE 244 56 17 125 83 pint:PI0536|5end_hypothetical_protein_492163..492393_POSITIVE 238 155 111 142 99 pint:PI0875|5end_conserved_hypothetical_protein_810608..810838_POSITIVE 233 155 117 64 18 pint:PI0404|5end_integrase_371295..371525_POSITIVE 231 51 11 188 144 pint:PI0522|5end_50S_ribosomal_protein_L19_479004..479234_POSITIVE 231 51 11 70 26 pint:PI0521|5end_hypothetical_protein_478886..479116_POSITIVE 226 53 18 171 135 pint:PI0435|5end_30S_ribosomal_protein_S21_406997..407227_POSITIVE 222 53 39 15 1 pint:PI1868|5end_hypothetical_protein_1814638..1814868_POSITIVE 222 72 38 169 138 pint:PI0581|5end_conserved_hypothetical_protein_525055..525285_POSITIVE 221 146 110 201 167 pint:PI1406|5end_tyrosine-protein_kinase_1326536..1326766_POSITIVE 221 200 151 169 122 pint:PI1143|5end_hypothetical_protein_1069780..1070010_POSITIVE 221 166 121 73 21 pint:PI0501|5end_excisionase_461430..461660_POSITIVE 220 194 156 121 76 pint:PI0530|5end_possible_membrane-fusion_protein_483772..484002_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 297 200 165 114 80 pint:PI1129|3end_hypothetical_protein_1055603..1055753_POSITIVE 292 200 151 138 85 pint:PI2153|3end_hypothetical_protein_2099630..2099780_POSITIVE 266 64 33 134 100 pint:PI0524|3end_meso-diaminopimelate_D-dehydrogenase_480849..480999_POSITIVE 253 200 156 62 20 pint:PI2011|3end_hypothetical_protein_1970730..1970880_POSITIVE 252 179 137 147 105 pint:PI0406|3end_hypothetical_protein_373053..373203_POSITIVE 248 77 31 51 5 pint:PI0945|3end_sodium:solute_symporter_family_protein_877624..877774_POSITIVE 240 48 1 140 89 pint:PI1647|3end_hypothetical_protein_1562531..1562681_POSITIVE 233 177 137 125 83 pint:PI1991|3end_conserved_hypothetical_protein_1946370..1946520_POSITIVE 231 51 11 55 11 pint:PI0520|3end_hypothetical_protein_478951..479101_POSITIVE 217 75 37 104 62 pint:PI0054|3end_hypothetical_protein_54829..54979_POSITIVE 216 200 160 83 43 pint:PI1905|3end_hypothetical_protein_1847854..1848004_POSITIVE 214 62 21 93 52 pint:PI0796|3end_competence_protein_734954..735104_POSITIVE 212 157 116 113 71 pint:PI0196|3end_hypothetical_protein_188643..188793_POSITIVE 211 167 121 87 44 pint:PI1021|3end_conserved_hypothetical_protein;_possible_methyltransferase_939634..939784_POSITIVE 211 150 105 49 5 pint:PI0193|3end_conserved_hypothetical_protein_185695..185845_POSITIVE 210 64 38 143 110 pint:PI2178|3end_1-hydroxy-2-methyl-2-(E)-butenyl_4-diphosphate_synthase,_GcpE_2119730..2119880_POSITIVE 209 187 156 145 111 pint:PI0682|3end_hypothetical_protein_619372..619522_POSITIVE 208 200 167 149 116 pint:PI1733|3end_hypothetical_protein_1652437..1652587_POSITIVE 207 180 131 141 95 pint:PI1244|3end_hypothetical_protein_1169176..1169326_POSITIVE 203 43 1 106 56 pint:PI0145|3end_secDF_export_membrane_protein_139724..139874_POSITIVE