Origin IGS: taatatagaaagataaaaacaaagtttgtcttttcaaatatttatttgtatatttgcacttattctatttataaataagctaagcctaaagaagttatgatacatacaaacaaccatcttgtgataatggcagggggagtcggcagccgattctggcct .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aggccagaatcggctgccgactccccctgccattatcacaagatggttgtttgtatgtatcataacttctttaggcttagcttatttataaatagaataagtgcaaatatacaaataaatatttgaaaagacaaactttgtttttatctttctatatta Mask Tandem Repeat Region ================================================ taatatagaaagataaaaacaaagtttgtcttttcaaatatttatttgtatatttgcacttattctatttataaataagctaagcctaaagaagttatgatacatacaaacaaccatcttgtgataatggcagggggagtcggcagccgattctggcct Find is-nt database================================================ Query_seq: PI0988:PI0989|PI0988:PI0989:hypothetical protein:mannose-1-phosphate guanylyltransferase:->->:912814..912972 159 taatatagaaagataaaaacaaagtttgtcttttcaaatatttatttgtatatttgcacttattctatttataaataagctaagcctaaagaagttatgatacatacaaacaaccatcttgtgataatggcagggggagtcggcagccgattctggcct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0988:PI0989|PI0988:PI0989:hypothetical protein:mannose-1-phosphate guanylyltransferase:->->:912814..912972 159 taatatagaaagataaaaacaaagtttgtcttttcaaatatttatttgtatatttgcacttattctatttataaataagctaagcctaaagaagttatgatacatacaaacaaccatcttgtgataatggcagggggagtcggcagccgattctggcct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0988:PI0989|PI0988:PI0989:hypothetical protein:mannose-1-phosphate guanylyltransferase:->->:912814..912972 159 taatatagaaagataaaaacaaagtttgtcttttcaaatatttatttgtatatttgcacttattctatttataaataagctaagcctaaagaagttatgatacatacaaacaaccatcttgtgataatggcagggggagtcggcagccgattctggcct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taatatagaaagataaaaacaaagtttgtcttttcaaatatttatttgtatatttgcacttattctatttataaataagctaagcctaaagaagttatgatacatacaaacaaccatcttgtgataatggcagggggagtcggcagccgattctggcct Predict ORF larger than 30AA ================================================ taatatagaaagataaaaacaaagtttgtcttttcaaatatttatttgtatatttgcacttattctatttataaataagctaagcctaaagaagttatgatacatacaaacaaccatcttgtgataatggcagggggagtcggcagccgattctggcct 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: 84 Start: 25 End: 54 ........................TTTGTCTTTTCAAATATTTATTTGTATATT......................................................................................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ taatatagaaagataaaaacaaagtttgtcttttcaaatatttatttgtatatttgcacttattctatttataaataagctaagcctaaagaagttatgatacatacaaacaaccatcttgtgataatggcagggggagtcggcagccgattctggcct Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI0988:PI0989|PI0988:PI0989:hypothetical protein:mannose-1-phosphate guanylyltransferase:->->:912814..912972 159 taatatagaaagataaaaacaaagtttgtcttttcaaatatttatttgtatatttgcacttattctatttataaataagctaagcctaaagaagttatgatacatacaaacaaccatcttgtgataatggcagggggagtcggcagccgattctggcct Intra-Species Hit: Count: 1 Min: 1 Max: 159 Len: 159 Subject: pint_PI0988_PI0989|hypothetical protein:mannose-1-phosphate guanylyltransferase|POSITIVE:POSITIVE|[912814, 912972]|159 HSP 1 e-value: 2.0E-85 bit: 315.0 Len: 159 Query Start:1 Query End:159 Subject Strand: POSITIVE Subject Start: 1 Subject End: 159 taatatagaaagataaaaacaaagtttgtcttttcaaatatttatttgtatatttgcacttattctatttataaataagctaagcctaaagaagttatgatacatacaaacaaccatcttgtgataatggcagggggagtcggcagccgattctggcct taatatagaaagataaaaacaaagtttgtcttttcaaatatttatttgtatatttgcacttattctatttataaataagctaagcctaaagaagttatgatacatacaaacaaccatcttgtgataatggcagggggagtcggcagccgattctggcct Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUAUAGAAAGAUAAAAACAAAGUUUGUCUUUUCAAAUAUUUAUUUGUAUAUUUGCACUUAUUCUAUUUAUAAAUAAGCUAAGCCUAAAGAAGUUAUGAUACAUACAAACAACCAUCUUGUGAUAAUGGCAGGGGGAGUCGGCAGCCGAUUCUGGCCU .......((((((((((.......))))))))))(((((((........)))))))..((((((.........))))))....(((.......(((((..((((...............))))...)))))....((((((((...))))))))))).. (-26.96) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGGCCAGAAUCGGCUGCCGACUCCCCCUGCCAUUAUCACAAGAUGGUUGUUUGUAUGUAUCAUAACUUCUUUAGGCUUAGCUUAUUUAUAAAUAGAAUAAGUGCAAAUAUACAAAUAAAUAUUUGAAAAGACAAACUUUGUUUUUAUCUUUCUAUAUUA .(((..((.((((...)))).)).....))).........(((((.((((((((((((.......((.....)).....((((((((.......))))))))....)))))))))))).)))))..(((((((.....))))))).............. (-28.40) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 345 146 107 50 12 pint:PI1719|5end_conserved_hypothetical_protein_1635858..1636088_POSITIVE 338 150 103 72 30 pint:PI1128|5end_probable_yrdC_domain_protein,_translation_factor_(SUA5)_1054463..1054693_POSITIVE 322 150 104 212 153 pint:PI0093|5end_riboflavin_biosynthesis_protein_90489..90719_POSITIVE 298 149 119 51 19 pint:PI1453|5end_probable_thiamine_pyrophosphokinase_1375982..1376212_POSITIVE 292 150 118 122 88 pint:PI0537|5end_alanyl-tRNA_synthetase_(alanine--tRNA_ligase)_489756..489986_POSITIVE 288 149 103 181 134 pint:PI1662|5end_hypothetical_protein_1576916..1577146_POSITIVE 288 149 103 181 134 pint:PI0369|5end_hypothetical_protein_340084..340314_POSITIVE 285 149 111 62 32 pint:PI2096|5end_conserved_hypothetical_protein;_possible_phosphoesterase_2050268..2050498_POSITIVE 283 148 115 71 31 pint:PI0171|5end_hypothetical_protein_163850..164080_POSITIVE 280 145 110 83 49 pint:PI1477|5end_TonB-dependent_outer_membrane_receptor_1399734..1399964_POSITIVE 280 149 109 115 78 pint:PI0938|5end_hypothetical_protein_869345..869575_POSITIVE 279 149 114 229 181 pint:PI0331|5end_hypothetical_protein_311656..311886_POSITIVE 276 149 111 57 11 pint:PI0273|5end_hypothetical_protein_262956..263186_POSITIVE 272 148 114 78 40 pint:PI1403|5end_conserved_hypothetical_protein_1323920..1324150_POSITIVE 271 148 107 76 31 pint:PI0287|5end_ISPg3-related_transposase_271898..272128_POSITIVE 270 149 110 87 49 pint:PI0397|5end_conserved_hypothetical_protein_362406..362636_POSITIVE 266 147 117 221 190 pint:PI0752|5end_conserved_hypothetical_protein_681882..682112_POSITIVE 265 150 114 65 27 pint:PI0723|5end_conserved_hypothetical_protein_656043..656273_POSITIVE 263 148 108 61 19 pint:PI2066|5end_hypothetical_protein_2027179..2027409_POSITIVE 263 150 114 180 136 pint:PI1083|5end_TPR-repeat-containing_protein_1001975..1002205_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 347 148 106 142 99 pint:PI0227|3end_ABC_transporter,_ATP-binding/permease_protein_225632..225782_POSITIVE 330 149 114 85 50 pint:PI0684|3end_coproporphyrinogen_III_oxidase_620507..620657_POSITIVE 309 148 113 102 60 pint:PI1794|3end_conserved_hypothetical_protein_1726696..1726846_POSITIVE 309 150 104 149 95 pint:PI0094|3end_protoporphyrinogen_oxidase_90511..90661_POSITIVE 304 142 103 51 8 pint:PI0927|3end_transglutaminase-related_protein_859696..859846_POSITIVE 298 149 119 51 19 pint:PI1452|3end_possible_nicotinamide_mononucleotide_transporter_1376062..1376212_POSITIVE 296 150 115 65 29 pint:PI0879|3end_hypothetical_protein_814051..814201_POSITIVE 293 144 117 67 35 pint:PI0692|3end_iron_compound_ABC_transporter,_permease_protein_628269..628419_POSITIVE 292 150 118 65 31 pint:PI0535|3end_hypothetical_protein_489779..489929_POSITIVE 288 149 101 148 95 pint:PI1429|3end_L-aspartate_oxidase_1349325..1349475_POSITIVE 276 150 116 75 28 pint:PI1046|3end_hypothetical_protein_966081..966231_POSITIVE 274 148 114 132 84 pint:PI1884|3end_conserved_hypothetical_protein_1827457..1827607_POSITIVE 272 148 114 58 20 pint:PI1402|3end_3-deoxy-7-phosphoheptulonate_synthase_1323980..1324130_POSITIVE 263 148 108 55 13 pint:PI2065|3end_hypothetical_protein_2027253..2027403_POSITIVE 263 150 114 47 3 pint:PI1082|3end_polypeptide_deformylase_1001922..1002072_POSITIVE 260 150 113 51 8 pint:PI1605|3end_conserved_hypothetical_protein_1535178..1535328_POSITIVE 258 150 115 38 5 pint:PI1425|3end_conserved_hypothetical_protein_1344849..1344999_POSITIVE 257 137 94 79 28 pint:PI1687|3end_ribosome_recycling_factor_1602902..1603052_POSITIVE 256 146 126 77 61 pint:PI0846|3end_transcription_regulator,_CRP_family_781009..781159_POSITIVE 256 149 121 40 13 pint:PI0430|3end_periplasmic_protease;_MdsD_protein_403101..403251_POSITIVE