Origin IGS: taagttattgcataatacagaagaagaaatttaatctccacaggtatagtagacagagaatgcgacaatatatactttcgtgggacacaatatatactttcgtcattattaacatttgcccccatttttgagtataaacattcaagtctgtaaacaattcgtcaaacccacgttaataataaataccatttcgtggtttgaaactaaagaataaacataaataagt .........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 acttatttatgtttattctttagtttcaaaccacgaaatggtatttattattaacgtgggtttgacgaattgtttacagacttgaatgtttatactcaaaaatgggggcaaatgttaataatgacgaaagtatatattgtgtcccacgaaagtatatattgtcgcattctctgtctactatacctgtggagattaaatttcttcttctgtattatgcaataactta Mask Tandem Repeat Region ================================================ taagttattgcataatacagaagaagaaatttaatctccacaggtatagtagacagagaatgcgacaatatatactttcgtgggacacaatatatactttcgtcattattaacatttgcccccatttttgagtataaacattcaagtctgtaaacaattcgtcaaacccacgttaataataaataccatttcgtggtttgaaactaaagaataaacataaataagt Find is-nt database================================================ Query_seq: PI1214:PI1215|PI1214:PI1215:peptide chain release factor 1:orotidine 5'-phosphate decarboxylase:->->:1133881..1134106 226 taagttattgcataatacagaagaagaaatttaatctccacaggtatagtagacagagaatgcgacaatatatactttcgtgggacacaatatatactttcgtcattattaacatttgcccccatttttgagtataaacattcaagtctgtaaacaattcgtcaaacccacgttaataataaataccatttcgtggtttgaaactaaagaataaacataaataagt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1214:PI1215|PI1214:PI1215:peptide chain release factor 1:orotidine 5'-phosphate decarboxylase:->->:1133881..1134106 226 taagttattgcataatacagaagaagaaatttaatctccacaggtatagtagacagagaatgcgacaatatatactttcgtgggacacaatatatactttcgtcattattaacatttgcccccatttttgagtataaacattcaagtctgtaaacaattcgtcaaacccacgttaataataaataccatttcgtggtttgaaactaaagaataaacataaataagt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1214:PI1215|PI1214:PI1215:peptide chain release factor 1:orotidine 5'-phosphate decarboxylase:->->:1133881..1134106 226 taagttattgcataatacagaagaagaaatttaatctccacaggtatagtagacagagaatgcgacaatatatactttcgtgggacacaatatatactttcgtcattattaacatttgcccccatttttgagtataaacattcaagtctgtaaacaattcgtcaaacccacgttaataataaataccatttcgtggtttgaaactaaagaataaacataaataagt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taagttattgcataatacagaagaagaaatttaatctccacaggtatagtagacagagaatgcgacaatatatactttcgtgggacacaatatatactttcgtcattattaacatttgcccccatttttgagtataaacattcaagtctgtaaacaattcgtcaaacccacgttaataataaataccatttcgtggtttgaaactaaagaataaacataaataagt Predict ORF larger than 30AA ================================================ Protein_Len: 39 Strand: + Start: 12 End: 128 ........... M I Q K K K F N L H R Y S R Q R M R Q Y I L S W D T I Y T F V I I N I C P H F .................................................................................................. Protein_Len: 39 Strand: + Start: 34 End: 150 ................................. M S T G I V D R E C D N I Y F R G T Q Y I L S S L L T F A P I F E Y K H S S L ............................................................................ Protein_Len: 32 Strand: + Start: 116 End: 211 ................................................................................................................... M P P F L S I N I Q V C K Q F V K P T L I I N T I S W F E T K E ............... Protein_Len: 50 Strand: - Start: 8 End: 157 ....... Q M I C F F F N L R W L Y L L C L I R C Y I S E H S V I Y V K T M I L M Q G W K Q T Y V N L D T F M ..................................................................... Protein_Len: 52 Strand: - Start: 3 End: 158 .. T I A Y Y L L L F K I E V P I T S L S H S L I Y K R P V C Y I S E D N N V N A G M K S Y L C E L R Y V M .................................................................... taagttattgcataatacagaagaagaaatttaatctccacaggtatagtagacagagaatgcgacaatatatactttcgtgggacacaatatatactttcgtcattattaacatttgcccccatttttgagtataaacattcaagtctgtaaacaattcgtcaaacccacgttaataataaataccatttcgtggtttgaaactaaagaataaacataaataagt 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: 81 Start: 12 End: 41 ...........GTGGAGATTAAATTTCTTCTTCTGTATTAT......................................................................................................................................................................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ taagttattgcataatacagaagaagaaatttaatctccacaggtatagtagacagagaatgcgacaatatatactttcgtgggacacaatatatactttcgtcattattaacatttgcccccatttttgagtataaacattcaagtctgtaaacaattcgtcaaacccacgttaataataaataccatttcgtggtttgaaactaaagaataaacataaataagt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI1214:PI1215|PI1214:PI1215:peptide chain release factor 1:orotidine 5'-phosphate decarboxylase:->->:1133881..1134106 226 taagttattgcataatacagaagaagaaatttaatctccacaggtatagtagacagagaatgcgacaatatatactttcgtgggacacaatatatactttcgtcattattaacatttgcccccatttttgagtataaacattcaagtctgtaaacaattcgtcaaacccacgttaataataaataccatttcgtggtttgaaactaaagaataaacataaataagt Intra-Species Hit: Count: 1 Min: 1 Max: 226 Len: 226 Subject: pint_PI1214_PI1215|peptide chain release factor 1:orotidine 5'-phosphate decarboxylase|POSITIVE:POSITIVE|[1133881,1134106]|226 HSP 1 e-value: 1.0E-125 bit: 448.0 Len: 226 Query Start:1 Query End:226 Subject Strand: POSITIVE Subject Start: 1 Subject End: 226 taagttattgcataatacagaagaagaaatttaatctccacaggtatagtagacagagaatgcgacaatatatactttcgtgggacacaatatatactttcgtcattattaacatttgcccccatttttgagtataaacattcaagtctgtaaacaattcgtcaaacccacgttaataataaataccatttcgtggtttgaaactaaagaataaacataaataagt taagttattgcataatacagaagaagaaatttaatctccacaggtatagtagacagagaatgcgacaatatatactttcgtgggacacaatatatactttcgtcattattaacatttgcccccatttttgagtataaacattcaagtctgtaaacaattcgtcaaacccacgttaataataaataccatttcgtggtttgaaactaaagaataaacataaataagt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAGUUAUUGCAUAAUACAGAAGAAGAAAUUUAAUCUCCACAGGUAUAGUAGACAGAGAAUGCGACAAUAUAUACUUUCGUGGGACACAAUAUAUACUUUCGUCAUUAUUAACAUUUGCCCCCAUUUUUGAGUAUAAACAUUCAAGUCUGUAAACAAUUCGUCAAACCCACGUUAAUAAUAAAUACCAUUUCGUGGUUUGAAACUAAAGAAUAAACAUAAAUAAGU ...(((.........((((((.(((.........((.(((((((((((.......(......).......)))))))..)))))).......(((((((..............................)))))))....)))...))))))....((((.(((((((.(((...................)))))))))).......)))).))).......... (-31.06) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ ACUUAUUUAUGUUUAUUCUUUAGUUUCAAACCACGAAAUGGUAUUUAUUAUUAACGUGGGUUUGACGAAUUGUUUACAGACUUGAAUGUUUAUACUCAAAAAUGGGGGCAAAUGUUAAUAAUGACGAAAGUAUAUAUUGUGUCCCACGAAAGUAUAUAUUGUCGCAUUCUCUGUCUACUAUACCUGUGGAGAUUAAAUUUCUUCUUCUGUAUUAUGCAAUAACUUA .........................((((((((((.((((((....))))))..))).)))))))...(((((.((((((...((((((.((((((........((((((.....(((((...((....))...))))))))))).....)))))).......))))))..(.(((((.......))))).).............))))))....)))))...... (-45.22) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 267 136 91 216 173 pint:PI2053|5end_conserved_hypothetical_protein;_possible_outer_membrane_receptor_protein_2010673..2010903_POSITIVE 262 60 18 116 80 pint:PI1306|5end_dipeptidyl_peptidase_IV_1220264..1220494_POSITIVE 257 123 88 56 7 pint:PI1831|5end_conserved_hypothetical_protein_1770298..1770528_POSITIVE 257 81 41 179 139 pint:PI0980|5end_conserved_hypothetical_protein_905703..905933_POSITIVE 246 72 31 93 45 pint:PI0275|5end_hypothetical_protein_263138..263368_POSITIVE 244 88 55 83 52 pint:PI1438|5end_penicillin_tolerance_protein/steroid_biosynthesis_1356263..1356493_POSITIVE 241 104 63 219 174 pint:PI0246|5end_conserved_hypothetical_protein_244166..244396_POSITIVE 234 78 36 125 74 pint:PI0591|5end_adenylosuccinate_lyase_538595..538825_POSITIVE 233 58 17 54 13 pint:PI1145|5end_50S_ribosomal_protein_L35_1072520..1072750_POSITIVE 233 87 48 85 45 pint:PI0681|5end_hypothetical_protein_619000..619230_POSITIVE 233 87 48 57 17 pint:PI0682|5end_hypothetical_protein_618972..619202_POSITIVE 230 86 42 43 4 pint:PI1418|5end_UDP-N-acetylglucosamine_2-epimerase_1337985..1338215_POSITIVE 227 84 41 48 2 pint:PI0854|5end_MiaB-like_tRNA_modifying_enzyme_786513..786743_POSITIVE 224 29 3 231 206 pint:PI0945|5end_sodium:solute_symporter_family_protein_876249..876479_POSITIVE 221 82 41 195 147 pint:PI0841|5end_hypothetical_protein_775406..775636_POSITIVE 219 82 41 93 48 pint:PI1844|5end_hypothetical_protein_1790092..1790322_POSITIVE 218 135 91 231 176 pint:PI0755|5end_hypothetical_protein_686691..686921_POSITIVE 217 49 5 175 126 pint:PI1068|5end_nucleolar_protein,_Sun_(Fmu)_family_protein;_tRNA/rRNA_cytosine-C5-methylase_984743..984973_POSITIVE 217 163 122 69 27 pint:PI0368|5end_hypothetical_protein_339582..339812_POSITIVE 217 153 115 48 1 pint:PI0260|5end_conjugative_transposon_protein,_TraJ_253023..253253_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 268 83 41 97 50 pint:PI0394|3end_transcriptional_regulator,_AraC_family_360329..360479_POSITIVE 257 81 41 74 34 pint:PI0979|3end_transcriptional_regulator,_tetR_family_905678..905828_POSITIVE 250 89 42 113 69 pint:PI0947|3end_conserved_hypothetical_protein_880709..880859_POSITIVE 246 72 31 62 14 pint:PI0274|3end_conserved_hypothetical_protein_263187..263337_POSITIVE 244 88 55 147 116 pint:PI1437|3end_hypothetical_protein_1356407..1356557_POSITIVE 235 153 114 83 40 pint:PI1345|3end_conserved_hypothetical_protein;_possible_TPR-repeat-containing_protein_1260680..1260830_POSITIVE 227 84 41 48 2 pint:PI0853|3end_glycosyl_transferase,_group_2_family_protein_786593..786743_POSITIVE 224 84 42 145 101 pint:PI1749|3end_conserved_hypothetical_protein_1671637..1671787_POSITIVE 222 77 36 130 83 pint:PI0879|3end_hypothetical_protein_814051..814201_POSITIVE 220 158 117 138 98 pint:PI1417|3end_MATE_efflux_family_protein_(Na+-driven_multidrug_efflux_pump)_1337501..1337651_POSITIVE 217 163 122 47 5 pint:PI0367|3end_hypothetical_protein_339640..339790_POSITIVE 211 123 102 39 17 pint:PI1830|3end_conserved_hypothetical_protein_1770361..1770511_POSITIVE 205 87 49 137 94 pint:PI1501|3end_GTP-binding_elongation_factor_family_protein_TypA/BipA_1423246..1423396_POSITIVE 205 200 158 108 72 pint:PI0652|3end_conserved_hypothetical_protein_595792..595942_POSITIVE 204 151 113 48 13 pint:PI1532|3end_uridylate_kinase_1452431..1452581_POSITIVE 204 92 52 84 51 pint:PI0607|3end_2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxy_lic_acid_synthase/2-oxoglutarate_decarboxylase_555548..555698_POSITIVE 202 116 74 94 47 pint:PI1108|3end_conserved_hypothetical_protein_1032693..1032843_POSITIVE 201 89 42 126 79 pint:PI0829|3end_nucleotidyl_transferase_family;_possible_mannose-1-phosphate_guanyltransferase_766539..766689_POSITIVE 200 74 33 76 36 pint:PI2118|3end_fumarate_reductase/succinate_dehydrogenase_flavoprotein_subunit,_N-terminal_2067997..2068147_POSITIVE 200 147 112 77 34 pint:PI1378|3end_GTP-binding_protein_lepA_1301651..1301801_POSITIVE