Origin IGS: tttacttttatatgttttattattaataaaaatttcgctgtttgcagcgtgtcgtataagtggtatttcgccatcatatactcacaaggtgcaaaattacgaataattctgcaccctgccaaatatttaggatagtttttta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taaaaaactatcctaaatatttggcagggtgcagaattattcgtaattttgcaccttgtgagtatatgatggcgaaataccacttatacgacacgctgcaaacagcgaaatttttattaataataaaacatataaaagtaaa Mask Tandem Repeat Region ================================================ tttacttttatatgttttattattaataaaaatttcgctgtttgcagcgtgtcgtataagtggtatttcgccatcatatactcacaaggtgcaaaattacgaataattctgcaccctgccaaatatttaggatagtttttta Find is-nt database================================================ Query_seq: PI0950:PI0952|PI0950:PI0952:50S ribosomal protein L31:conserved hypothetical protein:->->:883716..883857 142 tttacttttatatgttttattattaataaaaatttcgctgtttgcagcgtgtcgtataagtggtatttcgccatcatatactcacaaggtgcaaaattacgaataattctgcaccctgccaaatatttaggatagtttttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0950:PI0952|PI0950:PI0952:50S ribosomal protein L31:conserved hypothetical protein:->->:883716..883857 142 tttacttttatatgttttattattaataaaaatttcgctgtttgcagcgtgtcgtataagtggtatttcgccatcatatactcacaaggtgcaaaattacgaataattctgcaccctgccaaatatttaggatagtttttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0950:PI0952|PI0950:PI0952:50S ribosomal protein L31:conserved hypothetical protein:->->:883716..883857 142 tttacttttatatgttttattattaataaaaatttcgctgtttgcagcgtgtcgtataagtggtatttcgccatcatatactcacaaggtgcaaaattacgaataattctgcaccctgccaaatatttaggatagtttttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tttacttttatatgttttattattaataaaaatttcgctgtttgcagcgtgtcgtataagtggtatttcgccatcatatactcacaaggtgcaaaattacgaataattctgcaccctgccaaatatttaggatagtttttta Predict ORF larger than 30AA ================================================ Protein_Len: 41 Strand: + Start: 10 End: 132 ......... M C F I I N K N F A V C S V S Y K W Y F A I I Y S Q G A K L R I I L H P A K Y L G .......... Protein_Len: 40 Strand: - Start: 3 End: 122 .. V K I H K I I L L F K A T Q L T D Y L H Y K A M M Y E C P A F N R I I R C G A M .................... tttacttttatatgttttattattaataaaaatttcgctgtttgcagcgtgtcgtataagtggtatttcgccatcatatactcacaaggtgcaaaattacgaataattctgcaccctgccaaatatttaggatagtttttta 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================================================ tttacttttatatgttttattattaataaaaatttcgctgtttgcagcgtgtcgtataagtggtatttcgccatcatatactcacaaggtgcaaaattacgaataattctgcaccctgccaaatatttaggatagtttttta Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 73 HP_score: -8.9 Tail_Score: -2.94099 Start: 81 End: 122 Full_Region: aactatcctaaatat ttggcagggtgcagaatta ttcg taattttgcaccttgtgag tatatgatggcgaaa ................................................................................ttggcagggtgcagaattattcgtaattttgcaccttgtgag.................... Find igs database================================================ Query_seq: PI0950:PI0952|PI0950:PI0952:50S ribosomal protein L31:conserved hypothetical protein:->->:883716..883857 142 tttacttttatatgttttattattaataaaaatttcgctgtttgcagcgtgtcgtataagtggtatttcgccatcatatactcacaaggtgcaaaattacgaataattctgcaccctgccaaatatttaggatagtttttta Intra-Species Hit: Count: 1 Min: 1 Max: 142 Len: 142 Subject: pint_PI0950_PI0952|50S ribosomal protein L31:conserved hypothetical protein|POSITIVE:POSITIVE|[883716,883857]|142 HSP 1 e-value: 3.0E-75 bit: 281.0 Len: 142 Query Start:1 Query End:142 Subject Strand: POSITIVE Subject Start: 1 Subject End: 142 tttacttttatatgttttattattaataaaaatttcgctgtttgcagcgtgtcgtataagtggtatttcgccatcatatactcacaaggtgcaaaattacgaataattctgcaccctgccaaatatttaggatagtttttta tttacttttatatgttttattattaataaaaatttcgctgtttgcagcgtgtcgtataagtggtatttcgccatcatatactcacaaggtgcaaaattacgaataattctgcaccctgccaaatatttaggatagtttttta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUACUUUUAUAUGUUUUAUUAUUAAUAAAAAUUUCGCUGUUUGCAGCGUGUCGUAUAAGUGGUAUUUCGCCAUCAUAUACUCACAAGGUGCAAAAUUACGAAUAAUUCUGCACCCUGCCAAAUAUUUAGGAUAGUUUUUUA ............(((((((.((((...........(((((....)))))....(((((.(((((.....)))))..)))))...((.((((((.(((((....))))).)))))).))...))))..)))))))........ (-29.90) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAAAACUAUCCUAAAUAUUUGGCAGGGUGCAGAAUUAUUCGUAAUUUUGCACCUUGUGAGUAUAUGAUGGCGAAAUACCACUUAUACGACACGCUGCAAACAGCGAAAUUUUUAUUAAUAAUAAAACAUAUAAAAGUAAA .......................((((((((((((((((....))))))))))))))))..(((((.(.(((.......)))).)))))....(((((....)))))..((((((((..............))))))))... (-36.44) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 315 72 36 54 17 pint:PI1647|5end_hypothetical_protein_1561564..1561794_POSITIVE 308 89 42 221 177 pint:PI0817|5end_glycosyl_transferase,_group_1_family_protein_756861..757091_POSITIVE 304 77 43 37 1 pint:PI1945|5end_ribonuclease_HII_1901932..1902162_POSITIVE 298 85 46 70 33 pint:PI0931|5end_hypothetical_protein_862652..862882_POSITIVE 287 77 32 231 186 pint:PI0092|5end_regulatory_protein_RecX_89080..89310_POSITIVE 286 72 36 147 117 pint:PI1300|5end_probable_glycosyltransferase_1213190..1213420_POSITIVE 281 75 36 118 79 pint:PI1617|5end_hypothetical_protein_1542923..1543153_POSITIVE 280 75 32 206 168 pint:PI1811|5end_conserved_hypothetical_protein_1749518..1749748_POSITIVE 277 71 32 99 49 pint:PI0635|5end_dephospho-CoA_kinase_580954..581184_POSITIVE 276 73 36 53 10 pint:PI0532|5end_ABC_transporter,_ATP-binding/permease_protein_486263..486493_POSITIVE 276 91 53 214 181 pint:PI0087|5end_conserved_hypothetical_protein_85700..85930_POSITIVE 275 64 33 54 21 pint:PI1571|5end_surface_antigen_BspA_1494765..1494995_POSITIVE 273 72 36 88 39 pint:PI1837|5end_aspartate_ammonia-lyase_1778953..1779183_POSITIVE 268 119 84 101 69 pint:PI2166|5end_hypothetical_protein_2111394..2111624_POSITIVE 268 72 36 131 78 pint:PI1769|5end_hypothetical_protein_1696507..1696737_POSITIVE 268 69 33 196 153 pint:PI0057|5end_conserved_hypothetical_protein_55959..56189_POSITIVE 266 70 33 70 26 pint:PI1943|5end_hypothetical_protein_1901296..1901526_POSITIVE 263 76 36 149 112 pint:PI2121|5end_glucose_inhibited_division_protein_A_2069889..2070119_POSITIVE 263 71 37 209 165 pint:PI1690|5end_transcription_regulator;_possible_Fe2+/Zn2+_uptake_regulation_proteins_1604984..1605214_POSITIVE 263 76 37 181 143 pint:PI0916|5end_hypothetical_protein_845617..845847_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 286 72 36 128 98 pint:PI1299|3end_glycosyltransferase_1213251..1213401_POSITIVE 273 72 37 40 3 pint:PI0758|3end_hypothetical_protein_690506..690656_POSITIVE 268 69 33 64 21 pint:PI0056|3end_conserved_hypothetical_protein;_possible_DNA_uptake_protein_55907..56057_POSITIVE 265 77 35 131 71 pint:PI1143|3end_hypothetical_protein_1070504..1070654_POSITIVE 262 75 32 136 90 pint:PI0435|3end_30S_ribosomal_protein_S21_407265..407415_POSITIVE 257 79 37 124 77 pint:PI0356|3end_hypothetical_protein_327288..327438_POSITIVE 256 71 37 137 99 pint:PI1561|3end_conserved_hypothetical_protein;_possible_lipoprotein_1479702..1479852_POSITIVE 256 121 87 78 41 pint:PI0434|3end_possible_beta-lactamase_406890..407040_POSITIVE 255 76 37 41 1 pint:PI1815|3end_polyphosphate-selective_porin_O_1754510..1754660_POSITIVE 254 120 72 58 7 pint:PI2028|3end_shikimate_kinase_1982802..1982952_POSITIVE 248 75 31 123 70 pint:PI1716|3end_hypothetical_protein_1632006..1632156_POSITIVE 248 75 36 77 35 pint:PI0624|3end_hypothetical_protein_574471..574621_POSITIVE 248 74 33 36 10 pint:PI0411|3end_conserved_hypothetial_protein;_possible_hydrolase_379828..379978_POSITIVE 247 71 36 142 105 pint:PI1623|3end_hypothetical_protein_1549261..1549411_POSITIVE 247 71 36 142 105 pint:PI0330|3end_hypothetical_protein_312545..312695_POSITIVE 246 89 41 53 2 pint:PI0881|3end_conserved_hypothetical_protein_815283..815433_POSITIVE 244 72 36 147 111 pint:PI0868|3end_exodeoxyribonuclease_VII,_large_subunit_805576..805726_POSITIVE 244 64 29 108 67 pint:PI0168|3end_methionyl-tRNA_synthetase_(methionine--tRNA_ligase)_163279..163429_POSITIVE 242 73 31 141 94 pint:PI1739|3end_Na+-driven_multidrug_efflux_pump,_MATE_efflux_family_protein_1661645..1661795_POSITIVE 242 75 38 144 105 pint:PI0019|3end_conserved_hypothetical_protein_24454..24604_POSITIVE