Origin IGS: tgattttcttttcttgtttaaatattattaatgtgcaaagatactatttttagaatatagtttggcatttatctaattaaaattactaaatttgtaaaatcaacaaataaaatagcagt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 actgctattttatttgttgattttacaaatttagtaattttaattagataaatgccaaactatattctaaaaatagtatctttgcacattaataatatttaaacaagaaaagaaaatca Mask Tandem Repeat Region ================================================ tgattttcttttcttgtttaaatattattaatgtgcaaagatactatttttagaatatagtttggcatttatctaattaaaattactaaatttgtaaaatcaacaaataaaatagcagt Find is-nt database================================================ Query_seq: PI0034:PI0035|PI0034:PI0035:FKBP-type peptidyl-prolyl cis-trans isomerase:NAD-dependent protein deacetylase, SIR2 family:->->:37894..38012 119 tgattttcttttcttgtttaaatattattaatgtgcaaagatactatttttagaatatagtttggcatttatctaattaaaattactaaatttgtaaaatcaacaaataaaatagcagt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0034:PI0035|PI0034:PI0035:FKBP-type peptidyl-prolyl cis-trans isomerase:NAD-dependent protein deacetylase, SIR2 family:->->:37894..38012 119 tgattttcttttcttgtttaaatattattaatgtgcaaagatactatttttagaatatagtttggcatttatctaattaaaattactaaatttgtaaaatcaacaaataaaatagcagt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0034:PI0035|PI0034:PI0035:FKBP-type peptidyl-prolyl cis-trans isomerase:NAD-dependent protein deacetylase, SIR2 family:->->:37894..38012 119 tgattttcttttcttgtttaaatattattaatgtgcaaagatactatttttagaatatagtttggcatttatctaattaaaattactaaatttgtaaaatcaacaaataaaatagcagt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tgattttcttttcttgtttaaatattattaatgtgcaaagatactatttttagaatatagtttggcatttatctaattaaaattactaaatttgtaaaatcaacaaataaaatagcagt Predict ORF larger than 30AA ================================================ tgattttcttttcttgtttaaatattattaatgtgcaaagatactatttttagaatatagtttggcatttatctaattaaaattactaaatttgtaaaatcaacaaataaaatagcagt 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================================================ tgattttcttttcttgtttaaatattattaatgtgcaaagatactatttttagaatatagtttggcatttatctaattaaaattactaaatttgtaaaatcaacaaataaaatagcagt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI0034:PI0035|PI0034:PI0035:FKBP-type peptidyl-prolyl cis-trans isomerase:NAD-dependent protein deacetylase, SIR2 family:->->:37894..38012 119 tgattttcttttcttgtttaaatattattaatgtgcaaagatactatttttagaatatagtttggcatttatctaattaaaattactaaatttgtaaaatcaacaaataaaatagcagt Intra-Species Hit: Count: 1 Min: 1 Max: 119 Len: 119 Subject: pint_PI0034_PI0035|FKBP-type peptidyl-prolyl cis-trans isomerase:NAD-dependent protein deacetylase, SIR2 family|POSITIVE:POSITIVE|[37894,38012]|119 HSP 1 e-value: 1.0E-61 bit: 236.0 Len: 119 Query Start:1 Query End:119 Subject Strand: POSITIVE Subject Start: 1 Subject End: 119 tgattttcttttcttgtttaaatattattaatgtgcaaagatactatttttagaatatagtttggcatttatctaattaaaattactaaatttgtaaaatcaacaaataaaatagcagt tgattttcttttcttgtttaaatattattaatgtgcaaagatactatttttagaatatagtttggcatttatctaattaaaattactaaatttgtaaaatcaacaaataaaatagcagt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAUUUUCUUUUCUUGUUUAAAUAUUAUUAAUGUGCAAAGAUACUAUUUUUAGAAUAUAGUUUGGCAUUUAUCUAAUUAAAAUUACUAAAUUUGUAAAAUCAACAAAUAAAAUAGCAGU ((((((((.......((......((((.....((((...((.(((((.........))))))).)))).....)))).......)).......).)))))))................. ( -9.96) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ ACUGCUAUUUUAUUUGUUGAUUUUACAAAUUUAGUAAUUUUAAUUAGAUAAAUGCCAAACUAUAUUCUAAAAAUAGUAUCUUUGCACAUUAAUAAUAUUUAAACAAGAAAAGAAAAUCA ...((...((((((((((((..((((.......))))..)))).)))))))).))...(((((.........))))).(((((.....((((......))))......)))))...... (-12.80) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 224 76 34 169 124 pint:PI0234|5end_integrase_234473..234703_POSITIVE 209 74 31 87 49 pint:PI1734|5end_possible_carboxyl-terminal_protease-related_protein_1652409..1652639_POSITIVE 196 49 3 110 76 pint:PI0966|5end_possible_glycosyl_hydrolase_894407..894637_POSITIVE 190 69 34 169 135 pint:PI1040|5end_8-amino-7-oxononanoate_synthase_958935..959165_POSITIVE 188 40 4 205 167 pint:PI1090|5end_tRNA_uracil_5-methyltransferase_1014366..1014596_POSITIVE 182 67 21 135 84 pint:PI0812|5end_conserved_hypothetical_protein;_possible_ferredoxin_750185..750415_POSITIVE 178 76 32 99 52 pint:PI0432|5end_hypothetical_protein_404781..405011_POSITIVE 177 43 7 96 58 pint:PI0935|5end_collagenase,_protease_866297..866527_POSITIVE 177 43 1 124 80 pint:PI0704|5end_conserved_hypothetical_protein_640247..640477_POSITIVE 171 67 32 39 4 pint:PI1542|5end_mobilization_protein_1461728..1461958_POSITIVE 167 74 32 211 166 pint:PI0310|5end_outer_membrane_protein_291657..291887_POSITIVE 167 74 32 57 12 pint:PI0309|5end_hypothetical_protein_291503..291733_POSITIVE 166 48 1 124 76 pint:PI0217|5end_conserved_hypothetical_protein;_possible_lipoprotein_210355..210585_POSITIVE 164 57 19 135 97 pint:PI0647|5end_potassium_uptake_protein_587505..587735_POSITIVE 161 39 1 194 152 pint:PI1391|5end_hypothetical_protein_1311420..1311650_POSITIVE 161 72 57 179 164 pint:PI1077|5end_hypothetical_protein_999199..999429_POSITIVE 161 57 13 173 123 pint:PI0451|5end_serine_proteases,__S51_group_424343..424573_POSITIVE 160 66 33 110 76 pint:PI1957|5end_calcium-transporting_ATPase_1913759..1913989_POSITIVE 160 70 52 51 30 pint:PI1545|5end_conserved_hypothetical_protein_1463587..1463817_POSITIVE 160 52 33 20 1 pint:PI0761|5end_hypothetical_protein_696173..696403_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 225 60 24 39 5 pint:PI0108|3end_L-lactate_permease_106468..106618_POSITIVE 197 52 11 115 77 pint:PI0761|3end_hypothetical_protein_696348..696498_POSITIVE 190 69 34 74 40 pint:PI1038|3end_hypothetical_protein_958920..959070_POSITIVE 183 68 24 127 77 pint:PI1420|3end_probable_membrane_protein_1340652..1340802_POSITIVE 179 74 35 35 2 pint:PI1733|3end_hypothetical_protein_1652437..1652587_POSITIVE 171 67 32 115 80 pint:PI1541|3end_hypothetical_protein_1461884..1462034_POSITIVE 167 74 32 76 31 pint:PI0308|3end_conserved_hypothetical_protein_291602..291752_POSITIVE 166 48 1 105 57 pint:PI0216|3end_transposase/integrase_210416..210566_POSITIVE 164 67 33 143 110 pint:PI1343|3end_conserved_hypothetical_protein_1258539..1258689_POSITIVE 162 80 35 52 1 pint:PI0965|3end_hypothetical_protein_894392..894542_POSITIVE 160 70 52 63 42 pint:PI1544|3end_hypothetical_protein_1463679..1463829_POSITIVE 160 33 1 47 15 pint:PI1076|3end_hypothetical_protein_999065..999215_POSITIVE 160 41 1 106 53 pint:PI0474|3end_30S_ribosomal_protein_S8_439515..439665_POSITIVE 158 29 7 70 46 pint:PI1574|3end_conserved_hypothetical_protein_1501226..1501376_POSITIVE 157 70 29 98 46 pint:PI1400|3end_hypothetical_protein_1321908..1322058_POSITIVE 156 45 4 145 111 pint:PI0679|3end_hypothetical_protein_617012..617162_POSITIVE 156 45 4 112 78 pint:PI0678|3end_hypothetical_protein_616979..617129_POSITIVE 155 46 1 128 75 pint:PI0111|3end_hypothetical_protein_108265..108415_POSITIVE 155 46 1 75 22 pint:PI0112|3end_hypothetical_protein_108212..108362_POSITIVE 153 62 21 72 24 pint:PI0371|3end_thymidylate_synthase_341973..342123_POSITIVE