Origin IGS: taacatatccctatttccctctcgtttcggagagggaaatctctattaacatactggttttaaaaacactgaaaaccatttattatcacactaaacaacaataatgaaattatgaaaaaagtatttttaacccttcttctcgtttcttttgcagccttttcttgcaatttgaaaacgcaaaaagcagaaacatcgaaagaggcaggggct .........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 agcccctgcctctttcgatgtttctgctttttgcgttttcaaattgcaagaaaaggctgcaaaagaaacgagaagaagggttaaaaatacttttttcataatttcattattgttgtttagtgtgataataaatggttttcagtgtttttaaaaccagtatgttaatagagatttccctctccgaaacgagagggaaatagggatatgtta Mask Tandem Repeat Region ================================================ taacatatccctatttccctctcgtttcggagagggaaatctctattaacatactggttttaaaaacactgaaaaccatttattatcacactaaacaacaataatgaaattatgaaaaaagtatttttaacccttcttctcgtttcttttgcagccttttcttgcaatttgaaaacgcaaaaagcagaaacatcgaaagaggcaggggct Find is-nt database================================================ Query_seq: PI0113:PI0116|PI0113:PI0116:arginyl-tRNA synthetase:conserved hypothetical protein:->->:110143..110352 210 taacatatccctatttccctctcgtttcggagagggaaatctctattaacatactggttttaaaaacactgaaaaccatttattatcacactaaacaacaataatgaaattatgaaaaaagtatttttaacccttcttctcgtttcttttgcagccttttcttgcaatttgaaaacgcaaaaagcagaaacatcgaaagaggcaggggct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0113:PI0116|PI0113:PI0116:arginyl-tRNA synthetase:conserved hypothetical protein:->->:110143..110352 210 taacatatccctatttccctctcgtttcggagagggaaatctctattaacatactggttttaaaaacactgaaaaccatttattatcacactaaacaacaataatgaaattatgaaaaaagtatttttaacccttcttctcgtttcttttgcagccttttcttgcaatttgaaaacgcaaaaagcagaaacatcgaaagaggcaggggct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0113:PI0116|PI0113:PI0116:arginyl-tRNA synthetase:conserved hypothetical protein:->->:110143..110352 210 taacatatccctatttccctctcgtttcggagagggaaatctctattaacatactggttttaaaaacactgaaaaccatttattatcacactaaacaacaataatgaaattatgaaaaaagtatttttaacccttcttctcgtttcttttgcagccttttcttgcaatttgaaaacgcaaaaagcagaaacatcgaaagaggcaggggct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taacatatccctatttccctctcgtttcggagagggaaatctctattaacatactggttttaaaaacactgaaaaccatttattatcacactaaacaacaataatgaaattatgaaaaaagtatttttaacccttcttctcgtttcttttgcagccttttcttgcaatttgaaaacgcaaaaagcagaaacatcgaaagaggcaggggct Predict ORF larger than 30AA ================================================ Protein_Len: 43 Strand: + Start: 82 End: 210 ................................................................................. M I T L N N N N E I M K K V F L T L L L V S F A A F S C N L K T Q K A E T S K E A G A Protein_Len: 31 Strand: - Start: 113 End: 205 ................................................................................................................ S F L I K L G E E R K K Q L R K K C N S F A F L L F M S L P M ..... Protein_Len: 35 Strand: - Start: 63 End: 167 .............................................................. F C Q F G N I I V S F L L L S I I F F T N K V R R R T E K A A K E Q M ........................................... taacatatccctatttccctctcgtttcggagagggaaatctctattaacatactggttttaaaaacactgaaaaccatttattatcacactaaacaacaataatgaaattatgaaaaaagtatttttaacccttcttctcgtttcttttgcagccttttcttgcaatttgaaaacgcaaaaagcagaaacatcgaaagaggcaggggct 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================================================ taacatatccctatttccctctcgtttcggagagggaaatctctattaacatactggttttaaaaacactgaaaaccatttattatcacactaaacaacaataatgaaattatgaaaaaagtatttttaacccttcttctcgtttcttttgcagccttttcttgcaatttgaaaacgcaaaaagcagaaacatcgaaagaggcaggggct Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI0113:PI0116|PI0113:PI0116:arginyl-tRNA synthetase:conserved hypothetical protein:->->:110143..110352 210 taacatatccctatttccctctcgtttcggagagggaaatctctattaacatactggttttaaaaacactgaaaaccatttattatcacactaaacaacaataatgaaattatgaaaaaagtatttttaacccttcttctcgtttcttttgcagccttttcttgcaatttgaaaacgcaaaaagcagaaacatcgaaagaggcaggggct Intra-Species Hit: Count: 1 Min: 1 Max: 210 Len: 210 Subject: pint_PI0113_PI0116|arginyl-tRNA synthetase:conserved hypothetical protein|POSITIVE:POSITIVE|[110143,110352]|210 HSP 1 e-value: 1.0E-115 bit: 416.0 Len: 210 Query Start:1 Query End:210 Subject Strand: POSITIVE Subject Start: 1 Subject End: 210 taacatatccctatttccctctcgtttcggagagggaaatctctattaacatactggttttaaaaacactgaaaaccatttattatcacactaaacaacaataatgaaattatgaaaaaagtatttttaacccttcttctcgtttcttttgcagccttttcttgcaatttgaaaacgcaaaaagcagaaacatcgaaagaggcaggggct taacatatccctatttccctctcgtttcggagagggaaatctctattaacatactggttttaaaaacactgaaaaccatttattatcacactaaacaacaataatgaaattatgaaaaaagtatttttaacccttcttctcgtttcttttgcagccttttcttgcaatttgaaaacgcaaaaagcagaaacatcgaaagaggcaggggct Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAACAUAUCCCUAUUUCCCUCUCGUUUCGGAGAGGGAAAUCUCUAUUAACAUACUGGUUUUAAAAACACUGAAAACCAUUUAUUAUCACACUAAACAACAAUAAUGAAAUUAUGAAAAAAGUAUUUUUAACCCUUCUUCUCGUUUCUUUUGCAGCCUUUUCUUGCAAUUUGAAAACGCAAAAAGCAGAAACAUCGAAAGAGGCAGGGGCU .......(((((.((((((((((......))))))))))...........(((((((((((..........)))))).((((((((..............))))))))...........))))).......(((..(((..(((((((((...((.(((((.........))))).))...))).))))))...)))..))).))))).. (-45.04) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGCCCCUGCCUCUUUCGAUGUUUCUGCUUUUUGCGUUUUCAAAUUGCAAGAAAAGGCUGCAAAAGAAACGAGAAGAAGGGUUAAAAAUACUUUUUUCAUAAUUUCAUUAUUGUUGUUUAGUGUGAUAAUAAAUGGUUUUCAGUGUUUUUAAAACCAGUAUGUUAAUAGAGAUUUCCCUCUCCGAAACGAGAGGGAAAUAGGGAUAUGUUA ...((((.(((..(((..(((((((.......((.(((((.........))))).))......))))))).)))..)))..........((.((..((((......(((((((..(.....)..))))))).(((((((.((....)).))))))).))))..)).))..(((((((((((......)))))))))))))))........ (-54.12) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 311 207 161 113 75 pint:PI0553|5end_recombination_protein_503344..503574_POSITIVE 307 164 121 59 17 pint:PI1495|5end_conserved_hypothetical_protein_1414432..1414662_POSITIVE 304 165 131 144 101 pint:PI1668|5end_conserved_hypothetical_protein_1580692..1580922_POSITIVE 289 162 128 192 157 pint:PI0328|5end_conserved_hypothetical_protein_309476..309706_POSITIVE 277 210 161 213 157 pint:PI0346|5end_hypothetical_protein_320834..321064_POSITIVE 273 168 124 225 168 pint:PI1630|5end_hypothetical_protein_1552127..1552357_POSITIVE 268 209 176 60 20 pint:PI0673|5end_hypothetical_protein_612206..612436_POSITIVE 266 172 134 206 168 pint:PI0729|5end_integrase_661428..661658_POSITIVE 263 209 177 155 123 pint:PI0756|5end_50S_ribosomal_protein_L7/L12_687146..687376_POSITIVE 263 157 111 145 104 pint:PI0427|5end_conserved_hypothetical_protein_391140..391370_POSITIVE 263 209 163 95 29 pint:PI0085|5end_RNase_P_protein_component_84440..84670_POSITIVE 263 180 137 221 173 pint:PI0083|5end_tyrosyl-tRNA_synthetase_82824..83054_POSITIVE 261 209 165 190 142 pint:PI2087|5end_dihydropicolinate_reductase_2043423..2043653_POSITIVE 261 210 168 82 41 pint:PI0792|5end_conserved_hypothetical_protein_729068..729298_POSITIVE 260 178 133 61 4 pint:PI1845|5end_hypothetical_protein_1791457..1791687_POSITIVE 260 180 136 138 86 pint:PI1623|5end_hypothetical_protein_1547163..1547393_POSITIVE 258 34 9 224 186 pint:PI0197|5end_acetate_kinase_188602..188832_POSITIVE 258 34 9 57 19 pint:PI0196|5end_hypothetical_protein_188435..188665_POSITIVE 257 210 171 84 49 pint:PI1805|5end_TPR_repeat_containing_protein_1738369..1738599_POSITIVE 257 160 112 231 172 pint:PI0327|5end_hypothetical_protein_308791..309021_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 338 57 13 102 51 pint:PI0113|3end_arginyl-tRNA_synthetase_110082..110232_POSITIVE 304 165 131 144 101 pint:PI1667|3end_conserved_hypothetical_protein_1580772..1580922_POSITIVE 277 210 161 108 52 pint:PI0345|3end_conserved_hypothetical_protein_320809..320959_POSITIVE 273 174 134 121 81 pint:PI0987|3end_hypothetical_protein_912284..912434_POSITIVE 265 165 132 117 79 pint:PI0818|3end_alpha-amylase_759659..759809_POSITIVE 263 157 111 131 90 pint:PI0426|3end_conserved_hypothetical_protein_391206..391356_POSITIVE 263 209 163 95 29 pint:PI0084|3end_conserved_hypothetical_protein_84520..84670_POSITIVE 261 209 165 137 89 pint:PI2086|3end_signal_peptidase_I_2043450..2043600_POSITIVE 261 210 168 140 99 pint:PI0790|3end_hypothetical_protein_729206..729356_POSITIVE 261 210 168 43 2 pint:PI0791|3end_conserved_hypothetical_protein_729109..729259_POSITIVE 260 180 136 125 73 pint:PI1622|3end_hypothetical_protein_1547230..1547380_POSITIVE 252 209 164 122 80 pint:PI1206|3end_ATP-dependent_DNA_helicase,_UvrD/PcrA/Rep_family_1127132..1127282_POSITIVE 252 180 132 151 108 pint:PI1184|3end_conserved_hypothetical_protein_1106163..1106313_POSITIVE 247 186 145 95 54 pint:PI1386|3end_sugar_phosphate_isomerase_1308031..1308181_POSITIVE 247 199 154 129 94 pint:PI0873|3end_conserved_hypothetical_protein;_possible_permease_808956..809106_POSITIVE 246 208 164 151 107 pint:PI1466|3end_GTP-binding_protein,_possible_GTP1/OBG_family_1393133..1393283_POSITIVE 246 178 136 128 73 pint:PI0329|3end_hypothetical_protein_310514..310664_POSITIVE 246 158 112 128 91 pint:PI0121|3end_outer_membrane_protein,_ompH_family_113208..113358_POSITIVE 245 210 161 84 26 pint:PI0681|3end_hypothetical_protein_619256..619406_POSITIVE 245 210 161 89 29 pint:PI0053|3end_hypothetical_protein_55124..55274_POSITIVE