Origin IGS: atttgctttcatatattagtttagctgcaaagataataaaaattcccataaattcagtaactttgcactgtttttattaagttttttaatggaattcgatataaacacaggattagtattggaaggtgggggaatgcgaggagtatttacctctggcgttttggacgcattt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aaatgcgtccaaaacgccagaggtaaatactcctcgcattcccccaccttccaatactaatcctgtgtttatatcgaattccattaaaaaacttaataaaaacagtgcaaagttactgaatttatgggaatttttattatctttgcagctaaactaatatatgaaagcaaat Mask Tandem Repeat Region ================================================ atttgctttcatatattagtttagctgcaaagataataaaaattcccataaattcagtaactttgcactgtttttattaagttttttaatggaattcgatataaacacaggattagtattggaaggtgggggaatgcgaggagtatttacctctggcgttttggacgcattt Find is-nt database================================================ Query_seq: PI1240:PI1241|PI1240:PI1241:probable Xaa-Pro dipeptidase (aminopeptidase P):probable phosphoesterase:->->:1166333..1166504 172 atttgctttcatatattagtttagctgcaaagataataaaaattcccataaattcagtaactttgcactgtttttattaagttttttaatggaattcgatataaacacaggattagtattggaaggtgggggaatgcgaggagtatttacctctggcgttttggacgcattt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1240:PI1241|PI1240:PI1241:probable Xaa-Pro dipeptidase (aminopeptidase P):probable phosphoesterase:->->:1166333..1166504 172 atttgctttcatatattagtttagctgcaaagataataaaaattcccataaattcagtaactttgcactgtttttattaagttttttaatggaattcgatataaacacaggattagtattggaaggtgggggaatgcgaggagtatttacctctggcgttttggacgcattt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1240:PI1241|PI1240:PI1241:probable Xaa-Pro dipeptidase (aminopeptidase P):probable phosphoesterase:->->:1166333..1166504 172 atttgctttcatatattagtttagctgcaaagataataaaaattcccataaattcagtaactttgcactgtttttattaagttttttaatggaattcgatataaacacaggattagtattggaaggtgggggaatgcgaggagtatttacctctggcgttttggacgcattt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 atttgctttcatatattagtttagctgcaaagataataaaaattcccataaattcagtaactttgcactgtttttattaagttttttaatggaattcgatataaacacaggattagtattggaaggtgggggaatgcgaggagtatttacctctggcgttttggacgcattt Predict ORF larger than 30AA ================================================ Protein_Len: 32 Strand: + Start: 76 End: 171 ........................................................................... M K F F N G I R Y K H R I S I G R W G N A R S I Y L W R F G R I . Protein_Len: 35 Strand: + Start: 68 End: 172 ................................................................... M F L L S F L M E F D I N T G L V L E G G G M R G V F T S G V L D A F Protein_Len: 30 Strand: - Start: 57 End: 146 ........................................................ Y S Q V T K I L N K L P I R Y L C L I L I P L H P F A L L M .......................... Protein_Len: 39 Strand: - Start: 19 End: 135 .................. N L Q L S L L F E W L N L L K A S N K N L K K I S N S I F V P N T N S P P P M ..................................... atttgctttcatatattagtttagctgcaaagataataaaaattcccataaattcagtaactttgcactgtttttattaagttttttaatggaattcgatataaacacaggattagtattggaaggtgggggaatgcgaggagtatttacctctggcgttttggacgcattt 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================================================ atttgctttcatatattagtttagctgcaaagataataaaaattcccataaattcagtaactttgcactgtttttattaagttttttaatggaattcgatataaacacaggattagtattggaaggtgggggaatgcgaggagtatttacctctggcgttttggacgcattt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI1240:PI1241|PI1240:PI1241:probable Xaa-Pro dipeptidase (aminopeptidase P):probable phosphoesterase:->->:1166333..1166504 172 atttgctttcatatattagtttagctgcaaagataataaaaattcccataaattcagtaactttgcactgtttttattaagttttttaatggaattcgatataaacacaggattagtattggaaggtgggggaatgcgaggagtatttacctctggcgttttggacgcattt Intra-Species Hit: Count: 1 Min: 1 Max: 172 Len: 172 Subject: pint_PI1240_PI1241|probable Xaa-Pro dipeptidase (aminopeptidase P):probable phosphoesterase|POSITIVE:POSITIVE|[1166333,1166504]|172 HSP 1 e-value: 5.0E-93 bit: 341.0 Len: 172 Query Start:1 Query End:172 Subject Strand: POSITIVE Subject Start: 1 Subject End: 172 atttgctttcatatattagtttagctgcaaagataataaaaattcccataaattcagtaactttgcactgtttttattaagttttttaatggaattcgatataaacacaggattagtattggaaggtgggggaatgcgaggagtatttacctctggcgttttggacgcattt atttgctttcatatattagtttagctgcaaagataataaaaattcccataaattcagtaactttgcactgtttttattaagttttttaatggaattcgatataaacacaggattagtattggaaggtgggggaatgcgaggagtatttacctctggcgttttggacgcattt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUUUGCUUUCAUAUAUUAGUUUAGCUGCAAAGAUAAUAAAAAUUCCCAUAAAUUCAGUAACUUUGCACUGUUUUUAUUAAGUUUUUUAAUGGAAUUCGAUAUAAACACAGGAUUAGUAUUGGAAGGUGGGGGAAUGCGAGGAGUAUUUACCUCUGGCGUUUUGGACGCAUUU .....((((((.((((((((((...(((((((.((.....((((......))))...)).))))))).(((((.(((..((((((.....))))))..))).)))))..))))))))))))))))..((((((((((.....)))))).))))..(((((...))))).... (-39.20) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAAUGCGUCCAAAACGCCAGAGGUAAAUACUCCUCGCAUUCCCCCACCUUCCAAUACUAAUCCUGUGUUUAUAUCGAAUUCCAUUAAAAAACUUAAUAAAAACAGUGCAAAGUUACUGAAUUUAUGGGAAUUUUUAUUAUCUUUGCAGCUAAACUAAUAUAUGAAAGCAAAU ....((((.....))))..((((........))))............................(((.(((((((........(((((.....)))))......(((((((((.....((((((....)))))).......))))))).))........))))))).)))... (-23.80) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 330 167 122 83 28 pint:PI2152|5end_heptosyltransferase_2098218..2098448_POSITIVE 329 169 121 156 106 pint:PI0164|5end_conserved_hypothetical_protein_158478..158708_POSITIVE 327 169 126 203 157 pint:PI0253|5end_conjugative_transposon_protein,_TraD_248294..248524_POSITIVE 323 150 103 198 149 pint:PI0884|5end_hypothetical_protein_817302..817532_POSITIVE 323 150 103 176 127 pint:PI0885|5end_hypothetical_protein_817280..817510_POSITIVE 321 167 124 141 98 pint:PI0557|5end_conserved_hypothetical_protein_506187..506417_POSITIVE 317 144 107 229 193 pint:PI2118|5end_fumarate_reductase/succinate_dehydrogenase_flavoprotein_subunit,_N-terminal_2066466..2066696_POSITIVE 315 168 126 230 193 pint:PI1950|5end_iron-regulated_membrane_permease_1904468..1904698_POSITIVE 307 167 125 230 200 pint:PI0318|5end_conserved_hypothetical_protein_300679..300909_POSITIVE 297 169 121 51 1 pint:PI1399|5end_hypothetical_protein_1320573..1320803_POSITIVE 292 159 121 75 44 pint:PI1708|5end_hypothetical_protein_1625087..1625317_POSITIVE 288 170 121 122 71 pint:PI1381|5end_conserved_hypothetical_protein_1303060..1303290_POSITIVE 288 168 135 205 168 pint:PI0841|5end_hypothetical_protein_775406..775636_POSITIVE 288 145 106 93 55 pint:PI0045|5end_thiamine_biosynthesis_protein_43768..43998_POSITIVE 286 159 116 57 3 pint:PI0641|5end_conserved_hypothetical_protein_583791..584021_POSITIVE 284 158 115 194 141 pint:PI2034|5end_conserved_hypothetical_protein_1987573..1987803_POSITIVE 284 169 130 213 159 pint:PI1403|5end_conserved_hypothetical_protein_1323920..1324150_POSITIVE 282 167 127 67 17 pint:PI1797|5end_hypothetical_protein_1731147..1731377_POSITIVE 280 150 105 189 140 pint:PI1199|5end_possible_acetyltransferase_1115139..1115369_POSITIVE 279 169 121 206 136 pint:PI0246|5end_conserved_hypothetical_protein_244166..244396_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 332 164 127 125 68 pint:PI1179|3end_adenylosuccinate_synthetase_1101823..1101973_POSITIVE 323 150 103 67 18 pint:PI0883|3end_para-aminobenzoate_synthase_component_I_817251..817401_POSITIVE 311 169 121 124 66 pint:PI1146|3end_translation_initiation_factor_IF3_1073503..1073653_POSITIVE 297 169 121 70 20 pint:PI1398|3end_probable_imidazolonepropionase_1320672..1320822_POSITIVE 292 159 121 57 26 pint:PI1707|3end_GTP-binding_protein_1625149..1625299_POSITIVE 288 145 106 102 64 pint:PI0044|3end_thiamine_biosynthetic_enzyme_43857..44007_POSITIVE 278 168 128 129 85 pint:PI1442|3end_radical-activating_enzyme_(pyruvate-formate_lyase-activating_enzyme)_1364649..1364799_POSITIVE 277 168 123 150 100 pint:PI0723|3end_conserved_hypothetical_protein_657379..657529_POSITIVE 276 169 124 147 84 pint:PI2016|3end_ribosomal_large_subunit_pseudouridine_synthase_D_1974933..1975083_POSITIVE 276 169 124 141 78 pint:PI1794|3end_conserved_hypothetical_protein_1726696..1726846_POSITIVE 273 165 121 101 47 pint:PI1953|3end_possible_ABC-type_permease_1908582..1908732_POSITIVE 273 168 131 83 41 pint:PI0802|3end_hypothetical_protein_739827..739977_POSITIVE 269 168 123 150 118 pint:PI0791|3end_conserved_hypothetical_protein_729109..729259_POSITIVE 267 165 125 151 115 pint:PI0115|3end_hypothetical_protein_108669..108819_POSITIVE 266 168 122 128 64 pint:PI0978|3end_hypothetical_protein_905114..905264_POSITIVE 262 160 116 122 75 pint:PI1982|3end_conserved_hypothetical_protein_1939208..1939358_POSITIVE 262 159 111 140 104 pint:PI1980|3end_conserved_hypothetical_protein_1937945..1938095_POSITIVE 262 167 121 87 41 pint:PI0540|3end_conserved_hypothetical_protein_493865..494015_POSITIVE 261 168 121 55 5 pint:PI1186|3end_conserved_hypothetical_protein_1106772..1106922_POSITIVE 260 168 127 137 85 pint:PI1132|3end_DnaJ_heat_shock_protein_(Hsp40)_1059668..1059818_POSITIVE