Origin IGS: taaacaggtttctgctttgtgctgccaacgcagcagcacactatagaaatatgtaagaccaagttttcggcttgtttcgcaaaccaatgagtgttggttttgtgaggggaacaaatcgaaaacttggtcttgcgtttgttataacctgctttgtgggtttctatggtgattcgtttgttatgtacgagcctcta .........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 tagaggctcgtacataacaaacgaatcaccatagaaacccacaaagcaggttataacaaacgcaagaccaagttttcgatttgttcccctcacaaaaccaacactcattggtttgcgaaacaagccgaaaacttggtcttacatatttctatagtgtgctgctgcgttggcagcacaaagcagaaacctgttta Mask Tandem Repeat Region ================================================ taaacaggtttctgctttgtgctgccaacgcagcagcacactatagaaatatgtaagaccaagttttcggcttgtttcgcaaaccaatgagtgttggttttgtgaggggaacaaatcgaaaacttggtcttgcgtttgttataacctgctttgtgggtttctatggtgattcgtttgttatgtacgagcctcta Find is-nt database================================================ Query_seq: PI0147:PI0148|PI0147:PI0148:HIT family protein:mannose-1-phosphate guanylyltransferase:->->:141369..141562 194 taaacaggtttctgctttgtgctgccaacgcagcagcacactatagaaatatgtaagaccaagttttcggcttgtttcgcaaaccaatgagtgttggttttgtgaggggaacaaatcgaaaacttggtcttgcgtttgttataacctgctttgtgggtttctatggtgattcgtttgttatgtacgagcctcta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0147:PI0148|PI0147:PI0148:HIT family protein:mannose-1-phosphate guanylyltransferase:->->:141369..141562 194 taaacaggtttctgctttgtgctgccaacgcagcagcacactatagaaatatgtaagaccaagttttcggcttgtttcgcaaaccaatgagtgttggttttgtgaggggaacaaatcgaaaacttggtcttgcgtttgttataacctgctttgtgggtttctatggtgattcgtttgttatgtacgagcctcta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0147:PI0148|PI0147:PI0148:HIT family protein:mannose-1-phosphate guanylyltransferase:->->:141369..141562 194 taaacaggtttctgctttgtgctgccaacgcagcagcacactatagaaatatgtaagaccaagttttcggcttgtttcgcaaaccaatgagtgttggttttgtgaggggaacaaatcgaaaacttggtcttgcgtttgttataacctgctttgtgggtttctatggtgattcgtttgttatgtacgagcctcta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taaacaggtttctgctttgtgctgccaacgcagcagcacactatagaaatatgtaagaccaagttttcggcttgtttcgcaaaccaatgagtgttggttttgtgaggggaacaaatcgaaaacttggtcttgcgtttgttataacctgctttgtgggtttctatggtgattcgtttgttatgtacgagcctcta Predict ORF larger than 30AA ================================================ Protein_Len: 41 Strand: + Start: 72 End: 194 ....................................................................... M F R K P M S V G F V R G T N R K L G L A F V I T C F V G F Y G D S F V M Y E P L Protein_Len: 33 Strand: - Start: 44 End: 142 ........................................... L F I Y S W T K P K N R L G I L T P K T L P V F R F S P R A N T M .................................................... Protein_Len: 56 Strand: - Start: 3 End: 170 .. V P K Q K T S G V C C C V I S I H L V L N E A Q K A F W H T N T K H P S C I S F K T K R K N Y G A K H T E I T M ........................ Protein_Len: 38 Strand: - Start: 1 End: 114 L C T E A K H Q W R L L V S Y F Y T L G L K R S T E C V L S H Q N Q S P F M ................................................................................ taaacaggtttctgctttgtgctgccaacgcagcagcacactatagaaatatgtaagaccaagttttcggcttgtttcgcaaaccaatgagtgttggttttgtgaggggaacaaatcgaaaacttggtcttgcgtttgttataacctgctttgtgggtttctatggtgattcgtttgttatgtacgagcctcta 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================================================ taaacaggtttctgctttgtgctgccaacgcagcagcacactatagaaatatgtaagaccaagttttcggcttgtttcgcaaaccaatgagtgttggttttgtgaggggaacaaatcgaaaacttggtcttgcgtttgttataacctgctttgtgggtttctatggtgattcgtttgttatgtacgagcctcta Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 47 HP_score: -2.4 Tail_Score: -3.53012 Start: 84 End: 97 Full_Region: gttcccctcacaaaa ccaa cactca ttgg tttgcgaaacaagcc ...................................................................................ccaacactcattgg................................................................................................. Find igs database================================================ Query_seq: PI0147:PI0148|PI0147:PI0148:HIT family protein:mannose-1-phosphate guanylyltransferase:->->:141369..141562 194 taaacaggtttctgctttgtgctgccaacgcagcagcacactatagaaatatgtaagaccaagttttcggcttgtttcgcaaaccaatgagtgttggttttgtgaggggaacaaatcgaaaacttggtcttgcgtttgttataacctgctttgtgggtttctatggtgattcgtttgttatgtacgagcctcta Intra-Species Hit: Count: 1 Min: 1 Max: 194 Len: 194 Subject: pint_PI0147_PI0148|HIT family protein:mannose-1-phosphate guanylyltransferase|POSITIVE:POSITIVE|[141369, 141562]|194 HSP 1 e-value: 1.0E-106 bit: 385.0 Len: 194 Query Start:1 Query End:194 Subject Strand: POSITIVE Subject Start: 1 Subject End: 194 taaacaggtttctgctttgtgctgccaacgcagcagcacactatagaaatatgtaagaccaagttttcggcttgtttcgcaaaccaatgagtgttggttttgtgaggggaacaaatcgaaaacttggtcttgcgtttgttataacctgctttgtgggtttctatggtgattcgtttgttatgtacgagcctcta taaacaggtttctgctttgtgctgccaacgcagcagcacactatagaaatatgtaagaccaagttttcggcttgtttcgcaaaccaatgagtgttggttttgtgaggggaacaaatcgaaaacttggtcttgcgtttgttataacctgctttgtgggtttctatggtgattcgtttgttatgtacgagcctcta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAACAGGUUUCUGCUUUGUGCUGCCAACGCAGCAGCACACUAUAGAAAUAUGUAAGACCAAGUUUUCGGCUUGUUUCGCAAACCAAUGAGUGUUGGUUUUGUGAGGGGAACAAAUCGAAAACUUGGUCUUGCGUUUGUUAUAACCUGCUUUGUGGGUUUCUAUGGUGAUUCGUUUGUUAUGUACGAGCCUCUA .....((((((.(((....((((((....))))))...((((((((((..(((((((((((((((((((..(((((((.(((((((((....)))))))).....).)))))))..)))))))))))))))))))........(((..(...)..))))))))))))).............))).))))))... (-79.00) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGAGGCUCGUACAUAACAAACGAAUCACCAUAGAAACCCACAAAGCAGGUUAUAACAAACGCAAGACCAAGUUUUCGAUUUGUUCCCCUCACAAAACCAACACUCAUUGGUUUGCGAAACAAGCCGAAAACUUGGUCUUACAUAUUUCUAUAGUGUGCUGCUGCGUUGGCAGCACAAAGCAGAAACCUGUUUA ....(..((((.........))))..)................(((((((((.........(.(((((((((((((((..(((((....((.((((.((((......)))))))).)))))))..))))))))))))))).).....(((....(((((((((.....)))))))))....)))))))))))). (-64.50) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 371 78 36 48 4 pint:PI1770|5end_4-alpha-glucanotransferase_1697336..1697566_POSITIVE 331 47 4 170 115 pint:PI1754|5end_conserved_hypothetical_protein_1681202..1681432_POSITIVE 329 38 5 38 9 pint:PI1985|5end_hypothetical_protein_1940291..1940521_POSITIVE 319 157 116 159 122 pint:PI0092|5end_regulatory_protein_RecX_89080..89310_POSITIVE 315 118 72 199 147 pint:PI1258|5end_elongation_factor_Tu_1178909..1179139_POSITIVE 307 109 64 63 19 pint:PI0252|5end_conserved_hypothetical_protein_247761..247991_POSITIVE 304 140 91 179 122 pint:PI0140|5end_conserved_hypothetical_protein_131643..131873_POSITIVE 302 70 23 62 7 pint:PI0144|5end_conserved_hypothetical_protein_135420..135650_POSITIVE 300 70 21 80 15 pint:PI1011|5end_cytochrome_c_biogenesis_protein_CycY_932115..932345_POSITIVE 296 40 9 60 19 pint:PI1771|5end_alpha-glucosidase_1699996..1700226_POSITIVE 293 50 8 192 151 pint:PI0699|5end_conserved_hypothetical_protein_636647..636877_POSITIVE 292 36 7 161 127 pint:PI1818|5end_hypothetical_protein_1756891..1757121_POSITIVE 290 48 2 224 166 pint:PI1896|5end_hypothetical_protein_1840854..1841084_POSITIVE 289 59 13 111 73 pint:PI0142|5end_DNA-binding_protein_133839..134069_POSITIVE 285 188 146 219 160 pint:PI1833|5end_bacterioferritin_comigratory_protein_1773957..1774187_POSITIVE 285 49 18 82 40 pint:PI0992|5end_RNA_polymerase_sigma-70_factor_916456..916686_POSITIVE 284 109 62 94 40 pint:PI2143|5end_DNA_mismatch_repair_protein_2089123..2089353_POSITIVE 283 49 6 186 134 pint:PI1925|5end_conserved_hypothetical_protein_1866387..1866617_POSITIVE 283 190 144 89 41 pint:PI0749|5end_hypothetical_protein_677234..677464_POSITIVE 283 160 112 75 30 pint:PI0180|5end_TonB_protein_171905..172135_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 342 37 7 148 118 pint:PI0835|3end_conserved_hypothetical_protein;_possible_protein-export_membrane_protein_771859..772009_POSITIVE 339 150 101 59 10 pint:PI0147|3end_HIT_family_protein_141308..141458_POSITIVE 311 46 5 140 97 pint:PI1575|3end_LemA_protein_1501852..1502002_POSITIVE 304 40 5 79 41 pint:PI1366|3end_conserved_hypothetical_protein;_possible_hydrolase,_HAD_superfamily_1286647..1286797_POSITIVE 300 70 21 80 15 pint:PI1010|3end_conserved_hypothetical_protein_932195..932345_POSITIVE 287 190 144 126 69 pint:PI2155|3end_hypothetical_protein_2101052..2101202_POSITIVE 284 109 62 67 13 pint:PI2142|3end_conserved_hypothetical_protein_2089176..2089326_POSITIVE 283 160 112 49 4 pint:PI0179|3end_hypothetical_protein_171959..172109_POSITIVE 283 70 22 68 22 pint:PI0036|3end_glutathione_peroxidase_39289..39439_POSITIVE 282 187 143 137 94 pint:PI1158|3end_1,4-alpha-glucan_branching_enzyme,_C-terminal_region_1082910..1083060_POSITIVE 281 166 121 117 63 pint:PI1517|3end_AcrB/AcrD_family_multidrug_resistance_protein_1438973..1439123_POSITIVE 280 38 3 47 14 pint:PI1743|3end_stationary-phase_survival_protein_1664930..1665080_POSITIVE 280 184 147 94 56 pint:PI1194|3end_DnaJ_protein_(Hsp-40)_1113124..1113274_POSITIVE 279 107 67 123 88 pint:PI0358|3end_hypothetical_protein_328105..328255_POSITIVE 277 190 144 136 71 pint:PI0073|3end_dihydropteroate_synthase_71785..71935_POSITIVE 276 60 13 142 92 pint:PI1490|3end_GTP_cyclohydrolase_I_1409127..1409277_POSITIVE 276 43 13 136 98 pint:PI0816|3end_glycogen_debranching_enzyme_756920..757070_POSITIVE 276 34 4 67 37 pint:PI0111|3end_hypothetical_protein_108265..108415_POSITIVE 275 47 11 116 85 pint:PI1380|3end_conserved_hypothetical_protein_1303242..1303392_POSITIVE 272 43 5 149 108 pint:PI0969|3end_30S_ribosomal_protein_S16_897261..897411_POSITIVE