Origin IGS: taatccaccacaaaaatatcctacaaaattcttctttcccaaattacttacgtgtaaataataatttatctacacgtaaagaaatatttttctacgtgtaagtaaatatttctttacgtgtaagtaatttacctaacaagcaattctaaatgattatccacgttttatttttttaacctatcattttttataatgccagtattaactactaattttgtccaaaatcaactcttgctgaagagtaaaagaattatccaaaagcattcttttaatggcttgcagatttaaatagcaatcatta .........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.........1.........2.........3.........4.........5.........6.........7.........8.........9 taatgattgctatttaaatctgcaagccattaaaagaatgcttttggataattcttttactcttcagcaagagttgattttggacaaaattagtagttaatactggcattataaaaaatgataggttaaaaaaataaaacgtggataatcatttagaattgcttgttaggtaaattacttacacgtaaagaaatatttacttacacgtagaaaaatatttctttacgtgtagataaattattatttacacgtaagtaatttgggaaagaagaattttgtaggatatttttgtggtggatta Mask Tandem Repeat Region ================================================ taatccaccacaaaaatatcctacaaaattcttctttcccaaattactnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnntttacctaacaagcaattctaaatgattatccacgttttatttttttaacctatcattttttataatgccagtattaactactaattttgtccaaaatcaactcttgctgaagagtaaaagaattatccaaaagcattcttttaatggcttgcagatttaaatagcaatcatta Find is-nt database================================================ Query_seq: PI2160:PI2161|PI2160:PI2161:hypothetical protein:hypothetical protein:->->:2108418..2108718 301 taatccaccacaaaaatatcctacaaaattcttctttcccaaattacttacgtgtaaataataatttatctacacgtaaagaaatatttttctacgtgtaagtaaatatttctttacgtgtaagtaatttacctaacaagcaattctaaatgattatccacgttttatttttttaacctatcattttttataatgccagtattaactactaattttgtccaaaatcaactcttgctgaagagtaaaagaattatccaaaagcattcttttaatggcttgcagatttaaatagcaatcatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI2160:PI2161|PI2160:PI2161:hypothetical protein:hypothetical protein:->->:2108418..2108718 301 taatccaccacaaaaatatcctacaaaattcttctttcccaaattacttacgtgtaaataataatttatctacacgtaaagaaatatttttctacgtgtaagtaaatatttctttacgtgtaagtaatttacctaacaagcaattctaaatgattatccacgttttatttttttaacctatcattttttataatgccagtattaactactaattttgtccaaaatcaactcttgctgaagagtaaaagaattatccaaaagcattcttttaatggcttgcagatttaaatagcaatcatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI2160:PI2161|PI2160:PI2161:hypothetical protein:hypothetical protein:->->:2108418..2108718 301 taatccaccacaaaaatatcctacaaaattcttctttcccaaattacttacgtgtaaataataatttatctacacgtaaagaaatatttttctacgtgtaagtaaatatttctttacgtgtaagtaatttacctaacaagcaattctaaatgattatccacgttttatttttttaacctatcattttttataatgccagtattaactactaattttgtccaaaatcaactcttgctgaagagtaaaagaattatccaaaagcattcttttaatggcttgcagatttaaatagcaatcatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taatccaccacaaaaatatcctacaaaattcttctttcccaaattacttacgtgtaaataataatttatctacacgtaaagaaatatttttctacgtgtaagtaaatatttctttacgtgtaagtaatttacctaacaagcaattctaaatgattatccacgttttatttttttaacctatcattttttataatgccagtattaactactaattttgtccaaaatcaactcttgctgaagagtaaaagaattatccaaaagcattcttttaatggcttgcagatttaaatagcaatcatta Predict ORF larger than 30AA ================================================ Protein_Len: 32 Strand: + Start: 3 End: 98 .. M H H K N I L Q N S S F P N Y L R V N N N L S T R K E I F F Y V ........................................................................................................................................................................................................... Protein_Len: 32 Strand: + Start: 190 End: 285 ............................................................................................................................................................................................. M M P V L T T N F V Q N Q L L L K S K R I I Q K H S F N G L Q I ................ taatccaccacaaaaatatcctacaaaattcttctttcccaaattacttacgtgtaaataataatttatctacacgtaaagaaatatttttctacgtgtaagtaaatatttctttacgtgtaagtaatttacctaacaagcaattctaaatgattatccacgttttatttttttaacctatcattttttataatgccagtattaactactaattttgtccaaaatcaactcttgctgaagagtaaaagaattatccaaaagcattcttttaatggcttgcagatttaaatagcaatcatta 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================================================ taatccaccacaaaaatatcctacaaaattcttctttcccaaattacttacgtgtaaataataatttatctacacgtaaagaaatatttttctacgtgtaagtaaatatttctttacgtgtaagtaatttacctaacaagcaattctaaatgattatccacgttttatttttttaacctatcattttttataatgccagtattaactactaattttgtccaaaatcaactcttgctgaagagtaaaagaattatccaaaagcattcttttaatggcttgcagatttaaatagcaatcatta Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 82 HP_score: -9.6 Tail_Score: -3.53012 Start: 44 End: 83 Full_Region: cacgtagaaaaatat ttctttacgtgtagataa atta ttatttacacgtaagtaa tttgggaaagaagaa ...........................................ttctttacgtgtagataaattattatttacacgtaagtaa.......................................................................................................................................................................................................................... TransTerm Strand: - Conf: 84 HP_score: -11.3 Tail_Score: -2.90496 Start: 47 End: 80 Full_Region: gtagaaaaatatttc tttacgtgtagataa atta ttatttacacgtaag taatttgggaaagaa ..............................................tttacgtgtagataaattattatttacacgtaag............................................................................................................................................................................................................................. TransTerm Strand: - Conf: 75 HP_score: -9.4 Tail_Score: -2.7369 Start: 69 End: 124 Full_Region: ttgttaggtaaatta cttacacgtaaagaaatatttactta cacg tagaaaaatatttctttacgtgtaga taaattattatttac ....................................................................cttacacgtaaagaaatatttacttacacgtagaaaaatatttctttacgtgtaga................................................................................................................................................................................. TransTerm Strand: + Conf: 83 HP_score: -10.5 Tail_Score: -2.94144 Start: 70 End: 124 Full_Region: TAAATAATAATTTAT CTACACGTAAAGAAATATTTTTCTA CGTG TAAGTAAATATTTCTTTACGTGTAAG TAATTTACCTAACAA .....................................................................CTACACGTAAAGAAATATTTTTCTACGTGTAAGTAAATATTTCTTTACGTGTAAG................................................................................................................................................................................. Find igs database================================================ Query_seq: PI2160:PI2161|PI2160:PI2161:hypothetical protein:hypothetical protein:->->:2108418..2108718 301 taatccaccacaaaaatatcctacaaaattcttctttcccaaattacttacgtgtaaataataatttatctacacgtaaagaaatatttttctacgtgtaagtaaatatttctttacgtgtaagtaatttacctaacaagcaattctaaatgattatccacgttttatttttttaacctatcattttttataatgccagtattaactactaattttgtccaaaatcaactcttgctgaagagtaaaagaattatccaaaagcattcttttaatggcttgcagatttaaatagcaatcatta Intra-Species Hit: Count: 1 Min: 1 Max: 301 Len: 301 Subject: pint_PI2160_PI2161|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[2108418,2108718]|301 HSP 1 e-value: 1.0E-157 bit: 555.0 Len: 301 Query Start:1 Query End:301 Subject Strand: POSITIVE Subject Start: 1 Subject End: 301 taatccaccacaaaaatatcctacaaaattcttctttcccaaattacttacgtgtaaataataatttatctacacgtaaagaaatatttttctacgtgtaagtaaatatttctttacgtgtaagtaatttacctaacaagcaattctaaatgattatccacgttttannnnnnnaacctatcattttttataatgccagtattaactactaattttgtccaaaatcaactcttgctgaagagtaaaagaattatccaaaagcattcttttaatggcttgcagatttaaatagcaatcatta taatccaccacaaaaatatcctacaaaattcttctttcccaaattacttacgtgtaaataataatttatctacacgtaaagaaatatttttctacgtgtaagtaaatatttctttacgtgtaagtaatttacctaacaagcaattctaaatgattatccacgttttatttttttaacctatcattttttataatgccagtattaactactaattttgtccaaaatcaactcttgctgaagagtaaaagaattatccaaaagcattcttttaatggcttgcagatttaaatagcaatcatta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUCCACCACAAAAAUAUCCUACAAAAUUCUUCUUUCCCAAAUUACUUACGUGUAAAUAAUAAUUUAUCUACACGUAAAGAAAUAUUUUUCUACGUGUAAGUAAAUAUUUCUUUACGUGUAAGUAAUUUACCUAACAAGCAAUUCUAAAUGAUUAUCCACGUUUUAUUUUUUUAACCUAUCAUUUUUUAUAAUGCCAGUAUUAACUACUAAUUUUGUCCAAAAUCAACUCUUGCUGAAGAGUAAAAGAAUUAUCCAAAAGCAUUCUUUUAAUGGCUUGCAGAUUUAAAUAGCAAUCAUUA ......................((((((((..........((((((((((((((((((.((..(((((..(((((((..(((((....))))))))))))..)))))..)).)))))))))))))))))).....((..(((.....(((((((.........................))))))).......)))..))..........))))))))...(((((.((((((....)))))).................(((..((......))..))).)))))............... (-52.41) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUGAUUGCUAUUUAAAUCUGCAAGCCAUUAAAAGAAUGCUUUUGGAUAAUUCUUUUACUCUUCAGCAAGAGUUGAUUUUGGACAAAAUUAGUAGUUAAUACUGGCAUUAUAAAAAAUGAUAGGUUAAAAAAAUAAAACGUGGAUAAUCAUUUAGAAUUGCUUGUUAGGUAAAUUACUUACACGUAAAGAAAUAUUUACUUACACGUAGAAAAAUAUUUCUUUACGUGUAGAUAAAUUAUUAUUUACACGUAAGUAAUUUGGGAAAGAAGAAUUUUGUAGGAUAUUUUUGUGGUGGAUUA ................((((..(.((((((((....(((((.((((..(((.((....((((((....)))))).))..)))..))))..(((((.....))))))))))........)))).))))...........(((..((((.((...(((((((.(((.((...((((((((((((.(((((((((((((((..(((....)))..))))))))))))))).((((((((....))))))))..))))))))))))...)).))))))))))...))))))..))).)..)))). (-67.70) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 487 120 71 113 64 pint:PI1450|5end_hypothetical_protein_1372683..1372913_POSITIVE 481 120 71 180 131 pint:PI0115|5end_hypothetical_protein_108062..108292_POSITIVE 481 120 71 166 117 pint:PI0111|5end_hypothetical_protein_108048..108278_POSITIVE 481 120 71 131 82 pint:PI0112|5end_hypothetical_protein_108013..108243_POSITIVE 468 120 71 150 101 pint:PI0983|5end_hypothetical_protein_909750..909980_POSITIVE 463 129 83 166 119 pint:PI0130|5end_hypothetical_protein_122032..122262_POSITIVE 453 120 71 147 98 pint:PI0619|5end_hypothetical_protein_569364..569594_POSITIVE 442 120 71 135 86 pint:PI0648|5end_hypothetical_protein_589448..589678_POSITIVE 426 132 91 128 80 pint:PI0312|5end_hypothetical_protein_294591..294821_POSITIVE 398 100 51 137 88 pint:PI1673|5end_hypothetical_protein_1587718..1587948_POSITIVE 387 120 71 135 86 pint:PI0579|5end_hypothetical_protein_523419..523649_POSITIVE 380 120 71 226 177 pint:PI0702|5end_conserved_hypothetical_protein;_possible_tetracenomycin_C_synthesis_protein_homolog_638640..638870_POSITIVE 372 130 81 145 96 pint:PI1462|5end_hypothetical_protein_1385094..1385324_POSITIVE 340 127 93 215 181 pint:PI0173|5end_hypothetical_protein_165305..165535_POSITIVE 330 80 40 230 190 pint:PI0599|5end_hypothetical_protein_547376..547606_POSITIVE 314 127 93 224 190 pint:PI0311|5end_hypothetical_protein_294721..294951_POSITIVE 304 83 41 231 189 pint:PI1674|5end_hypothetical_protein_1587829..1588059_POSITIVE 254 127 88 225 186 pint:PI0917|5end_phosphoglycolate_phosphatase_846371..846601_POSITIVE 246 240 194 219 173 pint:PI0568|5end_hypothetical_protein_512950..513180_POSITIVE 246 240 194 50 4 pint:PI0567|5end_hypothetical_protein_512781..513011_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 481 123 87 119 83 pint:PI2105|3end_hypothetical_protein_2059586..2059736_POSITIVE 463 129 83 56 9 pint:PI0598|3end_hypothetical_protein_547233..547383_POSITIVE 413 120 71 65 20 pint:PI1314|3end_hypothetical_protein_1231423..1231573_POSITIVE 401 131 93 42 1 pint:PI2106|3end_hypothetical_protein_2059498..2059648_POSITIVE 371 130 93 44 7 pint:PI1461|3end_conserved_hypothetical_protein_1385073..1385223_POSITIVE 340 127 93 68 34 pint:PI0172|3end_ISPg3-related_transposase_165238..165388_POSITIVE 301 129 84 46 1 pint:PI0808|3end_ISPg3-related_transposase_746457..746607_POSITIVE 286 132 93 95 49 pint:PI0725|3end_hypothetical_protein_658933..659083_POSITIVE 279 136 93 80 38 pint:PI0533|3end_ABC_transporter,_permease_protein_488421..488571_POSITIVE 270 130 82 50 1 pint:PI2160|3end_hypothetical_protein_2108357..2108507_POSITIVE 239 120 78 43 1 pint:PI0701|3end_hypothetical_protein_638537..638687_POSITIVE 236 127 81 50 4 pint:PI0797|3end_tRNA_pseudouridine_synthase_A_(pseudouridylate_synthase)_735752..735902_POSITIVE 230 269 223 61 19 pint:PI1008|3end_cytochrome_c_nitrite_reductase,_small_subunit_929331..929481_POSITIVE 230 280 231 136 87 pint:PI0311|3end_hypothetical_protein_294968..295118_POSITIVE 230 280 231 108 59 pint:PI0312|3end_hypothetical_protein_294940..295090_POSITIVE 213 282 242 109 66 pint:PI0369|3end_hypothetical_protein_340409..340559_POSITIVE 211 280 235 84 33 pint:PI0933|3end_hypothetical_protein_865884..866034_POSITIVE 207 280 239 102 64 pint:PI0456|3end_30S_ribosomal_protein_S12_429219..429369_POSITIVE 205 280 231 133 80 pint:PI1169|3end_hypothetical_protein_1090683..1090833_POSITIVE 204 260 220 69 25 pint:PI0299|3end_hypothetical_protein_285086..285236_POSITIVE