Origin IGS: taagaatagatagttttttaaaagttaaattaagtgaaggcagctaagcgattatgcttagctgcctcttttttttcgatgcaataatcctatctttcattctcgtttacaaagggttatgcgcgcgatgcgcttttctctcaaattctttacacataaataaatatttctttacgtgtaagtaaatatttatttacgtgtagggaaatatttatttacgtgtaaagaat .........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 attctttacacgtaaataaatatttccctacacgtaaataaatatttacttacacgtaaagaaatatttatttatgtgtaaagaatttgagagaaaagcgcatcgcgcgcataaccctttgtaaacgagaatgaaagataggattattgcatcgaaaaaaaagaggcagctaagcataatcgcttagctgccttcacttaatttaacttttaaaaaactatctattctta Mask Tandem Repeat Region ================================================ taagaatagatagttttttaaaagttaaattaagtgaaggcagctaagcgattatgcttagctgcctcttttttttcgatgcaataatcctatctttcattctcgtttacaaagggttatgcgcgcgatgcgcttttctctcaaattctttacacataaannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnagaat Find is-nt database================================================ Query_seq: PI0618:PI0619|PI0618:PI0619:acyl-CoA dehydrogenase family protein:hypothetical protein:->->:569274..569503 230 taagaatagatagttttttaaaagttaaattaagtgaaggcagctaagcgattatgcttagctgcctcttttttttcgatgcaataatcctatctttcattctcgtttacaaagggttatgcgcgcgatgcgcttttctctcaaattctttacacataaataaatatttctttacgtgtaagtaaatatttatttacgtgtagggaaatatttatttacgtgtaaagaat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0618:PI0619|PI0618:PI0619:acyl-CoA dehydrogenase family protein:hypothetical protein:->->:569274..569503 230 taagaatagatagttttttaaaagttaaattaagtgaaggcagctaagcgattatgcttagctgcctcttttttttcgatgcaataatcctatctttcattctcgtttacaaagggttatgcgcgcgatgcgcttttctctcaaattctttacacataaataaatatttctttacgtgtaagtaaatatttatttacgtgtagggaaatatttatttacgtgtaaagaat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0618:PI0619|PI0618:PI0619:acyl-CoA dehydrogenase family protein:hypothetical protein:->->:569274..569503 230 taagaatagatagttttttaaaagttaaattaagtgaaggcagctaagcgattatgcttagctgcctcttttttttcgatgcaataatcctatctttcattctcgtttacaaagggttatgcgcgcgatgcgcttttctctcaaattctttacacataaataaatatttctttacgtgtaagtaaatatttatttacgtgtagggaaatatttatttacgtgtaaagaat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taagaatagatagttttttaaaagttaaattaagtgaaggcagctaagcgattatgcttagctgcctcttttttttcgatgcaataatcctatctttcattctcgtttacaaagggttatgcgcgcgatgcgcttttctctcaaattctttacacataaataaatatttctttacgtgtaagtaaatatttatttacgtgtagggaaatatttatttacgtgtaaagaat Predict ORF larger than 30AA ================================================ Protein_Len: 33 Strand: + Start: 62 End: 160 ............................................................. M P L F F R C N N P I F H S R L Q R V M R A M R F S L K F F T H K ...................................................................... Protein_Len: 44 Strand: + Start: 51 End: 182 .................................................. M M L S C L F F F D A I I L S F I L V Y K G L C A R C A F L S N S L H I N K Y F F T C K ................................................ taagaatagatagttttttaaaagttaaattaagtgaaggcagctaagcgattatgcttagctgcctcttttttttcgatgcaataatcctatctttcattctcgtttacaaagggttatgcgcgcgatgcgcttttctctcaaattctttacacataaataaatatttctttacgtgtaagtaaatatttatttacgtgtagggaaatatttatttacgtgtaaagaat 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================================================ taagaatagatagttttttaaaagttaaattaagtgaaggcagctaagcgattatgcttagctgcctcttttttttcgatgcaataatcctatctttcattctcgtttacaaagggttatgcgcgcgatgcgcttttctctcaaattctttacacataaataaatatttctttacgtgtaagtaaatatttatttacgtgtagggaaatatttatttacgtgtaaagaat Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 62 HP_score: -5.9 Tail_Score: -3.60899 Start: 34 End: 70 Full_Region: attgcatcgaaaaaa aagaggcagctaagc ataatc gcttagctgccttcac ttaatttaactttta .................................aagaggcagctaagcataatcgcttagctgccttcac................................................................................................................................................................ TransTerm Strand: + Conf: 100 HP_score: -13.8 Tail_Score: -5.81412 Start: 37 End: 68 Full_Region: AAGTTAAATTAAGTG AAGGCAGCTAAGCG ATTA TGCTTAGCTGCCTC TTTTTTTTCGATGCA ....................................AAGGCAGCTAAGCGATTATGCTTAGCTGCCTC.................................................................................................................................................................. TransTerm Strand: + Conf: 100 HP_score: -16.4 Tail_Score: -4.5536 Start: 39 End: 66 Full_Region: GTTAAATTAAGTGAA GGCAGCTAAGCG ATTA TGCTTAGCTGCC TCTTTTTTTTCGATG ......................................GGCAGCTAAGCGATTATGCTTAGCTGCC.................................................................................................................................................................... TransTerm Strand: - Conf: 100 HP_score: -15.7 Tail_Score: -3.26596 Start: 39 End: 66 Full_Region: catcgaaaaaaaaga ggcagctaagc ataatc gcttagctgcc ttcacttaatttaac ......................................ggcagctaagcataatcgcttagctgcc.................................................................................................................................................................... TransTerm Strand: + Conf: 85 HP_score: -8.2 Tail_Score: -4.55118 Start: 123 End: 133 Full_Region: TACAAAGGGTTATGC GCGC GAT GCGC TTTTCTCTCAAATTC ..........................................................................................................................GCGCGATGCGC................................................................................................. TransTerm Strand: + Conf: 100 HP_score: -13.7 Tail_Score: -3.70902 Start: 161 End: 214 Full_Region: TTCTTTACACATAAA TAAATATTTCTTTACGTGTAAGTAA ATAT TTATTTACGTGTAGGGAAATATTTA TTTACGTGTAAAGAA ................................................................................................................................................................TAAATATTTCTTTACGTGTAAGTAAATATTTATTTACGTGTAGGGAAATATTTA................ TransTerm Strand: + Conf: 93 HP_score: -10.1 Tail_Score: -4.48299 Start: 165 End: 210 Full_Region: TTACACATAAATAAA TATTTCTTTACGTGTAAGTAA ATAT TTATTTACGTGTAGGGAAATA TTTATTTACGTGTAA ....................................................................................................................................................................TATTTCTTTACGTGTAAGTAAATATTTATTTACGTGTAGGGAAATA.................... Find igs database================================================ Query_seq: PI0618:PI0619|PI0618:PI0619:acyl-CoA dehydrogenase family protein:hypothetical protein:->->:569274..569503 230 taagaatagatagttttttaaaagttaaattaagtgaaggcagctaagcgattatgcttagctgcctcttttttttcgatgcaataatcctatctttcattctcgtttacaaagggttatgcgcgcgatgcgcttttctctcaaattctttacacataaataaatatttctttacgtgtaagtaaatatttatttacgtgtagggaaatatttatttacgtgtaaagaat Intra-Species Hit: Count: 1 Min: 1 Max: 230 Len: 230 Subject: pint_PI0618_PI0619|acyl-CoA dehydrogenase family protein:hypothetical protein|POSITIVE:POSITIVE|[569274,569503]|230 HSP 1 e-value: 1.0E-113 bit: 408.0 Len: 230 Query Start:1 Query End:230 Subject Strand: POSITIVE Subject Start: 1 Subject End: 230 taagaatagatagttttttaaaagttaaattaagtgaaggcagctaagcgattatgcttagctgcctcnnnnnnnncgatgcaataatcctatctttcattctcgtttacaaagggttatgcgcgcgatgcgcttttctctcaaattctttacacataaataaatatttctttacgtgtaagtaaatatttatttacgtgtagggaaatatttatttacgtgtaaagaat taagaatagatagttttttaaaagttaaattaagtgaaggcagctaagcgattatgcttagctgcctcttttttttcgatgcaataatcctatctttcattctcgtttacaaagggttatgcgcgcgatgcgcttttctctcaaattctttacacataaataaatatttctttacgtgtaagtaaatatttatttacgtgtagggaaatatttatttacgtgtaaagaat HSP 2 e-value: 6.0E-13 bit: 75.8 Len: 86 Query Start:145 Query End:230 Subject Strand: NEGATIVE Subject Start: 145 Subject End: 230 ................................................................................................................................................attctttacacataaataaatatttctttacgtgtaagtaaatatttatttacgtgtagggaaatatttatttacgtgtaaagaat ................................................................................................................................................attctttacacgtaaataaatatttccctacacgtaaataaatatttacttacacgtaaagaaatatttatttatgtgtaaagaat Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAGAAUAGAUAGUUUUUUAAAAGUUAAAUUAAGUGAAGGCAGCUAAGCGAUUAUGCUUAGCUGCCUCUUUUUUUUCGAUGCAAUAAUCCUAUCUUUCAUUCUCGUUUACAAAGGGUUAUGCGCGCGAUGCGCUUUUCUCUCAAAUUCUUUACACAUAAAUAAAUAUUUCUUUACGUGUAAGUAAAUAUUUAUUUACGUGUAGGGAAAUAUUUAUUUACGUGUAAAGAAU ...(((.((((((..((......((..((..(((.((.(((((((((((......))))))))))))).)))..))..)).....))..)))))))))..............((((....((((.....))))....))))...(((((((((((.(((((((((((((((((((((((((((((....))))))))))))))))))))))))))))).))))))))))) (-83.30) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUUCUUUACACGUAAAUAAAUAUUUCCCUACACGUAAAUAAAUAUUUACUUACACGUAAAGAAAUAUUUAUUUAUGUGUAAAGAAUUUGAGAGAAAAGCGCAUCGCGCGCAUAACCCUUUGUAAACGAGAAUGAAAGAUAGGAUUAUUGCAUCGAAAAAAAAGAGGCAGCUAAGCAUAAUCGCUUAGCUGCCUUCACUUAAUUUAACUUUUAAAAAACUAUCUAUUCUUA ((((((((((((((((((((((((((..(((..((((.(((....))).))))..)))..))))))))))))))))))))))))))...........((((.....))))................((((((...((((((.....................(((((((((((((......)))))))))))))...((((........))))....)))))))))))). (-72.60) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 547 220 171 129 80 pint:PI0312|5end_hypothetical_protein_294591..294821_POSITIVE 499 229 181 142 95 pint:PI0579|5end_hypothetical_protein_523419..523649_POSITIVE 482 220 171 155 106 pint:PI1673|5end_hypothetical_protein_1587718..1587948_POSITIVE 477 219 171 223 175 pint:PI0702|5end_conserved_hypothetical_protein;_possible_tetracenomycin_C_synthesis_protein_homolog_638640..638870_POSITIVE 465 219 171 154 104 pint:PI0648|5end_hypothetical_protein_589448..589678_POSITIVE 429 219 171 132 84 pint:PI1450|5end_hypothetical_protein_1372683..1372913_POSITIVE 416 220 171 111 62 pint:PI1462|5end_hypothetical_protein_1385094..1385324_POSITIVE 415 200 151 202 153 pint:PI0115|5end_hypothetical_protein_108062..108292_POSITIVE 415 200 151 188 139 pint:PI0111|5end_hypothetical_protein_108048..108278_POSITIVE 415 200 151 153 104 pint:PI0112|5end_hypothetical_protein_108013..108243_POSITIVE 414 226 181 154 110 pint:PI0983|5end_hypothetical_protein_909750..909980_POSITIVE 370 185 146 164 125 pint:PI0130|5end_hypothetical_protein_122032..122262_POSITIVE 357 142 102 49 4 pint:PI0703|5end_hypothetical_protein_639655..639885_POSITIVE 325 225 182 116 76 pint:PI0535|5end_hypothetical_protein_489508..489738_POSITIVE 318 207 168 231 192 pint:PI1674|5end_hypothetical_protein_1587829..1588059_POSITIVE 317 204 171 212 179 pint:PI0173|5end_hypothetical_protein_165305..165535_POSITIVE 312 146 101 203 159 pint:PI1902|5end_hypothetical_protein_1844931..1845161_POSITIVE 307 94 57 32 4 pint:PI1652|5end_hypothetical_protein_1564655..1564885_POSITIVE 304 154 114 83 34 pint:PI0660|5end_conserved_hypothetical_protein_603438..603668_POSITIVE 304 80 32 172 101 pint:PI0543|5end_adenylate_kinase_495073..495303_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 475 219 171 135 87 pint:PI2105|3end_hypothetical_protein_2059586..2059736_POSITIVE 475 229 181 50 3 pint:PI0701|3end_hypothetical_protein_638537..638687_POSITIVE 474 208 161 106 59 pint:PI0725|3end_hypothetical_protein_658933..659083_POSITIVE 456 219 173 47 1 pint:PI2106|3end_hypothetical_protein_2059498..2059648_POSITIVE 440 219 171 62 14 pint:PI0533|3end_ABC_transporter,_permease_protein_488421..488571_POSITIVE 420 70 32 59 21 pint:PI0618|3end_acyl-CoA_dehydrogenase_family_protein_569213..569363_POSITIVE 407 214 171 61 18 pint:PI1314|3end_hypothetical_protein_1231423..1231573_POSITIVE 400 226 190 47 11 pint:PI0797|3end_tRNA_pseudouridine_synthase_A_(pseudouridylate_synthase)_735752..735902_POSITIVE 370 185 146 54 15 pint:PI0598|3end_hypothetical_protein_547233..547383_POSITIVE 354 204 162 44 2 pint:PI2160|3end_hypothetical_protein_2108357..2108507_POSITIVE 317 204 171 65 32 pint:PI0172|3end_ISPg3-related_transposase_165238..165388_POSITIVE 316 75 33 61 24 pint:PI0160|3end_conserved_hypothetical_protein_153268..153418_POSITIVE 311 78 34 150 112 pint:PI0588|3end_hypothetical_protein_535425..535575_POSITIVE 311 78 34 72 34 pint:PI0587|3end_conserved_hypothetical_protein_535347..535497_POSITIVE 307 82 47 125 81 pint:PI0658|3end_conserved_hypothetical_protein_603043..603193_POSITIVE 302 142 103 108 64 pint:PI1768|3end_conserved_hypothetical_protein_1696639..1696789_POSITIVE 301 145 116 48 26 pint:PI1284|3end_ATP_synthase,_delta_subunit_1200323..1200473_POSITIVE 299 204 170 38 5 pint:PI1461|3end_conserved_hypothetical_protein_1385073..1385223_POSITIVE 297 68 24 109 63 pint:PI2074|3end_conserved_hypothetical_protein_2034375..2034525_POSITIVE 295 73 33 140 105 pint:PI0890|3end_ribose_5-phosphate_isomerase_B_820931..821081_POSITIVE