Origin IGS: tgataaaatcactaaactttctactgtgtattaaatcataaacattaatccacagtaagtttaactaaataataaatgattatgaatacaaaaaaatatttattagctggagct .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 agctccagctaataaatatttttttgtattcataatcatttattatttagttaaacttactgtggattaatgtttatgatttaatacacagtagaaagtttagtgattttatca Mask Tandem Repeat Region ================================================ tgataaaatcactaaactttctactgtgtattaaatcataaacattaatccacagtaagtttaactaaataataaatgattatgaatacaaaaaaatatttattagctggagct Find is-nt database================================================ Query_seq: PI1598:PI1599|PI1598:PI1599:phosphate ABC transporter, phosphate-binding component:predicted TPR-repeat-containing protein:->->:1527743..1527856 114 tgataaaatcactaaactttctactgtgtattaaatcataaacattaatccacagtaagtttaactaaataataaatgattatgaatacaaaaaaatatttattagctggagct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1598:PI1599|PI1598:PI1599:phosphate ABC transporter, phosphate-binding component:predicted TPR-repeat-containing protein:->->:1527743..1527856 114 tgataaaatcactaaactttctactgtgtattaaatcataaacattaatccacagtaagtttaactaaataataaatgattatgaatacaaaaaaatatttattagctggagct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1598:PI1599|PI1598:PI1599:phosphate ABC transporter, phosphate-binding component:predicted TPR-repeat-containing protein:->->:1527743..1527856 114 tgataaaatcactaaactttctactgtgtattaaatcataaacattaatccacagtaagtttaactaaataataaatgattatgaatacaaaaaaatatttattagctggagct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tgataaaatcactaaactttctactgtgtattaaatcataaacattaatccacagtaagtttaactaaataataaatgattatgaatacaaaaaaatatttattagctggagct Predict ORF larger than 30AA ================================================ tgataaaatcactaaactttctactgtgtattaaatcataaacattaatccacagtaagtttaactaaataataaatgattatgaatacaaaaaaatatttattagctggagct 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================================================ tgataaaatcactaaactttctactgtgtattaaatcataaacattaatccacagtaagtttaactaaataataaatgattatgaatacaaaaaaatatttattagctggagct Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI1598:PI1599|PI1598:PI1599:phosphate ABC transporter, phosphate-binding component:predicted TPR-repeat-containing protein:->->:1527743..1527856 114 tgataaaatcactaaactttctactgtgtattaaatcataaacattaatccacagtaagtttaactaaataataaatgattatgaatacaaaaaaatatttattagctggagct Intra-Species Hit: Count: 1 Min: 1 Max: 114 Len: 114 Subject: pint_PI1598_PI1599|phosphate ABC transporter, phosphate-binding component:predicted TPR-repeat-containing protein|POSITIVE:POSITIVE|[1527743,1527856]|114 HSP 1 e-value: 4.0E-46 bit: 184.0 Len: 114 Query Start:1 Query End:114 Subject Strand: POSITIVE Subject Start: 1 Subject End: 114 tgataaaatcactaaactttctactgtgtattaaatcataaacattaatccacagtaagtttaactaaataataaatgattatgaatacnnnnnnntatttattagctggagct tgataaaatcactaaactttctactgtgtattaaatcataaacattaatccacagtaagtttaactaaataataaatgattatgaatacaaaaaaatatttattagctggagct Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAUAAAAUCACUAAACUUUCUACUGUGUAUUAAAUCAUAAACAUUAAUCCACAGUAAGUUUAACUAAAUAAUAAAUGAUUAUGAAUACAAAAAAAUAUUUAUUAGCUGGAGCU ............((((((...(((((((.(((((..........))))).))))))))))))).(((..(((((((((.((.(........).)).)))))))))..))).... (-17.10) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGCUCCAGCUAAUAAAUAUUUUUUUGUAUUCAUAAUCAUUUAUUAUUUAGUUAAACUUACUGUGGAUUAAUGUUUAUGAUUUAAUACACAGUAGAAAGUUUAGUGAUUUUAUCA (((....))).(((((......)))))......((((((............(((((((((((((.(((((..........))))).)))))))...))))))))))))...... (-16.40) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 196 100 54 120 77 pint:PI1176|5end_endonuclease_III_1098089..1098319_POSITIVE 192 60 19 80 39 pint:PI0630|5end_peptidyl-tRNA_hydrolase_(aminoacyl-tRNA_hydrolase)_577045..577275_POSITIVE 172 90 49 86 48 pint:PI1090|5end_tRNA_uracil_5-methyltransferase_1014366..1014596_POSITIVE 167 54 17 90 46 pint:PI1842|5end_conserved_hypothetical_protein_1787935..1788165_POSITIVE 163 39 16 130 109 pint:PI0921|5end_acyltransferase_852282..852512_POSITIVE 161 55 25 27 1 pint:PI2008|5end__ABC_transporter,_ATP-binding_protein_1967123..1967353_POSITIVE 161 88 47 129 94 pint:PI1895|5end_penicillin-binding_protein_2_1838460..1838690_POSITIVE 154 58 17 67 18 pint:PI1093|5end_conserved_hypothetical_protein_1018625..1018855_POSITIVE 152 58 12 160 108 pint:PI1834|5end_anaerobic_C4-dicarboxylate_membrane_transporter_1774861..1775091_POSITIVE 151 88 53 93 56 pint:PI0723|5end_conserved_hypothetical_protein_656043..656273_POSITIVE 148 57 17 225 181 pint:PI1958|5end_hypothetical_protein_1916582..1916812_POSITIVE 145 52 17 78 43 pint:PI1632|5end_hypothetical_protein_1552819..1553049_POSITIVE 145 60 16 156 119 pint:PI1163|5end_single-strand_DNA_binding_protein_1087757..1087987_POSITIVE 142 68 52 194 178 pint:PI1233|5end_conserved_hypothetical_protein;_possible__MazG_family_protein_1153334..1153564_POSITIVE 142 68 52 35 19 pint:PI1231|5end_hypothetical_protein_1153175..1153405_POSITIVE 142 63 23 128 77 pint:PI1023|5end_hypothetical_protein_939936..940166_POSITIVE 142 63 23 105 54 pint:PI1022|5end_hypothetical_protein_939913..940143_POSITIVE 142 54 11 48 15 pint:PI0240|5end_conserved_hypothetical_protein_238462..238692_POSITIVE 141 60 21 213 165 pint:PI0185|5end_conserved_hypothetical_protein_176992..177222_POSITIVE 139 61 24 133 101 pint:PI1581|5end_cell_shape-determining_protein_1508425..1508655_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 196 100 54 110 67 pint:PI1175|3end_conserved_hypothetical_protein_1098159..1098309_POSITIVE 192 60 19 77 36 pint:PI0629|3end_heat_shock_protein_15_577122..577272_POSITIVE 171 91 54 104 61 pint:PI0774|3end_phosphoserine_aminotransferase_(phosphoserine_transaminase)_710644..710794_POSITIVE 163 39 16 127 106 pint:PI0920|3end_xanthan_lyase_852359..852509_POSITIVE 161 88 47 73 38 pint:PI1894|3end_UDP-N-acetylmuramoylalanyl-D-glutamyl-2,6-diamino_pimelate_ligase_1838484..1838634_POSITIVE 161 70 24 64 12 pint:PI1841|3end_conserved_hypothetical_protein_1787969..1788119_POSITIVE 157 53 24 137 112 pint:PI1772|3end_pullulanase_1704247..1704397_POSITIVE 156 60 13 75 28 pint:PI1598|3end_phosphate_ABC_transporter,_phosphate-binding_component_1527682..1527832_POSITIVE 150 32 9 58 34 pint:PI0652|3end_conserved_hypothetical_protein_595792..595942_POSITIVE 148 57 17 137 93 pint:PI1957|3end_calcium-transporting_ATPase_1916574..1916724_POSITIVE 145 52 17 134 99 pint:PI1633|3end_hypothetical_protein_1552955..1553105_POSITIVE 145 60 16 71 34 pint:PI1162|3end_hemolysin-related_protein,_with_CBS_domain_1087752..1087902_POSITIVE 144 46 19 127 103 pint:PI0892|3end_acyl-ACP_thioesterase_823939..824089_POSITIVE 143 56 21 150 123 pint:PI1535|3end_response_regulator_1455501..1455651_POSITIVE 139 61 24 41 9 pint:PI1580|3end_conserved_hypothetical_protein_1508413..1508563_POSITIVE 139 89 52 108 61 pint:PI0175|3end_succinyl-CoA_synthetase_beta_subunit_168233..168383_POSITIVE 138 84 48 93 58 pint:PI1384|3end_conserved_hypothetical_protein_1306174..1306324_POSITIVE 138 66 35 38 4 pint:PI1378|3end_GTP-binding_protein_lepA_1301651..1301801_POSITIVE 138 86 51 38 4 pint:PI1159|3end_1,4-alpha-glucan_branching_enzyme,_N-terminal_region_1084757..1084907_POSITIVE 132 27 1 39 13 pint:PI0240|3end_conserved_hypothetical_protein_239342..239492_POSITIVE