Origin IGS: actttttcgatgataagaatagaataaaactacattttttcgatgataaacttatttaagaaggtgatgatacctgaattttgacacctacttaaaaacgaaaagacgcactcataacg .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 cgttatgagtgcgtcttttcgtttttaagtaggtgtcaaaattcaggtatcatcaccttcttaaataagtttatcatcgaaaaaatgtagttttattctattcttatcatcgaaaaagt Mask Tandem Repeat Region ================================================ actttttcgatgataagaatagaataaaactacattttttcgatgataaacttatttaagaaggtgatgatacctgaattttgacacctacttaaaaacgaaaagacgcactcataacg Find is-nt database================================================ Query_seq: PI0165:PI0166|PI0165:PI0166:AAA family ATPase:hypothetical protein:->->:161107..161225 119 actttttcgatgataagaatagaataaaactacattttttcgatgataaacttatttaagaaggtgatgatacctgaattttgacacctacttaaaaacgaaaagacgcactcataacg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0165:PI0166|PI0165:PI0166:AAA family ATPase:hypothetical protein:->->:161107..161225 119 actttttcgatgataagaatagaataaaactacattttttcgatgataaacttatttaagaaggtgatgatacctgaattttgacacctacttaaaaacgaaaagacgcactcataacg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0165:PI0166|PI0165:PI0166:AAA family ATPase:hypothetical protein:->->:161107..161225 119 actttttcgatgataagaatagaataaaactacattttttcgatgataaacttatttaagaaggtgatgatacctgaattttgacacctacttaaaaacgaaaagacgcactcataacg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 actttttcgatgataagaatagaataaaactacattttttcgatgataaacttatttaagaaggtgatgatacctgaattttgacacctacttaaaaacgaaaagacgcactcataacg Predict ORF larger than 30AA ================================================ actttttcgatgataagaatagaataaaactacattttttcgatgataaacttatttaagaaggtgatgatacctgaattttgacacctacttaaaaacgaaaagacgcactcataacg 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================================================ actttttcgatgataagaatagaataaaactacattttttcgatgataaacttatttaagaaggtgatgatacctgaattttgacacctacttaaaaacgaaaagacgcactcataacg Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI0165:PI0166|PI0165:PI0166:AAA family ATPase:hypothetical protein:->->:161107..161225 119 actttttcgatgataagaatagaataaaactacattttttcgatgataaacttatttaagaaggtgatgatacctgaattttgacacctacttaaaaacgaaaagacgcactcataacg Intra-Species Hit: Count: 1 Min: 1 Max: 119 Len: 119 Subject: pint_PI0165_PI0166|AAA family ATPase:hypothetical protein|POSITIVE:POSITIVE|[161107,161225]|119 HSP 1 e-value: 1.0E-61 bit: 236.0 Len: 119 Query Start:1 Query End:119 Subject Strand: POSITIVE Subject Start: 1 Subject End: 119 actttttcgatgataagaatagaataaaactacattttttcgatgataaacttatttaagaaggtgatgatacctgaattttgacacctacttaaaaacgaaaagacgcactcataacg actttttcgatgataagaatagaataaaactacattttttcgatgataaacttatttaagaaggtgatgatacctgaattttgacacctacttaaaaacgaaaagacgcactcataacg Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ ACUUUUUCGAUGAUAAGAAUAGAAUAAAACUACAUUUUUUCGAUGAUAAACUUAUUUAAGAAGGUGAUGAUACCUGAAUUUUGACACCUACUUAAAAACGAAAAGACGCACUCAUAACG ..(((((((.......(((.(((((........)))))))).............((((((.(((((.(((..........))).))))).))))))..))))))).............. (-16.20) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CGUUAUGAGUGCGUCUUUUCGUUUUUAAGUAGGUGUCAAAAUUCAGGUAUCAUCACCUUCUUAAAUAAGUUUAUCAUCGAAAAAAUGUAGUUUUAUUCUAUUCUUAUCAUCGAAAAAGU ...((.((.(((((.((((((..((((((.(((((..................))))).))))))............)))))).))))).)).))........................ (-17.61) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 251 91 60 181 141 pint:PI0715|5end_hypothetical_protein_652311..652541_POSITIVE 239 110 70 71 25 pint:PI0003|5end_pseudouridylate_synthase_4270..4500_POSITIVE 233 88 43 59 12 pint:PI1894|5end_UDP-N-acetylmuramoylalanyl-D-glutamyl-2,6-diamino_pimelate_ligase_1836947..1837177_POSITIVE 226 86 41 189 143 pint:PI1727|5end__ATP-dependent_Clp_protease,_ATP-binding_subunit_1645680..1645910_POSITIVE 222 110 62 72 31 pint:PI1443|5end_conserved_hypotehtical_protein;_possible_tonB-dependent_outer_membrane_receptor_1364560..1364790_POSITIVE 210 110 62 89 52 pint:PI0525|5end_transcriptional_regulator,_Arac_family_481332..481562_POSITIVE 206 100 51 230 189 pint:PI0928|5end_hypothetical_protein_859851..860081_POSITIVE 205 50 1 54 5 pint:PI1128|5end_probable_yrdC_domain_protein,_translation_factor_(SUA5)_1054463..1054693_POSITIVE 192 94 59 189 152 pint:PI1882|5end_hypothetical_protein_1825787..1826017_POSITIVE 192 76 35 70 34 pint:PI1832|5end_conserved_hypothetical_protein_1773161..1773391_POSITIVE 189 75 31 189 136 pint:PI0181|5end_conserved_hypothetical_protein_173435..173665_POSITIVE 188 93 59 89 52 pint:PI1589|5end_conserved_hypothetical_protein_1517358..1517588_POSITIVE 187 86 57 157 134 pint:PI1918|5end_uracil-DNA_glycosylase_1861566..1861796_POSITIVE 187 86 57 115 92 pint:PI1917|5end_uracil-DNA_glycosylase_1860797..1861027_POSITIVE 186 87 41 87 28 pint:PI1883|5end_conserved_hypothetical_protein;_possible_surface_protein_1824874..1825104_POSITIVE 186 88 44 51 4 pint:PI1717|5end_major_outer_membrane_protein_1632666..1632896_POSITIVE 185 77 32 48 4 pint:PI0760|5end_ATP-dependent_RNA_helicase,_DEAD/DEAH_box_family_694086..694316_POSITIVE 184 110 63 180 135 pint:PI1640|5end_hypothetical_protein_1558062..1558292_POSITIVE 182 100 58 139 94 pint:PI0988|5end_hypothetical_protein_912347..912577_POSITIVE 182 92 59 131 101 pint:PI0085|5end_RNase_P_protein_component_84440..84670_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 233 100 57 55 10 pint:PI1621|3end_hypothetical_protein_1545740..1545890_POSITIVE 233 100 57 55 10 pint:PI0327|3end_hypothetical_protein_309107..309257_POSITIVE 222 110 62 81 40 pint:PI1442|3end_radical-activating_enzyme_(pyruvate-formate_lyase-activating_enzyme)_1364649..1364799_POSITIVE 219 75 32 100 51 pint:PI1245|3end_hypothetical_protein_1171492..1171642_POSITIVE 219 75 32 104 55 pint:PI1246|3end_conserved_hypothetical_protein;_possible_lipoprotein_1171496..1171646_POSITIVE 201 91 59 98 66 pint:PI1726|3end_ATP-dependent_DNA_helicase_1645542..1645692_POSITIVE 198 49 4 134 85 pint:PI0872|3end_hypothetical_protein_807807..807957_POSITIVE 195 109 61 77 24 pint:PI0424|3end_methylated-DNA--[protein]-cysteine_S-methyltransferase_388976..389126_POSITIVE 193 46 1 140 89 pint:PI2025|3end_conserved_hypothetical_protein_1979452..1979602_POSITIVE 191 93 60 79 36 pint:PI2155|3end_hypothetical_protein_2101052..2101202_POSITIVE 189 75 31 104 51 pint:PI0180|3end_TonB_protein_173430..173580_POSITIVE 187 86 57 107 84 pint:PI1917|3end_uracil-DNA_glycosylase_1861596..1861746_POSITIVE 182 100 58 78 33 pint:PI0986|3end_conserved_hypothetical_protein_912366..912516_POSITIVE 182 92 59 131 101 pint:PI0084|3end_conserved_hypothetical_protein_84520..84670_POSITIVE 181 110 62 138 89 pint:PI0722|3end_RNA_polymerase_sigma-70_factor_655413..655563_POSITIVE 179 102 62 138 96 pint:PI1184|3end_conserved_hypothetical_protein_1106163..1106313_POSITIVE 178 106 62 146 99 pint:PI1833|3end_bacterioferritin_comigratory_protein_1774495..1774645_POSITIVE 177 109 62 77 28 pint:PI0636|3end_hypothetical_protein_582213..582363_POSITIVE 173 88 63 42 16 pint:PI1820|3end_hypothetical_protein_1760377..1760527_POSITIVE 173 90 50 119 72 pint:PI0029|3end_glutamine_amidotransferase_(GMP_synthase_(glutamine-hydrolyzing))_34538..34688_POSITIVE