Origin IGS: aattaatcttcaattttaagtaaataacgtccacttctaatccataaaaagtggggctgataataaagttcattcatccatgaacaaaccgtgaaattta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taaatttcacggtttgttcatggatgaatgaactttattatcagccccactttttatggattagaagtggacgttatttacttaaaattgaagattaatt Mask Tandem Repeat Region ================================================ aattaatcttcaattttaagtaaataacgtccacttctaatccataaaaagtggggctgataataaagttcattcatccatgaacaaaccgtgaaattta Find is-nt database================================================ Query_seq: AA02528:AA02529|AA02528:AA02529:30S ribosomal protein S1:cytidylate kinase 1:->->:1757753..1757852 100 aattaatcttcaattttaagtaaataacgtccacttctaatccataaaaagtggggctgataataaagttcattcatccatgaacaaaccgtgaaattta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA02528:AA02529|AA02528:AA02529:30S ribosomal protein S1:cytidylate kinase 1:->->:1757753..1757852 100 aattaatcttcaattttaagtaaataacgtccacttctaatccataaaaagtggggctgataataaagttcattcatccatgaacaaaccgtgaaattta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA02528:AA02529|AA02528:AA02529:30S ribosomal protein S1:cytidylate kinase 1:->->:1757753..1757852 100 aattaatcttcaattttaagtaaataacgtccacttctaatccataaaaagtggggctgataataaagttcattcatccatgaacaaaccgtgaaattta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aattaatcttcaattttaagtaaataacgtccacttctaatccataaaaagtggggctgataataaagttcattcatccatgaacaaaccgtgaaattta Predict ORF larger than 30AA ================================================ aattaatcttcaattttaagtaaataacgtccacttctaatccataaaaagtggggctgataataaagttcattcatccatgaacaaaccgtgaaattta 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================================================ aattaatcttcaattttaagtaaataacgtccacttctaatccataaaaagtggggctgataataaagttcattcatccatgaacaaaccgtgaaattta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: AA02528:AA02529|AA02528:AA02529:30S ribosomal protein S1:cytidylate kinase 1:->->:1757753..1757852 100 aattaatcttcaattttaagtaaataacgtccacttctaatccataaaaagtggggctgataataaagttcattcatccatgaacaaaccgtgaaattta Intra-Species Hit: Count: 1 Min: 1 Max: 100 Len: 100 Subject: aact_AA02528_AA02529|30S ribosomal protein S1:cytidylate kinase 1|POSITIVE:POSITIVE|[1757753,1757852]|100 HSP 1 e-value: 2.0E-50 bit: 198.0 Len: 100 Query Start:1 Query End:100 Subject Strand: POSITIVE Subject Start: 1 Subject End: 100 aattaatcttcaattttaagtaaataacgtccacttctaatccataaaaagtggggctgataataaagttcattcatccatgaacaaaccgtgaaattta aattaatcttcaattttaagtaaataacgtccacttctaatccataaaaagtggggctgataataaagttcattcatccatgaacaaaccgtgaaattta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAUUAAUCUUCAAUUUUAAGUAAAUAACGUCCACUUCUAAUCCAUAAAAAGUGGGGCUGAUAAUAAAGUUCAUUCAUCCAUGAACAAACCGUGAAAUUUA ...........(((((((...........(((((((............)))))))............((((((......))))))......))))))).. (-13.30) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAUUUCACGGUUUGUUCAUGGAUGAAUGAACUUUAUUAUCAGCCCCACUUUUUAUGGAUUAGAAGUGGACGUUAUUUACUUAAAAUUGAAGAUUAAUU (((.(((((.((((..((((....))))..))))............((((((((........))))))))..................))))).)))... (-18.90) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 291 94 51 194 149 aact:AA02199|5end_hypothetical_protein_1497627..1497857_POSITIVE 256 98 55 169 127 aact:AA00954|5end_uroporphyrinogen_III_synthase_660247..660477_POSITIVE 245 60 27 141 99 aact:AA01071|5end_RNA_methyltransferase_741707..741937_POSITIVE 236 60 24 143 107 aact:AA02293|5end_hypothetical_protein_1563531..1563761_POSITIVE 236 99 51 54 11 aact:AA01417|5end_probable_4-diphosphocytidyl-2C-methyl-D-erthyritol_synthase_(MEP_cytidyltransferase)_(MCT)_953256..953486_POSITIVE 235 96 51 53 12 aact:AA00057|5end_cytochrome_c-type_biogenesis_protein_44440..44670_POSITIVE 224 78 31 196 135 aact:AA01336|5end_hypothetical_protein_904056..904286_POSITIVE 222 90 49 126 72 aact:AA00037|5end_conserved_hypothetical_protein_29170..29400_POSITIVE 218 61 28 173 135 aact:AA01813|5end_electron_transport_complex_protein_1220949..1221179_POSITIVE 211 93 51 67 24 aact:AA00847|5end_S-adenosyl-dependent_methyltransferase_584960..585190_POSITIVE 208 93 54 230 183 aact:AA01561|5end_conserved_hypothetical_protein_1046505..1046735_POSITIVE 208 79 37 167 120 aact:AA01252|5end_conserved_hypothetical_protein_(probable_SirA_homolog)_852023..852253_POSITIVE 207 78 40 100 60 aact:AA00543|5end_ADP-heptose--LPS_heptosyltransferase_II_371287..371517_POSITIVE 206 97 56 218 187 aact:AA00585|5end_glycerol-3-phosphate_regulon_repressor_399195..399425_POSITIVE 204 91 53 223 190 aact:AA01311|5end_transcriptional_regulator_888968..889198_POSITIVE 203 60 28 57 22 aact:AA00479|5end_mannose-specific_phosphotransferase_system_IIC_333475..333705_POSITIVE 202 93 56 49 4 aact:AA00900|5end_conserved_hypothetical_protein_623442..623672_POSITIVE 202 78 31 160 118 aact:AA00596|5end_uridylate_kinase_407496..407726_POSITIVE 201 90 53 198 154 aact:AA02057|5end_phosphoglycerate_mutase_1401253..1401483_POSITIVE 199 79 34 143 104 aact:AA00982|5end_aldo-keto_reductase_686526..686756_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 256 98 55 135 93 aact:AA00953|3end_uroporphyrinogen_III_methylase_660293..660443_POSITIVE 236 99 51 54 11 aact:AA01416|3end_2C-methyl-D-erythritol_2,4-cyclodiphosphate_953336..953486_POSITIVE 235 96 51 53 12 aact:AA00056|3end_cytochrome_c-type_biogenesis_protein_44520..44670_POSITIVE 222 90 49 130 76 aact:AA00036|3end_transposase_29254..29404_POSITIVE 218 65 28 148 99 aact:AA02196|3end_oxaloacetate_decarboxylase_beta_chain_1497692..1497842_POSITIVE 217 44 9 131 98 aact:AA02190|3end_hydrogenase-2_component_protein_1493271..1493421_POSITIVE 213 58 15 138 102 aact:AA01441|3end_tRNA/rRNA_methylase_967643..967793_POSITIVE 211 93 51 64 21 aact:AA00846|3end_cell_division_protein_L_585037..585187_POSITIVE 208 93 54 150 103 aact:AA01559|3end_RecA_regulatory_protein,_RecX_1046505..1046655_POSITIVE 208 79 37 58 11 aact:AA01251|3end_hypothetical_protein_851994..852144_POSITIVE 207 78 40 77 37 aact:AA00541|3end_conserved_hypothetical_protein_371344..371494_POSITIVE 206 80 31 146 98 aact:AA02242|3end_molybdenum_cofactor_biosynthesis_protein_A_1525088..1525238_POSITIVE 204 91 52 151 115 aact:AA01813|3end_electron_transport_complex_protein_1221811..1221961_POSITIVE 203 62 29 84 52 aact:AA02972|3end_conserved_hypothetical_protein_(tyrosine_phenol_lyase-related_protein)_2077622..2077772_POSITIVE 203 60 28 36 1 aact:AA00478|3end_mannose-specific_phosphotransferase_element_333534..333684_POSITIVE 201 90 53 135 91 aact:AA02056|3end_tetrahydrofolylpolyglutamate_synthase_(FPGS)_1401270..1401420_POSITIVE 196 78 31 150 101 aact:AA02532|3end_conserved_hypothetical_protein_1762009..1762159_POSITIVE 196 84 42 44 1 aact:AA00106|3end_1-hydroxy-2-methyl-2-(E)-butenyl_4-diphosphate_synthase_76724..76874_POSITIVE 195 79 50 143 109 aact:AA01501|3end_hypothetical_protein_1010040..1010190_POSITIVE 192 75 33 120 85 aact:AA01901|3end_hypothetical_protein_1282870..1283020_POSITIVE