Origin IGS: acatgctctctttggctaataaaattgatcggcgattgtatcactctacgggcaatttaacgaggggtattcaaaaacgccggtaaaaagcaccgcactttta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taaaagtgcggtgctttttaccggcgtttttgaatacccctcgttaaattgcccgtagagtgatacaatcgccgatcaattttattagccaaagagagcatgt Mask Tandem Repeat Region ================================================ acatgctctctttggctaataaaattgatcggcgattgtatcactctacgggcaatttaacgaggggtattcaaaaacgccggtaaaaagcaccgcactttta Find is-nt database================================================ Query_seq: AA00196:AA00198|AA00196:AA00198:conserved hypothetical protein:conserved hypothetical protein (Cytosine deaminase-related enzyme):->->:138076..138178 103 acatgctctctttggctaataaaattgatcggcgattgtatcactctacgggcaatttaacgaggggtattcaaaaacgccggtaaaaagcaccgcactttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA00196:AA00198|AA00196:AA00198:conserved hypothetical protein:conserved hypothetical protein (Cytosine deaminase-related enzyme):->->:138076..138178 103 acatgctctctttggctaataaaattgatcggcgattgtatcactctacgggcaatttaacgaggggtattcaaaaacgccggtaaaaagcaccgcactttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA00196:AA00198|AA00196:AA00198:conserved hypothetical protein:conserved hypothetical protein (Cytosine deaminase-related enzyme):->->:138076..138178 103 acatgctctctttggctaataaaattgatcggcgattgtatcactctacgggcaatttaacgaggggtattcaaaaacgccggtaaaaagcaccgcactttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 acatgctctctttggctaataaaattgatcggcgattgtatcactctacgggcaatttaacgaggggtattcaaaaacgccggtaaaaagcaccgcactttta Predict ORF larger than 30AA ================================================ acatgctctctttggctaataaaattgatcggcgattgtatcactctacgggcaatttaacgaggggtattcaaaaacgccggtaaaaagcaccgcactttta 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================================================ acatgctctctttggctaataaaattgatcggcgattgtatcactctacgggcaatttaacgaggggtattcaaaaacgccggtaaaaagcaccgcactttta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: AA00196:AA00198|AA00196:AA00198:conserved hypothetical protein:conserved hypothetical protein (Cytosine deaminase-related enzyme):->->:138076..138178 103 acatgctctctttggctaataaaattgatcggcgattgtatcactctacgggcaatttaacgaggggtattcaaaaacgccggtaaaaagcaccgcactttta Intra-Species Hit: Count: 1 Min: 1 Max: 103 Len: 103 Subject: aact_AA00196_AA00198|conserved hypothetical protein:conserved hypothetical protein (Cytosine deaminase-related enzyme)|POSITIVE:POSITIVE|[138076,138178]|103 HSP 1 e-value: 4.0E-52 bit: 204.0 Len: 103 Query Start:1 Query End:103 Subject Strand: POSITIVE Subject Start: 1 Subject End: 103 acatgctctctttggctaataaaattgatcggcgattgtatcactctacgggcaatttaacgaggggtattcaaaaacgccggtaaaaagcaccgcactttta acatgctctctttggctaataaaattgatcggcgattgtatcactctacgggcaatttaacgaggggtattcaaaaacgccggtaaaaagcaccgcactttta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ ACAUGCUCUCUUUGGCUAAUAAAAUUGAUCGGCGAUUGUAUCACUCUACGGGCAAUUUAACGAGGGGUAUUCAAAAACGCCGGUAAAAAGCACCGCACUUUUA ...((((...((((.....))))....(((((((.(((.((.(((((.((..........)).))))))).)))...)))))))....))))........... (-18.90) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAAGUGCGGUGCUUUUUACCGGCGUUUUUGAAUACCCCUCGUUAAAUUGCCCGUAGAGUGAUACAAUCGCCGAUCAAUUUUAUUAGCCAAAGAGAGCAUGU ..........(((((((((...(((......((.......))...((((((..((....(((((...)))))))..)))))).....)))..))))))))).. (-17.80) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 418 100 64 121 88 aact:AA01537|5end_possible_glucokinase_regulatory_protein_1030616..1030846_POSITIVE 388 100 51 122 69 aact:AA00390|5end_permease_263689..263919_POSITIVE 387 99 65 194 154 aact:AA01109|5end_oxidoreductase_(possible_short-chain_alcohol_dehydrogenase)_763899..764129_POSITIVE 373 100 61 190 145 aact:AA01635|5end_ribonucleoside_diphosphate_reductase,_beta_chain_1104615..1104845_POSITIVE 354 100 51 76 22 aact:AA00952|5end_hemY_protein_homolog_657541..657771_POSITIVE 347 100 73 199 172 aact:AA02944|5end_30S_ribosomal_protein_S20_2058688..2058918_POSITIVE 347 100 73 46 19 aact:AA02941|5end_hypothetical_protein_2058535..2058765_POSITIVE 340 100 69 218 187 aact:AA01607|5end_oligopeptide_transporter,_periplasmic-binding_protein_1085644..1085874_POSITIVE 340 100 60 121 75 aact:AA01603|5end_oligopeptidase_A_1082898..1083128_POSITIVE 340 100 51 183 128 aact:AA00679|5end_cytoplasmic_axial_filament_(Ribonuclease_G)_463288..463518_POSITIVE 339 100 51 195 139 aact:AA01471|5end_type_I_restriction_enzyme_M_(modification_chain)_987321..987551_POSITIVE 337 100 51 120 68 aact:AA02159|5end_conserved_hypothetical_protein_1477333..1477563_POSITIVE 337 100 66 175 140 aact:AA01564|5end_transaldolase_B_1049099..1049329_POSITIVE 331 100 72 149 121 aact:AA00324|5end_tRNA_(Uracil-5-)-methyltransferase_(tRNA(M-5-U54)-methyltransferase)_220147..220377_POSITIVE 330 100 73 144 117 aact:AA01213|5end_competence_related_protein_829867..830097_POSITIVE 327 100 51 111 66 aact:AA00160|5end_pilA-like_biogenesis_protein_/_prepilin_peptidase_dependent_proteinD_112836..113066_POSITIVE 325 100 54 121 70 aact:AA01315|5end_DNA/pantothenate_metabolism_flavoprotein_890091..890321_POSITIVE 325 82 46 230 203 aact:AA00260|5end_conserved_hypothetical_protein_183315..183545_POSITIVE 324 100 65 132 98 aact:AA00454|5end_conserved_hypothetical_protein_318020..318250_POSITIVE 323 100 58 51 5 aact:AA01314|5end_hypothetical_protein_890021..890251_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 353 100 64 51 13 aact:AA01040|3end_possible_lipoprotein_724946..725096_POSITIVE 347 100 73 83 56 aact:AA02940|3end_conserved_hypothetical_protein_2058652..2058802_POSITIVE 340 100 69 148 117 aact:AA01605|3end_hypothetical_protein_1085654..1085804_POSITIVE 340 100 51 63 8 aact:AA00675|3end_glutaredoxin_2_463248..463398_POSITIVE 339 100 51 128 82 aact:AA02348|3end_bacterioferritin_comigratory_protein_1607313..1607463_POSITIVE 339 100 52 72 15 aact:AA00470|3end_conserved_hypothetical_protein_(possible_Zn-dependent_protease_with_chaperone_function)_327659..327809_POSITIVE 337 100 66 39 4 aact:AA01563|3end_transketolase_isozyme_1_1049043..1049193_POSITIVE 331 100 72 144 116 aact:AA00323|3end_conserved_hypothetical_protein_(possible_SAM-dependent_methyltransferase)_220222..220372_POSITIVE 327 100 51 130 85 aact:AA00158|3end_ampD_signalling_protein_(N-acetylmuramyl-L-alanine_amidase)_112935..113085_POSITIVE 325 100 54 146 95 aact:AA01314|3end_hypothetical_protein_890196..890346_POSITIVE 324 100 65 41 7 aact:AA00453|3end_phosphoglyceromutase_318009..318159_POSITIVE 323 100 58 49 3 aact:AA01313|3end_deoxyuridinetriphosphatase;_deoxyuridine_5'-triphosphate_nucleotidohydrolase_890099..890249_POSITIVE 322 100 51 81 29 aact:AA01932|3end_tRNA_pseudouridine_synthase_B_1306092..1306242_POSITIVE 315 100 52 139 94 aact:AA01389|3end_hypothetical_protein_937158..937308_POSITIVE 313 100 51 148 102 aact:AA01025|3end_hypothetical_protein_717769..717919_POSITIVE 312 86 41 134 77 aact:AA01640|3end_restriction_enzyme_type_I_helicase_subunit_1110839..1110989_POSITIVE 311 100 73 48 22 aact:AA02978|3end_sufI_protein_precursor_homolog_2083308..2083458_POSITIVE 307 100 59 135 96 aact:AA00408|3end_SUN_protein_(FMU_protein)_273688..273838_POSITIVE 305 100 61 59 20 aact:AA00112|3end_uracil_permease_81239..81389_POSITIVE 299 100 58 89 44 aact:AA01301|3end_competence_protein_B_882095..882245_POSITIVE