Origin IGS: aatgtccctgctcttaagtttgctaatttttttcgtctaataagtctaacgaaaaggaaaatagaataataggggcaaatgcggtaaaatgcgcctcttttcacatttttcagcagtctatgtactaaggttggtacg .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 cgtaccaaccttagtacatagactgctgaaaaatgtgaaaagaggcgcattttaccgcatttgcccctattattctattttccttttcgttagacttattagacgaaaaaaattagcaaacttaagagcagggacatt Mask Tandem Repeat Region ================================================ aatgtccctgctcttaagtttgctaatttttttcgtctaataagtctaacgaaaaggaaaatagaataataggggcaaatgcggtaaaatgcgcctcttttcacatttttcagcagtctatgtactaaggttggtacg Find is-nt database================================================ Query_seq: AA00679:AA00680|AA00679:AA00680:cytoplasmic axial filament (Ribonuclease G):sodium/proline symporter (proline permease):->->:464901..465038 138 aatgtccctgctcttaagtttgctaatttttttcgtctaataagtctaacgaaaaggaaaatagaataataggggcaaatgcggtaaaatgcgcctcttttcacatttttcagcagtctatgtactaaggttggtacg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA00679:AA00680|AA00679:AA00680:cytoplasmic axial filament (Ribonuclease G):sodium/proline symporter (proline permease):->->:464901..465038 138 aatgtccctgctcttaagtttgctaatttttttcgtctaataagtctaacgaaaaggaaaatagaataataggggcaaatgcggtaaaatgcgcctcttttcacatttttcagcagtctatgtactaaggttggtacg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA00679:AA00680|AA00679:AA00680:cytoplasmic axial filament (Ribonuclease G):sodium/proline symporter (proline permease):->->:464901..465038 138 aatgtccctgctcttaagtttgctaatttttttcgtctaataagtctaacgaaaaggaaaatagaataataggggcaaatgcggtaaaatgcgcctcttttcacatttttcagcagtctatgtactaaggttggtacg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aatgtccctgctcttaagtttgctaatttttttcgtctaataagtctaacgaaaaggaaaatagaataataggggcaaatgcggtaaaatgcgcctcttttcacatttttcagcagtctatgtactaaggttggtacg Predict ORF larger than 30AA ================================================ Protein_Len: 38 Strand: - Start: 3 End: 116 .. T G A R L N A L K K R R I L R V F L F I S Y Y P C I R Y F A G R K V N K L M ...................... aatgtccctgctcttaagtttgctaatttttttcgtctaataagtctaacgaaaaggaaaatagaataataggggcaaatgcggtaaaatgcgcctcttttcacatttttcagcagtctatgtactaaggttggtacg 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================================================ aatgtccctgctcttaagtttgctaatttttttcgtctaataagtctaacgaaaaggaaaatagaataataggggcaaatgcggtaaaatgcgcctcttttcacatttttcagcagtctatgtactaaggttggtacg Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: AA00679:AA00680|AA00679:AA00680:cytoplasmic axial filament (Ribonuclease G):sodium/proline symporter (proline permease):->->:464901..465038 138 aatgtccctgctcttaagtttgctaatttttttcgtctaataagtctaacgaaaaggaaaatagaataataggggcaaatgcggtaaaatgcgcctcttttcacatttttcagcagtctatgtactaaggttggtacg Intra-Species Hit: Count: 1 Min: 1 Max: 138 Len: 138 Subject: aact_AA00679_AA00680|cytoplasmic axial filament (Ribonuclease G):sodium/proline symporter (proline permease)|POSITIVE:POSITIVE|[464901,465038]|138 HSP 1 e-value: 2.0E-60 bit: 232.0 Len: 138 Query Start:1 Query End:138 Subject Strand: POSITIVE Subject Start: 1 Subject End: 138 aatgtccctgctcttaagtttgctaannnnnnncgtctaataagtctaacgaaaaggaaaatagaataataggggcaaatgcggtaaaatgcgcctcttttcacatttttcagcagtctatgtactaaggttggtacg aatgtccctgctcttaagtttgctaatttttttcgtctaataagtctaacgaaaaggaaaatagaataataggggcaaatgcggtaaaatgcgcctcttttcacatttttcagcagtctatgtactaaggttggtacg Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAUGUCCCUGCUCUUAAGUUUGCUAAUUUUUUUCGUCUAAUAAGUCUAACGAAAAGGAAAAUAGAAUAAUAGGGGCAAAUGCGGUAAAAUGCGCCUCUUUUCACAUUUUUCAGCAGUCUAUGUACUAAGGUUGGUACG ..((((((((......((....))..((((((((((............))))))))))...........))))))))..(((...((((((.(........).))))))...)))......((((((....)))))). (-29.10) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CGUACCAACCUUAGUACAUAGACUGCUGAAAAAUGUGAAAAGAGGCGCAUUUUACCGCAUUUGCCCCUAUUAUUCUAUUUUCCUUUUCGUUAGACUUAUUAGACGAAAAAAAUUAGCAAACUUAAGAGCAGGGACAUU .((((........)))).....(((((..((((((.(((...(((.(((............))).)))....)))))))))..((((((((.((....)).)))))))).................)))))....... (-24.20) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 330 95 63 58 22 aact:AA00578|5end_DNA_topoisomerase_394576..394806_POSITIVE 297 115 74 215 179 aact:AA02716|5end_peptidase_T_1899789..1900019_POSITIVE 289 117 73 195 143 aact:AA02142|5end_outer_membrane_protein_OprM_precursor_1466037..1466267_POSITIVE 287 117 72 92 37 aact:AA02103|5end_D-alanyl-D-alanine-endopeptidase;_penicillin-binding_protein_7_1431105..1431335_POSITIVE 283 96 72 223 196 aact:AA02153|5end_iron(III)_ABC_transporter,_permease_protein_1472530..1472760_POSITIVE 281 106 70 197 164 aact:AA00412|5end_conserved_hypothetical_protein_279174..279404_POSITIVE 279 96 56 166 117 aact:AA01834|5end_hypothetical_protein_1234640..1234870_POSITIVE 279 117 71 77 30 aact:AA00189|5end_dihydroxynaphthoic_acid_synthase_(naphthoate_synthas)_133119..133349_POSITIVE 277 119 72 98 36 aact:AA01928|5end_ATP-dependent_RNA_helicase_1301986..1302216_POSITIVE 275 97 70 230 204 aact:AA00674|5end_nicotinate-nucleotide-dimethylbenzimidazole_phosphoribosyltransferase_461810..462040_POSITIVE 271 106 66 61 15 aact:AA01204|5end_hypothetical_protein_825015..825245_POSITIVE 270 120 72 66 22 aact:AA02980|5end_conserved_hypothetical_protein_2083305..2083535_POSITIVE 270 120 80 171 127 aact:AA01270|5end_hydrolase_(possible_2-haloalkanoic_acid_dehalogenase_I)_863317..863547_POSITIVE 262 117 72 142 96 aact:AA02342|5end_ISRSO11/IS150_related_transposase,_orfB_1599565..1599795_POSITIVE 262 117 72 142 96 aact:AA02117|5end_probable_transposase_1445207..1445437_POSITIVE 262 117 72 142 96 aact:AA01077|5end_transposase_746284..746514_POSITIVE 262 117 72 142 96 aact:AA00010|5end_transposase_orfB_fragment_5711..5941_POSITIVE 261 119 71 82 38 aact:AA02384|5end_2-dehydro-3-deoxygluconokinase_1632112..1632342_POSITIVE 255 109 62 185 144 aact:AA02334|5end_outer_membrane_protein_P1_1595307..1595537_POSITIVE 255 117 72 83 38 aact:AA00819|5end_D-alanyl-D-alanine_carboxypeptidase_562644..562874_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 330 95 63 50 14 aact:AA00576|3end_conserved_hypothetical_protein_(possible_translation_factor)_394648..394798_POSITIVE 297 115 74 133 97 aact:AA02715|3end_paraquat-inducible_protein_pqiB_homolog_1899787..1899937_POSITIVE 287 117 72 95 40 aact:AA02101|3end_penicillin-binding_protein_7_1431188..1431338_POSITIVE 276 96 59 49 4 aact:AA01832|3end_formate_dehydrogenase_formation_protein_E_1234603..1234753_POSITIVE 266 114 76 133 88 aact:AA02052|3end_probable_exodeoxyribonuclease_VII_small_subunit_1398909..1399059_POSITIVE 262 117 72 145 99 aact:AA02341|3end_hypothetical_protein_1599648..1599798_POSITIVE 262 117 72 145 99 aact:AA02116|3end_hypothetical_protein_1445290..1445440_POSITIVE 262 117 72 145 99 aact:AA01076|3end_hypothetical_protein_746367..746517_POSITIVE 262 117 72 145 99 aact:AA00009|3end_hypothetical_protein_(possible_transposase_fragment)_5794..5944_POSITIVE 261 119 71 67 23 aact:AA02383|3end_oxidoreductase_1632177..1632327_POSITIVE 252 93 56 48 1 aact:AA02678|3end_formate_dehydrogenase,_gamma_subunit_1865523..1865673_POSITIVE 248 118 72 65 16 aact:AA00528|3end_conserved_hypothetical_protein_361703..361853_POSITIVE 246 94 72 33 7 aact:AA00841|3end_UDP-MurNAc-tripeptide_synthetase_582861..583011_POSITIVE 243 95 73 150 120 aact:AA02141|3end_ABC_transporter,_permease_protein_1466094..1466244_POSITIVE 240 128 81 148 81 aact:AA01890|3end_cell-cycle_protein_1275967..1276117_POSITIVE 239 48 6 43 8 aact:AA02564|3end_transketolase_N-terminal_section_1786783..1786933_POSITIVE 239 97 72 147 126 aact:AA02005|3end_vancomycin_sensitivity;_SanA_protein_1364020..1364170_POSITIVE 239 117 82 33 6 aact:AA00523|3end_conserved_hypothetical_protein_358929..359079_POSITIVE 237 116 71 69 18 aact:AA02947|3end_riboflavin_biosynthesis_protein_2061874..2062024_POSITIVE 237 115 80 116 89 aact:AA02196|3end_oxaloacetate_decarboxylase_beta_chain_1497692..1497842_POSITIVE