Origin IGS: tagtggaaaatcctttagtatttcaccgcacttttatgctttttccgtgctaattgaagggaatttaagtagaatagagcgcctttaatagaaggataatgata .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tatcattatccttctattaaaggcgctctattctacttaaattcccttcaattagcacggaaaaagcataaaagtgcggtgaaatactaaaggattttccacta Mask Tandem Repeat Region ================================================ tagtggaaaatcctttagtatttcaccgcacttttatgctttttccgtgctaattgaagggaatttaagtagaatagagcgcctttaatagaaggataatgata Find is-nt database================================================ Query_seq: AA01928:AA01930|AA01928:AA01930:ATP-dependent RNA helicase:ribosome-binding factor A:->->:1304748..1304851 104 tagtggaaaatcctttagtatttcaccgcacttttatgctttttccgtgctaattgaagggaatttaagtagaatagagcgcctttaatagaaggataatgata Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA01928:AA01930|AA01928:AA01930:ATP-dependent RNA helicase:ribosome-binding factor A:->->:1304748..1304851 104 tagtggaaaatcctttagtatttcaccgcacttttatgctttttccgtgctaattgaagggaatttaagtagaatagagcgcctttaatagaaggataatgata Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA01928:AA01930|AA01928:AA01930:ATP-dependent RNA helicase:ribosome-binding factor A:->->:1304748..1304851 104 tagtggaaaatcctttagtatttcaccgcacttttatgctttttccgtgctaattgaagggaatttaagtagaatagagcgcctttaatagaaggataatgata Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tagtggaaaatcctttagtatttcaccgcacttttatgctttttccgtgctaattgaagggaatttaagtagaatagagcgcctttaatagaaggataatgata Predict ORF larger than 30AA ================================================ tagtggaaaatcctttagtatttcaccgcacttttatgctttttccgtgctaattgaagggaatttaagtagaatagagcgcctttaatagaaggataatgata 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================================================ tagtggaaaatcctttagtatttcaccgcacttttatgctttttccgtgctaattgaagggaatttaagtagaatagagcgcctttaatagaaggataatgata Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: AA01928:AA01930|AA01928:AA01930:ATP-dependent RNA helicase:ribosome-binding factor A:->->:1304748..1304851 104 tagtggaaaatcctttagtatttcaccgcacttttatgctttttccgtgctaattgaagggaatttaagtagaatagagcgcctttaatagaaggataatgata Intra-Species Hit: Count: 1 Min: 1 Max: 104 Len: 104 Subject: aact_AA01928_AA01930|ATP-dependent RNA helicase:ribosome-binding factor A|POSITIVE:POSITIVE|[1304748,1304851]|104 HSP 1 e-value: 1.0E-52 bit: 206.0 Len: 104 Query Start:1 Query End:104 Subject Strand: POSITIVE Subject Start: 1 Subject End: 104 tagtggaaaatcctttagtatttcaccgcacttttatgctttttccgtgctaattgaagggaatttaagtagaatagagcgcctttaatagaaggataatgata tagtggaaaatcctttagtatttcaccgcacttttatgctttttccgtgctaattgaagggaatttaagtagaatagagcgcctttaatagaaggataatgata Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGUGGAAAAUCCUUUAGUAUUUCACCGCACUUUUAUGCUUUUUCCGUGCUAAUUGAAGGGAAUUUAAGUAGAAUAGAGCGCCUUUAAUAGAAGGAUAAUGAUA .........(((((((..((((....(((.((....(((((.((((.(.(.....).).))))...)))))....)).))).....)))))))))))....... (-20.50) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAUCAUUAUCCUUCUAUUAAAGGCGCUCUAUUCUACUUAAAUUCCCUUCAAUUAGCACGGAAAAAGCAUAAAAGUGCGGUGAAAUACUAAAGGAUUUUCCACUA .......((((((.((((...(.(((.((......(((...((((((......))...)))).)))......)).))).)..))))...))))))......... (-11.80) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 354 66 21 142 99 aact:AA00160|5end_pilA-like_biogenesis_protein_/_prepilin_peptidase_dependent_proteinD_112836..113066_POSITIVE 339 69 23 219 181 aact:AA00213|5end_cold_shock_protein_(negative_regulator_of_cspA_transcription)_147071..147301_POSITIVE 320 42 3 155 109 aact:AA00497|5end_hexose_phosphate_transport_system_regulatory_protein;_regulator_of_uhpT_expression_345077..345307_POSITIVE 319 50 21 182 157 aact:AA00451|5end_hypothetical_protein_315068..315298_POSITIVE 313 48 3 209 162 aact:AA01095|5end_conserved_hypothetical_protein_756327..756557_POSITIVE 305 53 22 231 192 aact:AA00296|5end_conserved_hypothetical_protein_(possible_hemolysin_/_transport_protein)_202384..202614_POSITIVE 305 53 22 114 75 aact:AA00295|5end_hypothetical_protein_202267..202497_POSITIVE 299 51 13 149 114 aact:AA02695|5end_hydrogenase-3_component_G_1878565..1878795_POSITIVE 297 39 3 142 107 aact:AA01441|5end_tRNA/rRNA_methylase_966490..966720_POSITIVE 290 50 4 179 138 aact:AA01544|5end_conserved_hypothetical_protein_1034265..1034495_POSITIVE 290 50 4 89 48 aact:AA01543|5end_hypothetical_protein_1034175..1034405_POSITIVE 288 64 21 211 167 aact:AA01251|5end_hypothetical_protein_851825..852055_POSITIVE 287 60 20 200 142 aact:AA02757|5end_histidinol-phosphate_aminotransferase_2_1930634..1930864_POSITIVE 286 50 14 53 24 aact:AA01071|5end_RNA_methyltransferase_741707..741937_POSITIVE 285 85 45 64 24 aact:AA00052|5end_cytochrome_c-type_biogenesis_protein_precursor_40842..41072_POSITIVE 283 61 25 142 112 aact:AA01936|5end_tyrosyl-tRNA_synthetase_1307043..1307273_POSITIVE 280 50 12 155 117 aact:AA01188|5end_conserved_hypothetical_protein_813912..814142_POSITIVE 280 89 42 86 44 aact:AA00167|5end_possible_amino-acid_transporter_(sodium-alanine_symporters)_118239..118469_POSITIVE 278 51 24 32 3 aact:AA01419|5end_D-ribulose-phosphate-3_epimerase_954378..954608_POSITIVE 273 49 2 143 94 aact:AA01202|5end_integrase/recombinase_823240..823470_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 357 50 3 99 51 aact:AA02280|3end_conserved_hypothetical_protein_1552767..1552917_POSITIVE 339 69 23 115 77 aact:AA00212|3end_ribokinase_147047..147197_POSITIVE 334 50 3 148 100 aact:AA00158|3end_ampD_signalling_protein_(N-acetylmuramyl-L-alanine_amidase)_112935..113085_POSITIVE 320 42 3 137 91 aact:AA00495|3end_hypothetical_protein_345139..345289_POSITIVE 305 53 22 105 66 aact:AA00292|3end_dihydrofolate_reductase_202338..202488_POSITIVE 299 51 13 149 114 aact:AA02693|3end_hydrogenase-4_component_H_1878645..1878795_POSITIVE 297 39 3 70 35 aact:AA01439|3end_probable_ferredoxin_(fdx-2)_966498..966648_POSITIVE 288 64 21 86 42 aact:AA01250|3end_nadAB_transcriptional_regulator_851780..851930_POSITIVE 287 60 20 122 64 aact:AA02756|3end_phosphoserine_aminotransferase_1930636..1930786_POSITIVE 287 61 25 39 5 aact:AA00729|3end_possible_hemolysin_(TlyC-like)_501177..501327_POSITIVE 285 85 45 61 21 aact:AA00050|3end_cytochrome_c-type_biogenesis_protein_precursor_(reductase)_40919..41069_POSITIVE 278 48 2 88 34 aact:AA01224|3end_CTP_synthase_837899..838049_POSITIVE 274 70 25 75 35 aact:AA02751|3end_L-lactate_permease_1928868..1929018_POSITIVE 273 49 2 126 77 aact:AA01201|3end_phosphatase;_hydrolase_823303..823453_POSITIVE 271 65 21 107 55 aact:AA01624|3end_glucose-6-phosphate_isomerase_1099901..1100051_POSITIVE 269 47 12 151 117 aact:AA01187|3end_conserved_hypothetical_protein_813992..814142_POSITIVE 268 53 20 64 31 aact:AA02937|3end_conserved_hypothetical_protein_2056947..2057097_POSITIVE 267 51 21 100 69 aact:AA00689|3end_GTP-binding_protein_472042..472192_POSITIVE 266 38 2 69 27 aact:AA00135|3end_S-adenosylmethionine:_2-demethylmenaquinone_methyltransferase_(menaquinone_biosynthesis_protein)_96880..97030_POSITIVE 265 65 22 90 46 aact:AA01526|3end_amino_acid_ABC_transporter,_periplasmic_amino_acid-binding_protein_1025839..1025989_POSITIVE