Origin IGS: cgtatgtctccttattttttgctggatggttagacgcgaaaaattaactcgcggaattgtaaataaaaatacttttagtgaacagtgcattgcagacaaaaataatgcctatgtgtcataggcattatgtgcaatta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taattgcacataatgcctatgacacataggcattatttttgtctgcaatgcactgttcactaaaagtatttttatttacaattccgcgagttaatttttcgcgtctaaccatccagcaaaaaataaggagacatacg Mask Tandem Repeat Region ================================================ cgtatgtctccttattttttgctggatggttagacgcgaaaaattaactcgcggaattgtaaataaaaatacttttagtgaacagtgcattgcagacaaaaataatgcctatgtgtcataggcattatgtgcaatta Find is-nt database================================================ Query_seq: AA00113:AA00114|AA00113:AA00114:uracil phosphoribosyltransferase:peptidyl-prolyl cis-trans isomerase D (PPIase D) (rotamase D):->->:82050..82186 137 cgtatgtctccttattttttgctggatggttagacgcgaaaaattaactcgcggaattgtaaataaaaatacttttagtgaacagtgcattgcagacaaaaataatgcctatgtgtcataggcattatgtgcaatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA00113:AA00114|AA00113:AA00114:uracil phosphoribosyltransferase:peptidyl-prolyl cis-trans isomerase D (PPIase D) (rotamase D):->->:82050..82186 137 cgtatgtctccttattttttgctggatggttagacgcgaaaaattaactcgcggaattgtaaataaaaatacttttagtgaacagtgcattgcagacaaaaataatgcctatgtgtcataggcattatgtgcaatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA00113:AA00114|AA00113:AA00114:uracil phosphoribosyltransferase:peptidyl-prolyl cis-trans isomerase D (PPIase D) (rotamase D):->->:82050..82186 137 cgtatgtctccttattttttgctggatggttagacgcgaaaaattaactcgcggaattgtaaataaaaatacttttagtgaacagtgcattgcagacaaaaataatgcctatgtgtcataggcattatgtgcaatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 cgtatgtctccttattttttgctggatggttagacgcgaaaaattaactcgcggaattgtaaataaaaatacttttagtgaacagtgcattgcagacaaaaataatgcctatgtgtcataggcattatgtgcaatta Predict ORF larger than 30AA ================================================ Protein_Len: 35 Strand: + Start: 14 End: 118 ............. M F C W M V R R E K L T R G I V N K N T F S E Q C I A D K N N A Y V S ................... Protein_Len: 33 Strand: - Start: 1 End: 99 T H R R I K Q Q I T L R S F N V R P I T F L F V K L S C H M A S M ...................................... cgtatgtctccttattttttgctggatggttagacgcgaaaaattaactcgcggaattgtaaataaaaatacttttagtgaacagtgcattgcagacaaaaataatgcctatgtgtcataggcattatgtgcaatta 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================================================ cgtatgtctccttattttttgctggatggttagacgcgaaaaattaactcgcggaattgtaaataaaaatacttttagtgaacagtgcattgcagacaaaaataatgcctatgtgtcataggcattatgtgcaatta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: AA00113:AA00114|AA00113:AA00114:uracil phosphoribosyltransferase:peptidyl-prolyl cis-trans isomerase D (PPIase D) (rotamase D):->->:82050..82186 137 cgtatgtctccttattttttgctggatggttagacgcgaaaaattaactcgcggaattgtaaataaaaatacttttagtgaacagtgcattgcagacaaaaataatgcctatgtgtcataggcattatgtgcaatta Intra-Species Hit: Count: 1 Min: 1 Max: 137 Len: 137 Subject: aact_AA00113_AA00114|uracil phosphoribosyltransferase:peptidyl-prolyl cis-trans isomerase D (PPIase D) (rotamase D)|POSITIVE:POSITIVE|[82050,82186]|137 HSP 1 e-value: 3.0E-72 bit: 272.0 Len: 137 Query Start:1 Query End:137 Subject Strand: POSITIVE Subject Start: 1 Subject End: 137 cgtatgtctccttattttttgctggatggttagacgcgaaaaattaactcgcggaattgtaaataaaaatacttttagtgaacagtgcattgcagacaaaaataatgcctatgtgtcataggcattatgtgcaatta cgtatgtctccttattttttgctggatggttagacgcgaaaaattaactcgcggaattgtaaataaaaatacttttagtgaacagtgcattgcagacaaaaataatgcctatgtgtcataggcattatgtgcaatta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CGUAUGUCUCCUUAUUUUUUGCUGGAUGGUUAGACGCGAAAAAUUAACUCGCGGAAUUGUAAAUAAAAAUACUUUUAGUGAACAGUGCAUUGCAGACAAAAAUAAUGCCUAUGUGUCAUAGGCAUUAUGUGCAAUUA .((((..........(((((((((((((......(((((.........)))))..(((((...(((((....)))))....))))).)))).))).))))))(((((((((((...))))))))))).))))..... (-32.90) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUUGCACAUAAUGCCUAUGACACAUAGGCAUUAUUUUUGUCUGCAAUGCACUGUUCACUAAAAGUAUUUUUAUUUACAAUUCCGCGAGUUAAUUUUUCGCGUCUAACCAUCCAGCAAAAAAUAAGGAGACAUACG ..((((((.((((((((((((...)))))))))))).......))))))....((((..((....(((........))).....((((((.......))))))......................))..)))).... (-29.80) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 287 130 86 150 93 aact:AA02721|5end_spermidine/putrescine_ABC_transporter,_periplasmic-binding_protein_1904121..1904351_POSITIVE 282 59 12 198 142 aact:AA00858|5end_arginine_ABC_transporter,_ATP-binding_protein_590991..591221_POSITIVE 272 56 11 156 102 aact:AA00117|5end_hypothetical_protein_88246..88476_POSITIVE 270 70 21 125 68 aact:AA00408|5end_SUN_protein_(FMU_protein)_272256..272486_POSITIVE 261 130 83 101 43 aact:AA01321|5end_DNA_repair_protein_893574..893804_POSITIVE 260 59 19 174 133 aact:AA01388|5end_30S_ribosomal_protein_S6_936530..936760_POSITIVE 256 60 18 50 3 aact:AA00041|5end_cytochrome_c-type_biogenesis_protein_31881..32111_POSITIVE 255 60 15 62 17 aact:AA01889|5end_conserved_hypothetical_protein_(possible_permease)_1273182..1273412_POSITIVE 255 37 1 203 160 aact:AA01193|5end_AMP-binding_enzyme_817928..818158_POSITIVE 249 60 20 56 15 aact:AA02513|5end_seqA_protein_1746800..1747030_POSITIVE 247 52 19 87 48 aact:AA02097|5end_DedA-family_integral_membrane_protein_1428823..1429053_POSITIVE 245 55 21 45 8 aact:AA01763|5end_conserved_hypothetical_protein_(possible_transcriptional_regulatory_protein)_1190643..1190873_POSITIVE 242 55 17 39 5 aact:AA01366|5end_16S_rRNA_processing_protein_923117..923347_POSITIVE 242 59 14 187 145 aact:AA00579|5end_probable_DNA_recombination_protein_395265..395495_POSITIVE 240 123 84 36 8 aact:AA00052|5end_cytochrome_c-type_biogenesis_protein_precursor_40842..41072_POSITIVE 239 129 83 188 137 aact:AA01276|5end_heptosyltransferase_III_864730..864960_POSITIVE 237 129 82 92 47 aact:AA01876|5end_PTS_system,_IIBC_components_1263365..1263595_POSITIVE 235 122 82 144 103 aact:AA02105|5end_killing_protein_1431885..1432115_POSITIVE 234 96 51 173 134 aact:AA02137|5end_transcriptional_regulators_(TetR/AcrR_family)_1460453..1460683_POSITIVE 232 41 1 56 14 aact:AA02966|5end_conserved_hypothetical_protein_2074223..2074453_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 270 70 21 98 41 aact:AA00407|3end_trk_system_potassium_uptake_protein_272309..272459_POSITIVE 256 60 18 54 7 aact:AA00040|3end_thiol:disulfide_interchange_protein_31965..32115_POSITIVE 255 60 15 86 41 aact:AA01888|3end_hypothetical_protein_1273286..1273436_POSITIVE 249 60 20 47 6 aact:AA02512|3end_O-succinylbenzoate--CoA_ligase_1746871..1747021_POSITIVE 247 52 19 140 101 aact:AA02096|3end_hypothetical_protein_1428956..1429106_POSITIVE 245 55 21 140 103 aact:AA01763|3end_conserved_hypothetical_protein_(possible_transcriptional_regulatory_protein)_1190818..1190968_POSITIVE 242 59 14 43 1 aact:AA00578|3end_DNA_topoisomerase_395201..395351_POSITIVE 240 130 91 55 7 aact:AA02720|3end_ABC-related_spermidine/putrescine_transport_system_permease_1904106..1904256_POSITIVE 240 123 84 33 5 aact:AA00050|3end_cytochrome_c-type_biogenesis_protein_precursor_(reductase)_40919..41069_POSITIVE 234 96 51 116 77 aact:AA02136|3end_aspartate_aminotransferase_1460476..1460626_POSITIVE 234 53 21 129 102 aact:AA01317|3end_probable_DNA_repair_protein_891739..891889_POSITIVE 228 59 12 42 1 aact:AA02965|3end_hypothetical_protein_2074286..2074436_POSITIVE 227 38 7 132 104 aact:AA02525|3end_conserved_hypothetical_protein_1755302..1755452_POSITIVE 226 52 19 134 100 aact:AA00170|3end_hypothetical_protein_121407..121557_POSITIVE 225 69 21 72 35 aact:AA01755|3end_cobalt_membrane_transport_protein_1186555..1186705_POSITIVE 223 37 1 131 99 aact:AA01391|3end_glycerol-3-phosphate_acyltransferase_940402..940552_POSITIVE 221 48 5 113 54 aact:AA00298|3end_hypothetical_protein_203883..204033_POSITIVE 219 51 12 67 31 aact:AA01199|3end_conserved_hypothetical_protein_822486..822636_POSITIVE 219 129 89 61 12 aact:AA00125|3end_conserved_hypothetical_protein_(possible_phage-related_protein)_91013..91163_POSITIVE 218 76 36 53 14 aact:AA00158|3end_ampD_signalling_protein_(N-acetylmuramyl-L-alanine_amidase)_112935..113085_POSITIVE