Origin IGS: aatgctgttccttttataagaaaatttgaactattataatagtgcaaatagaaaagacaatagattttaatttgtcgattcatgtcgtgtaactcgacaaaggaagccgattcccgctataattggtcagctttattgacactcaacagaaggaatagcaa .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 ttgctattccttctgttgagtgtcaataaagctgaccaattatagcgggaatcggcttcctttgtcgagttacacgacatgaatcgacaaattaaaatctattgtcttttctatttgcactattataatagttcaaattttcttataaaaggaacagcatt Mask Tandem Repeat Region ================================================ aatgctgttccttttataagaaaatttgaactattataatagtgcaaatagaaaagacaatagattttaatttgtcgattcatgtcgtgtaactcgacaaaggaagccgattcccgctataattggtcagctttattgacactcaacagaaggaatagcaa Find is-nt database================================================ Query_seq: AA00468:AA00469|AA00468:AA00469:tryptophan-specific transport protein / tyrosine-specific transport protein:inorganic pyrophosphatase, chain A:->->:326185..326345 161 aatgctgttccttttataagaaaatttgaactattataatagtgcaaatagaaaagacaatagattttaatttgtcgattcatgtcgtgtaactcgacaaaggaagccgattcccgctataattggtcagctttattgacactcaacagaaggaatagcaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA00468:AA00469|AA00468:AA00469:tryptophan-specific transport protein / tyrosine-specific transport protein:inorganic pyrophosphatase, chain A:->->:326185..326345 161 aatgctgttccttttataagaaaatttgaactattataatagtgcaaatagaaaagacaatagattttaatttgtcgattcatgtcgtgtaactcgacaaaggaagccgattcccgctataattggtcagctttattgacactcaacagaaggaatagcaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA00468:AA00469|AA00468:AA00469:tryptophan-specific transport protein / tyrosine-specific transport protein:inorganic pyrophosphatase, chain A:->->:326185..326345 161 aatgctgttccttttataagaaaatttgaactattataatagtgcaaatagaaaagacaatagattttaatttgtcgattcatgtcgtgtaactcgacaaaggaagccgattcccgctataattggtcagctttattgacactcaacagaaggaatagcaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aatgctgttccttttataagaaaatttgaactattataatagtgcaaatagaaaagacaatagattttaatttgtcgattcatgtcgtgtaactcgacaaaggaagccgattcccgctataattggtcagctttattgacactcaacagaaggaatagcaa Predict ORF larger than 30AA ================================================ Protein_Len: 32 Strand: + Start: 64 End: 159 ............................................................... M L I C R F M S C N S T K E A D S R Y N W S A L L T L N R R N S .. aatgctgttccttttataagaaaatttgaactattataatagtgcaaatagaaaagacaatagattttaatttgtcgattcatgtcgtgtaactcgacaaaggaagccgattcccgctataattggtcagctttattgacactcaacagaaggaatagcaa 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================================================ aatgctgttccttttataagaaaatttgaactattataatagtgcaaatagaaaagacaatagattttaatttgtcgattcatgtcgtgtaactcgacaaaggaagccgattcccgctataattggtcagctttattgacactcaacagaaggaatagcaa Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 74 HP_score: -5.4 Tail_Score: -4.77165 Start: 25 End: 48 Full_Region: ctattgtcttttcta tttgcactat tata atagttcaaa ttttcttataaaagg ........................tttgcactattataatagttcaaa................................................................................................................. TransTerm Strand: - Conf: 54 HP_score: -3.4 Tail_Score: -3.92522 Start: 102 End: 114 Full_Region: tgaccaattatagcg ggaa tcggc ttcc tttgtcgagttacac .....................................................................................................ggaatcggcttcc............................................... Find igs database================================================ Query_seq: AA00468:AA00469|AA00468:AA00469:tryptophan-specific transport protein / tyrosine-specific transport protein:inorganic pyrophosphatase, chain A:->->:326185..326345 161 aatgctgttccttttataagaaaatttgaactattataatagtgcaaatagaaaagacaatagattttaatttgtcgattcatgtcgtgtaactcgacaaaggaagccgattcccgctataattggtcagctttattgacactcaacagaaggaatagcaa Intra-Species Hit: Count: 1 Min: 1 Max: 161 Len: 161 Subject: aact_AA00468_AA00469|tryptophan-specific transport protein / tyrosine-specific transport protein:inorganic pyrophosphatase, chain A|POSITIVE:POSITIVE|[326185,326345]|161 HSP 1 e-value: 2.0E-86 bit: 319.0 Len: 161 Query Start:1 Query End:161 Subject Strand: POSITIVE Subject Start: 1 Subject End: 161 aatgctgttccttttataagaaaatttgaactattataatagtgcaaatagaaaagacaatagattttaatttgtcgattcatgtcgtgtaactcgacaaaggaagccgattcccgctataattggtcagctttattgacactcaacagaaggaatagcaa aatgctgttccttttataagaaaatttgaactattataatagtgcaaatagaaaagacaatagattttaatttgtcgattcatgtcgtgtaactcgacaaaggaagccgattcccgctataattggtcagctttattgacactcaacagaaggaatagcaa Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAUGCUGUUCCUUUUAUAAGAAAAUUUGAACUAUUAUAAUAGUGCAAAUAGAAAAGACAAUAGAUUUUAAUUUGUCGAUUCAUGUCGUGUAACUCGACAAAGGAAGCCGAUUCCCGCUAUAAUUGGUCAGCUUUAUUGACACUCAACAGAAGGAAUAGCAA ..(((((((((((((........(((((.(((((....))))).)))))........(((((((......((((((((..(((...)))....))))))))....(((((((........)))))))....))))))).........))))))))))))). (-41.30) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUGCUAUUCCUUCUGUUGAGUGUCAAUAAAGCUGACCAAUUAUAGCGGGAAUCGGCUUCCUUUGUCGAGUUACACGACAUGAAUCGACAAAUUAAAAUCUAUUGUCUUUUCUAUUUGCACUAUUAUAAUAGUUCAAAUUUUCUUAUAAAAGGAACAGCAUU .((((.((((((.(((.(((.(.((((((((((((((..........))..)))))))..((((((((.(((.......))).))))))))........))))).)......(((((.(((((....))))).)))))...)))))).)))))).)))).. (-35.70) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 373 128 83 186 139 aact:AA02956|5end_integrase-recombinase_2068484..2068714_POSITIVE 350 138 94 230 180 aact:AA02426|5end_uridylyltransferase_1671663..1671893_POSITIVE 310 109 71 225 190 aact:AA02217|5end_deoxyribose-phosphate_aldolase_1509135..1509365_POSITIVE 299 120 73 57 13 aact:AA00452|5end_phosphomannomutase;_phosphoglucomutase_315288..315518_POSITIVE 292 119 71 195 140 aact:AA01347|5end_conserved_hypothetical_protein_913209..913439_POSITIVE 291 117 71 209 165 aact:AA00636|5end_MrsA_protein_(phosphoglucomutase/phosphomannomutase)_436780..437010_POSITIVE 288 118 80 45 9 aact:AA00414|5end_possible_histidinol-phosphatase_280899..281129_POSITIVE 284 117 71 225 167 aact:AA00971|5end_conserved_hypothetical_protein_677208..677438_POSITIVE 281 125 83 231 180 aact:AA00196|5end_conserved_hypothetical_protein_137378..137608_POSITIVE 278 118 71 228 178 aact:AA00211|5end_hypothetical_protein_145955..146185_POSITIVE 271 139 93 120 60 aact:AA01549|5end_hypothetical_protein_1037444..1037674_POSITIVE 270 89 41 226 164 aact:AA02656|5end_possible_polysaccharide_polymerization_protein_1850947..1851177_POSITIVE 269 116 75 44 5 aact:AA02057|5end_phosphoglycerate_mutase_1401253..1401483_POSITIVE 267 119 83 116 79 aact:AA02906|5end_hypothetical_protein_2033304..2033534_POSITIVE 265 117 71 172 121 aact:AA02524|5end_orotidine_5'-phosphate_decarboxylase_1753313..1753543_POSITIVE 264 120 74 138 94 aact:AA02723|5end_hypothetical_protein_1906263..1906493_POSITIVE 264 130 81 124 80 aact:AA00531|5end_DNA_polymerase_I_362621..362851_POSITIVE 262 118 72 212 150 aact:AA00367|5end_50S_ribosomal_protein_L23_247057..247287_POSITIVE 261 140 92 151 100 aact:AA02316|5end_exodeoxyribonuclease_VII_large_subunit_1581682..1581912_POSITIVE 258 127 82 166 129 aact:AA02972|5end_conserved_hypothetical_protein_(tyrosine_phenol_lyase-related_protein)_2077381..2077611_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 350 138 94 148 98 aact:AA02425|3end_glutamate-1-semialdehyde_aminotransferase_1671661..1671811_POSITIVE 298 125 81 132 85 aact:AA00939|3end_transcription_accessory_protein_(toxin_expression)_650724..650874_POSITIVE 268 129 84 46 9 aact:AA00451|3end_hypothetical_protein_315348..315498_POSITIVE 267 119 83 137 100 aact:AA02905|3end_conserved_hypothetical_protein_2033405..2033555_POSITIVE 267 111 71 149 112 aact:AA01345|3end_conserved_hypothetical_protein_(possible_membrane_protein)_913261..913411_POSITIVE 264 120 74 147 103 aact:AA02722|3end_cytidine_deaminase_1906352..1906502_POSITIVE 264 130 81 91 47 aact:AA00530|3end_hypothetical_protein_362668..362818_POSITIVE 263 117 71 128 63 aact:AA01441|3end_tRNA/rRNA_methylase_967643..967793_POSITIVE 261 140 92 141 90 aact:AA02315|3end_conserved_hypothetical_protein_1581752..1581902_POSITIVE 258 127 82 96 59 aact:AA02970|3end_tyrosine_phenol-lyase_2077391..2077541_POSITIVE 257 116 73 59 8 aact:AA01018|3end_conserved_hypothetical_protein_(possible_transcriptional_regulator)_712300..712450_POSITIVE 256 138 94 151 98 aact:AA00377|3end_acetyl-CoA_acetyltransferase_(Beta-ketothiolase,3-ketoacyl-CoA_thiolase)_254300..254450_POSITIVE 254 134 101 133 96 aact:AA02418|3end_peptidyl-tRNA_hydrolase_1661811..1661961_POSITIVE 254 120 73 149 115 aact:AA01254|3end_conserved_hypothetical_protein_(possible_proline_dipeptidase)_852702..852852_POSITIVE 254 116 73 73 27 aact:AA00549|3end_ferredoxin-type_protein_376521..376671_POSITIVE 248 129 87 127 85 aact:AA01559|3end_RecA_regulatory_protein,_RecX_1046505..1046655_POSITIVE 244 119 73 132 81 aact:AA01585|3end_tRNA_delta(2)-isopentenylpyrophosphate_1067073..1067223_POSITIVE 244 119 71 134 87 aact:AA00539|3end_ADP-L-glycero-D-manno-heptose-6-epimerase_370047..370197_POSITIVE 242 145 101 124 68 aact:AA00726|3end_apolipoprotein_N-acyltransferase,_copper_499886..500036_POSITIVE 240 117 72 116 75 aact:AA02430|3end_conserved_hypothetical_protein_1675669..1675819_POSITIVE