Origin IGS: tagccgtccgtgggtataaatacccacggttaagcatagctataccccattggggtattaaaagaatcagcccagaggggctgaactatacctaaccgagggtaacttgttaccctcggctttataattattacgaagtgatta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taatcacttcgtaataattataaagccgagggtaacaagttaccctcggttaggtatagttcagcccctctgggctgattcttttaataccccaatggggtatagctatgcttaaccgtgggtatttatacccacggacggcta Mask Tandem Repeat Region ================================================ tagccgtccgtgggtataaatacccacggttaagcatagctataccccattggggtattaaaagaatcagcccagaggggctgaactatacctaaccgagggtaacttgttaccctcggctttataattattacgaagtgatta Find is-nt database================================================ Query_seq: AA00977:AA00978|AA00977:AA00978:transcriptional regulator (LysR family):conserved hypothetical protein:->->:683395..683538 144 tagccgtccgtgggtataaatacccacggttaagcatagctataccccattggggtattaaaagaatcagcccagaggggctgaactatacctaaccgagggtaacttgttaccctcggctttataattattacgaagtgatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA00977:AA00978|AA00977:AA00978:transcriptional regulator (LysR family):conserved hypothetical protein:->->:683395..683538 144 tagccgtccgtgggtataaatacccacggttaagcatagctataccccattggggtattaaaagaatcagcccagaggggctgaactatacctaaccgagggtaacttgttaccctcggctttataattattacgaagtgatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA00977:AA00978|AA00977:AA00978:transcriptional regulator (LysR family):conserved hypothetical protein:->->:683395..683538 144 tagccgtccgtgggtataaatacccacggttaagcatagctataccccattggggtattaaaagaatcagcccagaggggctgaactatacctaaccgagggtaacttgttaccctcggctttataattattacgaagtgatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tagccgtccgtgggtataaatacccacggttaagcatagctataccccattggggtattaaaagaatcagcccagaggggctgaactatacctaaccgagggtaacttgttaccctcggctttataattattacgaagtgatta Predict ORF larger than 30AA ================================================ Protein_Len: 33 Strand: - Start: 33 End: 131 ................................ A Y S Y G M P T N F S D A W L P Q V I G L R P Y S T V R P K I I M ............. tagccgtccgtgggtataaatacccacggttaagcatagctataccccattggggtattaaaagaatcagcccagaggggctgaactatacctaaccgagggtaacttgttaccctcggctttataattattacgaagtgatta 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================================================ tagccgtccgtgggtataaatacccacggttaagcatagctataccccattggggtattaaaagaatcagcccagaggggctgaactatacctaaccgagggtaacttgttaccctcggctttataattattacgaagtgatta Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 87 HP_score: -11.3 Tail_Score: -4.25256 Start: 67 End: 84 Full_Region: tcggttaggtatagt tcagccc ctct gggctga ttcttttaatacccc ..................................................................tcagcccctctgggctga............................................................ TransTerm Strand: + Conf: 91 HP_score: -11.9 Tail_Score: -4.14257 Start: 95 End: 120 Full_Region: GCTGAACTATACCTA ACCGAGGGTAA CTTG TTACCCTCGGC TTTATAATTATTACG ..............................................................................................ACCGAGGGTAACTTGTTACCCTCGGC........................ TransTerm Strand: + Conf: 100 HP_score: -15.4 Tail_Score: -3.07831 Start: 96 End: 119 Full_Region: CTGAACTATACCTAA CCGAGGGTAA CTTG TTACCCTCGG CTTTATAATTATTAC ...............................................................................................CCGAGGGTAACTTGTTACCCTCGG......................... Find igs database================================================ Query_seq: AA00977:AA00978|AA00977:AA00978:transcriptional regulator (LysR family):conserved hypothetical protein:->->:683395..683538 144 tagccgtccgtgggtataaatacccacggttaagcatagctataccccattggggtattaaaagaatcagcccagaggggctgaactatacctaaccgagggtaacttgttaccctcggctttataattattacgaagtgatta Intra-Species Hit: Count: 1 Min: 1 Max: 144 Len: 144 Subject: aact_AA00977_AA00978|transcriptional regulator (LysR family):conserved hypothetical protein|POSITIVE:POSITIVE|[683395,683538]|144 HSP 1 e-value: 2.0E-76 bit: 285.0 Len: 144 Query Start:1 Query End:144 Subject Strand: POSITIVE Subject Start: 1 Subject End: 144 tagccgtccgtgggtataaatacccacggttaagcatagctataccccattggggtattaaaagaatcagcccagaggggctgaactatacctaaccgagggtaacttgttaccctcggctttataattattacgaagtgatta tagccgtccgtgggtataaatacccacggttaagcatagctataccccattggggtattaaaagaatcagcccagaggggctgaactatacctaaccgagggtaacttgttaccctcggctttataattattacgaagtgatta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGCCGUCCGUGGGUAUAAAUACCCACGGUUAAGCAUAGCUAUACCCCAUUGGGGUAUUAAAAGAAUCAGCCCAGAGGGGCUGAACUAUACCUAACCGAGGGUAACUUGUUACCCUCGGCUUUAUAAUUAUUACGAAGUGAUUA ..((...(((((((((....)))))))))....))......(((((((...)))))))..((((..(((((((....)))))))...........((((((((((....)))))))))))))).((((((((....)))))))) (-60.20) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUCACUUCGUAAUAAUUAUAAAGCCGAGGGUAACAAGUUACCCUCGGUUAGGUAUAGUUCAGCCCCUCUGGGCUGAUUCUUUUAAUACCCCAAUGGGGUAUAGCUAUGCUUAACCGUGGGUAUUUAUACCCACGGACGGCUA ........((((............(((((((((((....)))))))))))(((((((((((((((((....)))))))........(((((((...))))))).)))))))))).(((((((((....)))))))))))))... (-66.60) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 682 119 71 190 142 aact:AA00982|5end_aldo-keto_reductase_686526..686756_POSITIVE 607 120 71 216 169 aact:AA01354|5end_conserved_hypothetical_protein_916489..916719_POSITIVE 547 120 71 226 176 aact:AA02466|5end_N-acetylneuraminate_lyase_1704963..1705193_POSITIVE 493 120 71 171 122 aact:AA00702|5end_conserved_hypothetical_protein_481660..481890_POSITIVE 373 120 71 229 173 aact:AA02414|5end_hypothetical_protein_1658698..1658928_POSITIVE 332 76 33 215 162 aact:AA01936|5end_tyrosyl-tRNA_synthetase_1307043..1307273_POSITIVE 306 120 74 199 133 aact:AA02139|5end_possible_membrane_protein_1461161..1461391_POSITIVE 302 120 72 140 88 aact:AA02196|5end_oxaloacetate_decarboxylase_beta_chain_1496308..1496538_POSITIVE 292 109 63 69 15 aact:AA02600|5end_conserved_hypothetical_protein_1810672..1810902_POSITIVE 289 140 96 214 165 aact:AA00259|5end_conserved_hypothetical_protein_182788..183018_POSITIVE 287 47 5 231 179 aact:AA02696|5end_formate_hydrogenlyase_maturation_protein_1879476..1879706_POSITIVE 281 50 2 199 138 aact:AA01347|5end_conserved_hypothetical_protein_913209..913439_POSITIVE 279 109 61 117 71 aact:AA01763|5end_conserved_hypothetical_protein_(possible_transcriptional_regulatory_protein)_1190643..1190873_POSITIVE 278 105 69 42 4 aact:AA00743|5end_conserved_hypothetical_protein_(possible_membrane_protein)_508371..508601_POSITIVE 273 48 5 153 101 aact:AA00887|5end_hypothetical_protein_616739..616969_POSITIVE 273 103 70 171 134 aact:AA00785|5end_conserved_hypothetical_protein_(possible_integrase)_539221..539451_POSITIVE 270 110 67 164 125 aact:AA01188|5end_conserved_hypothetical_protein_813912..814142_POSITIVE 268 119 72 146 88 aact:AA01773|5end_hypothetical_protein_1194877..1195107_POSITIVE 268 50 3 142 87 aact:AA01681|5end_molybdate-binding_periplasmic_protein_1135159..1135389_POSITIVE 267 120 75 135 81 aact:AA02699|5end_formate_dehydrogenase_H,_selenopolypeptide_subunit_1881397..1881627_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 547 120 71 68 18 aact:AA02465|3end_glucosamine-6-phosphate_isomerase_1704885..1705035_POSITIVE 445 49 3 98 56 aact:AA00977|3end_transcriptional_regulator_(LysR_family)_683334..683484_POSITIVE 410 120 79 40 1 aact:AA01351|3end_probable_sulfatase_916393..916543_POSITIVE 332 76 33 85 32 aact:AA01934|3end_conserved_hypothetical_protein_1306993..1307143_POSITIVE 320 48 5 94 41 aact:AA02695|3end_hydrogenase-3_component_G_1879418..1879568_POSITIVE 317 78 34 85 47 aact:AA01567|3end_conserved_hypothetical_protein_(possible_cell-wall-associated_hydrolase)_1055215..1055365_POSITIVE 302 120 72 126 74 aact:AA02195|3end_oxaloacetate_decarboxylase_alpha_chain_1496374..1496524_POSITIVE 279 96 57 67 23 aact:AA01549|3end_hypothetical_protein_1037880..1038030_POSITIVE 270 31 3 110 85 aact:AA02959|3end_pyrroline-5-carboxylate_(P5C)_reductase_2070976..2071126_POSITIVE 268 119 72 131 73 aact:AA01772|3end_shikimate_5-dehydrogenase_protein_1194942..1195092_POSITIVE 268 50 3 139 84 aact:AA01679|3end_aspartate-semialdehyde_dehydrogenase;_PTS_system_enzyme_II_A_component_1135236..1135386_POSITIVE 267 120 75 83 29 aact:AA02698|3end_formate_dehydrogenase_H,_selenopolypeptide_subunit_1881425..1881575_POSITIVE 267 49 1 122 77 aact:AA01889|3end_conserved_hypothetical_protein_(possible_permease)_1274590..1274740_POSITIVE 267 81 43 125 89 aact:AA01645|3end_ferric_transport_ABC-related_ATP-binding_protein_1115184..1115334_POSITIVE 264 36 2 123 78 aact:AA02566|3end_PTS_system,_IIC_component_1788179..1788329_POSITIVE 262 56 27 62 26 aact:AA00239|3end_hypothetical_protein_171418..171568_POSITIVE 260 103 61 80 36 aact:AA01227|3end_hypothetical_protein_838845..838995_POSITIVE 259 119 78 35 1 aact:AA01184|3end_hypothetical_protein_811133..811283_POSITIVE 258 101 66 148 115 aact:AA01555|3end_ABC_transporter,_ATP-binding_protein_1044323..1044473_POSITIVE 257 109 70 72 42 aact:AA01342|3end_conserved_hypotheticl_protein_(possible_ribosomal_RNA_adenine_dimethylase)_911085..911235_POSITIVE