Origin IGS: gattttaatgttgttgctataaaactagctttgccagataaaagtctcttaatttcctatctattttttaggtaggatttttagatttatggttgactttgcgtaaaatatgatatactagataggtataattgttctttggaggatcct .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aggatcctccaaagaacaattatacctatctagtatatcatattttacgcaaagtcaaccataaatctaaaaatcctacctaaaaaatagataggaaattaagagacttttatctggcaaagctagttttatagcaacaacattaaaatc Mask Tandem Repeat Region ================================================ gattttaatgttgttgctataaaactagctttgccagataaaagtctcttaatttcctatctattttttaggtaggatttttagatttatggttgactttgcgtaaaatatgatatactagataggtataattgttctttggaggatcct Find is-nt database================================================ Query_seq: SSA_0746:SSA_0747|SSA_0746:SSA_0747:Glucosamine-6-phosphate deaminase, putative:DD-carboxypeptidase, putative:->->:727926..728075 150 gattttaatgttgttgctataaaactagctttgccagataaaagtctcttaatttcctatctattttttaggtaggatttttagatttatggttgactttgcgtaaaatatgatatactagataggtataattgttctttggaggatcct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SSA_0746:SSA_0747|SSA_0746:SSA_0747:Glucosamine-6-phosphate deaminase, putative:DD-carboxypeptidase, putative:->->:727926..728075 150 gattttaatgttgttgctataaaactagctttgccagataaaagtctcttaatttcctatctattttttaggtaggatttttagatttatggttgactttgcgtaaaatatgatatactagataggtataattgttctttggaggatcct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SSA_0746:SSA_0747|SSA_0746:SSA_0747:Glucosamine-6-phosphate deaminase, putative:DD-carboxypeptidase, putative:->->:727926..728075 150 gattttaatgttgttgctataaaactagctttgccagataaaagtctcttaatttcctatctattttttaggtaggatttttagatttatggttgactttgcgtaaaatatgatatactagataggtataattgttctttggaggatcct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gattttaatgttgttgctataaaactagctttgccagataaaagtctcttaatttcctatctattttttaggtaggatttttagatttatggttgactttgcgtaaaatatgatatactagataggtataattgttctttggaggatcct Predict ORF larger than 30AA ================================================ gattttaatgttgttgctataaaactagctttgccagataaaagtctcttaatttcctatctattttttaggtaggatttttagatttatggttgactttgcgtaaaatatgatatactagataggtataattgttctttggaggatcct 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================================================ gattttaatgttgttgctataaaactagctttgccagataaaagtctcttaatttcctatctattttttaggtaggatttttagatttatggttgactttgcgtaaaatatgatatactagataggtataattgttctttggaggatcct Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 85 HP_score: -7.1 Tail_Score: -4.84529 Start: 55 End: 77 Full_Region: AAAAGTCTCTTAATT TCCTATCTA TTTTT TAGGTAGGA TTTTTAGATTTATGG ......................................................TCCTATCTATTTTTTAGGTAGGA......................................................................... Find igs database================================================ Query_seq: SSA_0746:SSA_0747|SSA_0746:SSA_0747:Glucosamine-6-phosphate deaminase, putative:DD-carboxypeptidase, putative:->->:727926..728075 150 gattttaatgttgttgctataaaactagctttgccagataaaagtctcttaatttcctatctattttttaggtaggatttttagatttatggttgactttgcgtaaaatatgatatactagataggtataattgttctttggaggatcct Intra-Species Hit: Count: 1 Min: 1 Max: 150 Len: 150 Subject: NC_009009_SSA_0746_SSA_0747|Glucosamine-6-phosphate deaminase, putative:DD-carboxypeptidase, putative|POSITIVE:POSITIVE|[727926,728075]|150 HSP 1 e-value: 5.0E-80 bit: 297.0 Len: 150 Query Start:1 Query End:150 Subject Strand: POSITIVE Subject Start: 1 Subject End: 150 gattttaatgttgttgctataaaactagctttgccagataaaagtctcttaatttcctatctattttttaggtaggatttttagatttatggttgactttgcgtaaaatatgatatactagataggtataattgttctttggaggatcct gattttaatgttgttgctataaaactagctttgccagataaaagtctcttaatttcctatctattttttaggtaggatttttagatttatggttgactttgcgtaaaatatgatatactagataggtataattgttctttggaggatcct Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GAUUUUAAUGUUGUUGCUAUAAAACUAGCUUUGCCAGAUAAAAGUCUCUUAAUUUCCUAUCUAUUUUUUAGGUAGGAUUUUUAGAUUUAUGGUUGACUUUGCGUAAAAUAUGAUAUACUAGAUAGGUAUAAUUGUUCUUUGGAGGAUCCU .((((((.(((.(((((((((((....(((((........))))).(((.((..(((((((((.....)))))))))..)).)))))))))).))))...)))))))))....((((((.....))))))...(((((....)))))... (-30.10) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGGAUCCUCCAAAGAACAAUUAUACCUAUCUAGUAUAUCAUAUUUUACGCAAAGUCAACCAUAAAUCUAAAAAUCCUACCUAAAAAAUAGAUAGGAAAUUAAGAGACUUUUAUCUGGCAAAGCUAGUUUUAUAGCAACAACAUUAAAAUC .((.....))..........(((((.......)))))....((((((......((((...((((((((.....(((((.(((.....))).))))).......)))..))))).))))...((((......))))........)))))). (-18.80) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 331 48 1 184 132 NC_009009:SSA_0695|5end_hypothetical_protein_678449..678679_POSITIVE 308 75 31 128 85 NC_009009:SSA_0172|5end_Transcriptional_regulator,_XRE_family,_putative_169140..169370_POSITIVE 280 87 41 194 143 NC_009009:SSA_0146|5end_DNA_repair_ATPase,_putative_139686..139916_POSITIVE 258 67 28 191 144 NC_009009:SSA_0239|5end_7,8-dihydro-8-oxoguanine-triphosphatase,_putative_232961..233191_POSITIVE 248 69 27 169 130 NC_009009:SSA_1415|5end_Oxidoreductase,_putative_1426508..1426738_NEGATIVE 245 121 83 212 178 NC_009009:SSA_2118|5end_Thiamine_pyrophosphokinase,_putative_2120500..2120730_NEGATIVE 240 145 101 211 165 NC_009009:SSA_0446|5end_hypothetical_protein_445438..445668_NEGATIVE 238 105 67 200 161 NC_009009:SSA_1092|5end_Dihydrofolate_reductase,_putative_1109599..1109829_POSITIVE 230 35 2 137 103 NC_009009:SSA_2080|5end_hypothetical_protein_2085341..2085571_NEGATIVE 228 79 45 185 151 NC_009009:SSA_1209|5end_Inorganic_polyphosphate/ATP-NAD_kinase,_putative_1234030..1234260_NEGATIVE 226 36 10 53 28 NC_009009:SSA_2002|5end_tRNA_pseudouridine_synthase_A,_putative_1998959..1999189_NEGATIVE 225 61 29 147 109 NC_009009:SSA_2230|5end_Ribonucleotide_reductase,_class_III,_anaerobic,_putative_2231158..2231388_NEGATIVE 221 38 10 149 116 NC_009009:SSA_2338|5end_Conserved_uncharacterized_protein_2339272..2339502_POSITIVE 221 47 9 44 8 NC_009009:SSA_2198|5end_hypothetical_protein_2198585..2198815_NEGATIVE 220 70 26 125 82 NC_009009:SSA_1724|5end_CBS_domain_protein,_putative_1710553..1710783_NEGATIVE 219 124 91 231 181 NC_009009:SSA_2255|5end_Transcriptional_regulator,_XRE_family,_putative_2250144..2250374_POSITIVE 217 78 31 106 62 NC_009009:SSA_2212|5end_Possible_polysaccharide_transport_protein,_putative_2213928..2214158_NEGATIVE 217 80 33 88 36 NC_009009:SSA_0062|5end_Aldose_1-epimerase,_putative_63732..63962_POSITIVE 216 66 25 227 185 NC_009009:SSA_0470|5end_Precorrin-4_methylase,_putative_472879..473109_POSITIVE 216 78 33 136 87 NC_009009:SSA_0401|5end_Two-component_response_transcriptional_regulator_(CheY-like_receiver_and_winged-helix_DNA-binding_domains),_putative_398462..398692_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 331 48 1 76 24 NC_009009:SSA_0694|3end_Mutator_protein,_putative_678421..678571_POSITIVE 254 63 23 101 63 NC_009009:SSA_1087|3end_ABC-type_transporter_(antibiotic_resistance_protein),_ATPase_component,_putative_1106472..1106622_POSITIVE 240 80 35 115 72 NC_009009:SSA_0507|3end_hypothetical_protein_506442..506592_POSITIVE 238 105 67 75 36 NC_009009:SSA_1091|3end_Thymidylate_synthase,_putative_1109554..1109704_POSITIVE 233 100 55 129 74 NC_009009:SSA_0004|3end_Lipoprotein,_putative_3213..3363_NEGATIVE 232 61 27 149 118 NC_009009:SSA_1416|3end_hypothetical_protein_1426520..1426670_NEGATIVE 230 35 2 127 93 NC_009009:SSA_2082|3end_Carbohydrate_kinase,_FGGY_family,_putative_2085351..2085501_NEGATIVE 222 85 41 118 83 NC_009009:SSA_2298|3end_Serine_protease_containing_a_PDZ_domain,_putative_2299569..2299719_NEGATIVE 220 46 22 109 88 NC_009009:SSA_0531|3end_Ethanolamine_utilization_protein_eutQ_(cobalamin-dependent_degradation_of_ethanolamine),_putative_527884..528034_POSITIVE 217 80 33 63 11 NC_009009:SSA_0061|3end_Tagatose_1,6-diphosphate_aldolase,_putative_63787..63937_POSITIVE 215 65 27 99 61 NC_009009:SSA_0264|3end_PEP_phosphonomutase-like_protein,_putative_259376..259526_POSITIVE 211 57 16 44 3 NC_009009:SSA_1591|3end_Dipeptidase,_putative_1593403..1593553_NEGATIVE 208 68 30 70 39 NC_009009:SSA_2310|3end_hypothetical_protein_2311931..2312081_NEGATIVE 206 57 23 87 59 NC_009009:SSA_0217|3end_Two-component_system_transcriptional_regulator_(CheY_domain_and_HTH-like_DNA-binding_domain),_putative_213946..214096_POSITIVE 204 70 28 100 58 NC_009009:SSA_2154|3end_Conserved_uncharacterized_protein_2154762..2154912_NEGATIVE 201 71 33 101 53 NC_009009:SSA_0730|3end_Arsenical_resistance_operon_transcription_repressor_(ArsR),_putative_715167..715317_POSITIVE 200 98 52 84 42 NC_009009:SSA_0852|3end_ATP-dependent_DNA_helicase,_putative_841418..841568_POSITIVE 198 94 53 58 8 NC_009009:SSA_1528|3end_Phosphoglycerate_mutase,_putative_1535850..1536000_POSITIVE 197 62 30 106 69 NC_009009:SSA_2213|3end_Nucleotide_sugar_dehydratase,_putative_2214047..2214197_NEGATIVE 197 44 1 131 99 NC_009009:SSA_2045|3end_Reductase,_putative_2048427..2048577_NEGATIVE