Origin IGS: cttttattccttaacttcattaatgaatttactcaattctgaacttattttattataacagcttcaattttgaatgattaaagagattcctatttctgtgattcacaacacatttttattggaaacagaaataaaccggtatataaaaggactcaac .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 gttgagtccttttatataccggtttatttctgtttccaataaaaatgtgttgtgaatcacagaaataggaatctctttaatcattcaaaattgaagctgttataataaaataagttcagaattgagtaaattcattaatgaagttaaggaataaaag Mask Tandem Repeat Region ================================================ cttttattccttaacttcattaatgaatttactcaattctgaacttattttattataacagcttcaattttgaatgattaaagagattcctatttctgtgattcacaacacatttttattggaaacagaaataaaccggtatataaaaggactcaac Find is-nt database================================================ Query_seq: AA02930:AA02931|AA02930:AA02931:fructose-1,6-bisphosphatase:UDP-N-acetylmuramate:L-alanyl-gamma-d-glutamayl-m edo-diaminopimelate:->->:2050579..2050735 157 cttttattccttaacttcattaatgaatttactcaattctgaacttattttattataacagcttcaattttgaatgattaaagagattcctatttctgtgattcacaacacatttttattggaaacagaaataaaccggtatataaaaggactcaac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA02930:AA02931|AA02930:AA02931:fructose-1,6-bisphosphatase:UDP-N-acetylmuramate:L-alanyl-gamma-d-glutamayl-m edo-diaminopimelate:->->:2050579..2050735 157 cttttattccttaacttcattaatgaatttactcaattctgaacttattttattataacagcttcaattttgaatgattaaagagattcctatttctgtgattcacaacacatttttattggaaacagaaataaaccggtatataaaaggactcaac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA02930:AA02931|AA02930:AA02931:fructose-1,6-bisphosphatase:UDP-N-acetylmuramate:L-alanyl-gamma-d-glutamayl-m edo-diaminopimelate:->->:2050579..2050735 157 cttttattccttaacttcattaatgaatttactcaattctgaacttattttattataacagcttcaattttgaatgattaaagagattcctatttctgtgattcacaacacatttttattggaaacagaaataaaccggtatataaaaggactcaac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 cttttattccttaacttcattaatgaatttactcaattctgaacttattttattataacagcttcaattttgaatgattaaagagattcctatttctgtgattcacaacacatttttattggaaacagaaataaaccggtatataaaaggactcaac Predict ORF larger than 30AA ================================================ cttttattccttaacttcattaatgaatttactcaattctgaacttattttattataacagcttcaattttgaatgattaaagagattcctatttctgtgattcacaacacatttttattggaaacagaaataaaccggtatataaaaggactcaac Predict Promoter with matrix: RpoD-15 score > 80================================================ Predict Promoter with matrix: RpoD-16 score > 80================================================ Predict Promoter with matrix: RpoD-17 score > 80================================================ PromScan Matrix: RpoD-17 Strand: + Score: 84 Start: 27 End: 56 ..........................ATTTACTCAATTCTGAACTTATTTTATTAT..................................................................................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ cttttattccttaacttcattaatgaatttactcaattctgaacttattttattataacagcttcaattttgaatgattaaagagattcctatttctgtgattcacaacacatttttattggaaacagaaataaaccggtatataaaaggactcaac Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 39 HP_score: -2.9 Tail_Score: -2.50994 Start: 25 End: 39 Full_Region: aataaaataagttca gaatt gagta aattc attaatgaagttaag ........................gaattgagtaaattc...................................................................................................................... Find igs database================================================ Query_seq: AA02930:AA02931|AA02930:AA02931:fructose-1,6-bisphosphatase:UDP-N-acetylmuramate:L-alanyl-gamma-d-glutamayl-m edo-diaminopimelate:->->:2050579..2050735 157 cttttattccttaacttcattaatgaatttactcaattctgaacttattttattataacagcttcaattttgaatgattaaagagattcctatttctgtgattcacaacacatttttattggaaacagaaataaaccggtatataaaaggactcaac Intra-Species Hit: Count: 1 Min: 1 Max: 157 Len: 157 Subject: aact_AA02930_AA02931|fructose-1, 6-bisphosphatase:UDP-N-acetylmuramate:L-alanyl-gamma-d- glutamayl-m edo-diaminopimelate|POSITIVE:POSITIVE|[2050579, 2050735]|157 HSP 1 e-value: 4.0E-84 bit: 311.0 Len: 157 Query Start:1 Query End:157 Subject Strand: POSITIVE Subject Start: 1 Subject End: 157 cttttattccttaacttcattaatgaatttactcaattctgaacttattttattataacagcttcaattttgaatgattaaagagattcctatttctgtgattcacaacacatttttattggaaacagaaataaaccggtatataaaaggactcaac cttttattccttaacttcattaatgaatttactcaattctgaacttattttattataacagcttcaattttgaatgattaaagagattcctatttctgtgattcacaacacatttttattggaaacagaaataaaccggtatataaaaggactcaac Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CUUUUAUUCCUUAACUUCAUUAAUGAAUUUACUCAAUUCUGAACUUAUUUUAUUAUAACAGCUUCAAUUUUGAAUGAUUAAAGAGAUUCCUAUUUCUGUGAUUCACAACACAUUUUUAUUGGAAACAGAAAUAAACCGGUAUAUAAAAGGACUCAAC (((((((.((.(((.((((....)))).))).....(((((...((((......))))....((((((...(((((.....((((((....))))))(((...)))....)))))..))))))..))))).......))...)))))))........ (-21.40) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GUUGAGUCCUUUUAUAUACCGGUUUAUUUCUGUUUCCAAUAAAAAUGUGUUGUGAAUCACAGAAAUAGGAAUCUCUUUAAUCAUUCAAAAUUGAAGCUGUUAUAAUAAAAUAAGUUCAGAAUUGAGUAAAUUCAUUAAUGAAGUUAAGGAAUAAAAG ........(((((((.......(((((((((((((((((((......))))).)))..)))))))))))....((((((((.((((((..(((((..((((.......))))..)))))..))))))...((((....))))))))))))))))))) (-28.10) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 209 138 93 115 71 aact:AA02172|5end_conserved_hypothetical_protein_1486019..1486249_POSITIVE 194 140 96 221 180 aact:AA01957|5end_conserved_hypothetical_protein_1323211..1323441_POSITIVE 188 127 83 178 130 aact:AA02776|5end_conserved_hypothetical_protein_1939693..1939923_POSITIVE 185 138 96 221 183 aact:AA01873|5end_mannose-6-phosphate_isomerase_1260658..1260888_POSITIVE 185 55 31 120 95 aact:AA00342|5end_hypothetical_protein_229695..229925_POSITIVE 181 99 59 67 28 aact:AA01534|5end_conserved_hypothetical_protein_(possible_GTP_pyrophosphokinase)_1029377..1029607_POSITIVE 181 115 78 111 72 aact:AA00110|5end_ATPase_involved_in_DNA_replication_79085..79315_POSITIVE 180 65 21 172 124 aact:AA00140|5end_hypothetical_protein_100646..100876_POSITIVE 177 125 83 217 178 aact:AA01621|5end_replicative_DNA_helicase_1095647..1095877_POSITIVE 177 125 83 83 44 aact:AA01620|5end_hypothetical_protein_1095513..1095743_POSITIVE 176 138 97 230 184 aact:AA01465|5end_mannose-specific_phosphotransferase_element_984472..984702_POSITIVE 175 97 59 137 103 aact:AA01626|5end_N_utilization_substance_protein_B_1100444..1100674_POSITIVE 173 138 93 200 156 aact:AA00327|5end_conserved_hypothetical_protein_222339..222569_POSITIVE 172 87 57 104 81 aact:AA00553|5end_NapD_component_of_periplasmic_nitrate_reductase_379851..380081_POSITIVE 171 138 93 220 188 aact:AA01810|5end_electron_transport_complex_protein_1219250..1219480_POSITIVE 170 62 37 231 211 aact:AA02658|5end_conserved_hypothetical_protein_1852260..1852490_POSITIVE 169 118 71 190 146 aact:AA02184|5end_anthranilate_isomerase;_indole-3-glycerol_phosphate_synthase;_phosphoribosylanthranilate_isomerase_1491805..1492035_POSITIVE 169 138 93 125 68 aact:AA01532|5end_hypothetical_protein_1028771..1029001_POSITIVE 169 138 93 59 2 aact:AA01531|5end_hypothetical_protein_1028705..1028935_POSITIVE 168 54 28 97 71 aact:AA01989|5end_hypothetical_protein_1352039..1352269_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 209 138 93 112 68 aact:AA02171|3end_polysialic_acid_capsule_expression_protein_1486096..1486246_POSITIVE 197 105 83 139 116 aact:AA00971|3end_conserved_hypothetical_protein_677875..678025_POSITIVE 188 127 83 128 80 aact:AA02775|3end_S-adenosylmethionine:tRNA_ribosyltransferase-isomerase_(Queuosine_biosynthesis_protein_queA)_1939723..1939873_POSITIVE 185 138 96 127 89 aact:AA01872|3end_conserved_hypothetical_protein_1260644..1260794_POSITIVE 185 55 31 148 123 aact:AA00341|3end_hypothetical_protein_229803..229953_POSITIVE 181 99 59 61 22 aact:AA01533|3end_conserved_hypothetical_protein_1029451..1029601_POSITIVE 181 115 78 99 60 aact:AA00109|3end_conserved_hypothetical_protein_79153..79303_POSITIVE 177 125 83 68 29 aact:AA01619|3end_phospho-2-dehydro-3-deoxyheptonate_aldolase_(DAHP_synthase)_1095578..1095728_POSITIVE 176 138 97 81 35 aact:AA01464|3end_hypothetical_protein_984403..984553_POSITIVE 175 97 59 127 93 aact:AA01625|3end_riboflavin_synthase,_beta_chain_1100514..1100664_POSITIVE 173 62 23 49 13 aact:AA01043|3end_conserved_hypothetical_protein_726810..726960_POSITIVE 172 87 57 67 44 aact:AA00552|3end_periplasmic_nitrate_reductase_precursor_379894..380044_POSITIVE 169 138 93 151 94 aact:AA01531|3end_hypothetical_protein_1028877..1029027_POSITIVE 167 140 111 104 73 aact:AA00241|3end_formate_acetyltransferase_activating_enzyme_(anaerobic_ribonucleoside-triphosphate_reductase_activating_protein)_172090..172240_POSITIVE 166 47 7 112 67 aact:AA01063|3end_conserved_hypothetical_protein_737477..737627_POSITIVE 164 105 71 35 7 aact:AA00869|3end_tight_adherence_protein_V;_prepilin_peptidase_601760..601910_POSITIVE 162 130 88 131 86 aact:AA01209|3end_conserved_hypothetical_protein_827007..827157_POSITIVE 162 117 74 48 5 aact:AA00064|3end_ribosomal_small_subunit_pseudouridine_synthase_48946..49096_POSITIVE 160 80 40 53 19 aact:AA02528|3end_30S_ribosomal_protein_S1_1757692..1757842_POSITIVE 160 99 57 85 32 aact:AA02386|3end_hypothetical_protein_1634730..1634880_POSITIVE