Origin IGS: tataaaatcccttaaagatcatgaggttttatcttcttacctgatttataagggatttattatccaataaataaggggatttttcgattaaaatcgtgaatttttcaccaacataatgtaatatgcgcgtgaattattaaccttccttaaaggagtcacttttt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aaaaagtgactcctttaaggaaggttaataattcacgcgcatattacattatgttggtgaaaaattcacgattttaatcgaaaaatccccttatttattggataataaatcccttataaatcaggtaagaagataaaacctcatgatctttaagggattttata Mask Tandem Repeat Region ================================================ tataaaatcccttaaagatcatgaggttttatcttcttacctgatttataagggatttattatccaataaataaggggatttttcgattaaaatcgtgaatttttcaccaacataatgtaatatgcgcgtgaattattaaccttccttaaaggagtcacttttt Find is-nt database================================================ Query_seq: AA02736:AA02737|AA02736:AA02737:conserved hypothetical protein:conserved hypothetical protein:->->:1918642..1918805 164 tataaaatcccttaaagatcatgaggttttatcttcttacctgatttataagggatttattatccaataaataaggggatttttcgattaaaatcgtgaatttttcaccaacataatgtaatatgcgcgtgaattattaaccttccttaaaggagtcacttttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA02736:AA02737|AA02736:AA02737:conserved hypothetical protein:conserved hypothetical protein:->->:1918642..1918805 164 tataaaatcccttaaagatcatgaggttttatcttcttacctgatttataagggatttattatccaataaataaggggatttttcgattaaaatcgtgaatttttcaccaacataatgtaatatgcgcgtgaattattaaccttccttaaaggagtcacttttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA02736:AA02737|AA02736:AA02737:conserved hypothetical protein:conserved hypothetical protein:->->:1918642..1918805 164 tataaaatcccttaaagatcatgaggttttatcttcttacctgatttataagggatttattatccaataaataaggggatttttcgattaaaatcgtgaatttttcaccaacataatgtaatatgcgcgtgaattattaaccttccttaaaggagtcacttttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tataaaatcccttaaagatcatgaggttttatcttcttacctgatttataagggatttattatccaataaataaggggatttttcgattaaaatcgtgaatttttcaccaacataatgtaatatgcgcgtgaattattaaccttccttaaaggagtcacttttt Predict ORF larger than 30AA ================================================ Protein_Len: 31 Strand: - Start: 32 End: 124 ............................... R R V Q N I L S K N D L L Y P S K E I L I T F K E G V Y H L M ........................................ tataaaatcccttaaagatcatgaggttttatcttcttacctgatttataagggatttattatccaataaataaggggatttttcgattaaaatcgtgaatttttcaccaacataatgtaatatgcgcgtgaattattaaccttccttaaaggagtcacttttt 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: 81 Start: 59 End: 88 ..........................................................ATCGAAAAATCCCCTTATTTATTGGATAAT............................................................................ Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ tataaaatcccttaaagatcatgaggttttatcttcttacctgatttataagggatttattatccaataaataaggggatttttcgattaaaatcgtgaatttttcaccaacataatgtaatatgcgcgtgaattattaaccttccttaaaggagtcacttttt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: AA02736:AA02737|AA02736:AA02737:conserved hypothetical protein:conserved hypothetical protein:->->:1918642..1918805 164 tataaaatcccttaaagatcatgaggttttatcttcttacctgatttataagggatttattatccaataaataaggggatttttcgattaaaatcgtgaatttttcaccaacataatgtaatatgcgcgtgaattattaaccttccttaaaggagtcacttttt Intra-Species Hit: Count: 1 Min: 1 Max: 164 Len: 164 Subject: aact_AA02736_AA02737|conserved hypothetical protein:conserved hypothetical protein|POSITIVE:POSITIVE|[1918642,1918805]|164 HSP 1 e-value: 3.0E-88 bit: 325.0 Len: 164 Query Start:1 Query End:164 Subject Strand: POSITIVE Subject Start: 1 Subject End: 164 tataaaatcccttaaagatcatgaggttttatcttcttacctgatttataagggatttattatccaataaataaggggatttttcgattaaaatcgtgaatttttcaccaacataatgtaatatgcgcgtgaattattaaccttccttaaaggagtcacttttt tataaaatcccttaaagatcatgaggttttatcttcttacctgatttataagggatttattatccaataaataaggggatttttcgattaaaatcgtgaatttttcaccaacataatgtaatatgcgcgtgaattattaaccttccttaaaggagtcacttttt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAUAAAAUCCCUUAAAGAUCAUGAGGUUUUAUCUUCUUACCUGAUUUAUAAGGGAUUUAUUAUCCAAUAAAUAAGGGGAUUUUUCGAUUAAAAUCGUGAAUUUUUCACCAACAUAAUGUAAUAUGCGCGUGAAUUAUUAACCUUCCUUAAAGGAGUCACUUUUU ....((((((((((.(((((((((((........)))))..)))))).))))))))))....(((..(((..((((.((((((......))))))...(((..(((((...((((......))))...)))))..)))..))))..)))..))).......... (-37.90) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAAAAGUGACUCCUUUAAGGAAGGUUAAUAAUUCACGCGCAUAUUACAUUAUGUUGGUGAAAAAUUCACGAUUUUAAUCGAAAAAUCCCCUUAUUUAUUGGAUAAUAAAUCCCUUAUAAAUCAGGUAAGAAGAUAAAACCUCAUGAUCUUUAAGGGAUUUUAUA .....((((.((((((((((((((((.....(((((..(((((......)))))..)))))...(((..((((((......)))))).(((.((((((.((((.....))))...)))))).)))...))).....))))).....)))))))))))..)))). (-37.20) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 274 55 15 121 70 aact:AA00492|5end_conserved_hypothetical_protein_343578..343808_POSITIVE 260 158 125 230 190 aact:AA00128|5end_cation-transporting_ATPase_(probable_potassium/copper_transporter)_91971..92201_POSITIVE 252 132 95 86 47 aact:AA01360|5end_XAA-pro_aminopeptidase_(X-pro_aminopeptidase)_921047..921277_POSITIVE 238 159 112 63 26 aact:AA02026|5end_probable_serine_proteinase_1378924..1379154_POSITIVE 227 98 51 167 116 aact:AA02380|5end_iron_chelatin_ABC_transporter,periplasmic-binding_protein_1628057..1628287_POSITIVE 227 98 51 64 13 aact:AA02379|5end_hypothetical_protein_1627954..1628184_POSITIVE 223 103 78 119 93 aact:AA02563|5end_transketolase_C-terminal_section_1785239..1785469_POSITIVE 223 64 26 220 180 aact:AA01991|5end_conserved_hypothetical_protein_(possible_nitroreductase)_1352372..1352602_POSITIVE 217 149 101 205 164 aact:AA02723|5end_hypothetical_protein_1906263..1906493_POSITIVE 216 138 95 77 28 aact:AA01231|5end_30S_ribosomal_protein_S14_840103..840333_POSITIVE 214 160 124 176 133 aact:AA02025|5end_hypothetical_protein_1378667..1378897_POSITIVE 214 137 95 64 21 aact:AA00212|5end_ribokinase_146056..146286_POSITIVE 211 160 125 45 5 aact:AA01289|5end_hypothetical_protein_872385..872615_POSITIVE 210 155 125 120 80 aact:AA01637|5end_ribonucleoside_diphosphate_reductase_1106657..1106887_POSITIVE 210 146 124 222 198 aact:AA01057|5end_DnaJ-like_protein_djlA_734095..734325_POSITIVE 207 143 107 61 19 aact:AA02949|5end_hypothetical_protein_2061944..2062174_POSITIVE 206 160 124 84 39 aact:AA00110|5end_ATPase_involved_in_DNA_replication_79085..79315_POSITIVE 204 129 87 107 56 aact:AA00801|5end_lysine--tRNA_ligase_548494..548724_POSITIVE 203 158 125 69 29 aact:AA01044|5end_A/G-specific_adenine_glycosylase_726711..726941_POSITIVE 202 135 104 54 9 aact:AA02993|5end_6-phosphofructokinase_2091766..2091996_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 252 132 95 68 29 aact:AA01359|3end_conserved_hypothetical_protein_921109..921259_POSITIVE 239 143 108 70 30 aact:AA01695|3end_carbohydrate_transport_protein_1152294..1152444_POSITIVE 223 82 41 86 29 aact:AA02465|3end_glucosamine-6-phosphate_isomerase_1704885..1705035_POSITIVE 223 160 114 131 76 aact:AA01260|3end_hypothetical_protein_855758..855908_POSITIVE 218 156 116 135 94 aact:AA02457|3end_conserved_hypothetical_protein_1695774..1695924_POSITIVE 216 138 95 61 12 aact:AA01230|3end_50S_ribosomal_protein_L5_840167..840317_POSITIVE 214 137 95 91 48 aact:AA00211|3end_hypothetical_protein_146163..146313_POSITIVE 210 155 125 63 23 aact:AA01636|3end_conserved_hypothetical_protein_1106680..1106830_POSITIVE 206 160 124 72 27 aact:AA00109|3end_conserved_hypothetical_protein_79153..79303_POSITIVE 205 120 75 58 15 aact:AA01389|3end_hypothetical_protein_937158..937308_POSITIVE 203 158 125 88 48 aact:AA01043|3end_conserved_hypothetical_protein_726810..726960_POSITIVE 200 160 116 133 90 aact:AA01555|3end_ABC_transporter,_ATP-binding_protein_1044323..1044473_POSITIVE 199 50 5 150 103 aact:AA00312|3end_conserved_hypothetical_protein_(possible_hydroxypyruvate_isomerase)_212922..213072_POSITIVE 197 149 103 75 18 aact:AA02393|3end_conserved_hypothetical_protein;_possible_sulfate_transporter_1644262..1644412_POSITIVE 197 118 71 111 68 aact:AA00991|3end_conserved_hypothetical_protein_693741..693891_POSITIVE 194 133 106 46 11 aact:AA02551|3end_iron_(chelated)_ABC_transporter,_permease_protein_1778575..1778725_POSITIVE 194 154 125 150 114 aact:AA00126|3end_conserved_hypothetical_protein_91975..92125_POSITIVE 193 45 1 51 10 aact:AA02270|3end_endopeptidase_La;_lon_protease;_protease_La_homolog;_ATP-dependent_protease_LA_(lon-1)_1548668..1548818_POSITIVE 192 109 69 114 74 aact:AA01824|3end_iron(III)_ABC_transporter,_ATP-binding_protein_1228540..1228690_POSITIVE 189 57 15 108 69 aact:AA01942|3end_hypothetical_protein_1312953..1313103_POSITIVE