Origin IGS: taatgaaaaaactgtcggttttggtcggcagttttttgtatttttaatccaaggctgaaaggtttttgccttattcagtaccttacttatatctcgcagatacaaggagacaga .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tctgtctccttgtatctgcgagatataagtaaggtactgaataaggcaaaaacctttcagccttggattaaaaatacaaaaaactgccgaccaaaaccgacagttttttcatta Mask Tandem Repeat Region ================================================ taatgaaaaaactgtcggttttggtcggcagttttttgtatttttaatccaaggctgaaaggtttttgccttattcagtaccttacttatatctcgcagatacaaggagacaga Find is-nt database================================================ Query_seq: AA00330:AA00332|AA00330:AA00332:conserved hypothetical protein:PTS system, fructose-specific IIA/FPr component (diphosphoryl transfer protein):->->:224037..224150 114 taatgaaaaaactgtcggttttggtcggcagttttttgtatttttaatccaaggctgaaaggtttttgccttattcagtaccttacttatatctcgcagatacaaggagacaga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA00330:AA00332|AA00330:AA00332:conserved hypothetical protein:PTS system, fructose-specific IIA/FPr component (diphosphoryl transfer protein):->->:224037..224150 114 taatgaaaaaactgtcggttttggtcggcagttttttgtatttttaatccaaggctgaaaggtttttgccttattcagtaccttacttatatctcgcagatacaaggagacaga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA00330:AA00332|AA00330:AA00332:conserved hypothetical protein:PTS system, fructose-specific IIA/FPr component (diphosphoryl transfer protein):->->:224037..224150 114 taatgaaaaaactgtcggttttggtcggcagttttttgtatttttaatccaaggctgaaaggtttttgccttattcagtaccttacttatatctcgcagatacaaggagacaga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taatgaaaaaactgtcggttttggtcggcagttttttgtatttttaatccaaggctgaaaggtttttgccttattcagtaccttacttatatctcgcagatacaaggagacaga Predict ORF larger than 30AA ================================================ Protein_Len: 35 Strand: - Start: 1 End: 105 L S F V T P K P R C N K T N K I W P Q F T K A K N L V K S I D R L Y M ......... taatgaaaaaactgtcggttttggtcggcagttttttgtatttttaatccaaggctgaaaggtttttgccttattcagtaccttacttatatctcgcagatacaaggagacaga 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================================================ taatgaaaaaactgtcggttttggtcggcagttttttgtatttttaatccaaggctgaaaggtttttgccttattcagtaccttacttatatctcgcagatacaaggagacaga Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: AA00330:AA00332|AA00330:AA00332:conserved hypothetical protein:PTS system, fructose-specific IIA/FPr component (diphosphoryl transfer protein):->->:224037..224150 114 taatgaaaaaactgtcggttttggtcggcagttttttgtatttttaatccaaggctgaaaggtttttgccttattcagtaccttacttatatctcgcagatacaaggagacaga Intra-Species Hit: Count: 1 Min: 1 Max: 114 Len: 114 Subject: aact_AA00330_AA00332|conserved hypothetical protein:PTS system, fructose-specific IIA/FPr component (diphosphoryl transfer protein)|POSITIVE:POSITIVE|[224037,224150]|114 HSP 1 e-value: 1.0E-58 bit: 226.0 Len: 114 Query Start:1 Query End:114 Subject Strand: POSITIVE Subject Start: 1 Subject End: 114 taatgaaaaaactgtcggttttggtcggcagttttttgtatttttaatccaaggctgaaaggtttttgccttattcagtaccttacttatatctcgcagatacaaggagacaga taatgaaaaaactgtcggttttggtcggcagttttttgtatttttaatccaaggctgaaaggtttttgccttattcagtaccttacttatatctcgcagatacaaggagacaga Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUGAAAAAACUGUCGGUUUUGGUCGGCAGUUUUUUGUAUUUUUAAUCCAAGGCUGAAAGGUUUUUGCCUUAUUCAGUACCUUACUUAUAUCUCGCAGAUACAAGGAGACAGA .....(((((((((((((......)))))))))))))..........(((...((((((((((....))))..))))))..........((((.....))))...)))...... (-29.10) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UCUGUCUCCUUGUAUCUGCGAGAUAUAAGUAAGGUACUGAAUAAGGCAAAAACCUUUCAGCCUUGGAUUAAAAAUACAAAAAACUGCCGACCAAAACCGACAGUUUUUUCAUUA ........((((((((.....))))))))(((((..(((((..(((......)))))))))))))............(((((((((.((........)).)))))))))..... (-24.90) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 292 57 11 217 171 aact:AA00924|5end_hypothetical_protein_635261..635491_POSITIVE 288 37 9 135 108 aact:AA01973|5end_acetate_kinase_1334424..1334654_POSITIVE 284 98 51 214 161 aact:AA02949|5end_hypothetical_protein_2061944..2062174_POSITIVE 278 59 14 189 149 aact:AA02899|5end_oligopeptide_ABC_transporter,_ATP-binding_protein_2030063..2030293_POSITIVE 276 110 63 87 46 aact:AA00884|5end_sodium-dependent_transporter_614392..614622_POSITIVE 274 69 21 63 24 aact:AA02455|5end_conserved_hypothetical_protein_1694353..1694583_POSITIVE 272 99 54 169 120 aact:AA00227|5end_hypothetical_sequence_156407..156637_POSITIVE 269 57 11 81 42 aact:AA02158|5end_TonB-dependent_outer_membrane_receptor_1476155..1476385_POSITIVE 268 70 21 79 29 aact:AA01687|5end_TldD_protein_1138043..1138273_POSITIVE 266 56 26 213 186 aact:AA02362|5end_conserved_hypothetical_protein_1619905..1620135_POSITIVE 266 59 12 179 139 aact:AA02154|5end_possible_ATP-binding_protein_of_ABC_transporter_1473543..1473773_POSITIVE 264 57 12 228 173 aact:AA01838|5end_conserved_hypothetical_protein_1236396..1236626_POSITIVE 261 57 12 221 176 aact:AA01451|5end_D-xylulokinase_971935..972165_POSITIVE 261 57 12 146 101 aact:AA01450|5end_hypothetical_protein_971860..972090_POSITIVE 260 70 27 184 149 aact:AA01626|5end_N_utilization_substance_protein_B_1100444..1100674_POSITIVE 260 70 26 155 104 aact:AA00545|5end_glutathionylspermidine_synthetase;amidase_373607..373837_POSITIVE 255 57 12 219 175 aact:AA01085|5end_mutator_mutT_protein_(7,8-dihydro-8-oxoguanine-triphosphatase)_(8-oxo-dGTPase)_(dGTP_pyrophosphohydrolase)_750970..751200_POSITIVE 251 57 12 190 145 aact:AA02420|5end_ISRSO11_related_transposase_1662070..1662300_POSITIVE 251 79 49 129 95 aact:AA01195|5end_acyl_carrier_protein_819849..820079_POSITIVE 249 54 15 163 111 aact:AA00806|5end_fumarate_reductase_15_kD_hydrophobic_protein_552365..552595_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 288 37 9 62 35 aact:AA01972|3end_phosphotransacetylase_1334431..1334581_POSITIVE 284 98 51 64 11 aact:AA02947|3end_riboflavin_biosynthesis_protein_2061874..2062024_POSITIVE 276 110 63 82 41 aact:AA00883|3end_hypothetical_protein_614467..614617_POSITIVE 275 89 47 86 49 aact:AA02609|3end_ABC_transporter,_ATP-binding_protein/permease_1820184..1820334_POSITIVE 274 69 21 63 24 aact:AA02454|3end_ATP-dependent_helicase_1694433..1694583_POSITIVE 272 99 54 133 84 aact:AA00226|3end_hypothetical_protein_156451..156601_POSITIVE 269 57 11 151 112 aact:AA02157|3end_TonB-dependent_outer_membrane_receptor_1476305..1476455_POSITIVE 268 70 21 92 42 aact:AA01686|3end_hypothetical_protein_1138136..1138286_POSITIVE 264 57 12 148 93 aact:AA01837|3end_transcriptional_regulatory_protein_1236396..1236546_POSITIVE 258 88 49 126 77 aact:AA00839|3end_UDP-MurNAc-pentapeptide_phosphotransferase_579784..579934_POSITIVE 255 57 12 139 95 aact:AA01083|3end_preprotein_translocase_SecA_subunit_750970..751120_POSITIVE 251 79 49 123 89 aact:AA01194|3end_acyl_carrier_protein_819923..820073_POSITIVE 250 99 53 65 11 aact:AA01565|3end_conserved_hypothetical_protein_1050967..1051117_POSITIVE 249 54 15 148 96 aact:AA00805|3end_fumarate_reductase_iron-sulfur_protein_552430..552580_POSITIVE 248 50 1 151 89 aact:AA01851|3end_hypothetical_protein_1244949..1245099_POSITIVE 244 50 4 61 3 aact:AA00919|3end_organic_solvent_tolerance_protein_632677..632827_POSITIVE 243 70 22 141 92 aact:AA00952|3end_hemY_protein_homolog_658895..659045_POSITIVE 240 56 13 47 4 aact:AA01031|3end_Na(+)-translocating_NADH-quinone_reductase_subunit_C_721077..721227_POSITIVE 236 70 21 72 31 aact:AA00286|3end_glutamate_5-kinase_(gamma-glutamyl_kinase)_200260..200410_POSITIVE 235 70 26 129 75 aact:AA02702|3end_succinyl-CoA_synthetase,_beta_chain_1885385..1885535_POSITIVE