Origin IGS: aatgctactcccttttatcggttaaacgaataacaacaaaaattgaaatactgctataccccaccacaacaatcacatgagaatataaatttcacaaatatacaatttgaaacaaatcgtccgttgagtatctatatcattaaaagaagatttcctgcaaccgccattttttgaaagtgtgagatagatcttattttttggaaggaaaatttaactactgcaaaaataaactaaatattttatttttagcaaaaaaataggagtccaaagactcctatgttcatgctcaatacgaattcgtta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taacgaattcgtattgagcatgaacataggagtctttggactcctatttttttgctaaaaataaaatatttagtttatttttgcagtagttaaattttccttccaaaaaataagatctatctcacactttcaaaaaatggcggttgcaggaaatcttcttttaatgatatagatactcaacggacgatttgtttcaaattgtatatttgtgaaatttatattctcatgtgattgttgtggtggggtatagcagtatttcaatttttgttgttattcgtttaaccgataaaagggagtagcatt Mask Tandem Repeat Region ================================================ aatgctactcccttttatcggttaaacgaataacaacaaaaattgaaatactgctataccccaccacaacaatcacatgagaatataaatttcacaaatatacaatttgaaacaaatcgtccgttgagtatctatatcattaaaagaagatttcctgcaaccgccattttttgaaagtgtgagatagatcttattttttggaaggaaaatttaactactgcaaaaataaactaaatattttatttttagcaaaaaaataggagtccaaagactcctatgttcatgctcaatacgaattcgtta Find is-nt database================================================ Query_seq: AA02788:AA02789|AA02788:AA02789:possible ABC-related substrate binding protein:oxidoreductase-dehydrogenase:->->:1956478..1956780 303 aatgctactcccttttatcggttaaacgaataacaacaaaaattgaaatactgctataccccaccacaacaatcacatgagaatataaatttcacaaatatacaatttgaaacaaatcgtccgttgagtatctatatcattaaaagaagatttcctgcaaccgccattttttgaaagtgtgagatagatcttattttttggaaggaaaatttaactactgcaaaaataaactaaatattttatttttagcaaaaaaataggagtccaaagactcctatgttcatgctcaatacgaattcgtta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA02788:AA02789|AA02788:AA02789:possible ABC-related substrate binding protein:oxidoreductase-dehydrogenase:->->:1956478..1956780 303 aatgctactcccttttatcggttaaacgaataacaacaaaaattgaaatactgctataccccaccacaacaatcacatgagaatataaatttcacaaatatacaatttgaaacaaatcgtccgttgagtatctatatcattaaaagaagatttcctgcaaccgccattttttgaaagtgtgagatagatcttattttttggaaggaaaatttaactactgcaaaaataaactaaatattttatttttagcaaaaaaataggagtccaaagactcctatgttcatgctcaatacgaattcgtta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA02788:AA02789|AA02788:AA02789:possible ABC-related substrate binding protein:oxidoreductase-dehydrogenase:->->:1956478..1956780 303 aatgctactcccttttatcggttaaacgaataacaacaaaaattgaaatactgctataccccaccacaacaatcacatgagaatataaatttcacaaatatacaatttgaaacaaatcgtccgttgagtatctatatcattaaaagaagatttcctgcaaccgccattttttgaaagtgtgagatagatcttattttttggaaggaaaatttaactactgcaaaaataaactaaatattttatttttagcaaaaaaataggagtccaaagactcctatgttcatgctcaatacgaattcgtta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aatgctactcccttttatcggttaaacgaataacaacaaaaattgaaatactgctataccccaccacaacaatcacatgagaatataaatttcacaaatatacaatttgaaacaaatcgtccgttgagtatctatatcattaaaagaagatttcctgcaaccgccattttttgaaagtgtgagatagatcttattttttggaaggaaaatttaactactgcaaaaataaactaaatattttatttttagcaaaaaaataggagtccaaagactcctatgttcatgctcaatacgaattcgtta Predict ORF larger than 30AA ================================================ Protein_Len: 43 Strand: + Start: 43 End: 171 .......................................... M K Y C Y T P P Q Q S H E N I N F T N I Q F E T N R P L S I Y I I K R R F P A T A I F .................................................................................................................................... Protein_Len: 31 Strand: - Start: 135 End: 227 ...................................................................................................................................... I M L L L N G A V A M K Q F H S I S R I K Q F S F K V V A F M ............................................................................ Protein_Len: 45 Strand: - Start: 76 End: 210 ........................................................................... M L I Y I E C I Y L K F C I T R Q T D I D N F S S K R C G G N K S L T L Y I K N K P L F M ............................................................................................. aatgctactcccttttatcggttaaacgaataacaacaaaaattgaaatactgctataccccaccacaacaatcacatgagaatataaatttcacaaatatacaatttgaaacaaatcgtccgttgagtatctatatcattaaaagaagatttcctgcaaccgccattttttgaaagtgtgagatagatcttattttttggaaggaaaatttaactactgcaaaaataaactaaatattttatttttagcaaaaaaataggagtccaaagactcctatgttcatgctcaatacgaattcgtta 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================================================ aatgctactcccttttatcggttaaacgaataacaacaaaaattgaaatactgctataccccaccacaacaatcacatgagaatataaatttcacaaatatacaatttgaaacaaatcgtccgttgagtatctatatcattaaaagaagatttcctgcaaccgccattttttgaaagtgtgagatagatcttattttttggaaggaaaatttaactactgcaaaaataaactaaatattttatttttagcaaaaaaataggagtccaaagactcctatgttcatgctcaatacgaattcgtta Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 72 HP_score: -8.2 Tail_Score: -3.22298 Start: 256 End: 279 Full_Region: TATTTTTAGCAAAAA AATAGGAGTC CAAA GACTCCTATG TTCATGCTCAATACG ...............................................................................................................................................................................................................................................................AATAGGAGTCCAAAGACTCCTATG........................ TransTerm Strand: + Conf: 85 HP_score: -10.8 Tail_Score: -3.17527 Start: 258 End: 277 Full_Region: TTTTTAGCAAAAAAA TAGGAGTC CAAA GACTCCTA TGTTCATGCTCAATA .................................................................................................................................................................................................................................................................TAGGAGTCCAAAGACTCCTA.......................... Find igs database================================================ Query_seq: AA02788:AA02789|AA02788:AA02789:possible ABC-related substrate binding protein:oxidoreductase-dehydrogenase:->->:1956478..1956780 303 aatgctactcccttttatcggttaaacgaataacaacaaaaattgaaatactgctataccccaccacaacaatcacatgagaatataaatttcacaaatatacaatttgaaacaaatcgtccgttgagtatctatatcattaaaagaagatttcctgcaaccgccattttttgaaagtgtgagatagatcttattttttggaaggaaaatttaactactgcaaaaataaactaaatattttatttttagcaaaaaaataggagtccaaagactcctatgttcatgctcaatacgaattcgtta Intra-Species Hit: Count: 1 Min: 1 Max: 303 Len: 303 Subject: aact_AA02788_AA02789|possible ABC-related substrate binding protein:oxidoreductase- dehydrogenase|POSITIVE:POSITIVE|[1956478,1956780]|303 HSP 1 e-value: 1.0E-104 bit: 381.0 Len: 192 Query Start:1 Query End:192 Subject Strand: POSITIVE Subject Start: 1 Subject End: 192 aatgctactcccttttatcggttaaacgaataacaacaaaaattgaaatactgctataccccaccacaacaatcacatgagaatataaatttcacaaatatacaatttgaaacaaatcgtccgttgagtatctatatcattaaaagaagatttcctgcaaccgccattttttgaaagtgtgagatagatctt............................................................................................................... aatgctactcccttttatcggttaaacgaataacaacaaaaattgaaatactgctataccccaccacaacaatcacatgagaatataaatttcacaaatatacaatttgaaacaaatcgtccgttgagtatctatatcattaaaagaagatttcctgcaaccgccattttttgaaagtgtgagatagatctt............................................................................................................... HSP 2 e-value: 1.0E-17 bit: 91.7 Len: 46 Query Start:258 Query End:303 Subject Strand: POSITIVE Subject Start: 258 Subject End: 303 .................................................................................................................................................................................................................................................................taggagtccaaagactcctatgttcatgctcaatacgaattcgtta .................................................................................................................................................................................................................................................................taggagtccaaagactcctatgttcatgctcaatacgaattcgtta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAUGCUACUCCCUUUUAUCGGUUAAACGAAUAACAACAAAAAUUGAAAUACUGCUAUACCCCACCACAACAAUCACAUGAGAAUAUAAAUUUCACAAAUAUACAAUUUGAAACAAAUCGUCCGUUGAGUAUCUAUAUCAUUAAAAGAAGAUUUCCUGCAACCGCCAUUUUUUGAAAGUGUGAGAUAGAUCUUAUUUUUUGGAAGGAAAAUUUAACUACUGCAAAAAUAAACUAAAUAUUUUAUUUUUAGCAAAAAAAUAGGAGUCCAAAGACUCCUAUGUUCAUGCUCAAUACGAAUUCGUUA ........................(((((((........((((((........................((......)).(((.......))).........))))))........((((..(((((((((...................(((((.((....))....(((..((((.((((((....))))))))))..))))))))..........((((((((((((........))))))))).))).....(((((((((....)))))))))....)))))))))))))))))))). (-50.60) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAACGAAUUCGUAUUGAGCAUGAACAUAGGAGUCUUUGGACUCCUAUUUUUUUGCUAAAAAUAAAAUAUUUAGUUUAUUUUUGCAGUAGUUAAAUUUUCCUUCCAAAAAAUAAGAUCUAUCUCACACUUUCAAAAAAUGGCGGUUGCAGGAAAUCUUCUUUUAAUGAUAUAGAUACUCAACGGACGAUUUGUUUCAAAUUGUAUAUUUGUGAAAUUUAUAUUCUCAUGUGAUUGUUGUGGUGGGGUAUAGCAGUAUUUCAAUUUUUGUUGUUAUUCGUUUAACCGAUAAAAGGGAGUAGCAUU ..(((....))).....((...(((.((((((((....)))))))).....((((.(((((((((........)))))))))))))..)))........(((((...(((((....(((((((.((((........(..(((((..((.((.....)).......(((((((((..(((....((((((((...)))))))).......))).)))))))))....))..)))))..)))))))).))))...)))))....(((((((((((......))).)))))))))))))..))... (-62.40) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 300 37 2 130 93 aact:AA00616|5end_phosphatidate_cytidylyltransferase_421965..422195_POSITIVE 280 166 122 150 97 aact:AA01662|5end_molybdopterin_biosynthesis_protein_1126131..1126361_POSITIVE 276 181 149 130 96 aact:AA02955|5end_trigger_factor_2067022..2067252_POSITIVE 276 77 40 78 26 aact:AA02262|5end_50S_ribosomal_protein_L13_1538422..1538652_POSITIVE 268 168 121 130 73 aact:AA01565|5end_conserved_hypothetical_protein_1050711..1050941_POSITIVE 264 96 51 93 38 aact:AA02940|5end_conserved_hypothetical_protein_2057922..2058152_POSITIVE 263 189 152 71 28 aact:AA00132|5end_conserved_hypothetical_protein_(possible_regulator_protein,_VirR_family)_94938..95168_POSITIVE 255 165 121 137 74 aact:AA00523|5end_conserved_hypothetical_protein_358472..358702_POSITIVE 254 205 161 124 85 aact:AA01015|5end_met_repressor_710511..710741_POSITIVE 252 181 150 130 102 aact:AA02712|5end_tail_specific_protease_precursor_1892853..1893083_POSITIVE 248 184 145 230 189 aact:AA01874|5end_conserved_hypothetical_protein_1262036..1262266_POSITIVE 247 193 160 130 102 aact:AA00244|5end_conserved_hypothetical_protein_(possible_deoxyribonuclease,_possible_hydrolase)_172043..172273_POSITIVE 244 300 257 122 90 aact:AA00119|5end_ATP-dependent_Clp_protease_proteolytic_subunit_(endopeptidase_Clp)_88387..88617_POSITIVE 243 180 153 69 36 aact:AA01358|5end_conserved_hypothetical_protein_920002..920232_POSITIVE 242 187 148 105 68 aact:AA01731|5end_multidrug_resistance_protein_B_1169150..1169380_POSITIVE 240 163 121 142 100 aact:AA01726|5end_conserved_hypothetical_protein_(possible_HipA-like_protein_1168105..1168335_POSITIVE 239 166 121 192 155 aact:AA01477|5end_type_I_restriction_enzyme_R_protein_992249..992479_POSITIVE 238 175 151 202 176 aact:AA02538|5end_conserved_hypothetical_protein_1765187..1765417_POSITIVE 238 69 36 151 108 aact:AA01160|5end_ADP_compounds_hydrolase_793565..793795_POSITIVE 237 209 161 223 171 aact:AA02731|5end_outer_membrane_lipoprotein_carrier_precursor_1911498..1911728_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 300 37 2 127 90 aact:AA00615|3end_cation_transport_protein_422042..422192_POSITIVE 280 166 122 131 78 aact:AA01661|3end_molybdopterin_biosynthesis_protein_1126192..1126342_POSITIVE 276 77 40 58 6 aact:AA02261|3end_30S_ribosomal_protein_S9_1538482..1538632_POSITIVE 255 173 142 105 67 aact:AA02103|3end_D-alanyl-D-alanine-endopeptidase;_penicillin-binding_protein_7_1431784..1431934_POSITIVE 252 181 150 49 21 aact:AA02711|3end_conserved_hypothetical_protein_1892852..1893002_POSITIVE 248 184 145 54 13 aact:AA01873|3end_mannose-6-phosphate_isomerase_1261940..1262090_POSITIVE 247 197 157 94 40 aact:AA02351|3end_conserved_hypothetical_protein_1609468..1609618_POSITIVE 247 193 160 97 69 aact:AA00241|3end_formate_acetyltransferase_activating_enzyme_(anaerobic_ribonucleoside-triphosphate_reductase_activating_protein)_172090..172240_POSITIVE 244 300 257 73 41 aact:AA00117|3end_hypothetical_protein_88418..88568_POSITIVE 241 205 162 119 75 aact:AA00172|3end_conserved_hypothetical_protein_(possible_regulator_protein_/_nitrogen_fixation_protein)_122904..123054_POSITIVE 240 163 121 139 97 aact:AA01725|3end_hypothetical_protein_1168182..1168332_POSITIVE 239 166 121 124 87 aact:AA01476|3end_hypothetical_protein_992261..992411_POSITIVE 239 189 156 37 2 aact:AA00131|3end_transcriptional_regulator_(MerR_family)_94984..95134_POSITIVE 233 194 162 92 64 aact:AA01537|3end_possible_glucokinase_regulatory_protein_1031607..1031757_POSITIVE 231 80 34 85 44 aact:AA01278|3end_hypothetical_protein_867725..867875_POSITIVE 230 164 122 116 68 aact:AA02430|3end_conserved_hypothetical_protein_1675669..1675819_POSITIVE 230 165 121 143 100 aact:AA00286|3end_glutamate_5-kinase_(gamma-glutamyl_kinase)_200260..200410_POSITIVE 222 175 150 129 102 aact:AA01726|3end_conserved_hypothetical_protein_(possible_HipA-like_protein_1168304..1168454_POSITIVE 222 181 146 52 11 aact:AA00448|3end_C-terminal_region_of_competence_protein_M_313058..313208_POSITIVE 220 60 12 59 18 aact:AA01609|3end_p-aminobenzoate_synthase_component_I_homolog_1088822..1088972_POSITIVE