Origin IGS: acataaataaaaaagccgagatttttatctatcagtccataaaaatcaaaaccggagcatgctatcggtaatgaacgtttttcaagcataacgtttgattgaatcacgaacttatccttatgaaaatactccccaccctgcattagttctcaaataagttctcgaacaaatacaaaccggttgcgaaattatcccgatatcaccgattttttaacgcattccatatgggaagtcgttttttttacttacgtttgcatgttaacaataaaaaataaaacagtaaaaac .........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 gtttttactgttttattttttattgttaacatgcaaacgtaagtaaaaaaaacgacttcccatatggaatgcgttaaaaaatcggtgatatcgggataatttcgcaaccggtttgtatttgttcgagaacttatttgagaactaatgcagggtggggagtattttcataaggataagttcgtgattcaatcaaacgttatgcttgaaaaacgttcattaccgatagcatgctccggttttgatttttatggactgatagataaaaatctcggcttttttatttatgt Mask Tandem Repeat Region ================================================ acataaataaaaaagccgagatttttatctatcagtccataaaaatcaaaaccggagcatgctatcggtaatgaacgtttttcaagcataacgtttgattgaatcacgaacttatccttatgaaaatactccccaccctgcattagttctcaaataagttctcgaacaaatacaaaccggttgcgaaattatcccgatatcaccgattttttaacgcattccatatgggaagtcgttttttttacttacgtttgcatgttaacaataaaaaataaaacagtaaaaac Find is-nt database================================================ Query_seq: TF0721:TF0722|TF0721:TF0722:aspartate transaminase:pyruvate dehydrogenase E3 component(dihydrolipoamide dehydrogenase):->->:772726..773012 287 acataaataaaaaagccgagatttttatctatcagtccataaaaatcaaaaccggagcatgctatcggtaatgaacgtttttcaagcataacgtttgattgaatcacgaacttatccttatgaaaatactccccaccctgcattagttctcaaataagttctcgaacaaatacaaaccggttgcgaaattatcccgatatcaccgattttttaacgcattccatatgggaagtcgttttttttacttacgtttgcatgttaacaataaaaaataaaacagtaaaaac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF0721:TF0722|TF0721:TF0722:aspartate transaminase:pyruvate dehydrogenase E3 component(dihydrolipoamide dehydrogenase):->->:772726..773012 287 acataaataaaaaagccgagatttttatctatcagtccataaaaatcaaaaccggagcatgctatcggtaatgaacgtttttcaagcataacgtttgattgaatcacgaacttatccttatgaaaatactccccaccctgcattagttctcaaataagttctcgaacaaatacaaaccggttgcgaaattatcccgatatcaccgattttttaacgcattccatatgggaagtcgttttttttacttacgtttgcatgttaacaataaaaaataaaacagtaaaaac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF0721:TF0722|TF0721:TF0722:aspartate transaminase:pyruvate dehydrogenase E3 component(dihydrolipoamide dehydrogenase):->->:772726..773012 287 acataaataaaaaagccgagatttttatctatcagtccataaaaatcaaaaccggagcatgctatcggtaatgaacgtttttcaagcataacgtttgattgaatcacgaacttatccttatgaaaatactccccaccctgcattagttctcaaataagttctcgaacaaatacaaaccggttgcgaaattatcccgatatcaccgattttttaacgcattccatatgggaagtcgttttttttacttacgtttgcatgttaacaataaaaaataaaacagtaaaaac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 acataaataaaaaagccgagatttttatctatcagtccataaaaatcaaaaccggagcatgctatcggtaatgaacgtttttcaagcataacgtttgattgaatcacgaacttatccttatgaaaatactccccaccctgcattagttctcaaataagttctcgaacaaatacaaaccggttgcgaaattatcccgatatcaccgattttttaacgcattccatatgggaagtcgttttttttacttacgtttgcatgttaacaataaaaaataaaacagtaaaaac Predict ORF larger than 30AA ================================================ Protein_Len: 48 Strand: + Start: 142 End: 285 ............................................................................................................................................. M S S Q I S S R T N T N R L R N Y P D I T D F L T H S I W E V V F F T Y V C M L T I K N K T V K .. Protein_Len: 47 Strand: - Start: 3 End: 143 .. Y I F F G L N K D I L G Y F D F G S C A I P L S R K E L M V N S Q I V F K D K H F Y E G G Q M ................................................................................................................................................ acataaataaaaaagccgagatttttatctatcagtccataaaaatcaaaaccggagcatgctatcggtaatgaacgtttttcaagcataacgtttgattgaatcacgaacttatccttatgaaaatactccccaccctgcattagttctcaaataagttctcgaacaaatacaaaccggttgcgaaattatcccgatatcaccgattttttaacgcattccatatgggaagtcgttttttttacttacgtttgcatgttaacaataaaaaataaaacagtaaaaac 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: 83 Start: 256 End: 285 ...............................................................................................................................................................................................................................................................TTTTACTGTTTTATTTTTTATTGTTAACAT.. Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ acataaataaaaaagccgagatttttatctatcagtccataaaaatcaaaaccggagcatgctatcggtaatgaacgtttttcaagcataacgtttgattgaatcacgaacttatccttatgaaaatactccccaccctgcattagttctcaaataagttctcgaacaaatacaaaccggttgcgaaattatcccgatatcaccgattttttaacgcattccatatgggaagtcgttttttttacttacgtttgcatgttaacaataaaaaataaaacagtaaaaac Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 45 HP_score: -3.0 Tail_Score: -3.05715 Start: 82 End: 98 Full_Region: GGTAATGAACGTTTT TCAAGC ATAAC GTTTGA TTGAATCACGAACTT .................................................................................TCAAGCATAACGTTTGA............................................................................................................................................................................................. Find igs database================================================ Query_seq: TF0721:TF0722|TF0721:TF0722:aspartate transaminase:pyruvate dehydrogenase E3 component(dihydrolipoamide dehydrogenase):->->:772726..773012 287 acataaataaaaaagccgagatttttatctatcagtccataaaaatcaaaaccggagcatgctatcggtaatgaacgtttttcaagcataacgtttgattgaatcacgaacttatccttatgaaaatactccccaccctgcattagttctcaaataagttctcgaacaaatacaaaccggttgcgaaattatcccgatatcaccgattttttaacgcattccatatgggaagtcgttttttttacttacgtttgcatgttaacaataaaaaataaaacagtaaaaac Intra-Species Hit: Count: 1 Min: 1 Max: 266 Len: 266 Subject: tfor_TF0721_TF0722|aspartate transaminase:pyruvate dehydrogenase E3 component(dihydrolipoamide dehydrogenase)|POSITIVE:POSITIVE|[772726,773012]|287 HSP 1 e-value: 1.0E-134 bit: 480.0 Len: 266 Query Start:1 Query End:266 Subject Strand: POSITIVE Subject Start: 1 Subject End: 266 acataaataaaaaagccgagatttttatctatcagtccataaaaatcaaaaccggagcatgctatcggtaatgaacgtttttcaagcataacgtttgattgaatcacgaacttatccttatgaaaatactccccaccctgcattagttctcaaataagttctcgaacaaatacaaaccggttgcgaaattatcccgatatcaccgattttttaacgcattccatatgggaagtcgnnnnnnnnacttacgtttgcatgttaacaat..................... acataaataaaaaagccgagatttttatctatcagtccataaaaatcaaaaccggagcatgctatcggtaatgaacgtttttcaagcataacgtttgattgaatcacgaacttatccttatgaaaatactccccaccctgcattagttctcaaataagttctcgaacaaatacaaaccggttgcgaaattatcccgatatcaccgattttttaacgcattccatatgggaagtcgttttttttacttacgtttgcatgttaacaat..................... Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ ACAUAAAUAAAAAAGCCGAGAUUUUUAUCUAUCAGUCCAUAAAAAUCAAAACCGGAGCAUGCUAUCGGUAAUGAACGUUUUUCAAGCAUAACGUUUGAUUGAAUCACGAACUUAUCCUUAUGAAAAUACUCCCCACCCUGCAUUAGUUCUCAAAUAAGUUCUCGAACAAAUACAAACCGGUUGCGAAAUUAUCCCGAUAUCACCGAUUUUUUAACGCAUUCCAUAUGGGAAGUCGUUUUUUUUACUUACGUUUGCAUGUUAACAAU ...................(((((((((..........)))))))))........(((((((...((((((.(((((.((((((((.((((.(((((.........))))))))).))..)))))).(((.((((...((.(((.((((..............)))).))).))....((.(((((((..(((...........)))..)))..))))..))...)))).))))))))...))))...))...)))))))...... (-43.24) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUUGUUAACAUGCAAACGUAAGUAAAAAAAACGACUUCCCAUAUGGAAUGCGUUAAAAAAUCGGUGAUAUCGGGAUAAUUUCGCAACCGGUUUGUAUUUGUUCGAGAACUUAUUUGAGAACUAAUGCAGGGUGGGGAGUAUUUUCAUAAGGAUAAGUUCGUGAUUCAAUCAAACGUUAUGCUUGAAAAACGUUCAUUACCGAUAGCAUGCUCCGGUUUUGAUUUUUAUGGACUGAUAGAUAAAAAUCUCGGCUUUUUUAUUUAUGU .((((......))))((((((((((((((..(((....((.(((((((.(((........(((((...)))))........)))..(((.((((((((.((((..(((....)))..)))).)))))))).))).......))))))).))...(((((((((.........(((((.(......).)))))(((..((((..((....)).))))..)))...)))))))))..............)))..)))))))))))))) (-63.69) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 366 217 176 72 26 tfor:TF1548|5end_thiophene_and_furan_oxidation_protein_1652501..1652731_POSITIVE 322 99 52 66 13 tfor:TF1977|5end_anti-sigma_factor_2123148..2123378_POSITIVE 321 50 1 73 24 tfor:TF1231|5end_NAD-dependent_DNA_ligase_1315235..1315465_POSITIVE 319 91 52 90 43 tfor:TF0736|5end_conserved_hypothetical_protein_787028..787258_POSITIVE 309 97 52 63 29 tfor:TF0579|5end_DNA-binding_protein_HU_609724..609954_POSITIVE 309 77 51 74 42 tfor:TF0228|5end_probable_integral_outer_membrane_protein_253851..254081_POSITIVE 305 98 60 102 51 tfor:TF2367|5end_delta-1-pyrroline-5-carboxylate_dehydrogenase_2532002..2532232_POSITIVE 304 229 186 156 114 tfor:TF0763|5end_chromate_transport_protein_809675..809905_POSITIVE 300 203 162 206 172 tfor:TF2831|5end_ABC_transporter,_permease_component_3021317..3021547_POSITIVE 294 97 51 64 24 tfor:TF0538|5end_hypothetical_protein_566891..567121_POSITIVE 294 97 51 57 17 tfor:TF0539|5end_hypothetical_protein_566884..567114_POSITIVE 290 180 131 116 57 tfor:TF3152|5end_hypothetical_protein_3386690..3386920_POSITIVE 285 230 188 136 100 tfor:TF0791|5end_transposase_845166..845396_POSITIVE 279 98 52 135 83 tfor:TF1667|5end_biotin_acetyl-CoA_carboxylase_ligase/biotin_operon_repressor_bifunctional_protein_1779809..1780039_POSITIVE 277 80 33 198 149 tfor:TF2970|5end_hypothetical_protein_3178410..3178640_POSITIVE 274 236 191 218 184 tfor:TF0302|5end_FKBP-type_peptidyl-prolyl_cis-trans_isomerase_328641..328871_POSITIVE 273 97 52 222 173 tfor:TF2160|5end_magnesium_chelatase,_subunit_I_2335974..2336204_POSITIVE 273 207 161 67 11 tfor:TF0725|5end_O-acetylhomoserine_(thiol)-lyase_776556..776786_POSITIVE 272 77 31 228 176 tfor:TF0418|5end_possible_methyl-accepting_chemotaxis_protein_434836..435066_POSITIVE 271 168 132 51 20 tfor:TF2422|5end_hypothetical_protein_2601298..2601528_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 303 98 51 78 23 tfor:TF0365|3end_hypothetical_protein_383152..383302_POSITIVE 287 247 203 125 79 tfor:TF0079|3end_conserved_hypothetical_protein_86273..86423_POSITIVE 286 91 55 46 8 tfor:TF0734|3end_hypothetical_protein_787064..787214_POSITIVE 282 220 176 89 31 tfor:TF1422|3end_GLCNAC_transferase_(UDP-N-acetylglucosamine-N-acetylmuramyl-(pentapeptide)-pyr_ophosphoryl-undecaprenol_N-acetylglucosamine_transferase)_1505823..1505973_POSITIVE 277 97 51 61 22 tfor:TF0795|3end_hypothetical_protein_853199..853349_POSITIVE 268 70 21 51 4 tfor:TF3150|3end_conserved_hypothetical_protein_3386245..3386395_POSITIVE 267 236 195 61 19 tfor:TF0519|3end_thiamine_monophosphate_kinase_544814..544964_POSITIVE 264 238 194 50 17 tfor:TF3143|3end_conserved_hypothetical_protein;_possible_membrane_protein_3379227..3379377_POSITIVE 259 207 163 54 5 tfor:TF0231|3end_conserved_hypothetical_protein_258360..258510_POSITIVE 258 237 193 86 36 tfor:TF1040|3end_dihydroorotate_dehydrogenase,_electron_transfer_subunit_1102118..1102268_POSITIVE 257 207 177 140 105 tfor:TF1820|3end_cation_efflux_protein,_AcrB/AcrD/AcrF_family_1966526..1966676_POSITIVE 256 96 51 134 92 tfor:TF2633|3end_ABC_transporter,_ATP-binding_protein/permease_component_2803841..2803991_POSITIVE 254 236 194 77 33 tfor:TF2799|3end_RNA_polymerase_ECF-type_sigma_factor_2985052..2985202_POSITIVE 253 240 191 81 24 tfor:TF2429|3end_ABC_transporter,_ATP-binding/permease_component,_bacteriocin/lantibiotic_exporter_2612734..2612884_POSITIVE 252 205 177 35 13 tfor:TF2411|3end_outer_membrane_protein_2587072..2587222_POSITIVE 251 216 177 47 5 tfor:TF0283|3end_possible_nicotinamide_mononucleotide_transporter_312074..312224_POSITIVE 250 205 178 53 19 tfor:TF2847|3end_hypothetical_protein_3034985..3035135_POSITIVE 249 116 76 130 89 tfor:TF2672|3end_lipoic_acid_synthetase_2847014..2847164_POSITIVE 249 210 161 53 2 tfor:TF1109|3end_lipoprotein_1179997..1180147_POSITIVE 249 219 178 125 94 tfor:TF1089|3end_ABC_transporter,_ATP-binding_fragment,_bacteriocin/lantibiotic_exporter_1159109..1159259_POSITIVE