Origin IGS: taaactaaggagagttatggacaagcagtcaattcttaaattctttaatgataatactaaggacgcgccacaaggcagcatatacattcaatatggcaacaactatacaacaaatgacatctgtatagcagacaacataaacatcacttgcgcggaaaagtgtcagatttacgcactgataaaacaattagaaaataagaacaaaaaaccgctttaaatgacatttaaacgatttttaaacgcttttttattttcgcattttgtttcgtttttttttgcgatttttaaaacttttcgcattttttattcttgtcta .........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 tagacaagaataaaaaatgcgaaaagttttaaaaatcgcaaaaaaaaacgaaacaaaatgcgaaaataaaaaagcgtttaaaaatcgtttaaatgtcatttaaagcggttttttgttcttattttctaattgttttatcagtgcgtaaatctgacacttttccgcgcaagtgatgtttatgttgtctgctatacagatgtcatttgttgtatagttgttgccatattgaatgtatatgctgccttgtggcgcgtccttagtattatcattaaagaatttaagaattgactgcttgtccataactctccttagttta Mask Tandem Repeat Region ================================================ taaactaaggagagttatggacaagcagtcaattcttaaattctttaatgataatactaaggacgcgccacaaggcagcatatacattcaatatggcaacaactatacaacaaatgacatctgtatagcagacaacataaacatcacttgcgcggaaaagtgtcagatttacgcactgataaaacaattagaaaataagaacaaaaaaccgctttaaatgacatttaaacgatttttaaacgcttttttattttcgcattttgtttcgtttttttttgcgatttttaaaacttttcgcattttttattcttgtcta Find is-nt database================================================ Query_seq: AA02072:AA02074|AA02072:AA02074:conserved hypothetical protein:hypothetical protein:->->:1409164..1409479 316 taaactaaggagagttatggacaagcagtcaattcttaaattctttaatgataatactaaggacgcgccacaaggcagcatatacattcaatatggcaacaactatacaacaaatgacatctgtatagcagacaacataaacatcacttgcgcggaaaagtgtcagatttacgcactgataaaacaattagaaaataagaacaaaaaaccgctttaaatgacatttaaacgatttttaaacgcttttttattttcgcattttgtttcgtttttttttgcgatttttaaaacttttcgcattttttattcttgtcta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA02072:AA02074|AA02072:AA02074:conserved hypothetical protein:hypothetical protein:->->:1409164..1409479 316 taaactaaggagagttatggacaagcagtcaattcttaaattctttaatgataatactaaggacgcgccacaaggcagcatatacattcaatatggcaacaactatacaacaaatgacatctgtatagcagacaacataaacatcacttgcgcggaaaagtgtcagatttacgcactgataaaacaattagaaaataagaacaaaaaaccgctttaaatgacatttaaacgatttttaaacgcttttttattttcgcattttgtttcgtttttttttgcgatttttaaaacttttcgcattttttattcttgtcta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA02072:AA02074|AA02072:AA02074:conserved hypothetical protein:hypothetical protein:->->:1409164..1409479 316 taaactaaggagagttatggacaagcagtcaattcttaaattctttaatgataatactaaggacgcgccacaaggcagcatatacattcaatatggcaacaactatacaacaaatgacatctgtatagcagacaacataaacatcacttgcgcggaaaagtgtcagatttacgcactgataaaacaattagaaaataagaacaaaaaaccgctttaaatgacatttaaacgatttttaaacgcttttttattttcgcattttgtttcgtttttttttgcgatttttaaaacttttcgcattttttattcttgtcta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taaactaaggagagttatggacaagcagtcaattcttaaattctttaatgataatactaaggacgcgccacaaggcagcatatacattcaatatggcaacaactatacaacaaatgacatctgtatagcagacaacataaacatcacttgcgcggaaaagtgtcagatttacgcactgataaaacaattagaaaataagaacaaaaaaccgctttaaatgacatttaaacgatttttaaacgcttttttattttcgcattttgtttcgtttttttttgcgatttttaaaacttttcgcattttttattcttgtcta Predict ORF larger than 30AA ================================================ Protein_Len: 60 Strand: + Start: 17 End: 214 ................ M D K Q S I L K F F N D N T K D A P Q G S I Y I Q Y G N N Y T T N D I C I A D N I N I T C A E K C Q I Y A L I K Q L E N ...................................................................................................... Protein_Len: 33 Strand: + Start: 218 End: 316 ......................................................................................................................................................................................................................... M T F K R F L N A F L F S H F V S F F F A I F K T F R I F Y S C L Protein_Len: 52 Strand: - Start: 32 End: 187 ............................... N K F E K I I I S L V R W L A A Y V N L I A V V I C C I V D T Y C V V Y V D S A R F L T L N V C Q Y F M ................................................................................................................................. taaactaaggagagttatggacaagcagtcaattcttaaattctttaatgataatactaaggacgcgccacaaggcagcatatacattcaatatggcaacaactatacaacaaatgacatctgtatagcagacaacataaacatcacttgcgcggaaaagtgtcagatttacgcactgataaaacaattagaaaataagaacaaaaaaccgctttaaatgacatttaaacgatttttaaacgcttttttattttcgcattttgtttcgtttttttttgcgatttttaaaacttttcgcattttttattcttgtcta 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================================================ taaactaaggagagttatggacaagcagtcaattcttaaattctttaatgataatactaaggacgcgccacaaggcagcatatacattcaatatggcaacaactatacaacaaatgacatctgtatagcagacaacataaacatcacttgcgcggaaaagtgtcagatttacgcactgataaaacaattagaaaataagaacaaaaaaccgctttaaatgacatttaaacgatttttaaacgcttttttattttcgcattttgtttcgtttttttttgcgatttttaaaacttttcgcattttttattcttgtcta Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 75 HP_score: -2.6 Tail_Score: -5.70522 Start: 209 End: 232 Full_Region: aaaagcgtttaaaaa tcgtttaaat gtc atttaaagcgg ttttttgttcttatt ................................................................................................................................................................................................................tcgtttaaatgtcatttaaagcgg.................................................................................... TransTerm Strand: - Conf: 45 HP_score: -3.4 Tail_Score: -2.90992 Start: 222 End: 242 Full_Region: gcgaaaataaaaaag cgtttaaa aatcg tttaaatg tcatttaaagcggtt .............................................................................................................................................................................................................................cgtttaaaaatcgtttaaatg.......................................................................... TransTerm Strand: - Conf: 43 HP_score: -2.4 Tail_Score: -3.00525 Start: 224 End: 240 Full_Region: gaaaataaaaaagcg tttaaa aatcg tttaaa tgtcatttaaagcgg ...............................................................................................................................................................................................................................tttaaaaatcgtttaaa............................................................................ Find igs database================================================ Query_seq: AA02072:AA02074|AA02072:AA02074:conserved hypothetical protein:hypothetical protein:->->:1409164..1409479 316 taaactaaggagagttatggacaagcagtcaattcttaaattctttaatgataatactaaggacgcgccacaaggcagcatatacattcaatatggcaacaactatacaacaaatgacatctgtatagcagacaacataaacatcacttgcgcggaaaagtgtcagatttacgcactgataaaacaattagaaaataagaacaaaaaaccgctttaaatgacatttaaacgatttttaaacgcttttttattttcgcattttgtttcgtttttttttgcgatttttaaaacttttcgcattttttattcttgtcta Intra-Species Hit: Count: 1 Min: 1 Max: 202 Len: 202 Subject: aact_AA02072_AA02074|conserved hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[1409164,1409479]|316 HSP 1 e-value: 1.0E-110 bit: 400.0 Len: 202 Query Start:1 Query End:202 Subject Strand: POSITIVE Subject Start: 1 Subject End: 202 taaactaaggagagttatggacaagcagtcaattcttaaattctttaatgataatactaaggacgcgccacaaggcagcatatacattcaatatggcaacaactatacaacaaatgacatctgtatagcagacaacataaacatcacttgcgcggaaaagtgtcagatttacgcactgataaaacaattagaaaataagaac.................................................................................................................. taaactaaggagagttatggacaagcagtcaattcttaaattctttaatgataatactaaggacgcgccacaaggcagcatatacattcaatatggcaacaactatacaacaaatgacatctgtatagcagacaacataaacatcacttgcgcggaaaagtgtcagatttacgcactgataaaacaattagaaaataagaac.................................................................................................................. Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAACUAAGGAGAGUUAUGGACAAGCAGUCAAUUCUUAAAUUCUUUAAUGAUAAUACUAAGGACGCGCCACAAGGCAGCAUAUACAUUCAAUAUGGCAACAACUAUACAACAAAUGACAUCUGUAUAGCAGACAACAUAAACAUCACUUGCGCGGAAAAGUGUCAGAUUUACGCACUGAUAAAACAAUUAGAAAAUAAGAAC .........(((((((...(((.....))))))))))...(((((......((((........(((((......((..(((((.......))))))).....(((((((............))))))).....................)))))......((((((.........)))))).....))))......))))). (-30.70) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GUUCUUAUUUUCUAAUUGUUUUAUCAGUGCGUAAAUCUGACACUUUUCCGCGCAAGUGAUGUUUAUGUUGUCUGCUAUACAGAUGUCAUUUGUUGUAUAGUUGUUGCCAUAUUGAAUGUAUAUGCUGCCUUGUGGCGCGUCCUUAGUAUUAUCAUUAAAGAAUUUAAGAAUUGACUGCUUGUCCAUAACUCUCCUUAGUUUA (((((((..((((.............(((((.(((.........))).))))).(((((((..((((..(...(((((((((..........)))))))))...)..))))..........((((.(((....))))))).........)))))))..))))..))))))).(((.....)))................... (-39.70) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 930 110 61 201 152 aact:AA02149|5end_possible_transposase_1469918..1470148_POSITIVE 369 105 61 200 160 aact:AA01807|5end_electron_transport_complex_protein_1216696..1216926_POSITIVE 299 83 49 93 57 aact:AA02692|5end_hydrogenase_4_subunit;_hydrogenase_3_subunit_1876324..1876554_POSITIVE 294 98 61 59 30 aact:AA00223|5end_catalase_(hydroperoxidase;_iron_heme_axial_ligand)_154277..154507_POSITIVE 290 168 127 214 171 aact:AA01347|5end_conserved_hypothetical_protein_913209..913439_POSITIVE 278 97 57 193 143 aact:AA02702|5end_succinyl-CoA_synthetase,_beta_chain_1884139..1884369_POSITIVE 277 167 121 191 141 aact:AA01976|5end_colicin_V_production_protein_1336513..1336743_POSITIVE 272 96 56 174 135 aact:AA00383|5end_chloride_channel_protein_258894..259124_POSITIVE 270 96 64 223 194 aact:AA02052|5end_probable_exodeoxyribonuclease_VII_small_subunit_1398461..1398691_POSITIVE 268 175 133 165 119 aact:AA01203|5end_diaminopimelate_epimerase_824140..824370_POSITIVE 265 180 141 172 110 aact:AA02697|5end_hydrogenase_3_maturation_protease_1879870..1880100_POSITIVE 264 80 61 41 23 aact:AA02334|5end_outer_membrane_protein_P1_1595307..1595537_POSITIVE 260 179 137 70 23 aact:AA01688|5end_conserved_hypothetical_protein;_possible_membrane_protein_1139635..1139865_POSITIVE 257 97 57 202 160 aact:AA00013|5end_hypothetical_protein_6695..6925_POSITIVE 255 97 66 138 104 aact:AA01753|5end_conserved_hypothetical_protein_1185322..1185552_POSITIVE 253 78 47 222 190 aact:AA02740|5end_conserved_hypothetical_protein_1920706..1920936_POSITIVE 253 99 61 66 20 aact:AA01199|5end_conserved_hypothetical_protein_821984..822214_POSITIVE 250 108 63 201 162 aact:AA01774|5end_5,10-methylenetetrahydrofolate_reductase_1195015..1195245_POSITIVE 250 108 63 63 24 aact:AA01773|5end_hypothetical_protein_1194877..1195107_POSITIVE 250 79 38 46 3 aact:AA01637|5end_ribonucleoside_diphosphate_reductase_1106657..1106887_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 357 200 159 47 1 aact:AA02147|3end_hypothetical_protein_1469748..1469898_POSITIVE 349 164 122 138 92 aact:AA00112|3end_uracil_permease_81239..81389_POSITIVE 272 96 56 85 46 aact:AA00382|3end_hypothetical_protein_258885..259035_POSITIVE 258 166 124 113 59 aact:AA01839|3end_conserved_hypothetical_protein_(possible_transcriptional_regulator)_1237291..1237441_POSITIVE 255 97 66 128 94 aact:AA01751|3end_conserved_hypothetical_protein_1185392..1185542_POSITIVE 254 178 133 150 106 aact:AA01202|3end_integrase/recombinase_824207..824357_POSITIVE 253 78 47 150 118 aact:AA02738|3end_phosphate_permease_1920714..1920864_POSITIVE 253 99 61 53 7 aact:AA01198|3end_hypothetical_protein_822051..822201_POSITIVE 253 89 61 24 2 aact:AA00248|3end_hypothetical_protein_174049..174199_POSITIVE 250 108 63 48 9 aact:AA01772|3end_shikimate_5-dehydrogenase_protein_1194942..1195092_POSITIVE 250 79 31 150 104 aact:AA01074|3end_diacylglycerol_kinase_745623..745773_POSITIVE 249 186 142 98 56 aact:AA01923|3end_type_III_restriction-modification_system_methylation_subunit_1299936..1300086_POSITIVE 239 180 148 72 37 aact:AA02626|3end_conserved_hypothetical_protein_1829202..1829352_POSITIVE 239 108 66 131 99 aact:AA01575|3end_conserved_hypothetical_protein_1063147..1063297_POSITIVE 239 181 143 84 44 aact:AA00309|3end_3-hydroxyisobutyrate_dehydrogenase;_2-hydroxy-3-oxopropionate_reductase_210267..210417_POSITIVE 238 174 149 140 114 aact:AA02563|3end_transketolase_C-terminal_section_1786260..1786410_POSITIVE 237 139 92 134 90 aact:AA02806|3end_leukotoxin_A;_hemolysin_A_1977166..1977316_POSITIVE 237 105 63 63 18 aact:AA02369|3end_conserved_hypothetical_protein_1624648..1624798_POSITIVE 237 100 56 66 13 aact:AA01156|3end_chaperonin_heat_shock_protein_33_homolog_792408..792558_POSITIVE 235 155 114 67 24 aact:AA02952|3end_lipoprotein_signal_peptidase_2065687..2065837_POSITIVE