Origin IGS: taagacagattcccaagcattactcacccgtccgccactcgtcagcaagaaagcaagctttctcctgctaccgtccgacttgcatgtgttaagcctgccgccagcgttcaatctgagccatgatcaaactcttcaattcaaaaagcttaatccctcaatagctgacttaattaatctattataaataatataaataaacgaatcttccggcacctattaagttcaatcttaaaattatttaaaacgaatctataagtgcccacacagtttgtatgattgattgttaaagaacaaaaagcgacgcgctgtctataaaaccctacaacggcgcgtcgttgtgcccgcgtattataggcttttatccttaccttgcaagtacttttttactaaaaatttaaaaatattttcaactggttatttttta .........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.........1.........2.........3.........4.........5.........6.........7.........8.........9 taaaaaataaccagttgaaaatatttttaaatttttagtaaaaaagtacttgcaaggtaaggataaaagcctataatacgcgggcacaacgacgcgccgttgtagggttttatagacagcgcgtcgctttttgttctttaacaatcaatcatacaaactgtgtgggcacttatagattcgttttaaataattttaagattgaacttaataggtgccggaagattcgtttatttatattatttataatagattaattaagtcagctattgagggattaagctttttgaattgaagagtttgatcatggctcagattgaacgctggcggcaggcttaacacatgcaagtcggacggtagcaggagaaagcttgctttcttgctgacgagtggcggacgggtgagtaatgcttgggaatctgtctta Mask Tandem Repeat Region ================================================ taagacagattcccaagcattactcacccgtccgccactcgtcagcaagaaagcaagctttctcctgctaccgtccgacttgcatgtgttaagcctgccgccagcgttcaatctgagccatgatcaaactcttcaattcaaaaagcttaatccctcaatagctgacttaattaatctattataaataatataaataaacgaatcttccggcacctattaagttcaatcttaaaattatttaaaacgaatctataagtgcccacacagtttgtatgattgattgttaaagaacaaaaagcgacgcgctgtctataaaaccctacaacggcgcgtcgttgtgcccgcgtattataggcttttatccttaccttgcaagtacttttttactaaaaatttaaaaatattttcaactggttatttttta Find is-nt database================================================ Query_seq: AA00413:AA00414|AA00413:AA00414:conserved hypothetical protein:possible histidinol-phosphatase:->->:280615..281038 424 taagacagattcccaagcattactcacccgtccgccactcgtcagcaagaaagcaagctttctcctgctaccgtccgacttgcatgtgttaagcctgccgccagcgttcaatctgagccatgatcaaactcttcaattcaaaaagcttaatccctcaatagctgacttaattaatctattataaataatataaataaacgaatcttccggcacctattaagttcaatcttaaaattatttaaaacgaatctataagtgcccacacagtttgtatgattgattgttaaagaacaaaaagcgacgcgctgtctataaaaccctacaacggcgcgtcgttgtgcccgcgtattataggcttttatccttaccttgcaagtacttttttactaaaaatttaaaaatattttcaactggttatttttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA00413:AA00414|AA00413:AA00414:conserved hypothetical protein:possible histidinol-phosphatase:->->:280615..281038 424 taagacagattcccaagcattactcacccgtccgccactcgtcagcaagaaagcaagctttctcctgctaccgtccgacttgcatgtgttaagcctgccgccagcgttcaatctgagccatgatcaaactcttcaattcaaaaagcttaatccctcaatagctgacttaattaatctattataaataatataaataaacgaatcttccggcacctattaagttcaatcttaaaattatttaaaacgaatctataagtgcccacacagtttgtatgattgattgttaaagaacaaaaagcgacgcgctgtctataaaaccctacaacggcgcgtcgttgtgcccgcgtattataggcttttatccttaccttgcaagtacttttttactaaaaatttaaaaatattttcaactggttatttttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA00413:AA00414|AA00413:AA00414:conserved hypothetical protein:possible histidinol-phosphatase:->->:280615..281038 424 taagacagattcccaagcattactcacccgtccgccactcgtcagcaagaaagcaagctttctcctgctaccgtccgacttgcatgtgttaagcctgccgccagcgttcaatctgagccatgatcaaactcttcaattcaaaaagcttaatccctcaatagctgacttaattaatctattataaataatataaataaacgaatcttccggcacctattaagttcaatcttaaaattatttaaaacgaatctataagtgcccacacagtttgtatgattgattgttaaagaacaaaaagcgacgcgctgtctataaaaccctacaacggcgcgtcgttgtgcccgcgtattataggcttttatccttaccttgcaagtacttttttactaaaaatttaaaaatattttcaactggttatttttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taagacagattcccaagcattactcacccgtccgccactcgtcagcaagaaagcaagctttctcctgctaccgtccgacttgcatgtgttaagcctgccgccagcgttcaatctgagccatgatcaaactcttcaattcaaaaagcttaatccctcaatagctgacttaattaatctattataaataatataaataaacgaatcttccggcacctattaagttcaatcttaaaattatttaaaacgaatctataagtgcccacacagtttgtatgattgattgttaaagaacaaaaagcgacgcgctgtctataaaaccctacaacggcgcgtcgttgtgcccgcgtattataggcttttatccttaccttgcaagtacttttttactaaaaatttaaaaatattttcaactggttatttttta Predict ORF larger than 30AA ================================================ Protein_Len: 34 Strand: + Start: 19 End: 120 .................. M T H P S A T R Q Q E S K L S P A T V R L A C V K P A A S V Q S E P ................................................................................................................................................................................................................................................................................................................ Protein_Len: 39 Strand: + Start: 65 End: 181 ................................................................ M L P S D L H V L S L P P A F N L S H D Q T L Q F K K L N P S I A D L I N L L ................................................................................................................................................................................................................................................... Protein_Len: 30 Strand: + Start: 306 End: 395 ................................................................................................................................................................................................................................................................................................................. M S I K P Y N G A S L C P R I I G F Y P Y L A S T F L L K I ............................. Protein_Len: 48 Strand: + Start: 281 End: 424 ........................................................................................................................................................................................................................................................................................ M L K N K K R R A V Y K T L Q R R V V V P A Y Y R L L S L P C K Y F F T K N L K I F S T G Y F L Protein_Len: 60 Strand: - Start: 174 End: 362 ............................................................................................................................................................................. F L I F L R I K R C R N L E I K F N N L V F R Y T G V C N T H N I T L S C F A V R Q R Y F G V V A R R Q A R T N Y A K M .............................................................. Protein_Len: 37 Strand: - Start: 1 End: 111 L V S E W A N S V R G G S T L L F A L K R R S G D S K C T N L R G G A N M ......................................................................................................................................................................................................................................................................................................................... taagacagattcccaagcattactcacccgtccgccactcgtcagcaagaaagcaagctttctcctgctaccgtccgacttgcatgtgttaagcctgccgccagcgttcaatctgagccatgatcaaactcttcaattcaaaaagcttaatccctcaatagctgacttaattaatctattataaataatataaataaacgaatcttccggcacctattaagttcaatcttaaaattatttaaaacgaatctataagtgcccacacagtttgtatgattgattgttaaagaacaaaaagcgacgcgctgtctataaaaccctacaacggcgcgtcgttgtgcccgcgtattataggcttttatccttaccttgcaagtacttttttactaaaaatttaaaaatattttcaactggttatttttta 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================================================ taagacagattcccaagcattactcacccgtccgccactcgtcagcaagaaagcaagctttctcctgctaccgtccgacttgcatgtgttaagcctgccgccagcgttcaatctgagccatgatcaaactcttcaattcaaaaagcttaatccctcaatagctgacttaattaatctattataaataatataaataaacgaatcttccggcacctattaagttcaatcttaaaattatttaaaacgaatctataagtgcccacacagtttgtatgattgattgttaaagaacaaaaagcgacgcgctgtctataaaaccctacaacggcgcgtcgttgtgcccgcgtattataggcttttatccttaccttgcaagtacttttttactaaaaatttaaaaatattttcaactggttatttttta Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 83 HP_score: -5.3 Tail_Score: -5.38549 Start: 298 End: 336 Full_Region: taatacgcgggcaca acgacgcgccgttgtag ggtt ttatagacagcgcgtcgc tttttgttctttaac .........................................................................................................................................................................................................................................................................................................acgacgcgccgttgtagggttttatagacagcgcgtcgc........................................................................................ TransTerm Strand: + Conf: 70 HP_score: -8.1 Tail_Score: -3.30007 Start: 299 End: 335 Full_Region: TTAAAGAACAAAAAG CGACGCGCTGTCTATA AAACCC TACAACGGCGCGTCG TTGTGCCCGCGTATT ..........................................................................................................................................................................................................................................................................................................CGACGCGCTGTCTATAAAACCCTACAACGGCGCGTCG......................................................................................... TransTerm Strand: - Conf: 76 HP_score: -8.8 Tail_Score: -3.81503 Start: 299 End: 335 Full_Region: aatacgcgggcacaa cgacgcgccgttgtag ggtt ttatagacagcgcgtcg ctttttgttctttaa ..........................................................................................................................................................................................................................................................................................................cgacgcgccgttgtagggttttatagacagcgcgtcg......................................................................................... Find igs database================================================ Query_seq: AA00413:AA00414|AA00413:AA00414:conserved hypothetical protein:possible histidinol-phosphatase:->->:280615..281038 424 taagacagattcccaagcattactcacccgtccgccactcgtcagcaagaaagcaagctttctcctgctaccgtccgacttgcatgtgttaagcctgccgccagcgttcaatctgagccatgatcaaactcttcaattcaaaaagcttaatccctcaatagctgacttaattaatctattataaataatataaataaacgaatcttccggcacctattaagttcaatcttaaaattatttaaaacgaatctataagtgcccacacagtttgtatgattgattgttaaagaacaaaaagcgacgcgctgtctataaaaccctacaacggcgcgtcgttgtgcccgcgtattataggcttttatccttaccttgcaagtacttttttactaaaaatttaaaaatattttcaactggttatttttta Intra-Species Hit: Count: 3 Min: 1 Max: 424 Len: 424 Subject: aact_AA00413_AA00414|conserved hypothetical protein:possible histidinol-phosphatase|POSITIVE:POSITIVE|[280615, 281038]|424 HSP 1 e-value: 0.0 bit: 841.0 Len: 424 Query Start:1 Query End:424 Subject Strand: POSITIVE Subject Start: 1 Subject End: 424 taagacagattcccaagcattactcacccgtccgccactcgtcagcaagaaagcaagctttctcctgctaccgtccgacttgcatgtgttaagcctgccgccagcgttcaatctgagccatgatcaaactcttcaattcaaaaagcttaatccctcaatagctgacttaattaatctattataaataatataaataaacgaatcttccggcacctattaagttcaatcttaaaattatttaaaacgaatctataagtgcccacacagtttgtatgattgattgttaaagaacaaaaagcgacgcgctgtctataaaaccctacaacggcgcgtcgttgtgcccgcgtattataggcttttatccttaccttgcaagtacttttttactaaaaatttaaaaatattttcaactggttatttttta taagacagattcccaagcattactcacccgtccgccactcgtcagcaagaaagcaagctttctcctgctaccgtccgacttgcatgtgttaagcctgccgccagcgttcaatctgagccatgatcaaactcttcaattcaaaaagcttaatccctcaatagctgacttaattaatctattataaataatataaataaacgaatcttccggcacctattaagttcaatcttaaaattatttaaaacgaatctataagtgcccacacagtttgtatgattgattgttaaagaacaaaaagcgacgcgctgtctataaaaccctacaacggcgcgtcgttgtgcccgcgtattataggcttttatccttaccttgcaagtacttttttactaaaaatttaaaaatattttcaactggttatttttta Subject: aact_AA02298_AA02300|conserved hypothetical protein:glutamate racemase|POSITIVE:POSITIVE|[1571061,1571487]|427 HSP 1 e-value: 0.0 bit: 775.0 Len: 407 Query Start:1 Query End:407 Subject Strand: POSITIVE Subject Start: 1 Subject End: 407 taagacagattcccaagcattactcacccgtccgccactcgtcagcaagaaagcaagctttctcctgctaccgtccgacttgcatgtgttaagcctgccgccagcgttcaatctgagccatgatcaaactcttcaattcaaaaagcttaatccctcaatagctgacttaattaatctattataaataatataaataaacgaatcttccggcacctattaagttcaatcttaaaattatttaaaacgaatctataagtgcccacacagtttgtatgattgattgttaaagaacaaaaagcgacgcgctgtctataaaaccctacaacggcgcgtcgttgtgcccgcgtattataggcttttatccttaccttgcaagtacttttttactaaaaatttaaaaatatttt................. taagacagattcccaagcattactcacccgtccgccactcgtcagcaagaaagcaagctttctcctgctaccgtccgacttgcatgtgttaagcctgccgccagcgttcaatctgagccatgatcaaactcttcaattcaaaaagcttaatccctcaatagctgacttaattaatctattataaataatataaataaacgaatcttccggcacctattaagttcaatcttaaaatcatttaaaacgaatctataagtgcccacacagtttgtatgattgattgttaaagaacaaaaaacgacgcgctgtctataaaaccctacaacggcgcgtcgttgtgcccgcgtattataggcttttatccttaccttgcaagtacttttttacaaaaaatttaaaaatctttt................. Subject: aact_AA00622_AA00623|conserved hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[430165,430596]|432 HSP 1 e-value: 0.0 bit: 767.0 Len: 395 Query Start:1 Query End:395 Subject Strand: POSITIVE Subject Start: 1 Subject End: 395 taagacagattcccaagcattactcacccgtccgccactcgtcagcaagaaagcaagctttctcctgctaccgtccgacttgcatgtgttaagcctgccgccagcgttcaatctgagccatgatcaaactcttcaattcaaaaagcttaatccctcaatagctgacttaattaatctattataaataatataaataaacgaatcttccggcacctattaagttcaatcttaaaattatttaaaacgaatctataagtgcccacacagtttgtatgattgattgttaaagaacaaaaagcgacgcgctgtctataaaaccctacaacggcgcgtcgttgtgcccgcgtattataggcttttatccttaccttgcaagtacttttttactaaaaatt............................. taagacagattcccaagcattactcacccgtccgccactcgtcagcaagaaagcaagctttctcctgctaccgtccgacttgcatgtgttaagcctgccgccagcgttcaatctgagccatgatcaaactcttcaattcaaaaagcttaatccctcaatagctgacttaattaatctattataaataatataaataaacgaatcttccggcacctattaagttcaatcttaaaattatttaaaacgaatctataagtgcccacacagtttgtatgattgattgttaaagaacaaaaaacgacgcgctgtctataaaaccctacaacggcgcgtcgttgtgcccgcgtattataggcttttatccttaccttgcaagtacttttttacaaaaaatt............................. Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAGACAGAUUCCCAAGCAUUACUCACCCGUCCGCCACUCGUCAGCAAGAAAGCAAGCUUUCUCCUGCUACCGUCCGACUUGCAUGUGUUAAGCCUGCCGCCAGCGUUCAAUCUGAGCCAUGAUCAAACUCUUCAAUUCAAAAAGCUUAAUCCCUCAAUAGCUGACUUAAUUAAUCUAUUAUAAAUAAUAUAAAUAAACGAAUCUUCCGGCACCUAUUAAGUUCAAUCUUAAAAUUAUUUAAAACGAAUCUAUAAGUGCCCACACAGUUUGUAUGAUUGAUUGUUAAAGAACAAAAAGCGACGCGCUGUCUAUAAAACCCUACAACGGCGCGUCGUUGUGCCCGCGUAUUAUAGGCUUUUAUCCUUACCUUGCAAGUACUUUUUUACUAAAAAUUUAAAAAUAUUUUCAACUGGUUAUUUUUUA ...((.((((..(((........................((..((((((((((....))))))..))))..))....(((((((.(((..(((((((.(((..((((((....(((((..(((..............)))....))))).............((((..((((((((..(((((.....)))))....((((((.....(((((.(((...((((....(((((....)))))...))))..))).)))))......))))))..))))))))))))..))))....(((((((((((((...............)))))))))))))..))..))).....))))))).......)))..)))))))..................................)))..)))).)). (-85.30) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAAAAUAACCAGUUGAAAAUAUUUUUAAAUUUUUAGUAAAAAAGUACUUGCAAGGUAAGGAUAAAAGCCUAUAAUACGCGGGCACAACGACGCGCCGUUGUAGGGUUUUAUAGACAGCGCGUCGCUUUUUGUUCUUUAACAAUCAAUCAUACAAACUGUGUGGGCACUUAUAGAUUCGUUUUAAAUAAUUUUAAGAUUGAACUUAAUAGGUGCCGGAAGAUUCGUUUAUUUAUAUUAUUUAUAAUAGAUUAAUUAAGUCAGCUAUUGAGGGAUUAAGCUUUUUGAAUUGAAGAGUUUGAUCAUGGCUCAGAUUGAACGCUGGCGGCAGGCUUAACACAUGCAAGUCGGACGGUAGCAGGAGAAAGCUUGCUUUCUUGCUGACGAGUGGCGGACGGGUGAGUAAUGCUUGGGAAUCUGUCUUA .........(((...(((((((........)))))))((((........))))..)))....((((((.((((((((.((((..........))))..)))))))).)))))).(((((..(((((((......(((((..........(((((.....)))))(((((((((.(((((((((((((....))))))).)))).)).))))))))).)))))...(((((((.(((.....)))))))))).......((((((..(((((.(((((((((((((.....)))))))))))))....))))).......((((.((...(((((.........)))))...)).))))..(((((((....))))))))))))).)))))))..(((((.......))))).....)))))... (-114.50) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 1092 110 61 201 152 aact:AA01565|5end_conserved_hypothetical_protein_1050711..1050941_POSITIVE 422 340 291 183 121 aact:AA00488|5end_purine_nucleoside_phosphorylase_338075..338305_POSITIVE 418 348 301 73 20 aact:AA00766|5end_heat_shock_protein_B25.3_(HSP-70_cofactor)_527384..527614_POSITIVE 397 347 301 69 34 aact:AA01056|5end_conserved_hypothetical_protein_733867..734097_POSITIVE 395 120 72 182 128 aact:AA01890|5end_cell-cycle_protein_1274544..1274774_POSITIVE 395 108 64 92 43 aact:AA01567|5end_conserved_hypothetical_protein_(possible_cell-wall-associated_hydrolase)_1054944..1055174_POSITIVE 395 108 64 92 43 aact:AA01262|5end_hydrolase_859576..859806_POSITIVE 391 337 297 222 182 aact:AA02300|5end_glutamate_racemase_1571348..1571578_POSITIVE 391 337 297 227 187 aact:AA00623|5end_hypothetical_protein_430457..430687_POSITIVE 385 50 6 57 5 aact:AA00132|5end_conserved_hypothetical_protein_(possible_regulator_protein,_VirR_family)_94938..95168_POSITIVE 384 110 63 103 57 aact:AA01767|5end_conserved_hypothetical_protein_1192528..1192758_POSITIVE 384 350 301 92 29 aact:AA00603|5end_undecaprenyl_pyrophosphate_synthetase_(UPPS)_410283..410513_POSITIVE 379 100 53 110 64 aact:AA00329|5end_molybdopterin-guanine_dinucleotide_biosynthesis_protein_222737..222967_POSITIVE 371 100 51 51 3 aact:AA00273|5end_fatty_acid/phospholipid_synthesis_protein_191403..191633_POSITIVE 368 346 301 170 126 aact:AA01335|5end_primosomal_protein_N'_901993..902223_POSITIVE 365 108 64 143 100 aact:AA01295|5end_3-dehydroquinate_synthase_877272..877502_POSITIVE 362 105 62 205 153 aact:AA02972|5end_conserved_hypothetical_protein_(tyrosine_phenol_lyase-related_protein)_2077381..2077611_POSITIVE 361 99 54 102 65 aact:AA01598|5end_conserved_hypothetical_protein_1078954..1079184_POSITIVE 361 118 72 166 124 aact:AA00993|5end_possible_D-tyrosyl-tRNA(Tyr)_deacylase_694488..694718_POSITIVE 356 110 64 163 125 aact:AA02230|5end_sugar_kinase_1515984..1516214_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 410 340 296 54 2 aact:AA00486|3end_nucleoside_transporter_338026..338176_POSITIVE 397 347 301 62 27 aact:AA01054|3end_conserved_hypothetical_protein_733940..734090_POSITIVE 397 110 62 90 36 aact:AA00544|3end_glutathionylspermidine_synthetase;amidase_373733..373883_POSITIVE 395 120 72 148 94 aact:AA01889|3end_conserved_hypothetical_protein_(possible_permease)_1274590..1274740_POSITIVE 384 110 63 131 85 aact:AA01765|3end_Mu-like_prophage_FluMu_transposase_A_1192636..1192786_POSITIVE 362 105 62 135 83 aact:AA02970|3end_tyrosine_phenol-lyase_2077391..2077541_POSITIVE 360 347 309 147 100 aact:AA02504|3end_lipid_A_biosynthesis_(kdo)2-(lauroyl)-lipid_IVA_acyltransferase_1739248..1739398_POSITIVE 360 104 66 146 104 aact:AA01794|3end_glycine_cleavage_system_transcription_activator_1210690..1210840_POSITIVE 356 110 64 110 72 aact:AA02228|3end_regulatory_protein,_sorC_family_1516011..1516161_POSITIVE 355 107 61 69 28 aact:AA02075|3end_conserved_hypothetical_protein_1409979..1410129_POSITIVE 355 369 326 73 25 aact:AA01064|3end_conserved_hypothetical_protein_(possible_aminomethyltransferase)_738392..738542_POSITIVE 350 348 320 146 111 aact:AA02541|3end_conserved_hypothetical_protein_1772644..1772794_POSITIVE 349 58 12 145 88 aact:AA01357|3end_5-formyltetrahydrofolate_cyclo-ligase-family_protein_919785..919935_POSITIVE 348 46 7 135 78 aact:AA02195|3end_oxaloacetate_decarboxylase_alpha_chain_1496374..1496524_POSITIVE 339 110 61 68 19 aact:AA01873|3end_mannose-6-phosphate_isomerase_1261940..1262090_POSITIVE 337 134 94 139 98 aact:AA00089|3end_S-adenosylmethionine_synthase;_methionine_adenosyltransferase_67749..67899_POSITIVE 334 345 303 150 93 aact:AA00987|3end_tetracenomycin_polyketide_synthesis_O-methyltransferase_690586..690736_POSITIVE 331 57 17 52 12 aact:AA02470|3end_glucose_kinase_1707694..1707844_POSITIVE 330 106 67 83 41 aact:AA02925|3end_conserved_hypothetical_protein_2048151..2048301_POSITIVE 330 119 73 151 114 aact:AA01294|3end_DNA_adenine_methylase_877367..877517_POSITIVE