Origin IGS: agttattttctttttaaaatttagtcgtcatcatcatactgaaaaacgacagtaatggcaatcaacacataaaaacatatctatactaaaaaataaatttgtgtaacaactttatgcgaaataaaatcagagattaatcaaatcactaataaaattttaccgcgctaagagaacaagtatgagtaaactaacaaaggtcattaatcagacaatccgggttatttatgggaacgattgcaaaaacagctatgccacagctaaacaaaagaagaggtgacggttgccaaataacgtacaactatcatgagctctgttatgtttataaggcagccaaaaaatatgtgttattaaacgatattaatctagaagagtactttaatgagtacccgcccaaggtttaacagagaaagggattttataaataaatgcataaaaacataattatgttttagtatgatggagtaaat .........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.........1.........2.........3.........4.........5.........6.........7.........8.........9 atttactccatcatactaaaacataattatgtttttatgcatttatttataaaatccctttctctgttaaaccttgggcgggtactcattaaagtactcttctagattaatatcgtttaataacacatattttttggctgccttataaacataacagagctcatgatagttgtacgttatttggcaaccgtcacctcttcttttgtttagctgtggcatagctgtttttgcaatcgttcccataaataacccggattgtctgattaatgacctttgttagtttactcatacttgttctcttagcgcggtaaaattttattagtgatttgattaatctctgattttatttcgcataaagttgttacacaaatttattttttagtatagatatgtttttatgtgttgattgccattactgtcgtttttcagtatgatgatgacgactaaattttaaaaagaaaataact Mask Tandem Repeat Region ================================================ agttattttctttttaaaatttagtcgtcatcatcatactgaaaaacgacagtaatggcaatcaacacataaaaacatatctatactaaaaaataaatttgtgtaacaactttatgcgaaataaaatcagagattaatcaaatcactaataaaattttaccgcgctaagagaacaagtatgagtaaactaacaaaggtcattaatcagacaatccgggttatttatgggaacgattgcaaaaacagctatgccacagctaaacaaaagaagaggtgacggttgccaaataacgtacaactatcatgagctctgttatgtttataaggcagccaaaaaatatgtgttattaaacgatattaatctagaagagtactttaatgagtacccgcccaaggtttaacagagaaagggattttataaataaatgcataaaaacataattatgttttagtatgatggagtaaat Find is-nt database================================================ Query_seq: AA01943:AA01944|AA01943:AA01944:conserved hypothetical protein:conserved hypothetical protein:->->:1313149..1313615 467 agttattttctttttaaaatttagtcgtcatcatcatactgaaaaacgacagtaatggcaatcaacacataaaaacatatctatactaaaaaataaatttgtgtaacaactttatgcgaaataaaatcagagattaatcaaatcactaataaaattttaccgcgctaagagaacaagtatgagtaaactaacaaaggtcattaatcagacaatccgggttatttatgggaacgattgcaaaaacagctatgccacagctaaacaaaagaagaggtgacggttgccaaataacgtacaactatcatgagctctgttatgtttataaggcagccaaaaaatatgtgttattaaacgatattaatctagaagagtactttaatgagtacccgcccaaggtttaacagagaaagggattttataaataaatgcataaaaacataattatgttttagtatgatggagtaaat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA01943:AA01944|AA01943:AA01944:conserved hypothetical protein:conserved hypothetical protein:->->:1313149..1313615 467 agttattttctttttaaaatttagtcgtcatcatcatactgaaaaacgacagtaatggcaatcaacacataaaaacatatctatactaaaaaataaatttgtgtaacaactttatgcgaaataaaatcagagattaatcaaatcactaataaaattttaccgcgctaagagaacaagtatgagtaaactaacaaaggtcattaatcagacaatccgggttatttatgggaacgattgcaaaaacagctatgccacagctaaacaaaagaagaggtgacggttgccaaataacgtacaactatcatgagctctgttatgtttataaggcagccaaaaaatatgtgttattaaacgatattaatctagaagagtactttaatgagtacccgcccaaggtttaacagagaaagggattttataaataaatgcataaaaacataattatgttttagtatgatggagtaaat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA01943:AA01944|AA01943:AA01944:conserved hypothetical protein:conserved hypothetical protein:->->:1313149..1313615 467 agttattttctttttaaaatttagtcgtcatcatcatactgaaaaacgacagtaatggcaatcaacacataaaaacatatctatactaaaaaataaatttgtgtaacaactttatgcgaaataaaatcagagattaatcaaatcactaataaaattttaccgcgctaagagaacaagtatgagtaaactaacaaaggtcattaatcagacaatccgggttatttatgggaacgattgcaaaaacagctatgccacagctaaacaaaagaagaggtgacggttgccaaataacgtacaactatcatgagctctgttatgtttataaggcagccaaaaaatatgtgttattaaacgatattaatctagaagagtactttaatgagtacccgcccaaggtttaacagagaaagggattttataaataaatgcataaaaacataattatgttttagtatgatggagtaaat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 1 Min: 195 Max: 413 Len: 219 Subject: UniRef90_Q9F261 Cluster: Hypothetical protein AA15; n=1; Aggregatibacter actinomycetemcomitans|Rep: Hypothetical protein AA15 - Actinobacillus actinomycetemcomitans (Haemophilusactinomycetemcomitans) HSP 1 e-value: 5.0E-7 bit: 55.8 Len: 219 Query Start:195 Query End:413 Subject Strand: null Subject Start: 6 Subject End: 77 .................................................................................................................................................................................................. R S L I R Q S G L F M G T I A K T A M P Q L N K R R G D G C Q I T Y N Y H E L C Y V Y K A A K K Y V L L N D I N L E E Y F N E Y P P K V * Q R K G ...................................................... .................................................................................................................................................................................................. K G T L S K S G L S M G N I E K T A M P Q L K E E V T I A E Q R T T I M I P V D - V Y K A V K K Y A L L N D I K L K E Y F N D L L S K D L K E K G ...................................................... agttattttctttttaaaatttagtcgtcatcatcatactgaaaaacgacagtaatggcaatcaacacataaaaacatatctatactaaaaaataaatttgtgtaacaactttatgcgaaataaaatcagagattaatcaaatcactaataaaattttaccgcgctaagagaacaagtatgagtaaactaacaannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnttttataaataaatgcataaaaacataattatgttttagtatgatggagtaaat Predict ORF larger than 30AA ================================================ Protein_Len: 46 Strand: + Start: 137 End: 274 ........................................................................................................................................ M K S L I K F Y R A K R T S M S K L T K V I N Q T I R V I Y G N D C K N S Y A T A K Q K K R ................................................................................................................................................................................................. Protein_Len: 60 Strand: + Start: 204 End: 398 ........................................................................................................................................................................................................... M R Q S G L F M G T I A K T A M P Q L N K R R G D G C Q I T Y N Y H E L C Y V Y K A A K K Y V L L N D I N L E E Y F N E ..................................................................... Protein_Len: 34 Strand: - Start: 366 End: 467 ............................................................................................................................................................................................................................................................................................................................................................................. F L V K I L V R G L N L L S L S K I F L H M F V Y N H K L I I S Y M Protein_Len: 33 Strand: - Start: 250 End: 348 ......................................................................................................................................................................................................................................................... A V A L C F F L H R N G F L T C S D H A R N H K Y P L W F I H T M ....................................................................................................................... Protein_Len: 36 Strand: - Start: 191 End: 298 .............................................................................................................................................................................................. C L D N I L C D P N N I P V I A F V A I G C S F L L L P S P Q W I V Y M ......................................................................................................................................................................... agttattttctttttaaaatttagtcgtcatcatcatactgaaaaacgacagtaatggcaatcaacacataaaaacatatctatactaaaaaataaatttgtgtaacaactttatgcgaaataaaatcagagattaatcaaatcactaataaaattttaccgcgctaagagaacaagtatgagtaaactaacaannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnttttataaataaatgcataaaaacataattatgttttagtatgatggagtaaat 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: 88 Start: 33 End: 62 ................................ATTGCCATTACTGTCGTTTTTCAGTATGAT..................................................................................................................................................................................................................................................................................................................................................................................................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ agttattttctttttaaaatttagtcgtcatcatcatactgaaaaacgacagtaatggcaatcaacacataaaaacatatctatactaaaaaataaatttgtgtaacaactttatgcgaaataaaatcagagattaatcaaatcactaataaaattttaccgcgctaagagaacaagtatgagtaaactaacaannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnttttataaataaatgcataaaaacataattatgttttagtatgatggagtaaat Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 75 HP_score: -4.1 Tail_Score: -5.22312 Start: 94 End: 114 Full_Region: tgattttatttcgca taaagttgt tac acaaattta ttttttagtatagat .............................................................................................taaagttgttacacaaattta................................................................................................................................................................................................................................................................................................................................................................. Find igs database================================================ Query_seq: AA01943:AA01944|AA01943:AA01944:conserved hypothetical protein:conserved hypothetical protein:->->:1313149..1313615 467 agttattttctttttaaaatttagtcgtcatcatcatactgaaaaacgacagtaatggcaatcaacacataaaaacatatctatactaaaaaataaatttgtgtaacaactttatgcgaaataaaatcagagattaatcaaatcactaataaaattttaccgcgctaagagaacaagtatgagtaaactaacaannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnttttataaataaatgcataaaaacataattatgttttagtatgatggagtaaat Intra-Species Hit: Count: 1 Min: 1 Max: 467 Len: 467 Subject: aact_AA01943_AA01944|conserved hypothetical protein:conserved hypothetical protein|POSITIVE:POSITIVE|[1313149,1313615]|467 HSP 1 e-value: 1.0E-105 bit: 385.0 Len: 194 Query Start:1 Query End:194 Subject Strand: POSITIVE Subject Start: 1 Subject End: 194 agttattttctttttaaaatttagtcgtcatcatcatactgaaaaacgacagtaatggcaatcaacacataaaaacatatctatactaaaaaataaatttgtgtaacaactttatgcgaaataaaatcagagattaatcaaatcactaataaaattttaccgcgctaagagaacaagtatgagtaaactaacaa................................................................................................................................................................................................................................................................................. agttattttctttttaaaatttagtcgtcatcatcatactgaaaaacgacagtaatggcaatcaacacataaaaacatatctatactaaaaaataaatttgtgtaacaactttatgcgaaataaaatcagagattaatcaaatcactaataaaattttaccgcgctaagagaacaagtatgagtaaactaacaa................................................................................................................................................................................................................................................................................. HSP 2 e-value: 3.0E-22 bit: 107.0 Len: 54 Query Start:414 Query End:467 Subject Strand: POSITIVE Subject Start: 414 Subject End: 467 .............................................................................................................................................................................................................................................................................................................................................................................................................................ttttataaataaatgcataaaaacataattatgttttagtatgatggagtaaat .............................................................................................................................................................................................................................................................................................................................................................................................................................ttttataaataaatgcataaaaacataattatgttttagtatgatggagtaaat Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGUUAUUUUCUUUUUAAAAUUUAGUCGUCAUCAUCAUACUGAAAAACGACAGUAAUGGCAAUCAACACAUAAAAACAUAUCUAUACUAAAAAAUAAAUUUGUGUAACAACUUUAUGCGAAAUAAAAUCAGAGAUUAAUCAAAUCACUAAUAAAAUUUUACCGCGCUAAGAGAACAAGUAUGAGUAAACUAACAAAGGUCAUUAAUCAGACAAUCCGGGUUAUUUAUGGGAACGAUUGCAAAAACAGCUAUGCCACAGCUAAACAAAAGAAGAGGUGACGGUUGCCAAAUAACGUACAACUAUCAUGAGCUCUGUUAUGUUUAUAAGGCAGCCAAAAAAUAUGUGUUAUUAAACGAUAUUAAUCUAGAAGAGUACUUUAAUGAGUACCCGCCCAAGGUUUAACAGAGAAAGGGAUUUUAUAAAUAAAUGCAUAAAAACAUAAUUAUGUUUUAGUAUGAUGGAGUAAAU .(((((((.............((..(((((((.((.(((((........)))))...((((((....((((((..(((((.(((((..............)))))....((((..(((...((((((.((.((((.....)))).))......))))))...)))..)))).....)))))....((((.......(((........)))......)))).)))))).....))))))......((((.......))))...........)))))))))..))..)))))))......((((((((..((((((((.((((((((.(((...........))).))).)))))......(((((.(..(.((((((....)))))).)...).)))))))))))))....(.((((.......)))).)...(((((((....)))))))..))))))))....... (-83.62) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUUUACUCCAUCAUACUAAAACAUAAUUAUGUUUUUAUGCAUUUAUUUAUAAAAUCCCUUUCUCUGUUAAACCUUGGGCGGGUACUCAUUAAAGUACUCUUCUAGAUUAAUAUCGUUUAAUAACACAUAUUUUUUGGCUGCCUUAUAAACAUAACAGAGCUCAUGAUAGUUGUACGUUAUUUGGCAACCGUCACCUCUUCUUUUGUUUAGCUGUGGCAUAGCUGUUUUUGCAAUCGUUCCCAUAAAUAACCCGGAUUGUCUGAUUAAUGACCUUUGUUAGUUUACUCAUACUUGUUCUCUUAGCGCGGUAAAAUUUUAUUAGUGAUUUGAUUAAUCUCUGAUUUUAUUUCGCAUAAAGUUGUUACACAAAUUUAUUUUUUAGUAUAGAUAUGUUUUUAUGUGUUGAUUGCCAUUACUGUCGUUUUUCAGUAUGAUGAUGACGACUAAAUUUUAAAAAGAAAAUAACU ........(((((((((...((((((..((((.(((((((........................((((((...(((((.(((((((......))))))).))))).))))))..((.(((((((.....................(((((.((((((((.(((((((((((....(((((((((.(((.(((((..((.(....)...))..)))))...((.......))....))).)))..))))))...)))))))......)))).)))))))))))))..................(((..(((((.....(((((.((((.....)))).))))))))))..))).....))))))).))..............))))))).))))..))))))...(((.(......).))).......)))))))))............................... (-89.00) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 325 258 216 145 96 aact:AA00365|5end_30S_ribosomal_protein_S19_245914..246144_POSITIVE 320 254 212 231 191 aact:AA00869|5end_tight_adherence_protein_V;_prepilin_peptidase_601255..601485_POSITIVE 296 286 250 100 60 aact:AA00682|5end_S-adenosylmethionine-dependent_methyltransferase_466322..466552_POSITIVE 295 258 211 68 16 aact:AA00200|5end_thymidylate_synthase_138892..139122_POSITIVE 295 280 232 199 142 aact:AA00164|5end_dephospho-CoA_kinase_(dephosphocoenzyme_A_kinase)_116745..116975_POSITIVE 294 260 215 125 71 aact:AA01011|5end_alanyl-tRNA_synthetase_(alanine--tRNA_ligase)_705149..705379_POSITIVE 293 430 381 140 96 aact:AA02118|5end_hypothetical_protein_1445743..1445973_POSITIVE 293 280 234 204 156 aact:AA00013|5end_hypothetical_protein_6695..6925_POSITIVE 277 255 213 85 22 aact:AA01097|5end_conserved_hypothetical_protein_757189..757419_POSITIVE 271 310 263 131 89 aact:AA02063|5end_23S_rRNA_psedouridine_synthase,_Rlu_family_protein_1404451..1404681_POSITIVE 270 280 232 175 124 aact:AA01276|5end_heptosyltransferase_III_864730..864960_POSITIVE 268 280 232 60 21 aact:AA02689|5end_hydrogenase-4_component_F_1874620..1874850_POSITIVE 266 315 271 220 176 aact:AA02821|5end_ribosomal-protein-alanine_acetyltransferase_1982255..1982485_POSITIVE 266 321 281 69 24 aact:AA01113|5end_transcriptional_regulator_(merR_family)_764900..765130_POSITIVE 265 257 214 209 173 aact:AA02472|5end_conserved_hypothetical_protein_1707631..1707861_POSITIVE 264 67 23 69 16 aact:AA02101|5end_penicillin-binding_protein_7_1430830..1431060_POSITIVE 264 285 243 73 30 aact:AA01637|5end_ribonucleoside_diphosphate_reductase_1106657..1106887_POSITIVE 263 283 244 189 158 aact:AA01270|5end_hydrolase_(possible_2-haloalkanoic_acid_dehalogenase_I)_863317..863547_POSITIVE 263 283 244 44 13 aact:AA01269|5end_hypothetical_protein_863172..863402_POSITIVE 262 258 214 120 70 aact:AA02316|5end_exodeoxyribonuclease_VII_large_subunit_1581682..1581912_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 325 258 216 131 82 aact:AA00363|3end_50S_ribosomal_protein_L22_245980..246130_POSITIVE 295 280 232 146 89 aact:AA00163|3end_type_IV_prepilin_peptidase;_type_II_secretion_pathway_related_protein_116772..116922_POSITIVE 294 260 215 149 95 aact:AA01010|3end_hypothetical_protein_705253..705403_POSITIVE 293 430 381 110 66 aact:AA02117|3end_probable_transposase_1445793..1445943_POSITIVE 277 255 213 98 35 aact:AA01096|3end_conserved_hypothetical_protei_757282..757432_POSITIVE 268 280 232 52 13 aact:AA02688|3end_hydrogenase_4_component_E_1874692..1874842_POSITIVE 266 321 281 62 17 aact:AA01111|3end_conserved_hypothetical_protein_764973..765123_POSITIVE 262 258 214 110 60 aact:AA02315|3end_conserved_hypothetical_protein_1581752..1581902_POSITIVE 262 253 211 151 113 aact:AA00987|3end_tetracenomycin_polyketide_synthesis_O-methyltransferase_690586..690736_POSITIVE 257 417 375 134 95 aact:AA00985|3end_transcriptional_regulator_(LysR_family)_689741..689891_POSITIVE 253 397 353 70 18 aact:AA01235.1|3end_50S_ribosomal_protein_L30_842535..842685_POSITIVE 251 314 272 136 90 aact:AA01255|3end_hypothetical_protein_852873..853023_POSITIVE 249 248 201 111 71 aact:AA02735|3end_DNA_repair_protein_1917424..1917574_POSITIVE 244 281 244 141 100 aact:AA01001|3end_conserved_hypothetical_protein_699974..700124_POSITIVE 242 413 387 146 123 aact:AA02970|3end_tyrosine_phenol-lyase_2077391..2077541_POSITIVE 242 318 271 92 49 aact:AA01875|3end_PTS_system,_glucose-specific_enzyme_II,_A_component_1263506..1263656_POSITIVE 241 299 251 79 34 aact:AA01183|3end_conserved_hypothetical_protein_810902..811052_POSITIVE 240 280 232 57 2 aact:AA02846|3end_crossover_junction_endodeoxyribonuclease_1999297..1999447_POSITIVE 240 65 23 59 15 aact:AA01842|3end_conserved_hypothetical_protein_1238467..1238617_POSITIVE 240 208 161 123 72 aact:AA00578|3end_DNA_topoisomerase_395201..395351_POSITIVE