Origin IGS: tgacgcttaaacagagaatggataatgacagaactggatccgaataatattccgcaacatgttgccattattatggacggcaacgggcgttgggcgaaacagcagggcaaa .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tttgccctgctgtttcgcccaacgcccgttgccgtccataataatggcaacatgttgcggaatattattcggatccagttctgtcattatccattctctgtttaagcgtca Mask Tandem Repeat Region ================================================ tgacgcttaaacagagaatggataatgacagaactggatccgaataatattccgcaacatgttgccattattatggacggcaacgggcgttgggcgaaacagcagggcaaa Find is-nt database================================================ Query_seq: AA00602:AA00603|AA00602:AA00603:1-deoxy-D-xylulose 5-phosphate reductoisomerase:undecaprenyl pyrophosphate synthetase (UPPS):->->:410312..410422 111 tgacgcttaaacagagaatggataatgacagaactggatccgaataatattccgcaacatgttgccattattatggacggcaacgggcgttgggcgaaacagcagggcaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA00602:AA00603|AA00602:AA00603:1-deoxy-D-xylulose 5-phosphate reductoisomerase:undecaprenyl pyrophosphate synthetase (UPPS):->->:410312..410422 111 tgacgcttaaacagagaatggataatgacagaactggatccgaataatattccgcaacatgttgccattattatggacggcaacgggcgttgggcgaaacagcagggcaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA00602:AA00603|AA00602:AA00603:1-deoxy-D-xylulose 5-phosphate reductoisomerase:undecaprenyl pyrophosphate synthetase (UPPS):->->:410312..410422 111 tgacgcttaaacagagaatggataatgacagaactggatccgaataatattccgcaacatgttgccattattatggacggcaacgggcgttgggcgaaacagcagggcaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tgacgcttaaacagagaatggataatgacagaactggatccgaataatattccgcaacatgttgccattattatggacggcaacgggcgttgggcgaaacagcagggcaaa Predict ORF larger than 30AA ================================================ Protein_Len: 30 Strand: + Start: 22 End: 111 ..................... M M T E L D P N N I P Q H V A I I M D G N G R W A K Q Q G K Protein_Len: 32 Strand: - Start: 10 End: 105 ......... V S F P Y H C F Q I R I I N R L M N G N N H V A V P T P R F L M ...... Protein_Len: 36 Strand: - Start: 3 End: 110 .. R K F L S H I I V S S S G F L I G C C T A M I I S P L P R Q A F C C P M . tgacgcttaaacagagaatggataatgacagaactggatccgaataatattccgcaacatgttgccattattatggacggcaacgggcgttgggcgaaacagcagggcaaa 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================================================ tgacgcttaaacagagaatggataatgacagaactggatccgaataatattccgcaacatgttgccattattatggacggcaacgggcgttgggcgaaacagcagggcaaa Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: AA00602:AA00603|AA00602:AA00603:1-deoxy-D-xylulose 5-phosphate reductoisomerase:undecaprenyl pyrophosphate synthetase (UPPS):->->:410312..410422 111 tgacgcttaaacagagaatggataatgacagaactggatccgaataatattccgcaacatgttgccattattatggacggcaacgggcgttgggcgaaacagcagggcaaa Intra-Species Hit: Count: 1 Min: 1 Max: 111 Len: 111 Subject: aact_AA00602_AA00603|1-deoxy-D-xylulose 5-phosphate reductoisomerase:undecaprenyl pyrophosphate synthetase (UPPS)|POSITIVE:POSITIVE|[410312,410422]|111 HSP 1 e-value: 7.0E-57 bit: 220.0 Len: 111 Query Start:1 Query End:111 Subject Strand: POSITIVE Subject Start: 1 Subject End: 111 tgacgcttaaacagagaatggataatgacagaactggatccgaataatattccgcaacatgttgccattattatggacggcaacgggcgttgggcgaaacagcagggcaaa tgacgcttaaacagagaatggataatgacagaactggatccgaataatattccgcaacatgttgccattattatggacggcaacgggcgttgggcgaaacagcagggcaaa Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGACGCUUAAACAGAGAAUGGAUAAUGACAGAACUGGAUCCGAAUAAUAUUCCGCAACAUGUUGCCAUUAUUAUGGACGGCAACGGGCGUUGGGCGAAACAGCAGGGCAAA ...(((((((........(((((.....((....)).)))))..........(((....(((((((.((......)).))))))).))))))))))............... (-24.60) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUGCCCUGCUGUUUCGCCCAACGCCCGUUGCCGUCCAUAAUAAUGGCAACAUGUUGCGGAAUAUUAUUCGGAUCCAGUUCUGUCAUUAUCCAUUCUCUGUUUAAGCGUCA ...((.....((((((((..((((...((((((((........)))))))).)))))))))))).....((((......))))......................)).... (-23.00) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 404 100 55 56 1 aact:AA00608|5end_protective_surface_antigen_D-15,_85_-kilodalton_outermembrane_protein_413161..413391_POSITIVE 376 109 62 231 166 aact:AA00636|5end_MrsA_protein_(phosphoglucomutase/phosphomannomutase)_436780..437010_POSITIVE 363 107 62 75 14 aact:AA01866|5end_thiamin_ABC_transporter,_permease_protein_1253313..1253543_POSITIVE 363 97 51 210 152 aact:AA01590|5end_hypothetical_protein_1070766..1070996_POSITIVE 359 96 53 55 10 aact:AA00062|5end_bicyclomycin_resistance_protein_(Sulfonamide_resistance_protein)_46889..47119_POSITIVE 356 110 61 197 139 aact:AA01807|5end_electron_transport_complex_protein_1216696..1216926_POSITIVE 354 98 51 188 118 aact:AA01813|5end_electron_transport_complex_protein_1220949..1221179_POSITIVE 352 110 63 90 37 aact:AA00625|5end_hypothetical_protein_430565..430795_POSITIVE 348 109 61 49 5 aact:AA00046|5end_formate_dependent_nitrite_reductase,_cytochrome-c_type_protein_36014..36244_POSITIVE 345 104 63 190 142 aact:AA01276|5end_heptosyltransferase_III_864730..864960_POSITIVE 335 99 53 146 95 aact:AA01429|5end_conserved_hypothetical_protein_959581..959811_POSITIVE 333 96 53 223 167 aact:AA01054|5end_conserved_hypothetical_protein_733678..733908_POSITIVE 331 109 67 135 96 aact:AA02531|5end_conserved_hypothetical_protein_1758383..1758613_POSITIVE 330 103 78 156 131 aact:AA02990|5end_beta_hexosaminadase_2089473..2089703_POSITIVE 330 106 65 179 130 aact:AA01472|5end_hypothetical_protein_988896..989126_POSITIVE 330 109 62 174 133 aact:AA00866|5end_conserved_hypothetical_protein_599925..600155_POSITIVE 328 100 53 231 168 aact:AA01589|5end_conserved_hypothetical_protein_1070300..1070530_POSITIVE 327 109 63 90 48 aact:AA01858|5end_conserved_hypothetical_protein_1250699..1250929_POSITIVE 326 107 74 50 15 aact:AA01408|5end_conserved_hypothetical_protein_950191..950421_POSITIVE 326 98 53 79 26 aact:AA00921|5end_conserved_hypothetical_protein_633332..633562_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 359 109 66 97 60 aact:AA00980|3end_hypothetical_protein_685409..685559_POSITIVE 352 110 63 77 24 aact:AA00623|3end_hypothetical_protein_430632..430782_POSITIVE 348 109 61 49 5 aact:AA00044|3end_formate_dependent_nitrite_reductase,_Fe-S_protein/_anaerobic_DMSO_reductase_B_36094..36244_POSITIVE 344 109 64 145 106 aact:AA02601|3end_ATP-dependent_helicase_1813309..1813459_POSITIVE 341 108 61 136 74 aact:AA02350|3end_possible_lipoprotein_1609179..1609329_POSITIVE 335 99 53 110 59 aact:AA01428|3end_acetolactate_synthase_959625..959775_POSITIVE 331 109 67 139 100 aact:AA02529|3end_cytidylate_kinase_1_1758467..1758617_POSITIVE 330 103 78 151 126 aact:AA02989|3end_conserved_hypothetical_protein_2089548..2089698_POSITIVE 325 110 63 109 55 aact:AA00408|3end_SUN_protein_(FMU_protein)_273688..273838_POSITIVE 321 108 64 58 3 aact:AA00576|3end_conserved_hypothetical_protein_(possible_translation_factor)_394648..394798_POSITIVE 319 108 72 149 106 aact:AA02566|3end_PTS_system,_IIC_component_1788179..1788329_POSITIVE 316 108 78 71 36 aact:AA01987|3end_hypothetical_protein_1350620..1350770_POSITIVE 316 107 74 58 23 aact:AA01625|3end_riboflavin_synthase,_beta_chain_1100514..1100664_POSITIVE 315 94 59 141 96 aact:AA02821|3end_ribosomal-protein-alanine_acetyltransferase_1982775..1982925_POSITIVE 315 89 41 146 86 aact:AA01750|3end_MTA/SAH_nucleosidase_[Includes:_5'-methylthioadenosine_nucleosidase;_S-adenosylhomocysteine_nucleosidase]_1184519..1184669_POSITIVE 314 108 63 74 24 aact:AA02468|3end_conserved_hypothetical_protein_1706797..1706947_POSITIVE 314 110 74 70 20 aact:AA02066|3end_hypothetical_protein_1405314..1405464_POSITIVE 313 109 62 57 1 aact:AA02219|3end_LACI-type_transcriptional_regulator_1511207..1511357_POSITIVE 313 110 75 47 5 aact:AA00606|3end_membrane-associated_zinc_metalloprotease_413219..413369_POSITIVE 312 96 51 59 1 aact:AA01269|3end_hypothetical_protein_863413..863563_POSITIVE