Origin IGS: taatcgtgtagcagtagatagacaggctgaaattctgagcgacgtgatgtctgttcgggcggtcagccttttcttttttttatcgttcgaaaaatgagaggctctttggggactttgcacaataaagaaagaagaacggagtttatataggtacgaatttgatttgatgtatat .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 atatacatcaaatcaaattcgtacctatataaactccgttcttctttctttattgtgcaaagtccccaaagagcctctcatttttcgaacgataaaaaaaagaaaaggctgaccgcccgaacagacatcacgtcgctcagaatttcagcctgtctatctactgctacacgatta Mask Tandem Repeat Region ================================================ taatcgtgtagcagtagatagacaggctgaaattctgagcgacgtgatgtctgttcgggcggtcagccttttcttttttttatcgttcgaaaaatgagaggctctttggggactttgcacaataaagaaagaagaacggagtttatataggtacgaatttgatttgatgtatat Find is-nt database================================================ Query_seq: TF2850:TF2852|TF2850:TF2852:endoribonuclease L-PSP:conserved hypothetical protein:->->:3038932..3039105 174 taatcgtgtagcagtagatagacaggctgaaattctgagcgacgtgatgtctgttcgggcggtcagccttttcttttttttatcgttcgaaaaatgagaggctctttggggactttgcacaataaagaaagaagaacggagtttatataggtacgaatttgatttgatgtatat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF2850:TF2852|TF2850:TF2852:endoribonuclease L-PSP:conserved hypothetical protein:->->:3038932..3039105 174 taatcgtgtagcagtagatagacaggctgaaattctgagcgacgtgatgtctgttcgggcggtcagccttttcttttttttatcgttcgaaaaatgagaggctctttggggactttgcacaataaagaaagaagaacggagtttatataggtacgaatttgatttgatgtatat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF2850:TF2852|TF2850:TF2852:endoribonuclease L-PSP:conserved hypothetical protein:->->:3038932..3039105 174 taatcgtgtagcagtagatagacaggctgaaattctgagcgacgtgatgtctgttcgggcggtcagccttttcttttttttatcgttcgaaaaatgagaggctctttggggactttgcacaataaagaaagaagaacggagtttatataggtacgaatttgatttgatgtatat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taatcgtgtagcagtagatagacaggctgaaattctgagcgacgtgatgtctgttcgggcggtcagccttttcttttttttatcgttcgaaaaatgagaggctctttggggactttgcacaataaagaaagaagaacggagtttatataggtacgaatttgatttgatgtatat Predict ORF larger than 30AA ================================================ Protein_Len: 31 Strand: - Start: 66 End: 158 ................................................................. G K R K K I T R F I L P E K P V K C L L S L L V S N I Y T R M ................ Protein_Len: 58 Strand: - Start: 1 End: 174 L R T A T S L C A S I R L S T I D T R A T L R K K K K D N S F H S A R Q P S Q V I F F S S R L K Y L Y S N S K I Y M taatcgtgtagcagtagatagacaggctgaaattctgagcgacgtgatgtctgttcgggcggtcagccttttcttttttttatcgttcgaaaaatgagaggctctttggggactttgcacaataaagaaagaagaacggagtttatataggtacgaatttgatttgatgtatat 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================================================ taatcgtgtagcagtagatagacaggctgaaattctgagcgacgtgatgtctgttcgggcggtcagccttttcttttttttatcgttcgaaaaatgagaggctctttggggactttgcacaataaagaaagaagaacggagtttatataggtacgaatttgatttgatgtatat Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF2850:TF2852|TF2850:TF2852:endoribonuclease L-PSP:conserved hypothetical protein:->->:3038932..3039105 174 taatcgtgtagcagtagatagacaggctgaaattctgagcgacgtgatgtctgttcgggcggtcagccttttcttttttttatcgttcgaaaaatgagaggctctttggggactttgcacaataaagaaagaagaacggagtttatataggtacgaatttgatttgatgtatat Intra-Species Hit: Count: 1 Min: 1 Max: 174 Len: 174 Subject: tfor_TF2850_TF2852|endoribonuclease L-PSP:conserved hypothetical protein|POSITIVE:POSITIVE|[3038932,3039105]|174 HSP 1 e-value: 6.0E-80 bit: 297.0 Len: 174 Query Start:1 Query End:174 Subject Strand: POSITIVE Subject Start: 1 Subject End: 174 taatcgtgtagcagtagatagacaggctgaaattctgagcgacgtgatgtctgttcgggcggtcagccttttcnnnnnnnnatcgttcgaaaaatgagaggctctttggggactttgcacaataaagaaagaagaacggagtttatataggtacgaatttgatttgatgtatat taatcgtgtagcagtagatagacaggctgaaattctgagcgacgtgatgtctgttcgggcggtcagccttttcttttttttatcgttcgaaaaatgagaggctctttggggactttgcacaataaagaaagaagaacggagtttatataggtacgaatttgatttgatgtatat Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUCGUGUAGCAGUAGAUAGACAGGCUGAAAUUCUGAGCGACGUGAUGUCUGUUCGGGCGGUCAGCCUUUUCUUUUUUUUAUCGUUCGAAAAAUGAGAGGCUCUUUGGGGACUUUGCACAAUAAAGAAAGAAGAACGGAGUUUAUAUAGGUACGAAUUUGAUUUGAUGUAUAU ...((((...((.....((((((.((((((...((((((((((.....))).)))))))...))))))..(((((((((((.(((((.....)))))...((.....(....)...)).......)))))))))))....))))))....)))))).................. (-41.70) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUAUACAUCAAAUCAAAUUCGUACCUAUAUAAACUCCGUUCUUCUUUCUUUAUUGUGCAAAGUCCCCAAAGAGCCUCUCAUUUUUCGAACGAUAAAAAAAAGAAAAGGCUGACCGCCCGAACAGACAUCACGUCGCUCAGAAUUUCAGCCUGUCUAUCUACUGCUACACGAUUA ..................((((..............(((((..(((((........).))))........(((...))).......))))).........(((..(((((((....(.((...(((.....)))..)).)....))))))).)))............))))... (-24.50) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 417 60 11 73 14 tfor:TF1168|5end_hypothetical_protein_1248755..1248985_POSITIVE 396 70 22 109 60 tfor:TF2818|5end_acetylornithine_aminotransferase_3007739..3007969_POSITIVE 395 73 40 189 156 tfor:TF1069|5end_glucokinase_regulatory_protein,_sugar_phosphate_isomerase_domain_1138884..1139114_POSITIVE 389 70 21 200 148 tfor:TF0284|5end_alanine_racemase_311988..312218_POSITIVE 386 68 25 207 159 tfor:TF3105|5end_hypothetical_protein_3338068..3338298_POSITIVE 385 70 22 170 123 tfor:TF3141|5end_NADH:_ubiquinone_oxidoreductase,_subunit_A_3374667..3374897_POSITIVE 377 69 23 186 132 tfor:TF2530|5end_conserved_hypothetical_protein_2711416..2711646_POSITIVE 372 79 34 65 18 tfor:TF2337|5end_conserved_hypothetical_protein_2497997..2498227_POSITIVE 372 88 42 96 29 tfor:TF1928|5end_conserved_hypothetical_protein_2075529..2075759_POSITIVE 367 67 23 72 20 tfor:TF2996|5end_hypothetical_protein_3210802..3211032_POSITIVE 367 76 33 82 48 tfor:TF2495|5end_succinate-semialdehyde_dehydrogenase_(NADP+)_2669456..2669686_POSITIVE 367 68 21 176 107 tfor:TF0995|5end_conserved_hypothetical_protein_1049695..1049925_POSITIVE 366 67 23 135 80 tfor:TF2775|5end_conserved_hypothetical_protein;_possible_mucoidy_inhibitor-related_protein_2959668..2959898_POSITIVE 365 67 25 53 10 tfor:TF2244|5end_possible_mobilization_protein_2419425..2419655_POSITIVE 362 69 22 54 9 tfor:TF3031|5end_conserved_hypothetical_protein_3254401..3254631_POSITIVE 362 68 23 53 7 tfor:TF2832|5end_possible_proton/sodium:glutamate_symporter_protein_3022660..3022890_POSITIVE 361 57 11 67 13 tfor:TF1588|5end_hypothetical_protein_1702268..1702498_POSITIVE 360 66 23 180 127 tfor:TF0904|5end_conserved_hypothetical_protein_948435..948665_POSITIVE 358 70 25 123 79 tfor:TF2824|5end_nucleoside-transporting_protein_nupG_3014701..3014931_POSITIVE 355 70 26 195 147 tfor:TF2848|5end_cobalamin_biosynthesis_protein_3036368..3036598_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 427 69 24 67 22 tfor:TF2850|3end_endoribonuclease_L-PSP_3038871..3039021_POSITIVE 419 47 5 148 100 tfor:TF2921|3end_hypothetical_protein_3118790..3118940_POSITIVE 372 79 34 147 100 tfor:TF2336|3end_conserved_hypothetical_protein_2498159..2498309_POSITIVE 372 88 42 89 22 tfor:TF1927|3end_RNA_polymerase_sigma-70_factor,_ECF_subfamily_2075602..2075752_POSITIVE 369 90 41 87 34 tfor:TF0985|3end_fructose-bisphosphate_aldolase_1042973..1043123_POSITIVE 367 76 33 66 32 tfor:TF2494|3end_NAD-dependent_4-hydroxybutyrate_dehydrogenase_2669520..2669670_POSITIVE 366 67 23 106 51 tfor:TF2774|3end_2-amino-4-hydroxy-6-hydroxymethyldihydropteridine_pyrophosphokinase_2959719..2959869_POSITIVE 366 47 5 148 100 tfor:TF2438|3end_hypothetical_protein_2616157..2616307_POSITIVE 365 47 6 148 107 tfor:TF2640|3end_hypothetical_protein_2809533..2809683_POSITIVE 364 68 23 148 83 tfor:TF2653|3end_hypothetical_protein_2822460..2822610_POSITIVE 351 68 21 97 48 tfor:TF1167|3end_hypothetical_protein_1248932..1249082_POSITIVE 347 61 24 49 7 tfor:TF0549|3end_universal_stress_protein,_UspA_582658..582808_POSITIVE 346 89 43 81 29 tfor:TF0775|3end_ABC_transporter,_permease_component_824919..825069_POSITIVE 346 67 22 56 7 tfor:TF0358|3end_hypothetical_protein_376304..376454_POSITIVE 344 60 11 56 15 tfor:TF2498|3end_electron_transfer_flavoprotein,_alpha_subunit_2673885..2674035_POSITIVE 341 73 32 50 5 tfor:TF3003|3end_hypothetical_protein_3220629..3220779_POSITIVE 339 64 21 87 41 tfor:TF1066|3end_hypothetical_protein_1136858..1137008_POSITIVE 339 69 25 41 2 tfor:TF0950|3end_ribosomal_large_subunit_pseudouridine_synthase_D_(pseudouridylate_synthase)_(uracil_hydrolyase)_995777..995927_POSITIVE 335 90 48 106 48 tfor:TF1026|3end_beta-N-acetylglucosaminidase;_beta_lactamase_1085639..1085789_POSITIVE 335 68 40 137 105 tfor:TF0469|3end_hypothetical_protein_487228..487378_POSITIVE