Origin IGS: tctttcttccttaccttacgggaatttagaacacaggaagccgattattctagagtgcctaaaaatgattggcaagcttgaaattatacttattccaaatattaatgtgttgacttta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taaagtcaacacattaatatttggaataagtataatttcaagcttgccaatcatttttaggcactctagaataatcggcttcctgtgttctaaattcccgtaaggtaaggaagaaaga Mask Tandem Repeat Region ================================================ tctttcttccttaccttacgggaatttagaacacaggaagccgattattctagagtgcctaaaaatgattggcaagcttgaaattatacttattccaaatattaatgtgttgacttta Find is-nt database================================================ Query_seq: AA02837:AA02838|AA02837:AA02838:conserved hypothetical protein:conserved hypothetical protein:->->:1993038..1993155 118 tctttcttccttaccttacgggaatttagaacacaggaagccgattattctagagtgcctaaaaatgattggcaagcttgaaattatacttattccaaatattaatgtgttgacttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA02837:AA02838|AA02837:AA02838:conserved hypothetical protein:conserved hypothetical protein:->->:1993038..1993155 118 tctttcttccttaccttacgggaatttagaacacaggaagccgattattctagagtgcctaaaaatgattggcaagcttgaaattatacttattccaaatattaatgtgttgacttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA02837:AA02838|AA02837:AA02838:conserved hypothetical protein:conserved hypothetical protein:->->:1993038..1993155 118 tctttcttccttaccttacgggaatttagaacacaggaagccgattattctagagtgcctaaaaatgattggcaagcttgaaattatacttattccaaatattaatgtgttgacttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tctttcttccttaccttacgggaatttagaacacaggaagccgattattctagagtgcctaaaaatgattggcaagcttgaaattatacttattccaaatattaatgtgttgacttta Predict ORF larger than 30AA ================================================ tctttcttccttaccttacgggaatttagaacacaggaagccgattattctagagtgcctaaaaatgattggcaagcttgaaattatacttattccaaatattaatgtgttgacttta 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: 86 Start: 47 End: 76 ..............................................CTTGCCAATCATTTTTAGGCACTCTAGAAT.......................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ tctttcttccttaccttacgggaatttagaacacaggaagccgattattctagagtgcctaaaaatgattggcaagcttgaaattatacttattccaaatattaatgtgttgacttta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: AA02837:AA02838|AA02837:AA02838:conserved hypothetical protein:conserved hypothetical protein:->->:1993038..1993155 118 tctttcttccttaccttacgggaatttagaacacaggaagccgattattctagagtgcctaaaaatgattggcaagcttgaaattatacttattccaaatattaatgtgttgacttta Intra-Species Hit: Count: 1 Min: 1 Max: 118 Len: 118 Subject: aact_AA02837_AA02838|conserved hypothetical protein:conserved hypothetical protein|POSITIVE:POSITIVE|[1993038,1993155]|118 HSP 1 e-value: 5.0E-61 bit: 234.0 Len: 118 Query Start:1 Query End:118 Subject Strand: POSITIVE Subject Start: 1 Subject End: 118 tctttcttccttaccttacgggaatttagaacacaggaagccgattattctagagtgcctaaaaatgattggcaagcttgaaattatacttattccaaatattaatgtgttgacttta tctttcttccttaccttacgggaatttagaacacaggaagccgattattctagagtgcctaaaaatgattggcaagcttgaaattatacttattccaaatattaatgtgttgacttta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UCUUUCUUCCUUACCUUACGGGAAUUUAGAACACAGGAAGCCGAUUAUUCUAGAGUGCCUAAAAAUGAUUGGCAAGCUUGAAAUUAUACUUAUUCCAAAUAUUAAUGUGUUGACUUUA (((...(((((........)))))...)))...((((..((((((((((.(((.....)))..))))))))))...)))).................(((((....)))))....... (-21.20) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAGUCAACACAUUAAUAUUUGGAAUAAGUAUAAUUUCAAGCUUGCCAAUCAUUUUUAGGCACUCUAGAAUAAUCGGCUUCCUGUGUUCUAAAUUCCCGUAAGGUAAGGAAGAAAGA ........(((((......((((((((.......))))))))...(((.((...((((((.....))))))..)).)))....)))))(((...((.((....)).))...))).... (-18.20) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 338 77 32 193 155 aact:AA01715|5end_conserved_hypothetical_protein_1160480..1160710_POSITIVE 290 58 16 44 9 aact:AA00414|5end_possible_histidinol-phosphatase_280899..281129_POSITIVE 270 78 36 55 10 aact:AA02949|5end_hypothetical_protein_2061944..2062174_POSITIVE 252 50 5 84 39 aact:AA01565|5end_conserved_hypothetical_protein_1050711..1050941_POSITIVE 251 80 35 166 124 aact:AA00799|5end_iron(III)_dicitrate_transport_ATP-binding_protein_547658..547888_POSITIVE 250 77 31 148 105 aact:AA01610|5end_hypothetical_protein_1088811..1089041_POSITIVE 248 79 33 73 32 aact:AA01497|5end_MioC_protein_1007457..1007687_POSITIVE 247 75 33 55 11 aact:AA01629|5end_phosphatidylglycerophosphatase_A_1101881..1102111_POSITIVE 247 58 15 148 90 aact:AA00454|5end_conserved_hypothetical_protein_318020..318250_POSITIVE 246 78 33 231 186 aact:AA01365|5end_30S_ribosomal_protein_S16_922843..923073_POSITIVE 246 78 33 49 4 aact:AA01364|5end_hypothetical_protein_922661..922891_POSITIVE 244 80 40 49 3 aact:AA01615|5end_lipoprotein_releasing_system_transmembrane_1091186..1091416_POSITIVE 240 73 32 208 166 aact:AA00925|5end_hypothetical_protein_635364..635594_POSITIVE 240 73 32 105 63 aact:AA00924|5end_hypothetical_protein_635261..635491_POSITIVE 239 80 32 135 92 aact:AA02950|5end_isoleucyl-tRNA_synthetase_2062295..2062525_POSITIVE 238 44 4 171 140 aact:AA01379|5end_glycerophosphoryl_diester_phosphodiesterase_(protein_D)_933029..933259_POSITIVE 237 45 6 137 98 aact:AA01231|5end_30S_ribosomal_protein_S14_840103..840333_POSITIVE 236 58 13 99 59 aact:AA02081|5end_periplasmic_protein_1414698..1414928_POSITIVE 233 44 3 136 96 aact:AA02687|5end_hydrogenase-4_component_D_1872521..1872751_POSITIVE 233 58 32 143 114 aact:AA00591|5end_ABC_transporter,_ATP-binding_protein_403613..403843_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 338 77 32 135 97 aact:AA01711|3end_conserved_hypothetical_protein_1160502..1160652_POSITIVE 250 77 31 79 36 aact:AA01609|3end_p-aminobenzoate_synthase_component_I_homolog_1088822..1088972_POSITIVE 249 80 34 57 11 aact:AA02837|3end_conserved_hypothetical_protein_1992977..1993127_POSITIVE 245 79 32 90 43 aact:AA01041|3end_hypothetical_protein_725055..725205_POSITIVE 244 75 36 42 1 aact:AA01628|3end_thiamin-monophosphate_kinase_1101948..1102098_POSITIVE 240 73 32 84 42 aact:AA00923|3end_diaminopimelate_decarboxylase_635320..635470_POSITIVE 237 45 6 121 82 aact:AA01230|3end_50S_ribosomal_protein_L5_840167..840317_POSITIVE 237 47 6 101 54 aact:AA00349|3end_hypothetical_protein_233527..233677_POSITIVE 236 58 13 115 75 aact:AA02080|3end_ABC_transporter,_ATP-binding/permease_1414794..1414944_POSITIVE 236 59 12 111 58 aact:AA01567|3end_conserved_hypothetical_protein_(possible_cell-wall-associated_hydrolase)_1055215..1055365_POSITIVE 234 80 41 134 98 aact:AA02909|3end_conserved_hypothetical_protein_2035813..2035963_POSITIVE 234 58 19 57 6 aact:AA00453|3end_phosphoglyceromutase_318009..318159_POSITIVE 233 44 3 120 80 aact:AA02686|3end_hydrogenase_4_component_C_1872585..1872735_POSITIVE 231 58 18 66 25 aact:AA00168|3end_possible_sigma_54_modulation_protein_120240..120390_POSITIVE 230 78 34 45 1 aact:AA01363|3end_hypothetical_protein_922737..922887_POSITIVE 228 76 33 52 13 aact:AA01256|3end_hypothetical_protein_852949..853099_POSITIVE 222 70 25 69 7 aact:AA01741|3end_6-pyruvoyl_tetrahydrobiopterin_synthase_1177695..1177845_POSITIVE 219 80 40 37 5 aact:AA00611|3end_(3R)-hydroxymyristoyl-acyl_carrier_protein_dehydrase_417896..418046_POSITIVE 218 76 38 129 80 aact:AA02121|3end_nonheme_ferritin_1448256..1448406_POSITIVE 218 59 15 126 74 aact:AA02001|3end_conserved_hypothetical_protein_1360239..1360389_POSITIVE