Origin IGS: ctgttttttattgcctttaaaaattcagattaaacgaaggccggattctttatttttttatatctttacagcgaaaaaggctgaatacgatattttgaagaaaatcaccagataaaaaaggttctt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aagaaccttttttatctggtgattttcttcaaaatatcgtattcagcctttttcgctgtaaagatataaaaaaataaagaatccggccttcgtttaatctgaatttttaaaggcaataaaaaacag Mask Tandem Repeat Region ================================================ ctgttttttattgcctttaaaaattcagattaaacgaaggccggattctttatttttttatatctttacagcgaaaaaggctgaatacgatattttgaagaaaatcaccagataaaaaaggttctt Find is-nt database================================================ Query_seq: TF2117:TF2118|TF2117:TF2118:hypothetical protein:conserved hypothetical protein:->->:2289975..2290100 126 ctgttttttattgcctttaaaaattcagattaaacgaaggccggattctttatttttttatatctttacagcgaaaaaggctgaatacgatattttgaagaaaatcaccagataaaaaaggttctt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF2117:TF2118|TF2117:TF2118:hypothetical protein:conserved hypothetical protein:->->:2289975..2290100 126 ctgttttttattgcctttaaaaattcagattaaacgaaggccggattctttatttttttatatctttacagcgaaaaaggctgaatacgatattttgaagaaaatcaccagataaaaaaggttctt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF2117:TF2118|TF2117:TF2118:hypothetical protein:conserved hypothetical protein:->->:2289975..2290100 126 ctgttttttattgcctttaaaaattcagattaaacgaaggccggattctttatttttttatatctttacagcgaaaaaggctgaatacgatattttgaagaaaatcaccagataaaaaaggttctt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ctgttttttattgcctttaaaaattcagattaaacgaaggccggattctttatttttttatatctttacagcgaaaaaggctgaatacgatattttgaagaaaatcaccagataaaaaaggttctt Predict ORF larger than 30AA ================================================ Protein_Len: 34 Strand: + Start: 11 End: 112 .......... M P L K I Q I K R R P D S L F F Y I F T A K K A E Y D I L K K I T R .............. ctgttttttattgcctttaaaaattcagattaaacgaaggccggattctttatttttttatatctttacagcgaaaaaggctgaatacgatattttgaagaaaatcaccagataaaaaaggttctt 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================================================ ctgttttttattgcctttaaaaattcagattaaacgaaggccggattctttatttttttatatctttacagcgaaaaaggctgaatacgatattttgaagaaaatcaccagataaaaaaggttctt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF2117:TF2118|TF2117:TF2118:hypothetical protein:conserved hypothetical protein:->->:2289975..2290100 126 ctgttttttattgcctttaaaaattcagattaaacgaaggccggattctttatttttttatatctttacagcgaaaaaggctgaatacgatattttgaagaaaatcaccagataaaaaaggttctt Intra-Species Hit: Count: 1 Min: 1 Max: 126 Len: 126 Subject: tfor_TF2117_TF2118|hypothetical protein:conserved hypothetical protein|POSITIVE:POSITIVE|[2289975,2290100]|126 HSP 1 e-value: 3.0E-53 bit: 208.0 Len: 126 Query Start:1 Query End:126 Subject Strand: POSITIVE Subject Start: 1 Subject End: 126 ctgttttttattgcctttaaaaattcagattaaacgaaggccggattctttannnnnnnatatctttacagcgaaaaaggctgaatacgatattttgaagaaaatcaccagataaaaaaggttctt ctgttttttattgcctttaaaaattcagattaaacgaaggccggattctttatttttttatatctttacagcgaaaaaggctgaatacgatattttgaagaaaatcaccagataaaaaaggttctt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CUGUUUUUUAUUGCCUUUAAAAAUUCAGAUUAAACGAAGGCCGGAUUCUUUAUUUUUUUAUAUCUUUACAGCGAAAAAGGCUGAAUACGAUAUUUUGAAGAAAAUCACCAGAUAAAAAAGGUUCUU .(.(((((((((((((((.................))))))....(((((((.......(((((....((((.......)))).....)))))..)))))))........))))))))).)..... (-19.63) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAGAACCUUUUUUAUCUGGUGAUUUUCUUCAAAAUAUCGUAUUCAGCCUUUUUCGCUGUAAAGAUAUAAAAAAAUAAAGAAUCCGGCCUUCGUUUAAUCUGAAUUUUUAAAGGCAAUAAAAAACAG .......((((((((....(((......)))..(((((.....((((.......))))....)))))......))))))))....(((((.((((.....)))).....)))))............ (-15.60) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 275 50 1 177 118 tfor:TF0990|5end_hypothetical_protein_1045395..1045625_POSITIVE 271 50 3 152 98 tfor:TF0780|5end_alpha-L-arabinofuranosidase,_precursor_A_831944..832174_POSITIVE 262 67 22 149 109 tfor:TF0624|5end_Xaa-Pro_dipeptidase_(aminopeptidase_P)_659559..659789_POSITIVE 253 80 38 230 184 tfor:TF1560|5end_glycosyltransferase_1666989..1667219_POSITIVE 245 73 35 67 16 tfor:TF2247|5end_transfer_region-related_protein,_TraA_2421463..2421693_POSITIVE 244 49 1 124 81 tfor:TF1668|5end_possible_glycosylhydrolase_1780341..1780571_POSITIVE 239 78 34 127 89 tfor:TF2696|5end_oxidoreductase,_short_chain_dehydrogenase/reductase_family_2870752..2870982_POSITIVE 234 100 68 37 1 tfor:TF1808|5end_DNA_processing_protein_subunit_A_1949356..1949586_POSITIVE 229 120 71 176 127 tfor:TF0645|5end_hypothetical_protein_688673..688903_POSITIVE 227 49 1 84 23 tfor:TF0236|5end_multidrug_resistance_protein_261779..262009_POSITIVE 226 90 44 169 119 tfor:TF2284|5end_hypothetical_protein_2440557..2440787_POSITIVE 226 48 1 71 20 tfor:TF0525|5end_conserved_hypothetical_protein_549265..549495_POSITIVE 225 107 62 228 178 tfor:TF1631|5end_hypothetical_protein_1743091..1743321_POSITIVE 223 101 63 202 164 tfor:TF0902|5end_methyltransferase_947237..947467_POSITIVE 223 96 69 75 43 tfor:TF0428|5end_methylmalonyl-CoA_mutase,_beta_subunit_447809..448039_POSITIVE 223 90 68 43 19 tfor:TF0237|5end_outer_membrane_protein,_TonB_dependent_receptor_263669..263899_POSITIVE 223 53 11 42 1 tfor:TF0215|5end_tRNA/rRNA_methyltransferase,_TrmH_family_241463..241693_POSITIVE 222 47 13 56 24 tfor:TF2381|5end_muramidase/hemagglutinin_2545757..2545987_POSITIVE 222 80 33 158 100 tfor:TF0293|5end_GTP_cyclohydrolase_I_320566..320796_POSITIVE 219 42 1 204 164 tfor:TF0416|5end_possible_ATP-binding_protein_433134..433364_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 262 67 22 60 20 tfor:TF0623|3end_type_II_DNA_modification_enzyme;_methyltransferase_659550..659700_POSITIVE 246 74 36 98 51 tfor:TF1703|3end_conserved_hypothetical_protein_1825669..1825819_POSITIVE 245 73 35 74 23 tfor:TF2246|3end_hypothetical_protein_2421550..2421700_POSITIVE 227 49 1 74 13 tfor:TF0235|3end_hypothetical_protein_261849..261999_POSITIVE 226 90 44 57 7 tfor:TF2283|3end_hypothetical_protein_2440525..2440675_POSITIVE 226 48 1 58 7 tfor:TF0524|3end_possible_cation_efflux_pump_(multidrug_resistance_protein)_549332..549482_POSITIVE 226 46 1 57 24 tfor:TF0214|3end_DNA_recombination_and_repair_protein,_RecN_241571..241721_POSITIVE 223 96 69 54 22 tfor:TF0427|3end_methylmalonyl-CoA_mutase,_alpha_subunit_447868..448018_POSITIVE 222 47 13 90 58 tfor:TF2380|3end_hemagglutinin_2545871..2546021_POSITIVE 219 102 63 53 1 tfor:TF2603|3end_transcriptional_regulator,_AraC_family_2777272..2777422_POSITIVE 219 42 1 118 78 tfor:TF0414|3end_N-ethylammeline_chlorohydrolase_433128..433278_POSITIVE 219 70 35 65 25 tfor:TF0014|3end_beta-glucosidase_(beta-D-glucoside_glucohydrolase),_periplasmic_9583..9733_POSITIVE 216 80 35 125 63 tfor:TF2100|3end_hypothetical_protein_2273686..2273836_POSITIVE 215 90 48 146 91 tfor:TF1794|3end_possible_glucose-1-phosphatase_1935816..1935966_POSITIVE 213 74 35 151 100 tfor:TF3107|3end_hypothetical_protein_3338736..3338886_POSITIVE 213 87 47 136 94 tfor:TF2680|3end_conserved_hypothetical_protein_2855716..2855866_POSITIVE 211 114 72 103 58 tfor:TF1909|3end_cobalamin_(5`-phosphate)_synthase_2064075..2064225_POSITIVE 211 88 41 137 73 tfor:TF1868|3end_conserved_hypothetical_protein;_possible_transposase_2023043..2023193_POSITIVE 208 90 70 148 127 tfor:TF3139|3end_Na+-translocating_NADH-quinone_reductase,_subunit_C_3373389..3373539_POSITIVE 208 80 38 71 35 tfor:TF2410|3end_possible_endo-1,4-beta-xylanase_2585432..2585582_POSITIVE