Origin IGS: tgaactaaaataatttgatattttgtaattatgtttgaagaattaactattacagagcaggagaatatctctggaggagagcttgttatcgctataattgcttttttctgctaccaattaagtaaagattaactttggaagaata .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tattcttccaaagttaatctttacttaattggtagcagaaaaaagcaattatagcgataacaagctctcctccagagatattctcctgctctgtaatagttaattcttcaaacataattacaaaatatcaaattattttagttca Mask Tandem Repeat Region ================================================ tgaactaaaataatttgatattttgtaattatgtttgaagaattaactattacagagcaggagaatatctctggaggagagcttgttatcgctataattgcttttttctgctaccaattaagtaaagattaactttggaagaata Find is-nt database================================================ Query_seq: TF2298:TF2299|TF2298:TF2299:hypothetical protein:hypothetical protein:->->:2449989..2450133 145 tgaactaaaataatttgatattttgtaattatgtttgaagaattaactattacagagcaggagaatatctctggaggagagcttgttatcgctataattgcttttttctgctaccaattaagtaaagattaactttggaagaata Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF2298:TF2299|TF2298:TF2299:hypothetical protein:hypothetical protein:->->:2449989..2450133 145 tgaactaaaataatttgatattttgtaattatgtttgaagaattaactattacagagcaggagaatatctctggaggagagcttgttatcgctataattgcttttttctgctaccaattaagtaaagattaactttggaagaata Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF2298:TF2299|TF2298:TF2299:hypothetical protein:hypothetical protein:->->:2449989..2450133 145 tgaactaaaataatttgatattttgtaattatgtttgaagaattaactattacagagcaggagaatatctctggaggagagcttgttatcgctataattgcttttttctgctaccaattaagtaaagattaactttggaagaata Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tgaactaaaataatttgatattttgtaattatgtttgaagaattaactattacagagcaggagaatatctctggaggagagcttgttatcgctataattgcttttttctgctaccaattaagtaaagattaactttggaagaata Predict ORF larger than 30AA ================================================ Protein_Len: 34 Strand: + Start: 28 End: 129 ........................... M M F E E L T I T E Q E N I S G G E L V I A I I A F F C Y Q L S K D ................ Protein_Len: 32 Strand: - Start: 3 End: 98 .. V L I I Q Y K T I I N S S N V I V S C S F I E P P S S T I A I M ............................................... tgaactaaaataatttgatattttgtaattatgtttgaagaattaactattacagagcaggagaatatctctggaggagagcttgttatcgctataattgcttttttctgctaccaattaagtaaagattaactttggaagaata 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================================================ tgaactaaaataatttgatattttgtaattatgtttgaagaattaactattacagagcaggagaatatctctggaggagagcttgttatcgctataattgcttttttctgctaccaattaagtaaagattaactttggaagaata Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF2298:TF2299|TF2298:TF2299:hypothetical protein:hypothetical protein:->->:2449989..2450133 145 tgaactaaaataatttgatattttgtaattatgtttgaagaattaactattacagagcaggagaatatctctggaggagagcttgttatcgctataattgcttttttctgctaccaattaagtaaagattaactttggaagaata Intra-Species Hit: Count: 1 Min: 1 Max: 145 Len: 145 Subject: tfor_TF2298_TF2299|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[2449989,2450133]|145 HSP 1 e-value: 5.0E-77 bit: 287.0 Len: 145 Query Start:1 Query End:145 Subject Strand: POSITIVE Subject Start: 1 Subject End: 145 tgaactaaaataatttgatattttgtaattatgtttgaagaattaactattacagagcaggagaatatctctggaggagagcttgttatcgctataattgcttttttctgctaccaattaagtaaagattaactttggaagaata tgaactaaaataatttgatattttgtaattatgtttgaagaattaactattacagagcaggagaatatctctggaggagagcttgttatcgctataattgcttttttctgctaccaattaagtaaagattaactttggaagaata Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAACUAAAAUAAUUUGAUAUUUUGUAAUUAUGUUUGAAGAAUUAACUAUUACAGAGCAGGAGAAUAUCUCUGGAGGAGAGCUUGUUAUCGCUAUAAUUGCUUUUUUCUGCUACCAAUUAAGUAAAGAUUAACUUUGGAAGAAUA ....(((((.((((((..(((((((((((...(((.........))).)))))).(((.((((.....)))).(((((((((..(((((....))))).))))))))).))).......))))).))))))..)))))....... (-24.80) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAUUCUUCCAAAGUUAAUCUUUACUUAAUUGGUAGCAGAAAAAAGCAAUUAUAGCGAUAACAAGCUCUCCUCCAGAGAUAUUCUCCUGCUCUGUAAUAGUUAAUUCUUCAAACAUAAUUACAAAAUAUCAAAUUAUUUUAGUUCA ...........(((((((..((((......(((((.((((....((.......))..........((((.....))))..)))).)))))..))))..)))))))................((((((......))))))...... (-18.00) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 325 96 55 158 116 tfor:TF2820|5end_argininosuccinate_synthetase_3009876..3010106_POSITIVE 292 86 46 219 183 tfor:TF0063|5end_conserved_hypothetical_protein_66110..66340_POSITIVE 289 100 65 65 35 tfor:TF2178|5end_conserved_hypothetical_protein_2349518..2349748_POSITIVE 287 86 53 228 193 tfor:TF1620|5end_TPR_domain_protein_1734454..1734684_POSITIVE 285 115 73 51 14 tfor:TF1240|5end_conserved_hypothetical_protein_1324304..1324534_POSITIVE 278 96 60 223 178 tfor:TF0270|5end_transposase_element_297218..297448_POSITIVE 278 96 60 65 20 tfor:TF0269|5end_possible_transposase_element_297060..297290_POSITIVE 276 91 56 79 43 tfor:TF0697|5end_glycerol-3-phosphate_cytidyltransferase_740667..740897_POSITIVE 275 98 56 203 156 tfor:TF2386|5end_beta-galactosidase_2551676..2551906_POSITIVE 274 92 53 40 2 tfor:TF2283|5end_hypothetical_protein_2440266..2440496_POSITIVE 273 109 65 163 117 tfor:TF2940|5end_50S_ribosomal_protein_L11_3141367..3141597_POSITIVE 272 93 54 156 108 tfor:TF2196|5end_hypothetical_protein_2371678..2371908_POSITIVE 271 95 51 210 169 tfor:TF1695|5end_excisionase_1816522..1816752_POSITIVE 271 112 71 85 35 tfor:TF1668|5end_possible_glycosylhydrolase_1780341..1780571_POSITIVE 271 93 53 161 127 tfor:TF0204|5end_cation_efflux_system_protein_230618..230848_POSITIVE 269 93 59 42 1 tfor:TF2917|5end_conserved_hypothetical_protein_3112255..3112485_POSITIVE 269 110 61 230 172 tfor:TF2594|5end_hypothetical_protein_2764176..2764406_POSITIVE 269 93 54 201 153 tfor:TF2201|5end_hypothetical_protein_2377956..2378186_POSITIVE 268 104 61 164 120 tfor:TF1592|5end_hypothetical_protein_1708325..1708555_POSITIVE 267 115 76 71 32 tfor:TF2439|5end_conserved_hypothetical_protein_2616380..2616610_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 289 100 65 46 16 tfor:TF2177|3end_hypothetical_protein_2349579..2349729_POSITIVE 284 92 51 80 39 tfor:TF2556|3end_conserved_hypothetical_protein_2737095..2737245_POSITIVE 276 116 71 147 100 tfor:TF1810|3end_conserved_hypothetical_protein;_possible_membrane_protein_1952306..1952456_POSITIVE 276 91 56 73 37 tfor:TF0696|3end_3-oxoacyl-(acyl-carrier-protein)_reductase_740741..740891_POSITIVE 273 109 65 98 52 tfor:TF2939|3end_transcription_antiterminator_3141382..3141532_POSITIVE 272 93 54 134 86 tfor:TF2193|3end_outer_membrane_protein,_TonB_dependent_receptor_2371736..2371886_POSITIVE 271 93 53 123 89 tfor:TF0203|3end_PhoH-like_protein_230660..230810_POSITIVE 269 93 54 134 86 tfor:TF2200|3end_outer_membrane_protein,_TonB_dependent_receptor_2377969..2378119_POSITIVE 267 115 81 139 104 tfor:TF3051|3end_conserved_hypothetical_protein_3278067..3278217_POSITIVE 267 92 55 147 116 tfor:TF2819|3end_N-acetyl-gamma-glutamylphosphate_reductase_3009956..3010106_POSITIVE 265 115 73 87 40 tfor:TF2465|3end_O-methyltransferase_2644443..2644593_POSITIVE 265 115 72 69 28 tfor:TF2456|3end_ABC_transporter,_ATP-binding_protein_2633208..2633358_POSITIVE 265 100 51 72 22 tfor:TF2113|3end_phosphoribosylaminoimidazole_carboxylase_2283086..2283236_POSITIVE 263 104 61 102 46 tfor:TF0564|3end_conserved_hypothetical_protein_597750..597900_POSITIVE 260 104 61 102 53 tfor:TF1582|3end_hypothetical_protein_1690506..1690656_POSITIVE 257 113 73 98 61 tfor:TF1719|3end_ribonuclease_R_1843668..1843818_POSITIVE 257 91 52 142 85 tfor:TF0518|3end_glutaminyl-tRNA_synthetase_543559..543709_POSITIVE 255 94 54 148 96 tfor:TF1887|3end_hypothetical_protein_2040800..2040950_POSITIVE 252 82 58 34 6 tfor:TF3120|3end_HD_superfamily_hydrolase_3354775..3354925_POSITIVE 251 117 71 149 95 tfor:TF3032|3end_thiamin_biosynthesis_protein_3256838..3256988_POSITIVE