Origin IGS: tttaaaatgacctaatttattcgaataaaaacacccttgataaccaaatagtcccccgctggcaaatgttcttattgctccttttagaattcttttgtcaacacgttgaattttatattcttcaatattaaatacaacttttccgattattctgttta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taaacagaataatcggaaaagttgtatttaatattgaagaatataaaattcaacgtgttgacaaaagaattctaaaaggagcaataagaacatttgccagcgggggactatttggttatcaagggtgtttttattcgaataaattaggtcattttaaa Mask Tandem Repeat Region ================================================ tttaaaatgacctaatttattcgaataaaaacacccttgataaccaaatagtcccccgctggcaaatgttcttattgctccttttagaattcttttgtcaacacgttgaattttatattcttcaatattaaatacaacttttccgattattctgttta Find is-nt database================================================ Query_seq: TF0847:TF0849|TF0847:TF0849:hypothetical protein:hypothetical protein:->->:898073..898230 158 tttaaaatgacctaatttattcgaataaaaacacccttgataaccaaatagtcccccgctggcaaatgttcttattgctccttttagaattcttttgtcaacacgttgaattttatattcttcaatattaaatacaacttttccgattattctgttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF0847:TF0849|TF0847:TF0849:hypothetical protein:hypothetical protein:->->:898073..898230 158 tttaaaatgacctaatttattcgaataaaaacacccttgataaccaaatagtcccccgctggcaaatgttcttattgctccttttagaattcttttgtcaacacgttgaattttatattcttcaatattaaatacaacttttccgattattctgttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF0847:TF0849|TF0847:TF0849:hypothetical protein:hypothetical protein:->->:898073..898230 158 tttaaaatgacctaatttattcgaataaaaacacccttgataaccaaatagtcccccgctggcaaatgttcttattgctccttttagaattcttttgtcaacacgttgaattttatattcttcaatattaaatacaacttttccgattattctgttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tttaaaatgacctaatttattcgaataaaaacacccttgataaccaaatagtcccccgctggcaaatgttcttattgctccttttagaattcttttgtcaacacgttgaattttatattcttcaatattaaatacaacttttccgattattctgttta Predict ORF larger than 30AA ================================================ Protein_Len: 38 Strand: + Start: 15 End: 128 .............. M Y S N K N T L D N Q I V P R W Q M F L L L L L E F F C Q H V E F Y I L Q Y .............................. Protein_Len: 50 Strand: - Start: 1 End: 150 K F H G L K N S Y F C G Q Y G F L G G S A F T R I A G K L I R K D V R Q I K Y E E I N F V V K G I M ........ tttaaaatgacctaatttattcgaataaaaacacccttgataaccaaatagtcccccgctggcaaatgttcttattgctccttttagaattcttttgtcaacacgttgaattttatattcttcaatattaaatacaacttttccgattattctgttta 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================================================ tttaaaatgacctaatttattcgaataaaaacacccttgataaccaaatagtcccccgctggcaaatgttcttattgctccttttagaattcttttgtcaacacgttgaattttatattcttcaatattaaatacaacttttccgattattctgttta Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 70 HP_score: -5.5 Tail_Score: -4.24726 Start: 105 End: 138 Full_Region: TTCTTTTGTCAACAC GTTGAATTTTATATT CTTC AATATTAAATACAAC TTTTCCGATTATTCT ........................................................................................................GTTGAATTTTATATTCTTCAATATTAAATACAAC.................... Find igs database================================================ Query_seq: TF0847:TF0849|TF0847:TF0849:hypothetical protein:hypothetical protein:->->:898073..898230 158 tttaaaatgacctaatttattcgaataaaaacacccttgataaccaaatagtcccccgctggcaaatgttcttattgctccttttagaattcttttgtcaacacgttgaattttatattcttcaatattaaatacaacttttccgattattctgttta Intra-Species Hit: Count: 1 Min: 1 Max: 158 Len: 158 Subject: tfor_TF0847_TF0849|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[898073,898230]|158 HSP 1 e-value: 9.0E-85 bit: 313.0 Len: 158 Query Start:1 Query End:158 Subject Strand: POSITIVE Subject Start: 1 Subject End: 158 tttaaaatgacctaatttattcgaataaaaacacccttgataaccaaatagtcccccgctggcaaatgttcttattgctccttttagaattcttttgtcaacacgttgaattttatattcttcaatattaaatacaacttttccgattattctgttta tttaaaatgacctaatttattcgaataaaaacacccttgataaccaaatagtcccccgctggcaaatgttcttattgctccttttagaattcttttgtcaacacgttgaattttatattcttcaatattaaatacaacttttccgattattctgttta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUAAAAUGACCUAAUUUAUUCGAAUAAAAACACCCUUGAUAACCAAAUAGUCCCCCGCUGGCAAAUGUUCUUAUUGCUCCUUUUAGAAUUCUUUUGUCAACACGUUGAAUUUUAUAUUCUUCAAUAUUAAAUACAACUUUUCCGAUUAUUCUGUUUA .........................................(((..(((((((....(.(((((((.(((((.............)))))...))))))).)..((((.((((.(((((....))))).)))).))))......)))))))..))).. (-20.12) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAACAGAAUAAUCGGAAAAGUUGUAUUUAAUAUUGAAGAAUAUAAAAUUCAACGUGUUGACAAAAGAAUUCUAAAAGGAGCAAUAAGAACAUUUGCCAGCGGGGGACUAUUUGGUUAUCAAGGGUGUUUUUAUUCGAAUAAAUUAGGUCAUUUUAAA ....................((((.((((.(((((....))))).)))).))))....((((.......((((....)))).((((((((((((((((((.((....))..)))))......)))))))))))))............))))....... (-25.70) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 343 80 33 88 32 tfor:TF2128|5end_3-oxoacyl-(acyl-carrier_protein)_synthase_2304258..2304488_POSITIVE 338 76 34 195 152 tfor:TF3041|5end_hypothetical_protein_3269146..3269376_POSITIVE 304 99 54 182 143 tfor:TF0310|5end_conserved_hypothetical_protein_334685..334915_POSITIVE 288 78 32 198 149 tfor:TF0782|5end_ThiJ/PfpI_family_protein_835976..836206_POSITIVE 286 80 32 213 168 tfor:TF0077|5end_hypothetical_protein_84241..84471_POSITIVE 281 96 54 64 21 tfor:TF2561|5end_50S_ribosomal_protein_L16_2738693..2738923_POSITIVE 277 63 21 67 24 tfor:TF1323|5end_metallo-beta-lactamase_superfamily_protein_1402650..1402880_POSITIVE 277 90 50 210 170 tfor:TF0194|5end_hypothetical_protein_215193..215423_POSITIVE 275 91 54 54 24 tfor:TF2950|5end_chloromuconate_cycloisomerase_3157399..3157629_POSITIVE 272 73 31 69 26 tfor:TF2704|5end_ribonuclease_HII_2876242..2876472_POSITIVE 267 82 54 38 6 tfor:TF2998|5end_surface_antigen_BspA_3211811..3212041_POSITIVE 267 97 51 78 11 tfor:TF1148|5end_para-aminobenzoate_synthase_component_I_1228219..1228449_POSITIVE 263 61 32 50 25 tfor:TF1444|5end_conserved_hypothetical_protein;_possible_hemin_receptor_1528223..1528453_POSITIVE 263 78 33 144 91 tfor:TF1299|5end_conserved_hypothetical_protein_1380937..1381167_POSITIVE 260 84 48 124 75 tfor:TF2886|5end_RNA_methylase_SpoU_family_3075651..3075881_POSITIVE 260 62 34 119 82 tfor:TF0328|5end_conserved_hypothetical_protein_354182..354412_POSITIVE 258 78 32 231 190 tfor:TF2391|5end_conserved_hypothetical_protein_2562128..2562358_POSITIVE 257 87 54 41 7 tfor:TF1589|5end_surface_antigen_BspA_1703189..1703419_POSITIVE 255 80 32 150 103 tfor:TF2818|5end_acetylornithine_aminotransferase_3007739..3007969_POSITIVE 255 78 32 111 57 tfor:TF0682|5end_outer_membrane_protein,_TonB_dependent_receptor_724450..724680_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 327 80 34 56 1 tfor:TF2127|3end_hypothetical_protein_2304306..2304456_POSITIVE 288 78 32 146 97 tfor:TF0781|3end_serine_protease_inhibitor_836004..836154_POSITIVE 275 91 54 54 24 tfor:TF2949|3end_dihydroxynaphthoate_synthase_(naphthoate_synthase)_3157479..3157629_POSITIVE 272 73 31 64 21 tfor:TF2703|3end_conserved_hypothetical_protein_2876317..2876467_POSITIVE 260 84 48 141 92 tfor:TF2884|3end_conserved_hypothetical_protein_3075748..3075898_POSITIVE 252 100 51 59 18 tfor:TF2945|3end_DNA-directed_RNA_polymerase_beta'_subunit_3151802..3151952_POSITIVE 252 99 58 142 100 tfor:TF2503|3end_conserved_hypothetical_protein_2680111..2680261_POSITIVE 252 100 52 121 62 tfor:TF1185|3end_hypothetical_protein_1269563..1269713_POSITIVE 252 98 55 79 31 tfor:TF0460|3end_hypothetical_protein_477070..477220_POSITIVE 250 97 57 72 26 tfor:TF0605|3end_conserved_hypothetical_protein_636883..637033_POSITIVE 246 89 52 54 19 tfor:TF0370|3end_hypothetical_protein_386317..386467_POSITIVE 245 87 57 128 94 tfor:TF1346|3end_hypothetical_protein_1426214..1426364_POSITIVE 239 98 55 150 107 tfor:TF0265|3end_conserved_hypothetical_protein,_Rhs_family_295170..295320_POSITIVE 236 108 61 125 76 tfor:TF0414|3end_N-ethylammeline_chlorohydrolase_433128..433278_POSITIVE 235 62 30 102 62 tfor:TF3133|3end_conserved_hypothetical_protein_3369913..3370063_POSITIVE 235 100 55 125 73 tfor:TF1832|3end_3-isopropylmalate_dehydratase,_small_subunit_1981502..1981652_POSITIVE 235 63 35 143 99 tfor:TF1821|3end_cation_efflux_system_protein_1967645..1967795_POSITIVE 235 100 51 104 45 tfor:TF1815|3end_conserved_hypothetical_protein_1957442..1957592_POSITIVE 230 89 53 35 1 tfor:TF0821|3end_hypothetical_protein_880195..880345_POSITIVE 230 91 55 31 4 tfor:TF0090|3end_conserved_hypothetical_protein_97747..97897_POSITIVE