Origin IGS: tgcttactaataatatatgttctggctacaaaggtacatgattttttaattaaaacctatcatttaggcctaagtgattattacttcttctcaagtgtttgttaaaagacaaaaacgttccttgcaaagcgaccaaaatttctctctgaactcatttccttacatatctataattcgctctcccctcaatacttcttatgctcggtaattctttcaatttccaccttatactccatcttggagaggtgggcaaaatatc .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 gatattttgcccacctctccaagatggagtataaggtggaaattgaaagaattaccgagcataagaagtattgaggggagagcgaattatagatatgtaaggaaatgagttcagagagaaattttggtcgctttgcaaggaacgtttttgtcttttaacaaacacttgagaagaagtaataatcacttaggcctaaatgataggttttaattaaaaaatcatgtacctttgtagccagaacatatattattagtaagca Mask Tandem Repeat Region ================================================ tgcttactaataatatatgttctggctacaaaggtacatgattttttaattaaaacctatcatttaggcctaagtgattattacttcttctcaagtgtttgttaaaagacaaaaacgttccttgcaaagcgaccaaaatttctctctgaactcatttccttacatatctataattcgctctcccctcaatacttcttatgctcggtaattctttcaatttccaccttatactccatcttggagaggtgggcaaaatatc Find is-nt database================================================ Query_seq: TF0563:TF0564|TF0563:TF0564:signal recognition particle-docking protein FtsY:conserved hypothetical protein:->->:596304..596562 259 tgcttactaataatatatgttctggctacaaaggtacatgattttttaattaaaacctatcatttaggcctaagtgattattacttcttctcaagtgtttgttaaaagacaaaaacgttccttgcaaagcgaccaaaatttctctctgaactcatttccttacatatctataattcgctctcccctcaatacttcttatgctcggtaattctttcaatttccaccttatactccatcttggagaggtgggcaaaatatc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF0563:TF0564|TF0563:TF0564:signal recognition particle-docking protein FtsY:conserved hypothetical protein:->->:596304..596562 259 tgcttactaataatatatgttctggctacaaaggtacatgattttttaattaaaacctatcatttaggcctaagtgattattacttcttctcaagtgtttgttaaaagacaaaaacgttccttgcaaagcgaccaaaatttctctctgaactcatttccttacatatctataattcgctctcccctcaatacttcttatgctcggtaattctttcaatttccaccttatactccatcttggagaggtgggcaaaatatc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF0563:TF0564|TF0563:TF0564:signal recognition particle-docking protein FtsY:conserved hypothetical protein:->->:596304..596562 259 tgcttactaataatatatgttctggctacaaaggtacatgattttttaattaaaacctatcatttaggcctaagtgattattacttcttctcaagtgtttgttaaaagacaaaaacgttccttgcaaagcgaccaaaatttctctctgaactcatttccttacatatctataattcgctctcccctcaatacttcttatgctcggtaattctttcaatttccaccttatactccatcttggagaggtgggcaaaatatc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tgcttactaataatatatgttctggctacaaaggtacatgattttttaattaaaacctatcatttaggcctaagtgattattacttcttctcaagtgtttgttaaaagacaaaaacgttccttgcaaagcgaccaaaatttctctctgaactcatttccttacatatctataattcgctctcccctcaatacttcttatgctcggtaattctttcaatttccaccttatactccatcttggagaggtgggcaaaatatc Predict ORF larger than 30AA ================================================ Protein_Len: 31 Strand: + Start: 10 End: 102 ......... M I Y V L A T K V H D F L I K T Y H L G L S D Y Y F F S S V C ............................................................................................................................................................. Protein_Len: 44 Strand: + Start: 74 End: 205 ......................................................................... M I I T S S Q V F V K R Q K R S L Q S D Q N F S L N S F P Y I S I I R S P L N T S Y A R ...................................................... Protein_Len: 35 Strand: + Start: 154 End: 258 ......................................................................................................................................................... M S L H I Y N S L S P Q Y F L C S V I L S I S T L Y S I L E R W A K Y . Protein_Len: 34 Strand: - Start: 155 End: 256 .......................................................................................................................................................... K R V Y R Y N A R G E I S R I S P L E K L K W R I S W R P S T P L M ... tgcttactaataatatatgttctggctacaaaggtacatgattttttaattaaaacctatcatttaggcctaagtgattattacttcttctcaagtgtttgttaaaagacaaaaacgttccttgcaaagcgaccaaaatttctctctgaactcatttccttacatatctataattcgctctcccctcaatacttcttatgctcggtaattctttcaatttccaccttatactccatcttggagaggtgggcaaaatatc 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: 82 Start: 77 End: 106 ............................................................................TTTAACAAACACTTGAGAAGAAGTAATAAT......................................................................................................................................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ tgcttactaataatatatgttctggctacaaaggtacatgattttttaattaaaacctatcatttaggcctaagtgattattacttcttctcaagtgtttgttaaaagacaaaaacgttccttgcaaagcgaccaaaatttctctctgaactcatttccttacatatctataattcgctctcccctcaatacttcttatgctcggtaattctttcaatttccaccttatactccatcttggagaggtgggcaaaatatc Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF0563:TF0564|TF0563:TF0564:signal recognition particle-docking protein FtsY:conserved hypothetical protein:->->:596304..596562 259 tgcttactaataatatatgttctggctacaaaggtacatgattttttaattaaaacctatcatttaggcctaagtgattattacttcttctcaagtgtttgttaaaagacaaaaacgttccttgcaaagcgaccaaaatttctctctgaactcatttccttacatatctataattcgctctcccctcaatacttcttatgctcggtaattctttcaatttccaccttatactccatcttggagaggtgggcaaaatatc Intra-Species Hit: Count: 1 Min: 1 Max: 259 Len: 259 Subject: tfor_TF0563_TF0564|signal recognition particle-docking protein FtsY:conserved hypothetical protein|POSITIVE:POSITIVE|[596304,596562]|259 HSP 1 e-value: 1.0E-145 bit: 513.0 Len: 259 Query Start:1 Query End:259 Subject Strand: POSITIVE Subject Start: 1 Subject End: 259 tgcttactaataatatatgttctggctacaaaggtacatgattttttaattaaaacctatcatttaggcctaagtgattattacttcttctcaagtgtttgttaaaagacaaaaacgttccttgcaaagcgaccaaaatttctctctgaactcatttccttacatatctataattcgctctcccctcaatacttcttatgctcggtaattctttcaatttccaccttatactccatcttggagaggtgggcaaaatatc tgcttactaataatatatgttctggctacaaaggtacatgattttttaattaaaacctatcatttaggcctaagtgattattacttcttctcaagtgtttgttaaaagacaaaaacgttccttgcaaagcgaccaaaatttctctctgaactcatttccttacatatctataattcgctctcccctcaatacttcttatgctcggtaattctttcaatttccaccttatactccatcttggagaggtgggcaaaatatc Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGCUUACUAAUAAUAUAUGUUCUGGCUACAAAGGUACAUGAUUUUUUAAUUAAAACCUAUCAUUUAGGCCUAAGUGAUUAUUACUUCUUCUCAAGUGUUUGUUAAAAGACAAAAACGUUCCUUGCAAAGCGACCAAAAUUUCUCUCUGAACUCAUUUCCUUACAUAUCUAUAAUUCGCUCUCCCCUCAAUACUUCUUAUGCUCGGUAAUUCUUUCAAUUUCCACCUUAUACUCCAUCUUGGAGAGGUGGGCAAAAUAUC ...(((((......((((((....(((...((((.((..((..(..((((((...((((.....))))......))))))..)..))..........((((((....))))))...)).))))....))).........(((.....)))...........)))))).........((.....................))..)))))...........(((((((....((((.....)))))))))))......... (-37.00) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GAUAUUUUGCCCACCUCUCCAAGAUGGAGUAUAAGGUGGAAAUUGAAAGAAUUACCGAGCAUAAGAAGUAUUGAGGGGAGAGCGAAUUAUAGAUAUGUAAGGAAAUGAGUUCAGAGAGAAAUUUUGGUCGCUUUGCAAGGAACGUUUUUGUCUUUUAACAAACACUUGAGAAGAAGUAAUAAUCACUUAGGCCUAAAUGAUAGGUUUUAAUUAAAAAAUCAUGUACCUUUGUAGCCAGAACAUAUAUUAUUAGUAAGCA ((((((((..((((((((((.....))))....))))))...((....))..............)))))))).........((..((((..(((((((...(((.....))).........(((((((.....(((((((..(((((..((((..........((((......))))...........))))..)))))...((((((......))))))......)))))))))))))).)))))))..))))..)). (-46.50) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 308 126 82 223 184 tfor:TF2674|5end_conserved_hypothetical_protein;_possible_phosphoesterase_2848176..2848406_POSITIVE 305 188 145 148 97 tfor:TF2582|5end_ABC_transporter,_ATP-binding_protein_2749433..2749663_POSITIVE 294 237 196 159 123 tfor:TF2100|5end_hypothetical_protein_2273424..2273654_POSITIVE 286 207 174 184 143 tfor:TF0811|5end_conserved_hypothetical_protein;_posible_sugar_phosphate_isomerase_869787..870017_POSITIVE 284 149 116 223 192 tfor:TF2950|5end_chloromuconate_cycloisomerase_3157399..3157629_POSITIVE 277 206 164 64 12 tfor:TF2112|5end_glycine_cleavage_H_protein_2282119..2282349_POSITIVE 269 217 172 157 107 tfor:TF0156|5end_conserved_hypothetical_protein_164973..165203_POSITIVE 267 149 116 134 97 tfor:TF2407|5end_glycosyltransferase_2581574..2581804_POSITIVE 263 240 193 47 1 tfor:TF2939|5end_transcription_antiterminator_3140763..3140993_POSITIVE 257 205 176 221 189 tfor:TF2647|5end_transcriptional_regulator,_possible_arylsulfatase_regulator_2816796..2817026_POSITIVE 256 250 201 168 119 tfor:TF1343|5end_hypothetical_protein_1424630..1424860_POSITIVE 255 187 141 226 178 tfor:TF0830|5end_hypothetical_protein_887610..887840_POSITIVE 254 163 121 91 50 tfor:TF2385|5end_conserved_hypothetical_protein;_possible_MazG_family_protein_2550676..2550906_POSITIVE 254 246 222 230 205 tfor:TF2343|5end_ribosome_recycling_factor_2506862..2507092_POSITIVE 253 198 151 83 26 tfor:TF1699|5end_mobilization_protein,_BmgA_1819695..1819925_POSITIVE 253 204 168 33 1 tfor:TF1639|5end_conserved_hypothetical_protein_1747652..1747882_POSITIVE 253 233 193 126 85 tfor:TF1490|5end_hypothetical_protein_1590238..1590468_POSITIVE 252 185 142 117 70 tfor:TF2549|5end_30S_ribosomal_protein_S7_2731711..2731941_POSITIVE 252 240 191 101 39 tfor:TF1873|5end_possible_hemolysin_secretion_protein_2026745..2026975_POSITIVE 252 240 191 101 39 tfor:TF1131|5end_membrane-fusion_protein;_possible_hemolysin_secretion_protein_1207611..1207841_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 307 250 201 138 99 tfor:TF2342|3end_glutathione_peroxidase_2506639..2506789_POSITIVE 294 237 196 74 38 tfor:TF2099|3end_D-tyrosyl-tRNA(Tyr)_deacylase_2273419..2273569_POSITIVE 288 155 116 66 19 tfor:TF2985|3end_glycosyltransferase_protein_3201646..3201796_POSITIVE 274 187 141 148 102 tfor:TF1182|3end_hypothetical_protein_1268938..1269088_POSITIVE 274 187 141 70 24 tfor:TF0821|3end_hypothetical_protein_880195..880345_POSITIVE 274 187 141 89 43 tfor:TF0370|3end_hypothetical_protein_386317..386467_POSITIVE 267 149 116 139 102 tfor:TF2406|3end_anti-sigma_factor_2581659..2581809_POSITIVE 260 203 177 95 70 tfor:TF0263|3end_ISPg3_(IS195)_transposase_292654..292804_POSITIVE 258 187 141 149 102 tfor:TF1660|3end_hypothetical_protein_1775600..1775750_POSITIVE 257 205 176 42 10 tfor:TF2646|3end_conserved_hypothetical_protein_2816697..2816847_POSITIVE 256 159 120 78 34 tfor:TF2366|3end_conserved_hypothetical_protein_2531892..2532042_POSITIVE 256 250 201 78 29 tfor:TF1342|3end_possible_lipoprotein_1424620..1424770_POSITIVE 254 163 121 91 50 tfor:TF2384|3end_thiol:disulfide_interchange_protein_2550756..2550906_POSITIVE 254 78 59 32 13 tfor:TF0563|3end_signal_recognition_particle-docking_protein_FtsY_596243..596393_POSITIVE 253 198 151 90 33 tfor:TF1698|3end_mobilization_protein_1819782..1819932_POSITIVE 253 204 168 33 1 tfor:TF1638|3end_conserved_hypothetical_protein_1747732..1747882_POSITIVE 253 233 193 126 85 tfor:TF1489|3end_argininosuccinate_lyase_1590318..1590468_POSITIVE 252 240 191 87 25 tfor:TF1872|3end_ABC_transporter,_ATP-binding/permease_component_2026811..2026961_POSITIVE 252 240 191 87 25 tfor:TF1130|3end_ABC_transporter_ATP-binding_protein/permease_component_1207677..1207827_POSITIVE 249 206 162 146 105 tfor:TF2701|3end_conserved_hypothetical_protein_2875948..2876098_POSITIVE