Origin IGS: tgaattttttgaatatcgacttttgaatagggatttatggcatagaatttggtaatgttaatgaccctggagagcaaataagctgtgttcctcaaaaagctcattaaatactcctaaatcttcgtgtttttgaagaaatttattggtaacccgcttttttgccgtcaatccctttatttatcggggtctccgccctgtctcttccgcccctttactcaaggctttttagtgattagagagggctttcttacgaatacgaaggccggaat .........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 attccggccttcgtattcgtaagaaagccctctctaatcactaaaaagccttgagtaaaggggcggaagagacagggcggagaccccgataaataaagggattgacggcaaaaaagcgggttaccaataaatttcttcaaaaacacgaagatttaggagtatttaatgagctttttgaggaacacagcttatttgctctccagggtcattaacattaccaaattctatgccataaatccctattcaaaagtcgatattcaaaaaattca Mask Tandem Repeat Region ================================================ tgaattttttgaatatcgacttttgaatagggatttatggcatagaatttggtaatgttaatgaccctggagagcaaataagctgtgttcctcaaaaagctcattaaatactcctaaatcttcgtgtttttgaagaaatttattggtaacccgcttttttgccgtcaatccctttatttatcggggtctccgccctgtctcttccgcccctttactcaaggctttttagtgattagagagggctttcttacgaatacgaaggccggaat Find is-nt database================================================ Query_seq: TF0260:TF0261|TF0260:TF0261:conserved hypothetical protein:conserved hypothetical protein:->->:291655..291923 269 tgaattttttgaatatcgacttttgaatagggatttatggcatagaatttggtaatgttaatgaccctggagagcaaataagctgtgttcctcaaaaagctcattaaatactcctaaatcttcgtgtttttgaagaaatttattggtaacccgcttttttgccgtcaatccctttatttatcggggtctccgccctgtctcttccgcccctttactcaaggctttttagtgattagagagggctttcttacgaatacgaaggccggaat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF0260:TF0261|TF0260:TF0261:conserved hypothetical protein:conserved hypothetical protein:->->:291655..291923 269 tgaattttttgaatatcgacttttgaatagggatttatggcatagaatttggtaatgttaatgaccctggagagcaaataagctgtgttcctcaaaaagctcattaaatactcctaaatcttcgtgtttttgaagaaatttattggtaacccgcttttttgccgtcaatccctttatttatcggggtctccgccctgtctcttccgcccctttactcaaggctttttagtgattagagagggctttcttacgaatacgaaggccggaat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF0260:TF0261|TF0260:TF0261:conserved hypothetical protein:conserved hypothetical protein:->->:291655..291923 269 tgaattttttgaatatcgacttttgaatagggatttatggcatagaatttggtaatgttaatgaccctggagagcaaataagctgtgttcctcaaaaagctcattaaatactcctaaatcttcgtgtttttgaagaaatttattggtaacccgcttttttgccgtcaatccctttatttatcggggtctccgccctgtctcttccgcccctttactcaaggctttttagtgattagagagggctttcttacgaatacgaaggccggaat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tgaattttttgaatatcgacttttgaatagggatttatggcatagaatttggtaatgttaatgaccctggagagcaaataagctgtgttcctcaaaaagctcattaaatactcctaaatcttcgtgtttttgaagaaatttattggtaacccgcttttttgccgtcaatccctttatttatcggggtctccgccctgtctcttccgcccctttactcaaggctttttagtgattagagagggctttcttacgaatacgaaggccggaat Predict ORF larger than 30AA ================================================ Protein_Len: 50 Strand: + Start: 118 End: 267 ..................................................................................................................... M F V F L K K F I G N P L F C R Q S L Y L S G S P P C L F R P F T Q G F L V I R E G F L T N T K A G .. Protein_Len: 39 Strand: - Start: 61 End: 177 ............................................................ H G Q L A F L S H E E F L E N F V G L D E H K Q L F K N T V R K K A T L G K M ............................................................................................ Protein_Len: 34 Strand: - Start: 3 End: 104 .. I K Q I D V K S Y P N I A Y F K T I N I V R S L L Y A T N R L F S M ..................................................................................................................................................................... tgaattttttgaatatcgacttttgaatagggatttatggcatagaatttggtaatgttaatgaccctggagagcaaataagctgtgttcctcaaaaagctcattaaatactcctaaatcttcgtgtttttgaagaaatttattggtaacccgcttttttgccgtcaatccctttatttatcggggtctccgccctgtctcttccgcccctttactcaaggctttttagtgattagagagggctttcttacgaatacgaaggccggaat 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================================================ tgaattttttgaatatcgacttttgaatagggatttatggcatagaatttggtaatgttaatgaccctggagagcaaataagctgtgttcctcaaaaagctcattaaatactcctaaatcttcgtgtttttgaagaaatttattggtaacccgcttttttgccgtcaatccctttatttatcggggtctccgccctgtctcttccgcccctttactcaaggctttttagtgattagagagggctttcttacgaatacgaaggccggaat Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF0260:TF0261|TF0260:TF0261:conserved hypothetical protein:conserved hypothetical protein:->->:291655..291923 269 tgaattttttgaatatcgacttttgaatagggatttatggcatagaatttggtaatgttaatgaccctggagagcaaataagctgtgttcctcaaaaagctcattaaatactcctaaatcttcgtgtttttgaagaaatttattggtaacccgcttttttgccgtcaatccctttatttatcggggtctccgccctgtctcttccgcccctttactcaaggctttttagtgattagagagggctttcttacgaatacgaaggccggaat Intra-Species Hit: Count: 1 Min: 1 Max: 269 Len: 269 Subject: tfor_TF0260_TF0261|conserved hypothetical protein:conserved hypothetical protein|POSITIVE:POSITIVE|[291655,291923]|269 HSP 1 e-value: 1.0E-150 bit: 533.0 Len: 269 Query Start:1 Query End:269 Subject Strand: POSITIVE Subject Start: 1 Subject End: 269 tgaattttttgaatatcgacttttgaatagggatttatggcatagaatttggtaatgttaatgaccctggagagcaaataagctgtgttcctcaaaaagctcattaaatactcctaaatcttcgtgtttttgaagaaatttattggtaacccgcttttttgccgtcaatccctttatttatcggggtctccgccctgtctcttccgcccctttactcaaggctttttagtgattagagagggctttcttacgaatacgaaggccggaat tgaattttttgaatatcgacttttgaatagggatttatggcatagaatttggtaatgttaatgaccctggagagcaaataagctgtgttcctcaaaaagctcattaaatactcctaaatcttcgtgtttttgaagaaatttattggtaacccgcttttttgccgtcaatccctttatttatcggggtctccgccctgtctcttccgcccctttactcaaggctttttagtgattagagagggctttcttacgaatacgaaggccggaat Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAAUUUUUUGAAUAUCGACUUUUGAAUAGGGAUUUAUGGCAUAGAAUUUGGUAAUGUUAAUGACCCUGGAGAGCAAAUAAGCUGUGUUCCUCAAAAAGCUCAUUAAAUACUCCUAAAUCUUCGUGUUUUUGAAGAAAUUUAUUGGUAACCCGCUUUUUUGCCGUCAAUCCCUUUAUUUAUCGGGGUCUCCGCCCUGUCUCUUCCGCCCCUUUACUCAAGGCUUUUUAGUGAUUAGAGAGGGCUUUCUUACGAAUACGAAGGCCGGAAU ...............(((.((((((...(((((((.((((((.((((...(((..((..(((((....((((....(((.((((.((.....))...)))).))).....))))....((((((......))))))...)))))..)))))...)))).)))))).))))))).(((((..((((((....))))))........(((((((((.(((..(.....)..))).))))).))))........))))))))))).)))... (-68.10) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUUCCGGCCUUCGUAUUCGUAAGAAAGCCCUCUCUAAUCACUAAAAAGCCUUGAGUAAAGGGGCGGAAGAGACAGGGCGGAGACCCCGAUAAAUAAAGGGAUUGACGGCAAAAAAGCGGGUUACCAAUAAAUUUCUUCAAAAACACGAAGAUUUAGGAGUAUUUAAUGAGCUUUUUGAGGAACACAGCUUAUUUGCUCUCCAGGGUCAUUAACAUUACCAAAUUCUAUGCCAUAAAUCCCUAUUCAAAAGUCGAUAUUCAAAAAAUUCA .(((((.((((.((.(((....))).))...(((..................)))...)))).)))))..(((.(((.(....)))).........(((((((...((((........(((.(((........(((((........)))))....((((.....((((((((...((.....)).))))))))....))))..)))..........)))........))))...)))))))........)))................. (-65.06) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 425 210 161 214 168 tfor:TF2561|5end_50S_ribosomal_protein_L16_2738693..2738923_POSITIVE 405 224 187 215 166 tfor:TF0912|5end_transposase_954329..954559_POSITIVE 384 228 184 55 11 tfor:TF3116|5end_conserved_hypothetical_protein_3352136..3352366_POSITIVE 381 200 151 72 30 tfor:TF2833|5end_lipid_A_disaccharide_synthase_3023973..3024203_POSITIVE 370 195 152 181 124 tfor:TF2904|5end_ATP-dependent__helicase,_possible_UvrD/REP_helicase_domain_protein_3098903..3099133_POSITIVE 369 199 151 148 99 tfor:TF2574|5end_preprotein_translocase_SecY_2743783..2744013_POSITIVE 368 227 182 69 13 tfor:TF2704|5end_ribonuclease_HII_2876242..2876472_POSITIVE 364 208 165 197 146 tfor:TF0534|5end_hypothetical_protein_559509..559739_POSITIVE 352 197 151 93 38 tfor:TF1240|5end_conserved_hypothetical_protein_1324304..1324534_POSITIVE 351 210 161 163 105 tfor:TF2818|5end_acetylornithine_aminotransferase_3007739..3007969_POSITIVE 349 239 192 57 7 tfor:TF0133|5end_transposase_element_145174..145404_POSITIVE 346 186 141 213 163 tfor:TF2090|5end_phosphoribosylglycinamide_formyltransferase_2258692..2258922_POSITIVE 341 209 162 172 122 tfor:TF0254|5end_hypothetical_protein_285260..285490_POSITIVE 340 223 181 170 132 tfor:TF2654|5end_arginyl-tRNA_synthetase_2822692..2822922_POSITIVE 337 210 166 172 118 tfor:TF1840|5end_transposase_1990221..1990451_POSITIVE 336 208 161 230 181 tfor:TF3149|5end_conserved_hypothetical_protein_3384424..3384654_POSITIVE 335 222 182 120 75 tfor:TF1763|5end_K+-dependent_Na+/Ca+_exchanger_related-protein_1900406..1900636_POSITIVE 334 207 181 229 207 tfor:TF2229|5end_CTn_excision_protein;_DNA_topoisomerase_IA_2397536..2397766_POSITIVE 333 240 191 94 52 tfor:TF2439|5end_conserved_hypothetical_protein_2616380..2616610_POSITIVE 332 210 162 124 68 tfor:TF3107|5end_hypothetical_protein_3338459..3338689_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 419 205 161 151 106 tfor:TF2442|3end_heat_shock_protein_60_2620271..2620421_POSITIVE 405 224 187 103 54 tfor:TF0911|3end_transposase_954297..954447_POSITIVE 374 230 181 139 75 tfor:TF0886|3end_conjugative_transposon_protein_fragment_938152..938302_POSITIVE 369 199 151 142 93 tfor:TF2573|3end_50S_ribosomal_protein_L15_2743857..2744007_POSITIVE 368 227 182 64 8 tfor:TF2703|3end_conserved_hypothetical_protein_2876317..2876467_POSITIVE 364 218 177 50 6 tfor:TF3053|3end_conserved_hypothetical_protein_3278889..3279039_POSITIVE 364 208 165 127 76 tfor:TF0533|3end_hypothetical_protein_559519..559669_POSITIVE 363 225 182 125 83 tfor:TF1515|3end_hypothetical_protein_1626184..1626334_POSITIVE 362 210 162 70 17 tfor:TF0821|3end_hypothetical_protein_880195..880345_POSITIVE 362 210 162 89 36 tfor:TF0370|3end_hypothetical_protein_386317..386467_POSITIVE 342 225 186 35 3 tfor:TF1514|3end_hypothetical_protein_1626094..1626244_POSITIVE 339 210 161 148 91 tfor:TF1182|3end_hypothetical_protein_1268938..1269088_POSITIVE 331 209 163 71 16 tfor:TF2430|3end_hypothetical_protein_2613204..2613354_POSITIVE 328 210 161 149 91 tfor:TF1660|3end_hypothetical_protein_1775600..1775750_POSITIVE 327 212 180 73 40 tfor:TF2406|3end_anti-sigma_factor_2581659..2581809_POSITIVE 322 222 181 127 88 tfor:TF1832|3end_3-isopropylmalate_dehydratase,_small_subunit_1981502..1981652_POSITIVE 317 195 151 71 27 tfor:TF2143|3end_S-adenosylmethionine:tRNA_ribosyltransferase-isomerase_2319704..2319854_POSITIVE 317 210 163 47 15 tfor:TF0828|3end_hypothetical_protein_887508..887658_POSITIVE 317 243 205 48 10 tfor:TF0020|3end_possible_glycoprotein_endopeptidase_16029..16179_POSITIVE 314 208 163 141 86 tfor:TF2930|3end_glutamyl-tRNA_synthetase_3134352..3134502_POSITIVE