Origin IGS: aaatttacctcctaatattaaatttatatttttattttatcaaatttatatatatttttatagttattttagcttcattttataataaaatttaatttctttataaaattttatttgacatttgttttatagtatgttacattaataaaaataaattttaaggaggattaaaatgtttcttagtaaaacaaggataaggaaaaatatttttactataaaattgaataacttatctaattgtatgctaaggactgtttatgcctttgttttttagtatatttagtataactattttttaatattttaataataaagtaagttaacaatcagtgtagcattcaatgttatactgatttttttattttataaattttaggaggtaaatatgaagagtagaaaagaaattttatcaggactttttgataaatataggaatgagttaacaaatttaaatgaatatctttataataatccagaactaggt .........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.........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 acctagttctggattattataaagatattcatttaaatttgttaactcattcctatatttatcaaaaagtcctgataaaatttcttttctactcttcatatttacctcctaaaatttataaaataaaaaaatcagtataacattgaatgctacactgattgttaacttactttattattaaaatattaaaaaatagttatactaaatatactaaaaaacaaaggcataaacagtccttagcatacaattagataagttattcaattttatagtaaaaatatttttccttatccttgttttactaagaaacattttaatcctccttaaaatttatttttattaatgtaacatactataaaacaaatgtcaaataaaattttataaagaaattaaattttattataaaatgaagctaaaataactataaaaatatatataaatttgataaaataaaaatataaatttaatattaggaggtaaattt Mask Tandem Repeat Region ================================================ aaatttacctcctaatattaaatttatatttttattttatcaaatttatatatatttttatagttattttagcttcattttataataaaatttaatttctttataaaattttatttgacatttgttttatagtatgttacattaataaaaataaattttaaggaggattaaaatgtttcttagtaaaacaaggataaggaaaaatatttttactataaaattgaataacttatctaattgtatgctaaggactgtttatgcctttgttttttagtatatttagtataactattttttaatattttaataataaagtaagttaacaatcagtgtagcattcaatgttatactgatttttttattttataaattttaggaggtaaatatgaagagtagaaaagaaattttatcaggactttttgataaatataggaatgagttaacaaatttaaatgaatatctttataataatccagaactaggt Find is-nt database================================================ Query_seq: FN1185:FN1186|FN1185:FN1186:SIR2 family protein:Amidohydrolase:<-->:1848412..1848895 484 aaatttacctcctaatattaaatttatatttttattttatcaaatttatatatatttttatagttattttagcttcattttataataaaatttaatttctttataaaattttatttgacatttgttttatagtatgttacattaataaaaataaattttaaggaggattaaaatgtttcttagtaaaacaaggataaggaaaaatatttttactataaaattgaataacttatctaattgtatgctaaggactgtttatgcctttgttttttagtatatttagtataactattttttaatattttaataataaagtaagttaacaatcagtgtagcattcaatgttatactgatttttttattttataaattttaggaggtaaatatgaagagtagaaaagaaattttatcaggactttttgataaatataggaatgagttaacaaatttaaatgaatatctttataataatccagaactaggt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: FN1185:FN1186|FN1185:FN1186:SIR2 family protein:Amidohydrolase:<-->:1848412..1848895 484 aaatttacctcctaatattaaatttatatttttattttatcaaatttatatatatttttatagttattttagcttcattttataataaaatttaatttctttataaaattttatttgacatttgttttatagtatgttacattaataaaaataaattttaaggaggattaaaatgtttcttagtaaaacaaggataaggaaaaatatttttactataaaattgaataacttatctaattgtatgctaaggactgtttatgcctttgttttttagtatatttagtataactattttttaatattttaataataaagtaagttaacaatcagtgtagcattcaatgttatactgatttttttattttataaattttaggaggtaaatatgaagagtagaaaagaaattttatcaggactttttgataaatataggaatgagttaacaaatttaaatgaatatctttataataatccagaactaggt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: FN1185:FN1186|FN1185:FN1186:SIR2 family protein:Amidohydrolase:<-->:1848412..1848895 484 aaatttacctcctaatattaaatttatatttttattttatcaaatttatatatatttttatagttattttagcttcattttataataaaatttaatttctttataaaattttatttgacatttgttttatagtatgttacattaataaaaataaattttaaggaggattaaaatgtttcttagtaaaacaaggataaggaaaaatatttttactataaaattgaataacttatctaattgtatgctaaggactgtttatgcctttgttttttagtatatttagtataactattttttaatattttaataataaagtaagttaacaatcagtgtagcattcaatgttatactgatttttttattttataaattttaggaggtaaatatgaagagtagaaaagaaattttatcaggactttttgataaatataggaatgagttaacaaatttaaatgaatatctttataataatccagaactaggt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aaatttacctcctaatattaaatttatatttttattttatcaaatttatatatatttttatagttattttagcttcattttataataaaatttaatttctttataaaattttatttgacatttgttttatagtatgttacattaataaaaataaattttaaggaggattaaaatgtttcttagtaaaacaaggataaggaaaaatatttttactataaaattgaataacttatctaattgtatgctaaggactgtttatgcctttgttttttagtatatttagtataactattttttaatattttaataataaagtaagttaacaatcagtgtagcattcaatgttatactgatttttttattttataaattttaggaggtaaatatgaagagtagaaaagaaattttatcaggactttttgataaatataggaatgagttaacaaatttaaatgaatatctttataataatccagaactaggt Predict ORF larger than 30AA ================================================ Protein_Len: 30 Strand: + Start: 3 End: 92 .. M Y L L I L N L Y F Y F I K F I Y I F I V I L A S F Y N K I ........................................................................................................................................................................................................................................................................................................................................................................................................ Protein_Len: 39 Strand: + Start: 155 End: 271 .......................................................................................................................................................... M L R R I K M F L S K T R I R K N I F T I K L N N L S N C M L R T V Y A F V F ..................................................................................................................................................................................................................... Protein_Len: 33 Strand: + Start: 386 End: 484 ................................................................................................................................................................................................................................................................................................................................................................................................. M K S R K E I L S G L F D K Y R N E L T N L N E Y L Y N N P E L G Protein_Len: 43 Strand: - Start: 348 End: 476 ........................................................................................................................................................................................................................................................................................................................................................... V S K K I K Y I K P P L Y S S Y F L F K I L V K Q Y I Y S H T L L N L H I D K Y Y D M ........ Protein_Len: 30 Strand: - Start: 237 End: 326 ............................................................................................................................................................................................................................................ N Y A L S Q K H R Q K K T Y K T Y S N K L I K I I F Y T L M .............................................................................................................................................................. Protein_Len: 33 Strand: - Start: 145 End: 243 ................................................................................................................................................ Y F Y I K L L I L I N R L L V L I L F F I K V I F N F L K D L Q M ................................................................................................................................................................................................................................................. aaatttacctcctaatattaaatttatatttttattttatcaaatttatatatatttttatagttattttagcttcattttataataaaatttaatttctttataaaattttatttgacatttgttttatagtatgttacattaataaaaataaattttaaggaggattaaaatgtttcttagtaaaacaaggataaggaaaaatatttttactataaaattgaataacttatctaattgtatgctaaggactgtttatgcctttgttttttagtatatttagtataactattttttaatattttaataataaagtaagttaacaatcagtgtagcattcaatgttatactgatttttttattttataaattttaggaggtaaatatgaagagtagaaaagaaattttatcaggactttttgataaatataggaatgagttaacaaatttaaatgaatatctttataataatccagaactaggt 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: 87 Start: 114 End: 143 .................................................................................................................TTTGACATTTGTTTTATAGTATGTTACATT..................................................................................................................................................................................................................................................................................................................................................... PromScan Matrix: RpoD-17 Strand: - Score: 82 Start: 15 End: 44 ..............TTTGATAAAATAAAAATATAAATTTAATAT........................................................................................................................................................................................................................................................................................................................................................................................................................................................ Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ aaatttacctcctaatattaaatttatatttttattttatcaaatttatatatatttttatagttattttagcttcattttataataaaatttaatttctttataaaattttatttgacatttgttttatagtatgttacattaataaaaataaattttaaggaggattaaaatgtttcttagtaaaacaaggataaggaaaaatatttttactataaaattgaataacttatctaattgtatgctaaggactgtttatgcctttgttttttagtatatttagtataactattttttaatattttaataataaagtaagttaacaatcagtgtagcattcaatgttatactgatttttttattttataaattttaggaggtaaatatgaagagtagaaaagaaattttatcaggactttttgataaatataggaatgagttaacaaatttaaatgaatatctttataataatccagaactaggt Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 100 HP_score: -9.6 Tail_Score: -6.14618 Start: 327 End: 353 Full_Region: AAAGTAAGTTAACAA TCAGTGTAGCAT TCA ATGTTATACTGA TTTTTTTATTTTATA ......................................................................................................................................................................................................................................................................................................................................TCAGTGTAGCATTCAATGTTATACTGA................................................................................................................................... Find igs database================================================ Query_seq: FN1185:FN1186|FN1185:FN1186:SIR2 family protein:Amidohydrolase:<-->:1848412..1848895 484 aaatttacctcctaatattaaatttatatttttattttatcaaatttatatatatttttatagttattttagcttcattttataataaaatttaatttctttataaaattttatttgacatttgttttatagtatgttacattaataaaaataaattttaaggaggattaaaatgtttcttagtaaaacaaggataaggaaaaatatttttactataaaattgaataacttatctaattgtatgctaaggactgtttatgcctttgttttttagtatatttagtataactattttttaatattttaataataaagtaagttaacaatcagtgtagcattcaatgttatactgatttttttattttataaattttaggaggtaaatatgaagagtagaaaagaaattttatcaggactttttgataaatataggaatgagttaacaaatttaaatgaatatctttataataatccagaactaggt Intra-Species Hit: Count: 1 Min: 132 Max: 484 Len: 353 Subject: NC_003454_FN1185_FN1186|SIR2 family protein:Amidohydrolase|NEGATIVE:POSITIVE|[1848412, 1848895]|484 HSP 1 e-value: 2.0E-73 bit: 278.0 Len: 161 Query Start:324 Query End:484 Subject Strand: POSITIVE Subject Start: 324 Subject End: 484 ...................................................................................................................................................................................................................................................................................................................................caatcagtgtagcattcaatgttatactgannnnnnnattttataaattttaggaggtaaatatgaagagtagaaaagaaattttatcaggactttttgataaatataggaatgagttaacaaatttaaatgaatatctttataataatccagaactaggt ...................................................................................................................................................................................................................................................................................................................................caatcagtgtagcattcaatgttatactgatttttttattttataaattttaggaggtaaatatgaagagtagaaaagaaattttatcaggactttttgataaatataggaatgagttaacaaatttaaatgaatatctttataataatccagaactaggt HSP 2 e-value: 2.0E-63 bit: 244.0 Len: 123 Query Start:132 Query End:254 Subject Strand: POSITIVE Subject Start: 132 Subject End: 254 ...................................................................................................................................gtatgttacattaataaaaataaattttaaggaggattaaaatgtttcttagtaaaacaaggataaggaaaaatatttttactataaaattgaataacttatctaattgtatgctaaggactg...................................................................................................................................................................................................................................... ...................................................................................................................................gtatgttacattaataaaaataaattttaaggaggattaaaatgtttcttagtaaaacaaggataaggaaaaatatttttactataaaattgaataacttatctaattgtatgctaaggactg...................................................................................................................................................................................................................................... Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GUAUGUUACAUUAAUAAAAAUAAAUUUUAAGGAGGAUUAAAAUGUUUCUUAGUAAAACAAGGAUAAGGAAAAAUAUUUUUACUAUAAAAUUGAAUAACUUAUCUAAUUGUAUGCUAAGGACUGUUUAUGCCUUUGUUUUUUAGUAUAUUUAGUAUAACUAUUUUUUAAUAUUUUAAUAAUAAAGUAAGUUAACAAUCAGUGUAGCAUUCAAUGUUAUACUGAUUUUUUUAUUUUAUAAAUUUUAGGAGGUAAAUAUGAAGAGUAGAAAAGAAAUUUUAUCAGGACUUUUUGAUAAAUAUAGGAAUGAGUUAACAAAUUUAAAUGAAUAUCUUUAUAAUAAUCCAGAACUAGGU .................................((((((......(((((((((..(((((((((((.......(((((......))))).......)))))))..)))).))))))))).(((((((...((((((.((((.((((((((.......((((((((((.((((.....((((((((((.....((((((((((((((...))))))))))))))..)))))))))))))).)))))))))).....(((((((..((((....))))......)))))))..))))))))....))))..)))))).....))))))).........)))))).......... (-65.24) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ ACCUAGUUCUGGAUUAUUAUAAAGAUAUUCAUUUAAAUUUGUUAACUCAUUCCUAUAUUUAUCAAAAAGUCCUGAUAAAAUUUCUUUUCUACUCUUCAUAUUUACCUCCUAAAAUUUAUAAAAUAAAAAAAUCAGUAUAACAUUGAAUGCUACACUGAUUGUUAACUUACUUUAUUAUUAAAAUAUUAAAAAAUAGUUAUACUAAAUAUACUAAAAAACAAAGGCAUAAACAGUCCUUAGCAUACAAUUAGAUAAGUUAUUCAAUUUUAUAGUAAAAAUAUUUUUCCUUAUCCUUGUUUUACUAAGAAACAUUUUAAUCCUCCUUAAAAUUUAUUUUUAUUAAUGUAACAUAC ..........((((((....(((((((((............................(((((((........)))))))......................................................(.(((((.((((((((((...(((((((((((((...((((.(((....))).))))....))))).....................(((((.......).)))).....))))))))...)).)))))))).))))).)...))))))))).........((((((.....))))))...))))))................................. (-37.30) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 240 287 241 155 113 NC_003454:FN0548|5end_Regulatory_protein_recX_1200937..1201167_POSITIVE 230 94 59 65 28 NC_003454:FN0458|5end_hypothetical_protein_1103738..1103968_POSITIVE 224 227 187 74 29 NC_003454:FN0063|5end_hypothetical_protein_698982..699212_POSITIVE 223 210 166 105 58 NC_003454:FN1702|5end_undecaprenyl_pyrophosphate_phosphatase_197964..198194_NEGATIVE 220 151 113 222 183 NC_003454:FN0909|5end_DNA_repair_protein_radC_1567654..1567884_NEGATIVE 219 251 211 162 128 NC_003454:FN0891|5end_DNAse_I_homologous_protein_DHP2_precursor_1552926..1553156_NEGATIVE 219 198 158 140 103 NC_003454:FN0186|5end_Cytochrome_c-type_biogenesis_protein_ccdA_810853..811083_POSITIVE 214 166 126 224 179 NC_003454:FN0077|5end_Ethanolamine_two-component_sensor_kinase_714704..714934_POSITIVE 204 147 105 225 187 NC_003454:FN0539|5end_Ferrochelatase_1192651..1192881_NEGATIVE 203 70 29 62 13 NC_003454:FN0760|5end_hypothetical_protein_1418670..1418900_NEGATIVE 200 137 95 204 161 NC_003454:FN1318|5end_RNA_polymerase_sigma_factor_rpoD_1972096..1972326_NEGATIVE 195 230 186 56 16 NC_003454:FN0232|5end_hypothetical_protein_858018..858248_NEGATIVE 194 315 275 221 178 NC_003454:FN0583|5end_hypothetical_protein_1239001..1239231_POSITIVE 192 169 122 73 27 NC_003454:FN0697|5end_Alanyl-tRNA_synthetase_1353992..1354222_POSITIVE 192 287 241 193 155 NC_003454:FN0588|5end_hypothetical_protein_1242402..1242632_NEGATIVE 191 150 101 161 116 NC_003454:FN1912|5end_hypothetical_protein_408945..409175_NEGATIVE 187 169 121 77 34 NC_003454:FN0967|5end_CbiD_protein_1621050..1621280_NEGATIVE 187 166 128 222 180 NC_003454:FN1527|5end_hypothetical_protein_42572..42802_NEGATIVE 186 236 198 185 147 NC_003454:FN0816|5end_dehydrogenase_with_MaoC-like_domain_1475971..1476201_POSITIVE 185 279 231 221 172 NC_003454:FN0735|5end_Cell_surface_protein_1392666..1392896_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 254 316 281 46 5 NC_003454:FN1587|3end_Acetyltransferase_99334..99484_POSITIVE 232 301 267 51 9 NC_003454:FN0704|3end_hypothetical_protein_1361661..1361811_NEGATIVE 230 94 59 50 13 NC_003454:FN0457|3end_hypothetical_protein_1103803..1103953_POSITIVE 223 210 166 75 28 NC_003454:FN1703|3end_ADP-L-glycero-D-manno-heptose-6-epimerase_197994..198144_NEGATIVE 199 230 196 41 2 NC_003454:FN0454|3end_Aldehyde_dehydrogenase_B_1101022..1101172_POSITIVE 194 290 244 124 80 NC_003454:FN0551|3end_Bacterial_regulatory_proteins,_crp_family_1203649..1203799_POSITIVE 190 340 291 88 36 NC_003454:FN0734|3end_Fe-S_oxidoreductase_1392595..1392745_POSITIVE 187 169 121 61 18 NC_003454:FN0968|3end_hypothetical_protein_1621066..1621216_NEGATIVE 186 284 243 106 63 NC_003454:FN0674|3end_Transporter_1330401..1330551_POSITIVE 181 159 113 75 21 NC_003454:FN1724|3end_Potassium_uptake_protein_KtrA_222654..222804_NEGATIVE 179 149 115 92 54 NC_003454:FN1148|3end_Serine/threonine_sodium_symporter_1799264..1799414_POSITIVE 176 247 208 43 2 NC_003454:FN0964|3end_Precorrin-8W_decarboxylase_1617737..1617887_NEGATIVE 174 133 92 149 116 NC_003454:FN0103|3end_Ribonucleoside-diphosphate_reductase_beta_chain_739607..739757_POSITIVE 173 284 241 96 61 NC_003454:FN2057|3end_hypothetical_protein_565286..565436_NEGATIVE 172 60 17 59 18 NC_003454:FN0865|3end_hypothetical_protein_1523040..1523190_NEGATIVE 171 328 284 45 3 NC_003454:FN1384|3end_IAA_acetyltransferase_2037888..2038038_NEGATIVE 171 198 153 147 92 NC_003454:FN0763|3end_Transporter,_LysE_family_1420440..1420590_POSITIVE 171 275 244 43 9 NC_003454:FN0011|3end_Transcriptional_regulator_651620..651770_POSITIVE 171 153 112 111 64 NC_003454:FN2099|3end_hypothetical_protein_608702..608852_POSITIVE 170 50 4 73 26 NC_003454:FN1426|3end_Serine_protease_2092577..2092727_NEGATIVE