Origin IGS: gccctccttgtcttttatcctcaaaaacagtataatggagaaaagaatttgaaagttctctaaatagttttaggaggattgctggcagaaaatcttgtccgtttgagtagcgccttgcttacatttgtaggagccatgacttatctagagctagttgctttgtttgtccttagctagaaatcaattttaagaggtatcaaaattgggaattagtgaaacc .........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 ggtttcactaattcccaattttgatacctcttaaaattgatttctagctaaggacaaacaaagcaactagctctagataagtcatggctcctacaaatgtaagcaaggcgctactcaaacggacaagattttctgccagcaatcctcctaaaactatttagagaactttcaaattcttttctccattatactgtttttgaggataaaagacaaggagggc Mask Tandem Repeat Region ================================================ gccctccttgtcttttatcctcaaaaacagtataatggagaaaagaatttgaaagttctctaaatagttttaggaggattgctggcagaaaatcttgtccgtttgagtagcgccttgcttacatttgtaggagccatgacttatctagagctagttgctttgtttgtccttagctagaaatcaattttaagaggtatcaaaattgggaattagtgaaacc Find is-nt database================================================ Query_seq: SSA_0729:SSA_0730|SSA_0729:SSA_0730:hypothetical protein:Arsenical resistance operon transcription repressor (ArsR), putative:->->:714738..714957 220 gccctccttgtcttttatcctcaaaaacagtataatggagaaaagaatttgaaagttctctaaatagttttaggaggattgctggcagaaaatcttgtccgtttgagtagcgccttgcttacatttgtaggagccatgacttatctagagctagttgctttgtttgtccttagctagaaatcaattttaagaggtatcaaaattgggaattagtgaaacc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SSA_0729:SSA_0730|SSA_0729:SSA_0730:hypothetical protein:Arsenical resistance operon transcription repressor (ArsR), putative:->->:714738..714957 220 gccctccttgtcttttatcctcaaaaacagtataatggagaaaagaatttgaaagttctctaaatagttttaggaggattgctggcagaaaatcttgtccgtttgagtagcgccttgcttacatttgtaggagccatgacttatctagagctagttgctttgtttgtccttagctagaaatcaattttaagaggtatcaaaattgggaattagtgaaacc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SSA_0729:SSA_0730|SSA_0729:SSA_0730:hypothetical protein:Arsenical resistance operon transcription repressor (ArsR), putative:->->:714738..714957 220 gccctccttgtcttttatcctcaaaaacagtataatggagaaaagaatttgaaagttctctaaatagttttaggaggattgctggcagaaaatcttgtccgtttgagtagcgccttgcttacatttgtaggagccatgacttatctagagctagttgctttgtttgtccttagctagaaatcaattttaagaggtatcaaaattgggaattagtgaaacc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gccctccttgtcttttatcctcaaaaacagtataatggagaaaagaatttgaaagttctctaaatagttttaggaggattgctggcagaaaatcttgtccgtttgagtagcgccttgcttacatttgtaggagccatgacttatctagagctagttgctttgtttgtccttagctagaaatcaattttaagaggtatcaaaattgggaattagtgaaacc Predict ORF larger than 30AA ================================================ Protein_Len: 37 Strand: + Start: 64 End: 174 ............................................................... M V L G G L L A E N L V R L S S A L L T F V G A M T Y L E L V A L F V L S .............................................. gccctccttgtcttttatcctcaaaaacagtataatggagaaaagaatttgaaagttctctaaatagttttaggaggattgctggcagaaaatcttgtccgtttgagtagcgccttgcttacatttgtaggagccatgacttatctagagctagttgctttgtttgtccttagctagaaatcaattttaagaggtatcaaaattgggaattagtgaaacc 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: 86 Start: 7 End: 36 ......CTTGTCTTTTATCCTCAAAAACAGTATAAT........................................................................................................................................................................................ Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ gccctccttgtcttttatcctcaaaaacagtataatggagaaaagaatttgaaagttctctaaatagttttaggaggattgctggcagaaaatcttgtccgtttgagtagcgccttgcttacatttgtaggagccatgacttatctagagctagttgctttgtttgtccttagctagaaatcaattttaagaggtatcaaaattgggaattagtgaaacc Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SSA_0729:SSA_0730|SSA_0729:SSA_0730:hypothetical protein:Arsenical resistance operon transcription repressor (ArsR), putative:->->:714738..714957 220 gccctccttgtcttttatcctcaaaaacagtataatggagaaaagaatttgaaagttctctaaatagttttaggaggattgctggcagaaaatcttgtccgtttgagtagcgccttgcttacatttgtaggagccatgacttatctagagctagttgctttgtttgtccttagctagaaatcaattttaagaggtatcaaaattgggaattagtgaaacc Intra-Species Hit: Count: 1 Min: 1 Max: 220 Len: 220 Subject: NC_009009_SSA_0729_SSA_0730|hypothetical protein:Arsenical resistance operon transcription repressor (ArsR), putative|POSITIVE:POSITIVE|[714738,714957]|220 HSP 1 e-value: 1.0E-121 bit: 436.0 Len: 220 Query Start:1 Query End:220 Subject Strand: POSITIVE Subject Start: 1 Subject End: 220 gccctccttgtcttttatcctcaaaaacagtataatggagaaaagaatttgaaagttctctaaatagttttaggaggattgctggcagaaaatcttgtccgtttgagtagcgccttgcttacatttgtaggagccatgacttatctagagctagttgctttgtttgtccttagctagaaatcaattttaagaggtatcaaaattgggaattagtgaaacc gccctccttgtcttttatcctcaaaaacagtataatggagaaaagaatttgaaagttctctaaatagttttaggaggattgctggcagaaaatcttgtccgtttgagtagcgccttgcttacatttgtaggagccatgacttatctagagctagttgctttgtttgtccttagctagaaatcaattttaagaggtatcaaaattgggaattagtgaaacc Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GCCCUCCUUGUCUUUUAUCCUCAAAAACAGUAUAAUGGAGAAAAGAAUUUGAAAGUUCUCUAAAUAGUUUUAGGAGGAUUGCUGGCAGAAAAUCUUGUCCGUUUGAGUAGCGCCUUGCUUACAUUUGUAGGAGCCAUGACUUAUCUAGAGCUAGUUGCUUUGUUUGUCCUUAGCUAGAAAUCAAUUUUAAGAGGUAUCAAAAUUGGGAAUUAGUGAAACC .(((......((((((.(((................))).)))))).(((((.(.((((..((((..((((((((((((.((.(((((......))))).)).(((((...(((((((........))))).))....)))))..((((((.....))))))...))))))..))))))....))))..)))).).)))))...)))............. (-46.49) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GGUUUCACUAAUUCCCAAUUUUGAUACCUCUUAAAAUUGAUUUCUAGCUAAGGACAAACAAAGCAACUAGCUCUAGAUAAGUCAUGGCUCCUACAAAUGUAAGCAAGGCGCUACUCAAACGGACAAGAUUUUCUGCCAGCAAUCCUCCUAAAACUAUUUAGAGAACUUUCAAAUUCUUUUCUCCAUUAUACUGUUUUUGAGGAUAAAAGACAAGGAGGGC ...............(((((((((......))))))))).......(((..(......)..))).....(((.((((.(((((.((..(((.......(((.((.....)))))......))))).)))))))))..)))..(((((((...........(((....)))....((((((.(((.(((.........)))))).))))))..))))))). (-38.22) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 355 121 81 188 144 NC_009009:SSA_1864|5end_Nicotinate_phosphoribosyltransferase_(NAPRTase),_subgroup_A,_putative_1860870..1861100_NEGATIVE 350 118 73 230 174 NC_009009:SSA_0653|5end_UDP-N-acetylglucosamine--N-acetylmuramyl-_(pentapeptide)_pyrophosphoryl-undecaprenol_N-acetylglucosamine_transferase,_putative_636390..636620_POSITIVE 342 140 91 184 134 NC_009009:SSA_1649|5end_hypothetical_protein_1648886..1649116_NEGATIVE 321 120 78 101 46 NC_009009:SSA_1904|5end_ABC-type_multidrug_transport_system,_permease_component,_putative_1899279..1899509_NEGATIVE 320 136 95 62 21 NC_009009:SSA_0834|5end_Accessory_secretory_protein_Asp2,_putative_819510..819740_POSITIVE 315 176 140 168 134 NC_009009:SSA_2217|5end_Cps9H,_putative_2219045..2219275_NEGATIVE 311 175 131 185 138 NC_009009:SSA_1153|5end_HemK_protein,_putative_1181838..1182068_POSITIVE 310 176 133 90 45 NC_009009:SSA_1175|5end_Acetoin_dehydrogenase_complex,_E2_component,_dihydrolipoamide_acetyltransferase,_putative_1203976..1204206_NEGATIVE 309 123 84 51 2 NC_009009:SSA_0883|5end_Glycerate_kinase,_putative_877560..877790_POSITIVE 309 129 81 74 16 NC_009009:SSA_0143|5end_Conserved_uncharacterized_protein_137465..137695_POSITIVE 305 120 71 149 103 NC_009009:SSA_0954|5end_hypothetical_protein_958024..958254_POSITIVE 301 175 131 51 1 NC_009009:SSA_2175|5end_hypothetical_protein_2174042..2174272_NEGATIVE 301 117 74 224 180 NC_009009:SSA_1742|5end_Ferrichrome-binding_protein,_putative_1728872..1729102_POSITIVE 300 120 77 225 161 NC_009009:SSA_2038|5end_hypothetical_protein_2041627..2041857_POSITIVE 300 118 72 200 155 NC_009009:SSA_1584|5end_Ring-cleavage_extradiol_dioxygenase,_putative_1587030..1587260_NEGATIVE 299 114 72 192 135 NC_009009:SSA_2277|5end_DNA_segregation_ATPase_FtsK/SpoIIIE_family_protein,_putative_2280407..2280637_NEGATIVE 296 100 55 230 183 NC_009009:SSA_2020|5end_hypothetical_protein_2019284..2019514_POSITIVE 296 158 119 73 37 NC_009009:SSA_1661|5end_hypothetical_protein_1658004..1658234_NEGATIVE 295 140 98 214 172 NC_009009:SSA_1780|5end_Tyrosine_recombinase_xerD,_putative_1767147..1767377_NEGATIVE 293 119 72 192 135 NC_009009:SSA_1076|5end_hypothetical_protein_1094227..1094457_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 355 121 81 80 36 NC_009009:SSA_1865|3end_Thioredoxin_reductase,_putative_1860978..1861128_NEGATIVE 321 120 78 104 49 NC_009009:SSA_1905|3end_ABC-type_multidrug_transport_system,_ATPase_component,_putative_1899276..1899426_NEGATIVE 320 136 95 72 31 NC_009009:SSA_0833|3end_Accessory_secretory_protein_Asp1,_putative_819600..819750_POSITIVE 315 176 140 90 56 NC_009009:SSA_2218|3end_Glycosyltransferase_(cell_wall_biogenesis)_Cps9G,_putative_2219123..2219273_NEGATIVE 307 179 132 73 6 NC_009009:SSA_2239|3end_Conserved_uncharacterized_cytosolic_protein_2236922..2237072_NEGATIVE 307 138 93 150 98 NC_009009:SSA_0418|3end_AraC-type_DNA-binding_domain-containing_protein,_putative_416184..416334_POSITIVE 305 120 71 140 94 NC_009009:SSA_0952|3end_hypothetical_protein_958095..958245_POSITIVE 303 117 72 136 79 NC_009009:SSA_1007|3end_ABC_transporter_ATP-binding_protein-multiple_sugar_transport,_putative_1009759..1009909_POSITIVE 301 117 74 144 100 NC_009009:SSA_1741|3end_ABC-type_Fe3+-siderophores_transporter,_ATPase_component,_putative_1728872..1729022_POSITIVE 290 136 94 107 54 NC_009009:SSA_1236|3end_Mutator_protein,_putative_1261240..1261390_NEGATIVE 287 45 1 77 38 NC_009009:SSA_0667|3end_Transcriptional_regulator,_putative_650757..650907_POSITIVE 285 140 93 135 89 NC_009009:SSA_0065|3end_Low_molecular_weight_phosphotyrosine_protein_phosphatase,_putative_67677..67827_POSITIVE 283 119 71 80 24 NC_009009:SSA_1375|3end_Multidrug_ABC_transporter,_ATPase_and_permease_components,_putative_1393085..1393235_NEGATIVE 283 170 126 111 50 NC_009009:SSA_0714|3end_hypothetical_protein_700649..700799_POSITIVE 277 111 74 55 15 NC_009009:SSA_0597|3end_hypothetical_protein_588563..588713_POSITIVE 274 127 81 97 48 NC_009009:SSA_0470|3end_Precorrin-4_methylase,_putative_473732..473882_POSITIVE 273 137 94 74 27 NC_009009:SSA_0495|3end_ABC-type_oligopeptide/nickel_transport_system,_ATPase_component,_putative_496036..496186_POSITIVE 273 114 72 117 64 NC_009009:SSA_0186|3end_Competence_protein_ComYC,_putative_190458..190608_POSITIVE 272 120 81 55 8 NC_009009:SSA_0315|3end_Transcriptional_regulator,_MarR_family,_putative_310646..310796_POSITIVE 271 169 125 72 16 NC_009009:SSA_2275|3end_hypothetical_protein_2275225..2275375_NEGATIVE