Origin IGS: tataccaaaaatcaagcaaaatattcatcgtcttctgctctgttcatctcctgacaagaaatctatctctatacaataagaactttttagaaaatttcacatagtccttaagactgattttatcatttttcgatattttcttattgattatcgataaaacttgtgctatagttactaagaaatgaaacgttagtcggaggaaatt .........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 aatttcctccgactaacgtttcatttcttagtaactatagcacaagttttatcgataatcaataagaaaatatcgaaaaatgataaaatcagtcttaaggactatgtgaaattttctaaaaagttcttattgtatagagatagatttcttgtcaggagatgaacagagcagaagacgatgaatattttgcttgatttttggtata Mask Tandem Repeat Region ================================================ tataccaaaaatcaagcaaaatattcatcgtcttctgctctgttcatctcctgacaagaaatctatctctatacaataagaactttttagaaaatttcacatagtccttaagactgattttatcatttttcgatattttcttattgattatcgataaaacttgtgctatagttactaagaaatgaaacgttagtcggaggaaatt Find is-nt database================================================ Query_seq: SSA_2129:SSA_2130|SSA_2129:SSA_2130:Arsenical resistance operon transcription repressor (ArsR), putative:hypothetical protein:<-->:2133399..2133603 205 tataccaaaaatcaagcaaaatattcatcgtcttctgctctgttcatctcctgacaagaaatctatctctatacaataagaactttttagaaaatttcacatagtccttaagactgattttatcatttttcgatattttcttattgattatcgataaaacttgtgctatagttactaagaaatgaaacgttagtcggaggaaatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SSA_2129:SSA_2130|SSA_2129:SSA_2130:Arsenical resistance operon transcription repressor (ArsR), putative:hypothetical protein:<-->:2133399..2133603 205 tataccaaaaatcaagcaaaatattcatcgtcttctgctctgttcatctcctgacaagaaatctatctctatacaataagaactttttagaaaatttcacatagtccttaagactgattttatcatttttcgatattttcttattgattatcgataaaacttgtgctatagttactaagaaatgaaacgttagtcggaggaaatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SSA_2129:SSA_2130|SSA_2129:SSA_2130:Arsenical resistance operon transcription repressor (ArsR), putative:hypothetical protein:<-->:2133399..2133603 205 tataccaaaaatcaagcaaaatattcatcgtcttctgctctgttcatctcctgacaagaaatctatctctatacaataagaactttttagaaaatttcacatagtccttaagactgattttatcatttttcgatattttcttattgattatcgataaaacttgtgctatagttactaagaaatgaaacgttagtcggaggaaatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tataccaaaaatcaagcaaaatattcatcgtcttctgctctgttcatctcctgacaagaaatctatctctatacaataagaactttttagaaaatttcacatagtccttaagactgattttatcatttttcgatattttcttattgattatcgataaaacttgtgctatagttactaagaaatgaaacgttagtcggaggaaatt Predict ORF larger than 30AA ================================================ Protein_Len: 41 Strand: - Start: 47 End: 169 .............................................. R R V L F R D R Y L L F K K S F K V Y D K L S I K D N K S I K K N I I S L V Q A M .................................... tataccaaaaatcaagcaaaatattcatcgtcttctgctctgttcatctcctgacaagaaatctatctctatacaataagaactttttagaaaatttcacatagtccttaagactgattttatcatttttcgatattttcttattgattatcgataaaacttgtgctatagttactaagaaatgaaacgttagtcggaggaaatt 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: 83 Start: 143 End: 172 ..............................................................................................................................................ATTGATTATCGATAAAACTTGTGCTATAGT................................. Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ tataccaaaaatcaagcaaaatattcatcgtcttctgctctgttcatctcctgacaagaaatctatctctatacaataagaactttttagaaaatttcacatagtccttaagactgattttatcatttttcgatattttcttattgattatcgataaaacttgtgctatagttactaagaaatgaaacgttagtcggaggaaatt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SSA_2129:SSA_2130|SSA_2129:SSA_2130:Arsenical resistance operon transcription repressor (ArsR), putative:hypothetical protein:<-->:2133399..2133603 205 tataccaaaaatcaagcaaaatattcatcgtcttctgctctgttcatctcctgacaagaaatctatctctatacaataagaactttttagaaaatttcacatagtccttaagactgattttatcatttttcgatattttcttattgattatcgataaaacttgtgctatagttactaagaaatgaaacgttagtcggaggaaatt Intra-Species Hit: Count: 1 Min: 1 Max: 205 Len: 205 Subject: NC_009009_SSA_2129_SSA_2130|Arsenical resistance operon transcription repressor (ArsR), putative:hypothetical protein|NEGATIVE:POSITIVE|[2133399,2133603]|205 HSP 1 e-value: 1.0E-112 bit: 406.0 Len: 205 Query Start:1 Query End:205 Subject Strand: POSITIVE Subject Start: 1 Subject End: 205 tataccaaaaatcaagcaaaatattcatcgtcttctgctctgttcatctcctgacaagaaatctatctctatacaataagaactttttagaaaatttcacatagtccttaagactgattttatcatttttcgatattttcttattgattatcgataaaacttgtgctatagttactaagaaatgaaacgttagtcggaggaaatt tataccaaaaatcaagcaaaatattcatcgtcttctgctctgttcatctcctgacaagaaatctatctctatacaataagaactttttagaaaatttcacatagtccttaagactgattttatcatttttcgatattttcttattgattatcgataaaacttgtgctatagttactaagaaatgaaacgttagtcggaggaaatt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAUACCAAAAAUCAAGCAAAAUAUUCAUCGUCUUCUGCUCUGUUCAUCUCCUGACAAGAAAUCUAUCUCUAUACAAUAAGAACUUUUUAGAAAAUUUCACAUAGUCCUUAAGACUGAUUUUAUCAUUUUUCGAUAUUUUCUUAUUGAUUAUCGAUAAAACUUGUGCUAUAGUUACUAAGAAAUGAAACGUUAGUCGGAGGAAAUU ................................(((((....((((.((....))..(((........))).........))))....)))))............(((((..(((((((.((.(((((((((((((...((.....)).))))))...((((........)))).....))))))))).))))))).))))).... (-30.40) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAUUUCCUCCGACUAACGUUUCAUUUCUUAGUAACUAUAGCACAAGUUUUAUCGAUAAUCAAUAAGAAAAUAUCGAAAAAUGAUAAAAUCAGUCUUAAGGACUAUGUGAAAUUUUCUAAAAAGUUCUUAUUGUAUAGAGAUAGAUUUCUUGUCAGGAGAUGAACAGAGCAGAAGACGAUGAAUAUUUUGCUUGAUUUUUGGUAUA ...........(((((...((((((((((..........(.(((((.((((((..((..(((((((((..(((((.....))))).....((((.....))))....................)))))))))..))..))))))...))))))))))))))))..((((((((...........)))))))).....)))))... (-39.40) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 871 70 21 161 112 NC_009009:SSA_2129|5end_Arsenical_resistance_operon_transcription_repressor_(ArsR),_putative_2133308..2133538_NEGATIVE 284 55 15 127 71 NC_009009:SSA_1302|5end_tRNA_(Guanine-N(1)-)-methyltransferase,_putative_1322484..1322714_NEGATIVE 277 72 34 55 19 NC_009009:SSA_0923|5end_Transcriptional_regulator,_TetR/AcrR_family,_putative_933010..933240_POSITIVE 277 70 22 145 93 NC_009009:SSA_0526|5end_hypothetical_protein_523960..524190_POSITIVE 267 70 30 128 76 NC_009009:SSA_2227|5end_Acetyl_transferase,_putative_2228261..2228491_NEGATIVE 267 50 4 107 59 NC_009009:SSA_1665|5end_hypothetical_protein_1665353..1665583_NEGATIVE 263 62 23 162 113 NC_009009:SSA_2159|5end_hypothetical_protein_2159621..2159851_NEGATIVE 256 52 11 104 50 NC_009009:SSA_0703|5end_Citrate_synthase,_putative_688154..688384_POSITIVE 254 49 21 216 184 NC_009009:SSA_0153|5end_hypothetical_protein_148677..148907_POSITIVE 252 74 34 183 137 NC_009009:SSA_1795|5end_Guanosine_3',5'-bis-pyrophosphate_(ppGpp)_synthetase,_putative_1777671..1777901_NEGATIVE 247 55 14 178 126 NC_009009:SSA_1571|5end_Threonyl-tRNA_synthetase,_putative_1575154..1575384_NEGATIVE 245 68 28 207 163 NC_009009:SSA_0469|5end_Precorrin-6B_methylase_2,putative_472310..472540_POSITIVE 242 56 14 231 188 NC_009009:SSA_0195|5end_hypothetical_protein_195113..195343_POSITIVE 241 57 15 125 77 NC_009009:SSA_1707|5end_Conserved_uncharacterized_protein_1697782..1698012_POSITIVE 241 60 13 168 117 NC_009009:SSA_1450|5end_hypothetical_protein_1452710..1452940_NEGATIVE 241 69 31 40 3 NC_009009:SSA_1303|5end_RimM_protein,_required_for_16S_rRNA_processing,_putative_1322992..1323222_NEGATIVE 241 67 23 221 161 NC_009009:SSA_0065|5end_Low_molecular_weight_phosphotyrosine_protein_phosphatase,_putative_67175..67405_POSITIVE 240 65 23 72 34 NC_009009:SSA_2053|5end_hypothetical_protein_2057747..2057977_NEGATIVE 240 63 23 165 111 NC_009009:SSA_1719|5end_Conserved_uncharacterized_protein_1706793..1707023_NEGATIVE 240 60 24 125 84 NC_009009:SSA_1321|5end_Ferrochelatase,_putative_1338343..1338573_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 284 55 15 137 81 NC_009009:SSA_1303|3end_RimM_protein,_required_for_16S_rRNA_processing,_putative_1322474..1322624_NEGATIVE 268 55 11 146 109 NC_009009:SSA_0062|3end_Aldose_1-epimerase,_putative_64858..65008_POSITIVE 267 70 30 118 66 NC_009009:SSA_2228|3end_Acetyltransferase_(GNAT)_family,_putative_2228271..2228421_NEGATIVE 267 50 4 85 37 NC_009009:SSA_1666|3end_Collagen-binding_surface_protein,_putative_1665375..1665525_NEGATIVE 256 52 11 101 47 NC_009009:SSA_0702|3end_Aconitase_A,_putative_688231..688381_POSITIVE 252 51 23 144 111 NC_009009:SSA_2160|3end_Deoxyuridinetriphosphatase,_putative_2159623..2159773_NEGATIVE 243 64 24 137 98 NC_009009:SSA_2141|3end_Argininosuccinate_lyase,_putative_2140819..2140969_NEGATIVE 242 56 14 113 70 NC_009009:SSA_0193|3end_CAAX_amino_terminal_protease_family_protein,_putative_195075..195225_POSITIVE 241 57 15 113 65 NC_009009:SSA_1706|3end_Exodeoxyribonuclease,_putative_1697850..1698000_POSITIVE 241 60 13 134 83 NC_009009:SSA_1451|3end_Exonuclease_RexA,_putative_1452744..1452894_NEGATIVE 239 69 24 111 72 NC_009009:SSA_0150|3end_hypothetical_protein_145227..145377_POSITIVE 238 48 15 118 85 NC_009009:SSA_2243|3end_Conserved_uncharacterized_protein_2238769..2238919_NEGATIVE 238 56 16 72 32 NC_009009:SSA_0897|3end_Two_component_system_histidine_kinase,_putative_889811..889961_POSITIVE 236 57 15 143 104 NC_009009:SSA_1438|3end_Acetyltransferase,_putative_1443142..1443292_NEGATIVE 234 48 9 129 82 NC_009009:SSA_1200|3end_Formate--tetrahydrofolate_ligase,_putative_1223921..1224071_NEGATIVE 232 54 11 103 53 NC_009009:SSA_1076|3end_hypothetical_protein_1095047..1095197_POSITIVE 232 57 13 119 70 NC_009009:SSA_0923|3end_Transcriptional_regulator,_TetR/AcrR_family,_putative_933698..933848_POSITIVE 231 58 17 120 92 NC_009009:SSA_1232|3end_Topoisomerase_IV_subunit_B,_putative_1254806..1254956_NEGATIVE 231 58 13 52 1 NC_009009:SSA_0451|3end_Conserved_uncharacterized_protein_451636..451786_POSITIVE 230 68 23 126 89 NC_009009:SSA_0922|3end_hypothetical_protein_932225..932375_NEGATIVE