Origin IGS: ctttctcattcctttgttataatagatttatgaataccttgttcattatcattatccactaaaactcaaagaaaggatagaagcaaaacgtcagctttattcatttctgaacaatttgcctcaagtgtccat .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 atggacacttgaggcaaattgttcagaaatgaataaagctgacgttttgcttctatcctttctttgagttttagtggataatgataatgaacaaggtattcataaatctattataacaaaggaatgagaaag Mask Tandem Repeat Region ================================================ ctttctcattcctttgttataatagatttatgaataccttgttcattatcattatccactaaaactcaaagaaaggatagaagcaaaacgtcagctttattcatttctgaacaatttgcctcaagtgtccat Find is-nt database================================================ Query_seq: SMT_1019:SMT_1020|SMT_1019:SMT_1020:K03295 cation efflux system protein, CDF family:transcriptional regulator, TetR family:<-->:955763..955894 132 ctttctcattcctttgttataatagatttatgaataccttgttcattatcattatccactaaaactcaaagaaaggatagaagcaaaacgtcagctttattcatttctgaacaatttgcctcaagtgtccat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_1019:SMT_1020|SMT_1019:SMT_1020:K03295 cation efflux system protein, CDF family:transcriptional regulator, TetR family:<-->:955763..955894 132 ctttctcattcctttgttataatagatttatgaataccttgttcattatcattatccactaaaactcaaagaaaggatagaagcaaaacgtcagctttattcatttctgaacaatttgcctcaagtgtccat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_1019:SMT_1020|SMT_1019:SMT_1020:K03295 cation efflux system protein, CDF family:transcriptional regulator, TetR family:<-->:955763..955894 132 ctttctcattcctttgttataatagatttatgaataccttgttcattatcattatccactaaaactcaaagaaaggatagaagcaaaacgtcagctttattcatttctgaacaatttgcctcaagtgtccat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ctttctcattcctttgttataatagatttatgaataccttgttcattatcattatccactaaaactcaaagaaaggatagaagcaaaacgtcagctttattcatttctgaacaatttgcctcaagtgtccat Predict ORF larger than 30AA ================================================ Protein_Len: 35 Strand: + Start: 26 End: 130 ......................... M Y E Y L V H Y H Y P L K L K E R I E A K R Q L Y S F L N N L P Q V S .. Protein_Len: 33 Strand: + Start: 34 End: 132 ................................. M P C S L S L S T K T Q R K D R S K T S A L F I S E Q F A S S V H ctttctcattcctttgttataatagatttatgaataccttgttcattatcattatccactaaaactcaaagaaaggatagaagcaaaacgtcagctttattcatttctgaacaatttgcctcaagtgtccat 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================================================ ctttctcattcctttgttataatagatttatgaataccttgttcattatcattatccactaaaactcaaagaaaggatagaagcaaaacgtcagctttattcatttctgaacaatttgcctcaagtgtccat Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SMT_1019:SMT_1020|SMT_1019:SMT_1020:K03295 cation efflux system protein, CDF family:transcriptional regulator, TetR family:<-->:955763..955894 132 ctttctcattcctttgttataatagatttatgaataccttgttcattatcattatccactaaaactcaaagaaaggatagaagcaaaacgtcagctttattcatttctgaacaatttgcctcaagtgtccat Intra-Species Hit: Count: 1 Min: 1 Max: 132 Len: 132 Subject: smit_SMT_1019_SMT_1020|K03295 cation efflux system protein, CDF family:transcriptional regulator, TetR family|NEGATIVE:POSITIVE|[955763,955894]|132 HSP 1 e-value: 3.0E-69 bit: 262.0 Len: 132 Query Start:1 Query End:132 Subject Strand: POSITIVE Subject Start: 1 Subject End: 132 ctttctcattcctttgttataatagatttatgaataccttgttcattatcattatccactaaaactcaaagaaaggatagaagcaaaacgtcagctttattcatttctgaacaatttgcctcaagtgtccat ctttctcattcctttgttataatagatttatgaataccttgttcattatcattatccactaaaactcaaagaaaggatagaagcaaaacgtcagctttattcatttctgaacaatttgcctcaagtgtccat Inter-species Hit: Count: 3 Min: 2 Max: 132 Len: 131 Subject: NC_008533_SPD_1638_SPD_1639|cation efflux system protein:transcriptional regulator, TetR family protein|NEGATIVE:POSITIVE|[1653043,1653174]|132 HSP 1 e-value: 1.0E-61 bit: 236.0 Len: 131 Query Start:2 Query End:132 Subject Strand: POSITIVE Subject Start: 2 Subject End: 132 .tttctcattcctttgttataatagatttatgaataccttgttcattatcattatccactaaaactcaaagaaaggatagaagcaaaacgtcagctttattcatttctgaacaatttgcctcaagtgtccat .tttctcattcctttgttataatagatttatgaacaccttgttcattatcattatccactaaaactcaaagaaaggatagaagcaaaacgtcagctttattcagttctgaacaatttgccttaagtgtccat Subject: NC_003098_spr1672_spr1673|Cation diffusion facilitator transporter - heavy metal transport:hypothetical protein|NEGATIVE:POSITIVE|[1645521,1645643]|123 HSP 1 e-value: 9.0E-57 bit: 220.0 Len: 123 Query Start:10 Query End:132 Subject Strand: POSITIVE Subject Start: 1 Subject End: 123 .........tcctttgttataatagatttatgaataccttgttcattatcattatccactaaaactcaaagaaaggatagaagcaaaacgtcagctttattcatttctgaacaatttgcctcaagtgtccat .........tcctttgttataatagatttatgaacaccttgttcattatcattatccactaaaactcaaagaaaggatagaagcaaaacgtcagctttattcagttctgaacaatttgccttaagtgtccat Subject: NC_003028_SP_1857_SP_1858|cation efflux system protein:transcriptional regulator, TetR family|NEGATIVE:POSITIVE|[1765479,1765601]|123 HSP 1 e-value: 9.0E-57 bit: 220.0 Len: 123 Query Start:10 Query End:132 Subject Strand: POSITIVE Subject Start: 1 Subject End: 123 .........tcctttgttataatagatttatgaataccttgttcattatcattatccactaaaactcaaagaaaggatagaagcaaaacgtcagctttattcatttctgaacaatttgcctcaagtgtccat .........tcctttgttataatagatttatgaacaccttgttcattatcattatccactaaaactcaaagaaaggatagaagcaaaacgtcagctttattcagttctgaacaatttgccttaagtgtccat Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUCUCAUUCCUUUGUUAUAAUAGAUUUAUGAAUACCUUGUUCAUUAUCAUUAUCCACUAAAACUCAAAGAAAGGAUAGAAGCAAAACGUCAGCUUUAUUCAUUUCUGAACAAUUUGCCUCAAGUGUCCAU ..........(((((..(((((.(((..((((((.....)))))).))))))))...........)))))...(((((((.(((((...((((............))))....))))).))...))))).. (-20.22) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUGGACACUUGAGGCAAAUUGUUCAGAAAUGAAUAAAGCUGACGUUUUGCUUCUAUCCUUUCUUUGAGUUUUAGUGGAUAAUGAUAAUGAACAAGGUAUUCAUAAAUCUAUUAUAACAAAGGAAUGAGAAA ..(((.....(((((((((((((((....))))))).........))))))))..))).((((((..(((.((((((((.((((...............))))..)))))))).))).))))))....... (-28.56) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 850 130 81 222 173 smit:SMT_1019|5end_K03295_cation_efflux_system_protein,_CDF_family_955672..955902_NEGATIVE 309 127 83 226 188 smit:SMT_218|5end_undecaprenyl_pyrophosphate_synthetase_150155..150385_POSITIVE 304 107 61 189 127 smit:SMT_139|5end_hypothetical_protein_90523..90753_POSITIVE 282 130 88 49 2 smit:SMT_453|5end_CopAB_ATPase_metal-fist_type_repressor_390883..391113_POSITIVE 272 129 94 151 106 smit:SMT_498|5end_hypothetical_protein_431751..431981_POSITIVE 262 49 5 94 51 smit:SMT_580|5end_K04094_glucose_inhibited_division_protein_Gid_497421..497651_POSITIVE 260 126 83 222 185 smit:SMT_1592|5end_putative_hemolysin_1579655..1579885_POSITIVE 260 126 83 214 177 smit:SMT_1026|5end_sucrose_phosphorylase_962324..962554_NEGATIVE 237 130 88 131 84 smit:SMT_1857|5end_hypothetical_protein_1820931..1821161_POSITIVE 237 130 88 131 84 smit:SMT_834|5end_hypothetical_protein_777112..777342_NEGATIVE 234 96 55 231 186 smit:SMT_2057|5end_cell_division_protein_FtsH_1967283..1967513_NEGATIVE 234 126 81 118 72 smit:SMT_1537|5end_hypothetical_protein_1522668..1522898_NEGATIVE 234 96 55 231 186 smit:SMT_101|5end_cell_division_protein_32029..32259_POSITIVE 229 124 82 98 63 smit:SMT_1791|5end_hypothetical_protein_1765907..1766137_POSITIVE 225 130 82 50 3 smit:SMT_784|5end_hypothetical_protein_696298..696528_NEGATIVE 225 129 82 53 4 smit:SMT_372|5end_valyl-tRNA_synthetase_305819..306049_POSITIVE 223 121 83 172 143 smit:SMT_1783|5end_peptide_methionine_sulfoxide_reductase_1759756..1759986_POSITIVE 221 130 82 198 143 smit:SMT_1425|5end_hypothetical_protein_1410805..1411035_NEGATIVE 220 79 32 129 78 smit:SMT_749|5end_shikimate_kinase_653971..654201_NEGATIVE 219 126 88 101 64 smit:SMT_1723|5end_hypothetical_protein_1709081..1709311_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 272 129 94 130 85 smit:SMT_497|3end_hypothetical_protein_431810..431960_POSITIVE 249 126 87 32 1 smit:SMT_451|3end_thiamine-phosphate_pyrophosphorylase_389647..389797_POSITIVE 237 130 88 119 72 smit:SMT_1856|3end_polypeptide_deformylase_1820999..1821149_POSITIVE 237 127 88 37 6 smit:SMT_1625|3end_DNA_polymerase_IV_1615066..1615216_POSITIVE 237 130 88 119 72 smit:SMT_835|3end_polypeptide_deformylase_777124..777274_NEGATIVE 234 126 81 117 71 smit:SMT_1538|3end_two-component_response_regulator_YvqC_1522669..1522819_NEGATIVE 225 129 82 60 11 smit:SMT_381|3end_hypothetical_protein_317437..317587_POSITIVE 225 129 82 60 11 smit:SMT_371|3end_hypothetical_protein_305906..306056_POSITIVE 223 121 83 76 47 smit:SMT_1782|3end_hypothetical_protein_1759740..1759890_POSITIVE 221 130 82 139 84 smit:SMT_1426|3end_K03095_SprT-like_protein_1410864..1411014_NEGATIVE 220 79 32 136 85 smit:SMT_750|3end_3-phosphoshikimate_1-carboxyvinyltransferase_653964..654114_NEGATIVE 216 97 55 59 11 smit:SMT_1455|3end_deoxyribose-phosphate_aldolase_1437873..1438023_NEGATIVE 216 91 74 61 43 smit:SMT_634|3end_ribonucleoside-diphosphate_reductase_alpha_chain_540618..540768_POSITIVE 215 129 88 116 66 smit:SMT_2081|3end_glycosyltransferase_1981336..1981486_POSITIVE 213 118 88 140 111 smit:SMT_852|3end_K03978_GTP-binding_protein_797457..797607_NEGATIVE 212 129 87 119 76 smit:SMT_1588|3end_UDP-N-acetylglucosamine_1-carboxyvinyltransferase_1578425..1578575_POSITIVE 212 107 73 49 4 smit:SMT_138|3end_tRNA_(5-methylaminomethyl-2-thiouridylate)-methyltransferase_90463..90613_POSITIVE 211 96 54 116 65 smit:SMT_741|3end_K06147_ATP-binding_cassette,_subfamily_B,_bacterial_644314..644464_NEGATIVE 208 107 67 101 65 smit:SMT_516|3end_hypothetical_protein_442527..442677_NEGATIVE 207 85 47 58 15 smit:SMT_141|3end_K03495_glucose_inhibited_division_protein_A_93401..93551_POSITIVE