Origin IGS: gattgaacagtccttaggggctgtttttctatgctttttactaaaaaatctaaagtttgtttctgtatctttcaggaaaatagggtatactatatgtaaacgatttcaaaggagtccagtt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aactggactcctttgaaatcgtttacatatagtataccctattttcctgaaagatacagaaacaaactttagattttttagtaaaaagcatagaaaaacagcccctaaggactgttcaatc Mask Tandem Repeat Region ================================================ gattgaacagtccttaggggctgtttttctatgctttttactaaaaaatctaaagtttgtttctgtatctttcaggaaaatagggtatactatatgtaaacgatttcaaaggagtccagtt Find is-nt database================================================ Query_seq: SMT_121:SMT_122|SMT_121:SMT_122:hypothetical protein:hypothetical protein:->->:74475..74595 121 gattgaacagtccttaggggctgtttttctatgctttttactaaaaaatctaaagtttgtttctgtatctttcaggaaaatagggtatactatatgtaaacgatttcaaaggagtccagtt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_121:SMT_122|SMT_121:SMT_122:hypothetical protein:hypothetical protein:->->:74475..74595 121 gattgaacagtccttaggggctgtttttctatgctttttactaaaaaatctaaagtttgtttctgtatctttcaggaaaatagggtatactatatgtaaacgatttcaaaggagtccagtt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_121:SMT_122|SMT_121:SMT_122:hypothetical protein:hypothetical protein:->->:74475..74595 121 gattgaacagtccttaggggctgtttttctatgctttttactaaaaaatctaaagtttgtttctgtatctttcaggaaaatagggtatactatatgtaaacgatttcaaaggagtccagtt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gattgaacagtccttaggggctgtttttctatgctttttactaaaaaatctaaagtttgtttctgtatctttcaggaaaatagggtatactatatgtaaacgatttcaaaggagtccagtt Predict ORF larger than 30AA ================================================ Protein_Len: 40 Strand: + Start: 2 End: 121 . M E Q S L G A V F L C F L L K N L K F V S V S F R K I G Y T I C K R F Q R S P V Protein_Len: 31 Strand: - Start: 1 End: 93 I S C D K P A T K R H K K S F F R F N T E T D K L F I P Y V M ............................ gattgaacagtccttaggggctgtttttctatgctttttactaaaaaatctaaagtttgtttctgtatctttcaggaaaatagggtatactatatgtaaacgatttcaaaggagtccagtt 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================================================ gattgaacagtccttaggggctgtttttctatgctttttactaaaaaatctaaagtttgtttctgtatctttcaggaaaatagggtatactatatgtaaacgatttcaaaggagtccagtt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SMT_121:SMT_122|SMT_121:SMT_122:hypothetical protein:hypothetical protein:->->:74475..74595 121 gattgaacagtccttaggggctgtttttctatgctttttactaaaaaatctaaagtttgtttctgtatctttcaggaaaatagggtatactatatgtaaacgatttcaaaggagtccagtt Intra-Species Hit: Count: 1 Min: 1 Max: 121 Len: 121 Subject: smit_SMT_121_SMT_122|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[74475,74595]|121 HSP 1 e-value: 8.0E-63 bit: 240.0 Len: 121 Query Start:1 Query End:121 Subject Strand: POSITIVE Subject Start: 1 Subject End: 121 gattgaacagtccttaggggctgtttttctatgctttttactaaaaaatctaaagtttgtttctgtatctttcaggaaaatagggtatactatatgtaaacgatttcaaaggagtccagtt gattgaacagtccttaggggctgtttttctatgctttttactaaaaaatctaaagtttgtttctgtatctttcaggaaaatagggtatactatatgtaaacgatttcaaaggagtccagtt Inter-species Hit: Count: 2 Min: 6 Max: 121 Len: 116 Subject: NC_008533_SPD_0091_SPD_0092|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[92665,92785]|121 HSP 1 e-value: 2.0E-45 bit: 182.0 Len: 116 Query Start:6 Query End:121 Subject Strand: POSITIVE Subject Start: 6 Subject End: 121 .....aacagtccttaggggctgtttttctatgctttttactaaaaaatctaaagtttgtttctgtatctttcaggaaaatagggtatactatatgtaaacgatttcaaaggagtccagtt .....aacagtcctcaggggctgtttttctatgctttgtactcaaaaatctaaagtttgtttttgtatctttcaggaaaataaggtatactgtatgtaaacgatttcaaaggagtccagtt Subject: NC_003028_SP_0095_SP_0096|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[97857,98130]|274 HSP 1 e-value: 2.0E-23 bit: 109.0 Len: 71 Query Start:51 Query End:121 Subject Strand: POSITIVE Subject Start: 204 Subject End: 274 ..................................................taaagtttgtttctgtatctttcaggaaaatagggtatactatatgtaaacgatttcaaaggagtccagtt ..................................................taaagtttgtttttgtatctttcagaaaaataaggtatactgtatgtaaacgatttcaaaggagtccagtt HSP 2 e-value: 4.0E-12 bit: 71.9 Len: 48 Query Start:6 Query End:53 Subject Strand: POSITIVE Subject Start: 6 Subject End: 53 .....aacagtccttaggggctgtttttctatgctttttactaaaaaatctaa.................................................................... .....aacagtcctcaggggctgtttttctatgctttgtactcaaaaatctaa.................................................................... Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AACAGUCCUUAGGGGCUGUUUUUCUAUGCUUUUUACUAAAAAAUCUAAAGUUUGUUUCUGUAUCUUUCAGGAAAAUAGGGUAUACUAUAUGUAAACGAUUUCAAAGGAGUCCAGUU ((((((((....))))))))...........(((((..................((((((.......)))))).((((......))))..))))).(((((.....)))))..... (-20.80) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AACUGGACUCCUUUGAAAUCGUUUACAUAUAGUAUACCCUAUUUUCCUGAAAGAUACAGAAACAAACUUUAGAUUUUUUAGUAAAAAGCAUAGAAAAACAGCCCCUAAGGACUGUU ..........((.((.....((.(((.....))).))....((((.(((((((((.(.(((......))).)))))))))).))))..)).))...(((((((.....)).))))) (-13.60) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 237 89 44 205 158 smit:SMT_1653|5end_hydrolase_1641328..1641558_POSITIVE 228 58 11 111 65 smit:SMT_1730|5end_geranyltranstransferase_1714775..1715005_POSITIVE 225 88 44 159 111 smit:SMT_2159|5end_cell_division_protein_FtsA_2032010..2032240_POSITIVE 224 54 11 41 3 smit:SMT_2126|5end_indole-3-glycerol_phosphate_synthase_2009107..2009337_POSITIVE 224 54 11 41 3 smit:SMT_1751|5end_indole-3-glycerol_phosphate_synthase_1729012..1729242_POSITIVE 216 29 11 55 35 smit:SMT_413|5end_tRNA_delta(2)-isopentenylpyrophosphate_transferase_356677..356907_POSITIVE 212 37 6 137 99 smit:SMT_1666|5end_hypothetical_protein_1657467..1657697_NEGATIVE 203 32 3 195 162 smit:SMT_313|5end_3R-hydroxymyristoyl_ACP_dehydrase_253843..254073_POSITIVE 201 86 41 185 123 smit:SMT_1971|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1903282..1903512_POSITIVE 201 86 41 158 96 smit:SMT_1219|5end_hypothetical_protein_1179392..1179622_POSITIVE 200 30 11 223 202 smit:SMT_2127|5end_exodeoxyribonuclease_V_alpha_chain_2009306..2009536_POSITIVE 198 46 4 145 107 smit:SMT_1852|5end_1,4-alpha-glucan_branching_enzyme_1817690..1817920_NEGATIVE 196 38 4 137 108 smit:SMT_359|5end_transcription_termination-antitermination_factor_294470..294700_POSITIVE 195 34 3 102 58 smit:SMT_1639|5end_glycerol-3-phosphate_dehydrogenase_(NAD(P)+)_1625819..1626049_NEGATIVE 195 100 51 61 15 smit:SMT_817|5end_aminotransferase_728699..728929_NEGATIVE 195 34 2 228 196 smit:SMT_662|5end_A/G-specific_adenine_glycosylase_573827..574057_NEGATIVE 193 110 67 175 133 smit:SMT_266|5end_S-adenosyl-methyltransferase_204190..204420_POSITIVE 192 29 1 78 53 smit:SMT_1955|5end_carbamoyl-phosphate_synthase_small_chain_1889408..1889638_NEGATIVE 192 107 66 141 100 smit:SMT_1624|5end_formate_acetyltransferase_1613772..1614002_NEGATIVE 192 44 12 211 178 smit:SMT_1123|5end_hypothetical_protein_1059292..1059522_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 353 34 1 101 62 smit:SMT_141|3end_K03495_glucose_inhibited_division_protein_A_93401..93551_POSITIVE 301 24 1 89 67 smit:SMT_861|3end_adenine_phosphoribosyltransferase_805193..805343_NEGATIVE 300 37 4 121 86 smit:SMT_341|3end_ThiJ/PfpI_family_protein_281681..281831_POSITIVE 281 29 1 96 66 smit:SMT_121|3end_hypothetical_protein_74414..74564_POSITIVE 267 32 1 92 59 smit:SMT_142|3end_hypothetical_protein_93409..93559_NEGATIVE 242 18 2 42 22 smit:SMT_2029|3end_acetyltransferase,_GNAT_family_1944284..1944434_POSITIVE 242 18 2 42 22 smit:SMT_1755|3end_acetyltransferase,_GNAT_family_1733577..1733727_POSITIVE 228 58 11 114 68 smit:SMT_1729|3end_exodeoxyribonuclease_VII_small_subunit_1714858..1715008_POSITIVE 225 99 51 142 90 smit:SMT_784|3end_hypothetical_protein_695402..695552_NEGATIVE 224 54 11 44 6 smit:SMT_1750|3end_anthranilate_phosphoribosyltransferase_1729095..1729245_POSITIVE 219 57 11 120 64 smit:SMT_1983|3end_glycerophosphoryl_diester_phosphodiesterase_1913455..1913605_NEGATIVE 198 46 4 148 110 smit:SMT_1853|3end_1,4-alpha-glucan_branching_enzyme_1817687..1817837_NEGATIVE 197 37 6 95 53 smit:SMT_1027|3end_K02026_multiple_sugar_transport_system_permease_protein_962641..962791_NEGATIVE 196 38 4 93 64 smit:SMT_358|3end_hypothetical_protein_294506..294656_POSITIVE 195 100 51 53 7 smit:SMT_818|3end_cystathionine_gamma-synthase_728707..728857_NEGATIVE 195 34 2 39 7 smit:SMT_663|3end_phosphate_acetyltransferase_574016..574166_NEGATIVE 193 34 3 132 95 smit:SMT_570|3end_hypothetical_protein_489179..489329_POSITIVE 190 69 27 109 57 smit:SMT_1609|3end_hypothetical_protein_1598654..1598804_POSITIVE 190 46 3 81 33 smit:SMT_1119|3end_alcohol_dehydrogenase,_zinc-containing_1055294..1055444_NEGATIVE 190 31 9 110 82 smit:SMT_975|3end_hypothetical_protein_924106..924256_POSITIVE