Origin IGS: tcattcctttgtaccgtatattataaccaattccgctaaacaaggaaagaaatatgctcatttcttaattttttgataaaaaatccagccatcttatgatgactgaatttctatttgcttgtgttccaaaatctttttgctac .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 gtagcaaaaagattttggaacacaagcaaatagaaattcagtcatcataagatggctggattttttatcaaaaaattaagaaatgagcatatttctttccttgtttagcggaattggttataatatacggtacaaaggaatga Mask Tandem Repeat Region ================================================ tcattcctttgtaccgtatattataaccaattccgctaaacaaggaaagaaatatgctcatttcttaattttttgataaaaaatccagccatcttatgatgactgaatttctatttgcttgtgttccaaaatctttttgctac Find is-nt database================================================ Query_seq: SMT_1118:SMT_1119|SMT_1118:SMT_1119:hypothetical protein:alcohol dehydrogenase, zinc-containing:<-<-:1055241..1055383 143 tcattcctttgtaccgtatattataaccaattccgctaaacaaggaaagaaatatgctcatttcttaattttttgataaaaaatccagccatcttatgatgactgaatttctatttgcttgtgttccaaaatctttttgctac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_1118:SMT_1119|SMT_1118:SMT_1119:hypothetical protein:alcohol dehydrogenase, zinc-containing:<-<-:1055241..1055383 143 tcattcctttgtaccgtatattataaccaattccgctaaacaaggaaagaaatatgctcatttcttaattttttgataaaaaatccagccatcttatgatgactgaatttctatttgcttgtgttccaaaatctttttgctac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_1118:SMT_1119|SMT_1118:SMT_1119:hypothetical protein:alcohol dehydrogenase, zinc-containing:<-<-:1055241..1055383 143 tcattcctttgtaccgtatattataaccaattccgctaaacaaggaaagaaatatgctcatttcttaattttttgataaaaaatccagccatcttatgatgactgaatttctatttgcttgtgttccaaaatctttttgctac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tcattcctttgtaccgtatattataaccaattccgctaaacaaggaaagaaatatgctcatttcttaattttttgataaaaaatccagccatcttatgatgactgaatttctatttgcttgtgttccaaaatctttttgctac Predict ORF larger than 30AA ================================================ tcattcctttgtaccgtatattataaccaattccgctaaacaaggaaagaaatatgctcatttcttaattttttgataaaaaatccagccatcttatgatgactgaatttctatttgcttgtgttccaaaatctttttgctac 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: 84 Start: 20 End: 49 ...................CTTTCCTTGTTTAGCGGAATTGGTTATAAT.............................................................................................. Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ tcattcctttgtaccgtatattataaccaattccgctaaacaaggaaagaaatatgctcatttcttaattttttgataaaaaatccagccatcttatgatgactgaatttctatttgcttgtgttccaaaatctttttgctac Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 93 HP_score: -8.2 Tail_Score: -5.24129 Start: 84 End: 107 Full_Region: acaagcaaatagaaa ttcagtcatc ataa gatggctgga ttttttatcaaaaaa ...................................................................................ttcagtcatcataagatggctgga.................................... Find igs database================================================ Query_seq: SMT_1118:SMT_1119|SMT_1118:SMT_1119:hypothetical protein:alcohol dehydrogenase, zinc-containing:<-<-:1055241..1055383 143 tcattcctttgtaccgtatattataaccaattccgctaaacaaggaaagaaatatgctcatttcttaattttttgataaaaaatccagccatcttatgatgactgaatttctatttgcttgtgttccaaaatctttttgctac Intra-Species Hit: Count: 1 Min: 1 Max: 143 Len: 143 Subject: smit_SMT_1118_SMT_1119|hypothetical protein:alcohol dehydrogenase, zinc-containing|NEGATIVE:NEGATIVE|[1055241,1055383]|143 HSP 1 e-value: 8.0E-76 bit: 283.0 Len: 143 Query Start:1 Query End:143 Subject Strand: POSITIVE Subject Start: 1 Subject End: 143 tcattcctttgtaccgtatattataaccaattccgctaaacaaggaaagaaatatgctcatttcttaattttttgataaaaaatccagccatcttatgatgactgaatttctatttgcttgtgttccaaaatctttttgctac tcattcctttgtaccgtatattataaccaattccgctaaacaaggaaagaaatatgctcatttcttaattttttgataaaaaatccagccatcttatgatgactgaatttctatttgcttgtgttccaaaatctttttgctac Inter-species Hit: Count: 3 Min: 1 Max: 143 Len: 143 Subject: NC_008533_SPD_1864_SPD_1865|hypothetical protein:alcohol dehydrogenase, zinc-containing|NEGATIVE:NEGATIVE|[1843473,1843622]|150 HSP 1 e-value: 3.0E-50 bit: 198.0 Len: 143 Query Start:1 Query End:143 Subject Strand: POSITIVE Subject Start: 7 Subject End: 150 tcattcctttgtaccgtatattataaccaattccgctaaacaaggaaagaaatatgctcatttcttaattttttgataaaaaatccagccatcttat-gatgactgaatttctatttgcttgtgttccaaaatctttttgctac tcattcctttgtaccgtatattataaccaattccgccagacaaggaaagaaatatgctcatttcttaattttttgataaaaaatccagccatctgatggatgactgaatttctatttacttatgtacaaaaatatttttactac Subject: NC_003098_spr1865_spr1866|hypothetical protein:Putative alcohol dehydrogenase|NEGATIVE:NEGATIVE|[1835947,1836090]|144 HSP 1 e-value: 3.0E-50 bit: 198.0 Len: 143 Query Start:1 Query End:143 Subject Strand: POSITIVE Subject Start: 1 Subject End: 144 tcattcctttgtaccgtatattataaccaattccgctaaacaaggaaagaaatatgctcatttcttaattttttgataaaaaatccagccatcttat-gatgactgaatttctatttgcttgtgttccaaaatctttttgctac tcattcctttgtaccgtatattataaccaattccgccagacaaggaaagaaatatgctcatttcttaattttttgataaaaaatccagccatctgatggatgactgaatttctatttacttatgtacaaaaatatttttactac Subject: NC_003028_SP_2054_SP_2055|hypothetical protein:alcohol dehydrogenase, zinc-containing|NEGATIVE:NEGATIVE|[1955024,1955167]|144 HSP 1 e-value: 3.0E-50 bit: 198.0 Len: 143 Query Start:1 Query End:143 Subject Strand: POSITIVE Subject Start: 1 Subject End: 144 tcattcctttgtaccgtatattataaccaattccgctaaacaaggaaagaaatatgctcatttcttaattttttgataaaaaatccagccatcttat-gatgactgaatttctatttgcttgtgttccaaaatctttttgctac tcattcctttgtaccgtatattataaccaattccgccagacaaggaaagaaatatgctcatttcttaattttttgataaaaaatccagccatctgatggatgactgaatttctatttacttatgtacaaaaatatttttactac Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UCAUUCCUUUGUACCGUAUAUUAUAACCAAUUCCGCUAAACAAGGAAAGAAAUAUGCUCAUUUCUUAAUUUUUUGAUAAAAAAUCCAGCCAUCUUAUGAUGACUGAAUUUCUAUUUGCUUGUGUUCCAAAAUCUUUUUGCUAC .......................................(((((..(((((((......)))))))..............((((.(((.((((....)))).))).)))).......)))))..................... (-15.90) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GUAGCAAAAAGAUUUUGGAACACAAGCAAAUAGAAAUUCAGUCAUCAUAAGAUGGCUGGAUUUUUUAUCAAAAAAUUAAGAAAUGAGCAUAUUUCUUUCCUUGUUUAGCGGAAUUGGUUAUAAUAUACGGUACAAAGGAAUGA (((((.....(((((((....(((((.....(((((((((((((((....)))))))))))))))............((((((((....))))))))..)))))....))))))).)))))...................... (-30.80) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 811 130 81 221 172 smit:SMT_1118|5end_hypothetical_protein_1055150..1055380_NEGATIVE 264 128 84 90 53 smit:SMT_1043|5end_chaperonin_GroEL_985766..985996_NEGATIVE 259 99 57 139 96 smit:SMT_370|5end_acetyltransferase,_GNAT_family_304688..304918_POSITIVE 252 59 13 49 3 smit:SMT_1704|5end_D-alanine-D-alanine_ligase_1687431..1687661_POSITIVE 245 129 84 67 14 smit:SMT_1555|5end_hypothetical_protein_1541014..1541244_NEGATIVE 242 118 75 152 114 smit:SMT_1504|5end_topology_modulation_protein_1487204..1487434_POSITIVE 242 117 87 198 168 smit:SMT_835|5end_polypeptide_deformylase_777549..777779_NEGATIVE 239 140 91 123 60 smit:SMT_1692|5end_hypothetical_protein_1675169..1675399_POSITIVE 238 120 75 196 146 smit:SMT_139|5end_hypothetical_protein_90523..90753_POSITIVE 232 112 72 50 8 smit:SMT_1063|5end_preprotein_translocase_SecA_subunit_1000714..1000944_POSITIVE 231 140 91 53 8 smit:SMT_498|5end_hypothetical_protein_431751..431981_POSITIVE 229 46 13 223 187 smit:SMT_1828|5end_PTS_system,_galactose-specific_IIC_component_1797668..1797898_POSITIVE 229 46 13 123 87 smit:SMT_1827|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1797568..1797798_POSITIVE 229 129 88 207 156 smit:SMT_689|5end_aspartate_carbamoyltransferase_601628..601858_NEGATIVE 228 126 86 136 98 smit:SMT_1870|5end_K07566_putative_translation_factor_1829819..1830049_NEGATIVE 228 118 71 58 2 smit:SMT_725|5end_hypothetical_protein_630415..630645_NEGATIVE 227 128 88 95 53 smit:SMT_1976|5end_immunoglobulin_A1_protease_1906950..1907180_POSITIVE 221 129 83 202 161 smit:SMT_1046|5end_chaperonin_GroEL_987904..988134_NEGATIVE 221 129 83 55 14 smit:SMT_1045|5end_cochaperonin_GroES_987582..987812_NEGATIVE 221 129 83 202 161 smit:SMT_1044|5end_chaperonin_GroEL_(HSP60_family)_987435..987665_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 252 108 62 144 97 smit:SMT_1285|3end_ribosomal_subunit_interface_protein_1248332..1248482_POSITIVE 242 118 75 99 61 smit:SMT_1503|3end_SSU_ribosomal_protein_S20P_1487231..1487381_POSITIVE 242 117 87 83 53 smit:SMT_836|3end_cell_surface_protein_precursor_777664..777814_NEGATIVE 239 140 91 123 60 smit:SMT_1691|3end_putative_deoxyribonuclease_1675249..1675399_POSITIVE 238 120 75 56 6 smit:SMT_138|3end_tRNA_(5-methylaminomethyl-2-thiouridylate)-methyltransferase_90463..90613_POSITIVE 229 46 13 97 61 smit:SMT_1826|3end_ATP_synthase_beta_chain_1797622..1797772_POSITIVE 228 118 71 61 5 smit:SMT_726|3end_ImpB/MucB/SamB_family_protein_630412..630562_NEGATIVE 226 123 90 41 6 smit:SMT_697|3end_glucose-inhibited_division_protein_B_608282..608432_POSITIVE 218 103 84 131 107 smit:SMT_1580|3end_MutT/NUDIX_family_protein_1573153..1573303_POSITIVE 218 128 81 83 35 smit:SMT_445|3end_hypothetical_protein_384949..385099_POSITIVE 217 128 84 73 24 smit:SMT_2081|3end_glycosyltransferase_1981336..1981486_POSITIVE 214 127 85 112 64 smit:SMT_1215|3end_aromatic_amino_acid_aminotransferase_1173419..1173569_NEGATIVE 212 130 84 68 27 smit:SMT_1750|3end_anthranilate_phosphoribosyltransferase_1729095..1729245_POSITIVE 207 129 88 126 86 smit:SMT_739|3end_50S_ribosomal_protein_L7/L12_643274..643424_NEGATIVE 202 125 86 151 114 smit:SMT_1871|3end_modification_methylase,_HemK_family_1829803..1829953_NEGATIVE 201 47 4 130 87 smit:SMT_1006|3end_6-pyruvoyl_tetrahydrobiopterin_synthase,_putative_947122..947272_POSITIVE 198 126 82 145 97 smit:SMT_1545|3end_choline-binding_protein_1529160..1529310_NEGATIVE 198 106 61 135 85 smit:SMT_680|3end_choline_transport_protein_589084..589234_NEGATIVE 197 125 84 50 6 smit:SMT_1823|3end_GTP-binding_protein_1796129..1796279_POSITIVE 197 140 92 105 52 smit:SMT_968|3end_K01990_ABC-2_type_transport_system_ATP-binding_protein_913299..913449_NEGATIVE