Origin IGS: atatggggcaatttctttaacgataccaactccttcgtgacgtaggacacgtcctggtacttgaccaaagtcannnnnttaattaattaannnnncgcgctcaaggt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 accttgagcgcgnnnnnttaattaattaannnnntgactttggtcaagtaccaggacgtgtcctacgtcacgaaggagttggtatcgttaaagaaattgccccatat Mask Tandem Repeat Region ================================================ atatggggcaatttctttaacgataccaactccttcgtgacgtaggacacgtcctggtacttgaccaaagtcannnnnttaattaattaannnnncgcgctcaaggt Find is-nt database================================================ Query_seq: SMT_246:SMT_247|SMT_246:SMT_247:alcohol dehydrogenase:K02996 small subunit ribosomal protein S9:<-->:183095..183201 107 atatggggcaatttctttaacgataccaactccttcgtgacgtaggacacgtcctggtacttgaccaaagtcannnnnttaattaattaannnnncgcgctcaaggt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_246:SMT_247|SMT_246:SMT_247:alcohol dehydrogenase:K02996 small subunit ribosomal protein S9:<-->:183095..183201 107 atatggggcaatttctttaacgataccaactccttcgtgacgtaggacacgtcctggtacttgaccaaagtcannnnnttaattaattaannnnncgcgctcaaggt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_246:SMT_247|SMT_246:SMT_247:alcohol dehydrogenase:K02996 small subunit ribosomal protein S9:<-->:183095..183201 107 atatggggcaatttctttaacgataccaactccttcgtgacgtaggacacgtcctggtacttgaccaaagtcannnnnttaattaattaannnnncgcgctcaaggt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 atatggggcaatttctttaacgataccaactccttcgtgacgtaggacacgtcctggtacttgaccaaagtcannnnnttaattaattaannnnncgcgctcaaggt Predict ORF larger than 30AA ================================================ atatggggcaatttctttaacgataccaactccttcgtgacgtaggacacgtcctggtacttgaccaaagtcannnnnttaattaattaannnnncgcgctcaaggt 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================================================ atatggggcaatttctttaacgataccaactccttcgtgacgtaggacacgtcctggtacttgaccaaagtcannnnnttaattaattaannnnncgcgctcaaggt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SMT_246:SMT_247|SMT_246:SMT_247:alcohol dehydrogenase:K02996 small subunit ribosomal protein S9:<-->:183095..183201 107 atatggggcaatttctttaacgataccaactccttcgtgacgtaggacacgtcctggtacttgaccaaagtcannnnnttaattaattaannnnncgcgctcaaggt Intra-Species Hit: Count: 1 Min: 1 Max: 107 Len: 107 Subject: smit_SMT_246_SMT_247|alcohol dehydrogenase:K02996 small subunit ribosomal protein S9|NEGATIVE:POSITIVE|[183095,183201]|107 HSP 1 e-value: 1.0E-36 bit: 153.0 Len: 107 Query Start:1 Query End:107 Subject Strand: POSITIVE Subject Start: 1 Subject End: 107 atatggggcaatttctttaacgataccaactccttcgtgacgtaggacacgtcctggtacttgaccaaagtcannnnnttaattaattaannnnncgcgctcaaggt atatggggcaatttctttaacgataccaactccttcgtgacgtaggacacgtcctggtacttgaccaaagtcannnnnttaattaattaannnnncgcgctcaaggt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUAUGGGGCAAUUUCUUUAACGAUACCAACUCCUUCGUGACGUAGGACACGUCCUGGUACUUGACCAAAGUCANNNNNUUAAUUAAUUAANNNNNCGCGCUCAAGGU ...((((((..........((((...........))))(((..((((....))))(((.....)))...)))........................)).)))).... (-17.10) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ ACCUUGAGCGCGNNNNNUUAAUUAAUUAANNNNNUGACUUUGGUCAAGUACCAGGACGUGUCCUACGUCACGAAGGAGUUGGUAUCGUUAAAGAAAUUGCCCCAUAU ..(((.((((........................((((....)))).((((((.((((((...)))))).(....)...)))))))))).))).............. (-18.20) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 997 70 21 161 112 smit:SMT_246|5end_alcohol_dehydrogenase_183004..183234_NEGATIVE 341 40 1 231 192 smit:SMT_1057|5end_replicative_DNA_helicase_995316..995546_POSITIVE 308 68 21 57 4 smit:SMT_1675|5end_adenylosuccinate_synthetase_1661147..1661377_NEGATIVE 301 64 21 207 147 smit:SMT_1930|5end_peptide_chain_release_factor_1_1870765..1870995_NEGATIVE 290 67 21 62 13 smit:SMT_171|5end_50S_ribosomal_protein_L4_115557..115787_POSITIVE 288 67 21 199 162 smit:SMT_1078|5end_folylpolyglutamate_synthase_1016713..1016943_NEGATIVE 287 49 1 211 161 smit:SMT_1459|5end_K02037_phosphate_transport_system_permease_protein_1440522..1440752_POSITIVE 284 68 29 218 162 smit:SMT_976|5end_hypothetical_protein_925183..925413_NEGATIVE 274 70 21 67 16 smit:SMT_412|5end_hypothetical_protein_predicted_by_Glimmer/Critica_356606..356836_NEGATIVE 272 47 7 171 130 smit:SMT_840|5end_tRNA_nucleotidyltransferase_(CCA-adding_enzyme)_787261..787491_NEGATIVE 271 73 37 187 148 smit:SMT_438|5end_hypothetical_protein_predicted_by_Glimmer/Critica_379136..379366_POSITIVE 266 64 26 114 70 smit:SMT_2014|5end_tryptophan_synthase_beta_chain_1932471..1932701_POSITIVE 265 67 22 208 151 smit:SMT_1542|5end_phosphomevalonate_kinase_1527084..1527314_NEGATIVE 263 68 29 146 96 smit:SMT_1596|5end_oligopeptide_transport_ATP-binding_protein_OppD_1585903..1586133_POSITIVE 263 64 27 131 96 smit:SMT_1001|5end_aspartyl/glutamyl-tRNA(Asn/Gln)_amidotransferase_subunit_A_942161..942391_POSITIVE 259 68 24 91 50 smit:SMT_1879|5end_K06147_ATP-binding_cassette,_subfamily_B,_bacterial_1836806..1837036_NEGATIVE 259 48 4 224 173 smit:SMT_767|5end_hypothetical_protein_676454..676684_NEGATIVE 258 69 22 92 26 smit:SMT_1045|5end_cochaperonin_GroES_987582..987812_NEGATIVE 256 70 30 51 4 smit:SMT_222|5end_beta-glucosidase_154971..155201_POSITIVE 255 57 20 104 52 smit:SMT_1382|5end_glutamate_5-kinase_1360744..1360974_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 284 68 29 149 93 smit:SMT_977|3end_conserved_hypothetical_protein,_Rrf2_family_protein_925252..925402_NEGATIVE 266 64 26 84 40 smit:SMT_2013|3end_alpha-glycerophosphate_oxidase_1932521..1932671_POSITIVE 263 68 29 137 87 smit:SMT_1595|3end_oligopeptide_transport_system_permease_protein_OppC_1585974..1586124_POSITIVE 263 64 27 131 96 smit:SMT_1000|3end_glutamyl-tRNA_Gln_amidotransferase_subunit_C_942241..942391_POSITIVE 260 73 31 145 104 smit:SMT_1994|3end_phosphoglycerate_mutase_1920058..1920208_NEGATIVE 260 73 31 145 104 smit:SMT_201|3end_phosphoglycerate_mutase_132101..132251_POSITIVE 255 57 20 53 1 smit:SMT_1383|3end_ribonucleoside-diphosphate_reductase_alpha_chain_1360795..1360945_NEGATIVE 253 63 37 126 101 smit:SMT_2052|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1960662..1960812_NEGATIVE 253 58 12 146 97 smit:SMT_356|3end_hypothetical_protein_293268..293418_POSITIVE 252 59 11 144 95 smit:SMT_832|3end_hypothetical_protein_774376..774526_NEGATIVE 250 65 21 75 40 smit:SMT_1484|3end_exonuclease_RexA_1464256..1464406_NEGATIVE 250 52 11 149 104 smit:SMT_1285|3end_ribosomal_subunit_interface_protein_1248332..1248482_POSITIVE 248 63 21 79 24 smit:SMT_1993|3end_hypothetical_protein_1919207..1919357_NEGATIVE 248 63 21 79 24 smit:SMT_1416|3end_hypothetical_protein_1399570..1399720_NEGATIVE 248 46 2 144 108 smit:SMT_1158|3end_DNA_gyrase_subunit_B_1102011..1102161_NEGATIVE 247 67 24 124 83 smit:SMT_2069|3end_K02035_peptide/nickel_transport_system_substrate-binding_protein_1974843..1974993_POSITIVE 246 62 26 113 72 smit:SMT_1339|3end_hypothetical_protein_1313751..1313901_NEGATIVE 245 66 28 145 93 smit:SMT_235|3end_hypothetical_protein_174391..174541_POSITIVE 243 65 27 146 106 smit:SMT_1377|3end_hypothetical_protein_1355556..1355706_NEGATIVE 241 90 41 102 52 smit:SMT_362|3end_K02519_translation_initiation_factor_IF-2_297950..298100_POSITIVE