Origin IGS: ttttaaggagaacacatgatacaagcagtctttgagagagccgaagatggcgagctgaggagtgcggaaattactggnnnnnttaattaattaannnnnggaagcctagaattaacgaagatgaaggtggctatctg .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 cagatagccaccttcatcttcgttaattctaggcttccnnnnnttaattaattaannnnnccagtaatttccgcactcctcagctcgccatcttcggctctctcaaagactgcttgtatcatgtgttctccttaaaa Mask Tandem Repeat Region ================================================ ttttaaggagaacacatgatacaagcagtctttgagagagccgaagatggcgagctgaggagtgcggaaattactggnnnnnttaattaattaannnnnggaagcctagaattaacgaagatgaaggtggctatctg Find is-nt database================================================ Query_seq: SMT_623:SMT_624|SMT_623:SMT_624:50S ribosomal protein L21:K07584 hypothetical protein:->->:529873..530009 137 ttttaaggagaacacatgatacaagcagtctttgagagagccgaagatggcgagctgaggagtgcggaaattactggnnnnnttaattaattaannnnnggaagcctagaattaacgaagatgaaggtggctatctg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_623:SMT_624|SMT_623:SMT_624:50S ribosomal protein L21:K07584 hypothetical protein:->->:529873..530009 137 ttttaaggagaacacatgatacaagcagtctttgagagagccgaagatggcgagctgaggagtgcggaaattactggnnnnnttaattaattaannnnnggaagcctagaattaacgaagatgaaggtggctatctg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_623:SMT_624|SMT_623:SMT_624:50S ribosomal protein L21:K07584 hypothetical protein:->->:529873..530009 137 ttttaaggagaacacatgatacaagcagtctttgagagagccgaagatggcgagctgaggagtgcggaaattactggnnnnnttaattaattaannnnnggaagcctagaattaacgaagatgaaggtggctatctg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ttttaaggagaacacatgatacaagcagtctttgagagagccgaagatggcgagctgaggagtgcggaaattactggnnnnnttaattaattaannnnnggaagcctagaattaacgaagatgaaggtggctatctg Predict ORF larger than 30AA ================================================ ttttaaggagaacacatgatacaagcagtctttgagagagccgaagatggcgagctgaggagtgcggaaattactggnnnnnttaattaattaannnnnggaagcctagaattaacgaagatgaaggtggctatctg 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================================================ ttttaaggagaacacatgatacaagcagtctttgagagagccgaagatggcgagctgaggagtgcggaaattactggnnnnnttaattaattaannnnnggaagcctagaattaacgaagatgaaggtggctatctg Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SMT_623:SMT_624|SMT_623:SMT_624:50S ribosomal protein L21:K07584 hypothetical protein:->->:529873..530009 137 ttttaaggagaacacatgatacaagcagtctttgagagagccgaagatggcgagctgaggagtgcggaaattactggnnnnnttaattaattaannnnnggaagcctagaattaacgaagatgaaggtggctatctg Intra-Species Hit: Count: 1 Min: 1 Max: 137 Len: 137 Subject: smit_SMT_623_SMT_624|50S ribosomal protein L21:K07584 hypothetical protein|POSITIVE:POSITIVE|[529873,530009]|137 HSP 1 e-value: 3.0E-47 bit: 188.0 Len: 137 Query Start:1 Query End:137 Subject Strand: POSITIVE Subject Start: 1 Subject End: 137 ttttaaggagaacacatgatacaagcagtctttgagagagccgaagatggcgagctgaggagtgcggaaattactnnnnnnnttaattaattaannnnnnnaagcctagaattaacgaagatgaaggtggctatctg ttttaaggagaacacatgatacaagcagtctttgagagagccgaagatggcgagctgaggagtgcggaaattactggnnnnnttaattaattaannnnnggaagcctagaattaacgaagatgaaggtggctatctg Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUUAAGGAGAACACAUGAUACAAGCAGUCUUUGAGAGAGCCGAAGAUGGCGAGCUGAGGAGUGCGGAAAUUACUGGNNNNNUUAAUUAAUUAANNNNNGGAAGCCUAGAAUUAACGAAGAUGAAGGUGGCUAUCUG ........(((...((((((....(((.(((((.((...(((......)))...))))))).)))....)))).)).......................((..((((...(((......)))..))))..)).))). (-23.10) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CAGAUAGCCACCUUCAUCUUCGUUAAUUCUAGGCUUCCNNNNNUUAAUUAAUUAANNNNNCCAGUAAUUUCCGCACUCCUCAGCUCGCCAUCUUCGGCUCUCUCAAAGACUGCUUGUAUCAUGUGUUCUCCUUAAAA ..(((((((......................)))...........................((((.......((........))..(((......)))..........))))....))))................. (-12.05) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 342 68 25 134 88 smit:SMT_2052|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1961591..1961821_NEGATIVE 338 65 28 57 9 smit:SMT_265|5end_DNA-binding_protein_204073..204303_NEGATIVE 329 69 21 68 20 smit:SMT_147|5end_K02027_multiple_sugar_transport_system_substrate-binding_protein_97406..97636_POSITIVE 329 69 21 68 20 smit:SMT_119|5end_K02027_multiple_sugar_transport_system_substrate-binding_protein_70457..70687_POSITIVE 324 66 24 185 137 smit:SMT_1887|5end_LicC_protein_1841445..1841675_POSITIVE 324 68 30 164 121 smit:SMT_1121|5end_hypothetical_protein_1057797..1058027_NEGATIVE 323 65 25 228 176 smit:SMT_1982|5end_conserved_hypothetical_protein_1913036..1913266_POSITIVE 323 65 25 201 149 smit:SMT_1972|5end_uncharacterized_conserved_phage_related_protein_1903662..1903892_POSITIVE 323 65 25 216 164 smit:SMT_1691|5end_putative_deoxyribonuclease_1674978..1675208_POSITIVE 323 65 25 179 127 smit:SMT_325|5end_K02029_polar_amino_acid_transport_system_permease_protein_263023..263253_NEGATIVE 323 68 24 231 181 smit:SMT_172|5end_50S_ribosomal_protein_L23_116180..116410_POSITIVE 295 69 24 45 2 smit:SMT_1215|5end_aromatic_amino_acid_aminotransferase_1174588..1174818_NEGATIVE 289 67 21 230 185 smit:SMT_947|5end_ferredoxin_896405..896635_POSITIVE 288 65 22 77 24 smit:SMT_274|5end_ABC_transporter_substrate-binding_protein_-_oligopeptide_transport_215221..215451_POSITIVE 286 67 25 50 19 smit:SMT_1981|5end_K03696_ATP-dependent_Clp_protease_ATP-binding_subunit_ClpC_1912261..1912491_POSITIVE 285 69 25 229 189 smit:SMT_1156|5end_K07485_transposase_1099938..1100168_POSITIVE 281 67 22 82 35 smit:SMT_476|5end_K03308_neurotransmitter:Na+_symporter,_NSS_family_414134..414364_NEGATIVE 280 74 36 60 4 smit:SMT_1464|5end_K02030_polar_amino_acid_transport_system_substrate-binding_protein_1444721..1444951_POSITIVE 275 64 21 149 93 smit:SMT_1922|5end_exonuclease_RexA_1865998..1866228_NEGATIVE 275 66 21 85 28 smit:SMT_1423|5end_hypothetical_protein_1407737..1407967_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 308 66 26 45 2 smit:SMT_772|3end_spermidine/putrescine_ABC_transporter,_ATP-binding_protein_682143..682293_NEGATIVE 286 67 25 36 5 smit:SMT_1970|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1903032..1903182_POSITIVE 286 67 25 58 27 smit:SMT_1954|3end_6-phospho-beta-glucosidase_1888831..1888981_POSITIVE 279 67 35 48 4 smit:SMT_915|3end_sucrose_operon_repressor_868619..868769_POSITIVE 278 70 21 82 35 smit:SMT_481|3end_K03308_neurotransmitter:Na+_symporter,_NSS_family_417641..417791_NEGATIVE 274 69 21 74 15 smit:SMT_862|3end_hypothetical_protein_predicted_by_Glimmer/Critica_809191..809341_POSITIVE 269 77 31 72 25 smit:SMT_1744|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1725196..1725346_NEGATIVE 262 68 27 151 93 smit:SMT_1819|3end_K03442_small_conductance_mechanosensitive_ion_channel,_MscS_family_1793555..1793705_POSITIVE 258 67 21 70 20 smit:SMT_1613|3end_ribosomal_large_subunit_pseudouridine_synthase_B_1601410..1601560_POSITIVE 258 59 24 68 27 smit:SMT_1532|3end_hypothetical_protein_1515994..1516144_NEGATIVE 257 67 37 43 1 smit:SMT_1536|3end_trigger_factor_1520636..1520786_NEGATIVE 256 75 35 66 21 smit:SMT_1866|3end_extramembranal_protein_1827939..1828089_POSITIVE 254 77 37 138 93 smit:SMT_2006|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1926803..1926953_POSITIVE 252 77 33 76 21 smit:SMT_964|3end_cadmium_resistance_transporter,_putative_909891..910041_NEGATIVE 251 60 23 39 2 smit:SMT_1144|3end_K02026_multiple_sugar_transport_system_permease_protein_1089144..1089294_POSITIVE 248 77 31 102 51 smit:SMT_842|3end_hypothetical_protein_788414..788564_NEGATIVE 248 58 17 132 92 smit:SMT_134|3end_LysM_domain_protein_86157..86307_POSITIVE 246 69 34 71 33 smit:SMT_1618|3end_K02015_iron_complex_transport_system_permease_protein_1604490..1604640_NEGATIVE 246 69 45 51 20 smit:SMT_965|3end_putative_transposase_911085..911235_NEGATIVE 246 56 17 82 32 smit:SMT_226|3end_putative_L-glutamine-D-fructose-6-phosphate_amidotransferase_164000..164150_POSITIVE