Origin IGS: tgtcgctggannnnnttaattaattaannnnnaaaagttttaaacatcgtaaaaagcgattcagagcgtcgttttgtagtcgtttctgcgcctggtaaacgcaatgctgaagatactaaggttacggatgcc .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 ggcatccgtaaccttagtatcttcagcattgcgtttaccaggcgcagaaacgactacaaaacgacgctctgaatcgctttttacgatgtttaaaacttttnnnnnttaattaattaannnnntccagcgaca Mask Tandem Repeat Region ================================================ tgtcgctggannnnnttaattaattaannnnnaaaagttttaaacatcgtaaaaagcgattcagagcgtcgttttgtagtcgtttctgcgcctggtaaacgcaatgctgaagatactaaggttacggatgcc Find is-nt database================================================ Query_seq: SMT_1918:SMT_1919|SMT_1918:SMT_1919:hypothetical protein predicted by Glimmer/Critica:aspartate kinase:<-->:1862026..1862157 132 tgtcgctggannnnnttaattaattaannnnnaaaagttttaaacatcgtaaaaagcgattcagagcgtcgttttgtagtcgtttctgcgcctggtaaacgcaatgctgaagatactaaggttacggatgcc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_1918:SMT_1919|SMT_1918:SMT_1919:hypothetical protein predicted by Glimmer/Critica:aspartate kinase:<-->:1862026..1862157 132 tgtcgctggannnnnttaattaattaannnnnaaaagttttaaacatcgtaaaaagcgattcagagcgtcgttttgtagtcgtttctgcgcctggtaaacgcaatgctgaagatactaaggttacggatgcc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_1918:SMT_1919|SMT_1918:SMT_1919:hypothetical protein predicted by Glimmer/Critica:aspartate kinase:<-->:1862026..1862157 132 tgtcgctggannnnnttaattaattaannnnnaaaagttttaaacatcgtaaaaagcgattcagagcgtcgttttgtagtcgtttctgcgcctggtaaacgcaatgctgaagatactaaggttacggatgcc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tgtcgctggannnnnttaattaattaannnnnaaaagttttaaacatcgtaaaaagcgattcagagcgtcgttttgtagtcgtttctgcgcctggtaaacgcaatgctgaagatactaaggttacggatgcc Predict ORF larger than 30AA ================================================ tgtcgctggannnnnttaattaattaannnnnaaaagttttaaacatcgtaaaaagcgattcagagcgtcgttttgtagtcgtttctgcgcctggtaaacgcaatgctgaagatactaaggttacggatgcc 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================================================ tgtcgctggannnnnttaattaattaannnnnaaaagttttaaacatcgtaaaaagcgattcagagcgtcgttttgtagtcgtttctgcgcctggtaaacgcaatgctgaagatactaaggttacggatgcc Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SMT_1918:SMT_1919|SMT_1918:SMT_1919:hypothetical protein predicted by Glimmer/Critica:aspartate kinase:<-->:1862026..1862157 132 tgtcgctggannnnnttaattaattaannnnnaaaagttttaaacatcgtaaaaagcgattcagagcgtcgttttgtagtcgtttctgcgcctggtaaacgcaatgctgaagatactaaggttacggatgcc Intra-Species Hit: Count: 1 Min: 16 Max: 132 Len: 117 Subject: smit_SMT_1918_SMT_1919|hypothetical protein predicted by Glimmer/Critica:aspartate kinase|NEGATIVE:POSITIVE|[1862026,1862157]|132 HSP 1 e-value: 2.0E-51 bit: 202.0 Len: 117 Query Start:16 Query End:132 Subject Strand: POSITIVE Subject Start: 16 Subject End: 132 ...............ttaattaattaannnnnaaaagttttaaacatcgtaaaaagcgattcagagcgtcgttttgtagtcgtttctgcgcctggtaaacgcaatgctgaagatactaaggttacggatgcc ...............ttaattaattaannnnnaaaagttttaaacatcgtaaaaagcgattcagagcgtcgttttgtagtcgtttctgcgcctggtaaacgcaatgctgaagatactaaggttacggatgcc Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUAAUUAAUUAANNNNNAAAAGUUUUAAACAUCGUAAAAAGCGAUUCAGAGCGUCGUUUUGUAGUCGUUUCUGCGCCUGGUAAACGCAAUGCUGAAGAUACUAAGGUUACGGAUGCC .............................(((((((..((((((((((((((...)))))).))))))))....((((((((....((....))....)))).))))))).)))).. (-20.60) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GGCAUCCGUAACCUUAGUAUCUUCAGCAUUGCGUUUACCAGGCGCAGAAACGACUACAAAACGACGCUCUGAAUCGCUUUUUACGAUGUUUAAAACUUUUNNNNNUUAAUUAAUUAA ((((((.((((....(((...(((((..(((((((.....)))))))...((.........)).....)))))..)))..))))))))))........................... (-17.60) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 985 90 41 196 147 smit:SMT_1918|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1861935..1862165_NEGATIVE 353 79 32 142 88 smit:SMT_2105|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1996458..1996688_POSITIVE 338 110 72 220 181 smit:SMT_1413|5end_putative_carbon-nitrogen_hydrolase_1397351..1397581_NEGATIVE 328 78 40 172 145 smit:SMT_1386|5end_phosphoenolpyruvate-protein_phosphotransferase_1362806..1363036_POSITIVE 321 85 42 175 125 smit:SMT_1807|5end_putative_mucus_binding_protein_1784043..1784273_NEGATIVE 315 79 31 226 183 smit:SMT_1307|5end_glycerol_uptake_facilitator_protein_1271664..1271894_POSITIVE 314 80 31 93 29 smit:SMT_1257|5end_acetolactate_synthase_small_subunit_1223173..1223403_NEGATIVE 306 79 32 129 73 smit:SMT_489|5end_K01999_branched-chain_amino_acid_transport_system_substrate-binding_protein_423669..423899_POSITIVE 302 87 41 214 158 smit:SMT_945|5end_cytidylate_kinase_895908..896138_NEGATIVE 300 100 51 81 21 smit:SMT_1970|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1902023..1902253_POSITIVE 298 80 39 179 133 smit:SMT_1986|5end_mercuric_reductase_1914843..1915073_POSITIVE 298 80 39 212 166 smit:SMT_325|5end_K02029_polar_amino_acid_transport_system_permease_protein_263023..263253_NEGATIVE 296 81 43 74 32 smit:SMT_1632|5end_hypothetical_protein_1619060..1619290_NEGATIVE 295 87 41 104 57 smit:SMT_448|5end_K03707_transcriptional_activator_TenA_386789..387019_POSITIVE 294 94 51 157 99 smit:SMT_2064|5end_amino_acid_ABC_transporter,_ATP-binding_protein_1972182..1972412_POSITIVE 292 99 51 209 158 smit:SMT_1749|5end_anthranilate_synthase_component_II_1727434..1727664_POSITIVE 284 89 41 212 170 smit:SMT_1972|5end_uncharacterized_conserved_phage_related_protein_1903662..1903892_POSITIVE 284 89 41 227 185 smit:SMT_1691|5end_putative_deoxyribonuclease_1674978..1675208_POSITIVE 283 98 51 182 124 smit:SMT_1454|5end_cytidine_deaminase_1437886..1438116_NEGATIVE 281 87 41 224 165 smit:SMT_555|5end_K09015_Fe-S_cluster_assembly_protein_SufD_472271..472501_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 314 80 31 100 36 smit:SMT_1258|3end_acetolactate_synthase_large_subunit_1223166..1223316_NEGATIVE 298 90 43 40 3 smit:SMT_1695|3end_ribulose-phosphate_3-epimerase_1678299..1678449_POSITIVE 294 80 31 148 112 smit:SMT_1306|3end_alpha-glycerophosphate_oxidase_1271673..1271823_POSITIVE 294 82 41 143 100 smit:SMT_306|3end_3-oxoacyl-_249117..249267_POSITIVE 270 88 41 149 83 smit:SMT_740|3end_50S_ribosomal_protein_L10_643715..643865_NEGATIVE 268 100 51 50 4 smit:SMT_1946|3end_sucrose-6-phosphate_hydrolase_1881205..1881355_POSITIVE 268 87 41 146 104 smit:SMT_1688|3end_putative_N-acylglucosamine-6-phosphate_2-epimerase_1671603..1671753_POSITIVE 265 86 41 120 73 smit:SMT_308|3end_trans-2-enoyl-ACP_reductase_II_250493..250643_POSITIVE 264 96 55 146 108 smit:SMT_1834|3end_cell_division_protein_1802502..1802652_NEGATIVE 263 86 41 51 13 smit:SMT_1751|3end_indole-3-glycerol_phosphate_synthase_1729865..1730015_POSITIVE 259 86 41 118 69 smit:SMT_689|3end_aspartate_carbamoyltransferase_600705..600855_NEGATIVE 257 110 79 68 33 smit:SMT_1114|3end_competence_protein_1052076..1052226_NEGATIVE 255 77 51 123 101 smit:SMT_798|3end_hypothetical_protein_707106..707256_POSITIVE 253 78 41 104 73 smit:SMT_1087|3end_K01990_ABC-2_type_transport_system_ATP-binding_protein_1023281..1023431_NEGATIVE 252 78 31 88 40 smit:SMT_1348|3end_exoribonuclease_II_1325148..1325298_NEGATIVE 252 82 60 128 105 smit:SMT_1055|3end_transcriptional_regulator,_GntR_family_994387..994537_NEGATIVE 249 92 51 47 7 smit:SMT_1938|3end_zinc_metalloprotease_ZmpB,_putative_1876230..1876380_POSITIVE 248 100 53 145 103 smit:SMT_2033|3end_hydrolase,_haloacid_dehalogenase-like_family_1946739..1946889_POSITIVE 247 88 41 133 64 smit:SMT_1524|3end_peptidase_T_1505867..1506017_POSITIVE 246 95 51 84 24 smit:SMT_921|3end_putative_PP2C_protein_phosphatase_874498..874648_NEGATIVE