Origin IGS: acgtttctaccattcaaaagtattttctatcagtctagcataaaaaagaagttacaacaagttttccttgctttttaaagcggtttcatatagaataaaatcatcaccttatttttatagataatgtgataaatcatttacaacccgtcaatagaaagggagtttttctct .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 agagaaaaactccctttctattgacgggttgtaaatgatttatcacattatctataaaaataaggtgatgattttattctatatgaaaccgctttaaaaagcaaggaaaacttgttgtaacttcttttttatgctagactgatagaaaatacttttgaatggtagaaacgt Mask Tandem Repeat Region ================================================ acgtttctaccattcaaaagtattttctatcagtctagcataaaaaagaagttacaacaagttttccttgctttttaaagcggtttcatatagaataaaatcatcaccttatttttatagataatgtgataaatcatttacaacccgtcaatagaaagggagtttttctct Find is-nt database================================================ Query_seq: SMT_1368:SMT_1369|SMT_1368:SMT_1369:acetyltransferase, GNAT family:alanine dehydrogenase:<-->:1348249..1348419 171 acgtttctaccattcaaaagtattttctatcagtctagcataaaaaagaagttacaacaagttttccttgctttttaaagcggtttcatatagaataaaatcatcaccttatttttatagataatgtgataaatcatttacaacccgtcaatagaaagggagtttttctct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_1368:SMT_1369|SMT_1368:SMT_1369:acetyltransferase, GNAT family:alanine dehydrogenase:<-->:1348249..1348419 171 acgtttctaccattcaaaagtattttctatcagtctagcataaaaaagaagttacaacaagttttccttgctttttaaagcggtttcatatagaataaaatcatcaccttatttttatagataatgtgataaatcatttacaacccgtcaatagaaagggagtttttctct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_1368:SMT_1369|SMT_1368:SMT_1369:acetyltransferase, GNAT family:alanine dehydrogenase:<-->:1348249..1348419 171 acgtttctaccattcaaaagtattttctatcagtctagcataaaaaagaagttacaacaagttttccttgctttttaaagcggtttcatatagaataaaatcatcaccttatttttatagataatgtgataaatcatttacaacccgtcaatagaaagggagtttttctct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 acgtttctaccattcaaaagtattttctatcagtctagcataaaaaagaagttacaacaagttttccttgctttttaaagcggtttcatatagaataaaatcatcaccttatttttatagataatgtgataaatcatttacaacccgtcaatagaaagggagtttttctct Predict ORF larger than 30AA ================================================ acgtttctaccattcaaaagtattttctatcagtctagcataaaaaagaagttacaacaagttttccttgctttttaaagcggtttcatatagaataaaatcatcaccttatttttatagataatgtgataaatcatttacaacccgtcaatagaaagggagtttttctct 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: 83 Start: 67 End: 96 ..................................................................CTTGCTTTTTAAAGCGGTTTCATATAGAAT........................................................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ acgtttctaccattcaaaagtattttctatcagtctagcataaaaaagaagttacaacaagttttccttgctttttaaagcggtttcatatagaataaaatcatcaccttatttttatagataatgtgataaatcatttacaacccgtcaatagaaagggagtttttctct Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 49 HP_score: -3.4 Tail_Score: -3.34488 Start: 58 End: 70 Full_Region: AAAAAGAAGTTACAA CAAG TTTTC CTTG CTTTTTAAAGCGGTT .........................................................CAAGTTTTCCTTG..................................................................................................... TransTerm Strand: - Conf: 50 HP_score: -3.4 Tail_Score: -3.52449 Start: 58 End: 70 Full_Region: aaccgctttaaaaag caag gaaaa cttg ttgtaacttcttttt .........................................................caaggaaaacttg..................................................................................................... Find igs database================================================ Query_seq: SMT_1368:SMT_1369|SMT_1368:SMT_1369:acetyltransferase, GNAT family:alanine dehydrogenase:<-->:1348249..1348419 171 acgtttctaccattcaaaagtattttctatcagtctagcataaaaaagaagttacaacaagttttccttgctttttaaagcggtttcatatagaataaaatcatcaccttatttttatagataatgtgataaatcatttacaacccgtcaatagaaagggagtttttctct Intra-Species Hit: Count: 1 Min: 1 Max: 171 Len: 171 Subject: smit_SMT_1368_SMT_1369|acetyltransferase, GNAT family:alanine dehydrogenase|NEGATIVE:POSITIVE|[1348249,1348419]|171 HSP 1 e-value: 2.0E-92 bit: 339.0 Len: 171 Query Start:1 Query End:171 Subject Strand: POSITIVE Subject Start: 1 Subject End: 171 acgtttctaccattcaaaagtattttctatcagtctagcataaaaaagaagttacaacaagttttccttgctttttaaagcggtttcatatagaataaaatcatcaccttatttttatagataatgtgataaatcatttacaacccgtcaatagaaagggagtttttctct acgtttctaccattcaaaagtattttctatcagtctagcataaaaaagaagttacaacaagttttccttgctttttaaagcggtttcatatagaataaaatcatcaccttatttttatagataatgtgataaatcatttacaacccgtcaatagaaagggagtttttctct Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ ACGUUUCUACCAUUCAAAAGUAUUUUCUAUCAGUCUAGCAUAAAAAAGAAGUUACAACAAGUUUUCCUUGCUUUUUAAAGCGGUUUCAUAUAGAAUAAAAUCAUCACCUUAUUUUUAUAGAUAAUGUGAUAAAUCAUUUACAACCCGUCAAUAGAAAGGGAGUUUUUCUCU ...................(((.(((((..................))))).)))...........(((.(((((((..((((.(((.....))).......(((((.((((((....)))))).)))))..............))))...))))))).)))......... (-23.17) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGAGAAAAACUCCCUUUCUAUUGACGGGUUGUAAAUGAUUUAUCACAUUAUCUAUAAAAAUAAGGUGAUGAUUUUAUUCUAUAUGAAACCGCUUUAAAAAGCAAGGAAAACUUGUUGUAACUUCUUUUUUAUGCUAGACUGAUAGAAAAUACUUUUGAAUGGUAGAAACGU .(((.....)))..((((((((..(((..(((((((((.(((((((.((((........)))).)))))))..))))).)))).....))).(((((((((((((.....))))))........((((((((.(......)))))))))...))))))).))))))))... (-28.10) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 752 110 61 201 152 smit:SMT_1368|5end_acetyltransferase,_GNAT_family_1348158..1348388_NEGATIVE 277 169 121 198 147 smit:SMT_349|5end_sensor_histidine_kinase_(homolog_to_BlpH_Spn)_287207..287437_POSITIVE 252 85 50 56 17 smit:SMT_1868|5end_thymidine_kinase_1828775..1829005_NEGATIVE 252 160 117 126 84 smit:SMT_1505|5end_purine-nucleoside_phosphorylase_1488515..1488745_NEGATIVE 245 49 4 189 145 smit:SMT_1091|5end_competence-specific_global_transcription_modulator_1033040..1033270_NEGATIVE 217 42 2 227 186 smit:SMT_1005|5end_possible_aluminum_resistance_protein_945946..946176_POSITIVE 217 83 44 66 34 smit:SMT_606|5end_cytochrome_c-type_biogenesis_protein_CcdA_519390..519620_POSITIVE 211 96 59 139 97 smit:SMT_1936|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1873837..1874067_POSITIVE 211 96 59 139 97 smit:SMT_1315|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1280099..1280329_POSITIVE 210 168 124 114 68 smit:SMT_1896|5end_lysine_decarboxylase_1848735..1848965_NEGATIVE 210 83 58 225 192 smit:SMT_748|5end_prephenate_dehydratase_653498..653728_NEGATIVE 208 95 59 56 14 smit:SMT_1991|5end_K03706_transcriptional_pleiotropic_repressor_1918264..1918494_NEGATIVE 208 84 45 143 107 smit:SMT_1099|5end_protein_tyrosine_phosphatase_1042241..1042471_NEGATIVE 207 40 2 129 94 smit:SMT_1984|5end_phosphinothricin_N-acetyltransferase_1914028..1914258_NEGATIVE 207 40 2 129 94 smit:SMT_1869|5end_phosphinothricin_N-acetyltransferase_1829215..1829445_NEGATIVE 207 140 95 137 90 smit:SMT_1229|5end_hypothetical_protein_1191133..1191363_POSITIVE 207 91 61 225 200 smit:SMT_784|5end_hypothetical_protein_696298..696528_NEGATIVE 206 108 66 183 132 smit:SMT_1043|5end_chaperonin_GroEL_985766..985996_NEGATIVE 205 40 2 75 34 smit:SMT_2128|5end_cell_division_protein_FtsA_2009617..2009847_POSITIVE 202 70 23 108 53 smit:SMT_1685|5end_phenylalanyl-tRNA_synthetase_alpha_chain_1668845..1669075_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 276 99 51 126 80 smit:SMT_129|3end_putative_glycosyltransferase_80883..81033_POSITIVE 245 49 4 69 25 smit:SMT_1092|3end_transcription_antitermination_factor_1033160..1033310_NEGATIVE 239 94 58 75 44 smit:SMT_801|3end_glycyl-tRNA_synthetase_alpha_chain_709892..710042_NEGATIVE 233 83 51 37 7 smit:SMT_1475|3end_K02004_1458661..1458811_POSITIVE 221 109 61 106 57 smit:SMT_1689|3end_PTS_enzyme,_maltose-and_glucose-specific,_factor_II_homologue_1673139..1673289_POSITIVE 214 48 5 44 7 smit:SMT_1597|3end_K02032_peptide/nickel_transport_system_ATP-binding_protein_1587987..1588137_POSITIVE 211 162 125 151 118 smit:SMT_1245|3end_SOS_responce_UmuC_protein_1205637..1205787_POSITIVE 210 168 124 83 37 smit:SMT_1897|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1848766..1848916_NEGATIVE 208 84 45 38 2 smit:SMT_1100|3end_putative_protein-tyrosine_phosphatase_1042346..1042496_NEGATIVE 208 109 67 148 108 smit:SMT_138|3end_tRNA_(5-methylaminomethyl-2-thiouridylate)-methyltransferase_90463..90613_POSITIVE 207 40 2 127 92 smit:SMT_1870|3end_K07566_putative_translation_factor_1829217..1829367_NEGATIVE 206 96 55 46 1 smit:SMT_1869|3end_phosphinothricin_N-acetyltransferase_1828796..1828946_NEGATIVE 205 114 79 59 21 smit:SMT_568|3end_hypothetical_protein_486389..486539_POSITIVE 203 42 19 25 1 smit:SMT_1004|3end_thioredoxin_945824..945974_POSITIVE 199 39 2 95 46 smit:SMT_1611|3end_K05896_segregation_and_condensation_protein_A_1600113..1600263_POSITIVE 198 95 59 151 110 smit:SMT_1935|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1873930..1874080_POSITIVE 198 95 59 151 110 smit:SMT_1314|3end_dTDP-4-dehydrorhamnose_3,5-epimerase_related_enzyme_1280192..1280342_POSITIVE 198 79 32 95 39 smit:SMT_459|3end_hypothetical_protein_397690..397840_POSITIVE 197 89 51 70 37 smit:SMT_1109|3end_hypothetical_protein_1049362..1049512_NEGATIVE 195 90 47 123 76 smit:SMT_1333|3end_glycosyltransferase_1307592..1307742_NEGATIVE