Origin IGS: tataaaatcatcaattttgttgagtgttatgatgatggagtcttgtgctcttagtctagctctggtctaccgctaggatttcggtcctagcgggaacactcatcataagttgggatagtagacgcttgtttacgaaattgtttttttcttaagaacaacttcgtaagcaggcgtttttgagtattttagttagaattatgctatactatttgaaaagaatcctgtttaatgttcaggtttcctattaaaagaagaattggagtttgctt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aagcaaactccaattcttcttttaataggaaacctgaacattaaacaggattcttttcaaatagtatagcataattctaactaaaatactcaaaaacgcctgcttacgaagttgttcttaagaaaaaaacaatttcgtaaacaagcgtctactatcccaacttatgatgagtgttcccgctaggaccgaaatcctagcggtagaccagagctagactaagagcacaagactccatcatcataacactcaacaaaattgatgattttata Mask Tandem Repeat Region ================================================ tataaaatcatcaattttgttgagtgttatgatgatggagtcttgtgctcttagtctagctctggtctaccgctaggatttcggtcctagcgggaacactcatcataagttgggatagtagacgcttgtttacgaaattgtttttttcttaagaacaacttcgtaagcaggcgtttttgagtattttagttagaattatgctatactatttgaaaagaatcctgtttaatgttcaggtttcctattaaaagaagaattggagtttgctt Find is-nt database================================================ Query_seq: SMT_198:SMT_199|SMT_198:SMT_199:50S ribosomal protein L17:K07166 ACT domain-containing protein:->->:129342..129610 269 tataaaatcatcaattttgttgagtgttatgatgatggagtcttgtgctcttagtctagctctggtctaccgctaggatttcggtcctagcgggaacactcatcataagttgggatagtagacgcttgtttacgaaattgtttttttcttaagaacaacttcgtaagcaggcgtttttgagtattttagttagaattatgctatactatttgaaaagaatcctgtttaatgttcaggtttcctattaaaagaagaattggagtttgctt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_198:SMT_199|SMT_198:SMT_199:50S ribosomal protein L17:K07166 ACT domain-containing protein:->->:129342..129610 269 tataaaatcatcaattttgttgagtgttatgatgatggagtcttgtgctcttagtctagctctggtctaccgctaggatttcggtcctagcgggaacactcatcataagttgggatagtagacgcttgtttacgaaattgtttttttcttaagaacaacttcgtaagcaggcgtttttgagtattttagttagaattatgctatactatttgaaaagaatcctgtttaatgttcaggtttcctattaaaagaagaattggagtttgctt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_198:SMT_199|SMT_198:SMT_199:50S ribosomal protein L17:K07166 ACT domain-containing protein:->->:129342..129610 269 tataaaatcatcaattttgttgagtgttatgatgatggagtcttgtgctcttagtctagctctggtctaccgctaggatttcggtcctagcgggaacactcatcataagttgggatagtagacgcttgtttacgaaattgtttttttcttaagaacaacttcgtaagcaggcgtttttgagtattttagttagaattatgctatactatttgaaaagaatcctgtttaatgttcaggtttcctattaaaagaagaattggagtttgctt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tataaaatcatcaattttgttgagtgttatgatgatggagtcttgtgctcttagtctagctctggtctaccgctaggatttcggtcctagcgggaacactcatcataagttgggatagtagacgcttgtttacgaaattgtttttttcttaagaacaacttcgtaagcaggcgtttttgagtattttagttagaattatgctatactatttgaaaagaatcctgtttaatgttcaggtttcctattaaaagaagaattggagtttgctt Predict ORF larger than 30AA ================================================ tataaaatcatcaattttgttgagtgttatgatgatggagtcttgtgctcttagtctagctctggtctaccgctaggatttcggtcctagcgggaacactcatcataagttgggatagtagacgcttgtttacgaaattgtttttttcttaagaacaacttcgtaagcaggcgtttttgagtattttagttagaattatgctatactatttgaaaagaatcctgtttaatgttcaggtttcctattaaaagaagaattggagtttgctt 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================================================ tataaaatcatcaattttgttgagtgttatgatgatggagtcttgtgctcttagtctagctctggtctaccgctaggatttcggtcctagcgggaacactcatcataagttgggatagtagacgcttgtttacgaaattgtttttttcttaagaacaacttcgtaagcaggcgtttttgagtattttagttagaattatgctatactatttgaaaagaatcctgtttaatgttcaggtttcctattaaaagaagaattggagtttgctt Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 100 HP_score: -16.5 Tail_Score: -4.80396 Start: 123 End: 173 Full_Region: AGTTGGGATAGTAGA CGCTTGTTTACGAAATTGTTTTT TTCTT AAGAACAACTTCGTAAGCAGGCG TTTTTGAGTATTTTA ..........................................................................................................................CGCTTGTTTACGAAATTGTTTTTTTCTTAAGAACAACTTCGTAAGCAGGCG................................................................................................ Find igs database================================================ Query_seq: SMT_198:SMT_199|SMT_198:SMT_199:50S ribosomal protein L17:K07166 ACT domain-containing protein:->->:129342..129610 269 tataaaatcatcaattttgttgagtgttatgatgatggagtcttgtgctcttagtctagctctggtctaccgctaggatttcggtcctagcgggaacactcatcataagttgggatagtagacgcttgtttacgaaattgtttttttcttaagaacaacttcgtaagcaggcgtttttgagtattttagttagaattatgctatactatttgaaaagaatcctgtttaatgttcaggtttcctattaaaagaagaattggagtttgctt Intra-Species Hit: Count: 2 Min: 1 Max: 269 Len: 269 Subject: smit_SMT_198_SMT_199|50S ribosomal protein L17:K07166 ACT domain-containing protein|POSITIVE:POSITIVE|[129342,129610]|269 HSP 1 e-value: 1.0E-138 bit: 492.0 Len: 269 Query Start:1 Query End:269 Subject Strand: POSITIVE Subject Start: 1 Subject End: 269 tataaaatcatcaattttgttgagtgttatgatgatggagtcttgtgctcttagtctagctctggtctaccgctaggatttcggtcctagcgggaacactcatcataagttgggatagtagacgcttgtttacgaaattgnnnnnnncttaagaacaacttcgtaagcaggcgtttttgagtattttagttagaattatgctatactatttgaaaagaatcctgtttaatgttcaggtttcctattaaaagaagaattggagtttgctt tataaaatcatcaattttgttgagtgttatgatgatggagtcttgtgctcttagtctagctctggtctaccgctaggatttcggtcctagcgggaacactcatcataagttgggatagtagacgcttgtttacgaaattgtttttttcttaagaacaacttcgtaagcaggcgtttttgagtattttagttagaattatgctatactatttgaaaagaatcctgtttaatgttcaggtttcctattaaaagaagaattggagtttgctt Subject: smit_SMT_1845_SMT_1846|K01191 alpha-mannosidase:acyl-ACP thioesterase, putative|POSITIVE:POSITIVE|[1810496,1811549]|1054 HSP 1 e-value: 6.0E-69 bit: 262.0 Len: 153 Query Start:117 Query End:269 Subject Strand: NEGATIVE Subject Start: 812 Subject End: 964 ....................................................................................................................agtagacgcttgtttacgaaattgnnnnnnncttaagaacaacttcgtaagcaggcgtttttgagtattttagttagaattatgctatactatttgaaaagaatcctgtttaatgttcaggtttcctattaaaagaagaattggagtttgctt ....................................................................................................................agtagacgcttgtttacgaaattgtttttttcttaagaacaacttcgtaagcaggcgtttttgagtattttagttagaattatgctatactatttgaaaagaatcctgtttaatgttcaggtttcctattaaaagaagaattggagtttgctt Inter-species Hit: Count: 3 Min: 6 Max: 265 Len: 260 Subject: NC_008533_SPD_0219_SPD_0220|ribosomal protein L17:hypothetical protein|POSITIVE:POSITIVE|[210345,210608]|264 HSP 1 e-value: 1.0E-121 bit: 434.0 Len: 260 Query Start:6 Query End:265 Subject Strand: POSITIVE Subject Start: 1 Subject End: 260 .....aatcatcaattttgttgagtgttatgatgatggagtcttgtgctcttagtctagctctggtctaccgctaggatttcggtcctagcgggaacactcatcataagttgggatagtagacgcttgtttacgaaattgnnnnnnncttaagaacaacttcgtaagcaggcgtttttgagtattttagttagaattatgctatactatttgaaaagaatcctgtttaatgttcaggtttcctattaaaagaagaattggagttt.... .....aatcatcaattttgttgagtgttatgatgatggagtcttgtgctcttagtctagctctggtctaccgctaggatttcggtcctagcgggaacactcatcataagttgggatagtagacgcttgtttacgaaattgtttttttcttaagaacaacttcgtaagcaggcgtttttgagtattttcgttagaattatgctatactatttgaaaagaatcctgtttaatgttaaggtttcttattttaagaagaattggagttt.... Subject: NC_003028_SP_0237_SP_0238|50S ribosomal protein L17:hypothetical protein|POSITIVE:POSITIVE|[207836,208099]|264 HSP 1 e-value: 1.0E-121 bit: 434.0 Len: 260 Query Start:6 Query End:265 Subject Strand: POSITIVE Subject Start: 1 Subject End: 260 .....aatcatcaattttgttgagtgttatgatgatggagtcttgtgctcttagtctagctctggtctaccgctaggatttcggtcctagcgggaacactcatcataagttgggatagtagacgcttgtttacgaaattgnnnnnnncttaagaacaacttcgtaagcaggcgtttttgagtattttagttagaattatgctatactatttgaaaagaatcctgtttaatgttcaggtttcctattaaaagaagaattggagttt.... .....aatcatcaattttgttgagtgttatgatgatggagtcttgtgctcttagtctagctctggtctaccgctaggatttcggtcctagcgggaacactcatcataagttgggatagtagacgcttgtttacgaaattgtttttttcttaagaacaacttcgtaagcaggcgtttttgagtattttcgttagaattatgctatactatttgaaaagaatcctgtttaatgttaaggtttcttattttaagaagaattggagttt.... Subject: NC_003098_spr0216_spr0217|50S ribosomal protein L17:hypothetical protein|POSITIVE:POSITIVE|[210345,210515]|171 HSP 1 e-value: 1.0E-79 bit: 297.0 Len: 171 Query Start:6 Query End:176 Subject Strand: POSITIVE Subject Start: 1 Subject End: 171 .....aatcatcaattttgttgagtgttatgatgatggagtcttgtgctcttagtctagctctggtctaccgctaggatttcggtcctagcgggaacactcatcataagttgggatagtagacgcttgtttacgaaattgnnnnnnncttaagaacaacttcgtaagcaggcgttt............................................................................................. .....aatcatcaattttgttgagtgttatgatgatggagtcttgtgctcttagtctagctctggtctaccgctaggatttcggtcctagcgggaacactcatcataagttgggatagtagacgcttgtttacgaaattgtttttttcttaagaacaacttcgtaagcaggcgttt............................................................................................. Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAUCAUCAAUUUUGUUGAGUGUUAUGAUGAUGGAGUCUUGUGCUCUUAGUCUAGCUCUGGUCUACCGCUAGGAUUUCGGUCCUAGCGGGAACACUCAUCAUAAGUUGGGAUAGUAGACGCUUGUUUACGAAAUUGUUUUUUUCUUAAGAACAACUUCGUAAGCAGGCGUUUUUGAGUAUUUUAGUUAGAAUUAUGCUAUACUAUUUGAAAAGAAUCCUGUUUAAUGUUCAGGUUUCCUAUUAAAAGAAGAAUUGGAGUUU .(((.(((((((((.((((((((..(((...(((((.....)))))..))).............((((((((((....)))))))))).)))))))).)).))))))))))....((((((((((((((((.((((((((.....)))))))).))))))))))))))))((..((((...((((.........))))...))))..))..(((.((((.........)))).)))........................ (-83.00) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAACUCCAAUUCUUCUUUUAAUAGGAAACCUGAACAUUAAACAGGAUUCUUUUCAAAUAGUAUAGCAUAAUUCUAACUAAAAUACUCAAAAACGCCUGCUUACGAAGUUGUUCUUAAGAAAAAAACAAUUUCGUAAACAAGCGUCUACUAUCCCAACUUAUGAUGAGUGUUCCCGCUAGGACCGAAAUCCUAGCGGUAGACCAGAGCUAGACUAAGAGCACAAGACUCCAUCAUCAUAACACUCAACAAAAUUGAUGAUU ...(((................(((((.((((.........)))).)))))......((((.((((.....((((.....((((((((...((((.((.(((((((((((((.((.....)).))))))))))))).)).)))).........((.....)).)))))))).(((((((((......))))))))))))).....)))).)))).)))...........(((((((................))))))). (-64.49) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 737 160 112 230 182 smit:SMT_1846|5end_acyl-ACP_thioesterase,_putative_1811410..1811640_POSITIVE 338 89 41 199 150 smit:SMT_949|5end_glycosyl_transferase,_family_2_897693..897923_NEGATIVE 335 90 43 230 178 smit:SMT_1626|5end_undecaprenyl-diphosphatase_1616028..1616258_NEGATIVE 334 90 41 176 110 smit:SMT_1954|5end_6-phospho-beta-glucosidase_1888548..1888778_POSITIVE 328 86 41 118 53 smit:SMT_2059|5end_hypothetical_protein_1967881..1968111_POSITIVE 326 80 34 73 2 smit:SMT_1189|5end_phosphoribosylaminoimidazole_carboxylase_ATPase_subunit_1147754..1147984_NEGATIVE 321 87 41 145 96 smit:SMT_1981|5end_K03696_ATP-dependent_Clp_protease_ATP-binding_subunit_ClpC_1912261..1912491_POSITIVE 319 90 41 209 152 smit:SMT_959|5end_1-acyl-sn-glycerol-3-phosphate_acyltransferase_905283..905513_POSITIVE 316 89 51 200 144 smit:SMT_1692|5end_hypothetical_protein_1675169..1675399_POSITIVE 311 69 35 83 44 smit:SMT_2056|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1966323..1966553_POSITIVE 311 69 35 83 44 smit:SMT_1892|5end_hypothetical_protein_1845595..1845825_POSITIVE 309 96 53 62 10 smit:SMT_1073|5end_L-asparaginase_1011209..1011439_POSITIVE 307 90 42 167 101 smit:SMT_1944|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1879494..1879724_NEGATIVE 306 89 44 145 108 smit:SMT_1664|5end_hypothetical_protein_1655890..1656120_NEGATIVE 305 83 49 224 188 smit:SMT_774|5end_hypothetical_protein_685231..685461_NEGATIVE 304 67 36 61 33 smit:SMT_1244|5end_putative_repressor_protein_1204392..1204622_POSITIVE 302 79 31 114 59 smit:SMT_1914|5end_K03696_ATP-dependent_Clp_protease_ATP-binding_subunit_ClpC_1859486..1859716_POSITIVE 300 72 31 126 94 smit:SMT_1694|5end_GTPase_1676674..1676904_POSITIVE 299 78 33 67 19 smit:SMT_1806|5end_aminoacylase/N-acyl-L-amino_acid_amidohydrolase/hippurate_hydrolase_1781229..1781459_POSITIVE 299 78 33 67 19 smit:SMT_1635|5end_putative_N-acetyldiaminopimelate_deacetylase_1621426..1621656_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 345 90 41 96 39 smit:SMT_2024|3end_hypothetical_protein_1940690..1940840_POSITIVE 345 90 41 85 28 smit:SMT_2002|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1924145..1924295_NEGATIVE 345 90 41 96 39 smit:SMT_1981|3end_K03696_ATP-dependent_Clp_protease_ATP-binding_subunit_ClpC_1912868..1913018_POSITIVE 345 90 41 101 44 smit:SMT_1971|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1903526..1903676_POSITIVE 345 90 41 85 28 smit:SMT_1966|3end_DNA_polymerase_III_alpha_subunit_1898328..1898478_POSITIVE 345 90 41 96 39 smit:SMT_1942|3end_zinc_metalloprotease_ZmpB,_truncated_1878384..1878534_POSITIVE 345 90 41 85 28 smit:SMT_1927|3end_cell_division_protein_FtsH_1868408..1868558_NEGATIVE 345 90 41 96 39 smit:SMT_1926|3end_mevalonate_kinase_1868062..1868212_POSITIVE 345 90 41 96 39 smit:SMT_1887|3end_LicC_protein_1841740..1841890_POSITIVE 345 90 41 85 28 smit:SMT_1885|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1839830..1839980_NEGATIVE 345 90 41 85 28 smit:SMT_1873|3end_K02006_cobalt_transport_system_ATP-binding_protein_1832351..1832501_POSITIVE 345 90 41 101 44 smit:SMT_1852|3end_1,4-alpha-glucan_branching_enzyme_1816467..1816617_NEGATIVE 345 90 41 101 44 smit:SMT_326|3end_K02029_polar_amino_acid_transport_system_permease_protein_263217..263367_NEGATIVE 337 89 41 69 3 smit:SMT_1941|3end_hypothetical_protein_1877663..1877813_POSITIVE 326 80 34 86 15 smit:SMT_1190|3end_phosphoribosylaminoimidazole_carboxylase,_catalytic_subunit_1147741..1147891_NEGATIVE 321 87 41 59 10 smit:SMT_1925|3end_K03697_ATP-dependent_Clp_protease_ATP-binding_subunit_ClpE_1867458..1867608_POSITIVE 321 87 41 67 18 smit:SMT_1557|3end_hypothetical_protein_1543650..1543800_POSITIVE 319 90 41 85 28 smit:SMT_958|3end_hypothetical_protein_predicted_by_Glimmer/Critica_905239..905389_POSITIVE 314 110 65 59 3 smit:SMT_479|3end_K03308_neurotransmitter:Na+_symporter,_NSS_family_415604..415754_NEGATIVE 305 71 31 76 38 smit:SMT_2015|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1932839..1932989_POSITIVE