Origin IGS: taatttaagaaaaacgagcatttttaggataagaatgttcgtttttttatgtgaatatggtataatagataaaatatcaaaattaaatgaagtgggaaatagaa .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 ttctatttcccacttcatttaattttgatattttatctattataccatattcacataaaaaaacgaacattcttatcctaaaaatgctcgtttttcttaaatta Mask Tandem Repeat Region ================================================ taatttaagaaaaacgagcatttttaggataagaatgttcgtttttttatgtgaatatggtataatagataaaatatcaaaattaaatgaagtgggaaatagaa Find is-nt database================================================ Query_seq: SMT_1698:SMT_1699|SMT_1698:SMT_1699:CMP-binding factor:purine operon repressor:->->:1681174..1681277 104 taatttaagaaaaacgagcatttttaggataagaatgttcgtttttttatgtgaatatggtataatagataaaatatcaaaattaaatgaagtgggaaatagaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_1698:SMT_1699|SMT_1698:SMT_1699:CMP-binding factor:purine operon repressor:->->:1681174..1681277 104 taatttaagaaaaacgagcatttttaggataagaatgttcgtttttttatgtgaatatggtataatagataaaatatcaaaattaaatgaagtgggaaatagaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_1698:SMT_1699|SMT_1698:SMT_1699:CMP-binding factor:purine operon repressor:->->:1681174..1681277 104 taatttaagaaaaacgagcatttttaggataagaatgttcgtttttttatgtgaatatggtataatagataaaatatcaaaattaaatgaagtgggaaatagaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taatttaagaaaaacgagcatttttaggataagaatgttcgtttttttatgtgaatatggtataatagataaaatatcaaaattaaatgaagtgggaaatagaa Predict ORF larger than 30AA ================================================ taatttaagaaaaacgagcatttttaggataagaatgttcgtttttttatgtgaatatggtataatagataaaatatcaaaattaaatgaagtgggaaatagaa 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================================================ taatttaagaaaaacgagcatttttaggataagaatgttcgtttttttatgtgaatatggtataatagataaaatatcaaaattaaatgaagtgggaaatagaa Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SMT_1698:SMT_1699|SMT_1698:SMT_1699:CMP-binding factor:purine operon repressor:->->:1681174..1681277 104 taatttaagaaaaacgagcatttttaggataagaatgttcgtttttttatgtgaatatggtataatagataaaatatcaaaattaaatgaagtgggaaatagaa Intra-Species Hit: Count: 1 Min: 1 Max: 104 Len: 104 Subject: smit_SMT_1698_SMT_1699|CMP-binding factor:purine operon repressor|POSITIVE:POSITIVE|[1681174,1681277]|104 HSP 1 e-value: 3.0E-40 bit: 165.0 Len: 104 Query Start:1 Query End:104 Subject Strand: POSITIVE Subject Start: 1 Subject End: 104 taatttaagaaaaacgagcatttttaggataagaatgttcgnnnnnnnatgtgaatatggtataatagataaaatatcaaaattaaatgaagtgggaaatagaa taatttaagaaaaacgagcatttttaggataagaatgttcgtttttttatgtgaatatggtataatagataaaatatcaaaattaaatgaagtgggaaatagaa Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUUUAAGAAAAACGAGCAUUUUUAGGAUAAGAAUGUUCGUUUUUUUAUGUGAAUAUGGUAUAAUAGAUAAAAUAUCAAAAUUAAAUGAAGUGGGAAAUAGAA .......(((((((((((((((((((...))))))))))))))))))).........((((((..........))))))......................... (-20.10) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUCUAUUUCCCACUUCAUUUAAUUUUGAUAUUUUAUCUAUUAUACCAUAUUCACAUAAAAAAACGAACAUUCUUAUCCUAAAAAUGCUCGUUUUUCUUAAAUUA ..............(((........)))..............................((((((((.((((.(((...))).)))).))))))))......... ( -8.10) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 263 47 4 189 152 smit:SMT_1796|5end_dihydroorotate_dehydrogenase_A_1770816..1771046_NEGATIVE 225 53 11 226 181 smit:SMT_1511|5end_hypothetical_protein_1493637..1493867_POSITIVE 211 60 12 190 140 smit:SMT_1012|5end_xanthine_permease_949154..949384_POSITIVE 209 58 14 97 49 smit:SMT_259|5end_dipeptide/tripeptide_permease_197629..197859_POSITIVE 199 30 3 198 173 smit:SMT_1566|5end_K03475_PTS_system,_unknown_pentitol_phosphotransferase_enzyme_IIC_component_1557918..1558148_POSITIVE 198 52 14 47 15 smit:SMT_967|5end_K01992_ABC-2_type_transport_system_permease_protein_913297..913527_NEGATIVE 185 69 42 128 101 smit:SMT_300|5end_hypothetical_protein_243512..243742_POSITIVE 182 70 21 118 67 smit:SMT_996|5end_K03309_dicarboxylate/amino_acid:cation_(Na+_or_H+)_symporter,_DAACS_family_936859..937089_POSITIVE 181 54 15 95 58 smit:SMT_1812|5end_K07485_transposase_1786418..1786648_POSITIVE 179 99 59 231 196 smit:SMT_782|5end_GMP_synthase_694519..694749_NEGATIVE 177 55 11 96 51 smit:SMT_120|5end_hypothetical_protein_72174..72404_POSITIVE 176 47 3 73 35 smit:SMT_353|5end_immunity_protein_BlpL_290880..291110_POSITIVE 173 61 28 215 177 smit:SMT_1586|5end_K07177_PDZ_domain-containing_protein_1575714..1575944_POSITIVE 170 54 14 108 68 smit:SMT_799|5end_hypothetical_protein_707553..707783_NEGATIVE 169 70 36 97 54 smit:SMT_1844|5end_hypothetical_protein_1808587..1808817_POSITIVE 168 68 25 165 117 smit:SMT_670|5end_aminotransferase_(class_V),_putative_579129..579359_POSITIVE 168 54 17 201 163 smit:SMT_301|5end_hypothetical_protein_244086..244316_POSITIVE 167 40 15 201 173 smit:SMT_1653|5end_hydrolase_1641328..1641558_POSITIVE 167 59 14 92 30 smit:SMT_206|5end_K07720_two-component_system,_response_regulator_YesN_138237..138467_NEGATIVE 166 60 14 184 145 smit:SMT_1536|5end_trigger_factor_1521919..1522149_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 354 48 3 83 35 smit:SMT_1698|3end_CMP-binding_factor_1681113..1681263_POSITIVE 284 48 11 51 13 smit:SMT_699|3end_K03106_signal_recognition_particle,_subunit_SRP54_609941..610091_NEGATIVE 239 44 6 55 22 smit:SMT_1983|3end_glycerophosphoryl_diester_phosphodiesterase_1913455..1913605_NEGATIVE 227 39 8 41 6 smit:SMT_838|3end_cation_efflux_family_protein_784203..784353_POSITIVE 221 60 19 74 28 smit:SMT_1328|3end_hypothetical_protein_1304310..1304460_NEGATIVE 206 55 16 127 82 smit:SMT_1157|3end_septation_ring_formation_regulator_EzrA_1100202..1100352_NEGATIVE 206 69 27 114 66 smit:SMT_625|3end_50S_ribosomal_protein_L27_530400..530550_POSITIVE 198 52 14 45 13 smit:SMT_968|3end_K01990_ABC-2_type_transport_system_ATP-binding_protein_913299..913449_NEGATIVE 191 60 13 66 19 smit:SMT_1482|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1463061..1463211_NEGATIVE 182 95 56 130 84 smit:SMT_778|3end_S-adenosylmethionine:tRNA_ribosyltransferase-isomerase_687834..687984_POSITIVE 177 46 8 74 45 smit:SMT_865|3end_50S_ribosomal_protein_L1_815022..815172_NEGATIVE 176 47 3 44 6 smit:SMT_352|3end_hypothetical_protein_290931..291081_POSITIVE 174 70 31 55 9 smit:SMT_1432|3end_hypothetical_protein_1416752..1416902_NEGATIVE 170 54 14 65 25 smit:SMT_800|3end_glycyl-tRNA_synthetase_beta_chain_707596..707746_NEGATIVE 169 54 14 132 86 smit:SMT_615|3end_UDP-N-acetylglucosamine_1-carboxyvinyltransferase_525617..525767_POSITIVE 168 54 17 148 110 smit:SMT_300|3end_hypothetical_protein_244113..244263_POSITIVE 167 59 14 99 37 smit:SMT_207|3end_putative_two-component_sensor_histidine_kinase_138230..138380_NEGATIVE 166 60 14 100 61 smit:SMT_1537|3end_hypothetical_protein_1522003..1522153_NEGATIVE 164 36 4 50 18 smit:SMT_1223|3end_pneumococcal_surface_protein_A_1187151..1187301_NEGATIVE 163 52 17 42 9 smit:SMT_1842|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1807784..1807934_NEGATIVE