Origin IGS: tgagaatcaaaggatagctttgtatgaggctatcctttttagttacaaaatagatggttaacattttatttttaaaaatcgcagtaaaaactgcacaaccttctttaa .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 ttaaagaaggttgtgcagtttttactgcgatttttaaaaataaaatgttaaccatctattttgtaactaaaaaggatagcctcatacaaagctatcctttgattctca Mask Tandem Repeat Region ================================================ tgagaatcaaaggatagctttgtatgaggctatcctttttagttacaaaatagatggttaacattttatttttaaaaatcgcagtaaaaactgcacaaccttctttaa Find is-nt database================================================ Query_seq: SMT_1323:SMT_1324|SMT_1323:SMT_1324:K02077 zinc/manganese transport system substrate-binding protein:hypothetical protein predicted by Glimmer/Critica:->->:1293833..1293940 108 tgagaatcaaaggatagctttgtatgaggctatcctttttagttacaaaatagatggttaacattttatttttaaaaatcgcagtaaaaactgcacaaccttctttaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_1323:SMT_1324|SMT_1323:SMT_1324:K02077 zinc/manganese transport system substrate-binding protein:hypothetical protein predicted by Glimmer/Critica:->->:1293833..1293940 108 tgagaatcaaaggatagctttgtatgaggctatcctttttagttacaaaatagatggttaacattttatttttaaaaatcgcagtaaaaactgcacaaccttctttaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_1323:SMT_1324|SMT_1323:SMT_1324:K02077 zinc/manganese transport system substrate-binding protein:hypothetical protein predicted by Glimmer/Critica:->->:1293833..1293940 108 tgagaatcaaaggatagctttgtatgaggctatcctttttagttacaaaatagatggttaacattttatttttaaaaatcgcagtaaaaactgcacaaccttctttaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tgagaatcaaaggatagctttgtatgaggctatcctttttagttacaaaatagatggttaacattttatttttaaaaatcgcagtaaaaactgcacaaccttctttaa Predict ORF larger than 30AA ================================================ tgagaatcaaaggatagctttgtatgaggctatcctttttagttacaaaatagatggttaacattttatttttaaaaatcgcagtaaaaactgcacaaccttctttaa 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================================================ tgagaatcaaaggatagctttgtatgaggctatcctttttagttacaaaatagatggttaacattttatttttaaaaatcgcagtaaaaactgcacaaccttctttaa Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SMT_1323:SMT_1324|SMT_1323:SMT_1324:K02077 zinc/manganese transport system substrate-binding protein:hypothetical protein predicted by Glimmer/Critica:->->:1293833..1293940 108 tgagaatcaaaggatagctttgtatgaggctatcctttttagttacaaaatagatggttaacattttatttttaaaaatcgcagtaaaaactgcacaaccttctttaa Intra-Species Hit: Count: 1 Min: 1 Max: 108 Len: 108 Subject: smit_SMT_1323_SMT_1324|K02077 zinc/manganese transport system substrate-binding protein:hypothetical protein predicted by Glimmer/Critica|POSITIVE:POSITIVE|[1293833,1293940]|108 HSP 1 e-value: 4.0E-55 bit: 214.0 Len: 108 Query Start:1 Query End:108 Subject Strand: POSITIVE Subject Start: 1 Subject End: 108 tgagaatcaaaggatagctttgtatgaggctatcctttttagttacaaaatagatggttaacattttatttttaaaaatcgcagtaaaaactgcacaaccttctttaa tgagaatcaaaggatagctttgtatgaggctatcctttttagttacaaaatagatggttaacattttatttttaaaaatcgcagtaaaaactgcacaaccttctttaa Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAGAAUCAAAGGAUAGCUUUGUAUGAGGCUAUCCUUUUUAGUUACAAAAUAGAUGGUUAACAUUUUAUUUUUAAAAAUCGCAGUAAAAACUGCACAACCUUCUUUAA ........(((((((((((((....))))))))))))).............(((.((((....(((((....)))))...(((((....)))))..)))).))).... (-28.80) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUAAAGAAGGUUGUGCAGUUUUUACUGCGAUUUUUAAAAAUAAAAUGUUAACCAUCUAUUUUGUAACUAAAAAGGAUAGCCUCAUACAAAGCUAUCCUUUGAUUCUCA ....(((.(((((.(((((....)))))...(((((....)))))...))))).))).............((((((((((..........))))))))))........ (-25.20) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 249 35 1 163 132 smit:SMT_1544|5end_mevalonate_kinase_1528884..1529114_NEGATIVE 229 58 12 119 79 smit:SMT_1602|5end_hypothetical_protein_1592385..1592615_POSITIVE 225 59 11 130 85 smit:SMT_1395|5end_K07025_putative_hydrolase_of_the_HAD_superfamily_1371310..1371540_POSITIVE 223 45 6 90 50 smit:SMT_1890|5end_hypothetical_protein_1843407..1843637_POSITIVE 219 39 6 60 23 smit:SMT_1854|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1818375..1818605_POSITIVE 216 36 1 53 16 smit:SMT_796|5end_K03734_thiamine_biosynthesis_lipoprotein_704211..704441_POSITIVE 216 59 11 39 6 smit:SMT_378|5end_hypothetical_protein_predicted_by_Glimmer/Critica_315884..316114_POSITIVE 214 59 17 98 52 smit:SMT_672|5end_hypothetical_protein_580604..580834_POSITIVE 211 43 2 150 111 smit:SMT_1617|5end_K02015_iron_complex_transport_system_permease_protein_1604500..1604730_NEGATIVE 208 57 11 228 178 smit:SMT_1739|5end_hypothetical_protein_1721263..1721493_POSITIVE 207 36 18 119 101 smit:SMT_977|5end_conserved_hypothetical_protein,_Rrf2_family_protein_925689..925919_NEGATIVE 207 44 7 80 34 smit:SMT_579|5end_ribosomal_large_subunit_pseudouridine_synthase_D_496512..496742_POSITIVE 205 84 43 171 132 smit:SMT_2095|5end_K00783_hypothetical_protein_1989876..1990106_POSITIVE 205 84 43 171 132 smit:SMT_2004|5end_K00783_hypothetical_protein_1924930..1925160_POSITIVE 205 84 43 171 132 smit:SMT_86|5end_K00783_hypothetical_protein_17514..17744_NEGATIVE 202 41 1 228 176 smit:SMT_1833|5end_tagatose_1,6-diphosphate_aldolase_1801369..1801599_POSITIVE 200 55 19 197 167 smit:SMT_1112|5end_K02248_competence_protein_ComGF_1051848..1052078_NEGATIVE 200 59 19 62 19 smit:SMT_820|5end_ABC-type_oligopeptide_transport_system,_periplasmic_component_732557..732787_NEGATIVE 194 29 1 191 161 smit:SMT_962|5end_putative_hemin_transport_system_ATP-binding_protein_fecE_908584..908814_NEGATIVE 193 35 1 156 125 smit:SMT_1963|5end_ribonuclease_BN,_putative_1896462..1896692_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 337 38 9 82 53 smit:SMT_1323|3end_K02077_zinc/manganese_transport_system_substrate-binding_protein_1293772..1293922_POSITIVE 256 44 1 140 92 smit:SMT_571|3end_putative_transposase,_ISSmu1_490009..490159_POSITIVE 247 45 2 149 98 smit:SMT_741|3end_K06147_ATP-binding_cassette,_subfamily_B,_bacterial_644314..644464_NEGATIVE 228 58 11 137 73 smit:SMT_1742|3end_sodium-dependent_phosphate_transporter_1724991..1725141_POSITIVE 223 45 6 70 30 smit:SMT_1889|3end_hypothetical_protein_1843467..1843617_POSITIVE 214 59 17 90 44 smit:SMT_671|3end_hypothetical_protein_580676..580826_POSITIVE 208 41 12 75 47 smit:SMT_2070|3end_K02035_peptide/nickel_transport_system_substrate-binding_protein_1975627..1975777_POSITIVE 207 36 18 43 25 smit:SMT_978|3end_hypothetical_protein_925765..925915_NEGATIVE 207 44 7 90 44 smit:SMT_578|3end_lipoprotein_signal_peptidase_496602..496752_POSITIVE 202 42 1 94 59 smit:SMT_1618|3end_K02015_iron_complex_transport_system_permease_protein_1604490..1604640_NEGATIVE 198 43 3 95 49 smit:SMT_1524|3end_peptidase_T_1505867..1506017_POSITIVE 197 50 1 86 35 smit:SMT_964|3end_cadmium_resistance_transporter,_putative_909891..910041_NEGATIVE 196 59 16 36 1 smit:SMT_1738|3end_peptidyl-prolyl_cis-trans_isomerase_1721341..1721491_POSITIVE 196 31 9 102 80 smit:SMT_1642|3end_K03497_chromosome_partitioning_protein,_ParB_family_1628493..1628643_NEGATIVE 196 31 9 102 80 smit:SMT_88|3end_K03497_chromosome_partitioning_protein,_ParB_family_19724..19874_POSITIVE 190 37 1 49 11 smit:SMT_157|3end_hypothetical_protein_103871..104021_POSITIVE 188 48 3 102 56 smit:SMT_1279|3end_translation_elongation_factor_Ts_1243451..1243601_POSITIVE 184 44 7 67 37 smit:SMT_1670|3end_K02030_polar_amino_acid_transport_system_substrate-binding_protein_1659295..1659445_POSITIVE 184 44 7 46 16 smit:SMT_1068|3end_ATP-dependent_DNA_helicase_RecG_1008986..1009136_POSITIVE 184 58 11 150 93 smit:SMT_1034|3end_K05896_segregation_and_condensation_protein_A_976768..976918_NEGATIVE