Origin IGS: tttatctccttgtatatcctttatcataccatatttcagagaaagtcgctaatagctatttcaattgattagggtatagttttaccttatagcaaatttcctactaaaagctcttgttattagctagtaggtgcattttttcttgaaaaaaggtatgatagttacatcatgaaaaagtaggttttatt .........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 aataaaacctactttttcatgatgtaactatcataccttttttcaagaaaaaatgcacctactagctaataacaagagcttttagtaggaaatttgctataaggtaaaactataccctaatcaattgaaatagctattagcgactttctctgaaatatggtatgataaaggatatacaaggagataaa Mask Tandem Repeat Region ================================================ tttatctccttgtatatcctttatcataccatatttcagagaaagtcgctaatagctatttcaattgattagggtatagttttaccttatagcaaatttcctactaaaagctcttgttattagctagtaggtgcattttttcttgaaaaaaggtatgatagttacatcatgaaaaagtaggttttatt Find is-nt database================================================ Query_seq: SMT_1621:SMT_1622|SMT_1621:SMT_1622:K09134 hypothetical protein:K03499 trk system potassium uptake protein TrkA:<-->:1608195..1608382 188 tttatctccttgtatatcctttatcataccatatttcagagaaagtcgctaatagctatttcaattgattagggtatagttttaccttatagcaaatttcctactaaaagctcttgttattagctagtaggtgcattttttcttgaaaaaaggtatgatagttacatcatgaaaaagtaggttttatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_1621:SMT_1622|SMT_1621:SMT_1622:K09134 hypothetical protein:K03499 trk system potassium uptake protein TrkA:<-->:1608195..1608382 188 tttatctccttgtatatcctttatcataccatatttcagagaaagtcgctaatagctatttcaattgattagggtatagttttaccttatagcaaatttcctactaaaagctcttgttattagctagtaggtgcattttttcttgaaaaaaggtatgatagttacatcatgaaaaagtaggttttatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_1621:SMT_1622|SMT_1621:SMT_1622:K09134 hypothetical protein:K03499 trk system potassium uptake protein TrkA:<-->:1608195..1608382 188 tttatctccttgtatatcctttatcataccatatttcagagaaagtcgctaatagctatttcaattgattagggtatagttttaccttatagcaaatttcctactaaaagctcttgttattagctagtaggtgcattttttcttgaaaaaaggtatgatagttacatcatgaaaaagtaggttttatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tttatctccttgtatatcctttatcataccatatttcagagaaagtcgctaatagctatttcaattgattagggtatagttttaccttatagcaaatttcctactaaaagctcttgttattagctagtaggtgcattttttcttgaaaaaaggtatgatagttacatcatgaaaaagtaggttttatt Predict ORF larger than 30AA ================================================ tttatctccttgtatatcctttatcataccatatttcagagaaagtcgctaatagctatttcaattgattagggtatagttttaccttatagcaaatttcctactaaaagctcttgttattagctagtaggtgcattttttcttgaaaaaaggtatgatagttacatcatgaaaaagtaggttttatt 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================================================ tttatctccttgtatatcctttatcataccatatttcagagaaagtcgctaatagctatttcaattgattagggtatagttttaccttatagcaaatttcctactaaaagctcttgttattagctagtaggtgcattttttcttgaaaaaaggtatgatagttacatcatgaaaaagtaggttttatt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SMT_1621:SMT_1622|SMT_1621:SMT_1622:K09134 hypothetical protein:K03499 trk system potassium uptake protein TrkA:<-->:1608195..1608382 188 tttatctccttgtatatcctttatcataccatatttcagagaaagtcgctaatagctatttcaattgattagggtatagttttaccttatagcaaatttcctactaaaagctcttgttattagctagtaggtgcattttttcttgaaaaaaggtatgatagttacatcatgaaaaagtaggttttatt Intra-Species Hit: Count: 1 Min: 1 Max: 188 Len: 188 Subject: smit_SMT_1621_SMT_1622|K09134 hypothetical protein:K03499 trk system potassium uptake protein TrkA|NEGATIVE:POSITIVE|[1608195,1608382]|188 HSP 1 e-value: 1.0E-102 bit: 373.0 Len: 188 Query Start:1 Query End:188 Subject Strand: POSITIVE Subject Start: 1 Subject End: 188 tttatctccttgtatatcctttatcataccatatttcagagaaagtcgctaatagctatttcaattgattagggtatagttttaccttatagcaaatttcctactaaaagctcttgttattagctagtaggtgcattttttcttgaaaaaaggtatgatagttacatcatgaaaaagtaggttttatt tttatctccttgtatatcctttatcataccatatttcagagaaagtcgctaatagctatttcaattgattagggtatagttttaccttatagcaaatttcctactaaaagctcttgttattagctagtaggtgcattttttcttgaaaaaaggtatgatagttacatcatgaaaaagtaggttttatt Inter-species Hit: Count: 3 Min: 1 Max: 188 Len: 188 Subject: NC_008533_SPD_0430_SPD_0431|potassium uptake protein, Trk family protein:hypothetical protein|NEGATIVE:POSITIVE|[435802,435989]|188 HSP 1 e-value: 5.0E-93 bit: 341.0 Len: 188 Query Start:1 Query End:188 Subject Strand: NEGATIVE Subject Start: 1 Subject End: 188 tttatctccttgtatatcctttatcataccatatttcagagaaagtcgctaatagctatttcaattgattagggtatagttttaccttatagcaaatttcctactaaaagctcttgttattagctagtaggtgcattttttcttgaaaaaaggtatgatagttacatcatgaaaaagtaggttttatt tttatctccttgtatatcctttatcataccatatttcagagaaagtcgctaatagctatttcaattggttagggtatagttttaccttatagcaaatttcctactaaaagttcttgttattagctagtaggtgctttttttcttgaaaaagggtatgatagttacatcatgaaaaagtaggttttatt Subject: NC_003098_spr0427_spr0428|Trk transporter NAD+ binding protein - K+ transport:hypothetical protein|NEGATIVE:POSITIVE|[428272,428432]|161 HSP 1 e-value: 7.0E-77 bit: 287.0 Len: 161 Query Start:28 Query End:188 Subject Strand: NEGATIVE Subject Start: 1 Subject End: 161 ...........................accatatttcagagaaagtcgctaatagctatttcaattgattagggtatagttttaccttatagcaaatttcctactaaaagctcttgttattagctagtaggtgcattttttcttgaaaaaaggtatgatagttacatcatgaaaaagtaggttttatt ...........................accatatttcagagaaagtcgctaatagctatttcaattggttagggtatagttttaccttatagcaaatttcctactaaaagttcttgttattagctagtaggtgctttttttcttgaaaaagggtatgatagttacatcatgaaaaagtaggttttatt Subject: NC_003028_SP_0480_SP_0481|potassium uptake protein, Trk family:hypothetical protein|NEGATIVE:POSITIVE|[461941,462100]|160 HSP 1 e-value: 9.0E-70 bit: 264.0 Len: 161 Query Start:28 Query End:188 Subject Strand: NEGATIVE Subject Start: 1 Subject End: 160 ...........................accatatttcagagaaagtcgctaatagctatttcaattgattagggtatagttttaccttatagcaaatttcctactaaaagctcttgttattagctagtaggtgcattttttcttgaaaaaaggtatgatagttacatcatgaaaaagtaggttttatt ...........................accatatttcagagaaagtcgctaatagctatttcaattggttagggtatagttttaccttatagcgaattttc-actaaaaactcttgttattagctagtaggtgcattttttcttgaaaaagggtatgatagttacatcatgaaaaagtaggttttatt Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUAUCUCCUUGUAUAUCCUUUAUCAUACCAUAUUUCAGAGAAAGUCGCUAAUAGCUAUUUCAAUUGAUUAGGGUAUAGUUUUACCUUAUAGCAAAUUUCCUACUAAAAGCUCUUGUUAUUAGCUAGUAGGUGCAUUUUUUCUUGAAAAAAGGUAUGAUAGUUACAUCAUGAAAAAGUAGGUUUUAUU ...((((.(((.(((.....((((((((((...(((((((((((((((((..((((((......(((..(((((((......)))))))...))).............(((....)))..))))))...)))).)))))))).)))))...)))))))))).......)))...))).))))...... (-44.70) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAUAAAACCUACUUUUUCAUGAUGUAACUAUCAUACCUUUUUUCAAGAAAAAAUGCACCUACUAGCUAAUAACAAGAGCUUUUAGUAGGAAAUUUGCUAUAAGGUAAAACUAUACCCUAAUCAAUUGAAAUAGCUAUUAGCGACUUUCUCUGAAAUAUGGUAUGAUAAAGGAUAUACAAGGAGAUAAA .............(((((.((((((...(((((((((...((((((((((...(((.((((((((((.........))))...))))))......(((((..((((......))))....((....)).))))).....)))..))))).)))))...)))))))))....)))).)).))))).... (-43.00) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 800 50 1 141 92 smit:SMT_1621|5end_K09134_hypothetical_protein_1608104..1608334_NEGATIVE 296 119 71 219 158 smit:SMT_1719|5end_DNA_mismatch_repair_protein_1706842..1707072_NEGATIVE 274 159 111 57 1 smit:SMT_308|5end_trans-2-enoyl-ACP_reductase_II_249439..249669_POSITIVE 264 132 95 78 43 smit:SMT_343|5end_hypothetical_protein_283554..283784_NEGATIVE 259 140 97 208 163 smit:SMT_1615|5end_K02016_iron_complex_transport_system_substrate-binding_protein_1602699..1602929_NEGATIVE 259 152 111 176 128 smit:SMT_975|5end_hypothetical_protein_922953..923183_POSITIVE 249 144 108 84 48 smit:SMT_1731|5end_K06442_putative_hemolysin_1715643..1715873_POSITIVE 249 53 23 130 96 smit:SMT_1252|5end_hypothetical_protein_1212342..1212572_POSITIVE 244 115 71 229 187 smit:SMT_110|5end_alpha-L-fucosidase_57445..57675_POSITIVE 241 49 5 137 102 smit:SMT_1540|5end_hypothetical_protein_1525005..1525235_NEGATIVE 240 86 45 125 84 smit:SMT_1407|5end_ribonuclease_HII_1386309..1386539_NEGATIVE 237 136 91 60 17 smit:SMT_420|5end_hypothetical_protein_predicted_by_Glimmer/Critica_362795..363025_POSITIVE 236 46 4 147 101 smit:SMT_1072|5end_Cof_family_protein_1011193..1011423_NEGATIVE 236 163 123 101 60 smit:SMT_456|5end_pyruvate_oxidase_394236..394466_POSITIVE 230 102 65 155 118 smit:SMT_1022|5end_glycine_betaine_transport_ATP-binding_protein_958720..958950_NEGATIVE 228 170 122 206 150 smit:SMT_1773|5end_hypothetical_protein_1749241..1749471_POSITIVE 227 135 91 154 116 smit:SMT_1973|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1905438..1905668_NEGATIVE 227 138 91 189 144 smit:SMT_962|5end_putative_hemin_transport_system_ATP-binding_protein_fecE_908584..908814_NEGATIVE 226 174 138 225 190 smit:SMT_207|5end_putative_two-component_sensor_histidine_kinase_139879..140109_NEGATIVE 222 159 114 143 102 smit:SMT_1591|5end_DNA-entry_nuclease_1578873..1579103_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 265 50 7 149 101 smit:SMT_1313|3end_extramembranal_protein_1278622..1278772_POSITIVE 264 132 95 68 33 smit:SMT_344|3end_K02503_Hit-like_protein_involved_in_cell-cycle_regulation_283564..283714_NEGATIVE 259 140 97 112 67 smit:SMT_1616|3end_putative_ABC-type_cobalamin_Fe3+-siderophores_transport_system_ATPase_component_1602795..1602945_NEGATIVE 249 144 108 91 55 smit:SMT_1730|3end_geranyltranstransferase_1715730..1715880_POSITIVE 241 49 5 59 24 smit:SMT_1541|3end_isopentenyl-diphosphate_delta-isomerase_1525083..1525233_NEGATIVE 240 86 45 138 97 smit:SMT_1408|3end_GTP-binding_protein_1386296..1386446_NEGATIVE 230 102 65 140 103 smit:SMT_1023|3end_hypothetical_protein_958735..958885_NEGATIVE 221 144 109 146 111 smit:SMT_1859|3end_serine_protease_1822050..1822200_NEGATIVE 221 144 109 146 111 smit:SMT_1660|3end_serine_protease_1649852..1650002_NEGATIVE 221 144 109 146 111 smit:SMT_87|3end_serine_protease_18908..19058_POSITIVE 220 88 41 51 5 smit:SMT_1602|3end_hypothetical_protein_1593442..1593592_POSITIVE 220 134 97 146 111 smit:SMT_1590|3end_DNA-entry_nuclease_1578980..1579130_POSITIVE 218 93 55 49 8 smit:SMT_1302|3end_hypothetical_protein_1264649..1264799_POSITIVE 217 170 121 61 11 smit:SMT_1460|3end_K02038_phosphate_transport_system_permease_protein_1442393..1442543_POSITIVE 215 89 48 71 34 smit:SMT_1383|3end_ribonucleoside-diphosphate_reductase_alpha_chain_1360795..1360945_NEGATIVE 214 145 109 115 86 smit:SMT_429|3end_K06207_GTP-binding_protein_371890..372040_POSITIVE 212 124 85 99 68 smit:SMT_2019|3end_dTDP-glucose_4,6-dehydratase_1937643..1937793_POSITIVE 212 145 111 129 99 smit:SMT_1577|3end_ribose_ABC_transporter,_ATP-binding_protein_1570920..1571070_POSITIVE 212 124 85 99 68 smit:SMT_1316|3end_dTDP-glucose_4,6-dehydratase_1281969..1282119_POSITIVE 211 134 91 117 55 smit:SMT_401|3end_peptide_methionine_sulfoxide_reductase_330855..331005_POSITIVE