Origin IGS: tggttactccttttatttcatataatcttgtttctgcatagatgatggtagagagacttctgtccaatcttacatatttttcttctcacctattattcttttgaaaataatcctctaagtatccgtcagtccatccttaacattatatcaaaaattttacagtctttctctgaggaaatctctcaatttaacagatagatgaagcaagaaatttttgtttccttatccgaagaaggaaaaacgatatctcctgaaccttgatactatgcgttttattctttataatttag .........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.........1.........2.........3.........4.........5.........6.........7.........8.........9 ctaaattataaagaataaaacgcatagtatcaaggttcaggagatatcgtttttccttcttcggataaggaaacaaaaatttcttgcttcatctatctgttaaattgagagatttcctcagagaaagactgtaaaatttttgatataatgttaaggatggactgacggatacttagaggattattttcaaaagaataataggtgagaagaaaaatatgtaagattggacagaagtctctctaccatcatctatgcagaaacaagattatatgaaataaaaggagtaacca Mask Tandem Repeat Region ================================================ tggttactccttttatttcatataatcttgtttctgcatagatgatggtagagagacttctgtccaatcttacatatttttcttctcacctattattcttttgaaaataatcctctaagtatccgtcagtccatccttaacattatatcaaaaattttacagtctttctctgaggaaatctctcaatttaacagatagatgaagcaagaaatttttgtttccttatccgaagaaggaaaaacgatatctcctgaaccttgatactatgcgttttattctttataatttag Find is-nt database================================================ Query_seq: SMT_971:SMT_972|SMT_971:SMT_972:hypothetical protein:ABC-type multidrug/protein/lipid transport system, ATPase component:<-<-:919056..919345 290 tggttactccttttatttcatataatcttgtttctgcatagatgatggtagagagacttctgtccaatcttacatatttttcttctcacctattattcttttgaaaataatcctctaagtatccgtcagtccatccttaacattatatcaaaaattttacagtctttctctgaggaaatctctcaatttaacagatagatgaagcaagaaatttttgtttccttatccgaagaaggaaaaacgatatctcctgaaccttgatactatgcgttttattctttataatttag Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_971:SMT_972|SMT_971:SMT_972:hypothetical protein:ABC-type multidrug/protein/lipid transport system, ATPase component:<-<-:919056..919345 290 tggttactccttttatttcatataatcttgtttctgcatagatgatggtagagagacttctgtccaatcttacatatttttcttctcacctattattcttttgaaaataatcctctaagtatccgtcagtccatccttaacattatatcaaaaattttacagtctttctctgaggaaatctctcaatttaacagatagatgaagcaagaaatttttgtttccttatccgaagaaggaaaaacgatatctcctgaaccttgatactatgcgttttattctttataatttag Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_971:SMT_972|SMT_971:SMT_972:hypothetical protein:ABC-type multidrug/protein/lipid transport system, ATPase component:<-<-:919056..919345 290 tggttactccttttatttcatataatcttgtttctgcatagatgatggtagagagacttctgtccaatcttacatatttttcttctcacctattattcttttgaaaataatcctctaagtatccgtcagtccatccttaacattatatcaaaaattttacagtctttctctgaggaaatctctcaatttaacagatagatgaagcaagaaatttttgtttccttatccgaagaaggaaaaacgatatctcctgaaccttgatactatgcgttttattctttataatttag Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tggttactccttttatttcatataatcttgtttctgcatagatgatggtagagagacttctgtccaatcttacatatttttcttctcacctattattcttttgaaaataatcctctaagtatccgtcagtccatccttaacattatatcaaaaattttacagtctttctctgaggaaatctctcaatttaacagatagatgaagcaagaaatttttgtttccttatccgaagaaggaaaaacgatatctcctgaaccttgatactatgcgttttattctttataatttag Predict ORF larger than 30AA ================================================ Protein_Len: 43 Strand: + Start: 67 End: 195 .................................................................. M L H I F L L T Y Y S F E N N P L S I R Q S I L N I I S K I L Q S F S E E I S Q F N R ............................................................................................... Protein_Len: 32 Strand: - Start: 191 End: 286 .............................................................................................................................................................................................. C I S S A L F K Q K R I R L L F F S I E Q V K I S H T K N K I M .... tggttactccttttatttcatataatcttgtttctgcatagatgatggtagagagacttctgtccaatcttacatatttttcttctcacctattattcttttgaaaataatcctctaagtatccgtcagtccatccttaacattatatcaaaaattttacagtctttctctgaggaaatctctcaatttaacagatagatgaagcaagaaatttttgtttccttatccgaagaaggaaaaacgatatctcctgaaccttgatactatgcgttttattctttataatttag 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: 91 Start: 257 End: 286 ................................................................................................................................................................................................................................................................CTTGATACTATGCGTTTTATTCTTTATAAT.... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ tggttactccttttatttcatataatcttgtttctgcatagatgatggtagagagacttctgtccaatcttacatatttttcttctcacctattattcttttgaaaataatcctctaagtatccgtcagtccatccttaacattatatcaaaaattttacagtctttctctgaggaaatctctcaatttaacagatagatgaagcaagaaatttttgtttccttatccgaagaaggaaaaacgatatctcctgaaccttgatactatgcgttttattctttataatttag Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 40 HP_score: -2.1 Tail_Score: -2.73243 Start: 171 End: 185 Full_Region: TTTACAGTCTTTCTC TGAGG AAATC TCTCA ATTTAACAGATAGAT ..........................................................................................................................................................................TGAGGAAATCTCTCA......................................................................................................... Find igs database================================================ Query_seq: SMT_971:SMT_972|SMT_971:SMT_972:hypothetical protein:ABC-type multidrug/protein/lipid transport system, ATPase component:<-<-:919056..919345 290 tggttactccttttatttcatataatcttgtttctgcatagatgatggtagagagacttctgtccaatcttacatatttttcttctcacctattattcttttgaaaataatcctctaagtatccgtcagtccatccttaacattatatcaaaaattttacagtctttctctgaggaaatctctcaatttaacagatagatgaagcaagaaatttttgtttccttatccgaagaaggaaaaacgatatctcctgaaccttgatactatgcgttttattctttataatttag Intra-Species Hit: Count: 1 Min: 1 Max: 290 Len: 290 Subject: smit_SMT_971_SMT_972|hypothetical protein:ABC-type multidrug/protein/lipid transport system, ATPase component|NEGATIVE:NEGATIVE|[919056,919345]|290 HSP 1 e-value: 1.0E-163 bit: 575.0 Len: 290 Query Start:1 Query End:290 Subject Strand: POSITIVE Subject Start: 1 Subject End: 290 tggttactccttttatttcatataatcttgtttctgcatagatgatggtagagagacttctgtccaatcttacatatttttcttctcacctattattcttttgaaaataatcctctaagtatccgtcagtccatccttaacattatatcaaaaattttacagtctttctctgaggaaatctctcaatttaacagatagatgaagcaagaaatttttgtttccttatccgaagaaggaaaaacgatatctcctgaaccttgatactatgcgttttattctttataatttag tggttactccttttatttcatataatcttgtttctgcatagatgatggtagagagacttctgtccaatcttacatatttttcttctcacctattattcttttgaaaataatcctctaagtatccgtcagtccatccttaacattatatcaaaaattttacagtctttctctgaggaaatctctcaatttaacagatagatgaagcaagaaatttttgtttccttatccgaagaaggaaaaacgatatctcctgaaccttgatactatgcgttttattctttataatttag Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGGUUACUCCUUUUAUUUCAUAUAAUCUUGUUUCUGCAUAGAUGAUGGUAGAGAGACUUCUGUCCAAUCUUACAUAUUUUUCUUCUCACCUAUUAUUCUUUUGAAAAUAAUCCUCUAAGUAUCCGUCAGUCCAUCCUUAACAUUAUAUCAAAAAUUUUACAGUCUUUCUCUGAGGAAAUCUCUCAAUUUAACAGAUAGAUGAAGCAAGAAAUUUUUGUUUCCUUAUCCGAAGAAGGAAAAACGAUAUCUCCUGAACCUUGAUACUAUGCGUUUUAUUCUUUAUAAUUUAG .((.....))..........(((((.........(((((((.(((((((((((.(((....)))..........................((((.(((....)))))))...))))).....)))))).................((((((...........(((((((.(((((.....)))))........(((((..(((((((((...))))))))).)))))...))))))).........((....))...))))))))))))).........)))))...... (-43.97) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CUAAAUUAUAAAGAAUAAAACGCAUAGUAUCAAGGUUCAGGAGAUAUCGUUUUUCCUUCUUCGGAUAAGGAAACAAAAAUUUCUUGCUUCAUCUAUCUGUUAAAUUGAGAGAUUUCCUCAGAGAAAGACUGUAAAAUUUUUGAUAUAAUGUUAAGGAUGGACUGACGGAUACUUAGAGGAUUAUUUUCAAAAGAAUAAUAGGUGAGAAGAAAAAUAUGUAAGAUUGGACAGAAGUCUCUCUACCAUCAUCUAUGCAGAAACAAGAUUAUAUGAAAUAAAAGGAGUAACCA .....................((((((......(((...((((((.((...((((((((....))..))))))......((((((.((.(((((((.((((...(((((((...(((((.(((.....((((...(((((((((.....)))))))))......))))...))).)))))...)))))))...)))))))))))))))))))..................)).))))))..))).....)))))).........................((.....)). (-63.50) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 848 70 21 161 112 smit:SMT_971|5end_hypothetical_protein_918965..919195_NEGATIVE 277 76 33 228 190 smit:SMT_755|5end_shikimate_5-dehydrogenase_659917..660147_NEGATIVE 272 258 212 147 93 smit:SMT_1617|5end_K02015_iron_complex_transport_system_permease_protein_1604500..1604730_NEGATIVE 272 66 30 221 179 smit:SMT_962|5end_putative_hemin_transport_system_ATP-binding_protein_fecE_908584..908814_NEGATIVE 268 135 94 163 124 smit:SMT_1783|5end_peptide_methionine_sulfoxide_reductase_1759756..1759986_POSITIVE 260 66 25 224 181 smit:SMT_1790|5end_hypothetical_protein_1765644..1765874_POSITIVE 259 145 111 135 100 smit:SMT_1451|5end_K02057_simple_sugar_transport_system_permease_protein_1434683..1434913_NEGATIVE 259 68 27 50 9 smit:SMT_1292|5end_K02050_sulfonate/nitrate/taurine_transport_system_permease_protein_1254179..1254409_POSITIVE 256 48 1 109 55 smit:SMT_810|5end_oxidoreductase_720015..720245_POSITIVE 253 59 17 47 8 smit:SMT_1050|5end_transcriptional_regulator_PlcR,_putative_990380..990610_NEGATIVE 249 90 42 207 141 smit:SMT_1589|5end_hypothetical_protein_1578332..1578562_POSITIVE 245 127 81 132 92 smit:SMT_370|5end_acetyltransferase,_GNAT_family_304688..304918_POSITIVE 244 59 11 146 96 smit:SMT_938|5end_hypothetical_protein_891274..891504_NEGATIVE 242 205 161 206 161 smit:SMT_741|5end_K06147_ATP-binding_cassette,_subfamily_B,_bacterial_645618..645848_NEGATIVE 241 138 96 103 62 smit:SMT_1351|5end_dephospho-CoA_kinase_1329817..1330047_NEGATIVE 240 75 34 138 102 smit:SMT_1627|5end_hypothetical_protein_1616415..1616645_NEGATIVE 239 113 77 141 107 smit:SMT_1204|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1164723..1164953_NEGATIVE 239 251 216 190 158 smit:SMT_315|5end_acetyl-coenzyme_A_carboxylase_carboxyl_transferase_subunit_beta_255681..255911_POSITIVE 238 98 58 116 68 smit:SMT_1117|5end_competence_protein_CglA_1054703..1054933_NEGATIVE 238 140 98 66 15 smit:SMT_351|5end_hypothetical_protein_290289..290519_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 298 277 234 68 17 smit:SMT_937|3end_dipeptidase_890741..890891_POSITIVE 292 89 42 69 24 smit:SMT_2064|3end_amino_acid_ABC_transporter,_ATP-binding_protein_1972441..1972591_POSITIVE 271 280 238 63 15 smit:SMT_938|3end_hypothetical_protein_890813..890963_NEGATIVE 268 135 94 67 28 smit:SMT_1782|3end_hypothetical_protein_1759740..1759890_POSITIVE 267 290 249 46 5 smit:SMT_1554|3end_isoleucyl-tRNA_synthetase_1539912..1540062_POSITIVE 260 274 243 31 1 smit:SMT_1019|3end_K03295_cation_efflux_system_protein,_CDF_family_954782..954932_NEGATIVE 259 145 111 142 107 smit:SMT_1452|3end_ABC-type_uncharacterized_transport_system,_ATPase_component_1434676..1434826_NEGATIVE 259 68 27 87 46 smit:SMT_1291|3end_hypothetical_protein_1254296..1254446_POSITIVE 254 71 33 151 110 smit:SMT_672|3end_hypothetical_protein_580899..581049_POSITIVE 248 257 211 88 42 smit:SMT_766|3end_hypothetical_protein_673385..673535_NEGATIVE 241 138 96 103 62 smit:SMT_1352|3end_formamidopyrimidine-DNA_glycosylase_1329817..1329967_NEGATIVE 240 64 26 127 84 smit:SMT_1836|3end_cytidine/deoxycytidylate_deaminase_family_protein_1804100..1804250_NEGATIVE 239 205 168 40 6 smit:SMT_742|3end_hypothetical_protein_645784..645934_NEGATIVE 237 248 212 147 103 smit:SMT_1618|3end_K02015_iron_complex_transport_system_permease_protein_1604490..1604640_NEGATIVE 235 70 26 56 12 smit:SMT_1462|3end_phosphate_ABC_transporter,_ATP-binding_protein,_putative_1443978..1444128_POSITIVE 233 270 241 55 20 smit:SMT_1308|3end_hypothetical_protein_1273854..1274004_POSITIVE 230 208 164 57 13 smit:SMT_328|3end_23S_rRNA_methyltransferase_264863..265013_POSITIVE 229 167 133 70 33 smit:SMT_1274|3end_K02008_cobalt_transport_system_permease_protein_1238615..1238765_POSITIVE 228 271 245 115 92 smit:SMT_1696|3end_hypothetical_protein_1678924..1679074_POSITIVE 227 100 60 149 109 smit:SMT_2048|3end_competence-specific_global_transcription_modulator_1957961..1958111_NEGATIVE