Origin IGS: agtcattatccttttctagttgatttttttcgttagctggattcctagaatccaagtgaaacaggcagattgaccaaacagcgcttctagagaaatccttatc .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 gataaggatttctctagaagcgctgtttggtcaatctgcctgtttcacttggattctaggaatccagctaacgaaaaaaatcaactagaaaaggataatgact Mask Tandem Repeat Region ================================================ agtcattatccttttctagttgatttttttcgttagctggattcctagaatccaagtgaaacaggcagattgaccaaacagcgcttctagagaaatccttatc Find is-nt database================================================ Query_seq: SMT_899:SMT_900|SMT_899:SMT_900:5,10-methylenetetrahydrofolate reductase:5-methyltetrahydropteroyltriglutamate-- homocysteine methyltransferase:<-<-:848354..848456 103 agtcattatccttttctagttgatttttttcgttagctggattcctagaatccaagtgaaacaggcagattgaccaaacagcgcttctagagaaatccttatc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_899:SMT_900|SMT_899:SMT_900:5,10-methylenetetrahydrofolate reductase:5-methyltetrahydropteroyltriglutamate-- homocysteine methyltransferase:<-<-:848354..848456 103 agtcattatccttttctagttgatttttttcgttagctggattcctagaatccaagtgaaacaggcagattgaccaaacagcgcttctagagaaatccttatc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_899:SMT_900|SMT_899:SMT_900:5,10-methylenetetrahydrofolate reductase:5-methyltetrahydropteroyltriglutamate-- homocysteine methyltransferase:<-<-:848354..848456 103 agtcattatccttttctagttgatttttttcgttagctggattcctagaatccaagtgaaacaggcagattgaccaaacagcgcttctagagaaatccttatc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 agtcattatccttttctagttgatttttttcgttagctggattcctagaatccaagtgaaacaggcagattgaccaaacagcgcttctagagaaatccttatc Predict ORF larger than 30AA ================================================ agtcattatccttttctagttgatttttttcgttagctggattcctagaatccaagtgaaacaggcagattgaccaaacagcgcttctagagaaatccttatc 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================================================ agtcattatccttttctagttgatttttttcgttagctggattcctagaatccaagtgaaacaggcagattgaccaaacagcgcttctagagaaatccttatc Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SMT_899:SMT_900|SMT_899:SMT_900:5,10-methylenetetrahydrofolate reductase:5-methyltetrahydropteroyltriglutamate-- homocysteine methyltransferase:<-<-:848354..848456 103 agtcattatccttttctagttgatttttttcgttagctggattcctagaatccaagtgaaacaggcagattgaccaaacagcgcttctagagaaatccttatc Intra-Species Hit: Count: 1 Min: 1 Max: 103 Len: 103 Subject: smit_SMT_899_SMT_900|5,10-methylenetetrahydrofolate reductase:5-methyltetrahydropteroyltriglutamate-- homocysteine methyltransferase|NEGATIVE:NEGATIVE|[848354,848456]|103 HSP 1 e-value: 1.0E-39 bit: 163.0 Len: 103 Query Start:1 Query End:103 Subject Strand: POSITIVE Subject Start: 1 Subject End: 103 agtcattatccttttctagttgannnnnnncgttagctggattcctagaatccaagtgaaacaggcagattgaccaaacagcgcttctagagaaatccttatc agtcattatccttttctagttgatttttttcgttagctggattcctagaatccaagtgaaacaggcagattgaccaaacagcgcttctagagaaatccttatc Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGUCAUUAUCCUUUUCUAGUUGAUUUUUUUCGUUAGCUGGAUUCCUAGAAUCCAAGUGAAACAGGCAGAUUGACCAAACAGCGCUUCUAGAGAAAUCCUUAUC ...........((((((((..(.........(((.(((((((((...)))))).)))..))).(((.....).))........)..))))))))......... (-17.90) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GAUAAGGAUUUCUCUAGAAGCGCUGUUUGGUCAAUCUGCCUGUUUCACUUGGAUUCUAGGAAUCCAGCUAACGAAAAAAAUCAACUAGAAAAGGAUAAUGACU ....((..((((....))))..))....(((((.....(((.((((..((((((((...)))))))).....((......)).....)))))))....))))) (-17.60) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 925 100 51 191 142 smit:SMT_899|5end_5,10-methylenetetrahydrofolate_reductase_848263..848493_NEGATIVE 299 94 52 49 10 smit:SMT_1518|5end_sensor_histidine_kinase_1499009..1499239_NEGATIVE 277 50 5 112 65 smit:SMT_1350|5end_multidrug_resistance_efflux_pump_1329225..1329455_NEGATIVE 276 90 42 217 160 smit:SMT_367|5end_hypothetical_protein_302318..302548_POSITIVE 275 46 1 56 3 smit:SMT_1739|5end_hypothetical_protein_1721263..1721493_POSITIVE 272 58 13 128 80 smit:SMT_1008|5end_hypothetical_protein_948021..948251_NEGATIVE 269 73 31 124 89 smit:SMT_2015|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1932655..1932885_POSITIVE 269 73 32 208 164 smit:SMT_1897|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1848858..1849088_NEGATIVE 268 100 54 209 150 smit:SMT_152|5end_sensor_histidine_kinase,_putative_100759..100989_POSITIVE 267 88 41 174 120 smit:SMT_1506|5end_Cl-channel,_voltage-gated_family_protein_1489986..1490216_NEGATIVE 267 46 2 101 58 smit:SMT_1331|5end_hypothetical_protein_1306236..1306466_NEGATIVE 259 49 1 214 170 smit:SMT_452|5end_phosphomethylpyrimidine_kinase_390568..390798_NEGATIVE 258 99 51 62 9 smit:SMT_416|5end_ribonuclease_Z_359423..359653_POSITIVE 252 80 32 214 165 smit:SMT_1668|5end_K+_transport_system,_NAD-binding_component_1658288..1658518_NEGATIVE 251 46 1 181 139 smit:SMT_2044|5end_transcriptional_activator_TipA,_putative_1955885..1956115_NEGATIVE 250 90 45 176 123 smit:SMT_2032|5end_hydrolase,_alpha/beta_fold_family_1946421..1946651_NEGATIVE 249 70 27 126 85 smit:SMT_1174|5end_acylneuraminate_cytidylyltransferase_1126321..1126551_NEGATIVE 248 45 2 103 64 smit:SMT_1378|5end_DNA_polymerase_III,_delta'_subunit_1356803..1357033_NEGATIVE 245 87 42 102 51 smit:SMT_962|5end_putative_hemin_transport_system_ATP-binding_protein_fecE_908584..908814_NEGATIVE 242 80 35 220 177 smit:SMT_590|5end_tetratricopeptide_repeat_family_protein_506737..506967_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 299 94 52 52 13 smit:SMT_1519|3end_DNA-binding_response_regulator_VncR_1499006..1499156_NEGATIVE 277 50 5 125 78 smit:SMT_1351|3end_dephospho-CoA_kinase_1329212..1329362_NEGATIVE 275 46 1 54 1 smit:SMT_1738|3end_peptidyl-prolyl_cis-trans_isomerase_1721341..1721491_POSITIVE 269 73 31 116 81 smit:SMT_2014|3end_tryptophan_synthase_beta_chain_1932727..1932877_POSITIVE 267 46 2 86 43 smit:SMT_1332|3end_hypothetical_protein_1306251..1306401_NEGATIVE 256 72 31 78 34 smit:SMT_1806|3end_aminoacylase/N-acyl-L-amino_acid_amidohydrolase/hippurate_hydrolase_1781644..1781794_POSITIVE 250 88 45 142 94 smit:SMT_1173|3end_CMP-N-acetylneuraminate-beta-galactosamide-alpha_-2,3-sialyltransferase_1124742..1124892_NEGATIVE 249 70 27 142 101 smit:SMT_1175|3end_K03307_solute:Na+_symporter,_SSS_family_1126305..1126455_NEGATIVE 248 45 2 106 67 smit:SMT_1379|3end_thymidylate_kinase_1356800..1356950_NEGATIVE 245 87 42 100 49 smit:SMT_963|3end_K02015_iron_complex_transport_system_permease_protein_908586..908736_NEGATIVE 241 90 41 88 46 smit:SMT_419|3end_hypothetical_protein_predicted_by_Glimmer/Critica_362510..362660_POSITIVE 236 88 44 71 24 smit:SMT_315|3end_acetyl-coenzyme_A_carboxylase_carboxyl_transferase_subunit_beta_256627..256777_POSITIVE 235 88 51 69 21 smit:SMT_1469|3end_GTP_pyrophosphokinase_1452632..1452782_POSITIVE 234 63 21 83 50 smit:SMT_964|3end_cadmium_resistance_transporter,_putative_909891..910041_NEGATIVE 234 76 34 136 100 smit:SMT_942|3end_hypothetical_protein_893528..893678_NEGATIVE 234 49 3 48 1 smit:SMT_818|3end_cystathionine_gamma-synthase_728707..728857_NEGATIVE 233 69 24 55 7 smit:SMT_1176|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1127662..1127812_NEGATIVE 233 93 54 111 72 smit:SMT_969|3end_30S_ribosomal_protein_S15_914653..914803_NEGATIVE 230 100 51 46 2 smit:SMT_1508|3end_hypothetical_protein_1491008..1491158_NEGATIVE 230 56 16 60 17 smit:SMT_109|3end_beta-galactosidase_57523..57673_POSITIVE