Origin IGS: gtagagttacctaggaggtagttttgagagaagtatcaaatattcgaaaactagagattctcataatacaactgtttccaatttatctgttatcgtttgtattagctagtcatgaacttctggtatttctg .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 cagaaataccagaagttcatgactagctaatacaaacgataacagataaattggaaacagttgtattatgagaatctctagttttcgaatatttgatacttctctcaaaactacctcctaggtaactctac Mask Tandem Repeat Region ================================================ gtagagttacctaggaggtagttttgagagaagtatcaaatattcgaaaactagagattctcataatacaactgtttccaatttatctgttatcgtttgtattagctagtcatgaacttctggtatttctg Find is-nt database================================================ Query_seq: SMT_278:SMT_279|SMT_278:SMT_279:tyrosine-protein kinase:glycosyl transferase CpsE:->->:221109..221239 131 gtagagttacctaggaggtagttttgagagaagtatcaaatattcgaaaactagagattctcataatacaactgtttccaatttatctgttatcgtttgtattagctagtcatgaacttctggtatttctg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_278:SMT_279|SMT_278:SMT_279:tyrosine-protein kinase:glycosyl transferase CpsE:->->:221109..221239 131 gtagagttacctaggaggtagttttgagagaagtatcaaatattcgaaaactagagattctcataatacaactgtttccaatttatctgttatcgtttgtattagctagtcatgaacttctggtatttctg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_278:SMT_279|SMT_278:SMT_279:tyrosine-protein kinase:glycosyl transferase CpsE:->->:221109..221239 131 gtagagttacctaggaggtagttttgagagaagtatcaaatattcgaaaactagagattctcataatacaactgtttccaatttatctgttatcgtttgtattagctagtcatgaacttctggtatttctg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gtagagttacctaggaggtagttttgagagaagtatcaaatattcgaaaactagagattctcataatacaactgtttccaatttatctgttatcgtttgtattagctagtcatgaacttctggtatttctg Predict ORF larger than 30AA ================================================ Protein_Len: 36 Strand: + Start: 24 End: 131 ....................... M R E V S N I R K L E I L I I Q L F P I Y L L S F V L A S H E L L V F L gtagagttacctaggaggtagttttgagagaagtatcaaatattcgaaaactagagattctcataatacaactgtttccaatttatctgttatcgtttgtattagctagtcatgaacttctggtatttctg 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================================================ gtagagttacctaggaggtagttttgagagaagtatcaaatattcgaaaactagagattctcataatacaactgtttccaatttatctgttatcgtttgtattagctagtcatgaacttctggtatttctg Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SMT_278:SMT_279|SMT_278:SMT_279:tyrosine-protein kinase:glycosyl transferase CpsE:->->:221109..221239 131 gtagagttacctaggaggtagttttgagagaagtatcaaatattcgaaaactagagattctcataatacaactgtttccaatttatctgttatcgtttgtattagctagtcatgaacttctggtatttctg Intra-Species Hit: Count: 1 Min: 1 Max: 131 Len: 131 Subject: smit_SMT_278_SMT_279|tyrosine-protein kinase:glycosyl transferase CpsE|POSITIVE:POSITIVE|[221109,221239]|131 HSP 1 e-value: 1.0E-68 bit: 260.0 Len: 131 Query Start:1 Query End:131 Subject Strand: POSITIVE Subject Start: 1 Subject End: 131 gtagagttacctaggaggtagttttgagagaagtatcaaatattcgaaaactagagattctcataatacaactgtttccaatttatctgttatcgtttgtattagctagtcatgaacttctggtatttctg gtagagttacctaggaggtagttttgagagaagtatcaaatattcgaaaactagagattctcataatacaactgtttccaatttatctgttatcgtttgtattagctagtcatgaacttctggtatttctg Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GUAGAGUUACCUAGGAGGUAGUUUUGAGAGAAGUAUCAAAUAUUCGAAAACUAGAGAUUCUCAUAAUACAACUGUUUCCAAUUUAUCUGUUAUCGUUUGUAUUAGCUAGUCAUGAACUUCUGGUAUUUCUG .((((..((((.....))))..))))..((((((((((.(..((((...(((((.........((((((((.((.(..((.......))..).)).)))))))).)))))..))))..).)))))))))). (-27.50) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CAGAAAUACCAGAAGUUCAUGACUAGCUAAUACAAACGAUAACAGAUAAAUUGGAAACAGUUGUAUUAUGAGAAUCUCUAGUUUUCGAAUAUUUGAUACUUCUCUCAAAACUACCUCCUAGGUAACUCUAC .((((.((.((((.((((..((((((.(((((((...............((((....))))))))))).........))))))...)))).)))).)).))))........((((.....))))....... (-21.06) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 256 126 85 222 171 smit:SMT_343|5end_hypothetical_protein_283554..283784_NEGATIVE 251 120 75 189 139 smit:SMT_732|5end_K07467_phage_replication_initiation_protein_639409..639639_NEGATIVE 249 87 42 173 133 smit:SMT_1278|5end_30S_ribosomal_protein_S2_1241473..1241703_POSITIVE 248 118 79 192 152 smit:SMT_1078|5end_folylpolyglutamate_synthase_1016713..1016943_NEGATIVE 247 130 86 53 10 smit:SMT_1740|5end_choline_binding_protein_PcpA_1722354..1722584_NEGATIVE 240 119 72 175 133 smit:SMT_1645|5end_hypothetical_protein_1631738..1631968_POSITIVE 230 114 74 203 168 smit:SMT_1130|5end_MATE_efflux_family_protein_1065210..1065440_NEGATIVE 226 123 82 128 77 smit:SMT_1860|5end_hypothetical_protein_1823609..1823839_NEGATIVE 225 125 86 183 141 smit:SMT_882|5end_acetyl_esterase_830441..830671_NEGATIVE 224 99 59 80 43 smit:SMT_167|5end_acetyltransferase,_GNAT_family_113171..113401_POSITIVE 220 53 11 225 184 smit:SMT_1506|5end_Cl-channel,_voltage-gated_family_protein_1489986..1490216_NEGATIVE 219 57 11 78 27 smit:SMT_1211|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1171232..1171462_POSITIVE 218 127 88 151 114 smit:SMT_419|5end_hypothetical_protein_predicted_by_Glimmer/Critica_362323..362553_POSITIVE 217 120 72 175 136 smit:SMT_360|5end_K07742_hypothetical_protein_295628..295858_POSITIVE 216 130 93 111 73 smit:SMT_1810|5end_hypothetical_protein_1785219..1785449_POSITIVE 216 118 75 45 1 smit:SMT_788|5end_hypothetical_protein_700319..700549_NEGATIVE 212 95 52 230 187 smit:SMT_1380|5end_pyrroline-5-carboxylate_reductase_1358464..1358694_NEGATIVE 210 107 66 142 90 smit:SMT_818|5end_cystathionine_gamma-synthase_729801..730031_NEGATIVE 209 106 72 103 64 smit:SMT_2074|5end_dTDP-glucose_4,6-dehydratase_1977021..1977251_POSITIVE 209 115 71 67 24 smit:SMT_250|5end_site-specific_recombinase,_phage_integrase_family_185256..185486_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 247 130 86 104 61 smit:SMT_1741|3end_surface_protein_PspA_precursor_1722303..1722453_NEGATIVE 235 126 86 147 116 smit:SMT_1535|3end_exodeoxyribonuclease_V_alpha_chain_1520513..1520663_POSITIVE 231 58 14 64 19 smit:SMT_1307|3end_glycerol_uptake_facilitator_protein_1272448..1272598_POSITIVE 230 114 74 142 107 smit:SMT_1131|3end_threonine_synthase_1065271..1065421_NEGATIVE 229 125 87 102 64 smit:SMT_769|3end_spermidine/putrescine-binding_periplasmic_protein_679519..679669_NEGATIVE 227 130 96 54 23 smit:SMT_1949|3end_IS1381_transposase_protein_B_1883987..1884137_POSITIVE 225 125 86 116 74 smit:SMT_883|3end_metallo-beta-lactamase_superfamily_protein_830508..830658_NEGATIVE 219 117 72 72 23 smit:SMT_1979|3end_possible_cell_surface_protein_1910282..1910432_NEGATIVE 209 106 72 76 37 smit:SMT_2073|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1977074..1977224_POSITIVE 205 130 87 134 95 smit:SMT_983|3end_GTP_pyrophosphokinase_929684..929834_NEGATIVE 204 115 72 151 114 smit:SMT_417|3end_short_chain_dehydrogenase_361208..361358_POSITIVE 203 31 4 133 98 smit:SMT_1945|3end_putative_dihydrolipoamide_S-acetyltransferase_1880646..1880796_POSITIVE 203 104 69 42 8 smit:SMT_1864|3end_integral_membrane_protein_1827172..1827322_POSITIVE 203 57 14 117 61 smit:SMT_1070|3end_hypothetical_protein_1009644..1009794_NEGATIVE 200 126 82 125 70 smit:SMT_2007|3end_hypothetical_protein_1928147..1928297_POSITIVE 199 47 14 52 9 smit:SMT_1056|3end_K07738_ATP-cone_domain_protein_995395..995545_POSITIVE 198 129 86 42 1 smit:SMT_1202|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1163945..1164095_NEGATIVE 198 99 70 36 6 smit:SMT_166|3end_hypothetical_protein_113207..113357_POSITIVE 196 59 21 67 17 smit:SMT_973|3end_signal_transduction_histidine_kinase_921203..921353_NEGATIVE 195 129 96 64 34 smit:SMT_213|3end_leucyl-tRNA_synthetase_146167..146317_POSITIVE