Origin IGS: aaggaaagaatagataaaaaccgctcagctgagcggtttttagtataaatatatcacaataagagtaaatcaataaattgaatggctgttgcacagtcacttaaatcttgatagtacaaaaacaaaatgaacagctgttatatcaaatggagact .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 agtctccatttgatataacagctgttcattttgtttttgtactatcaagatttaagtgactgtgcaacagccattcaatttattgatttactcttattgtgatatatttatactaaaaaccgctcagctgagcggtttttatctattctttcctt Mask Tandem Repeat Region ================================================ aaggaaagaatagataaaaaccgctcagctgagcggtttttagtataaatatatcacaataagagtaaatcaataaattgaatggctgttgcacagtcacttaaatcttgatagtacaaaaacaaaatgaacagctgttatatcaaatggagact Find is-nt database================================================ Query_seq: SMT_704:SMT_705|SMT_704:SMT_705:Cof family protein:hypothetical protein:-><-:614609..614763 155 aaggaaagaatagataaaaaccgctcagctgagcggtttttagtataaatatatcacaataagagtaaatcaataaattgaatggctgttgcacagtcacttaaatcttgatagtacaaaaacaaaatgaacagctgttatatcaaatggagact Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_704:SMT_705|SMT_704:SMT_705:Cof family protein:hypothetical protein:-><-:614609..614763 155 aaggaaagaatagataaaaaccgctcagctgagcggtttttagtataaatatatcacaataagagtaaatcaataaattgaatggctgttgcacagtcacttaaatcttgatagtacaaaaacaaaatgaacagctgttatatcaaatggagact Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_704:SMT_705|SMT_704:SMT_705:Cof family protein:hypothetical protein:-><-:614609..614763 155 aaggaaagaatagataaaaaccgctcagctgagcggtttttagtataaatatatcacaataagagtaaatcaataaattgaatggctgttgcacagtcacttaaatcttgatagtacaaaaacaaaatgaacagctgttatatcaaatggagact Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aaggaaagaatagataaaaaccgctcagctgagcggtttttagtataaatatatcacaataagagtaaatcaataaattgaatggctgttgcacagtcacttaaatcttgatagtacaaaaacaaaatgaacagctgttatatcaaatggagact Predict ORF larger than 30AA ================================================ Protein_Len: 33 Strand: - Start: 2 End: 100 . P F F L Y F G S L Q A T K L I F I D C Y S Y I L L N F P Q Q V T M ....................................................... aaggaaagaatagataaaaaccgctcagctgagcggtttttagtataaatatatcacaataagagtaaatcaataaattgaatggctgttgcacagtcacttaaatcttgatagtacaaaaacaaaatgaacagctgttatatcaaatggagact 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================================================ aaggaaagaatagataaaaaccgctcagctgagcggtttttagtataaatatatcacaataagagtaaatcaataaattgaatggctgttgcacagtcacttaaatcttgatagtacaaaaacaaaatgaacagctgttatatcaaatggagact Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 100 HP_score: -10.4 Tail_Score: -5.1383 Start: 21 End: 36 Full_Region: tatttatactaaaaa ccgctc agct gagcgg tttttatctattctt ....................ccgctcagctgagcgg....................................................................................................................... Find igs database================================================ Query_seq: SMT_704:SMT_705|SMT_704:SMT_705:Cof family protein:hypothetical protein:-><-:614609..614763 155 aaggaaagaatagataaaaaccgctcagctgagcggtttttagtataaatatatcacaataagagtaaatcaataaattgaatggctgttgcacagtcacttaaatcttgatagtacaaaaacaaaatgaacagctgttatatcaaatggagact Intra-Species Hit: Count: 1 Min: 1 Max: 155 Len: 155 Subject: smit_SMT_704_SMT_705|Cof family protein:hypothetical protein|POSITIVE:NEGATIVE|[614609,614763]|155 HSP 1 e-value: 6.0E-83 bit: 307.0 Len: 155 Query Start:1 Query End:155 Subject Strand: POSITIVE Subject Start: 1 Subject End: 155 aaggaaagaatagataaaaaccgctcagctgagcggtttttagtataaatatatcacaataagagtaaatcaataaattgaatggctgttgcacagtcacttaaatcttgatagtacaaaaacaaaatgaacagctgttatatcaaatggagact aaggaaagaatagataaaaaccgctcagctgagcggtttttagtataaatatatcacaataagagtaaatcaataaattgaatggctgttgcacagtcacttaaatcttgatagtacaaaaacaaaatgaacagctgttatatcaaatggagact HSP 2 e-value: 3.0E-7 bit: 56.0 Len: 28 Query Start:15 Query End:42 Subject Strand: NEGATIVE Subject Start: 15 Subject End: 42 ..............taaaaaccgctcagctgagcggttttta................................................................................................................. ..............taaaaaccgctcagctgagcggttttta................................................................................................................. Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAGGAAAGAAUAGAUAAAAACCGCUCAGCUGAGCGGUUUUUAGUAUAAAUAUAUCACAAUAAGAGUAAAUCAAUAAAUUGAAUGGCUGUUGCACAGUCACUUAAAUCUUGAUAGUACAAAAACAAAAUGAACAGCUGUUAUAUCAAAUGGAGACU ...((...(((((.((((((((((((....))))))))))))......................(((.(((((....((((.((((((.....)))))).))))...)))))..))).................)))))...))....(....). (-34.90) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGUCUCCAUUUGAUAUAACAGCUGUUCAUUUUGUUUUUGUACUAUCAAGAUUUAAGUGACUGUGCAACAGCCAUUCAAUUUAUUGAUUUACUCUUAUUGUGAUAUAUUUAUACUAAAAACCGCUCAGCUGAGCGGUUUUUAUCUAUUCUUUCCUU .(((.(.((..((.......(((((((((((...(((((......)))))...)))))).......)))))...((((....)))).....))..)).).)))..........((((((((((((....)))))))))))).............. (-31.41) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 260 118 77 66 19 smit:SMT_850|5end_hypothetical_protein_797014..797244_NEGATIVE 258 111 73 164 121 smit:SMT_1067|5end_alanine_racemase_1005769..1005999_POSITIVE 245 37 21 231 209 smit:SMT_1199|5end_lactococcin_A_ABC_transporter_permease_protein_1161063..1161293_NEGATIVE 241 38 10 39 8 smit:SMT_1163|5end_hypothetical_protein_1110025..1110255_NEGATIVE 237 120 71 220 171 smit:SMT_1388|5end_hypothetical_protein_1365214..1365444_POSITIVE 237 36 7 202 173 smit:SMT_1034|5end_K05896_segregation_and_condensation_protein_A_977307..977537_NEGATIVE 233 56 22 194 164 smit:SMT_178|5end_50S_ribosomal_protein_L29_119161..119391_POSITIVE 232 41 1 199 150 smit:SMT_937|5end_dipeptidase_889579..889809_POSITIVE 232 41 1 199 150 smit:SMT_932|5end_tellurite_resistance_protein_885065..885295_POSITIVE 230 60 20 171 129 smit:SMT_953|5end_hypothetical_protein_901576..901806_NEGATIVE 226 50 2 58 2 smit:SMT_1573|5end_MutT/NUDIX_family_protein_1566413..1566643_POSITIVE 225 36 7 209 179 smit:SMT_1611|5end_K05896_segregation_and_condensation_protein_A_1599305..1599535_POSITIVE 225 57 16 176 139 smit:SMT_536|5end_oxidoreductase,_aldo/keto_reductase_family_454451..454681_POSITIVE 224 114 77 64 18 smit:SMT_589|5end_hypothetical_protein_505581..505811_POSITIVE 221 99 61 76 32 smit:SMT_151|5end_K02073_D-methionine_transport_system_substrate-binding_protein_99474..99704_POSITIVE 220 35 20 186 166 smit:SMT_1982|5end_conserved_hypothetical_protein_1913036..1913266_POSITIVE 220 35 20 174 154 smit:SMT_1691|5end_putative_deoxyribonuclease_1674978..1675208_POSITIVE 220 35 20 199 179 smit:SMT_1156|5end_K07485_transposase_1099938..1100168_POSITIVE 215 92 58 198 165 smit:SMT_518|5end_biotin_synthase_443751..443981_NEGATIVE 214 45 21 146 119 smit:SMT_1261|5end_MutT/NUDIX_family_protein_1226586..1226816_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 462 42 15 76 49 smit:SMT_704|3end_Cof_family_protein_614548..614698_POSITIVE 318 41 6 82 41 smit:SMT_981|3end_hypothetical_protein_929202..929352_POSITIVE 286 47 19 41 5 smit:SMT_2077|3end_chloride_channel_protein_1979139..1979289_NEGATIVE 286 47 19 41 5 smit:SMT_1406|3end_chloride_channel_protein_1383963..1384113_NEGATIVE 266 41 10 89 52 smit:SMT_982|3end_D-tyrosyl-tRNA(Tyr)_deacylase_929211..929361_NEGATIVE 256 44 1 86 41 smit:SMT_710|3end_hypothetical_protein_predicted_by_Glimmer/Critica_619270..619420_NEGATIVE 249 44 8 88 52 smit:SMT_1147|3end_hypothetical_protein_1091203..1091353_NEGATIVE 237 36 7 77 48 smit:SMT_1035|3end_alpha-galactosidase_977432..977582_NEGATIVE 232 41 1 71 22 smit:SMT_936|3end_cobyric_acid_synthase_889531..889681_POSITIVE 232 41 1 71 22 smit:SMT_931|3end_cobyric_acid_synthase_885017..885167_POSITIVE 230 60 20 70 28 smit:SMT_954|3end_cation-transporting_ATPase,_E1-E2_family_901677..901827_NEGATIVE 225 57 16 101 64 smit:SMT_535|3end_hypothetical_protein_454456..454606_POSITIVE 219 49 3 58 5 smit:SMT_1041|3end_K07586_hypothetical_protein_984164..984314_POSITIVE 218 44 3 57 17 smit:SMT_1201|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1163765..1163915_NEGATIVE 215 49 10 64 9 smit:SMT_1949|3end_IS1381_transposase_protein_B_1883987..1884137_POSITIVE 214 45 21 144 117 smit:SMT_1260|3end_hypothetical_protein_1226664..1226814_POSITIVE 212 48 3 82 28 smit:SMT_939|3end_phosphomethylpyrimidine_kinase_891252..891402_NEGATIVE 210 41 3 85 41 smit:SMT_206|3end_K07720_two-component_system,_response_regulator_YesN_137467..137617_NEGATIVE 209 66 21 62 17 smit:SMT_422|3end_K02004_365876..366026_POSITIVE 208 42 2 93 51 smit:SMT_1146|3end_maltose_operon_transcriptional_repressor_1091202..1091352_POSITIVE