Origin IGS: cgcaaaccttccttacgtttcatttgaactattcatatcctgaaatttccaaattttatactaggtctattatagcatgtttagcctcaaattccatcactcttcccatagcaaaaagactcattccccctttctcctccaaaatatggtatagtagagttatactatctatgaggagtttac .........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 gtaaactcctcatagatagtataactctactataccatattttggaggagaaagggggaatgagtctttttgctatgggaagagtgatggaatttgaggctaaacatgctataatagacctagtataaaatttggaaatttcaggatatgaatagttcaaatgaaacgtaaggaaggtttgcg Mask Tandem Repeat Region ================================================ cgcaaaccttccttacgtttcatttgaactattcatatcctgaaatttccaaattttatactaggtctattatagcatgtttagcctcaaattccatcactcttcccatagcaaaaagactcattccccctttctcctccaaaatatggtatagtagagttatactatctatgaggagtttac Find is-nt database================================================ Query_seq: SMT_910:SMT_911|SMT_910:SMT_911:type I restriction enzyme R protein:hypothetical protein:<-->:861980..862162 183 cgcaaaccttccttacgtttcatttgaactattcatatcctgaaatttccaaattttatactaggtctattatagcatgtttagcctcaaattccatcactcttcccatagcaaaaagactcattccccctttctcctccaaaatatggtatagtagagttatactatctatgaggagtttac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_910:SMT_911|SMT_910:SMT_911:type I restriction enzyme R protein:hypothetical protein:<-->:861980..862162 183 cgcaaaccttccttacgtttcatttgaactattcatatcctgaaatttccaaattttatactaggtctattatagcatgtttagcctcaaattccatcactcttcccatagcaaaaagactcattccccctttctcctccaaaatatggtatagtagagttatactatctatgaggagtttac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_910:SMT_911|SMT_910:SMT_911:type I restriction enzyme R protein:hypothetical protein:<-->:861980..862162 183 cgcaaaccttccttacgtttcatttgaactattcatatcctgaaatttccaaattttatactaggtctattatagcatgtttagcctcaaattccatcactcttcccatagcaaaaagactcattccccctttctcctccaaaatatggtatagtagagttatactatctatgaggagtttac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 cgcaaaccttccttacgtttcatttgaactattcatatcctgaaatttccaaattttatactaggtctattatagcatgtttagcctcaaattccatcactcttcccatagcaaaaagactcattccccctttctcctccaaaatatggtatagtagagttatactatctatgaggagtttac Predict ORF larger than 30AA ================================================ Protein_Len: 53 Strand: + Start: 24 End: 182 ....................... M N Y S Y P E I S K F Y T R S I I A C L A S N S I T L P I A K R L I P P F S S K I W Y S R V I L S M R S L . Protein_Len: 38 Strand: - Start: 59 End: 172 .......................................................... V L D I I A H K A E F E M V R G M A F L S M G G K E E L I H Y L L T I S D M ........... cgcaaaccttccttacgtttcatttgaactattcatatcctgaaatttccaaattttatactaggtctattatagcatgtttagcctcaaattccatcactcttcccatagcaaaaagactcattccccctttctcctccaaaatatggtatagtagagttatactatctatgaggagtttac 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: 81 Start: 69 End: 98 ....................................................................GATGGAATTTGAGGCTAAACATGCTATAAT..................................................................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ cgcaaaccttccttacgtttcatttgaactattcatatcctgaaatttccaaattttatactaggtctattatagcatgtttagcctcaaattccatcactcttcccatagcaaaaagactcattccccctttctcctccaaaatatggtatagtagagttatactatctatgaggagtttac Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SMT_910:SMT_911|SMT_910:SMT_911:type I restriction enzyme R protein:hypothetical protein:<-->:861980..862162 183 cgcaaaccttccttacgtttcatttgaactattcatatcctgaaatttccaaattttatactaggtctattatagcatgtttagcctcaaattccatcactcttcccatagcaaaaagactcattccccctttctcctccaaaatatggtatagtagagttatactatctatgaggagtttac Intra-Species Hit: Count: 1 Min: 1 Max: 183 Len: 183 Subject: smit_SMT_910_SMT_911|type I restriction enzyme R protein:hypothetical protein|NEGATIVE:POSITIVE|[861980,862162]|183 HSP 1 e-value: 1.0E-99 bit: 363.0 Len: 183 Query Start:1 Query End:183 Subject Strand: POSITIVE Subject Start: 1 Subject End: 183 cgcaaaccttccttacgtttcatttgaactattcatatcctgaaatttccaaattttatactaggtctattatagcatgtttagcctcaaattccatcactcttcccatagcaaaaagactcattccccctttctcctccaaaatatggtatagtagagttatactatctatgaggagtttac cgcaaaccttccttacgtttcatttgaactattcatatcctgaaatttccaaattttatactaggtctattatagcatgtttagcctcaaattccatcactcttcccatagcaaaaagactcattccccctttctcctccaaaatatggtatagtagagttatactatctatgaggagtttac Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CGCAAACCUUCCUUACGUUUCAUUUGAACUAUUCAUAUCCUGAAAUUUCCAAAUUUUAUACUAGGUCUAUUAUAGCAUGUUUAGCCUCAAAUUCCAUCACUCUUCCCAUAGCAAAAAGACUCAUUCCCCCUUUCUCCUCCAAAAUAUGGUAUAGUAGAGUUAUACUAUCUAUGAGGAGUUUAC ........................((((((.((((((...(((((((....)))))))...(((.(((((((((.(((((((.((.........................))..((((...........))))........))))))).))))))))).))).......)))))).)))))). (-25.71) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GUAAACUCCUCAUAGAUAGUAUAACUCUACUAUACCAUAUUUUGGAGGAGAAAGGGGGAAUGAGUCUUUUUGCUAUGGGAAGAGUGAUGGAAUUUGAGGCUAAACAUGCUAUAAUAGACCUAGUAUAAAAUUUGGAAAUUUCAGGAUAUGAAUAGUUCAAAUGAAACGUAAGGAAGGUUUGCG .....((((((..((((((((((.......)))))..)))))..))))))...((.(.....((((((....((((.(......).)))).....)))))).....).))....(((((((........(((((((...((((.....))))...)))))))....(....)..))))))).. (-37.20) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 942 140 91 231 182 smit:SMT_910|5end_type_I_restriction_enzyme_R_protein_861889..862119_NEGATIVE 312 167 123 163 123 smit:SMT_1411|5end_ATP-dependent_nuclease_subunit_B_1395478..1395708_NEGATIVE 305 137 92 157 99 smit:SMT_1087|5end_K01990_ABC-2_type_transport_system_ATP-binding_protein_1024165..1024395_NEGATIVE 287 133 92 156 101 smit:SMT_293|5end_dTDP-4-dehydrorhamnose_reductase_235919..236149_POSITIVE 270 140 91 115 60 smit:SMT_1205|5end_response_regulator_1165700..1165930_NEGATIVE 269 178 145 153 115 smit:SMT_300|5end_hypothetical_protein_243512..243742_POSITIVE 263 113 75 211 161 smit:SMT_1543|5end_diphosphomevalonate_decarboxylase_1528024..1528254_NEGATIVE 262 109 64 214 173 smit:SMT_1129|5end_hypothetical_protein_1063926..1064156_NEGATIVE 258 42 1 212 162 smit:SMT_1078|5end_folylpolyglutamate_synthase_1016713..1016943_NEGATIVE 253 127 82 110 58 smit:SMT_351|5end_hypothetical_protein_290289..290519_POSITIVE 251 160 129 229 197 smit:SMT_1448|5end_serine_hydroxymethyltransferase_1431848..1432078_NEGATIVE 250 170 128 174 113 smit:SMT_1188|5end_hypothetical_protein_1146653..1146883_NEGATIVE 248 128 83 179 139 smit:SMT_1550|5end_hypothetical_protein_1534326..1534556_POSITIVE 248 159 128 217 187 smit:SMT_1428|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1414622..1414852_NEGATIVE 247 158 113 200 148 smit:SMT_1899|5end_hypothetical_protein_1850018..1850248_POSITIVE 246 136 93 137 87 smit:SMT_358|5end_hypothetical_protein_293947..294177_POSITIVE 246 123 83 225 179 smit:SMT_269|5end_phospho-N-acetylmuramoyl-pentapeptide-transferas_e_207725..207955_POSITIVE 244 109 61 211 147 smit:SMT_876|5end_hypothetical_protein_predicted_by_Glimmer/Critica_823502..823732_NEGATIVE 243 135 92 108 60 smit:SMT_901|5end_hypothetical_protein_851434..851664_NEGATIVE 241 166 121 72 34 smit:SMT_882|5end_acetyl_esterase_830441..830671_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 287 133 92 90 35 smit:SMT_292|3end_dTDP-glucose_4,6-dehydratase_235933..236083_POSITIVE 276 141 103 57 14 smit:SMT_1862|3end_K02027_multiple_sugar_transport_system_substrate-binding_protein_1825460..1825610_POSITIVE 270 140 91 118 63 smit:SMT_1206|3end_similar_to_sensor_histidine_kinase_(AgrC_from_Staphylococcus)_1165697..1165847_NEGATIVE 253 127 82 89 37 smit:SMT_350|3end_immunity_protein_BlpL_290348..290498_POSITIVE 252 161 121 74 45 smit:SMT_773|3end_UDP-N-acetylenolpyruvoylglucosamine_reductase_683460..683610_NEGATIVE 249 110 69 136 94 smit:SMT_1088|3end_hypothetical_protein_1024152..1024302_NEGATIVE 243 135 92 118 70 smit:SMT_902|3end_hypothetical_protein_851424..851574_NEGATIVE 239 135 99 91 47 smit:SMT_533|3end_RNA_binding_protein_453537..453687_POSITIVE 239 135 99 91 47 smit:SMT_530|3end_RNA_binding_protein_452638..452788_POSITIVE 239 135 99 91 47 smit:SMT_526|3end_RNA_binding_protein_451468..451618_POSITIVE 239 135 99 91 47 smit:SMT_510|3end_hypothetical_protein_439357..439507_POSITIVE 238 140 96 97 50 smit:SMT_977|3end_conserved_hypothetical_protein,_Rrf2_family_protein_925252..925402_NEGATIVE 237 139 91 114 50 smit:SMT_1496|3end_conserved_hypothetical_protein_TIGR00150_1481522..1481672_POSITIVE 232 78 36 46 7 smit:SMT_312|3end_acetyl-CoA_carboxylase,_biotin_carboxyl_carrier_protein_253926..254076_POSITIVE 231 132 98 102 69 smit:SMT_1723|3end_hypothetical_protein_1709724..1709874_POSITIVE 230 118 71 54 2 smit:SMT_836|3end_cell_surface_protein_precursor_777664..777814_NEGATIVE 230 129 81 41 6 smit:SMT_808|3end_hypothetical_protein_predicted_by_Glimmer/Critica_717897..718047_NEGATIVE 229 70 26 56 17 smit:SMT_1575|3end_ribokinase_1569055..1569205_POSITIVE 227 138 93 102 54 smit:SMT_1574|3end_K02529_LacI_family_transcriptional_regulator_1568144..1568294_POSITIVE 227 127 84 118 77 smit:SMT_1273|3end_K02006_cobalt_transport_system_ATP-binding_protein_1237828..1237978_POSITIVE