Origin IGS: gatatactcctttttaaataatactagctaatccaatagctactcctactaataaacccactattcctgaggctgatataataatagccgcacattcgtttgaaagcttcatttattctctct .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 agagagaataaatgaagctttcaaacgaatgtgcggctattattatatcagcctcaggaatagtgggtttattagtaggagtagctattggattagctagtattatttaaaaaggagtatatc Mask Tandem Repeat Region ================================================ gatatactcctttttaaataatactagctaatccaatagctactcctactaataaacccactattcctgaggctgatataataatagccgcacattcgtttgaaagcttcatttattctctct Find is-nt database================================================ Query_seq: SMT_1202:SMT_1203|SMT_1202:SMT_1203:hypothetical protein predicted by Glimmer/Critica:hypothetical protein predicted by Glimmer/Critica:<-<-:1164188..1164310 123 gatatactcctttttaaataatactagctaatccaatagctactcctactaataaacccactattcctgaggctgatataataatagccgcacattcgtttgaaagcttcatttattctctct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_1202:SMT_1203|SMT_1202:SMT_1203:hypothetical protein predicted by Glimmer/Critica:hypothetical protein predicted by Glimmer/Critica:<-<-:1164188..1164310 123 gatatactcctttttaaataatactagctaatccaatagctactcctactaataaacccactattcctgaggctgatataataatagccgcacattcgtttgaaagcttcatttattctctct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_1202:SMT_1203|SMT_1202:SMT_1203:hypothetical protein predicted by Glimmer/Critica:hypothetical protein predicted by Glimmer/Critica:<-<-:1164188..1164310 123 gatatactcctttttaaataatactagctaatccaatagctactcctactaataaacccactattcctgaggctgatataataatagccgcacattcgtttgaaagcttcatttattctctct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gatatactcctttttaaataatactagctaatccaatagctactcctactaataaacccactattcctgaggctgatataataatagccgcacattcgtttgaaagcttcatttattctctct Predict ORF larger than 30AA ================================================ Protein_Len: 35 Strand: + Start: 18 End: 122 ................. M I L A N P I A T P T N K P T I P E A D I I I A A H S F E S F I Y S L . Protein_Len: 30 Strand: - Start: 27 End: 116 .......................... S I W Y S S R S I F G S N R L S I Y Y Y G C M R K F A E N M ....... Protein_Len: 32 Strand: - Start: 17 End: 112 ................ I I S A L G I A V G V L L G V I G S A S I I I A A C E N S L K M ........... gatatactcctttttaaataatactagctaatccaatagctactcctactaataaacccactattcctgaggctgatataataatagccgcacattcgtttgaaagcttcatttattctctct 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================================================ gatatactcctttttaaataatactagctaatccaatagctactcctactaataaacccactattcctgaggctgatataataatagccgcacattcgtttgaaagcttcatttattctctct Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 47 HP_score: -4.2 Tail_Score: -2.72371 Start: 25 End: 42 Full_Region: gtttattagtaggag tagcta ttggat tagcta gtattatttaaaaag ........................tagctattggattagcta................................................................................. Find igs database================================================ Query_seq: SMT_1202:SMT_1203|SMT_1202:SMT_1203:hypothetical protein predicted by Glimmer/Critica:hypothetical protein predicted by Glimmer/Critica:<-<-:1164188..1164310 123 gatatactcctttttaaataatactagctaatccaatagctactcctactaataaacccactattcctgaggctgatataataatagccgcacattcgtttgaaagcttcatttattctctct Intra-Species Hit: Count: 1 Min: 1 Max: 123 Len: 123 Subject: smit_SMT_1202_SMT_1203|hypothetical protein predicted by Glimmer/Critica:hypothetical protein predicted by Glimmer/Critica|NEGATIVE:NEGATIVE|[1164188,1164310]|123 HSP 1 e-value: 6.0E-64 bit: 244.0 Len: 123 Query Start:1 Query End:123 Subject Strand: POSITIVE Subject Start: 1 Subject End: 123 gatatactcctttttaaataatactagctaatccaatagctactcctactaataaacccactattcctgaggctgatataataatagccgcacattcgtttgaaagcttcatttattctctct gatatactcctttttaaataatactagctaatccaatagctactcctactaataaacccactattcctgaggctgatataataatagccgcacattcgtttgaaagcttcatttattctctct Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GAUAUACUCCUUUUUAAAUAAUACUAGCUAAUCCAAUAGCUACUCCUACUAAUAAACCCACUAUUCCUGAGGCUGAUAUAAUAAUAGCCGCACAUUCGUUUGAAAGCUUCAUUUAUUCUCUCU ..........(((((((((.....((((((......)))))).........................((.(((((.........))))).)).....)))))))))................. (-14.60) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGAGAGAAUAAAUGAAGCUUUCAAACGAAUGUGCGGCUAUUAUUAUAUCAGCCUCAGGAAUAGUGGGUUUAUUAGUAGGAGUAGCUAUUGGAUUAGCUAGUAUUAUUUAAAAAGGAGUAUAUC .(((((...........)))))......((((((..((((((.((....((((.((.......)))))))).)))))).(.((((((......)))))).)...............)))))). (-19.70) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 881 110 61 201 152 smit:SMT_1202|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1164097..1164327_NEGATIVE 282 75 31 166 103 smit:SMT_168|5end_anaerobic_ribonucleoside-triphosphate_reductase_activating_protein_113670..113900_POSITIVE 260 69 28 123 88 smit:SMT_229|5end_mechanosensitive_ion_channel_165623..165853_NEGATIVE 245 110 61 67 16 smit:SMT_879|5end_hypothetical_protein_826989..827219_NEGATIVE 243 110 64 169 130 smit:SMT_1973|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1905438..1905668_NEGATIVE 243 99 59 129 80 smit:SMT_217|5end_hypothetical_protein_149236..149466_POSITIVE 236 73 39 199 162 smit:SMT_1038|5end_MSM_(multiple_sugar_metabolism)_operon_regulatory_protein_979735..979965_POSITIVE 236 73 39 131 94 smit:SMT_1031|5end_MSM_(multiple_sugar_metabolism)_operon_regulatory_protein_967887..968117_POSITIVE 233 109 63 83 36 smit:SMT_1593|5end_ABC-type_oligopeptide_transport_system,_periplasmic_component_1581417..1581647_POSITIVE 232 94 58 218 176 smit:SMT_420|5end_hypothetical_protein_predicted_by_Glimmer/Critica_362795..363025_POSITIVE 231 114 71 54 17 smit:SMT_1200|5end_K06148_ATP-binding_cassette,_subfamily_C,_bacterial_1163235..1163465_NEGATIVE 225 74 33 105 65 smit:SMT_1514|5end_methylenetetrahydrofolate_dehydrogenase_(NADP+)_/_methenyltetrahydrofolate_cyclohydrolase_1496640..1496870_NEGATIVE 222 92 55 181 142 smit:SMT_1049|5end_hypothetical_protein_988438..988668_POSITIVE 221 65 21 117 69 smit:SMT_744|5end_putative_glycosyltransferase_YibD_649282..649512_NEGATIVE 219 75 33 66 24 smit:SMT_1955|5end_carbamoyl-phosphate_synthase_small_chain_1889408..1889638_NEGATIVE 218 110 61 199 160 smit:SMT_794|5end_hypothetical_protein_703487..703717_NEGATIVE 216 75 31 54 8 smit:SMT_1254|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1220882..1221112_NEGATIVE 216 75 38 159 111 smit:SMT_567|5end_conserved_hypothetical_protein_484845..485075_POSITIVE 215 90 44 77 32 smit:SMT_855|5end_dihydrofolate_reductase_799998..800228_NEGATIVE 215 47 7 145 101 smit:SMT_196|5end_30S_ribosomal_protein_S11_127260..127490_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 260 69 28 80 45 smit:SMT_230|3end_hypothetical_protein_predicted_by_Glimmer/Critica_165666..165816_NEGATIVE 243 99 59 148 99 smit:SMT_216|3end_Holliday_junction_DNA_helicase_RuvB_149335..149485_POSITIVE 234 47 10 131 96 smit:SMT_1581|3end_transcriptional_regulator,_biotin_repressor_family_1573120..1573270_NEGATIVE 221 65 21 115 67 smit:SMT_745|3end_glycosyl_transferase,_group_1_family_protein_649284..649434_NEGATIVE 216 75 38 137 89 smit:SMT_566|3end_K07282_poly-gamma-glutamate_synthesis_protein_(capsule_biosynthesis_protein)_484903..485053_POSITIVE 215 47 7 127 83 smit:SMT_195|3end_30S_ribosomal_protein_S13_127322..127472_POSITIVE 214 97 56 64 21 smit:SMT_1497|3end_acetyltransferase,_GNAT_family_1482030..1482180_POSITIVE 214 100 55 58 18 smit:SMT_360|3end_K07742_hypothetical_protein_296001..296151_POSITIVE 213 119 71 121 68 smit:SMT_1148|3end_aspartyl-tRNA_synthetase_1092122..1092272_NEGATIVE 211 69 21 86 30 smit:SMT_292|3end_dTDP-glucose_4,6-dehydratase_235933..236083_POSITIVE 210 69 21 125 71 smit:SMT_1055|3end_transcriptional_regulator,_GntR_family_994387..994537_NEGATIVE 208 50 1 116 69 smit:SMT_1273|3end_K02006_cobalt_transport_system_ATP-binding_protein_1237828..1237978_POSITIVE 208 50 7 95 49 smit:SMT_773|3end_UDP-N-acetylenolpyruvoylglucosamine_reductase_683460..683610_NEGATIVE 207 50 5 133 75 smit:SMT_1202|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1163945..1164095_NEGATIVE 202 100 58 99 49 smit:SMT_660|3end_two-component_sensor_histidine_kinase_570538..570688_NEGATIVE 202 98 60 61 31 smit:SMT_547|3end_branched-chain_amino_acid_aminotransferase_465049..465199_POSITIVE 200 74 38 71 24 smit:SMT_1941|3end_hypothetical_protein_1877663..1877813_POSITIVE 198 74 32 87 43 smit:SMT_1826|3end_ATP_synthase_beta_chain_1797622..1797772_POSITIVE 198 100 58 53 9 smit:SMT_785|3end_hypothetical_protein_696307..696457_NEGATIVE 197 46 1 112 64 smit:SMT_1572|3end_excinuclease_ABC_subunit_B_1566470..1566620_POSITIVE