Origin IGS: ttctgctatataattgtaaatcgctttttccggtatatttttatatataaatgaatgtccgtatatatgcctaaaattaattatatattactgatatacagaaatttatctcttgcttcaatccatacatccaaattattgttattaaatagtttaatggagctttta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taaaagctccattaaactatttaataacaataatttggatgtatggattgaagcaagagataaatttctgtatatcagtaatatataattaattttaggcatatatacggacattcatttatatataaaaatataccggaaaaagcgatttacaattatatagcagaa Mask Tandem Repeat Region ================================================ ttctgctatataattgtaaatcgctttttccggtatatttttatatataaatgaatgtccgtatatatgcctaaaattaattatatattactgatatacagaaatttatctcttgcttcaatccatacatccaaattattgttattaaatagtttaatggagctttta Find is-nt database================================================ Query_seq: TF2162:TF2163|TF2162:TF2163:thermolysin precursor:hypothetical protein:->->:2340774..2340941 168 ttctgctatataattgtaaatcgctttttccggtatatttttatatataaatgaatgtccgtatatatgcctaaaattaattatatattactgatatacagaaatttatctcttgcttcaatccatacatccaaattattgttattaaatagtttaatggagctttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF2162:TF2163|TF2162:TF2163:thermolysin precursor:hypothetical protein:->->:2340774..2340941 168 ttctgctatataattgtaaatcgctttttccggtatatttttatatataaatgaatgtccgtatatatgcctaaaattaattatatattactgatatacagaaatttatctcttgcttcaatccatacatccaaattattgttattaaatagtttaatggagctttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF2162:TF2163|TF2162:TF2163:thermolysin precursor:hypothetical protein:->->:2340774..2340941 168 ttctgctatataattgtaaatcgctttttccggtatatttttatatataaatgaatgtccgtatatatgcctaaaattaattatatattactgatatacagaaatttatctcttgcttcaatccatacatccaaattattgttattaaatagtttaatggagctttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ttctgctatataattgtaaatcgctttttccggtatatttttatatataaatgaatgtccgtatatatgcctaaaattaattatatattactgatatacagaaatttatctcttgcttcaatccatacatccaaattattgttattaaatagtttaatggagctttta Predict ORF larger than 30AA ================================================ Protein_Len: 38 Strand: + Start: 55 End: 168 ...................................................... M S V Y M P K I N Y I L L I Y R N L S L A S I H T S K L L L L N S L M E L L ttctgctatataattgtaaatcgctttttccggtatatttttatatataaatgaatgtccgtatatatgcctaaaattaattatatattactgatatacagaaatttatctcttgcttcaatccatacatccaaattattgttattaaatagtttaatggagctttta 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================================================ ttctgctatataattgtaaatcgctttttccggtatatttttatatataaatgaatgtccgtatatatgcctaaaattaattatatattactgatatacagaaatttatctcttgcttcaatccatacatccaaattattgttattaaatagtttaatggagctttta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF2162:TF2163|TF2162:TF2163:thermolysin precursor:hypothetical protein:->->:2340774..2340941 168 ttctgctatataattgtaaatcgctttttccggtatatttttatatataaatgaatgtccgtatatatgcctaaaattaattatatattactgatatacagaaatttatctcttgcttcaatccatacatccaaattattgttattaaatagtttaatggagctttta Intra-Species Hit: Count: 1 Min: 1 Max: 168 Len: 168 Subject: tfor_TF2162_TF2163|thermolysin precursor:hypothetical protein|POSITIVE:POSITIVE|[2340774,2340941]|168 HSP 1 e-value: 3.0E-32 bit: 139.0 Len: 70 Query Start:99 Query End:168 Subject Strand: POSITIVE Subject Start: 99 Subject End: 168 ..................................................................................................cagaaatttatctcttgcttcaatccatacatccaaattattgttattaaatagtttaatggagctttta ..................................................................................................cagaaatttatctcttgcttcaatccatacatccaaattattgttattaaatagtttaatggagctttta HSP 2 e-value: 4.0E-10 bit: 65.9 Len: 33 Query Start:1 Query End:33 Subject Strand: POSITIVE Subject Start: 1 Subject End: 33 ttctgctatataattgtaaatcgctttttccgg....................................................................................................................................... ttctgctatataattgtaaatcgctttttccgg....................................................................................................................................... Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUCUGCUAUAUAAUUGUAAAUCGCUUUUUCCGGUAUAUUUUUAUAUAUAAAUGAAUGUCCGUAUAUAUGCCUAAAAUUAAUUAUAUAUUACUGAUAUACAGAAAUUUAUCUCUUGCUUCAAUCCAUACAUCCAAAUUAUUGUUAUUAAAUAGUUUAAUGGAGCUUUUA (((((.(((((((..(((.((((.......)))).)))..))))))).......(((((.(((((((((..((....))..)))))).))).))))).)))))...........((((((............((((((((.......))))))))..))))))..... (-24.24) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAAGCUCCAUUAAACUAUUUAAUAACAAUAAUUUGGAUGUAUGGAUUGAAGCAAGAGAUAAAUUUCUGUAUAUCAGUAAUAUAUAAUUAAUUUUAGGCAUAUAUACGGACAUUCAUUUAUAUAUAAAAAUAUACCGGAAAAAGCGAUUUACAAUUAUAUAGCAGAA .....(((((......(((.(((((..(((....))).((((((..(((((....(((((....))))).....))))).)))))).)))))...)))...((((((..((......))..))))))..........)))....))...................... (-18.50) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 643 100 51 192 143 tfor:TF0901|5end_conserved_hypothetical_protein_946681..946911_POSITIVE 631 160 111 220 171 tfor:TF2967|5end_hypothetical_protein_3177765..3177995_POSITIVE 631 160 111 200 151 tfor:TF2176|5end_hypothetical_protein_2348911..2349141_POSITIVE 346 77 31 199 151 tfor:TF2304|5end_OmpA_family_protein_2459320..2459550_POSITIVE 261 84 43 135 96 tfor:TF0199|5end_conserved_hypothetical_protein_222053..222283_POSITIVE 245 74 40 162 123 tfor:TF1541|5end_transposase_1647280..1647510_POSITIVE 243 64 23 93 54 tfor:TF1177|5end_conserved_hypothetical_protein;_possible_ribosomal_protein_S1_1261175..1261405_POSITIVE 233 84 50 204 171 tfor:TF1391|5end_hypothetical_protein_1463962..1464192_POSITIVE 231 75 35 86 38 tfor:TF1377|5end_conserved_hypothetical_protein_1453767..1453997_POSITIVE 230 76 31 145 97 tfor:TF2479|5end_conserved_hypothetical_protein_2655992..2656222_POSITIVE 230 75 48 210 183 tfor:TF0671|5end_histidine_kinase_sensor_protein_715103..715333_POSITIVE 230 77 31 92 48 tfor:TF0391|5end_hypothetical_protein_410431..410661_POSITIVE 229 76 32 158 113 tfor:TF0845|5end_hypothetical_protein_896419..896649_POSITIVE 223 134 98 225 188 tfor:TF2165|5end_hypothetical_protein_2341654..2341884_POSITIVE 222 69 21 186 144 tfor:TF0811|5end_conserved_hypothetical_protein;_posible_sugar_phosphate_isomerase_869787..870017_POSITIVE 219 70 21 201 150 tfor:TF1291|5end_response_regulator_(fimR__protein)_1371959..1372189_POSITIVE 218 140 98 189 151 tfor:TF0475|5end_possible_transcriptional_regulator,_AraC_family_493729..493959_POSITIVE 217 70 23 131 76 tfor:TF1667|5end_biotin_acetyl-CoA_carboxylase_ligase/biotin_operon_repressor_bifunctional_protein_1779809..1780039_POSITIVE 215 70 22 182 139 tfor:TF0428|5end_methylmalonyl-CoA_mutase,_beta_subunit_447809..448039_POSITIVE 215 64 21 91 42 tfor:TF0215|5end_tRNA/rRNA_methyltransferase,_TrmH_family_241463..241693_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 631 160 111 56 7 tfor:TF1890|3end_hypothetical_protein_2043093..2043243_POSITIVE 577 160 114 47 1 tfor:TF2966|3end_hypothetical_protein_3177672..3177822_POSITIVE 346 77 31 102 54 tfor:TF2303|3end_conserved_hypothetical_protein_2459303..2459453_POSITIVE 293 84 50 108 74 tfor:TF3047|3end_transposase_3276336..3276486_POSITIVE 293 84 50 108 74 tfor:TF0941|3end_transposase_fragment_982313..982463_POSITIVE 261 84 43 68 29 tfor:TF0198|3end_transposase_related_sequence_222066..222216_POSITIVE 235 160 137 24 1 tfor:TF2175|3end_hypothetical_protein_2348815..2348965_POSITIVE 233 84 50 68 35 tfor:TF1390|3end_possible_transposase_1463906..1464056_POSITIVE 233 84 50 69 36 tfor:TF0270|3end_transposase_element_298074..298224_POSITIVE 231 75 35 108 60 tfor:TF1376|3end_possible_transposase_1453869..1454019_POSITIVE 230 75 48 108 81 tfor:TF0670|3end_possible_transposase_715081..715231_POSITIVE 220 77 50 145 118 tfor:TF2138|3end_conserved_hypothetical_protein_2315446..2315596_POSITIVE 218 140 98 42 4 tfor:TF0474|3end_outer_membrane_efflux_protein_493662..493812_POSITIVE 215 64 21 119 70 tfor:TF0214|3end_DNA_recombination_and_repair_protein,_RecN_241571..241721_POSITIVE 208 124 86 151 109 tfor:TF1000|3end_sec-independent_protein_translocase_1054169..1054319_POSITIVE 208 70 22 57 12 tfor:TF0873|3end_conserved_hypothetical_protein_925487..925637_POSITIVE 206 142 102 137 100 tfor:TF2237|3end_two-component_system_response_regulator_involved_in_CTn_2413893..2414043_POSITIVE 205 75 47 108 79 tfor:TF1264|3end_possible_transposase_1352341..1352491_POSITIVE 204 58 14 78 33 tfor:TF1324|3end_conserved_hypothetical_protein_1403946..1404096_POSITIVE 201 137 104 71 38 tfor:TF2934|3end_acetyltransferase/carbonic_anhydrase_3137245..3137395_POSITIVE