Origin IGS: taaagcccgatacggattaccgtcaaaagtgaaaaacgaagagtgaagagtgaaaagcccttcgagagtttaattgttgaattggttagctgactgttaatccaaagactgagatactgtccgccctgttaacgtaaaattcattcgatttttcgtccaaaacatttcagatta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taatctgaaatgttttggacgaaaaatcgaatgaattttacgttaacagggcggacagtatctcagtctttggattaacagtcagctaaccaattcaacaattaaactctcgaagggcttttcactcttcactcttcgtttttcacttttgacggtaatccgtatcgggcttta Mask Tandem Repeat Region ================================================ taaagcccgatacggattaccgtcaaaagtgaaaaacgaagagtgaagagtgaaaagcccttcgagagtttaattgttgaattggttagctgactgttaatccaaagactgagatactgtccgccctgttaacgtaaaattcattcgatttttcgtccaaaacatttcagatta Find is-nt database================================================ Query_seq: TF1204:TF1205|TF1204:TF1205:possible metal-dependent membrane protease:beta-glucanase/beta-glucan synthetase; endoglucanase related:->->:1287522..1287695 174 taaagcccgatacggattaccgtcaaaagtgaaaaacgaagagtgaagagtgaaaagcccttcgagagtttaattgttgaattggttagctgactgttaatccaaagactgagatactgtccgccctgttaacgtaaaattcattcgatttttcgtccaaaacatttcagatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF1204:TF1205|TF1204:TF1205:possible metal-dependent membrane protease:beta-glucanase/beta-glucan synthetase; endoglucanase related:->->:1287522..1287695 174 taaagcccgatacggattaccgtcaaaagtgaaaaacgaagagtgaagagtgaaaagcccttcgagagtttaattgttgaattggttagctgactgttaatccaaagactgagatactgtccgccctgttaacgtaaaattcattcgatttttcgtccaaaacatttcagatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF1204:TF1205|TF1204:TF1205:possible metal-dependent membrane protease:beta-glucanase/beta-glucan synthetase; endoglucanase related:->->:1287522..1287695 174 taaagcccgatacggattaccgtcaaaagtgaaaaacgaagagtgaagagtgaaaagcccttcgagagtttaattgttgaattggttagctgactgttaatccaaagactgagatactgtccgccctgttaacgtaaaattcattcgatttttcgtccaaaacatttcagatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taaagcccgatacggattaccgtcaaaagtgaaaaacgaagagtgaagagtgaaaagcccttcgagagtttaattgttgaattggttagctgactgttaatccaaagactgagatactgtccgccctgttaacgtaaaattcattcgatttttcgtccaaaacatttcagatta Predict ORF larger than 30AA ================================================ Protein_Len: 33 Strand: - Start: 3 End: 101 .. L G I R I V T L L S F R L T F L S F G K S L K I T S N T L Q S N M ......................................................................... taaagcccgatacggattaccgtcaaaagtgaaaaacgaagagtgaagagtgaaaagcccttcgagagtttaattgttgaattggttagctgactgttaatccaaagactgagatactgtccgccctgttaacgtaaaattcattcgatttttcgtccaaaacatttcagatta 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================================================ taaagcccgatacggattaccgtcaaaagtgaaaaacgaagagtgaagagtgaaaagcccttcgagagtttaattgttgaattggttagctgactgttaatccaaagactgagatactgtccgccctgttaacgtaaaattcattcgatttttcgtccaaaacatttcagatta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF1204:TF1205|TF1204:TF1205:possible metal-dependent membrane protease:beta-glucanase/beta-glucan synthetase; endoglucanase related:->->:1287522..1287695 174 taaagcccgatacggattaccgtcaaaagtgaaaaacgaagagtgaagagtgaaaagcccttcgagagtttaattgttgaattggttagctgactgttaatccaaagactgagatactgtccgccctgttaacgtaaaattcattcgatttttcgtccaaaacatttcagatta Intra-Species Hit: Count: 1 Min: 1 Max: 174 Len: 174 Subject: tfor_TF1204_TF1205|possible metal-dependent membrane protease:beta-glucanase/beta-glucan synthetase; endoglucanase related|POSITIVE:POSITIVE|[1287522,1287695]|174 HSP 1 e-value: 3.0E-94 bit: 345.0 Len: 174 Query Start:1 Query End:174 Subject Strand: POSITIVE Subject Start: 1 Subject End: 174 taaagcccgatacggattaccgtcaaaagtgaaaaacgaagagtgaagagtgaaaagcccttcgagagtttaattgttgaattggttagctgactgttaatccaaagactgagatactgtccgccctgttaacgtaaaattcattcgatttttcgtccaaaacatttcagatta taaagcccgatacggattaccgtcaaaagtgaaaaacgaagagtgaagagtgaaaagcccttcgagagtttaattgttgaattggttagctgactgttaatccaaagactgagatactgtccgccctgttaacgtaaaattcattcgatttttcgtccaaaacatttcagatta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAGCCCGAUACGGAUUACCGUCAAAAGUGAAAAACGAAGAGUGAAGAGUGAAAAGCCCUUCGAGAGUUUAAUUGUUGAAUUGGUUAGCUGACUGUUAAUCCAAAGACUGAGAUACUGUCCGCCCUGUUAACGUAAAAUUCAUUCGAUUUUUCGUCCAAAACAUUUCAGAUUA ...........((((....)))).....((.....(((((((((((((.((.....)).))))..((((((...((((((...((...((.(((.((..(((((.....)).))))).))).))))..))))))..)))))).....))))))))).....))........... (-32.50) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUCUGAAAUGUUUUGGACGAAAAAUCGAAUGAAUUUUACGUUAACAGGGCGGACAGUAUCUCAGUCUUUGGAUUAACAGUCAGCUAACCAAUUCAACAAUUAAACUCUCGAAGGGCUUUUCACUCUUCACUCUUCGUUUUUCACUUUUGACGGUAAUCCGUAUCGGGCUUUA ....(((...(((((((((((((((.((....)).)))).))))..)))))))..)))......(((((.(((((((...(((((..........................((((((.......)))))).......((.....))..)))))..)))))))....)))))... (-31.70) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 563 79 31 153 107 tfor:TF2167|5end_hypothetical_protein_2342586..2342816_POSITIVE 506 70 25 153 98 tfor:TF1172|5end_ABC_transporter,_permease_component_1252806..1253036_POSITIVE 487 79 31 148 102 tfor:TF2162|5end_thermolysin_precursor_2338669..2338899_POSITIVE 485 80 34 156 112 tfor:TF0347|5end_possible_serine_protease_367542..367772_POSITIVE 483 70 27 135 89 tfor:TF0341|5end_conserved_hypothetical_protein_364348..364578_POSITIVE 459 70 25 153 98 tfor:TF1173|5end_ABC_transporter,_permease_component_1255444..1255674_POSITIVE 449 57 25 140 108 tfor:TF1589|5end_surface_antigen_BspA_1703189..1703419_POSITIVE 447 70 25 144 96 tfor:TF0359|5end_conserved_hypothetical_protein_376943..377173_POSITIVE 422 70 25 139 96 tfor:TF2174|5end_possible_endopeptidase_precursor_2346292..2346522_POSITIVE 420 70 28 144 99 tfor:TF0351|5end_hypothetical_protein_370922..371152_POSITIVE 405 58 25 223 190 tfor:TF1588|5end_hypothetical_protein_1702268..1702498_POSITIVE 402 80 37 134 85 tfor:TF0367|5end_eukaryotic-like__metalloproteinase_384007..384237_POSITIVE 398 80 38 152 110 tfor:TF1166|5end_ABC_transporter,_permease_component_1246154..1246384_POSITIVE 378 57 25 130 98 tfor:TF2101|5end_hypothetical_protein_2273702..2273932_POSITIVE 371 69 25 139 94 tfor:TF1591|5end_surface_antigen_BspA_1706387..1706617_POSITIVE 356 57 20 105 70 tfor:TF2923|5end_hypothetical_protein_3122168..3122398_POSITIVE 356 77 34 227 182 tfor:TF1769|5end_transposase_1907071..1907301_POSITIVE 356 84 44 138 85 tfor:TF0364|5end_ysyl_endopeptidase_380395..380625_POSITIVE 353 60 12 42 1 tfor:TF0017|5end_hypothetical_protein_10504..10734_POSITIVE 329 50 1 167 120 tfor:TF2153|5end_6-phosphofructokinase_2328112..2328342_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 506 70 25 66 11 tfor:TF1170|3end_conserved_hypothetical_protein_1252799..1252949_POSITIVE 378 57 25 34 2 tfor:TF2100|3end_hypothetical_protein_2273686..2273836_POSITIVE 312 60 21 39 3 tfor:TF0016|3end_hypothetical_protein_10581..10731_POSITIVE 310 130 81 136 83 tfor:TF0661|3end_hypothetical_protein_708257..708407_POSITIVE 299 59 15 96 47 tfor:TF2024|3end_conserved_hypothetical_protein_2181979..2182129_POSITIVE 288 60 14 147 111 tfor:TF0475|3end_possible_transcriptional_regulator,_AraC_family_494825..494975_POSITIVE 283 127 87 136 99 tfor:TF2711|3end_hemolysis_secretion_protein_2886005..2886155_POSITIVE 280 130 81 146 84 tfor:TF1293|3end_ATPase,_possible_AAA_superfamily_1375924..1376074_POSITIVE 279 46 6 69 28 tfor:TF2266|3end_transfer_region-related_protein,_TraQ_2434949..2435099_POSITIVE 279 69 21 143 86 tfor:TF0684|3end_conserved_hypothetical_protein_730564..730714_POSITIVE 278 67 21 62 7 tfor:TF0408|3end_possible_gliding_motility-related_lipoprotein_426324..426474_POSITIVE 277 80 37 124 78 tfor:TF0072|3end_hypothetical_protein_81070..81220_POSITIVE 272 65 38 62 38 tfor:TF1313|3end_conserved_hypothetical_protein_1389736..1389886_POSITIVE 271 129 81 135 87 tfor:TF2406|3end_anti-sigma_factor_2581659..2581809_POSITIVE 268 69 21 64 24 tfor:TF0065|3end_conserved_hypothetical_protein_70800..70950_POSITIVE 267 58 25 81 48 tfor:TF1783|3end_conserved_hypothetical_protein_1923865..1924015_POSITIVE 266 50 4 127 72 tfor:TF2696|3end_oxidoreductase,_short_chain_dehydrogenase/reductase_family_2871611..2871761_POSITIVE 266 137 100 44 8 tfor:TF1220|3end_conserved_hypothetical_protein_1307797..1307947_POSITIVE 265 78 36 46 1 tfor:TF0017|3end_hypothetical_protein_11231..11381_POSITIVE 264 130 81 92 42 tfor:TF2991|3end_conserved_hypothetical_protein_3209107..3209257_POSITIVE