Origin IGS: aaaattttatttctcttcaaagatcatctgaaaatattctcaatatccgaccgtactttttcagtcaatcgtaaggtgtgcttttagccaccatctgaaaccgtcg .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 cgacggtttcagatggtggctaaaagcacaccttacgattgactgaaaaagtacggtcggatattgagaatattttcagatgatctttgaagagaaataaaatttt Mask Tandem Repeat Region ================================================ aaaattttatttctcttcaaagatcatctgaaaatattctcaatatccgaccgtactttttcagtcaatcgtaaggtgtgcttttagccaccatctgaaaccgtcg Find is-nt database================================================ Query_seq: AA01473:AA01474|AA01473:AA01474:type I restriction-modification system S (specificity subunit):hypothetical protein:->->:990293..990398 106 aaaattttatttctcttcaaagatcatctgaaaatattctcaatatccgaccgtactttttcagtcaatcgtaaggtgtgcttttagccaccatctgaaaccgtcg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA01473:AA01474|AA01473:AA01474:type I restriction-modification system S (specificity subunit):hypothetical protein:->->:990293..990398 106 aaaattttatttctcttcaaagatcatctgaaaatattctcaatatccgaccgtactttttcagtcaatcgtaaggtgtgcttttagccaccatctgaaaccgtcg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA01473:AA01474|AA01473:AA01474:type I restriction-modification system S (specificity subunit):hypothetical protein:->->:990293..990398 106 aaaattttatttctcttcaaagatcatctgaaaatattctcaatatccgaccgtactttttcagtcaatcgtaaggtgtgcttttagccaccatctgaaaccgtcg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aaaattttatttctcttcaaagatcatctgaaaatattctcaatatccgaccgtactttttcagtcaatcgtaaggtgtgcttttagccaccatctgaaaccgtcg Predict ORF larger than 30AA ================================================ aaaattttatttctcttcaaagatcatctgaaaatattctcaatatccgaccgtactttttcagtcaatcgtaaggtgtgcttttagccaccatctgaaaccgtcg 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================================================ aaaattttatttctcttcaaagatcatctgaaaatattctcaatatccgaccgtactttttcagtcaatcgtaaggtgtgcttttagccaccatctgaaaccgtcg Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: AA01473:AA01474|AA01473:AA01474:type I restriction-modification system S (specificity subunit):hypothetical protein:->->:990293..990398 106 aaaattttatttctcttcaaagatcatctgaaaatattctcaatatccgaccgtactttttcagtcaatcgtaaggtgtgcttttagccaccatctgaaaccgtcg Intra-Species Hit: Count: 1 Min: 1 Max: 106 Len: 106 Subject: aact_AA01473_AA01474|type I restriction-modification system S (specificity subunit):hypothetical protein|POSITIVE:POSITIVE|[990293,990398]|106 HSP 1 e-value: 6.0E-54 bit: 210.0 Len: 106 Query Start:1 Query End:106 Subject Strand: POSITIVE Subject Start: 1 Subject End: 106 aaaattttatttctcttcaaagatcatctgaaaatattctcaatatccgaccgtactttttcagtcaatcgtaaggtgtgcttttagccaccatctgaaaccgtcg aaaattttatttctcttcaaagatcatctgaaaatattctcaatatccgaccgtactttttcagtcaatcgtaaggtgtgcttttagccaccatctgaaaccgtcg Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAAAUUUUAUUUCUCUUCAAAGAUCAUCUGAAAAUAUUCUCAAUAUCCGACCGUACUUUUUCAGUCAAUCGUAAGGUGUGCUUUUAGCCACCAUCUGAAACCGUCG ...............((((..(((...((((((((((..((.......))..)))..)))))))...)))....((((.((.....))))))...))))....... (-17.20) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CGACGGUUUCAGAUGGUGGCUAAAAGCACACCUUACGAUUGACUGAAAAAGUACGGUCGGAUAUUGAGAAUAUUUUCAGAUGAUCUUUGAAGAGAAAUAAAAUUUU ......((((((..((((((.....)).))))...(((((((((.....))).))))))....))))))...((((((((.....))))))))............. (-24.40) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 337 80 31 185 135 aact:AA01883|5end_recycling_protein;_permease_1269821..1270051_POSITIVE 328 80 31 141 94 aact:AA01936|5end_tyrosyl-tRNA_synthetase_1307043..1307273_POSITIVE 325 87 48 156 111 aact:AA01603|5end_oligopeptidase_A_1082898..1083128_POSITIVE 305 85 47 110 66 aact:AA01986|5end_pyruvate_dehydrogenase_complex_E2_1348753..1348983_POSITIVE 301 78 31 168 117 aact:AA02449|5end_hypothetical_protein_1687575..1687805_POSITIVE 300 80 45 187 156 aact:AA00185|5end_3-dehydroquinate_dehydratase_II_130792..131022_POSITIVE 300 80 45 77 46 aact:AA00184|5end_hypothetical_protein_130682..130912_POSITIVE 295 66 21 147 104 aact:AA01473|5end_type_I_restriction-modification_system_S_(specificity_subunit)_989025..989255_POSITIVE 293 88 48 160 111 aact:AA00792|5end_conserved_hypothetical_protein_543142..543372_POSITIVE 293 80 31 143 102 aact:AA00254|5end_penicillin-binding_protein_5_177579..177809_POSITIVE 290 88 47 164 114 aact:AA01436|5end_fructose-bisphosphate_aldolase_class_II_962981..963211_POSITIVE 286 98 51 99 42 aact:AA00170|5end_hypothetical_protein_121238..121468_POSITIVE 284 89 49 183 125 aact:AA02999|5end_conserved_hypothetical_protein_2094275..2094505_POSITIVE 282 70 22 121 64 aact:AA01837|5end_transcriptional_regulatory_protein_1235450..1235680_POSITIVE 282 89 48 162 124 aact:AA00993|5end_possible_D-tyrosyl-tRNA(Tyr)_deacylase_694488..694718_POSITIVE 281 78 46 172 142 aact:AA02691|5end_hypothetical_protein_1876137..1876367_POSITIVE 281 88 41 133 89 aact:AA01792|5end_conserved_hypothetical_protein_1208058..1208288_POSITIVE 279 69 23 79 23 aact:AA02021|5end_anaerobic_glycerol-3-phosphate_dehydrogenase_1374935..1375165_POSITIVE 278 78 39 111 75 aact:AA01989|5end_hypothetical_protein_1352039..1352269_POSITIVE 278 80 39 212 177 aact:AA00505|5end_hypothetical_protein_351561..351791_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 359 90 46 136 76 aact:AA02564|3end_transketolase_N-terminal_section_1786783..1786933_POSITIVE 323 84 47 149 108 aact:AA02184|3end_anthranilate_isomerase;_indole-3-glycerol_phosphate_synthase;_phosphoribosylanthranilate_isomerase_1492541..1492691_POSITIVE 319 80 33 49 1 aact:AA01881|3end_adenylate_kinase_1269765..1269915_POSITIVE 305 85 47 78 34 aact:AA01985|3end_pyruvate_dehydrogenase,_E1_component_1348801..1348951_POSITIVE 301 78 31 96 45 aact:AA02446|3end_conserved_hypothetical_protein_1687583..1687733_POSITIVE 300 80 45 60 29 aact:AA00183|3end_acetyl-CoA_carboxylase,_biotin_carboxyl_carrier_protein_130745..130895_POSITIVE 297 86 50 128 90 aact:AA00716|3end_conserved_hypothetical_protein_491244..491394_POSITIVE 295 66 21 44 1 aact:AA01471|3end_type_I_restriction_enzyme_M_(modification_chain)_989002..989152_POSITIVE 293 88 48 72 23 aact:AA00790|3end_recombination_DNA_repair_protein_543134..543284_POSITIVE 293 80 31 120 79 aact:AA00253|3end_hypothetical_protein_177636..177786_POSITIVE 290 88 47 124 74 aact:AA01434|3end_conserved_hypothetical_protein_(possible_o-antigen_ligase)_963021..963171_POSITIVE 282 64 26 146 102 aact:AA00528|3end_conserved_hypothetical_protein_361703..361853_POSITIVE 281 88 41 130 86 aact:AA01790|3end_riboflavin_bifunctional_biosynthesis_protein_1208135..1208285_POSITIVE 275 63 31 87 56 aact:AA02443|3end_cytochrome_C_related_protein_1686590..1686740_POSITIVE 275 63 31 132 101 aact:AA02444|3end_hypothetical_protein_1686635..1686785_POSITIVE 272 80 47 64 20 aact:AA00592|3end_conserved_hypothetical_protein_(membrane/transport_protein)_407286..407436_POSITIVE 270 72 47 88 62 aact:AA02246|3end_peptidase_E_1528355..1528505_POSITIVE 270 89 47 104 67 aact:AA02190|3end_hydrogenase-2_component_protein_1493271..1493421_POSITIVE 269 80 40 55 14 aact:AA02380|3end_iron_chelatin_ABC_transporter,periplasmic-binding_protein_1629180..1629330_POSITIVE 267 93 55 35 1 aact:AA01772|3end_shikimate_5-dehydrogenase_protein_1194942..1195092_POSITIVE