Origin IGS: tagggtgtgtggattggcacaatccacgcacgatgaaccgaaaataatcaatattacccacgtgcgtgaaccgttcggttcacacaccctacaaaggaattatt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aataattcctttgtagggtgtgtgaaccgaacggttcacgcacgtgggtaatattgattattttcggttcatcgtgcgtggattgtgccaatccacacacccta Mask Tandem Repeat Region ================================================ tagggtgtgtggattggcacaatccacgcacgatgaaccgaaaataatcaatattacccacgtgcgtgaaccgttcggttcacacaccctacaaaggaattatt Find is-nt database================================================ Query_seq: AA01923:AA01925|AA01923:AA01925:type III restriction-modification system methylation subunit:conserved hypothetical protein:->->:1299997..1300100 104 tagggtgtgtggattggcacaatccacgcacgatgaaccgaaaataatcaatattacccacgtgcgtgaaccgttcggttcacacaccctacaaaggaattatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA01923:AA01925|AA01923:AA01925:type III restriction-modification system methylation subunit:conserved hypothetical protein:->->:1299997..1300100 104 tagggtgtgtggattggcacaatccacgcacgatgaaccgaaaataatcaatattacccacgtgcgtgaaccgttcggttcacacaccctacaaaggaattatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA01923:AA01925|AA01923:AA01925:type III restriction-modification system methylation subunit:conserved hypothetical protein:->->:1299997..1300100 104 tagggtgtgtggattggcacaatccacgcacgatgaaccgaaaataatcaatattacccacgtgcgtgaaccgttcggttcacacaccctacaaaggaattatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tagggtgtgtggattggcacaatccacgcacgatgaaccgaaaataatcaatattacccacgtgcgtgaaccgttcggttcacacaccctacaaaggaattatt Predict ORF larger than 30AA ================================================ Protein_Len: 33 Strand: + Start: 5 End: 103 .... M C G L A Q S T H D E P K I I N I T H V R E P F G S H T L Q R N Y . tagggtgtgtggattggcacaatccacgcacgatgaaccgaaaataatcaatattacccacgtgcgtgaaccgttcggttcacacaccctacaaaggaattatt 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================================================ tagggtgtgtggattggcacaatccacgcacgatgaaccgaaaataatcaatattacccacgtgcgtgaaccgttcggttcacacaccctacaaaggaattatt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: AA01923:AA01925|AA01923:AA01925:type III restriction-modification system methylation subunit:conserved hypothetical protein:->->:1299997..1300100 104 tagggtgtgtggattggcacaatccacgcacgatgaaccgaaaataatcaatattacccacgtgcgtgaaccgttcggttcacacaccctacaaaggaattatt Intra-Species Hit: Count: 1 Min: 1 Max: 104 Len: 104 Subject: aact_AA01923_AA01925|type III restriction-modification system methylation subunit:conserved hypothetical protein|POSITIVE:POSITIVE|[1299997,1300100]|104 HSP 1 e-value: 1.0E-52 bit: 206.0 Len: 104 Query Start:1 Query End:104 Subject Strand: POSITIVE Subject Start: 1 Subject End: 104 tagggtgtgtggattggcacaatccacgcacgatgaaccgaaaataatcaatattacccacgtgcgtgaaccgttcggttcacacaccctacaaaggaattatt tagggtgtgtggattggcacaatccacgcacgatgaaccgaaaataatcaatattacccacgtgcgtgaaccgttcggttcacacaccctacaaaggaattatt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGGGUGUGUGGAUUGGCACAAUCCACGCACGAUGAACCGAAAAUAAUCAAUAUUACCCACGUGCGUGAACCGUUCGGUUCACACACCCUACAAAGGAAUUAUU (((((((((((((((((.((....((((((((.((.......................))))))))))....)))))))))))))))))))............. (-39.30) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAUAAUUCCUUUGUAGGGUGUGUGAACCGAACGGUUCACGCACGUGGGUAAUAUUGAUUAUUUUCGGUUCAUCGUGCGUGGAUUGUGCCAAUCCACACACCCUA .............(((((((((((......(((((((((((((((((.....(((((......)))))))).)))))))))))))).......))))))))))) (-43.22) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 354 42 3 46 1 aact:AA00229|5end_DNA_polymerase_III,_alpha_subunit_156863..157093_POSITIVE 345 91 56 45 14 aact:AA02252|5end_conserved_hypothetical_protein_1533840..1534070_POSITIVE 331 69 24 183 138 aact:AA02439|5end_integral_membrane_protein;_possible_ABC_transporter_permease_1683902..1684132_POSITIVE 325 69 22 194 134 aact:AA02199|5end_hypothetical_protein_1497627..1497857_POSITIVE 311 78 31 212 166 aact:AA01421|5end_phosphoglycolate_phosphatase_955055..955285_POSITIVE 304 80 32 179 126 aact:AA00738|5end_hypothetical_protein_505087..505317_POSITIVE 303 97 61 81 38 aact:AA01603|5end_oligopeptidase_A_1082898..1083128_POSITIVE 298 50 3 73 36 aact:AA02538|5end_conserved_hypothetical_protein_1765187..1765417_POSITIVE 298 88 58 49 18 aact:AA00619|5end_hypothetical_protein_424131..424361_POSITIVE 290 40 4 194 159 aact:AA00909|5end_molybdopterin-guanine_dinucleotide_biosynthesis_protein_B_626594..626824_POSITIVE 289 99 61 55 16 aact:AA02895|5end_oligopeptide_transport_system_permease_protein,_C-terminal_2027484..2027714_POSITIVE 288 93 58 95 58 aact:AA02076|5end_conserved_hypothetical_protein_1409926..1410156_POSITIVE 286 50 2 63 15 aact:AA02915|5end_thioredoxin_m_2040652..2040882_POSITIVE 285 41 4 72 34 aact:AA01279|5end_phage_exclusion-related_protein_867687..867917_POSITIVE 281 41 1 103 62 aact:AA00761|5end_conserved_hypothetical_protein_(possible_peptidase)_523554..523784_POSITIVE 279 94 57 198 157 aact:AA02375|5end_D-3-phosphoglycerate_dehydrogenase_1626514..1626744_POSITIVE 278 90 48 160 111 aact:AA01335|5end_primosomal_protein_N'_901993..902223_POSITIVE 277 42 1 208 166 aact:AA02515|5end_flavodoxin_1748721..1748951_POSITIVE 275 49 2 62 3 aact:AA02253|5end_hypothetical_protein_1534605..1534835_POSITIVE 275 40 4 136 98 aact:AA01992|5end_protease_IV;_signal_peptide_peptidase;_Endopeptidase_IV_1353029..1353259_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 412 46 5 98 60 aact:AA01923|3end_type_III_restriction-modification_system_methylation_subunit_1299936..1300086_POSITIVE 335 50 2 72 16 aact:AA01888|3end_hypothetical_protein_1273286..1273436_POSITIVE 333 48 1 135 79 aact:AA00785|3end_conserved_hypothetical_protein_(possible_integrase)_539672..539822_POSITIVE 298 50 3 69 32 aact:AA02536|3end_conserved_hypothetical_protein_1765263..1765413_POSITIVE 290 40 4 110 75 aact:AA00908|3end_probable_sigma-E_factor_regulatory_protein_626590..626740_POSITIVE 290 40 4 70 35 aact:AA00909.1|3end_hypothetical_protein_626550..626700_POSITIVE 288 93 58 68 31 aact:AA02075|3end_conserved_hypothetical_protein_1409979..1410129_POSITIVE 283 93 57 151 96 aact:AA01062|3end_ribonuclease_PH_(RNase_PH)_736499..736649_POSITIVE 280 77 32 142 102 aact:AA00737|3end_citrate_lyase,_alpha_chain_(citrase)_505143..505293_POSITIVE 275 49 2 73 14 aact:AA02252|3end_conserved_hypothetical_protein_1534696..1534846_POSITIVE 272 93 55 74 23 aact:AA01519|3end_conserved_hypothetical_protein_1022539..1022689_POSITIVE 270 40 2 141 101 aact:AA02891|3end_oligopeptide-binding_protein_precursor_2026370..2026520_POSITIVE 265 97 59 39 2 aact:AA00990|3end_conserved_hypothetical_protein_693265..693415_POSITIVE 263 81 54 120 95 aact:AA00249|3end_cysteinyl-tRNA_synthetase_(cysteine--tRNA_ligase)_175422..175572_POSITIVE 262 40 2 124 84 aact:AA00954|3end_uroporphyrinogen_III_synthase_661070..661220_POSITIVE 260 90 54 77 38 aact:AA01566|3end_conserved_hypothetical_protein_1052091..1052241_POSITIVE 260 90 54 77 38 aact:AA01261|3end_conserved_hypothetical_protein_856723..856873_POSITIVE 258 83 48 75 34 aact:AA00530|3end_hypothetical_protein_362668..362818_POSITIVE 257 97 58 50 6 aact:AA01868|3end_biotin_synthetase_1256626..1256776_POSITIVE 257 80 31 81 26 aact:AA01728|3end_conserved_hypothetical_protein(related_to_HipA_protein)_1168665..1168815_POSITIVE