Origin IGS: gataatttgtgattcaaaccgattttagcgcggcattctatcataaggtgaaggaacggcgtaggcgggaaagtacaaaatcatataactctttcacggtactttgagatatttttgatttagaacaaatttatctgtccgttgcagattacaataatgcgctttttaaaatta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taattttaaaaagcgcattattgtaatctgcaacggacagataaatttgttctaaatcaaaaatatctcaaagtaccgtgaaagagttatatgattttgtactttcccgcctacgccgttccttcaccttatgatagaatgccgcgctaaaatcggtttgaatcacaaattatc Mask Tandem Repeat Region ================================================ gataatttgtgattcaaaccgattttagcgcggcattctatcataaggtgaaggaacggcgtaggcgggaaagtacaaaatcatataactctttcacggtactttgagatatttttgatttagaacaaatttatctgtccgttgcagattacaataatgcgctttttaaaatta Find is-nt database================================================ Query_seq: AA00061:AA00062|AA00061:AA00062:cytochrome c-type biogenesis ATP-binding protein:bicyclomycin resistance protein (Sulfonamide resistance protein):->->:46855..47028 174 gataatttgtgattcaaaccgattttagcgcggcattctatcataaggtgaaggaacggcgtaggcgggaaagtacaaaatcatataactctttcacggtactttgagatatttttgatttagaacaaatttatctgtccgttgcagattacaataatgcgctttttaaaatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA00061:AA00062|AA00061:AA00062:cytochrome c-type biogenesis ATP-binding protein:bicyclomycin resistance protein (Sulfonamide resistance protein):->->:46855..47028 174 gataatttgtgattcaaaccgattttagcgcggcattctatcataaggtgaaggaacggcgtaggcgggaaagtacaaaatcatataactctttcacggtactttgagatatttttgatttagaacaaatttatctgtccgttgcagattacaataatgcgctttttaaaatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA00061:AA00062|AA00061:AA00062:cytochrome c-type biogenesis ATP-binding protein:bicyclomycin resistance protein (Sulfonamide resistance protein):->->:46855..47028 174 gataatttgtgattcaaaccgattttagcgcggcattctatcataaggtgaaggaacggcgtaggcgggaaagtacaaaatcatataactctttcacggtactttgagatatttttgatttagaacaaatttatctgtccgttgcagattacaataatgcgctttttaaaatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gataatttgtgattcaaaccgattttagcgcggcattctatcataaggtgaaggaacggcgtaggcgggaaagtacaaaatcatataactctttcacggtactttgagatatttttgatttagaacaaatttatctgtccgttgcagattacaataatgcgctttttaaaatta Predict ORF larger than 30AA ================================================ Protein_Len: 32 Strand: + Start: 9 End: 104 ........ M I Q T D F S A A F Y H K V K E R R R R E S T K S Y N S F T V L ...................................................................... gataatttgtgattcaaaccgattttagcgcggcattctatcataaggtgaaggaacggcgtaggcgggaaagtacaaaatcatataactctttcacggtactttgagatatttttgatttagaacaaatttatctgtccgttgcagattacaataatgcgctttttaaaatta 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================================================ gataatttgtgattcaaaccgattttagcgcggcattctatcataaggtgaaggaacggcgtaggcgggaaagtacaaaatcatataactctttcacggtactttgagatatttttgatttagaacaaatttatctgtccgttgcagattacaataatgcgctttttaaaatta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: AA00061:AA00062|AA00061:AA00062:cytochrome c-type biogenesis ATP-binding protein:bicyclomycin resistance protein (Sulfonamide resistance protein):->->:46855..47028 174 gataatttgtgattcaaaccgattttagcgcggcattctatcataaggtgaaggaacggcgtaggcgggaaagtacaaaatcatataactctttcacggtactttgagatatttttgatttagaacaaatttatctgtccgttgcagattacaataatgcgctttttaaaatta Intra-Species Hit: Count: 1 Min: 1 Max: 174 Len: 174 Subject: aact_AA00061_AA00062|cytochrome c-type biogenesis ATP-binding protein:bicyclomycin resistance protein (Sulfonamide resistance protein)|POSITIVE:POSITIVE|[46855,47028]|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 gataatttgtgattcaaaccgattttagcgcggcattctatcataaggtgaaggaacggcgtaggcgggaaagtacaaaatcatataactctttcacggtactttgagatatttttgatttagaacaaatttatctgtccgttgcagattacaataatgcgctttttaaaatta gataatttgtgattcaaaccgattttagcgcggcattctatcataaggtgaaggaacggcgtaggcgggaaagtacaaaatcatataactctttcacggtactttgagatatttttgatttagaacaaatttatctgtccgttgcagattacaataatgcgctttttaaaatta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GAUAAUUUGUGAUUCAAACCGAUUUUAGCGCGGCAUUCUAUCAUAAGGUGAAGGAACGGCGUAGGCGGGAAAGUACAAAAUCAUAUAACUCUUUCACGGUACUUUGAGAUAUUUUUGAUUUAGAACAAAUUUAUCUGUCCGUUGCAGAUUACAAUAAUGCGCUUUUUAAAAUUA ..(((((((..((....((((......(((((.(.((((.((((...)))).)))).).)))..))..(((((.................))))).))))......(((((..((((........))))..)))))....))..)))))))....................... (-33.13) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUUUUAAAAAGCGCAUUAUUGUAAUCUGCAACGGACAGAUAAAUUUGUUCUAAAUCAAAAAUAUCUCAAAGUACCGUGAAAGAGUUAUAUGAUUUUGUACUUUCCCGCCUACGCCGUUCCUUCACCUUAUGAUAGAAUGCCGCGCUAAAAUCGGUUUGAAUCACAAAUUAUC .........((((..((..((..((.(((...(((((((((((..((((........))))..)))))....)).))))...)))....))..))..))..))))...((...((.(((((..(((.....)))..))))).)).)).......((((((.....))))))... (-30.40) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 412 70 23 221 170 aact:AA01181|5end_conserved_hypothetical_protein_808774..809004_POSITIVE 411 70 28 80 31 aact:AA01117|5end_signal_recognition_particle_protein_54_(GTP-binding_export_factor)_767919..768149_POSITIVE 342 68 28 219 173 aact:AA00595|5end_hypothetical_protein_407194..407424_POSITIVE 342 70 28 202 161 aact:AA00339|5end_hypothetical_protein_228687..228917_POSITIVE 337 70 27 179 130 aact:AA01794|5end_glycine_cleavage_system_transcription_activator_1209708..1209938_POSITIVE 334 68 21 195 146 aact:AA01056|5end_conserved_hypothetical_protein_733867..734097_POSITIVE 330 67 29 213 170 aact:AA00788|5end_hypothetical_protein_540351..540581_POSITIVE 325 70 21 201 137 aact:AA02819|5end_DNA_polymerase_III,_psi_subunit_1981796..1982026_POSITIVE 323 67 21 70 25 aact:AA01957|5end_conserved_hypothetical_protein_1323211..1323441_POSITIVE 322 69 27 86 34 aact:AA01294|5end_DNA_adenine_methylase_876415..876645_POSITIVE 318 67 24 231 177 aact:AA01335|5end_primosomal_protein_N'_901993..902223_POSITIVE 316 73 46 38 1 aact:AA00995|5end_sensory_transduction_protein_for_cpxR/basR_696355..696585_POSITIVE 313 70 22 80 26 aact:AA01737|5end_exoribonuclease_II_1172647..1172877_POSITIVE 313 70 24 117 77 aact:AA01527|5end_hypothetical_protein_1025704..1025934_POSITIVE 313 77 39 53 4 aact:AA01199|5end_conserved_hypothetical_protein_821984..822214_POSITIVE 312 60 13 87 35 aact:AA02845|5end_Holliday_junction_DNA_helicase_1997970..1998200_POSITIVE 312 69 23 110 57 aact:AA01853|5end_hypothetical_protein_1246458..1246688_POSITIVE 311 76 32 148 102 aact:AA00305|5end_conserved_hypothetical_protein_206741..206971_POSITIVE 310 66 21 49 10 aact:AA01547|5end_deoxyribose-phosphate_aldolase_1036271..1036501_POSITIVE 310 65 22 184 130 aact:AA00408|5end_SUN_protein_(FMU_protein)_272256..272486_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 325 70 21 145 81 aact:AA02818|3end_ribosomal_RNA_small_subunit_methyltransferase_C_1981820..1981970_POSITIVE 323 67 21 65 20 aact:AA01956|3end_3-deoxy-manno-octulosonate_cytidylyltransferase_1323286..1323436_POSITIVE 316 60 14 138 94 aact:AA01848|3end_argininosuccinate_synthetase_1243692..1243842_POSITIVE 313 70 22 67 13 aact:AA01735|3end_hypothetical_protein_1172714..1172864_POSITIVE 312 69 23 123 70 aact:AA01852|3end_peptide_chain_release_factor_3_1246551..1246701_POSITIVE 311 76 32 143 97 aact:AA00303|3end_thymidylate_kinase_(DTMP)_206816..206966_POSITIVE 308 70 27 104 50 aact:AA01839|3end_conserved_hypothetical_protein_(possible_transcriptional_regulator)_1237291..1237441_POSITIVE 306 67 27 96 45 aact:AA02563|3end_transketolase_C-terminal_section_1786260..1786410_POSITIVE 306 72 32 71 26 aact:AA00055|3end_cytochrome_c-type_biogenesis_protein_44002..44152_POSITIVE 304 69 28 101 58 aact:AA01482|3end_ATP_synthase_F1,_subunit_beta_997735..997885_POSITIVE 300 69 32 69 41 aact:AA00291|3end_hypothetical_protein_201905..202055_POSITIVE 298 60 14 126 76 aact:AA00486|3end_nucleoside_transporter_338026..338176_POSITIVE 295 67 28 52 14 aact:AA00383|3end_chloride_channel_protein_260182..260332_POSITIVE 293 70 29 107 65 aact:AA01053|3end_conserved_hypothetical_protein_733747..733897_POSITIVE 292 78 31 86 36 aact:AA01987|3end_hypothetical_protein_1350620..1350770_POSITIVE 289 72 36 113 78 aact:AA02623|3end_dTDP-D-glucose_4,6-dehydratase_1827979..1828129_POSITIVE 289 70 29 68 22 aact:AA00990|3end_conserved_hypothetical_protein_693265..693415_POSITIVE 287 83 41 134 73 aact:AA00920|3end_DNA-3-methyladenine_glycosylase_I_633213..633363_POSITIVE 286 70 28 142 101 aact:AA00066|3end_NADP-dependent_malic_enzyme_(NADP-ME)_51343..51493_POSITIVE 285 70 28 61 13 aact:AA02335|3end_6-O-methylguanine-DNA_methyltransferase_1597430..1597580_POSITIVE