Origin IGS: taattagcgtaaaaaaggcggcaggcagatcatgcttggtcgccttttttgtaactaaaattcaactacaggagtcttaaacctaccaaattaacttgccttcccctgcttgcgggggaaggtggtgcgaagcgacgtaagggggccacatccccttcggcacttccctccgtaaacggagggagggatataaaaaacaagcctaaaatcaaccgcactttcaaggagaaatgctt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aagcatttctccttgaaagtgcggttgattttaggcttgttttttatatccctccctccgtttacggagggaagtgccgaaggggatgtggcccccttacgtcgcttcgcaccaccttcccccgcaagcaggggaaggcaagttaatttggtaggtttaagactcctgtagttgaattttagttacaaaaaaggcgaccaagcatgatctgcctgccgccttttttacgctaatta Mask Tandem Repeat Region ================================================ taattagcgtaaaaaaggcggcaggcagatcatgcttggtcgccttttttgtaactaaaattcaactacaggagtcttaaacctaccaaattaacttgccttcccctgcttgcgggggaaggtggtgcgaagcgacgtaagggggccacatccccttcggcacttccctccgtaaacggagggagggatataaaaaacaagcctaaaatcaaccgcactttcaaggagaaatgctt Find is-nt database================================================ Query_seq: AA01378:AA01379|AA01378:AA01379:glycerol-3-phosphatase transporter:glycerophosphoryl diester phosphodiesterase (protein D):->->:932933..933168 236 taattagcgtaaaaaaggcggcaggcagatcatgcttggtcgccttttttgtaactaaaattcaactacaggagtcttaaacctaccaaattaacttgccttcccctgcttgcgggggaaggtggtgcgaagcgacgtaagggggccacatccccttcggcacttccctccgtaaacggagggagggatataaaaaacaagcctaaaatcaaccgcactttcaaggagaaatgctt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA01378:AA01379|AA01378:AA01379:glycerol-3-phosphatase transporter:glycerophosphoryl diester phosphodiesterase (protein D):->->:932933..933168 236 taattagcgtaaaaaaggcggcaggcagatcatgcttggtcgccttttttgtaactaaaattcaactacaggagtcttaaacctaccaaattaacttgccttcccctgcttgcgggggaaggtggtgcgaagcgacgtaagggggccacatccccttcggcacttccctccgtaaacggagggagggatataaaaaacaagcctaaaatcaaccgcactttcaaggagaaatgctt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA01378:AA01379|AA01378:AA01379:glycerol-3-phosphatase transporter:glycerophosphoryl diester phosphodiesterase (protein D):->->:932933..933168 236 taattagcgtaaaaaaggcggcaggcagatcatgcttggtcgccttttttgtaactaaaattcaactacaggagtcttaaacctaccaaattaacttgccttcccctgcttgcgggggaaggtggtgcgaagcgacgtaagggggccacatccccttcggcacttccctccgtaaacggagggagggatataaaaaacaagcctaaaatcaaccgcactttcaaggagaaatgctt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taattagcgtaaaaaaggcggcaggcagatcatgcttggtcgccttttttgtaactaaaattcaactacaggagtcttaaacctaccaaattaacttgccttcccctgcttgcgggggaaggtggtgcgaagcgacgtaagggggccacatccccttcggcacttccctccgtaaacggagggagggatataaaaaacaagcctaaaatcaaccgcactttcaaggagaaatgctt Predict ORF larger than 30AA ================================================ Protein_Len: 43 Strand: + Start: 106 End: 234 ......................................................................................................... M L A G E G G A K R R K G A T S P S A L P S V N G G R D I K N K P K I N R T F K E K C .. Protein_Len: 32 Strand: - Start: 94 End: 189 ............................................................................................. S A K G Q K R P F T T R L S T L P G C G R R C K G G Y V S P P M ............................................... Protein_Len: 52 Strand: - Start: 69 End: 224 .................................................................... L L R L G V L N V Q R G R S A P S P P A F R R L P A V D G E A S G E T F P P L S I F F L G L I L R V K M ............ taattagcgtaaaaaaggcggcaggcagatcatgcttggtcgccttttttgtaactaaaattcaactacaggagtcttaaacctaccaaattaacttgccttcccctgcttgcgggggaaggtggtgcgaagcgacgtaagggggccacatccccttcggcacttccctccgtaaacggagggagggatataaaaaacaagcctaaaatcaaccgcactttcaaggagaaatgctt 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================================================ taattagcgtaaaaaaggcggcaggcagatcatgcttggtcgccttttttgtaactaaaattcaactacaggagtcttaaacctaccaaattaacttgccttcccctgcttgcgggggaaggtggtgcgaagcgacgtaagggggccacatccccttcggcacttccctccgtaaacggagggagggatataaaaaacaagcctaaaatcaaccgcactttcaaggagaaatgctt Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 43 HP_score: -2.9 Tail_Score: -3.07816 Start: 132 End: 163 Full_Region: GGAAGGTGGTGCGAA GCGACGTAAGGGGG CCACA TCCCCTTCGGCAC TTCCCTCCGTAAACG ...................................................................................................................................GCGACGTAAGGGGGCCACATCCCCTTCGGCAC......................................................................... TransTerm Strand: - Conf: 46 HP_score: -4.6 Tail_Score: -2.52464 Start: 136 End: 159 Full_Region: tacggagggaagtgc cgaagggg atgtggc ccccttacg tcgcttcgcaccacc .......................................................................................................................................cgaaggggatgtggcccccttacg............................................................................. Find igs database================================================ Query_seq: AA01378:AA01379|AA01378:AA01379:glycerol-3-phosphatase transporter:glycerophosphoryl diester phosphodiesterase (protein D):->->:932933..933168 236 taattagcgtaaaaaaggcggcaggcagatcatgcttggtcgccttttttgtaactaaaattcaactacaggagtcttaaacctaccaaattaacttgccttcccctgcttgcgggggaaggtggtgcgaagcgacgtaagggggccacatccccttcggcacttccctccgtaaacggagggagggatataaaaaacaagcctaaaatcaaccgcactttcaaggagaaatgctt Intra-Species Hit: Count: 1 Min: 1 Max: 236 Len: 236 Subject: aact_AA01378_AA01379|glycerol-3-phosphatase transporter:glycerophosphoryl diester phosphodiesterase (protein D)|POSITIVE:POSITIVE|[932933,933168]|236 HSP 1 e-value: 1.0E-131 bit: 468.0 Len: 236 Query Start:1 Query End:236 Subject Strand: POSITIVE Subject Start: 1 Subject End: 236 taattagcgtaaaaaaggcggcaggcagatcatgcttggtcgccttttttgtaactaaaattcaactacaggagtcttaaacctaccaaattaacttgccttcccctgcttgcgggggaaggtggtgcgaagcgacgtaagggggccacatccccttcggcacttccctccgtaaacggagggagggatataaaaaacaagcctaaaatcaaccgcactttcaaggagaaatgctt taattagcgtaaaaaaggcggcaggcagatcatgcttggtcgccttttttgtaactaaaattcaactacaggagtcttaaacctaccaaattaacttgccttcccctgcttgcgggggaaggtggtgcgaagcgacgtaagggggccacatccccttcggcacttccctccgtaaacggagggagggatataaaaaacaagcctaaaatcaaccgcactttcaaggagaaatgctt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUUAGCGUAAAAAAGGCGGCAGGCAGAUCAUGCUUGGUCGCCUUUUUUGUAACUAAAAUUCAACUACAGGAGUCUUAAACCUACCAAAUUAACUUGCCUUCCCCUGCUUGCGGGGGAAGGUGGUGCGAAGCGACGUAAGGGGGCCACAUCCCCUUCGGCACUUCCCUCCGUAAACGGAGGGAGGGAUAUAAAAAACAAGCCUAAAAUCAACCGCACUUUCAAGGAGAAAUGCUU .....((((((((((((((((((((((.....))))).)))))))))))).....(((.((((........)))).)))..(((.............(((((((((((....))))))))))).(((((..((..((.(((((((.....))))))))))).((((((((((....))))))))))...........................))))).....)))....))))). (-90.60) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAGCAUUUCUCCUUGAAAGUGCGGUUGAUUUUAGGCUUGUUUUUUAUAUCCCUCCCUCCGUUUACGGAGGGAAGUGCCGAAGGGGAUGUGGCCCCCUUACGUCGCUUCGCACCACCUUCCCCCGCAAGCAGGGGAAGGCAAGUUAAUUUGGUAGGUUUAAGACUCCUGUAGUUGAAUUUUAGUUACAAAAAAGGCGACCAAGCAUGAUCUGCCUGCCGCCUUUUUUACGCUAAUUA ..(((((((.....).))))))..(..(((.((((...(((((..((..((...((((((....))))))((((((.((((((((.......)))))).)).))))))......(((((((((....)..))))))))...........))...))..))))).)))).)))..)...(((((...((((((((((..((.(((.....))).)).))))))))))..)))))... (-81.20) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 564 187 141 226 172 aact:AA02949|5end_hypothetical_protein_2061944..2062174_POSITIVE 484 145 101 202 161 aact:AA00862|5end_conserved_hypothetical_protein_596465..596695_POSITIVE 443 134 95 218 171 aact:AA01174|5end_hypothetical_protein_804700..804930_POSITIVE 430 169 121 63 6 aact:AA02675|5end_formate_dehydrogenase_alpha_subunit_1861011..1861241_POSITIVE 418 139 100 79 31 aact:AA02177|5end_conserved_hypothetical_protein_1488963..1489193_POSITIVE 413 190 145 152 106 aact:AA02823|5end_exodeoxyribonuclease_V_gamma_chain_1982703..1982933_POSITIVE 401 220 171 81 31 aact:AA00199|5end_hypothetical_protein_138575..138805_POSITIVE 398 147 106 70 31 aact:AA02462|5end_thiol_peroxidase_(scavengase)_1702096..1702326_POSITIVE 398 230 181 193 145 aact:AA00679|5end_cytoplasmic_axial_filament_(Ribonuclease_G)_463288..463518_POSITIVE 393 148 101 116 58 aact:AA01428|5end_acetolactate_synthase_958688..958918_POSITIVE 388 146 103 216 161 aact:AA00500|5end_hypothetical_protein_347151..347381_POSITIVE 376 160 120 73 27 aact:AA00784|5end_hypothetical_protein_539025..539255_POSITIVE 374 160 112 69 12 aact:AA01117|5end_signal_recognition_particle_protein_54_(GTP-binding_export_factor)_767919..768149_POSITIVE 372 134 97 171 131 aact:AA02926|5end_hypothetical_protein_2048136..2048366_POSITIVE 372 139 95 147 110 aact:AA02707|5end_hypothetical_protein_1889639..1889869_POSITIVE 371 147 101 129 71 aact:AA02239|5end_molybdopterin_biosynthesis_protein_D_1523216..1523446_POSITIVE 368 150 103 228 158 aact:AA00507|5end_hypothetical_protein_352996..353226_POSITIVE 366 139 96 60 15 aact:AA01296|5end_shikimate_kinase_(shikimic_acid_kinase_I)_878384..878614_POSITIVE 365 152 112 229 179 aact:AA02773|5end_hypothetical_protein_1936699..1936929_POSITIVE 365 145 105 75 34 aact:AA00967|5end_conserved_hypothetical_protein_674546..674776_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 564 187 141 76 22 aact:AA02947|3end_riboflavin_biosynthesis_protein_2061874..2062024_POSITIVE 460 50 4 80 33 aact:AA01378|3end_glycerol-3-phosphatase_transporter_932872..933022_POSITIVE 447 170 122 132 81 aact:AA01818|3end_high-affinity_zinc_uptake_system_membrane_protein_1225078..1225228_POSITIVE 413 190 145 144 98 aact:AA02821|3end_ribosomal-protein-alanine_acetyltransferase_1982775..1982925_POSITIVE 413 160 113 134 77 aact:AA02014|3end_probable_hemolysin_1370977..1371127_POSITIVE 401 220 171 69 19 aact:AA00198|3end_conserved_hypothetical_protein_(Cytosine_deaminase-related_enzyme)_138643..138793_POSITIVE 398 148 101 109 59 aact:AA02601|3end_ATP-dependent_helicase_1813309..1813459_POSITIVE 398 230 181 73 25 aact:AA00675|3end_glutaredoxin_2_463248..463398_POSITIVE 382 159 115 105 58 aact:AA02584|3end_ADP-heptose_synthase_1798729..1798879_POSITIVE 376 160 120 88 42 aact:AA00782|3end_conserved_hypothetical_protein_539120..539270_POSITIVE 372 134 97 106 66 aact:AA02925|3end_conserved_hypothetical_protein_2048151..2048301_POSITIVE 371 147 101 125 67 aact:AA02237|3end_molybdopterin_biosynthesis_protein_E_chain_1523292..1523442_POSITIVE 367 140 99 47 13 aact:AA01421|3end_phosphoglycolate_phosphatase_955806..955956_POSITIVE 365 145 105 49 8 aact:AA00965|3end_hypothetical_protein_674600..674750_POSITIVE 363 178 131 124 71 aact:AA00894|3end_selenium_transferase_(Cysteinyl-tRNA(Sec)_selenium_transferase)_621350..621500_POSITIVE 362 146 103 114 62 aact:AA01986|3end_pyruvate_dehydrogenase_complex_E2_1350500..1350650_POSITIVE 360 140 95 145 87 aact:AA01810|3end_electron_transport_complex_protein_1220406..1220556_POSITIVE 360 149 106 146 95 aact:AA01428|3end_acetolactate_synthase_959625..959775_POSITIVE 360 148 102 74 9 aact:AA00291|3end_hypothetical_protein_201905..202055_POSITIVE 359 144 108 54 20 aact:AA02442|3end_thioredoxin-family_protein_1686272..1686422_POSITIVE