Origin IGS: tacatactcttaaaatcgataaaaaagaacgtgttattttagcctgttttttgttgtaatatctagggaaattatgggattttaatttgctttacatttgcgaattcattataatgcaccacctcaaagttcaggctttgagcaaattttgtgaactcgctgggtcgcctgcgattttttatttaaatctttttacattaagagaatattaaa .........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 tttaatattctcttaatgtaaaaagatttaaataaaaaatcgcaggcgacccagcgagttcacaaaatttgctcaaagcctgaactttgaggtggtgcattataatgaattcgcaaatgtaaagcaaattaaaatcccataatttccctagatattacaacaaaaaacaggctaaaataacacgttcttttttatcgattttaagagtatgta Mask Tandem Repeat Region ================================================ tacatactcttaaaatcgataaaaaagaacgtgttattttagcctgttttttgttgtaatatctagggaaattatgggattttaatttgctttacatttgcgaattcattataatgcaccacctcaaagttcaggctttgagcaaattttgtgaactcgctgggtcgcctgcgattttttatttaaatctttttacattaagagaatattaaa Find is-nt database================================================ Query_seq: AA02097:AA02099|AA02097:AA02099:DedA-family integral membrane protein:50S ribosomal protein L25:->->:1429566..1429778 213 tacatactcttaaaatcgataaaaaagaacgtgttattttagcctgttttttgttgtaatatctagggaaattatgggattttaatttgctttacatttgcgaattcattataatgcaccacctcaaagttcaggctttgagcaaattttgtgaactcgctgggtcgcctgcgattttttatttaaatctttttacattaagagaatattaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA02097:AA02099|AA02097:AA02099:DedA-family integral membrane protein:50S ribosomal protein L25:->->:1429566..1429778 213 tacatactcttaaaatcgataaaaaagaacgtgttattttagcctgttttttgttgtaatatctagggaaattatgggattttaatttgctttacatttgcgaattcattataatgcaccacctcaaagttcaggctttgagcaaattttgtgaactcgctgggtcgcctgcgattttttatttaaatctttttacattaagagaatattaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA02097:AA02099|AA02097:AA02099:DedA-family integral membrane protein:50S ribosomal protein L25:->->:1429566..1429778 213 tacatactcttaaaatcgataaaaaagaacgtgttattttagcctgttttttgttgtaatatctagggaaattatgggattttaatttgctttacatttgcgaattcattataatgcaccacctcaaagttcaggctttgagcaaattttgtgaactcgctgggtcgcctgcgattttttatttaaatctttttacattaagagaatattaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tacatactcttaaaatcgataaaaaagaacgtgttattttagcctgttttttgttgtaatatctagggaaattatgggattttaatttgctttacatttgcgaattcattataatgcaccacctcaaagttcaggctttgagcaaattttgtgaactcgctgggtcgcctgcgattttttatttaaatctttttacattaagagaatattaaa Predict ORF larger than 30AA ================================================ Protein_Len: 42 Strand: + Start: 87 End: 209 ...................................................................................... M L Y I C E F I I M H H L K V Q A L S K F C E L A G S P A I F Y L N L F T L R E Y * .... Protein_Len: 36 Strand: - Start: 75 End: 182 .......................................................................... P I K I Q K V N A F E N Y H V V E F N L S Q A F K T F E S P R R R N K M ............................... tacatactcttaaaatcgataaaaaagaacgtgttattttagcctgttttttgttgtaatatctagggaaattatgggattttaatttgctttacatttgcgaattcattataatgcaccacctcaaagttcaggctttgagcaaattttgtgaactcgctgggtcgcctgcgattttttatttaaatctttttacattaagagaatattaaa Predict Promoter with matrix: RpoD-15 score > 80================================================ Predict Promoter with matrix: RpoD-16 score > 80================================================ Predict Promoter with matrix: RpoD-17 score > 80================================================ PromScan Matrix: RpoD-17 Strand: + Score: 85 Start: 86 End: 115 .....................................................................................TTTGCTTTACATTTGCGAATTCATTATAAT.................................................................................................. Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ tacatactcttaaaatcgataaaaaagaacgtgttattttagcctgttttttgttgtaatatctagggaaattatgggattttaatttgctttacatttgcgaattcattataatgcaccacctcaaagttcaggctttgagcaaattttgtgaactcgctgggtcgcctgcgattttttatttaaatctttttacattaagagaatattaaa Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 100 HP_score: -6.9 Tail_Score: -5.65927 Start: 157 End: 174 Full_Region: GCAAATTTTGTGAAC TCGCTGG GTCG CCTGCGA TTTTTTATTTAAATC ............................................................................................................................................................TCGCTGGGTCGCCTGCGA....................................... Find igs database================================================ Query_seq: AA02097:AA02099|AA02097:AA02099:DedA-family integral membrane protein:50S ribosomal protein L25:->->:1429566..1429778 213 tacatactcttaaaatcgataaaaaagaacgtgttattttagcctgttttttgttgtaatatctagggaaattatgggattttaatttgctttacatttgcgaattcattataatgcaccacctcaaagttcaggctttgagcaaattttgtgaactcgctgggtcgcctgcgattttttatttaaatctttttacattaagagaatattaaa Intra-Species Hit: Count: 1 Min: 1 Max: 213 Len: 213 Subject: aact_AA02097_AA02099|DedA-family integral membrane protein:50S ribosomal protein L25|POSITIVE:POSITIVE|[1429566,1429778]|213 HSP 1 e-value: 1.0E-117 bit: 422.0 Len: 213 Query Start:1 Query End:213 Subject Strand: POSITIVE Subject Start: 1 Subject End: 213 tacatactcttaaaatcgataaaaaagaacgtgttattttagcctgttttttgttgtaatatctagggaaattatgggattttaatttgctttacatttgcgaattcattataatgcaccacctcaaagttcaggctttgagcaaattttgtgaactcgctgggtcgcctgcgattttttatttaaatctttttacattaagagaatattaaa tacatactcttaaaatcgataaaaaagaacgtgttattttagcctgttttttgttgtaatatctagggaaattatgggattttaatttgctttacatttgcgaattcattataatgcaccacctcaaagttcaggctttgagcaaattttgtgaactcgctgggtcgcctgcgattttttatttaaatctttttacattaagagaatattaaa Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UACAUACUCUUAAAAUCGAUAAAAAAGAACGUGUUAUUUUAGCCUGUUUUUUGUUGUAAUAUCUAGGGAAAUUAUGGGAUUUUAAUUUGCUUUACAUUUGCGAAUUCAUUAUAAUGCACCACCUCAAAGUUCAGGCUUUGAGCAAAUUUUGUGAACUCGCUGGGUCGCCUGCGAUUUUUUAUUUAAAUCUUUUUACAUUAAGAGAAUAUUAAA ......(((((((..........((((((((.((((...)))).))))))))..(((((.((((((.((..((((..(((((.(((((((.........)))))))................((((((((....)))))))).)))))..))))..)).)))))).......(((((.......)))))...))))))))))))......... (-43.10) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUAAUAUUCUCUUAAUGUAAAAAGAUUUAAAUAAAAAAUCGCAGGCGACCCAGCGAGUUCACAAAAUUUGCUCAAAGCCUGAACUUUGAGGUGGUGCAUUAUAAUGAAUUCGCAAAUGUAAAGCAAAUUAAAAUCCCAUAAUUUCCCUAGAUAUUACAACAAAAAACAGGCUAAAAUAACACGUUCUUUUUUAUCGAUUUUAAGAGUAUGUA ....((((.(((((((((.(((((((.............(((....))).((.(((((((((.......(((.(...((((........)))).).)))......))))))))).(((((..((.((((((........))))))..))..))))).............))..............)))))))...))...))))))).)))). (-36.92) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 357 178 131 213 156 aact:AA01203|5end_diaminopimelate_epimerase_824140..824370_POSITIVE 335 172 133 69 31 aact:AA00464|5end_conserved_hypothetical_protein_323912..324142_POSITIVE 313 173 131 102 58 aact:AA00531|5end_DNA_polymerase_I_362621..362851_POSITIVE 310 175 132 167 127 aact:AA02933|5end_conserved_hypothetical_protein_(HesA/MoeB/ThiF_family_protein)_2053467..2053697_POSITIVE 308 178 132 54 3 aact:AA01938|5end_NAD(P)_transhydrogenase_subunit_alpha_1309493..1309723_POSITIVE 308 174 135 135 88 aact:AA00449|5end_conserved_hypothetical_protein_312996..313226_POSITIVE 303 136 95 171 129 aact:AA00533|5end_conserved_hypothetical_protein_365323..365553_POSITIVE 293 169 121 163 94 aact:AA01262|5end_hydrolase_859576..859806_POSITIVE 292 170 122 121 69 aact:AA00500|5end_hypothetical_protein_347151..347381_POSITIVE 291 136 96 57 15 aact:AA02250|5end_possible_cytochrome_c-type_protein_1530125..1530355_POSITIVE 291 169 122 67 30 aact:AA02023|5end_NADH_dehydrogenase_1376701..1376931_POSITIVE 283 174 135 57 14 aact:AA01465|5end_mannose-specific_phosphotransferase_element_984472..984702_POSITIVE 282 172 131 220 176 aact:AA00796|5end_iron(III)_dicitrate_transport_system_permease_protein_545686..545916_POSITIVE 281 174 132 48 2 aact:AA01772|5end_shikimate_5-dehydrogenase_protein_1194050..1194280_POSITIVE 280 180 131 72 30 aact:AA02374|5end_ribose_5-phosphate_isomerase_A_1625839..1626069_POSITIVE 280 180 134 79 38 aact:AA01056|5end_conserved_hypothetical_protein_733867..734097_POSITIVE 278 178 131 103 52 aact:AA01347|5end_conserved_hypothetical_protein_913209..913439_POSITIVE 278 167 121 169 121 aact:AA01212|5end_hypothetical_protein_829614..829844_POSITIVE 273 180 142 156 115 aact:AA01096|5end_conserved_hypothetical_protei_756912..757142_POSITIVE 271 178 133 182 141 aact:AA01450|5end_hypothetical_protein_971860..972090_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 350 173 133 88 43 aact:AA01044|3end_A/G-specific_adenine_glycosylase_727978..728128_POSITIVE 313 173 131 69 25 aact:AA00530|3end_hypothetical_protein_362668..362818_POSITIVE 308 174 135 117 70 aact:AA00448|3end_C-terminal_region_of_competence_protein_M_313058..313208_POSITIVE 291 169 122 40 3 aact:AA02022|3end_hypothetical_protein_1376754..1376904_POSITIVE 286 170 136 121 85 aact:AA00093|3end_L-serine_dehydratase_(L-serine_deaminase)_71173..71323_POSITIVE 280 180 134 72 31 aact:AA01054|3end_conserved_hypothetical_protein_733940..734090_POSITIVE 278 178 131 75 24 aact:AA01345|3end_conserved_hypothetical_protein_(possible_membrane_protein)_913261..913411_POSITIVE 273 180 142 125 84 aact:AA01095|3end_conserved_hypothetical_protein_756961..757111_POSITIVE 272 175 134 150 93 aact:AA01564|3end_transaldolase_B_1050129..1050279_POSITIVE 270 177 133 113 71 aact:AA02495|3end_conserved_hypothetical_protein_1731992..1732142_POSITIVE 268 176 132 125 68 aact:AA02584|3end_ADP-heptose_synthase_1798729..1798879_POSITIVE 267 174 134 110 66 aact:AA02477|3end_PTS_system,_N-acetylglucosamine-permease_IIABC_component_1713371..1713521_POSITIVE 267 178 133 143 105 aact:AA02160|3end_conserved_hypothetical_protein_1478929..1479079_POSITIVE 267 174 132 75 21 aact:AA00257|3end_rod-shape-determining_protein_180904..181054_POSITIVE 262 158 111 68 30 aact:AA01904|3end_hypothetical_protein_1285049..1285199_POSITIVE 262 159 116 108 58 aact:AA00217|3end_hypothetical_protein_150825..150975_POSITIVE 261 174 137 74 36 aact:AA02506|3end_possible_transmembrane_protein_1740131..1740281_POSITIVE 257 169 122 151 105 aact:AA02324|3end_ABC_transporter_ATP_binding_protein_1587392..1587542_POSITIVE 255 175 135 72 26 aact:AA00538|3end_hypothetical_protein_369111..369261_POSITIVE 254 176 134 78 22 aact:AA00184|3end_hypothetical_protein_130911..131061_POSITIVE