Origin IGS: ttctttttgcagaaactcctctgtaccaggcataatctgcgccaacataccgcgccattttagttcttcaacaaagttcttcatcaattattgtgtttaaaacccgcaagggctgtattatatataatgtattattggagtgtttttatgtgttgttta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taaacaacacataaaaacactccaataatacattatatataatacagcccttgcgggttttaaacacaataattgatgaagaactttgttgaagaactaaaatggcgcggtatgttggcgcagattatgcctggtacagaggagtttctgcaaaaagaa Mask Tandem Repeat Region ================================================ ttctttttgcagaaactcctctgtaccaggcataatctgcgccaacataccgcgccattttagttcttcaacaaagttcttcatcaattattgtgtttaaaacccgcaagggctgtattatatataatgtattattggagtgtttttatgtgttgttta Find is-nt database================================================ Query_seq: PI0083:PI0084|PI0083:PI0084:tyrosyl-tRNA synthetase:conserved hypothetical protein:->->:84176..84334 159 ttctttttgcagaaactcctctgtaccaggcataatctgcgccaacataccgcgccattttagttcttcaacaaagttcttcatcaattattgtgtttaaaacccgcaagggctgtattatatataatgtattattggagtgtttttatgtgttgttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0083:PI0084|PI0083:PI0084:tyrosyl-tRNA synthetase:conserved hypothetical protein:->->:84176..84334 159 ttctttttgcagaaactcctctgtaccaggcataatctgcgccaacataccgcgccattttagttcttcaacaaagttcttcatcaattattgtgtttaaaacccgcaagggctgtattatatataatgtattattggagtgtttttatgtgttgttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0083:PI0084|PI0083:PI0084:tyrosyl-tRNA synthetase:conserved hypothetical protein:->->:84176..84334 159 ttctttttgcagaaactcctctgtaccaggcataatctgcgccaacataccgcgccattttagttcttcaacaaagttcttcatcaattattgtgtttaaaacccgcaagggctgtattatatataatgtattattggagtgtttttatgtgttgttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ttctttttgcagaaactcctctgtaccaggcataatctgcgccaacataccgcgccattttagttcttcaacaaagttcttcatcaattattgtgtttaaaacccgcaagggctgtattatatataatgtattattggagtgtttttatgtgttgttta Predict ORF larger than 30AA ================================================ Protein_Len: 34 Strand: + Start: 57 End: 158 ........................................................ M L V L Q Q S S S S I I V F K T R K G C I I Y N V L L E C F Y V L F . ttctttttgcagaaactcctctgtaccaggcataatctgcgccaacataccgcgccattttagttcttcaacaaagttcttcatcaattattgtgtttaaaacccgcaagggctgtattatatataatgtattattggagtgtttttatgtgttgttta 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================================================ ttctttttgcagaaactcctctgtaccaggcataatctgcgccaacataccgcgccattttagttcttcaacaaagttcttcatcaattattgtgtttaaaacccgcaagggctgtattatatataatgtattattggagtgtttttatgtgttgttta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI0083:PI0084|PI0083:PI0084:tyrosyl-tRNA synthetase:conserved hypothetical protein:->->:84176..84334 159 ttctttttgcagaaactcctctgtaccaggcataatctgcgccaacataccgcgccattttagttcttcaacaaagttcttcatcaattattgtgtttaaaacccgcaagggctgtattatatataatgtattattggagtgtttttatgtgttgttta Intra-Species Hit: Count: 1 Min: 1 Max: 159 Len: 159 Subject: pint_PI0083_PI0084|tyrosyl-tRNA synthetase:conserved hypothetical protein|POSITIVE:POSITIVE|[84176,84334]|159 HSP 1 e-value: 2.0E-85 bit: 315.0 Len: 159 Query Start:1 Query End:159 Subject Strand: POSITIVE Subject Start: 1 Subject End: 159 ttctttttgcagaaactcctctgtaccaggcataatctgcgccaacataccgcgccattttagttcttcaacaaagttcttcatcaattattgtgtttaaaacccgcaagggctgtattatatataatgtattattggagtgtttttatgtgttgttta ttctttttgcagaaactcctctgtaccaggcataatctgcgccaacataccgcgccattttagttcttcaacaaagttcttcatcaattattgtgtttaaaacccgcaagggctgtattatatataatgtattattggagtgtttttatgtgttgttta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUCUUUUUGCAGAAACUCCUCUGUACCAGGCAUAAUCUGCGCCAACAUACCGCGCCAUUUUAGUUCUUCAACAAAGUUCUUCAUCAAUUAUUGUGUUUAAAACCCGCAAGGGCUGUAUUAUAUAUAAUGUAUUAUUGGAGUGUUUUUAUGUGUUGUUUA .......((((((......))))))...((((((....((((.........)))).................((((..(((((..(((((((((((.((...(((....)))...))....)))))))).)))..)))))..))))..))))))..... (-30.90) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAACAACACAUAAAAACACUCCAAUAAUACAUUAUAUAUAAUACAGCCCUUGCGGGUUUUAAACACAAUAAUUGAUGAAGAACUUUGUUGAAGAACUAAAAUGGCGCGGUAUGUUGGCGCAGAUUAUGCCUGGUACAGAGGAGUUUCUGCAAAAAGAA .......((((((....(.(.(((..................((.(((((....))))).))..........(..(..((....))..)..)..........))).).).)))).))..(((((.....(((.......)))....)))))........ (-25.40) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 354 55 17 55 3 pint:PI0685|5end_elongation_factor_G_620848..621078_POSITIVE 310 69 28 194 155 pint:PI0480|5end_preprotein_translocase,_SecY_subunit_441576..441806_POSITIVE 303 40 1 58 19 pint:PI0968|5end_hypothetical_protein_895946..896176_POSITIVE 301 55 14 113 68 pint:PI0707|5end_conserved_hypothetical_protein;_possible_integral_membrane_protein_643358..643588_POSITIVE 295 57 17 79 37 pint:PI2017|5end_conserved_hypothetical_protein_1974862..1975092_POSITIVE 281 58 20 85 30 pint:PI0259|5end_conserved_protein_found_in_conjugation,_TraI_252355..252585_POSITIVE 279 56 15 215 162 pint:PI0981|5end_outer_membrane_protein,_TonB_dependent_receptor_906968..907198_POSITIVE 275 57 21 80 44 pint:PI1067|5end_thymidylate_synthase_983940..984170_POSITIVE 274 69 22 63 14 pint:PI0467|5end_50S_ribosomal_protein_L16_436471..436701_POSITIVE 270 47 9 225 194 pint:PI2045|5end_hypothetical_protein_1998494..1998724_POSITIVE 270 58 16 91 49 pint:PI1705|5end_3-oxoacyl-(acyl-carrier-protein)_synthase_III_1621781..1622011_POSITIVE 269 60 17 221 161 pint:PI1980|5end_conserved_hypothetical_protein_1937470..1937700_POSITIVE 269 59 26 138 96 pint:PI0432|5end_hypothetical_protein_404781..405011_POSITIVE 269 59 26 81 39 pint:PI0433|5end_hypothetical_protein_404724..404954_POSITIVE 267 57 19 41 11 pint:PI1551|5end_HesA/MoeB/ThiF_family_protein_1467787..1468017_POSITIVE 266 57 13 65 8 pint:PI1327|5end_conserved_hypothetical_protein_1245563..1245793_POSITIVE 266 59 21 153 111 pint:PI0758|5end_hypothetical_protein_690247..690477_POSITIVE 265 47 2 62 10 pint:PI0932|5end_conserved_hypothetical_protein;_possible_hemin_receptor_863854..864084_POSITIVE 261 55 12 196 146 pint:PI0331|5end_hypothetical_protein_311656..311886_POSITIVE 260 60 16 137 96 pint:PI1639|5end_conserved_hypothetical_protein_1556725..1556955_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 308 70 28 66 2 pint:PI2036|3end_hypothetical_protein_1989516..1989666_POSITIVE 301 55 14 69 24 pint:PI0706|3end_pyridoxal_phosphate_biosynthetic_protein_(4-hydroxythreonine-4-phosphate_dehydrogenase)_643394..643544_POSITIVE 295 57 17 70 28 pint:PI2016|3end_ribosomal_large_subunit_pseudouridine_synthase_D_1974933..1975083_POSITIVE 265 56 18 44 5 pint:PI1256|3end_conserved_hypothetical_protein_1178109..1178259_POSITIVE 257 65 22 65 15 pint:PI1438|3end_penicillin_tolerance_protein/steroid_biosynthesis_1357275..1357425_POSITIVE 257 69 36 45 2 pint:PI0466|3end_30S_ribosomal_protein_S3_436533..436683_POSITIVE 255 57 20 56 24 pint:PI1719|3end_conserved_hypothetical_protein_1636207..1636357_POSITIVE 252 60 19 131 83 pint:PI1356|3end_hypothetical_protein_1273340..1273490_POSITIVE 252 56 20 151 104 pint:PI1087|3end_conserved_hypothetical_protein_1011557..1011707_POSITIVE 247 54 14 108 60 pint:PI0595|3end_conserved_hypothetical_protein_546406..546556_POSITIVE 245 47 1 151 92 pint:PI1705|3end_3-oxoacyl-(acyl-carrier-protein)_synthase_III_1622706..1622856_POSITIVE 245 56 11 151 95 pint:PI0535|3end_hypothetical_protein_489779..489929_POSITIVE 242 54 26 51 25 pint:PI1924|3end_cytidine_deaminase_1866495..1866645_POSITIVE 241 46 7 150 119 pint:PI2012|3end_hypothetical_protein_1971555..1971705_POSITIVE 240 61 21 53 4 pint:PI1643|3end_conserved_hypothetical_protein_1562029..1562179_POSITIVE 240 55 19 67 26 pint:PI0111|3end_hypothetical_protein_108265..108415_POSITIVE 239 61 21 53 4 pint:PI0350|3end_conserved_hypothetical_protein_324835..324985_POSITIVE 238 60 15 143 99 pint:PI0817|3end_glycosyl_transferase,_group_1_family_protein_758209..758359_POSITIVE 238 54 15 136 95 pint:PI0205|3end_deoxyuridine_5'-triphosphate_nucleotidohydrolase_198095..198245_POSITIVE 234 88 47 139 90 pint:PI0459|3end_30S_ribosomal_protein_S10_432467..432617_POSITIVE