Origin IGS: taaaaacgcttgaaaaaagaaccgcactttacgggcgcagataacgcaccctacttttcccctcaactatttccataaaccttaaacaaaatttttatttcccttgactttcaccccttgtactagtttaatagtgcaaaatttatttcatgctttataaggaaatgaga .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tctcatttccttataaagcatgaaataaattttgcactattaaactagtacaaggggtgaaagtcaagggaaataaaaattttgtttaaggtttatggaaatagttgaggggaaaagtagggtgcgttatctgcgcccgtaaagtgcggttcttttttcaagcgttttta Mask Tandem Repeat Region ================================================ taaaaacgcttgaaaaaagaaccgcactttacgggcgcagataacgcaccctacttttcccctcaactatttccataaaccttaaacaaaatttttatttcccttgactttcaccccttgtactagtttaatagtgcaaaatttatttcatgctttataaggaaatgaga Find is-nt database================================================ Query_seq: AA02172:AA02173|AA02172:AA02173:conserved hypothetical protein:anthranilate synthase component I:->->:1486711..1486880 170 taaaaacgcttgaaaaaagaaccgcactttacgggcgcagataacgcaccctacttttcccctcaactatttccataaaccttaaacaaaatttttatttcccttgactttcaccccttgtactagtttaatagtgcaaaatttatttcatgctttataaggaaatgaga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA02172:AA02173|AA02172:AA02173:conserved hypothetical protein:anthranilate synthase component I:->->:1486711..1486880 170 taaaaacgcttgaaaaaagaaccgcactttacgggcgcagataacgcaccctacttttcccctcaactatttccataaaccttaaacaaaatttttatttcccttgactttcaccccttgtactagtttaatagtgcaaaatttatttcatgctttataaggaaatgaga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA02172:AA02173|AA02172:AA02173:conserved hypothetical protein:anthranilate synthase component I:->->:1486711..1486880 170 taaaaacgcttgaaaaaagaaccgcactttacgggcgcagataacgcaccctacttttcccctcaactatttccataaaccttaaacaaaatttttatttcccttgactttcaccccttgtactagtttaatagtgcaaaatttatttcatgctttataaggaaatgaga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taaaaacgcttgaaaaaagaaccgcactttacgggcgcagataacgcaccctacttttcccctcaactatttccataaaccttaaacaaaatttttatttcccttgactttcaccccttgtactagtttaatagtgcaaaatttatttcatgctttataaggaaatgaga Predict ORF larger than 30AA ================================================ taaaaacgcttgaaaaaagaaccgcactttacgggcgcagataacgcaccctacttttcccctcaactatttccataaaccttaaacaaaatttttatttcccttgactttcaccccttgtactagtttaatagtgcaaaatttatttcatgctttataaggaaatgaga 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: 82 Start: 103 End: 132 ......................................................................................................CTTGACTTTCACCCCTTGTACTAGTTTAAT...................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ taaaaacgcttgaaaaaagaaccgcactttacgggcgcagataacgcaccctacttttcccctcaactatttccataaaccttaaacaaaatttttatttcccttgactttcaccccttgtactagtttaatagtgcaaaatttatttcatgctttataaggaaatgaga Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 73 HP_score: -5.5 Tail_Score: -4.61482 Start: 22 End: 34 Full_Region: gtgcgttatctgcgc ccgta aag tgcgg ttcttttttcaagcg .....................ccgtaaagtgcgg........................................................................................................................................ TransTerm Strand: + Conf: 45 HP_score: -3.8 Tail_Score: -2.57471 Start: 118 End: 139 Full_Region: CTTGACTTTCACCCC TTGTACTA GTTTAA TAGTGCAA AATTTATTTCATGCT .....................................................................................................................TTGTACTAGTTTAATAGTGCAA............................... Find igs database================================================ Query_seq: AA02172:AA02173|AA02172:AA02173:conserved hypothetical protein:anthranilate synthase component I:->->:1486711..1486880 170 taaaaacgcttgaaaaaagaaccgcactttacgggcgcagataacgcaccctacttttcccctcaactatttccataaaccttaaacaaaatttttatttcccttgactttcaccccttgtactagtttaatagtgcaaaatttatttcatgctttataaggaaatgaga Intra-Species Hit: Count: 1 Min: 1 Max: 170 Len: 170 Subject: aact_AA02172_AA02173|conserved hypothetical protein:anthranilate synthase component I|POSITIVE:POSITIVE|[1486711,1486880]|170 HSP 1 e-value: 7.0E-92 bit: 337.0 Len: 170 Query Start:1 Query End:170 Subject Strand: POSITIVE Subject Start: 1 Subject End: 170 taaaaacgcttgaaaaaagaaccgcactttacgggcgcagataacgcaccctacttttcccctcaactatttccataaaccttaaacaaaatttttatttcccttgactttcaccccttgtactagtttaatagtgcaaaatttatttcatgctttataaggaaatgaga taaaaacgcttgaaaaaagaaccgcactttacgggcgcagataacgcaccctacttttcccctcaactatttccataaaccttaaacaaaatttttatttcccttgactttcaccccttgtactagtttaatagtgcaaaatttatttcatgctttataaggaaatgaga Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAAACGCUUGAAAAAAGAACCGCACUUUACGGGCGCAGAUAACGCACCCUACUUUUCCCCUCAACUAUUUCCAUAAACCUUAAACAAAAUUUUUAUUUCCCUUGACUUUCACCCCUUGUACUAGUUUAAUAGUGCAAAAUUUAUUUCAUGCUUUAUAAGGAAAUGAGA .........((((..((((.......))))..(((.((.......)).)))...........))))..........................((((((((((..((.....))....((((((((......)))))))).....................)))))))))) (-24.30) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UCUCAUUUCCUUAUAAAGCAUGAAAUAAAUUUUGCACUAUUAAACUAGUACAAGGGGUGAAAGUCAAGGGAAAUAAAAAUUUUGUUUAAGGUUUAUGGAAAUAGUUGAGGGGAAAAGUAGGGUGCGUUAUCUGCGCCCGUAAAGUGCGGUUCUUUUUUCAAGCGUUUUUA .................((.(((((......(((((((..((((((...((((((..(.....((....)).....)..))))))....))))))........................(((((((.....)))))))....)))))))......))))).))....... (-34.10) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 401 50 7 134 88 aact:AA00244|5end_conserved_hypothetical_protein_(possible_deoxyribonuclease,_possible_hydrolase)_172043..172273_POSITIVE 396 42 2 135 94 aact:AA02937|5end_conserved_hypothetical_protein_2056379..2056609_POSITIVE 389 50 2 202 149 aact:AA02030|5end_threonyl-tRNA_synthetase_1382171..1382401_POSITIVE 386 48 1 209 154 aact:AA01824|5end_iron(III)_ABC_transporter,_ATP-binding_protein_1227705..1227935_POSITIVE 386 48 1 67 12 aact:AA01823|5end_hypothetical_protein_1227563..1227793_POSITIVE 372 49 2 167 115 aact:AA01248|5end_conserved_hypothetical_protein_(possible_phosphoesterase)_849734..849964_POSITIVE 372 49 2 97 45 aact:AA01247|5end_hypothetical_protein_849664..849894_POSITIVE 367 49 2 173 120 aact:AA00324|5end_tRNA_(Uracil-5-)-methyltransferase_(tRNA(M-5-U54)-methyltransferase)_220147..220377_POSITIVE 366 31 1 123 92 aact:AA02762|5end_ribonuclease_H_1933164..1933394_POSITIVE 365 42 2 134 94 aact:AA01704|5end_tyrosine-specific_transport_protein_1156170..1156400_POSITIVE 354 45 2 190 137 aact:AA00250|5end_lipoate_biosynthesis_protein_A_175496..175726_POSITIVE 351 47 2 211 171 aact:AA03000|5end_uracil-DNA_glycosylase_(UDG)_2095076..2095306_POSITIVE 351 50 2 161 119 aact:AA00974|5end_glucosamine-fructose-6-phosphate_679215..679445_POSITIVE 349 50 1 161 102 aact:AA01988|5end_dihydrolipoamide_dehydrogenase;_lipoamide_dehydrogenase_1350517..1350747_POSITIVE 348 63 21 166 116 aact:AA00109|5end_conserved_hypothetical_protein_78582..78812_POSITIVE 346 46 5 61 27 aact:AA01626|5end_N_utilization_substance_protein_B_1100444..1100674_POSITIVE 346 48 7 88 51 aact:AA01188|5end_conserved_hypothetical_protein_813912..814142_POSITIVE 341 47 1 138 96 aact:AA01692|5end_hexulose-6-phosphate_synthase_1149178..1149408_POSITIVE 340 41 3 160 125 aact:AA01737|5end_exoribonuclease_II_1172647..1172877_POSITIVE 340 41 3 46 11 aact:AA01735|5end_hypothetical_protein_1172533..1172763_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 401 50 7 101 55 aact:AA00241|3end_formate_acetyltransferase_activating_enzyme_(anaerobic_ribonucleoside-triphosphate_reductase_activating_protein)_172090..172240_POSITIVE 396 42 2 49 8 aact:AA02936|3end_lipoprotein_E_precursor;_outer_membrane_protein_P4_precursor;_acid_phosphatase_2056373..2056523_POSITIVE 386 48 1 95 40 aact:AA01822|3end_lysostaphin_precursor_1227671..1227821_POSITIVE 377 48 1 100 48 aact:AA01046|3end_conserved_hypothetical_protein_729280..729430_POSITIVE 375 50 2 104 47 aact:AA01611|3end_anthranilate_synthase_component_II_1089619..1089769_POSITIVE 365 42 2 45 5 aact:AA01703|3end_L-ribulose-phosphate_4-epimerase_1156161..1156311_POSITIVE 364 31 7 29 5 aact:AA02758|3end_3-phosphoshikimate_1-carboxyvinyltransferase_1933150..1933300_POSITIVE 351 50 2 103 61 aact:AA00973|3end_transcriptional_regulator,_DeoR_family_679237..679387_POSITIVE 349 50 1 64 5 aact:AA01986|3end_pyruvate_dehydrogenase_complex_E2_1350500..1350650_POSITIVE 346 46 5 51 17 aact:AA01625|3end_riboflavin_synthase,_beta_chain_1100514..1100664_POSITIVE 346 48 7 88 51 aact:AA01187|3end_conserved_hypothetical_protein_813992..814142_POSITIVE 340 41 3 147 112 aact:AA01735|3end_hypothetical_protein_1172714..1172864_POSITIVE 337 50 2 79 26 aact:AA02964|3end_opacity_associated_protein_A_2074128..2074278_POSITIVE 333 60 20 145 101 aact:AA00108|3end_conserved_hypothetical_protein_78648..78798_POSITIVE 331 41 4 35 1 aact:AA01734|3end_DNA-binding_protein;_DPS_family_protein_1172602..1172752_POSITIVE 323 36 1 92 60 aact:AA02105|3end_killing_protein_1433290..1433440_POSITIVE 323 48 2 105 60 aact:AA01992|3end_protease_IV;_signal_peptide_peptidase;_Endopeptidase_IV_1355004..1355154_POSITIVE 317 47 3 109 63 aact:AA02885|3end_conserved_hypothetical_protein_2023422..2023572_POSITIVE 308 46 4 80 41 aact:AA02440|3end_ABC_transporter,_ATP-binding_protein_1685791..1685941_POSITIVE 308 34 2 139 109 aact:AA02234|3end_hypothetical_protein_1521522..1521672_POSITIVE