Origin IGS: tttttgccccaaatccattaatcaaaattgcgcgtattatgccacaggcggaaaagcttgccaatttctaaaccggttgtgagcgttcgcaaattctcttgaaaatccctgcggagtattggtcgccttgtgtgaagagtgataaactaagggcaatttcaacaaggataatttca .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tgaaattatccttgttgaaattgcccttagtttatcactcttcacacaaggcgaccaatactccgcagggattttcaagagaatttgcgaacgctcacaaccggtttagaaattggcaagcttttccgcctgtggcataatacgcgcaattttgattaatggatttggggcaaaaa Mask Tandem Repeat Region ================================================ tttttgccccaaatccattaatcaaaattgcgcgtattatgccacaggcggaaaagcttgccaatttctaaaccggttgtgagcgttcgcaaattctcttgaaaatccctgcggagtattggtcgccttgtgtgaagagtgataaactaagggcaatttcaacaaggataatttca Find is-nt database================================================ Query_seq: AA01358:AA01359|AA01358:AA01359:conserved hypothetical protein:conserved hypothetical protein:->->:920448..920623 176 tttttgccccaaatccattaatcaaaattgcgcgtattatgccacaggcggaaaagcttgccaatttctaaaccggttgtgagcgttcgcaaattctcttgaaaatccctgcggagtattggtcgccttgtgtgaagagtgataaactaagggcaatttcaacaaggataatttca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA01358:AA01359|AA01358:AA01359:conserved hypothetical protein:conserved hypothetical protein:->->:920448..920623 176 tttttgccccaaatccattaatcaaaattgcgcgtattatgccacaggcggaaaagcttgccaatttctaaaccggttgtgagcgttcgcaaattctcttgaaaatccctgcggagtattggtcgccttgtgtgaagagtgataaactaagggcaatttcaacaaggataatttca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA01358:AA01359|AA01358:AA01359:conserved hypothetical protein:conserved hypothetical protein:->->:920448..920623 176 tttttgccccaaatccattaatcaaaattgcgcgtattatgccacaggcggaaaagcttgccaatttctaaaccggttgtgagcgttcgcaaattctcttgaaaatccctgcggagtattggtcgccttgtgtgaagagtgataaactaagggcaatttcaacaaggataatttca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tttttgccccaaatccattaatcaaaattgcgcgtattatgccacaggcggaaaagcttgccaatttctaaaccggttgtgagcgttcgcaaattctcttgaaaatccctgcggagtattggtcgccttgtgtgaagagtgataaactaagggcaatttcaacaaggataatttca Predict ORF larger than 30AA ================================================ Protein_Len: 34 Strand: - Start: 71 End: 172 ...................................................................... V P Q S R E C I R K F I G A S Y Q D G Q T F L S L S L A I E V L I M .... Protein_Len: 42 Strand: - Start: 40 End: 165 ....................................... A V P P F A Q W N R F R N H A N A F E R S F G Q P T N T A K H S S H Y V L P L K L M ........... Protein_Len: 41 Strand: - Start: 21 End: 143 .................... D F N R T N H W L R F L K G I E L G T T L T R L N E Q F D R R L I P R R T H L T M ................................. tttttgccccaaatccattaatcaaaattgcgcgtattatgccacaggcggaaaagcttgccaatttctaaaccggttgtgagcgttcgcaaattctcttgaaaatccctgcggagtattggtcgccttgtgtgaagagtgataaactaagggcaatttcaacaaggataatttca 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: 83 Start: 36 End: 65 ...................................ATTGGCAAGCTTTTCCGCCTGTGGCATAAT............................................................................................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ tttttgccccaaatccattaatcaaaattgcgcgtattatgccacaggcggaaaagcttgccaatttctaaaccggttgtgagcgttcgcaaattctcttgaaaatccctgcggagtattggtcgccttgtgtgaagagtgataaactaagggcaatttcaacaaggataatttca Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: AA01358:AA01359|AA01358:AA01359:conserved hypothetical protein:conserved hypothetical protein:->->:920448..920623 176 tttttgccccaaatccattaatcaaaattgcgcgtattatgccacaggcggaaaagcttgccaatttctaaaccggttgtgagcgttcgcaaattctcttgaaaatccctgcggagtattggtcgccttgtgtgaagagtgataaactaagggcaatttcaacaaggataatttca Intra-Species Hit: Count: 1 Min: 1 Max: 176 Len: 176 Subject: aact_AA01358_AA01359|conserved hypothetical protein:conserved hypothetical protein|POSITIVE:POSITIVE|[920448,920623]|176 HSP 1 e-value: 2.0E-95 bit: 349.0 Len: 176 Query Start:1 Query End:176 Subject Strand: POSITIVE Subject Start: 1 Subject End: 176 tttttgccccaaatccattaatcaaaattgcgcgtattatgccacaggcggaaaagcttgccaatttctaaaccggttgtgagcgttcgcaaattctcttgaaaatccctgcggagtattggtcgccttgtgtgaagagtgataaactaagggcaatttcaacaaggataatttca tttttgccccaaatccattaatcaaaattgcgcgtattatgccacaggcggaaaagcttgccaatttctaaaccggttgtgagcgttcgcaaattctcttgaaaatccctgcggagtattggtcgccttgtgtgaagagtgataaactaagggcaatttcaacaaggataatttca Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUUUGCCCCAAAUCCAUUAAUCAAAAUUGCGCGUAUUAUGCCACAGGCGGAAAAGCUUGCCAAUUUCUAAACCGGUUGUGAGCGUUCGCAAAUUCUCUUGAAAAUCCCUGCGGAGUAUUGGUCGCCUUGUGUGAAGAGUGAUAAACUAAGGGCAAUUUCAACAAGGAUAAUUUCA ............((((...............(((....(((((((((.(((.....................))).))))).)))).)))........((((((..((((....(((....((((((((.....))).)))))..))).))))...))))))...))))....... (-39.80) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAAAUUAUCCUUGUUGAAAUUGCCCUUAGUUUAUCACUCUUCACACAAGGCGACCAAUACUCCGCAGGGAUUUUCAAGAGAAUUUGCGAACGCUCACAACCGGUUUAGAAAUUGGCAAGCUUUUCCGCCUGUGGCAUAAUACGCGCAAUUUUGAUUAAUGGAUUUGGGGCAAAAA ....................(((((((.(((((((.(.((....((((.((((..........((((..((((((....))))))))))...(((.....((((((....))))))..))).....))))))))((.......))........)).).))))))).)))))))... (-38.40) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 357 90 41 192 134 aact:AA02303|5end_ATP-dependent_DNA_helicase_1572696..1572926_POSITIVE 354 89 46 181 125 aact:AA00927|5end_ATP-dependent_DNA_helicase_635811..636041_POSITIVE 350 90 41 170 126 aact:AA01755|5end_cobalt_membrane_transport_protein_1185825..1186055_POSITIVE 336 110 63 215 165 aact:AA01746|5end_thiol:disulfide_interchange_protein_1180636..1180866_POSITIVE 332 126 83 229 183 aact:AA02743|5end_outer_membrane_lipoprotein_precursor/glutamyl-tRNA_reductase_subunit_1922650..1922880_POSITIVE 331 79 31 104 40 aact:AA00141|5end_hypoxanthine_phosphoribosyl_transferase_(HPRT)_100814..101044_POSITIVE 327 114 71 229 173 aact:AA00552|5end_periplasmic_nitrate_reductase_precursor_377331..377561_POSITIVE 327 114 71 123 67 aact:AA00551|5end_hypothetical_protein_377225..377455_POSITIVE 324 80 31 68 8 aact:AA01519.1|5end_conserved_hypothetical_protein_1022466..1022696_POSITIVE 321 126 83 90 42 aact:AA02564|5end_transketolase_N-terminal_section_1786173..1786403_POSITIVE 320 117 71 183 142 aact:AA02908|5end_hypothetical_protein_2035259..2035489_POSITIVE 320 77 32 188 133 aact:AA02531|5end_conserved_hypothetical_protein_1758383..1758613_POSITIVE 320 90 43 124 69 aact:AA02097|5end_DedA-family_integral_membrane_protein_1428823..1429053_POSITIVE 319 47 8 137 100 aact:AA02866|5end_lactoylglutathione_lyase_2012624..2012854_POSITIVE 319 63 27 131 90 aact:AA02371|5end_oxygen-independent_coproporphyrinogen_III_oxidase_1624580..1624810_POSITIVE 317 89 43 217 172 aact:AA02325|5end_membrane_protein;_possible_ABC_transporter,_permease_1587309..1587539_POSITIVE 315 89 44 161 115 aact:AA02747|5end_ribose-phosphate_pyrophosphokinase;_phosphoribosylpyrophosphate_synthase_1924324..1924554_POSITIVE 315 103 65 231 188 aact:AA01834|5end_hypothetical_protein_1234640..1234870_POSITIVE 315 127 83 78 40 aact:AA01358|5end_conserved_hypothetical_protein_920002..920232_POSITIVE 312 79 31 127 86 aact:AA01527|5end_hypothetical_protein_1025704..1025934_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 346 106 65 117 71 aact:AA01832|3end_formate_dehydrogenase_formation_protein_E_1234603..1234753_POSITIVE 336 110 63 131 81 aact:AA01745|3end_conserved_hypothetical_protein_(possible_peptide_chain_release_factor_2)_1180632..1180782_POSITIVE 331 79 31 82 18 aact:AA00140|3end_hypothetical_protein_100872..101022_POSITIVE 324 90 41 143 97 aact:AA02349|3end_dihydrodipicolinate_synthetase_1608361..1608511_POSITIVE 324 80 31 61 1 aact:AA01519|3end_conserved_hypothetical_protein_1022539..1022689_POSITIVE 323 117 73 53 5 aact:AA01260|3end_hypothetical_protein_855758..855908_POSITIVE 321 126 83 97 49 aact:AA02563|3end_transketolase_C-terminal_section_1786260..1786410_POSITIVE 319 63 27 119 78 aact:AA02369|3end_conserved_hypothetical_protein_1624648..1624798_POSITIVE 319 140 94 74 24 aact:AA01945|3end_selenophosphate_synthase_1316022..1316172_POSITIVE 310 90 41 55 9 aact:AA02078|3end_hypothetical_protein_1412793..1412943_POSITIVE 310 85 43 58 10 aact:AA01957|3end_conserved_hypothetical_protein_1323467..1323617_POSITIVE 306 90 42 48 11 aact:AA01184|3end_hypothetical_protein_811133..811283_POSITIVE 303 80 32 61 16 aact:AA02616|3end_transcriptional_regulator_1824675..1824825_POSITIVE 303 88 47 53 22 aact:AA00184|3end_hypothetical_protein_130911..131061_POSITIVE 302 90 46 130 79 aact:AA03015|3end_hypothetical_protein_2105251..2105401_POSITIVE 302 90 46 96 39 aact:AA02013|3end_carbonic_anhydrase_1370374..1370524_POSITIVE 302 90 41 59 3 aact:AA01965|3end_poly(A)_polymerase_1331021..1331171_POSITIVE 300 78 36 134 87 aact:AA01734|3end_DNA-binding_protein;_DPS_family_protein_1172602..1172752_POSITIVE 299 69 28 121 79 aact:AA00382|3end_hypothetical_protein_258885..259035_POSITIVE 298 141 110 139 98 aact:AA01743|3end_lysyl-tRNA_synthetase_1179351..1179501_POSITIVE