Origin IGS: ttaaaatccttcttaaaatacaaaaaaataaaaaaatctcttgcaaattaaggctattttagcgatcttaaatagctattagcaagcaaacacaacggttttcgatcctttttattcgaatcgttatgacaaaataacaaataaaacggaggctttt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aaaagcctccgttttatttgttattttgtcataacgattcgaataaaaaggatcgaaaaccgttgtgtttgcttgctaatagctatttaagatcgctaaaatagccttaatttgcaagagatttttttatttttttgtattttaagaaggattttaa Mask Tandem Repeat Region ================================================ ttaaaatccttcttaaaatacaaaaaaataaaaaaatctcttgcaaattaaggctattttagcgatcttaaatagctattagcaagcaaacacaacggttttcgatcctttttattcgaatcgttatgacaaaataacaaataaaacggaggctttt Find is-nt database================================================ Query_seq: AA02348:AA02349|AA02348:AA02349:bacterioferritin comigratory protein:dihydrodipicolinate synthetase:->->:1607374..1607530 157 ttaaaatccttcttaaaatacaaaaaaataaaaaaatctcttgcaaattaaggctattttagcgatcttaaatagctattagcaagcaaacacaacggttttcgatcctttttattcgaatcgttatgacaaaataacaaataaaacggaggctttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA02348:AA02349|AA02348:AA02349:bacterioferritin comigratory protein:dihydrodipicolinate synthetase:->->:1607374..1607530 157 ttaaaatccttcttaaaatacaaaaaaataaaaaaatctcttgcaaattaaggctattttagcgatcttaaatagctattagcaagcaaacacaacggttttcgatcctttttattcgaatcgttatgacaaaataacaaataaaacggaggctttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA02348:AA02349|AA02348:AA02349:bacterioferritin comigratory protein:dihydrodipicolinate synthetase:->->:1607374..1607530 157 ttaaaatccttcttaaaatacaaaaaaataaaaaaatctcttgcaaattaaggctattttagcgatcttaaatagctattagcaagcaaacacaacggttttcgatcctttttattcgaatcgttatgacaaaataacaaataaaacggaggctttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ttaaaatccttcttaaaatacaaaaaaataaaaaaatctcttgcaaattaaggctattttagcgatcttaaatagctattagcaagcaaacacaacggttttcgatcctttttattcgaatcgttatgacaaaataacaaataaaacggaggctttt Predict ORF larger than 30AA ================================================ ttaaaatccttcttaaaatacaaaaaaataaaaaaatctcttgcaaattaaggctattttagcgatcttaaatagctattagcaagcaaacacaacggttttcgatcctttttattcgaatcgttatgacaaaataacaaataaaacggaggctttt 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================================================ ttaaaatccttcttaaaatacaaaaaaataaaaaaatctcttgcaaattaaggctattttagcgatcttaaatagctattagcaagcaaacacaacggttttcgatcctttttattcgaatcgttatgacaaaataacaaataaaacggaggctttt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: AA02348:AA02349|AA02348:AA02349:bacterioferritin comigratory protein:dihydrodipicolinate synthetase:->->:1607374..1607530 157 ttaaaatccttcttaaaatacaaaaaaataaaaaaatctcttgcaaattaaggctattttagcgatcttaaatagctattagcaagcaaacacaacggttttcgatcctttttattcgaatcgttatgacaaaataacaaataaaacggaggctttt Intra-Species Hit: Count: 1 Min: 37 Max: 157 Len: 121 Subject: aact_AA02348_AA02349|bacterioferritin comigratory protein:dihydrodipicolinate synthetase|POSITIVE:POSITIVE|[1607374,1607530]|157 HSP 1 e-value: 1.0E-62 bit: 240.0 Len: 121 Query Start:37 Query End:157 Subject Strand: POSITIVE Subject Start: 37 Subject End: 157 ....................................tctcttgcaaattaaggctattttagcgatcttaaatagctattagcaagcaaacacaacggttttcgatcctttttattcgaatcgttatgacaaaataacaaataaaacggaggctttt ....................................tctcttgcaaattaaggctattttagcgatcttaaatagctattagcaagcaaacacaacggttttcgatcctttttattcgaatcgttatgacaaaataacaaataaaacggaggctttt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UCUCUUGCAAAUUAAGGCUAUUUUAGCGAUCUUAAAUAGCUAUUAGCAAGCAAACACAACGGUUUUCGAUCCUUUUUAUUCGAAUCGUUAUGACAAAAUAACAAAUAAAACGGAGGCUUUU ((((((((...((((((((((((.((....)).)))))))).))))...)))..((.((((((..((((..........)))))))))).))...................)))))..... (-21.40) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAAAGCCUCCGUUUUAUUUGUUAUUUUGUCAUAACGAUUCGAAUAAAAAGGAUCGAAAACCGUUGUGUUUGCUUGCUAAUAGCUAUUUAAGAUCGCUAAAAUAGCCUUAAUUUGCAAGAGA .......(((.(((((((((.....((((....))))..))))))))).)))...................(((((.(((.(((((((.((....)).)))))))....))).)))))... (-22.50) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 266 82 46 190 148 aact:AA02879|5end_octaprenyl-diphosphate_synthase_2019523..2019753_POSITIVE 257 80 47 73 38 aact:AA00878|5end_tight_adherence_protein_E_609392..609622_POSITIVE 242 66 21 145 98 aact:AA01423|5end_cell_division_protein_X,_ABC_system_permease_956668..956898_POSITIVE 231 90 43 115 68 aact:AA03013|5end_ribonuclease_P_protein_component_2104434..2104664_POSITIVE 230 82 45 150 110 aact:AA02037|5end_hypothetical_protein_1386832..1387062_POSITIVE 224 69 25 207 164 aact:AA00361|5end_50S_ribosomal_protein_L16_244423..244653_POSITIVE 218 68 39 82 54 aact:AA00194|5end_oxygen-independent_coproporphyrinogen_III_oxidase_135545..135775_POSITIVE 216 72 37 193 160 aact:AA02267|5end_conserved_hypothetical_protein_1545416..1545646_POSITIVE 216 70 26 193 132 aact:AA00575|5end_shikimate_5-dehydrogenase_393216..393446_POSITIVE 215 50 7 164 117 aact:AA02727|5end_hypothetical_protein_1909735..1909965_POSITIVE 215 52 13 90 50 aact:AA02338|5end_conserved_hypothetical_protein;_possible_integral_membrane_protein_1598083..1598313_POSITIVE 215 74 31 136 95 aact:AA00170|5end_hypothetical_protein_121238..121468_POSITIVE 213 51 16 38 2 aact:AA01666|5end_penicillin-binding_protein_4;_D-alanyl-D-alanine_carboxypeptidase;_D-alanyl-D-alanine-endopeptidase_1128231..1128461_POSITIVE 213 82 43 73 30 aact:AA00671|5end_virulence_plasmid_protein_460267..460497_POSITIVE 212 95 58 231 177 aact:AA02397|5end_RNA_polymerase_sigma_factor_sigma-70_1647095..1647325_POSITIVE 212 55 17 149 104 aact:AA01890|5end_cell-cycle_protein_1274544..1274774_POSITIVE 212 86 54 47 13 aact:AA01663|5end_GTP_cyclohydrolase_I_1127471..1127701_POSITIVE 209 92 51 206 163 aact:AA01982|5end_maltodextrin_phosphorylase_1339387..1339617_POSITIVE 204 95 60 190 152 aact:AA02827|5end_conserved_hypothetical_protein_1987021..1987251_POSITIVE 204 69 38 139 103 aact:AA01174|5end_hypothetical_protein_804700..804930_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 257 80 47 56 21 aact:AA00877|3end_tight_adherence_protein_D_609455..609605_POSITIVE 242 66 21 133 86 aact:AA01422|3end_cell_division_protein_E,_ABC_system_ATP-binding_protein_956736..956886_POSITIVE 230 82 45 143 103 aact:AA02035|3end_translation_initiation_factor_IF-3_1386905..1387055_POSITIVE 226 50 1 137 101 aact:AA00981|3end_carboxylesterase_686377..686527_POSITIVE 216 72 37 119 86 aact:AA02266|3end_exodeoxyribonuclease_V_beta_chain_1545422..1545572_POSITIVE 216 50 1 118 75 aact:AA00116|3end_conserved_hypothetical_protein_88207..88357_POSITIVE 215 50 7 71 24 aact:AA02726|3end_anaerobic_C4-dicarboxylate_transporter_1909722..1909872_POSITIVE 213 82 43 66 23 aact:AA00670|3end_hypothetical_protein_460340..460490_POSITIVE 212 55 17 115 70 aact:AA01889|3end_conserved_hypothetical_protein_(possible_permease)_1274590..1274740_POSITIVE 211 70 25 117 65 aact:AA00776|3end_conserved_hypothetical_protein_533869..534019_POSITIVE 209 92 51 93 50 aact:AA01981|3end_4-alpha-glucanotransferase_1339354..1339504_POSITIVE 208 96 59 85 41 aact:AA01793|3end_conserved_hypothetical_protein_1209861..1210011_POSITIVE 204 49 2 60 25 aact:AA02564|3end_transketolase_N-terminal_section_1786783..1786933_POSITIVE 203 70 26 69 22 aact:AA01215|3end_aspartate-semialdehyde_dehydrogenase_831713..831863_POSITIVE 203 95 56 136 90 aact:AA01168|3end_6-phosphogluconolactonase_802018..802168_POSITIVE 203 88 45 59 15 aact:AA00894|3end_selenium_transferase_(Cysteinyl-tRNA(Sec)_selenium_transferase)_621350..621500_POSITIVE 201 93 51 142 93 aact:AA01559|3end_RecA_regulatory_protein,_RecX_1046505..1046655_POSITIVE 201 120 85 122 87 aact:AA00884|3end_sodium-dependent_transporter_615971..616121_POSITIVE 199 44 1 92 32 aact:AA01879|3end_glutamyl-tRNA_reductase_1267098..1267248_POSITIVE 199 70 23 107 66 aact:AA01031|3end_Na(+)-translocating_NADH-quinone_reductase_subunit_C_721077..721227_POSITIVE