Origin IGS: atccagccctaagtctttaatgtctttaggaaggctgtcttgaatttgttgtataacatgctctatttttttggatttagcatagatgcttcaatttttgtctgttta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taaacagacaaaaattgaagcatctatgctaaatccaaaaaaatagagcatgttatacaacaaattcaagacagccttcctaaagacattaaagacttagggctggat Mask Tandem Repeat Region ================================================ atccagccctaagtctttaatgtctttaggaaggctgtcttgaatttgttgtataacatgctctatttttttggatttagcatagatgcttcaatttttgtctgttta Find is-nt database================================================ Query_seq: AA01251:AA01252|AA01251:AA01252:hypothetical protein:conserved hypothetical protein (probable SirA homolog):->->:852055..852162 108 atccagccctaagtctttaatgtctttaggaaggctgtcttgaatttgttgtataacatgctctatttttttggatttagcatagatgcttcaatttttgtctgttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA01251:AA01252|AA01251:AA01252:hypothetical protein:conserved hypothetical protein (probable SirA homolog):->->:852055..852162 108 atccagccctaagtctttaatgtctttaggaaggctgtcttgaatttgttgtataacatgctctatttttttggatttagcatagatgcttcaatttttgtctgttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA01251:AA01252|AA01251:AA01252:hypothetical protein:conserved hypothetical protein (probable SirA homolog):->->:852055..852162 108 atccagccctaagtctttaatgtctttaggaaggctgtcttgaatttgttgtataacatgctctatttttttggatttagcatagatgcttcaatttttgtctgttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 atccagccctaagtctttaatgtctttaggaaggctgtcttgaatttgttgtataacatgctctatttttttggatttagcatagatgcttcaatttttgtctgttta Predict ORF larger than 30AA ================================================ atccagccctaagtctttaatgtctttaggaaggctgtcttgaatttgttgtataacatgctctatttttttggatttagcatagatgcttcaatttttgtctgttta 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================================================ atccagccctaagtctttaatgtctttaggaaggctgtcttgaatttgttgtataacatgctctatttttttggatttagcatagatgcttcaatttttgtctgttta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: AA01251:AA01252|AA01251:AA01252:hypothetical protein:conserved hypothetical protein (probable SirA homolog):->->:852055..852162 108 atccagccctaagtctttaatgtctttaggaaggctgtcttgaatttgttgtataacatgctctatttttttggatttagcatagatgcttcaatttttgtctgttta Intra-Species Hit: Count: 1 Min: 1 Max: 108 Len: 108 Subject: aact_AA01251_AA01252|hypothetical protein:conserved hypothetical protein (probable SirA homolog)|POSITIVE:POSITIVE|[852055,852162]|108 HSP 1 e-value: 1.0E-42 bit: 172.0 Len: 108 Query Start:1 Query End:108 Subject Strand: POSITIVE Subject Start: 1 Subject End: 108 atccagccctaagtctttaatgtctttaggaaggctgtcttgaatttgttgtataacatgctctannnnnnnggatttagcatagatgcttcaatttttgtctgttta atccagccctaagtctttaatgtctttaggaaggctgtcttgaatttgttgtataacatgctctatttttttggatttagcatagatgcttcaatttttgtctgttta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUCCAGCCCUAAGUCUUUAAUGUCUUUAGGAAGGCUGUCUUGAAUUUGUUGUAUAACAUGCUCUAUUUUUUUGGAUUUAGCAUAGAUGCUUCAAUUUUUGUCUGUUUA ...((((((((((.(......).).))))...)))))....(((.(((..((((...(((((..((((....))))..)))))..))))..))).))).......... (-18.90) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAACAGACAAAAAUUGAAGCAUCUAUGCUAAAUCCAAAAAAAUAGAGCAUGUUAUACAACAAAUUCAAGACAGCCUUCCUAAAGACAUUAAAGACUUAGGGCUGGAU ..............(((((((.(((((...............))))))).((((....))))..)))))..(((((((....(((.(......).))))))))))... (-16.16) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 284 38 3 33 1 aact:AA02056|5end_tetrahydrofolylpolyglutamate_synthase_(FPGS)_1399847..1400077_POSITIVE 279 75 33 190 139 aact:AA02659|5end_conserved_hypothetical_protein_1852527..1852757_POSITIVE 252 62 21 66 22 aact:AA02440|5end_ABC_transporter,_ATP-binding_protein_1685043..1685273_POSITIVE 246 60 13 164 113 aact:AA01347|5end_conserved_hypothetical_protein_913209..913439_POSITIVE 242 48 2 58 15 aact:AA00675|5end_glutaredoxin_2_462524..462754_POSITIVE 236 42 3 77 40 aact:AA01054|5end_conserved_hypothetical_protein_733678..733908_POSITIVE 231 40 3 104 76 aact:AA02609|5end_ABC_transporter,_ATP-binding_protein/permease_1818446..1818676_POSITIVE 225 54 13 204 164 aact:AA01085|5end_mutator_mutT_protein_(7,8-dihydro-8-oxoguanine-triphosphatase)_(8-oxo-dGTPase)_(dGTP_pyrophosphohydrolase)_750970..751200_POSITIVE 224 76 34 231 196 aact:AA01948|5end_ABC_transporter_permease,_membrane_spanning_protein_1317250..1317480_POSITIVE 224 42 6 80 38 aact:AA01063|5end_conserved_hypothetical_protein_736537..736767_POSITIVE 223 88 41 164 120 aact:AA02529|5end_cytidylate_kinase_1_1757713..1757943_POSITIVE 222 49 2 198 155 aact:AA01865|5end_thiamin_ABC_transporter,_periplasmic-binding_protein_1252228..1252458_POSITIVE 222 63 29 89 55 aact:AA01349|5end_NAD(P)H_nitroreductase/H-flavin_oxidoreductase_913619..913849_POSITIVE 220 100 70 191 153 aact:AA02692|5end_hydrogenase_4_subunit;_hydrogenase_3_subunit_1876324..1876554_POSITIVE 219 91 51 134 85 aact:AA00240|5end_hypothetical_protein_171390..171620_POSITIVE 216 33 3 199 164 aact:AA00936|5end_ribose_ABC_transporter,_permease_protein,_C-terminal_646289..646519_POSITIVE 215 52 29 188 158 aact:AA02956|5end_integrase-recombinase_2068484..2068714_POSITIVE 215 40 4 177 134 aact:AA02769|5end_hypothetical_protein_1935713..1935943_POSITIVE 215 47 2 202 156 aact:AA02045|5end_PTS_system,_galactitol-specific_IIB_component_1391956..1392186_POSITIVE 215 54 15 158 112 aact:AA00925|5end_hypothetical_protein_635364..635594_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 252 62 21 61 17 aact:AA02439|3end_integral_membrane_protein;_possible_ABC_transporter_permease_1685118..1685268_POSITIVE 246 60 13 136 85 aact:AA01345|3end_conserved_hypothetical_protein_(possible_membrane_protein)_913261..913411_POSITIVE 236 42 3 66 29 aact:AA01053|3end_conserved_hypothetical_protein_733747..733897_POSITIVE 231 40 3 29 1 aact:AA02606|3end_ABC_transporter,_ATP-binding_protein/permease_1818451..1818601_POSITIVE 228 31 2 51 16 aact:AA02419|3end_hypothetical_protein_1661954..1662104_POSITIVE 225 54 13 124 84 aact:AA01083|3end_preprotein_translocase_SecA_subunit_750970..751120_POSITIVE 223 88 41 63 19 aact:AA02528|3end_30S_ribosomal_protein_S1_1757692..1757842_POSITIVE 222 49 2 145 102 aact:AA01863|3end_hypothetical_protein_1252255..1252405_POSITIVE 222 63 29 89 55 aact:AA01348|3end_hypothetical_protein_913699..913849_POSITIVE 220 100 70 102 64 aact:AA02691|3end_hypothetical_protein_1876315..1876465_POSITIVE 219 91 51 82 33 aact:AA00239|3end_hypothetical_protein_171418..171568_POSITIVE 214 50 5 144 96 aact:AA02349|3end_dihydrodipicolinate_synthetase_1608361..1608511_POSITIVE 214 70 21 142 92 aact:AA01981|3end_4-alpha-glucanotransferase_1339354..1339504_POSITIVE 213 41 2 136 101 aact:AA01675|3end_probable_multidrug_resistance_protein;_multidrug-efflux_transporter_1133589..1133739_POSITIVE 208 49 3 149 95 aact:AA02169|3end_hypothetical_protein_1484664..1484814_POSITIVE 207 89 61 138 102 aact:AA01811|3end_electron_transport_complex_protein_1221033..1221183_POSITIVE 202 50 5 137 87 aact:AA00365|3end_30S_ribosomal_protein_S19_246266..246416_POSITIVE 200 39 6 44 5 aact:AA02460|3end_conserved_hypothetical_protein_1701075..1701225_POSITIVE 200 61 32 136 110 aact:AA02414|3end_hypothetical_protein_1658921..1659071_POSITIVE 200 48 4 52 16 aact:AA00111|3end_hypothetical_protein_79986..80136_POSITIVE