Origin IGS: tagtcaagatgagcttcatagaaaacgggacatctgaaaaataccggtgccgttaaagcggcactgaaaattcacatttaattcacaaaaaggaaaaatcgaaac .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 gtttcgatttttcctttttgtgaattaaatgtgaattttcagtgccgctttaacggcaccggtatttttcagatgtcccgttttctatgaagctcatcttgacta Mask Tandem Repeat Region ================================================ tagtcaagatgagcttcatagaaaacgggacatctgaaaaataccggtgccgttaaagcggcactgaaaattcacatttaattcacaaaaaggaaaaatcgaaac Find is-nt database================================================ Query_seq: AA00608:AA00609|AA00608:AA00609:protective surface antigen D-15, 85 -kilodalton outermembrane protein:outer membrane protein:->->:415710..415814 105 tagtcaagatgagcttcatagaaaacgggacatctgaaaaataccggtgccgttaaagcggcactgaaaattcacatttaattcacaaaaaggaaaaatcgaaac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA00608:AA00609|AA00608:AA00609:protective surface antigen D-15, 85 -kilodalton outermembrane protein:outer membrane protein:->->:415710..415814 105 tagtcaagatgagcttcatagaaaacgggacatctgaaaaataccggtgccgttaaagcggcactgaaaattcacatttaattcacaaaaaggaaaaatcgaaac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA00608:AA00609|AA00608:AA00609:protective surface antigen D-15, 85 -kilodalton outermembrane protein:outer membrane protein:->->:415710..415814 105 tagtcaagatgagcttcatagaaaacgggacatctgaaaaataccggtgccgttaaagcggcactgaaaattcacatttaattcacaaaaaggaaaaatcgaaac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tagtcaagatgagcttcatagaaaacgggacatctgaaaaataccggtgccgttaaagcggcactgaaaattcacatttaattcacaaaaaggaaaaatcgaaac Predict ORF larger than 30AA ================================================ tagtcaagatgagcttcatagaaaacgggacatctgaaaaataccggtgccgttaaagcggcactgaaaattcacatttaattcacaaaaaggaaaaatcgaaac 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================================================ tagtcaagatgagcttcatagaaaacgggacatctgaaaaataccggtgccgttaaagcggcactgaaaattcacatttaattcacaaaaaggaaaaatcgaaac Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: AA00608:AA00609|AA00608:AA00609:protective surface antigen D-15, 85 -kilodalton outermembrane protein:outer membrane protein:->->:415710..415814 105 tagtcaagatgagcttcatagaaaacgggacatctgaaaaataccggtgccgttaaagcggcactgaaaattcacatttaattcacaaaaaggaaaaatcgaaac Intra-Species Hit: Count: 1 Min: 1 Max: 105 Len: 105 Subject: aact_AA00608_AA00609|protective surface antigen D-15, 85 -kilodalton outermembrane protein:outer membrane protein|POSITIVE:POSITIVE|[415710,415814]|105 HSP 1 e-value: 3.0E-53 bit: 208.0 Len: 105 Query Start:1 Query End:105 Subject Strand: POSITIVE Subject Start: 1 Subject End: 105 tagtcaagatgagcttcatagaaaacgggacatctgaaaaataccggtgccgttaaagcggcactgaaaattcacatttaattcacaaaaaggaaaaatcgaaac tagtcaagatgagcttcatagaaaacgggacatctgaaaaataccggtgccgttaaagcggcactgaaaattcacatttaattcacaaaaaggaaaaatcgaaac Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGUCAAGAUGAGCUUCAUAGAAAACGGGACAUCUGAAAAAUACCGGUGCCGUUAAAGCGGCACUGAAAAUUCACAUUUAAUUCACAAAAAGGAAAAAUCGAAAC ...(((.((((..(((..........))).))))))).......(((((((((....)))))))))....................................... (-19.30) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GUUUCGAUUUUUCCUUUUUGUGAAUUAAAUGUGAAUUUUCAGUGCCGCUUUAACGGCACCGGUAUUUUUCAGAUGUCCCGUUUUCUAUGAAGCUCAUCUUGACUA ((((((....((((.....).)))....((.((((...((.((((((......)))))).)).....)))).)).............))))))............ (-18.80) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 320 61 26 69 39 aact:AA02265|5end_exodeoxyribonuclease_V,_alpha_chain_1539701..1539931_POSITIVE 317 67 30 39 6 aact:AA01508|5end_anaerobic_C4-dicarboxylate_transporter_1013198..1013428_POSITIVE 313 66 26 48 12 aact:AA01408|5end_conserved_hypothetical_protein_950191..950421_POSITIVE 311 63 26 213 167 aact:AA00636|5end_MrsA_protein_(phosphoglucomutase/phosphomannomutase)_436780..437010_POSITIVE 306 62 26 158 119 aact:AA01018|5end_conserved_hypothetical_protein_(possible_transcriptional_regulator)_711663..711893_POSITIVE 305 64 26 63 29 aact:AA02405|5end_conserved_hypothetical_protein_1652430..1652660_POSITIVE 304 68 26 52 17 aact:AA01637|5end_ribonucleoside_diphosphate_reductase_1106657..1106887_POSITIVE 301 75 31 43 5 aact:AA01611|5end_anthranilate_synthase_component_II_1088976..1089206_POSITIVE 300 65 25 46 6 aact:AA02466|5end_N-acetylneuraminate_lyase_1704963..1705193_POSITIVE 298 69 26 221 187 aact:AA01298|5end_competence_protein_D_880554..880784_POSITIVE 296 65 43 60 32 aact:AA00625|5end_hypothetical_protein_430565..430795_POSITIVE 294 63 24 200 160 aact:AA00492|5end_conserved_hypothetical_protein_343578..343808_POSITIVE 290 67 24 207 168 aact:AA01255|5end_hypothetical_protein_852656..852886_POSITIVE 285 52 15 164 134 aact:AA01396|5end_saccharide_biosynthesis_regulatory_protein_943760..943990_POSITIVE 283 79 33 84 18 aact:AA01517|5end_peptidyl-prolyl_cis-trans_isomerase;_macrophage_infectivity_protein_1020989..1021219_POSITIVE 283 62 26 57 11 aact:AA01241|5end_30S_ribosomal_protein_S4_845294..845524_POSITIVE 282 63 45 79 57 aact:AA02702|5end_succinyl-CoA_synthetase,_beta_chain_1884139..1884369_POSITIVE 279 60 26 64 31 aact:AA02933|5end_conserved_hypothetical_protein_(HesA/MoeB/ThiF_family_protein)_2053467..2053697_POSITIVE 278 62 26 118 69 aact:AA01429|5end_conserved_hypothetical_protein_959581..959811_POSITIVE 277 60 21 178 134 aact:AA02358|5end_homoserine_kinase_1617128..1617358_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 349 52 11 127 84 aact:AA02776|3end_conserved_hypothetical_protein_1940906..1941056_POSITIVE 333 80 33 137 94 aact:AA02411|3end_cysteine_synthetase_1657504..1657654_POSITIVE 320 61 26 53 23 aact:AA02263|3end_conserved_hypothetical_protein_1539765..1539915_POSITIVE 306 62 26 141 102 aact:AA01017|3end_conserved_hypothetical_protein_711726..711876_POSITIVE 306 66 45 46 25 aact:AA00608|3end_protective_surface_antigen_D-15,_85_-kilodalton_outermembrane_protein_415649..415799_POSITIVE 296 65 43 47 19 aact:AA00623|3end_hypothetical_protein_430632..430782_POSITIVE 286 66 24 127 90 aact:AA00426|3end_conserved_hypothetical_protein_288205..288355_POSITIVE 285 52 15 61 31 aact:AA01395|3end_conserved_hypothetical_protein_943737..943887_POSITIVE 282 63 45 65 43 aact:AA02700|3end_succinyl-CoA_synthase,_alpha_subunit_1884205..1884355_POSITIVE 279 60 26 61 28 aact:AA02932|3end_lytic_murein_transglycosylase_A_2053544..2053694_POSITIVE 278 62 26 82 33 aact:AA01428|3end_acetolactate_synthase_959625..959775_POSITIVE 275 65 26 89 40 aact:AA01543|3end_hypothetical_protein_1034350..1034500_POSITIVE 269 64 25 140 106 aact:AA02529|3end_cytidylate_kinase_1_1758467..1758617_POSITIVE 267 64 24 146 104 aact:AA01778|3end_aminopeptidase_A/I;_cytosol_aminopeptidase;_leucyl_aminopeptidase_1199965..1200115_POSITIVE 265 85 44 70 25 aact:AA02648|3end_lytic_transglycosylase_1845637..1845787_POSITIVE 264 66 41 28 3 aact:AA01407|3end_outer_membrane_antigenic_lipoprotein_b_precursor_950251..950401_POSITIVE 261 61 24 149 108 aact:AA02604|3end_thioredoxin_reductase_1816582..1816732_POSITIVE 261 59 18 59 20 aact:AA02389|3end_transcriptional_repressor_for_uxu_operon_1639360..1639510_POSITIVE 261 55 13 45 9 aact:AA01577|3end_conserved_hypothetical_transmembrane_protein_1064240..1064390_POSITIVE 261 66 26 54 4 aact:AA01291|3end_excinuclease_ABC_subunit_A_876001..876151_POSITIVE