Origin IGS: taataactaaatctaaatccaaacaatattaacaacaaacccatcagtagaattgaatacatactgatttaattccgccaacgggttcttaaaacatctgaattatgaaaaagagacttttactctgcacg .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 cgtgcagagtaaaagtctctttttcataattcagatgttttaagaacccgttggcggaattaaatcagtatgtattcaattctactgatgggtttgttgttaatattgtttggatttagatttagttatta Mask Tandem Repeat Region ================================================ taataactaaatctaaatccaaacaatattaacaacaaacccatcagtagaattgaatacatactgatttaattccgccaacgggttcttaaaacatctgaattatgaaaaagagacttttactctgcacg Find is-nt database================================================ Query_seq: PI0586:PI0587|PI0586:PI0587:hypothetical protein:conserved hypothetical protein:->->:534425..534555 131 taataactaaatctaaatccaaacaatattaacaacaaacccatcagtagaattgaatacatactgatttaattccgccaacgggttcttaaaacatctgaattatgaaaaagagacttttactctgcacg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0586:PI0587|PI0586:PI0587:hypothetical protein:conserved hypothetical protein:->->:534425..534555 131 taataactaaatctaaatccaaacaatattaacaacaaacccatcagtagaattgaatacatactgatttaattccgccaacgggttcttaaaacatctgaattatgaaaaagagacttttactctgcacg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0586:PI0587|PI0586:PI0587:hypothetical protein:conserved hypothetical protein:->->:534425..534555 131 taataactaaatctaaatccaaacaatattaacaacaaacccatcagtagaattgaatacatactgatttaattccgccaacgggttcttaaaacatctgaattatgaaaaagagacttttactctgcacg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taataactaaatctaaatccaaacaatattaacaacaaacccatcagtagaattgaatacatactgatttaattccgccaacgggttcttaaaacatctgaattatgaaaaagagacttttactctgcacg Predict ORF larger than 30AA ================================================ taataactaaatctaaatccaaacaatattaacaacaaacccatcagtagaattgaatacatactgatttaattccgccaacgggttcttaaaacatctgaattatgaaaaagagacttttactctgcacg 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================================================ taataactaaatctaaatccaaacaatattaacaacaaacccatcagtagaattgaatacatactgatttaattccgccaacgggttcttaaaacatctgaattatgaaaaagagacttttactctgcacg Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI0586:PI0587|PI0586:PI0587:hypothetical protein:conserved hypothetical protein:->->:534425..534555 131 taataactaaatctaaatccaaacaatattaacaacaaacccatcagtagaattgaatacatactgatttaattccgccaacgggttcttaaaacatctgaattatgaaaaagagacttttactctgcacg Intra-Species Hit: Count: 1 Min: 1 Max: 131 Len: 131 Subject: pint_PI0586_PI0587|hypothetical protein:conserved hypothetical protein|POSITIVE:POSITIVE|[534425,534555]|131 HSP 1 e-value: 1.0E-68 bit: 260.0 Len: 131 Query Start:1 Query End:131 Subject Strand: POSITIVE Subject Start: 1 Subject End: 131 taataactaaatctaaatccaaacaatattaacaacaaacccatcagtagaattgaatacatactgatttaattccgccaacgggttcttaaaacatctgaattatgaaaaagagacttttactctgcacg taataactaaatctaaatccaaacaatattaacaacaaacccatcagtagaattgaatacatactgatttaattccgccaacgggttcttaaaacatctgaattatgaaaaagagacttttactctgcacg Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUAACUAAAUCUAAAUCCAAACAAUAUUAACAACAAACCCAUCAGUAGAAUUGAAUACAUACUGAUUUAAUUCCGCCAACGGGUUCUUAAAACAUCUGAAUUAUGAAAAAGAGACUUUUACUCUGCACG .....................................(((((....(..(((((((((........)))))))))..)....)))))..................((....((((.......)))).)).. (-16.20) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CGUGCAGAGUAAAAGUCUCUUUUUCAUAAUUCAGAUGUUUUAAGAACCCGUUGGCGGAAUUAAAUCAGUAUGUAUUCAAUUCUACUGAUGGGUUUGUUGUUAAUAUUGUUUGGAUUUAGAUUUAGUUAUUA .....((((.......))))...((..((((((((((..((((((((((((..(..(((((.((((.....).))).)))))..)..))))))))....))))...))))))))))..))........... (-28.00) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 233 61 21 160 115 pint:PI0493|5end_surface_antigen_BspA_452844..453074_POSITIVE 232 80 34 151 102 pint:PI0198|5end_hypothetical_protein_190719..190949_POSITIVE 226 100 64 211 173 pint:PI0764|5end_permease_697962..698192_POSITIVE 224 87 53 84 48 pint:PI1706|5end_GTP-binding_protein_1622770..1623000_POSITIVE 223 100 52 222 169 pint:PI2102|5end_DNA_topoisomerase_IV,_subunit_B_2055706..2055936_POSITIVE 222 128 82 122 76 pint:PI2104|5end_carboxyl-terminal_protease_2057910..2058140_POSITIVE 222 88 76 199 187 pint:PI0776|5end_predicted_TPR-repeat-containing_protein_712077..712307_POSITIVE 220 100 60 55 22 pint:PI0614|5end_glucose-6-phosphate_isomerase_563170..563400_POSITIVE 218 80 32 120 69 pint:PI1834|5end_anaerobic_C4-dicarboxylate_membrane_transporter_1774861..1775091_POSITIVE 212 85 52 37 2 pint:PI1140|5end_ABC_transporter,_ATP-binding_protein_1067373..1067603_POSITIVE 208 116 76 229 181 pint:PI1571|5end_surface_antigen_BspA_1494765..1494995_POSITIVE 207 87 44 216 171 pint:PI1723|5end_conserved_hypothetical_protein_1641649..1641879_POSITIVE 205 119 75 68 21 pint:PI0547|5end_fructose-bisphosphate_aldolase_498376..498606_POSITIVE 204 55 11 201 153 pint:PI1678|5end_conserved_hypothetical_protein_1593884..1594114_POSITIVE 204 129 83 118 68 pint:PI0716|5end_conserved_hypothetical_protein_652136..652366_POSITIVE 203 100 75 142 116 pint:PI0907|5end_NAD-dependent_DNA_ligase_834887..835117_POSITIVE 203 97 62 54 14 pint:PI0530|5end_possible_membrane-fusion_protein_483772..484002_POSITIVE 201 86 57 37 6 pint:PI0604|5end_O-succinylbenzoic_acid--CoA_ligase_550825..551055_POSITIVE 200 85 41 201 157 pint:PI0058|5end_conserved_hypothetical_protein_56398..56628_POSITIVE 196 80 37 226 188 pint:PI0810|5end_hypothetical_protein_746743..746973_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 314 86 58 105 82 pint:PI0233|3end_membrane_protein,_possible_exporter_233771..233921_POSITIVE 250 89 41 89 41 pint:PI1021|3end_conserved_hypothetical_protein;_possible_methyltransferase_939634..939784_POSITIVE 243 128 82 63 7 pint:PI0297|3end_hypothetical_protein_277916..278066_POSITIVE 222 128 82 66 20 pint:PI2103|3end_hypothetical_protein_2057934..2058084_POSITIVE 220 100 60 44 11 pint:PI0613|3end_glycerol-3-phosphate_dehydrogenase_(NAD(P)+)_563239..563389_POSITIVE 204 117 75 81 46 pint:PI0583|3end_hypothetical_protein_526276..526426_POSITIVE 193 109 70 95 60 pint:PI0931|3end_hypothetical_protein_863073..863223_POSITIVE 189 99 72 53 28 pint:PI1223|3end_conserved_hypothetical_protein_1144459..1144609_POSITIVE 189 88 44 132 88 pint:PI0839|3end_conserved_hypothetical_protein_774210..774360_POSITIVE 188 100 62 141 84 pint:PI1265|3end_hypothetical_protein_1185512..1185662_POSITIVE 188 89 41 87 37 pint:PI0300|3end_transposase_285761..285911_POSITIVE 187 87 41 140 85 pint:PI1652|3end_hypothetical_protein_1565235..1565385_POSITIVE 187 129 83 115 67 pint:PI1443|3end_conserved_hypotehtical_protein;_possible_tonB-dependent_outer_membrane_receptor_1365344..1365494_POSITIVE 184 90 45 65 19 pint:PI0085|3end_RNase_P_protein_component_84960..85110_POSITIVE 182 85 47 71 34 pint:PI2028|3end_shikimate_kinase_1982802..1982952_POSITIVE 181 119 79 62 25 pint:PI0734|3end_ABC_transporter,_ATP-binding_/_permease_668760..668910_POSITIVE 180 86 58 35 5 pint:PI2157|3end_xanthosine_triphosphate_pyrophosphatase,_HAM1_family_2104457..2104607_POSITIVE 174 93 73 127 105 pint:PI1664|3end_conserved_hypothetical_protein_1578090..1578240_POSITIVE 174 128 82 96 59 pint:PI0624|3end_hypothetical_protein_574471..574621_POSITIVE 174 86 41 126 85 pint:PI0265|3end_conjugative_transposon_protein,_TraO_257957..258107_POSITIVE