Origin IGS: taatactactttactacaaagagggataaggcattgaaagaaaaaaggttagaccgtagtaaataatgatataaggtattactacctcattactaccaaccgaccatatacatgtgcaatgattactacaaagatagttagtactacatgtttttctttcattgtcaatgacttacaagaatatcacattgtagtaagtaataaacttaaaagttacaagt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 acttgtaacttttaagtttattacttactacaatgtgatattcttgtaagtcattgacaatgaaagaaaaacatgtagtactaactatctttgtagtaatcattgcacatgtatatggtcggttggtagtaatgaggtagtaataccttatatcattatttactacggtctaaccttttttctttcaatgccttatccctctttgtagtaaagtagtatta Mask Tandem Repeat Region ================================================ taatactactttactacaaagagggataaggcattgaaagaaaaaaggttagaccgtagtaaataatgatataaggtattactacctcattactaccaaccgaccatatacatgtgcaatgattactacaaagatagttagtactacatgtttttctttcattgtcaatgacttacaagaatatcacattgtagtaagtaataaacttaaaagttacaagt Find is-nt database================================================ Query_seq: PI0502:PI0503|PI0502:PI0503:conserved hypothetical protein; possible helicase:mobilizable transposon, excision protein:->->:463150..463370 221 taatactactttactacaaagagggataaggcattgaaagaaaaaaggttagaccgtagtaaataatgatataaggtattactacctcattactaccaaccgaccatatacatgtgcaatgattactacaaagatagttagtactacatgtttttctttcattgtcaatgacttacaagaatatcacattgtagtaagtaataaacttaaaagttacaagt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0502:PI0503|PI0502:PI0503:conserved hypothetical protein; possible helicase:mobilizable transposon, excision protein:->->:463150..463370 221 taatactactttactacaaagagggataaggcattgaaagaaaaaaggttagaccgtagtaaataatgatataaggtattactacctcattactaccaaccgaccatatacatgtgcaatgattactacaaagatagttagtactacatgtttttctttcattgtcaatgacttacaagaatatcacattgtagtaagtaataaacttaaaagttacaagt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0502:PI0503|PI0502:PI0503:conserved hypothetical protein; possible helicase:mobilizable transposon, excision protein:->->:463150..463370 221 taatactactttactacaaagagggataaggcattgaaagaaaaaaggttagaccgtagtaaataatgatataaggtattactacctcattactaccaaccgaccatatacatgtgcaatgattactacaaagatagttagtactacatgtttttctttcattgtcaatgacttacaagaatatcacattgtagtaagtaataaacttaaaagttacaagt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taatactactttactacaaagagggataaggcattgaaagaaaaaaggttagaccgtagtaaataatgatataaggtattactacctcattactaccaaccgaccatatacatgtgcaatgattactacaaagatagttagtactacatgtttttctttcattgtcaatgacttacaagaatatcacattgtagtaagtaataaacttaaaagttacaagt Predict ORF larger than 30AA ================================================ Protein_Len: 50 Strand: + Start: 71 End: 220 ...................................................................... M R Y Y Y L I T T N R P Y T C A M I T T K I V S T T C F S F I V N D L Q E Y H I V V S N K L K S Y K . Protein_Len: 51 Strand: - Start: 17 End: 169 ................ L S P Y P M S L F F T L G Y Y I I I Y P I V V E N S G V S W I C T C H N S C L Y N T S C T K R E N D M .................................................... taatactactttactacaaagagggataaggcattgaaagaaaaaaggttagaccgtagtaaataatgatataaggtattactacctcattactaccaaccgaccatatacatgtgcaatgattactacaaagatagttagtactacatgtttttctttcattgtcaatgacttacaagaatatcacattgtagtaagtaataaacttaaaagttacaagt 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================================================ taatactactttactacaaagagggataaggcattgaaagaaaaaaggttagaccgtagtaaataatgatataaggtattactacctcattactaccaaccgaccatatacatgtgcaatgattactacaaagatagttagtactacatgtttttctttcattgtcaatgacttacaagaatatcacattgtagtaagtaataaacttaaaagttacaagt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI0502:PI0503|PI0502:PI0503:conserved hypothetical protein; possible helicase:mobilizable transposon, excision protein:->->:463150..463370 221 taatactactttactacaaagagggataaggcattgaaagaaaaaaggttagaccgtagtaaataatgatataaggtattactacctcattactaccaaccgaccatatacatgtgcaatgattactacaaagatagttagtactacatgtttttctttcattgtcaatgacttacaagaatatcacattgtagtaagtaataaacttaaaagttacaagt Intra-Species Hit: Count: 1 Min: 1 Max: 221 Len: 221 Subject: pint_PI0502_PI0503|conserved hypothetical protein; possible helicase:mobilizable transposon, excision protein|POSITIVE:POSITIVE|[463150,463370]|221 HSP 1 e-value: 1.0E-122 bit: 438.0 Len: 221 Query Start:1 Query End:221 Subject Strand: POSITIVE Subject Start: 1 Subject End: 221 taatactactttactacaaagagggataaggcattgaaagaaaaaaggttagaccgtagtaaataatgatataaggtattactacctcattactaccaaccgaccatatacatgtgcaatgattactacaaagatagttagtactacatgtttttctttcattgtcaatgacttacaagaatatcacattgtagtaagtaataaacttaaaagttacaagt taatactactttactacaaagagggataaggcattgaaagaaaaaaggttagaccgtagtaaataatgatataaggtattactacctcattactaccaaccgaccatatacatgtgcaatgattactacaaagatagttagtactacatgtttttctttcattgtcaatgacttacaagaatatcacattgtagtaagtaataaacttaaaagttacaagt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUACUACUUUACUACAAAGAGGGAUAAGGCAUUGAAAGAAAAAAGGUUAGACCGUAGUAAAUAAUGAUAUAAGGUAUUACUACCUCAUUACUACCAACCGACCAUAUACAUGUGCAAUGAUUACUACAAAGAUAGUUAGUACUACAUGUUUUUCUUUCAUUGUCAAUGACUUACAAGAAUAUCACAUUGUAGUAAGUAAUAAACUUAAAAGUUACAAGU ......(((((.(((((((.(...((((.((((.((((((((((..(((..(...((((((....((((.....((((....))))))))))))))...)..)))....(((((((...((((((((....)).))))))....))))))))))))))))).)))).....((....))..)))).).))))))))))))...((((....))))...... (-49.70) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ ACUUGUAACUUUUAAGUUUAUUACUUACUACAAUGUGAUAUUCUUGUAAGUCAUUGACAAUGAAAGAAAAACAUGUAGUACUAACUAUCUUUGUAGUAAUCAUUGCACAUGUAUAUGGUCGGUUGGUAGUAAUGAGGUAGUAAUACCUUAUAUCAUUAUUUACUACGGUCUAACCUUUUUUCUUUCAAUGCCUUAUCCCUCUUUGUAGUAAAGUAGUAUUA (((((.......))))).(((((((((((((((.(.((((.........(((...)))..((((((((((((((((.(((...(((((....)))))......)))))))))....(((..(.(.((((((((((((((....)))))))).........)))))).).)..)))..))))))))))......)))).)...))))))).))))))))... (-55.40) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 327 48 4 167 124 pint:PI0385|5end_hypothetical_protein_353968..354198_POSITIVE 291 50 4 176 131 pint:PI1559|5end_hypothetical_protein_1476506..1476736_POSITIVE 259 120 71 211 152 pint:PI2073|5end_mobilization_protein_2031995..2032225_POSITIVE 249 137 96 199 151 pint:PI2028|5end_shikimate_kinase_1982162..1982392_POSITIVE 249 55 16 97 50 pint:PI1680|5end_conserved_hypothetical_protein_1595038..1595268_POSITIVE 245 192 155 206 172 pint:PI1735|5end_conserved_hypothetical_protein_1653428..1653658_POSITIVE 241 173 137 221 186 pint:PI0256|5end_conjugative_transposon_protein,_TraE_249044..249274_POSITIVE 237 149 102 129 73 pint:PI1892|5end_UDP-N-acetylmuramoylalanine--D-glutamate_ligase_1834217..1834447_POSITIVE 235 117 84 77 49 pint:PI2017|5end_conserved_hypothetical_protein_1974862..1975092_POSITIVE 235 129 81 64 6 pint:PI0488|5end_conserved_hypothetical_protein_446906..447136_POSITIVE 234 68 21 47 1 pint:PI0344|5end_conserved_hypothetical_protein_318178..318408_POSITIVE 233 103 66 211 173 pint:PI0452|5end_conserved_hypothetical_protein;_possible_surface_antigen_425293..425523_POSITIVE 226 117 81 42 6 pint:PI0576|5end_helicase,_UvrD/Rep_520226..520456_POSITIVE 226 118 76 213 166 pint:PI0537|5end_alanyl-tRNA_synthetase_(alanine--tRNA_ligase)_489756..489986_POSITIVE 226 55 14 176 125 pint:PI0446|5end_DNA-directed_RNA_polymerase,_beta_subunit_413478..413708_POSITIVE 224 59 21 55 4 pint:PI0672|5end_conserved_hypothetical_protein_611746..611976_POSITIVE 223 58 22 91 44 pint:PI0386|5end_integrase_354369..354599_POSITIVE 217 209 161 198 158 pint:PI2121|5end_glucose_inhibited_division_protein_A_2069889..2070119_POSITIVE 217 209 161 53 13 pint:PI2122|5end_conserved_hypothetical_protein_2069744..2069974_POSITIVE 217 128 97 45 8 pint:PI0434|5end_possible_beta-lactamase_405692..405922_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 332 57 16 88 40 pint:PI1083|3end_TPR-repeat-containing_protein_1002588..1002738_POSITIVE 287 121 86 142 107 pint:PI0533|3end_ABC_transporter,_permease_protein_488421..488571_POSITIVE 252 59 11 72 19 pint:PI1373|3end_purine_nucleoside_phosphorylase_(PNP)_1294986..1295136_POSITIVE 249 137 96 87 39 pint:PI2027|3end_arginine_decarboxylase_1982130..1982280_POSITIVE 243 117 93 86 63 pint:PI1439|3end_hypothetical_protein_1360346..1360496_POSITIVE 241 173 137 70 35 pint:PI0253|3end_conjugative_transposon_protein,_TraD_248973..249123_POSITIVE 236 36 7 130 101 pint:PI0797|3end_tRNA_pseudouridine_synthase_A_(pseudouridylate_synthase)_735752..735902_POSITIVE 235 117 84 68 40 pint:PI2016|3end_ribosomal_large_subunit_pseudouridine_synthase_D_1974933..1975083_POSITIVE 234 59 14 145 95 pint:PI1146|3end_translation_initiation_factor_IF3_1073503..1073653_POSITIVE 232 60 23 135 93 pint:PI0855|3end_hypothetical_protein_789545..789695_POSITIVE 223 58 22 91 44 pint:PI0385|3end_hypothetical_protein_354449..354599_POSITIVE 220 69 22 131 84 pint:PI1086|3end_pyruvate:ferredoxin_oxidoreductase_1010245..1010395_POSITIVE 214 57 16 84 37 pint:PI0246|3end_conserved_hypothetical_protein_244599..244749_POSITIVE 209 118 73 142 98 pint:PI1882|3end_hypothetical_protein_1826487..1826637_POSITIVE 209 55 17 149 111 pint:PI1314|3end_hypothetical_protein_1231423..1231573_POSITIVE 208 144 110 46 11 pint:PI0877|3end_hypothetical_protein_812810..812960_POSITIVE 205 179 131 131 88 pint:PI0040|3end_conserved_hypothetical_protein_(possible_integral_membrane_protein)_41872..42022_POSITIVE 203 93 51 110 57 pint:PI0739|3end_conserved_hypothetical_protein_672161..672311_POSITIVE 203 112 76 122 95 pint:PI0069|3end_hypothetical_protein_67379..67529_POSITIVE 199 60 14 59 2 pint:PI1501|3end_GTP-binding_elongation_factor_family_protein_TypA/BipA_1423246..1423396_POSITIVE