Origin IGS: tcttttgcaaaagtactctattgcaatagttgaaccaaatacttgactgcctttttacctgttttttagaacttattggctactttttaatgtttgtaaacgatattcattgtaaaatcttccctttacttgttgttttataggctatccaaatgtaagtcttttaaaatacttgtgtaatcttcttatatataataaggtgt .........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 acaccttattatatataagaagattacacaagtattttaaaagacttacatttggatagcctataaaacaacaagtaaagggaagattttacaatgaatatcgtttacaaacattaaaaagtagccaataagttctaaaaaacaggtaaaaaggcagtcaagtatttggttcaactattgcaatagagtacttttgcaaaaga Mask Tandem Repeat Region ================================================ tcttttgcaaaagtactctattgcaatagttgaaccaaatacttgactgcctttttacctgttttttagaacttattggctactttttaatgtttgtaaacgatattcattgtaaaatcttccctttacttgttgttttataggctatccaaatgtaagtcttttaaaatacttgtgtaatcttcttatatataataaggtgt Find is-nt database================================================ Query_seq: PI0295:PI0296|PI0295:PI0296:lysine decarboxylase:hypothetical protein:->->:277559..277761 203 tcttttgcaaaagtactctattgcaatagttgaaccaaatacttgactgcctttttacctgttttttagaacttattggctactttttaatgtttgtaaacgatattcattgtaaaatcttccctttacttgttgttttataggctatccaaatgtaagtcttttaaaatacttgtgtaatcttcttatatataataaggtgt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0295:PI0296|PI0295:PI0296:lysine decarboxylase:hypothetical protein:->->:277559..277761 203 tcttttgcaaaagtactctattgcaatagttgaaccaaatacttgactgcctttttacctgttttttagaacttattggctactttttaatgtttgtaaacgatattcattgtaaaatcttccctttacttgttgttttataggctatccaaatgtaagtcttttaaaatacttgtgtaatcttcttatatataataaggtgt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0295:PI0296|PI0295:PI0296:lysine decarboxylase:hypothetical protein:->->:277559..277761 203 tcttttgcaaaagtactctattgcaatagttgaaccaaatacttgactgcctttttacctgttttttagaacttattggctactttttaatgtttgtaaacgatattcattgtaaaatcttccctttacttgttgttttataggctatccaaatgtaagtcttttaaaatacttgtgtaatcttcttatatataataaggtgt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tcttttgcaaaagtactctattgcaatagttgaaccaaatacttgactgcctttttacctgttttttagaacttattggctactttttaatgtttgtaaacgatattcattgtaaaatcttccctttacttgttgttttataggctatccaaatgtaagtcttttaaaatacttgtgtaatcttcttatatataataaggtgt Predict ORF larger than 30AA ================================================ Protein_Len: 37 Strand: + Start: 30 End: 140 ............................. M N Q I L D C L F T C F L E L I G Y F L M F V N D I H C K I F P L L V V L ............................................................... tcttttgcaaaagtactctattgcaatagttgaaccaaatacttgactgcctttttacctgttttttagaacttattggctactttttaatgtttgtaaacgatattcattgtaaaatcttccctttacttgttgttttataggctatccaaatgtaagtcttttaaaatacttgtgtaatcttcttatatataataaggtgt 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================================================ tcttttgcaaaagtactctattgcaatagttgaaccaaatacttgactgcctttttacctgttttttagaacttattggctactttttaatgtttgtaaacgatattcattgtaaaatcttccctttacttgttgttttataggctatccaaatgtaagtcttttaaaatacttgtgtaatcttcttatatataataaggtgt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI0295:PI0296|PI0295:PI0296:lysine decarboxylase:hypothetical protein:->->:277559..277761 203 tcttttgcaaaagtactctattgcaatagttgaaccaaatacttgactgcctttttacctgttttttagaacttattggctactttttaatgtttgtaaacgatattcattgtaaaatcttccctttacttgttgttttataggctatccaaatgtaagtcttttaaaatacttgtgtaatcttcttatatataataaggtgt Intra-Species Hit: Count: 1 Min: 1 Max: 203 Len: 203 Subject: pint_PI0295_PI0296|lysine decarboxylase:hypothetical protein|POSITIVE:POSITIVE|[277559,277761]|203 HSP 1 e-value: 1.0E-111 bit: 402.0 Len: 203 Query Start:1 Query End:203 Subject Strand: POSITIVE Subject Start: 1 Subject End: 203 tcttttgcaaaagtactctattgcaatagttgaaccaaatacttgactgcctttttacctgttttttagaacttattggctactttttaatgtttgtaaacgatattcattgtaaaatcttccctttacttgttgttttataggctatccaaatgtaagtcttttaaaatacttgtgtaatcttcttatatataataaggtgt tcttttgcaaaagtactctattgcaatagttgaaccaaatacttgactgcctttttacctgttttttagaacttattggctactttttaatgtttgtaaacgatattcattgtaaaatcttccctttacttgttgttttataggctatccaaatgtaagtcttttaaaatacttgtgtaatcttcttatatataataaggtgt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UCUUUUGCAAAAGUACUCUAUUGCAAUAGUUGAACCAAAUACUUGACUGCCUUUUUACCUGUUUUUUAGAACUUAUUGGCUACUUUUUAAUGUUUGUAAACGAUAUUCAUUGUAAAAUCUUCCCUUUACUUGUUGUUUUAUAGGCUAUCCAAAUGUAAGUCUUUUAAAAUACUUGUGUAAUCUUCUUAUAUAUAAUAAGGUGU ....((((((.((....)).))))))((((..(.........)..))))......(((((((.((((((((((((((((.((.........((((((((((((((......(((((........))))).))))).))))))))))).)))...))))))..))))))).)).(((((((.....))))))).....))))). (-30.40) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ ACACCUUAUUAUAUAUAAGAAGAUUACACAAGUAUUUUAAAAGACUUACAUUUGGAUAGCCUAUAAAACAACAAGUAAAGGGAAGAUUUUACAAUGAAUAUCGUUUACAAACAUUAAAAAGUAGCCAAUAAGUUCUAAAAAACAGGUAAAAAGGCAGUCAAGUAUUUGGUUCAACUAUUGCAAUAGAGUACUUUUGCAAAAGA ....(((((.....)))))..((..((.(((((((((.................(((.((((............(((((.((...((((......)))).)).)))))...............(((..................)))....)))).))))))))))))))))..((.((((((.((....)).)))))).)). (-28.39) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 276 144 106 49 1 pint:PI1353|5end_conserved_hypothetical_protein_1269710..1269940_POSITIVE 258 80 31 54 14 pint:PI1503|5end_30S_ribosomal_protein_S15_1423428..1423658_POSITIVE 256 165 123 231 190 pint:PI1621|5end_hypothetical_protein_1545424..1545654_POSITIVE 252 60 13 172 121 pint:PI0798|5end_malonyl_CoA-acyl_carrier_protein_transacylase_736011..736241_POSITIVE 245 162 122 186 138 pint:PI2037|5end_TIM-barrel_protein,_NifR3_family_1989372..1989602_POSITIVE 245 162 122 53 5 pint:PI2036|5end_hypothetical_protein_1989239..1989469_POSITIVE 245 50 2 155 100 pint:PI1604|5end_hypothetical_protein_1534017..1534247_POSITIVE 232 150 117 36 2 pint:PI1659|5end_hypothetical_protein_1574725..1574955_POSITIVE 230 154 117 39 5 pint:PI1025|5end_tRNA_modification_GTPase_940752..940982_POSITIVE 227 50 1 209 152 pint:PI0462|5end_50S_ribosomal_protein_L23_433707..433937_POSITIVE 225 50 9 115 70 pint:PI0436|5end_integrase/recombinase_407263..407493_POSITIVE 224 61 23 70 27 pint:PI0751|5end_conserved_hypothetical_protein_680623..680853_POSITIVE 218 67 22 156 109 pint:PI1619|5end_two-component_system_response_regulator_1543210..1543440_POSITIVE 218 53 16 88 56 pint:PI1605|5end_conserved_hypothetical_protein_1534244..1534474_POSITIVE 218 162 122 99 53 pint:PI1485|5end_hypothetical_protein_1405170..1405400_POSITIVE 216 145 101 190 155 pint:PI0396|5end_possible_tetracycline_resistance_element_mobilization_regulatory_protein,_C-terminal_fragment_361993..362223_POSITIVE 215 67 21 57 13 pint:PI1081|5end_probable_endonuclease/resolvase_1000806..1001036_POSITIVE 212 85 41 187 143 pint:PI0543|5end_adenylate_kinase_495073..495303_POSITIVE 210 37 1 113 75 pint:PI1971|5end_possible_IS1249-related_transposase_1928027..1928257_POSITIVE 210 37 1 113 75 pint:PI1533|5end_conserved_hypothetical_protein;_possible_transposase_1452667..1452897_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 270 144 105 46 1 pint:PI1352|3end_conserved_hypothetical_protein_1269787..1269937_POSITIVE 245 162 122 57 9 pint:PI2035|3end_Holliday_junction_DNA_helicase_ruvB_1989323..1989473_POSITIVE 245 50 2 63 8 pint:PI1603|3end_hypothetical_protein_1534005..1534155_POSITIVE 244 68 24 90 49 pint:PI2010|3end_ABC_transporter,_permease_component_1970242..1970392_POSITIVE 228 119 79 125 82 pint:PI0162|3end_ADP-ribosylglycohydrolase_(ADP-ribosyl-[dinitrogen_reductase]_hydrolase)_157001..157151_POSITIVE 219 80 35 117 64 pint:PI0962|3end_phosphoglycerate_mutase_892702..892852_POSITIVE 218 162 122 72 26 pint:PI1484|3end_conserved_hypothetical_protein_1405223..1405373_POSITIVE 215 67 21 54 10 pint:PI1080|3end_conserved_hypothetical_protein;_possible_outer_membrane_lipoprotein_1000883..1001033_POSITIVE 214 46 1 66 16 pint:PI0888|3end_hypothetical_protein_818613..818763_POSITIVE 212 39 2 76 39 pint:PI0934|3end_hypothetical_protein_866132..866282_POSITIVE 211 80 41 106 71 pint:PI0901|3end_hypothetical_protein_832207..832357_POSITIVE 210 85 42 73 26 pint:PI1636|3end_hypothetical_protein_1554823..1554973_POSITIVE 210 60 13 144 81 pint:PI0300|3end_transposase_285761..285911_POSITIVE 208 62 23 123 76 pint:PI0983|3end_hypothetical_protein_909991..910141_POSITIVE 207 83 47 102 65 pint:PI2025|3end_conserved_hypothetical_protein_1979452..1979602_POSITIVE 207 59 11 133 74 pint:PI0203|3end_conserved_hypothetical_protein_196064..196214_POSITIVE 204 55 13 52 2 pint:PI0337|3end_hypothetical_protein_315402..315552_POSITIVE 201 150 106 101 54 pint:PI0995|3end_hypothetical_protein_920823..920973_POSITIVE 198 78 44 138 108 pint:PI0900|3end_signal_recognition_particle_protein_831092..831242_POSITIVE 198 189 142 68 13 pint:PI0815|3end_hypothetical_protein_754677..754827_POSITIVE