Origin IGS: ctggacattaccccgatgaccattctttttaacatttgaactgttacagaatatacagttttttattcataagctttcaaatgctgcaaaggtaataaataaaggacatttgagaggtttcagcctaccaaatgtccattacgccagaggaaacggtaggtttcgtaactggtagtcagtaaaagcgtgttccgttcatccgaatggtatgtatcaagcagagtaacggcttggggcagaagtttta .........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 taaaacttctgccccaagccgttactctgcttgatacataccattcggatgaacggaacacgcttttactgactaccagttacgaaacctaccgtttcctctggcgtaatggacatttggtaggctgaaacctctcaaatgtcctttatttattacctttgcagcatttgaaagcttatgaataaaaaactgtatattctgtaacagttcaaatgttaaaaagaatggtcatcggggtaatgtccag Mask Tandem Repeat Region ================================================ ctggacattaccccgatgaccattctttttaacatttgaactgttacagaatatacagttttttattcataagctttcaaatgctgcaaaggtaataaataaaggacatttgagaggtttcagcctaccaaatgtccattacgccagaggaaacggtaggtttcgtaactggtagtcagtaaaagcgtgttccgttcatccgaatggtatgtatcaagcagagtaacggcttggggcagaagtttta Find is-nt database================================================ Query_seq: PI1266:PI1267|PI1266:PI1267:hypothetical protein:probable integrase:->->:1185998..1186244 247 ctggacattaccccgatgaccattctttttaacatttgaactgttacagaatatacagttttttattcataagctttcaaatgctgcaaaggtaataaataaaggacatttgagaggtttcagcctaccaaatgtccattacgccagaggaaacggtaggtttcgtaactggtagtcagtaaaagcgtgttccgttcatccgaatggtatgtatcaagcagagtaacggcttggggcagaagtttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1266:PI1267|PI1266:PI1267:hypothetical protein:probable integrase:->->:1185998..1186244 247 ctggacattaccccgatgaccattctttttaacatttgaactgttacagaatatacagttttttattcataagctttcaaatgctgcaaaggtaataaataaaggacatttgagaggtttcagcctaccaaatgtccattacgccagaggaaacggtaggtttcgtaactggtagtcagtaaaagcgtgttccgttcatccgaatggtatgtatcaagcagagtaacggcttggggcagaagtttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1266:PI1267|PI1266:PI1267:hypothetical protein:probable integrase:->->:1185998..1186244 247 ctggacattaccccgatgaccattctttttaacatttgaactgttacagaatatacagttttttattcataagctttcaaatgctgcaaaggtaataaataaaggacatttgagaggtttcagcctaccaaatgtccattacgccagaggaaacggtaggtttcgtaactggtagtcagtaaaagcgtgttccgttcatccgaatggtatgtatcaagcagagtaacggcttggggcagaagtttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ctggacattaccccgatgaccattctttttaacatttgaactgttacagaatatacagttttttattcataagctttcaaatgctgcaaaggtaataaataaaggacatttgagaggtttcagcctaccaaatgtccattacgccagaggaaacggtaggtttcgtaactggtagtcagtaaaagcgtgttccgttcatccgaatggtatgtatcaagcagagtaacggcttggggcagaagtttta Predict ORF larger than 30AA ================================================ Protein_Len: 44 Strand: + Start: 41 End: 172 ........................................ M L Q N I Q F F I H K L S N A A K V I N K G H L R G F S L P N V H Y A R G N G R F R N W ........................................................................... Protein_Len: 39 Strand: - Start: 123 End: 239 .......................................................................................................................... G V L H G N R W L F R Y T E Y S T T L L L T N R E D S H Y T D L L T V A Q P M ........ ctggacattaccccgatgaccattctttttaacatttgaactgttacagaatatacagttttttattcataagctttcaaatgctgcaaaggtaataaataaaggacatttgagaggtttcagcctaccaaatgtccattacgccagaggaaacggtaggtttcgtaactggtagtcagtaaaagcgtgttccgttcatccgaatggtatgtatcaagcagagtaacggcttggggcagaagtttta 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================================================ ctggacattaccccgatgaccattctttttaacatttgaactgttacagaatatacagttttttattcataagctttcaaatgctgcaaaggtaataaataaaggacatttgagaggtttcagcctaccaaatgtccattacgccagaggaaacggtaggtttcgtaactggtagtcagtaaaagcgtgttccgttcatccgaatggtatgtatcaagcagagtaacggcttggggcagaagtttta Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 91 HP_score: -10.4 Tail_Score: -4.70117 Start: 104 End: 137 Full_Region: ttcctctggcgtaat ggacatttggtagg ctgaaa cctctcaaatgtcc tttatttattacctt .......................................................................................................ggacatttggtaggctgaaacctctcaaatgtcc.............................................................................................................. Find igs database================================================ Query_seq: PI1266:PI1267|PI1266:PI1267:hypothetical protein:probable integrase:->->:1185998..1186244 247 ctggacattaccccgatgaccattctttttaacatttgaactgttacagaatatacagttttttattcataagctttcaaatgctgcaaaggtaataaataaaggacatttgagaggtttcagcctaccaaatgtccattacgccagaggaaacggtaggtttcgtaactggtagtcagtaaaagcgtgttccgttcatccgaatggtatgtatcaagcagagtaacggcttggggcagaagtttta Intra-Species Hit: Count: 1 Min: 1 Max: 247 Len: 247 Subject: pint_PI1266_PI1267|hypothetical protein:probable integrase|POSITIVE:POSITIVE|[1185998,1186244]|247 HSP 1 e-value: 1.0E-137 bit: 490.0 Len: 247 Query Start:1 Query End:247 Subject Strand: POSITIVE Subject Start: 1 Subject End: 247 ctggacattaccccgatgaccattctttttaacatttgaactgttacagaatatacagttttttattcataagctttcaaatgctgcaaaggtaataaataaaggacatttgagaggtttcagcctaccaaatgtccattacgccagaggaaacggtaggtttcgtaactggtagtcagtaaaagcgtgttccgttcatccgaatggtatgtatcaagcagagtaacggcttggggcagaagtttta ctggacattaccccgatgaccattctttttaacatttgaactgttacagaatatacagttttttattcataagctttcaaatgctgcaaaggtaataaataaaggacatttgagaggtttcagcctaccaaatgtccattacgccagaggaaacggtaggtttcgtaactggtagtcagtaaaagcgtgttccgttcatccgaatggtatgtatcaagcagagtaacggcttggggcagaagtttta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CUGGACAUUACCCCGAUGACCAUUCUUUUUAACAUUUGAACUGUUACAGAAUAUACAGUUUUUUAUUCAUAAGCUUUCAAAUGCUGCAAAGGUAAUAAAUAAAGGACAUUUGAGAGGUUUCAGCCUACCAAAUGUCCAUUACGCCAGAGGAAACGGUAGGUUUCGUAACUGGUAGUCAGUAAAAGCGUGUUCCGUUCAUCCGAAUGGUAUGUAUCAAGCAGAGUAACGGCUUGGGGCAGAAGUUUUA ..((((.((.((((((.(.((...........((((((((..(((...(((((..........)))))...))).))))))))((((...((((.........(((((((((..((((....))))..))))))))).....((((..((((((((((.((((....((((.....))))..)))).))..)))))..)))...))))...))))..))))......)))))))))..)).)))).. (-65.90) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAACUUCUGCCCCAAGCCGUUACUCUGCUUGAUACAUACCAUUCGGAUGAACGGAACACGCUUUUACUGACUACCAGUUACGAAACCUACCGUUUCCUCUGGCGUAAUGGACAUUUGGUAGGCUGAAACCUCUCAAAUGUCCUUUAUUUAUUACCUUUGCAGCAUUUGAAAGCUUAUGAAUAAAAAACUGUAUAUUCUGUAACAGUUCAAAUGUUAAAAAGAAUGGUCAUCGGGGUAAUGUCCAG .........((((((...(((((..((((..((........))..))))..))))).............((((((((((....(((((.....)))))..)))).((((.(((((((((..(((......)))..))))))))).)))).......((((..((((((((((...(((((((((..........))))).))))...))))))))))..))))..))))))..))))))........ (-67.70) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 860 130 81 221 172 pint:PI1971|5end_possible_IS1249-related_transposase_1928027..1928257_POSITIVE 860 130 81 221 172 pint:PI1533|5end_conserved_hypothetical_protein;_possible_transposase_1452667..1452897_POSITIVE 860 130 81 221 172 pint:PI0534|5end_conserved_hypothetical_protein;_possible_transposase_488568..488798_POSITIVE 616 160 111 189 137 pint:PI0709|5end_possible_IS1249-related_transposase_646467..646697_POSITIVE 613 145 103 170 129 pint:PI1907|5end_possible_IS1249-related_transposase_1851105..1851335_POSITIVE 583 148 106 172 134 pint:PI1292|5end_conserved_hypothetical_protein_1206106..1206336_POSITIVE 583 148 106 172 134 pint:PI0153|5end_IS1249-related_transposase_145930..146160_POSITIVE 580 145 104 152 104 pint:PI1960|5end_hypothetical_protein_1918013..1918243_POSITIVE 580 145 106 170 134 pint:PI0840|5end_conserved_hypothetical_protein;_possible_transposase_774227..774457_POSITIVE 451 145 115 130 93 pint:PI1265|5end_hypothetical_protein_1185016..1185246_POSITIVE 384 143 104 169 130 pint:PI1025|5end_tRNA_modification_GTPase_940752..940982_POSITIVE 354 150 104 106 59 pint:PI2021|5end_DNA_repair_protein_1977925..1978155_POSITIVE 352 189 143 64 12 pint:PI0427|5end_conserved_hypothetical_protein_391140..391370_POSITIVE 344 176 134 63 10 pint:PI0537|5end_alanyl-tRNA_synthetase_(alanine--tRNA_ligase)_489756..489986_POSITIVE 338 158 112 134 82 pint:PI1560|5end_integrase_1476962..1477192_POSITIVE 337 240 192 83 35 pint:PI0782|5end_beta-lactamase_induction_signal_transducer,_AmpG_protein_720573..720803_POSITIVE 329 168 121 130 72 pint:PI0851|5end_hypothetical_protein_784310..784540_POSITIVE 322 200 154 79 33 pint:PI1923|5end_conserved_hypothetical_protein_1865560..1865790_POSITIVE 319 188 147 39 2 pint:PI1573|5end_transcription-repair_coupling_factor_1496429..1496659_POSITIVE 316 209 164 218 182 pint:PI0390|5end_conserved_hypothetical_protein_357316..357546_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 583 148 106 146 108 pint:PI0152|3end_DNA_mismatch_endonuclease_vsr_145984..146134_POSITIVE 580 145 106 73 37 pint:PI0839|3end_conserved_hypothetical_protein_774210..774360_POSITIVE 493 160 120 47 4 pint:PI1959|3end_hypothetical_protein_1917970..1918120_POSITIVE 451 145 115 108 71 pint:PI1264|3end_hypothetical_protein_1185074..1185224_POSITIVE 384 143 104 69 30 pint:PI1024|3end_conserved_hypothetical_protein;_possible_nitroreductase_family_protein_940732..940882_POSITIVE 338 158 112 64 12 pint:PI1559|3end_hypothetical_protein_1476972..1477122_POSITIVE 329 164 121 132 80 pint:PI0377|3end_DNA_primase/mobilizable_transposon,_excision_protein_347823..347973_POSITIVE 319 240 191 73 11 pint:PI0225|3end_conserved_hypothetical_protein_222759..222909_POSITIVE 307 189 148 50 5 pint:PI0426|3end_conserved_hypothetical_protein_391206..391356_POSITIVE 296 230 185 61 12 pint:PI0957|3end_conserved_hypothetical_protein_889987..890137_POSITIVE 296 179 133 63 5 pint:PI0363|3end_hypothetical_protein_333760..333910_POSITIVE 292 197 154 110 63 pint:PI1651|3end_hypothetical_protein_1564512..1564662_POSITIVE 290 170 123 91 41 pint:PI0684|3end_coproporphyrinogen_III_oxidase_620507..620657_POSITIVE 287 212 173 149 105 pint:PI2178|3end_1-hydroxy-2-methyl-2-(E)-butenyl_4-diphosphate_synthase,_GcpE_2119730..2119880_POSITIVE 287 156 111 52 11 pint:PI0739|3end_conserved_hypothetical_protein_672161..672311_POSITIVE 279 160 114 47 6 pint:PI0399|3end_conserved_hypothetical_protein_364090..364240_POSITIVE 276 165 121 141 98 pint:PI0094|3end_protoporphyrinogen_oxidase_90511..90661_POSITIVE 275 206 170 137 111 pint:PI1055|3end_aspartokinase_976302..976452_POSITIVE 274 216 184 115 76 pint:PI0356|3end_hypothetical_protein_327288..327438_POSITIVE 272 163 122 52 11 pint:PI0070|3end_conserved_hypothetical_protein_70108..70258_POSITIVE