Origin IGS: atatgaaaaaggtatttttattagccagtcttgcctttataatggcatcttgcggagaggataagaaggactatgacgcaacaggaacgttcgaagcaacggaagttaca .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tgtaacttccgttgcttcgaacgttcctgttgcgtcatagtccttcttatcctctccgcaagatgccattataaaggcaagactggctaataaaaatacctttttcatat Mask Tandem Repeat Region ================================================ atatgaaaaaggtatttttattagccagtcttgcctttataatggcatcttgcggagaggataagaaggactatgacgcaacaggaacgttcgaagcaacggaagttaca Find is-nt database================================================ Query_seq: PI0529:PI0530|PI0529:PI0530:hypothetical protein:possible membrane-fusion protein:->->:483802..483911 110 atatgaaaaaggtatttttattagccagtcttgcctttataatggcatcttgcggagaggataagaaggactatgacgcaacaggaacgttcgaagcaacggaagttaca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0529:PI0530|PI0529:PI0530:hypothetical protein:possible membrane-fusion protein:->->:483802..483911 110 atatgaaaaaggtatttttattagccagtcttgcctttataatggcatcttgcggagaggataagaaggactatgacgcaacaggaacgttcgaagcaacggaagttaca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0529:PI0530|PI0529:PI0530:hypothetical protein:possible membrane-fusion protein:->->:483802..483911 110 atatgaaaaaggtatttttattagccagtcttgcctttataatggcatcttgcggagaggataagaaggactatgacgcaacaggaacgttcgaagcaacggaagttaca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 atatgaaaaaggtatttttattagccagtcttgcctttataatggcatcttgcggagaggataagaaggactatgacgcaacaggaacgttcgaagcaacggaagttaca Predict ORF larger than 30AA ================================================ Protein_Len: 36 Strand: + Start: 3 End: 110 .. M K K V F L L A S L A F I M A S C G E D K K D Y D A T G T F E A T E V T atatgaaaaaggtatttttattagccagtcttgcctttataatggcatcttgcggagaggataagaaggactatgacgcaacaggaacgttcgaagcaacggaagttaca Predict Promoter with matrix: RpoD-15 score > 80================================================ Predict Promoter with matrix: RpoD-16 score > 80================================================ Predict Promoter with matrix: RpoD-17 score > 80================================================ PromScan Matrix: RpoD-17 Strand: + Score: 83 Start: 14 End: 43 .............ATTTTTATTAGCCAGTCTTGCCTTTATAAT................................................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ atatgaaaaaggtatttttattagccagtcttgcctttataatggcatcttgcggagaggataagaaggactatgacgcaacaggaacgttcgaagcaacggaagttaca Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI0529:PI0530|PI0529:PI0530:hypothetical protein:possible membrane-fusion protein:->->:483802..483911 110 atatgaaaaaggtatttttattagccagtcttgcctttataatggcatcttgcggagaggataagaaggactatgacgcaacaggaacgttcgaagcaacggaagttaca Intra-Species Hit: Count: 1 Min: 1 Max: 110 Len: 110 Subject: pint_PI0529_PI0530|hypothetical protein:possible membrane-fusion protein|POSITIVE:POSITIVE|[483802,483911]|110 HSP 1 e-value: 3.0E-56 bit: 218.0 Len: 110 Query Start:1 Query End:110 Subject Strand: POSITIVE Subject Start: 1 Subject End: 110 atatgaaaaaggtatttttattagccagtcttgcctttataatggcatcttgcggagaggataagaaggactatgacgcaacaggaacgttcgaagcaacggaagttaca atatgaaaaaggtatttttattagccagtcttgcctttataatggcatcttgcggagaggataagaaggactatgacgcaacaggaacgttcgaagcaacggaagttaca Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUAUGAAAAAGGUAUUUUUAUUAGCCAGUCUUGCCUUUAUAAUGGCAUCUUGCGGAGAGGAUAAGAAGGACUAUGACGCAACAGGAACGUUCGAAGCAACGGAAGUUACA ..........(((.((((((((.((.((...((((........)))).)).))......))))))))..)))....((.(((......)))))..(.(((....))).). (-20.00) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGUAACUUCCGUUGCUUCGAACGUUCCUGUUGCGUCAUAGUCCUUCUUAUCCUCUCCGCAAGAUGCCAUUAUAAAGGCAAGACUGGCUAAUAAAAAUACCUUUUUCAUAU .(((((...((((......)))).....)))))....(((((..((..........(....).((((........)))).))..)))))..................... (-17.70) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 332 99 51 83 28 pint:PI0644|5end_dnaJ_protein_585704..585934_POSITIVE 331 87 45 73 37 pint:PI0265|5end_conjugative_transposon_protein,_TraO_257296..257526_POSITIVE 328 98 51 63 10 pint:PI1581|5end_cell_shape-determining_protein_1508425..1508655_POSITIVE 324 80 31 97 32 pint:PI0782|5end_beta-lactamase_induction_signal_transducer,_AmpG_protein_720573..720803_POSITIVE 314 60 13 228 179 pint:PI1363|5end_hypothetical_protein_1281666..1281896_POSITIVE 311 109 62 205 154 pint:PI1667|5end_conserved_hypothetical_protein_1579763..1579993_POSITIVE 311 103 68 229 194 pint:PI0732|5end_conserved_hypothetical_protein_663598..663828_POSITIVE 310 90 45 170 122 pint:PI1487|5end_hypothetical_protein_1407624..1407854_POSITIVE 306 97 51 94 43 pint:PI0300|5end_transposase_285163..285393_POSITIVE 305 70 26 231 179 pint:PI2149|5end_3-oxoacyl-acyl-carrier-protein_synthase_2095454..2095684_POSITIVE 305 98 54 174 126 pint:PI0595|5end_conserved_hypothetical_protein_545571..545801_POSITIVE 305 61 23 209 169 pint:PI0476|5end_50S_ribosomal_protein_L18_440041..440271_POSITIVE 302 88 41 104 62 pint:PI0767|5end_possible_TonB-dependent_receptor_701915..702145_POSITIVE 300 63 23 200 155 pint:PI1204|5end_hypothetical_protein_1124430..1124660_POSITIVE 299 94 51 51 7 pint:PI1537|5end_predicted_TPR-repeat-containing_protein_1455764..1455994_POSITIVE 299 68 23 47 1 pint:PI0041|5end_hypothetical_protein_41785..42015_POSITIVE 298 88 47 142 95 pint:PI2078|5end_hypothetical_protein_2036053..2036283_POSITIVE 298 99 51 119 68 pint:PI0523|5end_hypothetical_protein_479468..479698_POSITIVE 296 90 42 67 21 pint:PI1801|5end_30S_ribosomal_protein_S9_1733949..1734179_POSITIVE 293 80 37 217 172 pint:PI0908|5end_conserved_hypothetical_protein_836870..837100_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 331 87 45 68 32 pint:PI0264|3end_transfer_region-related_protein,_TraN_257371..257521_POSITIVE 310 68 22 54 7 pint:PI0040|3end_conserved_hypothetical_protein_(possible_integral_membrane_protein)_41872..42022_POSITIVE 302 88 41 85 43 pint:PI0766|3end_conserved_hypothetical_protein_701976..702126_POSITIVE 300 63 23 129 84 pint:PI1203|3end_conserved_hypothetical_protein_1124439..1124589_POSITIVE 298 88 47 79 32 pint:PI2077|3end_hypothetical_protein_2036070..2036220_POSITIVE 291 90 45 78 43 pint:PI0268|3end_lysozyme-related_protein_259790..259940_POSITIVE 288 106 61 146 98 pint:PI2083|3end_hypothetical_protein_2040661..2040811_POSITIVE 287 96 51 138 100 pint:PI1230|3end_probable_metallo-beta-lactamase_family_protein_1152729..1152879_POSITIVE 286 85 45 108 56 pint:PI0199|3end_phosphate_acetyltransferase_190923..191073_POSITIVE 284 108 65 91 44 pint:PI0244|3end_possible_mobilization_protein_C_242799..242949_POSITIVE 280 101 68 131 97 pint:PI0075|3end_uridine_kinase_75390..75540_POSITIVE 278 88 41 131 81 pint:PI0542|3end_hypothetical_protein_495795..495945_POSITIVE 278 88 41 58 8 pint:PI0543|3end_adenylate_kinase_495722..495872_POSITIVE 278 98 51 146 99 pint:PI0308|3end_conserved_hypothetical_protein_291602..291752_POSITIVE 275 87 45 85 34 pint:PI0194|3end_2-amino-3-ketobutyrate_coenzyme_A_ligase_(glycine_C-acetyltransferase)_186957..187107_POSITIVE 274 69 24 118 67 pint:PI2025|3end_conserved_hypothetical_protein_1979452..1979602_POSITIVE 274 107 65 138 93 pint:PI0773|3end_D-3-phosphoglycerate_dehydrogenase_709492..709642_POSITIVE 274 99 52 58 12 pint:PI0518|3end_5'-nucleotidase_precursor_477959..478109_POSITIVE 273 99 54 96 42 pint:PI1855|3end_lipopolysaccharide_biosynthesis_protein_1803168..1803318_POSITIVE 273 98 51 82 25 pint:PI1206|3end_ATP-dependent_DNA_helicase,_UvrD/PcrA/Rep_family_1127132..1127282_POSITIVE