Origin IGS: acttgtctatgttttgatgcaaacataaacaagtattcatcaccatttatcactcagggaaatagcgagaagtatgaggaaaagaaaggaaatagggcgtt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aacgccctatttcctttcttttcctcatacttctcgctatttccctgagtgataaatggtgatgaatacttgtttatgtttgcatcaaaacatagacaagt Mask Tandem Repeat Region ================================================ acttgtctatgttttgatgcaaacataaacaagtattcatcaccatttatcactcagggaaatagcgagaagtatgaggaaaagaaaggaaatagggcgtt Find is-nt database================================================ Query_seq: PG0873:PG0874|PG0873:PG0874:mobilizable transposon, tnpC protein:mobilizable transposon, int protein:<-<-:936899..936999 101 acttgtctatgttttgatgcaaacataaacaagtattcatcaccatttatcactcagggaaatagcgagaagtatgaggaaaagaaaggaaatagggcgtt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG0873:PG0874|PG0873:PG0874:mobilizable transposon, tnpC protein:mobilizable transposon, int protein:<-<-:936899..936999 101 acttgtctatgttttgatgcaaacataaacaagtattcatcaccatttatcactcagggaaatagcgagaagtatgaggaaaagaaaggaaatagggcgtt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG0873:PG0874|PG0873:PG0874:mobilizable transposon, tnpC protein:mobilizable transposon, int protein:<-<-:936899..936999 101 acttgtctatgttttgatgcaaacataaacaagtattcatcaccatttatcactcagggaaatagcgagaagtatgaggaaaagaaaggaaatagggcgtt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 acttgtctatgttttgatgcaaacataaacaagtattcatcaccatttatcactcagggaaatagcgagaagtatgaggaaaagaaaggaaatagggcgtt Predict ORF larger than 30AA ================================================ acttgtctatgttttgatgcaaacataaacaagtattcatcaccatttatcactcagggaaatagcgagaagtatgaggaaaagaaaggaaatagggcgtt 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================================================ acttgtctatgttttgatgcaaacataaacaagtattcatcaccatttatcactcagggaaatagcgagaagtatgaggaaaagaaaggaaatagggcgtt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PG0873:PG0874|PG0873:PG0874:mobilizable transposon, tnpC protein:mobilizable transposon, int protein:<-<-:936899..936999 101 acttgtctatgttttgatgcaaacataaacaagtattcatcaccatttatcactcagggaaatagcgagaagtatgaggaaaagaaaggaaatagggcgtt Intra-Species Hit: Count: 1 Min: 1 Max: 101 Len: 101 Subject: NC_002950_PG0873_PG0874|mobilizable transposon, tnpC protein:mobilizable transposon, int protein|NEGATIVE:NEGATIVE|[936899,936999]|101 HSP 1 e-value: 6.0E-51 bit: 200.0 Len: 101 Query Start:1 Query End:101 Subject Strand: POSITIVE Subject Start: 1 Subject End: 101 acttgtctatgttttgatgcaaacataaacaagtattcatcaccatttatcactcagggaaatagcgagaagtatgaggaaaagaaaggaaatagggcgtt acttgtctatgttttgatgcaaacataaacaagtattcatcaccatttatcactcagggaaatagcgagaagtatgaggaaaagaaaggaaatagggcgtt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ ACUUGUCUAUGUUUUGAUGCAAACAUAAACAAGUAUUCAUCACCAUUUAUCACUCAGGGAAAUAGCGAGAAGUAUGAGGAAAAGAAAGGAAAUAGGGCGUU ((((((.(((((((......))))))).))))))........((.(((.((.((((..................))))))...))).))............ (-15.57) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AACGCCCUAUUUCCUUUCUUUUCCUCAUACUUCUCGCUAUUUCCCUGAGUGAUAAAUGGUGAUGAAUACUUGUUUAUGUUUGCAUCAAAACAUAGACAAGU ..............................((((((((((((..(.....)..))))))))).))).((((((((((((((......)))))))))))))) (-24.40) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 922 100 51 191 142 NC_002950:PG0873|5end_mobilizable_transposon,_tnpC_protein_936808..937038_NEGATIVE 329 98 52 78 41 NC_002950:PG0285|5end_hypothetical_protein_318459..318689_POSITIVE 313 97 56 75 35 NC_002950:PG0126|5end_type_I_phosphodiesterase/nucleotide_pyrophosphatase_family_protein_148018..148248_NEGATIVE 288 100 56 72 27 NC_002950:PG1584|5end_batC_protein_1661331..1661561_POSITIVE 273 90 50 229 181 NC_002950:PG0899|5end_cytochrome_d_ubiquinol_oxidase,_subunit_II_964660..964890_NEGATIVE 271 89 46 141 87 NC_002950:PG1857|5end_hypothetical_protein_1956373..1956603_NEGATIVE 254 99 55 184 147 NC_002950:PG1576|5end_L-aspartate_oxidase_1653016..1653246_POSITIVE 254 89 43 158 117 NC_002950:PG0355|5end_hypothetical_protein_389644..389874_POSITIVE 252 76 37 128 88 NC_002950:PG0199|5end_TatD_family_protein_238137..238367_NEGATIVE 250 98 53 178 134 NC_002950:PG0079|5end_abortive_infection_protein,_putative_93538..93768_NEGATIVE 249 99 51 74 26 NC_002950:PG1961|5end_hypothetical_protein_2051153..2051383_NEGATIVE 248 100 63 110 75 NC_002950:PG0736|5end_ribonuclease_HII_785608..785838_POSITIVE 246 100 55 97 62 NC_002950:PG1623|5end_membrane_bound_regulatory_protein,_putative_1705365..1705595_NEGATIVE 245 88 55 191 160 NC_002950:PG0085|5end_alpha-galactosidase_99172..99402_POSITIVE 244 83 41 81 29 NC_002950:PG0193|5end_cationic_outer_membrane_protein_OmpH_230149..230379_POSITIVE 240 75 39 119 83 NC_002950:PG2103|5end_hypothetical_protein_2213360..2213590_NEGATIVE 239 100 55 65 9 NC_002950:PG0740|5end_NLP/P60_family_protein_787836..788066_POSITIVE 237 99 54 70 22 NC_002950:PG1581|5end_hypothetical_protein_1658368..1658598_POSITIVE 237 79 33 204 153 NC_002950:PG0002|5end_hexapeptide_transferase_family_protein_1295..1525_POSITIVE 236 99 55 173 136 NC_002950:PG0026|5end_hypothetical_protein_29234..29464_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 288 100 56 75 30 NC_002950:PG1583|3end_batB_protein_1661414..1661564_POSITIVE 274 99 52 56 5 NC_002950:PG2077|3end_hypothetical_protein_2177005..2177155_NEGATIVE 272 98 52 81 28 NC_002950:PG0097|3end_hypothetical_protein_115056..115206_NEGATIVE 262 100 51 142 100 NC_002950:PG0515|3end_hypothetical_protein_556363..556513_NEGATIVE 261 99 51 99 36 NC_002950:PG0381|3end_cell_volume_regulation_protein_CvrA_411185..411335_NEGATIVE 252 76 37 144 104 NC_002950:PG0200|3end_hypothetical_protein_238121..238271_NEGATIVE 251 89 45 146 93 NC_002950:PG1378|3end_A/G-specific_adenine_glycosylase_1457715..1457865_NEGATIVE 250 98 53 147 103 NC_002950:PG0080|3end_hypothetical_protein_93569..93719_NEGATIVE 248 100 63 99 64 NC_002950:PG0735|3end_aminotransferase,_class_V_785677..785827_POSITIVE 245 100 54 75 14 NC_002950:PG0472|3end_iron-sulfur_cluster_binding_protein,_putative_514414..514564_POSITIVE 245 88 55 50 19 NC_002950:PG0084|3end_L-serine_dehydratase,_iron-sulfur-dependent,_single_chain_form_99111..99261_POSITIVE 241 99 56 102 63 NC_002950:PG2223|3end_glycosyl_transferase,_group_2_family_protein_2338761..2338911_POSITIVE 239 100 55 90 34 NC_002950:PG0739|3end_ribonuclease_Z_787941..788091_POSITIVE 237 99 54 73 25 NC_002950:PG1580|3end_hypothetical_protein_1658451..1658601_POSITIVE 236 83 53 46 13 NC_002950:PG0192|3end_cationic_outer_membrane_protein_OmpH_230194..230344_POSITIVE 236 99 55 55 18 NC_002950:PG0025|3end_fumarylacetoacetate_hydrolase_family_protein_29196..29346_POSITIVE 228 85 41 151 108 NC_002950:PG2150|3end_LysM_domain_protein_2257667..2257817_NEGATIVE 227 99 51 63 18 NC_002950:PG1009|3end_hypothetical_protein_1067641..1067791_NEGATIVE 226 99 53 54 7 NC_002950:PG1102|3end_hypothetical_protein_1170860..1171010_NEGATIVE 225 99 55 64 20 NC_002950:PG0955|3end_hypothetical_protein_1015865..1016015_POSITIVE