Origin IGS: taaagaagaatataagataaggaacatattacaaacttcatatatggtacacgacctgcccttactgcttaaagccaaacaggacacatcgataattaccaatgacttgtaaaatatcacaacg .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 cgttgtgatattttacaagtcattggtaattatcgatgtgtcctgtttggctttaagcagtaagggcaggtcgtgtaccatatatgaagtttgtaatatgttccttatcttatattcttcttta Mask Tandem Repeat Region ================================================ taaagaagaatataagataaggaacatattacaaacttcatatatggtacacgacctgcccttactgcttaaagccaaacaggacacatcgataattaccaatgacttgtaaaatatcacaacg Find is-nt database================================================ Query_seq: PI1929:PI1930|PI1929:PI1930:conserved hypothetical protein; possible ankyrin repeat protein (eukaryotic-like):conserved hypothetical protein; possible ankyrin repeat protein (eukaryotic-like):->->:1874235..1874358 124 taaagaagaatataagataaggaacatattacaaacttcatatatggtacacgacctgcccttactgcttaaagccaaacaggacacatcgataattaccaatgacttgtaaaatatcacaacg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1929:PI1930|PI1929:PI1930:conserved hypothetical protein; possible ankyrin repeat protein (eukaryotic-like):conserved hypothetical protein; possible ankyrin repeat protein (eukaryotic-like):->->:1874235..1874358 124 taaagaagaatataagataaggaacatattacaaacttcatatatggtacacgacctgcccttactgcttaaagccaaacaggacacatcgataattaccaatgacttgtaaaatatcacaacg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1929:PI1930|PI1929:PI1930:conserved hypothetical protein; possible ankyrin repeat protein (eukaryotic-like):conserved hypothetical protein; possible ankyrin repeat protein (eukaryotic-like):->->:1874235..1874358 124 taaagaagaatataagataaggaacatattacaaacttcatatatggtacacgacctgcccttactgcttaaagccaaacaggacacatcgataattaccaatgacttgtaaaatatcacaacg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taaagaagaatataagataaggaacatattacaaacttcatatatggtacacgacctgcccttactgcttaaagccaaacaggacacatcgataattaccaatgacttgtaaaatatcacaacg Predict ORF larger than 30AA ================================================ Protein_Len: 31 Strand: + Start: 17 End: 109 ................ M R N I L Q T S Y M V H D L P L L L K A K Q D T S I I T N D L ............... Protein_Len: 40 Strand: - Start: 1 End: 120 L S S Y L I L F M N C V E Y I T C S R G K S S L A L C S V D I I V L S K Y F I M .... taaagaagaatataagataaggaacatattacaaacttcatatatggtacacgacctgcccttactgcttaaagccaaacaggacacatcgataattaccaatgacttgtaaaatatcacaacg 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================================================ taaagaagaatataagataaggaacatattacaaacttcatatatggtacacgacctgcccttactgcttaaagccaaacaggacacatcgataattaccaatgacttgtaaaatatcacaacg Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI1929:PI1930|PI1929:PI1930:conserved hypothetical protein; possible ankyrin repeat protein (eukaryotic-like):conserved hypothetical protein; possible ankyrin repeat protein (eukaryotic-like):->->:1874235..1874358 124 taaagaagaatataagataaggaacatattacaaacttcatatatggtacacgacctgcccttactgcttaaagccaaacaggacacatcgataattaccaatgacttgtaaaatatcacaacg Intra-Species Hit: Count: 1 Min: 1 Max: 124 Len: 124 Subject: pint_PI1929_PI1930|conserved hypothetical protein; possible ankyrin repeat protein (eukaryotic-like):conserved hypothetical protein; possible ankyrin repeat protein (eukaryotic-like)|POSITIVE:POSITIVE|[1874235, 1874358]|124 HSP 1 e-value: 1.0E-64 bit: 246.0 Len: 124 Query Start:1 Query End:124 Subject Strand: POSITIVE Subject Start: 1 Subject End: 124 taaagaagaatataagataaggaacatattacaaacttcatatatggtacacgacctgcccttactgcttaaagccaaacaggacacatcgataattaccaatgacttgtaaaatatcacaacg taaagaagaatataagataaggaacatattacaaacttcatatatggtacacgacctgcccttactgcttaaagccaaacaggacacatcgataattaccaatgacttgtaaaatatcacaacg Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAGAAGAAUAUAAGAUAAGGAACAUAUUACAAACUUCAUAUAUGGUACACGACCUGCCCUUACUGCUUAAAGCCAAACAGGACACAUCGAUAAUUACCAAUGACUUGUAAAAUAUCACAACG ............................((((((...((((...(((((..(((..((.(((....((.....)).....))).))..))).....))))))))).))))))............ (-15.40) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CGUUGUGAUAUUUUACAAGUCAUUGGUAAUUAUCGAUGUGUCCUGUUUGGCUUUAAGCAGUAAGGGCAGGUCGUGUACCAUAUAUGAAGUUUGUAAUAUGUUCCUUAUCUUAUAUUCUUCUUUA ..((((((....)))))).....(((((.....((((.((((((.....((.....))....)))))).))))..))))).....((((..(((((.(((.....))).)))))..)))).... (-33.40) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 294 92 51 106 61 pint:PI0553|5end_recombination_protein_503344..503574_POSITIVE 287 60 13 148 106 pint:PI0493|5end_surface_antigen_BspA_452844..453074_POSITIVE 279 92 55 78 32 pint:PI0942|5end_DNA-binding_protein_HU_874624..874854_POSITIVE 279 95 57 230 195 pint:PI0874|5end_conserved_hypothetical_protein_808978..809208_POSITIVE 273 75 31 148 99 pint:PI0489|5end_probable_cardiolipin_synthetase_447610..447840_POSITIVE 268 83 46 222 188 pint:PI2134|5end_hypothetical_protein_2082269..2082499_POSITIVE 264 90 46 176 134 pint:PI1460|5end_ribonucleotide_reductase,_alpha_subunit,_N-terminal_region_1382215..1382445_POSITIVE 262 83 42 204 147 pint:PI0093|5end_riboflavin_biosynthesis_protein_90489..90719_POSITIVE 261 88 45 199 165 pint:PI0603|5end_3-dehydroquinate_synthase_549718..549948_POSITIVE 260 86 45 77 35 pint:PI1834|5end_anaerobic_C4-dicarboxylate_membrane_transporter_1774861..1775091_POSITIVE 259 100 54 211 157 pint:PI1000|5end_conserved_hypothetical_protein_923332..923562_POSITIVE 258 86 43 121 80 pint:PI0123|5end_outer_membrane_protein,_ompH_family_113906..114136_POSITIVE 257 100 52 47 1 pint:PI1644|5end_hypothetical_protein_1560372..1560602_POSITIVE 256 91 52 179 144 pint:PI2121|5end_glucose_inhibited_division_protein_A_2069889..2070119_POSITIVE 253 100 57 209 165 pint:PI2169|5end_hypothetical_protein_2111706..2111936_POSITIVE 253 100 57 93 49 pint:PI2167|5end_hypothetical_protein_2111590..2111820_POSITIVE 253 88 44 74 28 pint:PI0207|5end_conserved_hypothetical_protein_199797..200027_POSITIVE 252 92 52 66 27 pint:PI1636|5end_hypothetical_protein_1554246..1554476_POSITIVE 247 84 46 51 17 pint:PI0719|5end_conserved_hypothetical_protein_653043..653273_POSITIVE 247 95 52 66 32 pint:PI0265|5end_conjugative_transposon_protein,_TraO_257296..257526_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 283 86 46 149 100 pint:PI0049|3end_outer_membrane_receptor_protein_(iron_transport)_51090..51240_POSITIVE 280 91 53 151 112 pint:PI1066|3end_dihydrofolate_reductase_983932..984082_POSITIVE 279 92 55 49 3 pint:PI0941|3end_hypothetical_protein_874675..874825_POSITIVE 279 95 57 128 93 pint:PI0873|3end_conserved_hypothetical_protein;_possible_permease_808956..809106_POSITIVE 262 83 42 146 89 pint:PI0094|3end_protoporphyrinogen_oxidase_90511..90661_POSITIVE 259 100 54 135 81 pint:PI0998|3end_possible_flavin_reductase_domain_protein_923336..923486_POSITIVE 255 88 50 32 1 pint:PI0602|3end_conserved_hypothetical_protein_549631..549781_POSITIVE 253 88 44 53 7 pint:PI0206|3end_TPR-repeat-containing_protein_199856..200006_POSITIVE 252 92 52 46 7 pint:PI1635|3end_hypothetical_protein_1554306..1554456_POSITIVE 247 84 46 48 14 pint:PI0717|3end_conserved_hypothetical_protein_653120..653270_POSITIVE 247 95 52 61 27 pint:PI0264|3end_transfer_region-related_protein,_TraN_257371..257521_POSITIVE 245 91 52 51 19 pint:PI1864|3end_chromate_transport_protein_1811009..1811159_POSITIVE 241 100 52 85 32 pint:PI1818|3end_hypothetical_protein_1757270..1757420_POSITIVE 240 88 43 78 15 pint:PI0272|3end_conserved_hypothetical_protein_262943..263093_POSITIVE 239 87 56 139 96 pint:PI0292|3end_ISPg-3_transposase_fragment_275904..276054_POSITIVE 232 91 52 42 1 pint:PI1735|3end_conserved_hypothetical_protein_1654323..1654473_POSITIVE 232 70 35 58 22 pint:PI0057|3end_conserved_hypothetical_protein_56512..56662_POSITIVE 231 82 52 56 27 pint:PI1363|3end_hypothetical_protein_1281922..1282072_POSITIVE 231 87 45 147 107 pint:PI0407|3end_tryptophanyl-tRNA_synthetase_(tryptophan--tRNA_ligase)_374147..374297_POSITIVE 229 90 42 71 21 pint:PI1636|3end_hypothetical_protein_1554823..1554973_POSITIVE