Origin IGS: tgcgaaatcctgcatagattttaataattagaaaaacttaccatagtttagcttactttcagaaaaaatgacaattaataatctatctactgaaaagaaataataaattccgcgaaaaatgaccgcactttttctgtctaagcaagataaattcgtactaaaaacgaaaaatacagtataaaatacgcgcttctttaatatttaggtaacttgattc .........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 gaatcaagttacctaaatattaaagaagcgcgtattttatactgtatttttcgtttttagtacgaatttatcttgcttagacagaaaaagtgcggtcatttttcgcggaatttattatttcttttcagtagatagattattaattgtcattttttctgaaagtaagctaaactatggtaagtttttctaattattaaaatctatgcaggatttcgca Mask Tandem Repeat Region ================================================ tgcgaaatcctgcatagattttaataattagaaaaacttaccatagtttagcttactttcagaaaaaatgacaattaataatctatctactgaaaagaaataataaattccgcgaaaaatgaccgcactttttctgtctaagcaagataaattcgtactaaaaacgaaaaatacagtataaaatacgcgcttctttaatatttaggtaacttgattc Find is-nt database================================================ Query_seq: AA02713:AA02714|AA02713:AA02714:possible prop effector homolog:paraquat-inducible protein PqiA homolog:->->:1895730..1895946 217 tgcgaaatcctgcatagattttaataattagaaaaacttaccatagtttagcttactttcagaaaaaatgacaattaataatctatctactgaaaagaaataataaattccgcgaaaaatgaccgcactttttctgtctaagcaagataaattcgtactaaaaacgaaaaatacagtataaaatacgcgcttctttaatatttaggtaacttgattc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA02713:AA02714|AA02713:AA02714:possible prop effector homolog:paraquat-inducible protein PqiA homolog:->->:1895730..1895946 217 tgcgaaatcctgcatagattttaataattagaaaaacttaccatagtttagcttactttcagaaaaaatgacaattaataatctatctactgaaaagaaataataaattccgcgaaaaatgaccgcactttttctgtctaagcaagataaattcgtactaaaaacgaaaaatacagtataaaatacgcgcttctttaatatttaggtaacttgattc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA02713:AA02714|AA02713:AA02714:possible prop effector homolog:paraquat-inducible protein PqiA homolog:->->:1895730..1895946 217 tgcgaaatcctgcatagattttaataattagaaaaacttaccatagtttagcttactttcagaaaaaatgacaattaataatctatctactgaaaagaaataataaattccgcgaaaaatgaccgcactttttctgtctaagcaagataaattcgtactaaaaacgaaaaatacagtataaaatacgcgcttctttaatatttaggtaacttgattc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tgcgaaatcctgcatagattttaataattagaaaaacttaccatagtttagcttactttcagaaaaaatgacaattaataatctatctactgaaaagaaataataaattccgcgaaaaatgaccgcactttttctgtctaagcaagataaattcgtactaaaaacgaaaaatacagtataaaatacgcgcttctttaatatttaggtaacttgattc Predict ORF larger than 30AA ================================================ Protein_Len: 57 Strand: - Start: 31 End: 201 .............................. F F K G Y N L K S E S F I V I L L R D V S F F Y Y I G R F I V A S K R D L C S L N T S F V F F V T Y F V R K K L M ................ tgcgaaatcctgcatagattttaataattagaaaaacttaccatagtttagcttactttcagaaaaaatgacaattaataatctatctactgaaaagaaataataaattccgcgaaaaatgaccgcactttttctgtctaagcaagataaattcgtactaaaaacgaaaaatacagtataaaatacgcgcttctttaatatttaggtaacttgattc 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================================================ tgcgaaatcctgcatagattttaataattagaaaaacttaccatagtttagcttactttcagaaaaaatgacaattaataatctatctactgaaaagaaataataaattccgcgaaaaatgaccgcactttttctgtctaagcaagataaattcgtactaaaaacgaaaaatacagtataaaatacgcgcttctttaatatttaggtaacttgattc Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: AA02713:AA02714|AA02713:AA02714:possible prop effector homolog:paraquat-inducible protein PqiA homolog:->->:1895730..1895946 217 tgcgaaatcctgcatagattttaataattagaaaaacttaccatagtttagcttactttcagaaaaaatgacaattaataatctatctactgaaaagaaataataaattccgcgaaaaatgaccgcactttttctgtctaagcaagataaattcgtactaaaaacgaaaaatacagtataaaatacgcgcttctttaatatttaggtaacttgattc Intra-Species Hit: Count: 1 Min: 1 Max: 217 Len: 217 Subject: aact_AA02713_AA02714|possible prop effector homolog:paraquat-inducible protein PqiA homolog|POSITIVE:POSITIVE|[1895730,1895946]|217 HSP 1 e-value: 1.0E-120 bit: 430.0 Len: 217 Query Start:1 Query End:217 Subject Strand: POSITIVE Subject Start: 1 Subject End: 217 tgcgaaatcctgcatagattttaataattagaaaaacttaccatagtttagcttactttcagaaaaaatgacaattaataatctatctactgaaaagaaataataaattccgcgaaaaatgaccgcactttttctgtctaagcaagataaattcgtactaaaaacgaaaaatacagtataaaatacgcgcttctttaatatttaggtaacttgattc tgcgaaatcctgcatagattttaataattagaaaaacttaccatagtttagcttactttcagaaaaaatgacaattaataatctatctactgaaaagaaataataaattccgcgaaaaatgaccgcactttttctgtctaagcaagataaattcgtactaaaaacgaaaaatacagtataaaatacgcgcttctttaatatttaggtaacttgattc Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGCGAAAUCCUGCAUAGAUUUUAAUAAUUAGAAAAACUUACCAUAGUUUAGCUUACUUUCAGAAAAAAUGACAAUUAAUAAUCUAUCUACUGAAAAGAAAUAAUAAAUUCCGCGAAAAAUGACCGCACUUUUUCUGUCUAAGCAAGAUAAAUUCGUACUAAAAACGAAAAAUACAGUAUAAAAUACGCGCUUCUUUAAUAUUUAGGUAACUUGAUUC .(((..(((.(((.((((...........((..(((((......)))))..))......((((((((......................((....))..............(((.........)))..)))))))))))).))).)))...(((((.......))))).................)))............................. (-28.90) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GAAUCAAGUUACCUAAAUAUUAAAGAAGCGCGUAUUUUAUACUGUAUUUUUCGUUUUUAGUACGAAUUUAUCUUGCUUAGACAGAAAAAGUGCGGUCAUUUUUCGCGGAAUUUAUUAUUUCUUUUCAGUAGAUAGAUUAUUAAUUGUCAUUUUUUCUGAAAGUAAGCUAAACUAUGGUAAGUUUUUCUAAUUAUUAAAAUCUAUGCAGGAUUUCGCA (((..((.(((((.(((((.((((....((((........((((((((((((((((..((((.((.....)).)))).)))).).))))))))))).......))))...)))).))))).(((((((.((((.(((........)))))))...))))))).............))))).)).))).........((((((.....)))))).... (-38.76) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 352 159 112 88 31 aact:AA01204|5end_hypothetical_protein_825015..825245_POSITIVE 351 160 111 173 122 aact:AA01008|5end_mazG_beta-lactamase_regulatory_protein_homolog_703470..703700_POSITIVE 338 148 111 212 171 aact:AA02367|5end_conserved_hypothetical_protein_1623174..1623404_POSITIVE 338 148 111 58 17 aact:AA02366|5end_hypothetical_protein_1623020..1623250_POSITIVE 335 131 104 131 102 aact:AA02369|5end_conserved_hypothetical_protein_1624248..1624478_POSITIVE 333 150 110 137 101 aact:AA01603|5end_oligopeptidase_A_1082898..1083128_POSITIVE 326 148 111 135 101 aact:AA02937|5end_conserved_hypothetical_protein_2056379..2056609_POSITIVE 320 158 113 156 103 aact:AA00988|5end_conserved_hypothetical_protein_690898..691128_POSITIVE 317 152 111 185 152 aact:AA00117|5end_hypothetical_protein_88246..88476_POSITIVE 313 166 121 115 66 aact:AA02569|5end_hypothetical_protein_1789012..1789242_POSITIVE 313 145 109 139 101 aact:AA00792|5end_conserved_hypothetical_protein_543142..543372_POSITIVE 312 130 90 128 91 aact:AA00511|5end_nicotinamide_mononucleotide_transporter_353884..354114_POSITIVE 311 142 104 135 92 aact:AA01181|5end_conserved_hypothetical_protein_808774..809004_POSITIVE 307 134 111 136 111 aact:AA02963|5end_opacity_associated_protein_B_2072302..2072532_POSITIVE 306 135 103 67 35 aact:AA00349|5end_hypothetical_protein_233274..233504_POSITIVE 303 150 111 176 135 aact:AA02673|5end_gluconate_utilization_operon_repressor_1858913..1859143_POSITIVE 303 158 114 141 94 aact:AA00674|5end_nicotinate-nucleotide-dimethylbenzimidazole_phosphoribosyltransferase_461810..462040_POSITIVE 303 133 96 180 143 aact:AA00190|5end_triosephosphate_isomerase_134088..134318_POSITIVE 298 146 109 224 180 aact:AA02754|5end_conserved_hypothetical_protein_1928949..1929179_POSITIVE 298 148 109 171 130 aact:AA02691|5end_hypothetical_protein_1876137..1876367_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 351 160 111 69 18 aact:AA01006|3end_conserved_hypothetical_protein_(possible_cytosine_deaminas)_703446..703596_POSITIVE 335 131 104 89 60 aact:AA02368|3end_conserved_hypothetical_protein_1624286..1624436_POSITIVE 326 148 111 49 15 aact:AA02936|3end_lipoprotein_E_precursor;_outer_membrane_protein_P4_precursor;_acid_phosphatase_2056373..2056523_POSITIVE 319 155 112 113 67 aact:AA02280|3end_conserved_hypothetical_protein_1552767..1552917_POSITIVE 317 152 111 66 33 aact:AA00116|3end_conserved_hypothetical_protein_88207..88357_POSITIVE 316 139 105 82 48 aact:AA01351|3end_probable_sulfatase_916393..916543_POSITIVE 313 145 109 51 13 aact:AA00790|3end_recombination_DNA_repair_protein_543134..543284_POSITIVE 312 130 90 47 10 aact:AA00508|3end_SAM-dependent_methyltransferase_353883..354033_POSITIVE 311 142 104 82 39 aact:AA01179|3end_beta-ketoacyl-ACP_reductase;_short-chain_alcohol_dehydrogenase_808801..808951_POSITIVE 307 134 111 39 14 aact:AA02962|3end_recombination_associated_protein_2072285..2072435_POSITIVE 306 135 103 49 17 aact:AA00348|3end_50S_ribosomal_protein_L1_233336..233486_POSITIVE 303 150 111 100 59 aact:AA02671|3end_gluconokinase_1858917..1859067_POSITIVE 303 133 96 65 28 aact:AA00189|3end_dihydroxynaphthoic_acid_synthase_(naphthoate_synthas)_134053..134203_POSITIVE 301 144 103 127 90 aact:AA02184|3end_anthranilate_isomerase;_indole-3-glycerol_phosphate_synthase;_phosphoribosylanthranilate_isomerase_1492541..1492691_POSITIVE 300 136 95 108 71 aact:AA02307|3end_5'-guanylate_kinase_1578058..1578208_POSITIVE 298 146 109 63 19 aact:AA02751|3end_L-lactate_permease_1928868..1929018_POSITIVE 298 155 121 37 4 aact:AA00757|3end_aerobic_respiration_sensor-response_protein_520539..520689_POSITIVE 296 139 100 103 55 aact:AA02090|3end_glucose-1-phosphate_adenylyltransferase_1424549..1424699_POSITIVE 295 147 103 56 12 aact:AA02715|3end_paraquat-inducible_protein_pqiB_homolog_1899787..1899937_POSITIVE 292 137 91 112 60 aact:AA02652|3end_conserved_hypothetical_protein_1848591..1848741_POSITIVE