Origin IGS: aattataaatcttttattatattaataatgtttttgtataggattgtcttcaatacctacttttgtatggtgcaaaggtaaataatatttttctaatacctacaaataatgattagaaattgaaatatttagacaatatacaaataaaaccgatggtcttgtcggctttgaaaacaaagttgaaacccttgtgttacaataaataaatagagcaaacgttataagaacagat .........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 atctgttcttataacgtttgctctatttatttattgtaacacaagggtttcaactttgttttcaaagccgacaagaccatcggttttatttgtatattgtctaaatatttcaatttctaatcattatttgtaggtattagaaaaatattatttacctttgcaccatacaaaagtaggtattgaagacaatcctatacaaaaacattattaatataataaaagatttataatt Mask Tandem Repeat Region ================================================ aattataaatcttttattatattaataatgtttttgtataggattgtcttcaatacctacttttgtatggtgcaaaggtaaataatatttttctaatacctacaaataatgattagaaattgaaatatttagacaatatacaaataaaaccgatggtcttgtcggctttgaaaacaaagttgaaacccttgtgttacaataaataaatagagcaaacgttataagaacagat Find is-nt database================================================ Query_seq: PI0516:PI0517|PI0516:PI0517:ferredoxin, 4Fe-4S:apparent PorT homolog:->->:476169..476400 232 aattataaatcttttattatattaataatgtttttgtataggattgtcttcaatacctacttttgtatggtgcaaaggtaaataatatttttctaatacctacaaataatgattagaaattgaaatatttagacaatatacaaataaaaccgatggtcttgtcggctttgaaaacaaagttgaaacccttgtgttacaataaataaatagagcaaacgttataagaacagat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0516:PI0517|PI0516:PI0517:ferredoxin, 4Fe-4S:apparent PorT homolog:->->:476169..476400 232 aattataaatcttttattatattaataatgtttttgtataggattgtcttcaatacctacttttgtatggtgcaaaggtaaataatatttttctaatacctacaaataatgattagaaattgaaatatttagacaatatacaaataaaaccgatggtcttgtcggctttgaaaacaaagttgaaacccttgtgttacaataaataaatagagcaaacgttataagaacagat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0516:PI0517|PI0516:PI0517:ferredoxin, 4Fe-4S:apparent PorT homolog:->->:476169..476400 232 aattataaatcttttattatattaataatgtttttgtataggattgtcttcaatacctacttttgtatggtgcaaaggtaaataatatttttctaatacctacaaataatgattagaaattgaaatatttagacaatatacaaataaaaccgatggtcttgtcggctttgaaaacaaagttgaaacccttgtgttacaataaataaatagagcaaacgttataagaacagat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aattataaatcttttattatattaataatgtttttgtataggattgtcttcaatacctacttttgtatggtgcaaaggtaaataatatttttctaatacctacaaataatgattagaaattgaaatatttagacaatatacaaataaaaccgatggtcttgtcggctttgaaaacaaagttgaaacccttgtgttacaataaataaatagagcaaacgttataagaacagat Predict ORF larger than 30AA ================================================ Protein_Len: 40 Strand: - Start: 103 End: 222 ...................................................................................................... L Y H N S I S I N L C Y V F L V S P R T P K S F L T S V R T N C Y I F L A F T M .......... aattataaatcttttattatattaataatgtttttgtataggattgtcttcaatacctacttttgtatggtgcaaaggtaaataatatttttctaatacctacaaataatgattagaaattgaaatatttagacaatatacaaataaaaccgatggtcttgtcggctttgaaaacaaagttgaaacccttgtgttacaataaataaatagagcaaacgttataagaacagat 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================================================ aattataaatcttttattatattaataatgtttttgtataggattgtcttcaatacctacttttgtatggtgcaaaggtaaataatatttttctaatacctacaaataatgattagaaattgaaatatttagacaatatacaaataaaaccgatggtcttgtcggctttgaaaacaaagttgaaacccttgtgttacaataaataaatagagcaaacgttataagaacagat Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI0516:PI0517|PI0516:PI0517:ferredoxin, 4Fe-4S:apparent PorT homolog:->->:476169..476400 232 aattataaatcttttattatattaataatgtttttgtataggattgtcttcaatacctacttttgtatggtgcaaaggtaaataatatttttctaatacctacaaataatgattagaaattgaaatatttagacaatatacaaataaaaccgatggtcttgtcggctttgaaaacaaagttgaaacccttgtgttacaataaataaatagagcaaacgttataagaacagat Intra-Species Hit: Count: 1 Min: 1 Max: 232 Len: 232 Subject: pint_PI0516_PI0517|ferredoxin, 4Fe-4S:apparent PorT homolog|POSITIVE:POSITIVE|[476169,476400]|232 HSP 1 e-value: 1.0E-128 bit: 460.0 Len: 232 Query Start:1 Query End:232 Subject Strand: POSITIVE Subject Start: 1 Subject End: 232 aattataaatcttttattatattaataatgtttttgtataggattgtcttcaatacctacttttgtatggtgcaaaggtaaataatatttttctaatacctacaaataatgattagaaattgaaatatttagacaatatacaaataaaaccgatggtcttgtcggctttgaaaacaaagttgaaacccttgtgttacaataaataaatagagcaaacgttataagaacagat aattataaatcttttattatattaataatgtttttgtataggattgtcttcaatacctacttttgtatggtgcaaaggtaaataatatttttctaatacctacaaataatgattagaaattgaaatatttagacaatatacaaataaaaccgatggtcttgtcggctttgaaaacaaagttgaaacccttgtgttacaataaataaatagagcaaacgttataagaacagat Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAUUAUAAAUCUUUUAUUAUAUUAAUAAUGUUUUUGUAUAGGAUUGUCUUCAAUACCUACUUUUGUAUGGUGCAAAGGUAAAUAAUAUUUUUCUAAUACCUACAAAUAAUGAUUAGAAAUUGAAAUAUUUAGACAAUAUACAAAUAAAACCGAUGGUCUUGUCGGCUUUGAAAACAAAGUUGAAACCCUUGUGUUACAAUAAAUAAAUAGAGCAAACGUUAUAAGAACAGAU ........................((((((((((((((((...((((((..((((..(((((((((.....))))))))).........((((((((..............))))))))......)))).)))))))))))))....((((((.(((....(((((((((....))))))))).))).))).)))..................))))))))).......... (-42.74) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUCUGUUCUUAUAACGUUUGCUCUAUUUAUUUAUUGUAACACAAGGGUUUCAACUUUGUUUUCAAAGCCGACAAGACCAUCGGUUUUAUUUGUAUAUUGUCUAAAUAUUUCAAUUUCUAAUCAUUAUUUGUAGGUAUUAGAAAAAUAUUAUUUACCUUUGCACCAUACAAAAGUAGGUAUUGAAGACAAUCCUAUACAAAAACAUUAUUAAUAUAAUAAAAGAUUUAUAAUU .............................(((((((((..((((((.......))))))....((((((((........)))))))).((((((((((((((...........((((((((..(((....)))..)))))))).....(((((((.((((.......)))).)))))))....))))))...))))))))...........)))))))))............ (-39.30) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 303 195 159 39 2 pint:PI1709|5end_ABC_transporter,_ATP-binding_protein_1625843..1626073_POSITIVE 264 169 131 228 188 pint:PI2025|5end_conserved_hypothetical_protein_1979028..1979258_POSITIVE 262 77 31 169 118 pint:PI1586|5end_possible_HesA/MoeB/ThiF_family_protein_1514372..1514602_POSITIVE 243 187 143 135 93 pint:PI0668|5end_peptidyl-prolyl_cis-trans_isomerase_SlyD,_FKBP-type_(peptidylprolyl_isomerase)_610216..610446_POSITIVE 242 70 29 108 66 pint:PI2120|5end_hypothetical_protein_2068839..2069069_POSITIVE 242 194 151 154 114 pint:PI0337|5end_hypothetical_protein_314732..314962_POSITIVE 241 100 60 157 117 pint:PI1504|5end_non-specific_DNA-binding_protein_1424318..1424548_POSITIVE 240 192 151 225 189 pint:PI0634|5end_conserved_hypothetical_protein_580082..580312_POSITIVE 240 195 151 209 167 pint:PI0432|5end_hypothetical_protein_404781..405011_POSITIVE 240 195 151 152 110 pint:PI0433|5end_hypothetical_protein_404724..404954_POSITIVE 239 166 121 61 13 pint:PI1359|5end_hypothetical_protein_1275473..1275703_POSITIVE 239 193 151 73 31 pint:PI0703|5end_hypothetical_protein_639655..639885_POSITIVE 239 194 152 52 18 pint:PI0207|5end_conserved_hypothetical_protein_199797..200027_POSITIVE 237 80 34 222 174 pint:PI0797|5end_tRNA_pseudouridine_synthase_A_(pseudouridylate_synthase)_735016..735246_POSITIVE 233 66 28 106 67 pint:PI2005|5end_potassium_uptake_protein_1962950..1963180_POSITIVE 232 193 152 110 57 pint:PI1840|5end_conserved_hypothetical_protein_1782856..1783086_POSITIVE 232 186 152 191 155 pint:PI0713|5end_hypothetical_protein_650294..650524_POSITIVE 231 192 153 104 63 pint:PI1769|5end_hypothetical_protein_1696507..1696737_POSITIVE 230 74 43 227 193 pint:PI0092|5end_regulatory_protein_RecX_89080..89310_POSITIVE 229 193 151 214 171 pint:PI2169|5end_hypothetical_protein_2111706..2111936_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 264 169 131 105 65 pint:PI2024|3end_hypothetical_protein_1978985..1979135_POSITIVE 264 169 131 79 39 pint:PI2022|3end_hypothetical_protein_1978959..1979109_POSITIVE 242 194 151 148 108 pint:PI0336|3end_hypothetical_protein_314806..314956_POSITIVE 240 192 151 143 107 pint:PI0633|3end_possible_preprotein_translocase,_YajC_subunit_580080..580230_POSITIVE 239 198 152 87 41 pint:PI1265|3end_hypothetical_protein_1185512..1185662_POSITIVE 237 80 34 80 32 pint:PI0796|3end_competence_protein_734954..735104_POSITIVE 233 66 28 80 41 pint:PI2004|3end_1-deoxy-D-xylulose_5-phosphate_synthase_1963004..1963154_POSITIVE 229 80 33 150 106 pint:PI1755|3end_RNA_polymerase_sigma-70_factor,_ECF_subfamily_1682510..1682660_POSITIVE 224 71 37 144 109 pint:PI2071|3end_hypothetical_protein_2030308..2030458_POSITIVE 224 73 42 142 118 pint:PI0844|3end_cytidine/deoxycytidylate_deaminase_(dCMP_deaminase)_778316..778466_POSITIVE 221 74 31 139 95 pint:PI0926|3end_hypothetical_protein_857047..857197_POSITIVE 219 101 62 106 51 pint:PI0112|3end_hypothetical_protein_108212..108362_POSITIVE 217 70 29 142 97 pint:PI0787|3end_glycosyltransferase_725793..725943_POSITIVE 217 164 148 139 124 pint:PI0612|3end_lysyl-tRNA_synthetase_562202..562352_POSITIVE 214 79 32 79 26 pint:PI0351|3end_hypothetical_protein_324768..324918_POSITIVE 214 79 32 146 93 pint:PI0350|3end_conserved_hypothetical_protein_324835..324985_POSITIVE 209 170 121 138 92 pint:PI1359|3end_hypothetical_protein_1275993..1276143_POSITIVE 208 192 151 122 85 pint:PI1382|3end_hypothetical_protein_1304137..1304287_POSITIVE 208 167 148 55 29 pint:PI0225|3end_conserved_hypothetical_protein_222759..222909_POSITIVE 208 198 151 100 56 pint:PI0056|3end_conserved_hypothetical_protein;_possible_DNA_uptake_protein_55907..56057_POSITIVE