Origin IGS: gtgttgccttccttttttactccgcgtctcaactatctgtttgaatttaataataaatcttatttatgttcgcagtaaaattttacaaaacggtaatatcattaacaccgttgtcattttgataaagtttattttactgcggttatattgttgtatttactgtattttataaaaatgaaaaaaagtatgatctctgtcaaagaataaaaacttttatatgtgatttatttttaggcaagagtatccttatgaaaagggtggttatttgactaactcttttttatagggggaaaat .........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.........1.........2.........3.........4.........5.........6.........7.........8.........9 attttccccctataaaaaagagttagtcaaataaccacccttttcataaggatactcttgcctaaaaataaatcacatataaaagtttttattctttgacagagatcatactttttttcatttttataaaatacagtaaatacaacaatataaccgcagtaaaataaactttatcaaaatgacaacggtgttaatgatattaccgttttgtaaaattttactgcgaacataaataagatttattattaaattcaaacagatagttgagacgcggagtaaaaaaggaaggcaacac Mask Tandem Repeat Region ================================================ gtgttgccttccttttttactccgcgtctcaactatctgtttgaatttaataataaatcttatttatgttcgcagtaaaattttacaaaacggtaatatcattaacaccgttgtcattttgataaagtttattttactgcggttatattgttgtatttactgtattttataaaaatgaaaaaaagtatgatctctgtcaaagaataaaaacttttatatgtgatttatttttaggcaagagtatccttatgaaaagggtggttatttgactaactcttttttatagggggaaaat Find is-nt database================================================ Query_seq: AA02682:AA02683|AA02682:AA02683:hydrogenase maturation protein:hydrogenase 4 Fe-S subunit:->->:1868727..1869021 295 gtgttgccttccttttttactccgcgtctcaactatctgtttgaatttaataataaatcttatttatgttcgcagtaaaattttacaaaacggtaatatcattaacaccgttgtcattttgataaagtttattttactgcggttatattgttgtatttactgtattttataaaaatgaaaaaaagtatgatctctgtcaaagaataaaaacttttatatgtgatttatttttaggcaagagtatccttatgaaaagggtggttatttgactaactcttttttatagggggaaaat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA02682:AA02683|AA02682:AA02683:hydrogenase maturation protein:hydrogenase 4 Fe-S subunit:->->:1868727..1869021 295 gtgttgccttccttttttactccgcgtctcaactatctgtttgaatttaataataaatcttatttatgttcgcagtaaaattttacaaaacggtaatatcattaacaccgttgtcattttgataaagtttattttactgcggttatattgttgtatttactgtattttataaaaatgaaaaaaagtatgatctctgtcaaagaataaaaacttttatatgtgatttatttttaggcaagagtatccttatgaaaagggtggttatttgactaactcttttttatagggggaaaat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA02682:AA02683|AA02682:AA02683:hydrogenase maturation protein:hydrogenase 4 Fe-S subunit:->->:1868727..1869021 295 gtgttgccttccttttttactccgcgtctcaactatctgtttgaatttaataataaatcttatttatgttcgcagtaaaattttacaaaacggtaatatcattaacaccgttgtcattttgataaagtttattttactgcggttatattgttgtatttactgtattttataaaaatgaaaaaaagtatgatctctgtcaaagaataaaaacttttatatgtgatttatttttaggcaagagtatccttatgaaaagggtggttatttgactaactcttttttatagggggaaaat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gtgttgccttccttttttactccgcgtctcaactatctgtttgaatttaataataaatcttatttatgttcgcagtaaaattttacaaaacggtaatatcattaacaccgttgtcattttgataaagtttattttactgcggttatattgttgtatttactgtattttataaaaatgaaaaaaagtatgatctctgtcaaagaataaaaacttttatatgtgatttatttttaggcaagagtatccttatgaaaagggtggttatttgactaactcttttttatagggggaaaat Predict ORF larger than 30AA ================================================ Protein_Len: 45 Strand: + Start: 35 End: 169 .................................. M C L N L I I N L I Y V R S K I L Q N G N I I N T V V I L I K F I L L R L Y C C I Y C I L .............................................................................................................................. Protein_Len: 40 Strand: + Start: 147 End: 266 .................................................................................................................................................. M V V F T V F Y K N E K K Y D L C Q R I K T F I C D L F L G K S I L M K R V V I ............................. Protein_Len: 31 Strand: - Start: 132 End: 224 ................................................................................................................................... K V A T I N N Y K S Y K I F I F F L I I E T L S Y F S K Y T M ....................................................................... Protein_Len: 30 Strand: - Start: 67 End: 156 .................................................................. T R L L I K C F P L I M L V T T M K I F N I K S R N Y Q Q M ........................................................................................................................................... gtgttgccttccttttttactccgcgtctcaactatctgtttgaatttaataataaatcttatttatgttcgcagtaaaattttacaaaacggtaatatcattaacaccgttgtcattttgataaagtttattttactgcggttatattgttgtatttactgtattttataaaaatgaaaaaaagtatgatctctgtcaaagaataaaaacttttatatgtgatttatttttaggcaagagtatccttatgaaaagggtggttatttgactaactcttttttatagggggaaaat 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: 81 Start: 172 End: 201 ...........................................................................................................................................................................TTTGACAGAGATCATACTTTTTTTCATTTT.............................................................................................. Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ gtgttgccttccttttttactccgcgtctcaactatctgtttgaatttaataataaatcttatttatgttcgcagtaaaattttacaaaacggtaatatcattaacaccgttgtcattttgataaagtttattttactgcggttatattgttgtatttactgtattttataaaaatgaaaaaaagtatgatctctgtcaaagaataaaaacttttatatgtgatttatttttaggcaagagtatccttatgaaaagggtggttatttgactaactcttttttatagggggaaaat Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: AA02682:AA02683|AA02682:AA02683:hydrogenase maturation protein:hydrogenase 4 Fe-S subunit:->->:1868727..1869021 295 gtgttgccttccttttttactccgcgtctcaactatctgtttgaatttaataataaatcttatttatgttcgcagtaaaattttacaaaacggtaatatcattaacaccgttgtcattttgataaagtttattttactgcggttatattgttgtatttactgtattttataaaaatgaaaaaaagtatgatctctgtcaaagaataaaaacttttatatgtgatttatttttaggcaagagtatccttatgaaaagggtggttatttgactaactcttttttatagggggaaaat Intra-Species Hit: Count: 1 Min: 1 Max: 295 Len: 295 Subject: aact_AA02682_AA02683|hydrogenase maturation protein:hydrogenase 4 Fe-S subunit|POSITIVE:POSITIVE|[1868727,1869021]|295 HSP 1 e-value: 1.0E-91 bit: 337.0 Len: 170 Query Start:1 Query End:170 Subject Strand: POSITIVE Subject Start: 1 Subject End: 170 gtgttgccttccttttttactccgcgtctcaactatctgtttgaatttaataataaatcttatttatgttcgcagtaaaattttacaaaacggtaatatcattaacaccgttgtcattttgataaagtttattttactgcggttatattgttgtatttactgtattttat............................................................................................................................. gtgttgccttccttttttactccgcgtctcaactatctgtttgaatttaataataaatcttatttatgttcgcagtaaaattttacaaaacggtaatatcattaacaccgttgtcattttgataaagtttattttactgcggttatattgttgtatttactgtattttat............................................................................................................................. HSP 2 e-value: 2.0E-56 bit: 220.0 Len: 111 Query Start:185 Query End:295 Subject Strand: POSITIVE Subject Start: 185 Subject End: 295 ........................................................................................................................................................................................gtatgatctctgtcaaagaataaaaacttttatatgtgatttatttttaggcaagagtatccttatgaaaagggtggttatttgactaactcttttttatagggggaaaat ........................................................................................................................................................................................gtatgatctctgtcaaagaataaaaacttttatatgtgatttatttttaggcaagagtatccttatgaaaagggtggttatttgactaactcttttttatagggggaaaat Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GUGUUGCCUUCCUUUUUUACUCCGCGUCUCAACUAUCUGUUUGAAUUUAAUAAUAAAUCUUAUUUAUGUUCGCAGUAAAAUUUUACAAAACGGUAAUAUCAUUAACACCGUUGUCAUUUUGAUAAAGUUUAUUUUACUGCGGUUAUAUUGUUGUAUUUACUGUAUUUUAUAAAAAUGAAAAAAAGUAUGAUCUCUGUCAAAGAAUAAAAACUUUUAUAUGUGAUUUAUUUUUAGGCAAGAGUAUCCUUAUGAAAAGGGUGGUUAUUUGACUAACUCUUUUUUAUAGGGGGAAAAU ........((((.....(((((...(((.((((..((.....))....................((((..(((((((((((...((...(((((..((....))..)))))((((.....))))..))..)))))))))))..))))..))))....((((...((((((....))))))...)))).)))...((((.(((((((((.((........))..))))))))).)))).))))).(((((((((((((((((((....)))).)).)))))))))))))))))... (-62.10) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUUUUCCCCCUAUAAAAAAGAGUUAGUCAAAUAACCACCCUUUUCAUAAGGAUACUCUUGCCUAAAAAUAAAUCACAUAUAAAAGUUUUUAUUCUUUGACAGAGAUCAUACUUUUUUUCAUUUUUAUAAAAUACAGUAAAUACAACAAUAUAACCGCAGUAAAAUAAACUUUAUCAAAAUGACAACGGUGUUAAUGAUAUUACCGUUUUGUAAAAUUUUACUGCGAACAUAAAUAAGAUUUAUUAUUAAAUUCAAACAGAUAGUUGAGACGCGGAGUAAAAAAGGAAGGCAACAC .((((((.(((....(((((.((((......))))....)))))....))).((((((.((.(((.((((((((..........((((((((....(((.(((((......))))).))).....)))))).))....................(((((((((((....((((.((((......((((((..........)))))))))))))))))))))))))...........)))))))).)))..(((((........)))))..)))))))).....))))))...... (-49.40) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 294 140 92 174 127 aact:AA02266|5end_exodeoxyribonuclease_V_beta_chain_1541680..1541910_POSITIVE 257 288 252 151 110 aact:AA02614|5end_conserved_hypothetical_protein_1822320..1822550_POSITIVE 257 35 14 25 3 aact:AA01499|5end_fructose_1,6-bisphosphatase_protein_1008357..1008587_POSITIVE 255 278 231 138 84 aact:AA00274|5end_50S_ribosomal_protein_L32_192449..192679_POSITIVE 253 41 1 150 124 aact:AA02218|5end_deoxyribose-phosphate_aldolase_(fragment?)_1509758..1509988_POSITIVE 251 267 222 120 69 aact:AA02743|5end_outer_membrane_lipoprotein_precursor/glutamyl-tRNA_reductase_subunit_1922650..1922880_POSITIVE 246 149 101 221 171 aact:AA01575|5end_conserved_hypothetical_protein_1061664..1061894_POSITIVE 241 45 1 160 115 aact:AA01661|5end_molybdopterin_biosynthesis_protein_1125384..1125614_POSITIVE 235 119 72 93 45 aact:AA01324|5end_50S_ribosomal_protein_L33_894495..894725_POSITIVE 232 43 5 194 150 aact:AA00529|5end_outer_membrane_protein,_Omp_18/16_361730..361960_POSITIVE 231 50 5 75 18 aact:AA01158|5end_ribosome_associated_heat_shock_protein_15_homolog_792399..792629_POSITIVE 230 269 234 120 84 aact:AA01743|5end_lysyl-tRNA_synthetase_1177808..1178038_POSITIVE 229 27 2 61 31 aact:AA02958|5end_3-phenylpropionic_acid_transporter_2069380..2069610_POSITIVE 229 160 118 141 100 aact:AA01989|5end_hypothetical_protein_1352039..1352269_POSITIVE 228 150 108 171 121 aact:AA00990|5end_conserved_hypothetical_protein_692559..692789_POSITIVE 225 155 115 191 147 aact:AA01334|5end_HtrL_protein_involved_in_lipopolysaccharide_biosynthesis_(ADP-L-glycero-D-mannoheptose-6-epimerase)_900746..900976_POSITIVE 224 116 71 210 167 aact:AA02534|5end_zinc_protease_1763912..1764142_POSITIVE 224 97 55 145 97 aact:AA01525|5end_amino_acid_ABC_transporter,_permease_component_1024277..1024507_POSITIVE 222 29 1 137 96 aact:AA02766|5end_hypothetical_protein_1934931..1935161_POSITIVE 221 45 7 142 101 aact:AA02453|5end_conserved_hypothetical_protein_1688947..1689177_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 257 288 252 82 41 aact:AA02613|3end_conserved_hypothetical_protein_1822331..1822481_POSITIVE 255 278 231 108 54 aact:AA00273|3end_fatty_acid/phospholipid_synthesis_protein_192499..192649_POSITIVE 253 41 1 147 121 aact:AA02217|3end_deoxyribose-phosphate_aldolase_1509835..1509985_POSITIVE 251 267 222 88 37 aact:AA02742|3end_tRNA_nucleotidyltransferase_1922698..1922848_POSITIVE 239 130 86 118 72 aact:AA01421|3end_phosphoglycolate_phosphatase_955806..955956_POSITIVE 235 119 72 78 30 aact:AA01323|3end_50S_ribosomal_protein_L28_894560..894710_POSITIVE 232 43 5 87 43 aact:AA00528|3end_conserved_hypothetical_protein_361703..361853_POSITIVE 229 27 2 55 25 aact:AA02956|3end_integrase-recombinase_2069454..2069604_POSITIVE 228 146 104 68 10 aact:AA01886|3end_UDP-glucose-4-epimerase_1272557..1272707_POSITIVE 228 143 108 50 12 aact:AA01107|3end_adenylosuccinate_lyase_763754..763904_POSITIVE 224 97 55 132 84 aact:AA01524|3end_amino_acid_ABC_transporter,_ATP-binding_protein_1024344..1024494_POSITIVE 221 268 221 138 92 aact:AA00839|3end_UDP-MurNAc-pentapeptide_phosphotransferase_579784..579934_POSITIVE 220 166 139 58 23 aact:AA01772|3end_shikimate_5-dehydrogenase_protein_1194942..1195092_POSITIVE 220 47 4 80 39 aact:AA00992|3end_ribonuclease_BN_694568..694718_POSITIVE 219 154 117 137 98 aact:AA02097|3end_DedA-family_integral_membrane_protein_1429505..1429655_POSITIVE 218 45 20 32 5 aact:AA00166|3end_conserved_hypothetical_protein_(possible_acetyltransferase)_117919..118069_POSITIVE 216 137 91 91 44 aact:AA01138|3end_anaerobic_dimethyl_sulfoxide_reductase,_chain_B_781685..781835_POSITIVE 215 167 124 148 95 aact:AA01407|3end_outer_membrane_antigenic_lipoprotein_b_precursor_950251..950401_POSITIVE 214 170 127 125 86 aact:AA01419|3end_D-ribulose-phosphate-3_epimerase_955129..955279_POSITIVE 213 170 126 148 99 aact:AA00540|3end_hypothetical_protein_370261..370411_POSITIVE