Origin IGS: aaatagctcctgattttcctaaataataaataattaaaagtaaaaagcggctaaaccgccaatcgttagtgtggtgatattttatactacttcgcattgaattaccgattttctttctataattattttattgctataaaaggttttaaaatcaatttttatggacggtttcgctattgcttaacggtgcaaaattctgtaaaatgcaccccgttttttgctcattatcagagcacgcaaaatgaatttaacttctgttcttaatagataaaacagcagttttgtgacttaattaatagaggaatgtcattattaaaaccgtaaaaaaagcacccgcagtaaatcgccctaatcgtattaacgatgaaattaga .........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.........1.........2.........3.........4.........5.........6.........7.........8.........9 tctaatttcatcgttaatacgattagggcgatttactgcgggtgctttttttacggttttaataatgacattcctctattaattaagtcacaaaactgctgttttatctattaagaacagaagttaaattcattttgcgtgctctgataatgagcaaaaaacggggtgcattttacagaattttgcaccgttaagcaatagcgaaaccgtccataaaaattgattttaaaaccttttatagcaataaaataattatagaaagaaaatcggtaattcaatgcgaagtagtataaaatatcaccacactaacgattggcggtttagccgctttttacttttaattatttattatttaggaaaatcaggagctattt Mask Tandem Repeat Region ================================================ aaatagctcctgattttcctaaataataaataattaaaagtaaaaagcggctaaaccgccaatcgttagtgtggtgatattttatactacttcgcattgaattaccgattttctttctataattattttattgctataaaaggttttaaaatcaatttttatggacggtttcgctattgcttaacggtgcaaaattctgtaaaatgcaccccgttttttgctcattatcagagcacgcaaaatgaatttaacttctgttcttaatagataaaacagcagttttgtgacttaattaatagaggaatgtcattattaaaaccgtaaaaaaagcacccgcagtaaatcgccctaatcgtattaacgatgaaattaga Find is-nt database================================================ Query_seq: AA02034:AA02035|AA02034:AA02035:ferredoxin NADP+ reductase:translation initiation factor IF-3:->->:1386115..1386488 374 aaatagctcctgattttcctaaataataaataattaaaagtaaaaagcggctaaaccgccaatcgttagtgtggtgatattttatactacttcgcattgaattaccgattttctttctataattattttattgctataaaaggttttaaaatcaatttttatggacggtttcgctattgcttaacggtgcaaaattctgtaaaatgcaccccgttttttgctcattatcagagcacgcaaaatgaatttaacttctgttcttaatagataaaacagcagttttgtgacttaattaatagaggaatgtcattattaaaaccgtaaaaaaagcacccgcagtaaatcgccctaatcgtattaacgatgaaattaga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA02034:AA02035|AA02034:AA02035:ferredoxin NADP+ reductase:translation initiation factor IF-3:->->:1386115..1386488 374 aaatagctcctgattttcctaaataataaataattaaaagtaaaaagcggctaaaccgccaatcgttagtgtggtgatattttatactacttcgcattgaattaccgattttctttctataattattttattgctataaaaggttttaaaatcaatttttatggacggtttcgctattgcttaacggtgcaaaattctgtaaaatgcaccccgttttttgctcattatcagagcacgcaaaatgaatttaacttctgttcttaatagataaaacagcagttttgtgacttaattaatagaggaatgtcattattaaaaccgtaaaaaaagcacccgcagtaaatcgccctaatcgtattaacgatgaaattaga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA02034:AA02035|AA02034:AA02035:ferredoxin NADP+ reductase:translation initiation factor IF-3:->->:1386115..1386488 374 aaatagctcctgattttcctaaataataaataattaaaagtaaaaagcggctaaaccgccaatcgttagtgtggtgatattttatactacttcgcattgaattaccgattttctttctataattattttattgctataaaaggttttaaaatcaatttttatggacggtttcgctattgcttaacggtgcaaaattctgtaaaatgcaccccgttttttgctcattatcagagcacgcaaaatgaatttaacttctgttcttaatagataaaacagcagttttgtgacttaattaatagaggaatgtcattattaaaaccgtaaaaaaagcacccgcagtaaatcgccctaatcgtattaacgatgaaattaga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aaatagctcctgattttcctaaataataaataattaaaagtaaaaagcggctaaaccgccaatcgttagtgtggtgatattttatactacttcgcattgaattaccgattttctttctataattattttattgctataaaaggttttaaaatcaatttttatggacggtttcgctattgcttaacggtgcaaaattctgtaaaatgcaccccgttttttgctcattatcagagcacgcaaaatgaatttaacttctgttcttaatagataaaacagcagttttgtgacttaattaatagaggaatgtcattattaaaaccgtaaaaaaagcacccgcagtaaatcgccctaatcgtattaacgatgaaattaga Predict ORF larger than 30AA ================================================ Protein_Len: 60 Strand: + Start: 79 End: 261 .............................................................................. M L Y Y F A L N Y R F S F Y N Y F I A I K G F K I N F Y G R F R Y C L T V Q N S V K C T P F F A H Y Q S T Q N E F N F C ................................................................................................................. Protein_Len: 34 Strand: - Start: 264 End: 365 ....................................................................................................................................................................................................................................................................... Y I F C C N Q S K I L L P I D N N F G Y F F C G C Y I A R I T N V M ......... Protein_Len: 32 Strand: - Start: 184 End: 279 ....................................................................................................................................................................................... R H L I R Y F A G R K K S M I L A R L I F K V E T R L L Y F L M ............................................................................................... Protein_Len: 31 Strand: - Start: 155 End: 247 .......................................................................................................................................................... N K H V T E S N S L P A F N Q L I C G T K Q E N D S C A F H M ............................................................................................................................... Protein_Len: 31 Strand: - Start: 85 End: 177 .................................................................................... V V E C Q I V S K R E I I I K N S Y F T K F D I K I S P K A M ..................................................................................................................................................................................................... Protein_Len: 36 Strand: - Start: 2 End: 109 . I A G S K G L Y Y I I L L L F R S F R W D N T H H Y K I S S R M S N G M ......................................................................................................................................................................................................................................................................... aaatagctcctgattttcctaaataataaataattaaaagtaaaaagcggctaaaccgccaatcgttagtgtggtgatattttatactacttcgcattgaattaccgattttctttctataattattttattgctataaaaggttttaaaatcaatttttatggacggtttcgctattgcttaacggtgcaaaattctgtaaaatgcaccccgttttttgctcattatcagagcacgcaaaatgaatttaacttctgttcttaatagataaaacagcagttttgtgacttaattaatagaggaatgtcattattaaaaccgtaaaaaaagcacccgcagtaaatcgccctaatcgtattaacgatgaaattaga 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: 82 Start: 176 End: 205 ...............................................................................................................................................................................ATTGCTTAACGGTGCAAAATTCTGTAAAAT......................................................................................................................................................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ aaatagctcctgattttcctaaataataaataattaaaagtaaaaagcggctaaaccgccaatcgttagtgtggtgatattttatactacttcgcattgaattaccgattttctttctataattattttattgctataaaaggttttaaaatcaatttttatggacggtttcgctattgcttaacggtgcaaaattctgtaaaatgcaccccgttttttgctcattatcagagcacgcaaaatgaatttaacttctgttcttaatagataaaacagcagttttgtgacttaattaatagaggaatgtcattattaaaaccgtaaaaaaagcacccgcagtaaatcgccctaatcgtattaacgatgaaattaga Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 88 HP_score: -6.9 Tail_Score: -5.13016 Start: 47 End: 59 Full_Region: ccacactaacgattg gcggt tta gccgc tttttacttttaatt ..............................................gcggtttagccgc........................................................................................................................................................................................................................................................................................................................... Find igs database================================================ Query_seq: AA02034:AA02035|AA02034:AA02035:ferredoxin NADP+ reductase:translation initiation factor IF-3:->->:1386115..1386488 374 aaatagctcctgattttcctaaataataaataattaaaagtaaaaagcggctaaaccgccaatcgttagtgtggtgatattttatactacttcgcattgaattaccgattttctttctataattattttattgctataaaaggttttaaaatcaatttttatggacggtttcgctattgcttaacggtgcaaaattctgtaaaatgcaccccgttttttgctcattatcagagcacgcaaaatgaatttaacttctgttcttaatagataaaacagcagttttgtgacttaattaatagaggaatgtcattattaaaaccgtaaaaaaagcacccgcagtaaatcgccctaatcgtattaacgatgaaattaga Intra-Species Hit: Count: 1 Min: 1 Max: 374 Len: 374 Subject: aact_AA02034_AA02035|ferredoxin NADP+ reductase:translation initiation factor IF-3|POSITIVE:POSITIVE|[1386115,1386488]|374 HSP 1 e-value: 0.0 bit: 700.0 Len: 374 Query Start:1 Query End:374 Subject Strand: POSITIVE Subject Start: 1 Subject End: 374 aaatagctcctgattttcctaaataataaataattaaaagtaaaaagcggctaaaccgccaatcgttagtgtggtgatattttatactacttcgcattgaattaccgattttctttctataattattttattgctataaaaggttttaaaatcaatttttatggacggtttcgctattgcttaacggtgcaaaattctgtaaaatgcaccccgttttttgctcattatcagagcacgcaaaatgaatttaacttctgttcttaatagataaaacagcagttttgtgacttaattaatagaggaatgtcattattaaaaccgtnnnnnnngcacccgcagtaaatcgccctaatcgtattaacgatgaaattaga aaatagctcctgattttcctaaataataaataattaaaagtaaaaagcggctaaaccgccaatcgttagtgtggtgatattttatactacttcgcattgaattaccgattttctttctataattattttattgctataaaaggttttaaaatcaatttttatggacggtttcgctattgcttaacggtgcaaaattctgtaaaatgcaccccgttttttgctcattatcagagcacgcaaaatgaatttaacttctgttcttaatagataaaacagcagttttgtgacttaattaatagaggaatgtcattattaaaaccgtaaaaaaagcacccgcagtaaatcgccctaatcgtattaacgatgaaattaga Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAAUAGCUCCUGAUUUUCCUAAAUAAUAAAUAAUUAAAAGUAAAAAGCGGCUAAACCGCCAAUCGUUAGUGUGGUGAUAUUUUAUACUACUUCGCAUUGAAUUACCGAUUUUCUUUCUAUAAUUAUUUUAUUGCUAUAAAAGGUUUUAAAAUCAAUUUUUAUGGACGGUUUCGCUAUUGCUUAACGGUGCAAAAUUCUGUAAAAUGCACCCCGUUUUUUGCUCAUUAUCAGAGCACGCAAAAUGAAUUUAACUUCUGUUCUUAAUAGAUAAAACAGCAGUUUUGUGACUUAAUUAAUAGAGGAAUGUCAUUAUUAAAACCGUAAAAAAAGCACCCGCAGUAAAUCGCCCUAAUCGUAUUAACGAUGAAAUUAGA .........((((((((.............................((((.....))))..((((((((((.((((((....................(((..((((........(((((((..((((((..(((......)))..))))))......))))))))))))))..((((((.....((((((.............))))))..(((((((((((.......))))......(((((......((((((((.((((...(((((((....)))))))...))))..))))))))....))))).............)))))))....)))))).)))))).......)))))))))))))))))). (-72.22) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UCUAAUUUCAUCGUUAAUACGAUUAGGGCGAUUUACUGCGGGUGCUUUUUUUACGGUUUUAAUAAUGACAUUCCUCUAUUAAUUAAGUCACAAAACUGCUGUUUUAUCUAUUAAGAACAGAAGUUAAAUUCAUUUUGCGUGCUCUGAUAAUGAGCAAAAAACGGGGUGCAUUUUACAGAAUUUUGCACCGUUAAGCAAUAGCGAAACCGUCCAUAAAAAUUGAUUUUAAAACCUUUUAUAGCAAUAAAAUAAUUAUAGAAAGAAAAUCGGUAAUUCAAUGCGAAGUAGUAUAAAAUAUCACCACACUAACGAUUGGCGGUUUAGCCGCUUUUUACUUUUAAUUAUUUAUUAUUUAGGAAAAUCAGGAGCUAUUU .((((....(((((((((.((.((((((.(((.((((((...(((.......((((((((.....((((.................))))...((((.(((((((........))))))).)))).........((((.(((((.......)))))........((((((.............)))))).....))))....))))))))........(((((((((......((((((((...........))))))))..)))))))))........)))..))))))......))).))...)))))))))))))))))))..((((((...((((((.((.....)).)))))).....))))))..... (-73.25) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 331 365 327 215 170 aact:AA01209|5end_conserved_hypothetical_protein_826430..826660_POSITIVE 331 365 327 73 28 aact:AA01207|5end_hypothetical_protein_826288..826518_POSITIVE 306 210 162 169 130 aact:AA02585|5end_hypothetical_protein_1798798..1799028_POSITIVE 299 199 157 40 1 aact:AA01267|5end_degenerate_transposase_fragment_862267..862497_POSITIVE 294 77 39 209 167 aact:AA02337|5end_DNA_mismatch_repair_protein_1597350..1597580_POSITIVE 294 348 301 80 27 aact:AA00574|5end_regulatory_protein_392113..392343_POSITIVE 288 241 201 158 122 aact:AA02410|5end_cell_division_protein_1655429..1655659_POSITIVE 288 356 331 127 105 aact:AA00287|5end_glutamate_5-kinase_(gamma-glutamyl_kinase)_200158..200388_POSITIVE 287 214 171 155 101 aact:AA00362|5end_30S_ribosomal_protein_S3_244847..245077_POSITIVE 285 210 161 193 149 aact:AA00201|5end_prolipoprotein_diacylglyceryl_transferase_139740..139970_POSITIVE 284 367 331 207 173 aact:AA02025|5end_hypothetical_protein_1378667..1378897_POSITIVE 282 95 55 206 174 aact:AA02427|5end_hypothetical_protein_1674185..1674415_POSITIVE 282 210 161 64 20 aact:AA00488|5end_purine_nucleoside_phosphorylase_338075..338305_POSITIVE 280 200 166 171 129 aact:AA02378|5end_hypothetical_protein_1627753..1627983_POSITIVE 280 226 186 198 155 aact:AA01843|5end_sensor_protein;_probable_two-component_system_sensor_histidine_kinase_1238377..1238607_POSITIVE 280 226 186 92 49 aact:AA01842|5end_conserved_hypothetical_protein_1238271..1238501_POSITIVE 279 76 47 219 188 aact:AA02158|5end_TonB-dependent_outer_membrane_receptor_1476155..1476385_POSITIVE 274 76 47 104 69 aact:AA01054|5end_conserved_hypothetical_protein_733678..733908_POSITIVE 273 209 161 212 164 aact:AA02006|5end_PEP--fructosephosphotransferase_system_repressor,_DeoR_family_1363930..1364160_POSITIVE 273 100 56 57 16 aact:AA01590|5end_hypothetical_protein_1070766..1070996_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 288 241 201 53 17 aact:AA02409|3end_DNA_ligase_1655404..1655554_POSITIVE 288 356 331 149 127 aact:AA00286|3end_glutamate_5-kinase_(gamma-glutamyl_kinase)_200260..200410_POSITIVE 287 214 171 138 84 aact:AA00361|3end_50S_ribosomal_protein_L16_244910..245060_POSITIVE 285 210 161 142 98 aact:AA00200|3end_thymidylate_synthase_139769..139919_POSITIVE 280 200 166 80 38 aact:AA02375|3end_D-3-phosphoglycerate_dehydrogenase_1627742..1627892_POSITIVE 274 76 47 93 58 aact:AA01053|3end_conserved_hypothetical_protein_733747..733897_POSITIVE 273 100 56 82 41 aact:AA01589|3end_conserved_hypothetical_protein_1070871..1071021_POSITIVE 271 229 181 138 93 aact:AA01259|3end_protoporphyrinogen_oxidase_854943..855093_POSITIVE 270 218 172 149 95 aact:AA02494|3end_conserved_hypothetical_protein_1731540..1731690_POSITIVE 269 367 329 68 29 aact:AA00474|3end_cell_division_protein_Y_(GTP-binding_signal_recognition_particle)_331724..331874_POSITIVE 264 79 50 121 95 aact:AA02687|3end_hydrogenase-4_component_D_1874043..1874193_POSITIVE 262 207 162 143 92 aact:AA00844|3end_cell_division_protein_I;_penicillin_binding_protein_2X_584543..584693_POSITIVE 260 360 318 99 48 aact:AA01550|3end_hypothetical_protein_1038292..1038442_POSITIVE 259 98 51 66 28 aact:AA01370|3end_rod_shape-determining_protein_926586..926736_POSITIVE 259 76 33 142 94 aact:AA01175|3end_6-phosphogluconate_dehydrogenase_806395..806545_POSITIVE 259 77 47 99 66 aact:AA00708|3end_cysteine_desulfurase_487395..487545_POSITIVE 258 227 185 90 47 aact:AA00191|3end_conserved_hypothetical_protein_(possible_acetyltransferase,_GNAT_family)_135545..135695_POSITIVE 256 223 185 68 27 aact:AA01241|3end_30S_ribosomal_protein_S4_845991..846141_POSITIVE 256 207 163 71 27 aact:AA00633|3end_hypothetical_protein_435167..435317_POSITIVE 254 210 162 79 37 aact:AA00309|3end_3-hydroxyisobutyrate_dehydrogenase;_2-hydroxy-3-oxopropionate_reductase_210267..210417_POSITIVE