Origin IGS: taagaaaagtgcggtgggttttgggcgtaaatccggcaacagctacataatcgcgaaaaacacttgaaaatatgaccgcacttttttgccgaaaaatagaatattcaaacttaaaatcaggatattcaacctgaaaaacaggatattcaacctaaaaaacaggatattgaaaatctgaaagacgttttagcaaatcaaaaagggctttcatataaaactatcagtcacattgaaaaattatatctggcagtcggttattctattttttcccgcgctgaccttattgctattttaacgcttactgcctcgccttcctccgatctgcttggaaaaatgctaaaaatcagcattattaaaaaggtagaaggacaaggaaagggaaaatatcagtttatctaatcggttaaaattattgttcccatctttagcgatgacataatttcactatcaaatcccaaaatttacaaaaaacctgttctatatcaataaatccatgctttttgtaggtctatcctagtgtttaggagtatg .........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.........1.........2.........3.........4.........5.........6.........7.........8.........9 catactcctaaacactaggatagacctacaaaaagcatggatttattgatatagaacaggttttttgtaaattttgggatttgatagtgaaattatgtcatcgctaaagatgggaacaataattttaaccgattagataaactgatattttccctttccttgtccttctacctttttaataatgctgatttttagcatttttccaagcagatcggaggaaggcgaggcagtaagcgttaaaatagcaataaggtcagcgcgggaaaaaatagaataaccgactgccagatataatttttcaatgtgactgatagttttatatgaaagccctttttgatttgctaaaacgtctttcagattttcaatatcctgttttttaggttgaatatcctgtttttcaggttgaatatcctgattttaagtttgaatattctatttttcggcaaaaaagtgcggtcatattttcaagtgtttttcgcgattatgtagctgttgccggatttacgcccaaaacccaccgcacttttctta Mask Tandem Repeat Region ================================================ taagaaaagtgcggtgggttttgggcgtaaatccggcaacagctacataatcgcgaaaaacacttgaaaatatgaccgcacttttttgccgaaaaatagannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnngaaaatctgaaagacgttttagcaaatcaaaaagggctttcatataaaactatcagtcacattgaaaaattatatctggcagtcggttattctattttttcccgcgctgaccttattgctattttaacgcttactgcctcgccttcctccgatctgcttggaaaaatgctaaaaatcagcattattaaaaaggtagaaggacaaggaaagggaaaatatcagtttatctaatcggttaaaattattgttcccatctttagcgatgacataatttcactatcaaatcccaaaatttacaaaaaacctgttctatatcaataaatccatgctttttgtaggtctatcctagtgtttaggagtatg Find is-nt database================================================ Query_seq: AA02697:AA02698|AA02697:AA02698:hydrogenase 3 maturation protease:formate dehydrogenase H, selenopolypeptide subunit:->->:1880469..1880999 531 taagaaaagtgcggtgggttttgggcgtaaatccggcaacagctacataatcgcgaaaaacacttgaaaatatgaccgcacttttttgccgaaaaatagaatattcaaacttaaaatcaggatattcaacctgaaaaacaggatattcaacctaaaaaacaggatattgaaaatctgaaagacgttttagcaaatcaaaaagggctttcatataaaactatcagtcacattgaaaaattatatctggcagtcggttattctattttttcccgcgctgaccttattgctattttaacgcttactgcctcgccttcctccgatctgcttggaaaaatgctaaaaatcagcattattaaaaaggtagaaggacaaggaaagggaaaatatcagtttatctaatcggttaaaattattgttcccatctttagcgatgacataatttcactatcaaatcccaaaatttacaaaaaacctgttctatatcaataaatccatgctttttgtaggtctatcctagtgtttaggagtatg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA02697:AA02698|AA02697:AA02698:hydrogenase 3 maturation protease:formate dehydrogenase H, selenopolypeptide subunit:->->:1880469..1880999 531 taagaaaagtgcggtgggttttgggcgtaaatccggcaacagctacataatcgcgaaaaacacttgaaaatatgaccgcacttttttgccgaaaaatagaatattcaaacttaaaatcaggatattcaacctgaaaaacaggatattcaacctaaaaaacaggatattgaaaatctgaaagacgttttagcaaatcaaaaagggctttcatataaaactatcagtcacattgaaaaattatatctggcagtcggttattctattttttcccgcgctgaccttattgctattttaacgcttactgcctcgccttcctccgatctgcttggaaaaatgctaaaaatcagcattattaaaaaggtagaaggacaaggaaagggaaaatatcagtttatctaatcggttaaaattattgttcccatctttagcgatgacataatttcactatcaaatcccaaaatttacaaaaaacctgttctatatcaataaatccatgctttttgtaggtctatcctagtgtttaggagtatg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA02697:AA02698|AA02697:AA02698:hydrogenase 3 maturation protease:formate dehydrogenase H, selenopolypeptide subunit:->->:1880469..1880999 531 taagaaaagtgcggtgggttttgggcgtaaatccggcaacagctacataatcgcgaaaaacacttgaaaatatgaccgcacttttttgccgaaaaatagaatattcaaacttaaaatcaggatattcaacctgaaaaacaggatattcaacctaaaaaacaggatattgaaaatctgaaagacgttttagcaaatcaaaaagggctttcatataaaactatcagtcacattgaaaaattatatctggcagtcggttattctattttttcccgcgctgaccttattgctattttaacgcttactgcctcgccttcctccgatctgcttggaaaaatgctaaaaatcagcattattaaaaaggtagaaggacaaggaaagggaaaatatcagtttatctaatcggttaaaattattgttcccatctttagcgatgacataatttcactatcaaatcccaaaatttacaaaaaacctgttctatatcaataaatccatgctttttgtaggtctatcctagtgtttaggagtatg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taagaaaagtgcggtgggttttgggcgtaaatccggcaacagctacataatcgcgaaaaacacttgaaaatatgaccgcacttttttgccgaaaaatagaatattcaaacttaaaatcaggatattcaacctgaaaaacaggatattcaacctaaaaaacaggatattgaaaatctgaaagacgttttagcaaatcaaaaagggctttcatataaaactatcagtcacattgaaaaattatatctggcagtcggttattctattttttcccgcgctgaccttattgctattttaacgcttactgcctcgccttcctccgatctgcttggaaaaatgctaaaaatcagcattattaaaaaggtagaaggacaaggaaagggaaaatatcagtttatctaatcggttaaaattattgttcccatctttagcgatgacataatttcactatcaaatcccaaaatttacaaaaaacctgttctatatcaataaatccatgctttttgtaggtctatcctagtgtttaggagtatg Predict ORF larger than 30AA ================================================ Protein_Len: 30 Strand: + Start: 86 End: 175 ..................................................................................... M P K N R I F K L K I R I F N L K N R I F N L K N R I L K I .................................................................................................................................................................................................................................................................................................................................................................... Protein_Len: 33 Strand: + Start: 194 End: 292 ................................................................................................................................................................................................. M K K G F H I K L S V T L K N Y I W Q S V I L F F P A L T L L L F ............................................................................................................................................................................................................................................... Protein_Len: 60 Strand: + Start: 124 End: 396 ........................................................................................................................... M Q P E K Q D I Q P K K Q D I E N L K D V L A N Q K G L S Y K T I S H I E K L Y L A V G Y S I F S R A D L I A I L T L T ....................................................................................................................................... Protein_Len: 31 Strand: - Start: 340 End: 432 ................................................................................................................................................................................................................................................................................................................................................... F D A N N F L Y F S L S L S F I L K D L R N F N N N G D K A M ................................................................................................... Protein_Len: 32 Strand: - Start: 258 End: 353 ................................................................................................................................................................................................................................................................. E I K E R A S R I A I K V S V A E G E E S R S P F I S F I L M M .................................................................................................................................................................................. Protein_Len: 43 Strand: - Start: 46 End: 174 ............................................. M I A F F V Q F Y S R V K K G F F L I N L S L I L I N L R F F L I N L R F F L I N F M ..................................................................................................................................................................................................................................................................................................................................................................... Protein_Len: 34 Strand: - Start: 3 End: 104 .. S F H P P N Q A Y I R C C S C L R S F C K F I H G C K K A S F Y F M ........................................................................................................................................................................................................................................................................................................................................................................................................................................... Protein_Len: 32 Strand: - Start: 2 End: 97 . L F T R H T K P T F G A V A V Y D R F V S S F I V A S K Q R F M .................................................................................................................................................................................................................................................................................................................................................................................................................................................. taagaaaagtgcggtgggttttgggcgtaaatccggcaacagctacataatcgcgaaaaacacttgaaaatatgaccgcacttttttgccgaaaaatagaatattcaaacttaaaatcaggatattcaacctgaaaaacaggatattcaacctaaaaaacaggatattgaaaatctgaaagacgttttagcaaatcaaaaagggctttcatataaaactatcagtcacattgaaaaattatatctggcagtcggttattctattttttcccgcgctgaccttattgctattttaacgcttactgcctcgccttcctccgatctgcttggaaaaatgctaaaaatcagcattattaaaaaggtagaaggacaaggaaagggaaaatatcagtttatctaatcggttaaaattattgttcccatctttagcgatgacataatttcactatcaaatcccaaaatttacaaaaaacctgttctatatcaataaatccatgctttttgtaggtctatcctagtgtttaggagtatg 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================================================ taagaaaagtgcggtgggttttgggcgtaaatccggcaacagctacataatcgcgaaaaacacttgaaaatatgaccgcacttttttgccgaaaaatagaatattcaaacttaaaatcaggatattcaacctgaaaaacaggatattcaacctaaaaaacaggatattgaaaatctgaaagacgttttagcaaatcaaaaagggctttcatataaaactatcagtcacattgaaaaattatatctggcagtcggttattctattttttcccgcgctgaccttattgctattttaacgcttactgcctcgccttcctccgatctgcttggaaaaatgctaaaaatcagcattattaaaaaggtagaaggacaaggaaagggaaaatatcagtttatctaatcggttaaaattattgttcccatctttagcgatgacataatttcactatcaaatcccaaaatttacaaaaaacctgttctatatcaataaatccatgctttttgtaggtctatcctagtgtttaggagtatg Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: AA02697:AA02698|AA02697:AA02698:hydrogenase 3 maturation protease:formate dehydrogenase H, selenopolypeptide subunit:->->:1880469..1880999 531 taagaaaagtgcggtgggttttgggcgtaaatccggcaacagctacataatcgcgaaaaacacttgaaaatatgaccgcacttttttgccgaaaaatagaatattcaaacttaaaatcaggatattcaacctgaaaaacaggatattcaacctaaaaaacaggatattgaaaatctgaaagacgttttagcaaatcaaaaagggctttcatataaaactatcagtcacattgaaaaattatatctggcagtcggttattctattttttcccgcgctgaccttattgctattttaacgcttactgcctcgccttcctccgatctgcttggaaaaatgctaaaaatcagcattattaaaaaggtagaaggacaaggaaagggaaaatatcagtttatctaatcggttaaaattattgttcccatctttagcgatgacataatttcactatcaaatcccaaaatttacaaaaaacctgttctatatcaataaatccatgctttttgtaggtctatcctagtgtttaggagtatg Intra-Species Hit: Count: 1 Min: 1 Max: 531 Len: 531 Subject: aact_AA02697_AA02698|hydrogenase 3 maturation protease:formate dehydrogenase H, selenopolypeptide subunit|POSITIVE:POSITIVE|[1880469,1880999]|531 HSP 1 e-value: 0.0 bit: 1053.0 Len: 531 Query Start:1 Query End:531 Subject Strand: POSITIVE Subject Start: 1 Subject End: 531 taagaaaagtgcggtgggttttgggcgtaaatccggcaacagctacataatcgcgaaaaacacttgaaaatatgaccgcacttttttgccgaaaaatagaatattcaaacttaaaatcaggatattcaacctgaaaaacaggatattcaacctaaaaaacaggatattgaaaatctgaaagacgttttagcaaatcaaaaagggctttcatataaaactatcagtcacattgaaaaattatatctggcagtcggttattctattttttcccgcgctgaccttattgctattttaacgcttactgcctcgccttcctccgatctgcttggaaaaatgctaaaaatcagcattattaaaaaggtagaaggacaaggaaagggaaaatatcagtttatctaatcggttaaaattattgttcccatctttagcgatgacataatttcactatcaaatcccaaaatttacaaaaaacctgttctatatcaataaatccatgctttttgtaggtctatcctagtgtttaggagtatg taagaaaagtgcggtgggttttgggcgtaaatccggcaacagctacataatcgcgaaaaacacttgaaaatatgaccgcacttttttgccgaaaaatagaatattcaaacttaaaatcaggatattcaacctgaaaaacaggatattcaacctaaaaaacaggatattgaaaatctgaaagacgttttagcaaatcaaaaagggctttcatataaaactatcagtcacattgaaaaattatatctggcagtcggttattctattttttcccgcgctgaccttattgctattttaacgcttactgcctcgccttcctccgatctgcttggaaaaatgctaaaaatcagcattattaaaaaggtagaaggacaaggaaagggaaaatatcagtttatctaatcggttaaaattattgttcccatctttagcgatgacataatttcactatcaaatcccaaaatttacaaaaaacctgttctatatcaataaatccatgctttttgtaggtctatcctagtgtttaggagtatg Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAGAAAAGUGCGGUGGGUUUUGGGCGUAAAUCCGGCAACAGCUACAUAAUCGCGAAAAACACUUGAAAAUAUGACCGCACUUUUUUGCCGAAAAAUAGAAUAUUCAAACUUAAAAUCAGGAUAUUCAACCUGAAAAACAGGAUAUUCAACCUAAAAAACAGGAUAUUGAAAAUCUGAAAGACGUUUUAGCAAAUCAAAAAGGGCUUUCAUAUAAAACUAUCAGUCACAUUGAAAAAUUAUAUCUGGCAGUCGGUUAUUCUAUUUUUUCCCGCGCUGACCUUAUUGCUAUUUUAACGCUUACUGCCUCGCCUUCCUCCGAUCUGCUUGGAAAAAUGCUAAAAAUCAGCAUUAUUAAAAAGGUAGAAGGACAAGGAAAGGGAAAAUAUCAGUUUAUCUAAUCGGUUAAAAUUAUUGUUCCCAUCUUUAGCGAUGACAUAAUUUCACUAUCAAAUCCCAAAAUUUACAAAAAACCUGUUCUAUAUCAAUAAAUCCAUGCUUUUUGUAGGUCUAUCCUAGUGUUUAGGAGUAUG ..(((((((((((((.(.(((..((.((......(....).((.........)).....)).))..)))...).)))))))))))))...........((((((((.............))))))))..((((((....((((((....(((((((((((((((((((((....(((((((.((((.((((((.((((....((((...(((......))).))))...))))............(((((((((..(.........)..))).)))).))...))))))....)))))))....(((..((((..(((..(((((((..((.((((((.......)))))).))....))))))).))).))))..))).......))))...........((((.(((((((.((...((((......))))))))))))).......((((......))))......)))).........))))))..))).)).))))).))))).))))))....))))))...... (-117.02) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CAUACUCCUAAACACUAGGAUAGACCUACAAAAAGCAUGGAUUUAUUGAUAUAGAACAGGUUUUUUGUAAAUUUUGGGAUUUGAUAGUGAAAUUAUGUCAUCGCUAAAGAUGGGAACAAUAAUUUUAACCGAUUAGAUAAACUGAUAUUUUCCCUUUCCUUGUCCUUCUACCUUUUUAAUAAUGCUGAUUUUUAGCAUUUUUCCAAGCAGAUCGGAGGAAGGCGAGGCAGUAAGCGUUAAAAUAGCAAUAAGGUCAGCGCGGGAAAAAAUAGAAUAACCGACUGCCAGAUAUAAUUUUUCAAUGUGACUGAUAGUUUUAUAUGAAAGCCCUUUUUGAUUUGCUAAAACGUCUUUCAGAUUUUCAAUAUCCUGUUUUUUAGGUUGAAUAUCCUGUUUUUCAGGUUGAAUAUCCUGAUUUUAAGUUUGAAUAUUCUAUUUUUCGGCAAAAAAGUGCGGUCAUAUUUUCAAGUGUUUUUCGCGAUUAUGUAGCUGUUGCCGGAUUUACGCCCAAAACCCACCGCACUUUUCUUA ........(((((..(((((((((((((..(((((((.(((..((((((....(((.(((..(((((((((((..(((.(((.(((.((((((((((((((.((((....((....))....(((((((..(((((.....)))))...........(((((.((((((.((........((((((((...))))))))..((......))..)).)))))))))))........))))))))))).....((.(((..(((...............))).))))).................)))))..)))))))))))).))).))).....))))))).))))..))))))......))))))))))))))))))))))...)))))))....(((((........)))))......)))))....................(((((((((((....((((...((((..((((((((.........)))).))))...))))..))))...))))))))))).... (-123.26) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 406 90 41 163 114 aact:AA02673|5end_gluconate_utilization_operon_repressor_1858913..1859143_POSITIVE 403 55 11 229 184 aact:AA00042|5end_hypothetical_protein_33810..34040_POSITIVE 402 100 53 90 41 aact:AA00952|5end_hemY_protein_homolog_657541..657771_POSITIVE 384 91 56 161 125 aact:AA02409|5end_DNA_ligase_1653315..1653545_POSITIVE 379 36 4 83 47 aact:AA02241|5end_molybdenum_cofactor_biosynthesis_protein_C_1523464..1523694_POSITIVE 372 319 271 47 3 aact:AA01755|5end_cobalt_membrane_transport_protein_1185825..1186055_POSITIVE 371 28 5 91 67 aact:AA00384|5end_conserved_hypothetical_protein_(possible_nitrogen_fixation_protein)_260108..260338_POSITIVE 369 95 56 144 106 aact:AA02963|5end_opacity_associated_protein_B_2072302..2072532_POSITIVE 369 89 47 75 30 aact:AA02589|5end_NAD(P)H_oxidoreductase_1800493..1800723_POSITIVE 366 36 3 86 51 aact:AA00264|5end_hypothetical_protein_185052..185282_POSITIVE 364 89 47 131 78 aact:AA02937|5end_conserved_hypothetical_protein_2056379..2056609_POSITIVE 363 54 11 56 2 aact:AA00957|5end_porphobilinogen_deaminase_(hydroxymethylbilane_synthase)_661006..661236_POSITIVE 363 28 5 132 107 aact:AA00679|5end_cytoplasmic_axial_filament_(Ribonuclease_G)_463288..463518_POSITIVE 362 50 3 222 165 aact:AA02928|5end_conserved_hypothetical_protein_2048361..2048591_POSITIVE 362 50 3 94 37 aact:AA02927|5end_hypothetical_protein_2048233..2048463_POSITIVE 360 310 268 229 182 aact:AA03014|5end_conserved_hypothetical_protein_2104815..2105045_POSITIVE 360 46 3 192 142 aact:AA02201|5end_transferrin-binding_protein_1_precursor_1498022..1498252_POSITIVE 359 45 6 191 149 aact:AA02177|5end_conserved_hypothetical_protein_1488963..1489193_POSITIVE 358 37 3 171 131 aact:AA00557|5end_nitrate/nitrite_sensor_protein_380408..380638_POSITIVE 357 57 11 145 100 aact:AA01673|5end_riboflavin_synthase,_alpha_chain_1131477..1131707_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 446 90 42 82 32 aact:AA01127|3end_energy_transducer_protein_773520..773670_POSITIVE 406 90 41 87 38 aact:AA02671|3end_gluconokinase_1858917..1859067_POSITIVE 382 44 8 143 105 aact:AA00041|3end_cytochrome_c-type_biogenesis_protein_33817..33967_POSITIVE 379 36 4 80 44 aact:AA02239|3end_molybdopterin_biosynthesis_protein_D_1523541..1523691_POSITIVE 371 28 5 85 61 aact:AA00383|3end_chloride_channel_protein_260182..260332_POSITIVE 369 95 56 47 9 aact:AA02962|3end_recombination_associated_protein_2072285..2072435_POSITIVE 369 89 47 72 27 aact:AA02587|3end_conserved_hypothetical_protein_1800570..1800720_POSITIVE 366 36 3 49 14 aact:AA00263|3end_ATP-dependent_RNA_helicase_185095..185245_POSITIVE 362 50 3 128 71 aact:AA02926|3end_hypothetical_protein_2048347..2048497_POSITIVE 359 45 6 114 72 aact:AA02175|3end_anthranilate_synthase_component_II_1488966..1489116_POSITIVE 358 37 3 125 85 aact:AA00555|3end_hypothetical_protein_380442..380592_POSITIVE 357 57 11 106 61 aact:AA01672|3end_conserved_hypothetical_protein_1131518..1131668_POSITIVE 355 46 4 150 93 aact:AA01978|3end_hypothetical_protein_1337257..1337407_POSITIVE 355 92 53 136 99 aact:AA01259|3end_protoporphyrinogen_oxidase_854943..855093_POSITIVE 352 48 7 110 62 aact:AA00523|3end_conserved_hypothetical_protein_358929..359079_POSITIVE 346 84 51 89 53 aact:AA02105|3end_killing_protein_1433290..1433440_POSITIVE 344 90 42 65 13 aact:AA00010|3end_transposase_orfB_fragment_6297..6447_POSITIVE 343 319 271 149 103 aact:AA01687|3end_TldD_protein_1139661..1139811_POSITIVE 342 319 271 49 3 aact:AA01817|3end_hypothetical_protein_1224400..1224550_POSITIVE 340 339 296 91 53 aact:AA01890|3end_cell-cycle_protein_1275967..1276117_POSITIVE