Origin IGS: acgataaacgcccggtaagtgcggtacgttggcgaggaattttttggcgtcgaaagtcataatgagattaattaaatcgagttctatagtgaaatgatttgaagcattatattcgtctaatctttaaagaaaaaagaaaatatccctctttagcaaagaggagttaggggagattggtcaatttaggtgcaaaatacgtta .........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 taacgtattttgcacctaaattgaccaatctcccctaactcctctttgctaaagagggatattttcttttttctttaaagattagacgaatataatgcttcaaatcatttcactatagaactcgatttaattaatctcattatgactttcgacgccaaaaaattcctcgccaacgtaccgcacttaccgggcgtttatcgt Mask Tandem Repeat Region ================================================ acgataaacgcccggtaagtgcggtacgttggcgaggaattttttggcgtcgaaagtcataatgagattaattaaatcgagttctatagtgaaatgatttgaagcattatattcgtctaatctttaaagaaaaaagaaaatatccctctttagcaaagaggagttaggggagattggtcaatttaggtgcaaaatacgtta Find is-nt database================================================ Query_seq: AA01954:AA01956|AA01954:AA01956:excinuclease ABC, subunit C:3-deoxy-manno-octulosonate cytidylyltransferase:->->:1322375..1322575 201 acgataaacgcccggtaagtgcggtacgttggcgaggaattttttggcgtcgaaagtcataatgagattaattaaatcgagttctatagtgaaatgatttgaagcattatattcgtctaatctttaaagaaaaaagaaaatatccctctttagcaaagaggagttaggggagattggtcaatttaggtgcaaaatacgtta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA01954:AA01956|AA01954:AA01956:excinuclease ABC, subunit C:3-deoxy-manno-octulosonate cytidylyltransferase:->->:1322375..1322575 201 acgataaacgcccggtaagtgcggtacgttggcgaggaattttttggcgtcgaaagtcataatgagattaattaaatcgagttctatagtgaaatgatttgaagcattatattcgtctaatctttaaagaaaaaagaaaatatccctctttagcaaagaggagttaggggagattggtcaatttaggtgcaaaatacgtta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA01954:AA01956|AA01954:AA01956:excinuclease ABC, subunit C:3-deoxy-manno-octulosonate cytidylyltransferase:->->:1322375..1322575 201 acgataaacgcccggtaagtgcggtacgttggcgaggaattttttggcgtcgaaagtcataatgagattaattaaatcgagttctatagtgaaatgatttgaagcattatattcgtctaatctttaaagaaaaaagaaaatatccctctttagcaaagaggagttaggggagattggtcaatttaggtgcaaaatacgtta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 acgataaacgcccggtaagtgcggtacgttggcgaggaattttttggcgtcgaaagtcataatgagattaattaaatcgagttctatagtgaaatgatttgaagcattatattcgtctaatctttaaagaaaaaagaaaatatccctctttagcaaagaggagttaggggagattggtcaatttaggtgcaaaatacgtta Predict ORF larger than 30AA ================================================ acgataaacgcccggtaagtgcggtacgttggcgaggaattttttggcgtcgaaagtcataatgagattaattaaatcgagttctatagtgaaatgatttgaagcattatattcgtctaatctttaaagaaaaaagaaaatatccctctttagcaaagaggagttaggggagattggtcaatttaggtgcaaaatacgtta 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================================================ acgataaacgcccggtaagtgcggtacgttggcgaggaattttttggcgtcgaaagtcataatgagattaattaaatcgagttctatagtgaaatgatttgaagcattatattcgtctaatctttaaagaaaaaagaaaatatccctctttagcaaagaggagttaggggagattggtcaatttaggtgcaaaatacgtta Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 81 HP_score: -4.1 Tail_Score: -5.58051 Start: 141 End: 166 Full_Region: ttgaccaatctcccc taactcctcttt gct aaagagggata ttttcttttttcttt ............................................................................................................................................taactcctctttgctaaagagggata................................... Find igs database================================================ Query_seq: AA01954:AA01956|AA01954:AA01956:excinuclease ABC, subunit C:3-deoxy-manno-octulosonate cytidylyltransferase:->->:1322375..1322575 201 acgataaacgcccggtaagtgcggtacgttggcgaggaattttttggcgtcgaaagtcataatgagattaattaaatcgagttctatagtgaaatgatttgaagcattatattcgtctaatctttaaagaaaaaagaaaatatccctctttagcaaagaggagttaggggagattggtcaatttaggtgcaaaatacgtta Intra-Species Hit: Count: 1 Min: 1 Max: 201 Len: 201 Subject: aact_AA01954_AA01956|excinuclease ABC, subunit C:3-deoxy-manno-octulosonate cytidylyltransferase|POSITIVE:POSITIVE|[1322375, 1322575]|201 HSP 1 e-value: 1.0E-110 bit: 398.0 Len: 201 Query Start:1 Query End:201 Subject Strand: POSITIVE Subject Start: 1 Subject End: 201 acgataaacgcccggtaagtgcggtacgttggcgaggaattttttggcgtcgaaagtcataatgagattaattaaatcgagttctatagtgaaatgatttgaagcattatattcgtctaatctttaaagaaaaaagaaaatatccctctttagcaaagaggagttaggggagattggtcaatttaggtgcaaaatacgtta acgataaacgcccggtaagtgcggtacgttggcgaggaattttttggcgtcgaaagtcataatgagattaattaaatcgagttctatagtgaaatgatttgaagcattatattcgtctaatctttaaagaaaaaagaaaatatccctctttagcaaagaggagttaggggagattggtcaatttaggtgcaaaatacgtta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ ACGAUAAACGCCCGGUAAGUGCGGUACGUUGGCGAGGAAUUUUUUGGCGUCGAAAGUCAUAAUGAGAUUAAUUAAAUCGAGUUCUAUAGUGAAAUGAUUUGAAGCAUUAUAUUCGUCUAAUCUUUAAAGAAAAAAGAAAAUAUCCCUCUUUAGCAAAGAGGAGUUAGGGGAGAUUGGUCAAUUUAGGUGCAAAAUACGUUA .((...((((..(.((....)).)..))))..))...((((((.((((.......))))....))))))..((((((((..(((......))).)))))))).(((((..(((.(.(((((((((................(..((((((.....))))))..)....))))))))).))))...)))))........... (-37.55) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAACGUAUUUUGCACCUAAAUUGACCAAUCUCCCCUAACUCCUCUUUGCUAAAGAGGGAUAUUUUCUUUUUUCUUUAAAGAUUAGACGAAUAUAAUGCUUCAAAUCAUUUCACUAUAGAACUCGAUUUAAUUAAUCUCAUUAUGACUUUCGACGCCAAAAAAUUCCUCGCCAACGUACCGCACUUACCGGGCGUUUAUCGU ..(((..((((((.........................((..((((((..(((((((((....)))))))))...))))))..)).(((((((((((...........(((......)))...((((.....)))).)))))))...))))..).))))).......((((...(((.......)))..)))).....))) (-25.70) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 449 56 13 197 163 aact:AA00270|5end_malonyl_coA-acyl_carrier_protein_transacylase_189361..189591_POSITIVE 391 49 9 79 41 aact:AA01417|5end_probable_4-diphosphocytidyl-2C-methyl-D-erthyritol_synthase_(MEP_cytidyltransferase)_(MCT)_953256..953486_POSITIVE 377 48 9 67 31 aact:AA00488|5end_purine_nucleoside_phosphorylase_338075..338305_POSITIVE 375 50 9 182 147 aact:AA00558|5end_UDP-n-acetylenolpyruvoylglucosamine_reductase_382126..382356_POSITIVE 371 50 9 185 129 aact:AA00039|5end_cytochrome_c-type_biogenesis_protein_30312..30542_POSITIVE 369 49 10 228 189 aact:AA02195|5end_oxaloacetate_decarboxylase_alpha_chain_1494501..1494731_POSITIVE 361 171 133 124 93 aact:AA01649|5end_maltose_ABC_transporter,_permease_protein_1117316..1117546_POSITIVE 360 53 12 77 32 aact:AA00550|5end_ferredoxin-type_protein_376444..376674_POSITIVE 359 50 9 175 131 aact:AA02899|5end_oligopeptide_ABC_transporter,_ATP-binding_protein_2030063..2030293_POSITIVE 359 50 1 87 30 aact:AA00373|5end_CoA-transferase_(beta)_251013..251243_POSITIVE 358 58 11 172 128 aact:AA00957|5end_porphobilinogen_deaminase_(hydroxymethylbilane_synthase)_661006..661236_POSITIVE 352 59 12 83 29 aact:AA02239|5end_molybdopterin_biosynthesis_protein_D_1523216..1523446_POSITIVE 352 50 1 136 79 aact:AA00598|5end_hypothetical_protein_408080..408310_POSITIVE 352 49 10 34 6 aact:AA00128|5end_cation-transporting_ATPase_(probable_potassium/copper_transporter)_91971..92201_POSITIVE 351 49 9 40 7 aact:AA01099|5end_dimethyladenosine_transferase_758542..758772_POSITIVE 350 52 12 205 164 aact:AA02067|5end_conserved_hypothetical_protein;_possible_membrane_protein_1405233..1405463_POSITIVE 350 52 12 87 46 aact:AA02066|5end_hypothetical_protein_1405115..1405345_POSITIVE 350 48 7 49 8 aact:AA01968|5end_hypothetical_protein_1331738..1331968_POSITIVE 350 49 9 49 1 aact:AA01678|5end_possible_transcriptional_regulator_1133819..1134049_POSITIVE 349 59 22 52 5 aact:AA01878|5end_hydroxyacylglutathione_hydrolase_1264831..1265061_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 391 49 9 79 41 aact:AA01416|3end_2C-methyl-D-erythritol_2,4-cyclodiphosphate_953336..953486_POSITIVE 362 52 11 139 89 aact:AA02566|3end_PTS_system,_IIC_component_1788179..1788329_POSITIVE 360 53 12 74 29 aact:AA00549|3end_ferredoxin-type_protein_376521..376671_POSITIVE 359 50 1 72 15 aact:AA00372|3end_acetate_CoA-transferase_(alpha_subunit)_251078..251228_POSITIVE 352 59 12 79 25 aact:AA02237|3end_molybdopterin_biosynthesis_protein_E_chain_1523292..1523442_POSITIVE 352 50 1 133 76 aact:AA00596|3end_uridylate_kinase_408157..408307_POSITIVE 350 52 12 109 68 aact:AA02063|3end_23S_rRNA_psedouridine_synthase,_Rlu_family_protein_1405217..1405367_POSITIVE 346 49 9 120 68 aact:AA00927|3end_ATP-dependent_DNA_helicase_637777..637927_POSITIVE 345 52 12 151 102 aact:AA00425|3end_N-terminal_region_of_competence_protein_M_288073..288223_POSITIVE 341 40 9 68 38 aact:AA01750|3end_MTA/SAH_nucleosidase_[Includes:_5'-methylthioadenosine_nucleosidase;_S-adenosylhomocysteine_nucleosidase]_1184519..1184669_POSITIVE 340 53 12 76 44 aact:AA02460|3end_conserved_hypothetical_protein_1701075..1701225_POSITIVE 340 50 7 125 78 aact:AA00205|3end_ribose_ABC_transporter_protein_/_high_affinity_D-ribose_transport_protein_142658..142808_POSITIVE 338 68 22 69 21 aact:AA01359|3end_conserved_hypothetical_protein_921109..921259_POSITIVE 335 50 1 81 27 aact:AA01054|3end_conserved_hypothetical_protein_733940..734090_POSITIVE 334 49 9 150 109 aact:AA00954|3end_uroporphyrinogen_III_synthase_661070..661220_POSITIVE 334 49 1 96 48 aact:AA00530|3end_hypothetical_protein_362668..362818_POSITIVE 333 58 12 85 32 aact:AA00741|3end_possible_2-oxoglutarate/malate_transporter_508076..508226_POSITIVE 331 50 8 62 10 aact:AA01605|3end_hypothetical_protein_1085654..1085804_POSITIVE 330 49 1 99 44 aact:AA02666|3end_DNA_helicase_II_1856583..1856733_POSITIVE 327 46 10 106 69 aact:AA02335|3end_6-O-methylguanine-DNA_methyltransferase_1597430..1597580_POSITIVE