Origin IGS: taaaaccaaatcaaattgcaggctatattacacaacaagcggctcaccaatgcggtttggcagttggaacggcagtagtcggcggtgtatttgatgtcacagcaatgacc .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 ggtcattgctgtgacatcaaatacaccgccgactactgccgttccaactgccaaaccgcattggtgagccgcttgttgtgtaatatagcctgcaatttgatttggtttta Mask Tandem Repeat Region ================================================ taaaaccaaatcaaattgcaggctatattacacaacaagcggctcaccaatgcggtttggcagttggaacggcagtagtcggcggtgtatttgatgtcacagcaatgacc Find is-nt database================================================ Query_seq: AA00937:AA00938|AA00937:AA00938:L-xylulokinase:L-xylulokinase:->->:647586..647695 110 taaaaccaaatcaaattgcaggctatattacacaacaagcggctcaccaatgcggtttggcagttggaacggcagtagtcggcggtgtatttgatgtcacagcaatgacc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA00937:AA00938|AA00937:AA00938:L-xylulokinase:L-xylulokinase:->->:647586..647695 110 taaaaccaaatcaaattgcaggctatattacacaacaagcggctcaccaatgcggtttggcagttggaacggcagtagtcggcggtgtatttgatgtcacagcaatgacc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA00937:AA00938|AA00937:AA00938:L-xylulokinase:L-xylulokinase:->->:647586..647695 110 taaaaccaaatcaaattgcaggctatattacacaacaagcggctcaccaatgcggtttggcagttggaacggcagtagtcggcggtgtatttgatgtcacagcaatgacc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taaaaccaaatcaaattgcaggctatattacacaacaagcggctcaccaatgcggtttggcagttggaacggcagtagtcggcggtgtatttgatgtcacagcaatgacc Predict ORF larger than 30AA ================================================ Protein_Len: 32 Strand: + Start: 15 End: 110 .............. M A G Y I T Q Q A A H Q C G L A V G T A V V G G V F D V T A M T Protein_Len: 31 Strand: - Start: 3 End: 95 .. F W I L N C A I N C L L R S V L A T Q C N S R C Y D A T Y K M ............... taaaaccaaatcaaattgcaggctatattacacaacaagcggctcaccaatgcggtttggcagttggaacggcagtagtcggcggtgtatttgatgtcacagcaatgacc 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================================================ taaaaccaaatcaaattgcaggctatattacacaacaagcggctcaccaatgcggtttggcagttggaacggcagtagtcggcggtgtatttgatgtcacagcaatgacc Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: AA00937:AA00938|AA00937:AA00938:L-xylulokinase:L-xylulokinase:->->:647586..647695 110 taaaaccaaatcaaattgcaggctatattacacaacaagcggctcaccaatgcggtttggcagttggaacggcagtagtcggcggtgtatttgatgtcacagcaatgacc Intra-Species Hit: Count: 1 Min: 1 Max: 110 Len: 110 Subject: aact_AA00937_AA00938|L-xylulokinase:L- xylulokinase|POSITIVE:POSITIVE|[647586,647695]|110 HSP 1 e-value: 3.0E-56 bit: 218.0 Len: 110 Query Start:1 Query End:110 Subject Strand: POSITIVE Subject Start: 1 Subject End: 110 taaaaccaaatcaaattgcaggctatattacacaacaagcggctcaccaatgcggtttggcagttggaacggcagtagtcggcggtgtatttgatgtcacagcaatgacc taaaaccaaatcaaattgcaggctatattacacaacaagcggctcaccaatgcggtttggcagttggaacggcagtagtcggcggtgtatttgatgtcacagcaatgacc Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAACCAAAUCAAAUUGCAGGCUAUAUUACACAACAAGCGGCUCACCAAUGCGGUUUGGCAGUUGGAACGGCAGUAGUCGGCGGUGUAUUUGAUGUCACAGCAAUGACC ......(((((...(((((.((((((.........(((((.((........)).)))))...((((...)))).)))))).)))))..)))))..((((......)))). (-26.40) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GGUCAUUGCUGUGACAUCAAAUACACCGCCGACUACUGCCGUUCCAACUGCCAAACCGCAUUGGUGAGCCGCUUGUUGUGUAAUAUAGCCUGCAAUUUGAUUUGGUUUUA .(((((....))))).((((((....((((((....(((.(((..........))).)))))))))....((..((((((...))))))..)).)))))).......... (-21.90) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 454 90 47 201 159 aact:AA00553|5end_NapD_component_of_periplasmic_nitrate_reductase_379851..380081_POSITIVE 453 87 41 103 42 aact:AA01184|5end_hypothetical_protein_810838..811068_POSITIVE 421 87 51 197 155 aact:AA01056|5end_conserved_hypothetical_protein_733867..734097_POSITIVE 420 110 61 174 113 aact:AA01355|5end_large_subunit_pseudouridylate_synthase_D_917228..917458_POSITIVE 420 89 41 179 130 aact:AA00866|5end_conserved_hypothetical_protein_599925..600155_POSITIVE 420 88 41 65 11 aact:AA00747|5end_UTP--hexose-1-phosphate_uridylyltransferase_/_UDPglucose-hexose-1-phosphate_uridylyltransferas_512384..512614_POSITIVE 406 82 41 192 150 aact:AA02415|5end_hypothetical_protein_1658443..1658673_POSITIVE 398 87 43 194 159 aact:AA00507|5end_hypothetical_protein_352996..353226_POSITIVE 398 80 33 230 171 aact:AA00013|5end_hypothetical_protein_6695..6925_POSITIVE 395 88 41 180 118 aact:AA00957|5end_porphobilinogen_deaminase_(hydroxymethylbilane_synthase)_661006..661236_POSITIVE 394 88 44 60 6 aact:AA01099|5end_dimethyladenosine_transferase_758542..758772_POSITIVE 383 88 44 188 132 aact:AA02199|5end_hypothetical_protein_1497627..1497857_POSITIVE 380 85 41 86 28 aact:AA01473|5end_type_I_restriction-modification_system_S_(specificity_subunit)_989025..989255_POSITIVE 376 87 48 59 20 aact:AA00272|5end_3-oxoacyl-[acyl-carrier-protein]_synthase_III_190406..190636_POSITIVE 375 87 41 85 43 aact:AA01649|5end_maltose_ABC_transporter,_permease_protein_1117316..1117546_POSITIVE 368 90 42 186 138 aact:AA01878|5end_hydroxyacylglutathione_hydrolase_1264831..1265061_POSITIVE 368 99 51 219 161 aact:AA01207|5end_hypothetical_protein_826288..826518_POSITIVE 367 89 41 153 102 aact:AA00531|5end_DNA_polymerase_I_362621..362851_POSITIVE 364 99 51 49 1 aact:AA00292|5end_dihydrofolate_reductase_201800..202030_POSITIVE 362 89 44 74 33 aact:AA01419|5end_D-ribulose-phosphate-3_epimerase_954378..954608_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 453 87 41 87 26 aact:AA01183|3end_conserved_hypothetical_protein_810902..811052_POSITIVE 386 98 51 102 44 aact:AA00741|3end_possible_2-oxoglutarate/malate_transporter_508076..508226_POSITIVE 384 97 53 56 1 aact:AA01098|3end_bis(5'-nucleosyl)-tetraphosphatase_758603..758753_POSITIVE 380 85 41 139 81 aact:AA01472|3end_hypothetical_protein_989158..989308_POSITIVE 376 87 48 42 3 aact:AA00271|3end_hypothetical_protein_190469..190619_POSITIVE 371 73 47 149 122 aact:AA00552|3end_periplasmic_nitrate_reductase_precursor_379894..380044_POSITIVE 369 99 51 83 31 aact:AA01260|3end_hypothetical_protein_855758..855908_POSITIVE 367 89 41 120 69 aact:AA00530|3end_hypothetical_protein_362668..362818_POSITIVE 364 99 51 74 26 aact:AA00291|3end_hypothetical_protein_201905..202055_POSITIVE 361 107 61 72 17 aact:AA02066|3end_hypothetical_protein_1405314..1405464_POSITIVE 356 85 44 45 2 aact:AA00647|3end_protoporphyrinogen_oxidase_443314..443464_POSITIVE 354 90 42 96 48 aact:AA02051|3end_geranylgeranyl_pyrophosphate_synthase;_farnesyl-diphosphate_synthase_1398527..1398677_POSITIVE 351 89 48 76 12 aact:AA01987|3end_hypothetical_protein_1350620..1350770_POSITIVE 350 87 41 114 56 aact:AA02204|3end_hypothetical_protein_1501262..1501412_POSITIVE 348 97 52 110 51 aact:AA00244|3end_conserved_hypothetical_protein_(possible_deoxyribonuclease,_possible_hydrolase)_172812..172962_POSITIVE 343 86 42 117 62 aact:AA00425|3end_N-terminal_region_of_competence_protein_M_288073..288223_POSITIVE 342 86 42 145 105 aact:AA01124.1|3end_biopolymer_transport_protein_D_772752..772902_POSITIVE 342 86 42 144 104 aact:AA01125|3end_hypothetical_protein_772751..772901_POSITIVE 341 89 42 115 54 aact:AA02100|3end_lipoprotein_1430759..1430909_POSITIVE 341 74 37 41 6 aact:AA01885|3end_hydrogenase_nickel_incorporation_protein_1271535..1271685_POSITIVE