Origin IGS: taaatacgtcgtaaagtgcggtcataaaaaacatcattttttctgaccgcacttttgtttgtttttagcaccgatttcacttacgcgaccaaaaaaactaaacagcgtttaacataaatatttttttattagataaaatctaaaacatttctataaaaacaaaatattctaatatttttctagaaaaacatttgaaatcatctccccggctgttgcatattgaaaaccgacttaacaacatagttgagcaacacacaattcactcaaatgcaaacaacaacattcatcttacaggagatttctt .........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 aagaaatctcctgtaagatgaatgttgttgtttgcatttgagtgaattgtgtgttgctcaactatgttgttaagtcggttttcaatatgcaacagccggggagatgatttcaaatgtttttctagaaaaatattagaatattttgtttttatagaaatgttttagattttatctaataaaaaaatatttatgttaaacgctgtttagtttttttggtcgcgtaagtgaaatcggtgctaaaaacaaacaaaagtgcggtcagaaaaaatgatgttttttatgaccgcactttacgacgtattta Mask Tandem Repeat Region ================================================ taaatacgtcgtaaagtgcggtcataaaaaacatcattttttctgaccgcacttttgtttgtttttagcaccgatttcacttacgcgaccaaaaaaactaaacagcgtttaacataaatatttttttattagataaaatctaaaacatttctataaaaacaaaatattctaatatttttctagaaaaacatttgaaatcatctccccggctgttgcatattgaaaaccgacttaacaacatagttgagcaacacacaattcactcaaatgcaaacaacaacattcatcttacaggagatttctt Find is-nt database================================================ Query_seq: AA00218:AA00221|AA00218:AA00221:argininosuccinate lyase:NADP-specific glutamate dehydrogenase:->->:152272..152575 304 taaatacgtcgtaaagtgcggtcataaaaaacatcattttttctgaccgcacttttgtttgtttttagcaccgatttcacttacgcgaccaaaaaaactaaacagcgtttaacataaatatttttttattagataaaatctaaaacatttctataaaaacaaaatattctaatatttttctagaaaaacatttgaaatcatctccccggctgttgcatattgaaaaccgacttaacaacatagttgagcaacacacaattcactcaaatgcaaacaacaacattcatcttacaggagatttctt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA00218:AA00221|AA00218:AA00221:argininosuccinate lyase:NADP-specific glutamate dehydrogenase:->->:152272..152575 304 taaatacgtcgtaaagtgcggtcataaaaaacatcattttttctgaccgcacttttgtttgtttttagcaccgatttcacttacgcgaccaaaaaaactaaacagcgtttaacataaatatttttttattagataaaatctaaaacatttctataaaaacaaaatattctaatatttttctagaaaaacatttgaaatcatctccccggctgttgcatattgaaaaccgacttaacaacatagttgagcaacacacaattcactcaaatgcaaacaacaacattcatcttacaggagatttctt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA00218:AA00221|AA00218:AA00221:argininosuccinate lyase:NADP-specific glutamate dehydrogenase:->->:152272..152575 304 taaatacgtcgtaaagtgcggtcataaaaaacatcattttttctgaccgcacttttgtttgtttttagcaccgatttcacttacgcgaccaaaaaaactaaacagcgtttaacataaatatttttttattagataaaatctaaaacatttctataaaaacaaaatattctaatatttttctagaaaaacatttgaaatcatctccccggctgttgcatattgaaaaccgacttaacaacatagttgagcaacacacaattcactcaaatgcaaacaacaacattcatcttacaggagatttctt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taaatacgtcgtaaagtgcggtcataaaaaacatcattttttctgaccgcacttttgtttgtttttagcaccgatttcacttacgcgaccaaaaaaactaaacagcgtttaacataaatatttttttattagataaaatctaaaacatttctataaaaacaaaatattctaatatttttctagaaaaacatttgaaatcatctccccggctgttgcatattgaaaaccgacttaacaacatagttgagcaacacacaattcactcaaatgcaaacaacaacattcatcttacaggagatttctt Predict ORF larger than 30AA ================================================ Protein_Len: 52 Strand: + Start: 147 End: 302 .................................................................................................................................................. M S I K T K Y S N I F L E K H L K S S P R L L H I E N R L N N I V E Q H T I H S N A N N N I H L T G D F .. Protein_Len: 39 Strand: - Start: 143 End: 259 .............................................................................................................................................. F M E I F V F Y E L I K R S F C K F D D G R S N C I S F R S L L M T S C C V M ............................................. taaatacgtcgtaaagtgcggtcataaaaaacatcattttttctgaccgcacttttgtttgtttttagcaccgatttcacttacgcgaccaaaaaaactaaacagcgtttaacataaatatttttttattagataaaatctaaaacatttctataaaaacaaaatattctaatatttttctagaaaaacatttgaaatcatctccccggctgttgcatattgaaaaccgacttaacaacatagttgagcaacacacaattcactcaaatgcaaacaacaacattcatcttacaggagatttctt 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================================================ taaatacgtcgtaaagtgcggtcataaaaaacatcattttttctgaccgcacttttgtttgtttttagcaccgatttcacttacgcgaccaaaaaaactaaacagcgtttaacataaatatttttttattagataaaatctaaaacatttctataaaaacaaaatattctaatatttttctagaaaaacatttgaaatcatctccccggctgttgcatattgaaaaccgacttaacaacatagttgagcaacacacaattcactcaaatgcaaacaacaacattcatcttacaggagatttctt Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 100 HP_score: -13.8 Tail_Score: -2.74515 Start: 17 End: 51 Full_Region: aaaaacaaacaaaag tgcggtcagaaaaaat gat gttttttatgaccgca ctttacgacgtattt ................tgcggtcagaaaaaatgatgttttttatgaccgca............................................................................................................................................................................................................................................................. TransTerm Strand: - Conf: 81 HP_score: -3.6 Tail_Score: -5.52986 Start: 98 End: 112 Full_Region: aaaaaaatatttatg ttaaac gct gtttag tttttttggtcgcgt .................................................................................................ttaaacgctgtttag................................................................................................................................................................................................ Find igs database================================================ Query_seq: AA00218:AA00221|AA00218:AA00221:argininosuccinate lyase:NADP-specific glutamate dehydrogenase:->->:152272..152575 304 taaatacgtcgtaaagtgcggtcataaaaaacatcattttttctgaccgcacttttgtttgtttttagcaccgatttcacttacgcgaccaaaaaaactaaacagcgtttaacataaatatttttttattagataaaatctaaaacatttctataaaaacaaaatattctaatatttttctagaaaaacatttgaaatcatctccccggctgttgcatattgaaaaccgacttaacaacatagttgagcaacacacaattcactcaaatgcaaacaacaacattcatcttacaggagatttctt Intra-Species Hit: Count: 1 Min: 1 Max: 304 Len: 304 Subject: aact_AA00218_AA00221|argininosuccinate lyase:NADP-specific glutamate dehydrogenase|POSITIVE:POSITIVE|[152272,152575]|304 HSP 1 e-value: 2.0E-53 bit: 210.0 Len: 106 Query Start:199 Query End:304 Subject Strand: POSITIVE Subject Start: 199 Subject End: 304 ......................................................................................................................................................................................................catctccccggctgttgcatattgaaaaccgacttaacaacatagttgagcaacacacaattcactcaaatgcaaacaacaacattcatcttacaggagatttctt ......................................................................................................................................................................................................catctccccggctgttgcatattgaaaaccgacttaacaacatagttgagcaacacacaattcactcaaatgcaaacaacaacattcatcttacaggagatttctt HSP 2 e-value: 3.0E-49 bit: 196.0 Len: 120 Query Start:1 Query End:120 Subject Strand: POSITIVE Subject Start: 1 Subject End: 120 taaatacgtcgtaaagtgcggtcataaaaaacatcattttttctgaccgcacttttgtttgtttttagcaccgatttcacttacgcgaccnnnnnnnctaaacagcgtttaacataaata........................................................................................................................................................................................ taaatacgtcgtaaagtgcggtcataaaaaacatcattttttctgaccgcacttttgtttgtttttagcaccgatttcacttacgcgaccaaaaaaactaaacagcgtttaacataaata........................................................................................................................................................................................ Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAUACGUCGUAAAGUGCGGUCAUAAAAAACAUCAUUUUUUCUGACCGCACUUUUGUUUGUUUUUAGCACCGAUUUCACUUACGCGACCAAAAAAACUAAACAGCGUUUAACAUAAAUAUUUUUUUAUUAGAUAAAAUCUAAAACAUUUCUAUAAAAACAAAAUAUUCUAAUAUUUUUCUAGAAAAACAUUUGAAAUCAUCUCCCCGGCUGUUGCAUAUUGAAAACCGACUUAACAACAUAGUUGAGCAACACACAAUUCACUCAAAUGCAAACAACAACAUUCAUCUUACAGGAGAUUUCUU ((((.(((....((((((((((((.((((((.....)))))).))))))))))))....))).)))).....(((((((...((((..................))))....................((((((...))))))....((((((.(((((...............))))).))))))......))))))).(((((..(..((((((....(....).(((((.........))))).))))))..)..........((((..........)))).........)))))...... (-54.13) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAGAAAUCUCCUGUAAGAUGAAUGUUGUUGUUUGCAUUUGAGUGAAUUGUGUGUUGCUCAACUAUGUUGUUAAGUCGGUUUUCAAUAUGCAACAGCCGGGGAGAUGAUUUCAAAUGUUUUUCUAGAAAAAUAUUAGAAUAUUUUGUUUUUAUAGAAAUGUUUUAGAUUUUAUCUAAUAAAAAAAUAUUUAUGUUAAACGCUGUUUAGUUUUUUUGGUCGCGUAAGUGAAAUCGGUGCUAAAAACAAACAAAAGUGCGGUCAGAAAAAAUGAUGUUUUUUAUGACCGCACUUUACGACGUAUUUA ..(((((((((((..........((((((((......(((((..(........)..)))))..((((((..((.....))..)))))))))))))))))))....)))))).(((((((((.(((((((((.((((((((((((.........))))))))))))))))).))))....)))))))))((((((........((((((........((((....)))).......))))))........((((((((((((.(((((((...))))))).))))))))))))..)))))).... (-73.36) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 520 59 13 199 152 aact:AA02902|5end_aerobic_respiration_control_protein_2031171..2031401_POSITIVE 501 57 11 190 142 aact:AA02893|5end_oligopeptide_transport_system_permease_protein,_N-terminal_2027201..2027431_POSITIVE 490 56 13 76 33 aact:AA02002|5end_hypothetical_protein_1360196..1360426_POSITIVE 482 56 12 178 134 aact:AA00654|5end_conserved_hypothetical_protein_447772..448002_POSITIVE 482 56 12 88 44 aact:AA00653|5end_hypothetical_protein_447682..447912_POSITIVE 478 55 13 201 159 aact:AA01830|5end_2,3-cyclic-nucleotide_2-phosphodiesterase_1231556..1231786_POSITIVE 478 55 13 48 6 aact:AA01829|5end_hypothetical_protein_1231403..1231633_POSITIVE 464 59 14 210 165 aact:AA00912|5end_short-chain_dehydrogenase_627200..627430_POSITIVE 464 59 14 98 53 aact:AA00910|5end_hypothetical_protein_627088..627318_POSITIVE 447 59 13 175 126 aact:AA01117|5end_signal_recognition_particle_protein_54_(GTP-binding_export_factor)_767919..768149_POSITIVE 425 60 13 175 124 aact:AA00721|5end_probable_beta-N-acetylhexosaminidase_(lacto-N-biosidase);_dispersin_B_494739..494969_POSITIVE 425 60 13 63 12 aact:AA00719|5end_hypothetical_protein_494627..494857_POSITIVE 414 60 13 99 54 aact:AA00235|5end_hypothetical_protein_168596..168826_POSITIVE 411 56 11 164 116 aact:AA01967|5end_hypothetical_protein_1331511..1331741_POSITIVE 403 60 16 145 104 aact:AA01530|5end_conserved_hypothetical_protein_1027308..1027538_POSITIVE 402 56 13 80 39 aact:AA02213|5end_hypothetical_protein_1506996..1507226_POSITIVE 400 58 13 97 54 aact:AA00233|5end_hypothetical_protein_162339..162569_POSITIVE 394 60 11 167 120 aact:AA02340|5end_hypothetical_protein_1598887..1599117_POSITIVE 394 56 13 152 106 aact:AA01648|5end_alpha-amylase_protein;_1,4-alpha-D-glucan_glucanohydrolase_1115170..1115400_POSITIVE 394 56 13 51 5 aact:AA01646|5end_hypothetical_protein_1115069..1115299_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 520 59 13 86 39 aact:AA02899|3end_oligopeptide_ABC_transporter,_ATP-binding_protein_2031138..2031288_POSITIVE 501 57 11 86 38 aact:AA02892|3end_oligopeptide_ABC_transporter,_periplasmic-binding_protein_2027177..2027327_POSITIVE 464 59 14 113 68 aact:AA00909|3end_molybdopterin-guanine_dinucleotide_biosynthesis_protein_B_627183..627333_POSITIVE 425 60 13 79 28 aact:AA00718|3end_ABC-related_ATP-binding_protein;_MRP_protein_494723..494873_POSITIVE 415 56 13 87 46 aact:AA02280|3end_conserved_hypothetical_protein_1552767..1552917_POSITIVE 414 60 13 64 19 aact:AA00234|3end_collagen_adhesin_168641..168791_POSITIVE 411 56 11 87 39 aact:AA01966|3end_2-amino-4-hydroxy-6-hydroxymethyldihydropteridine_pyrophosphokinase_1331514..1331664_POSITIVE 411 73 44 87 56 aact:AA01224|3end_CTP_synthase_837899..838049_POSITIVE 410 56 18 39 1 aact:AA02001|3end_conserved_hypothetical_protein_1360239..1360389_POSITIVE 402 56 13 82 41 aact:AA02212|3end_ribonucleoside-diphosphate_reductase_beta_chain_1507078..1507228_POSITIVE 400 58 13 77 34 aact:AA00231|3end_long-chain-fatty-acid--CoA_ligase_162399..162549_POSITIVE 394 60 11 85 38 aact:AA02338|3end_conserved_hypothetical_protein;_possible_integral_membrane_protein_1598885..1599035_POSITIVE 394 56 13 86 40 aact:AA01645|3end_ferric_transport_ABC-related_ATP-binding_protein_1115184..1115334_POSITIVE 391 55 13 78 36 aact:AA00218|3end_argininosuccinate_lyase_152211..152361_POSITIVE 387 56 11 76 30 aact:AA02112|3end_cell_division_protein_1442184..1442334_POSITIVE 385 58 13 68 25 aact:AA01796|3end_branched-chain_amino_acid_aminotransferase_1212168..1212318_POSITIVE 372 59 13 71 26 aact:AA02035|3end_translation_initiation_factor_IF-3_1386905..1387055_POSITIVE 371 58 13 71 28 aact:AA01963|3end_dnaK_suppressor_protein_1329438..1329588_POSITIVE 369 56 12 51 8 aact:AA02992|3end_RNA_methyltransferase_2091740..2091890_POSITIVE 363 56 13 150 108 aact:AA00697|3end_hypothetical_protein_477174..477324_POSITIVE