Origin IGS: taacgtcaatcatagcaggtcaaaagaaagcaaaaatgcagccgaaaatggctgcattttttatgctaaaaacgttttgattctagaccgcactttggcttttagcccttaaagtgcggttgtctttcccggcgttttttta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taaaaaaacgccgggaaagacaaccgcactttaagggctaaaagccaaagtgcggtctagaatcaaaacgtttttagcataaaaaatgcagccattttcggctgcatttttgctttcttttgacctgctatgattgacgtta Mask Tandem Repeat Region ================================================ taacgtcaatcatagcaggtcaaaagaaagcaaaaatgcagccgaaaatggctgcattttttatgctaaaaacgttttgattctagaccgcactttggcttttagcccttaaagtgcggttgtctttcccggcgttttttta Find is-nt database================================================ Query_seq: AA00388:AA00390|AA00388:AA00390:uridine phosphorylase; possible 5'-methylthioadenosine phosphorylase; purine nucleoside phosphorylase:permease:->->:263687..263828 142 taacgtcaatcatagcaggtcaaaagaaagcaaaaatgcagccgaaaatggctgcattttttatgctaaaaacgttttgattctagaccgcactttggcttttagcccttaaagtgcggttgtctttcccggcgttttttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA00388:AA00390|AA00388:AA00390:uridine phosphorylase; possible 5'-methylthioadenosine phosphorylase; purine nucleoside phosphorylase:permease:->->:263687..263828 142 taacgtcaatcatagcaggtcaaaagaaagcaaaaatgcagccgaaaatggctgcattttttatgctaaaaacgttttgattctagaccgcactttggcttttagcccttaaagtgcggttgtctttcccggcgttttttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA00388:AA00390|AA00388:AA00390:uridine phosphorylase; possible 5'-methylthioadenosine phosphorylase; purine nucleoside phosphorylase:permease:->->:263687..263828 142 taacgtcaatcatagcaggtcaaaagaaagcaaaaatgcagccgaaaatggctgcattttttatgctaaaaacgttttgattctagaccgcactttggcttttagcccttaaagtgcggttgtctttcccggcgttttttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taacgtcaatcatagcaggtcaaaagaaagcaaaaatgcagccgaaaatggctgcattttttatgctaaaaacgttttgattctagaccgcactttggcttttagcccttaaagtgcggttgtctttcccggcgttttttta Predict ORF larger than 30AA ================================================ taacgtcaatcatagcaggtcaaaagaaagcaaaaatgcagccgaaaatggctgcattttttatgctaaaaacgttttgattctagaccgcactttggcttttagcccttaaagtgcggttgtctttcccggcgttttttta 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================================================ taacgtcaatcatagcaggtcaaaagaaagcaaaaatgcagccgaaaatggctgcattttttatgctaaaaacgttttgattctagaccgcactttggcttttagcccttaaagtgcggttgtctttcccggcgttttttta Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 81 HP_score: -10.3 Tail_Score: -3.39506 Start: 31 End: 62 Full_Region: aaacgtttttagcat aaaaaatgcagcc attttc ggctgcatttttg ctttcttttgacctg ..............................aaaaaatgcagccattttcggctgcatttttg................................................................................ TransTerm Strand: - Conf: 91 HP_score: -9.3 Tail_Score: -5.1517 Start: 37 End: 56 Full_Region: ttttagcataaaaaa tgcagcc attttc ggctgca tttttgctttctttt ....................................tgcagccattttcggctgca...................................................................................... TransTerm Strand: + Conf: 57 HP_score: -4.5 Tail_Score: -3.81488 Start: 88 End: 119 Full_Region: CGTTTTGATTCTAGA CCGCACTTTGG CTTTTAGCCC TTAAAGTGCGG TTGTCTTTCCCGGCG .......................................................................................CCGCACTTTGGCTTTTAGCCCTTAAAGTGCGG....................... Find igs database================================================ Query_seq: AA00388:AA00390|AA00388:AA00390:uridine phosphorylase; possible 5'-methylthioadenosine phosphorylase; purine nucleoside phosphorylase:permease:->->:263687..263828 142 taacgtcaatcatagcaggtcaaaagaaagcaaaaatgcagccgaaaatggctgcattttttatgctaaaaacgttttgattctagaccgcactttggcttttagcccttaaagtgcggttgtctttcccggcgttttttta Intra-Species Hit: Count: 1 Min: 1 Max: 134 Len: 134 Subject: aact_AA00388_AA00390|uridine phosphorylase; possible 5'-methylthioadenosine phosphorylase; purine nucleoside phosphorylase:permease|POSITIVE:POSITIVE|[263687, 263828]|142 HSP 1 e-value: 2.0E-70 bit: 266.0 Len: 134 Query Start:1 Query End:134 Subject Strand: POSITIVE Subject Start: 1 Subject End: 134 taacgtcaatcatagcaggtcaaaagaaagcaaaaatgcagccgaaaatggctgcattttttatgctaaaaacgttttgattctagaccgcactttggcttttagcccttaaagtgcggttgtctttcccggcg........ taacgtcaatcatagcaggtcaaaagaaagcaaaaatgcagccgaaaatggctgcattttttatgctaaaaacgttttgattctagaccgcactttggcttttagcccttaaagtgcggttgtctttcccggcg........ Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAACGUCAAUCAUAGCAGGUCAAAAGAAAGCAAAAAUGCAGCCGAAAAUGGCUGCAUUUUUUAUGCUAAAAACGUUUUGAUUCUAGACCGCACUUUGGCUUUUAGCCCUUAAAGUGCGGUUGUCUUUCCCGGCG ...((((.((((.(((...((....)).(((((((((((((((......)))))))))))...))))......))).))))....((((((((((((((.....)))...))))))))))).........)))) (-47.20) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CGCCGGGAAAGACAACCGCACUUUAAGGGCUAAAAGCCAAAGUGCGGUCUAGAAUCAAAACGUUUUUAGCAUAAAAAAUGCAGCCAUUUUCGGCUGCAUUUUUGCUUUCUUUUGACCUGCUAUGAUUGACGUUA .((.((((((((..((((((((((...(((.....)))))))))))))...................((((...(((((((((((......))))))))))))))).))))))..)).)).............. (-45.60) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 527 127 86 158 119 aact:AA00511|5end_nicotinamide_mononucleotide_transporter_353884..354114_POSITIVE 486 127 86 164 123 aact:AA00464|5end_conserved_hypothetical_protein_323912..324142_POSITIVE 475 120 71 165 112 aact:AA02410|5end_cell_division_protein_1655429..1655659_POSITIVE 466 128 86 167 128 aact:AA01519|5end_conserved_hypothetical_protein_1021794..1022024_POSITIVE 410 120 71 147 97 aact:AA00792|5end_conserved_hypothetical_protein_543142..543372_POSITIVE 409 120 73 145 99 aact:AA00987|5end_tetracenomycin_polyketide_synthesis_O-methyltransferase_689745..689975_POSITIVE 403 122 83 223 186 aact:AA00976|5end_conserved_hypothetical_protein_681206..681436_POSITIVE 402 120 71 145 97 aact:AA01603|5end_oligopeptidase_A_1082898..1083128_POSITIVE 390 127 86 109 68 aact:AA01986|5end_pyruvate_dehydrogenase_complex_E2_1348753..1348983_POSITIVE 383 123 83 149 111 aact:AA02252|5end_conserved_hypothetical_protein_1533840..1534070_POSITIVE 383 130 86 162 122 aact:AA00075|5end_conserved_hypothetical_protein_54963..55193_POSITIVE 379 120 71 176 126 aact:AA00386|5end_aspartate--ammonia_ligase_(asparagine_synthetase_A)_261150..261380_POSITIVE 377 123 86 146 111 aact:AA01936|5end_tyrosyl-tRNA_synthetase_1307043..1307273_POSITIVE 377 108 65 132 90 aact:AA01291|5end_excinuclease_ABC_subunit_A_872829..873059_POSITIVE 373 120 71 148 96 aact:AA00552|5end_periplasmic_nitrate_reductase_precursor_377331..377561_POSITIVE 372 123 87 207 170 aact:AA02288|5end_conserved_hypothetical_protein_1558590..1558820_POSITIVE 369 120 71 146 97 aact:AA02937|5end_conserved_hypothetical_protein_2056379..2056609_POSITIVE 364 119 71 164 110 aact:AA02999|5end_conserved_hypothetical_protein_2094275..2094505_POSITIVE 364 120 72 231 183 aact:AA02821|5end_ribosomal-protein-alanine_acetyltransferase_1982255..1982485_POSITIVE 364 126 86 163 112 aact:AA01537|5end_possible_glucokinase_regulatory_protein_1030616..1030846_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 527 127 86 77 38 aact:AA00508|3end_SAM-dependent_methyltransferase_353883..354033_POSITIVE 486 127 86 70 29 aact:AA00463|3end_class_B_acid_phosphatase_323898..324048_POSITIVE 475 120 71 60 7 aact:AA02409|3end_DNA_ligase_1655404..1655554_POSITIVE 466 128 86 84 45 aact:AA01517|3end_peptidyl-prolyl_cis-trans_isomerase;_macrophage_infectivity_protein_1021791..1021941_POSITIVE 465 127 84 107 64 aact:AA02135|3end_hypothetical_protein_1459067..1459217_POSITIVE 465 127 84 123 80 aact:AA02135.1|3end_hypothetical_protein_1459083..1459233_POSITIVE 410 120 71 59 9 aact:AA00790|3end_recombination_DNA_repair_protein_543134..543284_POSITIVE 409 120 73 61 15 aact:AA00985|3end_transcriptional_regulator_(LysR_family)_689741..689891_POSITIVE 403 122 83 64 27 aact:AA00974|3end_glucosamine-fructose-6-phosphate_681127..681277_POSITIVE 390 127 86 77 36 aact:AA01985|3end_pyruvate_dehydrogenase,_E1_component_1348801..1348951_POSITIVE 383 123 83 72 34 aact:AA02251|3end_biotin_sulfoxide_reductase;_Trimethylamine-N-oxide_reductase_precursor_1533843..1533993_POSITIVE 383 130 86 66 26 aact:AA00072|3end_conserved_hypothetical_protein_54947..55097_POSITIVE 379 120 71 114 64 aact:AA00384|3end_conserved_hypothetical_protein_(possible_nitrogen_fixation_protein)_261168..261318_POSITIVE 377 108 65 71 29 aact:AA01289|3end_hypothetical_protein_872848..872998_POSITIVE 377 80 31 149 100 aact:AA01259|3end_protoporphyrinogen_oxidase_854943..855093_POSITIVE 373 120 71 140 88 aact:AA00551|3end_hypothetical_protein_377403..377553_POSITIVE 372 123 87 73 36 aact:AA02286|3end_sugar_ABC_transporter,_ATP-binding_protein_1558536..1558686_POSITIVE 370 67 29 62 24 aact:AA00388|3end_uridine_phosphorylase;_possible_5'-methylthioadenosine_phosphorylase;_purine_nucleoside_phosphorylase_263626..263776_POSITIVE 369 120 71 60 11 aact:AA02936|3end_lipoprotein_E_precursor;_outer_membrane_protein_P4_precursor;_acid_phosphatase_2056373..2056523_POSITIVE 360 122 86 60 24 aact:AA00612|3end_acyl-(acyl-carrier-protein)-UDP-N-acetylglucosami_ne_418705..418855_POSITIVE