Origin IGS: aagcgggcggattgtacatcaaatcggcgcaaagcaggaggggaggcataaaaatcttgcgccgcaggttgccccgcagcgcaatggtattgatgaattcagctta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taagctgaattcatcaataccattgcgctgcggggcaacctgcggcgcaagatttttatgcctcccctcctgctttgcgccgatttgatgtacaatccgcccgctt Mask Tandem Repeat Region ================================================ aagcgggcggattgtacatcaaatcggcgcaaagcaggaggggaggcataaaaatcttgcgccgcaggttgccccgcagcgcaatggtattgatgaattcagctta Find is-nt database================================================ Query_seq: AA00528:AA00529|AA00528:AA00529:conserved hypothetical protein:outer membrane protein, Omp 18/16:->->:361764..361869 106 aagcgggcggattgtacatcaaatcggcgcaaagcaggaggggaggcataaaaatcttgcgccgcaggttgccccgcagcgcaatggtattgatgaattcagctta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA00528:AA00529|AA00528:AA00529:conserved hypothetical protein:outer membrane protein, Omp 18/16:->->:361764..361869 106 aagcgggcggattgtacatcaaatcggcgcaaagcaggaggggaggcataaaaatcttgcgccgcaggttgccccgcagcgcaatggtattgatgaattcagctta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA00528:AA00529|AA00528:AA00529:conserved hypothetical protein:outer membrane protein, Omp 18/16:->->:361764..361869 106 aagcgggcggattgtacatcaaatcggcgcaaagcaggaggggaggcataaaaatcttgcgccgcaggttgccccgcagcgcaatggtattgatgaattcagctta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aagcgggcggattgtacatcaaatcggcgcaaagcaggaggggaggcataaaaatcttgcgccgcaggttgccccgcagcgcaatggtattgatgaattcagctta Predict ORF larger than 30AA ================================================ Protein_Len: 31 Strand: + Start: 12 End: 104 ........... M Y I K S A Q S R R G G I K I L R R R L P R S A M V L M N S A .. Protein_Len: 32 Strand: + Start: 11 End: 106 .......... M V H Q I G A K Q E G R H K N L A P Q V A P Q R N G I D E F S L Protein_Len: 32 Strand: - Start: 3 End: 98 .. R A S Q V D F R R L A P P S A Y F D Q A A P Q G A A C H Y Q H M ........ Protein_Len: 31 Strand: - Start: 2 End: 94 . A P P N Y M L D A C L L L P P M F I K R R L N G R L A I T N M ............ aagcgggcggattgtacatcaaatcggcgcaaagcaggaggggaggcataaaaatcttgcgccgcaggttgccccgcagcgcaatggtattgatgaattcagctta 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================================================ aagcgggcggattgtacatcaaatcggcgcaaagcaggaggggaggcataaaaatcttgcgccgcaggttgccccgcagcgcaatggtattgatgaattcagctta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: AA00528:AA00529|AA00528:AA00529:conserved hypothetical protein:outer membrane protein, Omp 18/16:->->:361764..361869 106 aagcgggcggattgtacatcaaatcggcgcaaagcaggaggggaggcataaaaatcttgcgccgcaggttgccccgcagcgcaatggtattgatgaattcagctta Intra-Species Hit: Count: 1 Min: 1 Max: 106 Len: 106 Subject: aact_AA00528_AA00529|conserved hypothetical protein:outer membrane protein, Omp 18/16|POSITIVE:POSITIVE|[361764,361869]|106 HSP 1 e-value: 6.0E-54 bit: 210.0 Len: 106 Query Start:1 Query End:106 Subject Strand: POSITIVE Subject Start: 1 Subject End: 106 aagcgggcggattgtacatcaaatcggcgcaaagcaggaggggaggcataaaaatcttgcgccgcaggttgccccgcagcgcaatggtattgatgaattcagctta aagcgggcggattgtacatcaaatcggcgcaaagcaggaggggaggcataaaaatcttgcgccgcaggttgccccgcagcgcaatggtattgatgaattcagctta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAGCGGGCGGAUUGUACAUCAAAUCGGCGCAAAGCAGGAGGGGAGGCAUAAAAAUCUUGCGCCGCAGGUUGCCCCGCAGCGCAAUGGUAUUGAUGAAUUCAGCUUA ..((.(((.((((........)))).)).)...))..(((.(((..(((.((.(((((((((.((.((....)).)).)))))).))).)).)))..)))..))). (-31.20) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAGCUGAAUUCAUCAAUACCAUUGCGCUGCGGGGCAACCUGCGGCGCAAGAUUUUUAUGCCUCCCCUCCUGCUUUGCGCCGAUUUGAUGUACAAUCCGCCCGCUU ...((.((...((((((.....((((((((((((....))))))))))))...................(.((.....)).)..)))))).....)).))...... (-33.40) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 388 80 34 220 167 aact:AA01379|5end_glycerophosphoryl_diester_phosphodiesterase_(protein_D)_933029..933259_POSITIVE 388 97 53 124 67 aact:AA00161|5end_pilin_B_biogenesis_protein;_fimbrial_transcription_regulation_113384..113614_POSITIVE 380 95 57 77 38 aact:AA01114|5end_alcohol_dehydrogenase,_class_III;_glutathione-dependent_formaldehyde_dehydrogenase_765307..765537_POSITIVE 380 86 41 176 99 aact:AA00887|5end_hypothetical_protein_616739..616969_POSITIVE 379 67 22 57 11 aact:AA01807|5end_electron_transport_complex_protein_1216696..1216926_POSITIVE 378 97 57 82 41 aact:AA01760|5end_hydrogenase_isoenzymes_formation_protein_1189787..1190017_POSITIVE 370 100 60 196 147 aact:AA02524|5end_orotidine_5'-phosphate_decarboxylase_1753313..1753543_POSITIVE 369 48 1 160 99 aact:AA02063|5end_23S_rRNA_psedouridine_synthase,_Rlu_family_protein_1404451..1404681_POSITIVE 367 49 1 51 15 aact:AA01547|5end_deoxyribose-phosphate_aldolase_1036271..1036501_POSITIVE 366 95 60 207 170 aact:AA00790|5end_recombination_DNA_repair_protein_542455..542685_POSITIVE 365 48 3 133 75 aact:AA01190|5end_glycosyl_transferase_(possible_dolichol-phosphate_mannosyltransferase)_815278..815508_POSITIVE 364 95 60 77 29 aact:AA00804|5end_fumarate_reductase_flavoprotein_subunit_A_549770..550000_POSITIVE 360 80 34 46 7 aact:AA01408|5end_conserved_hypothetical_protein_950191..950421_POSITIVE 358 93 58 78 19 aact:AA01551|5end_hypothetical_protein_1038190..1038420_POSITIVE 358 47 2 39 1 aact:AA00995|5end_sensory_transduction_protein_for_cpxR/basR_696355..696585_POSITIVE 358 68 25 123 54 aact:AA00246|5end_hypothetical_protein_173108..173338_POSITIVE 353 88 57 225 180 aact:AA01815|5end_probable_sodium-dependent_transmembrane_transport_protein_1222541..1222771_POSITIVE 352 70 31 148 112 aact:AA01901|5end_hypothetical_protein_1282593..1282823_POSITIVE 352 49 3 197 141 aact:AA00894|5end_selenium_transferase_(Cysteinyl-tRNA(Sec)_selenium_transferase)_619879..620109_POSITIVE 352 48 3 79 30 aact:AA00422|5end_LapB_membrane_protein_285528..285758_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 388 97 53 94 37 aact:AA00160|3end_pilA-like_biogenesis_protein_/_prepilin_peptidase_dependent_proteinD_113434..113584_POSITIVE 379 67 22 54 8 aact:AA01805|3end_electron_transport_complex_protein_1216773..1216923_POSITIVE 378 97 57 79 38 aact:AA01759|3end_hydrogenase_isoenzymes_formation_protein_1189864..1190014_POSITIVE 377 88 41 140 80 aact:AA01284|3end_heat_shock_protein_(hsp60)_870294..870444_POSITIVE 365 48 3 133 75 aact:AA01189|3end_conserved_hypothetical_protein_(possible_glycosyl_transferase)_815358..815508_POSITIVE 358 93 58 100 41 aact:AA01550|3end_hypothetical_protein_1038292..1038442_POSITIVE 358 68 25 127 58 aact:AA00245|3end_hypothetical_protein_173192..173342_POSITIVE 353 93 59 119 82 aact:AA02014|3end_probable_hemolysin_1370977..1371127_POSITIVE 353 48 4 75 15 aact:AA01167|3end_glucose-6-phosphate_1-dehydrogenase_801067..801217_POSITIVE 352 70 31 57 21 aact:AA01900|3end_hypothetical_protein_1282582..1282732_POSITIVE 349 48 3 95 47 aact:AA00244|3end_conserved_hypothetical_protein_(possible_deoxyribonuclease,_possible_hydrolase)_172812..172962_POSITIVE 348 97 56 61 19 aact:AA01747|3end_single-stranded-DNA-specific_exonuclease_1183130..1183280_POSITIVE 347 95 56 112 60 aact:AA01891|3end_pyridoxine_kinase_1276784..1276934_POSITIVE 346 50 5 90 41 aact:AA00247|3end_peptidyl-prolyl_cis-trans_isomerase_B_173946..174096_POSITIVE 344 80 35 132 76 aact:AA02261|3end_30S_ribosomal_protein_S9_1538482..1538632_POSITIVE 344 95 56 63 26 aact:AA00910|3end_hypothetical_protein_627260..627410_POSITIVE 343 80 33 58 17 aact:AA02740|3end_conserved_hypothetical_protein_1921394..1921544_POSITIVE 341 45 3 54 20 aact:AA02442|3end_thioredoxin-family_protein_1686272..1686422_POSITIVE 339 74 34 151 108 aact:AA03003|3end_GTP-binding_membrane_protein_2098447..2098597_POSITIVE 338 85 45 41 6 aact:AA01565|3end_conserved_hypothetical_protein_1050967..1051117_POSITIVE