Origin IGS: taaaagaagcgcagctttactcatagcataaaattcgcacaataaaacgaccgcacattattctttcaaattaaagtgcggtcatttcttccggtgtttttcaatcaatccgccagaaatacccgtaaaacctaccgcactttttctctaacatttgagaaaacccatagaaaagcgctattatcagcgccaagaagcagtctttcaaaggagtttt .........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 aaaactcctttgaaagactgcttcttggcgctgataatagcgcttttctatgggttttctcaaatgttagagaaaaagtgcggtaggttttacgggtatttctggcggattgattgaaaaacaccggaagaaatgaccgcactttaatttgaaagaataatgtgcggtcgttttattgtgcgaattttatgctatgagtaaagctgcgcttctttta Mask Tandem Repeat Region ================================================ taaaagaagcgcagctttactcatagcataaaattcgcacaataaaacgaccgcacattattctttcaaattaaagtgcggtcatttcttccggtgtttttcaatcaatccgccagaaatacccgtaaaacctaccgcactttttctctaacatttgagaaaacccatagaaaagcgctattatcagcgccaagaagcagtctttcaaaggagtttt Find is-nt database================================================ Query_seq: AA02254:AA02257|AA02254:AA02257:2-oxoglutarate/malate translocator:conserved hypothetical protein:->->:1536441..1536657 217 taaaagaagcgcagctttactcatagcataaaattcgcacaataaaacgaccgcacattattctttcaaattaaagtgcggtcatttcttccggtgtttttcaatcaatccgccagaaatacccgtaaaacctaccgcactttttctctaacatttgagaaaacccatagaaaagcgctattatcagcgccaagaagcagtctttcaaaggagtttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA02254:AA02257|AA02254:AA02257:2-oxoglutarate/malate translocator:conserved hypothetical protein:->->:1536441..1536657 217 taaaagaagcgcagctttactcatagcataaaattcgcacaataaaacgaccgcacattattctttcaaattaaagtgcggtcatttcttccggtgtttttcaatcaatccgccagaaatacccgtaaaacctaccgcactttttctctaacatttgagaaaacccatagaaaagcgctattatcagcgccaagaagcagtctttcaaaggagtttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA02254:AA02257|AA02254:AA02257:2-oxoglutarate/malate translocator:conserved hypothetical protein:->->:1536441..1536657 217 taaaagaagcgcagctttactcatagcataaaattcgcacaataaaacgaccgcacattattctttcaaattaaagtgcggtcatttcttccggtgtttttcaatcaatccgccagaaatacccgtaaaacctaccgcactttttctctaacatttgagaaaacccatagaaaagcgctattatcagcgccaagaagcagtctttcaaaggagtttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taaaagaagcgcagctttactcatagcataaaattcgcacaataaaacgaccgcacattattctttcaaattaaagtgcggtcatttcttccggtgtttttcaatcaatccgccagaaatacccgtaaaacctaccgcactttttctctaacatttgagaaaacccatagaaaagcgctattatcagcgccaagaagcagtctttcaaaggagtttt Predict ORF larger than 30AA ================================================ Protein_Len: 49 Strand: + Start: 70 End: 216 ..................................................................... M K V R S F L P V F F N Q S A R N T R K T Y R T F S L T F E K T H R K A L L S A P R S S L S K E F . Protein_Len: 35 Strand: - Start: 104 End: 208 ....................................................................................................... D I R W F Y G Y F R G C K K E L M Q S F G Y F L A I I L A L F C D K M ......... taaaagaagcgcagctttactcatagcataaaattcgcacaataaaacgaccgcacattattctttcaaattaaagtgcggtcatttcttccggtgtttttcaatcaatccgccagaaatacccgtaaaacctaccgcactttttctctaacatttgagaaaacccatagaaaagcgctattatcagcgccaagaagcagtctttcaaaggagtttt Predict Promoter with matrix: RpoD-15 score > 80================================================ Predict Promoter with matrix: RpoD-16 score > 80================================================ Predict Promoter with matrix: RpoD-17 score > 80================================================ PromScan Matrix: RpoD-17 Strand: - Score: 83 Start: 180 End: 209 ...................................................................................................................................................................................TTTGAAAGACTGCTTCTTGGCGCTGATAAT........ Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ taaaagaagcgcagctttactcatagcataaaattcgcacaataaaacgaccgcacattattctttcaaattaaagtgcggtcatttcttccggtgtttttcaatcaatccgccagaaatacccgtaaaacctaccgcactttttctctaacatttgagaaaacccatagaaaagcgctattatcagcgccaagaagcagtctttcaaaggagtttt Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 90 HP_score: -9.5 Tail_Score: -4.77567 Start: 48 End: 84 Full_Region: aaacaccggaagaaa tgaccgcactttaattt gaa agaataatgtgcggtcg ttttattgtgcgaat ...............................................tgaccgcactttaatttgaaagaataatgtgcggtcg..................................................................................................................................... TransTerm Strand: - Conf: 83 HP_score: -10.8 Tail_Score: -3.45817 Start: 49 End: 83 Full_Region: aacaccggaagaaat gaccgcactttaattt gaa agaataatgtgcggtc gttttattgtgcgaa ................................................gaccgcactttaatttgaaagaataatgtgcggtc...................................................................................................................................... Find igs database================================================ Query_seq: AA02254:AA02257|AA02254:AA02257:2-oxoglutarate/malate translocator:conserved hypothetical protein:->->:1536441..1536657 217 taaaagaagcgcagctttactcatagcataaaattcgcacaataaaacgaccgcacattattctttcaaattaaagtgcggtcatttcttccggtgtttttcaatcaatccgccagaaatacccgtaaaacctaccgcactttttctctaacatttgagaaaacccatagaaaagcgctattatcagcgccaagaagcagtctttcaaaggagtttt Intra-Species Hit: Count: 1 Min: 1 Max: 217 Len: 217 Subject: aact_AA02254_AA02257|2-oxoglutarate/malate translocator:conserved hypothetical protein|POSITIVE:POSITIVE|[1536441,1536657]|217 HSP 1 e-value: 1.0E-120 bit: 430.0 Len: 217 Query Start:1 Query End:217 Subject Strand: POSITIVE Subject Start: 1 Subject End: 217 taaaagaagcgcagctttactcatagcataaaattcgcacaataaaacgaccgcacattattctttcaaattaaagtgcggtcatttcttccggtgtttttcaatcaatccgccagaaatacccgtaaaacctaccgcactttttctctaacatttgagaaaacccatagaaaagcgctattatcagcgccaagaagcagtctttcaaaggagtttt taaaagaagcgcagctttactcatagcataaaattcgcacaataaaacgaccgcacattattctttcaaattaaagtgcggtcatttcttccggtgtttttcaatcaatccgccagaaatacccgtaaaacctaccgcactttttctctaacatttgagaaaacccatagaaaagcgctattatcagcgccaagaagcagtctttcaaaggagtttt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAAGAAGCGCAGCUUUACUCAUAGCAUAAAAUUCGCACAAUAAAACGACCGCACAUUAUUCUUUCAAAUUAAAGUGCGGUCAUUUCUUCCGGUGUUUUUCAAUCAAUCCGCCAGAAAUACCCGUAAAACCUACCGCACUUUUUCUCUAACAUUUGAGAAAACCCAUAGAAAAGCGCUAUUAUCAGCGCCAAGAAGCAGUCUUUCAAAGGAGUUUU .....((((.((.(((((..((..............((..........((((((((.(((...........))).)))))))).....(((.((((..((......))..)))).)))..................))...(((((((........)))))))......))...(((((......)))))...))))).)).))))........... (-47.30) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAAACUCCUUUGAAAGACUGCUUCUUGGCGCUGAUAAUAGCGCUUUUCUAUGGGUUUUCUCAAAUGUUAGAGAAAAAGUGCGGUAGGUUUUACGGGUAUUUCUGGCGGAUUGAUUGAAAAACACCGGAAGAAAUGACCGCACUUUAAUUUGAAAGAAUAAUGUGCGGUCGUUUUAUUGUGCGAAUUUUAUGCUAUGAGUAAAGCUGCGCUUCUUUUA ..(((...(((((((((((.......(((((((....)))))))........)))))).))))).)))..((((.(((((((((....(((((.(((((.(((((.(..((......))..).))))).(((((((((((((.(((.(((....)))))).)))))))))))))..............)))))....)))))))))))))).)))). (-63.36) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 469 86 44 149 107 aact:AA01603|5end_oligopeptidase_A_1082898..1083128_POSITIVE 431 88 44 160 117 aact:AA00075|5end_conserved_hypothetical_protein_54963..55193_POSITIVE 429 113 73 195 160 aact:AA02162|5end_lipoprotein_1478950..1479180_POSITIVE 423 106 61 57 9 aact:AA01877|5end_conserved_hypothetical_protein_1264115..1264345_POSITIVE 421 90 43 138 99 aact:AA00705|5end_Inositol-1-monophosphatase_(IMPase);_extragenic_suppressor_483827..484057_POSITIVE 413 140 91 166 121 aact:AA01918|5end_anaerobic_C4-dicarboxylate_transporter_1290931..1291161_POSITIVE 410 114 74 195 154 aact:AA00311|5end_L-fuculose-phosphate_aldolase_211434..211664_POSITIVE 405 89 44 159 118 aact:AA00454|5end_conserved_hypothetical_protein_318020..318250_POSITIVE 390 87 44 170 122 aact:AA02410|5end_cell_division_protein_1655429..1655659_POSITIVE 385 114 73 149 99 aact:AA01059|5end_orotate_phosphoribosyltransferase_735052..735282_POSITIVE 385 147 115 113 81 aact:AA01008|5end_mazG_beta-lactamase_regulatory_protein_homolog_703470..703700_POSITIVE 382 82 47 138 109 aact:AA02137|5end_transcriptional_regulators_(TetR/AcrR_family)_1460453..1460683_POSITIVE 379 120 73 192 133 aact:AA01220|5end_competence_protein_F;_amidophosphoribosyltransferase_832775..833005_POSITIVE 379 120 73 73 14 aact:AA01217|5end_hypothetical_protein_832656..832886_POSITIVE 373 87 44 163 109 aact:AA02716|5end_peptidase_T_1899789..1900019_POSITIVE 362 100 51 169 125 aact:AA02963|5end_opacity_associated_protein_B_2072302..2072532_POSITIVE 357 115 73 167 117 aact:AA01085|5end_mutator_mutT_protein_(7,8-dihydro-8-oxoguanine-triphosphatase)_(8-oxo-dGTPase)_(dGTP_pyrophosphohydrolase)_750970..751200_POSITIVE 354 139 91 92 25 aact:AA00141|5end_hypoxanthine_phosphoribosyl_transferase_(HPRT)_100814..101044_POSITIVE 352 118 73 131 79 aact:AA02449|5end_hypothetical_protein_1687575..1687805_POSITIVE 345 140 93 190 142 aact:AA00268|5end_acyl_carrier_protein_(ACP)_188104..188334_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 431 88 44 64 21 aact:AA00072|3end_conserved_hypothetical_protein_54947..55097_POSITIVE 429 113 73 94 59 aact:AA02160|3end_conserved_hypothetical_protein_1478929..1479079_POSITIVE 421 90 43 79 40 aact:AA00702|3end_conserved_hypothetical_protein_483848..483998_POSITIVE 417 115 72 122 72 aact:AA02253|3end_hypothetical_protein_1534786..1534936_POSITIVE 413 140 91 151 106 aact:AA01917|3end_hypothetical_protein_1290996..1291146_POSITIVE 405 89 44 68 27 aact:AA00453|3end_phosphoglyceromutase_318009..318159_POSITIVE 403 100 51 117 68 aact:AA02135|3end_hypothetical_protein_1459067..1459217_POSITIVE 403 100 51 133 84 aact:AA02135.1|3end_hypothetical_protein_1459083..1459233_POSITIVE 390 87 44 65 17 aact:AA02409|3end_DNA_ligase_1655404..1655554_POSITIVE 385 114 73 64 14 aact:AA01057|3end_DnaJ-like_protein_djlA_735047..735197_POSITIVE 382 82 47 81 52 aact:AA02136|3end_aspartate_aminotransferase_1460476..1460626_POSITIVE 376 112 71 86 48 aact:AA00221|3end_NADP-specific_glutamate_dehydrogenase_153865..154015_POSITIVE 373 87 44 81 27 aact:AA02715|3end_paraquat-inducible_protein_pqiB_homolog_1899787..1899937_POSITIVE 362 100 51 72 28 aact:AA02962|3end_recombination_associated_protein_2072285..2072435_POSITIVE 357 115 73 87 37 aact:AA01083|3end_preprotein_translocase_SecA_subunit_750970..751120_POSITIVE 354 139 91 70 3 aact:AA00140|3end_hypothetical_protein_100872..101022_POSITIVE 352 118 73 59 7 aact:AA02446|3end_conserved_hypothetical_protein_1687583..1687733_POSITIVE 350 150 106 142 77 aact:AA00528|3end_conserved_hypothetical_protein_361703..361853_POSITIVE 349 100 51 87 50 aact:AA00168|3end_possible_sigma_54_modulation_protein_120240..120390_POSITIVE 345 140 93 149 101 aact:AA00267|3end_hypothetical_protein_188143..188293_POSITIVE