Origin IGS: aagaaagaaggcaaagaaaagggcaccccggataaattgcttttcctctcttagcattaatttttttcacggaaaatttctaactcgctacgctcaaacaaaagaaattttcctaaaaattaacgcacgttcgggcaatttatacggggaccccgttggagcgttatttgaaaagtgcggtgtattttagatttgttttttaagcttaaaaacaagtggaaaatacaccacactttaagttttgcgaaataaagaaaggttattcggagaaagaataattcccccgtttacggcgcctttcttttggttcattctctttggcggcgcaaagaaaaggaactatcggctgaaacccaattta .........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.........1.........2.........3.........4.........5.........6.........7.........8.........9 taaattgggtttcagccgatagttccttttctttgcgccgccaaagagaatgaaccaaaagaaaggcgccgtaaacgggggaattattctttctccgaataacctttctttatttcgcaaaacttaaagtgtggtgtattttccacttgtttttaagcttaaaaaacaaatctaaaatacaccgcacttttcaaataacgctccaacggggtccccgtataaattgcccgaacgtgcgttaatttttaggaaaatttcttttgtttgagcgtagcgagttagaaattttccgtgaaaaaaattaatgctaagagaggaaaagcaatttatccggggtgcccttttctttgccttctttctt Mask Tandem Repeat Region ================================================ aagaaagaaggcaaagaaaagggcaccccggataaattgcttttcctctcttagcattaatttttttcacggaaaatttctaactcgctacgctcaaacaaaagaaattttcctaaaaattaacgcacgttcgggcaatttatacggggaccccgttggagcgttatttgaaaagtgcggtgtattttagatttgttttttaagcttaaaaacaagtggaaaatacaccacactttaagttttgcgaaataaagaaaggttattcggagaaagaataattcccccgtttacggcgcctttcttttggttcattctctttggcggcgcaaagaaaaggaactatcggctgaaacccaattta Find is-nt database================================================ Query_seq: AA02734:AA02735|AA02734:AA02735:leucine-responsive regulatory protein:DNA repair protein:->->:1915753..1916113 361 aagaaagaaggcaaagaaaagggcaccccggataaattgcttttcctctcttagcattaatttttttcacggaaaatttctaactcgctacgctcaaacaaaagaaattttcctaaaaattaacgcacgttcgggcaatttatacggggaccccgttggagcgttatttgaaaagtgcggtgtattttagatttgttttttaagcttaaaaacaagtggaaaatacaccacactttaagttttgcgaaataaagaaaggttattcggagaaagaataattcccccgtttacggcgcctttcttttggttcattctctttggcggcgcaaagaaaaggaactatcggctgaaacccaattta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA02734:AA02735|AA02734:AA02735:leucine-responsive regulatory protein:DNA repair protein:->->:1915753..1916113 361 aagaaagaaggcaaagaaaagggcaccccggataaattgcttttcctctcttagcattaatttttttcacggaaaatttctaactcgctacgctcaaacaaaagaaattttcctaaaaattaacgcacgttcgggcaatttatacggggaccccgttggagcgttatttgaaaagtgcggtgtattttagatttgttttttaagcttaaaaacaagtggaaaatacaccacactttaagttttgcgaaataaagaaaggttattcggagaaagaataattcccccgtttacggcgcctttcttttggttcattctctttggcggcgcaaagaaaaggaactatcggctgaaacccaattta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA02734:AA02735|AA02734:AA02735:leucine-responsive regulatory protein:DNA repair protein:->->:1915753..1916113 361 aagaaagaaggcaaagaaaagggcaccccggataaattgcttttcctctcttagcattaatttttttcacggaaaatttctaactcgctacgctcaaacaaaagaaattttcctaaaaattaacgcacgttcgggcaatttatacggggaccccgttggagcgttatttgaaaagtgcggtgtattttagatttgttttttaagcttaaaaacaagtggaaaatacaccacactttaagttttgcgaaataaagaaaggttattcggagaaagaataattcccccgtttacggcgcctttcttttggttcattctctttggcggcgcaaagaaaaggaactatcggctgaaacccaattta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aagaaagaaggcaaagaaaagggcaccccggataaattgcttttcctctcttagcattaatttttttcacggaaaatttctaactcgctacgctcaaacaaaagaaattttcctaaaaattaacgcacgttcgggcaatttatacggggaccccgttggagcgttatttgaaaagtgcggtgtattttagatttgttttttaagcttaaaaacaagtggaaaatacaccacactttaagttttgcgaaataaagaaaggttattcggagaaagaataattcccccgtttacggcgcctttcttttggttcattctctttggcggcgcaaagaaaaggaactatcggctgaaacccaattta Predict ORF larger than 30AA ================================================ Protein_Len: 52 Strand: + Start: 32 End: 187 ............................... M N C F S S L S I N F F H G K F L T R Y A Q T K E I F L K I N A R S G N L Y G D P V G A L F E K C G V F .............................................................................................................................................................................. Protein_Len: 33 Strand: + Start: 262 End: 360 ..................................................................................................................................................................................................................................................................... M R R K N N S P V Y G A F L L V H S L W R R K E K E L S A E T Q F . Protein_Len: 40 Strand: + Start: 242 End: 361 ................................................................................................................................................................................................................................................. M R N K E R L F G E R I I P P F T A P F F W F I L F G G A K K R N Y R L K P N L Protein_Len: 32 Strand: - Start: 263 End: 358 ...................................................................................................................................................................................................................................................................... E S F S Y N G R K R R R E K P E N E K A A C L F P V I P Q F G M ... Protein_Len: 47 Strand: - Start: 123 End: 263 .......................................................................................................................... R V N P C N I R P G R Q L T I Q F T R H I K S K N K L S L F L H F I C W V K L K A F Y L F T M .................................................................................................. aagaaagaaggcaaagaaaagggcaccccggataaattgcttttcctctcttagcattaatttttttcacggaaaatttctaactcgctacgctcaaacaaaagaaattttcctaaaaattaacgcacgttcgggcaatttatacggggaccccgttggagcgttatttgaaaagtgcggtgtattttagatttgttttttaagcttaaaaacaagtggaaaatacaccacactttaagttttgcgaaataaagaaaggttattcggagaaagaataattcccccgtttacggcgcctttcttttggttcattctctttggcggcgcaaagaaaaggaactatcggctgaaacccaattta 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================================================ aagaaagaaggcaaagaaaagggcaccccggataaattgcttttcctctcttagcattaatttttttcacggaaaatttctaactcgctacgctcaaacaaaagaaattttcctaaaaattaacgcacgttcgggcaatttatacggggaccccgttggagcgttatttgaaaagtgcggtgtattttagatttgttttttaagcttaaaaacaagtggaaaatacaccacactttaagttttgcgaaataaagaaaggttattcggagaaagaataattcccccgtttacggcgcctttcttttggttcattctctttggcggcgcaaagaaaaggaactatcggctgaaacccaattta Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 100 HP_score: -12.8 Tail_Score: -3.92659 Start: 175 End: 233 Full_Region: AGCGTTATTTGAAAA GTGCGGTGTATTTTAGATTTGTTTTTTA AGC TTAAAAACAAGTGGAAAATACACCACAC TTTAAGTTTTGCGAA ..............................................................................................................................................................................GTGCGGTGTATTTTAGATTTGTTTTTTAAGCTTAAAAACAAGTGGAAAATACACCACAC................................................................................................................................ TransTerm Strand: - Conf: 100 HP_score: -12.8 Tail_Score: -4.13945 Start: 175 End: 233 Full_Region: ttcgcaaaacttaaa gtgtggtgtattttccacttgtttttaa gct taaaaaacaaatctaaaatacaccgcac ttttcaaataacgct ..............................................................................................................................................................................gtgtggtgtattttccacttgtttttaagcttaaaaaacaaatctaaaatacaccgcac................................................................................................................................ Find igs database================================================ Query_seq: AA02734:AA02735|AA02734:AA02735:leucine-responsive regulatory protein:DNA repair protein:->->:1915753..1916113 361 aagaaagaaggcaaagaaaagggcaccccggataaattgcttttcctctcttagcattaatttttttcacggaaaatttctaactcgctacgctcaaacaaaagaaattttcctaaaaattaacgcacgttcgggcaatttatacggggaccccgttggagcgttatttgaaaagtgcggtgtattttagatttgttttttaagcttaaaaacaagtggaaaatacaccacactttaagttttgcgaaataaagaaaggttattcggagaaagaataattcccccgtttacggcgcctttcttttggttcattctctttggcggcgcaaagaaaaggaactatcggctgaaacccaattta Intra-Species Hit: Count: 1 Min: 1 Max: 361 Len: 361 Subject: aact_AA02734_AA02735|leucine-responsive regulatory protein:DNA repair protein|POSITIVE:POSITIVE|[1915753,1916113]|361 HSP 1 e-value: 0.0 bit: 674.0 Len: 361 Query Start:1 Query End:361 Subject Strand: POSITIVE Subject Start: 1 Subject End: 361 aagaaagaaggcaaagaaaagggcaccccggataaattgcttttcctctcttagcattaannnnnnncacggaaaatttctaactcgctacgctcaaacaaaagaaattttcctaaaaattaacgcacgttcgggcaatttatacggggaccccgttggagcgttatttgaaaagtgcggtgtattttagatttgttttttaagcttaaaaacaagtggaaaatacaccacactttaagttttgcgaaataaagaaaggttattcggagaaagaataattcccccgtttacggcgcctttcttttggttcattctctttggcggcgcaaagaaaaggaactatcggctgaaacccaattta aagaaagaaggcaaagaaaagggcaccccggataaattgcttttcctctcttagcattaatttttttcacggaaaatttctaactcgctacgctcaaacaaaagaaattttcctaaaaattaacgcacgttcgggcaatttatacggggaccccgttggagcgttatttgaaaagtgcggtgtattttagatttgttttttaagcttaaaaacaagtggaaaatacaccacactttaagttttgcgaaataaagaaaggttattcggagaaagaataattcccccgtttacggcgcctttcttttggttcattctctttggcggcgcaaagaaaaggaactatcggctgaaacccaattta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAGAAAGAAGGCAAAGAAAAGGGCACCCCGGAUAAAUUGCUUUUCCUCUCUUAGCAUUAAUUUUUUUCACGGAAAAUUUCUAACUCGCUACGCUCAAACAAAAGAAAUUUUCCUAAAAAUUAACGCACGUUCGGGCAAUUUAUACGGGGACCCCGUUGGAGCGUUAUUUGAAAAGUGCGGUGUAUUUUAGAUUUGUUUUUUAAGCUUAAAAACAAGUGGAAAAUACACCACACUUUAAGUUUUGCGAAAUAAAGAAAGGUUAUUCGGAGAAAGAAUAAUUCCCCCGUUUACGGCGCCUUUCUUUUGGUUCAUUCUCUUUGGCGGCGCAAAGAAAAGGAACUAUCGGCUGAAACCCAAUUUA ....................(((..(((((.(((((((((....((.......((.(((((((((.....(((((((((((.....................))))))))))).))))))))).))......))))))))))).)))))..))).((((.(((..((((((..((((.((((((((((..((((((((((.......))))))))))..)))))))))).))))))))))..))).....(((((((((((((((.......)))))......(((....))).))))))))))((((((.((.((((((......)))))).)).))))))...........)))).... (-104.12) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAUUGGGUUUCAGCCGAUAGUUCCUUUUCUUUGCGCCGCCAAAGAGAAUGAACCAAAAGAAAGGCGCCGUAAACGGGGGAAUUAUUCUUUCUCCGAAUAACCUUUCUUUAUUUCGCAAAACUUAAAGUGUGGUGUAUUUUCCACUUGUUUUUAAGCUUAAAAAACAAAUCUAAAAUACACCGCACUUUUCAAAUAACGCUCCAACGGGGUCCCCGUAUAAAUUGCCCGAACGUGCGUUAAUUUUUAGGAAAAUUUCUUUUGUUUGAGCGUAGCGAGUUAGAAAUUUUCCGUGAAAAAAAUUAAUGCUAAGAGAGGAAAAGCAAUUUAUCCGGGGUGCCCUUUUCUUUGCCUUCUUUCUU ...(((((.......))))).((((.(((((((((......))))))))).))))..(((((((((.....((..((((((((......))))))))..)).))))))))).....(((((....(((((((((((((((((....((((((((.......))))))))....))))))))))))))))).................((((((((((.(((((((((((...(..((((((((((((.(((((((((((((((((.......))))))..))))))))))).....))))))))))))...)...))....))))))))).))))).)))))....))))).......... (-116.70) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 790 153 111 106 64 aact:AA02490|5end_hypothetical_protein_1726610..1726840_POSITIVE 719 68 21 231 180 aact:AA02491|5end_topoisomerase_IV,_subunit_A_1726827..1727057_POSITIVE 553 157 111 152 105 aact:AA00658|5end_hypothetical_protein_451618..451848_POSITIVE 401 181 146 80 38 aact:AA02482|5end_conserved_hypothetical_protein_1720131..1720361_POSITIVE 398 360 315 53 4 aact:AA00042|5end_hypothetical_protein_33810..34040_POSITIVE 394 326 283 205 141 aact:AA01417|5end_probable_4-diphosphocytidyl-2C-methyl-D-erthyritol_synthase_(MEP_cytidyltransferase)_(MCT)_953256..953486_POSITIVE 376 325 282 55 17 aact:AA01182|5end_3-oxoacyl-(acyl-carrier-protein)_synthase_809210..809440_POSITIVE 374 163 121 74 10 aact:AA02113|5end_conserved_hypothetical_protein_1442183..1442413_POSITIVE 373 327 283 229 192 aact:AA01286|5end_5,10-methylenetetrahydrofolate_dehydrogenase_(bifunctional_protein)_870309..870539_POSITIVE 365 189 144 161 105 aact:AA00084|5end_aminotransferase_60814..61044_POSITIVE 358 180 144 65 24 aact:AA02425|5end_glutamate-1-semialdehyde_aminotransferase_1670301..1670531_POSITIVE 355 47 4 216 168 aact:AA00573|5end_chloramphenicol-sensitive_protein_RarD_391965..392195_POSITIVE 354 180 132 118 63 aact:AA00378|5end_leucine-responsive_regulatory_protein_(transcription_regulator)_254324..254554_POSITIVE 354 220 171 161 112 aact:AA00174|5end_ribosomal_protein_L11_methyltransferase_123072..123302_POSITIVE 354 220 171 57 8 aact:AA00173|5end_hypothetical_protein_122968..123198_POSITIVE 353 327 282 160 116 aact:AA00039|5end_cytochrome_c-type_biogenesis_protein_30312..30542_POSITIVE 352 180 131 231 183 aact:AA02531|5end_conserved_hypothetical_protein_1758383..1758613_POSITIVE 351 349 303 51 9 aact:AA02455|5end_conserved_hypothetical_protein_1694353..1694583_POSITIVE 349 180 145 35 2 aact:AA01308|5end_cyclic_AMP_receptor_protein_888044..888274_POSITIVE 349 200 154 133 95 aact:AA00789|5end_DNA_topoisomerase_III_540486..540716_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 790 153 111 45 3 aact:AA02489|3end_hypothetical_protein_1726629..1726779_POSITIVE 547 180 133 96 43 aact:AA00570|3end_hypothetical_protein_391785..391935_POSITIVE 490 180 131 145 99 aact:AA00042|3end_hypothetical_protein_34255..34405_POSITIVE 376 325 282 59 21 aact:AA01181|3end_conserved_hypothetical_protein_809294..809444_POSITIVE 373 327 283 134 97 aact:AA01284|3end_heat_shock_protein_(hsp60)_870294..870444_POSITIVE 365 189 144 118 62 aact:AA00083|3end_hypothetical_protein_60851..61001_POSITIVE 354 220 171 146 97 aact:AA00173|3end_hypothetical_protein_123137..123287_POSITIVE 351 349 303 51 9 aact:AA02454|3end_ATP-dependent_helicase_1694433..1694583_POSITIVE 341 162 128 96 64 aact:AA01206|3end_phosphoribosylformylglycinamidine_cyclo-ligase_826327..826477_POSITIVE 339 326 287 141 105 aact:AA00407|3end_trk_system_potassium_uptake_protein_272309..272459_POSITIVE 337 190 143 50 2 aact:AA00141|3end_hypoxanthine_phosphoribosyl_transferase_(HPRT)_101313..101463_POSITIVE 331 198 152 111 70 aact:AA02918|3end_hypothetical_protein_2043501..2043651_POSITIVE 330 189 144 112 57 aact:AA01978|3end_hypothetical_protein_1337257..1337407_POSITIVE 328 182 147 72 35 aact:AA00383|3end_chloride_channel_protein_260182..260332_POSITIVE 327 328 284 104 51 aact:AA00530|3end_hypothetical_protein_362668..362818_POSITIVE 327 177 131 55 11 aact:AA00038|3end_conserved_hypothetical_protein_30392..30542_POSITIVE 326 246 201 68 10 aact:AA00684|3end_adenylosuccinate_synthase_468861..469011_POSITIVE 318 329 285 138 83 aact:AA00218|3end_argininosuccinate_lyase_152211..152361_POSITIVE 318 180 131 61 8 aact:AA00183|3end_acetyl-CoA_carboxylase,_biotin_carboxyl_carrier_protein_130745..130895_POSITIVE 312 328 285 141 95 aact:AA01818|3end_high-affinity_zinc_uptake_system_membrane_protein_1225078..1225228_POSITIVE