Origin IGS: aagactccggctgcaagccccggagttttatcgtgtctgcctatataaatatcggtctctagccccagtgattttctcttaataaaaatcgctttttttgccaaagtatattaaaataagatagagagaatctacagacaagagaagaat .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 attcttctcttgtctgtagattctctctatcttattttaatatactttggcaaaaaaagcgatttttattaagagaaaatcactggggctagagaccgatatttatataggcagacacgataaaactccggggcttgcagccggagtctt Mask Tandem Repeat Region ================================================ aagactccggctgcaagccccggagttttatcgtgtctgcctatataaatatcggtctctagccccagtgattttctcttaataaaaatcgctttttttgccaaagtatattaaaataagatagagagaatctacagacaagagaagaat Find is-nt database================================================ Query_seq: SSA_0332:SSA_0333|SSA_0332:SSA_0333:hypothetical protein:Mevalonate kinase, putative:->->:326985..327134 150 aagactccggctgcaagccccggagttttatcgtgtctgcctatataaatatcggtctctagccccagtgattttctcttaataaaaatcgctttttttgccaaagtatattaaaataagatagagagaatctacagacaagagaagaat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SSA_0332:SSA_0333|SSA_0332:SSA_0333:hypothetical protein:Mevalonate kinase, putative:->->:326985..327134 150 aagactccggctgcaagccccggagttttatcgtgtctgcctatataaatatcggtctctagccccagtgattttctcttaataaaaatcgctttttttgccaaagtatattaaaataagatagagagaatctacagacaagagaagaat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SSA_0332:SSA_0333|SSA_0332:SSA_0333:hypothetical protein:Mevalonate kinase, putative:->->:326985..327134 150 aagactccggctgcaagccccggagttttatcgtgtctgcctatataaatatcggtctctagccccagtgattttctcttaataaaaatcgctttttttgccaaagtatattaaaataagatagagagaatctacagacaagagaagaat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aagactccggctgcaagccccggagttttatcgtgtctgcctatataaatatcggtctctagccccagtgattttctcttaataaaaatcgctttttttgccaaagtatattaaaataagatagagagaatctacagacaagagaagaat Predict ORF larger than 30AA ================================================ Protein_Len: 34 Strand: - Start: 3 End: 104 .. V G A A L G P T K D H R G I Y I D T E L G L S K R K I F I A K K A M .............................................. aagactccggctgcaagccccggagttttatcgtgtctgcctatataaatatcggtctctagccccagtgattttctcttaataaaaatcgctttttttgccaaagtatattaaaataagatagagagaatctacagacaagagaagaat 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================================================ aagactccggctgcaagccccggagttttatcgtgtctgcctatataaatatcggtctctagccccagtgattttctcttaataaaaatcgctttttttgccaaagtatattaaaataagatagagagaatctacagacaagagaagaat Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SSA_0332:SSA_0333|SSA_0332:SSA_0333:hypothetical protein:Mevalonate kinase, putative:->->:326985..327134 150 aagactccggctgcaagccccggagttttatcgtgtctgcctatataaatatcggtctctagccccagtgattttctcttaataaaaatcgctttttttgccaaagtatattaaaataagatagagagaatctacagacaagagaagaat Intra-Species Hit: Count: 1 Min: 1 Max: 150 Len: 150 Subject: NC_009009_SSA_0332_SSA_0333|hypothetical protein:Mevalonate kinase, putative|POSITIVE:POSITIVE|[326985,327134]|150 HSP 1 e-value: 2.0E-67 bit: 256.0 Len: 150 Query Start:1 Query End:150 Subject Strand: POSITIVE Subject Start: 1 Subject End: 150 aagactccggctgcaagccccggagttttatcgtgtctgcctatataaatatcggtctctagccccagtgattttctcttaataaaaatcgcnnnnnnngccaaagtatattaaaataagatagagagaatctacagacaagagaagaat aagactccggctgcaagccccggagttttatcgtgtctgcctatataaatatcggtctctagccccagtgattttctcttaataaaaatcgctttttttgccaaagtatattaaaataagatagagagaatctacagacaagagaagaat Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAGACUCCGGCUGCAAGCCCCGGAGUUUUAUCGUGUCUGCCUAUAUAAAUAUCGGUCUCUAGCCCCAGUGAUUUUCUCUUAAUAAAAAUCGCUUUUUUUGCCAAAGUAUAUUAAAAUAAGAUAGAGAGAAUCUACAGACAAGAGAAGAAU ((((((((((..(....).)))))))))).((.((((((..............(((.....))).....((((((((((........(((...((((.(((....)))....))))...)))))))))))))..)))))).))....... (-35.30) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUUCUUCUCUUGUCUGUAGAUUCUCUCUAUCUUAUUUUAAUAUACUUUGGCAAAAAAAGCGAUUUUUAUUAAGAGAAAAUCACUGGGGCUAGAGACCGAUAUUUAUAUAGGCAGACACGAUAAAACUCCGGGGCUUGCAGCCGGAGUCUU .......((.((((((((((.....)))).(((((...(((((.(((((((......((.(((((((.......))))))).))...)))))))....)))))...))))))))))).))....(((((((.(....)..)))))))... (-37.30) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 340 39 2 68 34 NC_009009:SSA_2019|5end_hypothetical_protein_2019078..2019308_NEGATIVE 318 57 14 89 50 NC_009009:SSA_0374|5end_Peptide_methionine_sulfoxide_reductase_msrA/msrB,_putative_363163..363393_POSITIVE 317 41 6 89 54 NC_009009:SSA_2356|5end_Replicative_DNA_helicase,_putative_2357958..2358188_NEGATIVE 317 40 3 167 124 NC_009009:SSA_0218|5end_Sugar-binding_periplasmic_protein,_putative_213863..214093_POSITIVE 304 40 7 161 124 NC_009009:SSA_2001|5end_Hydroxymethylpyrimidine/phosphomethylpyrimidine_kinase,_putative_1998220..1998450_NEGATIVE 304 70 21 181 122 NC_009009:SSA_1606|5end_Dephospho-CoA_kinase,_putative_1612425..1612655_NEGATIVE 304 42 6 99 60 NC_009009:SSA_1378|5end_hypothetical_protein_1397998..1398228_NEGATIVE 303 42 1 76 28 NC_009009:SSA_1610|5end_hypothetical_protein_1614909..1615139_NEGATIVE 299 41 7 70 30 NC_009009:SSA_0835|5end_Accessory_secretory_protein_Asp3,_putative_821036..821266_POSITIVE 298 58 12 86 32 NC_009009:SSA_1799|5end_Acetyltransferase,_putative_1781025..1781255_NEGATIVE 297 73 31 151 93 NC_009009:SSA_1891|5end_Oxidoreductase,_aldo/keto_reductase_family,_putative_1888991..1889221_NEGATIVE 297 43 2 51 18 NC_009009:SSA_0893|5end_ATP-binding_cassette_transporter-like_protein,_putative_884527..884757_POSITIVE 295 46 7 156 112 NC_009009:SSA_2347|5end_Coenzyme_F390_synthetase,_putative_2349939..2350169_NEGATIVE 295 44 6 76 27 NC_009009:SSA_0389|5end_hypothetical_protein_384172..384402_POSITIVE 294 40 2 61 20 NC_009009:SSA_1410|5end_DTDP-4-keto-6-deoxyglucose-3,5-epimerase,_putative_1423086..1423316_NEGATIVE 292 39 6 163 128 NC_009009:SSA_0124|5end_30S_ribosomal_protein_S5,_putative_116422..116652_POSITIVE 291 42 4 209 180 NC_009009:SSA_1822|5end_hypothetical_protein_1811125..1811355_NEGATIVE 289 42 6 201 157 NC_009009:SSA_1439|5end_hypothetical_protein_1444373..1444603_NEGATIVE 288 40 2 200 152 NC_009009:SSA_0031|5end_Glutamine_phosphoribosylpyrophosphate_amidotransferase,_putative_36439..36669_POSITIVE 286 42 2 196 150 NC_009009:SSA_1574|5end_Glycosyl_transferase,_family_1,_putative_1577930..1578160_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 321 68 22 138 83 NC_009009:SSA_0963|3end_Peptidoglycan_N-acetylglucosamine_deacetylase_A,_putative_972890..973040_POSITIVE 317 41 6 62 27 NC_009009:SSA_2357|3end_50S_ribosomal_protein_L9,_putative_2357985..2358135_NEGATIVE 310 36 5 46 6 NC_009009:SSA_2253|3end_3-Methyladenine_DNA_glycosylase_I,_constitutive,_putative_2248870..2249020_NEGATIVE 310 60 13 124 80 NC_009009:SSA_1801|3end_hypothetical_protein_1782652..1782802_NEGATIVE 303 43 5 140 95 NC_009009:SSA_1607|3end_Formamidopyrimidine-DNA_glycosylase,_putative_1612431..1612581_NEGATIVE 302 29 1 90 62 NC_009009:SSA_0332|3end_hypothetical_protein_326924..327074_POSITIVE 299 41 7 73 33 NC_009009:SSA_0834|3end_Accessory_secretory_protein_Asp2,_putative_821119..821269_POSITIVE 298 58 12 74 20 NC_009009:SSA_1800|3end_UDP-N-acetylmuramate--L-alanine_ligase,_putative_1781037..1781187_NEGATIVE 297 73 31 74 16 NC_009009:SSA_1892|3end_hypothetical_protein_1889068..1889218_NEGATIVE 295 44 6 72 23 NC_009009:SSA_0388|3end_Mismatch_repair_ATPase_(MutS_family),_putative_384248..384398_POSITIVE 294 40 2 56 15 NC_009009:SSA_1411|3end_Glucose-1-phosphate_thymidylytransferase,_putative_1423091..1423241_NEGATIVE 292 39 6 145 110 NC_009009:SSA_0123|3end_50S_ribosomal_protein_L18P,_putative_116484..116634_POSITIVE 288 40 2 105 57 NC_009009:SSA_0030|3end_Phosphoribosylformylglycinamidine_synthase,_putative_36424..36574_POSITIVE 284 76 32 51 1 NC_009009:SSA_0827|3end_Conserved_uncharacterized_cytosolic_protein,_putative_806952..807102_POSITIVE 283 45 1 49 6 NC_009009:SSA_1570|3end_hypothetical_protein_1573137..1573287_POSITIVE 282 38 6 100 62 NC_009009:SSA_0368|3end_hypothetical_protein_359722..359872_POSITIVE 275 41 6 137 113 NC_009009:SSA_0064|3end_hypothetical_protein_66979..67129_POSITIVE 272 24 3 149 127 NC_009009:SSA_0217|3end_Two-component_system_transcriptional_regulator_(CheY_domain_and_HTH-like_DNA-binding_domain),_putative_213946..214096_POSITIVE 269 41 2 40 5 NC_009009:SSA_1641|3end_MutT/nudix_family_protein,_putative_1642543..1642693_NEGATIVE 268 43 2 46 3 NC_009009:SSA_0086|3end_V-type_sodium_ATPase,_subunit_K,_putative_88398..88548_POSITIVE