Origin IGS: tctgggacagataaatatttgctgaaagggtctgtattgtagcgtttaggcctgatacaggcccctgaggcaaatagaatactcagtgaaaatgaagcttatgggcggtagctctatacgtaaacgaaaatgttgattttcgaagagtatcagattgattttcacagagtatcaacggagtagaaggatgtgaatac .........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 gtattcacatccttctactccgttgatactctgtgaaaatcaatctgatactcttcgaaaatcaacattttcgtttacgtatagagctaccgcccataagcttcattttcactgagtattctatttgcctcaggggcctgtatcaggcctaaacgctacaatacagaccctttcagcaaatatttatctgtcccaga Mask Tandem Repeat Region ================================================ tctgggacagataaatatttgctgaaagggtctgtattgtagcgtttaggcctgatacaggcccctgaggcaaatagaatactcagtgaaaatgaagcttatgggcggtagctctatacgtaaacgaaaatgnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnacggagtagaaggatgtgaatac Find is-nt database================================================ Query_seq: SSA_0525:SSA_0526|SSA_0525:SSA_0526:Microcompartment protein, putative:hypothetical protein:->->:523903..524099 197 tctgggacagataaatatttgctgaaagggtctgtattgtagcgtttaggcctgatacaggcccctgaggcaaatagaatactcagtgaaaatgaagcttatgggcggtagctctatacgtaaacgaaaatgttgattttcgaagagtatcagattgattttcacagagtatcaacggagtagaaggatgtgaatac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SSA_0525:SSA_0526|SSA_0525:SSA_0526:Microcompartment protein, putative:hypothetical protein:->->:523903..524099 197 tctgggacagataaatatttgctgaaagggtctgtattgtagcgtttaggcctgatacaggcccctgaggcaaatagaatactcagtgaaaatgaagcttatgggcggtagctctatacgtaaacgaaaatgttgattttcgaagagtatcagattgattttcacagagtatcaacggagtagaaggatgtgaatac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SSA_0525:SSA_0526|SSA_0525:SSA_0526:Microcompartment protein, putative:hypothetical protein:->->:523903..524099 197 tctgggacagataaatatttgctgaaagggtctgtattgtagcgtttaggcctgatacaggcccctgaggcaaatagaatactcagtgaaaatgaagcttatgggcggtagctctatacgtaaacgaaaatgttgattttcgaagagtatcagattgattttcacagagtatcaacggagtagaaggatgtgaatac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tctgggacagataaatatttgctgaaagggtctgtattgtagcgtttaggcctgatacaggcccctgaggcaaatagaatactcagtgaaaatgaagcttatgggcggtagctctatacgtaaacgaaaatgttgattttcgaagagtatcagattgattttcacagagtatcaacggagtagaaggatgtgaatac Predict ORF larger than 30AA ================================================ Protein_Len: 30 Strand: - Start: 86 End: 175 ..................................................................................... H F H L K H A T A R Y T F S F T S K R L T D S Q N E C L I M ...................... Protein_Len: 39 Strand: - Start: 49 End: 165 ................................................ A Q Y L G R L C I S Y E T F I F S I P P L E I R L R F H Q N E F L I L N I K M ................................ tctgggacagataaatatttgctgaaagggtctgtattgtagcgtttaggcctgatacaggcccctgaggcaaatagaatactcagtgaaaatgaagcttatgggcggtagctctatacgtaaacgaaaatgttgattttcgaagagtatcagattgattttcacagagtatcaacggagtagaaggatgtgaatac 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================================================ tctgggacagataaatatttgctgaaagggtctgtattgtagcgtttaggcctgatacaggcccctgaggcaaatagaatactcagtgaaaatgaagcttatgggcggtagctctatacgtaaacgaaaatgttgattttcgaagagtatcagattgattttcacagagtatcaacggagtagaaggatgtgaatac Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SSA_0525:SSA_0526|SSA_0525:SSA_0526:Microcompartment protein, putative:hypothetical protein:->->:523903..524099 197 tctgggacagataaatatttgctgaaagggtctgtattgtagcgtttaggcctgatacaggcccctgaggcaaatagaatactcagtgaaaatgaagcttatgggcggtagctctatacgtaaacgaaaatgttgattttcgaagagtatcagattgattttcacagagtatcaacggagtagaaggatgtgaatac Intra-Species Hit: Count: 1 Min: 1 Max: 197 Len: 197 Subject: NC_009009_SSA_0525_SSA_0526|Microcompartment protein, putative:hypothetical protein|POSITIVE:POSITIVE|[523903,524099]|197 HSP 1 e-value: 1.0E-108 bit: 391.0 Len: 197 Query Start:1 Query End:197 Subject Strand: POSITIVE Subject Start: 1 Subject End: 197 tctgggacagataaatatttgctgaaagggtctgtattgtagcgtttaggcctgatacaggcccctgaggcaaatagaatactcagtgaaaatgaagcttatgggcggtagctctatacgtaaacgaaaatgttgattttcgaagagtatcagattgattttcacagagtatcaacggagtagaaggatgtgaatac tctgggacagataaatatttgctgaaagggtctgtattgtagcgtttaggcctgatacaggcccctgaggcaaatagaatactcagtgaaaatgaagcttatgggcggtagctctatacgtaaacgaaaatgttgattttcgaagagtatcagattgattttcacagagtatcaacggagtagaaggatgtgaatac Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UCUGGGACAGAUAAAUAUUUGCUGAAAGGGUCUGUAUUGUAGCGUUUAGGCCUGAUACAGGCCCCUGAGGCAAAUAGAAUACUCAGUGAAAAUGAAGCUUAUGGGCGGUAGCUCUAUACGUAAACGAAAAUGUUGAUUUUCGAAGAGUAUCAGAUUGAUUUUCACAGAGUAUCAACGGAGUAGAAGGAUGUGAAUAC ((((...........((((((((..(.(((((((((((...((......))..))))))))))).)..))))))))..((((((.((((((((.((.((...((((....)))).((((.....(((((((....)))))))....)))).)).)).)))))))).))))))...)))).................. (-58.10) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GUAUUCACAUCCUUCUACUCCGUUGAUACUCUGUGAAAAUCAAUCUGAUACUCUUCGAAAAUCAACAUUUUCGUUUACGUAUAGAGCUACCGCCCAUAAGCUUCAUUUUCACUGAGUAUUCUAUUUGCCUCAGGGGCCUGUAUCAGGCCUAAACGCUACAAUACAGACCCUUUCAGCAAAUAUUUAUCUGUCCCAGA ........................(((((((.((((((((...((((.(((....(((((((....))))))).....)))))))......((......))...)))))))).))))))).(((((((...(((((.((((((..(((......)))...)))))).)))))...)))))))....((((...)))) (-47.00) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 354 58 12 47 1 NC_009009:SSA_2348|5end_Metal_dependent_hydrolase,_putative_2350720..2350950_NEGATIVE 324 70 27 190 141 NC_009009:SSA_0759|5end_Acetylglutamate_kinase,_putative_741841..742071_POSITIVE 320 71 32 70 14 NC_009009:SSA_2352|5end_ABC-type_nitrate/sulfonate/bicarbonate_transporter,_periplasmic_component,_putative_2354508..2354738_NEGATIVE 318 70 21 66 23 NC_009009:SSA_1865|5end_Thioredoxin_reductase,_putative_1861892..1862122_NEGATIVE 313 89 43 66 10 NC_009009:SSA_1262|5end_tRNA_modification_GTPase,_possibly_iron-binding,_putative_1287782..1288012_POSITIVE 312 70 21 200 140 NC_009009:SSA_0051|5end_Dihydroxyacetone_kinase_phosphotransfer_protein,_putative_55190..55420_POSITIVE 303 70 21 223 172 NC_009009:SSA_2329|5end_hypothetical_protein_2332262..2332492_POSITIVE 303 69 21 168 118 NC_009009:SSA_0940|5end_NOL1/NOP2/sun_family_protein,_putative_947626..947856_POSITIVE 303 70 21 165 106 NC_009009:SSA_0618|5end_hypothetical_protein_611973..612203_NEGATIVE 301 65 29 70 37 NC_009009:SSA_0499|5end_ABC-type_dipeptide_transport_system,_periplasmic_component,_putative_498915..499145_POSITIVE 300 53 19 192 157 NC_009009:SSA_2360|5end_tRNA_(5-methylaminomethyl-2-thiouridylate)-methyltransferase,_putative_2363779..2364009_NEGATIVE 300 70 21 217 166 NC_009009:SSA_0047|5end_NAD(P)H_dehydrogenase_(Quinone),_putative_52850..53080_NEGATIVE 294 109 61 77 30 NC_009009:SSA_1927|5end_Exfoliative_toxin,_putative_1915873..1916103_NEGATIVE 293 89 41 210 158 NC_009009:SSA_0098|5end_Hydrolase,_haloacid_dehalogenase-like_family,_putative_99422..99652_POSITIVE 291 68 21 76 30 NC_009009:SSA_2131|5end_DNA-binding_protein,_putative_2133949..2134179_POSITIVE 289 67 28 179 147 NC_009009:SSA_1986|5end_Acetyltransferase,_GNAT_family,_putative_1982531..1982761_NEGATIVE 287 69 27 72 17 NC_009009:SSA_0788|5end_Proton-translocating_ATPase,_F1_sector,_beta_subunit,_putative_771037..771267_POSITIVE 285 71 41 152 127 NC_009009:SSA_1647|5end_hypothetical_protein_1647169..1647399_NEGATIVE 284 77 32 190 150 NC_009009:SSA_0429|5end_Histidine_ammonia-lyase,_putative_431251..431481_NEGATIVE 283 62 21 96 43 NC_009009:SSA_0997|5end_DNA-directed_DNA_polymerase_III_chain,_putative_996779..997009_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 354 58 12 90 44 NC_009009:SSA_2349|3end_DTDP-4-dehydrorhamnose_3,5-epimerase,_putative_2350677..2350827_NEGATIVE 312 70 26 138 97 NC_009009:SSA_0599|3end_hypothetical_protein_589007..589157_POSITIVE 304 63 21 53 4 NC_009009:SSA_0585|3end_hypothetical_protein_577286..577436_POSITIVE 302 64 21 63 20 NC_009009:SSA_0525|3end_Microcompartment_protein,_putative_523842..523992_POSITIVE 291 68 21 67 21 NC_009009:SSA_2130|3end_hypothetical_protein_2134020..2134170_POSITIVE 291 52 17 72 35 NC_009009:SSA_0826|3end_hypothetical_protein_805516..805666_POSITIVE 289 67 28 127 95 NC_009009:SSA_1987|3end_hypothetical_protein_1982583..1982733_NEGATIVE 285 78 31 132 72 NC_009009:SSA_1866|3end_hypothetical_protein_1861958..1862108_NEGATIVE 283 62 21 96 43 NC_009009:SSA_0996|3end_cGMP-specific_phosphodiesterase,_putative_996859..997009_POSITIVE 282 68 21 139 98 NC_009009:SSA_2211|3end_Transmembrane_protein,_putative_2211499..2211649_NEGATIVE 280 62 42 67 44 NC_009009:SSA_1925|3end_Seryl-tRNA_synthetase,_putative_1914865..1915015_POSITIVE 278 128 96 49 14 NC_009009:SSA_2282|3end_Phage_infection_protein,_putative_2282377..2282527_NEGATIVE 277 64 27 151 120 NC_009009:SSA_1648|3end_hypothetical_protein_1647166..1647316_NEGATIVE 276 78 37 38 6 NC_009009:SSA_1568|3end_ABC_transporter_membrane-spanning_permease,_arginine/histidine_transport,_putative_1571960..1572110_POSITIVE 270 66 21 67 15 NC_009009:SSA_0402|3end_Histidine_kinase,_putative_400099..400249_POSITIVE 269 69 21 77 29 NC_009009:SSA_1504|3end_hypothetical_protein_1506459..1506609_NEGATIVE 268 70 23 88 40 NC_009009:SSA_2293|3end_hypothetical_protein_2295955..2296105_POSITIVE 268 86 42 69 33 NC_009009:SSA_2271|3end_hypothetical_protein_2272238..2272388_NEGATIVE 268 66 27 91 50 NC_009009:SSA_1249|3end_hypothetical_protein_1273275..1273425_NEGATIVE 268 88 41 43 3 NC_009009:SSA_0643|3end_hypothetical_protein_630072..630222_NEGATIVE