Origin IGS: agtttagccctaagttttaacagaatttagggttttttctttcttgttccagtttctctttcgtgttacaataggagtattgaaatttagaggaaagaac .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 gttctttcctctaaatttcaatactcctattgtaacacgaaagagaaactggaacaagaaagaaaaaaccctaaattctgttaaaacttagggctaaact Mask Tandem Repeat Region ================================================ agtttagccctaagttttaacagaatttagggttttttctttcttgttccagtttctctttcgtgttacaataggagtattgaaatttagaggaaagaac Find is-nt database================================================ Query_seq: SSA_1056:SSA_1057|SSA_1056:SSA_1057:Firmicute fructose-1,6-bisphosphatase, putative:Aminotransferase, class-V, putative:->->:1073811..1073910 100 agtttagccctaagttttaacagaatttagggttttttctttcttgttccagtttctctttcgtgttacaataggagtattgaaatttagaggaaagaac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SSA_1056:SSA_1057|SSA_1056:SSA_1057:Firmicute fructose-1,6-bisphosphatase, putative:Aminotransferase, class-V, putative:->->:1073811..1073910 100 agtttagccctaagttttaacagaatttagggttttttctttcttgttccagtttctctttcgtgttacaataggagtattgaaatttagaggaaagaac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SSA_1056:SSA_1057|SSA_1056:SSA_1057:Firmicute fructose-1,6-bisphosphatase, putative:Aminotransferase, class-V, putative:->->:1073811..1073910 100 agtttagccctaagttttaacagaatttagggttttttctttcttgttccagtttctctttcgtgttacaataggagtattgaaatttagaggaaagaac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 agtttagccctaagttttaacagaatttagggttttttctttcttgttccagtttctctttcgtgttacaataggagtattgaaatttagaggaaagaac Predict ORF larger than 30AA ================================================ agtttagccctaagttttaacagaatttagggttttttctttcttgttccagtttctctttcgtgttacaataggagtattgaaatttagaggaaagaac 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: 43 End: 72 ..........................................CTTGTTCCAGTTTCTCTTTCGTGTTACAAT............................ Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ agtttagccctaagttttaacagaatttagggttttttctttcttgttccagtttctctttcgtgttacaataggagtattgaaatttagaggaaagaac Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SSA_1056:SSA_1057|SSA_1056:SSA_1057:Firmicute fructose-1,6-bisphosphatase, putative:Aminotransferase, class-V, putative:->->:1073811..1073910 100 agtttagccctaagttttaacagaatttagggttttttctttcttgttccagtttctctttcgtgttacaataggagtattgaaatttagaggaaagaac Intra-Species Hit: Count: 1 Min: 1 Max: 100 Len: 100 Subject: NC_009009_SSA_1056_SSA_1057|Firmicute fructose-1,6-bisphosphatase, putative:Aminotransferase, class-V, putative|POSITIVE:POSITIVE|[1073811,1073910]|100 HSP 1 e-value: 2.0E-50 bit: 198.0 Len: 100 Query Start:1 Query End:100 Subject Strand: POSITIVE Subject Start: 1 Subject End: 100 agtttagccctaagttttaacagaatttagggttttttctttcttgttccagtttctctttcgtgttacaataggagtattgaaatttagaggaaagaac agtttagccctaagttttaacagaatttagggttttttctttcttgttccagtttctctttcgtgttacaataggagtattgaaatttagaggaaagaac Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGUUUAGCCCUAAGUUUUAACAGAAUUUAGGGUUUUUUCUUUCUUGUUCCAGUUUCUCUUUCGUGUUACAAUAGGAGUAUUGAAAUUUAGAGGAAAGAAC .....((((((((((((.....))))))))))))..(((((((((.(...((((((...(((.(((....))).)))....)))))).).))))))))). (-27.80) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GUUCUUUCCUCUAAAUUUCAAUACUCCUAUUGUAACACGAAAGAGAAACUGGAACAAGAAAGAAAAAACCCUAAAUUCUGUUAAAACUUAGGGCUAAACU .(((((((.((((..((((..(((.......)))...(....).)))).))))....)))))))....((((((.............))))))....... (-16.02) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 321 66 29 126 85 NC_009009:SSA_2268|5end_Type_II_secretory_pathway,_pullulanase_PulA_glycosidase,_putative_2267228..2267458_POSITIVE 300 77 31 191 148 NC_009009:SSA_0862|5end_MurM,_putative_854221..854451_NEGATIVE 292 74 33 230 187 NC_009009:SSA_1250|5end_Conserved_uncharacterized_protein,_putative_1274512..1274742_NEGATIVE 276 76 31 40 4 NC_009009:SSA_1362|5end_ORFB,_transposon_ISSsa2_1377911..1378141_POSITIVE 273 80 39 83 42 NC_009009:SSA_1528|5end_Phosphoglycerate_mutase,_putative_1535135..1535365_POSITIVE 272 48 6 189 151 NC_009009:SSA_1255|5end_hypothetical_protein_1282244..1282474_NEGATIVE 258 48 1 209 161 NC_009009:SSA_1258|5end_Purine_nucleoside_phosphorylase,_family_1,_putative_1284652..1284882_NEGATIVE 255 66 27 127 73 NC_009009:SSA_1492|5end_hypothetical_protein_1498954..1499184_NEGATIVE 255 79 31 135 93 NC_009009:SSA_0601|5end_Phosphorylase,_Pnp/Udp_family,_putative_589147..589377_POSITIVE 249 44 1 72 33 NC_009009:SSA_0793|5end_DNA-entry_nuclease,_putative_774859..775089_POSITIVE 239 76 37 38 3 NC_009009:SSA_0238|5end_hypothetical_protein_232481..232711_POSITIVE 235 64 21 88 31 NC_009009:SSA_1854|5end_Conserved_uncharacterized_protein_1850884..1851114_NEGATIVE 234 79 44 121 83 NC_009009:SSA_2051|5end_Oligoendopeptidase,_putative_2054731..2054961_POSITIVE 234 75 33 142 94 NC_009009:SSA_1967|5end_Threonine_desaminase,_putative_1963559..1963789_NEGATIVE 230 67 30 130 92 NC_009009:SSA_0638|5end_Tryptophan_synthase_alpha_chain,_putative_626935..627165_POSITIVE 228 77 32 145 93 NC_009009:SSA_1712|5end_Arsenate_reductase_(ArsC),_glutaredoxin_family,_putative_1700084..1700314_NEGATIVE 227 78 32 119 66 NC_009009:SSA_1902|5end_tRNA_(guanine-N(7)-)-methyltransferase,_putative_1897391..1897621_NEGATIVE 227 78 41 181 142 NC_009009:SSA_1149|5end_Glycosyl_hydrolase,_family_1,_putative_1178399..1178629_POSITIVE 226 68 21 106 55 NC_009009:SSA_1778|5end_Segregation_and_condensation_protein_B,_putative_1765711..1765941_NEGATIVE 226 73 31 62 8 NC_009009:SSA_0839|5end_hypothetical_protein_826751..826981_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 272 48 6 76 38 NC_009009:SSA_1256|3end_NAD-dependent_deacetylase,_putative_1282357..1282507_NEGATIVE 245 34 6 85 57 NC_009009:SSA_1056|3end_Firmicute_fructose-1,6-bisphosphatase,_putative_1073750..1073900_POSITIVE 239 65 27 151 98 NC_009009:SSA_1493|3end_hypothetical_protein_1498929..1499079_NEGATIVE 235 64 21 75 18 NC_009009:SSA_1855|3end_hypothetical_protein_1850897..1851047_NEGATIVE 230 67 30 137 99 NC_009009:SSA_0637|3end_Tryptophan_synthase_beta_chain,_putative_627022..627172_POSITIVE 228 99 51 98 45 NC_009009:SSA_1217|3end_Conserved_uncharacterized_protein_1239736..1239886_POSITIVE 227 78 32 122 69 NC_009009:SSA_1903|3end_hypothetical_protein_1897388..1897538_NEGATIVE 226 68 21 113 62 NC_009009:SSA_1779|3end_Segregation_and_condensation_protein_A,_putative_1765704..1765854_NEGATIVE 226 73 31 60 6 NC_009009:SSA_0838|3end_GtfB,_putative_826829..826979_POSITIVE 224 69 42 107 79 NC_009009:SSA_2278|3end_Ukp_protein,_putative_2280410..2280560_NEGATIVE 223 70 28 133 95 NC_009009:SSA_0364|3end_Serine/threonine:Na+_symporter,_putative_355311..355461_NEGATIVE 223 47 6 97 56 NC_009009:SSA_0327|3end_Glycosyltransferase,_putative_320436..320586_POSITIVE 223 76 36 40 1 NC_009009:SSA_0305|3end_hypothetical_protein_302589..302739_POSITIVE 222 80 31 84 40 NC_009009:SSA_1459|3end_RNA_methyltransferase,_putative_1466111..1466261_NEGATIVE 222 49 7 108 59 NC_009009:SSA_0430|3end_Cationic_amino_acid_transporter,_putative_431248..431398_NEGATIVE 220 64 25 126 66 NC_009009:SSA_2308|3end_hypothetical_protein_2309893..2310043_NEGATIVE 220 79 37 144 97 NC_009009:SSA_1384|3end_hypothetical_protein_1401715..1401865_NEGATIVE 218 78 31 56 19 NC_009009:SSA_1849|3end_Primosomal_protein_N',_putative_1843262..1843412_NEGATIVE 218 65 21 123 65 NC_009009:SSA_0385|3end_ABC_transporter,_glycine-betaine/proline_permease_protein,_putative_378526..378676_NEGATIVE 215 77 31 139 78 NC_009009:SSA_0862|3end_MurM,_putative_852992..853142_NEGATIVE