Origin IGS: actgaataatatagactactattatatcatgaaatgcctctgatttgtttgttctaccaagctttttgctgattaaaacgttttctgataacaggagaaaatttccacttttatccaaagcacctcagcactttttactaacaaatatggtataatgacagggttgaggtgaaat .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 atttcacctcaaccctgtcattataccatatttgttagtaaaaagtgctgaggtgctttggataaaagtggaaattttctcctgttatcagaaaacgttttaatcagcaaaaagcttggtagaacaaacaaatcagaggcatttcatgatataatagtagtctatattattcagt Mask Tandem Repeat Region ================================================ actgaataatatagactactattatatcatgaaatgcctctgatttgtttgttctaccaagctttttgctgattaaaacgttttctgataacaggagaaaatttccacttttatccaaagcacctcagcactttttactaacaaatatggtataatgacagggttgaggtgaaat Find is-nt database================================================ Query_seq: SSA_2371:SSA_2372|SSA_2371:SSA_2372:Zn-dependent peptidase, putative:hypothetical protein:<-->:2373772..2373946 175 actgaataatatagactactattatatcatgaaatgcctctgatttgtttgttctaccaagctttttgctgattaaaacgttttctgataacaggagaaaatttccacttttatccaaagcacctcagcactttttactaacaaatatggtataatgacagggttgaggtgaaat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SSA_2371:SSA_2372|SSA_2371:SSA_2372:Zn-dependent peptidase, putative:hypothetical protein:<-->:2373772..2373946 175 actgaataatatagactactattatatcatgaaatgcctctgatttgtttgttctaccaagctttttgctgattaaaacgttttctgataacaggagaaaatttccacttttatccaaagcacctcagcactttttactaacaaatatggtataatgacagggttgaggtgaaat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SSA_2371:SSA_2372|SSA_2371:SSA_2372:Zn-dependent peptidase, putative:hypothetical protein:<-->:2373772..2373946 175 actgaataatatagactactattatatcatgaaatgcctctgatttgtttgttctaccaagctttttgctgattaaaacgttttctgataacaggagaaaatttccacttttatccaaagcacctcagcactttttactaacaaatatggtataatgacagggttgaggtgaaat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 actgaataatatagactactattatatcatgaaatgcctctgatttgtttgttctaccaagctttttgctgattaaaacgttttctgataacaggagaaaatttccacttttatccaaagcacctcagcactttttactaacaaatatggtataatgacagggttgaggtgaaat Predict ORF larger than 30AA ================================================ Protein_Len: 36 Strand: + Start: 45 End: 152 ............................................ M F V L P S F L L I K T F S D N R R K F P L L S K A P Q H F L L T N M V ....................... Protein_Len: 39 Strand: - Start: 2 End: 118 . Q I I Y V V I I D H F A E S K N T R G L K K S I L V N E S L L L F N G S K D M ......................................................... actgaataatatagactactattatatcatgaaatgcctctgatttgtttgttctaccaagctttttgctgattaaaacgttttctgataacaggagaaaatttccacttttatccaaagcacctcagcactttttactaacaaatatggtataatgacagggttgaggtgaaat 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================================================ actgaataatatagactactattatatcatgaaatgcctctgatttgtttgttctaccaagctttttgctgattaaaacgttttctgataacaggagaaaatttccacttttatccaaagcacctcagcactttttactaacaaatatggtataatgacagggttgaggtgaaat Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SSA_2371:SSA_2372|SSA_2371:SSA_2372:Zn-dependent peptidase, putative:hypothetical protein:<-->:2373772..2373946 175 actgaataatatagactactattatatcatgaaatgcctctgatttgtttgttctaccaagctttttgctgattaaaacgttttctgataacaggagaaaatttccacttttatccaaagcacctcagcactttttactaacaaatatggtataatgacagggttgaggtgaaat Intra-Species Hit: Count: 1 Min: 1 Max: 175 Len: 175 Subject: NC_009009_SSA_2371_SSA_2372|Zn-dependent peptidase, putative:hypothetical protein|NEGATIVE:POSITIVE|[2373772,2373946]|175 HSP 1 e-value: 8.0E-95 bit: 347.0 Len: 175 Query Start:1 Query End:175 Subject Strand: POSITIVE Subject Start: 1 Subject End: 175 actgaataatatagactactattatatcatgaaatgcctctgatttgtttgttctaccaagctttttgctgattaaaacgttttctgataacaggagaaaatttccacttttatccaaagcacctcagcactttttactaacaaatatggtataatgacagggttgaggtgaaat actgaataatatagactactattatatcatgaaatgcctctgatttgtttgttctaccaagctttttgctgattaaaacgttttctgataacaggagaaaatttccacttttatccaaagcacctcagcactttttactaacaaatatggtataatgacagggttgaggtgaaat Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ ACUGAAUAAUAUAGACUACUAUUAUAUCAUGAAAUGCCUCUGAUUUGUUUGUUCUACCAAGCUUUUUGCUGAUUAAAACGUUUUCUGAUAACAGGAGAAAAUUUCCACUUUUAUCCAAAGCACCUCAGCACUUUUUACUAACAAAUAUGGUAUAAUGACAGGGUUGAGGUGAAAU ..((.((((...((..........(((((.((((((....(((((.(((((......)))))........)))))...)))))).)))))...(((((...))))).)).)))).))...(((((((((.((((.(((((.......)))))....)).)).))))))))).... (-30.30) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUUUCACCUCAACCCUGUCAUUAUACCAUAUUUGUUAGUAAAAAGUGCUGAGGUGCUUUGGAUAAAAGUGGAAAUUUUCUCCUGUUAUCAGAAAACGUUUUAAUCAGCAAAAAGCUUGGUAGAACAAACAAAUCAGAGGCAUUUCAUGAUAUAAUAGUAGUCUAUAUUAUUCAGU ......((((...............((((.((((((.....((((..(....)..)))).)))))).))))..........(((....))).....((((((...(((.....)))...))))))..........)))).......(((.((((((........))))))))).. (-31.90) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 827 130 81 221 172 NC_009009:SSA_2371|5end_Zn-dependent_peptidase,_putative_2373681..2373911_NEGATIVE 321 129 85 71 15 NC_009009:SSA_1491|5end_Methionine_aminopeptidase_A,_putative_1497637..1497867_NEGATIVE 312 170 122 159 107 NC_009009:SSA_1055|5end_Conserved_uncharacterized_protein_1070899..1071129_POSITIVE 298 43 11 147 119 NC_009009:SSA_0341|5end_hypothetical_protein_334731..334961_NEGATIVE 290 80 36 112 63 NC_009009:SSA_1799|5end_Acetyltransferase,_putative_1781025..1781255_NEGATIVE 288 69 21 169 101 NC_009009:SSA_0873|5end_ATP-dependent_DNA_helicase;_DNA_polymerase_III,_epsilon_subunit,_putative_865391..865621_POSITIVE 285 169 123 59 19 NC_009009:SSA_1212|5end_Ribose-phosphate_pyrophosphokinase_2,_putative_1235401..1235631_POSITIVE 283 130 84 158 107 NC_009009:SSA_2124|5end_Dehydrogenase,_eukaryotic-like,_putative_2129411..2129641_NEGATIVE 277 71 35 55 12 NC_009009:SSA_0555|5end_Conserved_hypothetical_cytosolic_protein_549615..549845_POSITIVE 275 65 26 213 177 NC_009009:SSA_1059|5end_hypothetical_protein_1076153..1076383_POSITIVE 268 137 94 108 66 NC_009009:SSA_1103|5end_hypothetical_protein_1123833..1124063_POSITIVE 268 87 41 222 177 NC_009009:SSA_0143|5end_Conserved_uncharacterized_protein_137465..137695_POSITIVE 266 69 22 135 78 NC_009009:SSA_2141|5end_Argininosuccinate_lyase,_putative_2142201..2142431_NEGATIVE 264 90 47 90 36 NC_009009:SSA_2182|5end_hypothetical_protein_2181020..2181250_NEGATIVE 261 80 36 209 156 NC_009009:SSA_2346|5end_3-oxoacyl-[acyl-carrier-protein]_synthase_III,_putative_2348546..2348776_NEGATIVE 260 69 30 194 145 NC_009009:SSA_1399|5end_hypothetical_protein_1412225..1412455_NEGATIVE 256 80 35 147 98 NC_009009:SSA_1180|5end_hypothetical_protein_1208559..1208789_NEGATIVE 253 128 84 76 36 NC_009009:SSA_1558|5end_Hydrolase,_HAD_superfamily_1560862..1561092_NEGATIVE 252 74 31 65 21 NC_009009:SSA_0201|5end_ABC_multidrug_transporter_(3-component_subtilin_immunity_exporter),_putative_199825..200055_POSITIVE 249 75 31 169 127 NC_009009:SSA_0967|5end_hypothetical_protein_975872..976102_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 290 80 36 100 51 NC_009009:SSA_1800|3end_UDP-N-acetylmuramate--L-alanine_ligase,_putative_1781037..1781187_NEGATIVE 289 167 122 147 101 NC_009009:SSA_1054|3end_CBS_domain_protein,_putative_1070973..1071123_POSITIVE 283 130 84 146 95 NC_009009:SSA_2125|3end_Small_primase-like_protein_(Toprim_domain),_putative_2129423..2129573_NEGATIVE 277 71 35 52 9 NC_009009:SSA_0554|3end_hypothetical_protein_549692..549842_POSITIVE 270 129 91 49 2 NC_009009:SSA_1492|3end_hypothetical_protein_1497659..1497809_NEGATIVE 268 68 27 116 69 NC_009009:SSA_1044|3end_Homoserine_kinase,_putative_1060799..1060949_POSITIVE 266 69 22 120 63 NC_009009:SSA_2142|3end_Argininosuccinate_synthase,_putative_2142216..2142366_NEGATIVE 261 80 36 108 55 NC_009009:SSA_2347|3end_Coenzyme_F390_synthetase,_putative_2348647..2348797_NEGATIVE 256 80 35 114 65 NC_009009:SSA_1181|3end_Hydrolase,_alpha/beta_superfamily,_putative_1208592..1208742_NEGATIVE 253 128 84 76 36 NC_009009:SSA_1559|3end_Conserved_uncharacterized_protein_1560862..1561012_NEGATIVE 252 70 27 74 34 NC_009009:SSA_2176|3end_hypothetical_protein_2174269..2174419_NEGATIVE 248 86 41 89 36 NC_009009:SSA_2361|3end_L-serine_dehydratase_beta_subunit_2364779..2364929_POSITIVE 247 132 92 118 78 NC_009009:SSA_0319|3end_Branched-chain_amino_acid_permease_(L-methionine,_L-isoleucine,_leucine_and_valine),_putative_313496..313646_POSITIVE 246 73 32 69 19 NC_009009:SSA_0086|3end_V-type_sodium_ATPase,_subunit_K,_putative_88398..88548_POSITIVE 241 56 16 93 51 NC_009009:SSA_0054|3end_Phosphotransferase_system_sugar-specific_EIIB_component,_putative_59088..59238_POSITIVE 236 70 25 110 68 NC_009009:SSA_2260|3end_DNA_mismatch_repair_protein_hexA,_putative_2255601..2255751_NEGATIVE 232 74 35 83 49 NC_009009:SSA_1015|3end_4-hydroxybenzoate_octaprenyltransferase,_putative_1019682..1019832_POSITIVE 231 100 51 116 62 NC_009009:SSA_0559|3end_hypothetical_protein_553119..553269_POSITIVE 230 83 52 135 106 NC_009009:SSA_0628|3end_Fe-S-cluster_redox_enzyme/radical_SAM_enzyme,_Cfr_family,_putative_619060..619210_POSITIVE 227 70 24 56 18 NC_009009:SSA_0833|3end_Accessory_secretory_protein_Asp1,_putative_819600..819750_POSITIVE