Origin IGS: gggtgtatattcttcttagaaacgaagtgccttaagaagtgatactgtgaaattcatagaaaatagtagaaatataagaaaaaatgatgaaaaaaagtaaaatagcgactctatcaattgtagtgataaccgctactctagttattggagggacaatt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aattgtccctccaataactagagtagcggttatcactacaattgatagagtcgctattttactttttttcatcattttttcttatatttctactattttctatgaatttcacagtatcacttcttaaggcacttcgtttctaagaagaatatacaccc Mask Tandem Repeat Region ================================================ gggtgtatattcttcttagaaacgaagtgccttaagaagtgatactgtgaaattcatagaaaatagtagaaatataagaaaaaatgatgaaaaaaagtaaaatagcgactctatcaattgtagtgataaccgctactctagttattggagggacaatt Find is-nt database================================================ Query_seq: SSA_0967:SSA_0968|SSA_0967:SSA_0968:hypothetical protein:hypothetical protein:->->:976681..976838 158 gggtgtatattcttcttagaaacgaagtgccttaagaagtgatactgtgaaattcatagaaaatagtagaaatataagaaaaaatgatgaaaaaaagtaaaatagcgactctatcaattgtagtgataaccgctactctagttattggagggacaatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SSA_0967:SSA_0968|SSA_0967:SSA_0968:hypothetical protein:hypothetical protein:->->:976681..976838 158 gggtgtatattcttcttagaaacgaagtgccttaagaagtgatactgtgaaattcatagaaaatagtagaaatataagaaaaaatgatgaaaaaaagtaaaatagcgactctatcaattgtagtgataaccgctactctagttattggagggacaatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SSA_0967:SSA_0968|SSA_0967:SSA_0968:hypothetical protein:hypothetical protein:->->:976681..976838 158 gggtgtatattcttcttagaaacgaagtgccttaagaagtgatactgtgaaattcatagaaaatagtagaaatataagaaaaaatgatgaaaaaaagtaaaatagcgactctatcaattgtagtgataaccgctactctagttattggagggacaatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gggtgtatattcttcttagaaacgaagtgccttaagaagtgatactgtgaaattcatagaaaatagtagaaatataagaaaaaatgatgaaaaaaagtaaaatagcgactctatcaattgtagtgataaccgctactctagttattggagggacaatt Predict ORF larger than 30AA ================================================ Protein_Len: 41 Strand: - Start: 35 End: 157 .................................. S T I S H F E Y F I T S I Y S F I I F F L L I A V R D I T T I V A V R T I P P V M . Protein_Len: 33 Strand: - Start: 19 End: 117 .................. F R L A K L L S V T F N M S F L L F I L F F S S F F Y F L S E I M ......................................... gggtgtatattcttcttagaaacgaagtgccttaagaagtgatactgtgaaattcatagaaaatagtagaaatataagaaaaaatgatgaaaaaaagtaaaatagcgactctatcaattgtagtgataaccgctactctagttattggagggacaatt 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================================================ gggtgtatattcttcttagaaacgaagtgccttaagaagtgatactgtgaaattcatagaaaatagtagaaatataagaaaaaatgatgaaaaaaagtaaaatagcgactctatcaattgtagtgataaccgctactctagttattggagggacaatt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SSA_0967:SSA_0968|SSA_0967:SSA_0968:hypothetical protein:hypothetical protein:->->:976681..976838 158 gggtgtatattcttcttagaaacgaagtgccttaagaagtgatactgtgaaattcatagaaaatagtagaaatataagaaaaaatgatgaaaaaaagtaaaatagcgactctatcaattgtagtgataaccgctactctagttattggagggacaatt Intra-Species Hit: Count: 1 Min: 1 Max: 158 Len: 158 Subject: NC_009009_SSA_0967_SSA_0968|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[976681,976838]|158 HSP 1 e-value: 4.0E-22 bit: 105.0 Len: 53 Query Start:106 Query End:158 Subject Strand: POSITIVE Subject Start: 106 Subject End: 158 .........................................................................................................cgactctatcaattgtagtgataaccgctactctagttattggagggacaatt .........................................................................................................cgactctatcaattgtagtgataaccgctactctagttattggagggacaatt HSP 2 e-value: 4.0E-19 bit: 95.6 Len: 48 Query Start:1 Query End:48 Subject Strand: POSITIVE Subject Start: 1 Subject End: 48 gggtgtatattcttcttagaaacgaagtgccttaagaagtgatactgt.............................................................................................................. gggtgtatattcttcttagaaacgaagtgccttaagaagtgatactgt.............................................................................................................. Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GGGUGUAUAUUCUUCUUAGAAACGAAGUGCCUUAAGAAGUGAUACUGUGAAAUUCAUAGAAAAUAGUAGAAAUAUAAGAAAAAAUGAUGAAAAAAAGUAAAAUAGCGACUCUAUCAAUUGUAGUGAUAACCGCUACUCUAGUUAUUGGAGGGACAAUU .........((((....)))).....((.((((....((((((.(((((.....)))))......(((....))).........(((((.......((......)).....)))))...((((((.....))))))....)))))).)))).)).... (-24.30) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAUUGUCCCUCCAAUAACUAGAGUAGCGGUUAUCACUACAAUUGAUAGAGUCGCUAUUUUACUUUUUUUCAUCAUUUUUUCUUAUAUUUCUACUAUUUUCUAUGAAUUUCACAGUAUCACUUCUUAAGGCACUUCGUUUCUAAGAAGAAUAUACACCC .((((......))))...(((((((((((((((((.......))))))..)))))))))))....................................................((((..(((((((((((.....)))).)))))))...)))).... (-24.00) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 249 51 12 69 22 NC_009009:SSA_1490|5end_Ribonuclease_BN,_putative_1496732..1496962_NEGATIVE 246 150 102 175 118 NC_009009:SSA_0732|5end_Transposase,_putative_715896..716126_NEGATIVE 237 150 102 176 118 NC_009009:SSA_1477|5end_Truncated_transposase,_putative_1482496..1482726_POSITIVE 234 150 120 72 43 NC_009009:SSA_1154|5end_hypothetical_protein_1182661..1182891_POSITIVE 232 149 104 125 77 NC_009009:SSA_0790|5end_hypothetical_protein_773047..773277_POSITIVE 230 149 106 84 40 NC_009009:SSA_1152|5end_Protein_chain_release_factor_A,_putative_1180759..1180989_POSITIVE 229 47 1 56 10 NC_009009:SSA_0245|5end_hypothetical_protein_239136..239366_POSITIVE 225 148 109 58 23 NC_009009:SSA_1903|5end_hypothetical_protein_1898182..1898412_NEGATIVE 224 69 22 175 125 NC_009009:SSA_2367|5end_ABC-type_cobalt_transport_system,_ATPase_component,_putative_2369732..2369962_NEGATIVE 223 55 12 53 2 NC_009009:SSA_0962|5end_Lactoylglutathione_lyase,_putative_970965..971195_POSITIVE 222 50 4 167 117 NC_009009:SSA_1006|5end_Dextransucrase,_putative_1007076..1007306_POSITIVE 221 150 105 204 156 NC_009009:SSA_1821|5end_Acetyltransferase_(N-acetylase_of_ribosomal_proteins),_putative_1810610..1810840_NEGATIVE 220 139 104 76 45 NC_009009:SSA_1408|5end_hypothetical_protein_1421005..1421235_NEGATIVE 216 136 101 231 205 NC_009009:SSA_0577|5end_Ancient_RNA-binding_IF3-C_fold_(CRS1/YhbY_domain),_putative_571253..571483_POSITIVE 212 148 105 190 149 NC_009009:SSA_1438|5end_Acetyltransferase,_putative_1443612..1443842_NEGATIVE 211 57 23 91 55 NC_009009:SSA_1568|5end_ABC_transporter_membrane-spanning_permease,_arginine/histidine_transport,_putative_1571200..1571430_POSITIVE 208 44 12 231 192 NC_009009:SSA_2307|5end_hypothetical_protein_2309909..2310139_NEGATIVE 208 148 104 52 8 NC_009009:SSA_1776|5end_Potassium_uptake_protein,_Trk_family,_putative_1762639..1762869_POSITIVE 207 60 17 140 91 NC_009009:SSA_0508|5end_Conserved_uncharacterized_protein,_possible_phosphoserine_phosphatase_506668..506898_POSITIVE 206 136 106 91 65 NC_009009:SSA_2024|5end_hypothetical_protein_2029272..2029502_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 234 150 120 79 50 NC_009009:SSA_1153|3end_HemK_protein,_putative_1182748..1182898_POSITIVE 230 149 106 47 3 NC_009009:SSA_1151|3end_Thymidine_kinase,_putative_1180802..1180952_POSITIVE 230 149 105 61 16 NC_009009:SSA_0674|3end_Exodeoxyribonuclease_VII_large_subunit,_putative_658491..658641_POSITIVE 226 139 101 128 97 NC_009009:SSA_0576|3end_Conserved_GTPase,_putative_571225..571375_POSITIVE 216 149 102 148 107 NC_009009:SSA_1535|3end_hypothetical_protein_1542457..1542607_NEGATIVE 215 146 113 44 4 NC_009009:SSA_0870|3end_Cell_division_protein_FtsE,_putative_863708..863858_POSITIVE 211 57 23 78 42 NC_009009:SSA_1567|3end_Polar_amino_acid_ABC_transporter,_amino_acid-binding_protein,_putative_1571267..1571417_POSITIVE 210 128 86 67 15 NC_009009:SSA_0288|3end_hypothetical_protein_280740..280890_NEGATIVE 208 148 104 46 2 NC_009009:SSA_1775|3end_Potassium_uptake_protein,_Trk_family,_putative_1762713..1762863_POSITIVE 206 150 109 48 3 NC_009009:SSA_1476|3end_Phosphoglycerol_transferase,_alkaline_phosphatase_superfamily,_putative_1482448..1482598_POSITIVE 206 150 106 74 40 NC_009009:SSA_1268|3end_Chorismate_mutase/prephenate_dehydratase,_putative_1291347..1291497_NEGATIVE 204 66 28 89 51 NC_009009:SSA_0136|3end_ABC_transporter,_Zn_porter,_putative_131804..131954_POSITIVE 202 60 13 51 11 NC_009009:SSA_0505|3end_Conserved_protein/domain_typically_associated_with_flavoprotein_oxygenases,_DIM6/NTAB_family,_putative_504427..504577_POSITIVE 201 143 102 109 73 NC_009009:SSA_1036|3end_Deoxyribose-phosphate_aldolase,_putative_1052211..1052361_POSITIVE 198 50 8 41 1 NC_009009:SSA_2251|3end_hypothetical_protein_2247997..2248147_POSITIVE 198 148 104 115 70 NC_009009:SSA_0686|3end_Fe2+/Zn2+_uptake_regulation_protein,_putative_670079..670229_POSITIVE 198 134 109 91 61 NC_009009:SSA_0557|3end_hypothetical_protein_552393..552543_POSITIVE 195 50 8 134 99 NC_009009:SSA_1846|3end_Phosphoprotein_phosphatase,_putative_1840178..1840328_NEGATIVE 194 150 105 96 45 NC_009009:SSA_2241|3end_Conserved_uncharacterized_protein_2237677..2237827_NEGATIVE 194 138 109 135 111 NC_009009:SSA_1459|3end_RNA_methyltransferase,_putative_1466111..1466261_NEGATIVE