Origin IGS: tttagactattttgataacaaaaaaaaccgcaatctagcggtttttattaatctatgagtgccttttgaacattaattgtctaactttgtgggagcagtacattatttagtacatattctttctcttgtttttacaaaactctgagaaatc .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 gatttctcagagttttgtaaaaacaagagaaagaatatgtactaaataatgtactgctcccacaaagttagacaattaatgttcaaaaggcactcatagattaataaaaaccgctagattgcggttttttttgttatcaaaatagtctaaa Mask Tandem Repeat Region ================================================ tttagactattttgataacaaaaaaaaccgcaatctagcggtttttattaatctatgagtgccttttgaacattaattgtctaactttgtgggagcagtacattatttagtacatattctttctcttgtttttacaaaactctgagaaatc Find is-nt database================================================ Query_seq: SSA_2151:SSA_2152|SSA_2151:SSA_2152:M protein trans-acting positive transcriptional regulator (MGA), putative:ABC-type transporter (uncharacterized), ATPase component, putative:-><-:2152982..2153132 151 tttagactattttgataacaaaaaaaaccgcaatctagcggtttttattaatctatgagtgccttttgaacattaattgtctaactttgtgggagcagtacattatttagtacatattctttctcttgtttttacaaaactctgagaaatc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SSA_2151:SSA_2152|SSA_2151:SSA_2152:M protein trans-acting positive transcriptional regulator (MGA), putative:ABC-type transporter (uncharacterized), ATPase component, putative:-><-:2152982..2153132 151 tttagactattttgataacaaaaaaaaccgcaatctagcggtttttattaatctatgagtgccttttgaacattaattgtctaactttgtgggagcagtacattatttagtacatattctttctcttgtttttacaaaactctgagaaatc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SSA_2151:SSA_2152|SSA_2151:SSA_2152:M protein trans-acting positive transcriptional regulator (MGA), putative:ABC-type transporter (uncharacterized), ATPase component, putative:-><-:2152982..2153132 151 tttagactattttgataacaaaaaaaaccgcaatctagcggtttttattaatctatgagtgccttttgaacattaattgtctaactttgtgggagcagtacattatttagtacatattctttctcttgtttttacaaaactctgagaaatc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tttagactattttgataacaaaaaaaaccgcaatctagcggtttttattaatctatgagtgccttttgaacattaattgtctaactttgtgggagcagtacattatttagtacatattctttctcttgtttttacaaaactctgagaaatc Predict ORF larger than 30AA ================================================ tttagactattttgataacaaaaaaaaccgcaatctagcggtttttattaatctatgagtgccttttgaacattaattgtctaactttgtgggagcagtacattatttagtacatattctttctcttgtttttacaaaactctgagaaatc 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================================================ tttagactattttgataacaaaaaaaaccgcaatctagcggtttttattaatctatgagtgccttttgaacattaattgtctaactttgtgggagcagtacattatttagtacatattctttctcttgtttttacaaaactctgagaaatc Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 64 HP_score: -6.7 Tail_Score: -3.3197 Start: 19 End: 50 Full_Region: aaggcactcatagat taataaaaaccgc tagatt gcggttttttttg ttatcaaaatagtct ..................taataaaaaccgctagattgcggttttttttg..................................................................................................... TransTerm Strand: - Conf: 93 HP_score: -5.2 Tail_Score: -6.17268 Start: 28 End: 41 Full_Region: atagattaataaaaa ccgc tagatt gcgg ttttttttgttatca ...........................ccgctagattgcgg.............................................................................................................. Find igs database================================================ Query_seq: SSA_2151:SSA_2152|SSA_2151:SSA_2152:M protein trans-acting positive transcriptional regulator (MGA), putative:ABC-type transporter (uncharacterized), ATPase component, putative:-><-:2152982..2153132 151 tttagactattttgataacaaaaaaaaccgcaatctagcggtttttattaatctatgagtgccttttgaacattaattgtctaactttgtgggagcagtacattatttagtacatattctttctcttgtttttacaaaactctgagaaatc Intra-Species Hit: Count: 1 Min: 1 Max: 151 Len: 151 Subject: NC_009009_SSA_2151_SSA_2152|M protein trans-acting positive transcriptional regulator (MGA), putative:ABC-type transporter (uncharacterized), ATPase component, putative|POSITIVE:NEGATIVE|[2152982,2153132]|151 HSP 1 e-value: 3.0E-66 bit: 252.0 Len: 151 Query Start:1 Query End:151 Subject Strand: POSITIVE Subject Start: 1 Subject End: 151 tttagactattttgataacnnnnnnnnccgcaatctagcggtttttattaatctatgagtgccttttgaacattaattgtctaactttgtgggagcagtacattatttagtacatattctttctcttgtttttacaaaactctgagaaatc tttagactattttgataacaaaaaaaaccgcaatctagcggtttttattaatctatgagtgccttttgaacattaattgtctaactttgtgggagcagtacattatttagtacatattctttctcttgtttttacaaaactctgagaaatc Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUAGACUAUUUUGAUAACAAAAAAAACCGCAAUCUAGCGGUUUUUAUUAAUCUAUGAGUGCCUUUUGAACAUUAAUUGUCUAACUUUGUGGGAGCAGUACAUUAUUUAGUACAUAUUCUUUCUCUUGUUUUUACAAAACUCUGAGAAAUC .((((((....(((((......(((((((((......))))))))).....((...(((...)))..))..)))))..)))))).((((((((((((((((........)))).............))))))))))))............. (-28.41) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GAUUUCUCAGAGUUUUGUAAAAACAAGAGAAAGAAUAUGUACUAAAUAAUGUACUGCUCCCACAAAGUUAGACAAUUAAUGUUCAAAAGGCACUCAUAGAUUAAUAAAAACCGCUAGAUUGCGGUUUUUUUUGUUAUCAAAAUAGUCUAAA ..((((((...((((.....))))..))))))......((((........)))).............((((((......((((.....))))......((((((.(((((((((......))))))))).)))..)))......)))))). (-29.20) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 260 126 95 191 156 NC_009009:SSA_0958|5end_hypothetical_protein_967273..967503_POSITIVE 248 128 84 179 135 NC_009009:SSA_0496|5end_Succinylglutamate_desuccinylase_/_Aspartoacylase_family,_putative_495946..496176_POSITIVE 241 144 113 124 89 NC_009009:SSA_2298|5end_Serine_protease_containing_a_PDZ_domain,_putative_2300603..2300833_NEGATIVE 237 48 21 225 197 NC_009009:SSA_2161|5end_NTP_pyrophosphohydrolases_including_oxidative_damage_repair_enzymes,_putative_2160600..2160830_NEGATIVE 235 62 27 157 123 NC_009009:SSA_0131|5end_30S_ribosomal_protein_S11,_putative_120717..120947_POSITIVE 233 137 91 118 74 NC_009009:SSA_1059|5end_hypothetical_protein_1076153..1076383_POSITIVE 224 129 88 118 73 NC_009009:SSA_0800|5end_Glutamine_amidotransferase,_putative_782774..783004_NEGATIVE 223 99 52 228 176 NC_009009:SSA_1930|5end_Acetyl-CoA_carboxylase_alpha_subunit,_putative_1918547..1918777_NEGATIVE 222 69 34 154 113 NC_009009:SSA_0725|5end_hypothetical_protein_710247..710477_POSITIVE 220 105 63 124 82 NC_009009:SSA_1393|5end_hypothetical_protein_1408773..1409003_NEGATIVE 218 66 28 99 52 NC_009009:SSA_0926|5end_Histone_acetyltransferase_HPA2,_putative_935465..935695_POSITIVE 216 127 81 104 52 NC_009009:SSA_0886|5end_Enolase,_putative_879673..879903_POSITIVE 214 67 26 98 62 NC_009009:SSA_1413|5end_GufA-like_protein,_putative_1424919..1425149_NEGATIVE 214 100 60 116 71 NC_009009:SSA_0441|5end_hypothetical_protein_441481..441711_POSITIVE 213 70 37 186 151 NC_009009:SSA_2061|5end_Peptide_deformylase,_putative_2062547..2062777_POSITIVE 212 126 89 108 69 NC_009009:SSA_1443|5end_1-(5-phosphoribosyl)-5-[(5-_phosphoribosylamino)methylideneamino]_imidazole-4-carboxamide_isomerase,_putative_1446672..1446902_NEGATIVE 211 69 28 169 120 NC_009009:SSA_0854|5end_hypothetical_protein_841335..841565_POSITIVE 209 146 106 121 83 NC_009009:SSA_2253|5end_3-Methyladenine_DNA_glycosylase_I,_constitutive,_putative_2249424..2249654_NEGATIVE 209 118 71 49 12 NC_009009:SSA_0680|5end_Serine/threonine_protein_phosphatase,_putative_662425..662655_POSITIVE 209 69 28 59 20 NC_009009:SSA_0299|5end_hypothetical_protein_292759..292989_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 322 104 62 53 11 NC_009009:SSA_1363|3end_FmtA-like_protein,_putative_1378639..1378789_NEGATIVE 317 102 63 40 1 NC_009009:SSA_0267|3end_ROK_family_protein,_putative_260873..261023_NEGATIVE 252 100 55 151 100 NC_009009:SSA_1829|3end_RNA_methyltransferase,_putative_1818959..1819109_NEGATIVE 241 144 113 72 37 NC_009009:SSA_2299|3end_hypothetical_protein_2300655..2300805_NEGATIVE 235 110 64 98 58 NC_009009:SSA_2201|3end_hypothetical_protein_2202237..2202387_POSITIVE 235 62 27 137 103 NC_009009:SSA_0130|3end_30S_ribosomal_protein_S13,_putative_120777..120927_POSITIVE 233 137 91 96 52 NC_009009:SSA_1058|3end_Thiamine_biosynthesis_protein,_putative_1076211..1076361_POSITIVE 224 129 88 118 73 NC_009009:SSA_0801|3end_Mur_ligase_family_protein,_putative_782774..782924_NEGATIVE 222 69 34 139 98 NC_009009:SSA_0724|3end_ABC-type_multidrug/protein/lipid_transport_system_(pediocin_PA-1_exporter),_ATPase_and_permease_components,_putative_710312..710462_POSITIVE 220 105 63 124 82 NC_009009:SSA_1394|3end_hypothetical_protein_1408773..1408923_NEGATIVE 218 54 12 88 39 NC_009009:SSA_2141|3end_Argininosuccinate_lyase,_putative_2140819..2140969_NEGATIVE 218 66 28 48 1 NC_009009:SSA_0925|3end_ABC-type_antimicrobial_peptide_transport_system,_ATPase_component,_putative_935494..935644_POSITIVE 216 56 11 89 42 NC_009009:SSA_2364|3end_Immunodominant_staphylococcal_antigen_A_precursor,_putative_2366442..2366592_NEGATIVE 214 67 26 75 39 NC_009009:SSA_1414|3end_hypothetical_protein_1424942..1425092_NEGATIVE 213 64 28 112 66 NC_009009:SSA_0592|3end_hypothetical_protein_584248..584398_POSITIVE 212 126 89 136 97 NC_009009:SSA_1444|3end_Imidazole_glycerol-phosphate_synthase_subunit_hisH,_putative_1446644..1446794_NEGATIVE 212 46 14 87 50 NC_009009:SSA_0605|3end_Methyltransferase_gidB,_putative_592994..593144_NEGATIVE 209 146 106 111 73 NC_009009:SSA_2254|3end_Holliday_junction_DNA_helicase_ruvA,_putative_2249434..2249584_NEGATIVE 208 69 33 127 93 NC_009009:SSA_1805|3end_Primosomal_protein_DnaI,_putative_1788665..1788815_NEGATIVE 208 99 51 148 97 NC_009009:SSA_1424|3end_Hydrolase,_putative_1433889..1434039_NEGATIVE