Origin IGS: taacatacgaatcgcaaggaatgccctgcgatttttgtttgcatatttgagagaaacgaagaaactttcgttttagaaatgacgcttgctttattgataggaatcaaatgtctttttgaattaagcaaatataaaaaatggtctcaatatataaaatcatttcaatctttatccttcaaaaaccagcttttatgttaaaatagagatatcacattgagaagaaagagcaaagtcc .........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 ggactttgctctttcttctcaatgtgatatctctattttaacataaaagctggtttttgaaggataaagattgaaatgattttatatattgagaccattttttatatttgcttaattcaaaaagacatttgattcctatcaataaagcaagcgtcatttctaaaacgaaagtttcttcgtttctctcaaatatgcaaacaaaaatcgcagggcattccttgcgattcgtatgtta Mask Tandem Repeat Region ================================================ taacatacgaatcgcaaggaatgccctgcgatttttgtttgcatatttgagagaaacgaagaaactttcgttttagaaatgacgcttgctttattgataggaatcaaatgtctttttgaattaagcaaatataaaaaatggtctcaatatataaaatcatttcaatctttatccttcaaaaaccagcttttatgttaaaatagagatatcacattgagaagaaagagcaaagtcc Find is-nt database================================================ Query_seq: SSA_2186:SSA_2187|SSA_2186:SSA_2187:Glutathione biosynthesis bifunctional protein gshAB (Gamma-GCS-GS) (GCS-GS), putative:Conserved hypothetical membrane associated protein:->->:2187931..2188165 235 taacatacgaatcgcaaggaatgccctgcgatttttgtttgcatatttgagagaaacgaagaaactttcgttttagaaatgacgcttgctttattgataggaatcaaatgtctttttgaattaagcaaatataaaaaatggtctcaatatataaaatcatttcaatctttatccttcaaaaaccagcttttatgttaaaatagagatatcacattgagaagaaagagcaaagtcc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SSA_2186:SSA_2187|SSA_2186:SSA_2187:Glutathione biosynthesis bifunctional protein gshAB (Gamma-GCS-GS) (GCS-GS), putative:Conserved hypothetical membrane associated protein:->->:2187931..2188165 235 taacatacgaatcgcaaggaatgccctgcgatttttgtttgcatatttgagagaaacgaagaaactttcgttttagaaatgacgcttgctttattgataggaatcaaatgtctttttgaattaagcaaatataaaaaatggtctcaatatataaaatcatttcaatctttatccttcaaaaaccagcttttatgttaaaatagagatatcacattgagaagaaagagcaaagtcc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SSA_2186:SSA_2187|SSA_2186:SSA_2187:Glutathione biosynthesis bifunctional protein gshAB (Gamma-GCS-GS) (GCS-GS), putative:Conserved hypothetical membrane associated protein:->->:2187931..2188165 235 taacatacgaatcgcaaggaatgccctgcgatttttgtttgcatatttgagagaaacgaagaaactttcgttttagaaatgacgcttgctttattgataggaatcaaatgtctttttgaattaagcaaatataaaaaatggtctcaatatataaaatcatttcaatctttatccttcaaaaaccagcttttatgttaaaatagagatatcacattgagaagaaagagcaaagtcc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taacatacgaatcgcaaggaatgccctgcgatttttgtttgcatatttgagagaaacgaagaaactttcgttttagaaatgacgcttgctttattgataggaatcaaatgtctttttgaattaagcaaatataaaaaatggtctcaatatataaaatcatttcaatctttatccttcaaaaaccagcttttatgttaaaatagagatatcacattgagaagaaagagcaaagtcc Predict ORF larger than 30AA ================================================ Protein_Len: 55 Strand: + Start: 31 End: 195 .............................. M F V C I F E R N E E T F V L E M T L A L L I G I K C L F E L S K Y K K W S Q Y I K S F Q S L S F K N Q L L C ........................................ Protein_Len: 42 Strand: - Start: 3 End: 128 .. C V F R L S H G A I K T Q M N S L F S S V K T K S I V S A K N I P I L H R K S N L M ........................................................................................................... Protein_Len: 31 Strand: - Start: 2 End: 94 . V Y S D C P I G Q S K Q K C I Q S F R L F K R K L F S A Q K M ............................................................................................................................................. taacatacgaatcgcaaggaatgccctgcgatttttgtttgcatatttgagagaaacgaagaaactttcgttttagaaatgacgcttgctttattgataggaatcaaatgtctttttgaattaagcaaatataaaaaatggtctcaatatataaaatcatttcaatctttatccttcaaaaaccagcttttatgttaaaatagagatatcacattgagaagaaagagcaaagtcc 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================================================ taacatacgaatcgcaaggaatgccctgcgatttttgtttgcatatttgagagaaacgaagaaactttcgttttagaaatgacgcttgctttattgataggaatcaaatgtctttttgaattaagcaaatataaaaaatggtctcaatatataaaatcatttcaatctttatccttcaaaaaccagcttttatgttaaaatagagatatcacattgagaagaaagagcaaagtcc Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 52 HP_score: -2.4 Tail_Score: -4.05747 Start: 57 End: 70 Full_Region: gcgtcatttctaaaa cgaa agtttc ttcg tttctctcaaatatg ........................................................cgaaagtttcttcg..................................................................................................................................................................... Find igs database================================================ Query_seq: SSA_2186:SSA_2187|SSA_2186:SSA_2187:Glutathione biosynthesis bifunctional protein gshAB (Gamma-GCS-GS) (GCS-GS), putative:Conserved hypothetical membrane associated protein:->->:2187931..2188165 235 taacatacgaatcgcaaggaatgccctgcgatttttgtttgcatatttgagagaaacgaagaaactttcgttttagaaatgacgcttgctttattgataggaatcaaatgtctttttgaattaagcaaatataaaaaatggtctcaatatataaaatcatttcaatctttatccttcaaaaaccagcttttatgttaaaatagagatatcacattgagaagaaagagcaaagtcc Intra-Species Hit: Count: 1 Min: 1 Max: 235 Len: 235 Subject: NC_009009_SSA_2186_SSA_2187|Glutathione biosynthesis bifunctional protein gshAB (Gamma-GCS-GS) (GCS-GS), putative:Conserved hypothetical membrane associated protein|POSITIVE:POSITIVE|[2187931,2188165]|235 HSP 1 e-value: 1.0E-130 bit: 466.0 Len: 235 Query Start:1 Query End:235 Subject Strand: POSITIVE Subject Start: 1 Subject End: 235 taacatacgaatcgcaaggaatgccctgcgatttttgtttgcatatttgagagaaacgaagaaactttcgttttagaaatgacgcttgctttattgataggaatcaaatgtctttttgaattaagcaaatataaaaaatggtctcaatatataaaatcatttcaatctttatccttcaaaaaccagcttttatgttaaaatagagatatcacattgagaagaaagagcaaagtcc taacatacgaatcgcaaggaatgccctgcgatttttgtttgcatatttgagagaaacgaagaaactttcgttttagaaatgacgcttgctttattgataggaatcaaatgtctttttgaattaagcaaatataaaaaatggtctcaatatataaaatcatttcaatctttatccttcaaaaaccagcttttatgttaaaatagagatatcacattgagaagaaagagcaaagtcc Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAACAUACGAAUCGCAAGGAAUGCCCUGCGAUUUUUGUUUGCAUAUUUGAGAGAAACGAAGAAACUUUCGUUUUAGAAAUGACGCUUGCUUUAUUGAUAGGAAUCAAAUGUCUUUUUGAAUUAAGCAAAUAUAAAAAAUGGUCUCAAUAUAUAAAAUCAUUUCAAUCUUUAUCCUUCAAAAACCAGCUUUUAUGUUAAAAUAGAGAUAUCACAUUGAGAAGAAAGAGCAAAGUCC .((((...((((((((.((....)).)))))))).)))).............(((((((((....)))))))))......(((..(((((((.(((((....)))))...((((((..(........(((((((((..((((........(((((............))))).........))))..)))))))))......((....))...)..)))))).))))))).))). (-46.43) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GGACUUUGCUCUUUCUUCUCAAUGUGAUAUCUCUAUUUUAACAUAAAAGCUGGUUUUUGAAGGAUAAAGAUUGAAAUGAUUUUAUAUAUUGAGACCAUUUUUUAUAUUUGCUUAAUUCAAAAAGACAUUUGAUUCCUAUCAAUAAAGCAAGCGUCAUUUCUAAAACGAAAGUUUCUUCGUUUCUCUCAAAUAUGCAAACAAAAAUCGCAGGGCAUUCCUUGCGAUUCGUAUGUUA (((..(..(..............)..)..)))......(((((((...((..((((..((..((..((((..((((((((...(((((..(((....)))..)))))((((((...((.....))...(((((....)))))..))))))..))))))))...(((....)))))))..))..))..))))..)).......((((((((((....))))))))))..))))))) (-45.74) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 313 52 18 231 193 NC_009009:SSA_1078|5end_hypothetical_protein_1095742..1095972_POSITIVE 274 68 23 222 180 NC_009009:SSA_1821|5end_Acetyltransferase_(N-acetylase_of_ribosomal_proteins),_putative_1810610..1810840_NEGATIVE 267 43 12 190 157 NC_009009:SSA_1735|5end_UreX,_putative_1721072..1721302_NEGATIVE 260 53 12 229 184 NC_009009:SSA_1401|5end_Transcriptional_regulator_GntR_family_1413062..1413292_POSITIVE 255 104 63 212 166 NC_009009:SSA_0018|5end_Cell-shape_determining_protein_MreD,_putative_23628..23858_POSITIVE 252 52 12 224 192 NC_009009:SSA_1268|5end_Chorismate_mutase/prephenate_dehydratase,_putative_1291610..1291840_NEGATIVE 249 229 209 130 107 NC_009009:SSA_0363|5end_D-alanine/glycine/Na_permease,_putative_353858..354088_POSITIVE 246 37 14 61 40 NC_009009:SSA_0405|5end_Transcriptional_regulator,_XRE_family,_putative_401418..401648_POSITIVE 242 43 10 230 202 NC_009009:SSA_2113|5end_hypothetical_protein_2116692..2116922_NEGATIVE 241 42 6 160 114 NC_009009:SSA_0781|5end_Mannose-6-phosphate_isomerase,_putative_765373..765603_POSITIVE 240 222 183 191 144 NC_009009:SSA_0124|5end_30S_ribosomal_protein_S5,_putative_116422..116652_POSITIVE 234 42 1 83 41 NC_009009:SSA_0139|5end_Copper_transport_operon_or_penicillinase_transcriptional_repressor,_putative_134183..134413_POSITIVE 231 89 42 195 151 NC_009009:SSA_1222|5end_NTP_pyrophosphohydrolases_including_oxidative_damage_repair_enzymes,_putative_1245454..1245684_NEGATIVE 230 117 75 88 44 NC_009009:SSA_0565|5end_hypothetical_protein_557230..557460_POSITIVE 229 42 1 128 86 NC_009009:SSA_1769|5end_hypothetical_protein_1757490..1757720_NEGATIVE 229 55 16 76 33 NC_009009:SSA_0088|5end_V-type_sodium_ATPase,_subunit_C,_putative_88930..89160_POSITIVE 228 59 14 191 132 NC_009009:SSA_2185|5end_Adenylosuccinate_synthetase,_putative_2185290..2185520_NEGATIVE 228 219 173 220 168 NC_009009:SSA_0849|5end_Signal_peptidase_I,_putative_836127..836357_POSITIVE 228 60 14 155 116 NC_009009:SSA_0205|5end_NisK_(sensor-receptor_histidine_kinase_domain),_putative_202722..202952_POSITIVE 227 89 46 106 55 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 242 40 5 81 30 NC_009009:SSA_0148|3end_Sugar_ABC_transporter,_ATP-binding_protein,_putative_143467..143617_POSITIVE 233 47 15 30 1 NC_009009:SSA_1146|3end_Phosphotransferase_system_cellobiose-specific_component_IIA,_putative_1176865..1177015_POSITIVE 232 100 51 110 48 NC_009009:SSA_2339|3end_Microcin_C7_resistance_protein,_putative_2341489..2341639_POSITIVE 230 32 3 144 110 NC_009009:SSA_0287|3end_Glycerol_dehydrogenase,_NAD+_dependent,_putative_280702..280852_POSITIVE 229 42 1 134 92 NC_009009:SSA_1770|3end_hypothetical_protein_1757484..1757634_NEGATIVE 229 55 16 65 22 NC_009009:SSA_0087|3end_V-type_sodium_ATPase,_subunit_E,_putative_88999..89149_POSITIVE 226 30 6 151 121 NC_009009:SSA_0980|3end_3-isopropylmalate_dehydratase_large_subunit,_putative_985466..985616_POSITIVE 225 60 14 138 85 NC_009009:SSA_2055|3end_hypothetical_protein_2057936..2058086_NEGATIVE 225 36 13 89 62 NC_009009:SSA_1944|3end_Oligopeptide_transport_ATP-binding_protein,_putative_1935685..1935835_NEGATIVE 225 64 24 55 4 NC_009009:SSA_1796|3end_Transcription_elongation_factor_GreA,_putative_1777825..1777975_NEGATIVE 223 59 14 45 1 NC_009009:SSA_1129|3end_Periplasmic_iron_transport_lipoprotein,_putative_1155877..1156027_POSITIVE 220 229 185 54 1 NC_009009:SSA_0098|3end_Hydrolase,_haloacid_dehalogenase-like_family,_putative_100116..100266_POSITIVE 218 112 84 45 17 NC_009009:SSA_1984|3end_Cell_surface_SD_repeat_antigen_precursor,_putative_1976048..1976198_NEGATIVE 216 48 8 63 12 NC_009009:SSA_0939|3end_Inositol_monophosphatase_(Mg++_dependent),_putative_947705..947855_POSITIVE 212 52 12 73 41 NC_009009:SSA_1269|3end_hypothetical_protein_1291970..1292120_NEGATIVE 210 31 11 34 12 NC_009009:SSA_0066|3end_hypothetical_protein_68095..68245_POSITIVE 208 38 7 84 53 NC_009009:SSA_2186|3end_Glutathione_biosynthesis_bifunctional_protein_gshAB_(Gamma-GCS-GS)_(GCS-GS),_putative_2187870..2188020_POSITIVE 208 59 17 61 4 NC_009009:SSA_1311|3end_Hydrolase,_haloacid_dehalogenase-like_family,_putative_1327842..1327992_NEGATIVE 208 29 5 70 42 NC_009009:SSA_0562|3end_hypothetical_protein_554859..555009_POSITIVE 206 53 16 105 64 NC_009009:SSA_2367|3end_ABC-type_cobalt_transport_system,_ATPase_component,_putative_2368845..2368995_NEGATIVE