Origin IGS: ttctttttccttcattttttcaccaaaaaaggccaaatctctagaagtgcaggacaaaaaagcctgcaacatccatgagctttgaccatcataggtattgcttatcttattttagcaaattatgttgaattgtcaat .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 attgacaattcaacataatttgctaaaataagataagcaatacctatgatggtcaaagctcatggatgttgcaggcttttttgtcctgcacttctagagatttggccttttttggtgaaaaaatgaaggaaaaagaa Mask Tandem Repeat Region ================================================ ttctttttccttcattttttcaccaaaaaaggccaaatctctagaagtgcaggacaaaaaagcctgcaacatccatgagctttgaccatcataggtattgcttatcttattttagcaaattatgttgaattgtcaat Find is-nt database================================================ Query_seq: SSA_2359:SSA_2360|SSA_2359:SSA_2360:Glucose inhibited division protein A, putative:tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase, putative:<-<-:2362611..2362747 137 ttctttttccttcattttttcaccaaaaaaggccaaatctctagaagtgcaggacaaaaaagcctgcaacatccatgagctttgaccatcataggtattgcttatcttattttagcaaattatgttgaattgtcaat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SSA_2359:SSA_2360|SSA_2359:SSA_2360:Glucose inhibited division protein A, putative:tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase, putative:<-<-:2362611..2362747 137 ttctttttccttcattttttcaccaaaaaaggccaaatctctagaagtgcaggacaaaaaagcctgcaacatccatgagctttgaccatcataggtattgcttatcttattttagcaaattatgttgaattgtcaat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SSA_2359:SSA_2360|SSA_2359:SSA_2360:Glucose inhibited division protein A, putative:tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase, putative:<-<-:2362611..2362747 137 ttctttttccttcattttttcaccaaaaaaggccaaatctctagaagtgcaggacaaaaaagcctgcaacatccatgagctttgaccatcataggtattgcttatcttattttagcaaattatgttgaattgtcaat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ttctttttccttcattttttcaccaaaaaaggccaaatctctagaagtgcaggacaaaaaagcctgcaacatccatgagctttgaccatcataggtattgcttatcttattttagcaaattatgttgaattgtcaat Predict ORF larger than 30AA ================================================ Protein_Len: 35 Strand: - Start: 1 End: 105 E K E K M K E G F F A L D R S T C S L F A Q L M W S S Q G D Y T N S M ................................ ttctttttccttcattttttcaccaaaaaaggccaaatctctagaagtgcaggacaaaaaagcctgcaacatccatgagctttgaccatcataggtattgcttatcttattttagcaaattatgttgaattgtcaat 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================================================ ttctttttccttcattttttcaccaaaaaaggccaaatctctagaagtgcaggacaaaaaagcctgcaacatccatgagctttgaccatcataggtattgcttatcttattttagcaaattatgttgaattgtcaat Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 74 HP_score: -3.9 Tail_Score: -5.14563 Start: 31 End: 87 Full_Region: agcaatacctatgat ggtcaaagctcatggatgttgcagg cttttttgt cctgcacttctagagatttggcc ttttttggtgaaaaa ..............................ggtcaaagctcatggatgttgcaggcttttttgtcctgcacttctagagatttggcc.................................................. Find igs database================================================ Query_seq: SSA_2359:SSA_2360|SSA_2359:SSA_2360:Glucose inhibited division protein A, putative:tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase, putative:<-<-:2362611..2362747 137 ttctttttccttcattttttcaccaaaaaaggccaaatctctagaagtgcaggacaaaaaagcctgcaacatccatgagctttgaccatcataggtattgcttatcttattttagcaaattatgttgaattgtcaat Intra-Species Hit: Count: 1 Min: 1 Max: 137 Len: 137 Subject: NC_009009_SSA_2359_SSA_2360|Glucose inhibited division protein A, putative:tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase, putative|NEGATIVE:NEGATIVE|[2362611,2362747]|137 HSP 1 e-value: 3.0E-72 bit: 272.0 Len: 137 Query Start:1 Query End:137 Subject Strand: POSITIVE Subject Start: 1 Subject End: 137 ttctttttccttcattttttcaccaaaaaaggccaaatctctagaagtgcaggacaaaaaagcctgcaacatccatgagctttgaccatcataggtattgcttatcttattttagcaaattatgttgaattgtcaat ttctttttccttcattttttcaccaaaaaaggccaaatctctagaagtgcaggacaaaaaagcctgcaacatccatgagctttgaccatcataggtattgcttatcttattttagcaaattatgttgaattgtcaat Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUCUUUUUCCUUCAUUUUUUCACCAAAAAAGGCCAAAUCUCUAGAAGUGCAGGACAAAAAAGCCUGCAACAUCCAUGAGCUUUGACCAUCAUAGGUAUUGCUUAUCUUAUUUUAGCAAAUUAUGUUGAAUUGUCAAU ..................((((........((.((((.(((..((..((((((.(......)))))))...))...))).)))).))..(((((...(((((...........))))).))))).))))........ (-25.60) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUUGACAAUUCAACAUAAUUUGCUAAAAUAAGAUAAGCAAUACCUAUGAUGGUCAAAGCUCAUGGAUGUUGCAGGCUUUUUUGUCCUGCACUUCUAGAGAUUUGGCCUUUUUUGGUGAAAAAAUGAAGGAAAAAGAA ........((((.......(((((...........)))))((((...((.(((((((.(((.((((.((.((((((......).))))))).))))))).))))))).))...))))......)))).......... (-34.70) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 963 80 31 171 122 NC_009009:SSA_2359|5end_Glucose_inhibited_division_protein_A,_putative_2362520..2362750_NEGATIVE 344 88 44 54 8 NC_009009:SSA_1981|5end_hypothetical_protein_1975421..1975651_NEGATIVE 335 108 62 94 47 NC_009009:SSA_0219|5end_PTS_system,_sugar-specific_enzyme_IIA_component,_putative_215367..215597_POSITIVE 321 79 32 79 16 NC_009009:SSA_1573|5end_hypothetical_protein_1576536..1576766_NEGATIVE 308 56 12 142 88 NC_009009:SSA_0912|5end_Phenylalanyl-tRNA_synthetase_alpha_chain,_putative_923100..923330_POSITIVE 308 109 61 215 167 NC_009009:SSA_0883|5end_Glycerate_kinase,_putative_877560..877790_POSITIVE 298 80 31 57 13 NC_009009:SSA_1800|5end_UDP-N-acetylmuramate--L-alanine_ligase,_putative_1782371..1782601_NEGATIVE 295 107 61 229 172 NC_009009:SSA_0197|5end_Dihydropteroate_synthase,_putative_195946..196176_POSITIVE 286 109 61 56 5 NC_009009:SSA_2069|5end_Prolyl-tRNA_synthetase,_putative_2073252..2073482_NEGATIVE 283 88 41 231 176 NC_009009:SSA_2245|5end_RecA_protein,_putative_2241109..2241339_NEGATIVE 282 108 61 69 4 NC_009009:SSA_0703|5end_Citrate_synthase,_putative_688154..688384_POSITIVE 279 103 61 208 153 NC_009009:SSA_2169|5end_Glucose-1-phosphate_uridylyltransferase,_putative_2168446..2168676_POSITIVE 273 97 58 155 112 NC_009009:SSA_1235|5end_Dihydroorotase,_putative_1261227..1261457_NEGATIVE 272 101 63 155 123 NC_009009:SSA_2131|5end_DNA-binding_protein,_putative_2133949..2134179_POSITIVE 272 67 23 64 21 NC_009009:SSA_0375|5end_D-methionine-binding_lipoprotein_(ABC-type_transporter),_putative_364257..364487_POSITIVE 272 80 32 200 139 NC_009009:SSA_0320|5end_hypothetical_protein_313406..313636_POSITIVE 271 104 62 194 145 NC_009009:SSA_1499|5end_50S_ribosomal_protein_L35,_putative_1504357..1504587_NEGATIVE 265 48 1 132 81 NC_009009:SSA_1355|5end_hypothetical_protein_1369859..1370089_NEGATIVE 262 106 61 179 117 NC_009009:SSA_0789|5end_Proton-translocating_ATPase,_F1_sector,_epsilon_subunit,_putative_772451..772681_POSITIVE 261 109 62 177 138 NC_009009:SSA_0452|5end_Nitrogen_utilization_substance_protein_B,_putative_451534..451764_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 344 88 44 48 2 NC_009009:SSA_1982|3end_Transcriptional_regulator,_LytR/AlgR_family,_putative_1975427..1975577_NEGATIVE 294 69 22 77 30 NC_009009:SSA_2074|3end_Preprotein_translocase_subunit_YajC,_putative_2076600..2076750_NEGATIVE 282 108 61 66 1 NC_009009:SSA_0702|3end_Aconitase_A,_putative_688231..688381_POSITIVE 273 97 58 142 99 NC_009009:SSA_1236|3end_Mutator_protein,_putative_1261240..1261390_NEGATIVE 272 101 63 146 114 NC_009009:SSA_2130|3end_hypothetical_protein_2134020..2134170_POSITIVE 272 35 4 43 4 NC_009009:SSA_0287|3end_Glycerol_dehydrogenase,_NAD+_dependent,_putative_280702..280852_POSITIVE 267 106 61 132 82 NC_009009:SSA_2081|3end_hypothetical_protein_2085490..2085640_POSITIVE 265 48 1 64 13 NC_009009:SSA_1356|3end_Helicase_subunit_of_the_DNA_excision_repair_complex,_subunit_B,_putative_1369927..1370077_NEGATIVE 257 80 40 58 15 NC_009009:SSA_0407|3end_ABC-type_multidrug_transport_system_(3-component_subtilin_immunity_exporter),_ATPase_component,_putative_402911..403061_NEGATIVE 256 47 3 143 105 NC_009009:SSA_2015|3end_Phosphoglycerate_mutase,_putative_2014794..2014944_NEGATIVE 255 99 61 92 56 NC_009009:SSA_0074|3end_ABC_transporter_substrate-binding_protein-sugar_transport,_putative_78975..79125_POSITIVE 253 108 62 97 48 NC_009009:SSA_0389|3end_hypothetical_protein_385082..385232_POSITIVE 252 90 51 49 7 NC_009009:SSA_1448|3end_ATP_phosphoribosyltransferase_regulatory_subunit,_putative_1449828..1449978_NEGATIVE 249 116 76 151 115 NC_009009:SSA_0617|3end_Membrane_protease_subunits,_stomatin/prohibitin-like_protein_(SPFH_domain/band_7_family),_putative_611438..611588_POSITIVE 249 90 41 115 63 NC_009009:SSA_0083|3end_hypothetical_protein_85840..85990_POSITIVE 248 106 75 38 1 NC_009009:SSA_1327|3end_hypothetical_protein_1343750..1343900_NEGATIVE 248 116 74 101 57 NC_009009:SSA_1324|3end_Ceramide_glucosyltransferase,_putative_1340428..1340578_NEGATIVE 247 109 61 93 41 NC_009009:SSA_2230|3end_Ribonucleotide_reductase,_class_III,_anaerobic,_putative_2228963..2229113_NEGATIVE 247 109 61 93 36 NC_009009:SSA_1409|3end_DTDP-glucose-4,6-dehydratase,_putative_1421209..1421359_NEGATIVE 245 106 61 136 100 NC_009009:SSA_1413|3end_GufA-like_protein,_putative_1424095..1424245_NEGATIVE