Origin IGS: aagctcaagcagcacttgctcagctctttcccacaatttatggtataatgattggcggtagaaattcagtaagtacatgtaattaggatgaaaaaatcttagctggatgggcaataatatttttagaagagaaagattaaggaaaaaga .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tctttttccttaatctttctcttctaaaaatattattgcccatccagctaagattttttcatcctaattacatgtacttactgaatttctaccgccaatcattataccataaattgtgggaaagagctgagcaagtgctgcttgagctt Mask Tandem Repeat Region ================================================ aagctcaagcagcacttgctcagctctttcccacaatttatggtataatgattggcggtagaaattcagtaagtacatgtaattaggatgaaaaaatcttagctggatgggcaataatatttttagaagagaaagattaaggaaaaaga Find is-nt database================================================ Query_seq: SSA_0900:SSA_0901|SSA_0900:SSA_0901:Tetratricopeptide repeat (TPR) family protein:Alpha-acetolactate decarboxylase, putative:->->:892438..892586 149 aagctcaagcagcacttgctcagctctttcccacaatttatggtataatgattggcggtagaaattcagtaagtacatgtaattaggatgaaaaaatcttagctggatgggcaataatatttttagaagagaaagattaaggaaaaaga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SSA_0900:SSA_0901|SSA_0900:SSA_0901:Tetratricopeptide repeat (TPR) family protein:Alpha-acetolactate decarboxylase, putative:->->:892438..892586 149 aagctcaagcagcacttgctcagctctttcccacaatttatggtataatgattggcggtagaaattcagtaagtacatgtaattaggatgaaaaaatcttagctggatgggcaataatatttttagaagagaaagattaaggaaaaaga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SSA_0900:SSA_0901|SSA_0900:SSA_0901:Tetratricopeptide repeat (TPR) family protein:Alpha-acetolactate decarboxylase, putative:->->:892438..892586 149 aagctcaagcagcacttgctcagctctttcccacaatttatggtataatgattggcggtagaaattcagtaagtacatgtaattaggatgaaaaaatcttagctggatgggcaataatatttttagaagagaaagattaaggaaaaaga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aagctcaagcagcacttgctcagctctttcccacaatttatggtataatgattggcggtagaaattcagtaagtacatgtaattaggatgaaaaaatcttagctggatgggcaataatatttttagaagagaaagattaaggaaaaaga Predict ORF larger than 30AA ================================================ Protein_Len: 40 Strand: - Start: 1 End: 120 L E L L V Q E A R E W L K H Y L S Q R Y F N L L Y M Y N P H F F R L Q I P L L M ............................. aagctcaagcagcacttgctcagctctttcccacaatttatggtataatgattggcggtagaaattcagtaagtacatgtaattaggatgaaaaaatcttagctggatgggcaataatatttttagaagagaaagattaaggaaaaaga 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================================================ aagctcaagcagcacttgctcagctctttcccacaatttatggtataatgattggcggtagaaattcagtaagtacatgtaattaggatgaaaaaatcttagctggatgggcaataatatttttagaagagaaagattaaggaaaaaga Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SSA_0900:SSA_0901|SSA_0900:SSA_0901:Tetratricopeptide repeat (TPR) family protein:Alpha-acetolactate decarboxylase, putative:->->:892438..892586 149 aagctcaagcagcacttgctcagctctttcccacaatttatggtataatgattggcggtagaaattcagtaagtacatgtaattaggatgaaaaaatcttagctggatgggcaataatatttttagaagagaaagattaaggaaaaaga Intra-Species Hit: Count: 1 Min: 1 Max: 149 Len: 149 Subject: NC_009009_SSA_0900_SSA_0901|Tetratricopeptide repeat (TPR) family protein:Alpha-acetolactate decarboxylase, putative|POSITIVE:POSITIVE|[892438,892586]|149 HSP 1 e-value: 2.0E-79 bit: 295.0 Len: 149 Query Start:1 Query End:149 Subject Strand: POSITIVE Subject Start: 1 Subject End: 149 aagctcaagcagcacttgctcagctctttcccacaatttatggtataatgattggcggtagaaattcagtaagtacatgtaattaggatgaaaaaatcttagctggatgggcaataatatttttagaagagaaagattaaggaaaaaga aagctcaagcagcacttgctcagctctttcccacaatttatggtataatgattggcggtagaaattcagtaagtacatgtaattaggatgaaaaaatcttagctggatgggcaataatatttttagaagagaaagattaaggaaaaaga Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAGCUCAAGCAGCACUUGCUCAGCUCUUUCCCACAAUUUAUGGUAUAAUGAUUGGCGGUAGAAAUUCAGUAAGUACAUGUAAUUAGGAUGAAAAAAUCUUAGCUGGAUGGGCAAUAAUAUUUUUAGAAGAGAAAGAUUAAGGAAAAAGA ..(((((..(((((((((((....(((..((..(((((.((......)))))))..)).))).....))))))).........((((((......))))))))))..)))))..((((.(((((.....))))).)))).......... (-27.80) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UCUUUUUCCUUAAUCUUUCUCUUCUAAAAAUAUUAUUGCCCAUCCAGCUAAGAUUUUUUCAUCCUAAUUACAUGUACUUACUGAAUUUCUACCGCCAAUCAUUAUACCAUAAAUUGUGGGAAAGAGCUGAGCAAGUGCUGCUUGAGCUU .....................................((.((..((((..(((....((((...(((.((....)).))).))))..)))...((((.((.((...((((.....)))).)).))..)).))....))))..)).)).. (-18.40) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 319 41 2 173 133 NC_009009:SSA_2203|5end_30S_ribosomal_protein_S2,_putative_2204205..2204435_NEGATIVE 301 42 4 152 102 NC_009009:SSA_1910|5end_hypothetical_protein_1902672..1902902_NEGATIVE 285 63 22 193 147 NC_009009:SSA_0366|5end_hypothetical_protein_357506..357736_POSITIVE 283 67 21 223 180 NC_009009:SSA_2169|5end_Glucose-1-phosphate_uridylyltransferase,_putative_2168446..2168676_POSITIVE 280 60 11 90 37 NC_009009:SSA_0502|5end_Peptide_ABC_transporter,_permease_protein,_putative_501554..501784_POSITIVE 270 33 1 196 160 NC_009009:SSA_1345|5end_Bifunctional_pyrimidine_operon_transcriptional_attenuation_protein/uracil_phosphoribosyltransferase,_putative_1363879..1364109_NEGATIVE 270 43 1 166 122 NC_009009:SSA_0857|5end_hypothetical_protein_844179..844409_POSITIVE 270 46 3 229 179 NC_009009:SSA_0102|5end_Kinase,_putative_104035..104265_POSITIVE 267 58 12 50 2 NC_009009:SSA_1257|5end_hypothetical_protein_1283867..1284097_NEGATIVE 267 43 3 147 105 NC_009009:SSA_0577|5end_Ancient_RNA-binding_IF3-C_fold_(CRS1/YhbY_domain),_putative_571253..571483_POSITIVE 264 46 2 170 122 NC_009009:SSA_2237|5end_Dihydrofolate:folylpolyglutamate_synthetase,_putative_2236740..2236970_NEGATIVE 262 35 3 59 29 NC_009009:SSA_0514|5end_PduQ_protein,_putative_512877..513107_POSITIVE 259 60 15 110 66 NC_009009:SSA_2347|5end_Coenzyme_F390_synthetase,_putative_2349939..2350169_NEGATIVE 259 58 11 231 183 NC_009009:SSA_0149|5end_hypothetical_protein_143574..143804_POSITIVE 258 43 4 156 113 NC_009009:SSA_0585|5end_hypothetical_protein_576937..577167_POSITIVE 257 54 12 80 34 NC_009009:SSA_2226|5end_Organic_radical_activating_chaperone,_putative_2227756..2227986_NEGATIVE 257 35 3 158 130 NC_009009:SSA_1806|5end_Replication_initiation/membrane_attachment_protein_DnaB,_putative_1790749..1790979_NEGATIVE 250 132 100 33 6 NC_009009:SSA_1091|5end_Thymidylate_synthase,_putative_1108635..1108865_POSITIVE 247 31 2 60 32 NC_009009:SSA_0835|5end_Accessory_secretory_protein_Asp3,_putative_821036..821266_POSITIVE 246 59 13 168 112 NC_009009:SSA_1783|5end_Xanthosine_triphosphate_pyrophosphatase_(NTPase/HAM1_family),_putative_1769106..1769336_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 288 60 12 49 1 NC_009009:SSA_0350|3end_Helicase,_putative_341852..342002_NEGATIVE 279 31 4 135 109 NC_009009:SSA_1911|3end_Conserved_uncharacterized_protein_1902665..1902815_NEGATIVE 270 43 1 123 79 NC_009009:SSA_0856|3end_Glycosyltransferase_(vectorial_glycosyl_polymerization_(VGP)_family),_putative_844216..844366_POSITIVE 267 58 12 59 11 NC_009009:SSA_1258|3end_Purine_nucleoside_phosphorylase,_family_1,_putative_1283858..1284008_NEGATIVE 259 58 14 57 5 NC_009009:SSA_0829|3end_Platelet-binding_glycoprotein_812165..812315_POSITIVE 257 54 12 120 74 NC_009009:SSA_2227|3end_Acetyl_transferase,_putative_2227716..2227866_NEGATIVE 254 69 21 56 6 NC_009009:SSA_0148|3end_Sugar_ABC_transporter,_ATP-binding_protein,_putative_143467..143617_POSITIVE 252 110 61 125 59 NC_009009:SSA_2373|3end_DNA_replication_and_repair_protein_recF,_putative_2375382..2375532_POSITIVE 247 31 2 63 35 NC_009009:SSA_0834|3end_Accessory_secretory_protein_Asp2,_putative_821119..821269_POSITIVE 243 44 2 97 56 NC_009009:SSA_1065|3end_Beta-hexosamidase_A,_putative_1084130..1084280_POSITIVE 243 42 3 129 82 NC_009009:SSA_0470|3end_Precorrin-4_methylase,_putative_473732..473882_POSITIVE 242 50 2 123 65 NC_009009:SSA_0826|3end_hypothetical_protein_805516..805666_POSITIVE 242 43 8 39 6 NC_009009:SSA_0576|3end_Conserved_GTPase,_putative_571225..571375_POSITIVE 238 34 9 35 12 NC_009009:SSA_1937|3end_Malonyl-CoA:ACP_transacylase,_putative_1923851..1924001_NEGATIVE 238 34 17 23 5 NC_009009:SSA_1872|3end_Cell_division_protein,_putative_1868863..1869013_NEGATIVE 237 68 22 140 88 NC_009009:SSA_1198|3end_ATPase_(PilT_family),_putative_1222703..1222853_NEGATIVE 236 59 11 142 85 NC_009009:SSA_1454|3end_hypothetical_protein_1460255..1460405_NEGATIVE 235 50 1 57 2 NC_009009:SSA_1809|3end_PTS_system_glucose-specific_EIIC_BA_component_(EIICBA-Glc)_(EII-_Glc/EIII-Glc),_putative_1792227..1792377_NEGATIVE 233 50 3 114 70 NC_009009:SSA_1405|3end_Copper_homeostasis_protein_CutC,_putative_1418758..1418908_NEGATIVE 232 46 11 50 13 NC_009009:SSA_1715|3end_Phosphoserine_aminotransferase,_putative_1701397..1701547_NEGATIVE