Origin IGS: attgttttcaagcgatttcgtgttgtgtacttgacttcttcctttatataaataccgactgtgatatgctaaaccacaaaagcaaaggtatcaaataattccatag .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 ctatggaattatttgatacctttgcttttgtggtttagcatatcacagtcggtatttatataaaggaagaagtcaagtacacaacacgaaatcgcttgaaaacaat Mask Tandem Repeat Region ================================================ attgttttcaagcgatttcgtgttgtgtacttgacttcttcctttatataaataccgactgtgatatgctaaaccacaaaagcaaaggtatcaaataattccatag Find is-nt database================================================ Query_seq: PG0249:PG0250|PG0249:PG0250:oxaloacetate decarboxylase, putative:hypothetical protein:<-<-:283889..283994 106 attgttttcaagcgatttcgtgttgtgtacttgacttcttcctttatataaataccgactgtgatatgctaaaccacaaaagcaaaggtatcaaataattccatag Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG0249:PG0250|PG0249:PG0250:oxaloacetate decarboxylase, putative:hypothetical protein:<-<-:283889..283994 106 attgttttcaagcgatttcgtgttgtgtacttgacttcttcctttatataaataccgactgtgatatgctaaaccacaaaagcaaaggtatcaaataattccatag Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG0249:PG0250|PG0249:PG0250:oxaloacetate decarboxylase, putative:hypothetical protein:<-<-:283889..283994 106 attgttttcaagcgatttcgtgttgtgtacttgacttcttcctttatataaataccgactgtgatatgctaaaccacaaaagcaaaggtatcaaataattccatag Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 attgttttcaagcgatttcgtgttgtgtacttgacttcttcctttatataaataccgactgtgatatgctaaaccacaaaagcaaaggtatcaaataattccatag Predict ORF larger than 30AA ================================================ attgttttcaagcgatttcgtgttgtgtacttgacttcttcctttatataaataccgactgtgatatgctaaaccacaaaagcaaaggtatcaaataattccatag Predict Promoter with matrix: RpoD-15 score > 80================================================ Predict Promoter with matrix: RpoD-16 score > 80================================================ Predict Promoter with matrix: RpoD-17 score > 80================================================ PromScan Matrix: RpoD-17 Strand: - Score: 85 Start: 66 End: 95 .................................................................TTTGATACCTTTGCTTTTGTGGTTTAGCAT........... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ attgttttcaagcgatttcgtgttgtgtacttgacttcttcctttatataaataccgactgtgatatgctaaaccacaaaagcaaaggtatcaaataattccatag Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PG0249:PG0250|PG0249:PG0250:oxaloacetate decarboxylase, putative:hypothetical protein:<-<-:283889..283994 106 attgttttcaagcgatttcgtgttgtgtacttgacttcttcctttatataaataccgactgtgatatgctaaaccacaaaagcaaaggtatcaaataattccatag Intra-Species Hit: Count: 1 Min: 1 Max: 106 Len: 106 Subject: NC_002950_PG0249_PG0250|oxaloacetate decarboxylase, putative:hypothetical protein|NEGATIVE:NEGATIVE|[283889,283994]|106 HSP 1 e-value: 6.0E-54 bit: 210.0 Len: 106 Query Start:1 Query End:106 Subject Strand: POSITIVE Subject Start: 1 Subject End: 106 attgttttcaagcgatttcgtgttgtgtacttgacttcttcctttatataaataccgactgtgatatgctaaaccacaaaagcaaaggtatcaaataattccatag attgttttcaagcgatttcgtgttgtgtacttgacttcttcctttatataaataccgactgtgatatgctaaaccacaaaagcaaaggtatcaaataattccatag Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUUGUUUUCAAGCGAUUUCGUGUUGUGUACUUGACUUCUUCCUUUAUAUAAAUACCGACUGUGAUAUGCUAAACCACAAAAGCAAAGGUAUCAAAUAAUUCCAUAG ((((((....)))))).(((..(((((((...((.....))...)))))))....)))...(((((((((..........))))....)))))............. ( -9.20) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CUAUGGAAUUAUUUGAUACCUUUGCUUUUGUGGUUUAGCAUAUCACAGUCGGUAUUUAUAUAAAGGAAGAAGUCAAGUACACAACACGAAAUCGCUUGAAAACAAU ........((((..((((((.......(((((((.......)))))))..))))))...)))).........((((((...............))))))....... (-14.56) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 833 60 11 151 102 NC_002950:PG0249|5end_oxaloacetate_decarboxylase,_putative_283798..284028_NEGATIVE 265 41 1 135 90 NC_002950:PG1388|5end_hypothetical_protein_1470889..1471119_NEGATIVE 264 92 56 109 74 NC_002950:PG0490|5end_hypothetical_protein_530828..531058_POSITIVE 249 46 11 188 151 NC_002950:PG1807|5end_v-type_ATPase,_subunit_K_1902069..1902299_POSITIVE 246 43 10 112 71 NC_002950:PG0068|5end_hypothetical_protein_81748..81978_POSITIVE 240 69 21 59 11 NC_002950:PG1213|5end_ribonuclease_H_1292433..1292663_POSITIVE 234 69 25 108 68 NC_002950:PG2037|5end_hypothetical_protein_2137812..2138042_NEGATIVE 232 88 50 209 167 NC_002950:PG0153|5end_aspartyl-tRNA_synthetase_177430..177660_NEGATIVE 229 42 11 89 51 NC_002950:PG0254|5end_transcription_elongation_factor_NusA_285112..285342_POSITIVE 225 43 1 193 141 NC_002950:PG2214|5end_hypothetical_protein_2326575..2326805_NEGATIVE 223 69 23 185 143 NC_002950:PG0881|5end_recombinase_A_943063..943293_POSITIVE 223 58 12 97 47 NC_002950:PG0259|5end_hypothetical_protein_292278..292508_POSITIVE 218 45 12 65 29 NC_002950:PG1919|5end_ribosomal_protein_L15_2016281..2016511_NEGATIVE 218 46 2 209 160 NC_002950:PG0412|5end_DNA_mismatch_repair_protein_MutL_451440..451670_NEGATIVE 216 44 8 195 155 NC_002950:PG0387|5end_elongation_factor_Tu_420643..420873_POSITIVE 215 89 42 106 45 NC_002950:PG1989|5end_hypothetical_protein_2079101..2079331_NEGATIVE 215 95 55 74 31 NC_002950:PG0996|5end_conserved_hypothetical_protein_TIGR01777_1055592..1055822_POSITIVE 215 42 4 89 56 NC_002950:PG0918|5end_hypothetical_protein_978818..979048_NEGATIVE 215 38 2 60 23 NC_002950:PG0744|5end_RNA_methyltransferase,_TrmH_family_791897..792127_NEGATIVE 213 41 1 128 81 NC_002950:PG1904|5end_hypothetical_protein_2004761..2004991_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 249 46 11 133 96 NC_002950:PG1806|3end_v-type_ATPase,_subunit_I_1902094..1902244_POSITIVE 243 58 12 90 37 NC_002950:PG0731|3end_hypothetical_protein_782020..782170_NEGATIVE 241 40 1 149 109 NC_002950:PG1389|3end_DNA-binding_protein,_histone-like_family_1470870..1471020_NEGATIVE 234 69 25 111 71 NC_002950:PG2038|3end_N-acetylmuramoyl-L-alanine_amidase,_putative_2137809..2137959_NEGATIVE 229 42 11 42 4 NC_002950:PG0253|3end_hypothetical_protein_285145..285295_POSITIVE 224 45 2 80 36 NC_002950:PG1677|3end_phosphoglycerate_kinase_1763678..1763828_POSITIVE 223 58 12 90 40 NC_002950:PG0258|3end_ABC_transporter,_ATP-binding_protein_292351..292501_POSITIVE 218 45 12 39 3 NC_002950:PG1920|3end_ribosomal_protein_L30_2016307..2016457_NEGATIVE 215 92 56 89 45 NC_002950:PG1968|3end_hypothetical_protein_2058460..2058610_NEGATIVE 210 90 54 44 8 NC_002950:PG0954|3end_TPR_domain_protein_1015005..1015155_POSITIVE 209 88 56 37 5 NC_002950:PG1859|3end_glycerate_kinase_family_protein_1957174..1957324_NEGATIVE 209 46 1 146 99 NC_002950:PG0628|3end_ABC_transporter,_ATP-binding_protein_681684..681834_NEGATIVE 207 42 5 47 12 NC_002950:PG1470|3end_hypothetical_protein_1548431..1548581_POSITIVE 206 70 30 43 1 NC_002950:PG1174|3end_thioesterase_family_protein_1253210..1253360_NEGATIVE 204 40 2 108 69 NC_002950:PG2135|3end_lipoprotein,_putative_2243413..2243563_POSITIVE 203 41 1 135 107 NC_002950:PG1119|3end_flavodoxin,_putative_1195483..1195633_POSITIVE 202 78 35 133 76 NC_002950:PG1138|3end_pigmentation_and_extracellular_proteinase_regulator_1219594..1219744_NEGATIVE 201 41 3 148 112 NC_002950:PG1382|3end_hypothetical_protein_1462550..1462700_POSITIVE 197 90 52 62 28 NC_002950:PG1946|3end_ABC_3_transporter_family_protein_2033019..2033169_POSITIVE 194 42 10 131 105 NC_002950:PG0204|3end_hypothetical_protein_240262..240412_NEGATIVE