Origin IGS: tctttaacgcttagtcaggcaaagatagtcgttagcattcattcccacatccatccctccgcatggtataaagtcaaacgaaaagggctgcgcgaacaggagtctctcctcctcgcacagccccgtttcatatttcgctaaagggg .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 cccctttagcgaaatatgaaacggggctgtgcgaggaggagagactcctgttcgcgcagcccttttcgtttgactttataccatgcggagggatggatgtgggaatgaatgctaacgactatctttgcctgactaagcgttaaaga Mask Tandem Repeat Region ================================================ tctttaacgcttagtcaggcaaagatagtcgttagcattcattcccacatccatccctccgcatggtataaagtcaaacgaaaagggctgcgcgaacaggagtctctcctcctcgcacagccccgtttcatatttcgctaaagggg Find is-nt database================================================ Query_seq: PG1739:PG1741|PG1739:PG1741:hypothetical protein:aspartate ammonia-lyase:<-<-:1825800..1825945 146 tctttaacgcttagtcaggcaaagatagtcgttagcattcattcccacatccatccctccgcatggtataaagtcaaacgaaaagggctgcgcgaacaggagtctctcctcctcgcacagccccgtttcatatttcgctaaagggg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG1739:PG1741|PG1739:PG1741:hypothetical protein:aspartate ammonia-lyase:<-<-:1825800..1825945 146 tctttaacgcttagtcaggcaaagatagtcgttagcattcattcccacatccatccctccgcatggtataaagtcaaacgaaaagggctgcgcgaacaggagtctctcctcctcgcacagccccgtttcatatttcgctaaagggg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG1739:PG1741|PG1739:PG1741:hypothetical protein:aspartate ammonia-lyase:<-<-:1825800..1825945 146 tctttaacgcttagtcaggcaaagatagtcgttagcattcattcccacatccatccctccgcatggtataaagtcaaacgaaaagggctgcgcgaacaggagtctctcctcctcgcacagccccgtttcatatttcgctaaagggg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tctttaacgcttagtcaggcaaagatagtcgttagcattcattcccacatccatccctccgcatggtataaagtcaaacgaaaagggctgcgcgaacaggagtctctcctcctcgcacagccccgtttcatatttcgctaaagggg Predict ORF larger than 30AA ================================================ Protein_Len: 38 Strand: + Start: 25 End: 138 ........................ M V V S I H S H I H P S A W Y K V K R K G L R E Q E S L L L A Q P R F I F R ........ Protein_Len: 35 Strand: + Start: 41 End: 145 ........................................ M P T S I P P H G I K S N E K G C A N R S L S S S H S P V S Y F A K G . Protein_Len: 30 Strand: - Start: 42 End: 131 ......................................... E W M W G E A H Y L T L R F P S R S C S D R R R A C G R K M ............... Protein_Len: 38 Strand: - Start: 7 End: 120 ...... R K T L C L Y D N A N M G V D M G G C P I F D F S F P Q A F L L R E E E C M .......................... tctttaacgcttagtcaggcaaagatagtcgttagcattcattcccacatccatccctccgcatggtataaagtcaaacgaaaagggctgcgcgaacaggagtctctcctcctcgcacagccccgtttcatatttcgctaaagggg 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================================================ tctttaacgcttagtcaggcaaagatagtcgttagcattcattcccacatccatccctccgcatggtataaagtcaaacgaaaagggctgcgcgaacaggagtctctcctcctcgcacagccccgtttcatatttcgctaaagggg Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 84 HP_score: -10.4 Tail_Score: -4.01603 Start: 83 End: 125 Full_Region: ATAAAGTCAAACGAA AAGGGCTGCGCGAACAGGAG TCT CTCCTCCTCGCACAGCCCCG TTTCATATTTCGCTA ..................................................................................AAGGGCTGCGCGAACAGGAGTCTCTCCTCCTCGCACAGCCCCG..................... TransTerm Strand: - Conf: 100 HP_score: -21.8 Tail_Score: -4.59424 Start: 85 End: 123 Full_Region: gcgaaatatgaaacg gggctgtgcgaggaggag aga ctcctgttcgcgcagccc ttttcgtttgacttt ....................................................................................gggctgtgcgaggaggagagactcctgttcgcgcagccc....................... Find igs database================================================ Query_seq: PG1739:PG1741|PG1739:PG1741:hypothetical protein:aspartate ammonia-lyase:<-<-:1825800..1825945 146 tctttaacgcttagtcaggcaaagatagtcgttagcattcattcccacatccatccctccgcatggtataaagtcaaacgaaaagggctgcgcgaacaggagtctctcctcctcgcacagccccgtttcatatttcgctaaagggg Intra-Species Hit: Count: 1 Min: 1 Max: 146 Len: 146 Subject: NC_002950_PG1739_PG1741|hypothetical protein:aspartate ammonia-lyase|NEGATIVE:NEGATIVE|[1825800,1825945]|146 HSP 1 e-value: 1.0E-77 bit: 289.0 Len: 146 Query Start:1 Query End:146 Subject Strand: POSITIVE Subject Start: 1 Subject End: 146 tctttaacgcttagtcaggcaaagatagtcgttagcattcattcccacatccatccctccgcatggtataaagtcaaacgaaaagggctgcgcgaacaggagtctctcctcctcgcacagccccgtttcatatttcgctaaagggg tctttaacgcttagtcaggcaaagatagtcgttagcattcattcccacatccatccctccgcatggtataaagtcaaacgaaaagggctgcgcgaacaggagtctctcctcctcgcacagccccgtttcatatttcgctaaagggg Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UCUUUAACGCUUAGUCAGGCAAAGAUAGUCGUUAGCAUUCAUUCCCACAUCCAUCCCUCCGCAUGGUAUAAAGUCAAACGAAAAGGGCUGCGCGAACAGGAGUCUCUCCUCCUCGCACAGCCCCGUUUCAUAUUUCGCUAAAGGGG ...((((((((..(((.......))))).))))))........(((....((((........)))).............((((.((((((.((((..(((((...)))))..)))).))))))..)))).............))). (-40.10) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CCCCUUUAGCGAAAUAUGAAACGGGGCUGUGCGAGGAGGAGAGACUCCUGUUCGCGCAGCCCUUUUCGUUUGACUUUAUACCAUGCGGAGGGAUGGAUGUGGGAAUGAAUGCUAACGACUAUCUUUGCCUGACUAAGCGUUAAAGA ...((((((((....((((((.(((((((((((((.(((((...))))).))))))))))))))))))).................((((((((((.(((.((........)).))).)))))))).))........)))))))). (-57.80) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 1110 130 81 221 172 NC_002950:PG1739|5end_hypothetical_protein_1825709..1825939_NEGATIVE 421 130 85 178 137 NC_002950:PG0480|5end_precorrin-2_C20-methyltransferase,_putative_521319..521549_NEGATIVE 410 123 81 165 113 NC_002950:PG1369|5end_glycerol-3-phosphate_dehydrogenase_(NAD(P)+)_1450407..1450637_NEGATIVE 385 125 85 218 182 NC_002950:PG0987|5end_hypothetical_protein_1048002..1048232_POSITIVE 384 95 51 63 7 NC_002950:PG2066|5end_lipoprotein,_putative_2162116..2162346_POSITIVE 380 130 84 161 119 NC_002950:PG1088|5end_acetyltransferase,_GNAT_family_1155426..1155656_NEGATIVE 374 125 87 100 43 NC_002950:PG0212|5end_precorrin-6Y_C5,15-methyltransferase,_decarboxylating_249065..249295_NEGATIVE 365 128 82 178 127 NC_002950:PG0757|5end_hypothetical_protein_806370..806600_NEGATIVE 359 129 83 158 112 NC_002950:PG0248|5end_translation_initation_factor_SUI1,_putative_281842..282072_NEGATIVE 357 126 84 179 122 NC_002950:PG1057|5end_hypothetical_protein_1123419..1123649_POSITIVE 352 128 85 229 164 NC_002950:PG1163|5end_cobyrinic_acid_a,c-diamide_synthase_1243381..1243611_NEGATIVE 348 139 93 101 54 NC_002950:PG2021|5end_hypothetical_protein_2114852..2115082_NEGATIVE 347 122 88 51 14 NC_002950:PG0441|5end_hypothetical_protein_478734..478964_POSITIVE 345 125 83 164 103 NC_002950:PG1672|5end_hypothetical_protein_1757637..1757867_POSITIVE 345 129 85 185 150 NC_002950:PG1285|5end_glucosamine-6-phosphate_deaminase_1362894..1363124_POSITIVE 345 129 86 148 86 NC_002950:PG0614|5end_hypothetical_protein_665847..666077_POSITIVE 345 109 65 217 168 NC_002950:PG0602|5end_hypothetical_protein_658500..658730_POSITIVE 345 125 83 164 103 NC_002950:PG0100|5end_hypothetical_protein_119219..119449_NEGATIVE 342 138 92 99 52 NC_002950:PG0897|5end_alpha-amylase_family_protein_962472..962702_NEGATIVE 337 130 85 205 150 NC_002950:PG0545|5end_hypothetical_protein_598043..598273_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 428 125 84 147 104 NC_002950:PG1967|3end_TPR_domain_protein_2058135..2058285_POSITIVE 421 130 85 65 24 NC_002950:PG0481|3end_2-amino-3-ketobutyrate_coenzyme_A_ligase_521432..521582_NEGATIVE 410 123 81 79 27 NC_002950:PG1370|3end_lysyl-tRNA_synthetase_1450493..1450643_NEGATIVE 397 123 81 67 31 NC_002950:PG0506|3end_arginine-specific_cysteine_proteinase_547625..547775_POSITIVE 390 130 82 84 36 NC_002950:PG1797|3end_DNA-binding_response_regulator/sensor_histidine_kinase_1892978..1893128_POSITIVE 390 129 83 71 27 NC_002950:PG0726|3end_lipoprotein,_putative_778003..778153_NEGATIVE 385 126 82 70 21 NC_002950:PG1847|3end_endoribonuclease_L-PSP,_putative_1946227..1946377_NEGATIVE 381 127 85 53 15 NC_002950:PG1754|3end_hypothetical_protein_1842284..1842434_POSITIVE 380 130 84 64 22 NC_002950:PG1089|3end_DNA-binding_response_regulator_RprY_1155523..1155673_NEGATIVE 374 125 87 107 50 NC_002950:PG0213|3end_precorrin-3_methylase/precorrin-8X_methylmutase_249058..249208_NEGATIVE 369 114 82 54 18 NC_002950:PG0397|3end_hypothetical_protein_434312..434462_NEGATIVE 367 125 86 151 105 NC_002950:PG0045|3end_heat_shock_protein_90_56193..56343_POSITIVE 365 128 82 81 30 NC_002950:PG0758|3end_peptidyl-dipeptidase_Dcp_806467..806617_NEGATIVE 363 127 82 77 27 NC_002950:PG0350|3end_internalin-related_protein_385356..385506_NEGATIVE 359 129 83 61 15 NC_002950:PG0249|3end_oxaloacetate_decarboxylase,_putative_281939..282089_NEGATIVE 357 123 83 56 16 NC_002950:PG2010|3end_phosphomannomutase,_putative_2100952..2101102_POSITIVE 348 139 93 97 50 NC_002950:PG2022|3end_hypothetical_protein_2114856..2115006_NEGATIVE 347 122 88 47 10 NC_002950:PG0439|3end_hypothetical_protein_478810..478960_POSITIVE 346 138 98 46 2 NC_002950:PG0737|3end_hypothetical_protein_786546..786696_POSITIVE 341 126 85 50 14 NC_002950:PG2124|3end_glyceraldehyde_3-phosphate_dehydrogenase,_type_I_2231264..2231414_POSITIVE