Origin IGS: gaaaagccaaacagtaagacgacgtatcatgaattttattgtttgtttcgaagcgtggtttttccgtatttttgtgcattcttttagaacaatactttttagggtattattctcaccaaggacaacaaaggtaatgagaaaagaagtggttcagacgttgtgcctgagcctgtctctccgagtttttgggaagtatatcaaatagaaaatacagagtagaagaaa .........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 tttcttctactctgtattttctatttgatatacttcccaaaaactcggagagacaggctcaggcacaacgtctgaaccacttcttttctcattacctttgttgtccttggtgagaataataccctaaaaagtattgttctaaaagaatgcacaaaaatacggaaaaaccacgcttcgaaacaaacaataaaattcatgatacgtcgtcttactgtttggcttttc Mask Tandem Repeat Region ================================================ gaaaagccaaacagtaagacgacgtatcatgaattttattgtttgtttcgaagcgtggtttttccgtatttttgtgcattcttttagaacaatactttttagggtattattctcaccaaggacaacaaaggtaatgagaaaagaagtggttcagacgttgtgcctgagcctgtctctccgagtttttgggaagtatatcaaatagaaaatacagagtagaagaaa Find is-nt database================================================ Query_seq: PG0569:PG0571|PG0569:PG0571:hypothetical protein:aspartate-semialdehyde dehydrogenase:<-->:626314..626538 225 gaaaagccaaacagtaagacgacgtatcatgaattttattgtttgtttcgaagcgtggtttttccgtatttttgtgcattcttttagaacaatactttttagggtattattctcaccaaggacaacaaaggtaatgagaaaagaagtggttcagacgttgtgcctgagcctgtctctccgagtttttgggaagtatatcaaatagaaaatacagagtagaagaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG0569:PG0571|PG0569:PG0571:hypothetical protein:aspartate-semialdehyde dehydrogenase:<-->:626314..626538 225 gaaaagccaaacagtaagacgacgtatcatgaattttattgtttgtttcgaagcgtggtttttccgtatttttgtgcattcttttagaacaatactttttagggtattattctcaccaaggacaacaaaggtaatgagaaaagaagtggttcagacgttgtgcctgagcctgtctctccgagtttttgggaagtatatcaaatagaaaatacagagtagaagaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG0569:PG0571|PG0569:PG0571:hypothetical protein:aspartate-semialdehyde dehydrogenase:<-->:626314..626538 225 gaaaagccaaacagtaagacgacgtatcatgaattttattgtttgtttcgaagcgtggtttttccgtatttttgtgcattcttttagaacaatactttttagggtattattctcaccaaggacaacaaaggtaatgagaaaagaagtggttcagacgttgtgcctgagcctgtctctccgagtttttgggaagtatatcaaatagaaaatacagagtagaagaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gaaaagccaaacagtaagacgacgtatcatgaattttattgtttgtttcgaagcgtggtttttccgtatttttgtgcattcttttagaacaatactttttagggtattattctcaccaaggacaacaaaggtaatgagaaaagaagtggttcagacgttgtgcctgagcctgtctctccgagtttttgggaagtatatcaaatagaaaatacagagtagaagaaa Predict ORF larger than 30AA ================================================ Protein_Len: 33 Strand: + Start: 33 End: 131 ................................ M L L F V S K R G F S V F L C I L L E Q Y F L G Y Y S H Q G Q Q R .............................................................................................. Protein_Len: 59 Strand: + Start: 26 End: 202 ......................... M M N F I V C F E A W F F R I F V H S F R T I L F R V L F S P R T T K V M R K E V V Q T L C L S L S L R V F G K Y I K ....................... Protein_Len: 37 Strand: + Start: 106 End: 216 ......................................................................................................... M I L T K D N K G N E K R S G S D V V P E P V S P S F W E V Y Q I E N T E ......... Protein_Len: 33 Strand: - Start: 116 End: 214 ................................................................................................................... W P C C L Y H S F F H N L R Q A Q A Q R E S N K P L I D F L F Y M ........... Protein_Len: 45 Strand: - Start: 1 End: 135 F L W V T L R R I M F K I T Q K S A H N K R I K T C E K L V I S K L T N N E G L V V F T M .......................................................................................... gaaaagccaaacagtaagacgacgtatcatgaattttattgtttgtttcgaagcgtggtttttccgtatttttgtgcattcttttagaacaatactttttagggtattattctcaccaaggacaacaaaggtaatgagaaaagaagtggttcagacgttgtgcctgagcctgtctctccgagtttttgggaagtatatcaaatagaaaatacagagtagaagaaa 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================================================ gaaaagccaaacagtaagacgacgtatcatgaattttattgtttgtttcgaagcgtggtttttccgtatttttgtgcattcttttagaacaatactttttagggtattattctcaccaaggacaacaaaggtaatgagaaaagaagtggttcagacgttgtgcctgagcctgtctctccgagtttttgggaagtatatcaaatagaaaatacagagtagaagaaa Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PG0569:PG0571|PG0569:PG0571:hypothetical protein:aspartate-semialdehyde dehydrogenase:<-->:626314..626538 225 gaaaagccaaacagtaagacgacgtatcatgaattttattgtttgtttcgaagcgtggtttttccgtatttttgtgcattcttttagaacaatactttttagggtattattctcaccaaggacaacaaaggtaatgagaaaagaagtggttcagacgttgtgcctgagcctgtctctccgagtttttgggaagtatatcaaatagaaaatacagagtagaagaaa Intra-Species Hit: Count: 1 Min: 1 Max: 225 Len: 225 Subject: NC_002950_PG0569_PG0571|hypothetical protein:aspartate-semialdehyde dehydrogenase|NEGATIVE:POSITIVE|[626314,626538]|225 HSP 1 e-value: 1.0E-124 bit: 446.0 Len: 225 Query Start:1 Query End:225 Subject Strand: POSITIVE Subject Start: 1 Subject End: 225 gaaaagccaaacagtaagacgacgtatcatgaattttattgtttgtttcgaagcgtggtttttccgtatttttgtgcattcttttagaacaatactttttagggtattattctcaccaaggacaacaaaggtaatgagaaaagaagtggttcagacgttgtgcctgagcctgtctctccgagtttttgggaagtatatcaaatagaaaatacagagtagaagaaa gaaaagccaaacagtaagacgacgtatcatgaattttattgtttgtttcgaagcgtggtttttccgtatttttgtgcattcttttagaacaatactttttagggtattattctcaccaaggacaacaaaggtaatgagaaaagaagtggttcagacgttgtgcctgagcctgtctctccgagtttttgggaagtatatcaaatagaaaatacagagtagaagaaa Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GAAAAGCCAAACAGUAAGACGACGUAUCAUGAAUUUUAUUGUUUGUUUCGAAGCGUGGUUUUUCCGUAUUUUUGUGCAUUCUUUUAGAACAAUACUUUUUAGGGUAUUAUUCUCACCAAGGACAACAAAGGUAAUGAGAAAAGAAGUGGUUCAGACGUUGUGCCUGAGCCUGUCUCUCCGAGUUUUUGGGAAGUAUAUCAAAUAGAAAAUACAGAGUAGAAGAAA ((((((((.((((((((((...(((...)))..)))))))))).(((....)))..)))))))).((((....)))).((((((((......((.((((((.(((((....((..((((((((......((....((((........(((((((.........)))))))..)))).))..))))))))..)).)))))...)))))).)).....)))))))). (-48.70) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUCUUCUACUCUGUAUUUUCUAUUUGAUAUACUUCCCAAAAACUCGGAGAGACAGGCUCAGGCACAACGUCUGAACCACUUCUUUUCUCAUUACCUUUGUUGUCCUUGGUGAGAAUAAUACCCUAAAAAGUAUUGUUCUAAAAGAAUGCACAAAAAUACGGAAAAACCACGCUUCGAAACAAACAAUAAAAUUCAUGAUACGUCGUCUUACUGUUUGGCUUUUC ..........((((((((((............((..((........))..))...((.((((((.....)))))).))..(((((((....(((((............)))))(((((((((........))))))))).)))))))......)))))))))).................((((((.(((.....((((....)))).))).))))))....... (-42.30) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 823 60 11 151 102 NC_002950:PG0569|5end_hypothetical_protein_626223..626453_NEGATIVE 372 169 124 160 115 NC_002950:PG1418|5end_DNA_polymerase_III,_gamma_and_tau_subunits_1503064..1503294_POSITIVE 338 189 146 87 41 NC_002950:PG1259|5end_anaerobic_ribonucleoside-triphosphate_reductase_activating_protein_1335465..1335695_NEGATIVE 332 189 144 115 76 NC_002950:PG0212|5end_precorrin-6Y_C5,15-methyltransferase,_decarboxylating_249065..249295_NEGATIVE 328 180 136 200 150 NC_002950:PG0704|5end_phosphoglycerate_mutase_family_protein_758928..759158_POSITIVE 320 179 137 95 51 NC_002950:PG1143|5end_sugar_dehydrogenase,_UDP-glucose/GDP-mannose_dehydrogenase_family_1227198..1227428_NEGATIVE 319 200 151 207 154 NC_002950:PG2075|5end_hypothetical_protein_2176466..2176696_NEGATIVE 312 190 143 99 44 NC_002950:PG1727|5end_yitL_protein_1816709..1816939_POSITIVE 308 180 142 74 34 NC_002950:PG0607|5end_hypothetical_protein_662552..662782_POSITIVE 307 189 145 197 153 NC_002950:PG0657|5end_Maf-like_protein_707782..708012_NEGATIVE 303 180 134 176 134 NC_002950:PG1134|5end_thioredoxin_reductase_1214350..1214580_POSITIVE 302 193 158 157 124 NC_002950:PG1490|5end_TraG_family_protein_1563415..1563645_POSITIVE 302 181 143 51 10 NC_002950:PG1475|5end_conjugative_transposon_protein_TraN_1551835..1552065_NEGATIVE 302 200 156 162 123 NC_002950:PG0715|5end_transporter_769596..769826_NEGATIVE 299 189 154 65 20 NC_002950:PG1407|5end_nitroimidazole_resistance_protein,_putative_1491648..1491878_NEGATIVE 298 200 156 56 17 NC_002950:PG1311|5end_hypothetical_protein_1389709..1389939_POSITIVE 298 166 126 50 11 NC_002950:PG1308|5end_hypothetical_protein_1388728..1388958_NEGATIVE 298 195 153 121 64 NC_002950:PG1302|5end_hypothetical_protein_1380637..1380867_NEGATIVE 297 188 146 64 14 NC_002950:PG1195|5end_8-amino-7-oxononanoate_synthase_1273979..1274209_POSITIVE 294 193 152 43 4 NC_002950:PG2188|5end_diaminopimelate_decarboxylase_2295781..2296011_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 419 198 153 77 32 NC_002950:PG1145|3end_long-chain-fatty-acid--CoA_ligase,_putative_1228482..1228632_NEGATIVE 367 180 145 124 86 NC_002950:PG1675|3end_hypothetical_protein_1760360..1760510_POSITIVE 338 189 146 54 8 NC_002950:PG1260|3end_anaerobic_ribonucleoside_triphosphate_reductase_1335498..1335648_NEGATIVE 332 189 144 122 83 NC_002950:PG0213|3end_precorrin-3_methylase/precorrin-8X_methylmutase_249058..249208_NEGATIVE 324 181 141 49 9 NC_002950:PG1417|3end_fumarate_hydratase_class_I,_anaerobic_1503021..1503171_POSITIVE 312 190 143 89 34 NC_002950:PG1726|3end_PDZ_domain_protein_1816779..1816929_POSITIVE 307 190 142 135 87 NC_002950:PG2040|3end_DNA-binding_protein,_histone-like_family_2138398..2138548_NEGATIVE 303 189 143 131 81 NC_002950:PG1794|3end_DNA_polymerase_type_I_1888838..1888988_POSITIVE 299 182 144 38 8 NC_002950:PG0492|3end_hypothetical_protein_534408..534558_NEGATIVE 299 199 152 150 94 NC_002950:PG0443|3end_hemagglutinin-related_protein_483147..483297_POSITIVE 298 200 156 93 54 NC_002950:PG1310|3end_exsB_protein_1389826..1389976_POSITIVE 296 195 153 66 14 NC_002950:PG1723|3end_ribosomal_protein_S20_1813403..1813553_POSITIVE 296 195 152 61 2 NC_002950:PG1622|3end_DNA_topoisomerase_IV_subunit_A_1701418..1701568_NEGATIVE 287 198 152 86 41 NC_002950:PG0108|3end_UDP-N-acetyl-D-mannosaminuronic_acid_dehydrogenase_131389..131539_POSITIVE 286 190 145 63 10 NC_002950:PG1936|3end_ribosomal_protein_L23_2023199..2023349_NEGATIVE 285 188 147 132 85 NC_002950:PG0099|3end_phenylalanyl-tRNA_synthetase_beta_subunit_115827..115977_NEGATIVE 284 182 145 61 15 NC_002950:PG0777|3end_electron_transfer_flavoprotein,_beta_subunit_830193..830343_NEGATIVE 284 206 163 141 102 NC_002950:PG0742|3end_antigen_PgaA_789300..789450_NEGATIVE 280 178 137 59 16 NC_002950:PG1910|3end_ribosomal_protein_L17_2010282..2010432_NEGATIVE 279 138 107 57 33 NC_002950:PG0364|3end_hypothetical_protein_398410..398560_NEGATIVE