Origin IGS: ggaaaaaacggaatgagtacttgaggatgcggccaaacccgaagtgccggaagaaaggagaaggggcaaaacagcagaggccgcggtatgcagttctacagcctgtgatacaaacatatccacctttacagaaccactcgaacctatccgctgaaaaccgcacctctacctttctgaaacaagagaagagggtgtgtccaacttacgttctgacacaccctctttataaaatgccctatgtgtgagattctaaatgattcgcccga .........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 tcgggcgaatcatttagaatctcacacatagggcattttataaagagggtgtgtcagaacgtaagttggacacaccctcttctcttgtttcagaaaggtagaggtgcggttttcagcggataggttcgagtggttctgtaaaggtggatatgtttgtatcacaggctgtagaactgcataccgcggcctctgctgttttgccccttctcctttcttccggcacttcgggtttggccgcatcctcaagtactcattccgttttttcc Mask Tandem Repeat Region ================================================ ggaaaaaacggaatgagtacttgaggatgcggccaaacccgaagtgccggaagaaaggagaaggggcaaaacagcagaggccgcggtatgcagttctacagcctgtgatacaaacatatccacctttacagaaccactcgaacctatccgctgaaaaccgcacctctacctttctgaaacaagagaagagggtgtgtccaacttacgttctgacacaccctctttataaaatgccctatgtgtgagattctaaatgattcgcccga Find is-nt database================================================ Query_seq: PG0240:PG0241|PG0240:PG0241:hydrolase, haloacid dehalogenase-like family:lipoprotein, putative:<-<-:277184..277449 266 ggaaaaaacggaatgagtacttgaggatgcggccaaacccgaagtgccggaagaaaggagaaggggcaaaacagcagaggccgcggtatgcagttctacagcctgtgatacaaacatatccacctttacagaaccactcgaacctatccgctgaaaaccgcacctctacctttctgaaacaagagaagagggtgtgtccaacttacgttctgacacaccctctttataaaatgccctatgtgtgagattctaaatgattcgcccga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG0240:PG0241|PG0240:PG0241:hydrolase, haloacid dehalogenase-like family:lipoprotein, putative:<-<-:277184..277449 266 ggaaaaaacggaatgagtacttgaggatgcggccaaacccgaagtgccggaagaaaggagaaggggcaaaacagcagaggccgcggtatgcagttctacagcctgtgatacaaacatatccacctttacagaaccactcgaacctatccgctgaaaaccgcacctctacctttctgaaacaagagaagagggtgtgtccaacttacgttctgacacaccctctttataaaatgccctatgtgtgagattctaaatgattcgcccga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG0240:PG0241|PG0240:PG0241:hydrolase, haloacid dehalogenase-like family:lipoprotein, putative:<-<-:277184..277449 266 ggaaaaaacggaatgagtacttgaggatgcggccaaacccgaagtgccggaagaaaggagaaggggcaaaacagcagaggccgcggtatgcagttctacagcctgtgatacaaacatatccacctttacagaaccactcgaacctatccgctgaaaaccgcacctctacctttctgaaacaagagaagagggtgtgtccaacttacgttctgacacaccctctttataaaatgccctatgtgtgagattctaaatgattcgcccga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ggaaaaaacggaatgagtacttgaggatgcggccaaacccgaagtgccggaagaaaggagaaggggcaaaacagcagaggccgcggtatgcagttctacagcctgtgatacaaacatatccacctttacagaaccactcgaacctatccgctgaaaaccgcacctctacctttctgaaacaagagaagagggtgtgtccaacttacgttctgacacaccctctttataaaatgccctatgtgtgagattctaaatgattcgcccga Predict ORF larger than 30AA ================================================ Protein_Len: 36 Strand: + Start: 44 End: 151 ........................................... M P E E R R R G K T A E A A V C S S T A C D T N I S T F T E P L E P I R ................................................................................................................... Protein_Len: 60 Strand: + Start: 21 End: 242 .................... M R M R P N P K C R K K G E G A K Q Q R P R Y A V L Q P V I Q T Y P P L Q N H S N L S A E N R T S T F L K Q E K R V C P ........................ Protein_Len: 34 Strand: - Start: 147 End: 248 .................................................................................................................................................. G S F V A G R G K Q F L L L P H T W S V N Q C V R K I F H G I H S M .................. Protein_Len: 54 Strand: - Start: 2 End: 163 . F F R F S Y K L I R G F G F H R F F P S P A F C C L G R Y A T R C G T I C V Y G G K C F W E F R D A S F R M ....................................................................................................... Protein_Len: 49 Strand: - Start: 1 End: 147 S F V S H T S S S A A L G S T G S S L L L P L V A S A A T H L E V A Q S V F M D V K V S G S S G M ....................................................................................................................... ggaaaaaacggaatgagtacttgaggatgcggccaaacccgaagtgccggaagaaaggagaaggggcaaaacagcagaggccgcggtatgcagttctacagcctgtgatacaaacatatccacctttacagaaccactcgaacctatccgctgaaaaccgcacctctacctttctgaaacaagagaagagggtgtgtccaacttacgttctgacacaccctctttataaaatgccctatgtgtgagattctaaatgattcgcccga 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================================================ ggaaaaaacggaatgagtacttgaggatgcggccaaacccgaagtgccggaagaaaggagaaggggcaaaacagcagaggccgcggtatgcagttctacagcctgtgatacaaacatatccacctttacagaaccactcgaacctatccgctgaaaaccgcacctctacctttctgaaacaagagaagagggtgtgtccaacttacgttctgacacaccctctttataaaatgccctatgtgtgagattctaaatgattcgcccga Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 91 HP_score: -12.3 Tail_Score: -3.90464 Start: 188 End: 222 Full_Region: agggcattttataaa gagggtgtgtcagaac gtaa gttggacacaccctc ttctcttgtttcaga ...........................................................................................................................................................................................gagggtgtgtcagaacgtaagttggacacaccctc............................................ Find igs database================================================ Query_seq: PG0240:PG0241|PG0240:PG0241:hydrolase, haloacid dehalogenase-like family:lipoprotein, putative:<-<-:277184..277449 266 ggaaaaaacggaatgagtacttgaggatgcggccaaacccgaagtgccggaagaaaggagaaggggcaaaacagcagaggccgcggtatgcagttctacagcctgtgatacaaacatatccacctttacagaaccactcgaacctatccgctgaaaaccgcacctctacctttctgaaacaagagaagagggtgtgtccaacttacgttctgacacaccctctttataaaatgccctatgtgtgagattctaaatgattcgcccga Intra-Species Hit: Count: 1 Min: 1 Max: 266 Len: 266 Subject: NC_002950_PG0240_PG0241|hydrolase, haloacid dehalogenase-like family:lipoprotein, putative|NEGATIVE:NEGATIVE|[277184,277449]|266 HSP 1 e-value: 1.0E-149 bit: 527.0 Len: 266 Query Start:1 Query End:266 Subject Strand: POSITIVE Subject Start: 1 Subject End: 266 ggaaaaaacggaatgagtacttgaggatgcggccaaacccgaagtgccggaagaaaggagaaggggcaaaacagcagaggccgcggtatgcagttctacagcctgtgatacaaacatatccacctttacagaaccactcgaacctatccgctgaaaaccgcacctctacctttctgaaacaagagaagagggtgtgtccaacttacgttctgacacaccctctttataaaatgccctatgtgtgagattctaaatgattcgcccga ggaaaaaacggaatgagtacttgaggatgcggccaaacccgaagtgccggaagaaaggagaaggggcaaaacagcagaggccgcggtatgcagttctacagcctgtgatacaaacatatccacctttacagaaccactcgaacctatccgctgaaaaccgcacctctacctttctgaaacaagagaagagggtgtgtccaacttacgttctgacacaccctctttataaaatgccctatgtgtgagattctaaatgattcgcccga Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GGAAAAAACGGAAUGAGUACUUGAGGAUGCGGCCAAACCCGAAGUGCCGGAAGAAAGGAGAAGGGGCAAAACAGCAGAGGCCGCGGUAUGCAGUUCUACAGCCUGUGAUACAAACAUAUCCACCUUUACAGAACCACUCGAACCUAUCCGCUGAAAACCGCACCUCUACCUUUCUGAAACAAGAGAAGAGGGUGUGUCCAACUUACGUUCUGACACACCCUCUUUAUAAAAUGCCCUAUGUGUGAGAUUCUAAAUGAUUCGCCCGA ........(((..(((((.....(((((.(((((.........).)))).............((((((.......(((((..(((((...((((........((((((.................))))))........((.....)).))))...))))).))))).................((((((((((((((.(((....)))..))))))))))))))......)))))).........))))).....))))).))). (-73.43) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UCGGGCGAAUCAUUUAGAAUCUCACACAUAGGGCAUUUUAUAAAGAGGGUGUGUCAGAACGUAAGUUGGACACACCCUCUUCUCUUGUUUCAGAAAGGUAGAGGUGCGGUUUUCAGCGGAUAGGUUCGAGUGGUUCUGUAAAGGUGGAUAUGUUUGUAUCACAGGCUGUAGAACUGCAUACCGCGGCCUCUGCUGUUUUGCCCCUUCUCCUUUCUUCCGGCACUUCGGGUUUGGCCGCAUCCUCAAGUACUCAUUCCGUUUUUUCC .(((.((((((...(((((((((.......))).))))))..(((((((((((((..(((....))).)))))))))))))....((((..(((((((.(((((.(.(((...(((((((..((((((.(..((((((...((.(.(((((....)))))...).)).))))))..)....)).)))))))))))....))))))))))))))))...)))).....)))))).)))............................. (-90.50) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 1074 90 41 181 132 NC_002950:PG0240|5end_hydrolase,_haloacid_dehalogenase-like_family_277093..277323_NEGATIVE 399 69 26 88 36 NC_002950:PG0482|5end_hypothetical_protein_523129..523359_NEGATIVE 396 225 181 177 119 NC_002950:PG1281|5end_hypothetical_protein_1358848..1359078_POSITIVE 391 110 62 219 169 NC_002950:PG1709|5end_ISPg5,_transposase_Orf1_1794914..1795144_POSITIVE 388 80 31 53 14 NC_002950:PG1635|5end_hypothetical_protein_1715861..1716091_NEGATIVE 382 225 183 222 176 NC_002950:PG0323|5end_hypothetical_protein_357388..357618_NEGATIVE 369 174 134 71 31 NC_002950:PG0362|5end_hypothetical_protein_395301..395531_POSITIVE 368 59 16 87 39 NC_002950:PG0210|5end_precorrin-6x_reductase/cobalamin_biosynthetic_protein_CbiD_245969..246199_NEGATIVE 367 84 41 180 129 NC_002950:PG0221|5end_hypothetical_protein_255834..256064_NEGATIVE 362 67 28 67 17 NC_002950:PG0350|5end_internalin-related_protein_386810..387040_NEGATIVE 361 96 57 42 8 NC_002950:PG0608|5end_hypothetical_protein_662945..663175_POSITIVE 360 107 62 137 84 NC_002950:PG1871|5end_hypothetical_protein_1966859..1967089_NEGATIVE 358 97 58 98 59 NC_002950:PG2033|5end_glutamate_synthase,_small_subunit_2134803..2135033_NEGATIVE 358 103 65 70 25 NC_002950:PG1850|5end_hypothetical_protein_1949957..1950187_NEGATIVE 358 110 62 185 139 NC_002950:PG0597|5end_ribosomal_protein_L9_653662..653892_POSITIVE 357 114 74 79 33 NC_002950:PG0753|5end_protease_798301..798531_POSITIVE 356 69 25 60 17 NC_002950:PG0924|5end_5'-nucleotidase,_lipoprotein_e(P4)_family_983668..983898_NEGATIVE 355 222 182 231 176 NC_002950:PG0768|5end_hypothetical_protein_822381..822611_NEGATIVE 354 50 9 230 196 NC_002950:PG0758|5end_peptidyl-dipeptidase_Dcp_808554..808784_NEGATIVE 351 87 46 169 123 NC_002950:PG1482|5end_conjugative_transposon_protein_TraF_1558779..1559009_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 479 225 182 76 21 NC_002950:PG0618|3end_alkyl_hydroperoxide_reductase,_C_subunit_671018..671168_POSITIVE 443 222 181 52 13 NC_002950:PG0553|3end_extracellular_protease,_putative_608367..608517_NEGATIVE 379 90 43 69 22 NC_002950:PG1556|3end_hypothetical_protein_1637001..1637151_POSITIVE 377 224 187 58 20 NC_002950:PG1414|3end_hypothetical_protein_1499704..1499854_POSITIVE 370 97 53 87 44 NC_002950:PG0725|3end_hydrolase,_haloacid_dehalogenase-like_family_777966..778116_POSITIVE 368 59 16 90 42 NC_002950:PG0211|3end_cobalamin_biosynthesis_protein_CbiG/precorrin-4_C11-methyltransferase_245966..246116_NEGATIVE 367 84 41 101 50 NC_002950:PG0222|3end_DNA-binding_protein,_histone-like_family_255913..256063_NEGATIVE 360 107 62 64 11 NC_002950:PG1872|3end_urocanate_hydratase_1966932..1967082_NEGATIVE 358 103 65 73 28 NC_002950:PG1851|3end_phosphopantothenoylcysteine_decarboxylase/phosphopantothenate--cysteine_ligase_1949954..1950104_NEGATIVE 358 75 38 35 3 NC_002950:PG1458|3end_hypothetical_protein_1539682..1539832_POSITIVE 358 86 42 142 97 NC_002950:PG0932|3end_DNA_polymerase_III,_delta_prime_subunit,_putative_989833..989983_POSITIVE 357 118 74 65 7 NC_002950:PG1162|3end_ATP:cob(I)alamin_adenosyltransferase,_putative_1241473..1241623_NEGATIVE 357 114 74 95 49 NC_002950:PG0752|3end_uracil_phosphoribosyltransferase_798397..798547_POSITIVE 356 225 184 50 1 NC_002950:PG1280|3end_hypothetical_protein_1358801..1358951_POSITIVE 356 69 25 63 20 NC_002950:PG0925|3end_thymidine_kinase_983665..983815_NEGATIVE 355 80 32 39 1 NC_002950:PG1636|3end_FtsK/SpoIIIE_family_protein_1715875..1716025_NEGATIVE 355 222 182 57 2 NC_002950:PG0769|3end_fibronectin_type_III_domain_protein_822555..822705_NEGATIVE 350 220 171 150 107 NC_002950:PG2022|3end_hypothetical_protein_2114856..2115006_NEGATIVE 349 67 21 98 42 NC_002950:PG0226|3end_transglutaminase-related_protein_259838..259988_NEGATIVE 344 80 31 124 63 NC_002950:PG2077|3end_hypothetical_protein_2177005..2177155_NEGATIVE