Origin IGS: gatttcttgttgagaggtcaggaattgcttactgagaagctctttggtgcataatcatattttttgtccatcgtctattcacgacttcggagtgattgatccccctttgggggcaagggtctttgtggtacaaatggcaatttgtggtacaaagacacaccttgccagtgtcaagaagggatgcttcattgcctctaccgatcactctgtttctttagcgctcgagcaaacttaagctcgagacctcgattaattaatttctcgagatctcgaggtctcgaggtctcgacattggcctcttctaattgcggagctgagagtgttgat .........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.........1.........2.........3.........4.........5.........6.........7.........8.........9 atcaacactctcagctccgcaattagaagaggccaatgtcgagacctcgagacctcgagatctcgagaaattaattaatcgaggtctcgagcttaagtttgctcgagcgctaaagaaacagagtgatcggtagaggcaatgaagcatcccttcttgacactggcaaggtgtgtctttgtaccacaaattgccatttgtaccacaaagacccttgcccccaaagggggatcaatcactccgaagtcgtgaatagacgatggacaaaaaatatgattatgcaccaaagagcttctcagtaagcaattcctgacctctcaacaagaaatc Mask Tandem Repeat Region ================================================ gatttcttgttgagaggtcaggaattgcttactgagaagctctttggtgcataatcatattttttgtccatcgtctattcacgacttcggagtgattgatccccctttgggggcaagggtctttgtggtacaaatggcaatttgtggtacaaagacacaccttgccagtgtcaagaagggatgcttcattgcctctaccgatcactctgtttctttagcgctcgagcaaacttaagctcgagacctcgattaattaattnnnnnnnnnnnnnnnnnnnnnnnnnnnnnncattggcctcttctaattgcggagctgagagtgttgat Find is-nt database================================================ Query_seq: PG0840:PG0841|PG0840:PG0841:hypothetical protein:mobilizable transposon, excision protein, putative:-><-:902544..902870 327 gatttcttgttgagaggtcaggaattgcttactgagaagctctttggtgcataatcatattttttgtccatcgtctattcacgacttcggagtgattgatccccctttgggggcaagggtctttgtggtacaaatggcaatttgtggtacaaagacacaccttgccagtgtcaagaagggatgcttcattgcctctaccgatcactctgtttctttagcgctcgagcaaacttaagctcgagacctcgattaattaatttctcgagatctcgaggtctcgaggtctcgacattggcctcttctaattgcggagctgagagtgttgat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG0840:PG0841|PG0840:PG0841:hypothetical protein:mobilizable transposon, excision protein, putative:-><-:902544..902870 327 gatttcttgttgagaggtcaggaattgcttactgagaagctctttggtgcataatcatattttttgtccatcgtctattcacgacttcggagtgattgatccccctttgggggcaagggtctttgtggtacaaatggcaatttgtggtacaaagacacaccttgccagtgtcaagaagggatgcttcattgcctctaccgatcactctgtttctttagcgctcgagcaaacttaagctcgagacctcgattaattaatttctcgagatctcgaggtctcgaggtctcgacattggcctcttctaattgcggagctgagagtgttgat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG0840:PG0841|PG0840:PG0841:hypothetical protein:mobilizable transposon, excision protein, putative:-><-:902544..902870 327 gatttcttgttgagaggtcaggaattgcttactgagaagctctttggtgcataatcatattttttgtccatcgtctattcacgacttcggagtgattgatccccctttgggggcaagggtctttgtggtacaaatggcaatttgtggtacaaagacacaccttgccagtgtcaagaagggatgcttcattgcctctaccgatcactctgtttctttagcgctcgagcaaacttaagctcgagacctcgattaattaatttctcgagatctcgaggtctcgaggtctcgacattggcctcttctaattgcggagctgagagtgttgat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gatttcttgttgagaggtcaggaattgcttactgagaagctctttggtgcataatcatattttttgtccatcgtctattcacgacttcggagtgattgatccccctttgggggcaagggtctttgtggtacaaatggcaatttgtggtacaaagacacaccttgccagtgtcaagaagggatgcttcattgcctctaccgatcactctgtttctttagcgctcgagcaaacttaagctcgagacctcgattaattaatttctcgagatctcgaggtctcgaggtctcgacattggcctcttctaattgcggagctgagagtgttgat Predict ORF larger than 30AA ================================================ Protein_Len: 40 Strand: + Start: 96 End: 215 ............................................................................................... M I P L W G Q G S L W Y K W Q F V V Q R H T L P V S R R D A S L P L P I T L F L ................................................................................................................ Protein_Len: 60 Strand: + Start: 32 End: 232 ............................... M R S S L V H N H I F C P S S I H D F G V I D P P L G A R V F V V Q M A I C G T K T H L A S V K K G C F I A S T D H S V ............................................................................................... Protein_Len: 60 Strand: + Start: 142 End: 327 ............................................................................................................................................. M W Y K D T P C Q C Q E G M L H C L Y R S L C F F S A R A N L S S R P R L I N F S R S R G L E V S T L A S S N C G A E S Protein_Len: 36 Strand: - Start: 82 End: 189 ................................................................................. S K P T I S G G K P A L T K T T C I A I Q P V F V C R A L T L F P H K M .......................................................................................................................................... Protein_Len: 58 Strand: - Start: 32 End: 205 ............................... Q S A R Q H M I M N K T W R R N V V E S H N I G R Q P C P D K H Y L H C N T T C L C V K G T D L L S A E N G R G I M .......................................................................................................................... gatttcttgttgagaggtcaggaattgcttactgagaagctctttggtgcataatcatattttttgtccatcgtctattcacgacttcggagtgattgatccccctttgggggcaagggtctttgtggtacaaatggcaatttgtggtacaaagacacaccttgccagtgtcaagaagggatgcttcattgcctctaccgatcactctgtttctttagcgctcgagcaaacttaagctcgagacctcgattaattaatttctcgagatctcgaggtctcgaggtctcgacattggcctcttctaattgcggagctgagagtgttgat 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================================================ gatttcttgttgagaggtcaggaattgcttactgagaagctctttggtgcataatcatattttttgtccatcgtctattcacgacttcggagtgattgatccccctttgggggcaagggtctttgtggtacaaatggcaatttgtggtacaaagacacaccttgccagtgtcaagaagggatgcttcattgcctctaccgatcactctgtttctttagcgctcgagcaaacttaagctcgagacctcgattaattaatttctcgagatctcgaggtctcgaggtctcgacattggcctcttctaattgcggagctgagagtgttgat Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 53 HP_score: -2.0 Tail_Score: -3.85698 Start: 135 End: 167 Full_Region: atcccttcttgacac tggcaaggtgtg tctttgtac cacaaattgcca tttgtaccacaaaga ......................................................................................................................................tggcaaggtgtgtctttgtaccacaaattgcca................................................................................................................................................................ Find igs database================================================ Query_seq: PG0840:PG0841|PG0840:PG0841:hypothetical protein:mobilizable transposon, excision protein, putative:-><-:902544..902870 327 gatttcttgttgagaggtcaggaattgcttactgagaagctctttggtgcataatcatattttttgtccatcgtctattcacgacttcggagtgattgatccccctttgggggcaagggtctttgtggtacaaatggcaatttgtggtacaaagacacaccttgccagtgtcaagaagggatgcttcattgcctctaccgatcactctgtttctttagcgctcgagcaaacttaagctcgagacctcgattaattaatttctcgagatctcgaggtctcgaggtctcgacattggcctcttctaattgcggagctgagagtgttgat Intra-Species Hit: Count: 1 Min: 1 Max: 327 Len: 327 Subject: NC_002950_PG0840_PG0841|hypothetical protein:mobilizable transposon, excision protein, putative|POSITIVE:NEGATIVE|[902544,902870]|327 HSP 1 e-value: 0.0 bit: 648.0 Len: 327 Query Start:1 Query End:327 Subject Strand: POSITIVE Subject Start: 1 Subject End: 327 gatttcttgttgagaggtcaggaattgcttactgagaagctctttggtgcataatcatattttttgtccatcgtctattcacgacttcggagtgattgatccccctttgggggcaagggtctttgtggtacaaatggcaatttgtggtacaaagacacaccttgccagtgtcaagaagggatgcttcattgcctctaccgatcactctgtttctttagcgctcgagcaaacttaagctcgagacctcgattaattaatttctcgagatctcgaggtctcgaggtctcgacattggcctcttctaattgcggagctgagagtgttgat gatttcttgttgagaggtcaggaattgcttactgagaagctctttggtgcataatcatattttttgtccatcgtctattcacgacttcggagtgattgatccccctttgggggcaagggtctttgtggtacaaatggcaatttgtggtacaaagacacaccttgccagtgtcaagaagggatgcttcattgcctctaccgatcactctgtttctttagcgctcgagcaaacttaagctcgagacctcgattaattaatttctcgagatctcgaggtctcgaggtctcgacattggcctcttctaattgcggagctgagagtgttgat Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GAUUUCUUGUUGAGAGGUCAGGAAUUGCUUACUGAGAAGCUCUUUGGUGCAUAAUCAUAUUUUUUGUCCAUCGUCUAUUCACGACUUCGGAGUGAUUGAUCCCCCUUUGGGGGCAAGGGUCUUUGUGGUACAAAUGGCAAUUUGUGGUACAAAGACACACCUUGCCAGUGUCAAGAAGGGAUGCUUCAUUGCCUCUACCGAUCACUCUGUUUCUUUAGCGCUCGAGCAAACUUAAGCUCGAGACCUCGAUUAAUUAAUUUCUCGAGAUCUCGAGGUCUCGAGGUCUCGACAUUGGCCUCUUCUAAUUGCGGAGCUGAGAGUGUUGAU ...((((((((((((((((((.....(((...((((..((((...(((((....................((((......))))...(((((((((((.((((..(((((.((((((((((((((((.(((((((....))))))).)))))))))...)))))))....)))))..)))).((......))......)))))))))))........))))).))))...)))))))((((((((((((..........((((((....))))))..))))))))))))..))))))))))..........))).)))))....... (-114.90) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUCAACACUCUCAGCUCCGCAAUUAGAAGAGGCCAAUGUCGAGACCUCGAGACCUCGAGAUCUCGAGAAAUUAAUUAAUCGAGGUCUCGAGCUUAAGUUUGCUCGAGCGCUAAAGAAACAGAGUGAUCGGUAGAGGCAAUGAAGCAUCCCUUCUUGACACUGGCAAGGUGUGUCUUUGUACCACAAAUUGCCAUUUGUACCACAAAGACCCUUGCCCCCAAAGGGGGAUCAAUCACUCCGAAGUCGUGAAUAGACGAUGGACAAAAAAUAUGAUUAUGCACCAAAGAGCUUCUCAGUAAGCAAUUCCUGACCUCUCAACAAGAAAUC .((..((((((..((((.((((.......((((.....((((((((((((...(((((....)))))...........))))))))))))))))....))))..))))...........))))))....(.(((((....(((((.(((((..(((.....(((((((...((((((((...((((((....))))))...)))))))))))))))..)))..)))))........((((..(((.......)))..))))..........................))))).(((.((....)).))).)))))).....)).... (-99.86) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 535 128 81 184 132 NC_002950:PG1488|5end_hypothetical_protein_1561747..1561977_POSITIVE 449 120 74 201 148 NC_002950:PG0829|5end_hypothetical_protein_886746..886976_NEGATIVE 396 205 164 186 142 NC_002950:PG0597|5end_ribosomal_protein_L9_653662..653892_POSITIVE 386 147 102 224 190 NC_002950:PG2019|5end_hypothetical_protein_2111662..2111892_NEGATIVE 380 130 82 123 77 NC_002950:PG1693|5end_HesA/MoeB/ThiF_family_protein_1777919..1778149_NEGATIVE 375 199 160 103 52 NC_002950:PG1252|5end_hypothetical_protein_1329584..1329814_NEGATIVE 373 128 81 225 166 NC_002950:PG2082|5end_POT_family_protein_2183384..2183614_NEGATIVE 365 316 271 105 56 NC_002950:PG1091|5end_DHH_subfamily_1_protein_1157017..1157247_POSITIVE 363 130 82 155 102 NC_002950:PG1459|5end_hypothetical_protein_1539769..1539999_NEGATIVE 362 320 271 216 154 NC_002950:PG1793|5end_1,4-alpha-glucan_branching_enzyme_1883922..1884152_POSITIVE 360 219 178 97 52 NC_002950:PG0955|5end_hypothetical_protein_1014832..1015062_POSITIVE 358 310 268 192 145 NC_002950:PG0636|5end_MATE_efflux_family_protein_689071..689301_NEGATIVE 358 310 261 61 10 NC_002950:PG0132|5end_hypothetical_protein_152879..153109_POSITIVE 356 313 271 52 1 NC_002950:PG0630|5end_pyridoxal_phosphate_biosynthetic_protein_683392..683622_POSITIVE 354 270 221 51 9 NC_002950:PG1919|5end_ribosomal_protein_L15_2016281..2016511_NEGATIVE 353 128 82 190 136 NC_002950:PG0568|5end_elongation_factor_P_624565..624795_NEGATIVE 352 319 271 70 15 NC_002950:PG0634|5end_ThiJ/PfpI_family_protein_686143..686373_POSITIVE 351 147 105 49 5 NC_002950:PG2079|5end_hypothetical_protein_2179366..2179596_NEGATIVE 350 128 82 190 136 NC_002950:PG1274|5end_elongation_factor_P_1351843..1352073_POSITIVE 350 228 182 115 71 NC_002950:PG0065|5end_efflux_transporter,_RND_family,_MFP_subunit_81187..81417_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 483 118 71 144 91 NC_002950:PG1487|3end_hypothetical_protein_1561799..1561949_POSITIVE 398 315 271 75 21 NC_002950:PG1112|3end_hypothetical_protein_1185571..1185721_POSITIVE 384 310 262 67 18 NC_002950:PG1797|3end_DNA-binding_response_regulator/sensor_histidine_kinase_1892978..1893128_POSITIVE 380 130 82 126 80 NC_002950:PG1694|3end_hypothetical_protein_1777916..1778066_NEGATIVE 375 199 160 90 39 NC_002950:PG1253|3end_DNA_ligase,_NAD-dependent_1329597..1329747_NEGATIVE 367 128 82 87 34 NC_002950:PG1117|3end_MATE_efflux_family_protein_1191541..1191691_POSITIVE 361 128 82 87 31 NC_002950:PG1808|3end_guanosine-3',5'-bis(diphosphate)_3'-pyrophosphohydrolase_1902955..1903105_NEGATIVE 353 128 82 58 4 NC_002950:PG0569|3end_hypothetical_protein_624697..624847_NEGATIVE 350 315 271 90 42 NC_002950:PG2044|3end_hypothetical_protein_2144165..2144315_POSITIVE 350 240 191 74 25 NC_002950:PG2037|3end_hypothetical_protein_2137591..2137741_NEGATIVE 344 128 86 135 90 NC_002950:PG0515|3end_hypothetical_protein_556363..556513_NEGATIVE 339 115 71 59 20 NC_002950:PG0607|3end_hypothetical_protein_662994..663144_POSITIVE 337 122 82 137 105 NC_002950:PG0885|3end_phospho-2-dehydro-3-deoxyheptonate_aldolase/chorismate_mutase_948925..949075_POSITIVE 336 50 6 115 67 NC_002950:PG0599|3end_3,4-dihydroxy-2-butanone_4-phosphate_synthase/GTP_cyclohydrolase_II_657732..657882_POSITIVE 336 193 164 151 117 NC_002950:PG0596|3end_ribosomal_protein_S18_653717..653867_POSITIVE 334 310 261 111 69 NC_002950:PG0272|3end_CBS_domain_protein_305738..305888_POSITIVE 333 239 192 124 74 NC_002950:PG2214|3end_hypothetical_protein_2325301..2325451_NEGATIVE 333 320 272 67 25 NC_002950:PG0385|3end_ribosomal_protein_S21_419050..419200_POSITIVE 332 315 272 83 30 NC_002950:PG0319|3end_hypothetical_protein_353457..353607_POSITIVE 331 123 83 55 17 NC_002950:PG0393|3end_ribosomal_protein_L7/L12_425017..425167_POSITIVE