Origin IGS: gtctacggctgctgctttctctgcacgtggcgtcagagtggagtagaagccacaatagatgcagcggcttgcacaaaagggaatatggatatagagtcctgccatttattatataatataatgtattatgtctgaacgataattacttgcttgcaaaagtagtaatatcttttaatactttgctaaaatgttgtaaatagttttggtggtatgaaagaaaatacctaacttagacggcggtagcggtaagtactgcttatcgctcgacacagaacataatactaacaacctaaaggtgggcttctaaaaccaaaatctataatagattgctgcctgcgtgtagaccttttagaaacaacctttttttaatctatcgtggttatgagagtatatcagacaaacgaaatcaagaacattgca .........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.........1.........2.........3.........4.........5.........6.........7.........8.........9 tgcaatgttcttgatttcgtttgtctgatatactctcataaccacgatagattaaaaaaaggttgtttctaaaaggtctacacgcaggcagcaatctattatagattttggttttagaagcccacctttaggttgttagtattatgttctgtgtcgagcgataagcagtacttaccgctaccgccgtctaagttaggtattttctttcataccaccaaaactatttacaacattttagcaaagtattaaaagatattactacttttgcaagcaagtaattatcgttcagacataatacattatattatataataaatggcaggactctatatccatattcccttttgtgcaagccgctgcatctattgtggcttctactccactctgacgccacgtgcagagaaagcagcagccgtagac Mask Tandem Repeat Region ================================================ gtctacggctgctgctttctctgcacgtggcgtcagagtggagtagaagccacaatagatgcagcggcttgcacaaaagggaatatggatatagagtcctgccatttattatataatataatgtattatgtctgaacgataattacttgcttgcaaaagtagtaatatcttttaatactttgctaaaatgttgtaaatagttttggtggtatgaaagaaaatacctaacttagacggcggtagcggtaagtactgcttatcgctcgacacagaacataatactaacaacctaaaggtgggcttctaaaaccaaaatctataatagattgctgcctgcgtgtagaccttttagaaacaacctttttttaatctatcgtggttatgagagtatatcagacaaacgaaatcaagaacattgca Find is-nt database================================================ Query_seq: PI0684:PI0685|PI0684:PI0685:coproporphyrinogen III oxidase:elongation factor G:->->:620568..620987 420 gtctacggctgctgctttctctgcacgtggcgtcagagtggagtagaagccacaatagatgcagcggcttgcacaaaagggaatatggatatagagtcctgccatttattatataatataatgtattatgtctgaacgataattacttgcttgcaaaagtagtaatatcttttaatactttgctaaaatgttgtaaatagttttggtggtatgaaagaaaatacctaacttagacggcggtagcggtaagtactgcttatcgctcgacacagaacataatactaacaacctaaaggtgggcttctaaaaccaaaatctataatagattgctgcctgcgtgtagaccttttagaaacaacctttttttaatctatcgtggttatgagagtatatcagacaaacgaaatcaagaacattgca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0684:PI0685|PI0684:PI0685:coproporphyrinogen III oxidase:elongation factor G:->->:620568..620987 420 gtctacggctgctgctttctctgcacgtggcgtcagagtggagtagaagccacaatagatgcagcggcttgcacaaaagggaatatggatatagagtcctgccatttattatataatataatgtattatgtctgaacgataattacttgcttgcaaaagtagtaatatcttttaatactttgctaaaatgttgtaaatagttttggtggtatgaaagaaaatacctaacttagacggcggtagcggtaagtactgcttatcgctcgacacagaacataatactaacaacctaaaggtgggcttctaaaaccaaaatctataatagattgctgcctgcgtgtagaccttttagaaacaacctttttttaatctatcgtggttatgagagtatatcagacaaacgaaatcaagaacattgca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0684:PI0685|PI0684:PI0685:coproporphyrinogen III oxidase:elongation factor G:->->:620568..620987 420 gtctacggctgctgctttctctgcacgtggcgtcagagtggagtagaagccacaatagatgcagcggcttgcacaaaagggaatatggatatagagtcctgccatttattatataatataatgtattatgtctgaacgataattacttgcttgcaaaagtagtaatatcttttaatactttgctaaaatgttgtaaatagttttggtggtatgaaagaaaatacctaacttagacggcggtagcggtaagtactgcttatcgctcgacacagaacataatactaacaacctaaaggtgggcttctaaaaccaaaatctataatagattgctgcctgcgtgtagaccttttagaaacaacctttttttaatctatcgtggttatgagagtatatcagacaaacgaaatcaagaacattgca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gtctacggctgctgctttctctgcacgtggcgtcagagtggagtagaagccacaatagatgcagcggcttgcacaaaagggaatatggatatagagtcctgccatttattatataatataatgtattatgtctgaacgataattacttgcttgcaaaagtagtaatatcttttaatactttgctaaaatgttgtaaatagttttggtggtatgaaagaaaatacctaacttagacggcggtagcggtaagtactgcttatcgctcgacacagaacataatactaacaacctaaaggtgggcttctaaaaccaaaatctataatagattgctgcctgcgtgtagaccttttagaaacaacctttttttaatctatcgtggttatgagagtatatcagacaaacgaaatcaagaacattgca Predict ORF larger than 30AA ================================================ Protein_Len: 35 Strand: + Start: 9 End: 113 ........ M L L S L H V A S E W S R S H N R C S G L H K R E Y G Y R V L P F I I ................................................................................................................................................................................................................................................................................................................... Protein_Len: 35 Strand: + Start: 315 End: 419 .......................................................................................................................................................................................................................................................................................................................... M Y N R L L P A C R P F R N N L F L I Y R G Y E S I S D K R N Q E H C . Protein_Len: 38 Strand: - Start: 175 End: 288 .............................................................................................................................................................................. Y K A L I N Y I T K T T H F F I G L K S P P L P L Y Q K D S S V S C L V L M .................................................................................................................................... Protein_Len: 37 Strand: - Start: 2 End: 112 . R R S S S E R C T A D S H L L L W L L H L P K C L L S Y P Y L T R G N I M .................................................................................................................................................................................................................................................................................................................... Protein_Len: 35 Strand: - Start: 1 End: 105 D V A A A K E A R P T L T S Y F G C Y I C R S A C F P I H I Y L G A M ........................................................................................................................................................................................................................................................................................................................... gtctacggctgctgctttctctgcacgtggcgtcagagtggagtagaagccacaatagatgcagcggcttgcacaaaagggaatatggatatagagtcctgccatttattatataatataatgtattatgtctgaacgataattacttgcttgcaaaagtagtaatatcttttaatactttgctaaaatgttgtaaatagttttggtggtatgaaagaaaatacctaacttagacggcggtagcggtaagtactgcttatcgctcgacacagaacataatactaacaacctaaaggtgggcttctaaaaccaaaatctataatagattgctgcctgcgtgtagaccttttagaaacaacctttttttaatctatcgtggttatgagagtatatcagacaaacgaaatcaagaacattgca 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: 86 Start: 108 End: 137 ...........................................................................................................GTTCAGACATAATACATTATATTATATAAT........................................................................................................................................................................................................................................................................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ gtctacggctgctgctttctctgcacgtggcgtcagagtggagtagaagccacaatagatgcagcggcttgcacaaaagggaatatggatatagagtcctgccatttattatataatataatgtattatgtctgaacgataattacttgcttgcaaaagtagtaatatcttttaatactttgctaaaatgttgtaaatagttttggtggtatgaaagaaaatacctaacttagacggcggtagcggtaagtactgcttatcgctcgacacagaacataatactaacaacctaaaggtgggcttctaaaaccaaaatctataatagattgctgcctgcgtgtagaccttttagaaacaacctttttttaatctatcgtggttatgagagtatatcagacaaacgaaatcaagaacattgca Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI0684:PI0685|PI0684:PI0685:coproporphyrinogen III oxidase:elongation factor G:->->:620568..620987 420 gtctacggctgctgctttctctgcacgtggcgtcagagtggagtagaagccacaatagatgcagcggcttgcacaaaagggaatatggatatagagtcctgccatttattatataatataatgtattatgtctgaacgataattacttgcttgcaaaagtagtaatatcttttaatactttgctaaaatgttgtaaatagttttggtggtatgaaagaaaatacctaacttagacggcggtagcggtaagtactgcttatcgctcgacacagaacataatactaacaacctaaaggtgggcttctaaaaccaaaatctataatagattgctgcctgcgtgtagaccttttagaaacaacctttttttaatctatcgtggttatgagagtatatcagacaaacgaaatcaagaacattgca Intra-Species Hit: Count: 1 Min: 1 Max: 420 Len: 420 Subject: pint_PI0684_PI0685|coproporphyrinogen III oxidase:elongation factor G|POSITIVE:POSITIVE|[620568,620987]|420 HSP 1 e-value: 0.0 bit: 791.0 Len: 420 Query Start:1 Query End:420 Subject Strand: POSITIVE Subject Start: 1 Subject End: 420 gtctacggctgctgctttctctgcacgtggcgtcagagtggagtagaagccacaatagatgcagcggcttgcacaaaagggaatatggatatagagtcctgccatttattatataatataatgtattatgtctgaacgataattacttgcttgcaaaagtagtaatatcttttaatactttgctaaaatgttgtaaatagttttggtggtatgaaagaaaatacctaacttagacggcggtagcggtaagtactgcttatcgctcgacacagaacataatactaacaacctaaaggtgggcttctaaaaccaaaatctataatagattgctgcctgcgtgtagaccttttagaaacaaccnnnnnnnaatctatcgtggttatgagagtatatcagacaaacgaaatcaagaacattgca gtctacggctgctgctttctctgcacgtggcgtcagagtggagtagaagccacaatagatgcagcggcttgcacaaaagggaatatggatatagagtcctgccatttattatataatataatgtattatgtctgaacgataattacttgcttgcaaaagtagtaatatcttttaatactttgctaaaatgttgtaaatagttttggtggtatgaaagaaaatacctaacttagacggcggtagcggtaagtactgcttatcgctcgacacagaacataatactaacaacctaaaggtgggcttctaaaaccaaaatctataatagattgctgcctgcgtgtagaccttttagaaacaacctttttttaatctatcgtggttatgagagtatatcagacaaacgaaatcaagaacattgca Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GUCUACGGCUGCUGCUUUCUCUGCACGUGGCGUCAGAGUGGAGUAGAAGCCACAAUAGAUGCAGCGGCUUGCACAAAAGGGAAUAUGGAUAUAGAGUCCUGCCAUUUAUUAUAUAAUAUAAUGUAUUAUGUCUGAACGAUAAUUACUUGCUUGCAAAAGUAGUAAUAUCUUUUAAUACUUUGCUAAAAUGUUGUAAAUAGUUUUGGUGGUAUGAAAGAAAAUACCUAACUUAGACGGCGGUAGCGGUAAGUACUGCUUAUCGCUCGACACAGAACAUAAUACUAACAACCUAAAGGUGGGCUUCUAAAACCAAAAUCUAUAAUAGAUUGCUGCCUGCGUGUAGACCUUUUAGAAACAACCUUUUUUUAAUCUAUCGUGGUUAUGAGAGUAUAUCAGACAAACGAAAUCAAGAACAUUGCA ((((((((((.((((((((((((.(((...)))))))).))))))).)))).......((((((((((...........(((.(.(((...(((((.((..((....((((((...))))))((((((((((((.......((((((.((((....)))))))))).(((((((.((((..((((((((..........)))))))))))))))))))................(((((((((((((....))))).)))))).))...))).)))))))))............))..)).)))))...))).).)))..........)))).))))))))))))...(((((((.......)))))))....((((.....(((.......))).....))))................ (-113.20) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGCAAUGUUCUUGAUUUCGUUUGUCUGAUAUACUCUCAUAACCACGAUAGAUUAAAAAAAGGUUGUUUCUAAAAGGUCUACACGCAGGCAGCAAUCUAUUAUAGAUUUUGGUUUUAGAAGCCCACCUUUAGGUUGUUAGUAUUAUGUUCUGUGUCGAGCGAUAAGCAGUACUUACCGCUACCGCCGUCUAAGUUAGGUAUUUUCUUUCAUACCACCAAAACUAUUUACAACAUUUUAGCAAAGUAUUAAAAGAUAUUACUACUUUUGCAAGCAAGUAAUUAUCGUUCAGACAUAAUACAUUAUAUUAUAUAAUAAAUGGCAGGACUCUAUAUCCAUAUUCCCUUUUGUGCAAGCCGCUGCAUCUAUUGUGGCUUCUACUCCACUCUGACGCCACGUGCAGAGAAAGCAGCAGCCGUAGAC .(((((.((.((((((((((((((..((.....))..))))..))))..))))))...)).))))).........((((((..((..(((..((((((...)))))).(((...((((..((..((.....(((((((((((.((((..(((((((((((((((....(((((...(((................(((((........)))))........................((((((((.(((......))).))).))))).)))))))).))))))))).))))))..)))).)))))).)))))....))..))..))))...)))............)))..)).(((((.(((..((((((.((...........)).))))))...)))....)))))....)))))) (-99.20) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 386 49 4 169 122 pint:PI1784|5end_possible_dTDP-glucose_4,6-dehydratase,_NAD-dependent_epimerase/dehydratase_family_1716201..1716431_POSITIVE 382 50 6 159 113 pint:PI0272|5end_conserved_hypothetical_protein_262621..262851_POSITIVE 381 70 23 127 77 pint:PI1985|5end_hypothetical_protein_1940291..1940521_POSITIVE 369 68 21 52 9 pint:PI1895|5end_penicillin-binding_protein_2_1838460..1838690_POSITIVE 369 50 1 225 180 pint:PI0197|5end_acetate_kinase_188602..188832_POSITIVE 369 50 1 58 13 pint:PI0196|5end_hypothetical_protein_188435..188665_POSITIVE 368 50 3 64 13 pint:PI0602|5end_conserved_hypothetical_protein_549099..549329_POSITIVE 365 50 3 159 113 pint:PI0539|5end_hypothetical_protein_493406..493636_POSITIVE 361 45 1 124 73 pint:PI1769|5end_hypothetical_protein_1696507..1696737_POSITIVE 360 68 21 58 8 pint:PI0756|5end_50S_ribosomal_protein_L7/L12_687146..687376_POSITIVE 359 53 11 225 162 pint:PI0444|5end_50S_ribosomal_protein_L7/L12_412933..413163_POSITIVE 359 53 11 218 155 pint:PI0445|5end_conserved_hypothetical_protein_412926..413156_POSITIVE 358 266 235 229 203 pint:PI0736|5end_transcriptional_regulator,_TetR_family_670580..670810_POSITIVE 356 100 60 215 170 pint:PI1423|5end_hypothetical_protein_1341888..1342118_POSITIVE 356 100 60 128 83 pint:PI1421|5end_hypothetical_protein_1341801..1342031_POSITIVE 356 68 21 77 17 pint:PI0532|5end_ABC_transporter,_ATP-binding/permease_protein_486263..486493_POSITIVE 348 69 21 154 106 pint:PI0853|5end_glycosyl_transferase,_group_2_family_protein_785515..785745_POSITIVE 344 265 235 200 166 pint:PI0167|5end_hypothetical_protein_163164..163394_POSITIVE 343 42 2 206 161 pint:PI1713|5end_ABC_transporter,_ATP-binding_protein_1628418..1628648_POSITIVE 340 70 25 178 126 pint:PI1310|5end_LysM_domain_protein_1227262..1227492_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 395 68 22 147 87 pint:PI0821|3end_conserved_hypothetical_protein_761213..761363_POSITIVE 394 70 21 103 26 pint:PI0422|3end_conserved_hypothetical_protein_388025..388175_POSITIVE 359 49 6 46 1 pint:PI1783|3end_possible_4-diphosphocytidyl-2c-methyl-D-erythritol_synthase_1716158..1716308_POSITIVE 354 50 6 145 95 pint:PI2085|3end_conserved_hypothetical_protein_2041803..2041953_POSITIVE 351 50 7 83 40 pint:PI0684|3end_coproporphyrinogen_III_oxidase_620507..620657_POSITIVE 347 67 21 121 67 pint:PI0230|3end_hypothetical_protein_228906..229056_POSITIVE 345 53 13 148 109 pint:PI2099|3end_D-alanyl-D-alanine_dipeptidase_2053277..2053427_POSITIVE 345 44 1 100 51 pint:PI2072|3end_possible_ISmav2-related_transposase_2031470..2031620_POSITIVE 343 42 2 137 92 pint:PI1711|3end_ABC_transporter,_ATP-binding_protein_1628429..1628579_POSITIVE 334 104 61 151 98 pint:PI1723|3end_conserved_hypothetical_protein_1642133..1642283_POSITIVE 334 50 7 110 71 pint:PI1250|3end_RNA_polymerase_ECF-type_sigma_70_factor_1174781..1174931_POSITIVE 333 269 222 80 34 pint:PI0539|3end_hypothetical_protein_493728..493878_POSITIVE 330 50 6 69 27 pint:PI1787|3end_conserved_hypothetical_protein_1719165..1719315_POSITIVE 327 70 21 54 8 pint:PI1827|3end_peptidase,_M23/M37_family,_N-terminal_1768602..1768752_POSITIVE 327 36 1 131 94 pint:PI1575|3end_LemA_protein_1501852..1502002_POSITIVE 326 360 326 92 57 pint:PI0026|3end_two-component_system_response_regulator_30537..30687_POSITIVE 320 44 6 151 108 pint:PI1136|3end_conserved_hypothetical_protein_1062541..1062691_POSITIVE 315 41 5 47 9 pint:PI2096|3end_conserved_hypothetical_protein;_possible_phosphoesterase_2050884..2051034_POSITIVE 314 267 225 98 52 pint:PI0249|3end_conserved_hypothetical_protein_247026..247176_POSITIVE 312 50 2 53 4 pint:PI2158|3end_glycosyl_transferase,_group_2_family_protein_2105347..2105497_POSITIVE