Origin IGS: accggttattcgacaggggtcggagattgatcgagtataaaagcagggagccatgccgaaagattgcggtatggctccctgtcagtcagattatttgtgtctgaaatacttccgatacgagaggaggg .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 ccctcctctcgtatcggaagtatttcagacacaaataatctgactgacagggagccataccgcaatctttcggcatggctccctgcttttatactcgatcaatctccgacccctgtcgaataaccggt Mask Tandem Repeat Region ================================================ accggttattcgacaggggtcggagattgatcgagtataaaagcagggagccatgccgaaagattgcggtatggctccctgtcagtcagattatttgtgtctgaaatacttccgatacgagaggaggg Find is-nt database================================================ Query_seq: PG0431:PG0432|PG0431:PG0432:hypothetical protein:NOL1/NOP2/sun family protein:-><-:469235..469362 128 accggttattcgacaggggtcggagattgatcgagtataaaagcagggagccatgccgaaagattgcggtatggctccctgtcagtcagattatttgtgtctgaaatacttccgatacgagaggaggg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG0431:PG0432|PG0431:PG0432:hypothetical protein:NOL1/NOP2/sun family protein:-><-:469235..469362 128 accggttattcgacaggggtcggagattgatcgagtataaaagcagggagccatgccgaaagattgcggtatggctccctgtcagtcagattatttgtgtctgaaatacttccgatacgagaggaggg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG0431:PG0432|PG0431:PG0432:hypothetical protein:NOL1/NOP2/sun family protein:-><-:469235..469362 128 accggttattcgacaggggtcggagattgatcgagtataaaagcagggagccatgccgaaagattgcggtatggctccctgtcagtcagattatttgtgtctgaaatacttccgatacgagaggaggg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 accggttattcgacaggggtcggagattgatcgagtataaaagcagggagccatgccgaaagattgcggtatggctccctgtcagtcagattatttgtgtctgaaatacttccgatacgagaggaggg Predict ORF larger than 30AA ================================================ Protein_Len: 30 Strand: + Start: 37 End: 126 .................................... M K A G S H A E R L R Y G S L S V R L F V S E I L P I R E E .. Protein_Len: 36 Strand: - Start: 9 End: 116 ........ E V P T P S Q D L I F A P L W A S L N R Y P E R D T L N N T D S I S G M ............ accggttattcgacaggggtcggagattgatcgagtataaaagcagggagccatgccgaaagattgcggtatggctccctgtcagtcagattatttgtgtctgaaatacttccgatacgagaggaggg 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================================================ accggttattcgacaggggtcggagattgatcgagtataaaagcagggagccatgccgaaagattgcggtatggctccctgtcagtcagattatttgtgtctgaaatacttccgatacgagaggaggg Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 100 HP_score: -15.0 Tail_Score: -4.4767 Start: 43 End: 82 Full_Region: caaataatctgactg acagggagccataccgca atct ttcggcatggctccctgc ttttatactcgatca ..........................................acagggagccataccgcaatctttcggcatggctccctgc.............................................. TransTerm Strand: - Conf: 100 HP_score: -18.5 Tail_Score: -3.2812 Start: 44 End: 81 Full_Region: aaataatctgactga cagggagccataccgca atct ttcggcatggctccctg cttttatactcgatc ...........................................cagggagccataccgcaatctttcggcatggctccctg............................................... Find igs database================================================ Query_seq: PG0431:PG0432|PG0431:PG0432:hypothetical protein:NOL1/NOP2/sun family protein:-><-:469235..469362 128 accggttattcgacaggggtcggagattgatcgagtataaaagcagggagccatgccgaaagattgcggtatggctccctgtcagtcagattatttgtgtctgaaatacttccgatacgagaggaggg Intra-Species Hit: Count: 1 Min: 1 Max: 128 Len: 128 Subject: NC_002950_PG0431_PG0432|hypothetical protein:NOL1/NOP2/sun family protein|POSITIVE:NEGATIVE|[469235,469362]|128 HSP 1 e-value: 6.0E-67 bit: 254.0 Len: 128 Query Start:1 Query End:128 Subject Strand: POSITIVE Subject Start: 1 Subject End: 128 accggttattcgacaggggtcggagattgatcgagtataaaagcagggagccatgccgaaagattgcggtatggctccctgtcagtcagattatttgtgtctgaaatacttccgatacgagaggaggg accggttattcgacaggggtcggagattgatcgagtataaaagcagggagccatgccgaaagattgcggtatggctccctgtcagtcagattatttgtgtctgaaatacttccgatacgagaggaggg Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ ACCGGUUAUUCGACAGGGGUCGGAGAUUGAUCGAGUAUAAAAGCAGGGAGCCAUGCCGAAAGAUUGCGGUAUGGCUCCCUGUCAGUCAGAUUAUUUGUGUCUGAAAUACUUCCGAUACGAGAGGAGGG ((((((((((((((....))))))...)))))).))......((((((((((((((((........))))))))))))))))...((((((.......))))))....(((((.........))))). (-55.20) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CCCUCCUCUCGUAUCGGAAGUAUUUCAGACACAAAUAAUCUGACUGACAGGGAGCCAUACCGCAAUCUUUCGGCAUGGCUCCCUGCUUUUAUACUCGAUCAAUCUCCGACCCCUGUCGAAUAACCGGU ............(((((.(((((.(((((.........)))))....(((((((((((.(((........))).))))))))))).....)))))...........((((....)))).....))))) (-38.80) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 403 59 11 150 104 NC_002950:PG0980|5end_hypothetical_protein_1040897..1041127_POSITIVE 389 87 42 200 155 NC_002950:PG1481|5end_conjugative_transposon_protein_TraG_1558447..1558677_NEGATIVE 388 59 12 220 171 NC_002950:PG1693|5end_HesA/MoeB/ThiF_family_protein_1777919..1778149_NEGATIVE 385 87 47 72 28 NC_002950:PG0645|5end_hypothetical_protein_697959..698189_NEGATIVE 374 79 43 191 143 NC_002950:PG1482|5end_conjugative_transposon_protein_TraF_1558779..1559009_NEGATIVE 374 99 51 96 37 NC_002950:PG0210|5end_precorrin-6x_reductase/cobalamin_biosynthetic_protein_CbiD_245969..246199_NEGATIVE 370 79 31 70 11 NC_002950:PG0147|5end_hypothetical_protein_169667..169897_NEGATIVE 357 86 42 195 139 NC_002950:PG1418|5end_DNA_polymerase_III,_gamma_and_tau_subunits_1503064..1503294_POSITIVE 356 58 11 60 12 NC_002950:PG0704|5end_phosphoglycerate_mutase_family_protein_758928..759158_POSITIVE 355 56 15 93 57 NC_002950:PG1301|5end_hypothetical_protein_1379921..1380151_NEGATIVE 353 59 14 154 105 NC_002950:PG1542|5end_collagenase_1620788..1621018_POSITIVE 350 90 42 70 12 NC_002950:PG0728|5end_hypothetical_protein_779807..780037_NEGATIVE 348 69 21 115 76 NC_002950:PG0771|5end_hypothetical_protein_824524..824754_POSITIVE 346 59 13 68 9 NC_002950:PG0518|5end_abortive_infection_protein_family_562939..563169_NEGATIVE 345 87 41 55 5 NC_002950:PG0198|5end_hypothetical_protein_236882..237112_POSITIVE 344 82 46 67 26 NC_002950:PG1764|5end_3-oxoacyl-(acyl-carrier-protein)_synthase_II_1853052..1853282_NEGATIVE 344 56 15 65 11 NC_002950:PG1755|5end_fructose-bisphosphate_aldolase_1843278..1843508_NEGATIVE 343 58 11 231 187 NC_002950:PG0654|5end_hypothetical_protein_706685..706915_NEGATIVE 343 89 43 201 150 NC_002950:PG0364|5end_hypothetical_protein_399615..399845_NEGATIVE 342 90 41 58 7 NC_002950:PG0593|5end_htrA_protein_650362..650592_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 560 81 43 47 8 NC_002950:PG0431|3end_hypothetical_protein_469174..469324_POSITIVE 433 80 45 46 13 NC_002950:PG1809|3end_2-oxoglutarate_oxidoreductase,_gamma_subunit_1905491..1905641_NEGATIVE 379 69 22 67 12 NC_002950:PG0148|3end_sigma-54-dependent_transcriptional_regulator_169654..169804_NEGATIVE 374 99 51 99 40 NC_002950:PG0211|3end_cobalamin_biosynthesis_protein_CbiG/precorrin-4_C11-methyltransferase_245966..246116_NEGATIVE 357 86 42 72 16 NC_002950:PG1417|3end_fumarate_hydratase_class_I,_anaerobic_1503021..1503171_POSITIVE 356 58 11 58 10 NC_002950:PG0703|3end_cobalamin_(5'-phosphate)_synthase,_putative_759006..759156_POSITIVE 355 56 15 75 39 NC_002950:PG1302|3end_hypothetical_protein_1379939..1380089_NEGATIVE 353 59 14 141 92 NC_002950:PG1541|3end_2-amino-4-hydroxy-6-_hydroxymethyldihydropteridine_pyrophosphokinase_1620855..1621005_POSITIVE 353 58 19 133 98 NC_002950:PG1102|3end_hypothetical_protein_1170860..1171010_NEGATIVE 344 82 46 57 16 NC_002950:PG1765|3end_acyl_carrier_protein_1853062..1853212_NEGATIVE 334 100 51 100 48 NC_002950:PG0375|3end_50S_ribosomal_protein_L13_406469..406619_POSITIVE 329 77 31 86 37 NC_002950:PG0725|3end_hydrolase,_haloacid_dehalogenase-like_family_777966..778116_POSITIVE 328 57 14 144 92 NC_002950:PG1586|3end_batE_protein_1665042..1665192_POSITIVE 328 74 32 50 3 NC_002950:PG0978|3end_shikimate_5-dehydrogenase_1040862..1041012_POSITIVE 326 59 15 56 2 NC_002950:PG1621|3end_hypothetical_protein_1700484..1700634_NEGATIVE 326 57 11 128 83 NC_002950:PG1151|3end_alcohol_dehydrogenase,_iron-containing_1234378..1234528_POSITIVE 324 58 11 58 11 NC_002950:PG0469|3end_hypothetical_protein_511407..511557_NEGATIVE 322 60 11 117 54 NC_002950:PG2041|3end_hypothetical_protein_2139235..2139385_NEGATIVE 321 90 42 60 17 NC_002950:PG1946|3end_ABC_3_transporter_family_protein_2033019..2033169_POSITIVE 318 78 36 112 61 NC_002950:PG2061|3end_dihydrofolate_reductase_2158990..2159140_POSITIVE