Origin IGS: agttgcttatacattgcggtgtcaatccaattgaatgaggctttatgagccttcgagagtcttcaagcatcgtcttgaatagctctgacactgcaaatgtataggcgaaatgagcacgcccgaatagcctaggaaagggaaggatgtattaggaga .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tctcctaatacatccttccctttcctaggctattcgggcgtgctcatttcgcctatacatttgcagtgtcagagctattcaagacgatgcttgaagactctcgaaggctcataaagcctcattcaattggattgacaccgcaatgtataagcaact Mask Tandem Repeat Region ================================================ agttgcttatacattgcggtgtcaatccaattgaatgaggctttatgagccttcgagagtcttcaagcatcgtcttgaatagctctgacactgcaaatgtataggcgaaatgagcacgcccgaatagcctaggaaagggaaggatgtattaggaga Find is-nt database================================================ Query_seq: PG0843:PG0844|PG0843:PG0844:hypothetical protein:hypothetical protein:<-->:905273..905428 156 agttgcttatacattgcggtgtcaatccaattgaatgaggctttatgagccttcgagagtcttcaagcatcgtcttgaatagctctgacactgcaaatgtataggcgaaatgagcacgcccgaatagcctaggaaagggaaggatgtattaggaga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG0843:PG0844|PG0843:PG0844:hypothetical protein:hypothetical protein:<-->:905273..905428 156 agttgcttatacattgcggtgtcaatccaattgaatgaggctttatgagccttcgagagtcttcaagcatcgtcttgaatagctctgacactgcaaatgtataggcgaaatgagcacgcccgaatagcctaggaaagggaaggatgtattaggaga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG0843:PG0844|PG0843:PG0844:hypothetical protein:hypothetical protein:<-->:905273..905428 156 agttgcttatacattgcggtgtcaatccaattgaatgaggctttatgagccttcgagagtcttcaagcatcgtcttgaatagctctgacactgcaaatgtataggcgaaatgagcacgcccgaatagcctaggaaagggaaggatgtattaggaga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 agttgcttatacattgcggtgtcaatccaattgaatgaggctttatgagccttcgagagtcttcaagcatcgtcttgaatagctctgacactgcaaatgtataggcgaaatgagcacgcccgaatagcctaggaaagggaaggatgtattaggaga Predict ORF larger than 30AA ================================================ Protein_Len: 48 Strand: - Start: 2 End: 145 . N S I C Q P T L G I S H P K I L R R S D E L M T K F L E S V A F T Y A F H A R G F L R P F P L M ........... agttgcttatacattgcggtgtcaatccaattgaatgaggctttatgagccttcgagagtcttcaagcatcgtcttgaatagctctgacactgcaaatgtataggcgaaatgagcacgcccgaatagcctaggaaagggaaggatgtattaggaga 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================================================ agttgcttatacattgcggtgtcaatccaattgaatgaggctttatgagccttcgagagtcttcaagcatcgtcttgaatagctctgacactgcaaatgtataggcgaaatgagcacgcccgaatagcctaggaaagggaaggatgtattaggaga Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PG0843:PG0844|PG0843:PG0844:hypothetical protein:hypothetical protein:<-->:905273..905428 156 agttgcttatacattgcggtgtcaatccaattgaatgaggctttatgagccttcgagagtcttcaagcatcgtcttgaatagctctgacactgcaaatgtataggcgaaatgagcacgcccgaatagcctaggaaagggaaggatgtattaggaga Intra-Species Hit: Count: 1 Min: 1 Max: 156 Len: 156 Subject: NC_002950_PG0843_PG0844|hypothetical protein:hypothetical protein|NEGATIVE:POSITIVE|[905273,905428]|156 HSP 1 e-value: 1.0E-83 bit: 309.0 Len: 156 Query Start:1 Query End:156 Subject Strand: POSITIVE Subject Start: 1 Subject End: 156 agttgcttatacattgcggtgtcaatccaattgaatgaggctttatgagccttcgagagtcttcaagcatcgtcttgaatagctctgacactgcaaatgtataggcgaaatgagcacgcccgaatagcctaggaaagggaaggatgtattaggaga agttgcttatacattgcggtgtcaatccaattgaatgaggctttatgagccttcgagagtcttcaagcatcgtcttgaatagctctgacactgcaaatgtataggcgaaatgagcacgcccgaatagcctaggaaagggaaggatgtattaggaga Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGUUGCUUAUACAUUGCGGUGUCAAUCCAAUUGAAUGAGGCUUUAUGAGCCUUCGAGAGUCUUCAAGCAUCGUCUUGAAUAGCUCUGACACUGCAAAUGUAUAGGCGAAAUGAGCACGCCCGAAUAGCCUAGGAAAGGGAAGGAUGUAUUAGGAGA ..(((((((((((((((((((((.............(((((((...)))))))..(((((.((((((......))))))..))))))))))))).)))))))))))))..(((..(((.((......(((......)))..)).))).)))..... (-51.10) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UCUCCUAAUACAUCCUUCCCUUUCCUAGGCUAUUCGGGCGUGCUCAUUUCGCCUAUACAUUUGCAGUGUCAGAGCUAUUCAAGACGAUGCUUGAAGACUCUCGAAGGCUCAUAAAGCCUCAUUCAAUUGGAUUGACACCGCAAUGUAUAAGCAACU ........(((..((...(((.....)))......))..)))........((.((((((((.((.(((((((((...((((((......))))))..)))..((.((((.....))))))............)))))).)))))))))).)).... (-40.00) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 1011 130 81 221 172 NC_002950:PG0843|5end_hypothetical_protein_905182..905412_NEGATIVE 360 94 54 95 57 NC_002950:PG1745|5end_phosphoribulokinase_family_protein_1831024..1831254_NEGATIVE 360 129 82 51 9 NC_002950:PG0441|5end_hypothetical_protein_478734..478964_POSITIVE 358 89 46 219 174 NC_002950:PG0540|5end_AcrB/AcrD/AcrF_family_protein_591623..591853_POSITIVE 355 140 91 204 147 NC_002950:PG0274|5end_hypothetical_protein_306333..306563_POSITIVE 352 100 51 99 37 NC_002950:PG0074|5end_peptide_chain_release_factor_1_89172..89402_NEGATIVE 345 70 26 65 21 NC_002950:PG0522|5end_tRNA_delta(2)-isopentenylpyrophosphate_transferase_566901..567131_NEGATIVE 345 146 105 80 34 NC_002950:PG0482|5end_hypothetical_protein_523129..523359_NEGATIVE 344 140 93 228 175 NC_002950:PG1989|5end_hypothetical_protein_2079101..2079331_NEGATIVE 344 68 24 164 127 NC_002950:PG0446|5end_thiF_protein_486599..486829_POSITIVE 337 146 103 211 164 NC_002950:PG1167|5end_hypothetical_protein_1248427..1248657_POSITIVE 334 130 93 166 127 NC_002950:PG0054|5end_single-stranded-DNA-specific_exonuclease_RecJ_65065..65295_POSITIVE 332 100 52 72 15 NC_002950:PG1549|5end_hypothetical_protein_1627947..1628177_NEGATIVE 323 147 103 72 30 NC_002950:PG1967|5end_TPR_domain_protein_2057168..2057398_POSITIVE 314 149 104 65 29 NC_002950:PG0147|5end_hypothetical_protein_169667..169897_NEGATIVE 312 138 92 56 17 NC_002950:PG0350|5end_internalin-related_protein_386810..387040_NEGATIVE 311 90 42 193 144 NC_002950:PG1988|5end_hypothetical_protein_2078867..2079097_NEGATIVE 311 56 12 184 137 NC_002950:PG0212|5end_precorrin-6Y_C5,15-methyltransferase,_decarboxylating_249065..249295_NEGATIVE 307 130 81 176 118 NC_002950:PG1565|5end_3-deoxy-D-manno-octulosonic-acid_transferase,_putative_1645859..1646089_NEGATIVE 307 146 101 57 12 NC_002950:PG0558|5end_purine_nucleoside_phosphorylase_616331..616561_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 398 92 55 43 1 NC_002950:PG0731|3end_hypothetical_protein_782020..782170_NEGATIVE 360 129 82 47 5 NC_002950:PG0439|3end_hypothetical_protein_478810..478960_POSITIVE 352 100 51 74 12 NC_002950:PG0075|3end_phosphoribosylformylglycinamidine_cyclo-ligase,_putative_89197..89347_NEGATIVE 345 70 26 68 24 NC_002950:PG0523|3end_inositol-5-monophosphate_dehydrogenase_566898..567048_NEGATIVE 342 143 104 77 30 NC_002950:PG1118|3end_clpB_protein_1192083..1192233_NEGATIVE 333 126 82 134 75 NC_002950:PG2063|3end_hypothetical_protein_2160390..2160540_NEGATIVE 314 149 104 78 42 NC_002950:PG0148|3end_sigma-54-dependent_transcriptional_regulator_169654..169804_NEGATIVE 312 129 86 51 8 NC_002950:PG1678|3end_hypothetical_protein_1763755..1763905_NEGATIVE 307 130 81 151 93 NC_002950:PG1566|3end_glutamyl-tRNA_synthetase_1645884..1646034_NEGATIVE 302 54 14 130 80 NC_002950:PG1815|3end_3-deoxy-manno-octulosonate_cytidylyltransferase_1910669..1910819_NEGATIVE 299 77 35 83 32 NC_002950:PG0134|3end_magnesium_transporter_155783..155933_NEGATIVE 298 77 39 140 101 NC_002950:PG1676|3end_phosphoenolpyruvate_carboxykinase_1760489..1760639_NEGATIVE 298 129 82 141 73 NC_002950:PG1056|3end_hypothetical_protein_1123479..1123629_POSITIVE 297 140 92 147 94 NC_002950:PG0936|3end_xanthine/uracil_permease_family_protein_995150..995300_NEGATIVE 294 70 21 98 52 NC_002950:PG2224|3end_hypothetical_protein_2339500..2339650_POSITIVE 294 140 103 87 52 NC_002950:PG1361|3end_dipeptidyl_aminopeptidase_IV,_putative_1439910..1440060_NEGATIVE 293 138 94 148 111 NC_002950:PG1113|3end_integrase_1185523..1185673_NEGATIVE 293 129 81 151 93 NC_002950:PG0273|3end_4'-phosphopantetheinyl_transferase_family_protein_306370..306520_POSITIVE 291 129 84 83 44 NC_002950:PG1389|3end_DNA-binding_protein,_histone-like_family_1470870..1471020_NEGATIVE 291 148 103 63 32 NC_002950:PG1142|3end_exopolysaccharide_synthesis-related_protein_1224571..1224721_NEGATIVE