Origin IGS: agaagcggtataaatacaataagagaggcttccttcacttgtccattcgggacggagaaggaagcctctttattttggtaccgacctttgccaacggcaggcggggt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 accccgcctgccgttggcaaaggtcggtaccaaaataaagaggcttccttctccgtcccgaatggacaagtgaaggaagcctctcttattgtatttataccgcttct Mask Tandem Repeat Region ================================================ agaagcggtataaatacaataagagaggcttccttcacttgtccattcgggacggagaaggaagcctctttattttggtaccgacctttgccaacggcaggcggggt Find is-nt database================================================ Query_seq: PG1285:PG1286|PG1285:PG1286:glucosamine-6-phosphate deaminase:ferritin:-><-:1365002..1365108 107 agaagcggtataaatacaataagagaggcttccttcacttgtccattcgggacggagaaggaagcctctttattttggtaccgacctttgccaacggcaggcggggt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG1285:PG1286|PG1285:PG1286:glucosamine-6-phosphate deaminase:ferritin:-><-:1365002..1365108 107 agaagcggtataaatacaataagagaggcttccttcacttgtccattcgggacggagaaggaagcctctttattttggtaccgacctttgccaacggcaggcggggt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG1285:PG1286|PG1285:PG1286:glucosamine-6-phosphate deaminase:ferritin:-><-:1365002..1365108 107 agaagcggtataaatacaataagagaggcttccttcacttgtccattcgggacggagaaggaagcctctttattttggtaccgacctttgccaacggcaggcggggt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 agaagcggtataaatacaataagagaggcttccttcacttgtccattcgggacggagaaggaagcctctttattttggtaccgacctttgccaacggcaggcggggt Predict ORF larger than 30AA ================================================ Protein_Len: 32 Strand: + Start: 10 End: 105 ......... M N T I R E A S F T C P F G T E K E A S L F W Y R P L P T A G G .. agaagcggtataaatacaataagagaggcttccttcacttgtccattcgggacggagaaggaagcctctttattttggtaccgacctttgccaacggcaggcggggt 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================================================ agaagcggtataaatacaataagagaggcttccttcacttgtccattcgggacggagaaggaagcctctttattttggtaccgacctttgccaacggcaggcggggt Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 100 HP_score: -16.9 Tail_Score: -4.72007 Start: 25 End: 68 Full_Region: ATAAATACAATAAGA GAGGCTTCCTTCACTTGTCC ATTCG GGACGGAGAAGGAAGCCTC TTTATTTTGGTACCG ........................GAGGCTTCCTTCACTTGTCCATTCGGGACGGAGAAGGAAGCCTC....................................... TransTerm Strand: - Conf: 100 HP_score: -14.7 Tail_Score: -3.61105 Start: 25 End: 68 Full_Region: cggtaccaaaataaa gaggcttccttctccgtcc cgaat ggacaagtgaaggaagcctc tcttattgtatttat ........................gaggcttccttctccgtcccgaatggacaagtgaaggaagcctc....................................... Find igs database================================================ Query_seq: PG1285:PG1286|PG1285:PG1286:glucosamine-6-phosphate deaminase:ferritin:-><-:1365002..1365108 107 agaagcggtataaatacaataagagaggcttccttcacttgtccattcgggacggagaaggaagcctctttattttggtaccgacctttgccaacggcaggcggggt Intra-Species Hit: Count: 1 Min: 1 Max: 107 Len: 107 Subject: NC_002950_PG1285_PG1286|glucosamine-6-phosphate deaminase:ferritin|POSITIVE:NEGATIVE|[1365002, 1365108]|107 HSP 1 e-value: 2.0E-54 bit: 212.0 Len: 107 Query Start:1 Query End:107 Subject Strand: POSITIVE Subject Start: 1 Subject End: 107 agaagcggtataaatacaataagagaggcttccttcacttgtccattcgggacggagaaggaagcctctttattttggtaccgacctttgccaacggcaggcggggt agaagcggtataaatacaataagagaggcttccttcacttgtccattcgggacggagaaggaagcctctttattttggtaccgacctttgccaacggcaggcggggt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGAAGCGGUAUAAAUACAAUAAGAGAGGCUUCCUUCACUUGUCCAUUCGGGACGGAGAAGGAAGCCUCUUUAUUUUGGUACCGACCUUUGCCAACGGCAGGCGGGGU .....((((((.....(((..(((((((((((((((.((.((((.....)))))).)))))))))))))))...)))))))))..(((((((.......))))))). (-47.40) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ ACCCCGCCUGCCGUUGGCAAAGGUCGGUACCAAAAUAAAGAGGCUUCCUUCUCCGUCCCGAAUGGACAAGUGAAGGAAGCCUCUCUUAUUGUAUUUAUACCGCUUCU .....(((.......)))..(((.(((((....((((((((((((((((((.(.((((.....))))..).))))))))))))).))))).......)))))))).. (-41.60) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 381 99 53 218 158 NC_002950:PG0498|5end_S-ribosylhomocysteinase_537968..538198_POSITIVE 370 68 22 80 28 NC_002950:PG2225|5end_hypothetical_protein_2339440..2339670_POSITIVE 366 90 42 203 137 NC_002950:PG1814|5end_DNA_primase_1910627..1910857_NEGATIVE 351 70 21 70 9 NC_002950:PG0638|5end_tetraacyldisaccharide_4'-kinase_691183..691413_NEGATIVE 349 90 48 197 146 NC_002950:PG0124|5end_hypothetical_protein_146234..146464_NEGATIVE 347 57 13 217 159 NC_002950:PG1869|5end_hypothetical_protein_1965822..1966052_NEGATIVE 343 100 52 99 42 NC_002950:PG0425|5end_esterase,_putative_463989..464219_NEGATIVE 339 68 21 218 154 NC_002950:PG2065|5end_conserved_hypothetical_protein_TIGR00048_2161000..2161230_POSITIVE 336 90 43 178 122 NC_002950:PG0735|5end_aminotransferase,_class_V_784383..784613_POSITIVE 335 70 27 53 2 NC_002950:PG0265|5end_hypothetical_protein_298551..298781_NEGATIVE 334 66 33 221 175 NC_002950:PG0519|5end_hypothetical_protein_562889..563119_POSITIVE 331 65 23 229 183 NC_002950:PG0226|5end_transglutaminase-related_protein_262531..262761_NEGATIVE 329 100 54 207 169 NC_002950:PG2109|5end_thiamine-phosphate_pyrophosphorylase_2219452..2219682_NEGATIVE 329 86 41 174 129 NC_002950:PG1242|5end_replicative_DNA_helicase_1317435..1317665_POSITIVE 327 93 51 199 135 NC_002950:PG2179|5end_NADH-ubiquinone_oxidoreductase_2287806..2288036_NEGATIVE 326 65 23 149 103 NC_002950:PG2081|5end_biotin_synthetase_2181661..2181891_NEGATIVE 326 90 42 210 170 NC_002950:PG1778|5end_hypothetical_protein_1867054..1867284_POSITIVE 326 65 23 113 72 NC_002950:PG1712|5end_alpha-1,2-mannosidase_family_protein_1801325..1801555_NEGATIVE 324 70 23 221 172 NC_002950:PG1196|5end_hypothetical_protein_1275127..1275357_POSITIVE 324 97 53 143 96 NC_002950:PG0145|5end_hypothetical_protein_167831..168061_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 553 69 22 67 20 NC_002950:PG1285|3end_glucosamine-6-phosphate_deaminase_1364941..1365091_POSITIVE 373 69 24 126 63 NC_002950:PG2031|3end_hypothetical_protein_2130871..2131021_POSITIVE 370 68 22 60 8 NC_002950:PG2224|3end_hypothetical_protein_2339500..2339650_POSITIVE 359 100 51 106 46 NC_002950:PG2214|3end_hypothetical_protein_2325301..2325451_NEGATIVE 341 65 23 79 50 NC_002950:PG0678|3end_pyrazinamidase/nicotinamidase,_putative_729471..729621_POSITIVE 338 100 53 69 9 NC_002950:PG2172|3end_hypothetical_protein_2279191..2279341_NEGATIVE 336 90 43 119 63 NC_002950:PG0734|3end_nitroreductase_family_protein_784404..784554_POSITIVE 335 85 45 108 56 NC_002950:PG1808|3end_guanosine-3',5'-bis(diphosphate)_3'-pyrophosphohydrolase_1902955..1903105_NEGATIVE 330 100 53 69 21 NC_002950:PG1112|3end_hypothetical_protein_1185571..1185721_POSITIVE 329 86 41 139 94 NC_002950:PG1241|3end_GTP-binding_protein_LepA_1317480..1317630_POSITIVE 325 83 42 146 95 NC_002950:PG1815|3end_3-deoxy-manno-octulosonate_cytidylyltransferase_1910669..1910819_NEGATIVE 323 69 29 61 17 NC_002950:PG0415|3end_peptidyl-prolyl_cis-trans_isomerase,_PPIC-type_453714..453864_NEGATIVE 322 62 21 128 73 NC_002950:PG1392|3end_rod_shape-determining_protein_RodA,_putative_1472959..1473109_NEGATIVE 321 90 43 65 23 NC_002950:PG0607|3end_hypothetical_protein_662994..663144_POSITIVE 321 90 41 79 18 NC_002950:PG0443|3end_hemagglutinin-related_protein_483147..483297_POSITIVE 317 97 51 70 5 NC_002950:PG0071|3end_UDP-3-O-acyl-GlcNAc_deacetylase/beta-hydroxyacyl-[acyl_carrier_protein]_dehydratase_FabZ_84731..84881_NEGATIVE 315 71 32 144 95 NC_002950:PG1310|3end_exsB_protein_1389826..1389976_POSITIVE 314 69 23 89 37 NC_002950:PG1597|3end_DnaK_suppressor_protein,_putative_1678486..1678636_POSITIVE 314 70 28 150 104 NC_002950:PG0395|3end_DNA-directed_RNA_polymerase_beta'_subunit_433305..433455_POSITIVE 312 69 24 132 93 NC_002950:PG0293|3end_secretion_activator_protein,_putative_328093..328243_NEGATIVE