Origin IGS: actgccgctcggccatatctgtagcacgtactcggattcttgcattatagagaccttctcttttttcaaagggctcaatatgccttccgaatgagaaacgaaaagtggcacgtctttatattcggagaaaagggaaggaaaaagcaacatcccgcccactgagccagcggacgggatgtgtattggaatggtgtatgg .........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 ccatacaccattccaatacacatcccgtccgctggctcagtgggcgggatgttgctttttccttcccttttctccgaatataaagacgtgccacttttcgtttctcattcggaaggcatattgagccctttgaaaaaagagaaggtctctataatgcaagaatccgagtacgtgctacagatatggccgagcggcagt Mask Tandem Repeat Region ================================================ actgccgctcggccatatctgtagcacgtactcggattcttgcattatagagaccttctcttttttcaaagggctcaatatgccttccgaatgagaaacgaaaagtggcacgtctttatattcggagaaaagggaaggaaaaagcaacatcccgcccactgagccagcggacgggatgtgtattggaatggtgtatgg Find is-nt database================================================ Query_seq: PG2146:PG2147|PG2146:PG2147:hypothetical protein:xanthine phosphoribosyltransferase:-><-:2254711..2254908 198 actgccgctcggccatatctgtagcacgtactcggattcttgcattatagagaccttctcttttttcaaagggctcaatatgccttccgaatgagaaacgaaaagtggcacgtctttatattcggagaaaagggaaggaaaaagcaacatcccgcccactgagccagcggacgggatgtgtattggaatggtgtatgg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG2146:PG2147|PG2146:PG2147:hypothetical protein:xanthine phosphoribosyltransferase:-><-:2254711..2254908 198 actgccgctcggccatatctgtagcacgtactcggattcttgcattatagagaccttctcttttttcaaagggctcaatatgccttccgaatgagaaacgaaaagtggcacgtctttatattcggagaaaagggaaggaaaaagcaacatcccgcccactgagccagcggacgggatgtgtattggaatggtgtatgg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG2146:PG2147|PG2146:PG2147:hypothetical protein:xanthine phosphoribosyltransferase:-><-:2254711..2254908 198 actgccgctcggccatatctgtagcacgtactcggattcttgcattatagagaccttctcttttttcaaagggctcaatatgccttccgaatgagaaacgaaaagtggcacgtctttatattcggagaaaagggaaggaaaaagcaacatcccgcccactgagccagcggacgggatgtgtattggaatggtgtatgg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 actgccgctcggccatatctgtagcacgtactcggattcttgcattatagagaccttctcttttttcaaagggctcaatatgccttccgaatgagaaacgaaaagtggcacgtctttatattcggagaaaagggaaggaaaaagcaacatcccgcccactgagccagcggacgggatgtgtattggaatggtgtatgg Predict ORF larger than 30AA ================================================ Protein_Len: 30 Strand: + Start: 2 End: 91 . M P L G H I C S T Y S D S C I I E T F S F F K G L N M P S E ........................................................................................................... Protein_Len: 40 Strand: + Start: 40 End: 159 ....................................... M H Y R D L L F F Q R A Q Y A F R M R N E K W H V F I F G E K G R K K Q H P A H ....................................... Protein_Len: 40 Strand: + Start: 78 End: 197 ............................................................................. M C L P N E K R K V A R L Y I R R K G K E K A T S R P L S Q R T G C V L E W C M . Protein_Len: 30 Strand: - Start: 78 End: 167 ............................................................................. Y A K R I L F S F H C T K I N P S F P L F F C C G A W Q A M ............................... Protein_Len: 60 Strand: - Start: 1 End: 189 P W I Q L V Y E S E Q M I S V K E K K L P S L I G E S H S V F L P V D K Y E S F L S P F L L M G G V S G A S P I H I P M ......... actgccgctcggccatatctgtagcacgtactcggattcttgcattatagagaccttctcttttttcaaagggctcaatatgccttccgaatgagaaacgaaaagtggcacgtctttatattcggagaaaagggaaggaaaaagcaacatcccgcccactgagccagcggacgggatgtgtattggaatggtgtatgg 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================================================ actgccgctcggccatatctgtagcacgtactcggattcttgcattatagagaccttctcttttttcaaagggctcaatatgccttccgaatgagaaacgaaaagtggcacgtctttatattcggagaaaagggaaggaaaaagcaacatcccgcccactgagccagcggacgggatgtgtattggaatggtgtatgg Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 82 HP_score: -5.4 Tail_Score: -5.00884 Start: 50 End: 60 Full_Region: GATTCTTGCATTATA GAGA CCT TCTC TTTTTTCAAAGGGCT .................................................GAGACCTTCTC.......................................................................................................................................... TransTerm Strand: + Conf: 100 HP_score: -15.4 Tail_Score: -3.09289 Start: 148 End: 178 Full_Region: GGAAGGAAAAAGCAA CATCCCGCCCACTG AGC CAGCGGACGGGATG TGTATTGGAATGGTG ...................................................................................................................................................CATCCCGCCCACTGAGCCAGCGGACGGGATG.................... TransTerm Strand: + Conf: 82 HP_score: -12.2 Tail_Score: -3.10245 Start: 150 End: 176 Full_Region: AAGGAAAAAGCAACA TCCCGCCCACTG AGC CAGCGGACGGGA TGTGTATTGGAATGG .....................................................................................................................................................TCCCGCCCACTGAGCCAGCGGACGGGA...................... Find igs database================================================ Query_seq: PG2146:PG2147|PG2146:PG2147:hypothetical protein:xanthine phosphoribosyltransferase:-><-:2254711..2254908 198 actgccgctcggccatatctgtagcacgtactcggattcttgcattatagagaccttctcttttttcaaagggctcaatatgccttccgaatgagaaacgaaaagtggcacgtctttatattcggagaaaagggaaggaaaaagcaacatcccgcccactgagccagcggacgggatgtgtattggaatggtgtatgg Intra-Species Hit: Count: 1 Min: 1 Max: 198 Len: 198 Subject: NC_002950_PG2146_PG2147|hypothetical protein:xanthine phosphoribosyltransferase|POSITIVE:NEGATIVE|[2254711, 2254908]|198 HSP 1 e-value: 1.0E-108 bit: 392.0 Len: 198 Query Start:1 Query End:198 Subject Strand: POSITIVE Subject Start: 1 Subject End: 198 actgccgctcggccatatctgtagcacgtactcggattcttgcattatagagaccttctcttttttcaaagggctcaatatgccttccgaatgagaaacgaaaagtggcacgtctttatattcggagaaaagggaaggaaaaagcaacatcccgcccactgagccagcggacgggatgtgtattggaatggtgtatgg actgccgctcggccatatctgtagcacgtactcggattcttgcattatagagaccttctcttttttcaaagggctcaatatgccttccgaatgagaaacgaaaagtggcacgtctttatattcggagaaaagggaaggaaaaagcaacatcccgcccactgagccagcggacgggatgtgtattggaatggtgtatgg Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ ACUGCCGCUCGGCCAUAUCUGUAGCACGUACUCGGAUUCUUGCAUUAUAGAGACCUUCUCUUUUUUCAAAGGGCUCAAUAUGCCUUCCGAAUGAGAAACGAAAAGUGGCACGUCUUUAUAUUCGGAGAAAAGGGAAGGAAAAAGCAACAUCCCGCCCACUGAGCCAGCGGACGGGAUGUGUAUUGGAAUGGUGUAUGG ...(((....)))...(((((.((......)))))))...((((((((.....((((((((((((((..(((((.......))))).(((((((((.(((..........))).))).)))))))))))))))))))).....(((.(((((((.((.(((...))).)).))))))))))......))))))))... (-63.20) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CCAUACACCAUUCCAAUACACAUCCCGUCCGCUGGCUCAGUGGGCGGGAUGUUGCUUUUUCCUUCCCUUUUCUCCGAAUAUAAAGACGUGCCACUUUUCGUUUCUCAUUCGGAAGGCAUAUUGAGCCCUUUGAAAAAAGAGAAGGUCUCUAUAAUGCAAGAAUCCGAGUACGUGCUACAGAUAUGGCCGAGCGGCAGU .....(((...........(((((((((((((((...)))))))))))))))(((((.(((...........(((((((....(((((..........)))))...)))))))..((((((.(((.(((((.........))))).))).)).))))..)))...))))).)))...........(((....)))... (-57.90) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 405 180 131 217 170 NC_002950:PG0526|5end_putative_inner_membrane_protein_translocase_component_YidC_570746..570976_POSITIVE 386 181 149 86 41 NC_002950:PG0480|5end_precorrin-2_C20-methyltransferase,_putative_521319..521549_NEGATIVE 360 175 131 205 153 NC_002950:PG2027|5end_hypothetical_protein_2125494..2125724_POSITIVE 359 186 148 167 109 NC_002950:PG1333|5end_hypothetical_protein_1415425..1415655_NEGATIVE 355 43 2 78 30 NC_002950:PG1441|5end_lysozyme-related_protein_1527525..1527755_NEGATIVE 352 50 2 199 145 NC_002950:PG1185|5end_hypothetical_protein_1267752..1267982_NEGATIVE 347 190 147 227 173 NC_002950:PG1394|5end_hypothetical_protein_1476782..1477012_NEGATIVE 347 178 144 62 21 NC_002950:PG0171|5end_5'-nucleotidase_family_protein_191724..191954_POSITIVE 345 187 142 68 6 NC_002950:PG0575|5end_penicillin-binding_protein_2,_putative_629501..629731_POSITIVE 344 145 106 78 30 NC_002950:PG1711|5end_alpha-1,2-mannosidase_family_protein_1798913..1799143_NEGATIVE 340 188 143 134 86 NC_002950:PG1402|5end_AP_endonuclease_domain_protein_1485963..1486193_NEGATIVE 336 180 142 165 117 NC_002950:PG1966|5end_hypothetical_protein_2056924..2057154_NEGATIVE 335 176 133 227 186 NC_002950:PG0985|5end_RNA_polymerase_sigma-70_factor,_ECF_subfamily_1046930..1047160_POSITIVE 334 140 94 85 39 NC_002950:PG1897|5end_thiamin_pyrophosphokinase_catalytic_domain_protein_1996730..1996960_NEGATIVE 333 180 133 128 79 NC_002950:PG0199|5end_TatD_family_protein_238137..238367_NEGATIVE 331 45 3 218 179 NC_002950:PG0359|5end_flavin_reductase_domain_protein_392851..393081_POSITIVE 330 182 150 231 185 NC_002950:PG1671|5end_hypothetical_protein_1757658..1757888_NEGATIVE 330 182 150 231 185 NC_002950:PG1266|5end_hypothetical_protein_1346987..1347217_NEGATIVE 330 182 150 231 185 NC_002950:PG0101|5end_hypothetical_protein_119198..119428_POSITIVE 328 43 3 199 157 NC_002950:PG1875|5end_hemolysin_1970621..1970851_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 405 180 131 89 42 NC_002950:PG0525|3end_CTP_synthetase_570698..570848_POSITIVE 358 169 122 99 45 NC_002950:PG0143|3end_hydrolase,_carbon-nitrogen_family_165747..165897_NEGATIVE 344 117 71 135 78 NC_002950:PG0656|3end_50S_ribosomal_protein_L34_706945..707095_NEGATIVE 337 180 143 48 6 NC_002950:PG1393|3end_penicillin-binding_protein_2,_putative_1474406..1474556_NEGATIVE 335 187 148 58 7 NC_002950:PG0574|3end_hypothetical_protein_629571..629721_POSITIVE 334 140 94 88 42 NC_002950:PG1898|3end_transporter,_putative_1996727..1996877_NEGATIVE 333 175 144 145 104 NC_002950:PG1786|3end_hypothetical_protein_1875322..1875472_POSITIVE 333 180 133 144 95 NC_002950:PG0200|3end_hypothetical_protein_238121..238271_NEGATIVE 328 188 146 55 4 NC_002950:PG0027|3end_hypothetical_protein_33936..34086_POSITIVE 325 50 1 115 57 NC_002950:PG0507|3end_hypothetical_protein_548190..548340_POSITIVE 324 43 2 122 76 NC_002950:PG1675|3end_hypothetical_protein_1760360..1760510_POSITIVE 323 126 88 66 32 NC_002950:PG2076|3end_hypothetical_protein_2177073..2177223_POSITIVE 321 177 131 59 13 NC_002950:PG1348|3end_conserved_hypothetical_protein_TIGR00147_1429569..1429719_POSITIVE 316 34 1 53 17 NC_002950:PG2190|3end_cell-division_ATP-binding_protein_2297169..2297319_NEGATIVE 314 180 132 76 35 NC_002950:PG1782|3end_hypothetical_protein_1871961..1872111_POSITIVE 314 174 133 62 11 NC_002950:PG0211|3end_cobalamin_biosynthesis_protein_CbiG/precorrin-4_C11-methyltransferase_245966..246116_NEGATIVE 312 180 131 129 62 NC_002950:PG1391|3end_hypothetical_protein_1472961..1473111_POSITIVE 311 36 3 150 114 NC_002950:PG1334|3end_band_7/Mec-2_family_protein_1415422..1415572_NEGATIVE 311 43 2 59 9 NC_002950:PG1133|3end_hypothetical_protein_1214103..1214253_POSITIVE 310 160 111 108 59 NC_002950:PG1494|3end_hypothetical_protein_1571234..1571384_POSITIVE