Origin IGS: acattttactcaatgatgtgagtatttttactcagtggaaatacaataaagacatcggctggctatcaagcatttacaaatcaagctcttgcaagcaaacagaagcaatgtgattatcccgtaaaggatgagattgttctccaaaaaatttcgattcatcggatgtgggcttttttgctacatttgcaagccgaggaaagctccacacaaaagataaacggctatatatcagagctattccaccggcagaacagcataacgaaacgactca .........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 tgagtcgtttcgttatgctgttctgccggtggaatagctctgatatatagccgtttatcttttgtgtggagctttcctcggcttgcaaatgtagcaaaaaagcccacatccgatgaatcgaaattttttggagaacaatctcatcctttacgggataatcacattgcttctgtttgcttgcaagagcttgatttgtaaatgcttgatagccagccgatgtctttattgtatttccactgagtaaaaatactcacatcattgagtaaaatgt Mask Tandem Repeat Region ================================================ acattttactcaatgatgtgagtatttttactcagtggaaatacaataaagacatcggctggctatcaagcatttacaaatcaagctcttgcaagcaaacagaagcaatgtgattatcccgtaaaggatgagattgttctccaaaaaatttcgattcatcggatgtgggcttttttgctacatttgcaagccgaggaaagctccacacaaaagataaacggctatatatcagagctattccaccggcagaacagcataacgaaacgactca Find is-nt database================================================ Query_seq: PG1864:PG1866|PG1864:PG1866:leucine-rich protein:hypothetical protein:<-->:1964400..1964670 271 acattttactcaatgatgtgagtatttttactcagtggaaatacaataaagacatcggctggctatcaagcatttacaaatcaagctcttgcaagcaaacagaagcaatgtgattatcccgtaaaggatgagattgttctccaaaaaatttcgattcatcggatgtgggcttttttgctacatttgcaagccgaggaaagctccacacaaaagataaacggctatatatcagagctattccaccggcagaacagcataacgaaacgactca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG1864:PG1866|PG1864:PG1866:leucine-rich protein:hypothetical protein:<-->:1964400..1964670 271 acattttactcaatgatgtgagtatttttactcagtggaaatacaataaagacatcggctggctatcaagcatttacaaatcaagctcttgcaagcaaacagaagcaatgtgattatcccgtaaaggatgagattgttctccaaaaaatttcgattcatcggatgtgggcttttttgctacatttgcaagccgaggaaagctccacacaaaagataaacggctatatatcagagctattccaccggcagaacagcataacgaaacgactca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG1864:PG1866|PG1864:PG1866:leucine-rich protein:hypothetical protein:<-->:1964400..1964670 271 acattttactcaatgatgtgagtatttttactcagtggaaatacaataaagacatcggctggctatcaagcatttacaaatcaagctcttgcaagcaaacagaagcaatgtgattatcccgtaaaggatgagattgttctccaaaaaatttcgattcatcggatgtgggcttttttgctacatttgcaagccgaggaaagctccacacaaaagataaacggctatatatcagagctattccaccggcagaacagcataacgaaacgactca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 acattttactcaatgatgtgagtatttttactcagtggaaatacaataaagacatcggctggctatcaagcatttacaaatcaagctcttgcaagcaaacagaagcaatgtgattatcccgtaaaggatgagattgttctccaaaaaatttcgattcatcggatgtgggcttttttgctacatttgcaagccgaggaaagctccacacaaaagataaacggctatatatcagagctattccaccggcagaacagcataacgaaacgactca Predict ORF larger than 30AA ================================================ Protein_Len: 36 Strand: + Start: 3 End: 110 .. M L L N D V S I F T Q W K Y N K D I G W L S S I Y K S S S C K Q T E A M ................................................................................................................................................................. Protein_Len: 35 Strand: + Start: 165 End: 269 .................................................................................................................................................................... M G F F A T F A S R G K L H T K D K R L Y I R A I P P A E Q H N E T T .. Protein_Len: 60 Strand: + Start: 46 End: 270 ............................................. M K T S A G Y Q A F T N Q A L A S K Q K Q C D Y P V K D E I V L Q K I S I H R M W A F L L H L Q A E E S S T Q K I N G Y . Protein_Len: 54 Strand: - Start: 77 End: 238 ............................................................................ L D L E Q L C V S A I H N D R L P H S Q E G F F K S E D S T P K K A V N A L R P F S W V F S L R S Y I L A M ................................. Protein_Len: 43 Strand: - Start: 31 End: 159 .............................. E T S I C Y L C R S A I L C K C I L S K C A F L L L T I I G Y L I L N N E L F N R N M ................................................................................................................ acattttactcaatgatgtgagtatttttactcagtggaaatacaataaagacatcggctggctatcaagcatttacaaatcaagctcttgcaagcaaacagaagcaatgtgattatcccgtaaaggatgagattgttctccaaaaaatttcgattcatcggatgtgggcttttttgctacatttgcaagccgaggaaagctccacacaaaagataaacggctatatatcagagctattccaccggcagaacagcataacgaaacgactca 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================================================ acattttactcaatgatgtgagtatttttactcagtggaaatacaataaagacatcggctggctatcaagcatttacaaatcaagctcttgcaagcaaacagaagcaatgtgattatcccgtaaaggatgagattgttctccaaaaaatttcgattcatcggatgtgggcttttttgctacatttgcaagccgaggaaagctccacacaaaagataaacggctatatatcagagctattccaccggcagaacagcataacgaaacgactca Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PG1864:PG1866|PG1864:PG1866:leucine-rich protein:hypothetical protein:<-->:1964400..1964670 271 acattttactcaatgatgtgagtatttttactcagtggaaatacaataaagacatcggctggctatcaagcatttacaaatcaagctcttgcaagcaaacagaagcaatgtgattatcccgtaaaggatgagattgttctccaaaaaatttcgattcatcggatgtgggcttttttgctacatttgcaagccgaggaaagctccacacaaaagataaacggctatatatcagagctattccaccggcagaacagcataacgaaacgactca Intra-Species Hit: Count: 1 Min: 1 Max: 271 Len: 271 Subject: NC_002950_PG1864_PG1866|leucine-rich protein:hypothetical protein|NEGATIVE:POSITIVE|[1964400,1964670]|271 HSP 1 e-value: 1.0E-152 bit: 537.0 Len: 271 Query Start:1 Query End:271 Subject Strand: POSITIVE Subject Start: 1 Subject End: 271 acattttactcaatgatgtgagtatttttactcagtggaaatacaataaagacatcggctggctatcaagcatttacaaatcaagctcttgcaagcaaacagaagcaatgtgattatcccgtaaaggatgagattgttctccaaaaaatttcgattcatcggatgtgggcttttttgctacatttgcaagccgaggaaagctccacacaaaagataaacggctatatatcagagctattccaccggcagaacagcataacgaaacgactca acattttactcaatgatgtgagtatttttactcagtggaaatacaataaagacatcggctggctatcaagcatttacaaatcaagctcttgcaagcaaacagaagcaatgtgattatcccgtaaaggatgagattgttctccaaaaaatttcgattcatcggatgtgggcttttttgctacatttgcaagccgaggaaagctccacacaaaagataaacggctatatatcagagctattccaccggcagaacagcataacgaaacgactca Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ ACAUUUUACUCAAUGAUGUGAGUAUUUUUACUCAGUGGAAAUACAAUAAAGACAUCGGCUGGCUAUCAAGCAUUUACAAAUCAAGCUCUUGCAAGCAAACAGAAGCAAUGUGAUUAUCCCGUAAAGGAUGAGAUUGUUCUCCAAAAAAUUUCGAUUCAUCGGAUGUGGGCUUUUUUGCUACAUUUGCAAGCCGAGGAAAGCUCCACACAAAAGAUAAACGGCUAUAUAUCAGAGCUAUUCCACCGGCAGAACAGCAUAACGAAACGACUCA .........((..(((((((.((((((((((...))))))))))............(((((..((((...........(((((.(((..((........))..)))....)))))...(((....((((((((((...........)))))).))))..))).((((((((((((((((.........)))..)))))))).))))).....))))..))))).)))))))..(((.(((........))).))).....))......... (-58.10) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAGUCGUUUCGUUAUGCUGUUCUGCCGGUGGAAUAGCUCUGAUAUAUAGCCGUUUAUCUUUUGUGUGGAGCUUUCCUCGGCUUGCAAAUGUAGCAAAAAAGCCCACAUCCGAUGAAUCGAAAUUUUUUGGAGAACAAUCUCAUCCUUUACGGGAUAAUCACAUUGCUUCUGUUUGCUUGCAAGAGCUUGAUUUGUAAAUGCUUGAUAGCCAGCCGAUGUCUUUAUUGUAUUUCCACUGAGUAAAAAUACUCACAUCAUUGAGUAAAAUGU ....(((.((((((..(((((((((....)))))))))...((((..........))))....((((((.(((((.....(((.((....)))))...)))))))))))..)))))).))).((((..(((((((((((...(((((....)))))....((((((((.(((((.(((((((((.......)))))))..))..)))))..)).))))))....))))).))))))..)))).....((((((......))))))...... (-66.20) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 920 100 51 191 142 NC_002950:PG1864|5end_leucine-rich_protein_1964309..1964539_NEGATIVE 504 130 81 213 164 NC_002950:PG1860|5end_hypothetical_protein_1959758..1959988_NEGATIVE 348 196 151 62 12 NC_002950:PG0935|5end_4-diphosphocytidyl-2C-methyl-D-erythritol_kinase_995121..995351_NEGATIVE 338 207 163 193 153 NC_002950:PG1352|5end_hypothetical_protein_1433150..1433380_NEGATIVE 327 196 159 51 16 NC_002950:PG1360|5end_phosphoribosylamine--glycine_ligase_1439913..1440143_NEGATIVE 322 210 165 66 6 NC_002950:PG1651|5end_TPR_domain_protein_1730326..1730556_POSITIVE 319 170 125 192 138 NC_002950:PG1916|5end_translation_initiation_factor_IF-1_2013702..2013932_NEGATIVE 312 197 155 106 64 NC_002950:PG0701|5end_cobinamide_kinase/cobinamide_phosphate_guanylyltransferase_756511..756741_POSITIVE 311 76 48 229 206 NC_002950:PG0054|5end_single-stranded-DNA-specific_exonuclease_RecJ_65065..65295_POSITIVE 310 204 168 187 138 NC_002950:PG1594|5end_ComEC/Rec2-related_protein_1673587..1673817_NEGATIVE 304 196 152 66 26 NC_002950:PG1495|5end_DNA_topoisomerase_III_1571243..1571473_POSITIVE 303 198 154 207 162 NC_002950:PG0205|5end_peptide_chain_release_factor_3_242093..242323_NEGATIVE 299 209 162 114 50 NC_002950:PG1802|5end_hypothetical_protein_1895540..1895770_POSITIVE 298 205 161 65 21 NC_002950:PG1876|5end_hypothetical_protein_1971460..1971690_NEGATIVE 297 256 220 123 85 NC_002950:PG2030|5end_hypothetical_protein_2129747..2129977_POSITIVE 296 199 155 82 24 NC_002950:PG0039|5end_hypothetical_protein_47637..47867_POSITIVE 293 267 221 78 39 NC_002950:PG1313|5end_dipeptidase-related_protein_1392282..1392512_POSITIVE 293 197 155 144 107 NC_002950:PG0283|5end_efflux_transporter,_MFP_component,_RND_family_318245..318475_NEGATIVE 293 96 53 88 32 NC_002950:PG0034|5end_thioredoxin_42549..42779_NEGATIVE 293 268 221 92 54 NC_002950:PG0006|5end_MATE_efflux_family_protein_6332..6562_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 504 130 81 84 35 NC_002950:PG1861|3end_hypothetical_protein_1959887..1960037_NEGATIVE 503 194 151 49 6 NC_002950:PG1695|3end_hypothetical_protein_1779711..1779861_POSITIVE 338 207 163 142 102 NC_002950:PG1353|3end_orotate_phosphoribosyltransferase_1433201..1433351_NEGATIVE 327 196 159 54 19 NC_002950:PG1361|3end_dipeptidyl_aminopeptidase_IV,_putative_1439910..1440060_NEGATIVE 321 196 169 33 8 NC_002950:PG0936|3end_xanthine/uracil_permease_family_protein_995150..995300_NEGATIVE 319 140 93 104 42 NC_002950:PG0163|3end_diphosphate--fructose-6-phosphate_1-phosphotransferase_185236..185386_NEGATIVE 316 245 209 103 69 NC_002950:PG0210|3end_precorrin-6x_reductase/cobalamin_biosynthetic_protein_CbiD_244161..244311_NEGATIVE 310 205 169 150 104 NC_002950:PG1701|3end_glutamine_amidotransferase,_class_II/dipeptidase_1786145..1786295_NEGATIVE 309 204 161 112 62 NC_002950:PG0143|3end_hydrolase,_carbon-nitrogen_family_165747..165897_NEGATIVE 304 195 151 70 30 NC_002950:PG1330|3end_large_conductance_mechanosensitive_channel_protein_1410165..1410315_POSITIVE 299 209 162 110 46 NC_002950:PG1801|3end_v-type_ATPase,_subunit_E,_putative_1895616..1895766_POSITIVE 291 197 152 139 89 NC_002950:PG0756|3end_hypothetical_protein_804321..804471_NEGATIVE 289 210 161 134 81 NC_002950:PG0509|3end_hypothetical_protein_548728..548878_NEGATIVE 289 258 218 144 104 NC_002950:PG0167|3end_ribosomal_protein_L25_188512..188662_NEGATIVE 285 196 159 87 53 NC_002950:PG1777|3end_hypothetical_protein_1867105..1867255_POSITIVE 283 143 102 86 46 NC_002950:PG1953|3end_YitT_family_protein_2044589..2044739_POSITIVE 283 170 121 89 39 NC_002950:PG0927|3end_conserved_hypothetical_protein_TIGR00150_984634..984784_NEGATIVE 282 170 123 108 58 NC_002950:PG1769|3end_hypothetical_protein_1857010..1857160_POSITIVE 281 266 222 129 84 NC_002950:PG2158|3end_hypothetical_protein_2264473..2264623_POSITIVE 280 170 127 87 49 NC_002950:PG0508|3end_HAD-superfamily_subfamily_IB_hydrolase,_TIGR01490_548136..548286_NEGATIVE