Origin IGS: ttaattatagaaagggggatttattattttaatagattttatattgttgtatttgttgtcgtaaggagatgcaaatatttataataatagcttttttatagc .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 gctataaaaaagctattattataaatatttgcatctccttacgacaacaaatacaacaatataaaatctattaaaataataaatccccctttctataattaa Mask Tandem Repeat Region ================================================ ttaattatagaaagggggatttattattttaatagattttatattgttgtatttgttgtcgtaaggagatgcaaatatttataataatagcttttttatagc Find is-nt database================================================ Query_seq: PG0382:PG0383|PG0382:PG0383:hypothetical protein:membrane-associated zinc metalloprotease, putative:->->:414804..414905 102 ttaattatagaaagggggatttattattttaatagattttatattgttgtatttgttgtcgtaaggagatgcaaatatttataataatagcttttttatagc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG0382:PG0383|PG0382:PG0383:hypothetical protein:membrane-associated zinc metalloprotease, putative:->->:414804..414905 102 ttaattatagaaagggggatttattattttaatagattttatattgttgtatttgttgtcgtaaggagatgcaaatatttataataatagcttttttatagc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG0382:PG0383|PG0382:PG0383:hypothetical protein:membrane-associated zinc metalloprotease, putative:->->:414804..414905 102 ttaattatagaaagggggatttattattttaatagattttatattgttgtatttgttgtcgtaaggagatgcaaatatttataataatagcttttttatagc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ttaattatagaaagggggatttattattttaatagattttatattgttgtatttgttgtcgtaaggagatgcaaatatttataataatagcttttttatagc Predict ORF larger than 30AA ================================================ ttaattatagaaagggggatttattattttaatagattttatattgttgtatttgttgtcgtaaggagatgcaaatatttataataatagcttttttatagc Predict Promoter with matrix: RpoD-15 score > 80================================================ Predict Promoter with matrix: RpoD-16 score > 80================================================ Predict Promoter with matrix: RpoD-17 score > 80================================================ PromScan Matrix: RpoD-17 Strand: - Score: 83 Start: 4 End: 33 ...ATTAAAATAATAAATCCCCCTTTCTATAAT..................................................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ ttaattatagaaagggggatttattattttaatagattttatattgttgtatttgttgtcgtaaggagatgcaaatatttataataatagcttttttatagc Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PG0382:PG0383|PG0382:PG0383:hypothetical protein:membrane-associated zinc metalloprotease, putative:->->:414804..414905 102 ttaattatagaaagggggatttattattttaatagattttatattgttgtatttgttgtcgtaaggagatgcaaatatttataataatagcttttttatagc Intra-Species Hit: Count: 1 Min: 1 Max: 102 Len: 102 Subject: NC_002950_PG0382_PG0383|hypothetical protein:membrane-associated zinc metalloprotease, putative|POSITIVE:POSITIVE|[414804,414905]|102 HSP 1 e-value: 2.0E-51 bit: 202.0 Len: 102 Query Start:1 Query End:102 Subject Strand: POSITIVE Subject Start: 1 Subject End: 102 ttaattatagaaagggggatttattattttaatagattttatattgttgtatttgttgtcgtaaggagatgcaaatatttataataatagcttttttatagc ttaattatagaaagggggatttattattttaatagattttatattgttgtatttgttgtcgtaaggagatgcaaatatttataataatagcttttttatagc Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUAAUUAUAGAAAGGGGGAUUUAUUAUUUUAAUAGAUUUUAUAUUGUUGUAUUUGUUGUCGUAAGGAGAUGCAAAUAUUUAUAAUAAUAGCUUUUUUAUAGC ....(((((((((((.((((((((((...))))))))))..((((((.((((((((..((....))....))))))))..))))))....))))))))))). (-22.00) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GCUAUAAAAAAGCUAUUAUUAUAAAUAUUUGCAUCUCCUUACGACAACAAAUACAACAAUAUAAAAUCUAUUAAAAUAAUAAAUCCCCCUUUCUAUAAUUAA (((.......)))..(((((((...((((((..((.......))...))))))....((((.......))))...))))))).................... ( -4.10) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 250 68 44 204 178 NC_002950:PG0335|5end_tRNA_delta(2)-isopentenylpyrophosphate_transferase_370706..370936_NEGATIVE 230 95 55 153 116 NC_002950:PG0248|5end_translation_initation_factor_SUI1,_putative_281842..282072_NEGATIVE 224 75 46 43 21 NC_002950:PG1491|5end_hypothetical_protein_1565741..1565971_POSITIVE 222 90 42 119 73 NC_002950:PG1648|5end_RelA/SpoT_family_protein_1727762..1727992_POSITIVE 220 67 35 83 51 NC_002950:PG1622|5end_DNA_topoisomerase_IV_subunit_A_1704114..1704344_NEGATIVE 216 75 51 217 193 NC_002950:PG2070|5end_hypothetical_protein_2165541..2165771_POSITIVE 214 75 35 110 63 NC_002950:PG0356|5end_hypothetical_protein_390611..390841_POSITIVE 199 62 24 206 166 NC_002950:PG0661|5end_hypothetical_protein_709853..710083_NEGATIVE 198 70 47 209 182 NC_002950:PG0236|5end_hypothetical_protein_273224..273454_POSITIVE 197 66 30 189 151 NC_002950:PG0855|5end_hypothetical_protein_916055..916285_NEGATIVE 196 89 44 160 110 NC_002950:PG1537|5end_hypothetical_protein_1617224..1617454_POSITIVE 191 89 45 136 86 NC_002950:PG0333|5end_hypothetical_protein_367823..368053_POSITIVE 190 97 51 225 176 NC_002950:PG0707|5end_TonB-dependent_receptor,_putative_763632..763862_NEGATIVE 189 72 46 65 39 NC_002950:PG0953|5end_deoxyuridine_5'-triphosphate_nucleotidohydrolase_1012724..1012954_POSITIVE 188 73 37 118 86 NC_002950:PG1757|5end_hypothetical_protein_1844962..1845192_NEGATIVE 188 85 41 140 99 NC_002950:PG1316|5end_hypothetical_protein_1396771..1397001_NEGATIVE 185 73 37 123 77 NC_002950:PG0263|5end_tyrosyl-tRNA_synthetase_295663..295893_POSITIVE 184 73 35 105 60 NC_002950:PG2016|5end_CRISPR-associated_helicase_Cas3_2108370..2108600_NEGATIVE 184 72 43 67 40 NC_002950:PG0212|5end_precorrin-6Y_C5,15-methyltransferase,_decarboxylating_249065..249295_NEGATIVE 182 72 37 135 94 NC_002950:PG0578|5end_UDP-N-acetylmuramoylalanine--D-glutamate_ligase_634480..634710_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 230 95 55 56 19 NC_002950:PG0249|3end_oxaloacetate_decarboxylase,_putative_281939..282089_NEGATIVE 222 90 42 51 5 NC_002950:PG1647|3end_cardiolipin_synthetase_1727774..1727924_POSITIVE 218 73 51 148 126 NC_002950:PG0104|3end_DNA_topoisomerase_III_127448..127598_POSITIVE 214 75 35 126 79 NC_002950:PG0355|3end_hypothetical_protein_390707..390857_POSITIVE 198 70 47 137 110 NC_002950:PG0235|3end_carboxyl-terminal_protease_273232..273382_POSITIVE 190 97 51 59 10 NC_002950:PG0708|3end_peptidyl-prolyl_cis-trans_isomerase,_FKBP-type_763798..763948_NEGATIVE 187 71 42 79 46 NC_002950:PG0048|3end_conserved_hypothetical_protein_TIGR00092_59454..59604_NEGATIVE 184 73 35 130 85 NC_002950:PG2017|3end_hypothetical_protein_2108345..2108495_NEGATIVE 184 72 43 74 47 NC_002950:PG0213|3end_precorrin-3_methylase/precorrin-8X_methylmutase_249058..249208_NEGATIVE 182 72 37 111 70 NC_002950:PG0577|3end_phospho-N-acetylmuramoyl-pentapeptide-_transferase_634536..634686_POSITIVE 179 73 46 127 101 NC_002950:PG1884|3end_alpha-L-fucosidase_precursor,_putative_1978968..1979118_NEGATIVE 179 72 38 36 2 NC_002950:PG1813|3end_ferredoxin,_4Fe-4S_1908147..1908297_NEGATIVE 179 96 55 74 25 NC_002950:PG0294|3end_glycosyl_transferase,_group_2_family_protein_329271..329421_NEGATIVE 178 74 43 51 20 NC_002950:PG0884|3end_hypothetical_protein_947809..947959_POSITIVE 177 93 52 71 31 NC_002950:PG0850|3end_DNA_binding_protein,_excisionase_family,_putative_911270..911420_NEGATIVE 177 68 27 122 78 NC_002950:PG0138|3end_malonyl_CoA-acyl_carrier_protein_transacylase_161634..161784_POSITIVE 176 100 54 109 65 NC_002950:PG1860|3end_hypothetical_protein_1958574..1958724_NEGATIVE 175 68 44 105 82 NC_002950:PG0684|3end_ABC_transporter,_permease_protein,_putative_740103..740253_POSITIVE 173 70 27 102 59 NC_002950:PG2002|3end_dihydrodipicolinate_reductase_2090871..2091021_NEGATIVE 173 72 38 55 20 NC_002950:PG1853|3end_DNA_polymerase_III,_beta_subunit_1951986..1952136_NEGATIVE