Origin IGS: attaaaaaacagattctagtcgtttggtggttcagtccatttgattgtgttttttgaacggttttattatcttcgaaagtgataacataatataataaagagatttttttgatatgtatggataatattttgacacttatagactgcaatccgcagtccgtagct .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 agctacggactgcggattgcagtctataagtgtcaaaatattatccatacatatcaaaaaaatctctttattatattatgttatcactttcgaagataataaaaccgttcaaaaaacacaatcaaatggactgaaccaccaaacgactagaatctgttttttaat Mask Tandem Repeat Region ================================================ attaaaaaacagattctagtcgtttggtggttcagtccatttgattgtgttttttgaacggttttattatcttcgaaagtgataacataatataataaagagatttttttgatatgtatggataatattttgacacttatagactgcaatccgcagtccgtagct Find is-nt database================================================ Query_seq: PG0996:PG0997|PG0996:PG0997:conserved hypothetical protein TIGR01777:transcriptional regulator, putative:->->:1056641..1056805 165 attaaaaaacagattctagtcgtttggtggttcagtccatttgattgtgttttttgaacggttttattatcttcgaaagtgataacataatataataaagagatttttttgatatgtatggataatattttgacacttatagactgcaatccgcagtccgtagct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG0996:PG0997|PG0996:PG0997:conserved hypothetical protein TIGR01777:transcriptional regulator, putative:->->:1056641..1056805 165 attaaaaaacagattctagtcgtttggtggttcagtccatttgattgtgttttttgaacggttttattatcttcgaaagtgataacataatataataaagagatttttttgatatgtatggataatattttgacacttatagactgcaatccgcagtccgtagct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG0996:PG0997|PG0996:PG0997:conserved hypothetical protein TIGR01777:transcriptional regulator, putative:->->:1056641..1056805 165 attaaaaaacagattctagtcgtttggtggttcagtccatttgattgtgttttttgaacggttttattatcttcgaaagtgataacataatataataaagagatttttttgatatgtatggataatattttgacacttatagactgcaatccgcagtccgtagct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 attaaaaaacagattctagtcgtttggtggttcagtccatttgattgtgttttttgaacggttttattatcttcgaaagtgataacataatataataaagagatttttttgatatgtatggataatattttgacacttatagactgcaatccgcagtccgtagct Predict ORF larger than 30AA ================================================ Protein_Len: 34 Strand: - Start: 35 End: 136 .................................. D M Q N H K K F P K I I K S L S L M I Y Y L S K K S I Y P Y Y K S M ............................. Protein_Len: 49 Strand: - Start: 3 End: 149 .. L F C I R T T Q H N L G N S Q T K Q V T K N D E F T I V Y Y L L S I K K I H I S L I K V S I S Q M ................ attaaaaaacagattctagtcgtttggtggttcagtccatttgattgtgttttttgaacggttttattatcttcgaaagtgataacataatataataaagagatttttttgatatgtatggataatattttgacacttatagactgcaatccgcagtccgtagct 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================================================ attaaaaaacagattctagtcgtttggtggttcagtccatttgattgtgttttttgaacggttttattatcttcgaaagtgataacataatataataaagagatttttttgatatgtatggataatattttgacacttatagactgcaatccgcagtccgtagct Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PG0996:PG0997|PG0996:PG0997:conserved hypothetical protein TIGR01777:transcriptional regulator, putative:->->:1056641..1056805 165 attaaaaaacagattctagtcgtttggtggttcagtccatttgattgtgttttttgaacggttttattatcttcgaaagtgataacataatataataaagagatttttttgatatgtatggataatattttgacacttatagactgcaatccgcagtccgtagct Intra-Species Hit: Count: 1 Min: 1 Max: 165 Len: 165 Subject: NC_002950_PG0996_PG0997|conserved hypothetical protein TIGR01777:transcriptional regulator, putative|POSITIVE:POSITIVE|[1056641,1056805]|165 HSP 1 e-value: 2.0E-76 bit: 285.0 Len: 165 Query Start:1 Query End:165 Subject Strand: POSITIVE Subject Start: 1 Subject End: 165 attaaaaaacagattctagtcgtttggtggttcagtccatttgattgtgttttttgaacggttttattatcttcgaaagtgataacataatataataaagagannnnnnngatatgtatggataatattttgacacttatagactgcaatccgcagtccgtagct attaaaaaacagattctagtcgtttggtggttcagtccatttgattgtgttttttgaacggttttattatcttcgaaagtgataacataatataataaagagatttttttgatatgtatggataatattttgacacttatagactgcaatccgcagtccgtagct Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUUAAAAAACAGAUUCUAGUCGUUUGGUGGUUCAGUCCAUUUGAUUGUGUUUUUUGAACGGUUUUAUUAUCUUCGAAAGUGAUAACAUAAUAUAAUAAAGAGAUUUUUUUGAUAUGUAUGGAUAAUAUUUUGACACUUAUAGACUGCAAUCCGCAGUCCGUAGCU .((((((((((.....((((((..(((.........)))..))))))))))))))))...(((.(((((((..(....)......((((.((((.((((((....)))))).)))))))))))))))....)))..(((..((((((.....))))))..))).. (-34.10) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGCUACGGACUGCGGAUUGCAGUCUAUAAGUGUCAAAAUAUUAUCCAUACAUAUCAAAAAAAUCUCUUUAUUAUAUUAUGUUAUCACUUUCGAAGAUAAUAAAACCGUUCAAAAAACACAAUCAAAUGGACUGAACCACCAAACGACUAGAAUCUGUUUUUUAAU .((((..((((((.....))))))..).)))(((.........(((((..............................(((((((.........))))))).....(((.....)))........))))).((......))...))).................. (-20.80) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 293 160 115 139 87 NC_002950:PG0977|5end_ubiquinone/menaquinone_biosynthesis_methyltransferase_1039299..1039529_POSITIVE 261 44 10 188 156 NC_002950:PG0986|5end_hypothetical_protein_1047426..1047656_POSITIVE 258 160 115 47 2 NC_002950:PG0536|5end_hypothetical_protein_586540..586770_POSITIVE 257 158 117 215 171 NC_002950:PG0669|5end_heme-binding_protein_FetB_719753..719983_POSITIVE 247 67 21 79 24 NC_002950:PG0803|5end_glucosamine-6-phosphate_deaminase_860518..860748_NEGATIVE 244 60 12 86 17 NC_002950:PG0418|5end_ATP-dependent_Clp_protease,_proteolytic_subunit_459329..459559_NEGATIVE 243 55 11 78 38 NC_002950:PG2140|5end_ribosomal_protein_L32_2246134..2246364_POSITIVE 241 50 9 126 90 NC_002950:PG1842|5end_acetyltransferase,_GNAT_family_1938241..1938471_POSITIVE 241 63 21 114 56 NC_002950:PG1100|5end_hypothetical_protein_1169012..1169242_NEGATIVE 241 41 10 43 16 NC_002950:PG0707|5end_TonB-dependent_receptor,_putative_763632..763862_NEGATIVE 239 70 21 220 171 NC_002950:PG1621|5end_hypothetical_protein_1701431..1701661_NEGATIVE 238 160 111 67 20 NC_002950:PG1039|5end_integral_membrane_protein_1107052..1107282_NEGATIVE 237 68 30 67 23 NC_002950:PG0321|5end_arginine/ornithine_transport_system_ATPase_354648..354878_POSITIVE 236 49 14 204 164 NC_002950:PG2223|5end_glycosyl_transferase,_group_2_family_protein_2337713..2337943_POSITIVE 236 49 12 149 104 NC_002950:PG1027|5end_hypothetical_protein_1089439..1089669_NEGATIVE 235 40 10 198 163 NC_002950:PG0937|5end_hypothetical_protein_997194..997424_NEGATIVE 235 61 22 156 114 NC_002950:PG0042|5end_serine_hydroxymethyltransferase_49629..49859_POSITIVE 234 60 11 203 154 NC_002950:PG0800|5end_hypothetical_protein_856278..856508_NEGATIVE 233 52 16 175 138 NC_002950:PG2224|5end_hypothetical_protein_2338863..2339093_POSITIVE 233 47 9 178 136 NC_002950:PG2014|5end_CRISPR-associated_protein_Cas1_2105505..2105735_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 293 160 115 107 55 NC_002950:PG0976|3end_phosphoribosylaminoimidazole-succinocarboxamide_synthase_1039347..1039497_POSITIVE 254 155 112 88 48 NC_002950:PG0371|3end_hypothetical_protein_404224..404374_POSITIVE 249 75 32 121 62 NC_002950:PG1012|3end_tRNA-i(6)A37_modification_enzyme_MiaB_1070089..1070239_NEGATIVE 243 55 11 71 31 NC_002950:PG2139|3end_hypothetical_protein_2246207..2246357_POSITIVE 241 50 9 118 82 NC_002950:PG1841|3end_hypothetical_protein_1938313..1938463_POSITIVE 241 63 21 117 59 NC_002950:PG1101|3end_sodium:solute_symporter_family_protein_1169009..1169159_NEGATIVE 237 58 12 69 21 NC_002950:PG2194|3end_ISPg4,_transposase_2300962..2301112_NEGATIVE 237 58 12 69 21 NC_002950:PG1673|3end_ISPg4,_transposase_1759625..1759775_POSITIVE 237 58 12 69 21 NC_002950:PG1658|3end_ISPg4,_transposase_1741747..1741897_NEGATIVE 237 58 12 69 21 NC_002950:PG1261|3end_ISPg4,_transposase_1339608..1339758_POSITIVE 237 58 12 69 21 NC_002950:PG0970|3end_ISPg4,_transposase_1030843..1030993_POSITIVE 237 58 12 69 21 NC_002950:PG0487|3end_ISPg4,_transposase_526276..526426_NEGATIVE 237 58 12 69 21 NC_002950:PG0225|3end_ISPg4,_transposase_258485..258635_NEGATIVE 237 58 12 69 21 NC_002950:PG0177|3end_ISPg4,_transposase_200324..200474_POSITIVE 237 58 12 69 21 NC_002950:PG0050|3end_ISPg4,_transposase_62153..62303_POSITIVE 237 58 12 69 21 NC_002950:PG0019|3end_ISPg4_transposase_23277..23427_POSITIVE 233 70 29 143 96 NC_002950:PG1831|3end_ATP-dependent_DNA_helicase_RecQ_1923455..1923605_NEGATIVE 232 63 22 103 56 NC_002950:PG0629|3end_inorganic_polyphosphate/ATP-NAD_kinase_682498..682648_NEGATIVE 232 68 21 144 83 NC_002950:PG0269|3end_exodeoxyribonuclease_III_302872..303022_POSITIVE 230 50 4 125 73 NC_002950:PG2145|3end_polysaccharide_deacetylase_2253938..2254088_POSITIVE