Origin IGS: acggtaatattatcaaaatttagtcgagaaattcggtaagttcaaagtgctcatactagataaccactgcacatcatgtgcggcgtacattcttcagcggggggataccccgttaaaaccatccggcag .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 ctgccggatggttttaacggggtatccccccgctgaagaatgtacgccgcacatgatgtgcagtggttatctagtatgagcactttgaacttaccgaatttctcgactaaattttgataatattaccgt Mask Tandem Repeat Region ================================================ acggtaatattatcaaaatttagtcgagaaattcggtaagttcaaagtgctcatactagataaccactgcacatcatgtgcggcgtacattcttcagcggggggataccccgttaaaaccatccggcag Find is-nt database================================================ Query_seq: TDE0470:TDE0471|TDE0470:TDE0471:cell division protein FtsH:BNR domain protein:-><-:526618..526746 129 acggtaatattatcaaaatttagtcgagaaattcggtaagttcaaagtgctcatactagataaccactgcacatcatgtgcggcgtacattcttcagcggggggataccccgttaaaaccatccggcag Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TDE0470:TDE0471|TDE0470:TDE0471:cell division protein FtsH:BNR domain protein:-><-:526618..526746 129 acggtaatattatcaaaatttagtcgagaaattcggtaagttcaaagtgctcatactagataaccactgcacatcatgtgcggcgtacattcttcagcggggggataccccgttaaaaccatccggcag Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TDE0470:TDE0471|TDE0470:TDE0471:cell division protein FtsH:BNR domain protein:-><-:526618..526746 129 acggtaatattatcaaaatttagtcgagaaattcggtaagttcaaagtgctcatactagataaccactgcacatcatgtgcggcgtacattcttcagcggggggataccccgttaaaaccatccggcag Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 acggtaatattatcaaaatttagtcgagaaattcggtaagttcaaagtgctcatactagataaccactgcacatcatgtgcggcgtacattcttcagcggggggataccccgttaaaaccatccggcag Predict ORF larger than 30AA ================================================ acggtaatattatcaaaatttagtcgagaaattcggtaagttcaaagtgctcatactagataaccactgcacatcatgtgcggcgtacattcttcagcggggggataccccgttaaaaccatccggcag 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================================================ acggtaatattatcaaaatttagtcgagaaattcggtaagttcaaagtgctcatactagataaccactgcacatcatgtgcggcgtacattcttcagcggggggataccccgttaaaaccatccggcag Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TDE0470:TDE0471|TDE0470:TDE0471:cell division protein FtsH:BNR domain protein:-><-:526618..526746 129 acggtaatattatcaaaatttagtcgagaaattcggtaagttcaaagtgctcatactagataaccactgcacatcatgtgcggcgtacattcttcagcggggggataccccgttaaaaccatccggcag Intra-Species Hit: Count: 1 Min: 1 Max: 129 Len: 129 Subject: NC_002967_TDE0470_TDE0471|cell division protein FtsH:BNR domain protein|POSITIVE:NEGATIVE|[526618,526746]|129 HSP 1 e-value: 2.0E-67 bit: 256.0 Len: 129 Query Start:1 Query End:129 Subject Strand: POSITIVE Subject Start: 1 Subject End: 129 acggtaatattatcaaaatttagtcgagaaattcggtaagttcaaagtgctcatactagataaccactgcacatcatgtgcggcgtacattcttcagcggggggataccccgttaaaaccatccggcag acggtaatattatcaaaatttagtcgagaaattcggtaagttcaaagtgctcatactagataaccactgcacatcatgtgcggcgtacattcttcagcggggggataccccgttaaaaccatccggcag Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ ACGGUAAUAUUAUCAAAAUUUAGUCGAGAAAUUCGGUAAGUUCAAAGUGCUCAUACUAGAUAACCACUGCACAUCAUGUGCGGCGUACAUUCUUCAGCGGGGGGAUACCCCGUUAAAACCAUCCGGCAG .(((.............(((((((.(((...((.((.....)).))...)))..)))))))...(.((((((.....)))))).)..........(((((((.....)))))))........))).... (-31.50) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CUGCCGGAUGGUUUUAACGGGGUAUCCCCCCGCUGAAGAAUGUACGCCGCACAUGAUGUGCAGUGGUUAUCUAGUAUGAGCACUUUGAACUUACCGAAUUUCUCGACUAAAUUUUGAUAAUAUUACCGU ....(((....(((((.(((((.....))))).)))))......(((.((((.....)))).)))((((((((((.((((...((((.......))))...))))))))......))))))....))). (-29.90) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 331 103 64 224 173 NC_002967:TDE0371|5end_hypothetical_protein_422687..422917_POSITIVE 322 108 64 156 109 NC_002967:TDE2488|5end_modification_methylase,_HemK_family_2511384..2511614_NEGATIVE 314 109 74 155 119 NC_002967:TDE2330|5end_hypothetical_protein_2366454..2366684_POSITIVE 309 109 62 106 48 NC_002967:TDE0006|5end_Snf2_family_protein_9694..9924_NEGATIVE 307 112 72 177 138 NC_002967:TDE1416|5end_ABC_transporter,_permease_protein_1459796..1460026_POSITIVE 307 110 66 224 177 NC_002967:TDE1048|5end_30S_ribosomal_protein_S7_1074482..1074712_POSITIVE 302 104 64 217 157 NC_002967:TDE0735|5end_hypothetical_protein_775003..775233_NEGATIVE 301 105 67 207 172 NC_002967:TDE2103|5end_glycosyl_transferase,_group_2_family_protein_2128393..2128623_NEGATIVE 301 107 64 229 180 NC_002967:TDE1549|5end_recombination_protein_RecR_1592140..1592370_POSITIVE 299 120 74 175 122 NC_002967:TDE1935|5end_hypothetical_protein_1952994..1953224_POSITIVE 295 110 64 61 13 NC_002967:TDE0832|5end_hypothetical_protein_852549..852779_POSITIVE 294 103 66 152 117 NC_002967:TDE1199|5end_cell_division_protein_FtsL,_putative_1231341..1231571_POSITIVE 291 111 77 65 33 NC_002967:TDE1541|5end_metallo-beta-lactamase_family_protein_1584898..1585128_POSITIVE 291 105 79 195 165 NC_002967:TDE1317|5end_hypothetical_protein_1355464..1355694_NEGATIVE 286 120 90 134 97 NC_002967:TDE2265|5end_hypothetical_protein_2302165..2302395_POSITIVE 286 112 82 229 192 NC_002967:TDE0712|5end_hypothetical_protein_746963..747193_NEGATIVE 284 112 77 139 105 NC_002967:TDE1470|5end_hypothetical_protein_1518026..1518256_NEGATIVE 283 98 51 152 88 NC_002967:TDE2424|5end_50S_ribosomal_protein_L1_2454717..2454947_NEGATIVE 282 120 72 224 159 NC_002967:TDE0945|5end_hypothetical_protein_967128..967358_POSITIVE 281 115 79 227 195 NC_002967:TDE2748|5end_acetyltransferase,_GNAT_family_2805108..2805338_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 542 110 62 106 56 NC_002967:TDE2736|3end_hypothetical_protein_2791702..2791852_NEGATIVE 388 110 67 145 98 NC_002967:TDE2495|3end_hypothetical_protein_2518735..2518885_NEGATIVE 382 107 67 52 3 NC_002967:TDE2100|3end_hypothetical_protein_2125572..2125722_POSITIVE 322 108 64 149 102 NC_002967:TDE2489|3end_peptide_chain_release_factor_1_2511391..2511541_NEGATIVE 314 103 66 51 3 NC_002967:TDE0370|3end_UDP-N-acetylmuramoylalanine--D-glutamate_ligase_422594..422744_POSITIVE 304 112 84 118 81 NC_002967:TDE2458|3end_hypothetical_protein_2485849..2485999_POSITIVE 304 119 77 87 37 NC_002967:TDE0944|3end_hypothetical_protein_967037..967187_POSITIVE 301 105 67 75 40 NC_002967:TDE2104|3end_hypothetical_protein_2128525..2128675_NEGATIVE 300 103 64 126 76 NC_002967:TDE0711|3end_hypothetical_protein_745690..745840_NEGATIVE 297 87 46 146 103 NC_002967:TDE2742|3end_site-specific_recombinase,_phage_integrase_family_2796850..2797000_NEGATIVE 294 103 66 150 115 NC_002967:TDE1198|3end_S-adenosyl-methyltransferase_MraW_1231419..1231569_POSITIVE 293 120 76 111 63 NC_002967:TDE0834|3end_Na(+)-translocating_NADH-quinone_reductase,_E_subunit_854291..854441_NEGATIVE 291 99 60 72 26 NC_002967:TDE2493|3end_hypothetical_protein_2516745..2516895_NEGATIVE 291 111 77 35 3 NC_002967:TDE1540|3end_hypothetical_protein_1584948..1585098_POSITIVE 283 98 51 150 86 NC_002967:TDE2425|3end_50S_ribosomal_protein_L11_2454719..2454869_NEGATIVE 283 102 64 67 22 NC_002967:TDE1982|3end_hypothetical_protein_1992511..1992661_NEGATIVE 281 112 79 50 26 NC_002967:TDE0134|3end_oxidoreductase,_FAD-dependent_155010..155160_POSITIVE 280 50 2 130 72 NC_002967:TDE0359|3end_ABC_transporter,_ATP-binding/permease_protein_402193..402343_NEGATIVE 278 120 89 78 44 NC_002967:TDE0569|3end_hypothetical_protein_600162..600312_POSITIVE 275 113 80 61 18 NC_002967:TDE2144|3end_hypothetical_protein_2180451..2180601_NEGATIVE