Origin IGS: aaaaaactctcctacaaatattttagtctaaagactcataatcttaagttcaaaaaaagataggaccaaaagtcttgctttaaactcacggaaaaatcttttttttcaaatccaaatgtaaatcagcacttacaat .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 attgtaagtgctgatttacatttggatttgaaaaaaaagatttttccgtgagtttaaagcaagacttttggtcctatctttttttgaacttaagattatgagtctttagactaaaatatttgtaggagagtttttt Mask Tandem Repeat Region ================================================ aaaaaactctcctacaaatattttagtctaaagactcataatcttaagttcaaaaaaagataggaccaaaagtcttgctttaaactcacggaaaaatcttttttttcaaatccaaatgtaaatcagcacttacaat Find is-nt database================================================ Query_seq: TDE2058:TDE2059|TDE2058:TDE2059:hypothetical protein:hypothetical protein:<-<-:2086263..2086398 136 aaaaaactctcctacaaatattttagtctaaagactcataatcttaagttcaaaaaaagataggaccaaaagtcttgctttaaactcacggaaaaatcttttttttcaaatccaaatgtaaatcagcacttacaat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TDE2058:TDE2059|TDE2058:TDE2059:hypothetical protein:hypothetical protein:<-<-:2086263..2086398 136 aaaaaactctcctacaaatattttagtctaaagactcataatcttaagttcaaaaaaagataggaccaaaagtcttgctttaaactcacggaaaaatcttttttttcaaatccaaatgtaaatcagcacttacaat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TDE2058:TDE2059|TDE2058:TDE2059:hypothetical protein:hypothetical protein:<-<-:2086263..2086398 136 aaaaaactctcctacaaatattttagtctaaagactcataatcttaagttcaaaaaaagataggaccaaaagtcttgctttaaactcacggaaaaatcttttttttcaaatccaaatgtaaatcagcacttacaat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aaaaaactctcctacaaatattttagtctaaagactcataatcttaagttcaaaaaaagataggaccaaaagtcttgctttaaactcacggaaaaatcttttttttcaaatccaaatgtaaatcagcacttacaat Predict ORF larger than 30AA ================================================ aaaaaactctcctacaaatattttagtctaaagactcataatcttaagttcaaaaaaagataggaccaaaagtcttgctttaaactcacggaaaaatcttttttttcaaatccaaatgtaaatcagcacttacaat 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================================================ aaaaaactctcctacaaatattttagtctaaagactcataatcttaagttcaaaaaaagataggaccaaaagtcttgctttaaactcacggaaaaatcttttttttcaaatccaaatgtaaatcagcacttacaat Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TDE2058:TDE2059|TDE2058:TDE2059:hypothetical protein:hypothetical protein:<-<-:2086263..2086398 136 aaaaaactctcctacaaatattttagtctaaagactcataatcttaagttcaaaaaaagataggaccaaaagtcttgctttaaactcacggaaaaatcttttttttcaaatccaaatgtaaatcagcacttacaat Intra-Species Hit: Count: 1 Min: 1 Max: 136 Len: 136 Subject: NC_002967_TDE2058_TDE2059|hypothetical protein:hypothetical protein|NEGATIVE:NEGATIVE|[2086263,2086398]|136 HSP 1 e-value: 8.0E-45 bit: 180.0 Len: 136 Query Start:1 Query End:136 Subject Strand: POSITIVE Subject Start: 1 Subject End: 136 aaaaaactctcctacaaatattttagtctaaagactcataatcttaagttcnnnnnnngataggaccaaaagtcttgctttaaactcacggaaaaatcnnnnnnnncaaatccaaatgtaaatcagcacttacaat aaaaaactctcctacaaatattttagtctaaagactcataatcttaagttcaaaaaaagataggaccaaaagtcttgctttaaactcacggaaaaatcttttttttcaaatccaaatgtaaatcagcacttacaat Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAAAAACUCUCCUACAAAUAUUUUAGUCUAAAGACUCAUAAUCUUAAGUUCAAAAAAAGAUAGGACCAAAAGUCUUGCUUUAAACUCACGGAAAAAUCUUUUUUUUCAAAUCCAAAUGUAAAUCAGCACUUACAAU ........................((((....))))........(((((.(....((((.((((((.....))))))))))........(((((((....)))))))..................).))))).... (-16.20) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUUGUAAGUGCUGAUUUACAUUUGGAUUUGAAAAAAAAGAUUUUUCCGUGAGUUUAAAGCAAGACUUUUGGUCCUAUCUUUUUUUGAACUUAAGAUUAUGAGUCUUUAGACUAAAAUAUUUGUAGGAGAGUUUUUU ..(((((((....)))))))...((((((..((((((((((....(((.((((((......)))))).)))....))))))))))...((((.((.(((.((((....))))...))).)).)))).))))))... (-27.20) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 770 90 41 181 132 NC_002967:TDE2058|5end_hypothetical_protein_2086172..2086402_NEGATIVE 262 118 71 69 16 NC_002967:TDE1995|5end_magnesium_chelatase_family_protein_2012464..2012694_POSITIVE 237 108 73 223 182 NC_002967:TDE0072|5end_methyl-accepting_chemotaxis_protein_80921..81151_POSITIVE 229 100 58 51 17 NC_002967:TDE2323|5end_mechanosensitive_ion_channel_family_protein_2359084..2359314_NEGATIVE 211 109 66 129 88 NC_002967:TDE2786|5end_DNA_polymerase_III_subunit_alpha_2842672..2842902_NEGATIVE 196 65 21 148 109 NC_002967:TDE1994|5end_hypothetical_protein_2012449..2012679_NEGATIVE 195 85 47 80 42 NC_002967:TDE2260|5end_hypothetical_protein_2297338..2297568_POSITIVE 194 49 7 208 160 NC_002967:TDE1497|5end_hypothetical_protein_1543208..1543438_POSITIVE 193 128 82 182 143 NC_002967:TDE1348|5end_TPR_domain_protein_1388333..1388563_POSITIVE 191 91 58 52 24 NC_002967:TDE1374|5end_hypothetical_protein_1417998..1418228_NEGATIVE 191 91 58 209 181 NC_002967:TDE1373|5end_HD_domain_protein_1417841..1418071_NEGATIVE 188 117 71 214 167 NC_002967:TDE2111|5end_hypothetical_protein_2137185..2137415_NEGATIVE 187 91 66 120 88 NC_002967:TDE1358|5end_hypothetical_protein_1397732..1397962_POSITIVE 186 48 7 226 187 NC_002967:TDE2024|5end_hypothetical_protein_2051021..2051251_NEGATIVE 186 100 58 80 38 NC_002967:TDE1962|5end_hypothetical_protein_1975204..1975434_NEGATIVE 185 113 76 43 3 NC_002967:TDE0883|5end_16S_rRNA_processing_protein_RimM_901685..901915_POSITIVE 184 94 70 211 184 NC_002967:TDE0462|5end_metallo-beta-lactamase_family_protein_516987..517217_NEGATIVE 182 91 57 66 20 NC_002967:TDE0425|5end_bacteriocin_ABC_transporter,_ATP-binding/permease,_putative_479700..479930_POSITIVE 182 93 65 134 112 NC_002967:TDE0321|5end_CBS_domain_protein_355094..355324_NEGATIVE 180 103 62 209 156 NC_002967:TDE1843|5end_hypothetical_protein_1873005..1873235_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 237 108 73 144 103 NC_002967:TDE0071|3end_peptidase,_U32_family_80922..81072_POSITIVE 197 100 53 51 6 NC_002967:TDE2647|3end_lipoyltransferase_and_lipoate-protein_ligase_family_protein_2686002..2686152_NEGATIVE 197 113 71 148 104 NC_002967:TDE0018|3end_LysM_domain_protein_23073..23223_NEGATIVE 195 100 59 74 30 NC_002967:TDE2276|3end_hypothetical_protein_2311945..2312095_NEGATIVE 192 108 70 151 108 NC_002967:TDE1624|3end_glycine_dehydrogenase_subunit_2_1672071..1672221_NEGATIVE 187 91 66 138 106 NC_002967:TDE1357|3end_aldose_1-epimerase_1397830..1397980_POSITIVE 184 90 41 76 21 NC_002967:TDE0157|3end_KHG/KDPG_family_aldolase/carbohydrate_kinase,_PfkB_family_185711..185861_POSITIVE 182 91 57 59 13 NC_002967:TDE0424|3end_bacteriocin-type_signal_domain_protein_479773..479923_POSITIVE 182 93 65 122 100 NC_002967:TDE0322|3end_regulatory_protein,_P-II_family_355106..355256_NEGATIVE 180 78 38 64 18 NC_002967:TDE1667|3end_translation_initiation_factor_IF-2B_subunit_alpha_1719993..1720143_NEGATIVE 178 36 10 114 89 NC_002967:TDE2216|3end_galactoside_ABC_transporter,_ATP-binding_protein_2255160..2255310_NEGATIVE 177 88 44 68 11 NC_002967:TDE1927|3end_phenylalanyl-tRNA_synthetase_beta_subunit_1945818..1945968_POSITIVE 174 120 73 75 33 NC_002967:TDE0270|3end_hypothetical_protein_300845..300995_NEGATIVE 170 86 43 57 1 NC_002967:TDE2338|3end_hypothetical_protein_2374624..2374774_NEGATIVE 170 99 61 65 21 NC_002967:TDE0922|3end_ABC_transporter,_ATP-binding/permease_protein_941847..941997_NEGATIVE 170 113 74 40 2 NC_002967:TDE0882|3end_hypothetical_protein_901762..901912_POSITIVE 170 110 71 126 95 NC_002967:TDE0543|3end_hypothetical_protein_583853..584003_POSITIVE 170 91 61 100 59 NC_002967:TDE0015|3end_lipoprotein,_putative_20544..20694_POSITIVE 167 39 6 132 93 NC_002967:TDE2424|3end_50S_ribosomal_protein_L1_2454037..2454187_NEGATIVE 167 73 31 69 23 NC_002967:TDE2117|3end_hypothetical_protein_2149175..2149325_POSITIVE