Origin IGS: tattttatcctatttttacccttatacacctaacttcccttcgacccttcctcactatagcataaaaaccaataatttgcaatctaaactgctgcaaaacaaaaaaacacacctttctaccataaatacaaatcggataaatgaaccgctggcagattaggcctatcctcactaaacggagaaaagaaaga .........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 tctttcttttctccgtttagtgaggataggcctaatctgccagcggttcatttatccgatttgtatttatggtagaaaggtgtgtttttttgttttgcagcagtttagattgcaaattattggtttttatgctatagtgaggaagggtcgaagggaagttaggtgtataagggtaaaaataggataaaata Mask Tandem Repeat Region ================================================ tattttatcctatttttacccttatacacctaacttcccttcgacccttcctcactatagcataaaaaccaataatttgcaatctaaactgctgcaaaacaaaaaaacacacctttctaccataaatacaaatcggataaatgaaccgctggcagattaggcctatcctcactaaacggagaaaagaaaga Find is-nt database================================================ Query_seq: TDE1843:TDE1844|TDE1843:TDE1844:hypothetical protein:DNA integrase:<-<-:1873096..1873286 191 tattttatcctatttttacccttatacacctaacttcccttcgacccttcctcactatagcataaaaaccaataatttgcaatctaaactgctgcaaaacaaaaaaacacacctttctaccataaatacaaatcggataaatgaaccgctggcagattaggcctatcctcactaaacggagaaaagaaaga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TDE1843:TDE1844|TDE1843:TDE1844:hypothetical protein:DNA integrase:<-<-:1873096..1873286 191 tattttatcctatttttacccttatacacctaacttcccttcgacccttcctcactatagcataaaaaccaataatttgcaatctaaactgctgcaaaacaaaaaaacacacctttctaccataaatacaaatcggataaatgaaccgctggcagattaggcctatcctcactaaacggagaaaagaaaga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TDE1843:TDE1844|TDE1843:TDE1844:hypothetical protein:DNA integrase:<-<-:1873096..1873286 191 tattttatcctatttttacccttatacacctaacttcccttcgacccttcctcactatagcataaaaaccaataatttgcaatctaaactgctgcaaaacaaaaaaacacacctttctaccataaatacaaatcggataaatgaaccgctggcagattaggcctatcctcactaaacggagaaaagaaaga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 1 Min: 32 Max: 157 Len: 126 Subject: UniRef90_Q73R22 Cluster: Hypothetical protein; n=1; Treponema denticola|Rep: Hypothetical protein - Treponema denticola HSP 1 e-value: 3.0E-6 bit: 53.1 Len: 126 Query Start:32 Query End:157 Subject Strand: null Subject Start: 6 Subject End: 47 ............................... N F P S T L P H Y S I K T N N L Q S K L L Q N K K T H L S T I N T N R I N E P L A D .................................. ............................... N T L S T L P H Y I I K T N N F Q P K L L K S K K N T S F Y Y N T N R I N K Q L A D .................................. tattttatcctatttttacccttatacacctnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnntaggcctatcctcactaaacggagaaaagaaaga Predict ORF larger than 30AA ================================================ Protein_Len: 52 Strand: + Start: 2 End: 157 . M L S Y F Y P Y T P N F P S T L P H Y S I K T N N L Q S K L L Q N K K T H L S T I N T N R I N E P L A D .................................. Protein_Len: 55 Strand: - Start: 8 End: 172 ....... G I K V R I C R V E R R G K R V I A Y F G I I Q L R F Q Q L V F F C V K R G Y I C I P Y I F R Q C I L G I R M ................... tattttatcctatttttacccttatacacctnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnntaggcctatcctcactaaacggagaaaagaaaga 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: 86 Start: 54 End: 83 .....................................................ATTGCAAATTATTGGTTTTTATGCTATAGT............................................................................................................ Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ tattttatcctatttttacccttatacacctnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnntaggcctatcctcactaaacggagaaaagaaaga Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TDE1843:TDE1844|TDE1843:TDE1844:hypothetical protein:DNA integrase:<-<-:1873096..1873286 191 tattttatcctatttttacccttatacacctnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnntaggcctatcctcactaaacggagaaaagaaaga Intra-Species Hit: Count: 1 Min: 1 Max: 191 Len: 191 Subject: NC_002967_TDE1843_TDE1844|hypothetical protein:DNA integrase|NEGATIVE:NEGATIVE|[1873096,1873286]|191 HSP 1 e-value: 1.0E-10 bit: 67.9 Len: 34 Query Start:158 Query End:191 Subject Strand: POSITIVE Subject Start: 158 Subject End: 191 .............................................................................................................................................................taggcctatcctcactaaacggagaaaagaaaga .............................................................................................................................................................taggcctatcctcactaaacggagaaaagaaaga HSP 2 e-value: 7.0E-9 bit: 61.9 Len: 31 Query Start:1 Query End:31 Subject Strand: POSITIVE Subject Start: 1 Subject End: 31 tattttatcctatttttacccttatacacct................................................................................................................................................................ tattttatcctatttttacccttatacacct................................................................................................................................................................ Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAUUUUAUCCUAUUUUUACCCUUAUACACCUAACUUCCCUUCGACCCUUCCUCACUAUAGCAUAAAAACCAAUAAUUUGCAAUCUAAACUGCUGCAAAACAAAAAAACACACCUUUCUACCAUAAAUACAAAUCGGAUAAAUGAACCGCUGGCAGAUUAGGCCUAUCCUCACUAAACGGAGAAAAGAAAGA .................................(((..(((((................(((...............)))..(((((.(((((((.......(((........)))................(((......)))...)).))))).)))))...............)))))..)))..... (-18.66) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UCUUUCUUUUCUCCGUUUAGUGAGGAUAGGCCUAAUCUGCCAGCGGUUCAUUUAUCCGAUUUGUAUUUAUGGUAGAAAGGUGUGUUUUUUUGUUUUGCAGCAGUUUAGAUUGCAAAUUAUUGGUUUUUAUGCUAUAGUGAGGAAGGGUCGAAGGGAAGUUAGGUGUAUAAGGGUAAAAAUAGGAUAAAAUA .(((((((((..((.(((...(((((((.((((..(((((((.(((.........)))...........))))))).)))).))))))).....(..(.(((((....))))).......((((......))))..)..).))).))..)))))))))................................. (-39.80) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 892 70 21 161 112 NC_002967:TDE1843|5end_hypothetical_protein_1873005..1873235_NEGATIVE 356 70 27 204 149 NC_002967:TDE1956|5end_hypothetical_protein_1971114..1971344_POSITIVE 300 179 135 83 44 NC_002967:TDE0860|5end_ribosomal_small_subunit_pseudouridine_synthase_A_881023..881253_POSITIVE 289 177 135 156 118 NC_002967:TDE0741|5end_hypothetical_protein_778158..778388_NEGATIVE 286 180 146 31 3 NC_002967:TDE0163|5end_flavodoxin_193383..193613_NEGATIVE 280 180 135 106 43 NC_002967:TDE1260|5end_cholinephosphate_cytidylyltransferase/choline_kinase_1294028..1294258_POSITIVE 279 97 60 48 12 NC_002967:TDE1966|5end_trypsin_domain/PDZ_domain_protein_1980273..1980503_POSITIVE 269 51 18 119 81 NC_002967:TDE0957|5end_glycerophosphoryl_diester_phosphodiesterase_family_protein_980252..980482_POSITIVE 266 66 46 161 141 NC_002967:TDE1118|5end_tyrosine_phenol-lyase_1151261..1151491_NEGATIVE 265 46 13 217 177 NC_002967:TDE1463|5end_hypothetical_protein_1513072..1513302_NEGATIVE 256 178 147 109 70 NC_002967:TDE1014|5end_hypothetical_protein_1045544..1045774_NEGATIVE 255 179 134 48 7 NC_002967:TDE0239|5end_glycine_reductase_complex_protein_GrdD_272982..273212_NEGATIVE 253 169 124 46 5 NC_002967:TDE1540|5end_hypothetical_protein_1584422..1584652_POSITIVE 252 100 53 190 137 NC_002967:TDE0566|5end_hypothetical_protein_597185..597415_POSITIVE 251 50 1 200 160 NC_002967:TDE1621|5end_hypothetical_protein_1670743..1670973_NEGATIVE 251 63 38 209 179 NC_002967:TDE1225|5end_zinc_ABC_transporter,_ATP-binding_protein_1259518..1259748_NEGATIVE 251 180 132 202 152 NC_002967:TDE1005|5end_hypothetical_protein_1030206..1030436_POSITIVE 250 187 148 215 169 NC_002967:TDE1753|5end_UDP-glucose_4-epimerase_1806540..1806770_NEGATIVE 249 187 147 96 51 NC_002967:TDE2637|5end_hypothetical_protein_2677316..2677546_NEGATIVE 249 63 29 63 30 NC_002967:TDE0797|5end_acylphosphatase_820859..821089_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 300 179 135 86 47 NC_002967:TDE0859|3end_hypothetical_protein_881106..881256_POSITIVE 269 51 18 117 79 NC_002967:TDE0956|3end_hypothetical_protein_980330..980480_POSITIVE 261 63 29 116 82 NC_002967:TDE0157|3end_KHG/KDPG_family_aldolase/carbohydrate_kinase,_PfkB_family_185711..185861_POSITIVE 255 179 132 54 11 NC_002967:TDE1131|3end_hypothetical_protein_1163531..1163681_POSITIVE 255 164 126 83 39 NC_002967:TDE1003|3end_hypothetical_protein_1029325..1029475_POSITIVE 254 118 79 60 13 NC_002967:TDE0947|3end_translation_elongation_factor_G,_putative_968714..968864_NEGATIVE 251 50 1 123 83 NC_002967:TDE1622|3end_hypothetical_protein_1670820..1670970_NEGATIVE 250 187 148 118 72 NC_002967:TDE1754|3end_desulfoferrodoxin/neelaredoxin_1806637..1806787_NEGATIVE 250 190 145 62 5 NC_002967:TDE0604|3end_hypothetical_protein_641831..641981_NEGATIVE 249 63 29 70 37 NC_002967:TDE0796|3end_histidinol_phosphate_phosphatase_HisJ_family_protein_820946..821096_POSITIVE 247 187 149 68 29 NC_002967:TDE2594|3end_hypothetical_protein_2628930..2629080_NEGATIVE 244 179 133 81 43 NC_002967:TDE2082|3end_hypothetical_protein_2112489..2112639_NEGATIVE 243 53 16 137 91 NC_002967:TDE2527|3end_hypothetical_protein_2555449..2555599_NEGATIVE 243 180 134 151 105 NC_002967:TDE0959|3end_hypothetical_protein_982365..982515_POSITIVE 241 176 133 62 6 NC_002967:TDE0935|3end_hypothetical_protein_959661..959811_NEGATIVE 237 170 127 102 50 NC_002967:TDE2319|3end_hypothetical_protein_2355835..2355985_NEGATIVE 237 180 131 60 5 NC_002967:TDE1633|3end_citrate_lyase_acyl_carrier_protein_1682428..1682578_NEGATIVE 235 170 127 99 37 NC_002967:TDE0741|3end_hypothetical_protein_776185..776335_NEGATIVE 235 54 13 138 88 NC_002967:TDE0503|3end_hypothetical_protein_556580..556730_NEGATIVE 235 177 145 149 115 NC_002967:TDE0448|3end_deoxyribose-phosphate_aldolase_506526..506676_POSITIVE