Origin IGS: agataggagaggcatagggaagggtaacaaccaacaacatttcgaggtaaagaaatttttatctgcaaaagtgtctttccttccctttaaatatgtggatccggatggaaaaaaacatttgatgataggtgttggagaattttctaatgatccaataacagaaaatgcattaaggaggcaattgaagtataatgaaaggcttacacattgataataaaatatttttaaaaaagataatgcaactattcctgtagttagtgagtaattg .........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 caattactcactaactacaggaatagttgcattatcttttttaaaaatattttattatcaatgtgtaagcctttcattatacttcaattgcctccttaatgcattttctgttattggatcattagaaaattctccaacacctatcatcaaatgtttttttccatccggatccacatatttaaagggaaggaaagacacttttgcagataaaaatttctttacctcgaaatgttgttggttgttacccttccctatgcctctcctatct Mask Tandem Repeat Region ================================================ agataggagaggcatagggaagggtaacaaccaacaacatttcgaggtaaagaaatttttatctgcaaaagtgtctttccttccctttaaatatgtggatccggatggaaaaaaacatttgatgataggtgttggagaattttctaatgatccaataacagaaaatgcattaaggaggcaattgaagtataatgaaaggcttacacattgataataaaatatttttaaaaaagataatgcaactattcctgtagttagtgagtaattg Find is-nt database================================================ Query_seq: TDE1564:TDE1565|TDE1564:TDE1565:hypothetical protein:hypothetical protein:->->:1616765..1617032 268 agataggagaggcatagggaagggtaacaaccaacaacatttcgaggtaaagaaatttttatctgcaaaagtgtctttccttccctttaaatatgtggatccggatggaaaaaaacatttgatgataggtgttggagaattttctaatgatccaataacagaaaatgcattaaggaggcaattgaagtataatgaaaggcttacacattgataataaaatatttttaaaaaagataatgcaactattcctgtagttagtgagtaattg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TDE1564:TDE1565|TDE1564:TDE1565:hypothetical protein:hypothetical protein:->->:1616765..1617032 268 agataggagaggcatagggaagggtaacaaccaacaacatttcgaggtaaagaaatttttatctgcaaaagtgtctttccttccctttaaatatgtggatccggatggaaaaaaacatttgatgataggtgttggagaattttctaatgatccaataacagaaaatgcattaaggaggcaattgaagtataatgaaaggcttacacattgataataaaatatttttaaaaaagataatgcaactattcctgtagttagtgagtaattg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TDE1564:TDE1565|TDE1564:TDE1565:hypothetical protein:hypothetical protein:->->:1616765..1617032 268 agataggagaggcatagggaagggtaacaaccaacaacatttcgaggtaaagaaatttttatctgcaaaagtgtctttccttccctttaaatatgtggatccggatggaaaaaaacatttgatgataggtgttggagaattttctaatgatccaataacagaaaatgcattaaggaggcaattgaagtataatgaaaggcttacacattgataataaaatatttttaaaaaagataatgcaactattcctgtagttagtgagtaattg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 agataggagaggcatagggaagggtaacaaccaacaacatttcgaggtaaagaaatttttatctgcaaaagtgtctttccttccctttaaatatgtggatccggatggaaaaaaacatttgatgataggtgttggagaattttctaatgatccaataacagaaaatgcattaaggaggcaattgaagtataatgaaaggcttacacattgataataaaatatttttaaaaaagataatgcaactattcctgtagttagtgagtaattg Predict ORF larger than 30AA ================================================ Protein_Len: 60 Strand: + Start: 14 End: 208 ............. M G K G N N Q Q H F E V K K F L S A K V S F L P F K Y V D P D G K K H L M I G V G E F S N D P I T E N A L R R Q L K Y N ............................................................ Protein_Len: 35 Strand: - Start: 62 End: 166 ............................................................. R C F H R E K G K F I H I R I S F F M Q H Y T N S F K R I I W Y C F M ...................................................................................................... Protein_Len: 60 Strand: - Start: 1 End: 246 F T D K R G K L Y T S G S P F F C K I I P T P S N E L S G I V S F A N L L C N F Y L S L S V C Q Y Y F I K L F S L A V M ...................... agataggagaggcatagggaagggtaacaaccaacaacatttcgaggtaaagaaatttttatctgcaaaagtgtctttccttccctttaaatatgtggatccggatggaaaaaaacatttgatgataggtgttggagaattttctaatgatccaataacagaaaatgcattaaggaggcaattgaagtataatgaaaggcttacacattgataataaaatatttttaaaaaagataatgcaactattcctgtagttagtgagtaattg 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================================================ agataggagaggcatagggaagggtaacaaccaacaacatttcgaggtaaagaaatttttatctgcaaaagtgtctttccttccctttaaatatgtggatccggatggaaaaaaacatttgatgataggtgttggagaattttctaatgatccaataacagaaaatgcattaaggaggcaattgaagtataatgaaaggcttacacattgataataaaatatttttaaaaaagataatgcaactattcctgtagttagtgagtaattg Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TDE1564:TDE1565|TDE1564:TDE1565:hypothetical protein:hypothetical protein:->->:1616765..1617032 268 agataggagaggcatagggaagggtaacaaccaacaacatttcgaggtaaagaaatttttatctgcaaaagtgtctttccttccctttaaatatgtggatccggatggaaaaaaacatttgatgataggtgttggagaattttctaatgatccaataacagaaaatgcattaaggaggcaattgaagtataatgaaaggcttacacattgataataaaatatttttaaaaaagataatgcaactattcctgtagttagtgagtaattg Intra-Species Hit: Count: 1 Min: 1 Max: 268 Len: 268 Subject: NC_002967_TDE1564_TDE1565|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[1616765,1617032]|268 HSP 1 e-value: 1.0E-137 bit: 490.0 Len: 268 Query Start:1 Query End:268 Subject Strand: POSITIVE Subject Start: 1 Subject End: 268 agataggagaggcatagggaagggtaacaaccaacaacatttcgaggtaaagaaatttttatctgcaaaagtgtctttccttccctttaaatatgtggatccggatggnnnnnnncatttgatgataggtgttggagaattttctaatgatccaataacagaaaatgcattaaggaggcaattgaagtataatgaaaggcttacacattgataataaaatatttttaaaaaagataatgcaactattcctgtagttagtgagtaattg agataggagaggcatagggaagggtaacaaccaacaacatttcgaggtaaagaaatttttatctgcaaaagtgtctttccttccctttaaatatgtggatccggatggaaaaaaacatttgatgataggtgttggagaattttctaatgatccaataacagaaaatgcattaaggaggcaattgaagtataatgaaaggcttacacattgataataaaatatttttaaaaaagataatgcaactattcctgtagttagtgagtaattg Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGAUAGGAGAGGCAUAGGGAAGGGUAACAACCAACAACAUUUCGAGGUAAAGAAAUUUUUAUCUGCAAAAGUGUCUUUCCUUCCCUUUAAAUAUGUGGAUCCGGAUGGAAAAAAACAUUUGAUGAUAGGUGUUGGAGAAUUUUCUAAUGAUCCAAUAACAGAAAAUGCAUUAAGGAGGCAAUUGAAGUAUAAUGAAAGGCUUACACAUUGAUAAUAAAAUAUUUUUAAAAAAGAUAAUGCAACUAUUCCUGUAGUUAGUGAGUAAUUG ....(((((((((((.......(((....)))............((((((((....))))))))......)))))))))))..(((((....((((.....((((((........))))))......(.(((((((..(((....)))..))))))).).......))))...)))))....................((((((...............((((((.....))))))....((((((....)))))).))))))..... (-51.20) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CAAUUACUCACUAACUACAGGAAUAGUUGCAUUAUCUUUUUUAAAAAUAUUUUAUUAUCAAUGUGUAAGCCUUUCAUUAUACUUCAAUUGCCUCCUUAAUGCAUUUUCUGUUAUUGGAUCAUUAGAAAAUUCUCCAACACCUAUCAUCAAAUGUUUUUUUCCAUCCGGAUCCACAUAUUUAAAGGGAAGGAAAGACACUUUUGCAGAUAAAAAUUUCUUUACCUCGAAAUGUUGUUGGUUGUUACCCUUCCCUAUGCCUCUCCUAUCU ..........((((..(((((((....(((((((.......((((.....))))........((((((........))))))..............))))))).)))))))..)))).....(((.......................((((((.....(((....))).....))))))..((((((((...((((((...((((......(((((........))))).)))).)).))))..)))))))).........)))... (-44.30) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 309 33 5 175 137 NC_002967:TDE2260|5end_hypothetical_protein_2297338..2297568_POSITIVE 278 86 44 184 142 NC_002967:TDE2097|5end_hypothetical_protein_2124741..2124971_NEGATIVE 274 86 44 193 150 NC_002967:TDE2024|5end_hypothetical_protein_2051021..2051251_NEGATIVE 273 107 63 203 155 NC_002967:TDE0737|5end_hypothetical_protein_775674..775904_NEGATIVE 269 125 83 230 191 NC_002967:TDE1135|5end_hypothetical_protein_1165542..1165772_NEGATIVE 269 48 1 63 14 NC_002967:TDE1057|5end_hypothetical_protein_1086245..1086475_NEGATIVE 269 136 93 230 182 NC_002967:TDE0286|5end_ABC_transporter,_ATP-binding_protein_317378..317608_NEGATIVE 264 44 8 196 164 NC_002967:TDE1476|5end_hypothetical_protein_1522177..1522407_POSITIVE 254 108 61 55 11 NC_002967:TDE2043|5end_signal_recognition_particle-docking_protein_FtsY_2073058..2073288_NEGATIVE 253 50 7 86 31 NC_002967:TDE1782|5end_hypothetical_protein_1823417..1823647_NEGATIVE 253 47 5 207 157 NC_002967:TDE1336|5end_hypothetical_protein_1372303..1372533_POSITIVE 251 50 6 193 155 NC_002967:TDE1391|5end_NQR2/RnfD/RnfE_family_protein_1430975..1431205_POSITIVE 251 48 2 207 159 NC_002967:TDE1364|5end_valyl-tRNA_synthetase_1404763..1404993_POSITIVE 251 44 3 107 65 NC_002967:TDE0230|5end_DNA_replication_and_repair_protein_RecF_263881..264111_NEGATIVE 251 108 63 81 37 NC_002967:TDE0134|5end_oxidoreductase,_FAD-dependent_153404..153634_POSITIVE 247 48 3 99 54 NC_002967:TDE0618|5end_hypothetical_protein_650355..650585_NEGATIVE 247 48 3 227 182 NC_002967:TDE0617|5end_hypothetical_protein_650227..650457_NEGATIVE 243 86 57 183 148 NC_002967:TDE2647|5end_lipoyltransferase_and_lipoate-protein_ligase_family_protein_2686997..2687227_NEGATIVE 241 135 97 52 6 NC_002967:TDE2572|5end_CDP-diacylglycerol--glycerol-3-phosphate_3-phosphatidyltransferase_2598738..2598968_NEGATIVE 241 205 161 198 145 NC_002967:TDE2243|5end_CutC_family_protein_2282954..2283184_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 500 86 44 118 76 NC_002967:TDE1008|3end_flagellar_protein,_putative_1032806..1032956_POSITIVE 400 80 31 59 8 NC_002967:TDE2265|3end_hypothetical_protein_2302634..2302784_POSITIVE 388 50 5 130 81 NC_002967:TDE1982|3end_hypothetical_protein_1992511..1992661_NEGATIVE 315 90 44 87 41 NC_002967:TDE0665|3end_pyruvate_ferredoxin/flavodoxin_oxidoreductase_family_protein_699792..699942_NEGATIVE 291 86 44 83 42 NC_002967:TDE0828|3end_glucose-inhibited_division_protein_A_848283..848433_NEGATIVE 274 86 44 139 96 NC_002967:TDE2025|3end_hypothetical_protein_2051075..2051225_NEGATIVE 269 48 1 76 27 NC_002967:TDE1058|3end_hypothetical_protein_1086232..1086382_NEGATIVE 265 47 5 48 2 NC_002967:TDE1893|3end_GTP-binding_protein_LepA_1912212..1912362_NEGATIVE 254 108 61 65 21 NC_002967:TDE2044|3end_lipoprotein,_putative_2073048..2073198_NEGATIVE 253 50 7 65 10 NC_002967:TDE1783|3end_hypothetical_protein_1823438..1823588_NEGATIVE 253 146 101 93 52 NC_002967:TDE0904|3end_hypothetical_protein_922278..922428_NEGATIVE 251 44 3 98 56 NC_002967:TDE0231|3end_DNA_polymerase_III,_beta_subunit_263890..264040_NEGATIVE 243 86 57 98 63 NC_002967:TDE2648|3end_hypothetical_protein_2687082..2687232_NEGATIVE 241 89 44 86 47 NC_002967:TDE2420|3end_DNA-directed_RNA_polymerase_beta'_subunit_2444960..2445110_NEGATIVE 241 31 2 141 108 NC_002967:TDE2292|3end_2C-methyl-D-erythritol_2,4-cyclodiphosphate_synthase_2329383..2329533_POSITIVE 238 139 94 77 29 NC_002967:TDE0536|3end_hypothetical_protein_578064..578214_NEGATIVE 234 88 44 53 11 NC_002967:TDE0664|3end_OmpA_family_protein_699728..699878_POSITIVE 232 85 41 73 23 NC_002967:TDE1347|3end_hypothetical_protein_1388032..1388182_POSITIVE 226 86 44 92 51 NC_002967:TDE0969|3end_hypothetical_protein_994575..994725_POSITIVE 226 86 44 92 51 NC_002967:TDE0724|3end_hypothetical_protein_763237..763387_POSITIVE