Origin IGS: ataaactcctaaaaataaaaatattttgtaattataattatttaccggcttttgtcaatctttttttaagatgacatccttatttttttaagataaaatctccacaataaaatcttcatgcactcttgcatagcttttgcattttaactataatatttaatt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aattaaatattatagttaaaatgcaaaagctatgcaagagtgcatgaagattttattgtggagattttatcttaaaaaaataaggatgtcatcttaaaaaaagattgacaaaagccggtaaataattataattacaaaatatttttatttttaggagtttat Mask Tandem Repeat Region ================================================ ataaactcctaaaaataaaaatattttgtaattataattatttaccggcttttgtcaatctttttttaagatgacatccttatttttttaagataaaatctccacaataaaatcttcatgcactcttgcatagcttttgcattttaactataatatttaatt Find is-nt database================================================ Query_seq: TDE1586:TDE1587|TDE1586:TDE1587:hypothetical protein:aspartyl-tRNA synthetase:<-->:1634011..1634172 162 ataaactcctaaaaataaaaatattttgtaattataattatttaccggcttttgtcaatctttttttaagatgacatccttatttttttaagataaaatctccacaataaaatcttcatgcactcttgcatagcttttgcattttaactataatatttaatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TDE1586:TDE1587|TDE1586:TDE1587:hypothetical protein:aspartyl-tRNA synthetase:<-->:1634011..1634172 162 ataaactcctaaaaataaaaatattttgtaattataattatttaccggcttttgtcaatctttttttaagatgacatccttatttttttaagataaaatctccacaataaaatcttcatgcactcttgcatagcttttgcattttaactataatatttaatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TDE1586:TDE1587|TDE1586:TDE1587:hypothetical protein:aspartyl-tRNA synthetase:<-->:1634011..1634172 162 ataaactcctaaaaataaaaatattttgtaattataattatttaccggcttttgtcaatctttttttaagatgacatccttatttttttaagataaaatctccacaataaaatcttcatgcactcttgcatagcttttgcattttaactataatatttaatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ataaactcctaaaaataaaaatattttgtaattataattatttaccggcttttgtcaatctttttttaagatgacatccttatttttttaagataaaatctccacaataaaatcttcatgcactcttgcatagcttttgcattttaactataatatttaatt Predict ORF larger than 30AA ================================================ ataaactcctaaaaataaaaatattttgtaattataattatttaccggcttttgtcaatctttttttaagatgacatccttatttttttaagataaaatctccacaataaaatcttcatgcactcttgcatagcttttgcattttaactataatatttaatt 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: 83 Start: 70 End: 99 .....................................................................GATGACATCCTTATTTTTTTAAGATAAAAT............................................................... PromScan Matrix: RpoD-17 Strand: + Score: 83 Start: 125 End: 154 ............................................................................................................................CTTGCATAGCTTTTGCATTTTAACTATAAT........ Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ ataaactcctaaaaataaaaatattttgtaattataattatttaccggcttttgtcaatctttttttaagatgacatccttatttttttaagataaaatctccacaataaaatcttcatgcactcttgcatagcttttgcattttaactataatatttaatt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TDE1586:TDE1587|TDE1586:TDE1587:hypothetical protein:aspartyl-tRNA synthetase:<-->:1634011..1634172 162 ataaactcctaaaaataaaaatattttgtaattataattatttaccggcttttgtcaatctttttttaagatgacatccttatttttttaagataaaatctccacaataaaatcttcatgcactcttgcatagcttttgcattttaactataatatttaatt Intra-Species Hit: Count: 1 Min: 1 Max: 162 Len: 162 Subject: NC_002967_TDE1586_TDE1587|hypothetical protein:aspartyl-tRNA synthetase|NEGATIVE:POSITIVE|[1634011,1634172]|162 HSP 1 e-value: 5.0E-62 bit: 238.0 Len: 162 Query Start:1 Query End:162 Subject Strand: POSITIVE Subject Start: 1 Subject End: 162 ataaactcctaaaaataaaaatattttgtaattataattatttaccggcttttgtcaatcnnnnnnnaagatgacatccttannnnnnnaagataaaatctccacaataaaatcttcatgcactcttgcatagcttttgcattttaactataatatttaatt ataaactcctaaaaataaaaatattttgtaattataattatttaccggcttttgtcaatctttttttaagatgacatccttatttttttaagataaaatctccacaataaaatcttcatgcactcttgcatagcttttgcattttaactataatatttaatt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUAAACUCCUAAAAAUAAAAAUAUUUUGUAAUUAUAAUUAUUUACCGGCUUUUGUCAAUCUUUUUUUAAGAUGACAUCCUUAUUUUUUUAAGAUAAAAUCUCCACAAUAAAAUCUUCAUGCACUCUUGCAUAGCUUUUGCAUUUUAACUAUAAUAUUUAAUU ..................(((((((..((.................((....(((((.((((.....)))))))))..((((......)))).........))..............(((((....))))).((....))......))...))))))).... (-17.70) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAUUAAAUAUUAUAGUUAAAAUGCAAAAGCUAUGCAAGAGUGCAUGAAGAUUUUAUUGUGGAGAUUUUAUCUUAAAAAAAUAAGGAUGUCAUCUUAAAAAAAGAUUGACAAAAGCCGGUAAAUAAUUAUAAUUACAAAAUAUUUUUAUUUUUAGGAGUUUAU ........((((((((((...(((....((((((((....))))).....(((((((...(((((...))))).....))))))).(((((((((.....)))).)))))..)))..)))..))))))))))........(((((((....))))))).... (-23.30) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 813 140 91 231 182 NC_002967:TDE1586|5end_hypothetical_protein_1633920..1634150_NEGATIVE 256 88 46 74 37 NC_002967:TDE2737|5end_hypothetical_protein_2791870..2792100_POSITIVE 241 81 41 66 29 NC_002967:TDE2126|5end_hypothetical_protein_2159533..2159763_POSITIVE 241 89 47 113 61 NC_002967:TDE1050|5end_hypothetical_protein_1077387..1077617_POSITIVE 240 122 85 145 103 NC_002967:TDE0904|5end_hypothetical_protein_922406..922636_NEGATIVE 239 149 118 197 164 NC_002967:TDE1429|5end_glycosyl_transferase,_group_2_family_protein_1472444..1472674_POSITIVE 228 65 44 36 11 NC_002967:TDE0496|5end_DNA-binding_protein,_putative_551189..551419_NEGATIVE 224 80 34 175 126 NC_002967:TDE0084|5end_phosphoenolpyruvate-protein_phosphotransferase_97455..97685_NEGATIVE 220 146 119 31 5 NC_002967:TDE2461|5end_selenide,_water_dikinase_(selenocysteine-containing)_2488260..2488490_NEGATIVE 219 82 45 103 57 NC_002967:TDE1753|5end_UDP-glucose_4-epimerase_1806540..1806770_NEGATIVE 218 139 98 145 101 NC_002967:TDE1436|5end_inner_membrane_protein_1479460..1479690_POSITIVE 215 89 59 42 6 NC_002967:TDE1474|5end_hypothetical_protein_1521353..1521583_NEGATIVE 214 134 106 72 41 NC_002967:TDE1451|5end_hypothetical_protein_1498968..1499198_NEGATIVE 211 148 103 202 159 NC_002967:TDE2105|5end_hypothetical_protein_2131484..2131714_NEGATIVE 209 81 44 78 34 NC_002967:TDE1740|5end_hypothetical_protein_1792785..1793015_NEGATIVE 209 130 85 195 147 NC_002967:TDE1261|5end_choline/carnitine/betaine_transporter_family_protein_1295593..1295823_POSITIVE 207 138 92 161 116 NC_002967:TDE1882|5end_glycosyl_hydrolase,_family_1_1903544..1903774_POSITIVE 207 140 112 212 182 NC_002967:TDE0328|5end_CRISPR-associated_protein_Cas1_365065..365295_POSITIVE 206 89 44 218 161 NC_002967:TDE1389|5end_hypothetical_protein_1428238..1428468_POSITIVE 206 132 94 40 2 NC_002967:TDE0427|5end_hypothetical_protein_483026..483256_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 241 89 47 100 48 NC_002967:TDE1049|3end_elongation_factor_EF-2_1077454..1077604_POSITIVE 236 146 114 101 65 NC_002967:TDE1679|3end_ATP_synthase_subunit_K_1730627..1730777_NEGATIVE 234 82 42 121 81 NC_002967:TDE1185|3end_lipoprotein,_putative_1211597..1211747_NEGATIVE 221 140 100 73 26 NC_002967:TDE0049|3end_hypothetical_protein_58199..58349_NEGATIVE 220 138 100 125 94 NC_002967:TDE1280|3end_hypothetical_protein_1315750..1315900_NEGATIVE 218 139 98 148 104 NC_002967:TDE1435|3end_hypothetical_protein_1479543..1479693_POSITIVE 215 89 59 61 25 NC_002967:TDE1475|3end_flagellar_filament_core_protein_1521334..1521484_NEGATIVE 215 89 59 134 98 NC_002967:TDE1474|3end_hypothetical_protein_1521261..1521411_NEGATIVE 207 81 46 90 58 NC_002967:TDE0973|3end_DNA_repair_protein_RadC_997940..998090_NEGATIVE 206 132 94 46 8 NC_002967:TDE0426|3end_bacteriocin_ABC_transporter,_bacteriocin-binding_protein,_putative_483112..483262_POSITIVE 205 66 24 68 31 NC_002967:TDE0605|3end_hypothetical_protein_642631..642781_NEGATIVE 202 138 99 136 103 NC_002967:TDE2103|3end_glycosyl_transferase,_group_2_family_protein_2127527..2127677_NEGATIVE 202 149 102 42 6 NC_002967:TDE1726|3end_polyA_polymerase_family_protein_1780768..1780918_POSITIVE 202 63 23 140 98 NC_002967:TDE0608|3end_DNA-binding_protein,_putative_644994..645144_NEGATIVE 200 140 99 138 101 NC_002967:TDE1694|3end_hypothetical_protein_1749223..1749373_NEGATIVE 200 90 43 101 43 NC_002967:TDE1539|3end_hypothetical_protein_1584190..1584340_POSITIVE 200 147 118 94 64 NC_002967:TDE1359|3end_hypothetical_protein_1397797..1397947_NEGATIVE 200 81 47 35 1 NC_002967:TDE0085|3end_ATP-dependent_DNA_helicase,_UvrD/Rep_family_97596..97746_NEGATIVE 198 150 101 83 41 NC_002967:TDE1131|3end_hypothetical_protein_1163531..1163681_POSITIVE 198 149 113 142 107 NC_002967:TDE0669|3end_hypothetical_protein_706949..707099_NEGATIVE