Origin IGS: ttatgatagtaatatttttagtatcattattgatactgttttgatactaaaaacctctaaaaccacaaaaaataggtataaaatgtttggttttagaaacttaatagatactgacaatacataaaagaaacaaatatgctatgataattattgagtgggagtgataaaggtggtatactaaataaggaggttcact .........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 agtgaacctccttatttagtataccacctttatcactcccactcaataattatcatagcatatttgtttcttttatgtattgtcagtatctattaagtttctaaaaccaaacattttatacctattttttgtggttttagaggtttttagtatcaaaacagtatcaataatgatactaaaaatattactatcataa Mask Tandem Repeat Region ================================================ ttatgatagtaatatttttagtatcattattgatactgttttgatactaaaaacctctaaaaccacaaaaaataggtataaaatgtttggttttagaaacttaatagatactgacaatacataaaagaaacaaatatgctatgataattattgagtgggagtgataaaggtggtatactaaataaggaggttcact Find is-nt database================================================ Query_seq: TDE1722:TDE1723|TDE1722:TDE1723:hypothetical protein:hypothetical protein:->->:1776579..1776774 196 ttatgatagtaatatttttagtatcattattgatactgttttgatactaaaaacctctaaaaccacaaaaaataggtataaaatgtttggttttagaaacttaatagatactgacaatacataaaagaaacaaatatgctatgataattattgagtgggagtgataaaggtggtatactaaataaggaggttcact Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TDE1722:TDE1723|TDE1722:TDE1723:hypothetical protein:hypothetical protein:->->:1776579..1776774 196 ttatgatagtaatatttttagtatcattattgatactgttttgatactaaaaacctctaaaaccacaaaaaataggtataaaatgtttggttttagaaacttaatagatactgacaatacataaaagaaacaaatatgctatgataattattgagtgggagtgataaaggtggtatactaaataaggaggttcact Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TDE1722:TDE1723|TDE1722:TDE1723:hypothetical protein:hypothetical protein:->->:1776579..1776774 196 ttatgatagtaatatttttagtatcattattgatactgttttgatactaaaaacctctaaaaccacaaaaaataggtataaaatgtttggttttagaaacttaatagatactgacaatacataaaagaaacaaatatgctatgataattattgagtgggagtgataaaggtggtatactaaataaggaggttcact Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ttatgatagtaatatttttagtatcattattgatactgttttgatactaaaaacctctaaaaccacaaaaaataggtataaaatgtttggttttagaaacttaatagatactgacaatacataaaagaaacaaatatgctatgataattattgagtgggagtgataaaggtggtatactaaataaggaggttcact Predict ORF larger than 30AA ================================================ Protein_Len: 36 Strand: + Start: 14 End: 121 ............. M F S I I I D T V L I L K T S K T T K N R Y K M F G F R N L I D T D N T ........................................................................... Protein_Len: 45 Strand: - Start: 4 End: 135 ... * S L L I K L I M I S V T K I S F V E L V V F F L Y L I N P K L F K I S V S L V Y F F C M ............................................................. ttatgatagtaatatttttagtatcattattgatactgttttgatactaaaaacctctaaaaccacaaaaaataggtataaaatgtttggttttagaaacttaatagatactgacaatacataaaagaaacaaatatgctatgataattattgagtgggagtgataaaggtggtatactaaataaggaggttcact 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================================================ ttatgatagtaatatttttagtatcattattgatactgttttgatactaaaaacctctaaaaccacaaaaaataggtataaaatgtttggttttagaaacttaatagatactgacaatacataaaagaaacaaatatgctatgataattattgagtgggagtgataaaggtggtatactaaataaggaggttcact Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TDE1722:TDE1723|TDE1722:TDE1723:hypothetical protein:hypothetical protein:->->:1776579..1776774 196 ttatgatagtaatatttttagtatcattattgatactgttttgatactaaaaacctctaaaaccacaaaaaataggtataaaatgtttggttttagaaacttaatagatactgacaatacataaaagaaacaaatatgctatgataattattgagtgggagtgataaaggtggtatactaaataaggaggttcact Intra-Species Hit: Count: 1 Min: 1 Max: 196 Len: 196 Subject: NC_002967_TDE1722_TDE1723|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[1776579,1776774]|196 HSP 1 e-value: 1.0E-107 bit: 389.0 Len: 196 Query Start:1 Query End:196 Subject Strand: POSITIVE Subject Start: 1 Subject End: 196 ttatgatagtaatatttttagtatcattattgatactgttttgatactaaaaacctctaaaaccacaaaaaataggtataaaatgtttggttttagaaacttaatagatactgacaatacataaaagaaacaaatatgctatgataattattgagtgggagtgataaaggtggtatactaaataaggaggttcact ttatgatagtaatatttttagtatcattattgatactgttttgatactaaaaacctctaaaaccacaaaaaataggtataaaatgtttggttttagaaacttaatagatactgacaatacataaaagaaacaaatatgctatgataattattgagtgggagtgataaaggtggtatactaaataaggaggttcact Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUAUGAUAGUAAUAUUUUUAGUAUCAUUAUUGAUACUGUUUUGAUACUAAAAACCUCUAAAACCACAAAAAAUAGGUAUAAAAUGUUUGGUUUUAGAAACUUAAUAGAUACUGACAAUACAUAAAAGAAACAAAUAUGCUAUGAUAAUUAUUGAGUGGGAGUGAUAAAGGUGGUAUACUAAAUAAGGAGGUUCACU ......(((((.((....((((((((....))))))))...)).)))))..(((((((................(((((....((((.((((.....)))).)))).)))))......................((((((((....((((((.......))))))....))))))))........))))))).... (-34.00) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGUGAACCUCCUUAUUUAGUAUACCACCUUUAUCACUCCCACUCAAUAAUUAUCAUAGCAUAUUUGUUUCUUUUAUGUAUUGUCAGUAUCUAUUAAGUUUCUAAAACCAAACAUUUUAUACCUAUUUUUUGUGGUUUUAGAGGUUUUUAGUAUCAAAACAGUAUCAAUAAUGAUACUAAAAAUAUUACUAUCAUAA (((((.....((((..(((.((((...................(((((........((((....)))).........)))))...))))))).))))..((((((((((.......((....)).......)))))))))).(((((((((((((...............))))))))))))).)))))....... (-29.68) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 263 180 137 58 12 NC_002967:TDE0761|5end_protease_complex-associated_polypeptide_799969..800199_POSITIVE 241 189 141 57 9 NC_002967:TDE1391|5end_NQR2/RnfD/RnfE_family_protein_1430975..1431205_POSITIVE 233 168 125 224 177 NC_002967:TDE2243|5end_CutC_family_protein_2282954..2283184_NEGATIVE 226 188 147 63 14 NC_002967:TDE1577|5end_lipoprotein,_putative_1624509..1624739_POSITIVE 214 190 141 212 160 NC_002967:TDE1061|5end_ABC_transporter,_ATP-binding/permease_protein,_HlyB_family_1086646..1086876_POSITIVE 214 190 141 85 33 NC_002967:TDE1060|5end_hypothetical_protein_1086519..1086749_POSITIVE 212 176 134 118 70 NC_002967:TDE2642|5end_hypothetical_protein_2682254..2682484_NEGATIVE 211 189 149 216 185 NC_002967:TDE2638|5end_hypothetical_protein_2677493..2677723_POSITIVE 204 174 141 45 6 NC_002967:TDE2625|5end_ABC_transporter,_ATP-binding/permease_protein_2666664..2666894_NEGATIVE 203 171 133 174 129 NC_002967:TDE1356|5end_lipoprotein,_putative_1396669..1396899_NEGATIVE 200 190 141 216 152 NC_002967:TDE0769|5end_ribosomal_protein_L23_807634..807864_POSITIVE 198 94 51 205 156 NC_002967:TDE0845|5end_conserved_hypothetical_protein_TIGR00266_867795..868025_POSITIVE 196 170 127 130 82 NC_002967:TDE1335|5end_alginate_O-acetylation_protein,_putative_1370816..1371046_POSITIVE 193 175 151 136 117 NC_002967:TDE1196|5end_hypothetical_protein_1229937..1230167_NEGATIVE 193 174 138 173 127 NC_002967:TDE0660|5end_transcriptional_regulator,_putative_697184..697414_NEGATIVE 191 144 109 54 10 NC_002967:TDE1871|5end_hypothetical_protein_1894522..1894752_NEGATIVE 191 185 151 230 186 NC_002967:TDE0848|5end_hypothetical_protein_871269..871499_POSITIVE 191 175 136 161 115 NC_002967:TDE0148|5end_histidine_kinase-related_ATPase,_putative_168971..169201_POSITIVE 190 190 151 169 128 NC_002967:TDE0577|5end_glutamyl-tRNA(Gln)_amidotransferase,_C_subunit_609509..609739_NEGATIVE 189 82 50 79 42 NC_002967:TDE2021|5end_hypothetical_protein_2044759..2044989_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 277 166 130 117 82 NC_002967:TDE2230|3end_hypothetical_protein_2269453..2269603_POSITIVE 241 189 141 60 12 NC_002967:TDE1390|3end_hypothetical_protein_1431058..1431208_POSITIVE 210 187 151 34 5 NC_002967:TDE0203|3end_hypothetical_protein_237058..237208_POSITIVE 207 174 138 52 7 NC_002967:TDE2626|3end_ABC_transporter,_ATP-binding/permease_protein_2666657..2666807_NEGATIVE 207 190 141 78 27 NC_002967:TDE2306|3end_hypothetical_protein_2344138..2344288_NEGATIVE 198 94 51 103 54 NC_002967:TDE0844|3end_pyruvate_phosphate_dikinase,_putative_867773..867923_POSITIVE 196 170 127 108 60 NC_002967:TDE1334|3end_hypothetical_protein_1370874..1371024_POSITIVE 193 174 138 111 65 NC_002967:TDE0661|3end_hypothetical_protein_697246..697396_NEGATIVE 189 82 50 82 45 NC_002967:TDE2022|3end_YD_repeat_protein_2044756..2044906_NEGATIVE 187 89 44 63 19 NC_002967:TDE1003|3end_hypothetical_protein_1029325..1029475_POSITIVE 183 174 149 91 71 NC_002967:TDE0809|3end_hypothetical_protein_829640..829790_NEGATIVE 182 59 12 140 100 NC_002967:TDE1075|3end_oligopeptide/dipeptide_ABC_transporter,_ATP-binding_protein_1107019..1107169_POSITIVE 179 48 27 142 122 NC_002967:TDE0249|3end_flavoredoxin,_putative_283182..283332_POSITIVE 176 100 54 146 96 NC_002967:TDE1678|3end_ribosomal_protein_S6_1730202..1730352_NEGATIVE 174 190 149 56 6 NC_002967:TDE2593|3end_sigma-54-binding_protein_2628963..2629113_POSITIVE 174 179 139 60 22 NC_002967:TDE0330|3end_CRISPR-associated_SAG0897_family_protein_366998..367148_POSITIVE 173 190 155 98 68 NC_002967:TDE1434|3end_hypothetical_protein_1478238..1478388_NEGATIVE 172 128 83 90 50 NC_002967:TDE2336|3end_sodium/dicarboxylate_symporter_family_protein_2371925..2372075_NEGATIVE 172 179 135 62 16 NC_002967:TDE0613|3end_hypothetical_protein_647574..647724_NEGATIVE 171 85 41 120 67 NC_002967:TDE1271|3end_oligopeptide/dipeptide_ABC_transporter,_ATP-binding_protein_1305029..1305179_NEGATIVE