Origin IGS: tcttaagttttaatcttttaagccggaaaaagacgataagttttttaacggctttttaaagatacggtttaatagaccgtggggcaggttatcctgccttaaaaaatttatcctaggaggatgct .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 agcatcctcctaggataaattttttaaggcaggataacctgccccacggtctattaaaccgtatctttaaaaagccgttaaaaaacttatcgtctttttccggcttaaaagattaaaacttaaga Mask Tandem Repeat Region ================================================ tcttaagttttaatcttttaagccggaaaaagacgataagttttttaacggctttttaaagatacggtttaatagaccgtggggcaggttatcctgccttaaaaaatttatcctaggaggatgct Find is-nt database================================================ Query_seq: TDE0744:TDE0745|TDE0744:TDE0745:thioredoxin:glycine reductase complex selenoprotein GrdA:->->:780302..780426 125 tcttaagttttaatcttttaagccggaaaaagacgataagttttttaacggctttttaaagatacggtttaatagaccgtggggcaggttatcctgccttaaaaaatttatcctaggaggatgct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TDE0744:TDE0745|TDE0744:TDE0745:thioredoxin:glycine reductase complex selenoprotein GrdA:->->:780302..780426 125 tcttaagttttaatcttttaagccggaaaaagacgataagttttttaacggctttttaaagatacggtttaatagaccgtggggcaggttatcctgccttaaaaaatttatcctaggaggatgct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TDE0744:TDE0745|TDE0744:TDE0745:thioredoxin:glycine reductase complex selenoprotein GrdA:->->:780302..780426 125 tcttaagttttaatcttttaagccggaaaaagacgataagttttttaacggctttttaaagatacggtttaatagaccgtggggcaggttatcctgccttaaaaaatttatcctaggaggatgct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tcttaagttttaatcttttaagccggaaaaagacgataagttttttaacggctttttaaagatacggtttaatagaccgtggggcaggttatcctgccttaaaaaatttatcctaggaggatgct Predict ORF larger than 30AA ================================================ Protein_Len: 33 Strand: - Start: 13 End: 111 ............ D K L G S F S S L N K L P K K F I R N L L G H P L N D Q R L F N M .............. tcttaagttttaatcttttaagccggaaaaagacgataagttttttaacggctttttaaagatacggtttaatagaccgtggggcaggttatcctgccttaaaaaatttatcctaggaggatgct 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================================================ tcttaagttttaatcttttaagccggaaaaagacgataagttttttaacggctttttaaagatacggtttaatagaccgtggggcaggttatcctgccttaaaaaatttatcctaggaggatgct Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TDE0744:TDE0745|TDE0744:TDE0745:thioredoxin:glycine reductase complex selenoprotein GrdA:->->:780302..780426 125 tcttaagttttaatcttttaagccggaaaaagacgataagttttttaacggctttttaaagatacggtttaatagaccgtggggcaggttatcctgccttaaaaaatttatcctaggaggatgct Intra-Species Hit: Count: 1 Min: 1 Max: 125 Len: 125 Subject: NC_002967_TDE0744_TDE0745|thioredoxin:glycine reductase complex selenoprotein GrdA|POSITIVE:POSITIVE|[780302,780426]|125 HSP 1 e-value: 4.0E-65 bit: 248.0 Len: 125 Query Start:1 Query End:125 Subject Strand: POSITIVE Subject Start: 1 Subject End: 125 tcttaagttttaatcttttaagccggaaaaagacgataagttttttaacggctttttaaagatacggtttaatagaccgtggggcaggttatcctgccttaaaaaatttatcctaggaggatgct tcttaagttttaatcttttaagccggaaaaagacgataagttttttaacggctttttaaagatacggtttaatagaccgtggggcaggttatcctgccttaaaaaatttatcctaggaggatgct Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UCUUAAGUUUUAAUCUUUUAAGCCGGAAAAAGACGAUAAGUUUUUUAACGGCUUUUUAAAGAUACGGUUUAAUAGACCGUGGGGCAGGUUAUCCUGCCUUAAAAAAUUUAUCCUAGGAGGAUGCU ............((((((.((((((..(((((((.....)))))))..))))))...)))))).(((((.....)))))(((((((((....))))))))).......(((((.....))))).. (-42.90) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGCAUCCUCCUAGGAUAAAUUUUUUAAGGCAGGAUAACCUGCCCCACGGUCUAUUAAACCGUAUCUUUAAAAAGCCGUUAAAAAACUUAUCGUCUUUUUCCGGCUUAAAAGAUUAAAACUUAAGA ...((((.....))))...........((((((....))))))..(((((.......))))).(((((...((((((..((((.((.....)).))))..)))))).)))))............. (-32.40) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 337 98 62 116 82 NC_002967:TDE1334|5end_hypothetical_protein_1370144..1370374_POSITIVE 319 98 51 195 150 NC_002967:TDE1973|5end_CvpA_family_protein_1987706..1987936_NEGATIVE 287 101 61 74 23 NC_002967:TDE1547|5end_ribonuclease_HII_1591124..1591354_POSITIVE 278 94 53 224 188 NC_002967:TDE1842|5end_hypothetical_protein_1872005..1872235_NEGATIVE 278 94 53 224 188 NC_002967:TDE1802|5end_hypothetical_protein_1838108..1838338_NEGATIVE 275 97 65 38 1 NC_002967:TDE0435|5end_ATP-dependent_DNA_helicase,_RecQ_family_491261..491491_NEGATIVE 268 98 51 147 98 NC_002967:TDE0490|5end_hypothetical_protein_546793..547023_NEGATIVE 264 120 73 176 125 NC_002967:TDE2060|5end_hypothetical_protein_2086521..2086751_POSITIVE 260 114 72 157 114 NC_002967:TDE2666|5end_hydrolase,_carbon-nitrogen_family_2704394..2704624_NEGATIVE 258 107 78 178 153 NC_002967:TDE0844|5end_pyruvate_phosphate_dikinase,_putative_864886..865116_POSITIVE 257 79 39 210 154 NC_002967:TDE1200|5end_UDP-N-acetylmuramoylalanyl-D-glutamyl-2,_6-diaminopimelate--D-alanyl-D-alanyl_ligase_1231618..1231848_POSITIVE 256 119 77 42 6 NC_002967:TDE0438|5end_queuine_tRNA-ribosyltransferase_494811..495041_NEGATIVE 255 88 42 51 1 NC_002967:TDE2645|5end_hypothetical_protein_2684972..2685202_POSITIVE 255 68 21 106 59 NC_002967:TDE2567|5end_hypothetical_protein_2595076..2595306_NEGATIVE 254 98 59 128 100 NC_002967:TDE1325|5end_hypothetical_protein_1361721..1361951_NEGATIVE 253 79 37 49 2 NC_002967:TDE2399|5end_ribonuclease_P_protein_component_2426160..2426390_NEGATIVE 253 97 61 147 105 NC_002967:TDE2312|5end_hypothetical_protein_2348451..2348681_POSITIVE 252 57 14 75 35 NC_002967:TDE0922|5end_ABC_transporter,_ATP-binding/permease_protein_943640..943870_NEGATIVE 252 70 21 49 11 NC_002967:TDE0187|5end_carboxylesterase,_putative_223845..224075_POSITIVE 250 120 78 81 46 NC_002967:TDE2715|5end_hypothetical_protein_2772668..2772898_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 351 100 54 85 27 NC_002967:TDE0238|3end_thioredoxin,_selenocysteine-containing_271783..271933_POSITIVE 337 98 62 40 6 NC_002967:TDE1333|3end_hflC_protein,_putative_1370148..1370298_POSITIVE 312 97 63 54 14 NC_002967:TDE1062|3end_ABC_transporter,_ATP-binding_protein,_HlyB_family_1090387..1090537_POSITIVE 297 98 77 25 5 NC_002967:TDE2714|3end_hypothetical_protein_2770627..2770777_NEGATIVE 294 64 21 77 36 NC_002967:TDE1001|3end_orotate_phosphoribosyltransferase_1028437..1028587_POSITIVE 292 96 51 44 3 NC_002967:TDE0166|3end_hypothetical_protein_195050..195200_NEGATIVE 287 101 61 74 23 NC_002967:TDE1546|3end_hypothetical_protein_1591204..1591354_POSITIVE 280 116 72 72 24 NC_002967:TDE2396|3end_putative_inner_membrane_protein_translocase_component_YidC_2423650..2423800_NEGATIVE 279 80 34 122 82 NC_002967:TDE2609|3end_MiaB-like_tRNA_modifying_enzyme_YliG,_TIGR01125_2651904..2652054_POSITIVE 279 98 51 139 76 NC_002967:TDE1195|3end_prolyl_endopeptidase_1227634..1227784_NEGATIVE 274 97 54 68 16 NC_002967:TDE0201|3end_hypothetical_protein_235724..235874_POSITIVE 269 85 50 72 34 NC_002967:TDE1727|3end_hypothetical_protein_1780774..1780924_NEGATIVE 268 100 74 138 103 NC_002967:TDE1377|3end_hypothetical_protein_1419083..1419233_NEGATIVE 267 89 41 119 72 NC_002967:TDE2066|3end_exodeoxyribonuclease_VII,_small_subunit_2092222..2092372_POSITIVE 256 86 49 149 108 NC_002967:TDE0096|3end_NADH_oxidase_114137..114287_POSITIVE 255 88 42 58 8 NC_002967:TDE2644|3end_pyridine_nucleotide-disulphide_oxidoreductase_family_protein_2685059..2685209_POSITIVE 254 98 59 60 32 NC_002967:TDE1327|3end_hypothetical_protein_1361789..1361939_NEGATIVE 253 97 61 53 11 NC_002967:TDE2311|3end_hypothetical_protein_2348437..2348587_POSITIVE 252 97 52 142 87 NC_002967:TDE2579|3end_ATP-dependent_DNA_helicase_RecG_2603288..2603438_NEGATIVE 252 54 13 71 28 NC_002967:TDE0744|3end_thioredoxin_780241..780391_POSITIVE