Origin IGS: tagttctgacaattaaatgagctgaaattacgctagcaggaatcatcattcaatagatttattgatttttccgaccggcgtagtttcagctttttaacactcgatattgtataaaacaaagtacactttgtacttgacaaccagtaataggagtaaaaaatatgcttgccttgcctaaactaaacgttaattgcaagcaaaatctatcacttttcttaaaaatttattcggaggataa .........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 ttatcctccgaataaatttttaagaaaagtgatagattttgcttgcaattaacgtttagtttaggcaaggcaagcatattttttactcctattactggttgtcaagtacaaagtgtactttgttttatacaatatcgagtgttaaaaagctgaaactacgccggtcggaaaaatcaataaatctattgaatgatgattcctgctagcgtaatttcagctcatttaattgtcagaacta Mask Tandem Repeat Region ================================================ tagttctgacaattaaatgagctgaaattacgctagcaggaatcatcattcaatagatttattgatttttccgaccggcgtagtttcagctttttaacactcgatattgtataaaacaaagtacactttgtacttgacaaccagtaataggagtaaaaaatatgcttgccttgcctaaactaaacgttaattgcaagcaaaatctatcacttttcttaaaaatttattcggaggataa Find is-nt database================================================ Query_seq: AA02030:AA02031|AA02030:AA02031:threonyl-tRNA synthetase:type III site-specific deoxyribonuclease:->->:1384240..1384477 238 tagttctgacaattaaatgagctgaaattacgctagcaggaatcatcattcaatagatttattgatttttccgaccggcgtagtttcagctttttaacactcgatattgtataaaacaaagtacactttgtacttgacaaccagtaataggagtaaaaaatatgcttgccttgcctaaactaaacgttaattgcaagcaaaatctatcacttttcttaaaaatttattcggaggataa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA02030:AA02031|AA02030:AA02031:threonyl-tRNA synthetase:type III site-specific deoxyribonuclease:->->:1384240..1384477 238 tagttctgacaattaaatgagctgaaattacgctagcaggaatcatcattcaatagatttattgatttttccgaccggcgtagtttcagctttttaacactcgatattgtataaaacaaagtacactttgtacttgacaaccagtaataggagtaaaaaatatgcttgccttgcctaaactaaacgttaattgcaagcaaaatctatcacttttcttaaaaatttattcggaggataa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA02030:AA02031|AA02030:AA02031:threonyl-tRNA synthetase:type III site-specific deoxyribonuclease:->->:1384240..1384477 238 tagttctgacaattaaatgagctgaaattacgctagcaggaatcatcattcaatagatttattgatttttccgaccggcgtagtttcagctttttaacactcgatattgtataaaacaaagtacactttgtacttgacaaccagtaataggagtaaaaaatatgcttgccttgcctaaactaaacgttaattgcaagcaaaatctatcacttttcttaaaaatttattcggaggataa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tagttctgacaattaaatgagctgaaattacgctagcaggaatcatcattcaatagatttattgatttttccgaccggcgtagtttcagctttttaacactcgatattgtataaaacaaagtacactttgtacttgacaaccagtaataggagtaaaaaatatgcttgccttgcctaaactaaacgttaattgcaagcaaaatctatcacttttcttaaaaatttattcggaggataa Predict ORF larger than 30AA ================================================ Protein_Len: 30 Strand: + Start: 147 End: 236 .................................................................................................................................................. M G V K N M L A L P K L N V N C K Q N L S L F L K I Y S E D .. Protein_Len: 45 Strand: - Start: 89 End: 223 ........................................................................................ S K L V R Y Q I F C L V S Q V Q C G T I P T F F I S A K G L S F T L Q L C F R D S K K F M ............... Protein_Len: 42 Strand: - Start: 36 End: 161 ................................... C S D D N L L N I S K E S R R L K L K K V S S I T Y F L T C K T S S L W Y Y S Y F M ............................................................................. tagttctgacaattaaatgagctgaaattacgctagcaggaatcatcattcaatagatttattgatttttccgaccggcgtagtttcagctttttaacactcgatattgtataaaacaaagtacactttgtacttgacaaccagtaataggagtaaaaaatatgcttgccttgcctaaactaaacgttaattgcaagcaaaatctatcacttttcttaaaaatttattcggaggataa 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================================================ tagttctgacaattaaatgagctgaaattacgctagcaggaatcatcattcaatagatttattgatttttccgaccggcgtagtttcagctttttaacactcgatattgtataaaacaaagtacactttgtacttgacaaccagtaataggagtaaaaaatatgcttgccttgcctaaactaaacgttaattgcaagcaaaatctatcacttttcttaaaaatttattcggaggataa Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 80 HP_score: -6.3 Tail_Score: -4.77775 Start: 121 End: 133 Full_Region: attactggttgtcaa gtaca aag tgtac tttgttttatacaat ........................................................................................................................gtacaaagtgtac......................................................................................................... Find igs database================================================ Query_seq: AA02030:AA02031|AA02030:AA02031:threonyl-tRNA synthetase:type III site-specific deoxyribonuclease:->->:1384240..1384477 238 tagttctgacaattaaatgagctgaaattacgctagcaggaatcatcattcaatagatttattgatttttccgaccggcgtagtttcagctttttaacactcgatattgtataaaacaaagtacactttgtacttgacaaccagtaataggagtaaaaaatatgcttgccttgcctaaactaaacgttaattgcaagcaaaatctatcacttttcttaaaaatttattcggaggataa Intra-Species Hit: Count: 1 Min: 1 Max: 238 Len: 238 Subject: aact_AA02030_AA02031|threonyl-tRNA synthetase:type III site-specific deoxyribonuclease|POSITIVE:POSITIVE|[1384240, 1384477]|238 HSP 1 e-value: 1.0E-132 bit: 472.0 Len: 238 Query Start:1 Query End:238 Subject Strand: POSITIVE Subject Start: 1 Subject End: 238 tagttctgacaattaaatgagctgaaattacgctagcaggaatcatcattcaatagatttattgatttttccgaccggcgtagtttcagctttttaacactcgatattgtataaaacaaagtacactttgtacttgacaaccagtaataggagtaaaaaatatgcttgccttgcctaaactaaacgttaattgcaagcaaaatctatcacttttcttaaaaatttattcggaggataa tagttctgacaattaaatgagctgaaattacgctagcaggaatcatcattcaatagatttattgatttttccgaccggcgtagtttcagctttttaacactcgatattgtataaaacaaagtacactttgtacttgacaaccagtaataggagtaaaaaatatgcttgccttgcctaaactaaacgttaattgcaagcaaaatctatcacttttcttaaaaatttattcggaggataa Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGUUCUGACAAUUAAAUGAGCUGAAAUUACGCUAGCAGGAAUCAUCAUUCAAUAGAUUUAUUGAUUUUUCCGACCGGCGUAGUUUCAGCUUUUUAACACUCGAUAUUGUAUAAAACAAAGUACACUUUGUACUUGACAACCAGUAAUAGGAGUAAAAAAUAUGCUUGCCUUGCCUAAACUAAACGUUAAUUGCAAGCAAAAUCUAUCACUUUUCUUAAAAAUUUAUUCGGAGGAUAA ...((((((...(((((.(((((((((((((((..(..((((..((((.((....)).....))))..))))..)..)))))))))))))))))))).((((..(((((.........((((((.....)))))).........))))).))))........(((((((..(.....(((.....))).)..)))))))............................))))))..... (-58.17) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUAUCCUCCGAAUAAAUUUUUAAGAAAAGUGAUAGAUUUUGCUUGCAAUUAACGUUUAGUUUAGGCAAGGCAAGCAUAUUUUUUACUCCUAUUACUGGUUGUCAAGUACAAAGUGUACUUUGUUUUAUACAAUAUCGAGUGUUAAAAAGCUGAAACUACGCCGGUCGGAAAAAUCAAUAAAUCUAUUGAAUGAUGAUUCCUGCUAGCGUAAUUUCAGCUCAUUUAAUUGUCAGAACUA ...........................(((((.((((..(((((((....(((.....)))........))))))).)))).)))))..........(((((.....((((((....)))))).....)))))...((..((((((.((((((((.(((((..((.((((..((((..............))))..)))).))..))))).))))))))..))))))..))....... (-56.24) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 304 80 31 205 143 aact:AA01417|5end_probable_4-diphosphocytidyl-2C-methyl-D-erthyritol_synthase_(MEP_cytidyltransferase)_(MCT)_953256..953486_POSITIVE 288 93 68 63 38 aact:AA00944|5end_transcription_elongation_factor_654673..654903_POSITIVE 283 80 31 229 178 aact:AA02507|5end_penicillin-insensitive_murein_endopeptidase_A_1740058..1740288_POSITIVE 280 91 53 190 153 aact:AA00666|5end_hypothetical_protein_457470..457700_POSITIVE 274 111 71 190 148 aact:AA01878|5end_hydroxyacylglutathione_hydrolase_1264831..1265061_POSITIVE 274 100 55 180 147 aact:AA01232|5end_30S_ribosomal_protein_S8_840445..840675_POSITIVE 270 106 61 97 52 aact:AA01448|5end_hypothetical_protein_970208..970438_POSITIVE 268 198 163 226 194 aact:AA00044|5end_formate_dependent_nitrite_reductase,_Fe-S_protein/_anaerobic_DMSO_reductase_B_35340..35570_POSITIVE 267 79 32 176 132 aact:AA01820|5end_high-affinity_zinc_uptake_system_ATP-binding_protein_1225103..1225333_POSITIVE 265 80 31 115 67 aact:AA01019|5end_conserved_hypothetical_protein_712223..712453_POSITIVE 264 117 72 110 68 aact:AA01477|5end_type_I_restriction_enzyme_R_protein_992249..992479_POSITIVE 262 77 31 182 121 aact:AA02893|5end_oligopeptide_transport_system_permease_protein,_N-terminal_2027201..2027431_POSITIVE 256 78 31 218 174 aact:AA00815|5end_conserved_hypothetical_protein_559562..559792_POSITIVE 255 103 63 180 145 aact:AA02827|5end_conserved_hypothetical_protein_1987021..1987251_POSITIVE 254 95 60 166 128 aact:AA00665|5end_plasmid_protein_457195..457425_POSITIVE 253 113 71 231 196 aact:AA01880|5end_N-acetylglucosamine_repressor_1267083..1267313_POSITIVE 252 95 56 51 7 aact:AA01063|5end_conserved_hypothetical_protein_736537..736767_POSITIVE 248 109 69 77 39 aact:AA01973|5end_acetate_kinase_1334424..1334654_POSITIVE 244 91 53 192 155 aact:AA01530|5end_conserved_hypothetical_protein_1027308..1027538_POSITIVE 243 80 34 147 91 aact:AA01072|5end_GTP_pyrophosphokinase_(ppGpp_synthetase_I)_/_ATP:GTP3'-pyrophosphotransferase_742934..743164_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 317 91 51 71 27 aact:AA02030|3end_threonyl-tRNA_synthetase_1384179..1384329_POSITIVE 285 197 156 139 101 aact:AA00396|3end_conserved_hypothetical_protein_265952..266102_POSITIVE 274 100 55 140 107 aact:AA01231|3end_30S_ribosomal_protein_S14_840485..840635_POSITIVE 270 106 61 135 90 aact:AA01446|3end_conserved_hypothetical_protein_970326..970476_POSITIVE 267 79 32 71 27 aact:AA01818|3end_high-affinity_zinc_uptake_system_membrane_protein_1225078..1225228_POSITIVE 265 80 31 112 64 aact:AA01018|3end_conserved_hypothetical_protein_(possible_transcriptional_regulator)_712300..712450_POSITIVE 262 77 31 78 17 aact:AA02892|3end_oligopeptide_ABC_transporter,_periplasmic-binding_protein_2027177..2027327_POSITIVE 249 109 66 151 112 aact:AA02052|3end_probable_exodeoxyribonuclease_VII_small_subunit_1398909..1399059_POSITIVE 246 79 35 131 74 aact:AA01598|3end_conserved_hypothetical_protein_1079966..1080116_POSITIVE 244 91 53 64 27 aact:AA01528|3end_probable_oxidoreductase_1027260..1027410_POSITIVE 243 117 75 42 2 aact:AA01476|3end_hypothetical_protein_992261..992411_POSITIVE 243 80 34 134 78 aact:AA01071|3end_RNA_methyltransferase_743001..743151_POSITIVE 239 78 38 120 76 aact:AA01868|3end_biotin_synthetase_1256626..1256776_POSITIVE 239 80 33 135 88 aact:AA01700|3end_hexulose-6-phosphate_isomerase_1155472..1155622_POSITIVE 239 116 71 113 62 aact:AA01450|3end_hypothetical_protein_972032..972182_POSITIVE 235 50 7 105 50 aact:AA01842|3end_conserved_hypothetical_protein_1238467..1238617_POSITIVE 233 107 71 136 108 aact:AA01615|3end_lipoprotein_releasing_system_transmembrane_1092447..1092597_POSITIVE 232 79 31 78 29 aact:AA01861|3end_phosphomethylpyrimidine_kinase_1252107..1252257_POSITIVE 232 80 31 60 11 aact:AA00333|3end_1-phosphofructokinase;_tagatose-6-phosphate_kinase_226561..226711_POSITIVE 231 210 162 60 9 aact:AA00980|3end_hypothetical_protein_685409..685559_POSITIVE