Origin IGS: tagtttcatccaattcaaaaagatcccgttcgttcagcgcgggattttttattttggaacttgctaggttattgagaaaaaatcggataaaaaaagtgcctcacaggaggcactactcggaaagcaaaatatgtttggctatttatatagcacttgtttttgttgcggctaaggatactcaattaatgactggaaggcaaaccattattgcgaataaatgtgacataacctactgttttacaaaaaatttaccttaactaaagttcgctttacaa .........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.........1.........2.........3.........4.........5.........6.........7.........8.........9 ttgtaaagcgaactttagttaaggtaaattttttgtaaaacagtaggttatgtcacatttattcgcaataatggtttgccttccagtcattaattgagtatccttagccgcaacaaaaacaagtgctatataaatagccaaacatattttgctttccgagtagtgcctcctgtgaggcactttttttatccgattttttctcaataacctagcaagttccaaaataaaaaatcccgcgctgaacgaacgggatctttttgaattggatgaaacta Mask Tandem Repeat Region ================================================ tagtttcatccaattcaaaaagatcccgttcgttcagcgcgggattttttattttggaacttgctaggttattgagaaaaaatcggataaaaaaagtgcctcacaggaggcactactcggaaagcaaaatatgtttggctatttatatagcacttgtttttgttgcggctaaggatactcaattaatgactggaaggcaaaccattattgcgaataaatgtgacataacctactgttttacaaaaaatttaccttaactaaagttcgctttacaa Find is-nt database================================================ Query_seq: AA00652:AA00653|AA00652:AA00653:arginyl-tRNA synthetase (arginine--tRNA ligase):hypothetical protein:->->:447547..447821 275 tagtttcatccaattcaaaaagatcccgttcgttcagcgcgggattttttattttggaacttgctaggttattgagaaaaaatcggataaaaaaagtgcctcacaggaggcactactcggaaagcaaaatatgtttggctatttatatagcacttgtttttgttgcggctaaggatactcaattaatgactggaaggcaaaccattattgcgaataaatgtgacataacctactgttttacaaaaaatttaccttaactaaagttcgctttacaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA00652:AA00653|AA00652:AA00653:arginyl-tRNA synthetase (arginine--tRNA ligase):hypothetical protein:->->:447547..447821 275 tagtttcatccaattcaaaaagatcccgttcgttcagcgcgggattttttattttggaacttgctaggttattgagaaaaaatcggataaaaaaagtgcctcacaggaggcactactcggaaagcaaaatatgtttggctatttatatagcacttgtttttgttgcggctaaggatactcaattaatgactggaaggcaaaccattattgcgaataaatgtgacataacctactgttttacaaaaaatttaccttaactaaagttcgctttacaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA00652:AA00653|AA00652:AA00653:arginyl-tRNA synthetase (arginine--tRNA ligase):hypothetical protein:->->:447547..447821 275 tagtttcatccaattcaaaaagatcccgttcgttcagcgcgggattttttattttggaacttgctaggttattgagaaaaaatcggataaaaaaagtgcctcacaggaggcactactcggaaagcaaaatatgtttggctatttatatagcacttgtttttgttgcggctaaggatactcaattaatgactggaaggcaaaccattattgcgaataaatgtgacataacctactgttttacaaaaaatttaccttaactaaagttcgctttacaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tagtttcatccaattcaaaaagatcccgttcgttcagcgcgggattttttattttggaacttgctaggttattgagaaaaaatcggataaaaaaagtgcctcacaggaggcactactcggaaagcaaaatatgtttggctatttatatagcacttgtttttgttgcggctaaggatactcaattaatgactggaaggcaaaccattattgcgaataaatgtgacataacctactgttttacaaaaaatttaccttaactaaagttcgctttacaa Predict ORF larger than 30AA ================================================ Protein_Len: 33 Strand: + Start: 71 End: 169 ...................................................................... M E K K S D K K S A S Q E A L L G K Q N M F G Y L Y S T C F C C G .......................................................................................................... Protein_Len: 60 Strand: + Start: 51 End: 254 .................................................. M L E L A R L L R K N R I K K V P H R R H Y S E S K I C L A I Y I A L V F V A A K D T Q L M T G R Q T I I A N K C D I T ..................... Protein_Len: 37 Strand: - Start: 72 End: 182 ....................................................................... Q S F I P Y F F H R V P P V V R F A F Y T Q S N I Y C K N K N R S L I S M ............................................................................................. tagtttcatccaattcaaaaagatcccgttcgttcagcgcgggattttttattttggaacttgctaggttattgagaaaaaatcggataaaaaaagtgcctcacaggaggcactactcggaaagcaaaatatgtttggctatttatatagcacttgtttttgttgcggctaaggatactcaattaatgactggaaggcaaaccattattgcgaataaatgtgacataacctactgttttacaaaaaatttaccttaactaaagttcgctttacaa 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================================================ tagtttcatccaattcaaaaagatcccgttcgttcagcgcgggattttttattttggaacttgctaggttattgagaaaaaatcggataaaaaaagtgcctcacaggaggcactactcggaaagcaaaatatgtttggctatttatatagcacttgtttttgttgcggctaaggatactcaattaatgactggaaggcaaaccattattgcgaataaatgtgacataacctactgttttacaaaaaatttaccttaactaaagttcgctttacaa Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 100 HP_score: -11.3 Tail_Score: -5.63504 Start: 96 End: 113 Full_Region: tttgctttccgagta gtgcctc ctgt gaggcac tttttttatccgatt ...............................................................................................gtgcctcctgtgaggcac.................................................................................................................................................................. Find igs database================================================ Query_seq: AA00652:AA00653|AA00652:AA00653:arginyl-tRNA synthetase (arginine--tRNA ligase):hypothetical protein:->->:447547..447821 275 tagtttcatccaattcaaaaagatcccgttcgttcagcgcgggattttttattttggaacttgctaggttattgagaaaaaatcggataaaaaaagtgcctcacaggaggcactactcggaaagcaaaatatgtttggctatttatatagcacttgtttttgttgcggctaaggatactcaattaatgactggaaggcaaaccattattgcgaataaatgtgacataacctactgttttacaaaaaatttaccttaactaaagttcgctttacaa Intra-Species Hit: Count: 1 Min: 1 Max: 275 Len: 275 Subject: aact_AA00652_AA00653|arginyl-tRNA synthetase (arginine--tRNA ligase):hypothetical protein|POSITIVE:POSITIVE|[447547,447821]|275 HSP 1 e-value: 1.0E-142 bit: 504.0 Len: 275 Query Start:1 Query End:275 Subject Strand: POSITIVE Subject Start: 1 Subject End: 275 tagtttcatccaattcaaaaagatcccgttcgttcagcgcgggattttttattttggaacttgctaggttattgagaaaaaatcggatnnnnnnngtgcctcacaggaggcactactcggaaagcaaaatatgtttggctatttatatagcacttgtttttgttgcggctaaggatactcaattaatgactggaaggcaaaccattattgcgaataaatgtgacataacctactgttttacaaaaaatttaccttaactaaagttcgctttacaa tagtttcatccaattcaaaaagatcccgttcgttcagcgcgggattttttattttggaacttgctaggttattgagaaaaaatcggataaaaaaagtgcctcacaggaggcactactcggaaagcaaaatatgtttggctatttatatagcacttgtttttgttgcggctaaggatactcaattaatgactggaaggcaaaccattattgcgaataaatgtgacataacctactgttttacaaaaaatttaccttaactaaagttcgctttacaa Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGUUUCAUCCAAUUCAAAAAGAUCCCGUUCGUUCAGCGCGGGAUUUUUUAUUUUGGAACUUGCUAGGUUAUUGAGAAAAAAUCGGAUAAAAAAAGUGCCUCACAGGAGGCACUACUCGGAAAGCAAAAUAUGUUUGGCUAUUUAUAUAGCACUUGUUUUUGUUGCGGCUAAGGAUACUCAAUUAAUGACUGGAAGGCAAACCAUUAUUGCGAAUAAAUGUGACAUAACCUACUGUUUUACAAAAAAUUUACCUUAACUAAAGUUCGCUUUACAA ........(((((....((((((((((((.(.....).))))))))))))...)))))..(((((.(((((((((......(((..........((((((((....)))))))).((..(...((((..........(((((....)))))...........))))..)..)))))......)))))))))....))))).....((..((((((...(((((.(((......))).))))).....((((.......))))))))))..))... (-66.70) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUGUAAAGCGAACUUUAGUUAAGGUAAAUUUUUUGUAAAACAGUAGGUUAUGUCACAUUUAUUCGCAAUAAUGGUUUGCCUUCCAGUCAUUAAUUGAGUAUCCUUAGCCGCAACAAAAACAAGUGCUAUAUAAAUAGCCAAACAUAUUUUGCUUUCCGAGUAGUGCCUCCUGUGAGGCACUUUUUUUAUCCGAUUUUUUCUCAAUAACCUAGCAAGUUCCAAAAUAAAAAAUCCCGCGCUGAACGAACGGGAUCUUUUUGAAUUGGAUGAAACUA (((.((((((((.....(((((((..(((((.(((.....))).)))))..........((((((...(((((..(........)..)))))..)))))).)))))))..............(.(((((....))))))........)))))))).)))..((((((((....))))))))..(((((((((((((.............................((((.((((((..(.....)..)))))).)))).)))))))))))))... (-59.61) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 345 56 17 207 154 aact:AA02575|5end_transmembrane_protein_1793749..1793979_POSITIVE 312 139 105 37 1 aact:AA01695|5end_carbohydrate_transport_protein_1150445..1150675_POSITIVE 299 68 25 74 27 aact:AA01547|5end_deoxyribose-phosphate_aldolase_1036271..1036501_POSITIVE 296 139 95 137 92 aact:AA00207|5end_D-ribose_ABC_transporter,_ATP-binding_protein_/_galactoside_ABC_transporter,_ATP-binding_protein_142592..142822_POSITIVE 291 54 14 217 181 aact:AA01903|5end_hypothetical_protein_1283983..1284213_POSITIVE 290 66 23 223 185 aact:AA01961|5end_lipid_A_export_ATP-binding/permease_protein_msbA_1324405..1324635_POSITIVE 290 68 21 80 30 aact:AA00816|5end_lacZ_expression_regulator_560900..561130_POSITIVE 289 44 10 231 192 aact:AA00521|5end_phosphatase_357744..357974_POSITIVE 287 44 5 139 97 aact:AA01351|5end_probable_sulfatase_914343..914573_POSITIVE 286 137 94 57 17 aact:AA01830|5end_2,3-cyclic-nucleotide_2-phosphodiesterase_1231556..1231786_POSITIVE 286 198 152 90 39 aact:AA01177|5end_beta-ketoacyl-ACP_synthase_IV_806732..806962_POSITIVE 280 50 4 173 128 aact:AA02509|5end_chorismate_synthase_1740952..1741182_POSITIVE 280 125 82 115 64 aact:AA00849|5end_MraZ_cell_division_protein_586038..586268_POSITIVE 279 64 21 226 182 aact:AA02823|5end_exodeoxyribonuclease_V_gamma_chain_1982703..1982933_POSITIVE 277 74 32 65 10 aact:AA01577|5end_conserved_hypothetical_transmembrane_protein_1063084..1063314_POSITIVE 277 67 21 225 172 aact:AA01451|5end_D-xylulokinase_971935..972165_POSITIVE 277 67 21 150 97 aact:AA01450|5end_hypothetical_protein_971860..972090_POSITIVE 277 174 132 184 137 aact:AA00512|5end_conserved_hypothetical_protein_354411..354641_POSITIVE 276 77 36 65 24 aact:AA02963|5end_opacity_associated_protein_B_2072302..2072532_POSITIVE 276 67 21 213 169 aact:AA01801|5end_malate_dehydrogenase_1213358..1213588_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 368 58 11 82 28 aact:AA00652|3end_arginyl-tRNA_synthetase_(arginine--tRNA_ligase)_447486..447636_POSITIVE 300 69 28 84 44 aact:AA02919|3end_CagE_protein_(tranport-associated)_2045301..2045451_POSITIVE 296 139 95 123 78 aact:AA00205|3end_ribose_ABC_transporter_protein_/_high_affinity_D-ribose_transport_protein_142658..142808_POSITIVE 287 130 84 83 27 aact:AA01508|3end_anaerobic_C4-dicarboxylate_transporter_1014597..1014747_POSITIVE 287 44 5 71 29 aact:AA01349|3end_NAD(P)H_nitroreductase/H-flavin_oxidoreductase_914355..914505_POSITIVE 286 137 94 83 43 aact:AA01829|3end_hypothetical_protein_1231662..1231812_POSITIVE 280 50 4 148 103 aact:AA02507|3end_penicillin-insensitive_murein_endopeptidase_A_1741007..1741157_POSITIVE 279 208 161 117 70 aact:AA01547|3end_deoxyribose-phosphate_aldolase_1037019..1037169_POSITIVE 276 67 21 51 7 aact:AA01799|3end_polysacharide_biosynthesis_protein_(Orf14_of_cluster)_1213276..1213426_POSITIVE 276 234 193 43 8 aact:AA00034|3end_NTP-binding_protein_27344..27494_POSITIVE 271 120 82 51 18 aact:AA00092|3end_serine_transporter_69716..69866_POSITIVE 267 69 21 109 63 aact:AA01384|3end_hypothetical_protein_935540..935690_POSITIVE 265 139 91 61 13 aact:AA01873|3end_mannose-6-phosphate_isomerase_1261940..1262090_POSITIVE 263 47 3 69 25 aact:AA02350|3end_possible_lipoprotein_1609179..1609329_POSITIVE 262 199 166 143 114 aact:AA00163|3end_type_IV_prepilin_peptidase;_type_II_secretion_pathway_related_protein_116772..116922_POSITIVE 260 58 11 81 23 aact:AA02410|3end_cell_division_protein_1656543..1656693_POSITIVE 255 69 21 77 28 aact:AA00786|3end_possible_protein-export_membrane_protein_540402..540552_POSITIVE 254 40 2 146 97 aact:AA00506|3end_ATP-dependent_RNA_helicase_protein_353089..353239_POSITIVE 253 68 22 109 52 aact:AA00894|3end_selenium_transferase_(Cysteinyl-tRNA(Sec)_selenium_transferase)_621350..621500_POSITIVE 251 219 177 124 83 aact:AA00198|3end_conserved_hypothetical_protein_(Cytosine_deaminase-related_enzyme)_138643..138793_POSITIVE