Origin IGS: cgttttataactattgtatattttttagtcgtgcaaaggtagttattttttaggttcatacttggaatgaagccatgaaaaaccgatccggcagctcgattaagaaatgcagggaaacgctgaacagatgctaagctta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taagcttagcatctgttcagcgtttccctgcatttcttaatcgagctgccggatcggtttttcatggcttcattccaagtatgaacctaaaaaataactacctttgcacgactaaaaaatatacaatagttataaaacg Mask Tandem Repeat Region ================================================ cgttttataactattgtatattttttagtcgtgcaaaggtagttattttttaggttcatacttggaatgaagccatgaaaaaccgatccggcagctcgattaagaaatgcagggaaacgctgaacagatgctaagctta Find is-nt database================================================ Query_seq: TF1496:TF1497|TF1496:TF1497:tyrosyl-tRNA synthetase:GTP-binding protein, Era/ThdF family:->->:1596130..1596268 139 cgttttataactattgtatattttttagtcgtgcaaaggtagttattttttaggttcatacttggaatgaagccatgaaaaaccgatccggcagctcgattaagaaatgcagggaaacgctgaacagatgctaagctta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF1496:TF1497|TF1496:TF1497:tyrosyl-tRNA synthetase:GTP-binding protein, Era/ThdF family:->->:1596130..1596268 139 cgttttataactattgtatattttttagtcgtgcaaaggtagttattttttaggttcatacttggaatgaagccatgaaaaaccgatccggcagctcgattaagaaatgcagggaaacgctgaacagatgctaagctta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF1496:TF1497|TF1496:TF1497:tyrosyl-tRNA synthetase:GTP-binding protein, Era/ThdF family:->->:1596130..1596268 139 cgttttataactattgtatattttttagtcgtgcaaaggtagttattttttaggttcatacttggaatgaagccatgaaaaaccgatccggcagctcgattaagaaatgcagggaaacgctgaacagatgctaagctta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 cgttttataactattgtatattttttagtcgtgcaaaggtagttattttttaggttcatacttggaatgaagccatgaaaaaccgatccggcagctcgattaagaaatgcagggaaacgctgaacagatgctaagctta Predict ORF larger than 30AA ================================================ cgttttataactattgtatattttttagtcgtgcaaaggtagttattttttaggttcatacttggaatgaagccatgaaaaaccgatccggcagctcgattaagaaatgcagggaaacgctgaacagatgctaagctta 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================================================ cgttttataactattgtatattttttagtcgtgcaaaggtagttattttttaggttcatacttggaatgaagccatgaaaaaccgatccggcagctcgattaagaaatgcagggaaacgctgaacagatgctaagctta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF1496:TF1497|TF1496:TF1497:tyrosyl-tRNA synthetase:GTP-binding protein, Era/ThdF family:->->:1596130..1596268 139 cgttttataactattgtatattttttagtcgtgcaaaggtagttattttttaggttcatacttggaatgaagccatgaaaaaccgatccggcagctcgattaagaaatgcagggaaacgctgaacagatgctaagctta Intra-Species Hit: Count: 1 Min: 1 Max: 139 Len: 139 Subject: tfor_TF1496_TF1497|tyrosyl-tRNA synthetase:GTP-binding protein, Era/ThdF family|POSITIVE:POSITIVE|[1596130,1596268]|139 HSP 1 e-value: 2.0E-73 bit: 276.0 Len: 139 Query Start:1 Query End:139 Subject Strand: POSITIVE Subject Start: 1 Subject End: 139 cgttttataactattgtatattttttagtcgtgcaaaggtagttattttttaggttcatacttggaatgaagccatgaaaaaccgatccggcagctcgattaagaaatgcagggaaacgctgaacagatgctaagctta cgttttataactattgtatattttttagtcgtgcaaaggtagttattttttaggttcatacttggaatgaagccatgaaaaaccgatccggcagctcgattaagaaatgcagggaaacgctgaacagatgctaagctta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CGUUUUAUAACUAUUGUAUAUUUUUUAGUCGUGCAAAGGUAGUUAUUUUUUAGGUUCAUACUUGGAAUGAAGCCAUGAAAAACCGAUCCGGCAGCUCGAUUAAGAAAUGCAGGGAAACGCUGAACAGAUGCUAAGCUUA .((((..((.((......(((((((((((((.((...(((..((((((..(((((....))))))))))).)))........(((...)))..)).)))))))))))))((((....).)))...)).))..))))... (-30.30) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAGCUUAGCAUCUGUUCAGCGUUUCCCUGCAUUUCUUAAUCGAGCUGCCGGAUCGGUUUUUCAUGGCUUCAUUCCAAGUAUGAACCUAAAAAAUAACUACCUUUGCACGACUAAAAAAUAUACAAUAGUUAUAAAACG ...(((.(((....))).))).....((.(((.(((......))).))).))...(((((..(.(((.......))).)...)))))......(((((((...(((.................))))))))))...... (-20.83) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 389 122 81 70 27 tfor:TF1927|5end_RNA_polymerase_sigma-70_factor,_ECF_subfamily_2075037..2075267_POSITIVE 386 120 71 135 85 tfor:TF0321|5end_glycosyltransferase_347438..347668_POSITIVE 353 119 72 71 15 tfor:TF0299|5end_hypothetical_protein_324821..325051_POSITIVE 351 100 54 175 127 tfor:TF2655|5end_DNA_topoisomerase_I_2824543..2824773_POSITIVE 342 109 65 62 10 tfor:TF1901|5end_conserved_hypothetical_protein_2056467..2056697_POSITIVE 342 115 83 188 157 tfor:TF1725|5end_hypothetical_protein_1851808..1852038_POSITIVE 340 120 71 97 42 tfor:TF3039|5end_ABC_transporter,_ATP-binding_protein_3265731..3265961_POSITIVE 338 110 62 75 15 tfor:TF1775|5end_oxidoreductase,_Gfo/Idh/MocA_family_1913135..1913365_POSITIVE 320 66 29 100 51 tfor:TF0281|5end_hypothetical_protein_308909..309139_POSITIVE 319 128 81 195 144 tfor:TF1919|5end_hypothetical_protein_2070037..2070267_POSITIVE 319 128 81 155 104 tfor:TF1917|5end_hypothetical_protein_2069997..2070227_POSITIVE 319 129 81 226 179 tfor:TF1249|5end_phosphoglycerate_kinase_(cytosolic_phosphoglycerate_kinase)_1331017..1331247_POSITIVE 318 130 81 191 141 tfor:TF1398|5end_conserved_hypothetical_protein_1471474..1471704_POSITIVE 316 114 72 54 3 tfor:TF0586|5end_conserved_hypothetical_protein_617313..617543_POSITIVE 314 99 57 35 1 tfor:TF2337|5end_conserved_hypothetical_protein_2497997..2498227_POSITIVE 311 130 83 113 61 tfor:TF0964|5end_conserved_hypothetical_protein_1012955..1013185_POSITIVE 311 127 83 227 173 tfor:TF0529|5end_transposase_554776..555006_POSITIVE 310 119 72 178 128 tfor:TF2993|5end_SAM-dependent_methyltransferase_3209636..3209866_POSITIVE 310 122 86 231 187 tfor:TF0789|5end_preprotein_translocase,_secDF_family_841293..841523_POSITIVE 309 130 83 100 45 tfor:TF3122|5end_ABC_transporter,_ATP-binding_protein_3356047..3356277_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 389 122 81 54 11 tfor:TF1925|3end_hypothetical_protein_2075101..2075251_POSITIVE 386 120 71 135 85 tfor:TF0320|3end_dihydroorotase_347518..347668_POSITIVE 351 100 54 111 63 tfor:TF2654|3end_arginyl-tRNA_synthetase_2824559..2824709_POSITIVE 341 119 86 38 7 tfor:TF0298|3end_dipeptidase_324868..325018_POSITIVE 340 120 71 85 30 tfor:TF3038|3end_conserved_hypothetical_protein_3265799..3265949_POSITIVE 329 109 61 47 1 tfor:TF1900|3end_conserved_hypothetical_protein_2056532..2056682_POSITIVE 324 99 53 117 80 tfor:TF2336|3end_conserved_hypothetical_protein_2498159..2498309_POSITIVE 320 66 29 147 98 tfor:TF0280|3end_hypothetical_protein_309036..309186_POSITIVE 319 129 81 57 10 tfor:TF1247|3end_alanyl-tRNA_synthetase_(alanine--tRNA_ligase)_1330928..1331078_POSITIVE 314 127 84 53 1 tfor:TF1948|3end_conserved_hypothetical_protein_2096795..2096945_POSITIVE 313 119 74 57 15 tfor:TF0326|3end_hypothetical_protein_354317..354467_POSITIVE 311 130 83 113 61 tfor:TF0963|3end_acyltransferase_1013035..1013185_POSITIVE 311 127 83 150 96 tfor:TF0528|3end_two-component_system_sensor_histidine_kinase_554779..554929_POSITIVE 309 130 83 97 42 tfor:TF3121|3end_nicotinate_phosphoribosyltransferase_3356124..3356274_POSITIVE 302 118 72 61 7 tfor:TF0360|3end_hypothetical_protein_379538..379688_POSITIVE 299 117 82 67 29 tfor:TF0762|3end_chromate_transport_protein_809755..809905_POSITIVE 298 129 83 109 67 tfor:TF2503|3end_conserved_hypothetical_protein_2680111..2680261_POSITIVE 297 53 19 76 39 tfor:TF2237|3end_two-component_system_response_regulator_involved_in_CTn_2413893..2414043_POSITIVE 295 119 83 46 14 tfor:TF0601|3end_aminomethyltransferase_(glycine_cleavage_system_T_protein)_632243..632393_POSITIVE 291 118 72 62 9 tfor:TF0365|3end_hypothetical_protein_383152..383302_POSITIVE