Origin IGS: aaaaaagtttgggatacaggcgcttcctgatgccgtcgggcatgttcggttaccgacctgtagacggcaaaggtaggaaaaaatggcggttggcgattggcggttgcctattaatttttatct .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 agataaaaattaataggcaaccgccaatcgccaaccgccattttttcctacctttgccgtctacaggtcggtaaccgaacatgcccgacggcatcaggaagcgcctgtatcccaaactttttt Mask Tandem Repeat Region ================================================ aaaaaagtttgggatacaggcgcttcctgatgccgtcgggcatgttcggttaccgacctgtagacggcaaaggtaggaaaaaatggcggttggcgattggcggttgcctattaatttttatct Find is-nt database================================================ Query_seq: TF2879:TF2880|TF2879:TF2880:tRNA (guanine-N-1)-methyltransferase:phenylalanyl-tRNA synthetase, beta subunit:->->:3069069..3069191 123 aaaaaagtttgggatacaggcgcttcctgatgccgtcgggcatgttcggttaccgacctgtagacggcaaaggtaggaaaaaatggcggttggcgattggcggttgcctattaatttttatct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF2879:TF2880|TF2879:TF2880:tRNA (guanine-N-1)-methyltransferase:phenylalanyl-tRNA synthetase, beta subunit:->->:3069069..3069191 123 aaaaaagtttgggatacaggcgcttcctgatgccgtcgggcatgttcggttaccgacctgtagacggcaaaggtaggaaaaaatggcggttggcgattggcggttgcctattaatttttatct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF2879:TF2880|TF2879:TF2880:tRNA (guanine-N-1)-methyltransferase:phenylalanyl-tRNA synthetase, beta subunit:->->:3069069..3069191 123 aaaaaagtttgggatacaggcgcttcctgatgccgtcgggcatgttcggttaccgacctgtagacggcaaaggtaggaaaaaatggcggttggcgattggcggttgcctattaatttttatct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aaaaaagtttgggatacaggcgcttcctgatgccgtcgggcatgttcggttaccgacctgtagacggcaaaggtaggaaaaaatggcggttggcgattggcggttgcctattaatttttatct Predict ORF larger than 30AA ================================================ Protein_Len: 38 Strand: + Start: 9 End: 122 ........ M G Y R R F L M P S G M F G Y R P V D G K G R K K W R L A I G G C L L I F I . Protein_Len: 37 Strand: - Start: 1 End: 111 F F N P I C A S G S A T P C T R N G V Q L R C L Y S F I A T P S Q R N G M ............ aaaaaagtttgggatacaggcgcttcctgatgccgtcgggcatgttcggttaccgacctgtagacggcaaaggtaggaaaaaatggcggttggcgattggcggttgcctattaatttttatct 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================================================ aaaaaagtttgggatacaggcgcttcctgatgccgtcgggcatgttcggttaccgacctgtagacggcaaaggtaggaaaaaatggcggttggcgattggcggttgcctattaatttttatct Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF2879:TF2880|TF2879:TF2880:tRNA (guanine-N-1)-methyltransferase:phenylalanyl-tRNA synthetase, beta subunit:->->:3069069..3069191 123 aaaaaagtttgggatacaggcgcttcctgatgccgtcgggcatgttcggttaccgacctgtagacggcaaaggtaggaaaaaatggcggttggcgattggcggttgcctattaatttttatct Intra-Species Hit: Count: 1 Min: 1 Max: 123 Len: 123 Subject: tfor_TF2879_TF2880|tRNA (guanine-N-1)-methyltransferase:phenylalanyl-tRNA synthetase, beta subunit|POSITIVE:POSITIVE|[3069069,3069191]|123 HSP 1 e-value: 6.0E-64 bit: 244.0 Len: 123 Query Start:1 Query End:123 Subject Strand: POSITIVE Subject Start: 1 Subject End: 123 aaaaaagtttgggatacaggcgcttcctgatgccgtcgggcatgttcggttaccgacctgtagacggcaaaggtaggaaaaaatggcggttggcgattggcggttgcctattaatttttatct aaaaaagtttgggatacaggcgcttcctgatgccgtcgggcatgttcggttaccgacctgtagacggcaaaggtaggaaaaaatggcggttggcgattggcggttgcctattaatttttatct Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAAAAAGUUUGGGAUACAGGCGCUUCCUGAUGCCGUCGGGCAUGUUCGGUUACCGACCUGUAGACGGCAAAGGUAGGAAAAAAUGGCGGUUGGCGAUUGGCGGUUGCCUAUUAAUUUUUAUCU ..(((((((((((...(((.(((.(((((.(((((((..(((.((.(((...))))).))).)))))))....)))))...(((.((.....)).))).))).)))))))..))))))).... (-38.90) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGAUAAAAAUUAAUAGGCAACCGCCAAUCGCCAACCGCCAUUUUUUCCUACCUUUGCCGUCUACAGGUCGGUAACCGAACAUGCCCGACGGCAUCAGGAAGCGCCUGUAUCCCAAACUUUUUU ............((((((....((.....))............((((((.....(((((((..((..((((...))))...))...)))))))..)))))).))))))............... (-30.20) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 458 55 11 63 19 tfor:TF2809|5end_conserved_hypothetical_protein;_possible_translation_factor_(SUA5)_2999832..3000062_POSITIVE 431 49 10 207 148 tfor:TF1853|5end_homoserine_O-succinyltransferase_2006470..2006700_POSITIVE 429 68 21 86 39 tfor:TF1240|5end_conserved_hypothetical_protein_1324304..1324534_POSITIVE 428 70 21 226 184 tfor:TF0997|5end_conserved_hypothetical_protein_1051475..1051705_POSITIVE 426 69 21 76 14 tfor:TF2594|5end_hypothetical_protein_2764176..2764406_POSITIVE 422 69 22 215 161 tfor:TF1830|5end_3-isopropylmalate_dehydratase,_large_subunit_1978888..1979118_POSITIVE 419 79 32 183 127 tfor:TF2410|5end_possible_endo-1,4-beta-xylanase_2584000..2584230_POSITIVE 419 99 51 228 176 tfor:TF0813|5end_glycosyl_hydrolase,_secreted_870677..870907_POSITIVE 417 69 21 226 168 tfor:TF2672|5end_lipoic_acid_synthetase_2846086..2846316_POSITIVE 417 60 11 220 164 tfor:TF0558|5end_conserved_hypothetical_protein_590116..590346_POSITIVE 411 56 15 66 23 tfor:TF1797|5end_SNF_family_transporter_1937136..1937366_POSITIVE 409 57 11 64 10 tfor:TF2748|5end_ATP-dependent_Clp_protease_2930459..2930689_POSITIVE 409 67 21 65 8 tfor:TF2267|5end_lysozyme-related_protein_2434869..2435099_POSITIVE 409 100 53 154 106 tfor:TF0065|5end_conserved_hypothetical_protein_70274..70504_POSITIVE 409 58 11 142 85 tfor:TF0048|5end_phosphohydrolase,_Icc_family_54048..54278_POSITIVE 403 109 61 168 109 tfor:TF1689|5end_conserved_hypothetical_protein_1805068..1805298_POSITIVE 400 60 18 155 114 tfor:TF1835|5end_possible_dihydroxy-acid_dehydratase_1984201..1984431_POSITIVE 397 66 21 56 8 tfor:TF0244|5end_DNA_recombination_protein_274683..274913_POSITIVE 393 68 21 187 136 tfor:TF2782|5end_conserved_hypothetical_protein_2966455..2966685_POSITIVE 393 68 22 220 169 tfor:TF0998|5end_[acyl-carrier-protein]_S-malonyltransferase_1052019..1052249_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 458 55 11 60 16 tfor:TF2808|3end_bacterial_sugar_transferase_2999909..3000059_POSITIVE 437 69 21 60 3 tfor:TF2879|3end_tRNA_(guanine-N-1)-methyltransferase_3069008..3069158_POSITIVE 415 69 26 62 5 tfor:TF2593|3end_amino_acid_transport_protein_2764242..2764392_POSITIVE 411 56 15 66 23 tfor:TF1796|3end_ABC_transporter,_ATP-binding_protein_1937216..1937366_POSITIVE 409 67 21 65 8 tfor:TF2266|3end_transfer_region-related_protein,_TraQ_2434949..2435099_POSITIVE 409 58 11 123 66 tfor:TF0047|3end_hypothetical_protein_54109..54259_POSITIVE 402 69 21 72 22 tfor:TF1683|3end_conserved_hypothetical_protein_1796511..1796661_POSITIVE 397 66 21 51 3 tfor:TF0243|3end_conserved_hypothetical_protein_274758..274908_POSITIVE 396 108 62 111 62 tfor:TF1848|3end_conserved_hypothetical_protein_1997944..1998094_POSITIVE 391 62 22 58 18 tfor:TF0776|3end_ABC_transporter,_permease_component_826173..826323_POSITIVE 388 57 11 100 46 tfor:TF1167|3end_hypothetical_protein_1248932..1249082_POSITIVE 382 74 31 71 18 tfor:TF1621|3end_DNA_replication_and_repair_protein_RecF_1736473..1736623_POSITIVE 373 75 33 75 20 tfor:TF1251|3end_riboflavin_synthase,_alpha_subunit_1334423..1334573_POSITIVE 371 110 64 140 98 tfor:TF2272|3end_conserved_hypothetical_protein_2436514..2436664_POSITIVE 367 80 32 59 3 tfor:TF0958|3end_conserved_hypothetical_protein_1004909..1005059_POSITIVE 363 108 65 130 94 tfor:TF1814|3end_conserved_hypothetical_protein;_possible_biotin_synthase_related_domain_containing_protein_1956670..1956820_POSITIVE 362 105 72 59 29 tfor:TF1948|3end_conserved_hypothetical_protein_2096795..2096945_POSITIVE 362 66 21 140 91 tfor:TF1729|3end_aspartokinase_1854718..1854868_POSITIVE 360 70 22 71 12 tfor:TF1680|3end_peptide_chain_release_factor_3_1794969..1795119_POSITIVE 360 70 22 104 39 tfor:TF0686|3end_hypothetical_protein_732950..733100_POSITIVE