Origin IGS: agctaatgattacgggttaatctcgcaaacagacagggtgaggaagcaggcaattcatgaactgcctgcggccggaaggtgtgttgatgcagccatcattcgctcttaagggtgataacgtttaagtgatatcttcatgcaagtcatctttggcgtcgtccggttgctgttttgttcgattaaaattatcatgtaactttgccgc .........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 gcggcaaagttacatgataattttaatcgaacaaaacagcaaccggacgacgccaaagatgacttgcatgaagatatcacttaaacgttatcacccttaagagcgaatgatggctgcatcaacacaccttccggccgcaggcagttcatgaattgcctgcttcctcaccctgtctgtttgcgagattaacccgtaatcattagct Mask Tandem Repeat Region ================================================ agctaatgattacgggttaatctcgcaaacagacagggtgaggaagcaggcaattcatgaactgcctgcggccggaaggtgtgttgatgcagccatcattcgctcttaagggtgataacgtttaagtgatatcttcatgcaagtcatctttggcgtcgtccggttgctgttttgttcgattaaaattatcatgtaactttgccgc Find is-nt database================================================ Query_seq: TF0095:TF0096|TF0095:TF0096:methyltransferase:tRNA-guanine transglycosylase (queuine tRNA-ribosyltransferase):->->:106906..107110 205 agctaatgattacgggttaatctcgcaaacagacagggtgaggaagcaggcaattcatgaactgcctgcggccggaaggtgtgttgatgcagccatcattcgctcttaagggtgataacgtttaagtgatatcttcatgcaagtcatctttggcgtcgtccggttgctgttttgttcgattaaaattatcatgtaactttgccgc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF0095:TF0096|TF0095:TF0096:methyltransferase:tRNA-guanine transglycosylase (queuine tRNA-ribosyltransferase):->->:106906..107110 205 agctaatgattacgggttaatctcgcaaacagacagggtgaggaagcaggcaattcatgaactgcctgcggccggaaggtgtgttgatgcagccatcattcgctcttaagggtgataacgtttaagtgatatcttcatgcaagtcatctttggcgtcgtccggttgctgttttgttcgattaaaattatcatgtaactttgccgc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF0095:TF0096|TF0095:TF0096:methyltransferase:tRNA-guanine transglycosylase (queuine tRNA-ribosyltransferase):->->:106906..107110 205 agctaatgattacgggttaatctcgcaaacagacagggtgaggaagcaggcaattcatgaactgcctgcggccggaaggtgtgttgatgcagccatcattcgctcttaagggtgataacgtttaagtgatatcttcatgcaagtcatctttggcgtcgtccggttgctgttttgttcgattaaaattatcatgtaactttgccgc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 agctaatgattacgggttaatctcgcaaacagacagggtgaggaagcaggcaattcatgaactgcctgcggccggaaggtgtgttgatgcagccatcattcgctcttaagggtgataacgtttaagtgatatcttcatgcaagtcatctttggcgtcgtccggttgctgttttgttcgattaaaattatcatgtaactttgccgc Predict ORF larger than 30AA ================================================ Protein_Len: 30 Strand: - Start: 6 End: 92 ..... * H N R T L R A F L C P S S A P L E H V A Q P R F T H Q H M ................................................................................................................. agctaatgattacgggttaatctcgcaaacagacagggtgaggaagcaggcaattcatgaactgcctgcggccggaaggtgtgttgatgcagccatcattcgctcttaagggtgataacgtttaagtgatatcttcatgcaagtcatctttggcgtcgtccggttgctgttttgttcgattaaaattatcatgtaactttgccgc Predict Promoter with matrix: RpoD-15 score > 80================================================ Predict Promoter with matrix: RpoD-16 score > 80================================================ Predict Promoter with matrix: RpoD-17 score > 80================================================ PromScan Matrix: RpoD-17 Strand: + Score: 83 Start: 163 End: 192 ..................................................................................................................................................................GTTGCTGTTTTGTTCGATTAAAATTATCAT............. Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ agctaatgattacgggttaatctcgcaaacagacagggtgaggaagcaggcaattcatgaactgcctgcggccggaaggtgtgttgatgcagccatcattcgctcttaagggtgataacgtttaagtgatatcttcatgcaagtcatctttggcgtcgtccggttgctgttttgttcgattaaaattatcatgtaactttgccgc Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 79 HP_score: -11.8 Tail_Score: -3.1637 Start: 46 End: 69 Full_Region: acacaccttccggcc gcaggcagtt catg aattgcctgc ttcctcaccctgtct .............................................gcaggcagttcatgaattgcctgc........................................................................................................................................ Find igs database================================================ Query_seq: TF0095:TF0096|TF0095:TF0096:methyltransferase:tRNA-guanine transglycosylase (queuine tRNA-ribosyltransferase):->->:106906..107110 205 agctaatgattacgggttaatctcgcaaacagacagggtgaggaagcaggcaattcatgaactgcctgcggccggaaggtgtgttgatgcagccatcattcgctcttaagggtgataacgtttaagtgatatcttcatgcaagtcatctttggcgtcgtccggttgctgttttgttcgattaaaattatcatgtaactttgccgc Intra-Species Hit: Count: 1 Min: 1 Max: 205 Len: 205 Subject: tfor_TF0095_TF0096|methyltransferase:tRNA-guanine transglycosylase (queuine tRNA-ribosyltransferase)|POSITIVE:POSITIVE|[106906, 107110]|205 HSP 1 e-value: 1.0E-112 bit: 406.0 Len: 205 Query Start:1 Query End:205 Subject Strand: POSITIVE Subject Start: 1 Subject End: 205 agctaatgattacgggttaatctcgcaaacagacagggtgaggaagcaggcaattcatgaactgcctgcggccggaaggtgtgttgatgcagccatcattcgctcttaagggtgataacgtttaagtgatatcttcatgcaagtcatctttggcgtcgtccggttgctgttttgttcgattaaaattatcatgtaactttgccgc agctaatgattacgggttaatctcgcaaacagacagggtgaggaagcaggcaattcatgaactgcctgcggccggaaggtgtgttgatgcagccatcattcgctcttaagggtgataacgtttaagtgatatcttcatgcaagtcatctttggcgtcgtccggttgctgttttgttcgattaaaattatcatgtaactttgccgc Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGCUAAUGAUUACGGGUUAAUCUCGCAAACAGACAGGGUGAGGAAGCAGGCAAUUCAUGAACUGCCUGCGGCCGGAAGGUGUGUUGAUGCAGCCAUCAUUCGCUCUUAAGGGUGAUAACGUUUAAGUGAUAUCUUCAUGCAAGUCAUCUUUGGCGUCGUCCGGUUGCUGUUUUGUUCGAUUAAAAUUAUCAUGUAACUUUGCCGC .....(((((......((((((..((((((((...((..((....(((((((.((....)).))))))).((((.((((((..((((((.((..(((((((((((....))))))..........)))))..)).))).)))..)))))))))).))..)).....))).)))))..))))))....)))))............. (-58.30) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GCGGCAAAGUUACAUGAUAAUUUUAAUCGAACAAAACAGCAACCGGACGACGCCAAAGAUGACUUGCAUGAAGAUAUCACUUAAACGUUAUCACCCUUAAGAGCGAAUGAUGGCUGCAUCAACACACCUUCCGGCCGCAGGCAGUUCAUGAAUUGCCUGCUUCCUCACCCUGUCUGUUUGCGAGAUUAACCCGUAAUCAUUAGCU .......(((((.(((((.((.((((((.....((((((((.(((((...(((....((((.(((.....))).)))).(((((..((....))..))))).)))..(((((....)))))........)))))..((((((((((....))))))))))..........)).))))))....))))))...)).)))))))))) (-52.40) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 458 105 62 226 167 tfor:TF0971|5end_conserved_hypothetical_protein_1021355..1021585_POSITIVE 415 79 31 143 85 tfor:TF3088|5end_conserved_hypothetical_protein_3322512..3322742_POSITIVE 405 70 24 110 50 tfor:TF1067|5end_conserved_hypothetical_protein_1136867..1137097_POSITIVE 399 80 36 130 89 tfor:TF0995|5end_conserved_hypothetical_protein_1049695..1049925_POSITIVE 395 103 63 176 131 tfor:TF2092|5end_ribonuclease_III_2260949..2261179_POSITIVE 387 105 64 164 121 tfor:TF2160|5end_magnesium_chelatase,_subunit_I_2335974..2336204_POSITIVE 383 105 62 58 8 tfor:TF1296|5end_possible_DNA-binding_protein,_histone-like_family_1378432..1378662_POSITIVE 383 120 71 112 57 tfor:TF0610|5end_conserved_hypothetical_protein;_possible_phosphatidylglycerophosphate_synthase_643460..643690_POSITIVE 382 82 48 188 159 tfor:TF1327|5end_L-fucose_permease_1405790..1406020_POSITIVE 382 74 32 88 35 tfor:TF0340|5end_hypothetical_protein_363893..364123_POSITIVE 381 180 133 191 126 tfor:TF2261|5end_transfer_region-related_protein,_TraM_2430496..2430726_POSITIVE 375 80 35 45 2 tfor:TF0217|5end_50S_ribosomal_protein_L35_242920..243150_POSITIVE 374 87 41 197 147 tfor:TF2454|5end_D-alanyl-D-alanine_dipeptidase_2631259..2631489_POSITIVE 373 145 102 221 180 tfor:TF1654|5end_hypothetical_protein_1768473..1768703_POSITIVE 373 58 13 188 140 tfor:TF0776|5end_ABC_transporter,_permease_component_824855..825085_POSITIVE 371 97 62 73 30 tfor:TF2895|5end_hypothetical_protein_3083936..3084166_POSITIVE 371 97 52 157 104 tfor:TF1317|5end_hypothetical_protein_1391378..1391608_POSITIVE 369 174 135 49 12 tfor:TF2794|5end_possible_transcriptional_regulator_2979938..2980168_POSITIVE 369 104 64 200 153 tfor:TF0587|5end_outer_membrane_protein_618319..618549_POSITIVE 368 108 61 129 75 tfor:TF3158|5end_inner_membrane_protein_3393729..3393959_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 415 79 31 133 75 tfor:TF3087|3end_conserved_hypothetical_protein_3322582..3322732_POSITIVE 399 80 36 137 96 tfor:TF0994|3end_maltose_O-acetyltransferase_1049782..1049932_POSITIVE 391 107 62 84 33 tfor:TF1917|3end_hypothetical_protein_2070244..2070394_POSITIVE 382 105 62 75 8 tfor:TF0214|3end_DNA_recombination_and_repair_protein,_RecN_241571..241721_POSITIVE 371 103 61 112 62 tfor:TF1592|3end_hypothetical_protein_1708557..1708707_POSITIVE 370 90 41 73 8 tfor:TF2665|3end_hypothetical_protein_2842235..2842385_POSITIVE 370 90 41 101 36 tfor:TF2666|3end_hypothetical_protein_2842263..2842413_POSITIVE 369 90 42 66 18 tfor:TF0095|3end_methyltransferase_106845..106995_POSITIVE 368 108 61 107 53 tfor:TF3157|3end_sodium/solute_symporter_3393787..3393937_POSITIVE 368 109 64 56 1 tfor:TF3153|3end_conserved_hypothetical_protein_3389324..3389474_POSITIVE 368 177 134 117 75 tfor:TF1738|3end_outer_membrane_protein_1866946..1867096_POSITIVE 360 89 42 146 93 tfor:TF2033|3end_conserved_hypothetical_protein_2193321..2193471_POSITIVE 360 96 54 120 81 tfor:TF0055|3end_integrase_fragment,_N-terminal_59223..59373_POSITIVE 354 93 53 148 109 tfor:TF0141|3end_exodeoxyribonuclease_VII,_large_subunit_149830..149980_POSITIVE 351 89 48 77 18 tfor:TF3107|3end_hypothetical_protein_3338736..3338886_POSITIVE 350 90 45 101 46 tfor:TF2668|3end_hypothetical_protein_2842733..2842883_POSITIVE 350 90 45 73 18 tfor:TF2667|3end_hypothetical_protein_2842705..2842855_POSITIVE 350 90 45 73 18 tfor:TF2664|3end_hypothetical_protein_2841730..2841880_POSITIVE 350 101 64 48 3 tfor:TF0304|3end_peptidyl-prolyl_cis-trans_isomerase_330360..330510_POSITIVE 349 79 37 67 27 tfor:TF3029|3end_membrane_peptidase_3253758..3253908_POSITIVE