Origin IGS: tttttctcctttaagactaaaaatgtgaaaaaatgcttgcgttagagtaaactctaaggtgtaaactgcctgtcatcttgatgaatcaagccgattgcgtcaagttcattttatcaattagttatgaaggaatagcg .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 cgctattccttcataactaattgataaaatgaacttgacgcaatcggcttgattcatcaagatgacaggcagtttacaccttagagtttactctaacgcaagcattttttcacatttttagtcttaaaggagaaaaa Mask Tandem Repeat Region ================================================ tttttctcctttaagactaaaaatgtgaaaaaatgcttgcgttagagtaaactctaaggtgtaaactgcctgtcatcttgatgaatcaagccgattgcgtcaagttcattttatcaattagttatgaaggaatagcg Find is-nt database================================================ Query_seq: AA01113:AA01114|AA01113:AA01114:transcriptional regulator (merR family):alcohol dehydrogenase, class III; glutathione-dependent formaldehyde dehydrogenase:->->:765310..765446 137 tttttctcctttaagactaaaaatgtgaaaaaatgcttgcgttagagtaaactctaaggtgtaaactgcctgtcatcttgatgaatcaagccgattgcgtcaagttcattttatcaattagttatgaaggaatagcg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA01113:AA01114|AA01113:AA01114:transcriptional regulator (merR family):alcohol dehydrogenase, class III; glutathione-dependent formaldehyde dehydrogenase:->->:765310..765446 137 tttttctcctttaagactaaaaatgtgaaaaaatgcttgcgttagagtaaactctaaggtgtaaactgcctgtcatcttgatgaatcaagccgattgcgtcaagttcattttatcaattagttatgaaggaatagcg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA01113:AA01114|AA01113:AA01114:transcriptional regulator (merR family):alcohol dehydrogenase, class III; glutathione-dependent formaldehyde dehydrogenase:->->:765310..765446 137 tttttctcctttaagactaaaaatgtgaaaaaatgcttgcgttagagtaaactctaaggtgtaaactgcctgtcatcttgatgaatcaagccgattgcgtcaagttcattttatcaattagttatgaaggaatagcg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tttttctcctttaagactaaaaatgtgaaaaaatgcttgcgttagagtaaactctaaggtgtaaactgcctgtcatcttgatgaatcaagccgattgcgtcaagttcattttatcaattagttatgaaggaatagcg Predict ORF larger than 30AA ================================================ tttttctcctttaagactaaaaatgtgaaaaaatgcttgcgttagagtaaactctaaggtgtaaactgcctgtcatcttgatgaatcaagccgattgcgtcaagttcattttatcaattagttatgaaggaatagcg 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================================================ tttttctcctttaagactaaaaatgtgaaaaaatgcttgcgttagagtaaactctaaggtgtaaactgcctgtcatcttgatgaatcaagccgattgcgtcaagttcattttatcaattagttatgaaggaatagcg Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 57 HP_score: -4.3 Tail_Score: -3.76789 Start: 77 End: 104 Full_Region: TAAACTGCCTGTCAT CTTGATGAATC AAGCC GATTGCGTCAAG TTCATTTTATCAATT ............................................................................CTTGATGAATCAAGCCGATTGCGTCAAG................................. Find igs database================================================ Query_seq: AA01113:AA01114|AA01113:AA01114:transcriptional regulator (merR family):alcohol dehydrogenase, class III; glutathione-dependent formaldehyde dehydrogenase:->->:765310..765446 137 tttttctcctttaagactaaaaatgtgaaaaaatgcttgcgttagagtaaactctaaggtgtaaactgcctgtcatcttgatgaatcaagccgattgcgtcaagttcattttatcaattagttatgaaggaatagcg Intra-Species Hit: Count: 1 Min: 1 Max: 137 Len: 137 Subject: aact_AA01113_AA01114|transcriptional regulator (merR family):alcohol dehydrogenase, class III; glutathione-dependent formaldehyde dehydrogenase|POSITIVE:POSITIVE|[765310,765446]|137 HSP 1 e-value: 3.0E-72 bit: 272.0 Len: 137 Query Start:1 Query End:137 Subject Strand: POSITIVE Subject Start: 1 Subject End: 137 tttttctcctttaagactaaaaatgtgaaaaaatgcttgcgttagagtaaactctaaggtgtaaactgcctgtcatcttgatgaatcaagccgattgcgtcaagttcattttatcaattagttatgaaggaatagcg tttttctcctttaagactaaaaatgtgaaaaaatgcttgcgttagagtaaactctaaggtgtaaactgcctgtcatcttgatgaatcaagccgattgcgtcaagttcattttatcaattagttatgaaggaatagcg Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUUUCUCCUUUAAGACUAAAAAUGUGAAAAAAUGCUUGCGUUAGAGUAAACUCUAAGGUGUAAACUGCCUGUCAUCUUGAUGAAUCAAGCCGAUUGCGUCAAGUUCAUUUUAUCAAUUAGUUAUGAAGGAAUAGCG ......(((((((.((((((.....(((.((((((...((.((((((....)))))).))................(((((((((((.....)))).)))))))..)))))).))).)))))).)))))))...... (-36.70) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CGCUAUUCCUUCAUAACUAAUUGAUAAAAUGAACUUGACGCAAUCGGCUUGAUUCAUCAAGAUGACAGGCAGUUUACACCUUAGAGUUUACUCUAACGCAAGCAUUUUUUCACAUUUUUAGUCUUAAAGGAGAAAAA .....((((((.(..(((((.(((.((((((..((((.((......(((((..((((....)))))))))...........(((((....))))).)))))))))))).))).....)))))..).))))))..... (-30.30) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 316 108 62 170 129 aact:AA00244|5end_conserved_hypothetical_protein_(possible_deoxyribonuclease,_possible_hydrolase)_172043..172273_POSITIVE 295 118 76 63 25 aact:AA02564|5end_transketolase_N-terminal_section_1786173..1786403_POSITIVE 292 106 67 221 175 aact:AA00370|5end_30S_ribosomal_protein_S10_248620..248850_POSITIVE 291 100 53 196 145 aact:AA01998|5end_16S_rRNA_pseudouridine_synthase_1356842..1357072_POSITIVE 287 107 67 41 4 aact:AA00652|5end_arginyl-tRNA_synthetase_(arginine--tRNA_ligase)_445718..445948_POSITIVE 287 98 54 51 12 aact:AA00202|5end_conserved_hypothetical_protein_(possible_membrane_protein)_140546..140776_POSITIVE 286 110 62 209 149 aact:AA01457|5end_D-xylose_ABC_transporter,_membrane_spanning_protein_977604..977834_POSITIVE 284 75 34 225 180 aact:AA00196|5end_conserved_hypothetical_protein_137378..137608_POSITIVE 282 100 60 204 161 aact:AA02113|5end_conserved_hypothetical_protein_1442183..1442413_POSITIVE 280 101 65 140 97 aact:AA01335|5end_primosomal_protein_N'_901993..902223_POSITIVE 279 100 60 122 75 aact:AA02172|5end_conserved_hypothetical_protein_1486019..1486249_POSITIVE 279 99 58 124 80 aact:AA00424|5end_hypothetical_protein_287123..287353_POSITIVE 274 70 21 192 132 aact:AA01857|5end_glutamate-ammonia-ligase_adenylyltransferase_1247347..1247577_POSITIVE 273 108 66 201 156 aact:AA01565|5end_conserved_hypothetical_protein_1050711..1050941_POSITIVE 272 94 52 64 9 aact:AA02821|5end_ribosomal-protein-alanine_acetyltransferase_1982255..1982485_POSITIVE 270 98 57 227 193 aact:AA01815|5end_probable_sodium-dependent_transmembrane_transport_protein_1222541..1222771_POSITIVE 269 109 66 91 37 aact:AA02973|5end_tyrosine-specific_transport_protein_2077707..2077937_POSITIVE 268 100 58 208 152 aact:AA01172|5end_conserved_hypothetical_protein_803516..803746_POSITIVE 267 100 53 209 161 aact:AA01863|5end_hypothetical_protein_1252011..1252241_POSITIVE 266 97 59 47 2 aact:AA01589|5end_conserved_hypothetical_protein_1070300..1070530_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 316 108 62 137 96 aact:AA00241|3end_formate_acetyltransferase_activating_enzyme_(anaerobic_ribonucleoside-triphosphate_reductase_activating_protein)_172090..172240_POSITIVE 295 118 76 70 32 aact:AA02563|3end_transketolase_C-terminal_section_1786260..1786410_POSITIVE 291 100 53 138 87 aact:AA01997|3end_probable_translation_factor_1356864..1357014_POSITIVE 282 100 60 125 82 aact:AA02112|3end_cell_division_protein_1442184..1442334_POSITIVE 279 100 60 119 72 aact:AA02171|3end_polysialic_acid_capsule_expression_protein_1486096..1486246_POSITIVE 279 99 58 145 101 aact:AA00423|3end_GTP-binding_protein_287224..287374_POSITIVE 274 70 21 150 90 aact:AA01855|3end_transcriptional_regulator,_Cro/CI_family_1247385..1247535_POSITIVE 266 97 59 47 2 aact:AA01588|3end_N-acetylmuramoyl-L-alanine_amidase_II_1070380..1070530_POSITIVE 265 80 35 62 12 aact:AA01565|3end_conserved_hypothetical_protein_1050967..1051117_POSITIVE 263 110 68 112 71 aact:AA02228|3end_regulatory_protein,_sorC_family_1516011..1516161_POSITIVE 263 99 56 87 34 aact:AA02019|3end_hypothetical_protein_1373925..1374075_POSITIVE 263 103 65 109 61 aact:AA01337|3end_cell_division_protein_N_905031..905181_POSITIVE 260 115 77 135 95 aact:AA01830|3end_2,3-cyclic-nucleotide_2-phosphodiesterase_1233609..1233759_POSITIVE 258 100 57 88 50 aact:AA01875|3end_PTS_system,_glucose-specific_enzyme_II,_A_component_1263506..1263656_POSITIVE 258 72 34 67 18 aact:AA01585|3end_tRNA_delta(2)-isopentenylpyrophosphate_1067073..1067223_POSITIVE 256 101 63 43 3 aact:AA00201|3end_prolipoprotein_diacylglyceryl_transferase_140614..140764_POSITIVE 250 76 35 144 97 aact:AA01344|3end_magnesium_and_cobalt_transport_protein_912685..912835_POSITIVE 249 104 66 142 103 aact:AA01472|3end_hypothetical_protein_989158..989308_POSITIVE 248 77 34 150 100 aact:AA02562|3end_adenine_specific_methylase_1785146..1785296_POSITIVE 244 107 64 73 21 aact:AA02400|3end_hypothetical_protein_1651391..1651541_POSITIVE