Origin IGS: gattaatcgtttttttttgaatgagattcgtttttataatttggtttgctcttttatcttattattagataggttttcgctgcattttcgatcgaatagcaatgaaaaccaatctcttttatctcgtttattagatagttttatttaatacaaaataccatgctgctgcaaagtaaatacttttttctgaagaaacatcccctaattagagaaaaatttctttaatagaaaaaatcctttcgttca .........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 tgaacgaaaggattttttctattaaagaaatttttctctaattaggggatgtttcttcagaaaaaagtatttactttgcagcagcatggtattttgtattaaataaaactatctaataaacgagataaaagagattggttttcattgctattcgatcgaaaatgcagcgaaaacctatctaataataagataaaagagcaaaccaaattataaaaacgaatctcattcaaaaaaaaacgattaatc Mask Tandem Repeat Region ================================================ gattaatcgtttttttttgaatgagattcgtttttataatttggtttgctcttttatcttattattagataggttttcgctgcattttcgatcgaatagcaatgaaaaccaatctcttttatctcgtttattagatagttttatttaatacaaaataccatgctgctgcaaagtaaatacttttttctgaagaaacatcccctaattagagaaaaatttctttaatagaaaaaatcctttcgttca Find is-nt database================================================ Query_seq: TF0394:TF0395|TF0394:TF0395:oxaloacetate decarboxylase, alpha subunit (pyruvate carboxylase, C-terminal domain):L-lactate permease:->->:415310..415555 246 gattaatcgtttttttttgaatgagattcgtttttataatttggtttgctcttttatcttattattagataggttttcgctgcattttcgatcgaatagcaatgaaaaccaatctcttttatctcgtttattagatagttttatttaatacaaaataccatgctgctgcaaagtaaatacttttttctgaagaaacatcccctaattagagaaaaatttctttaatagaaaaaatcctttcgttca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF0394:TF0395|TF0394:TF0395:oxaloacetate decarboxylase, alpha subunit (pyruvate carboxylase, C-terminal domain):L-lactate permease:->->:415310..415555 246 gattaatcgtttttttttgaatgagattcgtttttataatttggtttgctcttttatcttattattagataggttttcgctgcattttcgatcgaatagcaatgaaaaccaatctcttttatctcgtttattagatagttttatttaatacaaaataccatgctgctgcaaagtaaatacttttttctgaagaaacatcccctaattagagaaaaatttctttaatagaaaaaatcctttcgttca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF0394:TF0395|TF0394:TF0395:oxaloacetate decarboxylase, alpha subunit (pyruvate carboxylase, C-terminal domain):L-lactate permease:->->:415310..415555 246 gattaatcgtttttttttgaatgagattcgtttttataatttggtttgctcttttatcttattattagataggttttcgctgcattttcgatcgaatagcaatgaaaaccaatctcttttatctcgtttattagatagttttatttaatacaaaataccatgctgctgcaaagtaaatacttttttctgaagaaacatcccctaattagagaaaaatttctttaatagaaaaaatcctttcgttca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gattaatcgtttttttttgaatgagattcgtttttataatttggtttgctcttttatcttattattagataggttttcgctgcattttcgatcgaatagcaatgaaaaccaatctcttttatctcgtttattagatagttttatttaatacaaaataccatgctgctgcaaagtaaatacttttttctgaagaaacatcccctaattagagaaaaatttctttaatagaaaaaatcctttcgttca Predict ORF larger than 30AA ================================================ Protein_Len: 48 Strand: + Start: 2 End: 145 . M N R F F L N E I R F Y N L V C S F I L L L D R F S L H F R S N S N E N Q S L L S R L L D S F I ..................................................................................................... Protein_Len: 36 Strand: - Start: 37 End: 144 .................................... L K T Q E K I K N N S L N E S C K R D F L L S F W D R K D R K N S L K M ...................................................................................................... gattaatcgtttttttttgaatgagattcgtttttataatttggtttgctcttttatcttattattagataggttttcgctgcattttcgatcgaatagcaatgaaaaccaatctcttttatctcgtttattagatagttttatttaatacaaaataccatgctgctgcaaagtaaatacttttttctgaagaaacatcccctaattagagaaaaatttctttaatagaaaaaatcctttcgttca 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================================================ gattaatcgtttttttttgaatgagattcgtttttataatttggtttgctcttttatcttattattagataggttttcgctgcattttcgatcgaatagcaatgaaaaccaatctcttttatctcgtttattagatagttttatttaatacaaaataccatgctgctgcaaagtaaatacttttttctgaagaaacatcccctaattagagaaaaatttctttaatagaaaaaatcctttcgttca Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF0394:TF0395|TF0394:TF0395:oxaloacetate decarboxylase, alpha subunit (pyruvate carboxylase, C-terminal domain):L-lactate permease:->->:415310..415555 246 gattaatcgtttttttttgaatgagattcgtttttataatttggtttgctcttttatcttattattagataggttttcgctgcattttcgatcgaatagcaatgaaaaccaatctcttttatctcgtttattagatagttttatttaatacaaaataccatgctgctgcaaagtaaatacttttttctgaagaaacatcccctaattagagaaaaatttctttaatagaaaaaatcctttcgttca Intra-Species Hit: Count: 1 Min: 19 Max: 246 Len: 228 Subject: tfor_TF0394_TF0395|oxaloacetate decarboxylase, alpha subunit (pyruvate carboxylase, C-terminal domain):L-lactate permease|POSITIVE:POSITIVE|[415310,415555]|246 HSP 1 e-value: 1.0E-126 bit: 452.0 Len: 228 Query Start:19 Query End:246 Subject Strand: POSITIVE Subject Start: 19 Subject End: 246 ..................gaatgagattcgtttttataatttggtttgctcttttatcttattattagataggttttcgctgcattttcgatcgaatagcaatgaaaaccaatctcttttatctcgtttattagatagttttatttaatacaaaataccatgctgctgcaaagtaaatacttttttctgaagaaacatcccctaattagagaaaaatttctttaatagaaaaaatcctttcgttca ..................gaatgagattcgtttttataatttggtttgctcttttatcttattattagataggttttcgctgcattttcgatcgaatagcaatgaaaaccaatctcttttatctcgtttattagatagttttatttaatacaaaataccatgctgctgcaaagtaaatacttttttctgaagaaacatcccctaattagagaaaaatttctttaatagaaaaaatcctttcgttca Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GAAUGAGAUUCGUUUUUAUAAUUUGGUUUGCUCUUUUAUCUUAUUAUUAGAUAGGUUUUCGCUGCAUUUUCGAUCGAAUAGCAAUGAAAACCAAUCUCUUUUAUCUCGUUUAUUAGAUAGUUUUAUUUAAUACAAAAUACCAUGCUGCUGCAAAGUAAAUACUUUUUUCUGAAGAAACAUCCCCUAAUUAGAGAAAAAUUUCUUUAAUAGAAAAAAUCCUUUCGUUCA ((((((((...((((((.......((..((.(((((........(((((((((((((((((.(((...(((....)))..))).))))))))........((((((........))))))...))))))))).....(((..(((....)))..))).............)))))..))..))...(((((((((....)))))))))...))))))..)))))))). (-45.70) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAACGAAAGGAUUUUUUCUAUUAAAGAAAUUUUUCUCUAAUUAGGGGAUGUUUCUUCAGAAAAAAGUAUUUACUUUGCAGCAGCAUGGUAUUUUGUAUUAAAUAAAACUAUCUAAUAAACGAGAUAAAAGAGAUUGGUUUUCAUUGCUAUUCGAUCGAAAAUGCAGCGAAAACCUAUCUAAUAAUAAGAUAAAAGAGCAAACCAAAUUAUAAAAACGAAUCUCAUUC ...((((((...((((((((....(((((((..((((((....)))))).))))))).)))))))).....((((.(((....))).))))))))))............(((((........)))))...(((((((((((((.((((..(((....)))...)))).)))))))(((((.......)))))..........................)))))).... (-45.30) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 327 89 49 69 27 tfor:TF2241|5end_ATP-dependent_DNA_helicase_2415401..2415631_POSITIVE 297 76 37 229 182 tfor:TF2663|5end_hypothetical_protein_2837152..2837382_POSITIVE 291 66 28 213 177 tfor:TF0416|5end_possible_ATP-binding_protein_433134..433364_POSITIVE 283 110 63 163 125 tfor:TF3096|5end_conserved_hypothetical_protein_3327963..3328193_POSITIVE 274 108 62 65 14 tfor:TF2532|5end_ferric-uptake_regulator_2715146..2715376_POSITIVE 273 70 21 215 155 tfor:TF0204|5end_cation_efflux_system_protein_230618..230848_POSITIVE 271 87 57 103 70 tfor:TF2883|5end_peptidyl-prolyl_cis-trans_isomerase_3074321..3074551_POSITIVE 269 92 54 222 171 tfor:TF2741|5end_ATP-dependent_DNA_helicase_RecQ_2921882..2922112_POSITIVE 264 96 52 186 137 tfor:TF2122|5end_NAD-specific_glutamate_dehydrogenase_2292734..2292964_POSITIVE 263 108 61 193 157 tfor:TF2583|5end_possible_ABC_transporter,__permease_component_2750206..2750436_POSITIVE 262 82 54 28 4 tfor:TF1314|5end_conserved_hypothetical_protein_1389719..1389949_POSITIVE 254 92 55 204 178 tfor:TF2820|5end_argininosuccinate_synthetase_3009876..3010106_POSITIVE 247 66 26 56 7 tfor:TF2912|5end_hypothetical_protein_3106508..3106738_POSITIVE 246 98 53 58 18 tfor:TF2128|5end_3-oxoacyl-(acyl-carrier_protein)_synthase_2304258..2304488_POSITIVE 244 104 61 160 111 tfor:TF2970|5end_hypothetical_protein_3178410..3178640_POSITIVE 242 168 144 79 54 tfor:TF2661|5end_hypothetical_protein_2833509..2833739_POSITIVE 242 67 23 198 153 tfor:TF0696|5end_3-oxoacyl-(acyl-carrier-protein)_reductase_739936..740166_POSITIVE 240 109 62 62 10 tfor:TF2419|5end_conserved_hypothetical_protein;_possible_DNA_uptake-related_protein_2598358..2598588_POSITIVE 239 87 53 212 174 tfor:TF2819|5end_N-acetyl-gamma-glutamylphosphate_reductase_3008905..3009135_POSITIVE 239 178 142 69 24 tfor:TF2635|5end_ABC_transporter,_ATP-binding_protein/permease_component_2804294..2804524_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 313 99 51 146 98 tfor:TF2662|3end_hypothetical_protein_2837131..2837281_POSITIVE 291 66 28 127 91 tfor:TF0414|3end_N-ethylammeline_chlorohydrolase_433128..433278_POSITIVE 271 87 57 103 70 tfor:TF2882|3end_conserved_hypothetical_protein_3074401..3074551_POSITIVE 264 96 52 132 83 tfor:TF2120|3end_holliday_junction_endonuclease_2292760..2292910_POSITIVE 261 108 63 151 115 tfor:TF3095|3end_ABC_transporter,_ATP-binding_protein_3328033..3328183_POSITIVE 247 66 26 108 59 tfor:TF2911|3end_hypothetical_protein_3106640..3106790_POSITIVE 244 104 61 147 98 tfor:TF2968|3end_hypothetical_protein_3178477..3178627_POSITIVE 244 104 61 138 89 tfor:TF2969|3end_hypothetical_protein_3178468..3178618_POSITIVE 242 168 144 30 5 tfor:TF2660|3end_hypothetical_protein_2833540..2833690_POSITIVE 242 110 62 92 38 tfor:TF2184|3end_conserved_hypothetical_protein_2357043..2357193_POSITIVE 238 108 61 63 1 tfor:TF3087|3end_conserved_hypothetical_protein_3322582..3322732_POSITIVE 229 133 91 149 108 tfor:TF1090|3end_hypothetical_protein_1159360..1159510_POSITIVE 228 99 53 150 112 tfor:TF2088|3end_heptosyltransferase_protein_2258725..2258875_POSITIVE 225 76 43 35 2 tfor:TF1456|3end_GMP_synthase_1543287..1543437_POSITIVE 225 184 142 49 6 tfor:TF0821|3end_hypothetical_protein_880195..880345_POSITIVE 225 184 142 68 25 tfor:TF0370|3end_hypothetical_protein_386317..386467_POSITIVE 223 87 46 149 100 tfor:TF2887|3end_phosphomannomutase/phosphoglucomutase_3077792..3077942_POSITIVE 223 100 53 65 17 tfor:TF0382|3end_transcription_termination_factor_405228..405378_POSITIVE 222 100 54 117 72 tfor:TF2189|3end_conserved_hypothetical_protein_2364884..2365034_POSITIVE 220 99 51 95 44 tfor:TF3119|3end_conserved_hypothetical_protein_3353132..3353282_POSITIVE