Origin IGS: tgattaaaaatacgcctgaccaatagtcaaaatcgattatgtttttgaggttgctcgctttatactagcgggcaatttatatcgggacaaatacgatgttattaattaaaaatctgcgaattttttataacattatccgttattgcaatgaatccgtttcattgttcgcccttcttttttcaattaataaacgatcctcttttgaggattttttctatttgcgcccatcacattttccaatttgcctaccacggagtaatc .........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 gattactccgtggtaggcaaattggaaaatgtgatgggcgcaaatagaaaaaatcctcaaaagaggatcgtttattaattgaaaaaagaagggcgaacaatgaaacggattcattgcaataacggataatgttataaaaaattcgcagatttttaattaataacatcgtatttgtcccgatataaattgcccgctagtataaagcgagcaacctcaaaaacataatcgattttgactattggtcaggcgtatttttaatca Mask Tandem Repeat Region ================================================ tgattaaaaatacgcctgaccaatagtcaaaatcgattatgtttttgaggttgctcgctttatactagcgggcaatttatatcgggacaaatacgatgttattaattaaaaatctgcgaattttttataacattatccgttattgcaatgaatccgtttcattgttcgcccttcttttttcaattaataaacgatcctcttttgaggattttttctatttgcgcccatcacattttccaatttgcctaccacggagtaatc Find is-nt database================================================ Query_seq: AA01005:AA01006|AA01005:AA01006:conserved hypothetical protein:conserved hypothetical protein (possible cytosine deaminas):->->:702259..702519 261 tgattaaaaatacgcctgaccaatagtcaaaatcgattatgtttttgaggttgctcgctttatactagcgggcaatttatatcgggacaaatacgatgttattaattaaaaatctgcgaattttttataacattatccgttattgcaatgaatccgtttcattgttcgcccttcttttttcaattaataaacgatcctcttttgaggattttttctatttgcgcccatcacattttccaatttgcctaccacggagtaatc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA01005:AA01006|AA01005:AA01006:conserved hypothetical protein:conserved hypothetical protein (possible cytosine deaminas):->->:702259..702519 261 tgattaaaaatacgcctgaccaatagtcaaaatcgattatgtttttgaggttgctcgctttatactagcgggcaatttatatcgggacaaatacgatgttattaattaaaaatctgcgaattttttataacattatccgttattgcaatgaatccgtttcattgttcgcccttcttttttcaattaataaacgatcctcttttgaggattttttctatttgcgcccatcacattttccaatttgcctaccacggagtaatc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA01005:AA01006|AA01005:AA01006:conserved hypothetical protein:conserved hypothetical protein (possible cytosine deaminas):->->:702259..702519 261 tgattaaaaatacgcctgaccaatagtcaaaatcgattatgtttttgaggttgctcgctttatactagcgggcaatttatatcgggacaaatacgatgttattaattaaaaatctgcgaattttttataacattatccgttattgcaatgaatccgtttcattgttcgcccttcttttttcaattaataaacgatcctcttttgaggattttttctatttgcgcccatcacattttccaatttgcctaccacggagtaatc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tgattaaaaatacgcctgaccaatagtcaaaatcgattatgtttttgaggttgctcgctttatactagcgggcaatttatatcgggacaaatacgatgttattaattaaaaatctgcgaattttttataacattatccgttattgcaatgaatccgtttcattgttcgcccttcttttttcaattaataaacgatcctcttttgaggattttttctatttgcgcccatcacattttccaatttgcctaccacggagtaatc Predict ORF larger than 30AA ================================================ Protein_Len: 60 Strand: + Start: 75 End: 260 .......................................................................... M Y I G T N T M L L I K N L R I F Y N I I R Y C N E S V S L F A L L F S I N K R S S F E D F F Y L R P S H F P I C L P R . Protein_Len: 50 Strand: + Start: 112 End: 261 ............................................................................................................... M C E F F I T L S V I A M N P F H C S P F F F Q L I N D P L L R I F S I C A H H I F Q F A Y H G V I tgattaaaaatacgcctgaccaatagtcaaaatcgattatgtttttgaggttgctcgctttatactagcgggcaatttatatcgggacaaatacgatgttattaattaaaaatctgcgaattttttataacattatccgttattgcaatgaatccgtttcattgttcgcccttcttttttcaattaataaacgatcctcttttgaggattttttctatttgcgcccatcacattttccaatttgcctaccacggagtaatc 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================================================ tgattaaaaatacgcctgaccaatagtcaaaatcgattatgtttttgaggttgctcgctttatactagcgggcaatttatatcgggacaaatacgatgttattaattaaaaatctgcgaattttttataacattatccgttattgcaatgaatccgtttcattgttcgcccttcttttttcaattaataaacgatcctcttttgaggattttttctatttgcgcccatcacattttccaatttgcctaccacggagtaatc Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 77 HP_score: -7.9 Tail_Score: -4.03234 Start: 51 End: 75 Full_Region: ATTATGTTTTTGAGG TTGCTCGCT TTATACT AGCGGGCAA TTTATATCGGGACAA ..................................................TTGCTCGCTTTATACTAGCGGGCAA.......................................................................................................................................................................................... TransTerm Strand: + Conf: 100 HP_score: -6.7 Tail_Score: -5.56264 Start: 195 End: 208 Full_Region: TCAATTAATAAACGA TCCTC TTTT GAGGA TTTTTTCTATTTGCG ..................................................................................................................................................................................................TCCTCTTTTGAGGA..................................................... Find igs database================================================ Query_seq: AA01005:AA01006|AA01005:AA01006:conserved hypothetical protein:conserved hypothetical protein (possible cytosine deaminas):->->:702259..702519 261 tgattaaaaatacgcctgaccaatagtcaaaatcgattatgtttttgaggttgctcgctttatactagcgggcaatttatatcgggacaaatacgatgttattaattaaaaatctgcgaattttttataacattatccgttattgcaatgaatccgtttcattgttcgcccttcttttttcaattaataaacgatcctcttttgaggattttttctatttgcgcccatcacattttccaatttgcctaccacggagtaatc Intra-Species Hit: Count: 1 Min: 1 Max: 261 Len: 261 Subject: aact_AA01005_AA01006|conserved hypothetical protein:conserved hypothetical protein (possible cytosine deaminas)|POSITIVE:POSITIVE|[702259,702519]|261 HSP 1 e-value: 1.0E-146 bit: 517.0 Len: 261 Query Start:1 Query End:261 Subject Strand: POSITIVE Subject Start: 1 Subject End: 261 tgattaaaaatacgcctgaccaatagtcaaaatcgattatgtttttgaggttgctcgctttatactagcgggcaatttatatcgggacaaatacgatgttattaattaaaaatctgcgaattttttataacattatccgttattgcaatgaatccgtttcattgttcgcccttcttttttcaattaataaacgatcctcttttgaggattttttctatttgcgcccatcacattttccaatttgcctaccacggagtaatc tgattaaaaatacgcctgaccaatagtcaaaatcgattatgtttttgaggttgctcgctttatactagcgggcaatttatatcgggacaaatacgatgttattaattaaaaatctgcgaattttttataacattatccgttattgcaatgaatccgtttcattgttcgcccttcttttttcaattaataaacgatcctcttttgaggattttttctatttgcgcccatcacattttccaatttgcctaccacggagtaatc Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAUUAAAAAUACGCCUGACCAAUAGUCAAAAUCGAUUAUGUUUUUGAGGUUGCUCGCUUUAUACUAGCGGGCAAUUUAUAUCGGGACAAAUACGAUGUUAUUAAUUAAAAAUCUGCGAAUUUUUUAUAACAUUAUCCGUUAUUGCAAUGAAUCCGUUUCAUUGUUCGCCCUUCUUUUUUCAAUUAAUAAACGAUCCUCUUUUGAGGAUUUUUUCUAUUUGCGCCCAUCACAUUUUCCAAUUUGCCUACCACGGAGUAAUC ..........(((.((((.....(((.((((...((..((((.....((((((((((((.......)))))))))))).....(((.((((((.((..((((((((((((((...((((.......(((((.......))))).((((((((.....))))))))))))......))))).)))))))))..(((((((....)))))))...))))))))..)))...))))..))...)))).))).)).)).)))... (-62.20) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GAUUACUCCGUGGUAGGCAAAUUGGAAAAUGUGAUGGGCGCAAAUAGAAAAAAUCCUCAAAAGAGGAUCGUUUAUUAAUUGAAAAAAGAAGGGCGAACAAUGAAACGGAUUCAUUGCAAUAACGGAUAAUGUUAUAAAAAAUUCGCAGAUUUUUAAUUAAUAACAUCGUAUUUGUCCCGAUAUAAAUUGCCCGCUAGUAUAAAGCGAGCAACCUCAAAAACAUAAUCGAUUUUGACUAUUGGUCAGGCGUAUUUUUAAUCA (((((......((((.((.((((((....((((.((((.(((((((((....((((((....))))))...((((((((((((((.......((((((((((((.....)))))))..((((((.....))))))......)))))...))))))))))))))..)).))))))))))).))))..((((.((((.......)))).))))..............)))))).((((.....)))).)).))))..))))). (-62.80) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 355 170 145 137 106 aact:AA00515|5end_hypothetical_protein_355730..355960_POSITIVE 307 259 221 55 18 aact:AA02092|5end_glycogen_synthase_1424674..1424904_POSITIVE 294 254 211 170 125 aact:AA00533|5end_conserved_hypothetical_protein_365323..365553_POSITIVE 292 238 191 166 123 aact:AA01760|5end_hydrogenase_isoenzymes_formation_protein_1189787..1190017_POSITIVE 289 183 142 110 52 aact:AA02091|5end_hypothetical_protein_1424441..1424671_POSITIVE 284 57 13 231 186 aact:AA02306|5end_DNA-directed_RNA_polymerase,_omega_chain_1576947..1577177_POSITIVE 282 59 13 70 24 aact:AA01070|5end_DNA_repair_protein_740920..741150_POSITIVE 275 86 42 51 4 aact:AA01626|5end_N_utilization_substance_protein_B_1100444..1100674_POSITIVE 275 86 41 129 81 aact:AA01527|5end_hypothetical_protein_1025704..1025934_POSITIVE 272 254 220 142 103 aact:AA02823|5end_exodeoxyribonuclease_V_gamma_chain_1982703..1982933_POSITIVE 271 258 221 176 148 aact:AA01335|5end_primosomal_protein_N'_901993..902223_POSITIVE 271 57 14 73 28 aact:AA00993|5end_possible_D-tyrosyl-tRNA(Tyr)_deacylase_694488..694718_POSITIVE 267 88 45 68 24 aact:AA01673|5end_riboflavin_synthase,_alpha_chain_1131477..1131707_POSITIVE 267 96 53 48 1 aact:AA00491|5end_haemin_storage_system_341500..341730_POSITIVE 265 98 53 210 170 aact:AA01556|5end_ABC_transporter_ATP-binding_protein_1044218..1044448_POSITIVE 264 85 46 42 1 aact:AA02591|5end_conserved_hypothetical_protein_(possible_membrane_protein)_1801583..1801813_POSITIVE 264 257 219 98 53 aact:AA01260|5end_hypothetical_protein_855550..855780_POSITIVE 263 60 13 60 2 aact:AA00642|5end_conserved_hypothetical_protein_440134..440364_POSITIVE 262 257 221 43 6 aact:AA02682|5end_hydrogenase_maturation_protein_1866304..1866534_POSITIVE 261 254 218 208 171 aact:AA02368|5end_conserved_hypothetical_protein_1623544..1623774_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 325 97 51 59 16 aact:AA01005|3end_conserved_hypothetical_protein_702198..702348_POSITIVE 289 183 142 138 80 aact:AA02090|3end_glucose-1-phosphate_adenylyltransferase_1424549..1424699_POSITIVE 280 252 217 32 1 aact:AA01857|3end_glutamate-ammonia-ligase_adenylyltransferase_1250357..1250507_POSITIVE 272 254 220 134 95 aact:AA02821|3end_ribosomal-protein-alanine_acetyltransferase_1982775..1982925_POSITIVE 271 57 14 73 28 aact:AA00992|3end_ribonuclease_BN_694568..694718_POSITIVE 269 90 42 59 6 aact:AA01675|3end_probable_multidrug_resistance_protein;_multidrug-efflux_transporter_1133589..1133739_POSITIVE 264 257 219 69 24 aact:AA01565|3end_conserved_hypothetical_protein_1050967..1051117_POSITIVE 261 253 211 151 107 aact:AA00531|3end_DNA_polymerase_I_365385..365535_POSITIVE 260 72 31 125 84 aact:AA01981|3end_4-alpha-glucanotransferase_1339354..1339504_POSITIVE 259 83 49 47 7 aact:AA02705|3end_hypothetical_protein_1886928..1887078_POSITIVE 256 88 56 43 16 aact:AA02489|3end_hypothetical_protein_1726629..1726779_POSITIVE 256 54 12 73 32 aact:AA00332|3end_PTS_system,_fructose-specific_IIA/FPr_component_(diphosphoryl_transfer_protein)_225617..225767_POSITIVE 254 58 14 143 105 aact:AA01794|3end_glycine_cleavage_system_transcription_activator_1210690..1210840_POSITIVE 252 256 221 151 118 aact:AA00408|3end_SUN_protein_(FMU_protein)_273688..273838_POSITIVE 251 174 142 106 62 aact:AA00131|3end_transcriptional_regulator_(MerR_family)_94984..95134_POSITIVE 250 254 213 137 86 aact:AA00539|3end_ADP-L-glycero-D-manno-heptose-6-epimerase_370047..370197_POSITIVE 248 227 192 104 69 aact:AA02338|3end_conserved_hypothetical_protein;_possible_integral_membrane_protein_1598885..1599035_POSITIVE 246 58 12 143 97 aact:AA02939|3end_phosphoserine_phosphatase_2057902..2058052_POSITIVE 242 225 191 150 120 aact:AA01759|3end_hydrogenase_isoenzymes_formation_protein_1189864..1190014_POSITIVE 242 59 13 59 5 aact:AA00969|3end_conserved_hypothetical_protein_(possible_NADH_pyrophosphatase)_676206..676356_POSITIVE