Origin IGS: tagaaatttgacaatctgcaaatcgcagattgatagcctgtttttattgcttcaatttgcttaaaagcgggcaattcagctagaatatgcccgtttttaatttttatttttaacttctgtgggacgaattttagccgctttgacgtttcttaactgtaaagtgcggtgactttttcatgtatttttt .........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 aaaaaatacatgaaaaagtcaccgcactttacagttaagaaacgtcaaagcggctaaaattcgtcccacagaagttaaaaataaaaattaaaaacgggcatattctagctgaattgcccgcttttaagcaaattgaagcaataaaaacaggctatcaatctgcgatttgcagattgtcaaatttcta Mask Tandem Repeat Region ================================================ tagaaatttgacaatctgcaaatcgcagattgatagcctgtttttattgcttcaatttgcttaaaagcgggcaattcagctagaatatgcccgtttttaatttttatttttaacttctgtgggacgaattttagccgctttgacgtttcttaactgtaaagtgcggtgactttttcatgtatttttt Find is-nt database================================================ Query_seq: AA01878:AA01879|AA01878:AA01879:hydroxyacylglutathione hydrolase:glutamyl-tRNA reductase:->->:1265670..1265856 187 tagaaatttgacaatctgcaaatcgcagattgatagcctgtttttattgcttcaatttgcttaaaagcgggcaattcagctagaatatgcccgtttttaatttttatttttaacttctgtgggacgaattttagccgctttgacgtttcttaactgtaaagtgcggtgactttttcatgtatttttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA01878:AA01879|AA01878:AA01879:hydroxyacylglutathione hydrolase:glutamyl-tRNA reductase:->->:1265670..1265856 187 tagaaatttgacaatctgcaaatcgcagattgatagcctgtttttattgcttcaatttgcttaaaagcgggcaattcagctagaatatgcccgtttttaatttttatttttaacttctgtgggacgaattttagccgctttgacgtttcttaactgtaaagtgcggtgactttttcatgtatttttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA01878:AA01879|AA01878:AA01879:hydroxyacylglutathione hydrolase:glutamyl-tRNA reductase:->->:1265670..1265856 187 tagaaatttgacaatctgcaaatcgcagattgatagcctgtttttattgcttcaatttgcttaaaagcgggcaattcagctagaatatgcccgtttttaatttttatttttaacttctgtgggacgaattttagccgctttgacgtttcttaactgtaaagtgcggtgactttttcatgtatttttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tagaaatttgacaatctgcaaatcgcagattgatagcctgtttttattgcttcaatttgcttaaaagcgggcaattcagctagaatatgcccgtttttaatttttatttttaacttctgtgggacgaattttagccgctttgacgtttcttaactgtaaagtgcggtgactttttcatgtatttttt Predict ORF larger than 30AA ================================================ Protein_Len: 35 Strand: + Start: 46 End: 150 ............................................. M A S I C L K A G N S A R I C P F L I F I F N F C G T N F S R F D V S ..................................... Protein_Len: 35 Strand: - Start: 3 End: 107 .. F N S L R C I A S Q Y G T K I A E I Q K F A P L E A L I H G N K I K M ................................................................................ tagaaatttgacaatctgcaaatcgcagattgatagcctgtttttattgcttcaatttgcttaaaagcgggcaattcagctagaatatgcccgtttttaatttttatttttaacttctgtgggacgaattttagccgctttgacgtttcttaactgtaaagtgcggtgactttttcatgtatttttt 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================================================ tagaaatttgacaatctgcaaatcgcagattgatagcctgtttttattgcttcaatttgcttaaaagcgggcaattcagctagaatatgcccgtttttaatttttatttttaacttctgtgggacgaattttagccgctttgacgtttcttaactgtaaagtgcggtgactttttcatgtatttttt Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 100 HP_score: -12.5 Tail_Score: -5.63236 Start: 61 End: 100 Full_Region: ATTGCTTCAATTTGC TTAAAAGCGGGCAATTC AGCTA GAATATGCCCGTTTTTAA TTTTTATTTTTAACT ............................................................TTAAAAGCGGGCAATTCAGCTAGAATATGCCCGTTTTTAA....................................................................................... TransTerm Strand: - Conf: 64 HP_score: -4.9 Tail_Score: -4.09739 Start: 67 End: 94 Full_Region: aaataaaaattaaaa acgggcatattc tagct gaattgcccgc ttttaagcaaattga ..................................................................acgggcatattctagctgaattgcccgc............................................................................................. TransTerm Strand: - Conf: 68 HP_score: -8.4 Tail_Score: -3.05522 Start: 68 End: 93 Full_Region: aataaaaattaaaaa cgggcatattc tagct gaattgcccg cttttaagcaaattg ...................................................................cgggcatattctagctgaattgcccg.............................................................................................. Find igs database================================================ Query_seq: AA01878:AA01879|AA01878:AA01879:hydroxyacylglutathione hydrolase:glutamyl-tRNA reductase:->->:1265670..1265856 187 tagaaatttgacaatctgcaaatcgcagattgatagcctgtttttattgcttcaatttgcttaaaagcgggcaattcagctagaatatgcccgtttttaatttttatttttaacttctgtgggacgaattttagccgctttgacgtttcttaactgtaaagtgcggtgactttttcatgtatttttt Intra-Species Hit: Count: 1 Min: 1 Max: 187 Len: 187 Subject: aact_AA01878_AA01879|hydroxyacylglutathione hydrolase:glutamyl-tRNA reductase|POSITIVE:POSITIVE|[1265670,1265856]|187 HSP 1 e-value: 7.0E-46 bit: 184.0 Len: 93 Query Start:1 Query End:93 Subject Strand: POSITIVE Subject Start: 1 Subject End: 93 tagaaatttgacaatctgcaaatcgcagattgatagcctgtttttattgcttcaatttgcttaaaagcgggcaattcagctagaatatgcccg.............................................................................................. tagaaatttgacaatctgcaaatcgcagattgatagcctgtttttattgcttcaatttgcttaaaagcgggcaattcagctagaatatgcccg.............................................................................................. HSP 2 e-value: 1.0E-35 bit: 151.0 Len: 76 Query Start:112 Query End:187 Subject Strand: POSITIVE Subject Start: 112 Subject End: 187 ...............................................................................................................aacttctgtgggacgaattttagccgctttgacgtttcttaactgtaaagtgcggtgactttttcatgtatttttt ...............................................................................................................aacttctgtgggacgaattttagccgctttgacgtttcttaactgtaaagtgcggtgactttttcatgtatttttt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGAAAUUUGACAAUCUGCAAAUCGCAGAUUGAUAGCCUGUUUUUAUUGCUUCAAUUUGCUUAAAAGCGGGCAAUUCAGCUAGAAUAUGCCCGUUUUUAAUUUUUAUUUUUAACUUCUGUGGGACGAAUUUUAGCCGCUUUGACGUUUCUUAACUGUAAAGUGCGGUGACUUUUUCAUGUAUUUUUU ..((((((((....((..((....(((((((((.(((..((....)).)))))))))))).((((((((((((((((.....)))).))))))))))))..................))..)).)))))))).(((((....(((((....))).)).....))))).................... (-49.00) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAAAAAUACAUGAAAAAGUCACCGCACUUUACAGUUAAGAAACGUCAAAGCGGCUAAAAUUCGUCCCACAGAAGUUAAAAAUAAAAAUUAAAAACGGGCAUAUUCUAGCUGAAUUGCCCGCUUUUAAGCAAAUUGAAGCAAUAAAAACAGGCUAUCAAUCUGCGAUUUGCAGAUUGUCAAAUUUCUA .........(((((.......((((........(((....)))......))))......))))).....(((((((...........((((((.((((((.((((.....)))))))))).)))))).........(((...........)))..((((((((.....))))))))...))))))). (-38.56) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 347 180 135 127 87 aact:AA01918|5end_anaerobic_C4-dicarboxylate_transporter_1290931..1291161_POSITIVE 335 180 133 66 16 aact:AA00212|5end_ribokinase_146056..146286_POSITIVE 332 169 121 94 41 aact:AA02565|5end_transketolase,_N-terminal_subunit_1786366..1786596_POSITIVE 325 170 122 58 3 aact:AA00479|5end_mannose-specific_phosphotransferase_system_IIC_333475..333705_POSITIVE 323 168 122 76 28 aact:AA00229|5end_DNA_polymerase_III,_alpha_subunit_156863..157093_POSITIVE 320 168 121 184 125 aact:AA00864|5end_conserved_hypothetical_protein_598605..598835_POSITIVE 319 168 121 71 18 aact:AA02745|5end_isopentenyl_monophosphate_kinase_1923279..1923509_POSITIVE 312 180 133 168 110 aact:AA00084|5end_aminotransferase_60814..61044_POSITIVE 308 170 122 206 159 aact:AA00790|5end_recombination_DNA_repair_protein_542455..542685_POSITIVE 307 156 114 97 43 aact:AA00464|5end_conserved_hypothetical_protein_323912..324142_POSITIVE 297 176 131 179 131 aact:AA01401|5end_3-deoxy-D-manno-octulosonic-acid_transferase_946165..946395_POSITIVE 296 176 131 157 115 aact:AA02381|5end_4-hydroxy-2-oxoglutarate_aldolase_1629192..1629422_POSITIVE 293 78 35 57 10 aact:AA01364|5end_hypothetical_protein_922661..922891_POSITIVE 293 98 54 146 104 aact:AA01295|5end_3-dehydroquinate_synthase_877272..877502_POSITIVE 291 168 133 158 113 aact:AA01654|5end_periplasmic_maltose-binding_protein_precursor_1119896..1120126_POSITIVE 291 168 133 58 13 aact:AA01651|5end_hypothetical_protein_1119796..1120026_POSITIVE 287 179 139 129 90 aact:AA00142|5end_glycerate_kinase_101309..101539_POSITIVE 286 171 135 180 135 aact:AA03008|5end_GTP-binding_protein_era_homolog_(GTPase)_2100087..2100317_POSITIVE 285 154 116 217 166 aact:AA00613|5end_lipid-A-disaccharide_synthase_418713..418943_POSITIVE 282 99 60 152 107 aact:AA01755|5end_cobalt_membrane_transport_protein_1185825..1186055_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 347 180 135 112 72 aact:AA01917|3end_hypothetical_protein_1290996..1291146_POSITIVE 335 180 133 93 43 aact:AA00211|3end_hypothetical_protein_146163..146313_POSITIVE 327 167 121 76 32 aact:AA02208|3end_tryptophan_synthase,__alpha_subunit_1503996..1504146_POSITIVE 319 168 121 68 15 aact:AA02743|3end_outer_membrane_lipoprotein_precursor/glutamyl-tRNA_reductase_subunit_1923356..1923506_POSITIVE 312 180 133 125 67 aact:AA00083|3end_hypothetical_protein_60851..61001_POSITIVE 301 92 59 135 103 aact:AA00419|3end_conserved_hypothetical_protein_(possible_phosphatidylethanolamine-binding_protein)_284911..285061_POSITIVE 296 176 131 65 23 aact:AA02380|3end_iron_chelatin_ABC_transporter,periplasmic-binding_protein_1629180..1629330_POSITIVE 293 78 35 53 6 aact:AA01363|3end_hypothetical_protein_922737..922887_POSITIVE 287 179 139 53 14 aact:AA00141|3end_hypoxanthine_phosphoribosyl_transferase_(HPRT)_101313..101463_POSITIVE 285 154 116 129 78 aact:AA00612|3end_acyl-(acyl-carrier-protein)-UDP-N-acetylglucosami_ne_418705..418855_POSITIVE 282 99 60 149 104 aact:AA01753|3end_conserved_hypothetical_protein_1185902..1186052_POSITIVE 280 80 38 113 62 aact:AA02870|3end_conserved_hypothetical_protein_2015552..2015702_POSITIVE 279 59 14 94 47 aact:AA00208|3end_D-ribose_ABC_transporter,_permease_protein_/_Galactoside_transport_system_permease_protein_145070..145220_POSITIVE 279 169 121 116 55 aact:AA00184|3end_hypothetical_protein_130911..131061_POSITIVE 277 52 14 55 4 aact:AA00034|3end_NTP-binding_protein_27344..27494_POSITIVE 276 49 3 150 109 aact:AA00825|3end_P-protein_(chorismate_mutase/prephenate_dehydratase)_568257..568407_POSITIVE 276 168 121 54 8 aact:AA00384|3end_conserved_hypothetical_protein_(possible_nitrogen_fixation_protein)_261168..261318_POSITIVE 275 177 141 80 43 aact:AA02172|3end_conserved_hypothetical_protein_1486650..1486800_POSITIVE 275 167 124 97 50 aact:AA00181|3end_hypothetical_protein_128855..129005_POSITIVE 272 180 134 80 31 aact:AA00345|3end_transcription_antitermination_protein_232058..232208_POSITIVE