Origin IGS: taaacgcagtattcatcaggacctattcatataggccccgaactgttcacacattattctgtcgaaaaaaaacaatttttacgcaacatcctaatcatgaagcaaaagggtaattt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aaattacccttttgcttcatgattaggatgttgcgtaaaaattgttttttttcgacagaataatgtgtgaacagttcggggcctatatgaataggtcctgatgaatactgcgttta Mask Tandem Repeat Region ================================================ taaacgcagtattcatcaggacctattcatataggccccgaactgttcacacattattctgtcgaaaaaaaacaatttttacgcaacatcctaatcatgaagcaaaagggtaattt Find is-nt database================================================ Query_seq: AA02349:AA02350|AA02349:AA02350:dihydrodipicolinate synthetase:possible lipoprotein:->->:1608422..1608537 116 taaacgcagtattcatcaggacctattcatataggccccgaactgttcacacattattctgtcgaaaaaaaacaatttttacgcaacatcctaatcatgaagcaaaagggtaattt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA02349:AA02350|AA02349:AA02350:dihydrodipicolinate synthetase:possible lipoprotein:->->:1608422..1608537 116 taaacgcagtattcatcaggacctattcatataggccccgaactgttcacacattattctgtcgaaaaaaaacaatttttacgcaacatcctaatcatgaagcaaaagggtaattt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA02349:AA02350|AA02349:AA02350:dihydrodipicolinate synthetase:possible lipoprotein:->->:1608422..1608537 116 taaacgcagtattcatcaggacctattcatataggccccgaactgttcacacattattctgtcgaaaaaaaacaatttttacgcaacatcctaatcatgaagcaaaagggtaattt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taaacgcagtattcatcaggacctattcatataggccccgaactgttcacacattattctgtcgaaaaaaaacaatttttacgcaacatcctaatcatgaagcaaaagggtaattt Predict ORF larger than 30AA ================================================ Protein_Len: 32 Strand: + Start: 15 End: 110 .............. M R T Y S Y R P R T V H T L F C R K K T I F T Q H P N H E A K G ...... Protein_Len: 30 Strand: + Start: 25 End: 114 ........................ M H I G P E L F T H Y S V E K K Q F L R N I L I M K Q K G N .. taaacgcagtattcatcaggacctattcatataggccccgaactgttcacacattattctgtcgaaaaaaaacaatttttacgcaacatcctaatcatgaagcaaaagggtaattt 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================================================ taaacgcagtattcatcaggacctattcatataggccccgaactgttcacacattattctgtcgaaaaaaaacaatttttacgcaacatcctaatcatgaagcaaaagggtaattt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: AA02349:AA02350|AA02349:AA02350:dihydrodipicolinate synthetase:possible lipoprotein:->->:1608422..1608537 116 taaacgcagtattcatcaggacctattcatataggccccgaactgttcacacattattctgtcgaaaaaaaacaatttttacgcaacatcctaatcatgaagcaaaagggtaattt Intra-Species Hit: Count: 1 Min: 1 Max: 116 Len: 116 Subject: aact_AA02349_AA02350|dihydrodipicolinate synthetase:possible lipoprotein|POSITIVE:POSITIVE|[1608422,1608537]|116 HSP 1 e-value: 2.0E-45 bit: 182.0 Len: 116 Query Start:1 Query End:116 Subject Strand: POSITIVE Subject Start: 1 Subject End: 116 taaacgcagtattcatcaggacctattcatataggccccgaactgttcacacattattctgtcgnnnnnnnncaatttttacgcaacatcctaatcatgaagcaaaagggtaattt taaacgcagtattcatcaggacctattcatataggccccgaactgttcacacattattctgtcgaaaaaaaacaatttttacgcaacatcctaatcatgaagcaaaagggtaattt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAACGCAGUAUUCAUCAGGACCUAUUCAUAUAGGCCCCGAACUGUUCACACAUUAUUCUGUCGAAAAAAAACAAUUUUUACGCAACAUCCUAAUCAUGAAGCAAAAGGGUAAUUU .....(((((.....((.((.(((((....))))).)).)))))))......((((((((....(((((......)))))..((..(((.......)))..))...)))))))).. (-17.70) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAAUUACCCUUUUGCUUCAUGAUUAGGAUGUUGCGUAAAAAUUGUUUUUUUUCGACAGAAUAAUGUGUGAACAGUUCGGGGCCUAUAUGAAUAGGUCCUGAUGAAUACUGCGUUUA ...........(((.((((((((((...(((((...(((((....)))))..)))))...)))).))))))))).(((((((((((....)))))))))))............... (-27.30) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 281 50 4 217 169 aact:AA01459|5end_Na(+)/H(+)_antiporter_980003..980233_POSITIVE 272 57 22 45 3 aact:AA00372|5end_acetate_CoA-transferase_(alpha_subunit)_250348..250578_POSITIVE 263 49 5 51 5 aact:AA02092|5end_glycogen_synthase_1424674..1424904_POSITIVE 257 63 33 206 173 aact:AA01568|5end_dipeptide_transport_system_ATP-binding_protein_1056037..1056267_POSITIVE 255 41 5 86 38 aact:AA01774|5end_5,10-methylenetetrahydrofolate_reductase_1195015..1195245_POSITIVE 254 63 26 145 104 aact:AA03009|5end_hypothetical_protein_2101001..2101231_POSITIVE 247 49 6 104 61 aact:AA02861|5end_conserved_hypothetical_protein_2007721..2007951_POSITIVE 231 66 35 194 160 aact:AA01567|5end_conserved_hypothetical_protein_(possible_cell-wall-associated_hydrolase)_1054944..1055174_POSITIVE 231 66 35 195 161 aact:AA01262|5end_hydrolase_859576..859806_POSITIVE 228 59 20 175 132 aact:AA01553|5end_conserved_hypothetical_protein_1039220..1039450_POSITIVE 227 47 5 117 65 aact:AA02936|5end_lipoprotein_E_precursor;_outer_membrane_protein_P4_precursor;_acid_phosphatase_2055610..2055840_POSITIVE 224 68 35 94 60 aact:AA01270|5end_hydrolase_(possible_2-haloalkanoic_acid_dehalogenase_I)_863317..863547_POSITIVE 223 110 81 82 52 aact:AA00712|5end_chaperone_protein_hscB,_heat_shock_cognate_488228..488458_POSITIVE 221 30 6 223 198 aact:AA01900|5end_hypothetical_protein_1282233..1282463_POSITIVE 221 65 31 178 138 aact:AA01538|5end_conserved_hypothetical_protein_1031527..1031757_POSITIVE 221 41 8 171 132 aact:AA00271|5end_hypothetical_protein_190264..190494_POSITIVE 219 57 14 149 104 aact:AA02003|5end_purine_nucleotide_synthesis_repressor_protein_1360633..1360863_POSITIVE 218 67 26 225 171 aact:AA03014|5end_conserved_hypothetical_protein_2104815..2105045_POSITIVE 218 50 5 217 157 aact:AA01255|5end_hypothetical_protein_852656..852886_POSITIVE 218 52 11 88 31 aact:AA01054|5end_conserved_hypothetical_protein_733678..733908_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 255 41 5 103 55 aact:AA01773|3end_hypothetical_protein_1195112..1195262_POSITIVE 254 63 26 136 95 aact:AA03008|3end_GTP-binding_protein_era_homolog_(GTPase)_2101072..2101222_POSITIVE 247 49 6 58 15 aact:AA02860|3end_conserved_hypothetical_protein_2007755..2007905_POSITIVE 235 55 12 103 58 aact:AA01441|3end_tRNA/rRNA_methylase_967643..967793_POSITIVE 229 49 5 151 111 aact:AA02939|3end_phosphoserine_phosphatase_2057902..2058052_POSITIVE 229 46 5 89 48 aact:AA01567|3end_conserved_hypothetical_protein_(possible_cell-wall-associated_hydrolase)_1055215..1055365_POSITIVE 224 68 35 110 76 aact:AA01269|3end_hypothetical_protein_863413..863563_POSITIVE 223 110 81 67 37 aact:AA00711|3end_conserved_hypothetical_protein_488293..488443_POSITIVE 221 50 5 120 72 aact:AA02190|3end_hydrogenase-2_component_protein_1493271..1493421_POSITIVE 218 42 6 47 8 aact:AA01244|3end_transposase_848093..848243_POSITIVE 218 52 11 77 20 aact:AA01053|3end_conserved_hypothetical_protein_733747..733897_POSITIVE 213 59 13 148 99 aact:AA02544|3end_ATP-dependent_RNA_helicase_1773945..1774095_POSITIVE 213 50 2 84 29 aact:AA02341|3end_hypothetical_protein_1599648..1599798_POSITIVE 213 50 2 84 29 aact:AA02116|3end_hypothetical_protein_1445290..1445440_POSITIVE 213 50 2 84 29 aact:AA01076|3end_hypothetical_protein_746367..746517_POSITIVE 213 50 2 84 29 aact:AA00009|3end_hypothetical_protein_(possible_transposase_fragment)_5794..5944_POSITIVE 211 50 7 75 35 aact:AA00530|3end_hypothetical_protein_362668..362818_POSITIVE 209 47 18 39 6 aact:AA01866|3end_thiamin_ABC_transporter,_permease_protein_1254946..1255096_POSITIVE 209 38 5 41 9 aact:AA00514|3end_hypothetical_protein_355838..355988_POSITIVE 207 45 7 120 69 aact:AA00790|3end_recombination_DNA_repair_protein_543134..543284_POSITIVE