Origin IGS: tgataaaaatgttaaactttatacgtgcattttgtgatctcccgcacgtttctttccggtggaattcgataagataatggcggtataaccatcgttaactgacttaacttatgatgaggtatcaatcct .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aggattgatacctcatcataagttaagtcagttaacgatggttataccgccattatcttatcgaattccaccggaaagaaacgtgcgggagatcacaaaatgcacgtataaagtttaacatttttatca Mask Tandem Repeat Region ================================================ tgataaaaatgttaaactttatacgtgcattttgtgatctcccgcacgtttctttccggtggaattcgataagataatggcggtataaccatcgttaactgacttaacttatgatgaggtatcaatcct Find is-nt database================================================ Query_seq: AA00398:AA00399|AA00398:AA00399:protein-tyrosine-phosphatase (PTPase):conserved hypothetical protein:->->:268079..268207 129 tgataaaaatgttaaactttatacgtgcattttgtgatctcccgcacgtttctttccggtggaattcgataagataatggcggtataaccatcgttaactgacttaacttatgatgaggtatcaatcct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA00398:AA00399|AA00398:AA00399:protein-tyrosine-phosphatase (PTPase):conserved hypothetical protein:->->:268079..268207 129 tgataaaaatgttaaactttatacgtgcattttgtgatctcccgcacgtttctttccggtggaattcgataagataatggcggtataaccatcgttaactgacttaacttatgatgaggtatcaatcct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA00398:AA00399|AA00398:AA00399:protein-tyrosine-phosphatase (PTPase):conserved hypothetical protein:->->:268079..268207 129 tgataaaaatgttaaactttatacgtgcattttgtgatctcccgcacgtttctttccggtggaattcgataagataatggcggtataaccatcgttaactgacttaacttatgatgaggtatcaatcct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tgataaaaatgttaaactttatacgtgcattttgtgatctcccgcacgtttctttccggtggaattcgataagataatggcggtataaccatcgttaactgacttaacttatgatgaggtatcaatcct Predict ORF larger than 30AA ================================================ Protein_Len: 37 Strand: - Start: 15 End: 125 .............. V K Y T C K T I E R V N R E P P I R Y S L P P I V M T L Q S L K H H P I M .... tgataaaaatgttaaactttatacgtgcattttgtgatctcccgcacgtttctttccggtggaattcgataagataatggcggtataaccatcgttaactgacttaacttatgatgaggtatcaatcct 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================================================ tgataaaaatgttaaactttatacgtgcattttgtgatctcccgcacgtttctttccggtggaattcgataagataatggcggtataaccatcgttaactgacttaacttatgatgaggtatcaatcct Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 47 HP_score: -2.9 Tail_Score: -3.42078 Start: 94 End: 108 Full_Region: GGCGGTATAACCATC GTTAA CTGAC TTAAC TTATGATGAGGTATC .............................................................................................GTTAACTGACTTAAC..................... Find igs database================================================ Query_seq: AA00398:AA00399|AA00398:AA00399:protein-tyrosine-phosphatase (PTPase):conserved hypothetical protein:->->:268079..268207 129 tgataaaaatgttaaactttatacgtgcattttgtgatctcccgcacgtttctttccggtggaattcgataagataatggcggtataaccatcgttaactgacttaacttatgatgaggtatcaatcct Intra-Species Hit: Count: 1 Min: 1 Max: 129 Len: 129 Subject: aact_AA00398_AA00399|protein-tyrosine-phosphatase (PTPase):conserved hypothetical protein|POSITIVE:POSITIVE|[268079,268207]|129 HSP 1 e-value: 2.0E-67 bit: 256.0 Len: 129 Query Start:1 Query End:129 Subject Strand: POSITIVE Subject Start: 1 Subject End: 129 tgataaaaatgttaaactttatacgtgcattttgtgatctcccgcacgtttctttccggtggaattcgataagataatggcggtataaccatcgttaactgacttaacttatgatgaggtatcaatcct tgataaaaatgttaaactttatacgtgcattttgtgatctcccgcacgtttctttccggtggaattcgataagataatggcggtataaccatcgttaactgacttaacttatgatgaggtatcaatcct Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAUAAAAAUGUUAAACUUUAUACGUGCAUUUUGUGAUCUCCCGCACGUUUCUUUCCGGUGGAAUUCGAUAAGAUAAUGGCGGUAUAACCAUCGUUAACUGACUUAACUUAUGAUGAGGUAUCAAUCCU .(((.(((((((..............)))))))...)))..((((.((((((((..(((......)))..)))).))))))))....(((.((((((...(......)...)))))))))......... (-24.94) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGGAUUGAUACCUCAUCAUAAGUUAAGUCAGUUAACGAUGGUUAUACCGCCAUUAUCUUAUCGAAUUCCACCGGAAAGAAACGUGCGGGAGAUCACAAAAUGCACGUAUAAAGUUUAACAUUUUUAUCA ..(((((((.....))))...((((((.(.......((((((......)))))).((((.(((........))).)))).(((((((.............))))))).....)))))))......))). (-21.42) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 406 69 25 103 51 aact:AA01249|5end_conserved_hypothetical_protein_(possible_phosphoesterase)_849987..850217_POSITIVE 332 70 24 130 82 aact:AA01724|5end_valyl-tRNA_synthetase_1164446..1164676_POSITIVE 331 68 25 186 133 aact:AA01154|5end_sec-independent_protein_translocase_protein_790832..791062_POSITIVE 323 70 24 195 145 aact:AA00738|5end_hypothetical_protein_505087..505317_POSITIVE 321 83 41 130 96 aact:AA00531|5end_DNA_polymerase_I_362621..362851_POSITIVE 317 94 56 65 27 aact:AA02103|5end_D-alanyl-D-alanine-endopeptidase;_penicillin-binding_protein_7_1431105..1431335_POSITIVE 317 90 41 112 52 aact:AA01996|5end_prephenate_dehydrogenase_1355314..1355544_POSITIVE 309 68 23 84 27 aact:AA01161|5end_araC-like_transcriptional_regulator_794121..794351_POSITIVE 307 90 41 52 6 aact:AA00790|5end_recombination_DNA_repair_protein_542455..542685_POSITIVE 300 69 24 217 164 aact:AA01927|5end_conserved_hypothetical_protein_1300928..1301158_POSITIVE 296 85 42 192 148 aact:AA01987|5end_hypothetical_protein_1350415..1350645_POSITIVE 295 86 42 38 3 aact:AA02829|5end_peptidoglycan-associated_outer_membrane_1988247..1988477_POSITIVE 291 85 42 195 147 aact:AA02315|5end_conserved_hypothetical_protein_1580482..1580712_POSITIVE 288 68 25 226 185 aact:AA02156|5end_conserved_hypothetical_protein_1474581..1474811_POSITIVE 286 68 40 224 198 aact:AA02433|5end_hypothetical_protein_1678300..1678530_POSITIVE 285 85 41 70 26 aact:AA00991|5end_conserved_hypothetical_protein_693191..693421_POSITIVE 282 90 43 52 16 aact:AA02922|5end_gamma-glutamylphosphate_reductase_2046225..2046455_POSITIVE 281 83 42 217 160 aact:AA01780|5end_ABC-related_molybdenum_transport_system_permease_protein_1201084..1201314_POSITIVE 281 63 24 231 173 aact:AA01227|5end_hypothetical_protein_838619..838849_POSITIVE 280 90 42 197 148 aact:AA02860|5end_conserved_hypothetical_protein_2006074..2006304_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 321 83 41 97 63 aact:AA00530|3end_hypothetical_protein_362668..362818_POSITIVE 317 94 56 68 30 aact:AA02101|3end_penicillin-binding_protein_7_1431188..1431338_POSITIVE 317 90 41 112 52 aact:AA01995|3end_conserved_hypothetical_protein_(possible_chorismate_mutase)_1355394..1355544_POSITIVE 309 68 23 73 16 aact:AA01160|3end_ADP_compounds_hydrolase_794190..794340_POSITIVE 307 90 41 62 16 aact:AA00789|3end_DNA_topoisomerase_III_542545..542695_POSITIVE 300 82 42 140 98 aact:AA01021|3end_hypothetical_protein_714276..714426_POSITIVE 299 67 31 43 2 aact:AA01857|3end_glutamate-ammonia-ligase_adenylyltransferase_1250357..1250507_POSITIVE 299 69 24 68 22 aact:AA00211|3end_hypothetical_protein_146163..146313_POSITIVE 292 69 24 136 69 aact:AA01244|3end_transposase_848093..848243_POSITIVE 285 85 41 64 20 aact:AA00990|3end_conserved_hypothetical_protein_693265..693415_POSITIVE 281 89 41 151 112 aact:AA01262|3end_hydrolase_860087..860237_POSITIVE 280 90 42 111 62 aact:AA02858|3end_conserved_hypothetical_protein_2006068..2006218_POSITIVE 280 66 24 149 103 aact:AA00089|3end_S-adenosylmethionine_synthase;_methionine_adenosyltransferase_67749..67899_POSITIVE 278 68 21 101 45 aact:AA00658|3end_hypothetical_protein_451952..452102_POSITIVE 277 84 41 83 34 aact:AA01962|3end_recombination_protein_rec2_1328706..1328856_POSITIVE 273 70 24 92 33 aact:AA00601|3end_hypothetical_protein_409119..409269_POSITIVE 272 109 61 89 38 aact:AA01472|3end_hypothetical_protein_989158..989308_POSITIVE 272 97 51 76 21 aact:AA00740|3end_citrate_lyase_related_biosynthesis_protein_(2-(5'-triphosphoribosyl)-3'-dephosphocoenzyme-A_synthase)_506749..506899_POSITIVE 272 90 43 104 40 aact:AA00549|3end_ferredoxin-type_protein_376521..376671_POSITIVE 271 86 42 143 99 aact:AA00665|3end_plasmid_protein_457550..457700_POSITIVE