Origin IGS: taattgatttagttaagatcaaatacagtcggcaccttttcggtgccgattttttatggaaaatgtcgtcaggatccaccagattttttaaccgcacttcta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tagaagtgcggttaaaaaatctggtggatcctgacgacattttccataaaaaatcggcaccgaaaaggtgccgactgtatttgatcttaactaaatcaatta Mask Tandem Repeat Region ================================================ taattgatttagttaagatcaaatacagtcggcaccttttcggtgccgattttttatggaaaatgtcgtcaggatccaccagattttttaaccgcacttcta Find is-nt database================================================ Query_seq: AA01395:AA01396|AA01395:AA01396:conserved hypothetical protein:saccharide biosynthesis regulatory protein:->->:943798..943899 102 taattgatttagttaagatcaaatacagtcggcaccttttcggtgccgattttttatggaaaatgtcgtcaggatccaccagattttttaaccgcacttcta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA01395:AA01396|AA01395:AA01396:conserved hypothetical protein:saccharide biosynthesis regulatory protein:->->:943798..943899 102 taattgatttagttaagatcaaatacagtcggcaccttttcggtgccgattttttatggaaaatgtcgtcaggatccaccagattttttaaccgcacttcta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA01395:AA01396|AA01395:AA01396:conserved hypothetical protein:saccharide biosynthesis regulatory protein:->->:943798..943899 102 taattgatttagttaagatcaaatacagtcggcaccttttcggtgccgattttttatggaaaatgtcgtcaggatccaccagattttttaaccgcacttcta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taattgatttagttaagatcaaatacagtcggcaccttttcggtgccgattttttatggaaaatgtcgtcaggatccaccagattttttaaccgcacttcta Predict ORF larger than 30AA ================================================ Protein_Len: 33 Strand: + Start: 3 End: 101 .. M D L V K I K Y S R H L F G A D F L W K M S S G S T R F F N R T S . Protein_Len: 32 Strand: - Start: 2 End: 97 . I S K T L I L Y L R C R K P A S K K H F I D D P D V L N K L R M ..... taattgatttagttaagatcaaatacagtcggcaccttttcggtgccgattttttatggaaaatgtcgtcaggatccaccagattttttaaccgcacttcta 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================================================ taattgatttagttaagatcaaatacagtcggcaccttttcggtgccgattttttatggaaaatgtcgtcaggatccaccagattttttaaccgcacttcta Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 57 HP_score: -3.9 Tail_Score: -3.93782 Start: 24 End: 54 Full_Region: acgacattttccata aaaaatcggcacc gaaaa ggtgccgactgta tttgatcttaactaa .......................aaaaatcggcaccgaaaaggtgccgactgta................................................ TransTerm Strand: - Conf: 65 HP_score: -6.5 Tail_Score: -3.55486 Start: 26 End: 52 Full_Region: gacattttccataaa aaatcggcacc gaaaa ggtgccgactg tatttgatcttaact .........................aaatcggcaccgaaaaggtgccgactg.................................................. TransTerm Strand: - Conf: 72 HP_score: -9.1 Tail_Score: -3.34589 Start: 28 End: 50 Full_Region: cattttccataaaaa atcggcacc gaaaa ggtgccgac tgtatttgatcttaa ...........................atcggcaccgaaaaggtgccgac.................................................... TransTerm Strand: - Conf: 89 HP_score: -12.6 Tail_Score: -2.6003 Start: 29 End: 49 Full_Region: attttccataaaaaa tcggcacc gaaaa ggtgccga ctgtatttgatctta ............................tcggcaccgaaaaggtgccga..................................................... Find igs database================================================ Query_seq: AA01395:AA01396|AA01395:AA01396:conserved hypothetical protein:saccharide biosynthesis regulatory protein:->->:943798..943899 102 taattgatttagttaagatcaaatacagtcggcaccttttcggtgccgattttttatggaaaatgtcgtcaggatccaccagattttttaaccgcacttcta Intra-Species Hit: Count: 1 Min: 1 Max: 102 Len: 102 Subject: aact_AA01395_AA01396|conserved hypothetical protein:saccharide biosynthesis regulatory protein|POSITIVE:POSITIVE|[943798,943899]|102 HSP 1 e-value: 2.0E-51 bit: 202.0 Len: 102 Query Start:1 Query End:102 Subject Strand: POSITIVE Subject Start: 1 Subject End: 102 taattgatttagttaagatcaaatacagtcggcaccttttcggtgccgattttttatggaaaatgtcgtcaggatccaccagattttttaaccgcacttcta taattgatttagttaagatcaaatacagtcggcaccttttcggtgccgattttttatggaaaatgtcgtcaggatccaccagattttttaaccgcacttcta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUUGAUUUAGUUAAGAUCAAAUACAGUCGGCACCUUUUCGGUGCCGAUUUUUUAUGGAAAAUGUCGUCAGGAUCCACCAGAUUUUUUAACCGCACUUCUA ...(((((((.....)))))))....((((((((((.....)))))))))).....(((((..(((.((.((((((.....))))))...)).))).))))) (-26.00) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGAAGUGCGGUUAAAAAAUCUGGUGGAUCCUGACGACAUUUUCCAUAAAAAAUCGGCACCGAAAAGGUGCCGACUGUAUUUGAUCUUAACUAAAUCAAUUA ...((((((((............(((((...((....))...)))))......((((((((.....)))))))))))))))).................... (-26.70) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 404 80 31 167 118 aact:AA02724|5end_seryl-tRNA_ligase_1906357..1906587_POSITIVE 404 80 31 73 24 aact:AA02723|5end_hypothetical_protein_1906263..1906493_POSITIVE 383 69 27 170 127 aact:AA00579|5end_probable_DNA_recombination_protein_395265..395495_POSITIVE 335 79 31 169 116 aact:AA03011|5end_inner_membrane_protein,_60_kDa_2102585..2102815_POSITIVE 330 89 41 175 123 aact:AA01666|5end_penicillin-binding_protein_4;_D-alanyl-D-alanine_carboxypeptidase;_D-alanyl-D-alanine-endopeptidase_1128231..1128461_POSITIVE 330 70 28 188 153 aact:AA00398|5end_protein-tyrosine-phosphatase_(PTPase)_267447..267677_POSITIVE 311 99 55 148 103 aact:AA02010|5end_peptide_methionine_sulfoxide_reductase;_cytochrome_C-TYPE_biogenesis_protein;_transcriptional_regulator_1367180..1367410_POSITIVE 310 99 51 214 167 aact:AA02479|5end_outer_membrane_protein_34_1715134..1715364_POSITIVE 310 70 30 189 145 aact:AA00609|5end_outer_membrane_protein_415675..415905_POSITIVE 310 99 52 151 99 aact:AA00124|5end_conserved_hypothetical_protein_(possible_cytoplasmic_protein)_90270..90500_POSITIVE 310 99 52 102 50 aact:AA00123|5end_hypothetical_protein_90221..90451_POSITIVE 310 99 52 93 41 aact:AA00122|5end_hypothetical_protein_90212..90442_POSITIVE 305 51 22 82 54 aact:AA01892|5end_hypothetical_protein_1276688..1276918_POSITIVE 299 48 8 172 131 aact:AA02550|5end_iron_(chelated)_ABC_transporter,_ATP-binding_protein_1776751..1776981_POSITIVE 288 77 31 174 125 aact:AA00519|5end_O-acetyltransferase_357139..357369_POSITIVE 287 80 32 119 70 aact:AA02980|5end_conserved_hypothetical_protein_2083305..2083535_POSITIVE 286 99 57 140 96 aact:AA00126|5end_conserved_hypothetical_protein_91053..91283_POSITIVE 284 61 30 76 44 aact:AA01149|5end_glycyl-tRNA_synthetase_beta_subunit_786027..786257_POSITIVE 282 88 41 223 162 aact:AA01974|5end_conserved_hypothetical_protein_1335891..1336121_POSITIVE 282 69 32 91 55 aact:AA00636|5end_MrsA_protein_(phosphoglucomutase/phosphomannomutase)_436780..437010_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 404 80 31 82 33 aact:AA02722|3end_cytidine_deaminase_1906352..1906502_POSITIVE 344 70 28 141 98 aact:AA00391|3end_arsenate_reductase_265248..265398_POSITIVE 330 89 41 68 16 aact:AA01663|3end_GTP_cyclohydrolase_I_1128204..1128354_POSITIVE 330 70 28 150 115 aact:AA00397|3end_Fe-S_oxidoreductase;_MiaB-like_RNA_modifying_enzyme_(2-methylthioadenine_synthetase)_267489..267639_POSITIVE 328 99 59 85 44 aact:AA02280|3end_conserved_hypothetical_protein_1552767..1552917_POSITIVE 317 51 27 64 40 aact:AA01395|3end_conserved_hypothetical_protein_943737..943887_POSITIVE 310 70 30 83 39 aact:AA00608|3end_protective_surface_antigen_D-15,_85_-kilodalton_outermembrane_protein_415649..415799_POSITIVE 310 99 52 82 30 aact:AA00120|3end_ATP-dependent_Clp_protease_ATP-binding_subunit_90281..90431_POSITIVE 305 51 22 98 70 aact:AA01891|3end_pyridoxine_kinase_1276784..1276934_POSITIVE 292 70 27 145 104 aact:AA02944|3end_30S_ribosomal_protein_S20_2059028..2059178_POSITIVE 286 49 3 63 24 aact:AA01874|3end_conserved_hypothetical_protein_1262451..1262601_POSITIVE 282 69 32 59 23 aact:AA00635|3end_dihydropteroate_synthase_436828..436978_POSITIVE 281 97 56 104 59 aact:AA01301|3end_competence_protein_B_882095..882245_POSITIVE 280 99 56 74 28 aact:AA02112|3end_cell_division_protein_1442184..1442334_POSITIVE 279 89 41 72 22 aact:AA00310|3end_conserved_hypothetical_protein_211514..211664_POSITIVE 278 99 68 43 12 aact:AA02751|3end_L-lactate_permease_1928868..1929018_POSITIVE 277 49 18 35 1 aact:AA00345|3end_transcription_antitermination_protein_232058..232208_POSITIVE 273 48 25 115 91 aact:AA00015|3end_malate_dehydrogenase_8333..8483_POSITIVE 272 80 39 42 1 aact:AA02978|3end_sufI_protein_precursor_homolog_2083308..2083458_POSITIVE 270 99 64 44 14 aact:AA02937|3end_conserved_hypothetical_protein_2056947..2057097_POSITIVE