Origin IGS: taaaaattctctcggaaaagcaaccgcactttaatcgcagactttaactataaggacaggctttatgcctgtccttttcatatcatcgggttatcggacagacataaagtctgtccgataaatttgtcattattgacta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tagtcaataatgacaaatttatcggacagactttatgtctgtccgataacccgatgatatgaaaaggacaggcataaagcctgtccttatagttaaagtctgcgattaaagtgcggttgcttttccgagagaattttta Mask Tandem Repeat Region ================================================ taaaaattctctcggaaaagcaaccgcactttaatcgcagactttaactataaggacaggctttatgcctgtccttttcatatcatcgggttatcggacagacataaagtctgtccgataaatttgtcattattgacta Find is-nt database================================================ Query_seq: AA00716:AA00717|AA00716:AA00717:conserved hypothetical protein:methionyl-tRNA synthetase:->->:491305..491443 139 taaaaattctctcggaaaagcaaccgcactttaatcgcagactttaactataaggacaggctttatgcctgtccttttcatatcatcgggttatcggacagacataaagtctgtccgataaatttgtcattattgacta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA00716:AA00717|AA00716:AA00717:conserved hypothetical protein:methionyl-tRNA synthetase:->->:491305..491443 139 taaaaattctctcggaaaagcaaccgcactttaatcgcagactttaactataaggacaggctttatgcctgtccttttcatatcatcgggttatcggacagacataaagtctgtccgataaatttgtcattattgacta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA00716:AA00717|AA00716:AA00717:conserved hypothetical protein:methionyl-tRNA synthetase:->->:491305..491443 139 taaaaattctctcggaaaagcaaccgcactttaatcgcagactttaactataaggacaggctttatgcctgtccttttcatatcatcgggttatcggacagacataaagtctgtccgataaatttgtcattattgacta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taaaaattctctcggaaaagcaaccgcactttaatcgcagactttaactataaggacaggctttatgcctgtccttttcatatcatcgggttatcggacagacataaagtctgtccgataaatttgtcattattgacta Predict ORF larger than 30AA ================================================ Protein_Len: 35 Strand: + Start: 34 End: 138 ................................. M A D F N Y K D R L Y A C P F H I I G L S D R H K V C P I N L S L L T . taaaaattctctcggaaaagcaaccgcactttaatcgcagactttaactataaggacaggctttatgcctgtccttttcatatcatcgggttatcggacagacataaagtctgtccgataaatttgtcattattgacta 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================================================ taaaaattctctcggaaaagcaaccgcactttaatcgcagactttaactataaggacaggctttatgcctgtccttttcatatcatcgggttatcggacagacataaagtctgtccgataaatttgtcattattgacta Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 100 HP_score: -12.6 Tail_Score: -4.371 Start: 54 End: 74 Full_Region: AGACTTTAACTATAA GGACAGGC TTTAT GCCTGTCC TTTTCATATCATCGG .....................................................GGACAGGCTTTATGCCTGTCC................................................................. TransTerm Strand: - Conf: 90 HP_score: -12.6 Tail_Score: -3.52093 Start: 54 End: 74 Full_Region: ccgatgatatgaaaa ggacaggc ataaa gcctgtcc ttatagttaaagtct .....................................................ggacaggcataaagcctgtcc................................................................. TransTerm Strand: + Conf: 100 HP_score: -13.6 Tail_Score: -4.14257 Start: 90 End: 122 Full_Region: TTTTCATATCATCGG GTTATCGGACAGAC ATAAA GTCTGTCCGATAAA TTTGTCATTATTGAC .........................................................................................GTTATCGGACAGACATAAAGTCTGTCCGATAAA................. TransTerm Strand: + Conf: 100 HP_score: -17.1 Tail_Score: -3.07831 Start: 91 End: 121 Full_Region: TTTCATATCATCGGG TTATCGGACAGAC ATAAA GTCTGTCCGATAA ATTTGTCATTATTGA ..........................................................................................TTATCGGACAGACATAAAGTCTGTCCGATAA.................. Find igs database================================================ Query_seq: AA00716:AA00717|AA00716:AA00717:conserved hypothetical protein:methionyl-tRNA synthetase:->->:491305..491443 139 taaaaattctctcggaaaagcaaccgcactttaatcgcagactttaactataaggacaggctttatgcctgtccttttcatatcatcgggttatcggacagacataaagtctgtccgataaatttgtcattattgacta Intra-Species Hit: Count: 1 Min: 1 Max: 139 Len: 139 Subject: aact_AA00716_AA00717|conserved hypothetical protein:methionyl-tRNA synthetase|POSITIVE:POSITIVE|[491305,491443]|139 HSP 1 e-value: 2.0E-73 bit: 276.0 Len: 139 Query Start:1 Query End:139 Subject Strand: POSITIVE Subject Start: 1 Subject End: 139 taaaaattctctcggaaaagcaaccgcactttaatcgcagactttaactataaggacaggctttatgcctgtccttttcatatcatcgggttatcggacagacataaagtctgtccgataaatttgtcattattgacta taaaaattctctcggaaaagcaaccgcactttaatcgcagactttaactataaggacaggctttatgcctgtccttttcatatcatcgggttatcggacagacataaagtctgtccgataaatttgtcattattgacta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAAAUUCUCUCGGAAAAGCAACCGCACUUUAAUCGCAGACUUUAACUAUAAGGACAGGCUUUAUGCCUGUCCUUUUCAUAUCAUCGGGUUAUCGGACAGACAUAAAGUCUGUCCGAUAAAUUUGUCAUUAUUGACUA ..........(((((....((....))........................((((((((((.....)))))))))).........)))))(((((((((((((.....)))))))))))))....((((....)))).. (-47.20) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGUCAAUAAUGACAAAUUUAUCGGACAGACUUUAUGUCUGUCCGAUAACCCGAUGAUAUGAAAAGGACAGGCAUAAAGCCUGUCCUUAUAGUUAAAGUCUGCGAUUAAAGUGCGGUUGCUUUUCCGAGAGAAUUUUUA ..((((....))))....(((((((((((((.....)))))))))))))..............((((((((((.....))))))))))...(..((((((((((.......)))))..)))))..)............. (-50.60) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 394 38 1 67 33 aact:AA00313|5end_hypothetical_protein_212822..213052_POSITIVE 344 41 2 209 171 aact:AA03000|5end_uracil-DNA_glycosylase_(UDG)_2095076..2095306_POSITIVE 336 69 23 94 52 aact:AA02091|5end_hypothetical_protein_1424441..1424671_POSITIVE 332 41 2 100 64 aact:AA00885|5end_ribosomal_large_subunit_pseudouridine_synthase_c_616307..616537_POSITIVE 330 60 13 140 95 aact:AA00536|5end_5'-nucleotidase_precursor_366151..366381_POSITIVE 321 50 10 63 19 aact:AA00323|5end_conserved_hypothetical_protein_(possible_SAM-dependent_methyltransferase)_219387..219617_POSITIVE 306 118 87 105 67 aact:AA02762|5end_ribonuclease_H_1933164..1933394_POSITIVE 303 100 54 180 142 aact:AA00953|5end_uroporphyrinogen_III_methylase_658831..659061_POSITIVE 299 55 13 173 130 aact:AA00974|5end_glucosamine-fructose-6-phosphate_679215..679445_POSITIVE 296 68 23 173 126 aact:AA00422|5end_LapB_membrane_protein_285528..285758_POSITIVE 294 92 52 131 88 aact:AA01197|5end_conserved_hypothetical_protein_820863..821093_POSITIVE 290 122 82 127 83 aact:AA02409|5end_DNA_ligase_1653315..1653545_POSITIVE 290 42 6 181 145 aact:AA00117|5end_hypothetical_protein_88246..88476_POSITIVE 288 68 22 211 161 aact:AA01855|5end_transcriptional_regulator,_Cro/CI_family_1247009..1247239_POSITIVE 288 33 1 144 113 aact:AA01248|5end_conserved_hypothetical_protein_(possible_phosphoesterase)_849734..849964_POSITIVE 288 33 1 74 43 aact:AA01247|5end_hypothetical_protein_849664..849894_POSITIVE 287 41 16 128 103 aact:AA00508|5end_SAM-dependent_methyltransferase_353096..353326_POSITIVE 287 41 16 28 3 aact:AA00507|5end_hypothetical_protein_352996..353226_POSITIVE 283 49 4 143 103 aact:AA02369|5end_conserved_hypothetical_protein_1624248..1624478_POSITIVE 280 42 12 36 3 aact:AA03013|5end_ribonuclease_P_protein_component_2104434..2104664_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 394 38 1 87 53 aact:AA00312|3end_conserved_hypothetical_protein_(possible_hydroxypyruvate_isomerase)_212922..213072_POSITIVE 336 69 23 122 80 aact:AA02090|3end_glucose-1-phosphate_adenylyltransferase_1424549..1424699_POSITIVE 317 76 52 39 15 aact:AA00716|3end_conserved_hypothetical_protein_491244..491394_POSITIVE 310 64 23 102 60 aact:AA01624|3end_glucose-6-phosphate_isomerase_1099901..1100051_POSITIVE 299 55 13 115 72 aact:AA00973|3end_transcriptional_regulator,_DeoR_family_679237..679387_POSITIVE 296 68 23 71 24 aact:AA00420|3end_tRNA/rRNA_methyltransferase_285506..285656_POSITIVE 294 92 52 143 100 aact:AA01196|3end_1-acyl-sn-glycerol-3-phosphate_acetyltransferase_820955..821105_POSITIVE 294 109 61 68 15 aact:AA00514|3end_hypothetical_protein_355838..355988_POSITIVE 290 42 6 62 26 aact:AA00116|3end_conserved_hypothetical_protein_88207..88357_POSITIVE 287 41 16 41 16 aact:AA00506|3end_ATP-dependent_RNA_helicase_protein_353089..353239_POSITIVE 283 49 4 101 61 aact:AA02368|3end_conserved_hypothetical_protein_1624286..1624436_POSITIVE 280 42 12 78 45 aact:AA03012|3end_conserved_hypothetical_protein_2104556..2104706_POSITIVE 276 50 8 53 15 aact:AA00974|3end_glucosamine-fructose-6-phosphate_681127..681277_POSITIVE 274 33 13 26 2 aact:AA02158|3end_TonB-dependent_outer_membrane_receptor_1477317..1477467_POSITIVE 274 37 3 80 46 aact:AA02082|3end_glutaminyl-tRNA_synthetase_1417848..1417998_POSITIVE 268 39 16 151 128 aact:AA00507|3end_hypothetical_protein_353201..353351_POSITIVE 268 37 11 151 124 aact:AA00323|3end_conserved_hypothetical_protein_(possible_SAM-dependent_methyltransferase)_220222..220372_POSITIVE 267 42 12 150 119 aact:AA01389|3end_hypothetical_protein_937158..937308_POSITIVE 266 70 23 75 36 aact:AA01830|3end_2,3-cyclic-nucleotide_2-phosphodiesterase_1233609..1233759_POSITIVE 265 96 52 76 38 aact:AA02013|3end_carbonic_anhydrase_1370374..1370524_POSITIVE