Origin IGS: taatttaagctattcagaaaagcaaaaggaaagttatcattaacttccttttttgttatcacgacacggggttcatcgtaaagtgcggtggtttttccaagcgtttttcaagagaaaaaacgttcgtgaaaaccaccgcacttttcgcgatta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taatcgcgaaaagtgcggtggttttcacgaacgttttttctcttgaaaaacgcttggaaaaaccaccgcactttacgatgaaccccgtgtcgtgataacaaaaaaggaagttaatgataactttccttttgcttttctgaatagcttaaatta Mask Tandem Repeat Region ================================================ taatttaagctattcagaaaagcaaaaggaaagttatcattaacttccttttttgttatcacgacacggggttcatcgtaaagtgcggtggtttttccaagcgtttttcaagagaaaaaacgttcgtgaaaaccaccgcacttttcgcgatta Find is-nt database================================================ Query_seq: AA00249:AA00250|AA00249:AA00250:cysteinyl-tRNA synthetase (cysteine--tRNA ligase):lipoate biosynthesis protein A:->->:175483..175635 153 taatttaagctattcagaaaagcaaaaggaaagttatcattaacttccttttttgttatcacgacacggggttcatcgtaaagtgcggtggtttttccaagcgtttttcaagagaaaaaacgttcgtgaaaaccaccgcacttttcgcgatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA00249:AA00250|AA00249:AA00250:cysteinyl-tRNA synthetase (cysteine--tRNA ligase):lipoate biosynthesis protein A:->->:175483..175635 153 taatttaagctattcagaaaagcaaaaggaaagttatcattaacttccttttttgttatcacgacacggggttcatcgtaaagtgcggtggtttttccaagcgtttttcaagagaaaaaacgttcgtgaaaaccaccgcacttttcgcgatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA00249:AA00250|AA00249:AA00250:cysteinyl-tRNA synthetase (cysteine--tRNA ligase):lipoate biosynthesis protein A:->->:175483..175635 153 taatttaagctattcagaaaagcaaaaggaaagttatcattaacttccttttttgttatcacgacacggggttcatcgtaaagtgcggtggtttttccaagcgtttttcaagagaaaaaacgttcgtgaaaaccaccgcacttttcgcgatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taatttaagctattcagaaaagcaaaaggaaagttatcattaacttccttttttgttatcacgacacggggttcatcgtaaagtgcggtggtttttccaagcgtttttcaagagaaaaaacgttcgtgaaaaccaccgcacttttcgcgatta Predict ORF larger than 30AA ================================================ Protein_Len: 33 Strand: + Start: 53 End: 151 .................................................... M L S R H G V H R K V R W F F Q A F F K R K N V R E N H R T F R D .. Protein_Len: 47 Strand: + Start: 12 End: 152 ........... M Q K S K R K V I I N F L F C Y H D T G F I V K C G G F S K R F S R E K T F V K T T A L F A I . Protein_Len: 30 Strand: - Start: 62 End: 151 ............................................................. S V P N M T F H P P K E L R K E L S F V N T F V V A S K A M .. taatttaagctattcagaaaagcaaaaggaaagttatcattaacttccttttttgttatcacgacacggggttcatcgtaaagtgcggtggtttttccaagcgtttttcaagagaaaaaacgttcgtgaaaaccaccgcacttttcgcgatta 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================================================ taatttaagctattcagaaaagcaaaaggaaagttatcattaacttccttttttgttatcacgacacggggttcatcgtaaagtgcggtggtttttccaagcgtttttcaagagaaaaaacgttcgtgaaaaccaccgcacttttcgcgatta Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 100 HP_score: -17.7 Tail_Score: -3.59979 Start: 83 End: 141 Full_Region: taatcgcgaaaa gtgcggtggttttcacgaacgtttttt ctctt gaaaaacgcttggaaaaaccaccgcac tttacgatgaacccc ..................................................................................gtgcggtggttttcacgaacgttttttctcttgaaaaacgcttggaaaaaccaccgcac............ Find igs database================================================ Query_seq: AA00249:AA00250|AA00249:AA00250:cysteinyl-tRNA synthetase (cysteine--tRNA ligase):lipoate biosynthesis protein A:->->:175483..175635 153 taatttaagctattcagaaaagcaaaaggaaagttatcattaacttccttttttgttatcacgacacggggttcatcgtaaagtgcggtggtttttccaagcgtttttcaagagaaaaaacgttcgtgaaaaccaccgcacttttcgcgatta Intra-Species Hit: Count: 1 Min: 1 Max: 153 Len: 153 Subject: aact_AA00249_AA00250|cysteinyl-tRNA synthetase (cysteine--tRNA ligase):lipoate biosynthesis protein A|POSITIVE:POSITIVE|[175483,175635]|153 HSP 1 e-value: 9.0E-82 bit: 303.0 Len: 153 Query Start:1 Query End:153 Subject Strand: POSITIVE Subject Start: 1 Subject End: 153 taatttaagctattcagaaaagcaaaaggaaagttatcattaacttccttttttgttatcacgacacggggttcatcgtaaagtgcggtggtttttccaagcgtttttcaagagaaaaaacgttcgtgaaaaccaccgcacttttcgcgatta taatttaagctattcagaaaagcaaaaggaaagttatcattaacttccttttttgttatcacgacacggggttcatcgtaaagtgcggtggtttttccaagcgtttttcaagagaaaaaacgttcgtgaaaaccaccgcacttttcgcgatta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUUUAAGCUAUUCAGAAAAGCAAAAGGAAAGUUAUCAUUAACUUCCUUUUUUGUUAUCACGACACGGGGUUCAUCGUAAAGUGCGGUGGUUUUUCCAAGCGUUUUUCAAGAGAAAAAACGUUCGUGAAAACCACCGCACUUUUCGCGAUUA .......((((............((((((((.((((....)))))))))))).((((.....))))...)))).(((((((((((((((((((((..(.((((((((((....).))))))))).)..))))))))))))))))..))))).. (-50.80) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUCGCGAAAAGUGCGGUGGUUUUCACGAACGUUUUUUCUCUUGAAAAACGCUUGGAAAAACCACCGCACUUUACGAUGAACCCCGUGUCGUGAUAACAAAAAAGGAAGUUAAUGAUAACUUUCCUUUUGCUUUUCUGAAUAGCUUAAAUUA ..(((((((.(((((((((((((((..(((.((((((((.....)))))))).)))..)))))))))))))))((((........))))))))))).....((((((((((((....)))).))))))))(((.........)))........ (-53.30) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 492 149 101 186 136 aact:AA02668|5end_gluconate_permease_1856758..1856988_POSITIVE 473 109 67 132 88 aact:AA01918|5end_anaerobic_C4-dicarboxylate_transporter_1290931..1291161_POSITIVE 448 108 61 132 78 aact:AA02706|5end_2-oxoglutarate_dehydrogenase_E1_component_(decarboxylase_component)_1886843..1887073_POSITIVE 435 148 111 143 106 aact:AA00409|5end_methionyl-tRNA_formyltransferase_273611..273841_POSITIVE 430 124 81 138 95 aact:AA02673|5end_gluconate_utilization_operon_repressor_1858913..1859143_POSITIVE 429 108 62 122 83 aact:AA01463|5end_probable_transport_protein_982732..982962_POSITIVE 428 110 66 63 18 aact:AA01890|5end_cell-cycle_protein_1274544..1274774_POSITIVE 423 148 101 126 80 aact:AA00988|5end_conserved_hypothetical_protein_690898..691128_POSITIVE 420 110 62 84 37 aact:AA00264|5end_hypothetical_protein_185052..185282_POSITIVE 419 128 81 215 163 aact:AA02743|5end_outer_membrane_lipoprotein_precursor/glutamyl-tRNA_reductase_subunit_1922650..1922880_POSITIVE 419 130 81 231 179 aact:AA01883|5end_recycling_protein;_permease_1269821..1270051_POSITIVE 419 150 101 187 139 aact:AA00212|5end_ribokinase_146056..146286_POSITIVE 419 150 101 86 38 aact:AA00211|5end_hypothetical_protein_145955..146185_POSITIVE 418 98 62 40 6 aact:AA02140|5end_ABC_transporter_ATP-binding_protein_1462144..1462374_POSITIVE 408 148 101 151 94 aact:AA00974|5end_glucosamine-fructose-6-phosphate_679215..679445_POSITIVE 407 108 67 184 131 aact:AA02915|5end_thioredoxin_m_2040652..2040882_POSITIVE 406 150 101 189 142 aact:AA02144|5end_iron_(III)_ABC_transporter,_permease_protein_1467583..1467813_POSITIVE 403 128 81 182 135 aact:AA00557|5end_nitrate/nitrite_sensor_protein_380408..380638_POSITIVE 401 108 62 168 120 aact:AA02381|5end_4-hydroxy-2-oxoglutarate_aldolase_1629192..1629422_POSITIVE 401 110 68 101 66 aact:AA00065|5end_hypothetical_protein_48854..49084_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 473 109 67 117 73 aact:AA01917|3end_hypothetical_protein_1290996..1291146_POSITIVE 448 108 61 137 83 aact:AA02705|3end_hypothetical_protein_1886928..1887078_POSITIVE 435 148 111 140 103 aact:AA00408|3end_SUN_protein_(FMU_protein)_273688..273838_POSITIVE 430 124 81 62 19 aact:AA02671|3end_gluconokinase_1858917..1859067_POSITIVE 429 108 62 89 50 aact:AA01462|3end_xylose_operon_regulatory_protein_982779..982929_POSITIVE 419 130 81 95 43 aact:AA01881|3end_adenylate_kinase_1269765..1269915_POSITIVE 419 150 101 83 35 aact:AA00209|3end_D-ribose_ABC_transporter,_periplasmic-binding_protein_146032..146182_POSITIVE 408 148 101 93 36 aact:AA00973|3end_transcriptional_regulator,_DeoR_family_679237..679387_POSITIVE 407 98 67 34 2 aact:AA02139|3end_possible_membrane_protein_1462218..1462368_POSITIVE 406 150 101 58 11 aact:AA02142|3end_outer_membrane_protein_OprM_precursor_1467532..1467682_POSITIVE 403 128 81 136 89 aact:AA00555|3end_hypothetical_protein_380442..380592_POSITIVE 401 108 62 76 28 aact:AA02380|3end_iron_chelatin_ABC_transporter,periplasmic-binding_protein_1629180..1629330_POSITIVE 401 110 68 113 78 aact:AA00064|3end_ribosomal_small_subunit_pseudouridine_synthase_48946..49096_POSITIVE 400 150 115 50 16 aact:AA01830|3end_2,3-cyclic-nucleotide_2-phosphodiesterase_1233609..1233759_POSITIVE 398 108 81 89 62 aact:AA00523|3end_conserved_hypothetical_protein_358929..359079_POSITIVE 394 146 101 80 37 aact:AA00292|3end_dihydrofolate_reductase_202338..202488_POSITIVE 391 110 69 47 7 aact:AA00263|3end_ATP-dependent_RNA_helicase_185095..185245_POSITIVE 384 145 101 75 26 aact:AA02246|3end_peptidase_E_1528355..1528505_POSITIVE 384 147 101 115 73 aact:AA01185|3end_conserved_hypothetical_protein_(possible_membrane_protein)_813401..813551_POSITIVE 382 146 105 86 46 aact:AA02940|3end_conserved_hypothetical_protein_2058652..2058802_POSITIVE