Origin IGS: accaaagttaaatagtggaaaacgattagtgcgctaaaatagcaaagttagtagtgaatttctaatttttttgcataaatgaagtattgtaatagggattacatatcaaagaaaaagctgaaaaaatttttttactttttcctcatcaatgatagagttagttacagtttggctgttttagaatagtcacttggggggtaattttacccggattattaatcaatcaaagggaatcatt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aatgattccctttgattgattaataatccgggtaaaattaccccccaagtgactattctaaaacagccaaactgtaactaactctatcattgatgaggaaaaagtaaaaaaattttttcagctttttctttgatatgtaatccctattacaatacttcatttatgcaaaaaaattagaaattcactactaactttgctattttagcgcactaatcgttttccactatttaactttggt Mask Tandem Repeat Region ================================================ accaaagttaaatagtggaaaacgattagtgcgctaaaatagcaaagttagtagtgaatttctaatttttttgcataaatgaagtattgtaatagggattacatatcaaagaaaaagctgaaaaaatttttttactttttcctcatcaatgatagagttagttacagtttggctgttttagaatagtcacttggggggtaattttacccggattattaatcaatcaaagggaatcatt Find is-nt database================================================ Query_seq: AA01937:AA01938|AA01937:AA01938:sugar fermentation stimulation protein:NAD(P) transhydrogenase subunit alpha:->->:1309395..1309632 238 accaaagttaaatagtggaaaacgattagtgcgctaaaatagcaaagttagtagtgaatttctaatttttttgcataaatgaagtattgtaatagggattacatatcaaagaaaaagctgaaaaaatttttttactttttcctcatcaatgatagagttagttacagtttggctgttttagaatagtcacttggggggtaattttacccggattattaatcaatcaaagggaatcatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA01937:AA01938|AA01937:AA01938:sugar fermentation stimulation protein:NAD(P) transhydrogenase subunit alpha:->->:1309395..1309632 238 accaaagttaaatagtggaaaacgattagtgcgctaaaatagcaaagttagtagtgaatttctaatttttttgcataaatgaagtattgtaatagggattacatatcaaagaaaaagctgaaaaaatttttttactttttcctcatcaatgatagagttagttacagtttggctgttttagaatagtcacttggggggtaattttacccggattattaatcaatcaaagggaatcatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA01937:AA01938|AA01937:AA01938:sugar fermentation stimulation protein:NAD(P) transhydrogenase subunit alpha:->->:1309395..1309632 238 accaaagttaaatagtggaaaacgattagtgcgctaaaatagcaaagttagtagtgaatttctaatttttttgcataaatgaagtattgtaatagggattacatatcaaagaaaaagctgaaaaaatttttttactttttcctcatcaatgatagagttagttacagtttggctgttttagaatagtcacttggggggtaattttacccggattattaatcaatcaaagggaatcatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 accaaagttaaatagtggaaaacgattagtgcgctaaaatagcaaagttagtagtgaatttctaatttttttgcataaatgaagtattgtaatagggattacatatcaaagaaaaagctgaaaaaatttttttactttttcctcatcaatgatagagttagttacagtttggctgttttagaatagtcacttggggggtaattttacccggattattaatcaatcaaagggaatcatt Predict ORF larger than 30AA ================================================ Protein_Len: 35 Strand: + Start: 79 End: 183 .............................................................................. M K Y C N R D Y I S K K K L K K F F Y F F L I N D R V S Y S L A V L E ....................................................... accaaagttaaatagtggaaaacgattagtgcgctaaaatagcaaagttagtagtgaatttctaatttttttgcataaatgaagtattgtaatagggattacatatcaaagaaaaagctgaaaaaatttttttactttttcctcatcaatgatagagttagttacagtttggctgttttagaatagtcacttggggggtaattttacccggattattaatcaatcaaagggaatcatt 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================================================ accaaagttaaatagtggaaaacgattagtgcgctaaaatagcaaagttagtagtgaatttctaatttttttgcataaatgaagtattgtaatagggattacatatcaaagaaaaagctgaaaaaatttttttactttttcctcatcaatgatagagttagttacagtttggctgttttagaatagtcacttggggggtaattttacccggattattaatcaatcaaagggaatcatt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: AA01937:AA01938|AA01937:AA01938:sugar fermentation stimulation protein:NAD(P) transhydrogenase subunit alpha:->->:1309395..1309632 238 accaaagttaaatagtggaaaacgattagtgcgctaaaatagcaaagttagtagtgaatttctaatttttttgcataaatgaagtattgtaatagggattacatatcaaagaaaaagctgaaaaaatttttttactttttcctcatcaatgatagagttagttacagtttggctgttttagaatagtcacttggggggtaattttacccggattattaatcaatcaaagggaatcatt Intra-Species Hit: Count: 1 Min: 1 Max: 238 Len: 238 Subject: aact_AA01937_AA01938|sugar fermentation stimulation protein:NAD(P) transhydrogenase subunit alpha|POSITIVE:POSITIVE|[1309395,1309632]|238 HSP 1 e-value: 6.0E-53 bit: 208.0 Len: 126 Query Start:1 Query End:126 Subject Strand: POSITIVE Subject Start: 1 Subject End: 126 accaaagttaaatagtggaaaacgattagtgcgctaaaatagcaaagttagtagtgaatttctaannnnnnngcataaatgaagtattgtaatagggattacatatcaaagaaaaagctgaaaaaa................................................................................................................ accaaagttaaatagtggaaaacgattagtgcgctaaaatagcaaagttagtagtgaatttctaatttttttgcataaatgaagtattgtaatagggattacatatcaaagaaaaagctgaaaaaa................................................................................................................ HSP 2 e-value: 9.0E-49 bit: 194.0 Len: 98 Query Start:141 Query End:238 Subject Strand: POSITIVE Subject Start: 141 Subject End: 238 ............................................................................................................................................cctcatcaatgatagagttagttacagtttggctgttttagaatagtcacttggggggtaattttacccggattattaatcaatcaaagggaatcatt ............................................................................................................................................cctcatcaatgatagagttagttacagtttggctgttttagaatagtcacttggggggtaattttacccggattattaatcaatcaaagggaatcatt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ ACCAAAGUUAAAUAGUGGAAAACGAUUAGUGCGCUAAAAUAGCAAAGUUAGUAGUGAAUUUCUAAUUUUUUUGCAUAAAUGAAGUAUUGUAAUAGGGAUUACAUAUCAAAGAAAAAGCUGAAAAAAUUUUUUUACUUUUUCCUCAUCAAUGAUAGAGUUAGUUACAGUUUGGCUGUUUUAGAAUAGUCACUUGGGGGGUAAUUUUACCCGGAUUAUUAAUCAAUCAAAGGGAAUCAUU .((((.........(((.((((.((((((..(((((...((((...)))).))))).....)))))).)))).))).........((((((((...((((...(((((..(((((((.((((((....)))))))))))))........))))).)))).)))))))).((((((((....)))))))).)))).(((((....))))).((((.......))))............. (-46.80) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAUGAUUCCCUUUGAUUGAUUAAUAAUCCGGGUAAAAUUACCCCCCAAGUGACUAUUCUAAAACAGCCAAACUGUAACUAACUCUAUCAUUGAUGAGGAAAAAGUAAAAAAAUUUUUUCAGCUUUUUCUUUGAUAUGUAAUCCCUAUUACAAUACUUCAUUUAUGCAAAAAAAUUAGAAAUUCACUACUAACUUUGCUAUUUUAGCGCACUAAUCGUUUUCCACUAUUUAACUUUGGU .................(((((.......(((((....)))))....(((((...((((((.((((.....))))............(((.(((((.((((((((..(((.....)))..)))))))).......((((((....)))))).....))))).)))........))))))..))))).........((((...))))....))))).......((((........)))) (-36.30) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 327 57 11 179 136 aact:AA01899|5end_conserved_hypothetical_protein_1281253..1281483_POSITIVE 289 212 171 191 150 aact:AA00982|5end_aldo-keto_reductase_686526..686756_POSITIVE 275 212 171 104 55 aact:AA02146|5end_iron(III)_ABC_transporter,_ATP-binding_protein_1468828..1469058_POSITIVE 274 57 15 216 171 aact:AA00799|5end_iron(III)_dicitrate_transport_ATP-binding_protein_547658..547888_POSITIVE 271 215 173 105 59 aact:AA02130|5end_hypothetical_protein_1454033..1454263_POSITIVE 249 214 172 49 1 aact:AA00161|5end_pilin_B_biogenesis_protein;_fimbrial_transcription_regulation_113384..113614_POSITIVE 246 213 171 187 122 aact:AA00475|5end_conserved_hypothetical_protein_(possible_N6-adenine-specific_methylase)_331621..331851_POSITIVE 245 49 14 80 41 aact:AA02380|5end_iron_chelatin_ABC_transporter,periplasmic-binding_protein_1628057..1628287_POSITIVE 240 210 165 84 47 aact:AA01846|5end_conserved_hypothetical_protein_1241843..1242073_POSITIVE 240 46 2 77 28 aact:AA01387|5end_primosomal_protein_N_936217..936447_POSITIVE 236 200 165 83 47 aact:AA01523|5end_conserved_hypothetical_protein_1023205..1023435_POSITIVE 235 35 2 44 11 aact:AA02662|5end_hypothetical_protein_1853283..1853513_POSITIVE 235 211 172 229 183 aact:AA02236|5end_stringent_starvation_protein_A_1521919..1522149_POSITIVE 235 44 6 142 106 aact:AA01615|5end_lipoprotein_releasing_system_transmembrane_1091186..1091416_POSITIVE 233 211 172 62 23 aact:AA01437|5end_phosphoglycerate_kinase_964125..964355_POSITIVE 233 200 152 160 114 aact:AA00771|5end_hypothetical_protein_531445..531675_POSITIVE 232 213 171 69 22 aact:AA01630|5end_threonine_efflux_protein_1102381..1102611_POSITIVE 231 56 14 145 111 aact:AA02603|5end_possible_thioredoxin_trxA_homolog_1814635..1814865_POSITIVE 231 213 171 126 74 aact:AA00314|5end_conserved_hypothetical_protein_(possible_Kmt1_protein)_212999..213229_POSITIVE 229 188 141 202 157 aact:AA02355|5end_nicotinamide_phosphoribosyl_transferase_1612924..1613154_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 327 57 11 130 87 aact:AA01897|3end_conserved_hypothetical_protein_1281284..1281434_POSITIVE 271 215 173 70 24 aact:AA02128|3end_DNA_topoisomerase_I_1454078..1454228_POSITIVE 267 200 154 69 20 aact:AA00618|3end_molybdopterin_biosynthesis_protein_423642..423792_POSITIVE 260 200 155 136 93 aact:AA02853|3end_conserved_hypothetical_protein_2002369..2002519_POSITIVE 245 49 14 66 27 aact:AA02379|3end_hypothetical_protein_1628123..1628273_POSITIVE 240 46 2 61 12 aact:AA01386|3end_30S_ribosomal_protein_S1_936281..936431_POSITIVE 237 206 161 107 56 aact:AA02421|3end_conserved_hypothetical_protein_1667300..1667450_POSITIVE 236 200 165 77 41 aact:AA01522|3end_conserved_hypothetical_protein_1023279..1023429_POSITIVE 233 213 181 87 49 aact:AA01567|3end_conserved_hypothetical_protein_(possible_cell-wall-associated_hydrolase)_1055215..1055365_POSITIVE 233 200 152 147 101 aact:AA00770|3end_outer_membrane_protein_precursor_531512..531662_POSITIVE 232 213 171 57 10 aact:AA01629|3end_phosphatidylglycerophosphatase_A_1102449..1102599_POSITIVE 231 213 171 104 52 aact:AA00313|3end_hypothetical_protein_213057..213207_POSITIVE 226 202 166 99 60 aact:AA01764|3end_hypothetical_protein_1191698..1191848_POSITIVE 225 200 154 117 63 aact:AA01078|3end_transcriptional_regulator_(probable_MerR_family)_747453..747603_POSITIVE 225 54 23 82 52 aact:AA00162|3end_pilin_C_biogenesis_protein/protein_transport_protein_116086..116236_POSITIVE 221 211 171 67 27 aact:AA02465|3end_glucosamine-6-phosphate_isomerase_1704885..1705035_POSITIVE 221 200 151 81 28 aact:AA02349|3end_dihydrodipicolinate_synthetase_1608361..1608511_POSITIVE 219 210 171 37 1 aact:AA01195|3end_acyl_carrier_protein_820189..820339_POSITIVE 219 199 156 69 19 aact:AA01116|3end_hypothetical_protein_767840..767990_POSITIVE 218 217 171 100 58 aact:AA02114|3end_exodeoxyribonuclease_I_1444570..1444720_POSITIVE