Origin IGS: tggccccactaaaaaaatattacgtttttctgccattgttataatcttaaatttatgtcgtcgaaaagaatgtgatcttttagaaaataagaaacgaccgtaacatactcatatgtggtcgtgtgaaagctttttgaatatagagttgaaaagatcacccccaaaattagggggaattatcgcaataaaccgctaccgttttcaacctaaacaggacaattattttatctattgtgaggaaaagcaaaatta .........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 taattttgcttttcctcacaatagataaaataattgtcctgtttaggttgaaaacggtagcggtttattgcgataattccccctaattttgggggtgatcttttcaactctatattcaaaaagctttcacacgaccacatatgagtatgttacggtcgtttcttattttctaaaagatcacattcttttcgacgacataaatttaagattataacaatggcagaaaaacgtaatatttttttagtggggcca Mask Tandem Repeat Region ================================================ tggccccactaaaaaaatattacgtttttctgccattgttataatcttaaatttatgtcgtcgaaaagaatgtgatcttttagaaaataagaaacgaccgtaacatactcatatgtggtcgtgtgaaagctttttgaatatagagttgaaaagatcacccccaaaattagggggaattatcgcaataaaccgctaccgttttcaacctaaacaggacaattattttatctattgtgaggaaaagcaaaatta Find is-nt database================================================ Query_seq: AA01296:AA01297|AA01296:AA01297:shikimate kinase (shikimic acid kinase I):competence protein E precursor:->->:879013..879264 252 tggccccactaaaaaaatattacgtttttctgccattgttataatcttaaatttatgtcgtcgaaaagaatgtgatcttttagaaaataagaaacgaccgtaacatactcatatgtggtcgtgtgaaagctttttgaatatagagttgaaaagatcacccccaaaattagggggaattatcgcaataaaccgctaccgttttcaacctaaacaggacaattattttatctattgtgaggaaaagcaaaatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA01296:AA01297|AA01296:AA01297:shikimate kinase (shikimic acid kinase I):competence protein E precursor:->->:879013..879264 252 tggccccactaaaaaaatattacgtttttctgccattgttataatcttaaatttatgtcgtcgaaaagaatgtgatcttttagaaaataagaaacgaccgtaacatactcatatgtggtcgtgtgaaagctttttgaatatagagttgaaaagatcacccccaaaattagggggaattatcgcaataaaccgctaccgttttcaacctaaacaggacaattattttatctattgtgaggaaaagcaaaatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA01296:AA01297|AA01296:AA01297:shikimate kinase (shikimic acid kinase I):competence protein E precursor:->->:879013..879264 252 tggccccactaaaaaaatattacgtttttctgccattgttataatcttaaatttatgtcgtcgaaaagaatgtgatcttttagaaaataagaaacgaccgtaacatactcatatgtggtcgtgtgaaagctttttgaatatagagttgaaaagatcacccccaaaattagggggaattatcgcaataaaccgctaccgttttcaacctaaacaggacaattattttatctattgtgaggaaaagcaaaatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tggccccactaaaaaaatattacgtttttctgccattgttataatcttaaatttatgtcgtcgaaaagaatgtgatcttttagaaaataagaaacgaccgtaacatactcatatgtggtcgtgtgaaagctttttgaatatagagttgaaaagatcacccccaaaattagggggaattatcgcaataaaccgctaccgttttcaacctaaacaggacaattattttatctattgtgaggaaaagcaaaatta Predict ORF larger than 30AA ================================================ Protein_Len: 46 Strand: + Start: 113 End: 250 ................................................................................................................ M W S C E S F L N I E L K R S P P K L G G I I A I N R Y R F Q P K Q D N Y F I Y C E E K Q N .. Protein_Len: 42 Strand: - Start: 42 End: 167 ......................................... L R L N I D D F L I H D K L F Y S V V T V Y E Y T T T H F S K S Y L T S F I V G L M ..................................................................................... tggccccactaaaaaaatattacgtttttctgccattgttataatcttaaatttatgtcgtcgaaaagaatgtgatcttttagaaaataagaaacgaccgtaacatactcatatgtggtcgtgtgaaagctttttgaatatagagttgaaaagatcacccccaaaattagggggaattatcgcaataaaccgctaccgttttcaacctaaacaggacaattattttatctattgtgaggaaaagcaaaatta 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================================================ tggccccactaaaaaaatattacgtttttctgccattgttataatcttaaatttatgtcgtcgaaaagaatgtgatcttttagaaaataagaaacgaccgtaacatactcatatgtggtcgtgtgaaagctttttgaatatagagttgaaaagatcacccccaaaattagggggaattatcgcaataaaccgctaccgttttcaacctaaacaggacaattattttatctattgtgaggaaaagcaaaatta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: AA01296:AA01297|AA01296:AA01297:shikimate kinase (shikimic acid kinase I):competence protein E precursor:->->:879013..879264 252 tggccccactaaaaaaatattacgtttttctgccattgttataatcttaaatttatgtcgtcgaaaagaatgtgatcttttagaaaataagaaacgaccgtaacatactcatatgtggtcgtgtgaaagctttttgaatatagagttgaaaagatcacccccaaaattagggggaattatcgcaataaaccgctaccgttttcaacctaaacaggacaattattttatctattgtgaggaaaagcaaaatta Intra-Species Hit: Count: 1 Min: 18 Max: 252 Len: 235 Subject: aact_AA01296_AA01297|shikimate kinase (shikimic acid kinase I):competence protein E precursor|POSITIVE:POSITIVE|[879013,879264]|252 HSP 1 e-value: 1.0E-130 bit: 466.0 Len: 235 Query Start:18 Query End:252 Subject Strand: POSITIVE Subject Start: 18 Subject End: 252 .................tattacgtttttctgccattgttataatcttaaatttatgtcgtcgaaaagaatgtgatcttttagaaaataagaaacgaccgtaacatactcatatgtggtcgtgtgaaagctttttgaatatagagttgaaaagatcacccccaaaattagggggaattatcgcaataaaccgctaccgttttcaacctaaacaggacaattattttatctattgtgaggaaaagcaaaatta .................tattacgtttttctgccattgttataatcttaaatttatgtcgtcgaaaagaatgtgatcttttagaaaataagaaacgaccgtaacatactcatatgtggtcgtgtgaaagctttttgaatatagagttgaaaagatcacccccaaaattagggggaattatcgcaataaaccgctaccgttttcaacctaaacaggacaattattttatctattgtgaggaaaagcaaaatta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAUUACGUUUUUCUGCCAUUGUUAUAAUCUUAAAUUUAUGUCGUCGAAAAGAAUGUGAUCUUUUAGAAAAUAAGAAACGACCGUAACAUACUCAUAUGUGGUCGUGUGAAAGCUUUUUGAAUAUAGAGUUGAAAAGAUCACCCCCAAAAUUAGGGGGAAUUAUCGCAAUAAACCGCUACCGUUUUCAACCUAAACAGGACAAUUAUUUUAUCUAUUGUGAGGAAAAGCAAAAUUA ......((((((((..(((....(((.....((((...((((.((((((((.......((((.........)))).((((((...(((((....))))))))))).......))))))))...(((.((((((((.....(((((.......))))).......((........)).....))))))))))).....))))...))))....))).))).))))))))....... (-52.30) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUUUUGCUUUUCCUCACAAUAGAUAAAAUAAUUGUCCUGUUUAGGUUGAAAACGGUAGCGGUUUAUUGCGAUAAUUCCCCCUAAUUUUGGGGGUGAUCUUUUCAACUCUAUAUUCAAAAAGCUUUCACACGACCACAUAUGAGUAUGUUACGGUCGUUUCUUAUUUUCUAAAAGAUCACAUUCUUUUCGACGACAUAAAUUUAAGAUUAUAACAAUGGCAGAAAAACGUAAUA ...(((((((.........(((((((((.....)))).)))))..(((((((((.(((.((((....)))).......(((((.......)))))..)))))))))))).((((.((.............(((((((((((....)))))...)))))).........((.((((((......)))))).))..............)).)))).....))))))).......... (-46.20) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 329 182 143 156 120 aact:AA01662|5end_molybdopterin_biosynthesis_protein_1126131..1126361_POSITIVE 319 186 144 68 36 aact:AA01291|5end_excinuclease_ABC_subunit_A_872829..873059_POSITIVE 313 190 142 152 99 aact:AA01444|5end_ISRS011/IS150_related_transposase,_orfB_969159..969389_POSITIVE 309 190 141 207 158 aact:AA01635|5end_ribonucleoside_diphosphate_reductase,_beta_chain_1104615..1104845_POSITIVE 303 200 153 175 105 aact:AA01152|5end_sec-independent_protein_translocase_protein_789364..789594_POSITIVE 293 184 150 153 100 aact:AA01650|5end_maltose_transport_inner_membrane_protein_1118228..1118458_POSITIVE 293 190 142 166 121 aact:AA00576|5end_conserved_hypothetical_protein_(possible_translation_factor)_394020..394250_POSITIVE 285 107 62 154 101 aact:AA00454|5end_conserved_hypothetical_protein_318020..318250_POSITIVE 279 184 152 153 114 aact:AA00741|5end_possible_2-oxoglutarate/malate_transporter_506659..506889_POSITIVE 278 105 67 132 88 aact:AA00705|5end_Inositol-1-monophosphatase_(IMPase);_extragenic_suppressor_483827..484057_POSITIVE 274 85 41 117 72 aact:AA01936|5end_tyrosyl-tRNA_synthetase_1307043..1307273_POSITIVE 268 198 154 129 77 aact:AA01655|5end_hypothetical_protein_1121187..1121417_POSITIVE 267 178 138 211 170 aact:AA01825|5end_iron(III)_ABC_transporter,_permease_protein_1228475..1228705_POSITIVE 266 186 149 46 2 aact:AA02048|5end_galactitol_utilization_operon_repressor_1394744..1394974_POSITIVE 265 180 140 192 145 aact:AA01947|5end_iron(III)-transport_ATP-binding_protein_1316390..1316620_POSITIVE 263 188 155 61 23 aact:AA01908|5end_conserved_hypothetical_protein_1287068..1287298_POSITIVE 262 128 81 195 150 aact:AA02590|5end_conserved_hypothetical_protein_1801113..1801343_POSITIVE 262 167 125 166 125 aact:AA00982|5end_aldo-keto_reductase_686526..686756_POSITIVE 261 181 153 146 120 aact:AA00409|5end_methionyl-tRNA_formyltransferase_273611..273841_POSITIVE 258 190 142 53 5 aact:AA01757|5end_cobalt_transport_ATP-binding_protein_1187137..1187367_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 355 199 164 133 98 aact:AA02602|3end_conserved_hypothetical_protein_1814302..1814452_POSITIVE 329 182 143 137 101 aact:AA01661|3end_molybdopterin_biosynthesis_protein_1126192..1126342_POSITIVE 313 190 142 106 53 aact:AA01442|3end_phosphatidylserine_synthetase_969193..969343_POSITIVE 293 184 150 128 75 aact:AA01649|3end_maltose_ABC_transporter,_permease_protein_1118283..1118433_POSITIVE 285 107 62 63 10 aact:AA00453|3end_phosphoglyceromutase_318009..318159_POSITIVE 278 105 67 73 29 aact:AA00702|3end_conserved_hypothetical_protein_483848..483998_POSITIVE 264 176 140 150 113 aact:AA00575|3end_shikimate_5-dehydrogenase_394093..394243_POSITIVE 261 198 153 151 83 aact:AA01151|3end_porphobilinogen_synthase_(delta-aminolevulinic_acid_dehydratase)_789422..789572_POSITIVE 261 181 153 143 117 aact:AA00408|3end_SUN_protein_(FMU_protein)_273688..273838_POSITIVE 258 190 142 53 5 aact:AA01756|3end_cobalt_membrane_transport_protein_1187217..1187367_POSITIVE 254 185 142 99 51 aact:AA01934|3end_conserved_hypothetical_protein_1306993..1307143_POSITIVE 249 165 128 84 40 aact:AA00069|3end_conserved_hypothetical_protein_53333..53483_POSITIVE 248 183 153 149 122 aact:AA00930|3end_pantothenate_kinase_641266..641416_POSITIVE 246 108 61 125 82 aact:AA00195|3end_conserved_hypothetical_protein_137442..137592_POSITIVE 245 199 153 50 5 aact:AA02922|3end_gamma-glutamylphosphate_reductase_2047441..2047591_POSITIVE 242 200 152 127 73 aact:AA01750|3end_MTA/SAH_nucleosidase_[Includes:_5'-methylthioadenosine_nucleosidase;_S-adenosylhomocysteine_nucleosidase]_1184519..1184669_POSITIVE 242 199 152 83 38 aact:AA01568|3end_dipeptide_transport_system_ATP-binding_protein_1056932..1057082_POSITIVE 241 188 142 129 75 aact:AA01642|3end_possible_iron(III)_ABC_transporter_1112075..1112225_POSITIVE 240 198 151 148 79 aact:AA00785|3end_conserved_hypothetical_protein_(possible_integrase)_539672..539822_POSITIVE 239 189 141 127 61 aact:AA01873|3end_mannose-6-phosphate_isomerase_1261940..1262090_POSITIVE