Origin IGS: taagcatcttctaagaaggccatattgcagtttcccatcacaatttgtaaccgtttaacttgcatcaagtatgcgaacagtttaggcaatagtgaatgaacagaactttatttctgcaagaaaaccattaaggtttaaagttttatcgttatatttgtgggtaaggtacggcaacttttaattatgaaactaaacgagtagataacttctgtctttaaaagacaatgatttgagcatatttgtacctttgttatagcaagggttaaatcaggaatataagttgaagaagtttaccgaatgaggaatgggaaattattttatttaaatttttaat .........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.........1.........2.........3.........4.........5.........6.........7.........8.........9 attaaaaatttaaataaaataatttcccattcctcattcggtaaacttcttcaacttatattcctgatttaacccttgctataacaaaggtacaaatatgctcaaatcattgtcttttaaagacagaagttatctactcgtttagtttcataattaaaagttgccgtaccttacccacaaatataacgataaaactttaaaccttaatggttttcttgcagaaataaagttctgttcattcactattgcctaaactgttcgcatacttgatgcaagttaaacggttacaaattgtgatgggaaactgcaatatggccttcttagaagatgctta Mask Tandem Repeat Region ================================================ taagcatcttctaagaaggccatattgcagtttcccatcacaatttgtaaccgtttaacttgcatcaagtatgcgaacagtttaggcaatagtgaatgaacagaactttatttctgcaagaaaaccattaaggtttaaagttttatcgttatatttgtgggtaaggtacggcaacttttaattatgaaactaaacgagtagataacttctgtctttaaaagacaatgatttgagcatatttgtacctttgttatagcaagggttaaatcaggaatataagttgaagaagtttaccgaatgaggaatgggaaattattttatttaaatttttaat Find is-nt database================================================ Query_seq: PI0075:PI0076|PI0075:PI0076:uridine kinase:conserved hypothetical protein:->->:75451..75784 334 taagcatcttctaagaaggccatattgcagtttcccatcacaatttgtaaccgtttaacttgcatcaagtatgcgaacagtttaggcaatagtgaatgaacagaactttatttctgcaagaaaaccattaaggtttaaagttttatcgttatatttgtgggtaaggtacggcaacttttaattatgaaactaaacgagtagataacttctgtctttaaaagacaatgatttgagcatatttgtacctttgttatagcaagggttaaatcaggaatataagttgaagaagtttaccgaatgaggaatgggaaattattttatttaaatttttaat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0075:PI0076|PI0075:PI0076:uridine kinase:conserved hypothetical protein:->->:75451..75784 334 taagcatcttctaagaaggccatattgcagtttcccatcacaatttgtaaccgtttaacttgcatcaagtatgcgaacagtttaggcaatagtgaatgaacagaactttatttctgcaagaaaaccattaaggtttaaagttttatcgttatatttgtgggtaaggtacggcaacttttaattatgaaactaaacgagtagataacttctgtctttaaaagacaatgatttgagcatatttgtacctttgttatagcaagggttaaatcaggaatataagttgaagaagtttaccgaatgaggaatgggaaattattttatttaaatttttaat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0075:PI0076|PI0075:PI0076:uridine kinase:conserved hypothetical protein:->->:75451..75784 334 taagcatcttctaagaaggccatattgcagtttcccatcacaatttgtaaccgtttaacttgcatcaagtatgcgaacagtttaggcaatagtgaatgaacagaactttatttctgcaagaaaaccattaaggtttaaagttttatcgttatatttgtgggtaaggtacggcaacttttaattatgaaactaaacgagtagataacttctgtctttaaaagacaatgatttgagcatatttgtacctttgttatagcaagggttaaatcaggaatataagttgaagaagtttaccgaatgaggaatgggaaattattttatttaaatttttaat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taagcatcttctaagaaggccatattgcagtttcccatcacaatttgtaaccgtttaacttgcatcaagtatgcgaacagtttaggcaatagtgaatgaacagaactttatttctgcaagaaaaccattaaggtttaaagttttatcgttatatttgtgggtaaggtacggcaacttttaattatgaaactaaacgagtagataacttctgtctttaaaagacaatgatttgagcatatttgtacctttgttatagcaagggttaaatcaggaatataagttgaagaagtttaccgaatgaggaatgggaaattattttatttaaatttttaat Predict ORF larger than 30AA ================================================ Protein_Len: 30 Strand: + Start: 89 End: 178 ........................................................................................ M V N E Q N F I S A R K P L R F K V L S L Y L W V R Y G N F ............................................................................................................................................................ Protein_Len: 46 Strand: - Start: 138 End: 275 ......................................................................................................................................... L K I T I N T P L T R C S K I I F S F S Y I V E T K L L C H N S C I Q V K T I A L T L D P M ........................................................... Protein_Len: 30 Strand: - Start: 85 End: 174 .................................................................................... A I T F S C F K I E A L F G N L N L T K D N Y K H T L Y P M ................................................................................................................................................................ taagcatcttctaagaaggccatattgcagtttcccatcacaatttgtaaccgtttaacttgcatcaagtatgcgaacagtttaggcaatagtgaatgaacagaactttatttctgcaagaaaaccattaaggtttaaagttttatcgttatatttgtgggtaaggtacggcaacttttaattatgaaactaaacgagtagataacttctgtctttaaaagacaatgatttgagcatatttgtacctttgttatagcaagggttaaatcaggaatataagttgaagaagtttaccgaatgaggaatgggaaattattttatttaaatttttaat 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================================================ taagcatcttctaagaaggccatattgcagtttcccatcacaatttgtaaccgtttaacttgcatcaagtatgcgaacagtttaggcaatagtgaatgaacagaactttatttctgcaagaaaaccattaaggtttaaagttttatcgttatatttgtgggtaaggtacggcaacttttaattatgaaactaaacgagtagataacttctgtctttaaaagacaatgatttgagcatatttgtacctttgttatagcaagggttaaatcaggaatataagttgaagaagtttaccgaatgaggaatgggaaattattttatttaaatttttaat Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 48 HP_score: -3.3 Tail_Score: -3.406 Start: 101 End: 116 Full_Region: ttaatggttttcttg cagaa ataaag ttctg ttcattcactattgc ....................................................................................................cagaaataaagttctg.......................................................................................................................................................................................................................... Find igs database================================================ Query_seq: PI0075:PI0076|PI0075:PI0076:uridine kinase:conserved hypothetical protein:->->:75451..75784 334 taagcatcttctaagaaggccatattgcagtttcccatcacaatttgtaaccgtttaacttgcatcaagtatgcgaacagtttaggcaatagtgaatgaacagaactttatttctgcaagaaaaccattaaggtttaaagttttatcgttatatttgtgggtaaggtacggcaacttttaattatgaaactaaacgagtagataacttctgtctttaaaagacaatgatttgagcatatttgtacctttgttatagcaagggttaaatcaggaatataagttgaagaagtttaccgaatgaggaatgggaaattattttatttaaatttttaat Intra-Species Hit: Count: 1 Min: 1 Max: 334 Len: 334 Subject: pint_PI0075_PI0076|uridine kinase:conserved hypothetical protein|POSITIVE:POSITIVE|[75451,75784]|334 HSP 1 e-value: 0.0 bit: 662.0 Len: 334 Query Start:1 Query End:334 Subject Strand: POSITIVE Subject Start: 1 Subject End: 334 taagcatcttctaagaaggccatattgcagtttcccatcacaatttgtaaccgtttaacttgcatcaagtatgcgaacagtttaggcaatagtgaatgaacagaactttatttctgcaagaaaaccattaaggtttaaagttttatcgttatatttgtgggtaaggtacggcaacttttaattatgaaactaaacgagtagataacttctgtctttaaaagacaatgatttgagcatatttgtacctttgttatagcaagggttaaatcaggaatataagttgaagaagtttaccgaatgaggaatgggaaattattttatttaaatttttaat taagcatcttctaagaaggccatattgcagtttcccatcacaatttgtaaccgtttaacttgcatcaagtatgcgaacagtttaggcaatagtgaatgaacagaactttatttctgcaagaaaaccattaaggtttaaagttttatcgttatatttgtgggtaaggtacggcaacttttaattatgaaactaaacgagtagataacttctgtctttaaaagacaatgatttgagcatatttgtacctttgttatagcaagggttaaatcaggaatataagttgaagaagtttaccgaatgaggaatgggaaattattttatttaaatttttaat Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAGCAUCUUCUAAGAAGGCCAUAUUGCAGUUUCCCAUCACAAUUUGUAACCGUUUAACUUGCAUCAAGUAUGCGAACAGUUUAGGCAAUAGUGAAUGAACAGAACUUUAUUUCUGCAAGAAAACCAUUAAGGUUUAAAGUUUUAUCGUUAUAUUUGUGGGUAAGGUACGGCAACUUUUAAUUAUGAAACUAAACGAGUAGAUAACUUCUGUCUUUAAAAGACAAUGAUUUGAGCAUAUUUGUACCUUUGUUAUAGCAAGGGUUAAAUCAGGAAUAUAAGUUGAAGAAGUUUACCGAAUGAGGAAUGGGAAAUUAUUUUAUUUAAAUUUUUAAU ...((((((((...)))))......))).(((((((((..(.....((..((((....(((((..(((((((((((...(((((..((....))..))))).((((((((..(((...............)))..))))))))..))).))))))))...)))))..))))..))...................((.((((((..((((.((((.....))))..(((((((.(((....)))((((((((....)))))))))))))))............))))..)))))))).....)..)))))))))..................... (-74.26) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUUAAAAAUUUAAAUAAAAUAAUUUCCCAUUCCUCAUUCGGUAAACUUCUUCAACUUAUAUUCCUGAUUUAACCCUUGCUAUAACAAAGGUACAAAUAUGCUCAAAUCAUUGUCUUUUAAAGACAGAAGUUAUCUACUCGUUUAGUUUCAUAAUUAAAAGUUGCCGUACCUUACCCACAAAUAUAACGAUAAAACUUUAAACCUUAAUGGUUUUCUUGCAGAAAUAAAGUUCUGUUCAUUCACUAUUGCCUAAACUGUUCGCAUACUUGAUGCAAGUUAAACGGUUACAAAUUGUGAUGGGAAACUGCAAUAUGGCCUUCUUAGAAGAUGCUUA ......................((((((((..(......(((((.((((...............((((((.(((.(((......))).))).((....))...))))))..((((.....)))).)))))))))......(((((((....))))))).((.(((((.....................................(((((((......((((((......))))))......)))))))....((((....((((.....)))).))))..))))).)).....)..)))))))).........(((..(((....))).))).. (-52.50) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 334 92 52 229 188 pint:PI0029|5end_glutamine_amidotransferase_(GMP_synthase_(glutamine-hydrolyzing))_32593..32823_POSITIVE 300 87 41 87 53 pint:PI0093|5end_riboflavin_biosynthesis_protein_90489..90719_POSITIVE 269 311 280 34 4 pint:PI0423|5end_hypothetical_protein_388101..388331_POSITIVE 267 178 140 212 158 pint:PI1426|5end_flavodoxin_1344881..1345111_POSITIVE 265 300 256 225 177 pint:PI1971|5end_possible_IS1249-related_transposase_1928027..1928257_POSITIVE 265 300 256 225 177 pint:PI1533|5end_conserved_hypothetical_protein;_possible_transposase_1452667..1452897_POSITIVE 265 300 256 225 177 pint:PI0534|5end_conserved_hypothetical_protein;_possible_transposase_488568..488798_POSITIVE 253 174 133 203 158 pint:PI1847|5end_conserved_hypothetical_protein;_possible_integral_membrane_protein_1792006..1792236_POSITIVE 253 59 14 151 117 pint:PI1448|5end_hypothetical_protein_1371579..1371809_POSITIVE 252 117 73 216 162 pint:PI0605|5end_chloromuconate_cycloisomerase_551912..552142_POSITIVE 250 110 74 218 187 pint:PI2136|5end_hypothetical_protein_2082605..2082835_POSITIVE 250 297 256 161 129 pint:PI1992|5end_hypothetical_protein_1946427..1946657_POSITIVE 250 99 52 145 104 pint:PI1439|5end_hypothetical_protein_1360009..1360239_POSITIVE 248 56 16 51 3 pint:PI0796|5end_competence_protein_733324..733554_POSITIVE 247 120 72 174 109 pint:PI0669|5end_hypothetical_protein_610924..611154_POSITIVE 246 77 50 122 102 pint:PI0432|5end_hypothetical_protein_404781..405011_POSITIVE 246 77 50 65 45 pint:PI0433|5end_hypothetical_protein_404724..404954_POSITIVE 245 103 72 33 8 pint:PI2103|5end_hypothetical_protein_2057702..2057932_POSITIVE 244 87 45 68 31 pint:PI1405|5end_conserved_hypothetical_protein_1326035..1326265_POSITIVE 242 119 71 192 141 pint:PI1099|5end_low_molecular_weight_protein-tyrosine-phosphatase_1023059..1023289_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 282 107 62 150 94 pint:PI0184|3end_possible_fibronectin_type_III_domain_protein_176516..176666_POSITIVE 267 178 140 100 46 pint:PI1425|3end_conserved_hypothetical_protein_1344849..1344999_POSITIVE 253 174 133 60 15 pint:PI1846|3end_hypothetical_protein_1791943..1792093_POSITIVE 252 117 73 142 88 pint:PI0604|3end_O-succinylbenzoic_acid--CoA_ligase_551918..552068_POSITIVE 250 178 146 144 113 pint:PI2043|3end_hypothetical_protein_1996257..1996407_POSITIVE 247 120 72 125 60 pint:PI0668|3end_peptidyl-prolyl_cis-trans_isomerase_SlyD,_FKBP-type_(peptidylprolyl_isomerase)_610955..611105_POSITIVE 245 118 74 141 107 pint:PI0965|3end_hypothetical_protein_894392..894542_POSITIVE 243 39 3 149 105 pint:PI1539|3end_3-phosphoshikimate_1-carboxyvinyltransferase_1461134..1461284_POSITIVE 243 311 271 43 6 pint:PI0189|3end_integrase_180437..180587_POSITIVE 240 310 265 131 72 pint:PI0227|3end_ABC_transporter,_ATP-binding/permease_protein_225632..225782_POSITIVE 238 87 51 29 2 pint:PI0094|3end_protoporphyrinogen_oxidase_90511..90661_POSITIVE 237 103 74 110 81 pint:PI1965|3end_hypothetical_protein_1922906..1923056_POSITIVE 237 103 74 57 28 pint:PI1964|3end_conserved_hypothetical_protein_1922853..1923003_POSITIVE 235 178 131 108 60 pint:PI1254|3end_probable_glucokinase_1176646..1176796_POSITIVE 232 36 3 64 26 pint:PI0683|3end_hypothetical_protein_619797..619947_POSITIVE 229 178 153 25 2 pint:PI2042|3end_cation-transporting_ATPase_1996138..1996288_POSITIVE 227 51 15 56 23 pint:PI1230|3end_probable_metallo-beta-lactamase_family_protein_1152729..1152879_POSITIVE 227 117 71 115 67 pint:PI0161|3end_possible_TonB_receptor_155957..156107_POSITIVE 225 98 51 112 62 pint:PI0754|3end_possible_outer_membrane_receptor_686424..686574_POSITIVE 224 309 271 107 67 pint:PI1075|3end_pyruvate_phosphate_dikinase_998571..998721_POSITIVE