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Ureaplasma urealyticum




Three different base composition analyses were performed on the coding regions in the Ureaplasma urealyticum genome: G+C content (%), genome signature, and codon bias. The genome signature and codon bias were determined according to methods established by Samuel Karlin (Trends Microbiol. 2001 Jul;9(7):335-43.). The codon bias of each gene was calculated against both the whole genome and the set of ribosomal proteins. Ribosomal proteins in microbial genomes are typically encoded by genes that have a codon usage distinct from the genome mean. Ribosomal proteins and genes with codon usage patterns similar to them have been linked to gene expression (Karlin S, Mrazek J. J Bacteriol. 2000 Sep;182(18):5238-50.).Genes that deviate from the genome, but not the set of ribosomal proteins are considered putative highly expressed, whereas genes that deviate from both the genome mean and the ribosomal proteins are considered putative alien genes. Each of these analyses is displayed below as well as a measure of deviation from the genome mean value. The table is ordered by gene ID numbers, which reflect genome position. Gene clusters with deviant base composition can be identified. Genes that are 3 or more standard deviations from the mean in any of the base composition metrics are catalogued the Deviant Gene Table.




Metric Mean Value Standard Deviation
 G+C Content (%) 25.70   3.84 
 Genome Signature 139  63 
 Codon Bias (Genome) 237   94 
 Codon Bias (Ribosomal) 277   81 


Standard deviations are indicated by a number of stars:
*       difference from mean is greater than 1.5  standard deviations
**      difference from mean is greater than 2    standard deviations
***     difference from mean is greater than 3    standard deviations
****    difference from mean is greater than 4    standard deviations
*****   difference from mean is greater than 5    standard deviations





 Gene       G+C        Genome      Codon Bias   Codon Bias     Database
  ID 	  Content(%)  Signature     (Genome)    (Ribosomal)    Definition
-------   -------    -----------   ----------   -----------    --------------------
UU001      24.67        103           167           253        chromosome replication initiator protein DnaA
UU002      27.78        175           386 *         310        50S ribosomal protein L31
UU003      32.04 *       89           231           295        peptide chain release factor RF-1
UU004      22.45         77           152           209        protoporphyrinogen oxidase N-terminal residues
UU005      27.87        110           303           341        protoporphyrinogen oxidase partial C-terminal
                                                               residues
UU006      30.54        209           351           390        phosphoriboisomerase B; galactoside O-
                                                               acetyltransferase
UU007      30.66        131           373           363        hypothetical protein
UU008      32.49 *      167           315           359        hypothetical protein
UU009      25.75         66           166           182        magnesium cation transport protein
UU010      32.34 *      198           217           177        50S ribosomal protein L10
UU011      35.25 **     326 **        336           300        50S ribosomal protein L7/L12
UU012      28.82        102           136           153        conserved hypothetical protein (possible TMPC-
                                                               related membrane lipoprotein)
UU013      30.32        167           173           188        ribose/galactose ABC transporter, permease
UU014      25.51         90           137           201        ribose/galactose ABC transporter, permease
UU015      28.48        109           148           184        galactoside permease, ABC transporter
UU016      30.16        138           178           161        conserved hypothetical protein (possible TMPC-
                                                               related membrane lipoprotein)
UU017      26.82        133           210           304        conserved hypothetical protein (possible hydrolase)
UU018      25.59         94           192           259        thiophene and furan oxidation protein
UU019         20         85           193           226        DNA polymerase III subunit delta
UU020      24.07        103           254           319        thymidylate kinase
UU021      24.02        156           200           274        esterase/lipase 3 (triacylglycerol lipase)
UU022      23.95        166           202           281        ferrichrome ABC transporter
UU023      25.24        153           225           314        ferrichrome ABC transporter
UU024      23.64        111           153           253        Ureaplasma specific conserved hypothetical protein
UU025      25.82        172           185           231        ferrichrome ABC transporter
UU026      29.05         89           210           179        30S ribosomal protein S2
UU027      23.15         69           151           211        hypothetical protein
UU028      23.29        165           241           282        hypothetical protein
UU029      24.61         75           126           187        conserved hypothetical protein (possible TEX
                                                               protein)
UU030      25.04         88           136           212        conserved hypothetical protein
UU031      20.26        154           224           271        hypothetical protein
UU032      21.97        219           281           364        hypothetical protein
UU033      24.47        223           283           385        hypothetical protein
UU034         25        133           304           385        hypothetical protein
UU035      22.92        129           255           318        hypothetical protein
UU036      20.14        144           221           310        conserved hypothetical protein (possible
                                                               methyltransferase)
UU037      21.72        241 *         448 **        540 ***    hypothetical protein
UU038      25.07        132           163           258        hypothetical protein
UU039      29.92         73           164           178        glucose inhibited division protein A
UU040      24.19        125           215           258        glucose inhibited division protein B
UU041      22.59        237 *         332           385        hypothetical protein
UU042       22.3        220           269           343        hypothetical protein
UU043      28.37         83           165           196        conserved hypothetical protein (possible membrane
                                                               lipoprotein)
UU044      31.08        135           115           201        conserved hypothetical protein
UU045      27.15         58           148           229        conserved hypothetical protein (possible membrane
                                                               lipoprotein)
UU046      31.31        111           138           208        hypothetical protein
UU047      27.04        111           130           239        conserved hypothetical protein (possible membrane
                                                               lipoprotein)
UU048      22.27        131           228           274        hypothetical protein
UU049      20.16        113           248           247        hypothetical protein
UU050      20.55        163           184           240        hypothetical protein
UU051      19.88 *      183           242           258        hypothetical protein
UU052      23.87         62           141           210        hypothetical protein
UU053       27.6         96           201           189        ATP synthase alpha chain
UU054       28.5         64           167           173        ATP synthase beta chain
UU055      25.17         57           112           203        possible membrane-associated nuclease A
UU056      25.33        199           352           383        hypothetical protein
UU057      27.38         92           164           208        VACB exoribonuclease (virulence factor)
UU058       27.7        129           308           360        small protein B
UU059      25.91         87           171           249        ABC transporter of MSBA family (function unknown)
UU060      25.71         92           143           230        ABC transporter of MSBA family (function unknown)
UU061      23.02        219           195           266        hypothetical protein
UU062       27.4         79           187           254        lysyl-tRNA synthetase
UU063         26        103           311           317        hypothetical protein
UU064      19.48 *      236 *         397 *         456 **     hypothetical protein
UU065      26.44         90           235           194        oligoendopeptidase F
UU066      23.81        115           237           319        phosphotransacetylase
UU067      20.16        173           187           230        hypothetical protein (possible regulatory protein)
UU068      26.64        206           275           238        conserved hypothetical protein
UU069      23.52         69           205           220        FECE-related iron transport protein
UU070      26.52        170           249           265        FECCD/HMUU-related iron transport permease
UU071      25.56         52           147           225        hypothetical protein
UU072      25.58         42           192           262        conserved hypothetical protein (hemolysin homolog)
UU073      24.17        143           215           268        conserved hypothetical protein
UU074      29.35        100           217           241        thioredoxin reductase
UU075      29.46        132           161           260        prolipoprotein diacyglyceryl transferase
UU076      26.75        153           207           237        probable HPRK (Ser) kinase
UU077      24.25        216           250           300        conserved hypothetical protein (probable PP-loop
                                                               ATPase)
UU078      25.85        102           284           323        peptidyl-tRNA hydrolase
UU079       23.6         98           213           255        DNA polymerase III beta chain
UU080      22.83        152           471 **        520 ***    hypothetical protein
UU081      30.72         50           149           185        DNA topoisomerase subunit B (gyrase B)
UU082      29.73         82           163           176        DNA topoisomerase subunit A (gyrase A)
UU083      28.87        185           269           270        conserved hypothetical protein
UU084      27.66        114           252           304        recombination protein RECA
UU085      27.14         80           169           230        conserved hypothetical protein
UU086      26.47        120           256           236        deoxypurine kinase subunit
UU087      22.69         79           129           207        DNA polymerase III gamma-tau subunits
UU088      28.33        147           461 **        459 **     conserved hypothetical protein
UU089      26.73         89           211           242        recombination protein RECR
UU089.1    28.09        228           450 **        376        conserved hypothetical protein
UU090      27.92        109           316           402 *      conserved hypothetical protein
UU091      30.36         54           188           254        signal recognition particle (GTPase)
UU092      21.81         96           184           266        Ureaplasma-specific conserved hypothetical protein
UU093      24.89         81           220           202        ABC transporter
UU094      23.54         56           136           182        hypothetical protein
UU095      24.19        120           161           248        type I restriction enzyme R protein
UU096      23.25         89           264           325        type I restriction enzyme S protein
UU097       26.6        220           403 *         469 **     type I restriction enzyme S protein
UU098      26.84         89           206           247        type I restriction enzyme M protein
UU099      23.73        160           332           394        type I restriction enzyme S protein
UU100      23.23        160           241           323        type I restriction enzyme M protein
UU101       32.8 *      206           256           178        hypothetical protein
UU102      29.63         61           148           196        excinuclease ABC sununit A
UU103      22.76         96           148           226        hypothetical protein
UU104       27.7        117           164           213        hypoxanthine-guanine phosphoribosyltransferase
UU105      30.98         79           147           175        cell division protein
UU106      27.68         99           203           190        seryl-tRNA synthetase
UU107      27.56         60           161           205        spermidine/putrescine ABC transporter
UU108      25.69        153           235           217        spermidine/putrescine ABC transporter
UU109      25.26        189           229           246        spermidine/putrescine ABC transporter
UU110       24.5         90           133           203        probable putrescine/spermidine-binding lipoprotein
UU111      23.71         95           249           315        hypothetical protein
UU112      20.74        112           157           254        hypothetical protein
UU113       21.2        136           207           299        pseudouridine synthase (uracil hydrolase)
UU114      21.66        131           246           302        dihydrofolate reductase
UU115      23.75        111           259           299        phosphoglycolate phosphatase (possible frameshift)
UU116      29.01        102           247           295        uracil phosphoribosyltransferase
UU117       24.2         95           175           262        tyrosyl-tRNA synthetase
UU118      29.13        117           220           192        ABC transporter
UU119      27.61         67           153           222        preprotein translocase subunit (SECA)
UU120      28.39         71           130           215        excinuclease ABC subunit B
UU121      26.01         74           167           226        DNA ligase; Polydeoxyribonucleotide synthase (NAD+)
UU122      21.65        182           210           253        conserved hypothetical protein
UU123      23.72        106           130           216        cysteinyl tRNA synthetase
UU124      24.58        127           225           303        rRNA methylase (SPOU family)
UU125      20.51        180           164           218        conserved hypothetical protein
UU126      22.83         66           111           215        conserved hypothetical protein
UU127      20.92        236 *         408 *         439 **     hypothetical protein
UU128      24.82        224           270           270        ATP synthase epsilon chain
UU129       36.2 **      91           201           168        ATP synthase beta chain
UU130      28.46        164           208           234        ATP synthase gamma chain
UU131      25.65        152           209           275        hypothetical protein
UU132      31.67 *       94           136           160        ATP synthase alpha chain
UU133      26.67        198           420 *         465 **     ATP synthase delta chain
UU134      24.07        141           265           293        ATP synthase delta chain
UU135      29.13        233           266           271        ATP synthase B chain
UU136      34.24 **     262 *         401 *         298        ATP synthase C chain
UU137      31.16        101           226           232        ATP synthase A chain
UU138       23.9        192           280           327        putative ATPI - ATP synthase protein I
UU139      18.28 *      212           245           331        conserved hypothetical protein
UU140      25.97         74           121           214        p115 protein homolog
UU141       26.8         74           181           236        cell division protein FTSY homolog
UU142         21        236 *         303           329        conserved hypothetical protein
UU143      23.25         91           151           249        conserved hypothetical protein
UU144      22.81        142           235           271        Ureaplasma specific conserved hypothetical protein
UU145       23.5        210           288           330        integrase/recombinase
UU146       25.2        125           290           287        hypothetical protein
UU147      23.56        413 ****      550 ***       476 **     hypothetical protein
UU148      19.59 *      202           193           240        hypothetical protein
UU149       22.9        117           423 *         400 *      hypothetical protein
UU150      24.89        338 ***       438 **        443 **     hypothetical protein
UU151      21.86        324 **        483 **        459 **     hypothetical protein
UU152      26.52        276 **        390 *         423 *      hypothetical protein
UU153      22.32        271 **        341           388        hypothetical protein
UU154      32.88 *      143           267           272        hypothetical protein
UU155      24.64        175           275           293        hypothetical protein
UU156      22.94        158           243           294        hypothetical protein
UU157      25.07        269 **        329           371        hypothetical protein
UU158      27.93        152           425 **        456 **     hypothetical protein
UU159      26.41        156           312           336        hypothetical protein
UU160      28.19        154           354           426 *      hypothetical protein
UU161      27.38        189           374           433 *      hypothetical protein
UU162      26.86        106           183           186        hypothetical protein
UU163      26.05        148           278           290        hypothetical protein
UU164      30.22         89           205           208        hypothetical protein
UU165      25.69        205           292           307        hypothetical protein
UU165.1    23.18        128           278           310        hypothetical protein
UU165.2    27.32        150           456 **        502 **     hypothetical protein
UU166      28.57        105           170           238        conserved hypothetical protein
UU167      25.56        167           314           318        hypothetical protein
UU168      25.94        173           289           306        hypothetical protein
UU169      30.91        157           239           312        hypothetical protein
UU170      30.63        188           519 ***       532 ***    hypothetical protein
UU171         22        157           220           276        Ureaplasma specific conserved hypothetical protein
UU172      23.87        128           134           162        Ureaplasma specific conserved hypothetical protein
                                                               (MBA N-term paralog)
UU173      24.17         73           127           190        conserved hypothetical protein
UU174      30.14        146           264           270        conserved hypothetical protein (possible hydrolase)
UU175      27.25         79           159           190        tryptophanyl-tRNA synthetase
UU176      25.84        176           340           355        conserved hypothetical protein
UU177      22.02        158           213           305        conserved hypothetical protein
UU178      19.69 *      186           308           258        probable PTS glucose-specific permease
UU179      23.87        194           392 *         369        hypothetical protein
UU180      25.21        132           287           325        conserved hypothetical protein
UU181      22.45        176           250           325        triosephosphate isomerase
UU182       28.3         96           174           283        phosphoglycerate mutase (2,3-bisphosphoglycerate-
                                                               independent phosphoglycerate mutase)(BPG-independent
                                                               PGAM)
UU183      20.09        109           221           336        hypothetical protein
UU184      28.72        104           163           212        enolase
UU185      24.43         82           222           280        6-phosphofructokinase
UU186      22.88        116           163           269        pyruvate kinase (possible frameshift)
UU187       29.2         61           104           120        DNA-directed RNA polymerase beta chain
UU188      30.02         68           181           193        DNA-directed RNA polymerase beta prime chain
UU189       22.8        123           264           274        Ureaplasma-specific conserved hypothetical protein
                                                               (MBA paralog)
UU190      25.81        117           253           300        conserved hypothetical protein (possible frameshift
                                                               with UU191)
UU191      26.09        196           482 **        524 ***    hypothetical protein (possible frameshift with
                                                               UU190)
UU192       23.4        127           259           342        conserved hypothetical protein (related to tRNA
                                                               synthetase proteins?)
UU193      31.12        115           211           252        ribose-phosphate pyrophosphokinase
                                                               (phosphoribosylpyrophosphate synthetase [PRPP
                                                               synthetase])
UU194       21.3        160           235           264        conserved hypothetical protein
UU195         25         97           233           312        conserved hypothetical protein (possible
                                                               methyltransferase)
UU196      26.57         91           155           206        conserved hypothetical protein
UU197      25.54         64           169           243        methionyl-tRNA synthetase
UU198      26.94         99           185           296        conserved hypothetical protein (MG412 homolog)
UU199      27.69        123           165           169        phosphate ABC transporter
UU200      27.88         77           174           233        phosphate ABC transporter
UU201      22.98        188           240           231        conserved hypothetical protein
UU202      23.56        200           371           344        hypothetical protein
UU203      25.07        127           166           191        copper/potassium transporting ATPase A
UU204      28.52        187           394 *         304        30S ribosomal protein S15
UU205      26.72        158           235           244        ribonuclease III protein
UU206      27.01        138           218           233        fatty acid and phospholipid synthesis protein
UU207       27.2         64           143           202        conserved hypothetical protein
UU208      22.47        168           297           343        hypothetical protein
UU209      18.15 *      153           207           307        hypothetical protein
UU209.1    33.85 **     174           409 *         357        50S ribosomal protein L28
UU210      32.34 *      293 **        463 **        420 *      50S ribosomal protein L27
UU211       24.6        251 *         299           333        conserved hypothetical protein
UU212      28.38        226           280           273        50S ribosomal protein L21
UU213      25.52        105           275           367        guanylate kinase
UU214      19.19 *      170           166           275        conserved hypothetical protein
UU215      27.69        115           235           309        protein phosphatase
UU216       24.2         71           211           217        serine-threonine protein kinase
UU217      25.48         92           229           327        conserved hypothetical protein
UU218      34.12 **     165           190           198        ammonium transporter
UU219      33.14 *      137           198           207        ammonium transporter
UU220       22.3         86           173           277        hypothetical protein
UU221      27.39        120           136           215        formate-tetrahydrofolate ligase
UU222      22.05        157           220           240        integrase/recombinase
UU223      31.62 *      122           220           192        amino acid antiporter protein
UU224      22.45        102           186           232        conserved hypothetical protein
UU225      25.79        262 *         240           268        hypothetical protein
UU225.1    27.68        241 *         427 **        469 **     hypothetical protein
UU226         27        116           165           210        conserved hypothetical protein (possible TmpC-
                                                               related membrane lipoprotein)
UU227      27.19        159           313           261        translation initiation factor IF3
UU228      30.77        276 **        486 **        444 **     50S ribosomal protein L35
UU229      31.68 *      205           300           243        50S ribosomal protein L20
UU230      27.45        247 *         444 **        358        30S ribosomal protein S10
UU231      33.62 **     158           259           218        50S ribosomal protein L3
UU232      32.08 *      182           360           270        50S ribosomal protein L4
UU233      31.13        218           302           249        50S ribosomal protein L23
UU234      33.45 **     177           334           231        50S ribosomal protein L2
UU235      30.34        193           453 **        401 *      30S ribosomal protein S19
UU236      29.27        137           238           157        50S ribosomal protein L22
UU237       32.3 *      118           264           188        30S ribosomal protein S3
UU238      33.33 *      115           353           300        50S ribosomal protein L16
UU239      31.58 *      235 *         508 **        462 **     50S ribosomal protein L29
UU240      32.94 *      227           530 ***       517 **     30S ribosomal protein S17
UU241      36.59 **     167           439 **        382        50S ribosomal protein L14
UU242      28.83        196           387 *         345        50S ribosomal protein L24
UU243      30.81        137           278           219        50S ribosomal protein L5
UU244      36.56 **     252 *         468 **        361        30S ribosomal protein S14
UU245      29.07        153           307           249        30S ribosomal protein S8
UU246       32.6 *      165           281           220        50S ribosomal protein L6
UU247      31.15        249 *         348           245        50S ribosomal protein L18
UU248      32.52 *      178           252           197        30S ribosomal protein S5
UU249      32.21 *      202           305           278        50S ribosomal protein L15
UU250      30.79        122           249           212        SecY - preprotein translocase SecY subunit
UU251       28.5         93           224           247        adenylate kinase
UU252      30.67        105           253           244        methionine aminopeptidase
UU253      33.33 *      163           392 *         308        translation initiation factor IF-1
UU254      34.21 **     396 ****      421 *         396        50S ribosomal protein L36
UU255      33.08 *      167           339           290        30S ribosomal protein S13
UU256      35.52 **     141           367           350        30S ribosomal protein S11
UU257      30.28        114           302           238        DNA-directed RNA polymerase alpha chain
UU258      35.83 **     207           354           299        50S ribosomal protein L17
UU259      19.83 *      181           148           249        conserved hypothetical protein
UU260      22.53         87           179           263        conserved hypothetical protein
UU261      17.65 **     162           263           359        hypothetical protein
UU262       23.3        128           284           352        conserved hypothetical protein
UU263      20.84        146           208           278        hypothetical protein
UU264      27.09         45           114           224        cation-transporting P-ATPase
UU265      29.09        164           393 *         401 *      conserved hypothetical protein
UU266      26.79        129           248           335        conserved hypothetical protein (probable GTP-binding
                                                               protein)
UU267      24.76         88           170           302        valyl-tRNA synthetase
UU268      25.24        122           246           334        rRNA methylase (SPOU family)
UU269       24.3        153           238           275        conserved hypothetical protein
UU270      22.92        200           225           261        hypothetical protein
UU271      18.41 *      126           125           210        conserved hypothetical protein
UU272      25.71        122           273           300        probable HIT protein
UU273      19.84 *      166           163           228        hypothetical protein
UU274      21.22         95           160           224        oxygen-independent coproporphyrinogen III oxidase
UU275      26.56        219           294           350        hypothetical protein
UU276      28.94        100           191           271        conserved hypothetical protein
UU277      29.17        447 ****      452 **        423 *      hypothetical protein (possible RPS21 ribosomal
                                                               protein)
UU278      26.01         84           158           223        arginyl-tRNA synthetase
UU279      28.61        109           171           274        phosphoglycerate kinase
UU280      31.59 *       96           179           185        endoglucanase M
UU281      30.69        109           241           271        purine nucleoside phosphorylase
UU282      27.74        146           337           320        histone-like DNA binding protein (HU-alpha)
UU283      25.96         94           126           154        guanosine-3',5'-bis(diphosphate) 3'-
                                                               pyrophosphohydrolase
UU284      25.84         59           131           201        CTP synthetase (UTP ammonia ligase)
UU285      25.57         70           164           259        histidyl-tRNA synthetase
UU286      27.35        113           136           226        aspartyl-tRNA synthetase
UU287      20.63        150           247           325        hypothetical protein (possible tRNA synthetase
                                                               related)
UU288      22.44        298 **        451 **        462 **     hypothetical protein
UU289      26.51        175           270           289        peptide methionine sulfoxide reductase
UU290      19.63 *      126           231           296        hypothetical protein
UU291      24.34        138           275           302        glutathione peroxidase
UU292      21.83         53            75           174        conserved hypothetical protein
UU293      22.12         77            88           175        conserved hypothetical protein
UU294      18.48 *      220           253           343        hypothetical protein
UU295       29.4        142           201           290        conserved hypothetical protein (possibly YEBC-
                                                               related)
UU296      18.76 *      258 *         251           333        hypothetical protein
UU297      20.86        124           217           269        conserved hypothetical protein
UU298      30.34        122           296           305        elongation factor P
UU299      21.78        190           392 *         392        hypothetical protein
UU300      22.92        156           225           287        N-utilization substance protein B
UU301      24.11        143           256           282        conserved hypothetical protein
UU302      23.14        186           334           326        hypothetical protein
UU303      24.95        144           216           298        hypothetical protein
UU304      28.66        128           280           258        transcription elongation factor GREA
UU305      24.22        115           191           273        conserved hypothetical protein (possible HEMK
                                                               protein)
UU306      26.97        128           224           272        endonuclease IV
UU307      20.29        145           209           252        hypothetical protein (possible DNA replication
                                                               initiation protein)
UU308      17.89 **     127           177           222        conserved hypothetical protein
UU309      15.86 **     184           290           373        hypothetical protein
UU310      28.24        307 **        408 *         355        30S ribosomal protein S20
UU311      20.63        189           299           357        N-acetyltransferase complex, probable ribosomal
                                                               protein-alanine-acetyltransferase subunit
UU312      21.18        134           208           272        conserved hypothetical protein
UU313      26.33        122           308           415 *      pseudouridine synthase (uracil hydrolase)
UU314      23.48        119           238           314        conserved hypothetical protein (possible signal
                                                               peptidase II)
UU315       29.3        128           280           275        inorganic pyrophosphatase
UU316      21.26        302 **        269           260        hypothetical protein
UU317      23.69         34           103           207        conserved hypothetical protein
UU318      27.02        123           172           167        N-utilization substance protein A
UU319       24.6        272 **        409 *         432 *      hypothetical protein
UU320      29.65         76           141           169        translation initiation factor IF-2
UU321      29.06        339 ***       334           355        ribosome binding factor A
UU322      19.96        192           226           264        hypothetical protein
UU323      19.25 *      127           252           334        hypothetical protein
UU324      30.56         67           129           157        GTP-binding protein LEPA
UU325      25.91        157           308           309        conserved hypothetical protein
UU326      23.89        207           417 *         393        hypothetical protein
UU327      21.58        127           200           241        rRNA methylase (SPOU family)
UU328       18.1 *      161           188           247        hypothetical protein
UU329      23.64         90           210           294        hypothetical protein
UU330      23.78        153           159           256        conserved hypothetical protein
UU331      23.76        130           405 *         378        hypothetical protein
UU332      28.21        180           257           374        uridine kinase
UU333      33.91 **     277 **        505 **        470 **     50S ribosomal protein L32
UU334      21.07        198           304           298        hypothetical protein
UU335      24.03        138           121           183        hypothetical protein
UU336      21.71        148           132           236        hypothetical protein
UU337      20.49        101           253           244        methylenetetrahydrofolate dehydrogenase
UU338      23.21         94           128           207        hypothetical protein
UU339      30.46         93           179           145        heat shock protein 70 (DNAK protein)
UU340      25.79        122           195           284        hypothetical protein
UU341      20.31        207           300           383        hypothetical protein
UU342         28        227           288           323        cytidylate kinase
UU343      18.75 *      175           313           366        hypothetical protein
UU344       23.9         96           229           256        1-acyl-sn-glycerol-3-phosphate acyltransferase
UU345      22.26        164           216           265        conserved hypothetical protein
UU346      24.57        104           154           213        conserved hypothetical protein
UU347      27.41        113           164           197        FKBP-type peptidyl-prolyl cis-trans isomerase
                                                               (trigger factor)
UU348      28.96         74           148           196        ATP-dependent protease LA (LON family)
UU349      29.99        121           205           212        RNA polymerase sigma-70 factor
UU350      23.57         96           308           394        conserved hypothetical protein
UU351      22.94        167           143           216        hypothetical protein
UU352      22.12        204           259           307        hypothetical protein
UU353      23.61         89           190           245        hypothetical protein
UU354      26.61        107           274           343        tRNA pseudouridine synthase B (tRNA pseudouridine 55
                                                               synthase)
UU355      21.83         94           155           251        riboflavin kinase/ FAD synthetase
UU356       29.3        100           186           221        Ureaplasma-specific conserved hypothetical protein
UU357      26.61         91           213           274        iron transport system protein (possible FHUG-related
                                                               or FECCD-related)
UU358      25.27        123           227           298        iron (III) ABC transporter
UU359      28.62         89           124           229        Ureaplasma-specific conserved hypothetical protein
UU360      28.87         71           146           219        Ureaplasma-specific conserved hypothetical protein
UU361      23.43        164           279           339        hypothetical protein
UU362      28.71         72           145           181        NADP-dependent glyceraldehyde-3-phosphate
                                                               dehydrogenase
UU363      25.35        140           196           220        asparagine synthetase A
UU364       23.9        156           270           254        phosphatidylglycerophosphate synthase
UU365      29.74         69           134           178        asparaginyl-tRNA synthetase
UU366      27.67        177           251           235        hypothetical protein
UU367      22.64        186           151           177        conserved hypothetical protein
UU368      27.11         75           182           177        thymidine phosphorylase
UU369      27.16         69           152           158        alanyl-tRNA synthetase
UU370      24.55        161           287           332        hypothetical protein
UU371      28.34         77           133           198        leucyl-tRNA synthetase
UU372      25.16        166           372           444 **     transposase (probable IS1138 related)
UU373      22.86        291 **        504 **        445 **     hypothetical protein (possible frameshift with
                                                               UU374)
UU374      21.93        196           385 *         480 **     hypothetical protein (possible frameshift with
                                                               UU373)
UU375       38.3 ***    370 ***       448 **        377        multiple banded antigen (MBA)
UU376      25.65        166           163           210        Ureaplasma-specific conserved hypothetical protein
UU377      25.94         34           125           210        DNA polymerase III alpha chain (epsilon function?)
UU378      29.37         92           153           155        Ureaplasma specific conserved hypothetical protein
UU379      21.01        127           276           312        hypothetical protein
UU379.1    21.38        194           334           437 *      hypothetical protein
UU380      23.27        149           268           351        hypothetical protein
UU381      22.91         73           138           214        excinuclease ABC subunit C
UU382      24.82        120           183           237        NAD+ dependent glycerol-3-phosphate dehydrogenase
UU383      28.22         64           184           258        conserved hypothetical protein (GTP-binding;
                                                               possible thiophene and furan oxidation protein)
UU384      17.76 **     137           192           278        conserved hypothetical protein (comE locus related)
UU385      24.89        157           251           327        conserved hypothetical protein
UU386       24.6         93           200           266        conserved hypothetical protein
UU387      20.22        162           211           297        hypothetical protein
UU388      22.72        166           164           258        hypothetical protein
UU389      21.79        100           103           221        conserved hypothetical protein (possible DNA
                                                               helicase-related protein)
UU390      24.63        171           221           286        hypothetical protein
UU391      27.09         72           125           202        ATP-dependent serine proteinase subunit B
UU392      21.12         88           147           255        Ureaplasma-specific conserved hypothetical protein
UU393         25        144           350           364        conserved hypothetical protein (probable acyl-
                                                               carrier protein synthase)
UU394      22.67        229           311           330        hypothetical protein
UU395      26.95        159           368           404 *      hypothetical protein
UU396      28.67        123           394 *         384        hypothetical protein
UU397       24.5         65           205           246        ribonuclease HII
UU398      22.11        144           258           263        hypothetical protein
UU399      26.46        149           231           262        iron (hemin) permease
UU400      26.96        144           166           208        ferrichrome ABC transporter
UU401      28.49         85           168           201        Ureaplasma-specific conserved hypothetical protein
UU402      29.27         65           217           311        probable tRNA-(5-methylaminomethyl-2-thiouridylate)
                                                               methyltransferase, TRMU.
UU403      24.75         75           226           255        conserved hypothetical protein
UU404      21.19        176           202           273        transposase (ISRm3 related)
UU405      27.13        162           260           302        conserved hypothetical protein (probable membrane
                                                               protein)
UU405.1    23.12        154           164           280        conserved hypothetical protein
UU406      24.51        143           202           220        heat shock protein
UU407      29.79        117           187           231        heat shock protein
UU408      22.22        231           210           222        hypothetical protein
UU409      23.24        161           222           331        conserved hypothetical protein
UU410      26.82         78           131           212        isoleucyl-tRNA synthetase
UU411      28.04        131           212           282        O-sialoglycoprotein endopeptidase
UU412      29.89         82           168           233        S-adenosylmethionine synthetase
UU413      25.85         88           189           244        formamidopyrimidine-DNA glycosylase
UU414      26.67        122           196           265        DNA polymerase I:  5'-3' exonuclease domain
UU415      24.33         74           116           202        DNA polymerase III alpha chain
UU416      23.47        390 ***       361           360        hypothetical protein
UU417      24.53         98           209           276        conserved hypothetical protein
UU418      27.45         91           201           266        thiamin biosynthesis protein
UU419      26.07        150           202           252        conserved hypothetical protein
UU420      20.88        156           182           252        hypothetical protein
UU421      26.26        128           218           217        heat-inducible transcription repressor HRCA
UU422      16.27 **     221           179           259        hypothetical protein
UU423       22.5        121           272           322        hypothetical protein
UU424      20.99        191           173           232        hypothetical protein
UU425      21.64         84           223           307        hypothetical protein
UU425.1    26.01        286 **        326           391        hypothetical protein
UU426      22.46        134           213           192        hypothetical protein
UU427      26.71        175           282           319        urease complex component
UU428      27.89        101           187           269        urease accessory protein
UU429      31.72 *       78           228           176        urease accessory protein
UU430      28.29        134           252           291        urease accessory protein
UU431      28.89        105           342           263        urease accessory protein
UU432      34.06 **      98           179           156        urease alpha subunit (urea amidohydrolase)
UU433      34.67 **     123           333           349        urease beta subunit (urea amidohydrolase)
UU434      35.29 **     204           449 **        432 *      urease gamma subunit (urea amidohydrolase)
UU435      26.37        113           165           187        ferrichrome ABC transporter
UU436      24.06        118           231           308        hemolysin
UU437      21.59        104           207           238        conserved hypothetical protein (probable DNA repair
                                                               protein REV1)
UU438      21.81        182           276           376        holliday junction DNA helicase subunit B
UU439      28.17        144           455 **        419 *      Ureaplasma-specific conserved hypothetical protein
UU440      19.93 *      104           146           219        hypothetical protein
UU441      22.25        112           164           274        hypothetical protein (possible subtilase related
                                                               protein)
UU442      22.78        160           159           274        hypothetical protein
UU443      19.82 *      174           163           217        Ureaplasma-specific conserved hypothetical protein
UU444      19.77 *      270 **        388 *         368        Ureaplasma-specific conserved hypothetical protein
                                                               (possible frameshift with UU445)
UU445      19.01 *      292 **        282           319        Ureaplasma-specific conserved hypothetical protein
                                                               (possible frameshift with UU444)
UU446      19.61 *      240 *         402 *         524 ***    conserved hypothetical protein (possible restriction
                                                               enzyme)
UU447      23.11        145           361           373        conserved hypothetical protein (possible HSDS
                                                               related protein)
UU448      23.96        149           171           254        holliday junction DNA helicase subunit B
UU449       21.6        210           191           290        holliday junction DNA helicase subunit A
UU450      21.82        139           174           287        conserved hypothetical protein
UU451      26.55        176           188           222        hypothetical protein
UU452      28.26         84           184           253        prolyl-tRNA synthetase
UU453      25.85        145           309           340        NIFU protein homolog
UU454      26.96        100           169           223        nitrogen fixation (nifS like) protein
UU455      22.36         86           122           149        conserved hypothetical protein
UU456      23.18        102           277           304        D-ribulose-5-phosphate 3 epimerase
UU457      23.93         73           145           236        phenylalanyl-tRNA synthetase beta chain
UU458      25.35        101           191           241        phenylalanyl-tRNA synthetase alpha chain
UU459      20.38        223           236           276        hypothetical protein
UU460      23.31        129           232           301        NH(3)-dependent NAD+ synthetase
UU461      28.36         85           183           266        GTP-binding protein
UU462      25.64         89           172           248        hypothetical protein
UU463      27.12         73           223           251        methionyl-tRNA formyltransferase
UU464      28.51        145           171           204        conserved hypothetical protein
UU465      28.14        150           214           308        formylmethionine deformylase (polypeptide
                                                               deformylase)
UU466      28.36         64           114           183        DNA topoisomerase subunit B (gyrase B)
UU467      26.44         95           129           214        DNA topoisomerase subunit A (gyrase A)
UU468      23.94         93           204           295        conserved hypothetical protein
UU469      26.04         48           147           250        conserved hypothetical protein
UU470      25.21        188           398 *         424 *      pfs protein (purine nucleoside phosphorylase)
UU471      29.69        196           479 **        446 **     hypothetical protein
UU472      27.78        139           424 *         397        Ureaplasma-specific conserved hypothetical protein
UU473      25.99        100           121           202        Ureaplasma-specific conserved hypothetical protein
UU474      25.65         81           146           208        conserved hypothetical protein
UU475      21.07        179           126           177        Ureaplasma-specific conserved hypothetical protein
UU476      22.44        102           107           169        Ureaplasma-specific conserved hypothetical protein
UU477      23.55         62           168           237        DNA methyltransferase (probable adenine specific)
UU478       26.5        181           424 *         484 **     hypothetical protein
UU479       23.2         75           102           195        Ureaplasma-specific conserved hypothetical protein
UU480      30.37        101           191           213        conserved hypothetical protein (possible TMPC-
                                                               related membrane lipoprotein)
UU481      21.75        107           179           248        Ureaplasma specific conserved hypothetical protein
UU482      23.04         77            76           173        conserved hypothetical protein
UU483      22.31        125            99           180        conserved hypothetical protein
UU484       24.4         52           206           254        acetate kinase
UU485      22.14        134           176           238        Ureaplasma-specific conserved hypothetical protein
UU486      24.29         70           151           217        possible membrane-associated nuclease A
UU487      22.43         90           121           222        Ureaplasma-specific conserved hypothetical protein
                                                               (MBA N-term paralog)
UU488       31.8 *       48           285           312        adenine phosphoribosyltransferase
UU489      23.34         65           111           214        conserved hypothetical protein
UU490      24.57        144           240           309        conserved hypothetical protein
UU491      26.12        105           164           188        GTP-binding protein
UU492      23.01        153           339           426 *      hypothetical protein
UU493      26.72         85           151           197        glycyl-tRNA synthetase
UU494      22.07         70           155           182        DNA primase
UU495      24.69         88            69           158        conserved hypothetical protein
UU496      24.98         55           123           187        conserved hypothetical protein
UU497      23.54        141           221           302        conserved hypothetical protein
UU498      30.87        172           258           189        30S ribosomal protein S4
UU499      18.85 *      109           128           188        hypothetical protein
UU500      28.91         60           243           302        conserved hypothetical protein
UU501       26.3         92           137           189        DNA helicase II
UU502       24.7        122           255           323        hypothetical protein
UU503      20.66         86           227           317        putative glycosyltransferase
UU504      20.79        141           179           240        hypothetical protein
UU505      18.35 *       93           166           257        hypothetical protein
UU506      22.65        412 ****      319           366        acyl carrier protein
UU507      29.82        119           222           203        cytosol aminopeptidase (leucyl aminopeptidase)
                                                               (peptidase S)
UU508      22.35         61           121           221        cell division protein
UU509      26.15         69           172           219        conserved hypothetical protein
UU510      17.25 **      65           143           261        ABC transporter
UU510.1    17.36 **     255 *         308           322        hypothetical protein
UU511      22.43        153           206           282        phosphatidate cytidylytransferase (CDP diglyceride
                                                               synthetase)
UU512      28.44        156           218           221        ribosome recycling factor (ribosome releasing
                                                               factor)
UU513      27.12        177           189           250        uridylate kinase
UU514      29.34        191           180           211        elongation factor TS (EF-TS)
UU515      23.58        168           228           288        conserved hypothetical protein (possible ferrichrome
                                                               ABC transporter)
UU516      23.98        165           231           311        ferrichrome ABC transporter
UU517      24.89        100           140           223        conserved hypothetical protein
UU518      29.22        159           370           346        hypothetical protein
UU519      26.98        108           167           241        Ureaplasma-specific conserved hypothetical protein
UU520      25.98        117           156           227        Ureaplasma-specific conserved hypothetical protein
UU521      22.44        119           140           269        oligoendopeptidase F
UU522      35.86 **     134           258           187        elongation factor TU (EF-TU)
UU523      33.77 **     109           150           121        elongation factor G
UU524      32.26 *      123           365           320        30S ribosomal protein S7
UU525      36.38 **     267 **        423 *         354        30S ribosomal protein S12
UU526      28.31         96           181           200        Ureaplasma specific conserved hypothetical protein
                                                               (MBA N-term paralog)
UU527      20.37        110           117           199        conserved hypothetical protein
UU528      26.54         84           135           178        cytosine-specific methyltransferase
UU529      19.44 *      211           245           302        integrase/recombinase
UU530      25.98         75           161           202        phosphomannomutase
UU531      27.53        137           299           389        cytidine deaminase
UU532       31.1         97           234           212        XAA-pro aminopeptidase
UU533      27.16        223           541 ***       563 ***    50S ribosomal protein L33
UU534      27.94         89           183           219        threonyl-tRNA synthetase
UU535      28.43        106           187           242        conserved hypothetical protein
UU536      26.86         88           202           299        tRNA pseudouridine synthase A (tRNA pseudouridine
                                                               synthase I)
UU537      27.79         97           215           278        conserved hypothetical protein
UU538      27.42         84           160           210        ABC transporter
UU539      27.34         81           188           261        ABC transporter
UU540      29.71        128           259           236        50S ribosomal protein L1
UU541      32.45 *      162           309           312        50S ribosomal protein L11
UU542      22.62        111           143           183        hypothetical protein
UU543       25.2         58            92           187        conserved hypothetical protein
UU544      26.71         72           143           252        GlutRNA-Gln amidotransferase B subunit/ PET112
                                                               homolog
UU545      27.27         72           164           237        amidase (glu-tRNA amidotransferase, subunit A)
UU546      21.05        142           326           383        hypothetical protein
UU547      27.04        118           217           217        conserved hypothetical protein (possible glu-tRNA
                                                               amidotransferase, subunit C)
UU548      25.67        117           279           331        Uracil-DNA N-glycosylase
UU549      26.26         89           147           186        hypothetical protein
UU550       26.9        103           164           221        replicative DNA helicase
UU551       24.2        250 *         290           295        50S ribosomal protein L9
UU552      33.33 *      274 **        514 **        420 *      30S ribosomal protein S18
UU553      30.94        145           285           324        single-strand DNA binding protein
UU554      29.61        281 **        257           232        30S ribosomal protein S6
UU555      28.43        120           275           319        conserved hypothetical protein (possible
                                                               acetyltransferase)
UU556       22.9        128           274           317        hypothetical protein
UU557      28.21         53           107           126        hypothetical protein
UU558      26.34         67           102           132        hypothetical protein
UU559      28.33         83           162           187        oligopeptide ABC transporter
UU560      27.88         64           164           190        oligopeptide ABC transporter
UU561      30.03        154           257           230        oligopeptide ABC transporter
UU562      29.37        119           250           250        oligopeptide ABC transporter
UU563      24.72        254 *         319           428 *      hypothetical protein
UU563.1    20.42        358 ***       586 ***       679 ****   hypothetical protein
UU564      22.78         55           146           241        hypothetical protein
UU565      25.72         51           171           178        conserved hypothetical protein
UU566      29.84        280 **        335           287        50S ribosomal protein L19
UU567      29.69        128           288           318        tRNA (guanine-N1)-methyltransferase
UU568       28.1        173           330           328        30S ribosomal protein S16
UU569      23.02         78           190           215        conserved hypothetical protein
UU570      28.75         95           160           194        conserved hypothetical protein (possible metallo-
                                                               beta-lactamase)
UU571       25.8         94            97           156        conserved hypothetical protein (possible DNA
                                                               helicase-related protein)
UU572      26.02        141           187           223        conserved hypothetical protein
UU573      25.95        104           193           244        potassium channel protein
UU574      21.46        118           202           315        hypothetical protein
UU575      21.17        111           236           343        hypothetical protein
UU576      33.83 **     179           287           264        30S ribosomal protein S9
UU577       30.2        129           288           244        50S ribosomal protein L13
UU578      26.94         95           137           214        Ureaplasma specific conserved hypothetical protein
UU579      23.54        154           175           288        conserved hypothetical protein (possible amino acid
                                                               permease)
UU580      23.15        106           229           239        hypothetical protein
UU581       26.9         99           175           184        transcription antitermination protein NUSG
UU582      26.13         76           150           217        ATP-dependent RNA helicase
UU583      27.85         96           150           210        conserved hypothetical integral membrane protein
UU584      26.23        120           161           242        conserved hypothetical integral membrane protein
UU585      27.78        157           216           213        deoxyribose phosphate aldolase
UU586      29.56         89           142           205        transketolase
UU587      31.06        247 *         369           386        phosphophocarrier protein HPR (histidine-containing
                                                               protein)
UU588      24.33        136           166           254        cardiolipin synthase
UU589      23.99        181           273           272        thioredoxin
UU590      27.34         99           156           260        DNA topoisomerase I
UU591      23.19         85           263           325        hypothetical protein
UU592      21.17        204           247           336        conserved hypothetical protein
UU593      16.78 **     209           363           476 **     hypothetical protein
UU594      29.91         77           216           304        thymidine kinase
UU595      28.82        118           191           263        GTP-binding protein
UU596      27.95        113           226           262        fructose-bisphosphate aldolase
UU597      25.26        195           189           213        probable DNA-directed RNA polymerase delta subunit
UU598      23.48         66           163           263        conserved hypothetical protein
UU599      25.81         92           129           223        glutamyl-tRNA synthetase
UU600      22.93         85           212           237        conserved hypothetical protein
UU601      22.74        116           231           278        dimethyladenosine transferase
UU602      29.25         46           230           264        conserved hypothetical protein (probable inner
                                                               membrane protein)
UU603      25.44        224           372           450 **     ribonuclease P protein component
UU604      34.69 **     282 **        567 ***       592 ***    50S ribosomal protein L34


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