X.fuscans locus tag | Original Annotation | Comment | Product |
XFF4834R_plc_0010 | XFF4834R_plc_0010 | Delete | | |
XFF4834R_chr_1271 | XFF4834R_chr_1271 | delete. | hypothetical protein | |
XFF4834R_chr08030 | XFF4834R_chr08030 | 2 codons deleted to have better RBS. | hypothetical protein | |
XFF4834R_plb_0017 | XFF4834R_plb_0017 | Delete, no ORF predicted | | |
XFF4834R_plb_0021 | XFF4834R_plb_0021 | Delete, no predicted ORF | | |
XFF4834R_plc_0028 | XFF4834R_plc_0028 | Delete, no obvious ORF | | |
XFF4834R_chr00570 | XFF4834R_chr00570 | Partial hology with XAC, delete | hypothetical protein | |
XFF4834R_chr_1369 | XFF4834R_chr_1369 | does not match anything...Delete? | hypothetical protein | |
XFF4834R_pla_0049 | XFF4834R_pla_0049 | Delete, no predicted ORF using FrameD | | |
XFF4834R_chr_0067 | XFF4834R_chr_0067 | to delete, very small protein, no conservation | Hypothetical protein | |
XFF4834R_chr_0871 | XFF4834R_chr_0871 | Delete? no ORF predicted by FrameD, no homology | | |
XFF4834R_chr_1422 | XFF4834R_chr_1422 | does not seem to match anything.... delete? | hypothetical protein | |
XFF4834R_chr_1427 | XFF4834R_chr_1427 | doesnt seem to match anything... Delete? | hypothetical protein | |
XFF4834R_chr_1431 | XFF4834R_chr_1431 | doesnt seem to match anthing... delete? | hypothetical protein | |
XFF4834R_chr_1439 | XFF4834R_chr_1439 | does not seem to match anything... Delete? | hypothetical protein | |
XFF4834R_chr_1440 | XFF4834R_chr_1440 | doesn t seem to match anything... Delete? | hypothetical protein | |
XFF4834R_chr_1450 | XFF4834R_chr_1450 | does not seem to match anything.... Delete? | hypothetical protein | |
XFF4834R_chr_1452 | XFF4834R_chr_1452 | does not seem to match anything... Delete? | hypothetical protein | |
XFF4834R_chr_0160 | XFF4834R_chr_0160 | small protein, DNA conserved with Xcv and Xac, can be deleted | Hypothetical protein | |
XFF4834R_chr_0163 | XFF4834R_chr_0163 | DNA sequence partially conserved in XAC and XCV, but no protein annotated, can be deleted | hypothetical protein | |
XFF4834R_chr_0178 | XFF4834R_chr_0178 | partially match ISXcp1 at DNA level (tblastN) but not with BlastP, can be deleted | hypothetical protein | |
XFF4834R_chr03920 | XFF4834R_chr03920 | Start modifie car N-ter trop long compare aux orthologues chez XCV XCC et XAC (confirme par BlastP - Darsonval et al. 2008). 30aa deletes. | type III secretion system protein HrcQ | |
XFF4834R_pla_0006 | XFF4834R_pla_0006 | a deleter | hypothetical protein | |
XFF4834R_chr_0004 | XFF4834R_chr_0004 | a deleter | | |
XFF4834R_chr_0016 | XFF4834R_chr_0016 | a deleter | | |
XFF4834R_chr_0029 | XFF4834R_chr_0029 | a deleter | | |
XFF4834R_chr_0094 | XFF4834R_chr_0094 | a deleter | | |
XFF4834R_chr_0099 | XFF4834R_chr_0099 | a deleter | | |
XFF4834R_chr_0115 | XFF4834R_chr_0115 | a deleter | | |
XFF4834R_chr_0120 | XFF4834R_chr_0120 | a deleter | | |
XFF4834R_chr_0144 | XFF4834R_chr_0144 | a deleter | | |
XFF4834R_chr_0156 | XFF4834R_chr_0156 | a deleter | | |
XFF4834R_chr_0236 | XFF4834R_chr_0236 | a deleter | | |
XFF4834R_chr_0243 | XFF4834R_chr_0243 | a deleter | | |
XFF4834R_chr_0256 | XFF4834R_chr_0256 | a deleter | | |
XFF4834R_chr_0353 | XFF4834R_chr_0353 | a deleter | | |
XFF4834R_chr_0354 | XFF4834R_chr_0354 | a deleter | | |
XFF4834R_chr_0368 | XFF4834R_chr_0368 | a deleter | | |
XFF4834R_chr_0375 | XFF4834R_chr_0375 | a deleter | | |
XFF4834R_chr_0414 | XFF4834R_chr_0414 | a deleter | | |
XFF4834R_chr_0420 | XFF4834R_chr_0420 | a deleter | | |
XFF4834R_chr_0466 | XFF4834R_chr_0466 | a deleter | | |
XFF4834R_chr_0583 | XFF4834R_chr_0583 | a deleter | | |
XFF4834R_chr_0595 | XFF4834R_chr_0595 | a deleter | | |
XFF4834R_chr_0610 | XFF4834R_chr_0610 | a deleter | | |
XFF4834R_chr_0673 | XFF4834R_chr_0673 | a deleter | | |
XFF4834R_chr_0682 | XFF4834R_chr_0682 | a deleter | | |
XFF4834R_chr_0736 | XFF4834R_chr_0736 | a deleter | | |
XFF4834R_chr_0746 | XFF4834R_chr_0746 | a deleter | | |
XFF4834R_chr_0804 | XFF4834R_chr_0804 | a deleter | | |
XFF4834R_chr_1048 | XFF4834R_chr_1048 | a deleter | | |
XFF4834R_chr_1057 | XFF4834R_chr_1057 | a deleter | | |
XFF4834R_chr_1076 | XFF4834R_chr_1076 | a deleter | | |
XFF4834R_chr_1098 | XFF4834R_chr_1098 | a deleter | | |
XFF4834R_chr_1111 | XFF4834R_chr_1111 | a deleter | | |
XFF4834R_chr_1144 | XFF4834R_chr_1144 | a deleter | | |
XFF4834R_chr_1175 | XFF4834R_chr_1175 | a deleter | | |
XFF4834R_chr_1212 | XFF4834R_chr_1212 | a deleter | | |
XFF4834R_chr_1214 | XFF4834R_chr_1214 | a deleter | | |
XFF4834R_chr_1219 | XFF4834R_chr_1219 | a deleter | | |
XFF4834R_chr_1225 | XFF4834R_chr_1225 | a deleter | | |
XFF4834R_chr_1255 | XFF4834R_chr_1255 | a deleter | | |
XFF4834R_chr_1281 | XFF4834R_chr_1281 | a deleter | | |
XFF4834R_chr_1331 | XFF4834R_chr_1331 | a deleter | | |
XFF4834R_chr_1763 | XFF4834R_chr_1763 | a deleter | hypothetical protein | |
XFF4834R_chr_1792 | XFF4834R_chr_1792 | a deleter | hypothetical protein | |
XFF4834R_chr_1838 | XFF4834R_chr_1838 | a deleter | hypothetical protein | |
XFF4834R_chr_1845 | XFF4834R_chr_1845 | a deleter | hypothetical protein | |
XFF4834R_chr_1862 | XFF4834R_chr_1862 | a deleter | hypothetical protein | |
XFF4834R_chr_1906 | XFF4834R_chr_1906 | a deleter | hypothetical protein | |
XFF4834R_chr_1929 | XFF4834R_chr_1929 | a deleter | hypothetical protein | |
XFF4834R_chr_1949 | XFF4834R_chr_1949 | a deleter | hypothetical protein | |
XFF4834R_chr_1976 | XFF4834R_chr_1976 | a deleter | hypothetical protein | |
XFF4834R_chr_1977 | XFF4834R_chr_1977 | a deleter | hypothetical protein | |
XFF4834R_chr_2028 | XFF4834R_chr_2028 | a deleter | hypothetical protein | |
XFF4834R_chr_2032 | XFF4834R_chr_2032 | a deleter | hypothetical protein | |
XFF4834R_chr_2041 | XFF4834R_chr_2041 | a deleter | hypothetical protein | |
XFF4834R_chr_2043 | XFF4834R_chr_2043 | a deleter | hypothetical protein | |
XFF4834R_chr_2074 | XFF4834R_chr_2074 | a deleter | hypothetical protein | |
XFF4834R_chr_2087 | XFF4834R_chr_2087 | a deleter | hypothetical protein | |
XFF4834R_chr_2102 | XFF4834R_chr_2102 | a deleter | hypothetical protein | |
XFF4834R_chr_2143 | XFF4834R_chr_2143 | a deleter | | |
XFF4834R_chr_2171 | XFF4834R_chr_2171 | a deleter | | |
XFF4834R_chr_2176 | XFF4834R_chr_2176 | a deleter | hypothetical protein | |
XFF4834R_chr_2179 | XFF4834R_chr_2179 | a deleter | | |
XFF4834R_chr_2194 | XFF4834R_chr_2194 | a deleter | | |
XFF4834R_chr_2205 | XFF4834R_chr_2205 | a deleter | hypothetical protein | |
XFF4834R_chr_2252 | XFF4834R_chr_2252 | a deleter | | |
XFF4834R_chr_2270 | XFF4834R_chr_2270 | a deleter | | |
XFF4834R_chr_2274 | XFF4834R_chr_2274 | a deleter | | |
XFF4834R_chr_2279 | XFF4834R_chr_2279 | a deleter | | |
XFF4834R_chr_2288 | XFF4834R_chr_2288 | a deleter | hypothetical protein | |
XFF4834R_chr_2306 | XFF4834R_chr_2306 | a deleter | | |
XFF4834R_chr_2311 | XFF4834R_chr_2311 | a deleter | | |
XFF4834R_chr_2312 | XFF4834R_chr_2312 | a deleter | | |
XFF4834R_chr_2318 | XFF4834R_chr_2318 | a deleter | hypothetical protein | |
XFF4834R_chr_2336 | XFF4834R_chr_2336 | a deleter | hypothetical protein | |
XFF4834R_chr_2354 | XFF4834R_chr_2354 | a deleter | | |
XFF4834R_chr_2366 | XFF4834R_chr_2366 | a deleter | hypothetical protein | |
XFF4834R_chr_2371 | XFF4834R_chr_2371 | a deleter | hypothetical protein | |
XFF4834R_chr_2395 | XFF4834R_chr_2395 | a deleter | | |
XFF4834R_chr_2396 | XFF4834R_chr_2396 | a deleter | | |
XFF4834R_chr_2404 | XFF4834R_chr_2404 | a deleter | | |
XFF4834R_chr_2491 | XFF4834R_chr_2491 | a deleter | hypothetical protein | |
XFF4834R_chr_2583 | XFF4834R_chr_2583 | a deleter | hypothetical protein | |
XFF4834R_chr_2589 | XFF4834R_chr_2589 | a deleter | hypothetical protein | |
XFF4834R_chr_2593 | XFF4834R_chr_2593 | a deleter | hypothetical protein | |
XFF4834R_chr_2627 | XFF4834R_chr_2627 | a deleter | hypothetical protein | |
XFF4834R_chr_2742 | XFF4834R_chr_2742 | a deleter | hypothetical protein | |
XFF4834R_chr_2789 | XFF4834R_chr_2789 | a deleter | | |
XFF4834R_chr_2818 | XFF4834R_chr_2818 | a deleter | | |
XFF4834R_chr_2858 | XFF4834R_chr_2858 | a deleter | | |
XFF4834R_chr_2895 | XFF4834R_chr_2895 | a deleter | | |
XFF4834R_chr_2918 | XFF4834R_chr_2918 | a deleter | | |
XFF4834R_chr_2993 | XFF4834R_chr_2993 | a deleter | | |
XFF4834R_chr_2996 | XFF4834R_chr_2996 | a deleter | | |
XFF4834R_chr_3017 | XFF4834R_chr_3017 | a deleter | | |
XFF4834R_chr_3107 | XFF4834R_chr_3107 | a deleter | | |
XFF4834R_chr_3110 | XFF4834R_chr_3110 | a deleter | | |
XFF4834R_chr_3112 | XFF4834R_chr_3112 | a deleter | | |
XFF4834R_chr_3181 | XFF4834R_chr_3181 | a deleter | | |
XFF4834R_chr_3187 | XFF4834R_chr_3187 | a deleter | | |
XFF4834R_chr_3219 | XFF4834R_chr_3219 | a deleter | | |
XFF4834R_chr_3222 | XFF4834R_chr_3222 | a deleter | | |
XFF4834R_chr_3229 | XFF4834R_chr_3229 | a deleter | | |
XFF4834R_chr_3231 | XFF4834R_chr_3231 | a deleter | | |
XFF4834R_chr_3235 | XFF4834R_chr_3235 | a deleter | | |
XFF4834R_chr_3273 | XFF4834R_chr_3273 | a deleter | | |
XFF4834R_chr_3279 | XFF4834R_chr_3279 | a deleter | | |
XFF4834R_chr_3281 | XFF4834R_chr_3281 | a deleter | | |
XFF4834R_chr_3616 | XFF4834R_chr_3616 | a deleter ? | | |
XFF4834R_chr_4146 | XFF4834R_chr_4146 | a deleter | hypothetical protein | |
XFF4834R_chr_0076 | XFF4834R_chr_0076 | dna conserved in Xac but no protein detected, acur, delete | hypothetical protein | |
XFF4834R_chr_1370 | XFF4834R_chr_1370 | does not match any similarity with anything... Delete? | hypothetical protein | |
XFF4834R_chr_1398 | XFF4834R_chr_1398 | this predicted protein does not seem to match anything.... Delete? | hypothetical protein | |
XFF4834R_chr_1402 | XFF4834R_chr_1402 | this protein does not seem to match anything.... Delete? | hypothetical protein | |
XFF4834R_chr08050 | XFF4834R_chr08050 | 24 codons deleted. Original N terminus was not conserved in XCV or XCC. Could not be longer in XOO. | conserved hypothetical protein | |
XFF4834R_chr09250 | XFF4834R_chr09250 | 40 codons deleted because not conserved in Xcc and not possible due to in-frame stop codon in Xac. | putative transcriptional regulator | |
XFF4834R_chr09410 | XFF4834R_chr09410 | 5 codons deleted to fit to other xanthomonads and to give better signal sequence. Confirmed by Phobius. | putative membrane protein | |
XFF4834R_chr_0090 | XFF4834R_chr_0090 | to delete, DNA region conserved in XAC, acur region, small protein | hypothetical protein | |
XFF4834R_chr_0097 | XFF4834R_chr_0097 | DNA region conserved in XAC but not protein annotated, small protein to delete | hypothetical protein | |
XFF4834R_chr_0753 | XFF4834R_chr_0753 | 21 codons deleted: better SignalP prediction. Better alignment to other xanthomonads (incl X.albilineans, which is aslo too long). Confirmed by Phobius. | putative secreted protein | |
XFF4834R_chr_0765 | XFF4834R_chr_0765 | 10 codons deleted to better fit with other xanthomonads. FrameD predicts even shorter... Long original prediction derived from ACUR matrix. | putative prolyl 4-hydroxylase alpha subunit | |
XFF4834R_chr26120 | XFF4834R_chr26120 | GumL is 23.7% identical to ketal pyruvate transferase ExoV of R. meliloti (20), which is involved in the addition of a pyruvate substituent to the terminal glucose of the side chain of succinoglycan (44). Although, insertions in exoV seem to be deleterious, gumL mutants are not affected in growth and produce normal nonpyruvylated polymer levels (data not shown). gumL mutants are able to produce a labeled polysaccharide. Whereas gumF, gumG, and gumL strains produced amounts of polymer similar to those produced by the wild type | gumL protein | |
XFF4834R_chr06180 | XFF4834R_chr06180 | 14 codons deleted to fit to other xanthomonads. First 14 codons were not conserved in Xanthomonas oryzae pv. oryzae KACC10331 the sequence of which is also longer than at the other xanthomonads. | conserved hypothetical protein | |
XFF4834R_chr_0116 | XFF4834R_chr_0116 | small protein , DNA region partially conserved in XAC and XCV but no protein annotated, to delete | hypothetical protein | |
XFF4834R_chr_0142 | XFF4834R_chr_0142 | To delete, Small protein in acur region no homologs detetected using BlastP but DNA region conserved with Xcv (BlastN and tblastN) | Hypothetical protein | |
XFF4834R_chr_1354 | XFF4834R_chr_1354 | FrameD results are not very consistent about this predicted CDS. No similarity found in any other genome. No domain. ACUR use. DELETE? | hypothetical protein | |
XFF4834R_chr_1412 | XFF4834R_chr_1412 | it is possible to extend this cds very much in Nter. However, even extended protein does not match anything... Delete? | hypothetical protein | |
XFF4834R_chr_1449 | XFF4834R_chr_1449 | doesnt seem to match anything. The domain kinase identified by automated annotation is not recognized as conserved domain in NCBI Blast. Delete? | hypothetical protein | |
XFF4834R_chr36690 | XFF4834R_chr36690 | detection matrice ACUR, modification start (la nouvelle ORF contient le gene 3937 qui a donc ete delete) | Hypothetical protein | |
XFF4834R_chr37010 | XFF4834R_chr37010 | modif start pour prendre celui du gene 3938 sans stop qui a ete delete | Conserved hypothetical protein | |
XFF4834R_chr_4203 | XFF4834R_chr_4203 | introuvable en frame d avec acur, increased sensitivity, low gc trouve le stop en 425 a delete | hypothetical protein | |
XFF4834R_plb_0016 | XFF4834R_plb_0016 | RIEN A deleter | hypothetical protein | |
XFF4834R_plc_0025 | XFF4834R_plc_0025 | RIEN a deleter | hypothetical protein | |
XFF4834R_chr_1313 | XFF4834R_chr_1313 | this CDS is not similar to anything even in xanthos. I can't find it on FrameD: frameD does not display anything between 139828 and 1390947. DELETE? | hypothetical protein | |
XFF4834R_chr07630 | XFF4834R_chr07630 | E.coli: potassium ion accessory transporter subunit. XCV: putative potassium-transporting system small peptide KdpF. Downstream: probable potassium translocating ATPase, subunit A. Upstream of kdpABC. 52 codons deleted to fit to E.coli (see publications). | | |
XFF4834R_chr_2146 | XFF4834R_chr_2146 | a deleter homologies tres partielles | hypothetical protein | |
XFF4834R_chr_2206 | XFF4834R_chr_2206 | a deleter pas frame D | | |
XFF4834R_chr_4517 | XFF4834R_chr_4517 | a deleter homologies partielles | hypothetical protein | |
XFF4834R_chr36750 | XFF4834R_chr36750 | matrice ACUR, modification du start (la nouvelle orf contient le gene 3912 qui a donc ete delete), orthologue chez xantho aurantifolii et des fragments homologues chez xantho vasculorum | Conserved hypothetical protein | |
XFF4834R_pla_0026 | XFF4834R_pla_0026 | a deleter aucune homologie, non secrete | hypothetical protein | |
XFF4834R_pla_0027 | XFF4834R_pla_0027 | a deleter non secreter aucune homologie | hypothetical protein | |
XFF4834R_chr_1610 | XFF4834R_chr_1610 | a deleter pas secrete aucune homologie | hypothetical protein | |
XFF4834R_chr_3750 | XFF4834R_chr_3750 | a deleter ?? pas retrouve en acur | | |
XFF4834R_chr_4237 | XFF4834R_chr_4237 | a deleter pas de codon stop | hypothetical protein | |
XFF4834R_chr_4268 | XFF4834R_chr_4268 | NCBI rien, pas secrete A deleter | hypothetical protein | |
XFF4834R_pla_0028 | XFF4834R_pla_0028 | a deleter pas d'homologie no secrete | hypothetical protein | |
XFF4834R_chr_0048 | XFF4834R_chr_0048 | partial homology with LysR regulator XCV0044 a deleter | hypothetical protein | |
XFF4834R_chr_1403 | XFF4834R_chr_1403 | a deleter mauvaises homologies partielles, pas secrete, acur | hypothetical protein | |
XFF4834R_chr_1405 | XFF4834R_chr_1405 | a deleter aucune homologie acur pas secrete | hypothetical protein | |
XFF4834R_chr_1435 | XFF4834R_chr_1435 | a deleter mauvaises homologies partielles pas secrete | hypothetical protein | |
XFF4834R_chr_1537 | XFF4834R_chr_1537 | a deleter mauvaises homologies partielles pas secrete | hypothetical protein | |
XFF4834R_chr_1543 | XFF4834R_chr_1543 | a deleter mauvaise homologies partielles pas secrete acur | hypothetical protein | |
XFF4834R_chr_1559 | XFF4834R_chr_1559 | a deleter, mauvaises homologies partielles acur pas secrete | hypothetical protein | |
XFF4834R_chr_1686 | XFF4834R_chr_1686 | a deleter mauvaises homologies partielles, non secrete | hypothetical protein | |
XFF4834R_chr_1747 | XFF4834R_chr_1747 | a deleter pas d'homologie acur | hypothetical protein | |
XFF4834R_chr_2193 | XFF4834R_chr_2193 | a deleter pas de hits ni blastx faux + | | |
XFF4834R_chr_2215 | XFF4834R_chr_2215 | a deleter framed accur increased, pas de blast | | |
XFF4834R_chr_2411 | XFF4834R_chr_2411 | a deleter pas de blast sur ncbi | | |
XFF4834R_chr_3084 | XFF4834R_chr_3084 | matrice ACUR, aucune homologie, petite taille, a deleter ? | hypothetical protein | |
XFF4834R_chr_3164 | XFF4834R_chr_3164 | pas retrouvee meme en ACUR, a deleter | Hypothetical protein | |
XFF4834R_chr_3620 | XFF4834R_chr_3620 | pas detectee en frameD aucune homologie a deleter ? | hypothetical protein | |
XFF4834R_chr_3659 | XFF4834R_chr_3659 | homologie regions intergeniques autres xanthos a deleter ? | hypothetical protein | |
XFF4834R_chr_3697 | XFF4834R_chr_3697 | modif du stop, ne ressemble a rien, a deleter ? | hypothetical protein | |
XFF4834R_chr_4003 | XFF4834R_chr_4003 | petit peptide, aucune homologie, faut-il deleter ? | Hypothetical protein | |
XFF4834R_chr_4021 | XFF4834R_chr_4021 | tres petit peptide, faut-il deleter ? | Hypothetical protein | |
XFF4834R_chr_4075 | XFF4834R_chr_4075 | acur, petit peptide, faut-il deleter ? | hypothetical protein | |
XFF4834R_chr_4230 | XFF4834R_chr_4230 | a deleter frame d ne le retrouve pas | hypothetical protein | |
XFF4834R_chr_4235 | XFF4834R_chr_4235 | a deleter? pas d homologie non secrete | hypothetical protein | |
XFF4834R_chr_4262 | XFF4834R_chr_4262 | a deleter aucune homologie, aucun domaine conserve | hypothetical peptide | |
XFF4834R_chr_4270 | XFF4834R_chr_4270 | a deleter aucun orthologue, pas secrete, rien | hypothetical protein | |
XFF4834R_chr_4321 | XFF4834R_chr_4321 | a deleter aucune homologie non secrete rien | hypothetical peptide | |
XFF4834R_chr_4326 | XFF4834R_chr_4326 | a deleter aucune homologie, acur, non secrete | hypothetical protein | |
XFF4834R_chr10400 | XFF4834R_chr10400 | 41 codons deleted to fit with other Xanthomonadaceae. Not sure if this is really lpxH, as suggested by iANT automatic annotation. PRK05340: UDP-2,3-diacylglucosamine hydrolase. TIGR01854: This model represents LpxH, UDP-2,3-diacylglucosamine hydrolase, and essential enzyme in E. coli that catalyzes the fourth step in lipid A biosynthesis. Note that Pseudomonas aeruginosa has both a member of this family that shares this function and a more distant homolog, designated LpxH2, that does not. Many species that produce lipid A lack an lpxH gene in this family; some of those species have an lpxH2 gene instead, although for which the function is unknown. Original annotation: UDP-2,3-diacylglucosamine pyrophosphatase. | UDP-2,3-diacylglucosamine hydrolase | |
XFF4834R_pla_0047 | XFF4834R_pla_0047 | a deleter pas d'homologie non secrete increased sentivity | hypothetical protein | |
XFF4834R_chr00330 | XFF4834R_chr00330 | a deleter pas d'homologie avec BlastP blastN et tBlastN | hypothetical protein | |
XFF4834R_chr_1640 | XFF4834R_chr_1640 | a deleter mauvaises homologies partielles acur increased sensitivity low gc | hypothetical protein | |
XFF4834R_chr_1671 | XFF4834R_chr_1671 | a deleter, acur increased sensitivity, aucune homologie dans blastp | hypothetical protein | |
XFF4834R_chr_1725 | XFF4834R_chr_1725 | a deleter tres mauvaises homologies partielles avec genes de drosophile | hypothetical protein | |
XFF4834R_chr_1771 | XFF4834R_chr_1771 | 1 mauvais hit tres partiel avec Xantho oryzae ; a deleter ? | | |
XFF4834R_chr_2239 | XFF4834R_chr_2239 | a deleter accur incresead sensitivity pas de blastx ni multalin | | |
XFF4834R_chr_2423 | XFF4834R_chr_2423 | a deleter obtenu uniquement en increased sensitivity balstx avec drosophila uniquement | | |
XFF4834R_chr_3005 | XFF4834R_chr_3005 | matrice acur aucune homologie et petite taille, a deleter | hypothetical protein | |
XFF4834R_chr_3022 | XFF4834R_chr_3022 | found with ACUR, low GC and increased sensitivity, no homology. a deleter ? | hypothetical protein | |
XFF4834R_chr_3032 | XFF4834R_chr_3032 | a deleter ? detection matrice ACUR, aucune homologie et petite taille | hypothetical protein | |
XFF4834R_chr_3239 | XFF4834R_chr_3239 | a deleter pas de frame D meme en changeant les parametres | | |
XFF4834R_chr_3275 | XFF4834R_chr_3275 | A deleter mais indications d'un peptide signal (Signal3P) | | |
XFF4834R_chr_3379 | XFF4834R_chr_3379 | a deleter. acur, pas de signal peptide, tres faible homologie blastP | hypothetical protein | |
XFF4834R_chr_3391 | XFF4834R_chr_3391 | a deleter. acur, pas de signal peptide, tres faible homologie blastP | hypothetical protein | |
XFF4834R_chr_3593 | XFF4834R_chr_3593 | detection ORF difficile aucune homologie NCBI blasdtP ou X a deleter ? | | |
XFF4834R_chr_3598 | XFF4834R_chr_3598 | difficile retrouver orf avec acur, blast x aucune homologie a deleter ? | | |
XFF4834R_chr_3609 | XFF4834R_chr_3609 | a deleter ? region intergenique conservee chez xav et xac | hypothetical protein | |
XFF4834R_chr_3700 | XFF4834R_chr_3700 | ACUR and low GC, chevauchement avec cds suivant, a deleter ? | hypothetical protein | |
XFF4834R_chr_3741 | XFF4834R_chr_3741 | matrice acur et low GC, aucune homolgie, a deleter ? | hypothetical protein | |
XFF4834R_chr_3766 | XFF4834R_chr_3766 | frame d |
XFF4834R_chr_3866 | XFF4834R_chr_3866 | usage du code pas tres bon, faut il deleter ? | Hypothetical protein | |
XFF4834R_chr_3941 | XFF4834R_chr_3941 | matrice ACUR uniquement, petite proteine sans homologue, faut il deleter ? | Hypothetical protein | |
XFF4834R_chr_3981 | XFF4834R_chr_3981 | pas retrouve avec frame D meme avec ACUR, a deleter ? | Hypothetical protein | |
XFF4834R_chr_4086 | XFF4834R_chr_4086 | start et stop presents, rien ds NCBI, pas secrete A deleter? | hypothetical protein | |
XFF4834R_chr_4106 | XFF4834R_chr_4106 | matrice |
XFF4834R_chr_4135 | XFF4834R_chr_4135 | predit avec matrice ACUR et low GC, faut-il deleter ? | Hypothetical protein | |
XFF4834R_chr_4261 | XFF4834R_chr_4261 | a deleter aucune homologie, aucun domaine conserve, non secrete, rien | hypothetical peptide | |
XFF4834R_chr_4266 | XFF4834R_chr_4266 | a deleter pas d'orthologue, pas de domaine, rien | hypothetical protein | |
XFF4834R_chr_4304 | XFF4834R_chr_4304 | a deleter pas d'orthologue, rien, mauvais usage du code | hypothetical protein | |
XFF4834R_chr_4309 | XFF4834R_chr_4309 | a deleter pas d'orthologue, mauvais usage du code | hypothetical protein | |
XFF4834R_chr_4354 | XFF4834R_chr_4354 | a deleter use acur matrix to obbtain a FrameD prediction , no orthologue, not secreted | hypothetical protein | |
XFF4834R_chr_4364 | XFF4834R_chr_4364 | frame D increased, non secrete, pas d'homologie A deleter | hypothetical protein | |
XFF4834R_chr_4365 | XFF4834R_chr_4365 | a deleter aucune homologie, acur low gc increased sensitivity, non secrete | hypothetical protein | |
XFF4834R_chr_4367 | XFF4834R_chr_4367 | a deleter aucune homologie non secrete usage du code bof | hypothetical protein | |
XFF4834R_chr_4477 | XFF4834R_chr_4477 | a deleter pas d'homologie, non secrete, acur | hypothetical protein | |
XFF4834R_chr_4552 | XFF4834R_chr_4552 | a deleter pas d'homologie, mauvais usage du code | hypothetical protein | |
XFF4834R_pla_0024 | XFF4834R_pla_0024 | pas de frame D,pas d'homologie, pas de signal peptide A deleter | hypothetical protein | |
XFF4834R_plb_0006 | XFF4834R_plb_0006 | pas de frame D , pas d'homologie ds NCBI, pas secrete A deleter | hypothetical protein | |
XFF4834R_plc_0030 | XFF4834R_plc_0030 | frame D acur, start et stop ok, NCBI rien, signal P rien. A deleter | hypotheical protein | |
XFF4834R_chr_0014 | XFF4834R_chr_0014 | Petite proteine A deleter Resultat positif BlastN et tblastN avec Xac mais negatif avec blastP | hypothetical protein | |
XFF4834R_chr_0036 | XFF4834R_chr_0036 | peut etre a deleter Resultat positif tblastN avec Xac et Xcv mais negatif avec blastP region acur | hypothetical protein | |
XFF4834R_chr_0039 | XFF4834R_chr_0039 | petite proteine a deleter donne resultats avec BlastN et tBlastN region et pas avec blastP acur | hypothetical protein | |
XFF4834R_chr_0639 | XFF4834R_chr_0639 | signal peptide proba nulle, homologie tres partielle avec hypoth protein de Xcv, predite avec ACUR - a deleter | | |
XFF4834R_chr_1339 | XFF4834R_chr_1339 | a deleter aucune homologie, non secrete, acur et difficulte a trouver la prediction framed | hypothetical protein | |
XFF4834R_chr_1356 | XFF4834R_chr_1356 | a deleter? mauvaises homologies partielles, acur low gc increased sensitivity pas secrete | hypothetical protein | |
XFF4834R_chr_1376 | XFF4834R_chr_1376 | a deleter pas d'homologie, acur pas de prediction framed, pas secrete | hypothetical protein | |
XFF4834R_chr_1768 | XFF4834R_chr_1768 | 1 hit mauvais blastx ncbi pour 1 isomerase , pas hit interproscan ;( a deleter ? ) | | |
XFF4834R_chr18210 | XFF4834R_chr18210 | chr1953 commence 115aa au - en amont de toutes autres seq conservees = deleter les 115aa ? | Conserved hypothetical protein | |
XFF4834R_chr_2444 | XFF4834R_chr_2444 | a deleter ne retrouve pas ce gene avec frame d pas de blastx dans ncbi | | |
XFF4834R_chr_2597 | XFF4834R_chr_2597 | a deleter ? 75/bacteria/annotationomologie avec hypothetical proteine de Xav vasculorum mais? | hypothetical protein | |
XFF4834R_chr_2633 | XFF4834R_chr_2633 | rien avec NCBI, start et stop present mais usage du code pas terrible, a deleter? | hypothetical protein | |
XFF4834R_chr_2654 | XFF4834R_chr_2654 | a deleter acur + increased sens +low gC, aucune homolgie blastp, pas de domaine, pas secrete | hypothetical protein | |
XFF4834R_chr_2734 | XFF4834R_chr_2734 | frame D mauvais , start et stop present mais mauvais usage du code a deleter? | hypotheical protein | |
XFF4834R_chr_2758 | XFF4834R_chr_2758 | correspond a la partie cTer de GumN, a deleter car gumN deja complet ds |
XFF4834R chr_2757 | XFF4834R chr_2757 | | |
XFF4834R_chr_2865 | XFF4834R_chr_2865 | pas de cadre de lecture, pas d'homlogie, pas secrete A deleter | hypothetical protein | |
XFF4834R_chr_2870 | XFF4834R_chr_2870 | pas de frameD, pas d'homologie ds NCBI pas secrete A deleter | hypothetical protein | |
XFF4834R_chr_2999 | XFF4834R_chr_2999 | petit morceau d'une proteine existant chez xav, probablement un pseudogene a deleter | Hypothetical protein | |
XFF4834R_chr_3004 | XFF4834R_chr_3004 | pseudogene a deleter, fragment gene environ 300 aa qui existe chez xav | Hypothetical protein | |
XFF4834R_chr_3035 | XFF4834R_chr_3035 | pas retrouve meme en acur low gc and increased sensitivity, deleter cet orf | | |
XFF4834R_chr_3062 | XFF4834R_chr_3062 | a deleter car orf chevauchante detectee uniquement en low GC, aucune homologie et petite taille | Hypothetical protein | |
XFF4834R_chr_3103 | XFF4834R_chr_3103 | a deleter ? pas retrouve manuellement avec matrice ACUR, aucune homologie, petite taille | Hypothetical protein | |
XFF4834R_chr_3155 | XFF4834R_chr_3155 | bon usage du code mais prediction uniquement en low GC a deleter ? | Hypothetical protein | |
XFF4834R_chr_3172 | XFF4834R_chr_3172 | integrase partial sequence (less than the half of the sequence in other xanthomonas and in E coli), pseudogene ? a deleter ? | Hypothetical protein | |
XFF4834R_chr_3317 | XFF4834R_chr_3317 | a deleter increase sensitivity low gc pour prediction frame d, pas secrete rien dans blastp | hypothetical protein | |
XFF4834R_chr_3401 | XFF4834R_chr_3401 | a deleter, pas de similarite significative blastP, pas de signal peptide significatif | hypothetical protein | |
XFF4834R_chr_3402 | XFF4834R_chr_3402 | a deleter? aucune similarite par Blast P et N mais proteine potentiellement secretee (signal3P) | hypothetical protein | |
XFF4834R_chr_3416 | XFF4834R_chr_3416 | a deleter. pas de similarite (blast P et N). pas de signal peptide. | hypothetical protein | |
XFF4834R_chr_3425 | XFF4834R_chr_3425 | a deleter, pas de similarite proteique significative BlastP, pas de signal peptide, petite proteine, acur | hypothetical protein | |
XFF4834R_chr_3433 | XFF4834R_chr_3433 | a deleter? pas de similarite proteique significative par blastP, pas de signal peptide | hypothetical protein | |
XFF4834R_chr_3434 | XFF4834R_chr_3434 | a deleter? pas de similarite significative par blastP, pas de signal peptide, petite proteine | hypothetical proetin | |
XFF4834R_chr_3455 | XFF4834R_chr_3455 | a deleter? acur, petite proteine, pas de signal pept, pas de similarite significative par blastP | hypothetical protein | |
XFF4834R_chr_3589 | XFF4834R_chr_3589 | ACUR ORF chevauchante, pourquoi ce choix code pas terrible pas d'homologie faut il deleter | hypothetical protein | |
XFF4834R_chr_3591 | XFF4834R_chr_3591 | partie manquante du gene 3592 (pepN2) soit 20% possede un start et un stop a deleter ? | | |
XFF4834R_chr_3600 | XFF4834R_chr_3600 | matrice acur, impossible retrouver orf; blastx ncbi pas grand chose, a deleter ? | | |
XFF4834R_chr_3629 | XFF4834R_chr_3629 | trouve en ACUR et low GC aucune homologie proteique a deleter ? a conserver ? | hypothetical protein | |
XFF4834R_chr_3674 | XFF4834R_chr_3674 | detecte avec matrice |
XFF4834R_chr_3723 | XFF4834R_chr_3723 | pas retrouve avec matrice acur, pas de stop dans usage du code, a deleter ? | | |
XFF4834R_chr_3738 | XFF4834R_chr_3738 | orf pas retrouvee avec frame D et avec usage du code, aucune homologie, a deleter ? | | |
XFF4834R_chr_3825 | XFF4834R_chr_3825 | ACUR et low GC, code pas tres bon, faut il deleter ? | Hypothetical protein | |
XFF4834R_chr_3831 | XFF4834R_chr_3831 | frame D et usage code OK mais petite taille faut il deleter ? | hypothetical protein | |
XFF4834R_chr_3849 | XFF4834R_chr_3849 | matrice xantho mais pas bon usage du code, faut il deleter ? | Hypothetical protein | |
XFF4834R_chr_3852 | XFF4834R_chr_3852 | matrice |
XFF4834R_chr_3890 | XFF4834R_chr_3890 | acur et low GC, usage du code pas bon sur la premiere moitiee faut il deleter ? | Hypothetical protein | |
XFF4834R_chr_3953 | XFF4834R_chr_3953 | matrice |
XFF4834R_chr_3995 | XFF4834R_chr_3995 | pseudogene ? correspond au quart manquant de la proteine transmembranaire 3994, faut-il deleter ? | Conserved hypothetical protein | |
XFF4834R_chr_4023 | XFF4834R_chr_4023 | petit cds detection avec matrice ACUR et low GC, faut-il deleter ? | Hypothetical protein | |
XFF4834R_chr_4037 | XFF4834R_chr_4037 | trouve avec ACUR en low GC, tres petit peptide, faut-il deleter ? | Hypothetical protein | |
XFF4834R_chr_4053 | XFF4834R_chr_4053 | matrice |
XFF4834R_chr_4058 | XFF4834R_chr_4058 | petit peptide, usage du code pas tres bon, aucune homologie, faut-il conserver ou deleter ? | Hypothetical protein | |
XFF4834R_chr_4060 | XFF4834R_chr_4060 | petite proteine predite avec matrice acur et low GC, faut-il deleter ? | Hypothetical protein | |
XFF4834R_chr_4063 | XFF4834R_chr_4063 | usage du code pas terrible, petit peptide, aucune homologie, faut-il conserver ou deleter ? | Hypothetical protein | |
XFF4834R_chr_4109 | XFF4834R_chr_4109 | predite en matrice |
XFF4834R_chr_4130 | XFF4834R_chr_4130 | petit peptide predit avec matrice acur en augmentant la sensibilite, faut-il deleter ? | Hypothetical protein | |
XFF4834R_chr_4158 | XFF4834R_chr_4158 | a deleter 49 aa, pas de prediction frame D meme avec ACUR | hypothetical protein | |
XFF4834R_chr_4164 | XFF4834R_chr_4164 | a deleter peptide 42 aa mauvaise prediction FrameD, pas d'orthologue | hypothetical peptide | |
XFF4834R_chr_4295 | XFF4834R_chr_4295 | a deleter pas de stop, pas de prevision acur, pas d'homologie, rien | hypothetical protein | |
XFF4834R_chr_4319 | XFF4834R_chr_4319 | a deleter pas de prediction en Frame D, pas de stop pas d'orthologue | hypothetical protein | |
XFF4834R_chr_4359 | XFF4834R_chr_4359 | a deleter aucune homologie pas secrete increased sensitivity et low gc pour avoir une prediction frameD | hypothetical protein | |
XFF4834R_chr_4380 | XFF4834R_chr_4380 | a deleter difficile a retrouver la prediction avec Frame D aucune homologie acur | hypothetical rotein | |
XFF4834R_chr_4415 | XFF4834R_chr_4415 | a deleter aucune homologie non secrete, acur et increade sensitivity et low gc | hypothetical protein | |
XFF4834R_chr_4561 | XFF4834R_chr_4561 | a deleter aucune homologie non secrete acur increased sensitivity and low GC content | hypothetical protein | |
XFF4834R_chr_4566 | XFF4834R_chr_4566 | mauvais frame D, pas d homologie ds NCBI pas secrete start et stop present A deleter | hypothetical protein | |
XFF4834R_pla_0054 | XFF4834R_pla_0054 | frame D ne correspond a rien a priori a deleter mais ds NCBI homologie avec AvrBs3 (sur les 31 aa) | hypothetical protein | |
XFF4834R_chr_0020 | XFF4834R_chr_0020 | Petite proteine a deleter Resultat positif BlastN et tblastN avec Xac et xcv mais negatif avec blastP matrice acur | hypothetical | |
XFF4834R_chr_0037 | XFF4834R_chr_0037 | petite proteine homologie partielle avec Xcv0030 deleter donne resultats avec BlastN et tBlastN region et blastP avec XCV0030 acur | hypthetical protein | |
XFF4834R_chr20870 | XFF4834R_chr20870 | peut etre a deleter mais 98/www/bacteria/annotation/bin/intd avec hypothetical prot de x f aurantifolii en blastx | | |
XFF4834R_chr_2684 | XFF4834R_chr_2684 | -3 acur ok start et stop present mais usage du code de mauvaises qualite A DELETER? rien chez NCBI | hypothetical protein | |
XFF4834R_chr_3330 | XFF4834R_chr_3330 | a deleter acur et increased sensitivity, aucune homologie, pas secrete stop ne correspond pas devraiet etre en 3617387 | hypothetical protein | |
XFF4834R_chr_3768 | XFF4834R_chr_3768 | detection avec matrice |
XFF4834R_chr_3833 | XFF4834R_chr_3833 | frame D en augmentant la sensibilite et usage du code OK, mais petite taille, faut il deleter | hypothetical protein | |
XFF4834R_chr_3901 | XFF4834R_chr_3901 | trouve en matrice |
XFF4834R_chr_4076 | XFF4834R_chr_4076 | predite en acur, low GC et sensibilite accrue, mauvais usage du code, petite proteine, faut-il deleter ? | Hypothetical protein | |
XFF4834R_chr_4178 | XFF4834R_chr_4178 | a deleter pas de prediction Frame D meme avec low GC content et low penalty pas de stop sur codon usage | hypothetical protein | |
XFF4834R_chr_4305 | XFF4834R_chr_4305 | a deleter pas d'orthologue, mauvais usage du code partiellement chevaucant avec 4306 suite au changement du start | hypothetical protein | |
XFF4834R_chr_4335 | XFF4834R_chr_4335 | a deleter acur aucune homologie frame D ne le predit pas correctement mm avec low GC et increased sensiticity | hypothetical protein | |
XFF4834R_chr_4432 | XFF4834R_chr_4432 | acur increased and low pour obtenir frameD, start et stop present, pas de signal peptide, NCBI rien. A deleter | hypothetical protein | |
XFF4834R_chr_4484 | XFF4834R_chr_4484 | a deleter homologies tres partielles, acur, frame D bug pr la prediction que soient les parametres non secrete | hypothetical protein | |
XFF4834R_chr_5061 | XFF4834R_chr_5061 | matrice ACUR en low GC, start fort et bon usage du code, aucune homologie, faut il deleter ? | hypothetical protein | |
XFF4834R_chr_2015 | XFF4834R_chr_2015 | A DELETER ? mauvais usage du code ; pas orf avec frameD ; 4 hits blastx avec I et coverages moyens mais E fort et pour grandes proteins chez organismes genetiquement eloignes. | | |
XFF4834R_chr_3008 | XFF4834R_chr_3008 | aucune homologie, petite taille, detectee en ACUR avec low GC, usage du code mauvais sur la moitie de la proteine, a deleter ? | Hypothetical protein | |
XFF4834R_chr_3113 | XFF4834R_chr_3113 | prediction avec ACUR et low GC a deleter ? en plus il y a chevauchement du tRNA Leu Anticodon: CAG at 35-37 (3387308-3387310) avec orf predite | Hypothetical protein | |
XFF4834R_chr_3461 | XFF4834R_chr_3461 | a deleter? petite proteine, mauvais usage du code, aucune similarite proteique BlastP, par blastN la seq ressort des donnees deposees via Darsonval et al AEM 2008 | hypothetical protein | |
XFF4834R_chr_3503 | XFF4834R_chr_3503 | a deleter? petite prot, aucune similarite prot blastP, pas de signal pept mais forte identite nucleique avec des citri et vesicatoria par blastN | hypothetical protein | |
XFF4834R_chr_3628 | XFF4834R_chr_3628 | ne comprends pas frame D, rien en -3 dans cette zone par contre quelque chose de la meme taille en +1 a deleter ? a modifier ? | | |
XFF4834R_chr_3661 | XFF4834R_chr_3661 | modif de l'orf choisie pour prendre une orf avec la matrice |
XFF4834R_chr_3822 | XFF4834R_chr_3822 | pas trouve meme en ACUR pourtant start et stop pas si mal, usage code pas tjs tres bon, faut il deleter ? | Hypothetical protein | |
XFF4834R_chr_3845 | XFF4834R_chr_3845 | modif de orf predite car pas retrouvee, porposition autre orf en +2 avec matrice acur et low GC, faut il deleter ? | Hypothetical protein | |
XFF4834R_chr_4074 | XFF4834R_chr_4074 | ACUR, usage du code bon, cette proteine a un homologue chez xav mais il manque la fin, pres de la moitie de la sequence, pseudogene ? faut il deleter ? | Hypothetical protein | |
XFF4834R_chr_4096 | XFF4834R_chr_4096 | seul un fragment de la proteine presente une homologie chez Xac (manque la premiere moitie), gene tronque, pseudogene ? faut-il deleter ? | Hypothetical protein | |
XFF4834R_chr_4104 | XFF4834R_chr_4104 | pas retrouve avec frame D quelque soit la matrice utilisee, par contre bon usage du code, petit peptide sans homolgie, faut il deleter ? | hypothetical protein | |
XFF4834R_chr_4152 | XFF4834R_chr_4152 | a deleter aucune prediction FrameD start TTG en +3 suivi d'un bon usage du code en +1 pdt 16aa et usage poursuit en +3 | hypothetical protein | |
XFF4834R_chr_4422 | XFF4834R_chr_4422 | acur increased, mais tres peu d'homologie avec un gene chez oryzaede 391 aa, il y a des XX ds la sequence. A deleter? | hypothetical protein | |
XFF4834R_chr15630 | XFF4834R_chr15630 | orf non retrouve avec framD (meme ACUR et diminution des parametres) ; mauvais usage du code MAIS 1 start et 1 stop OK et 2 hits blastx ncbi pour hypothetical protein chez X camp donc ne pas deleter | hypothetical protein | |
XFF4834R_chr_1874 | XFF4834R_chr_1874 | probleme frameD = aucune matrice, aucunes conditions ne donnent cet orf ; mauvais usage du code ; Pas hit interproscan ; non secretee ; pas hit blastx ncbi avec paramertres par defaut DONC A DELETER (?) | | |
XFF4834R_chr_3339 | XFF4834R_chr_3339 | A deleter ? Proteine non secretee >Sequence length = 56 # Measure Position Value Cutoff signal peptide? max. C 37 0.430 0.52 NO max. Y 37 0.286 0.33 NO max. S 3 0.918 0.92 NO mean S 1-36 0.425 0.49 NO D 1-36 0.356 0.44 NO | | |
XFF4834R_chr_3356 | XFF4834R_chr_3356 | A deleter ? proteine non secretee : >Sequence length = 70 # Measure Position Value Cutoff signal peptide? max. C 29 0.209 0.52 NO max. Y 45 0.121 0.33 NO max. S 2 0.467 0.92 NO mean S 1-44 0.116 0.49 NO D 1-44 0.118 0.44 NO | hypothetical protein | |
XFF4834R_chr_3392 | XFF4834R_chr_3392 | A deleter ? proteine non secretee :# Measure Position Value Cutoff signal peptide? max. C 16 0.038 0.52 NO max. Y 16 0.085 0.33 NO max. S 10 0.611 0.92 NO mean S 1-15 0.266 0.49 NO D 1-15 0.175 0.44 NO | | |
XFF4834R_chr_3439 | XFF4834R_chr_3439 | A deleter ? proteine non secretee :# Measure Position Value Cutoff signal peptide? max. C 27 0.092 0.52 NO max. Y 39 0.059 0.33 NO max. S 5 0.234 0.92 NO mean S 1-38 0.054 0.49 NO D 1-38 0.057 0.44 NO | | |
XFF4834R_chr_3459 | XFF4834R_chr_3459 | A deleter ? proteine non secretee : # Measure Position Value Cutoff signal peptide? max. C 23 0.260 0.52 NO max. Y 39 0.121 0.33 NO max. S 5 0.883 0.92 NO mean S 1-38 0.315 0.49 NO D 1-38 0.218 0.44 NO | | |
XFF4834R_chr_3530 | XFF4834R_chr_3530 | A deleter ? proteine non secretee : >Sequence length = 65 # Measure Position Value Cutoff signal peptide? max. C 27 0.203 0.52 NO max. Y 50 0.102 0.33 NO max. S 17 0.854 0.92 NO mean S 1-49 0.315 0.49 NO D 1-49 0.208 0.44 NO | | |
XFF4834R_chr_3536 | XFF4834R_chr_3536 | A deleter ? proteine non secretee : >Sequence length = 58 # Measure Position Value Cutoff signal peptide? max. C 16 0.138 0.52 NO max. Y 44 0.015 0.33 NO max. S 20 0.041 0.92 NO mean S 1-43 0.017 0.49 NO D 1-43 0.016 0.44 NO | | |
XFF4834R_chr_3554 | XFF4834R_chr_3554 | A deleter ? proteine non secretee : >Sequence length = 70 # Measure Position Value Cutoff signal peptide? max. C 20 0.182 0.52 NO max. Y 10 0.112 0.33 NO max. S 1 0.444 0.92 NO mean S 1-9 0.166 0.49 NO D 1-9 0.139 0.44 NO | | |
XFF4834R_chr_3558 | XFF4834R_chr_3558 | A deleter ? proteine non secretee : >Sequence length = 23 # Measure Position Value Cutoff signal peptide? max. C 14 0.028 0.52 NO max. Y 14 0.028 0.33 NO max. S 2 0.143 0.92 NO mean S 1-13 0.057 0.49 NO D 1-13 0.042 0.44 NO | | |
XFF4834R_chr_3561 | XFF4834R_chr_3561 | A deleter ? proteine non secretee : >Sequence length = 40 # Measure Position Value Cutoff signal peptide? max. C 22 0.045 0.52 NO max. Y 9 0.077 0.33 NO max. S 3 0.535 0.92 NO mean S 1-8 0.196 0.49 NO D 1-8 0.136 0.44 NO | | |
XFF4834R_chr_3564 | XFF4834R_chr_3564 | A deleter ? proteine non secretee : >Sequence length = 41 # Measure Position Value Cutoff signal peptide? max. C 26 0.870 0.52 YES max. Y 38 0.048 0.33 NO max. S 31 0.617 0.92 NO mean S 1-37 0.212 0.49 NO D 1-37 0.130 0.44 NO | | |
XFF4834R_chr_3566 | XFF4834R_chr_3566 | A deleter ? proteine non secretee : >Sequence length = 43 # Measure Position Value Cutoff signal peptide? max. C 30 0.071 0.52 NO max. Y 30 0.036 0.33 NO max. S 19 0.069 0.92 NO mean S 1-29 0.022 0.49 NO D 1-29 0.029 0.44 NO | | |
XFF4834R_chr_3633 | XFF4834R_chr_3633 | correspond a la fin du gene precedant pour lequel il y a un homologue complet chez xav, xac, xcc... le decalage est du a 2 nuceolitides en plus chez xapf en position 3954655 et 3954656 a deleter ? | hypothetical protein | |
XFF4834R_chr_3716 | XFF4834R_chr_3716 | ce doit etre un pseudogene car la sequenceN des orfs 3715 et 3716 correspond au gene utpF du cluster de biosynthese du LPS chez xcc avec preuve experimentale (utilisation de la phenylalanine et la tyrosine pendant la phase stationnaire) a deleter ? | hypothetical protein | |
XFF4834R_chr_3903 | XFF4834R_chr_3903 | la sequence correspond au dernier 1/6 du gene Xav3892, est ce un pseudogene ? faut il deleter ? une sequence nucleique homologue de Xav3892 n est pas presente dans sa totalite mais environ sur le dernier 1/3 | Hypothetical protein | |
XFF4834R_chr_4007 | XFF4834R_chr_4007 | pseudogene ou gene tronque (il manque 6/7) par rapport aux orthologues chez les autres xanthos (xcv3996, putative disulphide-isomerase precursor), faut il deleter ? reste un peptide signal mais aucun autre domaine fonctionnel | Conserved hypothetical protein | |
XFF4834R_chr_4056 | XFF4834R_chr_4056 | pas retrouve avec frameD, si verif usage du code on retrouve un start et un stop aux positions predites mais usage du code pas bon du tout, faut-il conserver ou deleter ? | Hypothetical protein | |
XFF4834R_plc_0020 | XFF4834R_plc_0020 | Signal peptide probability: 0.951 Max cleavage site probability: 0.779 between pos. 34 and 35 max. C 29 0.266 0.52 NO max. Y 29 0.274 0.33 NO max. S 28 0.982 0.92 YES mean S 1-28 0.875 0.49 YES D 1-28 0.574 0.44 YES A deleter? | hypothetical protein | |
XFF4834R_chr_0548 | XFF4834R_chr_0548 | pas de blast correspondant et cadre de lecture propose (+2) errone. Voir le cadre -2 avec une meilleure courbe de prediction et colle en amont a une autre sequence avec une bonne courbe de prediction (XFF4834R0549 que je ne trouve pas). Ces 2 sequences separees par un codon stop reel ou erreur de sequencage ... Si rien deleter. | | |
XFF4834R_chr_1569 | XFF4834R_chr_1569 | ORF pas retrouve avec frameD (meme avec ACUR et diminution parametres) ; codon usage : 1 start en 1671873 sur brin +3 MAIS pas de stop avant 1672433 en +3 et usage du code mauvais (gris) ; il y a plusieurs stop en +1 et en +2 dans cette zone DONC XFF4834R chr 1569 A DELETER ? | | |
XFF4834R_chr_1581 | XFF4834R_chr_1581 | Pas d'orf pour frameD ; pas de STOP en 1687609 mais en 1687900 = modif stop ; avec nouvel orf =1 blastx partiel (coverage 54%) pour hypoth prot de Xac de 198aa et autres blastx encore plus partiels pour xylanase et phospholipases ; CDS A DELETER ? | Hypothetical protein | |
XFF4834R_chr_3329 | XFF4834R_chr_3329 | A deleter ?? si non proteine conservee XAC, XCV, XCC proteine secretee : >Sequence length = 51 # Measure Position Value Cutoff signal peptide? max. C 17 0.664 0.52 YES max. Y 17 0.415 0.33 YES max. S 2 0.847 0.92 NO mean S 1-16 0.322 0.49 NO D 1-16 0.368 0.44 NO # Most likely cleavage site between pos. 16 and 17: LHA-EG | Hypothetical conserved protein | |
XFF4834R_chr_3518 | XFF4834R_chr_3518 | a deleter ? proteine non secretee :# Measure Position Value Cutoff signal peptide? max. C 30 0.202 0.52 NO max. Y 14 0.138 0.33 NO max. S 3 0.891 0.92 NO mean S 1-13 0.519 0.49 YES D 1-13 0.328 0.44 NO # Most likely cleavage site between pos. 13 and 14: RVG-QE | | |
XFF4834R_chr_3522 | XFF4834R_chr_3522 | A deleter ? proteine non secretee :# Measure Position Value Cutoff signal peptide? max. C 19 0.052 0.52 NO max. Y 19 0.151 0.33 NO max. S 6 0.876 0.92 NO mean S 1-18 0.573 0.49 YES D 1-18 0.362 0.44 NO # Most likely cleavage site between pos. 18 and 19: IYA-MF | | |
XFF4834R_chr_3526 | XFF4834R_chr_3526 | A deleter ? proteine non secretee : # Measure Position Value Cutoff signal peptide? max. C 18 0.245 0.52 NO max. Y 18 0.169 0.33 NO max. S 9 0.855 0.92 NO mean S 1-17 0.499 0.49 YES D 1-17 0.334 0.44 NO # Most likely cleavage site between pos. 17 and 18: ANA-SR | | |
XFF4834R_chr_3533 | XFF4834R_chr_3533 | A deleter ? proteine non secretee : >Sequence length = 25 # Measure Position Value Cutoff signal peptide? max. C 24 0.104 0.52 NO max. Y 13 0.182 0.33 NO max. S 5 0.943 0.92 YES mean S 1-12 0.723 0.49 YES D 1-12 0.453 0.44 YES # Most likely cleavage site between pos. 12 and 13: LQA-GA | | |
XFF4834R_chr_3715 | XFF4834R_chr_3715 | homologie avec xac et xav sur toute la longueur, mais en fait ce doit etre un pseudogene car la sequenceN des orfs 3715 et 3716 correspond au gene utpF du cluster de biosynthese du LPS chez xcc avec preuve experimentale (utilisation de la phenylalanine et la tyrosine pendant la phase stationnaire) a deleter ? | hypothetical protein | |
XFF4834R_chr_3905 | XFF4834R_chr_3905 | la sequence prot correspond a la fin de la proteine xav3895, la sequence nucleique homologue du debut de xav3995 est presente chez xapf, faut-il deleter ce gene ? faut il creer un pseudogene de 4243766-4244200 en (-3) car xav3995 est seulement une hypothical prot ? | Hypothetical protein | |
XFF4834R_chr_4008 | XFF4834R_chr_4008 | pseudogene ou gene tronque (voir orf 4007), il manque 1/7 du debut du gene par rapport aux orhtologues chez xanthos (xcv3996 putative disulphide-isomerase precursor), faut il deleter ? interposcan ne trouve plus de domaines fonctionnels dans ce morceau de gene | Conserved hypothetical protein |
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