Discrepancy Report Results Summary DISC_SOURCE_QUALS_ASNDISC:strain (all present, all unique) DISC_SOURCE_QUALS_ASNDISC:taxname (all present, all unique) DISC_FEATURE_COUNT:gene: 1434 present DISC_FEATURE_COUNT:CDS: 1396 present DISC_FEATURE_COUNT:tRNA: 34 present DISC_FEATURE_COUNT:rRNA: 3 present DISC_FEATURE_COUNT:repeat_region: 1 present DISC_FEATURE_COUNT:tmRNA: 1 present DISC_COUNT_NUCLEOTIDES:1 nucleotide Bioseqs are present OVERLAPPING_GENES:395 genes overlap another gene on the same strand. OVERLAPPING_CDS:10 coding regions overlap another coding region with a similar or identical name. SUSPECT_PRODUCT_NAMES:13 product_names contain suspect phrase or characters Putative Typo 2 features may contain systematic gene product identifiers from phage May contain database identifier more appropriate in note; remove from product name 6 features Contains underscore use protein instead of gene as appropriate 5 features contains 'gene' DISC_SUSPICIOUS_NOTE_TEXT:5 note texts contain suspicious phrases DISC_QUALITY_SCORES:Quality scores are missing on all sequences. ONCALLER_COMMENT_PRESENT:1 comment descriptors were found (all same) SHORT_PROT_SEQUENCES:30 protein sequences are shorter than 50 aa. MISSING_GENOMEASSEMBLY_COMMENTS:1 bioseqs are missing GenomeAssembly structured comments MOLTYPE_NOT_MRNA:1 molecule types are not set as mRNA. TECHNIQUE_NOT_TSA:1 technique are not set as TSA MISSING_STRUCTURED_COMMENT:1 sequences do not include structured comments. MISSING_PROJECT:1397 sequences do not include project. DISC_INCONSISTENT_MOLINFO_TECH:Molinfo Technique Report (some missing, all same) Detailed Report DiscRep_ALL:DISC_SOURCE_QUALS_ASNDISC::strain (all present, all unique) DiscRep_SUB:DISC_SOURCE_QUALS_ASNDISC::1 sources have unique values for strain DiscRep_ALL:DISC_SOURCE_QUALS_ASNDISC::taxname (all present, all unique) DiscRep_SUB:DISC_SOURCE_QUALS_ASNDISC::1 sources have unique values for taxname DiscRep_ALL:DISC_FEATURE_COUNT::gene: 1434 present DiscRep_ALL:DISC_FEATURE_COUNT::CDS: 1396 present DiscRep_ALL:DISC_FEATURE_COUNT::tRNA: 34 present DiscRep_ALL:DISC_FEATURE_COUNT::rRNA: 3 present DiscRep_ALL:DISC_FEATURE_COUNT::repeat_region: 1 present DiscRep_ALL:DISC_FEATURE_COUNT::tmRNA: 1 present DiscRep_ALL:DISC_COUNT_NUCLEOTIDES::1 nucleotide Bioseqs are present /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_contig000001 (length 1445873) DiscRep_ALL:OVERLAPPING_GENES::395 genes overlap another gene on the same strand. /home/yquentin/work/wolbachia/prokka/wRi/wRi:Gene virB8 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/home/yquentin/work/wolbachia/prokka/wRi/wRi:Gene nuoB wRi_contig000001:c1383859-1383353 wRi_01377 /home/yquentin/work/wolbachia/prokka/wRi/wRi:Gene wRi_01400 wRi_contig000001:1406011-1406736 wRi_01400 /home/yquentin/work/wolbachia/prokka/wRi/wRi:Gene yciK wRi_contig000001:1406723-1407478 wRi_01401 /home/yquentin/work/wolbachia/prokka/wRi/wRi:Gene wRi_01403 wRi_contig000001:1411879-1412094 wRi_01403 /home/yquentin/work/wolbachia/prokka/wRi/wRi:Gene wRi_01404 wRi_contig000001:1412091-1412351 wRi_01404 /home/yquentin/work/wolbachia/prokka/wRi/wRi:Gene wRi_01405 wRi_contig000001:1412302-1412685 wRi_01405 /home/yquentin/work/wolbachia/prokka/wRi/wRi:Gene mnhC1 wRi_contig000001:c1416383-1416072 wRi_01408 /home/yquentin/work/wolbachia/prokka/wRi/wRi:Gene mrpB wRi_contig000001:c1416799-1416380 wRi_01409 /home/yquentin/work/wolbachia/prokka/wRi/wRi:Gene mrpA_2 wRi_contig000001:c1417319-1416792 wRi_01410 DiscRep_ALL:OVERLAPPING_CDS::10 coding regions overlap another coding region with a similar or identical name. DiscRep_SUB:OVERLAPPING_CDS::10 coding regions overlap another coding region with a similar or identical name that do not have the appropriate note text /home/yquentin/work/wolbachia/prokka/wRi/wRi:CDS L-allo-threonine aldolase wRi_contig000001:622345-623409 wRi_00615 /home/yquentin/work/wolbachia/prokka/wRi/wRi:CDS L-allo-threonine aldolase wRi_contig000001:623406-624458 wRi_00616 /home/yquentin/work/wolbachia/prokka/wRi/wRi:CDS Phosphomannomutase/phosphoglucomutase wRi_contig000001:c640785-639781 wRi_00633 /home/yquentin/work/wolbachia/prokka/wRi/wRi:CDS Phosphomannomutase/phosphoglucomutase wRi_contig000001:c641135-640782 wRi_00634 /home/yquentin/work/wolbachia/prokka/wRi/wRi:CDS putative zinc protease wRi_contig000001:649519-650859 wRi_00643 /home/yquentin/work/wolbachia/prokka/wRi/wRi:CDS putative zinc protease wRi_contig000001:650846-652165 wRi_00644 /home/yquentin/work/wolbachia/prokka/wRi/wRi:CDS TrbL/VirB6 plasmid conjugal transfer protein wRi_contig000001:c887069-884124 wRi_00877 /home/yquentin/work/wolbachia/prokka/wRi/wRi:CDS TrbL/VirB6 plasmid conjugal transfer protein wRi_contig000001:c889453-887066 wRi_00878 /home/yquentin/work/wolbachia/prokka/wRi/wRi:CDS L-allo-threonine aldolase wRi_contig000001:1128804-1129868 wRi_01119 /home/yquentin/work/wolbachia/prokka/wRi/wRi:CDS L-allo-threonine aldolase wRi_contig000001:1129865-1130917 wRi_01120 DiscRep_ALL:SUSPECT_PRODUCT_NAMES::13 product_names contain suspect phrase or characters DiscRep_SUB:SUSPECT_PRODUCT_NAMES::Putative Typo DiscRep_SUB:SUSPECT_PRODUCT_NAMES::2 features may contain systematic gene product identifiers from phage /home/yquentin/work/wolbachia/prokka/wRi/wRi:CDS gpW wRi_contig000001:c778440-778216 wRi_00766 /home/yquentin/work/wolbachia/prokka/wRi/wRi:CDS gpW wRi_contig000001:c1356347-1356123 wRi_01346 DiscRep_SUB:SUSPECT_PRODUCT_NAMES::May contain database identifier more appropriate in note; remove from product name DiscRep_SUB:SUSPECT_PRODUCT_NAMES::6 features Contains underscore /home/yquentin/work/wolbachia/prokka/wRi/wRi:CDS Phage tail protein (Tail_P2_I) wRi_contig000001:c586555-585395 wRi_00583 /home/yquentin/work/wolbachia/prokka/wRi/wRi:CDS Phage tail protein (Tail_P2_I) wRi_contig000001:c770026-768809 wRi_00753 /home/yquentin/work/wolbachia/prokka/wRi/wRi:CDS Aspartate kinase Ask_LysC wRi_contig000001:975944-977110 wRi_00962 /home/yquentin/work/wolbachia/prokka/wRi/wRi:CDS Phage tail protein (Tail_P2_I) wRi_contig000001:c1093014-1091854 wRi_01087 /home/yquentin/work/wolbachia/prokka/wRi/wRi:CDS Putative O-methyltransferase/MSMEI_4947 wRi_contig000001:1184813-1185460 wRi_01171 /home/yquentin/work/wolbachia/prokka/wRi/wRi:CDS Phage tail protein (Tail_P2_I) wRi_contig000001:c1341637-1340435 wRi_01324 DiscRep_SUB:SUSPECT_PRODUCT_NAMES::use protein instead of gene as appropriate DiscRep_SUB:SUSPECT_PRODUCT_NAMES::5 features contains 'gene' /home/yquentin/work/wolbachia/prokka/wRi/wRi:CDS Gene 25-like lysozyme wRi_contig000001:c587684-587349 wRi_00585 /home/yquentin/work/wolbachia/prokka/wRi/wRi:CDS Phage late control gene D protein (GPD) wRi_contig000001:c756978-755998 wRi_00737 /home/yquentin/work/wolbachia/prokka/wRi/wRi:CDS Gene 25-like lysozyme wRi_contig000001:c771175-770840 wRi_00755 /home/yquentin/work/wolbachia/prokka/wRi/wRi:CDS Gene 25-like lysozyme wRi_contig000001:c1094143-1093808 wRi_01089 /home/yquentin/work/wolbachia/prokka/wRi/wRi:CDS Gene 25-like lysozyme wRi_contig000001:c1342742-1342407 wRi_01326 DiscRep_ALL:DISC_SUSPICIOUS_NOTE_TEXT::5 note texts contain suspicious phrases DiscRep_SUB:DISC_SUSPICIOUS_NOTE_TEXT::5 note texts contain 'homolog' /home/yquentin/work/wolbachia/prokka/wRi/wRi:CDS hypothetical protein wRi_contig000001:c143609-143001 wRi_00145 /home/yquentin/work/wolbachia/prokka/wRi/wRi:CDS hypothetical protein wRi_contig000001:236670-237152 wRi_00236 /home/yquentin/work/wolbachia/prokka/wRi/wRi:CDS hypothetical protein wRi_contig000001:c925318-924860 wRi_00912 /home/yquentin/work/wolbachia/prokka/wRi/wRi:CDS hypothetical protein wRi_contig000001:c1186115-1185462 wRi_01172 /home/yquentin/work/wolbachia/prokka/wRi/wRi:CDS hypothetical protein wRi_contig000001:1232044-1232565 wRi_01220 DiscRep_ALL:DISC_QUALITY_SCORES::Quality scores are missing on all sequences. DiscRep_ALL:ONCALLER_COMMENT_PRESENT::1 comment descriptors were found (all same) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_contig000001:Annotated using prokka 1.10 from http://www.vicbioinformatics.com DiscRep_ALL:SHORT_PROT_SEQUENCES::30 protein sequences are shorter than 50 aa. /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00166 (length 44) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00167 (length 44) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00168 (length 48) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00195 (length 45) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00205 (length 44) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00206 (length 44) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00216 (length 46) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00246 (length 44) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00247 (length 44) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00304 (length 46) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00367 (length 47) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00389 (length 47) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00394 (length 48) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00412 (length 47) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00474 (length 42) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00497 (length 39) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00509 (length 41) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00567 (length 47) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00627 (length 47) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00705 (length 40) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00782 (length 34) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00853 (length 37) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00855 (length 34) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00964 (length 42) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00981 (length 45) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00994 (length 40) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_01071 (length 47) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_01131 (length 47) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_01205 (length 46) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_01280 (length 42) DiscRep_ALL:MISSING_GENOMEASSEMBLY_COMMENTS::1 bioseqs are missing GenomeAssembly structured comments /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_contig000001 (length 1445873) DiscRep_ALL:MOLTYPE_NOT_MRNA::1 molecule types are not set as mRNA. /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_contig000001 (length 1445873) DiscRep_ALL:TECHNIQUE_NOT_TSA::1 technique are not set as TSA /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_contig000001 (length 1445873) DiscRep_ALL:MISSING_STRUCTURED_COMMENT::1 sequences do not include structured comments. /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_contig000001 (length 1445873) DiscRep_ALL:MISSING_PROJECT::1397 sequences do not include project. /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_contig000001 (length 1445873) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00001 (length 460) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00002 (length 424) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00004 (length 360) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00005 (length 226) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00006 (length 266) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00007 (length 498) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00008 (length 330) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00009 (length 672) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00010 (length 283) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00011 (length 284) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00012 (length 124) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00013 (length 159) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00014 (length 691) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00015 (length 390) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00017 (length 278) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00018 (length 146) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00019 (length 217) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00020 (length 172) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00021 (length 133) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00022 (length 2837) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00023 (length 332) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00024 (length 640) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00025 (length 432) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00026 (length 423) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00027 (length 709) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00028 (length 288) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00029 (length 308) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00030 (length 117) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00031 (length 420) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00032 (length 555) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00033 (length 372) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00035 (length 314) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00036 (length 91) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00037 (length 173) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00038 (length 108) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00039 (length 62) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00040 (length 125) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00041 (length 213) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00042 (length 512) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00043 (length 395) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00044 (length 101) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00045 (length 108) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00046 (length 198) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00047 (length 838) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00048 (length 199) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00049 (length 126) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00050 (length 113) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00051 (length 54) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00052 (length 53) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00053 (length 65) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00054 (length 100) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00055 (length 235) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00056 (length 103) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00057 (length 151) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00058 (length 152) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00059 (length 407) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00060 (length 191) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00061 (length 187) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00062 (length 698) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00063 (length 103) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00064 (length 79) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00065 (length 331) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00066 (length 65) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00067 (length 136) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00068 (length 129) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00069 (length 261) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00070 (length 54) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00071 (length 53) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00072 (length 126) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00073 (length 113) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00074 (length 193) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00075 (length 117) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00076 (length 100) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00077 (length 91) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00078 (length 136) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00079 (length 334) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00080 (length 382) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00081 (length 320) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00082 (length 182) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00083 (length 203) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00084 (length 99) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00085 (length 103) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00086 (length 293) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00087 (length 415) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00088 (length 263) /home/yquentin/work/wolbachia/prokka/wRi/wRi:Prokka:wRi_00089 (length 412) 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