From: Ribovore: ribosomal RNA sequence analysis for GenBank submissions and database curation
Ribotyper error | Associated GenBank error | Cause/explanation |
---|---|---|
R_NoHits | SEQ_HOM_NotSSUOrLSUrRNA | No hits reported |
R_MultipleFamilies | SEQ_HOM_SSUAndLSUrRNA | SSU and LSU hits |
R_LowScore | SEQ_HOM_LowSimilarity | Bits/position score is <Â 0.5 |
R_BothStrands | SEQ_HOM_MisAsBothStrands | Hits on both strands |
R_InconsistentHits | SEQ_HOM_MisAsHitOrder | Hits are in different order in sequence and model |
R_DuplicateRegion | SEQ_HOM_MisAsDupRegion | Hits overlap by 10 or more model positions |
R_UnacceptableModel | SEQ_HOM_TaxNotExpectedSSUrRNA | Best hit is to model other than expected set 16S expected set: SSU.Archaea, SSU.Bacteria, SSU.Cyanobacteria, SSU.Chloroplast 18S expected set: SSU.Eukarya |
R_LowCoverage | SEQ_HOM_LowCoverage | Coverage of all hits is < 0.80 (if ≤ 350 nt) or 0.86 (if > 350 nt) |
R_QuestionableModel+ | SEQ_HOM_TaxQuestionableSSUrRNA | Best hit is to a ’questionable’ model (if mode is 16S: SSU.Chloroplast) |
R_MultipleHits+ | SEQ_HOM_MultipleHits | More than 1 hit reported |