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When running the latest tDRnamer in Docker, I got the following error:
```
Traceback (most recent call last):
File "/opt/tdrnamer/clustertdrs.py", line 224, in
fragstk = list(readrnastk(o…
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hi, i
2024-10-23 20:51:38,372 [WARNI] 70% or more clusters filtered out by --min-cov: consider reducing or assessing data quality and depth!
Traceback (most recent call last):
File "/home_data…
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Hi,
I am occasionally encountering negative coordinate values like this:
```
Sequence tRNA Bounds tRNA Anti Intron Bounds Inf
Name tRNA #…
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mitochondria large subunit
Systematic ID | Gene name | Product description | Budding yeast orthologs | Human orthologs
-- | -- | -- | -- | --
SPAC1610.02c | mrpl1 | mitochondrial ribosomal prot…
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#### Current behavior:
31 genes are discovered to be uncorrelated with their corresponding reactions in `Keratan sulfate biosynthesis`.
| Gene | UniProtID | Reaction| GPR | Correlation | Man…
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Hi
I am trying to find the viral host between viral and bacterial tRNAs using BLAST
I would like to ask what undetermined (NNN) tRNA stand for. Does it mean "undetermined tRNAs are true tRNA wi…
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Some tRNA sequences get a large number of hits which causes a problem for sequence search, for example this sequence currently crashes it: `GCGGAAGUAGUUCAGUGGUAGAACACCACCUUGCCAAGGUGGGGGUCGCGGGUUCGAAUC…
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I have installed bakta using the following command:
```
mamba create -n bakta -c conda-forge -c bioconda bakta
```
And the database was downloaded using the following command:
```
bakta_db downl…
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- [x] Increased tRNA N2,N2-dimethylation
Normal tRNA N2,N2-dimethylation - use normal tRNA guanosine N2-methylation
- [x] increased stop codon readthrough
~normal stop codon readthrough? normal tra…
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### Aims/objectives.
The nomenclature for RNA types (table `rna_type`) is fixed *e.g.*
```mysql
+---------+-------------------+
| id | name |
+---------+-------------------+
…