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annotate test-data/adapter_list.txt @ 2:2b29a20e9869 draft default tip

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/falco commit a71120623d1dc818a107ca32f2c232fd47d819ea
author iuc
date Fri, 27 Sep 2024 17:41:19 +0000
parents 40c04ab0d17d
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40c04ab0d17d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/falco commit e1af25e42839c772b023f700210013658e42dc15
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1 # This file contains a set of sequence fragments which will be explicitly
40c04ab0d17d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/falco commit e1af25e42839c772b023f700210013658e42dc15
iuc
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2 # searched against your library. The reporting will be similar to the
40c04ab0d17d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/falco commit e1af25e42839c772b023f700210013658e42dc15
iuc
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3 # Kmer plot, except that every sequence in this list will be shown so
40c04ab0d17d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/falco commit e1af25e42839c772b023f700210013658e42dc15
iuc
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4 # you can use this to judge the level of adapter read-through even if those
40c04ab0d17d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/falco commit e1af25e42839c772b023f700210013658e42dc15
iuc
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5 # adapter sequences aren't picked out by the Kmer module.
40c04ab0d17d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/falco commit e1af25e42839c772b023f700210013658e42dc15
iuc
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6 #
40c04ab0d17d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/falco commit e1af25e42839c772b023f700210013658e42dc15
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7 # Since every sequence here will be analysed and the results plotted it
40c04ab0d17d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/falco commit e1af25e42839c772b023f700210013658e42dc15
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8 # doesn't make any sense to include duplicate sequences, or to add too
40c04ab0d17d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/falco commit e1af25e42839c772b023f700210013658e42dc15
iuc
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9 # many sequences since your plot will end up a mess.
40c04ab0d17d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/falco commit e1af25e42839c772b023f700210013658e42dc15
iuc
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10 #
40c04ab0d17d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/falco commit e1af25e42839c772b023f700210013658e42dc15
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11 # You can add more sequences to the file by putting one line per entry
40c04ab0d17d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/falco commit e1af25e42839c772b023f700210013658e42dc15
iuc
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12 # and specifying a name[tab]sequence. If the contaminant you add is
40c04ab0d17d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/falco commit e1af25e42839c772b023f700210013658e42dc15
iuc
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13 # likely to be of use to others please consider sending it to the FastQ
40c04ab0d17d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/falco commit e1af25e42839c772b023f700210013658e42dc15
iuc
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14 # authors, either via a bug report at www.bioinformatics.babraham.ac.uk/bugzilla/
40c04ab0d17d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/falco commit e1af25e42839c772b023f700210013658e42dc15
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15 # or by directly emailing simon.andrews@babraham.ac.uk so other users of
40c04ab0d17d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/falco commit e1af25e42839c772b023f700210013658e42dc15
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16 # the program can benefit.
40c04ab0d17d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/falco commit e1af25e42839c772b023f700210013658e42dc15
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17 #
40c04ab0d17d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/falco commit e1af25e42839c772b023f700210013658e42dc15
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18 # For the time being it's going to be easier to interpret this plot if all
40c04ab0d17d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/falco commit e1af25e42839c772b023f700210013658e42dc15
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19 # of the sequences provided are the same length, so we've gone with 12bp
40c04ab0d17d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/falco commit e1af25e42839c772b023f700210013658e42dc15
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20 # fragments for now.
40c04ab0d17d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/falco commit e1af25e42839c772b023f700210013658e42dc15
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21
40c04ab0d17d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/falco commit e1af25e42839c772b023f700210013658e42dc15
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22 Illumina Universal Adapter AGATCGGAAGAG
40c04ab0d17d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/falco commit e1af25e42839c772b023f700210013658e42dc15
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23 Illumina Small RNA 3 prime Adapter TGGAATTCTCGG
40c04ab0d17d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/falco commit e1af25e42839c772b023f700210013658e42dc15
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24 Illumina Small RNA 5 prime Adapter GATCGTCGGACT
40c04ab0d17d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/falco commit e1af25e42839c772b023f700210013658e42dc15
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25 Nextera Transposase Sequence CTGTCTCTTATA
40c04ab0d17d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/falco commit e1af25e42839c772b023f700210013658e42dc15
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26 SOLID Small RNA Adapter CGCCTTGGCCGT