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Searched refs:ACGT (Results 1 – 25 of 214) sorted by relevance

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/dports/science/py-DendroPy/DendroPy-4.4.0/tests/data/chars/
H A Dstandard-test-chars-dna.multi.nexus28 …ACGT-}{AGT}{CGT}{AGT}{ACGT}{CT}{AT}{GT}{GT}{ACGT}{ACGT-}{GT}{ACT}{AC}{ACGT}T{GT}{AT}{ACGT}{AG}{CT}…
30 c {AG}{ACGT}A{AG}T{ACG}{AT}{CG}T{ACGT}T.{AGT}{ACT}{ACGT}{CG}G{CGT}G.{ACT}.{AT}{AT}T{CG}G{ACG}{AT…
49 …C{AGT}{CT}.C.T{ACGT-}{ACGT-}{ACGT-}{ACG}.T{ACGT}{ACT}{AGT}{ACG}{AGT}{CT}.G.A{CG}{AT}{AGT}{ACGT}A{C…
52 j T..{ACGT}CG{AT}.{ACGT-}.{CG}{ACGT-}..{CG}...{GT}{CT}.{CT}CC..T..{CGT}.{AG}{ACGT-}.{AC}{ACGT-}{…
56 …CT}{ACGT-}{ACGT}{ACGT-}{ACGT-}.G{AC}{CGT}{CG}{ACGT}C.{ACG}..{AGT}{AT}{AC}{ACGT}{ACT}.{AGT}{AC}{ACG…
61 b T{CT}{ACGT}-{CG}{ACGT-}.{CG}.{AC}{ACGT}{AGT}A{CGT}..{CGT}{ACGT-}{AG}.{AT}{ACGT}{AT}{AG}{AGT}{C…
72 n .A{ACG}{ACGT}.G{CG}{CT}{AC}{CG}{ACGT-}..{ACGT}{CT}.A{AC}{AC}{ACG}T{ACGT}{ACGT}{ACGT}.{AG}{GT}.…
82 …{CT}{CT}{AT}{AT}AC.{AG}{AGT}G{ACGT}{ACGT}{ACG}{CG}{ACGT}{ACT}{CT}.{AGT}A{ACT}.T.{CGT}{ACGT}{ACGT}T…
95 e G{CT}{ACGT}..{ACT}{AC}{AG}.-A{CG}{AC}-{ACGT}{ACGT}T-{AT}{CGT}G-GGT{GT}.C{ACGT}.G.T{ACGT}{AG}{A…
97 … {ACG}A.{AGT}AG{AGT}{CG}{ACGT}{AGT}{AC}.{ACT}{ACGT-}..{ACGT}{CGT}{ACGT}.{ACGT}.T{ACT}{GT}{ACT}.A…
[all …]
/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/objtools/readers/unit_test/alnreader_test_cases/
H A Drw-848-2.aln2 ACGT
3 ACGT
5 ACGT
6 ACGT
8 ACGT
9 ACGT
11 ACGT
12 ACGT
14 ACGT
15 ACGT
[all …]
/dports/biology/vcftools/vcftools-0.1.16/examples/
H A Dindel-stats.vcf3 1 15 . ACGT A . PASS .
4 1 15 . A ACGT . PASS .
5 1 18 . ACGT A . PASS .
6 1 18 . A ACGT . PASS .
7 1 25 . ACGT A . PASS .
8 1 25 . A ACGT . PASS .
10 1 27 . A ACGT . PASS .
11 1 29 . ACGT A . PASS .
12 1 29 . A ACGT . PASS .
13 1 35 . ACGT A . PASS .
[all …]
/dports/biology/py-scikit-bio/scikit-bio-0.5.6/skbio/io/format/tests/data/
H A Dfasta_10_seqs2 ACGT
4 ACGT
10 ACGT
12 ACGT
14 ACGT
16 ACGT
18 ACGT
20 ACGT
H A Dfasta_invalid_after_10_seqs2 ACGT
4 ACGT
10 ACGT
12 ACGT
14 ACGT
16 ACGT
18 ACGT
20 ACGT
H A Dphylip_variable_length_ids2 .-ACGT
4 bb .ACGT-
/dports/biology/sim4/sim4.2003-09-21/
H A Ddiscrim.c21 int ACGT, i; in is_DNA() local
23 for (ACGT = i = 0; i < len; ++i) in is_DNA()
25 ++ACGT; in is_DNA()
26 if (10*ACGT < 9*len) /* ACGT < 90% of len */ in is_DNA()
/dports/biology/bcftools/bcftools-1.14/test/
H A Dannotate.missing-append.vcf9 1 800000 . ACGTACGT TCGTACGT,ACGT . . .
12 1 800100 . ACGT ACC,TCGT,AC . . .
H A Dannotate.missing-append.1.out10 1 800000 . ACGTACGT TCGTACGT,ACGT . . STR=AT0,.;INT=0,.;FLT=0.0,.
13 1 800100 . ACGT ACC,TCGT,AC . . STR=.,AT,.;INT=.,1,.;FLT=.,1.0,.
/dports/biology/bio-mocha/bcftools-1.14/test/
H A Dannotate.missing-append.vcf9 1 800000 . ACGTACGT TCGTACGT,ACGT . . .
12 1 800100 . ACGT ACC,TCGT,AC . . .
H A Dannotate.missing-append.1.out10 1 800000 . ACGTACGT TCGTACGT,ACGT . . STR=AT0,.;INT=0,.;FLT=0.0,.
13 1 800100 . ACGT ACC,TCGT,AC . . STR=.,AT,.;INT=.,1,.;FLT=.,1.0,.
/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/objtools/readers/hgvs/
H A Dhgvs_lexer.cpp14 ACGT("[ACGT]"), in SHgvsLexer()
46 (ACGT) in SHgvsLexer()
/dports/biology/samtools/samtools-1.14/test/stat/
H A D14.rg.grp3.expected50 # ACGT content per cycle. Use `grep ^GCC | cut -f 2-` to extract this part. The columns are: cycle;…
51 # ACGT content per cycle, read oriented. Use `grep ^GCT | cut -f 2-` to extract this part. The colu…
52 # ACGT content per cycle for first fragments. Use `grep ^FBC | cut -f 2-` to extract this part. The…
53 # ACGT raw counters for first fragments. Use `grep ^FTC | cut -f 2-` to extract this part. The colu…
55 # ACGT content per cycle for last fragments. Use `grep ^LBC | cut -f 2-` to extract this part. The …
56 # ACGT raw counters for last fragments. Use `grep ^LTC | cut -f 2-` to extract this part. The colum…
H A D13.barcodes.ox.ok.expected93 # ACGT content per cycle. Use `grep ^GCC | cut -f 2-` to extract this part. The columns are: cycle;…
105 # ACGT content per cycle, read oriented. Use `grep ^GCT | cut -f 2-` to extract this part. The colu…
117 # ACGT content per cycle for first fragments. Use `grep ^FBC | cut -f 2-` to extract this part. The…
129 # ACGT raw counters for first fragments. Use `grep ^FTC | cut -f 2-` to extract this part. The colu…
131 # ACGT content per cycle for last fragments. Use `grep ^LBC | cut -f 2-` to extract this part. The …
143 # ACGT raw counters for last fragments. Use `grep ^LTC | cut -f 2-` to extract this part. The colum…
145 # ACGT content per cycle for barcodes. Use `grep ^BCC | cut -f 2-` to extract this part. The column…
180 # ACGT content per cycle for barcodes. Use `grep ^OXC | cut -f 2-` to extract this part. The column…
H A D13.barcodes.bc.ok.expected93 # ACGT content per cycle. Use `grep ^GCC | cut -f 2-` to extract this part. The columns are: cycle;…
105 # ACGT content per cycle, read oriented. Use `grep ^GCT | cut -f 2-` to extract this part. The colu…
117 # ACGT content per cycle for first fragments. Use `grep ^FBC | cut -f 2-` to extract this part. The…
129 # ACGT raw counters for first fragments. Use `grep ^FTC | cut -f 2-` to extract this part. The colu…
131 # ACGT content per cycle for last fragments. Use `grep ^LBC | cut -f 2-` to extract this part. The …
143 # ACGT raw counters for last fragments. Use `grep ^LTC | cut -f 2-` to extract this part. The colum…
145 # ACGT content per cycle for barcodes. Use `grep ^BCC | cut -f 2-` to extract this part. The column…
H A D11.stats.expected82 # ACGT content per cycle. Use `grep ^GCC | cut -f 2-` to extract this part. The columns are: cycle;…
93 # ACGT content per cycle, read oriented. Use `grep ^GCT | cut -f 2-` to extract this part. The colu…
104 # ACGT content per cycle for first fragments. Use `grep ^FBC | cut -f 2-` to extract this part. The…
115 # ACGT raw counters for first fragments. Use `grep ^FTC | cut -f 2-` to extract this part. The colu…
117 # ACGT content per cycle for last fragments. Use `grep ^LBC | cut -f 2-` to extract this part. The …
128 # ACGT raw counters for last fragments. Use `grep ^LTC | cut -f 2-` to extract this part. The colum…
H A D11.stats.g4.expected82 # ACGT content per cycle. Use `grep ^GCC | cut -f 2-` to extract this part. The columns are: cycle;…
93 # ACGT content per cycle, read oriented. Use `grep ^GCT | cut -f 2-` to extract this part. The colu…
104 # ACGT content per cycle for first fragments. Use `grep ^FBC | cut -f 2-` to extract this part. The…
115 # ACGT raw counters for first fragments. Use `grep ^FTC | cut -f 2-` to extract this part. The colu…
117 # ACGT content per cycle for last fragments. Use `grep ^LBC | cut -f 2-` to extract this part. The …
128 # ACGT raw counters for last fragments. Use `grep ^LTC | cut -f 2-` to extract this part. The colum…
H A D14.rg.Sample.expected80 # ACGT content per cycle. Use `grep ^GCC | cut -f 2-` to extract this part. The columns are: cycle;…
91 # ACGT content per cycle, read oriented. Use `grep ^GCT | cut -f 2-` to extract this part. The colu…
102 # ACGT content per cycle for first fragments. Use `grep ^FBC | cut -f 2-` to extract this part. The…
113 # ACGT raw counters for first fragments. Use `grep ^FTC | cut -f 2-` to extract this part. The colu…
115 # ACGT content per cycle for last fragments. Use `grep ^LBC | cut -f 2-` to extract this part. The …
126 # ACGT raw counters for last fragments. Use `grep ^LTC | cut -f 2-` to extract this part. The colum…
H A D14.rg.grp2.expected81 # ACGT content per cycle. Use `grep ^GCC | cut -f 2-` to extract this part. The columns are: cycle;…
92 # ACGT content per cycle, read oriented. Use `grep ^GCT | cut -f 2-` to extract this part. The colu…
103 # ACGT content per cycle for first fragments. Use `grep ^FBC | cut -f 2-` to extract this part. The…
114 # ACGT raw counters for first fragments. Use `grep ^FTC | cut -f 2-` to extract this part. The colu…
116 # ACGT content per cycle for last fragments. Use `grep ^LBC | cut -f 2-` to extract this part. The …
127 # ACGT raw counters for last fragments. Use `grep ^LTC | cut -f 2-` to extract this part. The colum…
H A D3.stats.large.expected122 # ACGT content per cycle. Use `grep ^GCC | cut -f 2-` to extract this part. The columns are: cycle;…
123 # ACGT content per cycle, read oriented. Use `grep ^GCT | cut -f 2-` to extract this part. The colu…
124 # ACGT content per cycle for first fragments. Use `grep ^FBC | cut -f 2-` to extract this part. The…
125 # ACGT raw counters for first fragments. Use `grep ^FTC | cut -f 2-` to extract this part. The colu…
127 # ACGT content per cycle for last fragments. Use `grep ^LBC | cut -f 2-` to extract this part. The …
128 # ACGT raw counters for last fragments. Use `grep ^LTC | cut -f 2-` to extract this part. The colum…
H A D3.stats.expected161 # ACGT content per cycle. Use `grep ^GCC | cut -f 2-` to extract this part. The columns are: cycle;…
162 # ACGT content per cycle, read oriented. Use `grep ^GCT | cut -f 2-` to extract this part. The colu…
163 # ACGT content per cycle for first fragments. Use `grep ^FBC | cut -f 2-` to extract this part. The…
164 # ACGT raw counters for first fragments. Use `grep ^FTC | cut -f 2-` to extract this part. The colu…
166 # ACGT content per cycle for last fragments. Use `grep ^LBC | cut -f 2-` to extract this part. The …
167 # ACGT raw counters for last fragments. Use `grep ^LTC | cut -f 2-` to extract this part. The colum…
/dports/biology/emboss/EMBOSS-6.6.0/emboss/data/
H A DEbases.iub12 N 15 ACGT any_base
19 X 15 ACGT unknown
/dports/biology/gmap/gmap-2020-09-12/util/
H A Dvcf_iit.pl.in34 if ($wantp == 1 && $ref_allele =~ /^[ACGT]$/ && $alt_allele =~ /^[ACGT]$/) {
/dports/biology/emboss/EMBOSS-6.6.0/doc/programs/master/emboss/apps/inc/
H A Dinfobase.output16 N ACGT N any_base
23 X ACGT X unknown
/dports/textproc/R-cran-stringi/stringi/man/
H A Dstri_match.Rd130 stri_match_all_regex('ACAGAGACTTTAGATAGAGAAGA', '(?=(([ACGT])[ACGT]\\\\2))')[[1]][,2]
132 stri_extract_all_regex('ACAGAGACTTTAGATAGAGAAGA', '([ACGT])[ACGT]\\\\1')

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