Bioinformatics/Subsequence: Difference between revisions
→{{header|Julia}}
m (→{{header|REXX}}: added a foot separator to the outputs.) |
|||
Line 197:
289..293
312..316
</pre>
=={{header|Go}}==
{{trans|Wren}}
<lang go>package main
import (
"fmt"
"math/rand"
"regexp"
"time"
)
const base = "ACGT"
func findDnaSubsequence(dnaSize, chunkSize int) {
dnaSeq := make([]byte, dnaSize)
for i := 0; i < dnaSize; i++ {
dnaSeq[i] = base[rand.Intn(4)]
}
dnaStr := string(dnaSeq)
dnaSubseq := make([]byte, 4)
for i := 0; i < 4; i++ {
dnaSubseq[i] = base[rand.Intn(4)]
}
dnaSubstr := string(dnaSubseq)
fmt.Println("DNA sequnence:")
for i := chunkSize; i <= len(dnaStr); i += chunkSize {
start := i - chunkSize
fmt.Printf("%3d..%3d: %s\n", start+1, i, dnaStr[start:i])
}
fmt.Println("\nSubsequence to locate:", dnaSubstr)
var r = regexp.MustCompile(dnaSubstr)
var matches = r.FindAllStringIndex(dnaStr, -1)
if len(matches) == 0 {
fmt.Println("No matches found.")
} else {
fmt.Println("Matches found at the following indices:")
for _, m := range matches {
fmt.Printf("%3d..%-3d\n", m[0]+1, m[1])
}
}
}
func main() {
rand.Seed(time.Now().UnixNano())
findDnaSubsequence(200, 20)
fmt.Println()
findDnaSubsequence(600, 40)
}</lang>
{{out}}
Sample run:
<pre>
DNA sequnence:
1.. 20: GTTGCCCACACGTCTTATTG
21.. 40: TAAAAATCACCGTGCAGCGA
41.. 60: GGTTAAAAATGGTAGGAAAA
61.. 80: TATCCTCAGCCAGCGGTGCC
81..100: GGCCAACAAAAGGGACGTTG
101..120: GATTAAAGTAGGTCTAGGTA
121..140: TCTCGTATCCGGTTGATCCG
141..160: GGATGGTGGACGATATTGGA
161..180: GACCGGAGTGTACATCGGTG
181..200: TTGTCGCTTGCAGCTACGGT
Subsequence to locate: AATA
Matches found at the following indices:
59..62
DNA sequnence:
1.. 40: GTACAGCCACTGTTAGTAGACGGATGCTATTGGGACGCAA
41.. 80: CACATCAGTACACTGCTTGTTCGTAATCGCGTACCCAGCG
81..120: CAAAAGGAGGGGAGGAACCTGCTCAGACTGTCGCTAAAAA
121..160: CGAGCACGTGTCCTTACGCAGTGATGGTAGCGGTCCACGA
161..200: CTTCCACTGGCATAAGGAGAATGTTTAGTAACGCCCCTCA
201..240: TAGGTGCAATTCTACAGGTTAAGGGACCGTGGGATGTTTC
241..280: TATAAAAGTTGAAGAGATTACTAATCCGTCCCGTGCGCGT
281..320: GCCGCAATTTAGCGCCCGTTCTTGAGTAAACATACATGCA
321..360: CGCTCTTGAGTTTTCTAAAACCTGATCAAAACGGTCGCCC
361..400: ACATGCAGGAGCGCCGCAGGGTTTCAGAGGTCAACCATCG
401..440: GCAGCACACGTGAACCCTCTGTACTGACCAGGGGCTTGCT
441..480: CCTTGGTAGGAGATGGTGGAGAATGCGTCGATGCACTGAA
481..520: GCAGACCGCTGATAGCATGTACGATGTTTACGGGTTGACG
521..560: ATAGCTTTGCTAGTGATCGAACATATGATGAAAAACGCTT
561..600: CCATTGATAGAGCATCTTAGGAGCTCAGTCCAGTGACCTC
Subsequence to locate: AGGT
Matches found at the following indices:
202..205
216..219
388..391
</pre>
| |||