SB Translate 6 frames - mendessoares/BuddySuite GitHub Wiki

--translate6frames, -tr6

Description

Translate nucleotide sequences into all six reading frames.

Example

Input file: Unknown_EST.fa

>Unknown_EST
GGGTGGTGCCTCGTCTGGAAGGAGGCCTGGGTAAGGGATATTTTGGCTGGGTTGGTCATA
TCCTTCTAAAACTGTGTACAGTCCCTGGGTCCAACAGTAATCCTCCGCAAAAGTGGATCC
AAACTTTTTGAAGCCGTCACAACTGATGACACTGCCGGTGTATTGCCGGACAGTGACAGT
CGTTCCCATGACAACGAGCAGGACGAACATAAAACTCCGATTGAGTTGATCCCACCCGTC
ATCTATCGTTATACCTTTAAAAGGAGTAACTCCTTTAAACTTTGAAAGTATGTCT

Usage

$: sb Unknown_EST.fa -tr6

Output

>Unknown_EST_f1 Unknown_EST
GWCLVWKEAWVRDILAGLVISF*NCVQSLGPTVILRKSGSKLFEAVTTDDTAGVLPDSDS
RSHDNEQDEHKTPIELIPPVIYRYTFKRSNSFKL*KYV
>Unknown_EST_f2 Unknown_EST
GGASSGRRPG*GIFWLGWSYPSKTVYSPWVQQ*SSAKVDPNFLKPSQLMTLPVYCRTVTV
VPMTTSRTNIKLRLS*SHPSSIVIPLKGVTPLNFESMS
>Unknown_EST_f3 Unknown_EST
VVPRLEGGLGKGYFGWVGHILLKLCTVPGSNSNPPQKWIQTF*SRHN**HCRCIAGQ*QS
FP*QRAGRT*NSD*VDPTRHLSLYL*KE*LL*TLKVC
>Unknown_EST_rf1 Unknown_EST
RHTFKV*RSYSF*RYNDR*RVGSTQSEFYVRPARCHGNDCHCPAIHRQCHQL*RLQKVWI
HFCGGLLLDPGTVHSFRRI*PTQPKYPLPRPPSRRGTT
>Unknown_EST_rf2 Unknown_EST
DILSKFKGVTPFKGITIDDGWDQLNRSFMFVLLVVMGTTVTVRQYTGSVISCDGFKKFGS
TFAEDYCWTQGLYTVLEGYDQPSQNIPYPGLLPDEAPP
>Unknown_EST_rf3 Unknown_EST
TYFQSLKELLLLKV*R*MTGGINSIGVLCSSCSLSWERLSLSGNTPAVSSVVTASKSLDP
LLRRITVGPRDCTQF*KDMTNPAKISLTQASFQTRHH