AB List IDs - mendessoares/BuddySuite GitHub Wiki

--list_ids, -li

Description

Output a list of all sequence identifiers

Argument

Columns ( int )

Optional. Specify how many columns the ids should be arranged in (default=1)

Examples

Input file: Panxs.stlkm

# STOCKHOLM 1.0
#=GF SQ 11
Ate-PanxβD MASQINSIKSLLTIKPKSRNDDYTDQFHRIFMVKMSMVASLLLGLNWVKDTITCII
Ael-PanxβB M-VVIRGLKDILSIKMKTRHDSICDQFNRLFMTRVLLIMSVIMGFDYYSDKVSCMV
Ael-PanxβD M----EVLKDILSVQLKSRDDSYSDQFNRIFMCKLFLMSSIIMSVDYFSDNVNCMI
Cla-PanxβD M--APPDIKSMLTVKIKPRQDSYYDQYSRIIMVKILMLTATITGISWVKDKVTCIV
Hec-PanxβD M-GSLGSIKDILSIKIKVRHDSYTDQFCRIFMSKMFIISALVMGVDFFNDKVSCIV
Che-PanxβA MALVASDIKGMLSITIKSRHDSHTDQYNRIFMVKILLVTSLVMGISWYSDSISCII
Pph-PanxβD MSNIAGDVKKLFNYKYKKRDDTITDQYNRIFMTKVMVISAFITGLQWYSDEIKCIV
Ccr-PanxγA M---------------------------RKALPLCLLFVTGMIFYKYNDEKLSCMK
Che-PanxβC M-AITDSIKQILSVKIKPRHDSYSDQFSRIFMVKIMMISALLVGLSWYTDKINCII
Che-PanxβD M--APPDIKKLLRIKIKPRKDPYTDQFSRIFMVKMMMLTATITGLSWAKDKFTCIV
Ate-PanxβC MGFITGDIKSMLTIKAKPRHDDYTDQFHRIFMVKICMVSSLLLGLNWMKDTITCII
//
# STOCKHOLM 1.0
#=GF SQ 4
Mle-Panxα9 -mldilskf--kgvtpfkgitiddgwdqlnrsfmfvllvvmgt
Mle-Panxα7A mgveilfpiinratapiksvniddlssqlnrtfmfylsltfai
Mle-Panxα8 mvlevlalf--prlapfkvitlddvwdqwnrsfmfimtvlfgs
Mle-Panxα6 mlleilanf--kgatpfkeivlddkwdqinrcymfllcvifgt
//

Usage example 1

$: alb Panxs.stlkm -li

Output

# Alignment 1
Ate-PanxβD
Ael-PanxβB
Ael-PanxβD
Cla-PanxβD
Hec-PanxβD
Che-PanxβA
Pph-PanxβD
Ccr-PanxγA
Che-PanxβC
Che-PanxβD
Ate-PanxβC

# Alignment 2
Mle-Panxα9
Mle-Panxα7A
Mle-Panxα8
Mle-Panxα6

Usage example 2

$: alb Panxs.stlkm -li 3

Output

# Alignment 1
Ate-PanxβD	Ael-PanxβB	Ael-PanxβD
Cla-PanxβD	Hec-PanxβD	Che-PanxβA
Pph-PanxβD	Ccr-PanxγA	Che-PanxβC
Che-PanxβD	Ate-PanxβC

# Alignment 2
Mle-Panxα9	Mle-Panxα7A	Mle-Panxα8
Mle-Panxα6