📄 emma.usage
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<b>Here is a sample session with emma</b><p><p><table width="90%"><tr><td bgcolor="#CCFFFF"><pre>% <b>emma </b>Multiple alignment program - interface to ClustalW programInput (gapped) sequence(s): <b>globins.fasta</b>output sequence set [hbb_human.aln]: <b></b>Dendrogram (tree file) from clustalw output file [hbb_human.dnd]: <b></b> CLUSTAL W (1.83) Multiple Sequence AlignmentsSequence type explicitly set to ProteinSequence format is PearsonSequence 1: HBB_HUMAN 146 aaSequence 2: HBB_HORSE 146 aaSequence 3: HBA_HUMAN 141 aaSequence 4: HBA_HORSE 141 aaSequence 5: MYG_PHYCA 153 aaSequence 6: GLB5_PETMA 149 aaSequence 7: LGB2_LUPLU 153 aaStart of Pairwise alignmentsAligning...Sequences (1:2) Aligned. Score: 83Sequences (1:3) Aligned. Score: 43Sequences (1:4) Aligned. Score: 42Sequences (1:5) Aligned. Score: 24Sequences (1:6) Aligned. Score: 21Sequences (1:7) Aligned. Score: 14Sequences (2:3) Aligned. Score: 41Sequences (2:4) Aligned. Score: 43Sequences (2:5) Aligned. Score: 24Sequences (2:6) Aligned. Score: 19Sequences (2:7) Aligned. Score: 15Sequences (3:4) Aligned. Score: 87Sequences (3:5) Aligned. Score: 26Sequences (3:6) Aligned. Score: 29Sequences (3:7) Aligned. Score: 16Sequences (4:5) Aligned. Score: 26Sequences (4:6) Aligned. Score: 27Sequences (4:7) Aligned. Score: 12Sequences (5:6) Aligned. Score: 21Sequences (5:7) Aligned. Score: 7Sequences (6:7) Aligned. Score: 11Guide tree file created: [12345678A]Start of Multiple AlignmentThere are 6 groupsAligning...Group 1: Sequences: 2 Score:2194Group 2: Sequences: 2 Score:2165Group 3: Sequences: 4 Score:960Group 4: DelayedGroup 5: DelayedGroup 6: DelayedSequence:5 Score:865Sequence:6 Score:797Sequence:7 Score:1044Alignment Score 4164GCG-Alignment file created [12345678A]</pre></td></tr></table><p><p><a href="#input.1">Go to the input files for this example</a><br><a href="#output.1">Go to the output files for this example</a><p><p>
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