Mutual containment

[gt1]

Hello Gene,

I see the following as an output of daligner/LAshow:

1 2 n [ 1..8,696> x < 0..8,990> ~ 23.00% (8,990 x 8,696 bps,2,034 diffs, 87 trace pts)
2 1 n < 0..8,990> x [ 1..8,696> ~ 23.00% (8,696 x 8,990 bps,2,034 diffs, 90 trace pts)

I wonder if this worked as intended. I thought daligner would try to extend alignments to the end of a read (in this case both) if it was close to an end, even if that meant lowering the score by that extension.

Best,
German

[thegenemyers]

Yes, this is strange -- it should have extended to the end. Any chance you can send me .fasta's of the two reads? -- Gene

…

On 10/20/17, 12:48 PM, German Tischler wrote: Hello Gene, I see the following as an output of daligner/LAshow: 1 2 n [ 1..8,696> x < 0..8,990> ~ 23.00% (8,990 x 8,696 bps,2,034 diffs, 87 trace pts) 2 1 n < 0..8,990> x [ 1..8,696> ~ 23.00% (8,696 x 8,990 bps,2,034 diffs, 90 trace pts) I wonder if this worked as intended. I thought daligner would try to extend alignments to the end of a read (in this case both) if it was close to an end, even if that meant lowering the score by that extension. Best, German — You are receiving this because you are subscribed to this thread. Reply to this email directly, view it on GitHub <#69>, or mute the thread <https://github.com/notifications/unsubscribe-auth/AGkkNj0zl0matTOXLBjBS6kJVSuaY77Uks5suHpwgaJpZM4QAgBa>.