Output with too long spacers

[Russel88]

Hey,

By default the spacers should not be longer than 50bp, but in some cases arrays are identified even though some spacers are much longer than 50bp. See example below:

It comes from the following contig: crispr_test2.txt

I use version 0.3.1

Cheers, Jakob

CRISPR 8   Range: 73 - 690

POSITION        REPEAT                          SPACER --------        ----------------------- -------------------------------------------------------------- 73              TTGTAGATTTGAACTTGTAGATT GAACTTGCAGATTTGAACTTGTAAATTTGAACTTGTAGATTGAACTTGTATATTGAACTTGTAGATTTTGTAGATTTGAAC       [ 23, 81 ] 177             TTGTTGATTTGAACTTGTAGATT GAACTTGTAGATTGAACTTGTAGAATGAACTTGTAGATTGAACTTGTAGATTGAACTTGTAGATTTTGTAGATTTGAAC [ 23, 79 ] 279             TTGTAGATTTGAACTTGTAGATT GAACTTGTAGATTGAACTTGTAGATTTTGTAGATTTGAATTTGTAGATTTGAAGCTGTAGATTTGAACTTGTAGATTTGAAC      [ 23, 82 ] 384             TTGTTGATTTGAACTTGTTGAAT TGAACTTGTAGATTGAACCTGTAGATTTTGTAGATTTGAACTTGTAGATTTTGTAGATTGAAC [ 23, 63 ] 470             TTGTAGATTTGAACTTGTAGATT TTCTACTGTAGATTTACTTCTGTAGATTTCAATGTGAAGATT      [ 23, 42 ] 535             TTGTAGATTTGAACTTGTAGATT TGAAATTGAAGATTTGAACTTGTAGATTGAACTTGCAGATTGAAC   [ 23, 45 ] 603             TTGTAGATTTGAACTTGTAGATT TTGTAGATTTGAACTTGTACATTTGAACTTGAAGAATTGAAC      [ 23, 42 ] 668             TTGTCAATTTGAACTTGTAGATT --------        ----------------------- -------------------------------------------------------------- Repeats: 8      Average Length: 23              Average Length: 62

[ctSkennerton]

Looking at how this comes through the code, I think it'll be a little tricky to fix. Will have to think more on it, but don't have the time right now.

[Russel88]

Ok, I guess post-processing would be the simplest. Also, 50bp would probably be a bit too short if it was a hard limit on the spacer lengths.