CCTyper results about crisprcastyper HOT 4 CLOSED

Hi

My guess is that you have a cas operon in "cas_operons_putative.tab" on Contig51 with no definite subtype, which is close to a CRISPR array. Maybe it's cas1 and cas2, which seems missing from the I-B cas operon on Contig137. I can see that the output is confusing in this case

from crisprcastyper.

These are the results for contig 51 on cas_operons_putative.tab file:

Contig Operon Start End Prediction Complete_Interference Complete_Adaptation Best_type Best_score Genes Positions E-values CoverageSeq CoverageHMM Strand_Interference Strand_Adaptation
Contig51 Contig51@1 785 2608 Ambiguous ['0%', '0%', '0%', '0%', '0%', '0%', '0%', '0%', '0%', '0%', '0%', '0%', '0%', '0%'] ['100%', '100%', '100%', '100%', '100%', '100%', '100%', '100%', '100%', '100%', '100%', '100%', '100%', 'NA'] ['I-A', 'I-B', 'I-C', 'I-D', 'I-G', 'II-B', 'V-A', 'V-B1', 'V-B2', 'V-E', 'V-F1', 'V-F2', 'V-F3', 'V-F'] 6.0 ['Cas4_5_CAS-I-II-III-IV-V-VI', 'Cas1_6_CAS-I-II-III-IV-V-VI', 'Cas2_2_CAS-I-II-III-IV-V-VI'] [2, 3, 4] ['1.30e-49', '1.90e-120', '8.40e-24'] [0.976, 0.964, 0.789] [1.0, 0.994, 0.975] NA 1

It seems a bit ambiguous, but I show the results in case the same thing happens to another user

from crisprcastyper.

Yeah, so you have an adaptation module (cas1, cas2, cas4) next to a CRISPR array on contig51, and the best guess cctyper can give is I-B due to the CRISPR repeat sequence. And then you have a I-B interference module on contig137

from crisprcastyper.

Thanks!

from crisprcastyper.