Error: Failed to Count Variants []

[Behvar]

Hi,
While using the gui, after running my analysis I encounter this error with different datasets and different settings!
any comments on this will be helpful and much appreciated!
Cheers

[afrubin]

Were you able to run the example dataset successfully?

Usually the failed to count variants error is due to a mismatch between your reads and the wild type sequence, so everything gets filtered out due to having too many mutations.

How was your sequencing done? Do all your reads start at the beginning of the wild type?

[Behvar]

Were you able to run the example dataset successfully?
Yes I used the '.json' file and the analysis was done completely.
Usually the failed to count variants error is due to a mismatch between your reads and the wild type sequence, so everything gets filtered out due to having too many mutations.
From what I've understood, I have to use the 'Seqlib_Overlap' option for my experiment.
How was your sequencing done? Do all your reads start at the beginning of the wild type?
In my sequencing results. I have 2 different .fastq files for each of my samples; one forward read (starts 5 amino acid residues before the actual variant residue) and one reverse read (ends 5 amino acid residues after the actual variant residues). I've tried putting different values in the 'FASTQ Filtering' section while using the GUI, but every time I got the same error!
In the 'Wild Type Sequence' box, I put the nucleic acid sequence of the overlapping region of forward and reverse reads!