interpretation of results

[WAN-f12]

interpretation of results

[JiaoLaboratory]

HI,
Thank you very much for using CRAQ. In fact, CRAQ uses sequencing sequences to find clipping breakpoints. In the case of the “”--ser T” option, CRAQ will search the region near this breakpoint to see if there is also a cluster of low-quality base SNPs. When the length of the bed file is 1, it indicates that this position is an exact breakpoint.
As follows:

[WAN-f12]

The -ser parameter is T by default, but I don 't see the corresponding information in the result. In fact, my interpretation of the result is not very clear. Can you add more information about the interpretation of the result files
Thank you

[JiaoLaboratory]

The result of out_final.CSE.bed and out_final.CRE.bed could descriped as:
chrid error_start error_end error_breakpoint error_stype
m17 22122332 22122333 m17:22122332 CSE

for your result, error_start = error_end, it is normal, means there is no mapping gap near breakpoint (above figure left ).

[JiaoLaboratory]

[WAN-f12]

Thank you for your reply and explanation,
best wishes