Hello,
I am running BLAT for aligning cDNA sequences with Refseq sequences for
each chromosome for human(hg19).However for some of the chromosomes the
program is getting aborted. The following error is shown in the command prompt
[./blat
/media/ZGLAB_AUBAK/lncrna/Refseq/RS_UCSC/refseq_ucsc_with_promoter/refseq_ucsc
genomic_chr6seqwithpro.fa
/media/ZGLAB_AUBAK/lncrna/cDNA/cDNA_ucsc_2_extracted/cDNAucsc_2chr6.fa
6cdref.psl
Loaded 128123074 letters in 2019 sequences
blat: fuzzyFind.c:1436: ffFind: Assertion `hayStart <= hayEnd' failed.]
Could you please tell me what this means and how to solve the problem?
Please reply soon.
Sohini Chakraborty
CSIR-Junior Research Fellow
CoE in Bioinformatics
Bose Institute
DST, Govt. of India
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