[samopen] SAM header is present: 22 sequences.
[bam_sort_core] merging from 19 files...
100000 GFF lines processed.
193089 GFF lines processed.
Warning: Read HWI-D00270:267:CB0DPANXX:4:1101:1197:41966 claims to have an aligned mate which could not be found in an adjacent line.
100000 SAM alignment record pairs processed.
200000 SAM alignment record pairs processed.
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20000000 SAM alignment record pairs processed.
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23700000 SAM alignment record pairs processed.
Warning: 1155722 reads with missing mate encountered.
23784588 SAM alignment pairs processed.