SAMStat v1.0.9 (Display sequence statistics for next generation sequencing)
SAMStat is an efficient C program displaying summary statistics of large sequence files. When applied to SAM/BAM files all statistics are reported for unmapped, poorly and accurately mapped reads separately. This allows for identification of a variety of problems, such as remaining linker and adaptor sequences, causing poor mapping. Apart from this SAMStat can be used to verify individual processing steps in large analysis pipelines.