[16:41:10] Loading reference annotation.
[16:41:16] Inspecting maps and determining fragment length distributions.
[16:52:47] Modeling fragment count overdispersion.
[16:55:08] Modeling fragment count overdispersion.
> Map Properties:
>	Normalized Map Mass: 27348455.34
>	Raw Map Mass: 25428340.82
>	Fragment Length Distribution: Empirical (learned)
>	              Estimated Mean: 132.38
>	           Estimated Std Dev: 35.62
> Map Properties:
>	Normalized Map Mass: 27348455.34
>	Raw Map Mass: 22459725.94
>	Fragment Length Distribution: Empirical (learned)
>	              Estimated Mean: 127.41
>	           Estimated Std Dev: 29.86
> Map Properties:
>	Normalized Map Mass: 27348455.34
>	Raw Map Mass: 24564363.17
>	Fragment Length Distribution: Empirical (learned)
>	              Estimated Mean: 137.23
>	           Estimated Std Dev: 41.76
> Map Properties:
>	Normalized Map Mass: 27348455.34
>	Raw Map Mass: 23167596.57
>	Fragment Length Distribution: Empirical (learned)
>	              Estimated Mean: 126.55
>	           Estimated Std Dev: 30.56
> Map Properties:
>	Normalized Map Mass: 27348455.34
>	Raw Map Mass: 20334729.41
>	Fragment Length Distribution: Empirical (learned)
>	              Estimated Mean: 134.65
>	           Estimated Std Dev: 39.33
> Map Properties:
>	Normalized Map Mass: 27348455.34
>	Raw Map Mass: 23167596.57
>	Fragment Length Distribution: Empirical (learned)
>	              Estimated Mean: 126.55
>	           Estimated Std Dev: 30.56
[16:55:09] Calculating preliminary abundance estimates
[16:55:09] Testing for differential expression and regulation in locus.
Processed 26821 loci.                       
Performed 38333 isoform-level transcription difference tests
Performed 26344 tss-level transcription difference tests
Performed 19114 gene-level transcription difference tests
Performed 12044 CDS-level transcription difference tests
Performed 7446 splicing tests
Performed 5183 promoter preference tests
Performing 2102 relative CDS output tests
Writing isoform-level FPKM tracking
Writing TSS group-level FPKM tracking
Writing gene-level FPKM tracking
Writing CDS-level FPKM tracking
Writing isoform-level count tracking
Writing TSS group-level count tracking
Writing gene-level count tracking
Writing CDS-level count tracking
Writing isoform-level read group tracking
Writing TSS group-level read group tracking
Writing gene-level read group tracking
Writing CDS-level read group tracking
Writing read group info
Writing run info