GKR11-wt3late
[bam_sort_core] merging from 32 files...
Command line:
/data/results/tools/align/cufflinks-2.2.0.Linux_x86_64/cufflinks --no-effective-length-correction -G /data/results/reference/mmu/Mus_musculus/UCSC/mm9/Annotation/Genes/genes.gtf -L GKR11-wt3late --no-update-check --library-type fr-secondstrand --num-threads 8 -q -o GKR11-wt3late/accepted_hits www/GKR11-wt3late.bam 
[18:35:30] Loading reference annotation.
[18:35:36] Inspecting reads and determining fragment length distribution.
Processed 21125 loci.                       
> Map Properties:
>	Normalized Map Mass: 40536059.75
>	Raw Map Mass: 40536059.75
>	Fragment Length Distribution: Truncated Gaussian (default)
>	              Default Mean: 200
>	           Default Std Dev: 80
[18:40:04] Estimating transcript abundances.
Processed 21125 loci.                       
GKR12-DARE3late
[bam_sort_core] merging from 32 files...
Command line:
/data/results/tools/align/cufflinks-2.2.0.Linux_x86_64/cufflinks --no-effective-length-correction -G /data/results/reference/mmu/Mus_musculus/UCSC/mm9/Annotation/Genes/genes.gtf -L GKR12-DARE3late --no-update-check --library-type fr-secondstrand --num-threads 8 -q -o GKR12-DARE3late/accepted_hits www/GKR12-DARE3late.bam 
[19:04:48] Loading reference annotation.
[19:04:54] Inspecting reads and determining fragment length distribution.
Processed 21125 loci.                       
> Map Properties:
>	Normalized Map Mass: 41592726.17
>	Raw Map Mass: 41592726.17
>	Fragment Length Distribution: Truncated Gaussian (default)
>	              Default Mean: 200
>	           Default Std Dev: 80
[19:09:26] Estimating transcript abundances.
Processed 21125 loci.                       
GKR7-wt1late
[bam_sort_core] merging from 24 files...
Command line:
/data/results/tools/align/cufflinks-2.2.0.Linux_x86_64/cufflinks --no-effective-length-correction -G /data/results/reference/mmu/Mus_musculus/UCSC/mm9/Annotation/Genes/genes.gtf -L GKR7-wt1late --no-update-check --library-type fr-secondstrand --num-threads 8 -q -o GKR7-wt1late/accepted_hits www/GKR7-wt1late.bam 
[19:31:35] Loading reference annotation.
[19:31:42] Inspecting reads and determining fragment length distribution.
Processed 21125 loci.                       
> Map Properties:
>	Normalized Map Mass: 38005718.31
>	Raw Map Mass: 38005718.31
>	Fragment Length Distribution: Truncated Gaussian (default)
>	              Default Mean: 200
>	           Default Std Dev: 80
[19:35:50] Estimating transcript abundances.
Processed 21125 loci.                       
GKR8-DARE1late
[bam_sort_core] merging from 24 files...
Command line:
/data/results/tools/align/cufflinks-2.2.0.Linux_x86_64/cufflinks --no-effective-length-correction -G /data/results/reference/mmu/Mus_musculus/UCSC/mm9/Annotation/Genes/genes.gtf -L GKR8-DARE1late --no-update-check --library-type fr-secondstrand --num-threads 8 -q -o GKR8-DARE1late/accepted_hits www/GKR8-DARE1late.bam 
[19:58:40] Loading reference annotation.
[19:58:47] Inspecting reads and determining fragment length distribution.
Processed 21125 loci.                       
> Map Properties:
>	Normalized Map Mass: 34854056.12
>	Raw Map Mass: 34854056.12
>	Fragment Length Distribution: Truncated Gaussian (default)
>	              Default Mean: 200
>	           Default Std Dev: 80
[20:02:35] Estimating transcript abundances.
Processed 21125 loci.                       
GKR13-wt1early
[bam_sort_core] merging from 40 files...
Command line:
/data/results/tools/align/cufflinks-2.2.0.Linux_x86_64/cufflinks --no-effective-length-correction -G /data/results/reference/mmu/Mus_musculus/UCSC/mm9/Annotation/Genes/genes.gtf -L GKR13-wt1early --no-update-check --library-type fr-secondstrand --num-threads 8 -q -o GKR13-wt1early/accepted_hits www/GKR13-wt1early.bam 
[20:28:59] Loading reference annotation.
[20:29:03] Inspecting reads and determining fragment length distribution.
Processed 21125 loci.                       
> Map Properties:
>	Normalized Map Mass: 50575824.81
>	Raw Map Mass: 50575824.81
>	Fragment Length Distribution: Truncated Gaussian (default)
>	              Default Mean: 200
>	           Default Std Dev: 80
[20:34:16] Estimating transcript abundances.
Processed 21125 loci.                       
GKR2-DARE1early
[bam_sort_core] merging from 24 files...
Command line:
/data/results/tools/align/cufflinks-2.2.0.Linux_x86_64/cufflinks --no-effective-length-correction -G /data/results/reference/mmu/Mus_musculus/UCSC/mm9/Annotation/Genes/genes.gtf -L GKR2-DARE1early --no-update-check --library-type fr-secondstrand --num-threads 8 -q -o GKR2-DARE1early/accepted_hits www/GKR2-DARE1early.bam 
[20:54:20] Loading reference annotation.
[20:54:25] Inspecting reads and determining fragment length distribution.
Processed 21125 loci.                       
> Map Properties:
>	Normalized Map Mass: 32832085.26
>	Raw Map Mass: 32832085.26
>	Fragment Length Distribution: Truncated Gaussian (default)
>	              Default Mean: 200
>	           Default Std Dev: 80
[20:57:53] Estimating transcript abundances.
Processed 21125 loci.                       
GKR3-wt2early
GKR4-DARE2early