Pine tree: Difference between revisions
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| Line 14: | Line 14: | ||
bin | bin | ||
mget ... | mget ... | ||
* cChloroplast | |||
len 120481 | |||
gc% 38.55 | |||
* cBAC stats | * cBAC stats | ||
| Line 19: | Line 23: | ||
len 102 8288 89909 116121 140549 172161 113400 126689 11566806 | len 102 8288 89909 116121 140549 172161 113400 126689 11566806 | ||
gc% 102 34.44 36.56 37.61 38.80 52.88 37.94 37.66 3870.87 | gc% 102 34.44 36.56 37.61 38.80 52.88 37.94 37.66 3870.87 | ||
* Reads | * Reads | ||
| Line 28: | Line 28: | ||
FC638TR_001_8 146 22,729,231 | FC638TR_001_8 146 22,729,231 | ||
FC638TR_002_8 146 18,412,638 | FC638TR_002_8 146 18,412,638 | ||
* 100K sampled reads | |||
. elem min q1 q2 q3 max mean n50 sum | |||
gc% 400000 0.68 34.93 39.04 43.15 95.89 39.20 40.41 . | |||
* Local data | * Local data | ||
| Line 36: | Line 40: | ||
* Notes: | * Notes: | ||
** First 2bp of each read have higher A count | |||
** GC% variation: | |||
medianGC% | |||
cChloroplast 38.55 | |||
cBAC 37.61 | |||
reads 39.04 | |||
Revision as of 19:04, 29 June 2011
Links
Data
- IPST ftp
ftp genomepc1.umd.edu ftpuser pinegenome cd PineUpload052911/ bin mget ...
- cChloroplast
len 120481 gc% 38.55
- cBAC stats
. elem min q1 q2 q3 max mean n50 sum len 102 8288 89909 116121 140549 172161 113400 126689 11566806 gc% 102 34.44 36.56 37.61 38.80 52.88 37.94 37.66 3870.87
- Reads
readLen #mates FC638TR_001_8 146 22,729,231 FC638TR_002_8 146 18,412,638
- 100K sampled reads
. elem min q1 q2 q3 max mean n50 sum gc% 400000 0.68 34.93 39.04 43.15 95.89 39.20 40.41 .
- Local data
ginkgo: /scratch1/dpuiu/PINE/ /scratch1/dpuiu/PINE/sample/ # 100K mates sampled from each lib /scratch1/dpuiu/PINE/sample/*stats
- Notes:
- First 2bp of each read have higher A count
- GC% variation:
medianGC% cChloroplast 38.55 cBAC 37.61 reads 39.04