Mosaik aligner result1

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Revision as of 09:03, 23 July 2010 (view source) Csbl (Talk | contribs) (Created page with '------------------------------------------------------------------------------ MosaikCoverage 0.9.0891 2009-01-31 Michael Stromberg …') ← Older edit		Latest revision as of 02:31, 26 July 2010 (view source) Csbl (Talk | contribs)
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-	------------------------------------------------------------------------------	+	*Only use solexa reads
-	MosaikCoverage 0.9.0891                                            2009-01-31	+	------------------------------------------------------------------------------
-	Michael Stromberg                Marth Lab, Boston College Biology Department	+	MosaikCoverage 0.9.0891                                            2009-01-31
-	------------------------------------------------------------------------------	+	Michael Stromberg                Marth Lab, Boston College Biology Department
		+	------------------------------------------------------------------------------
		+
		+	- evaluating unique reads only.
		+	- enabling graph creation.
		+	- initializing coverage array... finished.
		+	- parsing read archive... finished.
		+
		+	- writing coverage files:
		+	* coverage statistics for scaffold00001 (760635 bp): 758521 bp (99.7 %), mean: 1126.3x
		+	* coverage statistics for scaffold00002 (494501 bp): 492721 bp (99.6 %), mean: 1141.3x
		+	* coverage statistics for scaffold00005 (1422460 bp): 1415091 bp (99.5 %), mean: 1216.1x
		+	* coverage statistics for scf04_back (648931 bp): 644574 bp (99.3 %), mean: 1248.8x
		+	* coverage statistics for scf04_front (314876 bp): 312341 bp (99.2 %), mean: 1221.0x
		+	* coverage statistics for scaffold00006 (231513 bp): 229977 bp (99.3 %), mean: 1206.0x
		+	* coverage statistics for scaffold00008 (5513 bp): 4872 bp (88.4 %), mean: 5085.0x
		+	Warning: empty y range [0:0], adjusting to [-1:1]
		+	Warning: empty y range [0:0], adjusting to [-1:1]
		+	* coverage statistics for scaffold00003 (2257 bp): 0 bp ( 0.0 %), mean: 0.0x
		+	* coverage statistics for scaffold00007 (377027 bp): 376662 bp (99.9 %), mean: 1163.3x
		+
		+	- total coverage (4257713 bp): 4234759 bp (99.5 %), mean: 1195.8x
-	- evaluating unique reads only.	+	[[image:solexa_cov_scf1.jpg|thomb|150px]]
-	- enabling graph creation.	+	[[image:solexa_cov_scf2.jpg|thomb|150px]]
-	- initializing coverage array... finished.	+	[[image:solexa_cov_scf3.jpg|thomb|150px]]
-	- parsing read archive... finished.	+	[[image:solexa_cov_scf4_b.jpg|thomb|150px]]
		+	[[image:solexa_cov_scf4_f.jpg|thomb|150px]]
		+	[[image:solexa_cov_scf5.jpg|thomb|150px]]
		+	[[image:solexa_cov_scf6.jpg|thomb|150px]]
		+	[[image:solexa_cov_scf7.jpg|thomb|150px]]
		+	[[image:solexa_cov_scf8.jpg|thomb|150px]]
-	- writing coverage files:	+	{| class="wikitable" style="text-align:center" border="1"
-	* coverage statistics for scaffold00001 (760635 bp): 758521 bp (99.7 %), mean: 1126.3x	+	|+
-	* coverage statistics for scaffold00002 (494501 bp): 492721 bp (99.6 %), mean: 1141.3x	+	|-
-	* coverage statistics for scaffold00005 (1422460 bp): 1415091 bp (99.5 %), mean: 1216.1x	+	|      || # of contigs || total length
-	* coverage statistics for scf04_back (648931 bp): 644574 bp (99.3 %), mean: 1248.8x	+	|-
-	* coverage statistics for scf04_front (314876 bp): 312341 bp (99.2 %), mean: 1221.0x	+	|before|| 33 || 4248741
-	* coverage statistics for scaffold00006 (231513 bp): 229977 bp (99.3 %), mean: 1206.0x	+	|-
-	* coverage statistics for scaffold00008 (5513 bp): 4872 bp (88.4 %), mean: 5085.0x	+	|after|| 35 || 4248725
-	Warning: empty y range [0:0], adjusting to [-1:1]	+	|}
-	Warning: empty y range [0:0], adjusting to [-1:1]	+
-	* coverage statistics for scaffold00003 (2257 bp): 0 bp ( 0.0 %), mean: 0.0x	+
-	* coverage statistics for scaffold00007 (377027 bp): 376662 bp (99.9 %), mean: 1163.3x	+
-	- total coverage (4257713 bp): 4234759 bp (99.5 %), mean: 1195.8x	+	2 contigs are splitted
		+
		+	{| class="wikitable" style="text-align:center" border="1"
		+	|+
		+	|-
		+	|before || after
		+	|-
		+	|scaffold00001_2 || scaffold00001_2, scaffold00001_3
		+	|-
		+	|scaffold00001_9 || scaffold00001_10, scaffold00001_11
		+	|}

---

Latest revision as of 02:31, 26 July 2010

• Only use solexa reads

------------------------------------------------------------------------------
MosaikCoverage 0.9.0891                                             2009-01-31
Michael Stromberg                 Marth Lab, Boston College Biology Department
------------------------------------------------------------------------------

- evaluating unique reads only.
- enabling graph creation.
- initializing coverage array... finished.
- parsing read archive... finished.

- writing coverage files:
* coverage statistics for scaffold00001 (760635 bp): 758521 bp (99.7 %), mean: 1126.3x
* coverage statistics for scaffold00002 (494501 bp): 492721 bp (99.6 %), mean: 1141.3x
* coverage statistics for scaffold00005 (1422460 bp): 1415091 bp (99.5 %), mean: 1216.1x
* coverage statistics for scf04_back (648931 bp): 644574 bp (99.3 %), mean: 1248.8x
* coverage statistics for scf04_front (314876 bp): 312341 bp (99.2 %), mean: 1221.0x
* coverage statistics for scaffold00006 (231513 bp): 229977 bp (99.3 %), mean: 1206.0x
* coverage statistics for scaffold00008 (5513 bp): 4872 bp (88.4 %), mean: 5085.0x
Warning: empty y range [0:0], adjusting to [-1:1]
Warning: empty y range [0:0], adjusting to [-1:1]
* coverage statistics for scaffold00003 (2257 bp): 0 bp ( 0.0 %), mean: 0.0x
* coverage statistics for scaffold00007 (377027 bp): 376662 bp (99.9 %), mean: 1163.3x

- total coverage (4257713 bp): 4234759 bp (99.5 %), mean: 1195.8x

	# of contigs	total length
before	33	4248741
after	35	4248725

2 contigs are splitted

before	after
scaffold00001_2	scaffold00001_2, scaffold00001_3
scaffold00001_9	scaffold00001_10, scaffold00001_11