Untitled

public text v1 · immutable
#2061695
·published 2011-05-16 17:13 UTC
bfc 8/2
assemblymode_mapping: 0
use genomic pathfinder: 1
+[1] +++++bfc 9/2

Contig does not meet requirement of minimum reads per contig.
Moving 6 reads to debris and triggering additional
cluster check.
Moving small clusters to debris:
 [0%] ....|.... [10%] ....|.... [20%] ....|.... [30%] ....|.... [40%] ....|.... [50%] ....|.... [60%] ....|.... [70%] ....|.... [80%] ....|.... [90%] ....|.... [100%] papp++++++++aaappppppppp++++aapppppp   273	31 / 101 / 7
[32] aaaaaapppppp+ppppppppppppppppppppppappapaaaaaaaaappapppbfc 9/0


Finished building.
Localtime: Mon May 16 13:11:54 2011

-------------- Contig statistics ----------------
Contig id: 58989
Contig length: 273

		      Sanger         454      PacBio      Solexa       Solid
Num. reads	           0           0           0          33           0
100% merged reads	   -           -           -           0           0
Avg. read len	           0           0           0          93           0
Max. coverage	           0           0           0          27           0
Avg. coverage	       0.000       0.000       0.000      11.319       0.000

Max. contig coverage: 27
Avg. contig coverage: 11.319

Consensus contains:	A: 112	C: 18	G: 41	T: 98	N: 0
			IUPAC: 4	Funny: 0	*: 0
GC content: 21.933%
-------------------------------------------------
Localtime: Mon May 16 13:11:54 2011
bfc 10/0
Marking possibly misassembled repeats:  [0%] ....|.... [10%] ....|.... [20%] ....|.... [30%] ....|.... [40%] ....|.... [50%] ....|.... [60%] ....|.... [70%] ....|.... [80%] ....|.... [90%] ....|.... [100%] done step 1, starting step 2:done. Found none.
bfc 11/0
bfc 12/0
bfc 13/0
bfc 14/0
bfc 15/0
bfc 16/0
Transfering reads to readpool.
Done.
bfc 17/0
bfc 19
Storing contig ... 10Searching for: SROs UNSs IUPACs, preparing needed data: sorting tags ... fetching consensus for strain0 ...done.
Starting search:
done with search
Transfering tags to readpool.
done.
bfc 1
Localtime: Mon May 16 13:11:54 2011

bfc 2
bfc 3
bfc 4
bfc 5
bfc 6/0
bfc 7/0
Building new contig 58990
Localtime: Mon May 16 13:11:54 2011
Unused reads: 1481747
bfc 8/0
assemblymode_mapping: 0
use genomic pathfinder: 1
+[1] +++++++++++pppppapppppppppaaaaaaaaaaaaa+++++aaaaaaaaaaapaaaa   207	38 / 98 / 5
[17] aaaaaaaaaaaaaaaaaaaaaaaa++aaaaaappppaaaapppppaaaaaaaaaaaaapp   208	22 / 55 / 7
[19] aaabfc 9/0


Finished building.
Localtime: Mon May 16 13:11:58 2011

-------------- Contig statistics ----------------
Contig id: 58990
Contig length: 208

		      Sanger         454      PacBio      Solexa       Solid
Num. reads	           0           0           0          19           0
100% merged reads	   -           -           -           0           0
Avg. read len	           0           0           0          95           0
Max. coverage	           0           0           0          14           0
Avg. coverage	       0.000       0.000       0.000       8.764       0.000

Max. contig coverage: 14
Avg. contig coverage: 8.764

Consensus contains:	A: 78	C: 25	G: 20	T: 83	N: 0
			IUPAC: 1	Funny: 0	*: 1
GC content: 21.845%
-------------------------------------------------
Localtime: Mon May 16 13:11:58 2011
bfc 10/0
Marking possibly misassembled repeats:  [0%] ....|.... [10%] ....|.... [20%] ....|.... [30%] ....|.... [40%] ....|.... [50%] ....|.... [60%] ....|.... [70%] ....|.... [80%] ....|.... [90%] ....|.... [100%] done step 1, starting step 2:done. Found none.
bfc 11/0
bfc 12/0
bfc 13/0
bfc 14/0
bfc 15/0
bfc 16/0
Transfering reads to readpool.
Done.
bfc 17/0
bfc 19
Storing contig ... 10Searching for: SROs UNSs IUPACs, preparing needed data: sorting tags ... fetching consensus for strain0 ...done.
Starting search:
done with search
Transfering tags to readpool.
done.
bfc 1
Localtime: Mon May 16 13:11:58 2011

bfc 2
bfc 3
bfc 4
bfc 5
bfc 6/0
bfc 7/0
Building new contig 58991
Localtime: Mon May 16 13:11:58 2011
Unused reads: 1481728
bfc 8/0
assemblymode_mapping: 0
use genomic pathfinder: 1
+[1] +++++++++++pppppaaaaaaapppppaaaaaaaap+++++ppppppaaaappppppaa   215	36 / 111 / 4
[17] aaapappppapppaaaaaaaaaaaapppppppaapapppppaaaaaaappaaaaaaaaaa   215	17 / 56 / 4
[17] aaaaaaaaaaaaaaaaaaaaaaaaaaaaapppppbfc 9/0


Finished building.
Localtime: Mon May 16 13:12:02 2011

-------------- Contig statistics ----------------
Contig id: 58991
Contig length: 215

		      Sanger         454      PacBio      Solexa       Solid
Num. reads	           0           0           0          17           0
100% merged reads	   -           -           -           0           0
Avg. read len	           0           0           0          95           0
Max. coverage	           0           0           0          12           0
Avg. coverage	       0.000       0.000       0.000       7.567       0.000

Max. contig coverage: 12
Avg. contig coverage: 7.567

Consensus contains:	A: 99	C: 42	G: 27	T: 46	N: 0
			IUPAC: 1	Funny: 0	*: 0
GC content: 32.243%
-------------------------------------------------
Localtime: Mon May 16 13:12:02 2011
bfc 10/0
Marking possibly misassembled repeats:  [0%] ....|.... [10%] ....|.... [20%] ....|.... [30%] ....|.... [40%] ....|.... [50%] ....|.... [60%] ....|.... [70%] ....|.... [80%] ....|.... [90%] ....|.... [100%] done step 1, starting step 2:done. Found none.
bfc 11/0
bfc 12/0
bfc 13/0
bfc 14/0
bfc 15/0
bfc 16/0
Transfering reads to readpool.
Done.
bfc 17/0
bfc 19
Storing contig ... 10Searching for: SROs UNSs IUPACs, preparing needed data: sorting tags ... fetching consensus for strain0 ...done.
Starting search:
done with search
Transfering tags to readpool.
done.
bfc 1
Localtime: Mon May 16 13:12:02 2011

bfc 2
bfc 3
bfc 4
bfc 5
bfc 6/0
bfc 7/0
Building new contig 58992
Localtime: Mon May 16 13:12:02 2011
Unused reads: 1481711
bfc 8/0
assemblymode_mapping: 0
use genomic pathfinder: 1
+[1] ++++++++++++++++++++++++++pppppppppppp+++++pppp++++++++++++a   176	36 / 103 / 8
[44] aaaaa++++++++++++++++++++aaaaaaa+++aaaaaaaaaa+aaaaaaa++ppppp   291	12 / 62 / 11
[70] paapppppppppppaapppppppaaaaaa+aaaaaaaaaaaaaaaaaaaaaaaaaaaaaa   344	25 / 61 / 13
[71] aaaaa+aaaaa+aa+aaaaaaaaa+++++aaaaaaaaaaaaaaaaaaaaaaaaaaaaaaa   869	9 / 49 / 3
[79] aaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaappaaapppppppaaaaaabfc 9/0


Finished building.
Localtime: Mon May 16 13:12:06 2011

-------------- Contig statistics ----------------
Contig id: 58992
Contig length: 869

		      Sanger         454      PacBio      Solexa       Solid
Num. reads	           0           2           0          77           0
100% merged reads	   -           -           -           0           0
Avg. read len	           0         322           0          93           0
Max. coverage	           0           2           0          55           0
Avg. coverage	       0.000       0.741       0.000       8.319       0.000

Max. contig coverage: 55
Avg. contig coverage: 9.060

Consensus contains:	A: 352	C: 121	G: 69	T: 321	N: 0
			IUPAC: 6	Funny: 0	*: 0
GC content: 22.016%
-------------------------------------------------
Localtime: Mon May 16 13:12:06 2011
bfc 10/0

Marking tricky 454 / Solexa overcalls in temporary contig.

Searching for tricky 454 overcalls:
 [0%] ....|.... [10%] ....|.... [20%] ....|.... [30%] ....|.... [40%] ....|.... [50%] ....|.... [60%] ....|.... [70%] ....|.... [80%] ....|.... [90%] ....|.... [100%] 
Marked 0 reads.
Marking possibly misassembled repeats:  [0%] ....|.... [10%] ....|.... [20%] ....|.... [30%] ....|.... [40%] ....|.... [50%] ....|.... [60%] ....|.... [70%] ....|.... [80%] ....|.... [90%] ....|.... [100%] done step 1, starting step 2:done. Found none.
bfc 11/0
Editing tricky 454 / Solexa overcalls.

Searching for tricky 454 overcalls:
 [0%] ....|.... [10%] ....|.... [20%] ....|.... [30%] ....|.... [40%] ....|.... [50%] ....|.... [60%] ....|.... [70%] ....|.... [80%] ....|.... [90%] ....|.... [100%] 
Edited 0 reads.
bfc 12/0
bfc 13/0
bfc 14/0
bfc 15/0
bfc 16/0
Transfering reads to readpool.
Done.
bfc 17/0
bfc 19
Storing contig ... 10Searching for: SROs UNSs IUPACs, preparing needed data: sorting tags ... fetching consensus for strain0 ...done.
Starting search:
done with search
Transfering tags to readpool.
done.
bfc 1
Localtime: Mon May 16 13:12:07 2011

bfc 2
bfc 3
bfc 4
bfc 5
bfc 6/0
bfc 7/0
Building new contig 58993
Localtime: Mon May 16 13:12:07 2011
Unused reads: 1481632
bfc 8/0
assemblymode_mapping: 0
use genomic pathfinder: 1
+[1] ++++ppp++++++ppaaaaaaaaaaaaapaaaapppaaaaaaaaaaaaaaaaaaaaaaaa   165	34 / 90 / 3
[11] aaaaaaaaaaaaaa+aaa+ppaaaaaa+apppppppppppppppaaappppaaaaaaaaa   238	33 / 50 / 5
[14] aaaaaaaaaaaaaaaapppaaaaaaaaaaaaaaaaaaaaaaabfc 9/0


Finished building.
Localtime: Mon May 16 13:12:11 2011

-------------- Contig statistics ----------------
Contig id: 58993
Contig length: 238

		      Sanger         454      PacBio      Solexa       Solid
Num. reads	           0           1           0          13           0
100% merged reads	   -           -           -           0           0
Avg. read len	           0         170           0          97           0
Max. coverage	           0           1           0          13           0
Avg. coverage	       0.000       0.714       0.000       5.340       0.000

Max. contig coverage: 14
Avg. contig coverage: 6.055

Consensus contains:	A: 84	C: 34	G: 30	T: 86	N: 0
			IUPAC: 4	Funny: 0	*: 0
GC content: 27.350%
-------------------------------------------------
Localtime: Mon May 16 13:12:11 2011
bfc 10/0

Marking tricky 454 / Solexa overcalls in temporary contig.

Searching for tricky 454 overcalls:
 [0%] ....|.... [10%] ....|.... [20%] ....|.... [30%] ....|.... [40%] ....|.... [50%] ....|.... [60%] ....|.... [70%] ....|.... [80%] ....|.... [90%] ....|.... [100%] 
Marked 0 reads.
Marking possibly misassembled repeats:  [0%] ....|.... [10%] ....|.... [20%] ....|.... [30%] ....|.... [40%] ....|.... [50%] ....|.... [60%] ....|.... [70%] ....|.... [80%] ....|.... [90%] ....|.... [100%] done step 1, starting step 2:done. Found none.
bfc 11/0
Editing tricky 454 / Solexa overcalls.

Searching for tricky 454 overcalls:
 [0%] ....|.... [10%] ....|.... [20%] ....|.... [30%] ....|.... [40%] ....|.... [50%] ....|.... [60%] ....|.... [70%] ....|.... [80%] ....|.... [90%] ....|.... [100%] 
Edited 0 reads.
bfc 12/0
bfc 13/0
bfc 14/0
bfc 15/0
bfc 16/0
Transfering reads to readpool.
Done.
bfc 17/0
bfc 6/1
bfc 7/1

Looping because of edits in reads.
Rebuilding contig 58993 now.
Localtime: Mon May 16 13:12:11 2011
Unused reads: 1481632
bfc 8/1
assemblymode_mapping: 0
use genomic pathfinder: 1
+[1] ++++++bfc 9/1

Contig does not meet requirement of minimum reads per contig.
Moving 7 reads to debris and triggering additional
cluster check.
Moving small clusters to debris:
 [0%]