Megachile rotundata: Difference between revisions

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= Data =
= Data =


== Original Traces ==
== Traces ==
 
* 8 pairs of data files (paired ends)
   cat trace.count | grep _1_ | sed 's/_sequence.txt//' | perl -ane 'print "  ",$F[1],"\t",$F[0]/4,"\t",$F[0]/2,"\n";'
   cat trace.count | grep _1_ | sed 's/_sequence.txt//' | perl -ane 'print "  ",$F[1],"\t",$F[0]/4,"\t",$F[0]/2,"\n";'


   lib        insert  mates          reads        readLen  ~coverage(500M genome)
   lib        insert  mates          reads        readLen  ~coverage(500M genome) reverse  adaptors
   s_2_1_3kbp 3000    21563283        43,126,566  124      11
   s_2_1_3kbp 3000    21563283        43,126,566  124      11                     ?        circularizarion
   s_2_1_5kbp 5000    36218589        72,437,178  35        5
   s_2_1_5kbp 5000    36218589        72,437,178  35        5                       yes
   s_2_1_8kbp 8000    198377          396,754      35        0.02
   s_2_1_8kbp 8000    198377          396,754      35        0.02
   s_3_1      475      35548153        71,096,306  124      18
   s_3_1      475      35548153        71,096,306  124      18
Line 14: Line 16:
   s_7_1      475      34893313        69,786,626  124      18
   s_7_1      475      34893313        69,786,626  124      18


== Trimmed Traces ==
== Adaptors ==
 
  >circularizarion
  CGTAATAACTTCGTATAGCATACATTATACGAAGTTATACGA
  >circularizarion.revcomp
  TCGTATAACTTCGTATAATGTATGCTATACGAAGTTATTACG


== Location ==
== Location ==

Revision as of 14:50, 1 September 2010

Data

Traces

  • 8 pairs of data files (paired ends)
 cat trace.count | grep _1_ | sed 's/_sequence.txt//' | perl -ane 'print "  ",$F[1],"\t",$F[0]/4,"\t",$F[0]/2,"\n";'
 lib        insert   mates           reads        readLen   ~coverage(500M genome)  reverse  adaptors
 s_2_1_3kbp 3000     21563283        43,126,566   124       11                      ?        circularizarion
 s_2_1_5kbp 5000     36218589        72,437,178   35        5                       yes
 s_2_1_8kbp 8000     198377          396,754      35        0.02
 s_3_1      475      35548153        71,096,306   124       18
 s_4_1      475      35471044        70,942,088   124       18
 s_5_1      475      35616846        71,233,692   124       18
 s_6_1      475      35303840        70,607,680   124       18
 s_7_1      475      34893313        69,786,626   124       18

Adaptors

 >circularizarion
 CGTAATAACTTCGTATAGCATACATTATACGAAGTTATACGA
 >circularizarion.revcomp
 TCGTATAACTTCGTATAATGTATGCTATACGAAGTTATTACG 

Location

 /fs/szattic-asmg5/Bees/Megachile_rotundata/error_correction/large_libs/s_?_?_?kb.sequence.cor.all.txt
 ftp://ftp.cbcb.umd.edu/pub/data/assembly/Megachile_rotundata/reads/s_?_?_?kb.sequence.cor.all.txt.gz

Assemblies

CA

  • Version: 6.1
 /fs/szdevel/dpuiu/SourceForge/wgs-6.1/Linux-amd64/bin/runCA

Location

 mulberry:/scratch2/dpuiu/Megachile_rotundata