Turkey

Data

Chicken (Gallus gallus)

• http://www.ncbi.nlm.nih.gov/genome/guide/chicken
• http://www.ncbi.nlm.nih.gov/sites/entrez?db=genomeprj&cmd=Retrieve&dopt=Overview&list_uids=10808
• http://dec2007.archive.ensembl.org/info/downloads/ftp_site.html

Stats:

.                                        elem       min    q1       q2      q3       max        mean       n50        sum            
Chr1..28,32,MT,W,Z,E22C19W28_E50C23,E64  34         1028   4512026 12968165 30671729 200994015  30377803   94230402   1032845329

Turkey (Meleagris gallopavo)

• http://www.ncbi.nlm.nih.gov/sites/entrez?db=genomeprj&cmd=search&term=Meleagris
• http://www.biolbull.org/cgi/content/abstract/61/2/157
• http://www.ncbi.nlm.nih.gov/sites/gquery?term=Meleagris+gallopavo[organism]

Assembly2.0

Stats:

 .                    elem        min    q1     q2     q3     max        mean       n50        sum
 scf                  27,007      66     1354   1988   4793   9558742    37856      1538143    1022394764
 ctg                  145,663     64     1512   3433   8500   91891      6391       12594      930953352
 deg                  440,796     64     102    256    485    8055       312        483        137835235

Files:

 /fs/szattic-asmg4/turkey/Assembly2.0/

Alignment to chicken

• Parameters:

 nucmer -l 12 -c 65 -g 1000 -b 1000

• Scf stats

                      elem        min    q1     q2     q3     max        mean       n50        sum            
 aligned              24,336      66     1418   2176   5312   9558742    41836      1542391    1,018,126,731  
 not_aligned          2,671       73     1120   1312   1640   24902      1597       1509       4,268,033

• Alignment stats (filter-q)

                     elem         min    q1     q2     q3     max         mean       n50        sum            
 len                 177171       12     1040   2379   5955   134409      4860       10218      861088419      
 %id                 177171       11.24  80.94  84.76  87.69  100.00      83         85         .