Dear Pantelis,

pls note the results for Dr Matis
http://genomics-lab.fleming.gr/fleming/Matis/run149

The alignments performed as follows:

IonXpress_009_IMP1_4-5-6-7PeptideLinrary
16102381 reads; of these:
  16102381 (100.00%) were unpaired; of these:
    7311491 (45.41%) aligned 0 times
    8790890 (54.59%) aligned exactly 1 time
    0 (0.00%) aligned >1 times
54.59% overall alignment rate

IonXpress_011_IMP2_A4VRound4
15233125 reads; of these:
  15233125 (100.00%) were unpaired; of these:
    7881760 (51.74%) aligned 0 times
    7351365 (48.26%) aligned exactly 1 time
    0 (0.00%) aligned >1 times
48.26% overall alignment rate

IonXpress_015_IMP3_Ab42Round2
13825029 reads; of these:
  13825029 (100.00%) were unpaired; of these:
    3318079 (24.00%) aligned 0 times
    10506950 (76.00%) aligned exactly 1 time
    0 (0.00%) aligned >1 times
76.00% overall alignment rate

A random sample of 1000 reads was drawn from the unmapped reads and aligned against NCBI's non-redundant database.
The blast results and the distribution of the matching species are in:
IMP1-unmapped-blast1000.txt
IMP1-unmapped-blast1000-species.txt
IMP2-unmapped-blast1000.txt
IMP2-unmapped-blast1000-species.txt
IMP3-unmapped-blast1000.txt
IMP3-unmapped-blast1000-species.txt


The number of reads in each library for each insert sequence is in:
insert_samples_total_reads_ge10.xlsx (at least 10 reads in all libraries)
and
insert_samples_total_reads_gt1.csv (at least 2 reads in all libraries)

The IMP* columns contain the number of reads with the given insert
sequence.  The norm_IMP* columns contain read counts with the given
insert sequence divided by the total number of reads with inserts in the library.

BW,
Martin