There are 4407514 inserts with at least 1 read in any of IMP1,2 or 3. Of these, at least 1 read occurs exclusive 4196499 44863 162783 times in IMP1,2 and 3, respectively. 10 reads occur exclusive 5255 4058 9686 times in IMP1,2 and 3, respectively. 100 reads occur exclusive 18 401 1002 times in IMP1,2 and 3, respectively. 1000 reads occur exclusive 1 5 16 times in IMP1,2 and 3, respectively. If there were contamination between the samples, some of these numbers should be 0. The alternative hypothesis is that different random fractions of the same mixture are sampled. From: Pantelis Hatzis [mailto:hatzis@fleming.gr] Sent: Tuesday, March 10, 2015 12:04 PM To: Georgios Skretas; Ilias Matis Cc: Vagelis Harokopos; Martin Reczko Subject: Fwd: Dr Matis run149 kalhmera, Ta apotelesmata sas briskontai sto parakato link, me merikes epeksigiseis. Gia oti allo thelete, mporeite na epikoinvnhsete mazi mas. Giorgo, xreiazomaste ta stoixeia sas gia na ftiaksoyme to timologio, opote mporeis proothise moy ta. Xairetismoys Pantelis ---------- Forwarded message ---------- From: Martin Reczko Date: Tue, Mar 10, 2015 at 12:38 AM Subject: Dr Matis run149 To: Pantelis Hatzis 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