Coverage 0 with nearly all reads mapped

[domenico-simone]

Hello,

I have got this result that puzzles me a bit, in particular that despite I have 99.51% of the reads mapped I have Coverage >= 1x equal to 0%:

# contigs (>= 0 bp)     230
# contigs (>= 1000 bp)  105
# contigs (>= 5000 bp)  72
# contigs (>= 10000 bp) 63
# contigs (>= 25000 bp) 47
# contigs (>= 50000 bp) 35
Total length (>= 0 bp)  4920005
Total length (>= 1000 bp)       4887678
Total length (>= 5000 bp)       4808785
Total length (>= 10000 bp)      4749011
Total length (>= 25000 bp)      4484487
Total length (>= 50000 bp)      4084322
# contigs       118
Largest contig  301160
Total length    4898153
GC (%)  55.51
N50     105561
N75     66243
L50     14
L75     28
# total reads   1069294
# left  271135
# right 270389
Mapped (%)      99.51
Properly paired (%)     48.66
Avg. coverage depth     0
Coverage >= 1x (%)      0.0
# N's per 100 kbp       20.42
# predicted genes (unique)      4154
# predicted genes (>= 0 bp)     4151 + 3 part
# predicted genes (>= 300 bp)   3858 + 3 part
# predicted genes (>= 1500 bp)  679 + 1 part
# predicted genes (>= 3000 bp)  72 + 0 part

what can be a possible explanation?

Thank you