Table 1. Small RNA sequence statistics for the control (C) and HF (H) libraries.
| # counts | % of total | # unique | % of total | |
|---|---|---|---|---|
| H library | ||||
| Raw reads | 12889151 | - | ||
| High-quality reads | 12852634 | 100.00 | ||
| 3′ adaptor sequence | 5009 | 0.04 | ||
| 5′ adaptor contaminants | 42256 | 0.33 | ||
| Sequences < 18 nt removed | 68921 | 0.54 | ||
| Poly A | 80 | 0.00 | ||
| Clean reads | 12733011 | 99.07 | 300209 | |
| Clean reads | 12733011 | 100 | 300209 | 100.00 |
| Sequences mappingrattusdraft genome | 7583745 | 59.56 | 106490 | 35.47 |
| Known rattusmiRNAs | 7351138 | 55.73 | 2393 | 0.80 |
| Non-coding RNA (rRNAetc.) | 224066 | 1.76 | 28880 | 9.6 |
| Repeat-associated small RNAs | 73891 | 0.58 | 9800 | 3.26 |
| Unann | 4981153 | 39.12 | 180317 | 60.06 |
| C library | ||||
| Raw reads | 11960005 | - | ||
| High-quality reads | 11927604 | 100.00 | ||
| 3′ adaptor sequence | 4756 | 0.04 | ||
| 5′ adaptor contaminants | 70924 | 0.34 | ||
| Sequences < 18 nt removed | 57878 | 0.49 | ||
| Poly A | 41 | 0 | ||
| Clean reads | 11822808 | 99.12 | 227579 | |
| Clean reads | 11822808 | 100.00 | 227579 | 100.00 |
| Sequences mapping rattus draft genome | 6708481 | 56.74 | 67039 | 29.46 |
| Known rattusmiRNAs | 6590964 | 55.75 | 2144 | 0.94 |
| Non-coding RNA (rRNAetc.) | 152299 | 1.29 | 22249 | 9.8 |
| Repeat-associated small RNAs | 35537 | 0.30 | 7406 | 3.3 |
| Unann | 4947214 | 41.84 | 141592 | 62.22 |
rRNAetc. Represents the total reads of four non-coding RNAs (rRNA, snRNA, tRNA and snoRNA).unann represents the remaining small RNAs which failed to be mapped by any of them.