Table 1. Distribution of different sRNA categories in the different libraries.
| Category | CWR-V1 | CWR-V2 | CWR-F2 | |||
| Unique(%) | Reads(%) | Unique(%) | Reads(%) | Unique(%) | Reads(%) | |
| raw reads | — | 23850262 | — | 21860151 | — | 24317962 |
| high quality | — | 23767886 | — | 21792329 | 24230246 | |
| clean readsa | 3081097(100) | 20156098(100) | 3493671(100) | 21531511(100) | 3520447(100) | 20995942(100) |
| exon_antisense | 37918(1.2) | 112669(0.6) | 41404(1.2) | 216290(1.00) | 66389(1.9) | 207313(1.0) |
| exon_sense | 259552(8.4) | 533039(2.6) | 143591(4.1) | 389764(1.8) | 258146(7.3) | 537402(2.6) |
| intron_antisense | 38081(1.2) | 108493(0.5) | 44737(1.3) | 199531(0.9) | 55011(1.6) | 147424(0.7) |
| intron_sense | 60484(2.0) | 151224(0.8) | 57942(1.7) | 267035(1.2) | 72396(2.1) | 184186(0.9) |
| miRNAb | 6536(0.2) | 3448185(17.1) | 5757(0.2) | 4265048(19.8) | 6429(0.2) | 2833527(13.5) |
| rRNA | 251603(8.2) | 9501946(47.1) | 258938(7.4) | 7094006(32.9) | 287817(8.2) | 10111526(48.2) |
| repeat | 865259(28.1) | 1964625(9.7) | 868423(24.9) | 2624071(12.2) | 822129(23.4) | 1681420(8.0) |
| snRNA | 3941(0.1) | 18076(0.1) | 3654(0.1) | 16987(0.1) | 4960(0.1) | 19862(0.1) |
| snoRNA | 3586(0.1) | 7471(0.0) | 3738(0.1) | 11091(0.1) | 4640(0.1) | 10080(0.0) |
| tRNA | 35389(1.2) | 1480266(7.3) | 31469(0.9) | 1928031(9.0) | 39198(1.1) | 1705003(8.1) |
| unannc | 1518748(49.3) | 2830104(14.0) | 2034018(58.2) | 4519657(21.0) | 1903332(54.1) | 3558199(16.9) |
a The number of genome-matched clean reads of high quality sRNAs.
b The number of reads included the known rice miRNAs ±2 variants.
c Contains all of the non-annotated sequences that possibly include new miRNAs and base mutations in known miRNAs.