Table 1. Summary of sequencing data lactating mouse, bovine and AGO2 mammary gland miRNA libraries.
Mouse | Bovine | AGO2 | ||||
Sample 1 | Sample 2 | Sample 1 | Sample 2 | Sample 1 | Sample 2 | |
Raw reads | 10,782,945 | 10,738,221 | 10,847,425 | 12,034,673 | 12,940,967 | 13,643,425 |
Clean readsa | 9,909,832 | 8,760,102 | 9,951,849 | 11,245,052 | 5,485,346 | 7,610,033 |
Sized readsb | 9,817,286 | 8,708,817 | 9,877,580 | 11,149,432 | 5,307,791 | 7,368,804 |
All unique sequences corresponding to sized reads | 128,806 | 90,569 | 97,136 | 111,437 | 55,616 | 305,201* |
Mapped readsc | 9,369,334 | 8,402,247 | 9,549,490 | 10,802,108 | 4,674,418 | 6,508,282 |
Unique sequences corresponding to mapped reads | 72,653 | 51,438 | 40,750 | 51,587 | 26,843 | 230,688* |
poly-A stretches removed.
17–28 nt size filtering,reads used by miRDeep2 quantification process.
reads with at least one and at most five reported alignments, used by the miRDeep2 prediction process.
* In AGO sample 2, many reads below 10 counts were present, subsequently discarded by miRDeep2 processes.